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= psy16967
(282 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B3O|A Chain A, Structures Of Hiv-1 Rt And Rna-dna Complex Reveal A Unique
Rt Conformation And Substrate Interface
Length = 560
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 52/117 (44%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + + Y NK + EL AI L LQ+ + +V
Sbjct: 441 YVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQKTELQAIHLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1S1X|A Chain A, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1LWC|A Chain A, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1S1W|A Chain A, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 442 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 497
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 498 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 550
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 442 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 495
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 496 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 550
>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 = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1JLF|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 444 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 499
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 500 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 444 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 499
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 500 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 444 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 499
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 500 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 552
>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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 496
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|4DG1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 549
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|3DMJ|A Chain A, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 560
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 442 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 495
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 496 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 550
>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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 496
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 444 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 497
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 498 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 552
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 496
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 551
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENS--TSCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 27 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 80
Query: 175 LVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + S++ + ++ + +++ W P+H GI GNE VD
Sbjct: 81 IVTDSQYALGIIQAQPDKSE--SELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVD 135
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 444 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 499
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 500 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 552
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 496
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 496
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 551
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 496
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 40.8 bits (94), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 496
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 551
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ + ++ + +++
Sbjct: 52 ELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVNQIIEQLIKKEKV 105
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 106 YLAWVPAHKGIGGNEQVD 123
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ + ++ + +++
Sbjct: 56 ELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDQSE--SELVNQIIEQLIKKEKV 109
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 110 YLAWVPAHKGIGGNEQVD 127
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ + ++ + +++
Sbjct: 54 ELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVNQIIEQLIKKEKV 107
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 108 YLAWVPAHKGIGGNEQVD 125
>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 = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ + ++ + +++
Sbjct: 54 ELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVNQIIEQLIKKEKV 107
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 108 YLAWVPAHKGIGGNEQVD 125
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N +L AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTQLQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GN+ VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNQQVD 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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y NK + +L AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTDTTNQKTQLQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDESESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 52/117 (44%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + + Y NK + EL AI L LQ+ + +V
Sbjct: 441 YVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQKTELQAIHLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
T+S +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TNSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N +L AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTQLQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N +L AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTQLQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y NK + +L AI L LQ+ + +V
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAIYLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N +L AI L LQ+ +
Sbjct: 441 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTQLQAIYLALQD----SGLEVN 494
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VTDS +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 495 IVTDSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 549
>pdb|1MU2|A Chain A, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 555
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/115 (23%), Positives = 49/115 (42%), Gaps = 8/115 (6%)
Query: 119 FTDGS--KTENSTSCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+TDGS + Y ++ + + + AEL A + L + K ++
Sbjct: 440 YTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTD----SGPKVNII 495
Query: 177 TDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
DS + + S+ + SKI + ++ + + I W P+H GI GN+ VD
Sbjct: 496 VDSQYVMGIVASQPTESE--SKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVD 548
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 50/116 (43%), Gaps = 12/116 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 440 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 495
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAV 230
TDS +L I ++ + L+++I ++ + +++ W P+H GI GNE V
Sbjct: 496 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQV 547
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 51/117 (43%), Gaps = 12/117 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + + Y NK + EL AI L LQ+ + +V
Sbjct: 441 YVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQKTELQAIHLALQD----SGLEVNIV 496
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
T S +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 TASQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 52/119 (43%), Gaps = 16/119 (13%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSF--RLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
+ DG+ + Y NK N N EL AI L LQ+ +
Sbjct: 443 YVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQ--KTELQAIYLALQD----SGLEVN 496
Query: 175 LVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+VT+S +L I ++ + L+++I ++ + +++ W P+H GI GNE VD
Sbjct: 497 IVTNSQYALGIIQAQPDKSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 551
>pdb|2QK9|A Chain A, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 18-Mer RnaDNA HYBRID
pdb|2QKK|A Chain A, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|B Chain B, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|E Chain E, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|F Chain F, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|I Chain I, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|J Chain J, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|M Chain M, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|N Chain N, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|R Chain R, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|S Chain S, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
pdb|2QKK|W Chain W, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 14-Mer RnaDNA HYBRID
Length = 154
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 42/97 (43%), Gaps = 11/97 (11%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITS-----------KSCNNALLSKIYS 201
AE+ A ++ K K +L T+SM ++ IT+ S +++K
Sbjct: 53 AEIHAACKAIEQAKTQNINKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDF 112
Query: 202 TWLDLVACGKEISFMWCPSHCGISGNEAVDVAAKNPS 238
L+ + G +I +M P H G GNE D A+ +
Sbjct: 113 VALERLTQGMDIQWMHVPGHSGFIGNEEADRLAREGA 149
>pdb|2OPP|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw420867x
Length = 542
Score = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 26/113 (23%), Positives = 48/113 (42%), Gaps = 12/113 (10%)
Query: 119 FTDGSKTENST--SCAYTINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFLLV 176
+ DG+ + Y N+ + EL AI L LQ+ + +V
Sbjct: 438 YVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQD----SGLEVNIV 493
Query: 177 TDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGN 227
TDS +L I ++ + L+++I ++ + +++ W P+H GI GN
Sbjct: 494 TDSQYALGIIQAQPDQSESELVNQI----IEQLIKKEKVYLAWVPAHKGIGGN 542
>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 = 35.4 bits (80), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 42/94 (44%), Gaps = 24/94 (25%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITS---------------KSCNNA-LLS 197
EL AI L LQ+ + +VTDS +L IT K N L++
Sbjct: 53 ELQAIYLALQD----SGLEVNIVTDSQYALGIITQWIHNWKKRGWKTADKKPVKNVDLVN 108
Query: 198 KIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
+I ++ + +++ W P+H GI GNE VD
Sbjct: 109 QI----IEQLIKKEKVYLAWVPAHKGIGGNEQVD 138
>pdb|2E4L|A Chain A, Thermodynamic And Structural Analysis Of Thermolabile
Rnase Hi From Shewanella Oneidensis Mr-1
Length = 158
Score = 34.3 bits (77), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 40/146 (27%), Positives = 56/146 (38%), Gaps = 24/146 (16%)
Query: 116 ILCFTDGSKTENSTSCAYTINKNV--------NSFRLNVVNSVFSAELMAILLCLQNLKY 167
I FTDGS N Y I N + F L N + EL+A ++ L+ LK
Sbjct: 7 IHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFSLTTNNRM---ELLAPIVALEALK- 62
Query: 168 LPSTKFLLVTDSMSSLQAITSK---------SCNNALLSKIYSTW--LDLVACGKEISFM 216
K +L +DS Q I + +N K W LD A +I +
Sbjct: 63 -EPCKIILTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWR 121
Query: 217 WCPSHCGISGNEAVDVAAKNPSPSFP 242
W H G + NE D A+ + + P
Sbjct: 122 WVKGHAGHAENERCDQLARAAAEANP 147
>pdb|2QKB|A Chain A, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 20-Mer RnaDNA HYBRID
pdb|2QKB|B Chain B, Human Rnase H Catalytic Domain Mutant D210n In Complex
With 20-Mer RnaDNA HYBRID
Length = 154
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 40/97 (41%), Gaps = 11/97 (11%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITS-----------KSCNNALLSKIYS 201
AE+ A ++ K K +L T+S ++ IT+ S +++K
Sbjct: 53 AEIHAACKAIEQAKTQNINKLVLYTNSXFTINGITNWVQGWKKNGWKTSAGKEVINKEDF 112
Query: 202 TWLDLVACGKEISFMWCPSHCGISGNEAVDVAAKNPS 238
L+ + G +I + P H G GNE D A+ +
Sbjct: 113 VALERLTQGXDIQWXHVPGHSGFIGNEEADRLAREGA 149
>pdb|1XNG|A Chain A, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Helicobacter Pylori
pdb|1XNG|B Chain B, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Helicobacter Pylori
pdb|1XNH|A Chain A, Crystal Structure Of Nh3-dependent Nad+ Synthetase From
Helicobacter Pylori
Length = 268
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 29/66 (43%), Gaps = 3/66 (4%)
Query: 7 RSKMIMNYVSKIG--SCHRNPIHNEFFNRNYDFANHPNTPKPLLMRAREITDFIANIDSS 64
+S+ ++ Y + G +C NPI F Y+ A N PK +L + F+ D
Sbjct: 135 KSERMLGYGTLFGDLACAINPIGELFKTEVYELARRLNIPKKILNKPPSADLFVGQSDEK 194
Query: 65 EFA-PY 69
+ PY
Sbjct: 195 DLGYPY 200
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
0.318 0.131 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,391,358
Number of Sequences: 62578
Number of extensions: 326912
Number of successful extensions: 754
Number of sequences better than 100.0: 78
Number of HSP's better than 100.0 without gapping: 69
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 685
Number of HSP's gapped (non-prelim): 78
length of query: 282
length of database: 14,973,337
effective HSP length: 98
effective length of query: 184
effective length of database: 8,840,693
effective search space: 1626687512
effective search space used: 1626687512
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)