# TF-NA Interface Dataset
**Source**: http://www.csb.iitkgp.ac.in/databases/TFNRDv1.0/TFNRDv1.0_PNA.html
**Parent**: http://www.csb.iitkgp.ac.in/databases/TFNRDv1.0/tfnrd.html
## Unique TF-NA Interfaces
This dataset characterizes unique transcription factor
interfaces with nucleic acids based on interface identity.
**Table S1.C:** Unique interface between protein and nucleic acid present in transcription factors dataset.
|
| |
| PDB ID | Protein | Source Organism | Protein Length | Experimental Method | Resolution (Å) | Oligomeric State | Unique Chains | Chain | | | BSA | | |
| | | | | | | | | Protein | DNA | RNA | Complex | Protein | Nucleic Acid |
|
| |
| **I. DNA-binding Transcription Factors** | | | | | | | | | | | | | | |
| | | | | | | | | | | | | |
| 1A02 | AP-1 FRAGMENT FOS + NUCLEAR FACTOR OF ACTIVATED T CELLS | *H. sapiens* | 301+56 | X | 2.7 | Homodimer + Monomer | NFJ:AB | FJ | AB | - | 2314 | 1207 | 1107 |
| 1A02 | AP-1 FRAGMENT FOS + NUCLEAR FACTOR OF ACTIVATED T CELLS | *H. sapiens* | 301+56 | X | 2.7 | Homodimer + Monomer | NFJ:AB | N | AB | - | 1860 | 952 | 908 |
| 1A0A | PHOSPHATE SYSTEM POSITIVE REGULATORY PROTEIN PHO4 | *S. cerevisiae* | 63 | X | 2.8 | Homodimer | AB:CD | AB | CD | - | 2740 | 1429 | 1310 |
| 1AM9 | STEROL REGULATORY ELEMENT BINDING PROTEIN 1A | *H. sapiens* | 82 | X | 2.3 | Homodimer | ABCD: EFGH | AB | FG | - | 2699 | 1400 | 1299 |
| 1AN2 | TRANSCRIPTION FACTOR MAX (TF MAX) | *H. sapiens* | 86 | X | 2.9 | Homodimer | A:B | AC | BD | - | 2566 | 1286 | 1280 |
| 1AN4 | UPSTREAM STIMULATORY FACTOR | *H. sapiens* | 65 | X | 2.9 | Homodimer | AB:CD | AB | CD | - | 2839 | 1438 | 1401 |
| 1APL | MAT-ALPHA2 HOMEODOMAIN | *S. cerevisiae* | 83 | X | 2.7 | Monomer | CD:AB | CD | AB | - | 3519 | 1856 | 1662 |
| 1AWC | GA BINDING PROTEIN ALPHA + GA BINDING PROTEIN BETA 1 | *M. musculus* | 110+153 | X | 2.2 | Heterodimer | AB:DE | AB | DE | - | 1526 | 728 | 798 |
| 1B01 | TRANSCRIPTIONAL REPRESSOR COPG | *S. agalactiae* | 45 | X | 2.6 | Homodimer | AB:EF | AB | EF | - | 1429 | 717 | 712 |
| 1B3T | NUCLEAR PROTEIN EBNA1 | *E. virus* | 147 | X | 2.2 | Homodimer | AB:CD | AB | CD | - | 5243 | 2616 | 2627 |
| 1B72 | HOMEOBOX PROTEIN HOX-B1 + PBX1 | *H. sapiens* | 87+97 | X | 2.4 | Heterodimer | AB:DE | A | DE | - | 1590 | 810 | 780 |
| 1B72 | HOMEOBOX PROTEIN HOX-B1 + PBX1 | *H. sapiens* | 87+97 | X | 2.4 | Heterodimer | AB:DE | B | DE | - | 1759 | 915 | 844 |
| 1BC8 | SAP-1 ETS DOMAIN | *H. sapiens* | 93 | X | 1.9 | Monomer | C:AB | C | AB | - | 1710 | 816 | 894 |
| 1BF5 | SIGNAL TRANSDUCER AND ACTIVATOR OF TRANSCRIPTION 1-ALPHA/BETA | *H. sapiens* | 575 | X | 2.9 | Homodimer | A:BC | AB | CD | - | 3011 | 1511 | 1500 |
| 1BL0 | MULTIPLE ANTIBIOTIC RESISTANCE PROTEIN | *E. coli* | 129 | X | 2.3 | Monomer | A:BC | A | BC | - | 2407 | 1201 | 1206 |
| 1BVO | TRANSCRIPTION FACTOR GAMBIF1 | *A. gambiae* | 175 | X | 2.7 | Monomer | A:DE | AB | CD | - | 741 | 407 | 334 |
| 1CF7 | TRANSCRIPTION FACTOR DP-2 + TRANSCRIPTION FACTOR E2F-4 | *H. sapiens* | 76+95 | X | 2.6 | Heterodimer | AB:CD | A | CD | - | 1552 | 801 | 751 |
| 1CF7 | TRANSCRIPTION FACTOR DP-2 + TRANSCRIPTION FACTOR E2F-4 | *H. sapiens* | 76+95 | X | 2.6 | Heterodimer | AB:CD | B | CD | - | 1193 | 629 | 565 |
| 1CGP | CATABOLITE GENE ACTIVATOR PROTEIN (CAP) | *E. coli* | 205 | X | 3.0 | Homodimer | AB:CDEF | AB | DE | - | 1487 | 748 | 739 |
| 1CGP | CATABOLITE GENE ACTIVATOR PROTEIN (CAP) | *E. coli* | 205 | X | 3.0 | Homodimer | AB:CDEF | AB | CF | - | 1598 | 807 | 790 |
| 1CKT | HIGH MOBILITY GROUP 1 PROTEIN | *R. norvegicus* | 71 | X | 2.5 | Monomer | A:BC | A | BC | - | 1630 | 839 | 791 |
| 1CMA | MET REPRESSOR | *E. coli* | 104 | X | 2.8 | Homodimer | AB:CD | AB | CD | - | 1738 | 839 | 899 |
| 1D66 | GAL4 | *S. cerevisiae* | 66 | X | 2.7 | Homo 2-mer | AB:DE | AB | DE | - | 2445 | 1191 | 1254 |
| 1DDN | DIPHTHERIA TOX REPRESSOR | *C. diphtheriae* | 226 | X | 3.0 | Homo 4-mer | ABCD:EF | ABCD | EF | - | 5678 | 2801 | 2877 |
| 1DH3 | TRANSCRIPTION FACTOR CREB | *M. musculus* | 55 | X | 3.0 | Homodimer | AC:BD | AC | BD | - | 2350 | 1204 | 1145 |
| 1DP7 | MHC CLASS II TRANSCRIPTION FACTOR HRFX1 | *H. sapiens* | 76 | X | 1.5 | Homo 2-mer | P:D | P | AD | - | 1751 | 923 | 828 |
| 1DP7 | MHC CLASS II TRANSCRIPTION FACTOR HRFX1 | *H. sapiens* | 76 | X | 1.5 | Homo 2-mer | P:D | B | AD | - | 1751 | 923 | 828 |
| 1EFA | LAC REPRESSOR | *E. coli* | 333 | X | 2.6 | Homodimer | ABC:DE | AB | DE | - | 3517 | 1740 | 1777 |
| 1EGW | MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A | *H. sapiens* | 77 | X | 1.5 | Homodimer | ABCD: EFGH | AB | EF | - | 2910 | 1568 | 1343 |
| 1EXJ | MULTIDRUG-EFFLUX TRANSPORTER REGULATOR | *B. subtilis* | 278 | X | 3.0 | Homodimer | A:M | AB | CM | - | 2263 | 1067 | 1196 |
| 1GD2 | TRANSCRIPTION FACTOR PAP1 | *S. pombe* | 70 | X | 2.0 | Homodimer | EFGHIJ: ABCD | EF | AB | - | 2660 | 1401 | 1259 |
| 1GLU | GLUCOCORTICOID RECEPTOR | *R. norvegicus* | 81 | X | 2.9 | Homodimer | AB:CD | AB | CD | - | 2634 | 1256 | 1378 |
| 1GT0 | OCTAMER-BINDING TRANSCRIPTION FACTOR 1 + TRANSCRIPTION FACTOR SOX-2 | *M. musculus* | 159+80 | X | 2.6 | Hetero 2-mer | CD:AB | CD | AB | - | 5483 | 2839 | 2644 |
| 1GXP | PHOSPHATE REGULON TRANSCRIPTIONAL REGULATORY PROTEIN | *E. coli* | 106 | X | 2.5 | Homodimer | ABEF: CDGH | AB | CD | - | 3435 | 1715 | 1720 |
| 1H88 | CCAAT/ENHANCER BINDING PROTEIN BETA + MYB PROTO-ONCOGENE PROTEIN | *M. musculus* | 159+78 | X | 2.8 | Homodimer + Monomer | ABC:DE | AB | DE | - | 2499 | 1311 | 1188 |
| 1H88 | CCAAT/ENHANCER BINDING PROTEIN BETA + MYB PROTO-ONCOGENE PROTEIN | *M. musculus* | 159+78 | X | 2.8 | Homodimer + Monomer | ABC:DE | C | DE | - | 1997 | 1032 | 965 |
| 1HDD | ENGRAILED HOMEODOMAIN | *D. melanogaster* | 61 | X | 2.8 | Homo 2-mer | CD:AB | C | AB | - | 1771 | 918 | 853 |
| 1HDD | ENGRAILED HOMEODOMAIN | *D. melanogaster* | 61 | X | 2.8 | Homo 2-mer | CD:AB | D | AB | - | 928 | 439 | 488 |
| 1HJB | CCAAT/ENHANCER BINDING PROTEIN BETA + RUNT-RELATED TRANSCRIPTION FACTOR 1 | *M. musculus* | 123+87 | X | 3.0 | Homodimer + Monomer | ABCDEF :GHIJ | AB | GH | - | 2355 | 1214 | 1142 |
| 1HJB | CCAAT/ENHANCER BINDING PROTEIN BETA + RUNT-RELATED TRANSCRIPTION FACTOR 1 | *M. musculus* | 123+87 | X | 3.0 | Homodimer + Monomer | ABCDEF: GHIJ | C | GH | - | 1430 | 760 | 669 |
| 1HWT | HEME ACTIVATOR PROTEIN | *S. cerevisiae* | 81 | X | 2.5 | Homodimer | CDGH: ABEF | CD | AB | - | 2584 | 1349 | 1235 |
| 1IC8 | HEPATOCYTE NUCLEAR FACTOR 1-ALPHA | *H. sapiens* | 194 | X | 2.6 | Homodimer | AB:EF | AB | EF | - | 4929 | 2494 | 2434 |
| 1IF1 | INTERFERON REGULATORY FACTOR 1 | *M. musculus* | 113 | X | 3.0 | Homo 2-mer | AB:CD | A | C | - | 1924 | 907 | 1017 |
| 1IF1 | INTERFERON REGULATORY FACTOR 1 | *M. musculus* | 113 | X | 3.0 | Homo 2-mer | AB:CD | B | D | - | 1967 | 937 | 1031 |
| 1IGN | RAP1 | *S. cerevisiae* | 246 | X | 2.3 | Monomer | AB: CDEF | A | C | - | 2509 | 1207 | 1302 |
| 1IHF | INTEGRATION HOST FACTOR ALPHA + INTEGRATION HOST FACTOR BET) (IHF) | *E. coli* | 94+99 | X | 2.5 | Hetero 2-mer | AB: CDE | AB | CDE | - | 4755 | 2386 | 2369 |
| 1IO4 | CAAT/ENHANCER BINDING PROTEIN BETA + CORE-BINDING FACTOR, BETA SUBUNIT + RUNT-RELATED TRANSCRIPTION FACTOR 1 | *M. musculus* | 123+141+78 | X | 3.0 | Hetero 4-mer | ABCD: EF | ABC | EF | - | 3842 | 2046 | 1797 |
| 1JE8 | Nitrate/Nitrite Response Regulator Protein NARL | *E. coli* | 82 | X | 2.1 | Homodimer | ABEF: CDGH | AB | CD | - | 2946 | 1398 | 1547 |
| 1JFI | TATA-BOX-BINDING PROTEIN (TBP) + Transcription Regulator NC2 alpha chain + Transcription Regulator NC2 beta chain | *H. sapiens* | 179+185+98 | X | 2.6 | Hetero 3-mer | ABC:DE | ABC | DE | - | 4253 | 2117 | 2136 |
| 1JMC | REPLICATION PROTEIN A (RPA) | *H. sapiens* | 246 | X | 2.4 | Monomer | A:B | A | B | - | 2184 | 1023 | 1161 |
| 1JT0 | HYPOTHETICAL TRANSCRIPTIONAL REGULATOR IN QACA 5'REGION | *S. aureus* | 194 | X | 2.9 | Homo 4-mer | ABCD: EF | AC | EF | - | 2417 | 1193 | 1224 |
| 1KU7 | sigma factor sigA | *T. aquaticus* | 73 | X | 2.4 | Homodimer | AD:BC | AD | BC | - | 1196 | 621 | 575 |
| 1L3L | Transcriptional activator protein traR | *A. tumefaciens* | 234 | X | 1.7 | Homodimer | ABCD: EFGH | BD | EG | - | 2404 | 1182 | 1222 |
| 1LMB | LAMBDA REPRESSOR | *E. phage lambda* | 92 | X | 1.8 | Hetero 2-mer | 12:34 | 34 | 12 | - | 2904 | 1450 | 1454 |
| 1LQ1 | Stage 0 sporulation protein A | *B. subtilis* | 120 | X | 2.3 | Homo 2-mer | CD:EF | CD | EF | - | 2382 | 1171 | 1212 |
| 1MDY | MYOD BHLH DOMAIN + MYOD BHLH DOMAIN | *M. musculus* | 62+68 | X | 2.8 | Homo 2-mer | ABCD: EFGH | AB | EF | - | 2666 | 1389 | 1277 |
| 1MHD | SMAD3 | *H. sapiens* | 132 | X | 2.8 | Homo 2-mer | AB:CD | AB | CD | - | 1857 | 962 | 895 |
| 1MNM | MAT ALPHA-2 TRANSCRIPTIONAL REPRESSOR + MCM1 TRANSCRIPTIONAL REGULATOR | *S. cerevisiae* | 100+87 | X | 2.3 | Hetero 4-mer | ABCD:EF | AB | EF | - | 3320 | 1627 | 1693 |
| 1MNN | NDT80 protein | *S. cerevisiae* | 340 | X | 1.4 | Monomer | A:BC | A | BC | - | 2661 | 1369 | 1292 |
| 1N6J | Calcineurin-binding protein Cabin 1 + Myocyte-specific enhancer factor 2B | *H. sapiens* | 35+93 | X | 2.2 | Hetero 3-mer | ABG:CD | AB | CD | - | 2721 | 1410 | 1311 |
| 1NGM | Transcription factor IIIB BRF1 subunit + Transcription initiation factor TFIID | *S. cerevisiae* | 180+72 | X | 3.0 | Hetero 2-mer | ABEFIJ MN: CDGHK LOP | AB | CD | - | 3121 | 1535 | 1586 |
| 1NKP | Max protein + Myc proto-oncogene protein | *H. sapiens* | 83+88 | X | 1.8 | Hetero 2-mer | ABDE: FGHJ | AB | FG | - | 2794 | 1434 | 1360 |
| 1NLW | MAD + MAX PROTEIN | *H. sapiens* | 76+80 | X | 2.0 | Hetero 2-mer | ABDE: FGHJ | AB | FG | - | 2679 | 1377 | 1302 |
| 1NVP | TATA box binding protein + Transcription initiation factor IIA alpha chain + Transcription initiation factor IIA beta chain + Transcription initiation factor IIA gamma chain | *H. sapiens* | 108+181 +57+76 | X | 2.1 | Hetero 4-mer | ABCD:EF | ACD | EF | - | 3323 | 1654 | 1668 |
| 1OCT | POU DOMAIN | *H. sapiens* | 156 | X | 3.0 | Monomer | C:AB | C | AB | - | 3157 | 1597 | 1560 |
| 1ODH | MGCM1 | *M. musculus* | 174 | X | 2.9 | Monomer | A:CD | A | CD | - | 1808 | 921 | 886 |
| 1P51 | DNA-binding protein HU | *N. sp.* | 94 | X | 2.5 | Homodimer | ABCD:EFIH | ABCD | EFIH | - | 7231 | 3665 | 3566 |
| 1PAR | ARC REPRESSOR | *S. phage P22* | 53 | X | 2.6 | Homo 4-mer | ABCD:EF | AB | EF | - | 2010 | 976 | 1034 |
| 1PAR | ARC REPRESSOR | *S. phage P22* | 53 | X | 2.6 | Homo 4-mer | ABCD:EF | CD | EF | - | 2134 | 1033 | 1102 |
| 1PDN | PRD PAIRED | *D. melanogaster* | 128 | X | 2.5 | Monomer | C:AB | C | AB | - | 2562 | 1299 | 1263 |
| 1PNR | PURINE REPRESSOR | *E. coli* | 340 | X | 2.7 | Homodimer | A:B | AC | BD | - | 3596 | 1813 | 1782 |
| 1PP7 | 39 kDa initiator binding protein | *T. vaginalis* | 131 | X | 2.5 | Monomer | U:EF | U | EF | - | 1989 | 1017 | 971 |
| 1PUE | TRANSCRIPTION FACTOR PU.1 (TF PU.1) | *M. musculus* | 89 | X | 2.1 | Monomer | EF:ABCD | E | AB | - | 2018 | 962 | 1056 |
| 1QPI | TETRACYCLINE REPRESSOR | *E. coli* | 203 | X | 2.5 | Homodimer | A:MN | AB | CM | - | 1135 | 576 | 559 |
| 1QRV | HIGH MOBILITY GROUP PROTEIN D | *D. melanogaster* | 73 | X | 2.2 | Homo 2-mer | AB:CD | AB | CD | - | 2505 | 1301 | 1204 |
| 1R71 | Transcriptional repressor protein korB | *E. coli* | 178 | X | 2.2 | Homo 2-mer | ABCD: EIFJGLHK | AB | EF | - | 3390 | 1673 | 1717 |
| 1R8D | transcription activator MtaN | *B. subtilis* | 109 | X | 2.7 | Homodimer | AB:CD | AB | CD | - | 3175 | 1535 | 1639 |
| 1RAM | TRANSCRIPTION FACTOR NF-KB P65 | *M. musculus* | 273 | X | 2.7 | Homo 2-mer | AB:CD | AB | CD | - | 2982 | 1458 | 1524 |
| 1RZR | Glucose-resistance amylase regulator + Phosphocarrier protein HPr | *P. megaterium* | 332+88 | X | 2.8 | Hetero 4-mer | GCADTYS: HREB | CG | HR | - | 3399 | 1679 | 1721 |
| 1SAX | Methicillin resistance regulatory protein mecI | *S. aureus* | 123 | X | 2.8 | Homodimer | AB:CD | AB | CD | - | 3065 | 1541 | 1524 |
| 1SKN | DNA-BINDING DOMAIN OF SKN-1 | *C. elegans* | 92 | X | 2.5 | Monomer | P:AB | P | AB | - | 1691 | 866 | 825 |
| 1SVC | NUCLEAR FACTOR KAPPA-B (NF-KB) | *H. sapiens* | 365 | X | 2.6 | Homodimer | P:D | PB | AD | - | 4062 | 2065 | 1997 |
| 1T2K | Cyclic-AMP-dependent transcription factor ATF-2 + Interferon regulatory factor 3 + Transcription factor AP-1 | *H. sapiens* | 112+61+62 | X | 3.0 | Hetero 4-mer | ABCD:EF | ABCD | EF | - | 6018 | 2966 | 3052 |
| 1TQE | Histone deacetylase 9 + Myocyte-specific enhancer factor 2B | *M. musculus* | 26+93 | X | 2.7 | Hetero 3-mer | PQXRSY: CDEF | PQ | CD | - | 3137 | 1630 | 1507 |
| 1TRR | TRP REPRESSOR | *E. coli* | 107 | X | 2.4 | Homo 4-mer | ABDE GHJK: CFIL | AB | CI | - | 2937 | 1446 | 1491 |
| 1TTU | lin-12 And Glp-1 transcriptional regulator | *C. elegans* | 477 | X | 2.9 | Monomer | A:BC | A | BC | - | 2138 | 1082 | 1055 |
| 1TUP | P53 TUMOR SUPPRESSOR | *H. sapiens* | 219 | X | 2.2 | Homo 3-mer | ABC:EF | B | EF | - | 1179 | 620 | 558 |
| 1TUP | P53 TUMOR SUPPRESSOR | *H. sapiens* | 219 | X | 2.2 | Homo 3-mer | ABC:EF | C | EF | - | 630 | 309 | 321 |
| 1U8B | Ada polyprotein | *E. coli* | 133 | X | 2.1 | Monomer | A:BCDE | A | BCDE | - | 2173 | 1030 | 1143 |
| 1UUT | REP PROTEIN | *A. virus 5* | 197 | X | 2.0 | Monomer | AB:CD | AB | CD | - | 1456 | 609 | 847 |
| 1VOL | TATA BINDING PROTEIN (TBP) + TRANSCRIPTION FACTOR IIB (TFIIB) | *A. thaliana* | 200+204 | X | 2.7 | Hetero 2-mer | AB:CD | A | CD | - | 1148 | 538 | 611 |
| 1VOL | TATA BINDING PROTEIN (TBP) + TRANSCRIPTION FACTOR IIB (TFIIB) | *A. thaliana* | 200+204 | X | 2.7 | Hetero 2-mer | AB:CD | B | CD | - | 2817 | 1401 | 1416 |
| 1VTN | HNF-3/FORK HEAD DNA-RECOGNITION MOTIF | *H. sapiens* | 102 | X | 2.5 | Monomer | C:AB | C | AB | - | 2088 | 1055 | 1033 |
| 1W0T | TELOMERIC REPEAT BINDING FACTOR 1 | *H. sapiens* | 53 | X | 2.0 | Homo 2-mer | AB:CD | A | CD | - | 1563 | 794 | 769 |
| 1W0T | TELOMERIC REPEAT BINDING FACTOR 1 | *H. sapiens* | 53 | X | 2.0 | Homo 2-mer | AB:CD | B | CD | - | 1557 | 782 | 775 |
| 1XBR | T PROTEIN | *X. laevis* | 184 | X | 2.5 | Homodimer | AB:CD | AB | CD | - | 4169 | 2112 | 2057 |
| 1XPX | Protein prospero | *D. melanogaster* | 163 | X | 2.8 | Monomer | A:DC | A | DC | - | 847 | 446 | 401 |
| 1YRN | MAT A1 HOMEODOMAIN + MAT ALPHA2 HOMEODOMAIN | *S. cerevisiae* | 61+83 | X | 2.5 | Hetero 2-mer | AB:CD | A | CD | - | 1367 | 717 | 650 |
| 1YRN | MAT A1 HOMEODOMAIN + MAT ALPHA2 HOMEODOMAIN | *S. cerevisiae* | 61+83 | X | 2.5 | Hetero 2-mer | AB:CD | B | CD | - | 1994 | 1061 | 932 |
| 1YSA | GCN4 | *S. cerevisiae* | 58 | X | 2.9 | Homo 2-mer | CD:AB | CD | AB | - | 2258 | 1172 | 1086 |
| 1YTB | TATA BINDING PROTEIN (TBP) | *S. cerevisiae* | 180 | X | 1.8 | Monomer | AB:CD | A | C | - | 2985 | 1486 | 1499 |
| 1YTB | TATA BINDING PROTEIN (TBP) | *S. cerevisiae* | 180 | X | 1.8 | Monomer | AB:CD | B | D | - | 2886 | 1438 | 1448 |
| 1YTF | TATA BINDING PROTEIN (TBP) TRANSCRIPTION FACTOR IIA - TOA1C SUBUNIT + TRANSCRIPTION FACTOR IIA - TOA1N SUBUNIT + TRANSCRIPTION FACTOR IIA - TOA2 SUBUNIT | *S. cerevisiae* | 121+180 +53+79 | X | 2.5 | Hetero 4-mer | ABCD:EF | A | EF | - | 2932 | 1467 | 1465 |
| 1YTF | TATA BINDING PROTEIN (TBP) TRANSCRIPTION FACTOR IIA - TOA1C SUBUNIT + TRANSCRIPTION FACTOR IIA - TOA1N SUBUNIT + TRANSCRIPTION FACTOR IIA - TOA2 SUBUNIT | *S. cerevisiae* | 121+180 +53+79 | X | 2.5 | Hetero 4-mer | ABCD:EF | C | EF | - | 409 | 210 | 199 |
| 1Z9C | ZIF268 | *B. subtilis* | 87 | X | 2.6 | Homo 2-mer | ABCDEF: GHIJKL | AB | GH | - | 4126 | 2019 | 2107 |
| 1ZAA | PROLINE UTILIZATION TRANSCRIPTION ACTIVATOR | *M. musculus* | 70 | X | 2.1 | Monomer | C:AB | C | AB | - | 2599 | 1393 | 1206 |
| 1ZME | PROLINE UTILIZATION TRANSCRIPTION ACTIVATOR | *S. cerevisiae* | 70 | X | 2.5 | Homodimer | CD:AB | CD | AB | - | 2636 | 1310 | 1326 |
| 2A07 | Forkhead box protein P2 | *H. sapiens* | 93 | X | 1.9 | Homo 6-mer | FGHIJK: ABCD | FG | AB | - | 998 | 479 | 519 |
| 2A07 | Forkhead box protein P2 | *H. sapiens* | 93 | X | 1.9 | Homo 6-mer | FGHIJK: ABCD | J | AB | - | 1436 | 709 | 728 |
| 2A07 | Forkhead box protein P2 | *H. sapiens* | 93 | X | 1.9 | Homo 6-mer | FGHIJK: ABCD | J | CD | - | 509 | 249 | 260 |
| 2BNW | ORF OMEGA | *S. pyogenes* | 53 | X | 2.5 | Homodimer | ABCD: EFGH | AB | EF | - | 1429 | 696 | 733 |
| 2BNW | ORF OMEGA | *S. pyogenes* | 53 | X | 2.5 | Homodimer | ABCD: EFGH | CD | EF | - | 1484 | 728 | 756 |
| 2BOP | PROTEIN E2 | *B. papillomavirus type 1* | 85 | X | 1.7 | Homodimer | A:B | A | B | - | 692 | 355 | 336 |
| 2BSQ | TRAFFICKING PROTEIN A + TRAFFICKING PROTEIN B | *N. gonorrhoeae* | 146+77 | X | 3.0 | Hetero 8-mer | ABCD EFGH: IJ | EH | IJ | - | 1471 | 747 | 724 |
| 2BSQ | TRAFFICKING PROTEIN A + TRAFFICKING PROTEIN B | *N. gonorrhoeae* | 146+77 | X | 3.0 | Hetero 8-mer | ABCD EFGH: IJ | FG | IJ | - | 1455 | 721 | 734 |
| 2C62 | ACTIVATED RNA POLYMERASE II TRANSCRIPTIONAL COACTIVATOR P15 | *H. sapiens* | 66 | X | 1.7 | Homo 2-mer | AB:C | AB | C | - | 3029 | 1458 | 1571 |
| 2C9L | BZLF1 TRANS-ACTIVATOR PROTEIN | *E. virus* | 63 | X | 2.3 | Homo 2-mer | YZ:AB | YZ | AB | - | 2337 | 1181 | 1156 |
| 2D5V | Hepatocyte nuclear factor 6 | *R. norvegicus* | 164 | X | 2.0 | Monomer | AB: CDEF | AB | CDEF | - | 5595 | 2826 | 2769 |
| 2E1C | Putative HTH-type transcriptional regulator PH1519 | *P. horikoshii* | 171 | X | 2.1 | Homodimer | A:BD | A | BD | - | 1030 | 523 | 507 |
| 2ER8 | Regulatory protein LEU3 | *S. cerevisiae* | 72 | X | 2.9 | Homodimer | ABCD: EFGH | AB | EF | - | 2794 | 1384 | 1410 |
| 2ES2 | Cold shock protein cspB | *B. subtilis* | 67 | X | 1.8 | Monomer | A:B | A | B | - | 903 | 432 | 471 |
| 2GLI | FIVE-FINGER GLI | *H. sapiens* | 155 | X | 2.6 | Monomer | A:CD | A | CD | - | 3121 | 1585 | 1537 |
| 2H27 | RNA polymerase Sigma E factor | *E. coli* | 73 | X | 2.3 | Monomer | AD: BCEF | AD | BCEF | - | 2881 | 1487 | 1394 |
| 2NLL | RETINOIC ACID RECEPTOR + THYROID HORMONE RECEPTOR | *H. sapiens* | 103+66 | X | 1.9 | Hetero 2-mer | AB:CD | A | CD | - | 1188 | 591 | 597 |
| 2NLL | RETINOIC ACID RECEPTOR + THYROID HORMONE RECEPTOR | *H. sapiens* | 103+66 | X | 1.9 | Hetero 2-mer | AB:CD | B | CD | - | 2037 | 995 | 1042 |
| 2O49 | DNA-binding protein SATB1 | *H. sapiens* | 93 | X | 2.0 | Monomer | A:BC | A | BC | - | 1108 | 557 | 552 |
| 2OR1 | 434 REPRESSOR | *E. phage 434* | 69 | X | 2.5 | Homo 2-mer | LR:AB | L | AB | - | 1492 | 758 | 733 |
| 2OR1 | 434 REPRESSOR | *E. phage 434* | 69 | X | 2.5 | Homo 2-mer | LR:AB | R | AB | - | 1394 | 691 | 703 |
| 2P5L | Arginine repressor | *B. subtilis* | 64 | X | 2.9 | Homodimer | CDGH: ABEF | CD | AB | - | 2614 | 1296 | 1318 |
| 2QL2 | Neurogenic differentiation factor 1 | *M. musculus* | 60 | X | 2.5 | Homo 2-mer | ABCD: EFGH | AB | EF | - | 2165 | 1102 | 1063 |
| 2R1J | Repressor protein C2 | *S. phage P22* | 68 | X | 1.5 | Homo 2-mer | LR:BA | L | BA | - | 1325 | 628 | 697 |
| 2R1J | Repressor protein C2 | *S. phage P22* | 68 | X | 1.5 | Homo 2-mer | LR:BA | R | BA | - | 1341 | 634 | 707 |
| 2RBF | Bifunctional protein putA | *E. coli* | 54 | X | 2.3 | Homodimer | AB:CD | AB | CD | - | 1598 | 806 | 792 |
| 2UZK | FORKHEAD BOX PROTEIN O3A | *H. sapiens* | 97 | X | 2.7 | Monomer | AC:BDEF | AC | BDEF | - | 3380 | 1679 | 1700 |
| 2VY1 | PROTEIN LEAFY | *A. thaliana* | 194 | X | 2.1 | Homodimer | A:W | A | W | - | 860 | 432 | 429 |
| 2W7N | TRFB TRANSCRIPTIONAL REPRESSOR PROTEIN | *E. coli* | 101 | X | 1.9 | Homodimer | AB:EFGH | AB | EFGH | - | 2999 | 1549 | 1450 |
| 2YPA | LIM DOMAIN-BINDING PROTEIN 1 + RHOMBOTIN-2 + T-CELL ACUTE LYMPHOCYTIC LEUKEMIA PROTEIN 1 + TRANSCRIPTION FACTOR E2-ALPHA | *H. sapiens* | 145+51 +82+91 | X | 2.8 | Hetero 4-mer | ABCD:EF | ABCD | EF | - | 2239 | 1136 | 1103 |
| 2YVH | Transcriptional regulator | *C. glutamicum* | 177 | X | 2.5 | Homodimer | ABCD: EFGH | ABCD | EFGH | - | 4985 | 2536 | 2449 |
| 2ZHG | Redox-sensitive transcriptional activator soxR | *E. coli* | 154 | X | 2.8 | Homodimer | A:B | A | B | - | 583 | 268 | 315 |
| 3A5T | Transcription factor MafG | *M. musculus* | 107 | X | 2.8 | Homodimer | AB:CD | AB | CD | - | 2596 | 1343 | 1253 |
| 3BRD | Lin-12 and glp-1 phenotype protein 1, isoform a + Protein lin-12 | *C. elegans* | 29+477 | X | 2.2 | Hetero 2-mer | AD:BC | AD | BC | - | 2024 | 1040 | 984 |
| 3BS1 | Accessory gene regulator protein A | *S. aureus* | 103 | X | 1.6 | Monomer | A:BC | A | BC | - | 1547 | 779 | 768 |
| 3CLC | Regulatory protein | *E. sp. RFL1396* | 82 | X | 2.8 | Homodimer | ABCD:EF | AB | EF | - | 2647 | 1329 | 1318 |
| 3CLC | Regulatory protein | *E. sp. RFL1396* | 82 | X | 2.8 | Homodimer | ABCD:EF | CD | EF | - | 2652 | 1330 | 1322 |
| 3D2W | TAR DNA-binding protein 43 | *M. musculus* | 89 | X | 1.7 | Homodimer | A:B | A | BD | - | 1321 | 646 | 676 |
| 3D2W | TAR DNA-binding protein 43 | *M. musculus* | 89 | X | 1.7 | Homodimer | A:B | C | BD | - | 1321 | 646 | 676 |
| 3DFX | Trans-acting T-cell-specific transcription factor GATA-3 | *M. musculus* | 63 | X | 2.7 | Homo 4-mer | AB:XY | AB | XY | - | 3545 | 1792 | 1753 |
| 3DNV | HTH-type transcriptional regulator hipB + Protein hipA | *E. coli* | 440+88 | X | 2.7 | Homodimer | AB:T | B | TE | - | 1237 | 615 | 622 |
| 3DNV | HTH-type transcriptional regulator hipB + Protein hipA | *E. coli* | 440+88 | X | 2.7 | Homodimer | AB:T | D | TE | - | 1237 | 615 | 622 |
| 3E6C | Cyclic nucleotide-binding protein | *D. hafniense* | 250 | X | 1.8 | Homodimer | C:BA | CF | ABDE | - | 1353 | 653 | 700 |
| 3EYI | Z-DNA-binding protein 1 | *H. sapiens* | 72 | X | 1.5 | Homo 2-mer | AB:CD | A | CD | - | 841 | 420 | 421 |
| 3EYI | Z-DNA-binding protein 1 | *H. sapiens* | 72 | X | 1.5 | Homo 2-mer | AB:CD | B | CD | - | 622 | 300 | 322 |
| 3FDQ | Motility gene repressor mogR | *L. monocytogenes serovar 1/2a* | 170 | X | 1.8 | Homodimer | AB:CD | AB | CD | - | 4165 | 2211 | 1954 |
| 3GFI | 146aa long hypothetical transcriptional regulator | *S. tokodaii* | 146 | X | 2.1 | Homodimer | AC:DE | AC | DE | - | 742 | 379 | 364 |
| 3GNA | V(D) J recombination-activating protein 1 | *M. musculus* | 96 | X | 2.4 | Homodimer | A:DE | A | DECF | - | 1602 | 838 | 764 |
| 3GXQ | Putative regulator of transfer genes ArtA | *S. aureus* | 54 | X | 2.4 | Homodimer | AB:CD | AB | CD | - | 1614 | 763 | 851 |
| 3GZ6 | MutT/nudix family protein | *S. oneidensis* | 240 | X | 2.9 | Homodimer | AB:DC | AB | CD | - | 4338 | 2307 | 2031 |
| 3H0D | CtsR | *G. stearothermophilus* | 155 | X | 2.4 | Homodimer | AB:DC | AB | CD | - | 3811 | 1925 | 1886 |
| 3HTS | HEAT SHOCK TRANSCRIPTION FACTOR | *K. lactis* | 102 | X | 1.8 | Homodimer | B:A | BD | AC | - | 2362 | 1165 | 1197 |
| 3IGM | PF14\_0633 protein | *P. falciparum* | 77 | X | 2.2 | Homodimer | BA:WXCD | AB | CD | - | 1478 | 737 | 740 |
| 3IKT | Redox-sensing transcriptional repressor rex | *T. thermophilus* | 207 | X | 2.3 | Homodimer | AB:CD | AB | CD | - | 3339 | 1684 | 1655 |
| 3IV5 | DNA-binding protein fis | *E. coli* | 98 | X | 2.9 | Homodimer | AB:CD | AB | CD | - | 1957 | 1023 | 934 |
| 3JSO | LexA repressor | *E. coli* | 202 | X | 2.3 | Homodimer | AB:CD | AB | CD | - | 3513 | 1618 | 1894 |
| 3KET | Redox-sensing transcriptional repressor rex | *S. agalactiae serotype III* | 212 | X | 2.4 | Homodimer | A:BC | AD | BCEF | - | 1877 | 955 | 922 |
| 3KS8 | Polymerase cofactor VP35 | *R. ebolavirus* | 184 | X | 2.4 | Homo 2-mer | ABCD:EF | AB | EF | - | 1663 | 799 | 864 |
| 3LSP | DesT | *P. aeruginosa* | 220 | X | 2.7 | Homodimer | A:BD | AC | BD | - | 3041 | 1554 | 1487 |
| 3MLN | Transcription factor COE1 | *M. musculus* | 224 | X | 2.4 | Dimer | ABE:CD | AB | CD | - | 5095 | 2632 | 2463 |
| 3MZH | PROBABLE TRANSCRIPTIONAL REGULATORY PROTEIN (PROBABLY CRP/FNR-FAMILY) | *M. tuberculosis* | 225 | X | 2.9 | Homo 2-mer | AB:CD | AB | CD | - | 2389 | 1191 | 1198 |
| 3N4M | Catabolite gene activator + DNA-directed RNA polymerase subunit alpha | *E. coli* | 209+84 | X | 3.0 | Hetero 6-mer | ABC:DE | A | DE | - | 1374 | 685 | 689 |
| 3N4M | Catabolite gene activator + DNA-directed RNA polymerase subunit alpha | *E. coli* | 209+84 | X | 3.0 | Hetero 6-mer | ABC:DE | B | DE | - | 771 | 360 | 411 |
| 3N4M | Catabolite gene activator + DNA-directed RNA polymerase subunit alpha | *E. coli* | 209+84 | X | 3.0 | Hetero 6-mer | ABC:DE | C | DE | - | 819 | 380 | 439 |
| 3N7Q | Transcription termination factor, mitochondrial | *H. sapiens* | 310 | X | 2.4 | Monomer | A:BC | A | BC | - | 1261 | 639 | 622 |
| 3O9X | Uncharacterized HTH-type transcriptional regulator ygiT | *E. coli* | 133 | X | 2.1 | Homo 2-mer | AB:FE | AB | FE | - | 3059 | 1488 | 1571 |
| 3ON0 | Protein traM | *E. coli* | 127 | X | 2.9 | Homotetramer | ABCD:P | ABCD | PI | - | 2340 | 1185 | 1155 |
| 3Q5F | Transcriptional regulator slyA | *S. typhimurium* | 147 | X | 3.0 | Homodimer | AB:CD | AB | CD | - | 4205 | 2110 | 2095 |
| 3QMB | CpG-binding protein | *H. sapiens* | 79 | X | 2.1 | Monomer | A:BC | A | BC | - | 1244 | 656 | 587 |
| 3R2C | 30S ribosomal protein S10 + N utilization substance protein B | *A. aeolicus* | 148+83 | X | 1.9 | Heterodimer | ABJK:RS | AJ | R | - | 2278 | 1027 | 1251 |
| 3RN2 | Interferon-inducible protein AIM2 | *H. sapiens* | 208 | X | 2.6 | Homo 2-mer | AB:KL | A | KL | - | 1036 | 496 | 539 |
| 3RN2 | Interferon-inducible protein AIM2 | *H. sapiens* | 208 | X | 2.6 | Homo 2-mer | AB:KL | B | KL | - | 1054 | 490 | 564 |
| 3TQ6 | Transcription factor A, mitochondrial | *H. sapiens* | 214 | X | 2.5 | Monomer | AB:CDEF | A | CD | - | 5353 | 2723 | 2630 |
| 3U3W | C-terminus heptapeptide from PapR protein + Transcriptional activator PlcR protein | *B. thuringiensis* | 293+7 | X | 2.4 | Homodimer | ABPQ:YZ | AB | YZ | - | 2576 | 1292 | 1283 |
| 3UGM | TAL effector AvrBs3/PthA | *X. oryzae pv. oryzae* | 1047 | X | 3.0 | Monomer | A:BC | A | BC | - | 6201 | 2884 | 3317 |
| 3UGO | RNA polymerase sigma factor | *T. aquaticus* | 245 | X | 2.1 | Monomer | A:B | A | B | - | 1882 | 882 | 999 |
| 3UK3 | Zinc finger protein 217 | *H. sapiens* | 57 | X | 2.1 | Homo 2-mer | CD:AB | C | AB | - | 1658 | 865 | 794 |
| 3UK3 | Zinc finger protein 217 | *H. sapiens* | 57 | X | 2.1 | Homo 2-mer | CD:AB | D | AB | - | 1535 | 802 | 733 |
| 3VOK | Transcriptional regulator | *L. lactis subsp. lactis* | 189 | X | 2.0 | Homodimer | A:U | AB | UC | - | 1993 | 1000 | 993 |
| 3VWB | Virulence regulon transcriptional activator virB | *S. flexneri* | 143 | X | 2.4 | Monomer | A:CB | A | BC | - | 1432 | 731 | 701 |
| 3W6V | AdpA | *S. griseus* | 147 | X | 3.0 | Monomer | A:BC | A | BC | - | 1545 | 752 | 793 |
| 3ZHM | CI | *L. phage TP901-1* | 79 | X | 2.6 | Monomer | A:BC | A | BC | - | 1329 | 639 | 690 |
| 3ZKC | HTH-TYPE TRANSCRIPTIONAL REGULATOR SINR | *B. subtilis* | 111 | X | 3.0 | Homodimer | AB:CD | AB | CD | - | 2675 | 1336 | 1339 |
| 3ZPL | PUTATIVE MARR-FAMILY TRANSCRIPTIONAL REPRESSOR | *S. coelicolor* | 177 | X | 2.8 | Homodimer | ABEF: CDGH | AB | CD | - | 3862 | 1894 | 1968 |
| 3ZPL | PUTATIVE MARR-FAMILY TRANSCRIPTIONAL REPRESSOR | *S. coelicolor* | 177 | X | 2.8 | Homodimer | ABEF: CDGH | EF | GH | - | 3825 | 1871 | 1954 |
| 3ZVK | ANTITOXIN OF TOXIN-ANTITOXIN SYSTEM VAPB + TOXIN OF TOXIN-ANTITOXIN SYSTEM | *R. felis* | 134+78 | X | 2.5 | Hetero 8-mer | ABCDEFGH: XY | EH | XY | - | 1863 | 936 | 928 |
| 3ZVK | ANTITOXIN OF TOXIN-ANTITOXIN SYSTEM VAPB + TOXIN OF TOXIN-ANTITOXIN SYSTEM | *R. felis* | 134+78 | X | 2.5 | Hetero 8-mer | ABCDEFGH: XY | FG | XY | - | 1873 | 938 | 935 |
| 4EGY | Arabinose metabolism transcriptional repressor | *B. subtilis* | 88 | X | 2.3 | Monomer | AB:TU | A | TU | - | 1861 | 966 | 895 |
| 4EGY | Arabinose metabolism transcriptional repressor | *B. subtilis* | 88 | X | 2.3 | Monomer | AB:TU | B | TU | - | 1796 | 927 | 869 |
| 4F6M | Transcriptional regulator Kaiso | *H. sapiens* | 133 | X | 2.4 | Monomer | A:DE | A | DE | - | 2706 | 1390 | 1315 |
| 4G7H | DNA-directed RNA polymerase subunit alpha + DNA-directed RNA polymerase subunit beta + DNA-directed RNA polymerase subunit beta' + DNA-directed RNA polymerase subunit omega + RNA polymerase sigma factor | *T. thermophilus* | 1119+1524 +315+443 +99 | X | 2.9 | Hetero 6-mer | ABCD EFKL MNOP: GHQR | D | GH | - | 1888 | 957 | 931 |
| 4G7H | DNA-directed RNA polymerase subunit alpha + DNA-directed RNA polymerase subunit beta + DNA-directed RNA polymerase subunit beta' + DNA-directed RNA polymerase subunit omega + RNA polymerase sigma factor | *T. thermophilus* | 1119+1524+ 315+443+99 | X | 2.9 | Hetero 6-mer | ABCD EFKL MNOP: GHQR | F | GH | - | 2562 | 1170 | 1392 |
| 4G92 | HAPB protein + HapE + Transcription factor HapC (Eurofung) | *E. nidulans* | 119+64+92 | X | 1.8 | Hetero 3-mer | ABC:DE | A | DE | - | 1950 | 1029 | 921 |
| 4G92 | HAPB protein + HapE + Transcription factor HapC (Eurofung) | *E. nidulans* | 119+64+92 | X | 1.8 | Hetero 3-mer | ABC:DE | B | DE | - | 938 | 437 | 501 |
| 4G92 | HAPB protein + HapE + Transcription factor HapC (Eurofung) | *E. nidulans* | 119+64+92 | X | 1.8 | Hetero 3-mer | ABC:DE | C | DE | - | 988 | 457 | 532 |
| 4H10 | Polymerase cofactor VP35 | *H. sapiens* | 146 | X | 2.4 | Heterodimer | AB:CD | AB | CD | - | 2406 | 1270 | 1137 |
| 4HF1 | Aryl hydrocarbon receptor nuclear translocator-like protein 1 + Circadian locomoter output cycles protein kaput | *E. coli* | 71+73 | X | 2.2 | Homodimer | AB:CD | AB | CD | - | 3790 | 1886 | 1904 |
| 4HLY | K9 | *H. herpesvirus 8 type P* | 132 | X | 1.5 | Homo 2-mer | AB:CD | AB | CD | - | 938 | 463 | 474 |
| 4HQE | Transcriptional regulator QsrR | *S. aureus* | 115 | X | 2.3 | Homodimer | AB:CD | AB | CD | - | 2483 | 1215 | 1268 |
| 4HQU | Platelet-derived growth factor subunit B | *H. sapiens* | 109 | X | 2.2 | Homodimer | A:C | AB | CD | - | 314 | 132 | 182 |
| 4I2O | FixK2 protein | *B. japonicum* | 243 | X | 1.8 | Homodimer | AB:WX | AB | WX | - | 2546 | 1240 | 1307 |
| 4IHT | HTH-type transcriptional regulator BenM | *A. baylyi* | 94 | X | 3.0 | Homodimer | ABCD: EFGH | AB | EF | - | 3408 | 1722 | 1686 |
| 4IQR | Hepatocyte nuclear factor 4-alpha + Nuclear receptor coactivator 2 | *H. sapiens* | 13+338 | X | 2.9 | Homodimer | ABEFIJKL: CDGH | AB | CD | - | 3434 | 1653 | 1780 |
| 4IZZ | Transcription Factor HetR | *F. thermalis* | 302 | X | 2.5 | Homodimer | AB:CD | AB | CD | - | 2957 | 1463 | 1494 |
| 4J19 | Homeobox-containing protein 1 | *H. sapiens* | 113 | X | 2.9 | Monomer | AB:CD | A | CD | - | 1294 | 681 | 614 |
| 4J19 | Homeobox-containing protein 1 | *H. sapiens* | 113 | X | 2.9 | Monomer | AB:CD | B | CD | - | 1960 | 1043 | 918 |
| 4J2X | Four and a half LIM domains protein 1 + Recombining binding protein suppressor of hairless | *M. musculus* | 28+427 | X | 2.9 | Monomer | ABCD: EFGH | A | GH | - | 2203 | 1117 | 1086 |
| 4JCX | Csp231I C protein | *C. sp. RFL231* | 98 | X | 2.3 | Homodimer | AB:CD | AB | CD | - | 2735 | 1365 | 1370 |
| 4JL3 | Transcriptional regulator, TetR family | *M. smegmatis* | 196 | X | 2.5 | Homodimer | ABCD:EF | AB | EF | - | 2501 | 1264 | 1237 |
| 4JL3 | Transcriptional regulator, TetR family | *M. smegmatis* | 196 | X | 2.5 | Homodimer | ABCD:EF | CD | EF | - | 3202 | 1636 | 1566 |
| 4KFC | KDP operon transcriptional regulatory protein KdpE | *E. coli* | 227 | X | 2.5 | Homodimer | AB:YZ | AB | YZ | - | 2985 | 1422 | 1564 |
| 4LDX | Auxin response factor 1 | *A. thaliana* | 363 | X | 2.9 | Homodimer | AB:CD | AB | CD | - | 3550 | 1810 | 1740 |
| 4LLN | MepR | *S. aureus* | 140 | X | 2.8 | Homodimer | ABCDIJ: GHEFKL | AB | GH | - | 4025 | 1951 | 2075 |
| 4LMG | Iron-regulated transcriptional activator AFT2 | *S. cerevisiae* | 157 | X | 2.2 | Monomer | ABCD:EFGH | ABCD | EFGH | - | 5803 | 2830 | 2973 |
| 4LUP | RNA polymerase sigma factor | *E. coli* | 106 | X | 1.2 | Monomer | AC:BD | A | B | - | 1288 | 590 | 698 |
| 4M8B | YHR177W | *S. cerevisiae* | 202 | X | 2.6 | Monomer | R:AB | R | AB | - | 2162 | 1094 | 1068 |
| 4MTD | Zinc uptake regulation protein | *E. coli* | 171 | X | 2.5 | Homodimer | ABCD:YZ | AB | YZ | - | 2868 | 1384 | 1484 |
| 4MTD | Zinc uptake regulation protein | *E. coli* | 171 | X | 2.5 | Homodimer | ABCD:YZ | CD | YZ | - | 3110 | 1584 | 1526 |
| 4NHJ | DNA-binding transcriptional regulator RstA | *K. pneumoniae subsp. pneumoniae* | 119 | X | 2.7 | Homodimer | AB:CD | AB | CD | - | 3236 | 1670 | 1566 |
| 4ON0 | NolR | *R. fredii* | 118 | X | 3.0 | Homodimer | ABCD:EGFH | AB | EF | - | 2982 | 1489 | 1492 |
| 4PZI | Histone-lysine N-methyltransferase 2B | *H. sapiens* | 67 | X | 2.2 | Monomer | A:BC | A | BC | - | 1705 | 877 | 827 |
| 4QTJ | White-opaque regulator 1 | *C. albicans* | 274 | X | 2.1 | Monomer | A:BC | A | BC | - | 1513 | 768 | 745 |
| 4R22 | HTH-type transcriptional regulator TnrA | *P. megaterium* | 82 | X | 2.6 | Homodimer | B:G | AB | CG | - | 3016 | 1440 | 1577 |
| 4RB1 | DNA-binding transcriptional dual regulator of siderophore biosynthesis and transport(Fur family) | *M. gryphiswaldense* | 145 | X | 2.8 | Homodimer | AB:D | AB | DF | - | 2801 | 1418 | 1382 |
| 4RB1 | DNA-binding transcriptional dual regulator of siderophore biosynthesis and transport(Fur family) | *M. gryphiswaldense* | 145 | X | 2.8 | Homodimer | AB:D | CE | DF | - | 2801 | 1418 | 1382 |
| 4ROC | TATA-box-binding protein + Transcription factor IIIB 50 kDa subunit | *H. sapiens* | 183+360 | X | 1.9 | Hetero dimer | AB:NT | A | NT | - | 2170 | 1059 | 1111 |
| 4ROC | TATA-box-binding protein + Transcription factor IIIB 50 kDa subunit | *H. sapiens* | 183+360 | X | 1.9 | Hetero dimer | AB:NT | B | NT | - | 2921 | 1452 | 1469 |
| 4UX5 | TRANSCRIPTION FACTOR MBP1 | *P. oryzae* | 136 | X | 2.4 | Monomer | AB:CD | A | CD | - | 1587 | 806 | 781 |
| 4UX5 | TRANSCRIPTION FACTOR MBP1 | *P. oryzae* | 136 | X | 2.4 | Monomer | AB:CD | B | CD | - | 1369 | 693 | 676 |
| 4WLS | HTH-type transcriptional regulator CueR | *E. coli* | 128 | X | 2.1 | Homodimer | AB:XYUV | AB | XY | - | 2864 | 1400 | 1465 |
| 4WU4 | Response regulator receiver domain protein | *NA* | 68 | X | 2.3 | Homodimer | AB:GH | AB | GH | - | 2159 | 1048 | 1112 |
| 4XRM | Homeobox protein Meis2 | *H. sapiens* | 64 | X | 1.6 | Monomer | AB:ML | A | ML | - | 1223 | 627 | 595 |
| 4XRM | Homeobox protein Meis2 | *H. sapiens* | 64 | X | 1.6 | Monomer | AB:ML | B | ML | - | 1246 | 642 | 604 |
| 4Y00 | TAR DNA-binding protein 43 | *H. sapiens* | 103 | X | 3.0 | Monomer | ABCD: EFGH | A | E | - | 1455 | 663 | 792 |
| 4Z3C | Methylcytosine dioxygenase | *H. sapiens* | 52 | X | 1.6 | Monomer | C:AB | C | AB | - | 1349 | 702 | 647 |
| 5D23 | Fibroin-modulator-binding protein-1 | *B. mori* | 102 | X | 2.0 | Monomer | A:B | A | B | - | 2412 | 1263 | 1149 |
| 5D8C | MerR family regulator protein | *H. influenzae* | 137 | X | 2.3 | Homodimer | AB:CD | AB | CD | - | 2618 | 1257 | 1361 |
| 5DY0 | TetR family transcriptional regulator | *C. glutamicum* | 230 | X | 3.0 | Homodimer | ABCD: EFGH | AB | EF | - | 3308 | 1674 | 1634 |
| 5EG6 | Recombining binding protein suppressor of hairless+hRITA | *M. musculus* | 16+422 | X | 2.1 | Hetero 2-mer | CR:BA | C | AB | - | 1421 | 709 | 712 |
| 5EYB | DNA-binding protein reb1 | *S. pombe* | 362 | X | 2.7 | Monomer | AB:CDEF | AB | CDEF | - | 8802 | 4334 | 4468 |
| 5F7Q | Lmo0178 protein | *L. monocytogenes serovar 1/2a* | 407 | X | 2.4 | Homodimer | CEJL:FK | CE | FK | - | 4532 | 2348 | 2184 |
| 5FD3 | Protein lin-54 homolog | *H. sapiens* | 135 | X | 2.4 | Monomer | AB:CDHI | AB | CDHI | - | 4010 | 1909 | 2101 |
| 5FMP | HTH-TYPE TRANSCRIPTIONAL REPRESSOR KSTR | *M. tuberculosis* | 205 | X | 2.3 | Homodimer | AB:CD | AB | CD | - | 2283 | 1129 | 1155 |
| 5GNJ | Transcription factor MYC2 | *A. thaliana* | 89 | X | 2.7 | Homodimer | GIAB EFMN: KLCD HJOP | GI | KL | - | 2156 | 1122 | 1034 |
| 5GPC | Transcriptional regulator (TetR/AcrR family) | *H. halodurans* | 194 | X | 2.8 | Homodimer | ABCD:GE | AB | EG | - | 2188 | 1073 | 1115 |
| 5GPC | Transcriptional regulator (TetR/AcrR family) | *H. halodurans* | 194 | X | 2.8 | Homodimer | ABCD:GE | CD | EG | - | 2171 | 1054 | 1117 |
| 5GZB | Transcriptional enhancer factor TEF-3 | *H. sapiens* | 107 | X | 2.7 | Monomer | A:BC | A | BC | - | 2061 | 1057 | 1005 |
| 5H3R | Multiple antibiotic resistance protein MarR | *E. coli* | 147 | X | 2.7 | Homodimer | AB:CD | AB | CD | - | 3489 | 1741 | 1748 |
| 5HLG | MarR family transcriptional regulator | *S. epidermidis* | 148 | X | 3.0 | Homodimer | ABCDEFGH: IJKLMNOP | AB | IJ | - | 3944 | 1944 | 2000 |
| 5HSO | Uncharacterized HTH-type transcriptional regulator Rv2887 | *M. tuberculosis* | 160 | X | 2.5 | Homodimer | ABCD:EF | AB | EF | - | 798 | 411 | 387 |
| 5HSO | Uncharacterized HTH-type transcriptional regulator Rv2887 | *M. tuberculosis* | 160 | X | 2.5 | Homodimer | ABCD:EF | CD | EF | - | 938 | 471 | 467 |
| 5I44 | Chromosome-anchoring protein RacA | *B. subtilis* | 69 | X | 2.6 | Homodimer | BADE GFHIJK: UTZRPW | ABDE | UW | - | 4158 | 2082 | 2076 |
| 5J2Y | Regulatory protein | *P. aeruginosa* | 80 | X | 2.4 | Monomer | AB:FR | A | F | - | 645 | 328 | 317 |
| 5J3E | Thymocyte nuclear protein 1 | *H. sapiens* | 225 | X | 2.6 | Monomer | AB:CDEF | A | EF | - | 1069 | 519 | 551 |
| 5JGH | ARS-binding factor 2, mitochondrial | *S. cerevisiae* | 163 | X | 2.6 | Monomer | ADGJ: BCEFHIKL | A | BCEF | - | 4528 | 2323 | 2204 |
| 5JGH | ARS-binding factor 2, mitochondrial | *S. cerevisiae* | 163 | X | 2.6 | Monomer | ADGJ: BCEFHIKL | D | BCEF | - | 4385 | 2224 | 2161 |
| 5JLT | Middle transcription regulatory protein motA | *E. phage T4* | 125 | X | 3.0 | Monomer | ABCD: EFGH | A | EF | - | 2025 | 1030 | 995 |
| 5JUB | ComS+Transcriptional regulator | *S. thermophilus* | 310+8 | X | 2.6 | Homodimer | ABCD:XZ | AB | XZ | - | 2275 | 1092 | 1182 |
| 5K5Q | AspA | *S. sp. NOB8H2* | 92 | X | 2.7 | Homodimer | CDABEF:PN | CD | PN | - | 2948 | 1508 | 1440 |
| 5K5Q | AspA | *S. sp. NOB8H2* | 92 | X | 2.7 | Homodimer | CDABEF:PN | AB | PN | - | 3260 | 1631 | 1629 |
| 5K5Q | AspA | *S. sp. NOB8H2* | 92 | X | 2.7 | Homodimer | CDABEF:PN | EF | PN | - | 2793 | 1415 | 1378 |
| 5K7Z | Transcriptional regulator, TetR family | *M. xanthus* | 231 | X | 2.9 | Homo 2-mer | ABCD:EF | AB | EF | - | 2313 | 1151 | 1161 |
| 5LEJ | Listeriolysin regulatory protein | *L. monocytogenes serovar 1/2a* | 237 | X | 2.7 | Homodimer | AB:CD | AB | CD | - | 2735 | 1345 | 1390 |
| 5LXU | Transcription factor LUX | *A. thaliana* | 57 | X | 2.1 | Monomer | A:UB | A | BU | - | 1363 | 682 | 681 |
| 5MHJ | Major viral transcription factor ICP4 | *H. herpesvirus 1* | 201 | X | 2.1 | Homodimer | AB:EF | AB | EF | - | 1630 | 862 | 768 |
| 5MPF | Grainyhead-like protein 1 homolog | *H. sapiens* | 238 | X | 2.9 | Homodimer | AB:EF | AB | EF | - | 2595 | 1364 | 1231 |
| 5OND | Transcription antitermination protein RfaH | *E. coli* | 162 | X | 2.1 | Monomer | AB:CD | A | C | - | 863 | 376 | 487 |
| 5TW1 | DNA-directed RNA polymerase subunit alpha + DNA-directed RNA polymerase subunit beta + DNA-directed RNA polymerase subunit beta' + DNA-directed RNA polymerase subunit omega + RNA polymerase sigma factor SigA + RNA polymerase-binding protein RbpA + Unknown peptide | *M. smegmatis* | 107+114+1169 +1317+17+350 +466 | X | 2.8 | Hetero 9-mer | JABC DEFT: OP | C | OP | - | 9 | 5 | 4 |
| 5TW1 | DNA-directed RNA polymerase subunit alpha + DNA-directed RNA polymerase subunit beta + DNA-directed RNA polymerase subunit beta' + DNA-directed RNA polymerase subunit omega + RNA polymerase sigma factor SigA + RNA polymerase-binding protein RbpA + Unknown peptide | *M. smegmatis* | 107+114+1169 +1317+17+ 350+466 | X | 2.8 | Hetero 9-mer | JABC DEFT: OP | D | OP | - | 227 | 108 | 118 |
| 5TW1 | DNA-directed RNA polymerase subunit alpha + DNA-directed RNA polymerase subunit beta + DNA-directed RNA polymerase subunit beta' + DNA-directed RNA polymerase subunit omega + RNA polymerase sigma factor SigA + RNA polymerase-binding protein RbpA + Unknown peptide | *M. smegmatis* | 107+114+1169 +1317+17+350 +466 | X | 2.8 | Hetero 9-mer | JABC DEFT: OP | F | OP | - | 3866 | 1915 | 1951 |
| 5TW1 | DNA-directed RNA polymerase subunit alpha + DNA-directed RNA polymerase subunit beta + DNA-directed RNA polymerase subunit beta' + DNA-directed RNA polymerase subunit omega + RNA polymerase sigma factor SigA + RNA polymerase-binding protein RbpA + Unknown peptide | *M. smegmatis* | 107+114+1169 +1317+17+350 +466 | X | 2.8 | Hetero 9-mer | JABC DEFT: OP | J | OP | - | 167 | 84 | 83 |
| 5TW1 | DNA-directed RNA polymerase subunit alpha + DNA-directed RNA polymerase subunit beta + DNA-directed RNA polymerase subunit beta' + DNA-directed RNA polymerase subunit omega + RNA polymerase sigma factor SigA + RNA polymerase-binding protein RbpA + Unknown peptide | *M. smegmatis* | 107+114+1169 +1317+17+350 +466 | X | 2.8 | Hetero 9-mer | J JABC DEFT: OP | T | OP | - | 809 | 389 | 421 |
| 5VL9 | Regulatory protein TetR | *E. lignolyticus* | 192 | X | 2.2 | Homodimer | ABCD: EFGH | AB | EFGH | - | 2471 | 1277 | 1194 |
| 5WX9 | Ethylene-responsive transcription factor ERF096 | *A. thaliana* | 131 | X | 1.8 | Monomer | A:BC | A | BC | - | 2612 | 1357 | 1256 |
| 5X11 | Transcriptional regulator | *B. spizizenii* | 188 | X | 2.7 | Homodimer | ABCDEFGH: IJMN | AB | IJ | - | 4222 | 2121 | 2101 |
| 5X5L | AdeR | *A. baumannii* | 109 | X | 2.8 | Homo 6-mer | ABEHMN: CDFG | BH | CD | - | 3582 | 1766 | 1816 |
| 5XFP | PHD finger protein 1 | *H. sapiens* | 336 | X | 2.3 | Monomer | ABE:CD | B | CD | - | 1011 | 526 | 485 |
| 5XFQ | PHD finger protein 1 + Peptide from Histone H3 | *M. musculus* | 13+336 | X | 2.4 | homo 2-mer | ABEF:CD | A | CD | - | 994 | 505 | 489 |
| 5XSK | Hepatoma-derived growth factor | *R. norvegicus* | 120 | X | 2.8 | Homodimer | AB:DF | AB | DF | - | 720 | 335 | 385 |
| 5YEJ | TetR family transcriptional regulator | *M. smegmatis* | 232 | X | 2.7 | Homodimer | ABC:DFG | BC | DF | - | 2863 | 1407 | 1456 |
| 5YI2 | Zinc transport transcriptional regulator | *L. lactis subsp. lactis* | 146 | X | 2.6 | Homodimer | ABEF IJMN: CGKO DPLH | AB | CD | - | 2596 | 1310 | 1286 |
| 5ZD4 | Maltose-binding periplasmic protein, Protein BRASSINAZOLE-RESISTANT 1 | *A. thaliana* | 453 | X | 2.2 | Homodimer | CDAB: GHEF | CD | GH | - | 3065 | 1560 | 1505 |
| 5ZGN | KacA + KacT | *K. pneumoniae subsp. pneumoniae* | 177+88 | X | 2.2 | Hetero 6-mer | ABCDEF:GH | ABCDEF | GH | - | 3687 | 1865 | 1822 |
| 6ASB | F-box/LRR-repeat protein 19 | *H. sapiens* | 123 | X | 2.9 | Monomer | CFIL: ABDE GHJK | A | BC | - | 1707 | 888 | 820 |
| 6C2S | Transcriptional regulator, MarR family | *R. palustris* | 186 | X | 2.9 | Homodimer | ABCD: UVXY | AD | UV | - | 3000 | 1511 | 1490 |
| 6C31 | TetR family transcriptional regulator | *M. tuberculosis* | 214 | X | 3.0 | Homodimer | ABCD EFGH: IJKL | AD | KL | - | 3017 | 1494 | 1523 |
| 6C31 | TetR family transcriptional regulator | *M. tuberculosis* | 214 | X | 3.0 | Homodimer | ABCD EFGH: IJKL | BC | KL | - | 2536 | 1257 | 1279 |
| 6CG8 | UPF0335 protein B7Z12\_12435 | *C. vibrioides* | 78 | X | 2.3 | Homodimer | ABDE:CF | ABDE | CF | - | 1395 | 684 | 711 |
| 6CHV | Antitoxin HigA | *P. vulgaris* | 121 | X | 2.9 | Homodimer | ACBD GH: IJEFKL | AC | IJ | - | 2582 | 1288 | 1294 |
| 6CRO | LAMBDA CRO REPRESSOR | *E. phage lambda* | 60 | X | 3.0 | Homodimer | A:RU | AB | RUCD | - | 1397 | 735 | 661 |
| 6EL8 | Forkhead box protein N1 | *H. sapiens* | 99 | X | 1.6 | Monomer | AD: BCEF | A | BC | - | 1481 | 755 | 726 |
| 6FAS | B3 domain-containing transcription repressor VAL1 | *A. thaliana* | 119 | X | 1.9 | Monomer | AB: CDEF | A | CD | - | 1386 | 691 | 695 |
| 6FN0 | Cryptochrome photoreceptor | *C. reinhardtii* | 499 | X | 2.9 | Monomer | A:CD | A | CD | - | 1861 | 902 | 959 |
| 6G1T | AM32 | *E. faecalis* | 122 | X | 1.9 | Monomer | A:ED | A | DE | - | 3231 | 1599 | 1633 |
| 6HP7 | SPBc2 prophage-derived uncharacterized protein YopK | *B. subtilis* | 386 | X | 2.2 | Homodimer | AB:CD | AB | CD | - | 4010 | 1925 | 2085 |
| 6IDE | Transcriptional regulator LuxR family | *V. cholerae* | 256 | X | 2.5 | Homodimer | AB:CD | AB | CD | - | 2586 | 1285 | 1301 |
| 6IR8 | OsWRKY45 | *O. sativa subsp. japonica* | 69 | X | 2.3 | Monomer | A:BC | A | BC | - | 1218 | 615 | 603 |
| 6J4F | Probable WRKY transcription factor 2 | *A. thaliana* | 82 | X | 2.4 | Monomer | BF: CDGH | B | CD | - | 1259 | 619 | 641 |
| 6JBX | Fatty acid biosynthesis transcriptional regulator | *S. pneumoniae* | 152 | X | 2.2 | Homodimer | AB:CD | AB | CD | - | 3613 | 1762 | 1851 |
| 6JGW | CadR | *P. putida* | 147 | X | 2.8 | Homodimer | BA:CD | AB | CD | - | 3043 | 1431 | 1612 |
| 6LB3 | HTH cro/C1-type domain-containing protein | *P. aeruginosa* | 109 | X | 2.5 | Homo 4-mer | ABCD EFGH: IJKLMN | AB | IJ | - | 1652 | 800 | 853 |
| 6LUI | Atherin | *H. sapiens* | 80 | X | 1.8 | Monomer | A:BC | A | BC | - | 1534 | 794 | 740 |
| 6LXN | Transcriptional regulatory protein OmpR | *E. coli* | 113 | X | 2.9 | Homodimer | AB:CD | AB | CD | - | 3424 | 1712 | 1711 |
| 6MRJ | Nickel-responsive regulator | *H. pylori* | 148 | X | 2.8 | Homo 4-mer | ABCD: LM | AB | LM | - | 1764 | 887 | 877 |
| 6MRJ | Nickel-responsive regulator | *H. pylori* | 148 | X | 2.8 | Homo 4-mer | ABCD:LM | CD | LM | - | 2055 | 1014 | 1041 |
| 6NSM | TetR family transcriptional regulator CifR | *P. aeruginosa* | 198 | X | 2.8 | Homodimer | AB:CD | AB | CD | - | 3617 | 1886 | 1730 |
| 6ON0 | Gp39 | *R. N15* | 71 | X | 1.6 | Homodimer | AB:CN | AB | CN | - | 1977 | 997 | 980 |
| 6P0S | DNA-binding protein Fis + Excisionase | *E. phage lambda* | 55+98 | X | 2.7 | FiS Homodimer and Excisionase Monomer | ABE:CD | ABE | CD | - | 3543 | 1797 | 1745 |
| 6P1A | Q protein | *E. phage 21* | 162 | X | 2.8 | Homo 2-mer | ABC: DEFG | C | FG | - | 1680 | 875 | 805 |
| 6P1A | Q protein | *E. phage 21* | 162 | X | 2.8 | Homo 2-mer | ABC: DEFG | B | DE | - | 1724 | 918 | 807 |
| 6P1A | Q protein | *E. phage 21* | 162 | X | 2.8 | Homo 2-mer | ABC: DEFG | A | DE | - | 1708 | 898 | 811 |
| 6Q2B | MarR family transcriptional regulator | *L. monocytogenes serovar 1/2a* | 153 | X | 2.7 | Homodimer | AB:CD | AB | CD | - | 4511 | 2277 | 2234 |
| 6QFD | DNA-binding protein | *H. salinarum* | 116 | X | 2.1 | Hetero 2-mer | ABCD: EFGH | AB | EF | - | 3484 | 1715 | 1770 |
| 6RYD | Protein WUSCHEL | *A. thaliana* | 76 | X | 1.6 | Homodimer | ABEF: CDGH | EF | GH | - | 3016 | 1576 | 1440 |
| 6W1A | Transcriptional regulator | *S. dysgalactiae* | 284 | X | 2.8 | Homodimer | AB:EF | AB | EF | - | 2465 | 1203 | 1262 |
| 6ZA3 | Transcriptional regulator, GntR family | *A. fabrum* | 250 | X | 2.1 | Homodimer | AB:EF | AB | EF | - | 2214 | 1075 | 1139 |
| 7AMN | HTH-type transcriptional regulator LuxR | *V. alginolyticus* | 221 | X | 2.3 | Homodimer | BA:EF | BA | EF | - | 3488 | 1752 | 1736 |
| 7B0C | HTH-type transcriptional repressor NsrR | *S. coelicolor* | 161 | X | 3.0 | Homodimer | AB:CD | AB | CD | - | 3469 | 1743 | 1726 |
| 7BCB | KORA domain-containing protein | *E. coli* | 110 | X | 2.8 | Homodimer | AB:CD | AB | CD | - | 2317 | 1173 | 1144 |
| 7BHY | Deoxyribonucleoside regulator | *B. subtilis* | 57 | X | 2.3 | Homodimer | ABC:EG | AB | EG | - | 1829 | 945 | 884 |
| 7BZG | HTH-type transcriptional activator HxlR | *B. subtilis* | 123 | X | 2.9 | Homodimer | ABEFIJ: CDGHKL | AB | CD | - | 2943 | 1400 | 1543 |
| 7C0G | Aca1 | *P. phage* | 79 | X | 2.4 | Homo 2-mer | AB:CD | AB | CD | - | 951 | 497 | 454 |
| 7C9O | Nuclear transcription factor Y subunit B-11 + Nuclear transcription factor Y subunit C-2 + Zinc finger protein HD1 | *O. sativa subsp. japonica* | 104+67+95 | X | 2.6 | trimer | ABC:DE | ABC | DE | - | 3464 | 1680 | 1784 |
| 7DVV | HTH marR-type domain-containing protein | *S. agalactiae serotype III* | 153 | X | 2.5 | Homodimer | AB:LM | AB | LM | - | 4640 | 2313 | 2326 |
| 7EL3 | Homoprotocatechuate degradation operon regulator HpaR | *A. baumannii* | 141 | X | 1.7 | Homodimer | AB:CD | AB | CD | - | 4273 | 2152 | 2121 |
| 7EOF | Coiled-coil domain-containing protein 25 | *H. sapiens* | 204 | X | 2.7 | Homo 2-mer | BA:CD | AB | CD | - | 376 | 196 | 180 |
| 7ET4 | AP2/ERF and B3 domain-containing transcription repressor TEM1 | *A. thaliana* | 122 | X | 2.7 | Monomer | ADGJ: BCEFHIKL | A | BC | - | 1608 | 792 | 816 |
| 7ET6 | AP2/ERF and B3 domain-containing transcription repressor TEM1 | *A. thaliana* | 125 | X | 2.7 | Monomer | DA:EF | A | EF | - | 1846 | 908 | 938 |
| 7ET6 | AP2/ERF and B3 domain-containing transcription repressor TEM1 | *A. thaliana* | 125 | X | 2.7 | Monomer | DA:EF | D | EF | - | 720 | 316 | 404 |
| 7F2F | Serine-rich protein TYE7 | *S. cerevisiae* | 136 | X | 2.6 | Homodimer | AB:EH | AB | EH | - | 2904 | 1444 | 1460 |
| 7F9H | EnrR repressor | *E. piscicida* | 90 | X | 1.8 | Monomer | AB:CD | A | CD | - | 1565 | 747 | 818 |
| 7F9H | EnrR repressor | *E. piscicida* | 90 | X | 1.8 | Monomer | AB:CD | B | CD | - | 1607 | 777 | 831 |
| 7JNP | HTH-type transcriptional regulator MtrR | *N. gonorrhoeae* | 213 | X | 2.6 | Homodimer | AB:CD | AB | CD | - | 2366 | 1172 | 1194 |
| 7LH9 | Bromodomain-containing protein 1 | *H. sapiens* | 126 | X | 2.6 | Monomer | ABCD: EFGHIJKL | A | EFBC | - | 1426 | 715 | 711 |
| 7PRV | Glucocorticoid receptor + Peroxisome proliferator-activated receptor gamma coactivator 1-alpha | *H. sapiens* | 21+393 | X | 2.7 | Homodimer | ABF:CD | AB | CD | - | 2622 | 1302 | 1320 |
| 7PZA | Putative cAMP-binding protein-catabolite gene activator | *R. meliloti* | 244 | X | 2.7 | Homodimer | AB: CDEF | AB | CDEF | - | 2506 | 1259 | 1247 |
| 7T8K | BrxR | *A. sp. NEB 394* | 291 | X | 2.3 | Homodimer | AB:CD | AB | CD | - | 3192 | 1610 | 1582 |
| 7TZ1 | Immunity repressor | *M. phage TipsytheTRex* | 203 | X | 2.8 | Monomer | A:BC | A | BC | - | 3120 | 1567 | 1554 |
| 7V6W | Antitoxin+Putative mRNA interferase YoeB | *S. aureus* | 85+89 | X | 2.6 | Homodimer | FBCA EMLI KNDJ: GHPO | AB | GH | - | 1834 | 918 | 916 |
| 7V6W | Antitoxin+Putative mRNA interferase YoeB | *S. aureus* | 85+89 | X | 2.6 | Homodimer | FBCA EMLI KNDJ: GHPO | CD | GH | - | 1816 | 926 | 890 |
| 7V9F | BEN domain-containing protein 3 | *M. musculus* | 114 | X | 2.5 | Monomer | A:BC | A | BC | - | 579 | 261 | 318 |
| 7VJQ | anti-CRISPR-associated protein Aca2 | *P. phage ZF40* | 121 | X | 2.8 | Homodimer | AB:CD | AB | CD | - | 2268 | 1175 | 1093 |
| 7VP1 | Transcription factor TCP10 | *A. thaliana* | 107 | X | 2.9 | Homo 2-mer | AB:CD | AB | CD | - | 2408 | 1224 | 1184 |
| 7X5G | Nuclear factor erythroid 2-related factor 2 + Transcription factor MafG | *H. sapiens* | 104+113 | X | 2.3 | Heterodimer | ABEF: CDGH | AB | CD | - | 2771 | 1423 | 1348 |
| 7XQ5 | Protein INO2 + Protein INO4 | *S. cerevisiae* | 73+75 | X | 2.3 | Heterodimer | AB:CD | AB | CD | - | 3239 | 1649 | 1590 |
| 7YUK | Protein BANP | *H. sapiens* | 141 | X | 2.1 | Monomer | A:CD | A | CD | - | 1338 | 658 | 680 |
| 7YZG | Forkhead box protein H1 | *X. laevis* | 140 | X | 2.8 | Monomer | A:BC | A | BC | - | 2363 | 1168 | 1195 |
| 7ZG5 | Acetyltransferase + DUF1778 domain-containing protein | *S. typhimurium* | 176+94 | X | 2.0 | Homodimer | ABCD:EF | CD | EF | - | 534 | 264 | 270 |
| 8B4B | Cholera toxin transcriptional activator | *V. cholerae serotype O1* | 110 | X | 1.8 | Monomer tandem repeat | WXYZ: LM | W | LM | - | 1344 | 645 | 699 |
| 8B4B | Cholera toxin transcriptional activator | *V. cholerae serotype O1* | 110 | X | 1.8 | Monomer tandem repeat | WXYZ: LM | X | LM | - | 988 | 490 | 499 |
| 8B4B | Cholera toxin transcriptional activator | *V. cholerae serotype O1* | 110 | X | 1.8 | Monomer tandem repeat | WXYZ: LM | Z | LM | - | 1654 | 815 | 839 |
| 8B4B | Cholera toxin transcriptional activator | *V. cholerae serotype O1* | 110 | X | 1.8 | Monomer tandem repeat | WXYZ: LM | Y | LM | - | 1005 | 497 | 508 |
| 8EB5 | Hermes transposase BED domain | *M. domestica* | 78 | X | 2.5 | Monomer, two repeat | A:CD | AB | CE | - | 3163 | 1569 | 1594 |
| 8EJO | Homeobox domain-containing protein | *O. anatinus* | 71 | X | 2.7 | Homodimer | AB:CD | B | CD | - | 1866 | 961 | 905 |
| 8HML | DNA-binding response OmpR family regulator | *S. erythraea* | 143 | X | 3.0 | Monomer tandem repeat | AB:DC | A | CD | - | 1476 | 731 | 744 |
| 8HML | DNA-binding response OmpR family regulator | *S. erythraea* | 143 | X | 3.0 | Monomer tandem repeat | AB:DC | B | CD | - | 1764 | 878 | 885 |
| 8IKE | LMX1A factor | *H. sapiens* | 60 | X | 2.6 | Monomer | C:AB | C | AB | - | 1537 | 750 | 787 |
| 8J0K | Transcription factor AP-2-alpha | *H. sapiens* | 219 | X | 2.1 | Homodimer | AB:CD | AB | CD | - | 2263 | 1156 | 1107 |
| 8K4L | Nuclear respiratory factor 1 | *H. sapiens* | 109 | X | 2.3 | Homodimer | A:C | AB | CD | - | 3068 | 1506 | 1562 |
| 8K86 | Nuclear factor interleukin-3-regulated protein | *H. sapiens* | 73 | X | 2.1 | Homodimer | AB:CD | AB | CD | - | 2481 | 1283 | 1198 |
| 8P5Q | Protein LIGHT-DEPENDENT SHORT HYPOCOTYLS 3 | *A. thaliana* | 129 | X | 2.1 | Monomer | A:BC | A | BC | - | 2121 | 1054 | 1067 |
| 8PW0 | Iron dependent repressor, putative | *D. radiodurans* | 148 | X | 2.2 | Homodimer | A:B | AC | BD | - | 3276 | 1652 | 1624 |
| 8UVK | DNA-binding response regulator | *C. jejuni* | 224 | X | 2.2 | Homodimer | AB:CD | AB | CD | - | 2781 | 1392 | 1389 |
| 8YEY | Activating signal cointegrator 1 | *H. sapiens* | 148 | X | 2.0 | Monomer | CA:DB | A | B | - | 501 | 242 | 259 |
| 1A66 | CORE NFATC1 | *H. sapiens* | 178 | N | - | Monomer | A:BC | A | BC | - | 2213 | 1085 | 1128 |
| 1AHD | Homeotic protein antennapedia | *D. melanogaster* | 68 | N | - | Monomer | P:AB | P | AB | - | 2290 | 1159 | 1130 |
| 1C7U | MYOCYTE-SPECIFIC ENHANCER FACTOR 2A, C4 FORM | *H. sapiens* | 85 | N | - | Homodimer | AB:CD | AB | CD | - | 3490 | 1807 | 1683 |
| 1CJG | PROTEIN (LAC REPRESSOR) | *E. coli* | 62 | N | - | Homodimer | AB:CD | AB | CD | - | 3780 | 1832 | 1948 |
| 1CO0 | TRP OPERON REPRESSOR | *E. coli* | 107 | N | - | Homodimer | AB:EF | AB | EF | - | 3006 | 1516 | 1491 |
| 1F4S | ETHANOL REGULON TRANSCRIPTIONAL FACTOR | *E. nidulans* | 65 | N | - | Monomer | P:AB | P | AB | - | 2211 | 1162 | 1049 |
| 1G4D | REPRESSOR PROTEIN C | *E. phage Mu* | 69 | N | - | Monomer | A:BC | A | BC | - | 1708 | 888 | 819 |
| 1GAT | ERYTHROID TRANSCRIPTION FACTOR GATA-1 | *G. gallus* | 60 | N | - | Monomer | A:BC | A | BC | - | 2036 | 1039 | 997 |
| 1GCC | ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1 | *A. thaliana* | 63 | N | - | Monomer | A:BC | A | BC | - | 1612 | 832 | 780 |
| 1HRY | HUMAN SRY | *H. sapiens* | 76 | N | - | Monomer | A:BC | A | BC | - | 2106 | 1136 | 971 |
| 1J4W | FUSE binding protein | *H. sapiens* | 174 | N | - | Monomer | A:B | A | B | - | 2045 | 994 | 1052 |
| 1KQQ | DEAD RINGER PROTEIN | *D. melanogaster* | 139 | N | - | Monomer | A:BC | A | BC | - | 1745 | 863 | 882 |
| 1LFU | homeobox protein PBX1 | *M. musculus* | 82 | N | - | Monomer | P:AB | P | AB | - | 2210 | 1178 | 1032 |
| 1LO1 | Steroid hormone receptor ERR2 | *H. sapiens* | 98 | N | - | Monomer | A:BC | A | BC | - | 2452 | 1245 | 1208 |
| 1MSE | C-Myb DNA-Binding Domain | *M. musculus* | 105 | N | - | Monomer | C:AB | C | AB | - | 2841 | 1358 | 1483 |
| 1O4X | Transcription factor SOX-2 + transcription factor Oct-1 | *H. sapiens* | 167+88 | N | - | Heterodimer | AB:CD | AB | CD | - | 4894 | 2516 | 2379 |
| 1TF3 | TRANSCRIPTION FACTOR IIIA | *X. laevis* | 92 | N | - | Monomer | A:EF | A | EF | - | 3255 | 1638 | 1616 |
| 1XS9 | DNA-directed RNA polymerase alpha chain + Multiple antibiotic resistance protein marA | *E. coli* | 132+84 | N | - | Monomer | AD:BC | AD | BC | - | 2795 | 1407 | 1388 |
| 1YUI | GAGA-FACTOR | *D. melanogaster* | 54 | N | - | Monomer | A:BC | A | BC | - | 2359 | 1243 | 1116 |
| 1ZGW | Ada polyprotein | *E. coli* | 139 | N | - | Monomer | A:BC | A | BC | - | 2457 | 1242 | 1214 |
| 2HDC | TRANSCRIPTION FACTOR | *R. norvegicus* | 97 | N | - | Monomer | A:BC | A | BC | - | 2375 | 1185 | 1190 |
| 2JX1 | Myelin transcription factor 1 | *M. musculus* | 31 | N | - | Monomer | A:BC | A | BC | - | 1419 | 754 | 666 |
| 2K1N | AbrB family transcriptional regulator | *B. subtilis* | 55 | N | - | Homo 2-mer | ABCD:EF | AB | EF | - | 1731 | 828 | 903 |
| 2K1N | AbrB family transcriptional regulator | *B. subtilis* | 55 | N | - | Homo 2-mer | ABCD:EF | CD | EF | - | 1423 | 659 | 765 |
| 2KAE | GATA-type transcription factor | *C. elegans* | 71 | N | - | Monomer | A:BC | A | BC | - | 2962 | 1585 | 1376 |
| 2KKF | Histone-lysine N-methyltransferase HRX | *H. sapiens* | 59 | N | - | Monomer | A:BC | A | BC | - | 1904 | 1009 | 894 |
| 2KMK | Zinc finger protein Gfi-1 | *R. norvegicus* | 82 | N | - | Monomer | A:BC | A | BC | - | 2762 | 1430 | 1331 |
| 2KO0 | THAP domain-containing protein 1 | *H. sapiens* | 87 | N | - | Monomer | A:BC | A | BC | - | 2171 | 1141 | 1030 |
| 2LEF | LYMPHOID ENHANCER-BINDING FACTOR | *M. musculus* | 86 | N | - | Monomer | A:BC | A | BC | - | 3677 | 1884 | 1793 |
| 2LEV | Ler | *E. coli* | 57 | N | - | Monomer | A:BC | A | BC | - | 928 | 454 | 474 |
| 2LEX | Probable WRKY transcription factor 4 | *A. thaliana* | 78 | N | - | Monomer | A:BC | A | BC | - | 1200 | 591 | 609 |
| 2MAP | RNA polymerase sigma factor | *E. coli* | 96 | N | - | Monomer | A:B | A | B | - | 1433 | 665 | 768 |
| 2MRU | Antitoxin MazE | *E. coli* | 67 | N | - | Homodimer | AB:XY | AB | XY | - | 1675 | 865 | 810 |
| 2MXF | MvaT | *P. aeruginosa* | 55 | N | - | Monomer | A:BC | A | BC | - | 1637 | 851 | 785 |
| 2O8K | RNA polymerase sigma factor RpoN | *A. aeolicus* | 63 | N | - | Monomer | A:BC | A | BC | - | 1553 | 745 | 808 |
| 2P7C | Penicillinase repressor | *B. licheniformis* | 82 | N | - | Monomer | B:AC | B | AC | - | 2320 | 1099 | 1222 |
| 2STT | ETS1 | *H. sapiens* | 96 | N | - | Monomer | A:BC | A | BC | - | 1815 | 907 | 907 |
| 2Z33 | Phosphate regulon transcriptional regulatory protein phoB | *E. coli* | 104 | N | - | Monomer | A:BC | A | BC | - | 1968 | 979 | 989 |
| **II. RNA-binding Transcription Factors** | | | | | | | | | | | | | | |
| | | | | | | | | | | | | |
| 1C9S | TRP RNA-BINDING ATTENUATION PROTEIN | *G. stearothermophilus* | 74 | X | 1.9 | Homo 11-mer | ABCD EFGH IJKLM NOPQ RST UV:W | L | | W | 1050 | 502 | 548 |
| 1WMQ | Hut operon positive regulatory protein | *B. subtilis* | 147 | X | 1.6 | Homo 6-mer | AB:CD | AB | | C | 1448 | 653 | 795 |
| 2A8V | RNA BINDING DOMAIN OF RHO TRANSCRIPTION TERMINATION FACTOR | *E. coli* | 118 | X | 2.4 | Monomer | ABC:DE | B | | E | 719 | 281 | 438 |
| 2ASB | Transcription elongation protein nusA | *M. tuberculosis* | 251 | X | 1.5 | Monomer | A:B | A | | B | 2316 | 1092 | 1225 |
| 4GHA | Polymerase cofactor VP35 | *O. marburgense* | 146 | X | 2.5 | Homo 4-mer | ACEG:IJ | A | | IJ | 1016 | 489 | 527 |
| 4GHA | Polymerase cofactor VP35 | *O. marburgense* | 146 | X | 2.5 | Homo 4-mer | ACEG:IJ | C | | IJ | 700 | 339 | 360 |
| 4GHA | Polymerase cofactor VP35 | *O. marburgense* | 146 | X | 2.5 | Homo 4-mer | ACEG:IJ | E | | IJ | 1025 | 495 | 530 |
| 4GHA | Polymerase cofactor VP35 | *O. marburgense* | 146 | X | 2.5 | Homo 4-mer | ACEG:IJ | G | | IJ | 1040 | 505 | 535 |
| 5M3H | Polymerase acidic protein + Polymerase basic protein 2 + RNA-directed RNA polymerase catalytic subunit + TYR-SER-PRO-THR-SEP-PRO | *H. sapiens* | 28+728+ 776+797 | X | 2.5 | Hetero 5-mer | ABCXY:RV | ABC | | RV | 5352 | 2563 | 2789 |
| 6FHI | Polymerase acidic protein + Polymerase basic protein 2 + RNA-directed RNA polymerase catalytic subunit + TYR-SER-PRO-THR-SEP-PRO-SER-TYR-SER-PRO-SER-TYR- SER-PRO-THR-SEP-PRO-SER-TYR | *H. sapiens, Influenza A virus* | 19+738+ 776+809 | X | 2.8 | Hetero 4-mer | ABCX:RV | ABC | | RV | 5460 | 2627 | 2833 |
| 8F5G | Transcription termination/ antitermination protein NusG | *T. pseudethanolicus* | 182 | X | 2.7 | Monomer | ABC:DEF | A | | D | 1529 | 751 | 778 |
| 1L1C | Transcription antiterminator licT | *B. subtilis* | 55 | N | - | Homo 2-mer | AB:C | AB | | CD | 2352 | 1168 | 1184 |
| 1QFQ | 36-mer N-terminal peptide of the N protein | *E. phage lambda* | 35 | N | - | Monomer | B:A | B | | A | 1322 | 674 | 648 |
| **III. DNA/RNA-binding Transcription Factors** | | | | | | | | | | | | | | |
| | | | | | | | | | | | | |
| 5XOG | DNA-directed RNA polymerase subunit + DNA-directed RNA polymerase subunit + DNA-directed RNA polymerase subunit beta + RNA polymerase II subunit + RNA polymerase II subunit B12.5 + RNA polymerase II subunit B32 + RNA polymerase II third largest subunit B44 + RNA polymerase subunit ABC10-alpha + RNA polymerase subunit ABC14.5 + RNA polymerase subunit ABC23 + RNA polymerase subunit ABC27 + Spt4/5 complex component + Transcription elongation factor 1 homolog | *K. phaffii* | 115+118+1227 +145+155+171 +1743+186+214 +304+72+83+85 | X | 3.0 | Hetero 14-mer | ABCD EFGH IJKLM W:TN | ABE | NT | | 4263 | 2089 | 2174 |
| 5ZX2 | DNA-directed RNA polymerase subunit alpha + DNA-directed RNA polymerase subunit beta + DNA-directed RNA polymerase subunit beta' + DNA-directed RNA polymerase subunit omega + ECF RNA polymerase sigma factor SigH | *M. tuberculosis* | 110+1174 +1317+218 +368 | X | 2.8 | Hetero 6-mer | ABCDEF:GH | CDF | GH | | 10331 | 5040 | 5291 |
**aPDB ID:** Four letter protein data bank ID; \
**bProtein:** Name of the biomolecules; \
**cSource Organisms:** Source of the sequence obtained from various organisms; \
**dProtein length:** Length of the amino acid sequence; \
**eExperimental Methods:** Biophysical methods used for the structure determination (X: X-ray, N:NMR); \
**fResolution (Å):** Resolution of the macromolecules; \
**gOligomeric State:** Total number of biomolecules in a biological assembly; \
**hPDB iChain Id:** Chain Identifier from the PDB file; \
**jChain:** Protein ,DNA and RNA chain involved in unique interface; \
**kBSA:** buried surface area.