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Equivalence class DNA_20.0_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
202NVZ|1|T+ 2NVZ|1|R28-MER DNA template strand, 5'-R(*AP*UP*CP*GP*AP*GP*AP*GP*GP*A)-3'synthetic constructRNA Polymerase II elongation complex with UTP, updated 11/2006X-ray diffraction4.3382006-12-19
212YU9|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
223M3Y|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
231R9T|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
241BR3|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

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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
11BR3|1|B+ 1BR3|1|ACRYSTAL STRUCTURE OF AN 82-NUCLEOTIDE RNA-DNA COMPLEX FORMED BY THE 10-23 DNA ENZYMEX-RAY DIFFRACTION341Holliday junction,structure
21R9T|1|T+ 1R9T|1|N+ 1R9T|1|RRNA POLYMERASE II STRAND SEPARATED ELONGATION COMPLEX, MISMATCHED NUCLEOTIDEX-RAY DIFFRACTION3.552enzyme,polymerase,transferase
32NVX|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
42E2I|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
52YU9|1|T+ 2YU9|1|N+ 2YU9|1|RRNA polymerase II elongation complex in 150 mm MG+2 with UTPX-RAY DIFFRACTION3.452enzyme,polymerase,transferase
62NVQ|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
72NVZ|1|T+ 2NVZ|1|RRNA Polymerase II elongation complex with UTP, updated 11/2006X-RAY DIFFRACTION4.338enzyme,polymerase,transferase
82E2H|1|T+ 2E2H|1|N+ 2E2H|1|RRNA polymerase II elongation complex at 5 mM Mg2+ with GTPX-RAY DIFFRACTION3.9552enzyme,polymerase,transferase
93GTM|1|N+ 3GTM|1|O+ 3GTM|1|MCo-complex of Backtracked RNA polymerase II with TFIISX-RAY DIFFRACTION3.854enzyme,polymerase,regulatory,transcription,transferase
103GTJ|1|T+ 3GTJ|1|N+ 3GTJ|1|RBacktracked RNA polymerase II complex with 13mer RNAX-RAY DIFFRACTION3.4254enzyme,polymerase,transferase
113GTO|1|T+ 3GTO|1|R+ 3GTO|1|NBacktracked RNA polymerase II complex with 15mer RNAX-RAY DIFFRACTION454enzyme,polymerase,transferase
123GTP|1|T+ 3GTP|1|R+ 3GTP|1|NBacktracked RNA polymerase II complex with 24mer RNAX-RAY DIFFRACTION3.955enzyme,polymerase,transferase
133M3Y|1|T+ 3M3Y|1|N+ 3M3Y|1|RRNA polymerase II elongation complex CX-RAY DIFFRACTION3.1853enzyme,polymerase,transferase
143HOS|1|H+ 3HOS|1|GCrystal structure of the mariner Mos1 paired end complex with MgX-RAY DIFFRACTION3.553enzyme,hydrolase,nuclease
153HOT|1|H+ 3HOT|1|GCrystal structure of the Mos1 mariner paired end complex with MnX-RAY DIFFRACTION3.2553enzyme,hydrolase,nuclease
161JT0|1|E+ 1JT0|1|FCrystal structure of a cooperative QacR-DNA complexX-RAY DIFFRACTION2.956B-form double helix,double helix,structureregulatory,transcription
173HOS|1|D+ 3HOS|1|CCrystal structure of the mariner Mos1 paired end complex with MgX-RAY DIFFRACTION3.553enzyme,hydrolase,nuclease
183HOT|1|D+ 3HOT|1|CCrystal structure of the Mos1 mariner paired end complex with MnX-RAY DIFFRACTION3.2553enzyme,hydrolase,nuclease
193HOT|1|F+ 3HOT|1|ECrystal structure of the Mos1 mariner paired end complex with MnX-RAY DIFFRACTION3.2553enzyme,hydrolase,nuclease
203HOS|1|F+ 3HOS|1|ECrystal structure of the mariner Mos1 paired end complex with MgX-RAY DIFFRACTION3.553enzyme,hydrolase,nuclease
211X9N|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
222XHB|1|DCrystal structure of DNA polymerase from Thermococcus gorgonarius in complex with hypoxanthine-containing DNAX-RAY DIFFRACTION2.7220enzyme,polymerase,transferase
233M4O|1|T+ 3M4O|1|N+ 3M4O|1|RRNA polymerase II elongation complex BX-RAY DIFFRACTION3.5752enzyme,polymerase,transferase
243GTL|1|T+ 3GTL|1|RBacktracked RNA polymerase II complex with 13mer with G<>U mismatchX-RAY DIFFRACTION3.3840enzyme,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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