Equivalence class DNA_4.0_39341.1 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 3KK2|1|T+ 3KK2|1|P (rep) | 5'-D(*A*TP*GP*GP*TP*GP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3', 5'-D(*AP*CP*A*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*CP*GP*CP*CP*(DOC))-3' | HIV-1 reverse transcriptase-DNA complex with dATP bound in the nucleotide binding site | X-ray diffraction | 2.9 | 2010-03-23 | ||||
| 2 | 3JYT|1|T+ 3JYT|1|P | DNA (5'-D(*A*TP*GP*GP*TP*CP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3'), DNA (5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(DDG))-3') | synthetic construct | K65R mutant HIV-1 reverse transcriptase cross-linked to DS-DNA and complexed with DATP as the incoming nucleotide substrate | X-ray diffraction | 3.3 | 2009-10-06 | |||
| 3 | 3JSM|1|T+ 3JSM|1|P | DNA (5'-D(*A*TP*GP*GP*TP*CP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3'), DNA (5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(DDG))-3') | K65R mutant HIV-1 reverse transcriptase cross-linked to DS-DNA and complexed with tenofovir-diphosphate as the incoming nucleotide substrate | X-ray diffraction | 3 | 2009-09-29 | ||||
| 4 | 3KK1|1|T+ 3KK1|1|P | 5'-D(*A*TP*GP*GP*TP*GP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3', 5'-D(*AP*CP*A*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*CP*GP*CP*CP*(DOC))-3' | HIV-1 reverse transcriptase-DNA complex with nuceotide inhibitor GS-9148-diphosphate bound in nucleotide site | X-ray diffraction | 2.7 | 2010-03-23 | ||||
| 5 | 3KK3|1|T+ 3KK3|1|P | 5'-D(*AP*TP*GP*GP*TP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3', 5'-D(*AP*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*CP*GP*CP*C*(URT))-3' | HIV-1 reverse transcriptase-DNA complex with GS-9148 terminated primer | X-ray diffraction | 2.9 | 2010-03-23 | ||||
| 6 | 3KLH|1|E+ 3KLH|1|F | DNA (5'-D(*AP*T*GP*CP*TP*AP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3'), DNA (5'-D(*AP*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(ATM))-3') | Crystal structure of AZT-Resistant HIV-1 Reverse Transcriptase crosslinked to post-translocation AZTMP-Terminated DNA (COMPLEX P) | X-ray diffraction | 2.9 | 2010-09-22 | ||||
| 7 | 1N5Y|1|T+ 1N5Y|1|P | 5'-D(*AP*TP*GP*C*TP*AP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3', 5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(ATM))-3' | HIV-1 Reverse Transcriptase Crosslinked to Post-Translocation AZTMP-Terminated DNA (Complex P) | X-ray diffraction | 3.1 | 2003-01-28 | ||||
| 8 | 1N6Q|1|T+ 1N6Q|1|P | 5'-D(*AP*T*GP*CP*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3', 5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*AP*(ATM))-3' | HIV-1 Reverse Transcriptase Crosslinked to pre-translocation AZTMP-terminated DNA (complex N) | X-ray diffraction | 3 | 2003-01-14 | ||||
| 9 | 1T03|1|T+ 1T03|1|P | Synthetic oligonucleotide template, Synthetic oligonucleotide primer | HIV-1 reverse transcriptase crosslinked to tenofovir terminated template-primer (complex P) | X-ray diffraction | 3.1 | 2004-05-11 | ||||
| 10 | 3KLF|1|C+ 3KLF|1|D | DNA (5'-D(*AP*T*GP*CP*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3'), DNA (5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(2DA))-3') | Crystal structure of wild-type HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-ray diffraction | 3.15 | 2010-09-22 | ||||
| 11 | 3KLF|1|G+ 3KLF|1|H | DNA (5'-D(*AP*T*GP*CP*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3'), DNA (5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(2DA))-3') | Crystal structure of wild-type HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-ray diffraction | 3.15 | 2010-09-22 | ||||
| 12 | 3KLF|1|K+ 3KLF|1|L | DNA (5'-D(*AP*T*GP*CP*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3'), DNA (5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(2DA))-3') | Crystal structure of wild-type HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-ray diffraction | 3.15 | 2010-09-22 | ||||
| 13 | 3KLF|1|O+ 3KLF|1|P | DNA (5'-D(*AP*T*GP*CP*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3'), DNA (5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(2DA))-3') | Crystal structure of wild-type HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-ray diffraction | 3.15 | 2010-09-22 | ||||
| 14 | 1T05|1|T+ 1T05|1|P | oligonucleotide template, oligonucleotide primer | HIV-1 reverse transcriptase crosslinked to template-primer with tenofovir-diphosphate bound as the incoming nucleotide substrate | X-ray diffraction | 3 | 2004-05-11 | ||||
| 15 | 3KJV|1|T+ 3KJV|1|P | 5'-D(*AP*TP*GP*GP*TP*GP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3', 5'-D(*AP*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*GP*CP*GP*CP*CP*(DOC))-3' | HIV-1 reverse transcriptase in complex with DNA | X-ray diffraction | 3.1 | 2010-03-23 | ||||
| 16 | 3KLE|1|C+ 3KLE|1|D | DNA (25-MER), DNA (5'-D(*AP*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(2DA))-3') | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-ray diffraction | 3.2 | 2010-09-22 | ||||
| 17 | 3KLE|1|G+ 3KLE|1|H | DNA (25-MER), DNA (5'-D(*AP*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(2DA))-3') | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-ray diffraction | 3.2 | 2010-09-22 | ||||
| 18 | 3KLE|1|K+ 3KLE|1|L | DNA (25-MER), DNA (5'-D(*AP*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(2DA))-3') | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-ray diffraction | 3.2 | 2010-09-22 | ||||
| 19 | 3KLE|1|O+ 3KLE|1|P | DNA (25-MER), DNA (5'-D(*AP*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*(2DA))-3') | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-ray diffraction | 3.2 | 2010-09-22 | ||||
| 20 | 3KLG|1|C+ 3KLG|1|D | DNA (5'-D(*AP*T*GP*CP*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3'), DNA (5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*AP*(ATM))-3') | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to pre-translocation AZTMP-Terminated DNA (COMPLEX N) | X-ray diffraction | 3.65 | 2010-09-22 | ||||
| 21 | 3KLG|1|G+ 3KLG|1|H | DNA (5'-D(*AP*T*GP*CP*AP*TP*GP*GP*CP*GP*CP*CP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*TP*GP*TP*G)-3'), DNA (5'-D(*A*CP*AP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*GP*(MRG)P*CP*GP*CP*CP*AP*(ATM))-3') | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to pre-translocation AZTMP-Terminated DNA (COMPLEX N) | X-ray diffraction | 3.65 | 2010-09-22 | ||||
| 22 | 1R0A|1|T+ 1R0A|1|P | 5'-D(*A*TP*GP*CP*AP*TP*CP*GP*GP*CP*GP*CP*TP*CP*GP*AP*AP*CP*AP*GP*GP*GP*AP*CP*GP*GP*T)-3', 5'-D(*C*CP*GP*TP*CP*CP*CP*TP*GP*TP*TP*CP*GP*AP*GP*CP*GP*CP*CP*GP*(2DA))-3' | Crystal structure of HIV-1 reverse transcriptase covalently tethered to DNA template-primer solved to 2.8 angstroms | X-ray diffraction | 2.8 | 2004-08-03 | ||||
| 23 | 1RTD|1|E+ 1RTD|1|F | DNA TEMPLATE FOR REVERSE TRANSCRIPTASE, DNA PRIMER FOR REVERSE TRANSCRIPTASE | STRUCTURE OF A CATALYTIC COMPLEX OF HIV-1 REVERSE TRANSCRIPTASE: IMPLICATIONS FOR NUCLEOSIDE ANALOG DRUG RESISTANCE | X-ray diffraction | 3.2 | 1998-12-09 | ||||
| 24 | 1RTD|1|G+ 1RTD|1|H | DNA TEMPLATE FOR REVERSE TRANSCRIPTASE, DNA PRIMER FOR REVERSE TRANSCRIPTASE | STRUCTURE OF A CATALYTIC COMPLEX OF HIV-1 REVERSE TRANSCRIPTASE: IMPLICATIONS FOR NUCLEOSIDE ANALOG DRUG RESISTANCE | X-ray diffraction | 3.2 | 1998-12-09 |
Release history
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
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Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
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Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5
#S - ordering by similarity (same as in the heat map).| #S | PDB | Title | Method | Resolution | Length | NAKB_NA_annotation | NAKB_protein_annotation |
|---|---|---|---|---|---|---|---|
| 1 | 1R0A|1|T+1R0A|1|P | Crystal structure of HIV-1 reverse transcriptase covalently tethered to DNA template-primer solved to 2.8 angstroms | X-RAY DIFFRACTION | 2.8 | 27 | double helix,structure | antibody,enzyme,immune system,polymerase,regulatory,transferase |
| 2 | 1N5Y|1|T+1N5Y|1|P | HIV-1 Reverse Transcriptase Crosslinked to Post-Translocation AZTMP-Terminated DNA (Complex P) | X-RAY DIFFRACTION | 3.1 | 27 | double helix,structure | antibody,enzyme,immune system,polymerase,regulatory,transferase |
| 3 | 3KLH|1|E+3KLH|1|F | Crystal structure of AZT-Resistant HIV-1 Reverse Transcriptase crosslinked to post-translocation AZTMP-Terminated DNA (COMPLEX P) | X-RAY DIFFRACTION | 2.9 | 27 | double helix,structure | antibody,enzyme,immune system,polymerase,regulatory,transferase |
| 4 | 1T03|1|T+1T03|1|P | HIV-1 reverse transcriptase crosslinked to tenofovir terminated template-primer (complex P) | X-RAY DIFFRACTION | 3.1 | 27 | double helix,structure | antibody,enzyme,immune system,polymerase,regulatory,transferase |
| 5 | 1N6Q|1|T+1N6Q|1|P | HIV-1 Reverse Transcriptase Crosslinked to pre-translocation AZTMP-terminated DNA (complex N) | X-RAY DIFFRACTION | 3 | 27 | double helix,structure | antibody,enzyme,immune system,polymerase,regulatory,transferase |
| 6 | 3KLF|1|K+3KLF|1|L | Crystal structure of wild-type HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-RAY DIFFRACTION | 3.15 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 7 | 3KLF|1|O+3KLF|1|P | Crystal structure of wild-type HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-RAY DIFFRACTION | 3.15 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 8 | 3KLF|1|C+3KLF|1|D | Crystal structure of wild-type HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-RAY DIFFRACTION | 3.15 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 9 | 3KLF|1|G+3KLF|1|H | Crystal structure of wild-type HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-RAY DIFFRACTION | 3.15 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 10 | 3KLG|1|G+3KLG|1|H | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to pre-translocation AZTMP-Terminated DNA (COMPLEX N) | X-RAY DIFFRACTION | 3.65 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 11 | 3KLG|1|C+3KLG|1|D | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to pre-translocation AZTMP-Terminated DNA (COMPLEX N) | X-RAY DIFFRACTION | 3.65 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 12 | 1RTD|1|G+1RTD|1|H | STRUCTURE OF A CATALYTIC COMPLEX OF HIV-1 REVERSE TRANSCRIPTASE: IMPLICATIONS FOR NUCLEOSIDE ANALOG DRUG RESISTANCE | X-RAY DIFFRACTION | 3.2 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 13 | 1RTD|1|E+1RTD|1|F | STRUCTURE OF A CATALYTIC COMPLEX OF HIV-1 REVERSE TRANSCRIPTASE: IMPLICATIONS FOR NUCLEOSIDE ANALOG DRUG RESISTANCE | X-RAY DIFFRACTION | 3.2 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 14 | 3KLE|1|C+3KLE|1|D | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-RAY DIFFRACTION | 3.2 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 15 | 3KLE|1|G+3KLE|1|H | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-RAY DIFFRACTION | 3.2 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 16 | 3KLE|1|K+3KLE|1|L | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-RAY DIFFRACTION | 3.2 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 17 | 3KLE|1|O+3KLE|1|P | Crystal structure of AZT-resistant HIV-1 Reverse Transcriptase crosslinked to a DSDNA with a bound excision product, AZTPPPPA | X-RAY DIFFRACTION | 3.2 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 18 | 3JYT|1|T+3JYT|1|P | K65R mutant HIV-1 reverse transcriptase cross-linked to DS-DNA and complexed with DATP as the incoming nucleotide substrate | X-RAY DIFFRACTION | 3.3 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 19 | 3JSM|1|T+3JSM|1|P | K65R mutant HIV-1 reverse transcriptase cross-linked to DS-DNA and complexed with tenofovir-diphosphate as the incoming nucleotide substrate | X-RAY DIFFRACTION | 3 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 20 | 1T05|1|T+1T05|1|P | HIV-1 reverse transcriptase crosslinked to template-primer with tenofovir-diphosphate bound as the incoming nucleotide substrate | X-RAY DIFFRACTION | 3 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 21 | 3KK3|1|T+3KK3|1|P | HIV-1 reverse transcriptase-DNA complex with GS-9148 terminated primer | X-RAY DIFFRACTION | 2.9 | 27 | enzyme,polymerase,transferase | |
| 22 | 3KK2|1|T+3KK2|1|P | HIV-1 reverse transcriptase-DNA complex with dATP bound in the nucleotide binding site | X-RAY DIFFRACTION | 2.9 | 27 | double helix,structure | enzyme,polymerase,transferase |
| 23 | 3KK1|1|T+3KK1|1|P | HIV-1 reverse transcriptase-DNA complex with nuceotide inhibitor GS-9148-diphosphate bound in nucleotide site | X-RAY DIFFRACTION | 2.7 | 27 | enzyme,polymerase,transferase | |
| 24 | 3KJV|1|T+3KJV|1|P | HIV-1 reverse transcriptase in complex with DNA | X-RAY DIFFRACTION | 3.1 | 27 | double helix,structure | enzyme,polymerase,transferase |
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