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= 001628
(1042 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NEX|B Chain B, Crystal Structure Of Scskp1-Sccdc4-Cpd Peptide Complex
pdb|1NEX|D Chain D, Crystal Structure Of Scskp1-Sccdc4-Cpd Peptide Complex
Length = 464
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 38/166 (22%), Positives = 73/166 (43%), Gaps = 34/166 (20%)
Query: 93 GILLNVTSTNLIEVWDIDKKRLSHVHVCKEE-ITSFTIMQHSN--YMLLGDTAGKISVLK 149
GIL++ ++ + VWDI K +HV + I+++ N Y++ G + V K
Sbjct: 174 GILVSGSTDRTVRVWDIKKGCCTHVFEGHNSTVRCLDIVEYKNIKYIVTGSRDNTLHVWK 233
Query: 150 LDQESSQIVKMKYIIPLSASHGNEVS---------GDPAVINILPQPTAESKRI-----L 195
L +ESS +P HG E +P + +L A + + +
Sbjct: 234 LPKESS--------VP---DHGEEHDYPLVFHTPEENPYFVGVLRGHXASVRTVSGHGNI 282
Query: 196 II--FRDGLISLWDIRESKSIFSMGGN---VLQSVY-HETKQVTSA 235
++ D + +WD+ + K ++ + G+ + ++Y HE K+ SA
Sbjct: 283 VVSGSYDNTLIVWDVAQXKCLYILSGHTDRIYSTIYDHERKRCISA 328
>pdb|2OAJ|A Chain A, Crystal Structure Of Sro7 From S. Cerevisiae
Length = 902
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 28/120 (23%), Positives = 60/120 (50%), Gaps = 4/120 (3%)
Query: 35 YGFPSGCNKFAYDPLQKILAAATKDGRIKLYGRHNNTQALLESSEAVSTKFLQFLENQGI 94
YG S A+D Q +LA AT G + +YG+ + +++ + + K ++F+ +GI
Sbjct: 14 YGMSSKPIAAAFDFTQNLLAIATVTGEVHIYGQQ-QVEVVIKLEDRSAIKEMRFV--KGI 70
Query: 95 -LLNVTSTNLIEVWDIDKKRLSHVHVCKEEITSFTIMQHSNYMLLGDTAGKISVLKLDQE 153
L+ + + + + V + +++ +ITS ++ML+G G + V +D++
Sbjct: 71 YLVVINAKDTVYVLSLYSQKVLTTVFVPGKITSIDTDASLDWMLIGLQNGSMIVYDIDRD 130
>pdb|3MKS|B Chain B, Crystal Structure Of Yeast Cdc4SKP1 IN COMPLEX WITH AN
ALLOSTERIC Inhibitor Scf-I2
pdb|3MKS|D Chain D, Crystal Structure Of Yeast Cdc4SKP1 IN COMPLEX WITH AN
ALLOSTERIC Inhibitor Scf-I2
pdb|3V7D|B Chain B, Crystal Structure Of Scskp1-Sccdc4-Psic1 Peptide Complex
pdb|3V7D|D Chain D, Crystal Structure Of Scskp1-Sccdc4-Psic1 Peptide Complex
Length = 464
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 38/166 (22%), Positives = 73/166 (43%), Gaps = 34/166 (20%)
Query: 93 GILLNVTSTNLIEVWDIDKKRLSHVHVCKEE-ITSFTIMQHSN--YMLLGDTAGKISVLK 149
GIL++ ++ + VWDI K +HV + I+++ N Y++ G + V K
Sbjct: 174 GILVSGSTDRTVRVWDIKKGCCTHVFEGHNSTVRCLDIVEYKNIKYIVTGSRDNTLHVWK 233
Query: 150 LDQESSQIVKMKYIIPLSASHGNEVS---------GDPAVINILPQPTAESKRI-----L 195
L +ESS +P HG E +P + +L A + + +
Sbjct: 234 LPKESS--------VP---DHGEEHDYPLVFHTPEENPYFVGVLRGHMASVRTVSGHGNI 282
Query: 196 II--FRDGLISLWDIRESKSIFSMGGN---VLQSVY-HETKQVTSA 235
++ D + +WD+ + K ++ + G+ + ++Y HE K+ SA
Sbjct: 283 VVSGSYDNTLIVWDVAQMKCLYILSGHTDRIYSTIYDHERKRCISA 328
>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 = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG ASR +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I+++S
Sbjct: 483 HLALQDSGLEVNIVTASQ 500
>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 = 34.7 bits (78), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG ASR +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I+++S
Sbjct: 483 HLALQDSGLEVNIVTNSQ 500
>pdb|1RDH|A Chain A, Crystallographic Analyses Of An Active Hiv-1 Ribonuclease
H Domain Show Structural Features That Distinguish It
From The Inactive Form
pdb|1RDH|B Chain B, Crystallographic Analyses Of An Active Hiv-1 Ribonuclease
H Domain Show Structural Features That Distinguish It
From The Inactive Form
Length = 146
Score = 34.3 bits (77), Expect = 0.35, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 283 GYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA---LP 339
GY+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L L
Sbjct: 12 GYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLA 71
Query: 340 LSEPCIDMEIISSS 353
L + +++ I++ S
Sbjct: 72 LQDSGLEVNIVTDS 85
>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 = 34.3 bits (77), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG ASR +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAASRETKLGKAGYVTNKGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 HLALQDSGLEVNIVTDSQ 500
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 33.1 bits (74), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>pdb|2OPR|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 547
Score = 33.1 bits (74), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 420 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 477
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 478 LQAIYLALQDSGLEVNIVTDSQ 499
>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 = 33.1 bits (74), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|2OPP|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Gw420867x
Length = 542
Score = 33.1 bits (74), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 418 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 475
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 476 LQAIYLALQDSGLEVNIVTDSQ 497
>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 = 33.1 bits (74), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>pdb|1S1W|A Chain A, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>pdb|1S1X|A Chain A, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 426 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 485
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 486 YLALQDSGLEVNIVTDSQ 503
>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 = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>pdb|1JLF|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|1LWC|A Chain A, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|3DMJ|A Chain A, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 560
Score = 33.1 bits (74), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 482
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 33.1 bits (74), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 426 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 485
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 486 YLALQDSGLEVNIVTDSQ 503
>pdb|2OPS|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 542
Score = 33.1 bits (74), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 422 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 481
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 482 YLALQDSGLEVNIVTDSQ 499
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 33.1 bits (74), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 32.7 bits (73), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 32.7 bits (73), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 424 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 483
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 484 YLALQDSGLEVNIVTDSQ 501
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 32.7 bits (73), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 426 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 485
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 486 YLALQDSGLEVNIVTDSQ 503
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 32.7 bits (73), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT--TKL 336
+ L Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T +
Sbjct: 426 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 485
Query: 337 ALPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 486 YLALQDSGLEVNIVTDSQ 503
>pdb|1FK9|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Dmp- 266(Efavirenz)
Length = 543
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 478
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 32.7 bits (73), Expect = 1.0, Method: Composition-based stats.
Identities = 22/77 (28%), Positives = 41/77 (53%), Gaps = 3/77 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+N Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 1 MNELYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAI 60
Query: 338 -LPLSEPCIDMEIISSS 353
L L + +++ I++ S
Sbjct: 61 YLALQDSGLEVNIVTDS 77
>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 = 32.7 bits (73), Expect = 1.0, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 284 YKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA---LPL 340
Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L L L
Sbjct: 2 YQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLAL 61
Query: 341 SEPCIDMEIISSS 353
+ +++ I++ S
Sbjct: 62 QDSGLEVNIVTDS 74
>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 = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|2HNY|A Chain A, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
pdb|2HNZ|A Chain A, Crystal Structure Of E138k Mutant Hiv-1 Reverse
Transcriptase In Complex With Pett-2
Length = 534
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 418 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 475
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 476 LQAIYLALQDSGLEVNIVTDSQ 497
>pdb|2HND|A Chain A, Crystal Structure Of K101e Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 534
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 418 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 475
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 476 LQAIYLALQDSGLEVNIVTDSQ 497
>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 = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|2OPQ|A Chain A, Crystal Structure Of L100i Mutant Hiv-1 Reverse
Transcriptase In Complex With Gw420867x
Length = 534
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQ-IVLLNEQTESRT- 333
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q +V L + T +T
Sbjct: 418 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTE 475
Query: 334 -TKLALPLSEPCIDMEIISSSS 354
+ L L + +++ I++ S
Sbjct: 476 LQAIYLALQDSGLEVNIVTDSQ 497
>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 = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 42/78 (53%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 425 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 484
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I+++S
Sbjct: 485 YLALQDSGLEVNIVTNSQ 502
>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 = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTQLQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTDTTNQKTQLQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 478
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 424 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 481
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 482 LQAIYLALQDSGLEVNIVTDSQ 503
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 478
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 478
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 425 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 484
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 485 YLALQDSGLEVNIVTDSQ 502
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 423 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 480
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 481 LQAIYLALQDSGLEVNIVTDSQ 502
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|4DG1|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 549
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 478
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|2I5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 552
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 478
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 425 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 484
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 485 YLALQDSGLEVNIVTDSQ 502
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 423 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 480
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 481 LQAIYLALQDSGLEVNIVTDSQ 502
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 422 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 479
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 480 LQAIYLALQDSGLEVNIVTDSQ 501
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 423 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 480
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 481 LQAIYLALQDSGLEVNIVTDSQ 502
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 422 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 479
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 480 LQAIYLALQDSGLEVNIVTDSQ 501
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 478
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 423 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 482
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 483 YLALQDSGLEVNIVTDSQ 500
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 276 PICKLNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTK 335
P+ KL Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+
Sbjct: 421 PLVKL--WYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTE 478
Query: 336 LA---LPLSEPCIDMEIISSSS 354
L L L + +++ I++ S
Sbjct: 479 LQAIYLALQDSGLEVNIVTDSQ 500
>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 = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 425 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 484
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 485 YLALQDSGLEVNIVTDSQ 502
>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 = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 41/78 (52%), Gaps = 3/78 (3%)
Query: 280 LNLGYKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA-- 337
+ L Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L
Sbjct: 425 VKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAI 484
Query: 338 -LPLSEPCIDMEIISSSS 354
L L + +++ I++ S
Sbjct: 485 YLALQDSGLEVNIVTDSQ 502
>pdb|1GXR|A Chain A, Wd40 Region Of Human Groucho/tle1
pdb|1GXR|B Chain B, Wd40 Region Of Human Groucho/tle1
pdb|2CE8|A Chain A, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|B Chain B, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|C Chain C, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE8|D Chain D, An Eh1 Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|A Chain A, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|B Chain B, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|C Chain C, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain.
pdb|2CE9|D Chain D, A Wrpw Peptide Bound To The Groucho-Tle Wd40 Domain
Length = 337
Score = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/112 (18%), Positives = 39/112 (34%)
Query: 41 CNKFAYDPLQKILAAATKDGRIKLYGRHNNTQALLESSEAVSTKFLQFLENQGILLNVTS 100
C A P K+ + DG I ++ HN T + + L
Sbjct: 144 CYALAISPDSKVCFSCCSDGNIAVWDLHNQTLVRQFQGHTDGASCIDISNDGTKLWTGGL 203
Query: 101 TNLIEVWDIDKKRLSHVHVCKEEITSFTIMQHSNYMLLGDTAGKISVLKLDQ 152
N + WD+ + R H +I S ++ +G + + VL +++
Sbjct: 204 DNTVRSWDLREGRQLQQHDFTSQIFSLGYCPTGEWLAVGMESSNVEVLHVNK 255
>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 = 31.6 bits (70), Expect = 2.2, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 284 YKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA---LPL 340
Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L L L
Sbjct: 1 YQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLAL 60
Query: 341 SEPCIDMEIISSS 353
+ +++ I++ S
Sbjct: 61 QDSGLEVNIVTDS 73
>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 = 31.6 bits (70), Expect = 2.2, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 284 YKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA---LPL 340
Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L L L
Sbjct: 3 YQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLAL 62
Query: 341 SEPCIDMEIISSS 353
+ +++ I++ S
Sbjct: 63 QDSGLEVNIVTDS 75
>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 = 31.6 bits (70), Expect = 2.2, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 39/73 (53%), Gaps = 3/73 (4%)
Query: 284 YKLDKIPISSLKWVYADGKASRLYIMGASDFVSMNLLQIVLLNEQTESRTTKLA---LPL 340
Y+L+K PI + Y DG A+R +G + +V+ Q V+ T ++ T+L L L
Sbjct: 3 YQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQAIYLAL 62
Query: 341 SEPCIDMEIISSS 353
+ +++ I++ S
Sbjct: 63 QDSGLEVNIVTDS 75
>pdb|3MXX|A Chain A, Crystal Structure Of Wdr5 Mutant (S62a)
Length = 315
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/125 (20%), Positives = 51/125 (40%), Gaps = 14/125 (11%)
Query: 16 GGSSDGLKSSDVDPRLVFHY---GFPSGCNKFAYDPLQKILAAATKDGRIKLYGRHNNTQ 72
GG G S V P + G + + P + LAA++ D IK++G ++
Sbjct: 1 GGQQMGRGSEFVKPNYALKFTLAGHTKAVSSVKFSPNGEWLAASSADKLIKIWGAYDGKF 60
Query: 73 ALLESSEAVSTKFLQFLENQGILLNVTSTNLIEVWDIDKKRLSHVHVCKEEITSFTIMQH 132
S + + + + +L++ + +++WD+ + C + T+ H
Sbjct: 61 EKTISGHKLGISDVAWSSDSNLLVSASDDKTLKIWDVSSGK------CLK-----TLKGH 109
Query: 133 SNYML 137
SNY+
Sbjct: 110 SNYVF 114
>pdb|2F22|A Chain A, Crystal Structure Of A Putative Dna Damage-Inducable
(Dinb) Protein (Bh3987) From Bacillus Halodurans At 1.42
A Resolution
pdb|2F22|B Chain B, Crystal Structure Of A Putative Dna Damage-Inducable
(Dinb) Protein (Bh3987) From Bacillus Halodurans At 1.42
A Resolution
Length = 144
Score = 31.6 bits (70), Expect = 2.7, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 23/47 (48%)
Query: 776 GFVYLTPKPNSLSNTLMCSSWDGELIMVNGNQEAFFISALRQRDFFR 822
G +Y N+L+ + S WD +LI G FI +R RD +R
Sbjct: 6 GVLYAANXTNALAKEIPESKWDIQLIPELGTLRKLFIHIVRVRDVYR 52
>pdb|2AWA|A Chain A, Crystal Structure Of Dna Polymerase Iii, Beta Chain (Ec
2.7.7.7) (Np_344555.1) From Streptococcus Pneumoniae
Tigr4 At 2.50 A Resolution
pdb|2AWA|B Chain B, Crystal Structure Of Dna Polymerase Iii, Beta Chain (Ec
2.7.7.7) (Np_344555.1) From Streptococcus Pneumoniae
Tigr4 At 2.50 A Resolution
pdb|2AWA|C Chain C, Crystal Structure Of Dna Polymerase Iii, Beta Chain (Ec
2.7.7.7) (Np_344555.1) From Streptococcus Pneumoniae
Tigr4 At 2.50 A Resolution
pdb|2AWA|D Chain D, Crystal Structure Of Dna Polymerase Iii, Beta Chain (Ec
2.7.7.7) (Np_344555.1) From Streptococcus Pneumoniae
Tigr4 At 2.50 A Resolution
Length = 390
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 42/94 (44%), Gaps = 6/94 (6%)
Query: 215 FSMGGNVLQSVYHETKQVTSACWACPIGSKVAVGYSNGEILIWG------VPSILNLKTE 268
FS+ N+ + TK+ S+ A PI S V + +N I + G + + ++ K E
Sbjct: 16 FSINKNLFLQALNTTKRAISSKNAIPILSTVKIDVTNEGITLIGSNGQISIENFISQKNE 75
Query: 269 ECGTQITPICKLNLGYKLDKIPISSLKWVYADGK 302
+ G IT + + L +SSL V D K
Sbjct: 76 DAGLLITSLGSILLEASFFINVVSSLPDVTLDFK 109
>pdb|4GQB|B Chain B, Crystal Structure Of The Human Prmt5:mep50 Complex
Length = 344
Score = 30.8 bits (68), Expect = 4.1, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 32/71 (45%), Gaps = 9/71 (12%)
Query: 460 NLFITGHSDGAINFWDVSCPLFLLILSLKQQSEKDFSLSG-IPLTALYYDGTSRVLVSGD 518
++F++ D I WD CP K S+ S G +P + ++ S V V GD
Sbjct: 183 SVFLSCSEDNRILLWDTRCP--------KPASQIGCSAPGYLPTSLAWHPQQSEVFVFGD 234
Query: 519 QSGMVRIFKLK 529
++G V + K
Sbjct: 235 ENGTVSLVDTK 245
>pdb|1P22|A Chain A, Structure Of A Beta-Trcp1-Skp1-Beta-Catenin Complex:
Destruction Motif Binding And Lysine Specificity On The
Scfbeta-Trcp1 Ubiquitin Ligase
Length = 435
Score = 30.4 bits (67), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 23/96 (23%), Positives = 41/96 (42%), Gaps = 20/96 (20%)
Query: 461 LFITGHSDGAINFWDVSCPLFLLILSLKQQSEKDFSLSGIPLTALYYDGTSRV--LVSG- 517
L ++G SD I WD+ C L +L ++ + + + YDG +V LV+
Sbjct: 308 LVVSGSSDNTIRLWDIECGACLRVLEGHEELVRCIRFDNKRIVSGAYDGKIKVWDLVAAL 367
Query: 518 ---------------DQSGMVRIFKLKYEPHAIENS 538
+ SG R+F+L+++ I +S
Sbjct: 368 DPRAPAGTLCLRTLVEHSG--RVFRLQFDEFQIVSS 401
>pdb|4GFH|F Chain F, Topoisomerase Ii-Dna-Amppnp Complex
Length = 1099
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 557 KVMKINGSIISLNMNRNSQHLAVGSDQGYVYL-LDTEGPTVLYQK 600
+V INGS+ +N+ N + L + + + YV L L + PT+LY++
Sbjct: 216 RVYDINGSVRDINVYLNGKSLKIRNFKNYVELYLKSLIPTILYER 260
>pdb|4GFH|A Chain A, Topoisomerase Ii-Dna-Amppnp Complex
Length = 1103
Score = 30.0 bits (66), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 557 KVMKINGSIISLNMNRNSQHLAVGSDQGYVYL-LDTEGPTVLYQK 600
+V INGS+ +N+ N + L + + + YV L L + PT+LY++
Sbjct: 216 RVYDINGSVRDINVYLNGKSLKIRNFKNYVELYLKSLIPTILYER 260
>pdb|3DM0|A Chain A, Maltose Binding Protein Fusion With Rack1 From A. Thaliana
Length = 694
Score = 29.6 bits (65), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 199 RDGLISLWDIRESKSIFSMGGNVLQSVYHETKQVTSACWAC 239
+DG++ LWD+ E K ++S+ N SV H + W C
Sbjct: 581 KDGVVLLWDLAEGKKLYSLEAN---SVIHALCFSPNRYWLC 618
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
0.317 0.132 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,433,992
Number of Sequences: 62578
Number of extensions: 1068769
Number of successful extensions: 2362
Number of sequences better than 100.0: 93
Number of HSP's better than 100.0 without gapping: 76
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 2266
Number of HSP's gapped (non-prelim): 114
length of query: 1042
length of database: 14,973,337
effective HSP length: 109
effective length of query: 933
effective length of database: 8,152,335
effective search space: 7606128555
effective search space used: 7606128555
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.6 bits)