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= psy15121
(960 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 36.2 bits (82), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + R++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGS 191
Score = 34.3 bits (77), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|1FKO|A Chain A, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1FKP|A Chain A, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Nevirapine
Length = 543
Score = 36.2 bits (82), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + R++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGS 191
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>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 = 36.2 bits (82), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 100 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 159
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + R++ ++ Y+DD + S
Sbjct: 160 PAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGS 194
Score = 33.9 bits (76), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 62 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 118
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 119 FSVPLDEDFRKYTAFTIP 136
>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 = 36.2 bits (82), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + R++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGS 191
Score = 33.9 bits (76), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|3DRS|B Chain B, Hiv Reverse Transcriptase K103n Mutant In Complex With
Inhibitor R8d
pdb|3LP0|B Chain B, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP1|B Chain B, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3LP2|B Chain B, Hiv-1 Reverse Transcriptase With Inhibitor
pdb|3TAM|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (K103n
Mutant) In Complex With Inhibitor M06
Length = 443
Score = 36.2 bits (82), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 100 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 159
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + R++ ++ Y+DD + S
Sbjct: 160 PAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGS 194
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 62 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 118
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 119 FSVPLDEDFRKYTAFTIP 136
>pdb|1FKO|B Chain B, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Dmp-266(Efavirenz)
pdb|1FKP|B Chain B, Crystal Structure Of Nnrti Resistant K103n Mutant Hiv-1
Reverse Transcriptase In Complex With Nevirapine
pdb|3DM2|B Chain B, Crystal Structure Of Hiv-1 K103n Mutant Reverse
Transcriptase In Complex With Gw564511.
pdb|3DOK|B Chain B, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw678248.
pdb|3MED|B Chain B, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc125
pdb|3MEG|B Chain B, Hiv-1 K103n Reverse Transcriptase In Complex With Tmc278
pdb|2WOM|B Chain B, Crystal Structure Of Uk-453061 Bound To Hiv-1 Reverse
Transcriptase (K103n)
Length = 440
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + R++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGS 191
Score = 33.5 bits (75), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+K + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 100 PAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 159
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + R++ ++ Y+DD L+ S
Sbjct: 160 PAIFQSSMTKILEPFRKQNPDIVIYQYMDDLLVGS 194
>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 = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + +++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFKKQNPDIVIYQYMDDLYVGS 191
Score = 33.9 bits (76), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>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 = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + +++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFKKQNPDIVICQYMDDLYVGS 191
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>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 = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + +++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFKKQNPDIVIYQYMDDLYVGS 191
Score = 33.9 bits (76), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|1HPZ|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1HQE|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1HQU|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1SV5|B Chain B, Crystal Structure Of K103n Mutant Hiv-1 Reverse
Transcriptase (Rt) In Complex With Janssen-R165335
Length = 430
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + +++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFKKQNPDIVIYQYMDDLYVGS 191
Score = 33.5 bits (75), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|2IAJ|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Atp
pdb|2IC3|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Nonnucleoside
Inhibitor Hby 097
Length = 447
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + +++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFKKQNPDIVICQYMDDLYVGS 191
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|1IKV|B Chain B, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
Efivarenz
pdb|1IKX|B Chain B, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
The Inhibitor Pnu142721
pdb|1IKY|B Chain B, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc194
Length = 427
Score = 34.7 bits (78), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+KN + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKNKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + +++ ++ Y+DD + S
Sbjct: 157 PAIFQSSMTKILEPFKKQNPDIVIYQYMDDLYVGS 191
Score = 33.5 bits (75), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+K + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + +++ ++ Y+DD L+ S
Sbjct: 157 PAIFQSSMTKILEPFKKQNPDIVIYQYMDDLLVGS 191
>pdb|1BQN|B Chain B, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 430
Score = 34.7 bits (78), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 38/95 (40%), Gaps = 9/95 (9%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L+K + +D+ AY +P+ R++ F G YQ L G +
Sbjct: 97 PAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRERGVRCLV--YLDDFLLAS 428
P F + +++ ++ Y+DD L+ S
Sbjct: 157 PAIFQSSMTKILEPFKKQNPDIVIYQYMDDLLVGS 191
>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 = 34.3 bits (77), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+KN + +D+ AY
Sbjct: 61 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKNKSVTVLDVGDAY 117
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 118 FSVPLDEDFRKYTAFTIP 135
>pdb|1MU2|A Chain A, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 555
Score = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 45/115 (39%), Gaps = 9/115 (7%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFL-------YKGTVYQRTCLSFGLASA 395
P L K + +D+ AY IP+ R + F G Y L G +
Sbjct: 97 PAGLAKKRRITVLDVGDAYFSIPLHEDFRPYTAFTLPSVNNAEPGKRYIYKVLPQGWKGS 156
Query: 396 PQAFAQLSNWVAVLLRE--RGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSG 448
P F V R+ + V + Y+DD L+AS + + +++ L L+G
Sbjct: 157 PAIFQHTMRQVLEPFRKANKDVIIIQYMDDILIASDRTDLEHDRVVLQLKELLNG 211
>pdb|3H4X|A Chain A, Structure Of A Ca+2 Dependent
Phosphatidylinositol-Specific Phospholipase C (Pi-Plc)
Enzyme From Streptomyces Antibioti
Length = 339
Score = 33.5 bits (75), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 11/63 (17%)
Query: 496 ETKKLLLIMSKLNIHIVPYFIPGKCNSLADALSR---------QALIPDWHLLPSLTESV 546
+T+ LLIM+ + H VP I G + A+AL+R DW+ LPS+ ++V
Sbjct: 277 DTRHYLLIMT--DAHNVPPVIDGTHPTEAEALARVRQLAAAHASFATADWYPLPSVLKTV 334
Query: 547 FPR 549
PR
Sbjct: 335 VPR 337
>pdb|1MU2|B Chain B, Crystal Structure Of Hiv-2 Reverse Transcriptase
Length = 426
Score = 33.1 bits (74), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 28/115 (24%), Positives = 45/115 (39%), Gaps = 9/115 (7%)
Query: 343 PLFLQKNDYLATIDLSQAYCHIPIARRHRRFLCFLY-------KGTVYQRTCLSFGLASA 395
P L K + +D+ AY IP+ R + F G Y L G +
Sbjct: 92 PAGLAKKRRITVLDVGDAYFSIPLHEDFRPYTAFTLPSVNNAEPGKRYIYKVLPQGWKGS 151
Query: 396 PQAFAQLSNWVAVLLRE--RGVRCLVYLDDFLLASQDSVVLKNQIFQTLPVNLSG 448
P F V R+ + V + Y+DD L+AS + + +++ L L+G
Sbjct: 152 PAIFQHTMRQVLEPFRKANKDVIIIQYMDDILIASDRTDLEHDRVVLQLKELLNG 206
>pdb|2ZE2|A Chain A, Crystal Structure Of L100iK103N MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
Length = 557
Score = 33.1 bits (74), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 36/78 (46%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P ++KN + +D+ AY
Sbjct: 61 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGIKKNKSVTVLDVGDAY 117
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 118 FSVPLDEDFRKYTAFTIP 135
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+K + +D+ AY
Sbjct: 58 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLEKKKSVTVLDVGDAY 114
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 115 FSVPLDEDFRKYTAFTIP 132
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K NS T+ KL++ +++ P L+K + +D+ AY
Sbjct: 59 PVFAIKKKNS---TRWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K NS T+ KL++ +++ P L+K + +D+ AY
Sbjct: 59 PVFAIKKKNS---TRWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>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 = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K NS T+ KL++ +++ P L+K + +D+ AY
Sbjct: 61 PVFAIKKKNS---TRWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAY 117
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 118 FSVPLDEDFRKYTAFTIP 135
>pdb|2HND|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 534
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+K + +D+ AY
Sbjct: 56 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLEKKKSVTVLDVGDAY 112
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 113 FSVPLDEDFRKYTAFTIP 130
>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 = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K NS T+ KL++ +++ P L+K + +D+ AY
Sbjct: 61 PVFAIKKKNS---TRWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAY 117
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 118 FSVPLDEDFRKYTAFTIP 135
>pdb|1RT3|B Chain B, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 440
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K NS T+ KL++ +++ P L+K + +D+ AY
Sbjct: 59 PVFAIKKKNS---TRWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|2HND|B Chain B, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 422
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+K + +D+ AY
Sbjct: 53 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLEKKKSVTVLDVGDAY 109
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 110 FSVPLDEDFRKYTAFTIP 127
>pdb|1LWF|B Chain B, Crystal Structure Of A Mutant Hiv-1 Reverse Transcriptase
(rtmq+m184v: M41l/d67n/k70r/m184v/t215y) In Complex With
Nevirapine
Length = 440
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K NS T+ KL++ +++ P L+K + +D+ AY
Sbjct: 59 PVFAIKKKNS---TRWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
>pdb|2OPR|B Chain B, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 426
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+K + +D+ AY
Sbjct: 54 PVFAIKKKDS---TKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLEKKKSVTVLDVGDAY 110
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 111 FSVPLDEDFRKYTAFTIP 128
>pdb|1HAR|A Chain A, 2.2 Angstroms Resolution Structure Of The Amino-Terminal
Half Of Hiv-1 Reverse Transcriptase (Fingers And Palm
Subdomains)
Length = 216
Score = 29.6 bits (65), Expect = 7.4, Method: Composition-based stats.
Identities = 20/78 (25%), Positives = 35/78 (44%), Gaps = 19/78 (24%)
Query: 612 PVFNLKSLNSYVTTKKFKLINHQKI----------------PLFLQKNDYLATIDLSQAY 655
PVF +K +S TK KL++ +++ P L+K + +D+ AY
Sbjct: 59 PVFAIKKKDS---TKWAKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAY 115
Query: 656 CHIPIARRHRRFLCFLIP 673
+P+ R++ F IP
Sbjct: 116 FSVPLDEDFRKYTAFTIP 133
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.137 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,638,717
Number of Sequences: 62578
Number of extensions: 973119
Number of successful extensions: 2015
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 1977
Number of HSP's gapped (non-prelim): 61
length of query: 960
length of database: 14,973,337
effective HSP length: 108
effective length of query: 852
effective length of database: 8,214,913
effective search space: 6999105876
effective search space used: 6999105876
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (26.2 bits)