Equivalence class DNA_3.0_89193.2 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 2Q2T|1|B+ 2Q2T|1|D+ 2Q2T|1|C (rep) | 5'-D(*AP*TP*TP*GP*CP*GP*AP*CP*(OMC)P*C)-3', 5'-D(*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*T)-3', 5'-D(P*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*A)-3' | Structure of Chlorella virus DNA ligase-adenylate bound to a 5' phosphorylated nick | X-ray diffraction | 2.3 | 42 | 2007-07-10 | ||||
| 2 | 1ZRF|1|X+ 1ZRF|1|Z+ 1ZRF|1|W+ 1ZRF|1|Y | 5'-D(*AP*TP*TP*TP*CP*GP*AP*AP*AP*AP*AP*TP*GP*CP*GP*AP*T)-3', 5'-D(*CP*TP*AP*GP*AP*TP*CP*GP*CP*AP*TP*TP*TP*TP*TP*CP*GP*AP*AP*AP*T)-3' | 4 crystal structures of CAP-DNA with all base-pair substitutions at position 6, CAP-[6C;17G]ICAP38 DNA | X-ray diffraction | 2.1 | 73 | 2006-03-21 | ||||
| 3 | 2O6M|1|C+ 2O6M|1|D | 5'-D(*DTP*DTP*DGP*DAP*DCP*DTP*DCP*DTP*DCP*DTP*DTP*DAP*DAP*DGP*DAP*DGP*DAP*DGP*DTP*DCP*DA)-3' | H98Q mutant of the homing endonuclease I-PPOI complexed with DNA | X-ray diffraction | 2.3 | 42 | 2007-10-30 | ||||
| 4 | 2NTC|1|C+ 2NTC|1|W | 21-nt PEN element of the SV40 DNA origin | Crystal Structure of sv40 large T antigen origin binding domain with DNA | X-ray diffraction | 2.4 | 42 | 2007-02-13 | ||||
| 5 | 2A07|1|C+ 2A07|1|D | 5'-D(*AP*AP*CP*TP*AP*TP*GP*AP*AP*AP*CP*AP*AP*AP*TP*TP*TP*TP*CP*CP*T)-3', 5'-D(*TP*TP*AP*GP*GP*AP*AP*AP*AP*TP*TP*TP*GP*TP*TP*TP*CP*AP*TP*AP*G)-3' | Crystal Structure of Foxp2 bound Specifically to DNA. | X-ray diffraction | 1.9 | 42 | 2006-01-31 | ||||
| 6 | 2HOT|1|C+ 2HOT|1|D | 5'-D(*AP*TP*CP*CP*GP*GP*GP*GP*AP*TP*TP*AP*CP*AP*TP*GP*GP*CP*AP*AP*A)-3', 5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*CP*CP*CP*CP*GP*GP*A)-3' | Phage selected homeodomain bound to modified DNA | X-ray diffraction | 2.19 | 42 | 2006-12-12 | ||||
| 7 | 2A07|1|A+ 2A07|1|B | 5'-D(*AP*AP*CP*TP*AP*TP*GP*AP*AP*AP*CP*AP*AP*AP*TP*TP*TP*TP*CP*CP*T)-3', 5'-D(*TP*TP*AP*GP*GP*AP*AP*AP*AP*TP*TP*TP*GP*TP*TP*TP*CP*AP*TP*AP*G)-3' | Crystal Structure of Foxp2 bound Specifically to DNA. | X-ray diffraction | 1.9 | 42 | 2006-01-31 | ||||
| 8 | 1K61|1|E+ 1K61|1|F | 5'-D(*(5IU)P*GP*CP*GP*TP*GP*TP*AP*AP*AP*TP*GP*AP*AP*TP*TP*AP*CP*AP*TP*G)-3', 5'-D(*AP*CP*AP*TP*GP*TP*AP*AP*TP*TP*CP*AP*TP*TP*TP*AP*CP*AP*CP*GP*C)-3' | MATALPHA2 HOMEODOMAIN BOUND TO DNA | X-ray diffraction | 2.1 | 42 | 2002-12-11 | ||||
| 9 | 3G73|1|C+ 3G73|1|D | DNA (5'-D(P*AP*AP*AP*TP*TP*GP*TP*TP*TP*AP*TP*AP*AP*AP*CP*AP*GP*CP*CP*CP*G)-3'), DNA (5'-D(P*TP*TP*CP*GP*GP*GP*CP*TP*GP*TP*TP*TP*AP*TP*AP*AP*AP*CP*AP*AP*T)-3') | Structure of the FOXM1 DNA binding | X-ray diffraction | 2.21 | 42 | 2009-03-03 | ||||
| 10 | 1TC3|1|A+ 1TC3|1|B | DNA (5'-D(*AP*GP*GP*GP*GP*GP*GP*GP*TP*CP*CP*TP*AP*TP*AP*GP*A P*AP*CP*TP*T)-3'), DNA (5'-D(*AP*GP*TP*TP*CP*TP*AP*TP*AP*GP*GP*AP*CP*CP*CP*CP*C P*CP*CP*T)-3') | TRANSPOSASE TC3A1-65 FROM CAENORHABDITIS ELEGANS | X-ray diffraction | 2.45 | 41 | 1997-11-21 | ||||
| 11 | 2HOS|1|C+ 2HOS|1|D | 5'-D(*AP*TP*CP*CP*GP*GP*GP*GP*AP*TP*TP*AP*CP*AP*TP*GP*GP*CP*AP*AP*A)-3', 5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*CP*CP*CP*CP*GP*GP*A)-3' | Phage-Selected Homeodomain Bound to Unmodified DNA | X-ray diffraction | 1.9 | 42 | 2006-12-12 | ||||
| 12 | 1ZRD|1|X+ 1ZRD|1|Z+ 1ZRD|1|W+ 1ZRD|1|Y | 5'-D(*AP*TP*TP*TP*CP*GP*AP*AP*AP*AP*AP*TP*GP*AP*GP*AP*T)-3', 5'-D(*CP*TP*AP*GP*AP*TP*CP*TP*CP*AP*TP*TP*TP*TP*TP*CP*GP*AP*AP*AP*T)-3' | 4 crystal structures of CAP-DNA with all base-pair substitutions at position 6, CAP-[6A;17T]ICAP38 DNA | X-ray diffraction | 2.8 | 76 | 2006-03-21 | ||||
| 13 | 2RBF|1|C+ 2RBF|1|D | DNA (5'-D(*DTP*DT*DTP*DGP*DCP*DGP*DGP*DTP*DTP*DGP*DCP*DAP*DCP*DCP*DTP*DTP*DTP*DCP*DAP*DAP*DA)-3'), DNA (5'-D(*DTP*DTP*DTP*DGP*DAP*DAP*DAP*DGP*DGP*DTP*DGP*DCP*DAP*DAP*DCP*DCP*DGP*DCP*DAP*DAP*DA)-3') | Structure of the ribbon-helix-helix domain of Escherichia coli PutA (PutA52) complexed with operator DNA (O2) | X-ray diffraction | 2.25 | 38 | 2008-07-29 | ||||
| 14 | 1ZRC|1|X+ 1ZRC|1|Z+ 1ZRC|1|W+ 1ZRC|1|Y | 5'-D(*AP*TP*TP*TP*CP*GP*AP*AP*AP*AP*AP*TP*GP*TP*GP*AP*T)-3', 5'-D(*CP*TP*AP*GP*AP*TP*CP*AP*CP*AP*TP*TP*TP*TP*TP*CP*GP*AP*AP*AP*T)-3' | 4 Crystal structures of CAP-DNA with all base-pair substitutions at position 6, CAP-ICAP38 DNA | X-ray diffraction | 2.8 | 76 | 2006-03-21 | ||||
| 15 | 3KZ8|1|C | DNA (5'-D(*TP*GP*GP*GP*CP*AP*TP*GP*CP*CP*CP*GP*GP*GP*CP*AP*TP*GP*CP*CP*C)-3') | Diversity in DNA recognition by p53 revealed by crystal structures with Hoogsteen base pairs (p53-DNA complex 3) | X-ray diffraction | 1.91 | 20 | 2010-03-31 | ||||
| 16 | 1ZRE|1|X+ 1ZRE|1|Z+ 1ZRE|1|W+ 1ZRE|1|Y | 5'-D(*AP*TP*TP*TP*CP*GP*AP*AP*AP*AP*AP*TP*GP*GP*GP*AP*T)-3', 5'-D(*CP*TP*AP*GP*AP*TP*CP*CP*CP*AP*TP*TP*TP*TP*TP*CP*GP*AP*AP*AP*T)-3' | 4 crystal structures of CAP-DNA with all base-pair substitutions at position 6, CAP-[6G;17C]ICAP38 DNA | X-ray diffraction | 2.8 | 76 | 2006-03-21 | ||||
| 17 | 2Q2U|1|I+ 2Q2U|1|J | 5'-D(*AP*TP*TP*GP*CP*GP*AP*CP*(OMC)P*CP*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*A)-3', 5'-D(*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*T)-3' | Structure of Chlorella virus DNA ligase-product DNA complex | X-ray diffraction | 3 | 42 | 2007-07-10 | ||||
| 18 | 2Q2U|1|K+ 2Q2U|1|L | 5'-D(*AP*TP*TP*GP*CP*GP*AP*CP*(OMC)P*CP*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*A)-3', 5'-D(*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*T)-3' | Structure of Chlorella virus DNA ligase-product DNA complex | X-ray diffraction | 3 | 42 | 2007-07-10 | ||||
| 19 | 1T2T|1|B+ 1T2T|1|C | 5'-D(*AP*AP*TP*TP*AP*AP*AP*GP*GP*GP*CP*AP*GP*TP*CP*CP*TP*AP*CP*AP*A)-3', 5'-D(*TP*TP*TP*GP*TP*AP*GP*GP*AP*CP*TP*GP*CP*CP*CP*TP*TP*TP*AP*AP*T)-3' | Crystal structure of the DNA-binding domain of intron endonuclease I-TevI with operator site | X-ray diffraction | 2.5 | 42 | 2004-09-07 | ||||
| 20 | 2Q2U|1|E+ 2Q2U|1|F | 5'-D(*AP*TP*TP*GP*CP*GP*AP*CP*(OMC)P*CP*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*A)-3', 5'-D(*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*T)-3' | Structure of Chlorella virus DNA ligase-product DNA complex | X-ray diffraction | 3 | 42 | 2007-07-10 | ||||
| 21 | 1NWQ|1|B+ 1NWQ|1|D | 5'-D(*AP*AP*AP*CP*TP*GP*GP*AP*TP*TP*GP*CP*GP*CP*AP*AP*TP*AP*GP*GP*A)-3', 5'-D(*TP*TP*CP*CP*TP*AP*TP*TP*GP*CP*GP*CP*AP*AP*TP*CP*CP*AP*GP*TP*T)-3' | CRYSTAL STRUCTURE OF C/EBPALPHA-DNA COMPLEX | X-ray diffraction | 2.8 | 42 | 2003-05-13 | ||||
| 22 | 3HK2|1|E+ 3HK2|1|F | 5'-D(P*TP*GP*AP*GP*GP*TP*AP*GP*TP*AP*GP*GP*TP*TP*GP*TP*AP*TP*AP*GP*T)-3', 5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3' | Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strand | X-ray diffraction | 2.8 | 32 | 2009-10-06 | ||||
| 23 | 2Q2U|1|G+ 2Q2U|1|H | 5'-D(*AP*TP*TP*GP*CP*GP*AP*CP*(OMC)P*CP*CP*AP*CP*TP*AP*TP*CP*GP*GP*AP*A)-3', 5'-D(*TP*TP*CP*CP*GP*AP*TP*AP*GP*TP*GP*GP*GP*GP*TP*CP*GP*CP*AP*AP*T)-3' | Structure of Chlorella virus DNA ligase-product DNA complex | X-ray diffraction | 3 | 42 | 2007-07-10 | ||||
| 24 | 3HK2|1|C+ 3HK2|1|D | 5'-D(P*TP*GP*AP*GP*GP*TP*AP*GP*TP*AP*GP*GP*TP*TP*GP*TP*AP*TP*AP*GP*T)-3', 5'-R(*UP*AP*UP*AP*CP*AP*AP*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3' | Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strand | X-ray diffraction | 2.8 | 32 | 2009-10-06 | ||||
| 25 | 2AS5|1|A+ 2AS5|1|B | 5'-D(AP*AP*CP*TP*AP*TP*GP*AP*AP*AP*CP*AP*AP*AP*TP*TP*TP*TP*CP*CP*TP*)-3', 5'-D(TP*TP*AP*GP*GP*AP*AP*AP*AP*TP*TP*TP*GP*TP*TP*TP*CP*AP*TP*AP*GP*)-3' | Structure of the DNA binding domains of NFAT and FOXP2 bound specifically to DNA. | X-ray diffraction | 2.7 | 42 | 2006-08-08 | ||||
| 26 | 2AS5|1|C+ 2AS5|1|D | 5'-D(AP*AP*CP*TP*AP*TP*GP*AP*AP*AP*CP*AP*AP*AP*TP*TP*TP*TP*CP*CP*TP*)-3', 5'-D(TP*TP*AP*GP*GP*AP*AP*AP*AP*TP*TP*TP*GP*TP*TP*TP*CP*AP*TP*AP*GP*)-3' | Structure of the DNA binding domains of NFAT and FOXP2 bound specifically to DNA. | X-ray diffraction | 2.7 | 42 | 2006-08-08 | ||||
| 27 | 1AWC|1|D+ 1AWC|1|E | DNA (5'-D(*AP*AP*(BRU)P*GP*AP*CP*CP*GP*GP*AP*AP*GP*TP*AP*(CBR)P*AP*CP*(CBR)P*GP*GP*A)-3'), DNA (5'-D(*TP*TP*CP*CP*GP*GP*(BRU)P*GP*(BRU)P*AP*CP*TP*TP*CP*CP*GP*GP*TP*CP*AP*T)-3') | MOUSE GABP ALPHA/BETA DOMAIN BOUND TO DNA | X-ray diffraction | 2.15 | 42 | 1998-03-18 | ||||
| 28 | 2OYQ|1|I+ 2OYQ|1|J | Primer DNA, Template DNA | Crystal structure of RB69 gp43 in complex with DNA with 5-NIMP opposite an abasic site analog | X-ray diffraction | 2.86 | 35 | 2007-10-23 | ||||
| 29 | 2EZV|1|F+ 2EZV|1|G | 5'-D(*AP*GP*GP*CP*CP*TP*TP*GP*TP*TP*GP*GP*CP*CP*A)-3', 5'-D(*TP*GP*GP*CP*CP*AP*AP*CP*AP*AP*GP*GP*CP*CP*T)-3' | Crystal structure of tetrameric restriction endonuclease SfiI bound to cognate DNA. | X-ray diffraction | 2.4 | 30 | 2006-01-24 | ||||
| 30 | 3DNV|1|T | DNA (5'-D(*DAP*DCP*DTP*DAP*DTP*DCP*DCP*DCP*DCP*DTP*DTP*DAP*DAP*DGP*DGP*DGP*DGP*DAP*DTP*DAP*DG)-3') | MDT Protein | X-ray diffraction | 2.68 | 21 | 2009-01-27 | ||||
| 31 | 2P5G|1|I+ 2P5G|1|J | Primer DNA, Template DNA | Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template | X-ray diffraction | 2.8 | 35 | 2007-10-23 | ||||
| 32 | 3HO1|1|X+ 3HO1|1|Y | 5'-D(P*TP*GP*AP*GP*GP*TP*AP*GP*TP*AP*GP*GP*TP*TP*GP*TP*AP*T*AP*GP*T)-3', 5'-R(P*CP*CP*UP*AP*CP*UP*AP*CP*CP*UP*CP*G)-3' | Crystal structure of T. thermophilus Argonaute N546 mutant protein complexed with DNA guide strand and 12-nt RNA target strand | X-ray diffraction | 2.6 | 27 | 2009-10-06 | ||||
| 33 | 2EFW|1|D+ 2EFW|1|E | DNA (5'-D(*DCP*DT*DAP*DTP*DGP*DTP*DAP*DCP*DCP*DAP*DAP*DAP*DTP*DGP*DTP*DTP*DCP*DAP*DGP*DTP*DC)-3'), DNA (5'-D(*DGP*DAP*DCP*DTP*DGP*DAP*DAP*DCP*DAP*DTP*DTP*DTP*DGP*DGP*DTP*DAP*DCP*DAP*DTP*DAP*DG)-3') | Crystal structure of the RTP:nRB complex from Bacillus subtilis | X-ray diffraction | 2.5 | 38 | 2008-02-26 | ||||
| 34 | 3HZI|1|T | 5'-D(*DAP*DCP*DTP*DAP*DTP*DCP*DCP*DCP*DCP*DTP*DTP*DAP*DAP*DGP*DGP*DGP*DGP*DAP*DTP*DAP*DG)-3' | Structure of mdt protein | X-ray diffraction | 2.98 | 21 | 2009-07-28 | ||||
| 35 | 2P5G|1|E+ 2P5G|1|F | Primer DNA, Template DNA | Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template | X-ray diffraction | 2.8 | 30 | 2007-10-23 | ||||
| 36 | 2OYQ|1|K+ 2OYQ|1|L | Primer DNA, Template DNA | Crystal structure of RB69 gp43 in complex with DNA with 5-NIMP opposite an abasic site analog | X-ray diffraction | 2.86 | 25 | 2007-10-23 | ||||
| 37 | 2OYQ|1|E+ 2OYQ|1|F | Primer DNA, Template DNA | Crystal structure of RB69 gp43 in complex with DNA with 5-NIMP opposite an abasic site analog | X-ray diffraction | 2.86 | 31 | 2007-10-23 | ||||
| 38 | 3F73|1|X+ 3F73|1|Y | DNA (5'-D(P*DTP*DGP*DAP*DGP*DGP*DTP*DAP*DGP*DTP*DAP*DGP*DGP*DTP*DTP*DGP*DTP*DA*DTP*DAP*DGP*DT)-3'), RNA (5'-R(*UP*AP*UP*AP*CP*AP*A*CP*UP*CP*AP*CP*UP*AP*CP*CP*UP*CP*GP*U)-3') | Alignment of guide-target seed duplex within an argonaute silencing complex | X-ray diffraction | 3 | 26 | 2008-12-16 | ||||
| 39 | 2P5G|1|K+ 2P5G|1|L | Primer DNA, Template DNA | Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template | X-ray diffraction | 2.8 | 24 | 2007-10-23 | ||||
| 40 | 3DLH|1|X | DNA (5'-D(DTP*DGP*DAP*DGP*DGP*DTP*DAP*DGP*DTP*DAP*DGP*DGP*DTP*DTP*DGP*DTP*DAP*DTP*DAP*DGP*DT)-3') | Crystal structure of the guide-strand-containing Argonaute protein silencing complex | X-ray diffraction | 3 | 17 | 2008-09-02 | ||||
| 41 | 3DLH|1|Y | DNA (5'-D(DTP*DGP*DAP*DGP*DGP*DTP*DAP*DGP*DTP*DAP*DGP*DGP*DTP*DTP*DGP*DTP*DAP*DTP*DAP*DGP*DT)-3') | Crystal structure of the guide-strand-containing Argonaute protein silencing complex | X-ray diffraction | 3 | 14 | 2008-09-02 | ||||
| 42 | 2P5G|1|G+ 2P5G|1|H | Primer DNA, Template DNA | Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template | X-ray diffraction | 2.8 | 26 | 2007-10-23 | ||||
| 43 | 3F73|1|C+ 3F73|1|H | DNA (5'-D(P*DTP*DGP*DAP*DGP*DGP*DTP*DAP*DGP*DTP*DAP*DGP*DGP*DTP*DTP*DGP*DTP*DA*DTP*DAP*DGP*DT)-3'), RNA (5'-R(*UP*AP*UP*AP*CP*AP*A*CP*UP*CP*AP*CP*UP*AP*CP*CP*UP*CP*GP*U)-3') | Alignment of guide-target seed duplex within an argonaute silencing complex | X-ray diffraction | 3 | 28 | 2008-12-16 | ||||
| 44 | 2OYQ|1|G+ 2OYQ|1|H | Primer DNA, Template DNA | Crystal structure of RB69 gp43 in complex with DNA with 5-NIMP opposite an abasic site analog | X-ray diffraction | 2.86 | 25 | 2007-10-23 | ||||
| 45 | 2EFW|1|I+ 2EFW|1|J | DNA (5'-D(*DCP*DT*DAP*DTP*DGP*DTP*DAP*DCP*DCP*DAP*DAP*DAP*DTP*DGP*DTP*DTP*DCP*DAP*DGP*DTP*DC)-3'), DNA (5'-D(*DGP*DAP*DCP*DTP*DGP*DAP*DAP*DCP*DAP*DTP*DTP*DTP*DGP*DGP*DTP*DAP*DCP*DAP*DTP*DAP*DG)-3') | Crystal structure of the RTP:nRB complex from Bacillus subtilis | X-ray diffraction | 2.5 | 38 | 2008-02-26 | ||||
| 46 | 3CBB|1|C+ 3CBB|1|D | Hepatocyte Nuclear Factor 4-alpha promoter element DNA | Crystal Structure of Hepatocyte Nuclear Factor 4alpha in complex with DNA: Diabetes Gene Product | X-ray diffraction | 2 | 42 | 2008-10-07 | ||||
| 47 | 1HLV|1|B+ 1HLV|1|C | CENP-B BOX DNA | CRYSTAL STRUCTURE OF CENP-B(1-129) COMPLEXED WITH THE CENP-B BOX DNA | X-ray diffraction | 2.5 | 42 | 2002-01-11 | ||||
| 48 | 1F4K|1|D+ 1F4K|1|E | 5'-D(*CP*TP*AP*TP*GP*AP*AP*CP*AP*TP*AP*AP*TP*GP*TP*TP*CP*AP*TP*AP*G)-3', 5'-D(*CP*TP*AP*TP*GP*AP*AP*CP*AP*TP*TP*AP*TP*GP*TP*TP*CP*AP*TP*AP*G)-3' | CRYSTAL STRUCTURE OF THE REPLICATION TERMINATOR PROTEIN/B-SITE DNA COMPLEX | X-ray diffraction | 2.5 | 42 | 2001-06-08 | ||||
| 49 | 1I3J|1|B+ 1I3J|1|C | 5'-D(*AP*AP*TP*TP*AP*AP*AP*CP*GP*GP*TP*AP*GP*AP*CP*CP*CP*AP*AP*GP*A)-3', 5'-D(*TP*TP*CP*TP*TP*GP*GP*GP*TP*CP*TP*AP*CP*CP*GP*TP*TP*TP*AP*AP*T)-3' | CRYSTAL STRUCTURE OF THE DNA-BINDING DOMAIN OF INTRON ENDONUCLEASE I-TEVI WITH ITS SUBSTRATE | X-ray diffraction | 2.2 | 42 | 2001-07-13 | ||||
| 50 | 1IC8|1|E+ 1IC8|1|F | 5'-D(*CP*TP*TP*GP*GP*TP*TP*AP*AP*TP*AP*AP*TP*TP*CP*AP*CP*CP*AP*GP*A)-3', 5'-D(*TP*CP*TP*GP*GP*TP*GP*AP*AP*TP*TP*AP*TP*TP*AP*AP*CP*CP*AP*AP*G)-3' | HEPATOCYTE NUCLEAR FACTOR 1A BOUND TO DNA : MODY3 GENE PRODUCT | X-ray diffraction | 2.6 | 42 | 2002-11-27 | ||||
| 51 | 1S76|1|T+ 1S76|1|R | DNA (5'-D(P*GP*CP*CP*GP*TP*GP*CP*GP*CP*AP*TP*TP*CP*GP*CP*CP*GP*TP*GP*TP*T)-3'), RNA (5'-R(P*AP*CP*AP*CP*GP*GP*CP*GP*A)-3') | T7 RNA polymerase alpha beta methylene ATP elongation complex | X-ray diffraction | 2.88 | 30 | 2004-03-23 | ||||
| 52 | 1S77|1|T+ 1S77|1|N+ 1S77|1|R | DNA (5'-D(*GP*CP*CP*GP*TP*GP*CP*GP*CP*AP*TP*TP*CP*GP*CP*CP*GP*TP*GP*TP*T)-3'), DNA (5'-D(*TP*TP*TP*AP*CP*GP*TP*TP*GP*CP*GP*CP*AP*CP*GP*GP*C)-3'), RNA (5'-R(*AP*CP*AP*CP*GP*GP*CP*GP*AP*(3DA))-3') | T7 RNAP product pyrophosphate elongation complex | X-ray diffraction | 2.69 | 48 | 2004-03-23 | ||||
| 53 | 1AM9|1|F+ 1AM9|1|H+ 1AM9|1|E+ 1AM9|1|G | DNA (5'-D(*CP*AP*TP*GP*AP*GP*AP*TP*CP*AP*CP*CP*CP*CP*AP*CP*T P*GP*CP*AP*A)-3'), DNA (5'-D(*TP*TP*GP*CP*AP*GP*TP*GP*GP*GP*GP*TP*GP*AP*TP*CP*T )-3') | HUMAN SREBP-1A BOUND TO LDL RECEPTOR PROMOTER | X-ray diffraction | 2.3 | 76 | 1998-07-10 | ||||
| 54 | 1CYQ|1|C+ 1CYQ|1|D | 5'-D(*TP*TP*GP*AP*CP*TP*CP*TP*CP*TP*TP*AP*AP*GP*AP*GP*AP*GP*TP*CP*A)-3' | INTRON ENCODED HOMING ENDONUCLEASE I-PPOI (H98A)/DNA HOMING SITE COMPLEX | X-ray diffraction | 1.93 | 42 | 1999-11-19 | ||||
| 55 | 1CZ0|1|C+ 1CZ0|1|D | DNA (5'-D(*TP*TP*GP*AP*CP*TP*CP*TP*CP*TP*TP*AP*AP*GP*AP*GP*AP*GP*TP*CP*A)-3') | INTRON ENCODED HOMING ENDONUCLEASE I-PPOI/DNA COMPLEX LACKING CATALYTIC METAL ION | X-ray diffraction | 2.1 | 42 | 1999-11-19 | ||||
| 56 | 2HDD|1|C+ 2HDD|1|D | DNA (5'-D(*AP*TP*CP*CP*GP*GP*GP*GP*AP*TP*TP*AP*CP*AP*TP*GP*G P*CP*AP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*CP*CP*C P*CP*GP*GP*A)-3') | ENGRAILED HOMEODOMAIN Q50K VARIANT DNA COMPLEX | X-ray diffraction | 1.9 | 42 | 1998-05-27 | ||||
| 57 | 1DU0|1|C+ 1DU0|1|D | DNA (5'-D(*AP*TP*TP*AP*GP*GP*TP*AP*AP*TP*TP*AP*CP*AP*TP*GP*GP*CP*AP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*TP*AP*CP*CP*TP*AP*A)-3') | ENGRAILED HOMEODOMAIN Q50A VARIANT DNA COMPLEX | X-ray diffraction | 2 | 42 | 2000-07-31 | ||||
| 58 | 1A74|1|C+ 1A74|1|D | DNA (5'-D(*TP*TP*GP*AP*CP*TP*CP*TP*CP*TP*TP*AP*AP*GP*AP*GP*A P*GP*TP*CP*A)-3') | I-PPOL HOMING ENDONUCLEASE/DNA COMPLEX | X-ray diffraction | 2.2 | 42 | 1998-06-22 | ||||
| 59 | 3HDD|1|C+ 3HDD|1|D | 5'-D(*AP*TP*TP*AP*GP*GP*TP*AP*AP*TP*TP*AP*CP*AP*TP*GP*GP*CP*AP*AP*A)-3', 5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*TP*AP*CP*CP*TP*AP*A)-3' | ENGRAILED HOMEODOMAIN DNA COMPLEX | X-ray diffraction | 2.2 | 42 | 1998-11-11 | ||||
| 60 | 1IPP|1|C+ 1IPP|1|D | DNA (5'-D(*TP*TP*GP*AP*CP*TP*CP*TP*CP*TP*TP*AP*AP*GP*AP*GP*AP*GP*TP*CP*A)-3') | HOMING ENDONUCLEASE/DNA COMPLEX | X-ray diffraction | 2.2 | 42 | 1998-09-02 | ||||
| 61 | 1YRN|1|C+ 1YRN|1|D | DNA (5'-D(*TP*AP*CP*AP*TP*GP*TP*AP*AP*TP*TP*TP*AP*TP*TP*AP*C P*AP*TP*CP*A)-3'), DNA (5'-D(*TP*AP*TP*GP*AP*TP*GP*TP*AP*AP*TP*AP*AP*AP*TP*TP*A P*CP*AP*TP*G)-3') | CRYSTAL STRUCTURE OF THE MATA1/MATALPHA2 HOMEODOMAIN HETERODIMER BOUND TO DNA | X-ray diffraction | 2.5 | 42 | 1996-01-29 | ||||
| 62 | 1APL|1|A+ 1APL|1|B | DNA (5'-D(*AP*CP*AP*TP*GP*TP*AP*AP*TP*TP*CP*AP*TP*TP*TP*AP*C P*AP*CP*GP*C)-3'), DNA (5'-D(*TP*GP*CP*GP*TP*GP*TP*AP*AP*AP*TP*GP*AP*AP*TP*TP*A P*CP*AP*TP*G)-3') | CRYSTAL STRUCTURE OF A MAT-ALPHA2 HOMEODOMAIN-OPERATOR COMPLEX SUGGESTS A GENERAL MODEL FOR HOMEODOMAIN-DNA INTERACTIONS | X-ray diffraction | 2.7 | 42 | 1993-10-21 | ||||
| 63 | 1D5Y|1|M+ 1D5Y|1|N | DNA (5'-D(*AP*CP*TP*TP*TP*GP*AP*CP*AP*TP*TP*CP*AP*GP*TP*GP*CP*TP*GP*TP*C)-3'), DNA (5'-D(*TP*GP*AP*CP*AP*GP*CP*AP*CP*TP*GP*AP*AP*TP*GP*TP*CP*AP*AP*AP*G)-3') | CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN COMPLEX WITH DNA | X-ray diffraction | 2.7 | 42 | 2000-04-24 | ||||
| 64 | 1D5Y|1|O+ 1D5Y|1|P | DNA (5'-D(*AP*CP*TP*TP*TP*GP*AP*CP*AP*TP*TP*CP*AP*GP*TP*GP*CP*TP*GP*TP*C)-3'), DNA (5'-D(*TP*GP*AP*CP*AP*GP*CP*AP*CP*TP*GP*AP*AP*TP*GP*TP*CP*AP*AP*AP*G)-3') | CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN COMPLEX WITH DNA | X-ray diffraction | 2.7 | 42 | 2000-04-24 | ||||
| 65 | 1AKH|1|C+ 1AKH|1|D | DNA (5'-D(*TP*AP*CP*AP*TP*GP*TP*AP*AP*AP*AP*AP*TP*TP*TP*AP*C P*AP*TP*CP*A)-3'), DNA (5'-D(*TP*AP*TP*GP*AP*TP*GP*TP*AP*AP*AP*TP*TP*TP*TP*TP*A P*CP*AP*TP*G)-3') | MAT A1/ALPHA2/DNA TERNARY COMPLEX | X-ray diffraction | 2.5 | 42 | 1998-05-20 | ||||
| 66 | 1TSR|1|E+ 1TSR|1|F | DNA (5'-D(*AP*TP*AP*AP*TP*TP*GP*GP*GP*CP*AP*AP*GP*TP*CP*TP*A P*GP*GP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*CP*CP*TP*AP*GP*AP*CP*TP*TP*GP*CP*CP*CP*A P*AP*TP*TP*A)-3') | P53 CORE DOMAIN IN COMPLEX WITH DNA | X-ray diffraction | 2.2 | 42 | 1996-01-29 | ||||
| 67 | 1HDD|1|A+ 1HDD|1|B | DNA (5'-D(*AP*TP*TP*AP*GP*GP*TP*AP*AP*TP*TP*AP*CP*AP*TP*GP*G P*CP*AP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*TP*GP*CP*CP*AP*TP*GP*TP*AP*AP*TP*TP*AP*C P*CP*TP*AP*A)-3') | synthetic construct | CRYSTAL STRUCTURE OF AN ENGRAILED HOMEODOMAIN-DNA COMPLEX AT 2.8 ANGSTROMS RESOLUTION: A FRAMEWORK FOR UNDERSTANDING HOMEODOMAIN-DNA INTERACTIONS | X-ray diffraction | 2.8 | 42 | 1992-01-15 | |||
| 68 | 1EFA|1|D+ 1EFA|1|E | DNA (5'-D(*GP*AP*AP*T*TP*GP*TP*GP*AP*GP*CP*GP*CP*TP*CP*AP*CP*AP*AP*TP*T)-3') | CRYSTAL STRUCTURE OF THE LAC REPRESSOR DIMER BOUND TO OPERATOR AND THE ANTI-INDUCER ONPF | X-ray diffraction | 2.6 | 34 | 2000-03-06 | ||||
| 69 | 1TUP|1|E+ 1TUP|1|F | DNA (5'-D(*AP*TP*AP*AP*TP*TP*GP*GP*GP*CP*AP*AP*GP*TP*CP*TP*A P*GP*GP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*CP*CP*TP*AP*GP*AP*CP*TP*TP*GP*CP*CP*CP*A P*AP*TP*TP*A)-3') | TUMOR SUPPRESSOR P53 COMPLEXED WITH DNA | X-ray diffraction | 2.2 | 42 | 1995-07-11 | ||||
| 70 | 1AN4|1|C+ 1AN4|1|D | DNA (5'-D(*CP*AP*CP*CP*CP*GP*GP*TP*CP*AP*CP*GP*TP*GP*GP*CP*C P*TP*AP*CP*A)-3'), DNA (5'-D(*GP*TP*GP*TP*AP*GP*GP*CP*CP*AP*CP*GP*TP*GP*AP*CP*C P*GP*GP*GP*T)-3') | STRUCTURE AND FUNCTION OF THE B/HLH/Z DOMAIN OF USF | X-ray diffraction | 2.9 | 42 | 1997-09-17 | ||||
| 71 | 1DH3|1|B+ 1DH3|1|D | DNA (5'-D(*CP*CP*TP*TP*GP*GP*CP*TP*GP*AP*CP*GP*TP*CP*AP*GP*CP*CP*AP*AP*G)-3') | CRYSTAL STRUCTURE OF A CREB BZIP-CRE COMPLEX REVEALS THE BASIS FOR CREB FAIMLY SELECTIVE DIMERIZATION AND DNA BINDING | X-ray diffraction | 3 | 42 | 2000-11-27 | ||||
| 72 | 2GLI|1|C+ 2GLI|1|D | DNA (5'-D(*AP*CP*GP*TP*GP*GP*AP*CP*CP*AP*CP*CP*CP*AP*AP*GP*AP*CP*GP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*CP*GP*TP*CP*TP*TP*GP*GP*GP*TP*GP*GP*TP*CP*CP*AP*CP*G)-3') | FIVE-FINGER GLI/DNA COMPLEX | X-ray diffraction | 2.6 | 42 | 1993-11-09 | ||||
| 73 | 1EXJ|1|M | DNA (5'-D(*AP*CP*CP*CP*TP*CP*CP*CP*CP*TP*TP*AP*GP*GP*GP*GP*AP*GP*GP*GP*T)-3') | CRYSTAL STRUCTURE OF TRANSCRIPTION ACTIVATOR BMRR, FROM B. SUBTILIS, BOUND TO 21 BASE PAIR BMR OPERATOR AND TPP | X-ray diffraction | 3 | 21 | 2001-01-24 |
Release history
| Release | 0.6 |
|---|---|
| Date | 2011-03-05 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|
Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.
| #S | View | PDB | Title | Method | Resolution | #NTs | NAKB NA annotation | NAKB protein annotation |
|---|---|---|---|---|---|---|---|---|
| 1 | 2Q2U|1|G+ 2Q2U|1|H | Structure of Chlorella virus DNA ligase-product DNA complex | X-RAY DIFFRACTION | 3 | 42 | A-form double helix,double helix,structure | enzyme,ligase | |
| 2 | 2GLI|1|C+ 2GLI|1|D | FIVE-FINGER GLI/DNA COMPLEX | X-RAY DIFFRACTION | 2.6 | 42 | double helix,structure | DNA-binding transcription factor (TF),Zinc finger C2H2,Zinc-coordinating,regulatory,transcription | |
| 3 | 1EFA|1|D+ 1EFA|1|E | CRYSTAL STRUCTURE OF THE LAC REPRESSOR DIMER BOUND TO OPERATOR AND THE ANTI-INDUCER ONPF | X-RAY DIFFRACTION | 2.6 | 34 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),lambda repressor-like,regulatory,transcription | |
| 4 | 1EXJ|1|M | CRYSTAL STRUCTURE OF TRANSCRIPTION ACTIVATOR BMRR, FROM B. SUBTILIS, BOUND TO 21 BASE PAIR BMR OPERATOR AND TPP | X-RAY DIFFRACTION | 3 | 21 | double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 5 | 1IPP|1|C+ 1IPP|1|D | HOMING ENDONUCLEASE/DNA COMPLEX | X-RAY DIFFRACTION | 2.2 | 42 | double helix,structure | enzyme,hydrolase,nuclease | |
| 6 | 1A74|1|C+ 1A74|1|D | I-PPOL HOMING ENDONUCLEASE/DNA COMPLEX | X-RAY DIFFRACTION | 2.2 | 42 | double helix,structure | enzyme,hydrolase,nuclease | |
| 7 | 1CYQ|1|C+ 1CYQ|1|D | INTRON ENCODED HOMING ENDONUCLEASE I-PPOI (H98A)/DNA HOMING SITE COMPLEX | X-RAY DIFFRACTION | 1.93 | 42 | double helix,structure | enzyme,hydrolase,nuclease | |
| 8 | 1CZ0|1|C+ 1CZ0|1|D | INTRON ENCODED HOMING ENDONUCLEASE I-PPOI/DNA COMPLEX LACKING CATALYTIC METAL ION | X-RAY DIFFRACTION | 2.1 | 42 | double helix,structure | enzyme,hydrolase,nuclease | |
| 9 | 2O6M|1|C+ 2O6M|1|D | H98Q mutant of the homing endonuclease I-PPOI complexed with DNA | X-RAY DIFFRACTION | 2.3 | 42 | double helix,structure | enzyme,hydrolase,nuclease | |
| 10 | 2OYQ|1|G+ 2OYQ|1|H | Crystal structure of RB69 gp43 in complex with DNA with 5-NIMP opposite an abasic site analog | X-RAY DIFFRACTION | 2.86 | 25 | double helix,structure | enzyme,polymerase,transferase | |
| 11 | 2P5G|1|G+ 2P5G|1|H | Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template | X-RAY DIFFRACTION | 2.8 | 26 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 12 | 2P5G|1|E+ 2P5G|1|F | Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template | X-RAY DIFFRACTION | 2.8 | 30 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 13 | 2OYQ|1|E+ 2OYQ|1|F | Crystal structure of RB69 gp43 in complex with DNA with 5-NIMP opposite an abasic site analog | X-RAY DIFFRACTION | 2.86 | 31 | double helix,structure | enzyme,polymerase,transferase | |
| 14 | 2P5G|1|I+ 2P5G|1|J | Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template | X-RAY DIFFRACTION | 2.8 | 35 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 15 | 2OYQ|1|I+ 2OYQ|1|J | Crystal structure of RB69 gp43 in complex with DNA with 5-NIMP opposite an abasic site analog | X-RAY DIFFRACTION | 2.86 | 35 | double helix,structure | enzyme,polymerase,transferase | |
| 16 | 2P5G|1|K+ 2P5G|1|L | Crystal structure of RB69 gp43 in complex with DNA with dAMP opposite an abasic site analog in a 21mer template | X-RAY DIFFRACTION | 2.8 | 24 | B-form double helix,double helix,structure | enzyme,polymerase,transferase | |
| 17 | 2OYQ|1|K+ 2OYQ|1|L | Crystal structure of RB69 gp43 in complex with DNA with 5-NIMP opposite an abasic site analog | X-RAY DIFFRACTION | 2.86 | 25 | double helix,structure | enzyme,polymerase,transferase | |
| 18 | 2EZV|1|F+ 2EZV|1|G | Crystal structure of tetrameric restriction endonuclease SfiI bound to cognate DNA. | X-RAY DIFFRACTION | 2.4 | 30 | enzyme,hydrolase,nuclease | ||
| 19 | 2AS5|1|C+ 2AS5|1|D | Structure of the DNA binding domains of NFAT and FOXP2 bound specifically to DNA. | X-RAY DIFFRACTION | 2.7 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),immunoglobulin (Ig) fold,regulatory,rel homology,transcription,winged helix/forkhead | |
| 20 | 2AS5|1|A+ 2AS5|1|B | Structure of the DNA binding domains of NFAT and FOXP2 bound specifically to DNA. | X-RAY DIFFRACTION | 2.7 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),immunoglobulin (Ig) fold,regulatory,rel homology,transcription,winged helix/forkhead | |
| 21 | 1DH3|1|B+ 1DH3|1|D | CRYSTAL STRUCTURE OF A CREB BZIP-CRE COMPLEX REVEALS THE BASIS FOR CREB FAIMLY SELECTIVE DIMERIZATION AND DNA BINDING | X-RAY DIFFRACTION | 3 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),basic transcription factor,leucine zipper (bZIP),regulatory,transcription | |
| 22 | 2RBF|1|C+ 2RBF|1|D | Structure of the ribbon-helix-helix domain of Escherichia coli PutA (PutA52) complexed with operator DNA (O2) | X-RAY DIFFRACTION | 2.25 | 38 | B-form double helix,double helix,structure | enzyme,oxidoreductase,regulatory,transcription | |
| 23 | 3G73|1|C+ 3G73|1|D | Structure of the FOXM1 DNA binding | X-RAY DIFFRACTION | 2.21 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 24 | 1AWC|1|D+ 1AWC|1|E | MOUSE GABP ALPHA/BETA DOMAIN BOUND TO DNA | X-RAY DIFFRACTION | 2.15 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 25 | 2NTC|1|C+ 2NTC|1|W | Crystal Structure of sv40 large T antigen origin binding domain with DNA | X-RAY DIFFRACTION | 2.4 | 42 | B-form double helix,double helix,structure | DNA replication/repair,enzyme,helicase,hydrolase,regulatory | |
| 26 | 1D5Y|1|O+ 1D5Y|1|P | CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN COMPLEX WITH DNA | X-RAY DIFFRACTION | 2.7 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 27 | 1D5Y|1|M+ 1D5Y|1|N | CRYSTAL STRUCTURE OF THE E. COLI ROB TRANSCRIPTION FACTOR IN COMPLEX WITH DNA | X-RAY DIFFRACTION | 2.7 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 28 | 1NWQ|1|B+ 1NWQ|1|D | CRYSTAL STRUCTURE OF C/EBPALPHA-DNA COMPLEX | X-RAY DIFFRACTION | 2.8 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),basic transcription factor,leucine zipper (bZIP),regulatory,transcription | |
| 29 | 1I3J|1|B+ 1I3J|1|C | CRYSTAL STRUCTURE OF THE DNA-BINDING DOMAIN OF INTRON ENDONUCLEASE I-TEVI WITH ITS SUBSTRATE | X-RAY DIFFRACTION | 2.2 | 42 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 30 | 1T2T|1|B+ 1T2T|1|C | Crystal structure of the DNA-binding domain of intron endonuclease I-TevI with operator site | X-RAY DIFFRACTION | 2.5 | 42 | B-form double helix,double helix,structure | enzyme,hydrolase,nuclease | |
| 31 | 1AM9|1|F+ 1AM9|1|H+ 1AM9|1|E+ 1AM9|1|G | HUMAN SREBP-1A BOUND TO LDL RECEPTOR PROMOTER | X-RAY DIFFRACTION | 2.3 | 76 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),basic transcription factor,helix-loop-helix (bHLH),regulatory,transcription | |
| 32 | 1F4K|1|D+ 1F4K|1|E | CRYSTAL STRUCTURE OF THE REPLICATION TERMINATOR PROTEIN/B-SITE DNA COMPLEX | X-RAY DIFFRACTION | 2.5 | 42 | B-form double helix,double helix,structure | DNA replication/repair,regulatory | |
| 33 | 1IC8|1|E+ 1IC8|1|F | HEPATOCYTE NUCLEAR FACTOR 1A BOUND TO DNA : MODY3 GENE PRODUCT | X-RAY DIFFRACTION | 2.6 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 34 | 2A07|1|C+ 2A07|1|D | Crystal Structure of Foxp2 bound Specifically to DNA. | X-RAY DIFFRACTION | 1.9 | 42 | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | ||
| 35 | 2A07|1|A+ 2A07|1|B | Crystal Structure of Foxp2 bound Specifically to DNA. | X-RAY DIFFRACTION | 1.9 | 42 | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | ||
| 36 | 1DU0|1|C+ 1DU0|1|D | ENGRAILED HOMEODOMAIN Q50A VARIANT DNA COMPLEX | X-RAY DIFFRACTION | 2 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 37 | 2HDD|1|C+ 2HDD|1|D | ENGRAILED HOMEODOMAIN Q50K VARIANT DNA COMPLEX | X-RAY DIFFRACTION | 1.9 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 38 | 2HOT|1|C+ 2HOT|1|D | Phage selected homeodomain bound to modified DNA | X-RAY DIFFRACTION | 2.19 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 39 | 2HOS|1|C+ 2HOS|1|D | Phage-Selected Homeodomain Bound to Unmodified DNA | X-RAY DIFFRACTION | 1.9 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 40 | 3HDD|1|C+ 3HDD|1|D | ENGRAILED HOMEODOMAIN DNA COMPLEX | X-RAY DIFFRACTION | 2.2 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 41 | 1HDD|1|A+ 1HDD|1|B | CRYSTAL STRUCTURE OF AN ENGRAILED HOMEODOMAIN-DNA COMPLEX AT 2.8 ANGSTROMS RESOLUTION: A FRAMEWORK FOR UNDERSTANDING HOMEODOMAIN-DNA INTERACTIONS | X-RAY DIFFRACTION | 2.8 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 42 | 3KZ8|1|C | Diversity in DNA recognition by p53 revealed by crystal structures with Hoogsteen base pairs (p53-DNA complex 3) | X-RAY DIFFRACTION | 1.91 | 20 | DNA-binding transcription factor (TF),P53 like,immunoglobulin (Ig) fold,regulatory,transcription | ||
| 43 | 1TUP|1|E+ 1TUP|1|F | TUMOR SUPPRESSOR P53 COMPLEXED WITH DNA | X-RAY DIFFRACTION | 2.2 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),P53 like,immunoglobulin (Ig) fold,regulatory,transcription | |
| 44 | 1TSR|1|E+ 1TSR|1|F | P53 CORE DOMAIN IN COMPLEX WITH DNA | X-RAY DIFFRACTION | 2.2 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),P53 like,immunoglobulin (Ig) fold,regulatory,transcription | |
| 45 | 2EFW|1|D+ 2EFW|1|E | Crystal structure of the RTP:nRB complex from Bacillus subtilis | X-RAY DIFFRACTION | 2.5 | 38 | double helix,structure | DNA replication/repair,regulatory | |
| 46 | 2EFW|1|I+ 2EFW|1|J | Crystal structure of the RTP:nRB complex from Bacillus subtilis | X-RAY DIFFRACTION | 2.5 | 38 | double helix,structure | DNA replication/repair,regulatory | |
| 47 | 1AN4|1|C+ 1AN4|1|D | STRUCTURE AND FUNCTION OF THE B/HLH/Z DOMAIN OF USF | X-RAY DIFFRACTION | 2.9 | 42 | double helix,structure | DNA-binding transcription factor (TF),basic transcription factor,helix-loop-helix (bHLH),regulatory,transcription | |
| 48 | 1APL|1|A+ 1APL|1|B | CRYSTAL STRUCTURE OF A MAT-ALPHA2 HOMEODOMAIN-OPERATOR COMPLEX SUGGESTS A GENERAL MODEL FOR HOMEODOMAIN-DNA INTERACTIONS | X-RAY DIFFRACTION | 2.7 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 49 | 1K61|1|E+ 1K61|1|F | MATALPHA2 HOMEODOMAIN BOUND TO DNA | X-RAY DIFFRACTION | 2.1 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 50 | 3CBB|1|C+ 3CBB|1|D | Crystal Structure of Hepatocyte Nuclear Factor 4alpha in complex with DNA: Diabetes Gene Product | X-RAY DIFFRACTION | 2 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),Zinc-coordinating,nuclear receptor ZnC4,regulatory,transcription | |
| 51 | 1HLV|1|B+ 1HLV|1|C | CRYSTAL STRUCTURE OF CENP-B(1-129) COMPLEXED WITH THE CENP-B BOX DNA | X-RAY DIFFRACTION | 2.5 | 42 | B-form double helix,double helix,structure | centromere,chromatin,structural | |
| 52 | 1AKH|1|C+ 1AKH|1|D | MAT A1/ALPHA2/DNA TERNARY COMPLEX | X-RAY DIFFRACTION | 2.5 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 53 | 1YRN|1|C+ 1YRN|1|D | CRYSTAL STRUCTURE OF THE MATA1/MATALPHA2 HOMEODOMAIN HETERODIMER BOUND TO DNA | X-RAY DIFFRACTION | 2.5 | 42 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),homeodomain,regulatory,transcription | |
| 54 | 1ZRD|1|X+ 1ZRD|1|Z+ 1ZRD|1|W+ 1ZRD|1|Y | 4 crystal structures of CAP-DNA with all base-pair substitutions at position 6, CAP-[6A;17T]ICAP38 DNA | X-RAY DIFFRACTION | 2.8 | 76 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 55 | 1ZRE|1|X+ 1ZRE|1|Z+ 1ZRE|1|W+ 1ZRE|1|Y | 4 crystal structures of CAP-DNA with all base-pair substitutions at position 6, CAP-[6G;17C]ICAP38 DNA | X-RAY DIFFRACTION | 2.8 | 76 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 56 | 1ZRC|1|X+ 1ZRC|1|Z+ 1ZRC|1|W+ 1ZRC|1|Y | 4 Crystal structures of CAP-DNA with all base-pair substitutions at position 6, CAP-ICAP38 DNA | X-RAY DIFFRACTION | 2.8 | 76 | B-form double helix,double helix,structure | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | |
| 57 | 1ZRF|1|X+ 1ZRF|1|Z+ 1ZRF|1|W+ 1ZRF|1|Y | 4 crystal structures of CAP-DNA with all base-pair substitutions at position 6, CAP-[6C;17G]ICAP38 DNA | X-RAY DIFFRACTION | 2.1 | 73 | DNA-binding transcription factor (TF),helix-turn-helix (HTH),regulatory,transcription,winged helix/forkhead | ||
| 58 | 3HZI|1|T | Structure of mdt protein | X-RAY DIFFRACTION | 2.98 | 21 | double helix,structure | enzyme,kinase,regulatory,transcription,transferase | |
| 59 | 3DNV|1|T | MDT Protein | X-RAY DIFFRACTION | 2.68 | 21 | double helix,structure | enzyme,kinase,regulatory,transcription,transferase | |
| 60 | 1TC3|1|A+ 1TC3|1|B | TRANSPOSASE TC3A1-65 FROM CAENORHABDITIS ELEGANS | X-RAY DIFFRACTION | 2.45 | 41 | double helix,structure | enzyme,recombinase | |
| 61 | 3DLH|1|X | Crystal structure of the guide-strand-containing Argonaute protein silencing complex | X-RAY DIFFRACTION | 3 | 17 | enzyme,gene silencing,hydrolase,nuclease,regulatory | ||
| 62 | 3DLH|1|Y | Crystal structure of the guide-strand-containing Argonaute protein silencing complex | X-RAY DIFFRACTION | 3 | 14 | enzyme,gene silencing,hydrolase,nuclease,regulatory | ||
| 63 | 1S76|1|T+ 1S76|1|R | T7 RNA polymerase alpha beta methylene ATP elongation complex | X-RAY DIFFRACTION | 2.88 | 30 | enzyme,polymerase,transferase | ||
| 64 | 1S77|1|T+ 1S77|1|N+ 1S77|1|R | T7 RNAP product pyrophosphate elongation complex | X-RAY DIFFRACTION | 2.69 | 48 | enzyme,polymerase,transferase | ||
| 65 | 3HK2|1|E+ 3HK2|1|F | Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strand | X-RAY DIFFRACTION | 2.8 | 32 | A-form double helix,double helix,structure | enzyme,gene silencing,hydrolase,nuclease,regulatory | |
| 66 | 3HK2|1|C+ 3HK2|1|D | Crystal structure of T. thermophilus Argonaute N478 mutant protein complexed with DNA guide strand and 19-nt RNA target strand | X-RAY DIFFRACTION | 2.8 | 32 | A-form double helix,double helix,structure | enzyme,gene silencing,hydrolase,nuclease,regulatory | |
| 67 | 3F73|1|X+ 3F73|1|Y | Alignment of guide-target seed duplex within an argonaute silencing complex | X-RAY DIFFRACTION | 3 | 26 | enzyme,gene silencing,hydrolase,nuclease,regulatory | ||
| 68 | 3F73|1|C+ 3F73|1|H | Alignment of guide-target seed duplex within an argonaute silencing complex | X-RAY DIFFRACTION | 3 | 28 | enzyme,gene silencing,hydrolase,nuclease,regulatory | ||
| 69 | 3HO1|1|X+ 3HO1|1|Y | Crystal structure of T. thermophilus Argonaute N546 mutant protein complexed with DNA guide strand and 12-nt RNA target strand | X-RAY DIFFRACTION | 2.6 | 27 | A-form double helix,double helix,structure | enzyme,gene silencing,hydrolase,nuclease,regulatory | |
| 70 | 2Q2U|1|K+ 2Q2U|1|L | Structure of Chlorella virus DNA ligase-product DNA complex | X-RAY DIFFRACTION | 3 | 42 | A-form double helix,double helix,structure | enzyme,ligase | |
| 71 | 2Q2U|1|E+ 2Q2U|1|F | Structure of Chlorella virus DNA ligase-product DNA complex | X-RAY DIFFRACTION | 3 | 42 | A-form double helix,double helix,structure | enzyme,ligase | |
| 72 | 2Q2U|1|I+ 2Q2U|1|J | Structure of Chlorella virus DNA ligase-product DNA complex | X-RAY DIFFRACTION | 3 | 42 | A-form double helix,double helix,structure | enzyme,ligase | |
| 73 | 2Q2T|1|B+ 2Q2T|1|D+ 2Q2T|1|C | Structure of Chlorella virus DNA ligase-adenylate bound to a 5' phosphorylated nick | X-RAY DIFFRACTION | 2.3 | 42 | B-form double helix,double helix,structure | enzyme,ligase |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.
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