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= psy17038
(399 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 7 NSSKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
+S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 497 TASQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 552
Query: 67 KEAL 70
+
Sbjct: 553 SAGI 556
>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 = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ +E S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDESESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 552
>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 = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 35/64 (54%), Gaps = 4/64 (6%)
Query: 7 NSSKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
+S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 497 TNSQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 552
Query: 67 KEAL 70
+
Sbjct: 553 SAGI 556
>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 = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 77 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 132
Query: 69 AL 70
+
Sbjct: 133 GI 134
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.021, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 7 NSSKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 552
Query: 67 KEAL 70
+
Sbjct: 553 SAGI 556
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 7 NSSKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 552
Query: 67 KEAL 70
+
Sbjct: 553 SAGI 556
>pdb|1JLF|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|1S1X|A Chain A, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 500 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 555
Query: 69 AL 70
+
Sbjct: 556 GI 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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 502 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 557
Query: 69 AL 70
+
Sbjct: 558 GI 559
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 502 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 557
Query: 69 AL 70
+
Sbjct: 558 GI 559
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 502 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 557
Query: 69 AL 70
+
Sbjct: 558 GI 559
>pdb|1S1W|A Chain A, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|3DMJ|A Chain A, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 560
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|1LWC|A Chain A, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 37.0 bits (84), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 502 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 557
Query: 69 AL 70
+
Sbjct: 558 GI 559
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.027, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 501 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 556
Query: 69 AL 70
+
Sbjct: 557 GI 558
>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 = 0.027, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.027, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.027, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 501 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 556
Query: 69 AL 70
+
Sbjct: 557 GI 558
>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 = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 36.6 bits (83), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.028, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.029, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.029, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.029, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 0.029, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 75 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 130
Query: 69 AL 70
+
Sbjct: 131 GI 132
>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 = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 73 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 128
Query: 69 AL 70
+
Sbjct: 129 GI 130
>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 = 0.030, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 75 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 130
Query: 69 AL 70
+
Sbjct: 131 GI 132
>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 = 0.033, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 85 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 140
Query: 69 AL 70
+
Sbjct: 141 GI 142
>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 = 0.036, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 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 = 0.036, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 500 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 553
>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 = 0.037, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 552
>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 = 36.2 bits (82), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 4/60 (6%)
Query: 7 NSSKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
+S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 TNSQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 554
>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 = 0.037, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 501 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 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 = 0.037, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 502 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 555
>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 = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 501 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 554
>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 = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 501 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 554
>pdb|2I5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 552
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 552
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 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 = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 501 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 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 = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 501 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 554
>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 = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 500 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLV 553
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 35.4 bits (80), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GN++ D+L
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNQQVDKLVSA 554
Query: 69 AL 70
+
Sbjct: 555 GI 556
>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 = 35.0 bits (79), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 43 LSLHFTWVPSHVGIVGNEESDRLAKEA 69
+ + + VP H G +GNEE+DRLA+E
Sbjct: 122 MDIQWMHVPGHSGFIGNEEADRLAREG 148
>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 = 34.7 bits (78), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 16/20 (80%)
Query: 50 VPSHVGIVGNEESDRLAKEA 69
VP H G +GNEE+DRLA+E
Sbjct: 129 VPGHSGFIGNEEADRLAREG 148
>pdb|3RAC|A Chain A, Crystal Strucutre Of Histidine--Trna Ligase Subunit From
Alicyclobacillus Acidocaldarius Subsp. Acidocaldarius
Dsm 446
Length = 373
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 161 DLCDSWRNLAESQEANDDGDLSSHHVTLDLA-NRIVQSYTGI 201
D+ D+WR L EA D L+S VT DLA +R + YTG+
Sbjct: 276 DVRDAWRYLCRLAEALHDSGLASDVVTFDLALHRELDYYTGL 317
>pdb|4DG1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 549
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 31/55 (56%), Gaps = 4/55 (7%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESD 63
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D
Sbjct: 499 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVD 549
>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 = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 45 LHFTWVPSHVGIVGNEESDRLAKEAL 70
++ WVP+H GI GNE+ D+L +
Sbjct: 120 VYLAWVPAHKGIGGNEQVDKLVSAGI 145
>pdb|1MU2|A Chain A, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 555
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 44 SLHFTWVPSHVGIVGNEESDRLAKEAL 70
+++ WVP+H GI GN+E D L + +
Sbjct: 529 AIYVAWVPAHKGIGGNQEVDHLVSQGI 555
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 32.0 bits (71), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 4/53 (7%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEE 61
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+
Sbjct: 498 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQ 546
>pdb|3UJP|A Chain A, Structure Of Mntc Protein At 2.7a
pdb|3UJP|B Chain B, Structure Of Mntc Protein At 2.7a
pdb|3UJP|C Chain C, Structure Of Mntc Protein At 2.7a
Length = 307
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 296 PLNIIEDKNGNKISNKEERLERWREHF-QHVFNQQTTVNLEGIEIDPITDNLPNDERP 352
P +I++ ++ + I LERW E F +V + + V EGIE PI D P ++P
Sbjct: 72 PSDIVKAQDADLILYNGMNLERWFEQFLGNVKDVPSVVLTEGIEPIPIADG-PYTDKP 128
>pdb|1XVL|A Chain A, The Three-Dimensional Structure Of Mntc From Synechocystis
6803
pdb|1XVL|B Chain B, The Three-Dimensional Structure Of Mntc From Synechocystis
6803
pdb|1XVL|C Chain C, The Three-Dimensional Structure Of Mntc From Synechocystis
6803
Length = 321
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 296 PLNIIEDKNGNKISNKEERLERWREHF-QHVFNQQTTVNLEGIEIDPITDNLPNDERP 352
P +I++ ++ + I LERW E F +V + + V EGIE PI D P ++P
Sbjct: 86 PSDIVKAQDADLILYNGMNLERWFEQFLGNVKDVPSVVLTEGIEPIPIADG-PYTDKP 142
>pdb|2E4L|A Chain A, Thermodynamic And Structural Analysis Of Thermolabile
Rnase Hi From Shewanella Oneidensis Mr-1
Length = 158
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 22/44 (50%)
Query: 36 LVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEALSSNSPSVNT 79
L K + + + WV H G NE D+LA+ A +N ++T
Sbjct: 109 LDKAAQLHQIDWRWVKGHAGHAENERCDQLARAAAEANPTQIDT 152
>pdb|2OPP|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw420867x
Length = 542
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 4/51 (7%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGN 59
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GN
Sbjct: 496 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGN 542
>pdb|1JAS|A Chain A, Hsubc2b
pdb|2YB6|A Chain A, Native Human Rad6
pdb|2YBF|A Chain A, Complex Of Rad18 (Rad6 Binding Domain) With Rad6b
pdb|2Y4W|A Chain A, Solution Structure Of Human Ubiquitin Conjugating Enzyme
Rad6b
Length = 152
Score = 29.3 bits (64), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 7/58 (12%)
Query: 207 YGVSGILSEIMDLVQDVVTSSEAGEDGLELPVARKREYQEARQKCQREVRRIREEWWN 264
Y VS IL+ I L+ + +S A +L YQE +++ ++ V I E+ WN
Sbjct: 100 YDVSSILTSIQSLLDEPNPNSPANSQAAQL-------YQENKREYEKRVSAIVEQSWN 150
>pdb|3VSK|A Chain A, Crystal Structure Of Penicillin-Binding Protein 3 (Pbp3)
From Methicilin-Resistant Staphylococcus Aureus In The
Apo Form.
pdb|3VSK|B Chain B, Crystal Structure Of Penicillin-Binding Protein 3 (Pbp3)
From Methicilin-Resistant Staphylococcus Aureus In The
Apo Form.
pdb|3VSL|A Chain A, Crystal Structure Of Penicillin-Binding Protein 3 (Pbp3)
From Methicilin-Resistant Staphylococcus Aureus In The
Cefotaxime Bound Form.
pdb|3VSL|B Chain B, Crystal Structure Of Penicillin-Binding Protein 3 (Pbp3)
From Methicilin-Resistant Staphylococcus Aureus In The
Cefotaxime Bound Form
Length = 646
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 28/45 (62%), Gaps = 7/45 (15%)
Query: 287 KSAVGPIRKPLN--IIEDKNGNKISNKEERLERWREHFQHVFNQQ 329
K VGP++K +N ++ NK++N E+ +++ +E F+ FN +
Sbjct: 516 KDEVGPLKKKINGTVL-----NKVNNTEKEIKQIQEGFKMAFNDK 555
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
0.313 0.131 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,809,773
Number of Sequences: 62578
Number of extensions: 488335
Number of successful extensions: 1083
Number of sequences better than 100.0: 82
Number of HSP's better than 100.0 without gapping: 75
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1008
Number of HSP's gapped (non-prelim): 82
length of query: 399
length of database: 14,973,337
effective HSP length: 101
effective length of query: 298
effective length of database: 8,652,959
effective search space: 2578581782
effective search space used: 2578581782
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)