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= 044815
(675 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 39.3 bits (90), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 30/126 (23%), Positives = 62/126 (49%), Gaps = 12/126 (9%)
Query: 274 RGSIKQAFELLEEMVRKGWKPNVYTHTVLIDGLCK--KGWTE--------KAFRLFLKLV 323
+G + +A L +E R G + + Y + VL+ +C + TE + F +F +++
Sbjct: 39 KGDVLEALRLYDEARRNGVQLSQYHYNVLL-YVCSLAEAATESSPNPGLSRGFDIFKQMI 97
Query: 324 RSDNYKPNVHTYTAMISGYCKEEKMNRAEMLLERMKEQGLLPNTNTYTSLIYGHCKVGNF 383
D PN T+T ++ A ++++MK G+ P +Y ++G C+ G+
Sbjct: 98 -VDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDA 156
Query: 384 ERAYDL 389
++AY++
Sbjct: 157 DKAYEV 162
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 32/149 (21%), Positives = 59/149 (39%), Gaps = 20/149 (13%)
Query: 426 KKAFQRELQADKITYTILLSEHL----KQAETKQALGLFCRMVKAGLNPDIHAYTTLIAA 481
KKA Q+ +A LL + L K+ + +AL L+ + G+ + Y L+
Sbjct: 18 KKAIQQSPEA-------LLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYV 70
Query: 482 FCRQKKMKESEK---------FFQEAITAGLFPTKETYTSMICGYLRDGNISSAVKYFQR 532
+ ES F++ I + P + T+T+ + + A ++
Sbjct: 71 CSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQ 130
Query: 533 MNQIGCAPDNITYGALISGLCKQSKLDEA 561
M G P +YG + G C++ D+A
Sbjct: 131 MKAFGIQPRLRSYGPALFGFCRKGDADKA 159
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 55/130 (42%), Gaps = 8/130 (6%)
Query: 303 IDGLCKKGWTEKAFRLFLKLVRS----DNYKPNVHTYTAMISGYCKEEKMN----RAEML 354
+D KKG +A RL+ + R+ Y NV Y ++ E N R +
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 355 LERMKEQGLLPNTNTYTSLIYGHCKVGNFERAYDLMDLMGKEGCTPNIYAYNAIIDGLCK 414
++ ++PN T+T+ + E A+D + G P + +Y + G C+
Sbjct: 93 FKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCR 152
Query: 415 KGRVQEAYEL 424
KG +AYE+
Sbjct: 153 KGDADKAYEV 162
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 31/153 (20%), Positives = 55/153 (35%), Gaps = 26/153 (16%)
Query: 409 IDGLCKKGRVQEAYELLKKAFQRELQADKITYTILLSEHLKQAETKQALGLFCRMVKAGL 468
+D KKG V EA L +A + +Q + Y +LL C + +A
Sbjct: 33 LDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLL--------------YVCSLAEAAT 78
Query: 469 NPDIHAYTTLIAAFCRQKKMKESEKFFQEAITAGLFPTKETYTSMICGYLRDGNISSAVK 528
+ L F F++ I + P + T+T+ + + A
Sbjct: 79 --ESSPNPGLSRGF----------DIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFD 126
Query: 529 YFQRMNQIGCAPDNITYGALISGLCKQSKLDEA 561
++ G P +YG + G C++ D+A
Sbjct: 127 XVKQXKAFGIQPRLRSYGPALFGFCRKGDADKA 159
>pdb|3FP2|A Chain A, Crystal Structure Of Tom71 Complexed With Hsp82 C-Terminal
Fragment
pdb|3FP3|A Chain A, Crystal Structure Of Tom71
pdb|3FP4|A Chain A, Crystal Structure Of Tom71 Complexed With Ssa1 C-Terminal
Fragment
Length = 537
Score = 35.0 bits (79), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 59/248 (23%), Positives = 92/248 (37%), Gaps = 54/248 (21%)
Query: 399 TPNIYAYNAIIDGLCKKGRVQEAYELLKKAFQRELQADKITYT-----ILLSEHLKQAET 453
TPN Y + A+ L K QE ++ +KA + Y +L ++ E
Sbjct: 275 TPNSYIFLALT--LADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKED 332
Query: 454 KQALGLFCRMVKAGLNPD-IHAYTTLIAAFCRQKKMKESEKFFQEAITAGLFPTKETYTS 512
Q LNP+ ++ Y L +Q K ESE FF E T FPT +
Sbjct: 333 FQK--------AQSLNPENVYPYIQLACLLYKQGKFTESEAFFNE--TKLKFPTLPEVPT 382
Query: 513 MICGYLRD-GNISSAVKYF---------QRMNQIGCAP-------------------DNI 543
L D G+ +A+K + Q +G P D
Sbjct: 383 FFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEE 442
Query: 544 TYGALISGLCKQSKLDEACQFYESMIGKGISPCEVTRVTLAYEYCKQGDSATAMIILESL 603
+ A I L K +LD + ++ IG ++ ++ A E + DSA I+ ++
Sbjct: 443 KFNAAIKLLTKACELDPRSE--QAKIGLAQLKLQMEKIDEAIELFE--DSA---ILARTM 495
Query: 604 DKKLWIRT 611
D+KL T
Sbjct: 496 DEKLQATT 503
>pdb|3LCA|A Chain A, Structure Of Tom71 Complexed With Hsp70 Ssa1 C Terminal
Tail Indicating Conformational Plasticity
Length = 533
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 59/248 (23%), Positives = 92/248 (37%), Gaps = 54/248 (21%)
Query: 399 TPNIYAYNAIIDGLCKKGRVQEAYELLKKAFQRELQADKITYT-----ILLSEHLKQAET 453
TPN Y + A+ L K QE ++ +KA + Y +L ++ E
Sbjct: 271 TPNSYIFLALT--LADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKED 328
Query: 454 KQALGLFCRMVKAGLNPD-IHAYTTLIAAFCRQKKMKESEKFFQEAITAGLFPTKETYTS 512
Q LNP+ ++ Y L +Q K ESE FF E T FPT +
Sbjct: 329 FQK--------AQSLNPENVYPYIQLACLLYKQGKFTESEAFFNE--TKLKFPTLPEVPT 378
Query: 513 MICGYLRD-GNISSAVKYF---------QRMNQIGCAP-------------------DNI 543
L D G+ +A+K + Q +G P D
Sbjct: 379 FFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEE 438
Query: 544 TYGALISGLCKQSKLDEACQFYESMIGKGISPCEVTRVTLAYEYCKQGDSATAMIILESL 603
+ A I L K +LD + ++ IG ++ ++ A E + DSA I+ ++
Sbjct: 439 KFNAAIKLLTKACELDPRSE--QAKIGLAQLKLQMEKIDEAIELFE--DSA---ILARTM 491
Query: 604 DKKLWIRT 611
D+KL T
Sbjct: 492 DEKLQATT 499
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 33.5 bits (75), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G +Q VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNQQVDKLVSAGIR 557
>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 = 0.73, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 36/61 (59%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 N 652
+
Sbjct: 558 H 558
>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 = 32.3 bits (72), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 36/61 (59%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 N 652
+
Sbjct: 558 H 558
>pdb|1IKV|A Chain A, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
Efivarenz
pdb|1IKX|A Chain A, K103n Mutant Hiv-1 Reverse Transcriptase In Complex With
The Inhibitor Pnu142721
pdb|1IKY|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc194
Length = 560
Score = 32.3 bits (72), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 1.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 500 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 559
>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 = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>pdb|1EET|A Chain A, Hiv-1 Reverse Transcriptase In Complex With The Inhibitor
Msc204
Length = 557
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 1.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 500 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 559
>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 = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>pdb|1UWB|A Chain A, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 558
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 36/64 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NACY 655
+
Sbjct: 558 KVLF 561
>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 = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 36/64 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NACY 655
+
Sbjct: 558 KVLF 561
>pdb|1DLO|A Chain A, Human Immunodeficiency Virus Type 1
pdb|1BQM|A Chain A, Hiv-1 RtHBY 097
Length = 556
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 34/59 (57%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAAL 650
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A +
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGI 556
>pdb|3HVT|A Chain A, Structural Basis Of Asymmetry In The Human
Immunodeficiency Virus Type 1 Reverse Transcriptase
Heterodimer
Length = 556
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 34/59 (57%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAAL 650
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A +
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGI 556
>pdb|3U5E|L Chain L, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|L Chain L, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|L Chain L, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 199
Score = 31.2 bits (69), Expect = 1.9, Method: Composition-based stats.
Identities = 32/121 (26%), Positives = 52/121 (42%), Gaps = 22/121 (18%)
Query: 168 RLKEGFSMVIEMTNNGLPLITSTLNRVVGIACELGLVEYAEEVFDEMCARGVCADASSYK 227
R GF++ E+ GL T+ R +GIA + +E+FD R Y+
Sbjct: 70 RAGRGFTLA-EVKAAGL---TAAYARTIGIAVDHRRQNRNQEIFDANVQR-----LKEYQ 120
Query: 228 LMVVAYCRMGRVTEADRWLSAM-----------LDRGAILDN--ATLTLLITAFCDKGFR 274
++ + R G+ EA++ LSA ++ A+ DN + L A +K FR
Sbjct: 121 SKIIVFPRNGKAPEAEQVLSAAATFPIAQPATDVEARAVQDNGESAFRTLRLARSEKKFR 180
Query: 275 G 275
G
Sbjct: 181 G 181
>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 = 31.2 bits (69), Expect = 2.0, Method: Composition-based stats.
Identities = 17/64 (26%), Positives = 36/64 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 72 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 131
Query: 652 NACY 655
+
Sbjct: 132 KILF 135
>pdb|3LP3|A Chain A, P15 Hiv Rnaseh Domain With Inhibitor Mk3
pdb|3LP3|B Chain B, P15 Hiv Rnaseh Domain With Inhibitor Mk3
Length = 138
Score = 31.2 bits (69), Expect = 2.0, Method: Composition-based stats.
Identities = 17/64 (26%), Positives = 36/64 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 74 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 133
Query: 652 NACY 655
+
Sbjct: 134 KILF 137
>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 = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 84 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 143
>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 = 31.2 bits (69), Expect = 2.1, Method: Composition-based stats.
Identities = 17/60 (28%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 74 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 133
>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 = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAA 649
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 500 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 557
>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 = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAA 649
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 500 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 557
>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 = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAA 649
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 501 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 558
>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 = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAA 649
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 500 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 557
>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 = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAA 649
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 500 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 557
>pdb|3IG1|A Chain A, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
Length = 555
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAA 649
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 555
>pdb|3DLK|A Chain A, Crystal Structure Of An Engineered Form Of The Hiv-1
Reverse Transcriptase, Rt69a
Length = 556
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAA 649
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 499 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 556
>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 = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAA 649
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 500 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG 557
>pdb|1RT3|A Chain A, Azt Drug Resistant Hiv-1 Reverse Transcriptase Complexed
With 1051u91
Length = 560
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>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 = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>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 = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>pdb|1S1W|A Chain A, Crystal Structure Of V106a Mutant Hiv-1 Reverse
Transcriptase In Complex With Uc-781
Length = 560
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>pdb|1S1X|A Chain A, Crystal Structure Of V108i Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>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 = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 501 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 560
>pdb|1LWC|A Chain A, Crystal Structure Of M184v Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>pdb|1LWE|A Chain A, Crystal Structure Of M41lT215Y MUTANT HIV-1 Reverse
Transcriptase (Rtmn) In Complex With Nevirapine
Length = 560
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>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 = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>pdb|3FFI|A Chain A, Hiv-1 Rt With Pyridone Non-Nucleoside Inhibitor
Length = 561
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 499 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 558
>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 = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>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 = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>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 = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>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 = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 35/63 (55%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
Query: 652 NAC 654
Sbjct: 558 KVL 560
>pdb|3DRR|A Chain A, Hiv Reverse Transcriptase Y181c Mutant In Complex With
Inhibitor R8e
Length = 563
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 501 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 560
>pdb|3DMJ|A Chain A, Crystal Structure Of Hiv-1 V106a And Y181c Mutant Reverse
Transcriptase In Complex With Gw564511
Length = 560
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 501 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 560
>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 = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 33/57 (57%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLA 648
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSA 554
>pdb|1JLF|A Chain A, Crystal Structure Of Y188c Mutant Hiv-1 Reverse
Transcriptase In Complex With Nevirapine
Length = 560
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 498 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 557
>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 = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 33/57 (57%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLA 648
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++ A
Sbjct: 499 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSA 555
>pdb|2YNF|A Chain A, Hiv-1 Reverse Transcriptase Y188l Mutant In Complex With
Inhibitor Gsk560
Length = 563
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 501 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 560
>pdb|2I5J|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 552
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 32/54 (59%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRV 645
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKL 551
>pdb|1HYS|A Chain A, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 553
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 32/54 (59%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRV 645
DS A+ I+++ K VN +I +L +++V +A + HK +G ++ VD++
Sbjct: 498 DSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKL 551
>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 = 29.6 bits (65), Expect = 5.7, Method: Composition-based stats.
Identities = 16/60 (26%), Positives = 35/60 (58%)
Query: 592 DSATAMIILESLDKKLWIRTVNTLIRKLCSEKRVGMAALFFHKLLGKDQNVDRVSLAALK 651
DS A+ I+++ + VN +I +L +++V +A + HK +G ++ VD++ A ++
Sbjct: 76 DSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR 135
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 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,974,252
Number of Sequences: 62578
Number of extensions: 679487
Number of successful extensions: 2264
Number of sequences better than 100.0: 73
Number of HSP's better than 100.0 without gapping: 64
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2190
Number of HSP's gapped (non-prelim): 82
length of query: 675
length of database: 14,973,337
effective HSP length: 105
effective length of query: 570
effective length of database: 8,402,647
effective search space: 4789508790
effective search space used: 4789508790
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 55 (25.8 bits)