BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy15450
(659 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B3O|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 37.0 bits (84), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 301 LQALKYVSSIKENEVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVR 360
LQA+ EV I+TDS+ L ++ ++ + + S L+ I + L ++ V
Sbjct: 479 LQAIHLALQDSGLEVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VY 532
Query: 361 FIWVRGHAGIAGNEAVDRLAKETAR 385
WV H GI GNE VD+L R
Sbjct: 533 LAWVPAHKGIGGNEQVDKLVSAGIR 557
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 36.6 bits (83), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|2VG5|A Chain A, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG6|A Chain A, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
pdb|2VG7|A Chain A, Crystal Structures Of Hiv-1 Reverse Transcriptase
Complexes With Thiocarbamate Non-Nucleoside Inhibitors
Length = 557
Score = 36.6 bits (83), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1N5Y|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Post-
Translocation Aztmp-Terminated Dna (Complex P)
pdb|1N6Q|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Pre-
Translocation Aztmp-Terminated Dna (Complex N)
pdb|1T03|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Tenofovir
Terminated Template-Primer (Complex P)
pdb|1T05|A Chain A, Hiv-1 Reverse Transcriptase Crosslinked To Template-Primer
With Tenofovir-Diphosphate Bound As The Incoming
Nucleotide Substrate
pdb|1R0A|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
Length = 558
Score = 36.6 bits (83), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|3KLH|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
Length = 564
Score = 36.6 bits (83), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 494 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 547
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 548 EQVDKLVSAGIR 559
>pdb|3KLE|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|E Chain E, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|I Chain I, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|M Chain M, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLG|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLG|E Chain E, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLI|A Chain A, Crystal Structure Of Unliganded Azt-Resistant Hiv-1
Reverse Transcriptase
Length = 562
Score = 36.6 bits (83), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 494 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 547
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 548 EQVDKLVSAGIR 559
>pdb|3JSM|A Chain A, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds-Dna And Complexed With Tenofovir-Diphosphate As The
Incoming Nucleotide Substrate
pdb|3JYT|A Chain A, K65r Mutant Hiv-1 Reverse Transcriptase Cross-Linked To
Ds- Dna And Complexed With Datp As The Incoming
Nucleotide Substrate
Length = 558
Score = 36.6 bits (83), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|2IAJ|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Atp
pdb|2IC3|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Nonnucleoside
Inhibitor Hby 097
Length = 560
Score = 36.6 bits (83), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1HPZ|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1HQE|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1HQU|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1SV5|A Chain A, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase (Rt) In Complex With Janssen-R165335
Length = 560
Score = 36.6 bits (83), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1IKV|A Chain A, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
Efivarenz
pdb|1IKX|A Chain A, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
The Inhibitor Pnu142721
pdb|1IKY|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc194
Length = 560
Score = 36.6 bits (83), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1S6P|A Chain A, Crystal Structure Of Human Immunodeficiency Virus Type 1
Reverse Transcriptase (Rt) In Complex With
Janssen-R100943
pdb|1S6Q|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R147681
pdb|1S9E|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R129385
pdb|1S9G|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R120394.
pdb|1SUQ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R185545
pdb|2B6A|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Thr-50
pdb|2B5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R165481
pdb|2BAN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Janssen-R157208
pdb|2BE2|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With R221239
Length = 560
Score = 36.6 bits (83), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1HNI|A Chain A, Structure Of Hiv-1 Reverse Transcriptase In A Complex With
The Nonnucleoside Inhibitor Alpha-Apa R 95845 At 2.8
Angstroms Resolution
pdb|1HNV|A Chain A, Structure Of Hiv-1 Rt(Slash)tibo R 86183 Complex Reveals
Similarity In The Binding Of Diverse Nonnucleoside
Inhibitors
pdb|1TVR|A Chain A, Hiv-1 Rt9-Cl Tibo
pdb|2HMI|A Chain A, Hiv-1 Reverse TranscriptaseFRAGMENT OF FAB 28DNA COMPLEX
Length = 558
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1HMV|A Chain A, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1TV6|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Cp-94,707
pdb|1HMV|C Chain C, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|E Chain E, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
pdb|1HMV|G Chain G, The Structure Of Unliganded Reverse Transcriptase From The
Human Immunodeficiency Virus Type 1
Length = 560
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 495 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 548
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 549 EQVDKLVSAGIR 560
>pdb|1QE1|A Chain A, Crystal Structure Of 3tc-Resistant M184i Mutant Of Hiv-1
Reverse Transcriptase
pdb|1J5O|A Chain A, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
Length = 558
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|2RF2|A Chain A, Hiv Reverse Transcriptase In Complex With Inhibitor 7e
(Nnrti)
pdb|3C6T|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 14
pdb|3C6U|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 22
pdb|3DRP|A Chain A, Hiv Reverse Transcriptase In Complex With Inhibitor R8e
pdb|3I0R|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 3
pdb|3I0S|A Chain A, Crystal Structure Of Hiv Reverse Transcriptase In Complex
With Inhibitor 7
pdb|3T19|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Wild
Type) In Complex With Inhibitor M05
pdb|3T19|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Wild
Type) In Complex With Inhibitor M05
pdb|2YNG|A Chain A, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk560
pdb|2YNH|A Chain A, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk500
pdb|2YNI|A Chain A, Hiv-1 Reverse Transcriptase Mutant In Complex With
Inhibitor Gsk952
Length = 563
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 495 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 548
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 549 EQVDKLVSAGIR 560
>pdb|1IKW|A Chain A, Wild Type Hiv-1 Reverse Transcriptase In Complex With
Efavirenz
pdb|3ISN|C Chain C, Crystal Structure Of Hiv-1 Rt Bound To A 6-Vinylpyrimidine
Inhibitor
pdb|3ITH|A Chain A, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
pdb|3ITH|C Chain C, Crystal Structure Of The Hiv-1 Reverse Transcriptase Bound
To A 6-Vinylpyrimidine Inhibitor
Length = 560
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|2RKI|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Triazole Derived Nnrti
pdb|3LAK|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Heterocycle Pyrimidinedione
Non-Nucleoside Inhibitor
pdb|3LAK|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Heterocycle Pyrimidinedione
Non-Nucleoside Inhibitor
pdb|3LAL|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Ethyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAL|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Ethyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Propyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAM|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Propyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Butyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3LAN|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With N1-Butyl Pyrimidinedione Non-Nucleoside
Inhibitor
pdb|3MEC|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Tmc125
pdb|3MEE|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Tmc278
pdb|2WON|A Chain A, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (Wild-Type).
pdb|3QIP|A Chain A, Structure Of Hiv-1 Reverse Transcriptase In Complex With
An Rnase H Inhibitor And Nevirapine
pdb|4I7F|A Chain A, Hiv-1 Reverse Transcriptase In Complex With A Phosphonate
Analog Of Nevirapine
Length = 560
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|2JLE|A Chain A, Novel Indazole Nnrtis Created Using Molecular Template
Hybridization Based On Crystallographic Overlays
pdb|2JLE|B Chain B, Novel Indazole Nnrtis Created Using Molecular Template
Hybridization Based On Crystallographic Overlays
Length = 566
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1LW0|A Chain A, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1LW2|A Chain A, Crystal Structure Of T215y Mutant Hiv-1 Reverse
Transcriptase In Complex With 1051u91
Length = 560
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 493 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 546
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 547 EQVDKLVSAGIR 558
>pdb|3MED|A Chain A, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc125
pdb|3MEG|A Chain A, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc278
pdb|2WOM|A Chain A, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (K103n)
Length = 560
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|3DRS|A Chain A, Hiv Reverse Transcriptase K103n Mutant In Complex With
Inhibitor R8d
pdb|3LP0|A Chain A, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP1|A Chain A, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP2|A Chain A, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3T1A|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M05
pdb|3T1A|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M05
pdb|3TAM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M06
Length = 563
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 495 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 548
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 549 EQVDKLVSAGIR 560
>pdb|3DI6|A Chain A, Hiv-1 Rt With Pyridazinone Non-Nucleoside Inhibitor
pdb|3DYA|A Chain A, Hiv-1 Rt With Non-Nucleoside Inhibitor Annulated Pyrazole
1
pdb|3E01|A Chain A, Hiv-Rt With Non-Nucleoside Inhibitor Annulated Pyrazole 2
pdb|3M8P|A Chain A, Hiv-1 Rt With Nnrti Tmc-125
pdb|3M8Q|A Chain A, Hiv-1 Rt With Aminopyrimidine Nnrti
pdb|3NBP|A Chain A, Hiv-1 Reverse Transcriptase With Aminopyrimidine Inhibitor
2
Length = 561
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|3DM2|A Chain A, Crystal Structure Of Hiv-1 K103n Mutant Reverse
Transcriptase In Complex With Gw564511.
pdb|3DOK|A Chain A, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw678248
Length = 560
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1REV|A Chain A, Hiv-1 Reverse Transcriptase
pdb|1RT2|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Tnk-651
pdb|1RT1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase Complexed
With Mkc-442
pdb|1KLM|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Bhap U-90152
pdb|1RT4|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc781
pdb|1RT5|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc10
pdb|1RT6|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc38
pdb|1RT7|A Chain A, Hiv-1 Reverse Transcriptase Complexed With Uc84
pdb|1DTT|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-2 (Pett130a94)
pdb|1DTQ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Pett-1 (Pett131a94)
pdb|1C1B|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gca-186
pdb|1C1C|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Tnk-6123
pdb|1C0T|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+21.1326
pdb|1C0U|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Bm+50.0934
pdb|1EP4|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With S-1153
pdb|1JLQ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With 739w94
pdb|1TKT|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw426318
pdb|1TKX|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw490745
pdb|1TKZ|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw429576
pdb|1TL1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw451211
pdb|1TL3|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw450557
pdb|3DLE|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gf128590.
pdb|3DLG|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw564511.
pdb|1RTJ|A Chain A, Mechanism Of Inhibition Of Hiv-1 Reverse Transcriptase By
Non-Nucleoside Inhibitors
pdb|1RTI|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1VRT|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1RTH|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
pdb|1VRU|A Chain A, High Resolution Structures Of Hiv-1 Rt From Four Rt-
Inhibitor Complexes
Length = 560
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1S1W|A Chain A, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|3KJV|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Dna
pdb|3KK1|A Chain A, Hiv-1 Reverse Transcriptase-Dna Complex With Nuceotide
Inhibitor Gs- 9148-Diphosphate Bound In Nucleotide Site
pdb|3KK2|A Chain A, Hiv-1 Reverse Transcriptase-Dna Complex With Datp Bound In
The Nucleotide Binding Site
pdb|3KK3|A Chain A, Hiv-1 Reverse Transcriptase-Dna Complex With Gs-9148
Terminated Primer
Length = 560
Score = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1LWF|A Chain A, Crystal Structure Of A Mutant Hiv-1 Reverse Transcriptase
(rtmq+m184v: M41l/d67n/k70r/m184v/t215y) In Complex With
Nevirapine
Length = 560
Score = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1LWC|A Chain A, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 495 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 548
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 549 EQVDKLVSAGIR 560
>pdb|1S1X|A Chain A, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|3DMJ|A Chain A, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 560
Score = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1S1T|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
pdb|1S1U|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1S1V|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
pdb|3DOL|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw695634
Length = 560
Score = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1JLE|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase
pdb|1JLG|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 36.6 bits (83), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1JKH|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1JLA|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Tnk-651
pdb|1JLB|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|1JLC|A Chain A, Crystal Structure Of Y181c Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 560
Score = 36.6 bits (83), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1JLF|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 36.6 bits (83), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|2YKM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
Length = 562
Score = 36.6 bits (83), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 36.2 bits (82), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 546 EQVDKLV 552
>pdb|2YKN|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
Length = 562
Score = 36.2 bits (82), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
E VD+L R
Sbjct: 546 EQVDKLVSAGIR 557
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 36.2 bits (82), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 546 EQVDKLV 552
>pdb|2I5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 552
Score = 36.2 bits (82), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 546 EQVDKLV 552
>pdb|3KLF|A Chain A, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|E Chain E, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|I Chain I, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|M Chain M, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
Length = 557
Score = 36.2 bits (82), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 494 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 547
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 548 EQVDKLV 554
>pdb|1HVU|A Chain A, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|D Chain D, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|G Chain G, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
pdb|1HVU|J Chain J, Human Immunodeficiency Virus Type 1 Reverse Transcriptase
Complexed With A 33-Base Nucleotide Rna Pseudoknot
Length = 554
Score = 36.2 bits (82), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 546 EQVDKLV 552
>pdb|3QLH|A Chain A, Hiv-1 Reverse Transcriptase In Complex With Manicol At The
Rnase H Active Site And Tmc278 (rilpivirine) At The
Nnrti Binding Pocket
Length = 555
Score = 36.2 bits (82), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 493 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 546
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 547 EQVDKLV 553
>pdb|3QO9|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tsao-T, A Non-Nucleoside Rt Inhibitor
(Nnrti)
Length = 557
Score = 36.2 bits (82), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 494 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 547
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 548 EQVDKLV 554
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 36.2 bits (82), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 546 EQVDKLV 552
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 36.2 bits (82), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 493 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 546
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 547 EQVDKLV 553
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 36.2 bits (82), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 546 EQVDKLV 552
>pdb|2ZD1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tmc278 (Rilpivirine), A Non-Nucleoside Rt
Inhibitor
pdb|4H4M|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With (E)-
3-(3-Chloro-5-(4-Chloro-2-(2-(2,4-Dioxo-3,4-
Dihydropyrimidin-1(2h)-
Yl)ethoxy)phenoxy)phenyl)acrylonitrile (Jlj494), A
Non-Nucleoside Inhibitor
pdb|4H4O|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With
(E)-3-(3-(2-(2-(2,4-Dioxo-3,
4-Dihydropyrimidin-1(2h)-Yl)ethoxy)- 4-
Fluorophenoxy)-5-Fluorophenyl)acrylonitrile (Jlj506), A
Non- Nucleoside Inhibitor
pdb|4I2P|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Rilpivirine (tmc278) Based Analogue
pdb|4G1Q|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (rt) In
Complex With Rilpivirine (tmc278, Edurant), A
Non-nucleoside Rt-inhibiting Drug
pdb|4I7G|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At Nnrti
Adjacent Site
pdb|4ICL|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Incoming Dntp Binding Site
pdb|4ID5|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Rnase H Primer Grip Site
pdb|4IDK|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The 428
Site
pdb|4IFV|A Chain A, Detecting Allosteric Sites Of Hiv-1 Reverse Transcriptase
By X-ray Crystallographic Fragment Screening
pdb|4IFY|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Knuckles Site
pdb|4IG0|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment At The 507
Site
pdb|4IG3|A Chain A, Hiv-1 Reverse Transcriptase With Bound Fragment Near
Knuckles Site
Length = 557
Score = 36.2 bits (82), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 494 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 547
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 548 EQVDKLV 554
>pdb|3BGR|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
pdb|4I2Q|A Chain A, Crystal Structure Of K103n/y181c Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Rilpivirine (tmc278)
Analogue
Length = 557
Score = 36.2 bits (82), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 494 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 547
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 548 EQVDKLV 554
>pdb|2ZE2|A Chain A, Crystal Structure Of L100iK103N MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
Length = 557
Score = 36.2 bits (82), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 494 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 547
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 548 EQVDKLV 554
>pdb|3IRX|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With The Non-Nucleoside Rt Inhibitor
(E)-S-Methyl
5-(1-(3,7-Dimethyl-2-Oxo-2,
3-Dihydrobenzo[d]oxazol-5-Yl)-5-
(5-Methyl-1,3,4-Oxadiazol-2-Yl)pent-1-Enyl)-2-Methoxy-3-
Methylbenzothioate.
pdb|3IS9|A Chain A, Crystal Structure Of The Hiv-1 Reverse Transcriptase (Rt)
In Complex With The Alkenyldiarylmethane (Adam)
Non-Nucleoside Rt Inhibitor Dimethyl
3,3'-(6-Methoxy-6-Oxohex-1-Ene-1,1-
Diyl)bis(5-Cyano-6-Methoxybenzoate)
Length = 558
Score = 36.2 bits (82), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 495 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 548
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 549 EQVDKLV 555
>pdb|1RDH|A Chain A, Crystallographic Analyses Of An Active Hiv-1 Ribonuclease
H Domain Show Structural Features That Distinguish It
From The Inactive Form
pdb|1RDH|B Chain B, Crystallographic Analyses Of An Active Hiv-1 Ribonuclease
H Domain Show Structural Features That Distinguish It
From The Inactive Form
Length = 146
Score = 36.2 bits (82), Expect = 0.059, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 301 LQALKYVSSIKENEVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVR 360
LQA+ EV I+TDS+ L ++ ++ + + S L+ I + L ++ V
Sbjct: 65 LQAIYLALQDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VY 118
Query: 361 FIWVRGHAGIAGNEAVDRLAKETAR 385
WV H GI GNE VD+L R
Sbjct: 119 LAWVPAHKGIGGNEQVDKLVSAGIR 143
>pdb|2QK9|A Chain A, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 18-Mer RnaDNA HYBRID
pdb|2QKK|A Chain A, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|B Chain B, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|E Chain E, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|F Chain F, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|I Chain I, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|J Chain J, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|M Chain M, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|N Chain N, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|R Chain R, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|S Chain S, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|W Chain W, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
Length = 154
Score = 36.2 bits (82), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 50/95 (52%), Gaps = 9/95 (9%)
Query: 302 QALKYVSSIKENEVIIITDSKSCLEKL--------KNTSKSNGNPSHLILDIFKALSHLQ 353
+A++ + N++++ T+S + + KN K++ + + F AL L
Sbjct: 60 KAIEQAKTQNINKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLT 119
Query: 354 EWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTD 388
+ + ++++ V GH+G GNE DRLA+E A+ ++
Sbjct: 120 Q-GMDIQWMHVPGHSGFIGNEEADRLAREGAKQSE 153
>pdb|1RTD|A Chain A, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
pdb|1RTD|C Chain C, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
Length = 554
Score = 36.2 bits (82), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDESESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 546 EQVDKLV 552
>pdb|3LP3|A Chain A, P15 Hiv Rnaseh Domain With Inhibitor Mk3
pdb|3LP3|B Chain B, P15 Hiv Rnaseh Domain With Inhibitor Mk3
Length = 138
Score = 36.2 bits (82), Expect = 0.068, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 301 LQALKYVSSIKENEVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVR 360
LQA+ EV I+TDS+ L ++ ++ + + S L+ I + L ++ V
Sbjct: 55 LQAIYLALQDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VY 108
Query: 361 FIWVRGHAGIAGNEAVDRLAKETAR 385
WV H GI GNE VD+L R
Sbjct: 109 LAWVPAHKGIGGNEQVDKLVSAGIR 133
>pdb|1HRH|A Chain A, Crystal Structure Of The Ribonuclease H Domain Of Hiv-1
Reverse Transcriptase
pdb|1HRH|B Chain B, Crystal Structure Of The Ribonuclease H Domain Of Hiv-1
Reverse Transcriptase
Length = 136
Score = 35.8 bits (81), Expect = 0.069, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 301 LQALKYVSSIKENEVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVR 360
LQA+ EV I+TDS+ L ++ ++ + + S L+ I + L ++ V
Sbjct: 53 LQAIYLALQDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VY 106
Query: 361 FIWVRGHAGIAGNEAVDRLAKETAR 385
WV H GI GNE VD+L R
Sbjct: 107 LAWVPAHKGIGGNEQVDKLVSAGIR 131
>pdb|3K2P|A Chain A, Hiv-1 Reverse Transcriptase Isolated Rnaseh Domain With
The Inhibitor Beta-Thujaplicinol Bound At The Active
Site
pdb|3K2P|B Chain B, Hiv-1 Reverse Transcriptase Isolated Rnaseh Domain With
The Inhibitor Beta-Thujaplicinol Bound At The Active
Site
Length = 136
Score = 35.8 bits (81), Expect = 0.069, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 301 LQALKYVSSIKENEVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVR 360
LQA+ EV I+TDS+ L ++ ++ + + S L+ I + L ++ V
Sbjct: 55 LQAIYLALQDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VY 108
Query: 361 FIWVRGHAGIAGNEAVDRLAKETAR 385
WV H GI GNE VD+L R
Sbjct: 109 LAWVPAHKGIGGNEQVDKLVSAGIR 133
>pdb|1O1W|A Chain A, Solution Structure Of The Rnase H Domain Of The Hiv-1
Reverse Transcriptase In The Presence Of Magnesium
Length = 138
Score = 35.8 bits (81), Expect = 0.074, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 301 LQALKYVSSIKENEVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVR 360
LQA+ EV I+TDS+ L ++ ++ + + S L+ I + L ++ V
Sbjct: 57 LQAIYLALQDSGLEVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VY 110
Query: 361 FIWVRGHAGIAGNEAVDRLAKETAR 385
WV H GI GNE VD+L R
Sbjct: 111 LAWVPAHKGIGGNEQVDKLVSAGIR 135
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 37/72 (51%), Gaps = 6/72 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVDRLAKETAR 385
+ VD+L R
Sbjct: 546 QQVDKLVSAGIR 557
>pdb|4B3Q|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 34.7 bits (78), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 41/85 (48%), Gaps = 6/85 (7%)
Query: 301 LQALKYVSSIKENEVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVR 360
LQA+ EV I+T+S+ L ++ ++ + + S L+ I + L ++ V
Sbjct: 479 LQAIHLALQDSGLEVNIVTNSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VY 532
Query: 361 FIWVRGHAGIAGNEAVDRLAKETAR 385
WV H GI GNE VD+L R
Sbjct: 533 LAWVPAHKGIGGNEQVDKLVSAGIR 557
>pdb|2QKB|A Chain A, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 20-Mer RnaDNA HYBRID
pdb|2QKB|B Chain B, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 20-Mer RnaDNA HYBRID
Length = 154
Score = 34.3 bits (77), Expect = 0.21, Method: Composition-based stats.
Identities = 24/95 (25%), Positives = 48/95 (50%), Gaps = 9/95 (9%)
Query: 302 QALKYVSSIKENEVIIITDSKSCLEKL--------KNTSKSNGNPSHLILDIFKALSHLQ 353
+A++ + N++++ T+S + + KN K++ + + F AL L
Sbjct: 60 KAIEQAKTQNINKLVLYTNSXFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLT 119
Query: 354 EWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTD 388
+ +++ V GH+G GNE DRLA+E A+ ++
Sbjct: 120 Q-GXDIQWXHVPGHSGFIGNEEADRLAREGAKQSE 153
>pdb|3V4I|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V4I|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V6D|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V6D|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V81|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|3V81|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
Length = 556
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 6/67 (8%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+T+S+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 494 EVNIVTNSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 547
Query: 374 EAVDRLA 380
E VD+L
Sbjct: 548 EQVDKLV 554
>pdb|4B3P|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 33.9 bits (76), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 40/85 (47%), Gaps = 6/85 (7%)
Query: 301 LQALKYVSSIKENEVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVR 360
LQA+ EV I+T S+ L ++ ++ + + S L+ I + L ++ V
Sbjct: 479 LQAIHLALQDSGLEVNIVTASQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VY 532
Query: 361 FIWVRGHAGIAGNEAVDRLAKETAR 385
WV H GI GNE VD+L R
Sbjct: 533 LAWVPAHKGIGGNEQVDKLVSAGIR 557
>pdb|4DG1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 549
Score = 33.5 bits (75), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 6/64 (9%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 492 EVNIVTDSQYALGIIQ--AQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 545
Query: 374 EAVD 377
E VD
Sbjct: 546 EQVD 549
>pdb|1RIL|A Chain A, Crystal Structure Of Ribonuclease H From Thermus
Thermophilus Hb8 Refined At 2.8 Angstroms Resolution
Length = 166
Score = 32.7 bits (73), Expect = 0.72, Method: Composition-based stats.
Identities = 17/36 (47%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNPYP 394
VRF +V+GH G NE VDR A+ A+ + A P P
Sbjct: 121 VRFHFVKGHTGHPENERVDREARRQAQ-SQAKTPCP 155
>pdb|1RBU|A Chain A, Structural Study Of Mutants Of Escherichia Coli
Ribonuclease Hi With Enhanced Thermostability
Length = 155
Score = 32.3 bits (72), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 51/105 (48%), Gaps = 23/105 (21%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLEKL--------KNTSKSNGNPSHLILDIFK---- 347
+ A+ + ++KE+ EVI+ TDS+ + + K K+ N +D+++
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYVRQGITQWIHNWKKRGWKTADNKPVKNVDLWQRLDA 109
Query: 348 ALSHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
AL Q +++ WV+GHAG NE D LA+ A+NP
Sbjct: 110 ALGQHQ-----IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|2Z1H|A Chain A, Crystal Structure Of E.Coli Rnase Hi Surface Charged
Mutant(Q4rT92KQ105KQ113RQ115KN143KT145K)
Length = 155
Score = 32.3 bits (72), Expect = 0.81, Method: Composition-based stats.
Identities = 29/99 (29%), Positives = 47/99 (47%), Gaps = 22/99 (22%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLE---------KLKNTSKSNGNPSHLILDIFKALS 350
+ A+ + ++KE+ EVI+ TDS+ + K + K++ P + D++K L
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYVRQGITQWIHNWKKRGWKKADKKPVKNV-DLWKRLD 108
Query: 351 -----HLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETA 384
H +W WV+GHAG NE D LA+ A
Sbjct: 109 AALGRHKIKWE------WVKGHAGHPENERCDELARAAA 141
>pdb|1RBT|A Chain A, Structural Study Of Mutants Of Escherichia Coli
Ribonuclease Hi With Enhanced Thermostability
Length = 155
Score = 32.3 bits (72), Expect = 0.85, Method: Composition-based stats.
Identities = 30/107 (28%), Positives = 50/107 (46%), Gaps = 27/107 (25%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLE---------KLKNTSKSNGNPSHLILDIFKAL- 349
+ A+ + ++KE+ EVI+ TDS+ + K + ++G P + D+++ L
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYVRQGITQWIHNWKKRGWKTADGKPVKNV-DLWQRLD 108
Query: 350 ----SHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
H +W WV+GHAG NE D LA+ A+NP
Sbjct: 109 AALGQHQIKWE------WVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|2Z1G|A Chain A, Crystal Structure Of E.Coli Rnase Hi Surface Charged
Mutant(Q4rT40EQ72HQ76KQ80ET92KQ105K)
Length = 155
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 33/107 (30%), Positives = 50/107 (46%), Gaps = 27/107 (25%)
Query: 301 LQALKYVSSIKEN-EVIIITDS----KSCLE-----KLKNTSKSNGNPSHLILDIFKAL- 349
+ A+ + ++KE+ EVI+ TDS K E K + K++ P + D++K L
Sbjct: 50 MAAIVALEALKEHCEVILSTDSHYVRKGITEWIHNWKKRGWKKADKKPVKNV-DLWKRLD 108
Query: 350 ----SHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
H +W WV+GHAG NE D LA+ A+NP
Sbjct: 109 AALGQHQIKWE------WVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|2Z1I|A Chain A, Crystal Structure Of E.Coli Rnase Hi Surface Charged
Mutant(Q4rT40EQ72HQ76KQ80ET92KQ105KQ113RQ115K)
pdb|2Z1I|B Chain B, Crystal Structure Of E.Coli Rnase Hi Surface Charged
Mutant(Q4rT40EQ72HQ76KQ80ET92KQ105KQ113RQ115K)
Length = 155
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 33/107 (30%), Positives = 50/107 (46%), Gaps = 27/107 (25%)
Query: 301 LQALKYVSSIKEN-EVIIITDS----KSCLE-----KLKNTSKSNGNPSHLILDIFKALS 350
+ A+ + ++KE+ EVI+ TDS K E K + K++ P + D++K L
Sbjct: 50 MAAIVALEALKEHCEVILSTDSHYVRKGITEWIHNWKKRGWKKADKKPVKNV-DLWKRLD 108
Query: 351 -----HLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
H +W WV+GHAG NE D LA+ A+NP
Sbjct: 109 AALGRHKIKWE------WVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|2Z1J|A Chain A, Crystal Structure Of E.Coli Rnase Hi Surface Charged
Mutant(Q4rT40EQ72HQ76KQ80ET92KQ105KQ113RQ115KN143K
T145K)
Length = 155
Score = 31.6 bits (70), Expect = 1.3, Method: Composition-based stats.
Identities = 31/99 (31%), Positives = 47/99 (47%), Gaps = 22/99 (22%)
Query: 301 LQALKYVSSIKEN-EVIIITDS----KSCLE-----KLKNTSKSNGNPSHLILDIFKALS 350
+ A+ + ++KE+ EVI+ TDS K E K + K++ P + D++K L
Sbjct: 50 MAAIVALEALKEHCEVILSTDSHYVRKGITEWIHNWKKRGWKKADKKPVKNV-DLWKRLD 108
Query: 351 -----HLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETA 384
H +W WV+GHAG NE D LA+ A
Sbjct: 109 AALGRHKIKWE------WVKGHAGHPENERCDELARAAA 141
>pdb|2ZQB|A Chain A, Crystal Structure Of A Psychrotrophic Rnasehi Variant With
Sextuple Thermostabilizing Mutations
pdb|2ZQB|B Chain B, Crystal Structure Of A Psychrotrophic Rnasehi Variant With
Sextuple Thermostabilizing Mutations
pdb|2ZQB|C Chain C, Crystal Structure Of A Psychrotrophic Rnasehi Variant With
Sextuple Thermostabilizing Mutations
pdb|2ZQB|D Chain D, Crystal Structure Of A Psychrotrophic Rnasehi Variant With
Sextuple Thermostabilizing Mutations
Length = 158
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 49/113 (43%), Gaps = 16/113 (14%)
Query: 281 SGTFKLKNXXXXXXXXXXXXLQALKYVSSIKENEVIIITDSKSCLE---------KLKNT 331
SG F L L+ALK + ++I+ +DS+ + K
Sbjct: 38 SGGFSLTTNNRMELLAPIVALEALK-----EPCKIILTSDSQYVRQGIMTWIHGWKKNGW 92
Query: 332 SKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETA 384
SNG P + D++K L + + + + WV+GHAG A NE +LA+ A
Sbjct: 93 MTSNGTPVKNV-DLWKRLDKAAQLH-QIDWRWVKGHAGHAENERCHQLARAAA 143
>pdb|2E4L|A Chain A, Thermodynamic And Structural Analysis Of Thermolabile
Rnase Hi From Shewanella Oneidensis Mr-1
Length = 158
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 343 LDIFKALSHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETA 384
+D++K L + + + + WV+GHAG A NE D+LA+ A
Sbjct: 103 VDLWKRLDKAAQLH-QIDWRWVKGHAGHAENERCDQLARAAA 143
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 6/63 (9%)
Query: 314 EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNISVRFIWVRGHAGIAGN 373
EV I+TDS+ L ++ ++ + + S L+ I + L ++ V WV H GI GN
Sbjct: 491 EVNIVTDSQYALGIIQ--AQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 544
Query: 374 EAV 376
E V
Sbjct: 545 EQV 547
>pdb|1GOC|A Chain A, Cooperative Stabilization Of Escherichia Coli Ribonuclease
Hi By Insertion Of Gly-80b And Gly-77-> Ala Substitution
Length = 156
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 45/101 (44%), Gaps = 14/101 (13%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNI-- 357
+ A+ + ++KE+ EVI+ TDS+ + + N K + ++ W
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYVRQAITQGWIHNWKKRGWKTADKKPVKNVDLWQRLD 109
Query: 358 ------SVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 110 AALGQHQIKWEWVKGHAGHPENERCDELARAA-----AMNP 145
>pdb|1JL2|A Chain A, Crystal Structure Of Tceo Rnase H-A Chimera Combining The
Folding Core From T. Thermophilus Rnase H And The
Remaining Region Of E. Coli Rnase H
pdb|1JL2|B Chain B, Crystal Structure Of Tceo Rnase H-A Chimera Combining The
Folding Core From T. Thermophilus Rnase H And The
Remaining Region Of E. Coli Rnase H
pdb|1JL2|C Chain C, Crystal Structure Of Tceo Rnase H-A Chimera Combining The
Folding Core From T. Thermophilus Rnase H And The
Remaining Region Of E. Coli Rnase H
pdb|1JL2|D Chain D, Crystal Structure Of Tceo Rnase H-A Chimera Combining The
Folding Core From T. Thermophilus Rnase H And The
Remaining Region Of E. Coli Rnase H
Length = 156
Score = 31.2 bits (69), Expect = 2.0, Method: Composition-based stats.
Identities = 16/34 (47%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
VRF +V+GHAG NE D LA+ A+NP
Sbjct: 117 VRFHFVKGHAGHPENERADELARAA-----AMNP 145
>pdb|1GOA|A Chain A, Cooperative Stabilization Of Escherichia Coli Ribonuclease
Hi By Insertion Of Gly-80b And Gly-77-> Ala Substitution
Length = 156
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 45/101 (44%), Gaps = 14/101 (13%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLEKLKNTSKSNGNPSHLILDIFKALSHLQEWNI-- 357
+ A+ + ++KE+ EVI+ TDS+ + + N K + ++ W
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYVRQGITQGWIHNWKKRGWKTADKKPVKNVDLWQRLD 109
Query: 358 ------SVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 110 AALGQHQIKWEWVKGHAGHPENERCDELARAA-----AMNP 145
>pdb|1JL1|A Chain A, D10a E. Coli Ribonuclease Hi
Length = 155
Score = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERADELARAA-----AMNP 144
>pdb|1G15|A Chain A, Co-Crystal Of E. Coli Rnase Hi With Two Mn2+ Ions Bound In
The The Active Site
Length = 155
Score = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERADELARAA-----AMNP 144
>pdb|3LXU|X Chain X, Crystal Structure Of Tripeptidyl Peptidase 2 (Tpp Ii)
Length = 1354
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 44/119 (36%), Gaps = 36/119 (30%)
Query: 138 NNSDGEDITMSGDCPRDKRGIPPDPGKGSGNATQDD------------------------ 173
N + G+ I++ D P D G P P KG NA DD
Sbjct: 1072 NPAAGDGISVQNDPPVDSSGSPASPKKGKANA--DDYAESFRDFQCSQIVKCELEXAEKI 1129
Query: 174 -GDQYESAPEYAKQNCFL------NEVKDKWPNAYLIFTDGSKTSESVASAFYDTQNKN 225
D + P++ + N L N++K + P L F + KTS A D Q ++
Sbjct: 1130 YNDVVAAHPKHLQANLLLIQNIESNQLKSQLP---LTFVNAQKTSPPEAGESADKQKED 1185
>pdb|1F21|A Chain A, Divalent Metal Cofactor Binding In The Kinetic Folding
Trajectory Of E. Coli Ribonuclease Hi
Length = 155
Score = 30.8 bits (68), Expect = 2.2, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERADELARAA-----AMNP 144
>pdb|1JXB|A Chain A, I53a, A Point Mutant Of The Cysteine-Free Variant Of E.
Coli Rnase Hi
Length = 155
Score = 30.8 bits (68), Expect = 2.2, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERADELARAA-----AMNP 144
>pdb|1GOB|A Chain A, Cooperative Stabilization Of Escherichia Coli Ribonuclease
Hi By Insertion Of Gly-80b And Gly-77-> Ala Substitution
Length = 155
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 23/105 (21%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLEKL------------KNTSKSNGNPSHLILDIFK 347
+ A+ + ++KE+ EVI+ TDS+ + + K K L +
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYVRQAITQWIHNWKKRGWKTADKKPVKNVDLWQRLDA 109
Query: 348 ALSHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
AL Q +++ WV+GHAG NE D LA+ A+NP
Sbjct: 110 ALGQHQ-----IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|1WSH|A Chain A, Crystal Structure Of E.Coli Rnase Hi Active Site Mutant
(E48aK87A)
pdb|1WSH|B Chain B, Crystal Structure Of E.Coli Rnase Hi Active Site Mutant
(E48aK87A)
pdb|1WSH|C Chain C, Crystal Structure Of E.Coli Rnase Hi Active Site Mutant
(E48aK87A)
pdb|1WSH|D Chain D, Crystal Structure Of E.Coli Rnase Hi Active Site Mutant
(E48aK87A)
pdb|1WSE|A Chain A, Co-Crystal Structure Of E.Coli Rnase Hi Active Site Mutant
(E48a) With Mn2+
pdb|1WSE|B Chain B, Co-Crystal Structure Of E.Coli Rnase Hi Active Site Mutant
(E48a) With Mn2+
Length = 155
Score = 30.4 bits (67), Expect = 3.1, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|1RBV|A Chain A, Structural Study Of Mutants Of Escherichia Coli
Ribonuclease Hi With Enhanced Thermostability
Length = 155
Score = 30.4 bits (67), Expect = 3.1, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|1RDB|A Chain A, Crystal Structures Of Ribonuclease Hi Active Site Mutants
From Escherichia Coli
Length = 155
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 23/105 (21%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLEKL------------KNTSKSNGNPSHLILDIFK 347
+ A+ + ++KE+ EVI+ TDS+ + + K K L +
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDA 109
Query: 348 ALSHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
AL Q +++ WV+GHAG NE D LA+ A+NP
Sbjct: 110 ALGQHQ-----IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|1RCH|A Chain A, Solution Nmr Structure Of Ribonuclease Hi From Escherichia
Coli, 8 Structures
pdb|1RDD|A Chain A, Crystal Structure Of Escherichia Coli Rnase Hi In Complex
With Mg2+ At 2.8 Angstroms Resolution: Proof For A
Single Mg2+ Site
pdb|2RN2|A Chain A, Structural Details Of Ribonuclease H From Escherichia Coli
As Refined To An Atomic Resolution
Length = 155
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 23/105 (21%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLEKL------------KNTSKSNGNPSHLILDIFK 347
+ A+ + ++KE+ EVI+ TDS+ + + K K L +
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDA 109
Query: 348 ALSHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
AL Q +++ WV+GHAG NE D LA+ A+NP
Sbjct: 110 ALGQHQ-----IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|1RDA|A Chain A, Crystal Structures Of Ribonuclease Hi Active Site Mutants
From Escherichia Coli
Length = 155
Score = 30.4 bits (67), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 23/105 (21%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLEKL------------KNTSKSNGNPSHLILDIFK 347
+ A+ + ++KE+ EVI+ TDS+ + + K K L +
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDA 109
Query: 348 ALSHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
AL Q +++ WV+GHAG NE D LA+ A+NP
Sbjct: 110 ALGQHQ-----IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|1RNH|A Chain A, Structure Of Ribonuclease H Phased At 2 Angstroms
Resolution By Mad Analysis Of The Selenomethionyl
Protein
Length = 155
Score = 30.0 bits (66), Expect = 3.7, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETA 384
+++ WV+GHAG NE D LA+ A
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAAA 141
>pdb|3HYF|A Chain A, Crystal Structure Of Hiv-1 Rnase H P15 With Engineered E.
Coli Loop And Active Site Inhibitor
pdb|3QIN|A Chain A, Crystal Structure Of Hiv-1 Rnase H P15 With Engineered E.
Coli Loop And Pyrimidinol Carboxylic Acid Inhibitor
pdb|3QIO|A Chain A, Crystal Structure Of Hiv-1 Rnase H With Engineered E. Coli
Loop And N- Hydroxy Quinazolinedione Inhibitor
Length = 150
Score = 30.0 bits (66), Expect = 3.8, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 14/27 (51%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETAR 385
V WV H GI GNE VD+L R
Sbjct: 120 VYLAWVPAHKGIGGNEQVDKLVSAGIR 146
>pdb|1LAV|A Chain A, Stabilization Of Escherichia Coli Ribonuclease Hi By
Cavity- Filling Mutations Within A Hydrophobic Core
Length = 155
Score = 30.0 bits (66), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 23/105 (21%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLEKL------------KNTSKSNGNPSHLILDIFK 347
+ A+ + ++KE+ EVI+ TDS+ + + K K L +
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYLRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDA 109
Query: 348 ALSHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
AL Q +++ WV+GHAG NE D LA+ A+NP
Sbjct: 110 ALGQHQ-----IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|3EBB|A Chain A, PlapP97 COMPLEX
pdb|3EBB|B Chain B, PlapP97 COMPLEX
pdb|3EBB|C Chain C, PlapP97 COMPLEX
pdb|3EBB|D Chain D, PlapP97 COMPLEX
Length = 304
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/51 (23%), Positives = 28/51 (54%)
Query: 65 DLLMLDKIITEDCKKKYKNLSVAWIDLLKAYDNCPHEWMVKVIQMYKIDLK 115
DL++L+KI++ C + +V + +L NCP + + + + ++ +K
Sbjct: 81 DLILLEKILSLICNSSSEKPTVQQLQILWKAINCPEDIVFPALDILRLSIK 131
>pdb|1LAW|A Chain A, Stabilization Of Escherichia Coli Ribonuclease Hi By
Cavity- Filling Mutations Within A Hydrophobic Core
Length = 155
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 29/105 (27%), Positives = 46/105 (43%), Gaps = 23/105 (21%)
Query: 301 LQALKYVSSIKEN-EVIIITDSKSCLEKL------------KNTSKSNGNPSHLILDIFK 347
+ A+ + ++KE+ EVI+ TDS+ + + K K L +
Sbjct: 50 MAAIVALEALKEHCEVILSTDSQYIRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDA 109
Query: 348 ALSHLQEWNISVRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
AL Q +++ WV+GHAG NE D LA+ A+NP
Sbjct: 110 ALGQHQ-----IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|1RBR|A Chain A, Structural Study Of Mutants Of Escherichia Coli
Ribonuclease Hi With Enhanced Thermostability
Length = 155
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|3AA5|X Chain X, A52f E.Coli Rnase Hi
Length = 155
Score = 29.6 bits (65), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|3AA3|A Chain A, A52l E. Coli Rnase Hi
Length = 155
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|1RDC|A Chain A, Crystal Structures Of Ribonuclease Hi Active Site Mutants
From Escherichia Coli
Length = 155
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|1RBS|A Chain A, Structural Study Of Mutants Of Escherichia Coli
Ribonuclease Hi With Enhanced Thermostability
Length = 155
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|3AA4|A Chain A, A52v E.Coli Rnase Hi
Length = 155
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
>pdb|3AA2|A Chain A, A52i E. Coli Rnase Hi
Length = 155
Score = 29.6 bits (65), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 5/34 (14%)
Query: 359 VRFIWVRGHAGIAGNEAVDRLAKETARGTDALNP 392
+++ WV+GHAG NE D LA+ A+NP
Sbjct: 116 IKWEWVKGHAGHPENERCDELARAA-----AMNP 144
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.135 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,653,545
Number of Sequences: 62578
Number of extensions: 776116
Number of successful extensions: 1410
Number of sequences better than 100.0: 106
Number of HSP's better than 100.0 without gapping: 101
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1309
Number of HSP's gapped (non-prelim): 106
length of query: 659
length of database: 14,973,337
effective HSP length: 105
effective length of query: 554
effective length of database: 8,402,647
effective search space: 4655066438
effective search space used: 4655066438
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)