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= psy18013
(563 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 442 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 497
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 498 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 550
>pdb|2I5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 552
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 498
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 499 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 551
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.7 bits (91), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|4DG1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 549
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 442 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 497
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 498 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 498
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 499 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 444 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 499
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 500 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 552
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 498
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 499 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 498
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 499 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 551
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 498
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 499 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 551
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 498
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 499 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 551
>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 = 39.3 bits (90), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 498
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 499 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 551
>pdb|1S1W|A Chain A, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1LWC|A Chain A, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1S1X|A Chain A, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|3DMJ|A Chain A, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 560
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1JLF|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 38.5 bits (88), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.1 bits (87), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 442 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 495
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 496 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 444 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 497
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 498 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 552
>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 = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 444 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 497
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 498 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 552
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GN+ VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNQQVD 549
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 54/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ S + G + G TL + N EL AI L L+ + +
Sbjct: 441 YVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQ--KTELQAIHLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ +L AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 444 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 497
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 498 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 552
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ +L AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ +L AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 55/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 444 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 497
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 498 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 552
>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 = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ +L AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ +L AI+L L+ + + IV
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAIYLALQ----DSGLEVNIV 496
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
+DS+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 37.0 bits (84), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 57/118 (48%), Gaps = 14/118 (11%)
Query: 183 YTDGSKSPDVT-GCAFSIGDMVRSTLLNPINSI-FSAELIAIFLCLEAILENPSDQFLIV 240
Y DG+ + + G A + + R ++ N+ EL AI+L L+ + + IV
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLALQ----DSGLEVNIV 498
Query: 241 SDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
++S+ AL + K + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 499 TNSQYALGIIQAQPDKSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 551
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 54/119 (45%), Gaps = 18/119 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ + + G + G TL + N EL AI+L L+ + +
Sbjct: 440 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQ--KTELQAIYLALQ----DSGLEVN 493
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIV 294
IV+DS+ AL + + + LV ++ +L KE ++ W P+H GI GNE V
Sbjct: 494 IVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQV 547
>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 = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 54/120 (45%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ S + G + G TL + N EL AI L L+ + +
Sbjct: 441 YVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQ--KTELQAIHLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV++S+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTNSQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 35.4 bits (80), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 12/83 (14%)
Query: 216 SAELIAIFLCLEAILENPSDQFLIVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLC 273
+L AI+L L+ + + IV+DS+ AL + + + LV ++ +L
Sbjct: 476 KTQLQAIYLALQ----DSGLEVNIVTDSQYALGIIQAQPDESESELVNQIIE-----QLI 526
Query: 274 NKEVTFM-WCPSHCGIRGNEIVD 295
KE ++ W P+H GI GNE VD
Sbjct: 527 KKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 53/120 (44%), Gaps = 18/120 (15%)
Query: 183 YTDGSKSPDV----TGCAFSIGDMVRSTLLNPINSIFSAELIAIFLCLEAILENPSDQFL 238
Y DG+ S + G + G TL + N EL AI L L+ + +
Sbjct: 441 YVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQ--KTELQAIHLALQ----DSGLEVN 494
Query: 239 IVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNKEVTFM-WCPSHCGIRGNEIVD 295
IV+ S+ AL + + + LV ++ +L KE ++ W P+H GI GNE VD
Sbjct: 495 IVTASQYALGIIQAQPDQSESELVNQIIE-----QLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 12/81 (14%)
Query: 218 ELIAIFLCLEAILENPSDQFLIVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNK 275
EL AI+L L+ + + IV+DS+ AL + K + LV ++ +L K
Sbjct: 52 ELQAIYLALQ----DSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIE-----QLIKK 102
Query: 276 EVTFM-WCPSHCGIRGNEIVD 295
E ++ W P+H GI GNE VD
Sbjct: 103 EKVYLAWVPAHKGIGGNEQVD 123
>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 = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 12/81 (14%)
Query: 218 ELIAIFLCLEAILENPSDQFLIVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNK 275
EL AI+L L+ + + IV+DS+ AL + K + LV ++ +L K
Sbjct: 64 ELQAIYLALQ----DSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIE-----QLIKK 114
Query: 276 EVTFM-WCPSHCGIRGNEIVD 295
E ++ W P+H GI GNE VD
Sbjct: 115 EKVYLAWVPAHKGIGGNEQVD 135
>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 = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 12/81 (14%)
Query: 218 ELIAIFLCLEAILENPSDQFLIVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNK 275
EL AI+L L+ + + IV+DS+ AL + K + LV ++ +L K
Sbjct: 54 ELQAIYLALQ----DSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIE-----QLIKK 104
Query: 276 EVTFM-WCPSHCGIRGNEIVD 295
E ++ W P+H GI GNE VD
Sbjct: 105 EKVYLAWVPAHKGIGGNEQVD 125
>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 = 34.7 bits (78), Expect = 0.14, Method: Composition-based stats.
Identities = 28/81 (34%), Positives = 42/81 (51%), Gaps = 12/81 (14%)
Query: 218 ELIAIFLCLEAILENPSDQFLIVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNK 275
EL AI+L L+ + + IV+DS+ AL + K + LV ++ +L K
Sbjct: 54 ELQAIYLALQ----DSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIE-----QLIKK 104
Query: 276 EVTFM-WCPSHCGIRGNEIVD 295
E ++ W P+H GI GNE VD
Sbjct: 105 EKVYLAWVPAHKGIGGNEQVD 125
>pdb|4IFQ|A Chain A, Crystal Structure Of Saccharomyces Cerevisiae Nup192,
Residues 2 To 960 [scnup192(2-960)]
Length = 970
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 42/91 (46%), Gaps = 7/91 (7%)
Query: 465 QFLIVSMKLIQSVIRYQNLSANGSVNLKKSTGKTNK---QQQRSQEMKPFIKGLCF---- 517
+ L +++K+I V+ YQ + K GKT+ + ++ F + F
Sbjct: 865 ELLQLAVKIINKVLDYQETYVEELFPIVKKHGKTDYFLPKNYSLHGLRSFYDAIFFNIPL 924
Query: 518 VLNFPLYIGSRSEVLPANHLRVWAKGTLKRN 548
V + LY+G ++L N LR+ AK + + N
Sbjct: 925 VAHLGLYVGVDDQILATNSLRILAKLSERSN 955
>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 = 33.5 bits (75), Expect = 0.35, Method: Composition-based stats.
Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 12/81 (14%)
Query: 218 ELIAIFLCLEAILENPSDQFLIVSDSRSALAALANV--KFSNPLVTKVFSTWRYLKLCNK 275
EL AI+L L+ + + IV+DS+ AL + + + LV ++ +L K
Sbjct: 56 ELQAIYLALQ----DSGLEVNIVTDSQYALGIIQAQPDQSESELVNQIIE-----QLIKK 106
Query: 276 EVTFM-WCPSHCGIRGNEIVD 295
E ++ W P+H GI GNE VD
Sbjct: 107 EKVYLAWVPAHKGIGGNEQVD 127
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 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,133,724
Number of Sequences: 62578
Number of extensions: 644587
Number of successful extensions: 1265
Number of sequences better than 100.0: 74
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 74
Number of HSP's that attempted gapping in prelim test: 1264
Number of HSP's gapped (non-prelim): 74
length of query: 563
length of database: 14,973,337
effective HSP length: 104
effective length of query: 459
effective length of database: 8,465,225
effective search space: 3885538275
effective search space used: 3885538275
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: 54 (25.4 bits)