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= psy1455
(221 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 109 VYLAWVPAHKGIGGNEQVDK 128
>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 = 34.3 bits (77), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 105 VYLAWVPAHKGIGGNEQVDK 124
>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 = 34.3 bits (77), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 107 VYLAWVPAHKGIGGNEQVDK 126
>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 = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 107 VYLAWVPAHKGIGGNEQVDK 126
>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 = 33.9 bits (76), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 120 VYLAWVPAHKGIGGNEQVDK 139
>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 = 33.9 bits (76), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 117 VYLAWVPAHKGIGGNEQVDK 136
>pdb|1S1W|A Chain A, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 33.5 bits (75), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|1S1X|A Chain A, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 33.5 bits (75), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 533 VYLAWVPAHKGIGGNEQVDK 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 = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 534 VYLAWVPAHKGIGGNEQVDK 553
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 532 VYLAWVPAHKGIGGNEQVDK 551
>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 = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 533 VYLAWVPAHKGIGGNEQVDK 552
>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 = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|1LWC|A Chain A, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 33.5 bits (75), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 33.5 bits (75), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 533 VYLAWVPAHKGIGGNEQVDK 552
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 33.5 bits (75), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 532 VYLAWVPAHKGIGGNEQVDK 551
>pdb|3DMJ|A Chain A, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 560
Score = 33.5 bits (75), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 533 VYLAWVPAHKGIGGNEQVDK 552
>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 = 33.5 bits (75), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 534 VYLAWVPAHKGIGGNEQVDK 553
>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 = 33.5 bits (75), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 534 VYLAWVPAHKGIGGNEQVDK 553
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 534 VYLAWVPAHKGIGGNEQVDK 553
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 532 VYLAWVPAHKGIGGNEQVDK 551
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 533 VYLAWVPAHKGIGGNEQVDK 552
>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 = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 533 VYLAWVPAHKGIGGNEQVDK 552
>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 = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|1JLF|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 533 VYLAWVPAHKGIGGNEQVDK 552
>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 = 33.5 bits (75), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 33.5 bits (75), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 533 VYLAWVPAHKGIGGNEQVDK 552
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 33.5 bits (75), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 534 VYLAWVPAHKGIGGNEQVDK 553
>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 = 33.5 bits (75), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>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 = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GNE+VDK
Sbjct: 531 VYLAWVPAHKGIGGNEQVDK 550
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 16/20 (80%)
Query: 70 VKIIWIPSHCGIAGNEEVDK 89
V + W+P+H GI GN++VDK
Sbjct: 531 VYLAWVPAHKGIGGNQQVDK 550
>pdb|4DG1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 549
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 70 VKIIWIPSHCGIAGNEEVD 88
V + W+P+H GI GNE+VD
Sbjct: 531 VYLAWVPAHKGIGGNEQVD 549
>pdb|1MU2|A Chain A, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 555
Score = 31.6 bits (70), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 70 VKIIWIPSHCGIAGNEEVD 88
+ + W+P+H GI GN+EVD
Sbjct: 530 IYVAWVPAHKGIGGNQEVD 548
>pdb|3P9D|F Chain F, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9D|N Chain N, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|FF Chain f, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|NN Chain n, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|4D8Q|F Chain F, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8Q|N Chain N, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|FF Chain f, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|NN Chain n, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
Length = 546
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 40/87 (45%), Gaps = 11/87 (12%)
Query: 139 TVKEWQTSNRNLRKEEIILSRL----RIGHTRLTHGFLMERTDPPQCEIRLKYNLNN--L 192
T E Q S +L + + S L IG + T ++ E TDP C I +K + +
Sbjct: 332 TGGEAQNSVEDLSPQILGFSGLVYQETIGEEKFT--YVTENTDPKSCTILIKGSTHYALA 389
Query: 193 QIKDILGDNPRTIDLLFKFLKDSNLLP 219
Q KD + D R + LKD N++P
Sbjct: 390 QTKDAVRDGLRAV---ANVLKDKNIIP 413
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 70 VKIIWIPSHCGIAGNEEV 87
V + W+P+H GI GNE+V
Sbjct: 530 VYLAWVPAHKGIGGNEQV 547
>pdb|3KSK|A Chain A, Crystal Structure Of Single Chain Pvuii
pdb|3KSK|B Chain B, Crystal Structure Of Single Chain Pvuii
Length = 324
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 14 KCYVRPIIEYGAPIYGS-ASEKQLSRLEPIQNMALRIATGAFKSSRIENLQVDAGNNVKI 72
K V+ ++E+G IYGS S L++L + A K + Q + G +++
Sbjct: 142 KIPVKYVMEHGTKIYGSGGSHPDLNKLLELWPHIQEYQDLALKHGINDIFQDNGGKLLQV 201
Query: 73 IWIPSHC---GIAGNEEVDKAAQSF 94
+ I G GN+ VD A Q +
Sbjct: 202 LLITGLTVLPGREGNDAVDNAGQEY 226
>pdb|4GRI|A Chain A, Crystal Structure Of A Glutamyl-Trna Synthetase Glurs From
Borrelia Burgdorferi Bound To Glutamic Acid And Zinc
pdb|4GRI|B Chain B, Crystal Structure Of A Glutamyl-Trna Synthetase Glurs From
Borrelia Burgdorferi Bound To Glutamic Acid And Zinc
Length = 512
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 12 LYKCYVRPIIEYGAPIYGSASEKQLSRLEPIQNM 45
+YK Y + +IE G Y S ++L R++ IQN+
Sbjct: 111 IYKQYAKYLIESGHAYYCYCSPERLERIKKIQNI 144
>pdb|1FHJ|A Chain A, Crystal Structure Of Aquomet Hemoglobin-I Of The Maned
Wolf (Chrysocyon Brachyurus) At 2.0 Resolution.
pdb|1FHJ|C Chain C, Crystal Structure Of Aquomet Hemoglobin-I Of The Maned
Wolf (Chrysocyon Brachyurus) At 2.0 Resolution.
pdb|2B7H|A Chain A, Hemoglobin From Cerdocyon Thous, A Canidae From Brazil, At
2.2 Angstroms Resolution
pdb|2B7H|C Chain C, Hemoglobin From Cerdocyon Thous, A Canidae From Brazil, At
2.2 Angstroms Resolution
Length = 141
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 68 NNVKIIW--IPSHCGIAGNEEVDKAAQSFTNAQIY 100
N+K W I H G G E +D+ QSF + Y
Sbjct: 8 TNIKSTWDKIGGHAGDYGGEALDRTFQSFPTTKTY 42
>pdb|2QLS|A Chain A, Crystal Structure Of Hemoglobin From Dog (Canis
Familiaris) At 3.5 Angstrom Resolution
pdb|2QLS|C Chain C, Crystal Structure Of Hemoglobin From Dog (Canis
Familiaris) At 3.5 Angstrom Resolution
pdb|3GOU|A Chain A, Crystal Structure Of Dog (Canis Familiaris) Hemoglobin
pdb|3GOU|C Chain C, Crystal Structure Of Dog (Canis Familiaris) Hemoglobin
pdb|3PEL|A Chain A, Structure Of Greyhound Hemoglobin: Origin Of High Oxygen
Affinity
Length = 141
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 68 NNVKIIW--IPSHCGIAGNEEVDKAAQSFTNAQIY 100
N+K W I H G G E +D+ QSF + Y
Sbjct: 8 TNIKSTWDKIGGHAGDYGGEALDRTFQSFPTTKTY 42
>pdb|1FNU|A Chain A, Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNU|B Chain B, Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNU|C Chain C, Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNU|D Chain D, Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNV|A Chain A, Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNV|B Chain B, Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNV|C Chain C, Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNV|D Chain D, Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNW|A Chain A, Crystal Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNW|B Chain B, Crystal Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNW|C Chain C, Crystal Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNW|D Chain D, Crystal Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNW|E Chain E, Crystal Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNW|F Chain F, Crystal Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNW|G Chain G, Crystal Structure Of Streptococcal Pyrogenic Exotoxin A
pdb|1FNW|H Chain H, Crystal Structure Of Streptococcal Pyrogenic Exotoxin A
Length = 221
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 26/118 (22%), Positives = 49/118 (41%), Gaps = 16/118 (13%)
Query: 15 CYVRPIIEYGAPIYGSASEKQLSRLEPIQNMALRIATGAFKSSRIENLQVDAGNNVKIIW 74
CY+ E A IYG + + + LE + + ++++ I++L D N K++
Sbjct: 87 CYLCENAERSACIYGGVTNHEGNHLEIPKKIVVKVSIDG-----IQSLSFDIETNKKMVT 141
Query: 75 IPSHCGIAGNEEVDKAAQSFT--NAQIYSLITPVDLKAFLKNEFKKKWQIWWDNIQPP 130
+E+D + +T N Q+Y+ ++K K K W+D P
Sbjct: 142 A---------QELDYKVRKYTIDNKQLYTNGPSKYETGYIKFIPKNKESFWFDFFPEP 190
>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 = 26.9 bits (58), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 67 GNNVKIIWIPSHCGIAGNEEVDKAAQ 92
G +++ + +P H G GNEE D+ A+
Sbjct: 121 GMDIQWMHVPGHSGFIGNEEADRLAR 146
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 0.137 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,794,436
Number of Sequences: 62578
Number of extensions: 272611
Number of successful extensions: 846
Number of sequences better than 100.0: 79
Number of HSP's better than 100.0 without gapping: 73
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 771
Number of HSP's gapped (non-prelim): 81
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
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: 49 (23.5 bits)