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Equivalence class DNA_4.0_93082.1 Current

#IFEStandardized nameMoleculeOrganismSourceRfamTitleMethodRes. Å#NTsDate
11JT0|1|E+ 1JT0|1|F (rep)QACA operatorCrystal structure of a cooperative QacR-DNA complexX-ray diffraction2.9562002-03-08
23HOS|1|F+ 3HOS|1|EMos1 NTS inverted repeat DNA, Mos1 TS inverted repeat DNACrystal structure of the mariner Mos1 paired end complex with MgX-ray diffraction3.5532009-09-22
33HOS|1|D+ 3HOS|1|CMos1 NTS inverted repeat DNA, Mos1 TS inverted repeat DNACrystal structure of the mariner Mos1 paired end complex with MgX-ray diffraction3.5532009-09-22
43HOT|1|D+ 3HOT|1|CMos1 NTS inverted repeat DNA, Mos1 TS inverted repeat DNAsynthetic constructCrystal structure of the Mos1 mariner paired end complex with MnX-ray diffraction3.25532009-09-22
51X9N|1|D+ 1X9N|1|C+ 1X9N|1|B5'-phosphorylated DNA, dideoxy terminated DNA, template DNACrystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNAX-ray diffraction3402004-11-30
63HOT|1|F+ 3HOT|1|EMos1 NTS inverted repeat DNA, Mos1 TS inverted repeat DNAsynthetic constructCrystal structure of the Mos1 mariner paired end complex with MnX-ray diffraction3.25532009-09-22
73HOS|1|H+ 3HOS|1|GMos1 NTS inverted repeat DNA, Mos1 TS inverted repeat DNACrystal structure of the mariner Mos1 paired end complex with MgX-ray diffraction3.5532009-09-22
82NVQ|1|T+ 2NVQ|1|N+ 2NVQ|1|R28-MER DNA template strand, 5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3', 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3'synthetic constructRNA Polymerase II Elongation Complex in 150 mM Mg+2 with 2'dUTPX-ray diffraction2.9522006-12-12
93HOT|1|H+ 3HOT|1|GMos1 NTS inverted repeat DNA, Mos1 TS inverted repeat DNAsynthetic constructCrystal structure of the Mos1 mariner paired end complex with MnX-ray diffraction3.25532009-09-22
103GTP|1|T+ 3GTP|1|R+ 3GTP|1|NDNA (28-MER), DNA (5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3'), RNA (5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*AP*UP*GP*CP*AP*GP*AP*CP*GP*UP*UP*UP*UP*UP*U)-3')Backtracked RNA polymerase II complex with 24mer RNAX-ray diffraction3.9552009-06-09
113GTO|1|T+ 3GTO|1|R+ 3GTO|1|NDNA (28-MER), DNA (5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3'), RNA (5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*AP*UP*GP*CP*AP*C)-3')Backtracked RNA polymerase II complex with 15mer RNAX-ray diffraction4542009-06-09
122XHB|1|DHYPOXANTHINE-CONTAINING DNACrystal structure of DNA polymerase from Thermococcus gorgonarius in complex with hypoxanthine-containing DNAX-ray diffraction2.72202010-07-21
133GTJ|1|T+ 3GTJ|1|N+ 3GTJ|1|RDNA (28-MER), DNA (5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3'), RNA (5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*AP*UP*GP*C)-3')Backtracked RNA polymerase II complex with 13mer RNAX-ray diffraction3.42542009-06-09
142E2H|1|T+ 2E2H|1|N+ 2E2H|1|R28-MER DNA template strand, 5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3', 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3'RNA polymerase II elongation complex at 5 mM Mg2+ with GTPX-ray diffraction3.95522006-12-12
152NVX|1|T+ 2NVX|1|N+ 2NVX|1|R28-MER DNA template strand, 5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3', 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3'RNA polymerase II elongation complex in 5 mM Mg+2 with 2'-dUTPX-ray diffraction3.6522006-12-19
163M4O|1|T+ 3M4O|1|N+ 3M4O|1|RDNA (28-MER), DNA (5'-D(P*GP*TP*GP*GP*TP*TP*AP*TP*GP*GP*GP*TP*AP*G)-3'), RNA (5'-R(*AP*UP*GP*GP*AP*GP*AP*GP*GP*A)-3')RNA polymerase II elongation complex BX-ray diffraction3.57522010-05-12
172E2I|1|T+ 2E2I|1|N+ 2E2I|1|R28-MER DNA template strand, 5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3', 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3'RNA polymerase II elongation complex in 5 mM Mg+2 with 2'-dGTPX-ray diffraction3.41522006-12-19
183GTL|1|T+ 3GTL|1|RDNA (28-MER), RNA (5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*AP*UP*UP*C)-3')Backtracked RNA polymerase II complex with 13mer with G<>U mismatchX-ray diffraction3.38402009-06-09
193GTM|1|N+ 3GTM|1|O+ 3GTM|1|MDNA (28-MER), DNA (5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3'), RNA (5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*AP*UP*GP*C)-3')synthetic constructCo-complex of Backtracked RNA polymerase II with TFIISX-ray diffraction3.8542009-06-09
202YU9|1|T+ 2YU9|1|N+ 2YU9|1|R28-MER DNA template strand, 5'-D(*CP*TP*GP*CP*TP*TP*AP*TP*CP*GP*GP*TP*AP*G)-3', 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3'synthetic constructRNA polymerase II elongation complex in 150 mm MG+2 with UTPX-ray diffraction3.4522007-04-24
213M3Y|1|T+ 3M3Y|1|N+ 3M3Y|1|RDNA (28-MER), DNA (5'-D(*GP*TP*GP*GP*TP*TP*AP*TP*GP*GP*GP*TP*AP*G)-3'), RNA (5'-R(*AP*UP*GP*GP*AP*GP*AP*GP*GP*AP*C)-3')RNA polymerase II elongation complex CX-ray diffraction3.18532010-05-12
221R9T|1|T+ 1R9T|1|N+ 1R9T|1|RDNA nontemplate strand, DNA template strand, RNA strandRNA POLYMERASE II STRAND SEPARATED ELONGATION COMPLEX, MISMATCHED NUCLEOTIDEX-ray diffraction3.5522004-11-16
231BR3|1|B+ 1BR3|1|ADNA (10-23 DNA ENZYME), RNA (5'-R(*GP*GP*AP*CP*AP*GP*AP*UP*GP*GP*GP*AP*G)-3')CRYSTAL STRUCTURE OF AN 82-NUCLEOTIDE RNA-DNA COMPLEX FORMED BY THE 10-23 DNA ENZYMEX-ray diffraction3411999-02-23

Release history

Release0.6
Date2011-03-05

Parents

This classParent classesRelease idIntersectionAdded to this classOnly in parent

Children

This class Descendant classesRelease idIntersectionOnly in this classAdded 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.

#SViewPDBTitleMethodResolution#NTsNAKB NA annotationNAKB protein annotation
13HOS|1|H+ 3HOS|1|GCrystal structure of the mariner Mos1 paired end complex with MgX-RAY DIFFRACTION3.553enzyme,hydrolase,nuclease
23HOT|1|H+ 3HOT|1|GCrystal structure of the Mos1 mariner paired end complex with MnX-RAY DIFFRACTION3.2553enzyme,hydrolase,nuclease
31JT0|1|E+ 1JT0|1|FCrystal structure of a cooperative QacR-DNA complexX-RAY DIFFRACTION2.956B-form double helix,double helix,structureregulatory,transcription
43HOS|1|D+ 3HOS|1|CCrystal structure of the mariner Mos1 paired end complex with MgX-RAY DIFFRACTION3.553enzyme,hydrolase,nuclease
53HOT|1|D+ 3HOT|1|CCrystal structure of the Mos1 mariner paired end complex with MnX-RAY DIFFRACTION3.2553enzyme,hydrolase,nuclease
63HOT|1|F+ 3HOT|1|ECrystal structure of the Mos1 mariner paired end complex with MnX-RAY DIFFRACTION3.2553enzyme,hydrolase,nuclease
73HOS|1|F+ 3HOS|1|ECrystal structure of the mariner Mos1 paired end complex with MgX-RAY DIFFRACTION3.553enzyme,hydrolase,nuclease
81X9N|1|D+ 1X9N|1|C+ 1X9N|1|BCrystal Structure of Human DNA Ligase I bound to 5'-adenylated, nicked DNAX-RAY DIFFRACTION340B-form double helix,double helix,structureenzyme,ligase
92XHB|1|DCrystal structure of DNA polymerase from Thermococcus gorgonarius in complex with hypoxanthine-containing DNAX-RAY DIFFRACTION2.7220enzyme,polymerase,transferase
103GTP|1|T+ 3GTP|1|R+ 3GTP|1|NBacktracked RNA polymerase II complex with 24mer RNAX-RAY DIFFRACTION3.955enzyme,polymerase,transferase
113GTL|1|T+ 3GTL|1|RBacktracked RNA polymerase II complex with 13mer with G<>U mismatchX-RAY DIFFRACTION3.3840enzyme,polymerase,transferase
121R9T|1|T+ 1R9T|1|N+ 1R9T|1|RRNA POLYMERASE II STRAND SEPARATED ELONGATION COMPLEX, MISMATCHED NUCLEOTIDEX-RAY DIFFRACTION3.552enzyme,polymerase,transferase
132NVX|1|T+ 2NVX|1|N+ 2NVX|1|RRNA polymerase II elongation complex in 5 mM Mg+2 with 2'-dUTPX-RAY DIFFRACTION3.652enzyme,polymerase,transferase
142E2I|1|T+ 2E2I|1|N+ 2E2I|1|RRNA polymerase II elongation complex in 5 mM Mg+2 with 2'-dGTPX-RAY DIFFRACTION3.4152enzyme,polymerase,transferase
152YU9|1|T+ 2YU9|1|N+ 2YU9|1|RRNA polymerase II elongation complex in 150 mm MG+2 with UTPX-RAY DIFFRACTION3.452enzyme,polymerase,transferase
162NVQ|1|T+ 2NVQ|1|N+ 2NVQ|1|RRNA Polymerase II Elongation Complex in 150 mM Mg+2 with 2'dUTPX-RAY DIFFRACTION2.952enzyme,polymerase,transferase
172E2H|1|T+ 2E2H|1|N+ 2E2H|1|RRNA polymerase II elongation complex at 5 mM Mg2+ with GTPX-RAY DIFFRACTION3.9552enzyme,polymerase,transferase
183GTJ|1|T+ 3GTJ|1|N+ 3GTJ|1|RBacktracked RNA polymerase II complex with 13mer RNAX-RAY DIFFRACTION3.4254enzyme,polymerase,transferase
193GTM|1|N+ 3GTM|1|O+ 3GTM|1|MCo-complex of Backtracked RNA polymerase II with TFIISX-RAY DIFFRACTION3.854enzyme,polymerase,regulatory,transcription,transferase
203M3Y|1|T+ 3M3Y|1|N+ 3M3Y|1|RRNA polymerase II elongation complex CX-RAY DIFFRACTION3.1853enzyme,polymerase,transferase
213M4O|1|T+ 3M4O|1|N+ 3M4O|1|RRNA polymerase II elongation complex BX-RAY DIFFRACTION3.5752enzyme,polymerase,transferase
221BR3|1|B+ 1BR3|1|ACRYSTAL STRUCTURE OF AN 82-NUCLEOTIDE RNA-DNA COMPLEX FORMED BY THE 10-23 DNA ENZYMEX-RAY DIFFRACTION341Holliday junction,structure
233GTO|1|T+ 3GTO|1|R+ 3GTO|1|NBacktracked RNA polymerase II complex with 15mer RNAX-RAY DIFFRACTION454enzyme,polymerase,transferase

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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