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= 005174
(710 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 483 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 542
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 543 IGGNEQVDKL 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 = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 484 IYLALQDSGLEVNIVTNSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 543
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 544 IGGNEQVDKL 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 = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 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 = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 484 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 543
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 544 IGGNEQVDKL 553
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>pdb|2I5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 552
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 484 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 543
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 544 IGGNEQVDKL 553
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 483 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 542
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 543 IGGNEQVDKL 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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 484 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 543
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 544 IGGNEQVDKL 553
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNQQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 485 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 544
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 545 IGGNEQVDKL 554
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 484 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 543
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 544 IGGNEQVDKL 553
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 484 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 543
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 544 IGGNEQVDKL 553
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 484 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 543
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 544 IGGNEQVDKL 553
>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 = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 482 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 541
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 542 IGGNEQVDKL 551
>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 = 31.2 bits (69), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 37/70 (52%), Gaps = 5/70 (7%)
Query: 262 LFVEMQEEGVEVNVITWNTIAGGCLRTGNFKGVLELLSR-----MRTQETYLDSVATVIG 316
+++ +Q+ G+EVN++T + A G ++ K EL+++ ++ ++ YL V G
Sbjct: 484 IYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKG 543
Query: 317 LGACSHVGAL 326
+G V L
Sbjct: 544 IGGNEQVDKL 553
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
0.323 0.137 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,272,170
Number of Sequences: 62578
Number of extensions: 820179
Number of successful extensions: 2313
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 37
Number of HSP's that attempted gapping in prelim test: 2313
Number of HSP's gapped (non-prelim): 37
length of query: 710
length of database: 14,973,337
effective HSP length: 106
effective length of query: 604
effective length of database: 8,340,069
effective search space: 5037401676
effective search space used: 5037401676
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 55 (25.8 bits)