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= psy16749
(821 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 61/133 (45%), Gaps = 15/133 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 17 KEPIVGAETFYVDGAANRETKLGKAGYVT---NKGRQKVVPLTNTTNQKTELQAIYLALQ 73
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 74 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 124
Query: 786 HEGIKGNVEVDRL 798
H+GI GN +VD+L
Sbjct: 125 HKGIGGNEQVDKL 137
>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 = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 61/133 (45%), Gaps = 15/133 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 5 KEPIVGAETFYVDGAANRETKLGKAGYVT---NKGRQKVVPLTNTTNQKTELQAIYLALQ 61
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 62 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 112
Query: 786 HEGIKGNVEVDRL 798
H+GI GN +VD+L
Sbjct: 113 HKGIGGNEQVDKL 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 = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 61/133 (45%), Gaps = 15/133 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 7 KEPIVGAETFYVDGAANRETKLGKAGYVT---NKGRQKVVPLTNTTNQKTELQAIYLALQ 63
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 64 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 114
Query: 786 HEGIKGNVEVDRL 798
H+GI GN +VD+L
Sbjct: 115 HKGIGGNEQVDKL 127
>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 = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 39/133 (29%), Positives = 61/133 (45%), Gaps = 15/133 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 7 KEPIVGAETFYVDGAANRETKLGKAGYVT---NKGRQKVVPLTNTTNQKTELQAIYLALQ 63
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 64 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 114
Query: 786 HEGIKGNVEVDRL 798
H+GI GN +VD+L
Sbjct: 115 HKGIGGNEQVDKL 127
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNQQVDKLV 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 = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 433 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 489
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 490 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 540
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 541 HKGIGGNEQVDKLV 554
>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 = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 433 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 489
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 490 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 540
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 541 HKGIGGNEQVDKLV 554
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 432 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 488
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 489 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 539
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 540 HKGIGGNEQVDKLV 553
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>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 = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>pdb|1HPZ|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1HQE|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1HQU|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1SV5|A Chain A, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase (Rt) In Complex With Janssen-R165335
Length = 560
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>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 = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>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 = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 433 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 489
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 490 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 540
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 541 HKGIGGNEQVDKLV 554
>pdb|2I5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 552
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>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 = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 432 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 488
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 489 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 539
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 540 HKGIGGNEQVDKLV 553
>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 = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 0.013, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 434 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 490
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 491 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 541
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 542 HKGIGGNEQVDKLV 555
>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 = 0.014, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 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 = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 434 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 492
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 493 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 543
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 544 GIGGNEQVDKLV 555
>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 = 0.014, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 0.014, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 0.014, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 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 = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 0.015, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 0.015, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 434 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 492
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 493 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 543
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 544 GIGGNEQVDKLV 555
>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 = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 432 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 490
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 491 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 541
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 542 GIGGNEQVDKLV 553
>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 = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 0.015, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>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 = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 434 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 492
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 493 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 543
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 544 GIGGNEQVDKLV 555
>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 = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 433 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 489
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 490 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 540
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 541 HKGIGGNEQVDKLV 554
>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 = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 433 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 489
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 490 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 540
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 541 HKGIGGNEQVDKLV 554
>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 = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>pdb|2IAJ|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Atp
pdb|2IC3|A Chain A, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Nonnucleoside
Inhibitor Hby 097
Length = 560
Score = 38.5 bits (88), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|3KLH|A Chain A, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
Length = 564
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 433 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 489
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 490 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 540
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 541 HKGIGGNEQVDKLV 554
>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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/140 (27%), Positives = 62/140 (44%), Gaps = 15/140 (10%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T ++ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTQLQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLAKYATVH 805
H+GI GN +VD+L H
Sbjct: 539 HKGIGGNEQVDKLVSAGIRH 558
>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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 58/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 434 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 492
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 493 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 543
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 544 GIGGNEQVDKLV 555
>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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 433 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 489
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 490 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 540
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 541 HKGIGGNEQVDKLV 554
>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 = 38.5 bits (88), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|1MU2|A Chain A, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 555
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 35/133 (26%), Positives = 58/133 (43%), Gaps = 11/133 (8%)
Query: 668 IQEKCPNAICIYTDAS-KKNEKVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKY 726
+ + P A YTD S + K G A + T + K K T+ AE+ EA
Sbjct: 429 VGDPIPGAETFYTDGSCNRQSKEGKAGYV-TDRGKDKVKKLEQTTNQQAEL----EAFAM 483
Query: 727 SASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGH 786
+ + ++ I+ DS+ + + PT E +I++ + + +AW+ H
Sbjct: 484 ALTDSGPKVNIIVDSQYVM-----GIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAH 538
Query: 787 EGIKGNVEVDRLA 799
+GI GN EVD L
Sbjct: 539 KGIGGNQEVDHLV 551
>pdb|2YKM|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
Length = 562
Score = 38.1 bits (87), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 39/140 (27%), Positives = 62/140 (44%), Gaps = 15/140 (10%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T ++ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTQLQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLAKYATVH 805
H+GI GN +VD+L H
Sbjct: 539 HKGIGGNEQVDKLVSAGIRH 558
>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 = 37.4 bits (85), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T ++ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTQLQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|1O1W|A Chain A, Solution Structure Of The Rnase H Domain Of The Hiv-1
Reverse Transcriptase In The Presence Of Magnesium
Length = 138
Score = 37.4 bits (85), Expect = 0.033, Method: Composition-based stats.
Identities = 37/131 (28%), Positives = 59/131 (45%), Gaps = 11/131 (8%)
Query: 669 QEKCPNAICIYTD-ASKKNEKVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D A+ + K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 9 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 67
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 68 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 118
Query: 788 GIKGNVEVDRL 798
GI GN +VD+L
Sbjct: 119 GIGGNEQVDKL 129
>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 = 37.4 bits (85), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T ++ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTQLQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 37.4 bits (85), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T ++ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTQLQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|1RTD|A Chain A, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
pdb|1RTD|C Chain C, Structure Of A Catalytic Complex Of Hiv-1 Reverse
Transcriptase: Implications For Nucleoside Analog Drug
Resistance
Length = 554
Score = 37.0 bits (84), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 60/134 (44%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T T ++ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTDTTNQKTQLQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDESESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 539 HKGIGGNEQVDKLV 552
>pdb|3V4I|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V4I|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V6D|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V6D|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V81|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|3V81|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
Length = 556
Score = 36.6 bits (83), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 61/134 (45%), Gaps = 15/134 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 433 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 489
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+T+S+ A + P E E+++ + V LAW+
Sbjct: 490 DSGL----EVNIVTNSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 540
Query: 786 HEGIKGNVEVDRLA 799
H+GI GN +VD+L
Sbjct: 541 HKGIGGNEQVDKLV 554
>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 = 36.2 bits (82), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 57/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I AL+ S
Sbjct: 431 KEPIVGAETFYVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQKT-ELQAIHLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>pdb|4DG1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 549
Score = 35.8 bits (81), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 38/131 (29%), Positives = 59/131 (45%), Gaps = 15/131 (11%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATST--YTAEVIGIWEALK 725
+E A Y D + E K+G A + +K K+ P T+T E+ I+ AL+
Sbjct: 431 KEPIVGAETFYVDGAANRETKLGKAGYV---TNKGRQKVVPLTNTTNQKTELQAIYLALQ 487
Query: 726 YSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
S E+ I+TDS+ A + P E E+++ + V LAW+
Sbjct: 488 DSGL----EVNIVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPA 538
Query: 786 HEGIKGNVEVD 796
H+GI GN +VD
Sbjct: 539 HKGIGGNEQVD 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 = 33.9 bits (76), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 57/132 (43%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I AL+ S
Sbjct: 431 KEPIVGAETFYVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQKT-ELQAIHLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+T+S+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTNSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 33.5 bits (75), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 35/128 (27%), Positives = 55/128 (42%), Gaps = 11/128 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 430 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 488
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 489 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 539
Query: 788 GIKGNVEV 795
GI GN +V
Sbjct: 540 GIGGNEQV 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 = 32.7 bits (73), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 56/132 (42%), Gaps = 11/132 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I AL+ S
Sbjct: 431 KEPIVGAETFYVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQKT-ELQAIHLALQDS 489
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+T S+ A + P E E+++ + V LAW+ H+
Sbjct: 490 GL----EVNIVTASQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 540
Query: 788 GIKGNVEVDRLA 799
GI GN +VD+L
Sbjct: 541 GIGGNEQVDKLV 552
>pdb|2OPP|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw420867x
Length = 542
Score = 32.3 bits (72), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 53/125 (42%), Gaps = 11/125 (8%)
Query: 669 QEKCPNAICIYTDASKKNE-KVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D + E K+G A + + L T+ T E+ I+ AL+ S
Sbjct: 428 KEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKT-ELQAIYLALQDS 486
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
E+ I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 487 GL----EVNIVTDSQYAL-----GIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 537
Query: 788 GIKGN 792
GI GN
Sbjct: 538 GIGGN 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 = 30.8 bits (68), Expect = 2.8, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 776 KTVKLAWIKGHEGIKGNVEVDRL 798
+ V LAW+ H+GI GN +VD+L
Sbjct: 118 EKVYLAWVPAHKGIGGNEQVDKL 140
>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 = 30.4 bits (67), Expect = 4.7, Method: Composition-based stats.
Identities = 30/147 (20%), Positives = 61/147 (41%), Gaps = 16/147 (10%)
Query: 676 ICIYTDA-----SKKNEKVG-AAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYSAS 729
+ +YTD ++ + G ++ P + +L + AE+ +A++ + +
Sbjct: 8 VVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKT 67
Query: 730 LKNNEILILTDS-------KSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAW 782
N++++ T+S + Q KN T+ E+ + L+ + + + W
Sbjct: 68 QNINKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGK-EVINKEDFVALERLTQGMDIQW 126
Query: 783 --IKGHEGIKGNVEVDRLAKYATVHGE 807
+ GH G GN E DRLA+ E
Sbjct: 127 MHVPGHSGFIGNEEADRLAREGAKQSE 153
>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 = 29.3 bits (64), Expect = 8.2, Method: Composition-based stats.
Identities = 30/147 (20%), Positives = 60/147 (40%), Gaps = 16/147 (10%)
Query: 676 ICIYTDA-----SKKNEKVG-AAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYSAS 729
+ +YTD ++ + G ++ P + +L + AE+ +A++ + +
Sbjct: 8 VVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKT 67
Query: 730 LKNNEILILTDSK-------SACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAW 782
N++++ T+S + Q KN T+ E+ + L+ + + W
Sbjct: 68 QNINKLVLYTNSXFTINGITNWVQGWKKNGWKTSAGK-EVINKEDFVALERLTQGXDIQW 126
Query: 783 --IKGHEGIKGNVEVDRLAKYATVHGE 807
+ GH G GN E DRLA+ E
Sbjct: 127 XHVPGHSGFIGNEEADRLAREGAKQSE 153
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
0.310 0.126 0.360
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,320,383
Number of Sequences: 62578
Number of extensions: 608814
Number of successful extensions: 1381
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: 1311
Number of HSP's gapped (non-prelim): 79
length of query: 821
length of database: 14,973,337
effective HSP length: 107
effective length of query: 714
effective length of database: 8,277,491
effective search space: 5910128574
effective search space used: 5910128574
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 56 (26.2 bits)