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= psy1054
(467 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WIN|A Chain A, Solution Structure Of The Band 7 Domain Of The Mouse
Flotillin 2 Protein
Length = 143
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 77/112 (68%), Positives = 89/112 (79%), Gaps = 9/112 (8%)
Query: 38 QRISLE---------DVETLQGVPVTVTGTAQVKIMKAEELIQSASEQFLGKSKEEIQKT 88
QRISLE DVET +GV +TVTG AQVKIM +EL+ A EQFLGK+ ++I+
Sbjct: 8 QRISLEIMTLQPRCEDVETAEGVALTVTGVAQVKIMTEKELLAVACEQFLGKNVQDIKNV 67
Query: 89 ILHTLEGHLRAILGTLTVEEIVKDRDQFASLVREVAAPDVGRMGIEILSFTI 140
+L TLEGHLR+ILGTLTVE+I +DRDQFA LVREVAAPDVGRMGIEILSFTI
Sbjct: 68 VLQTLEGHLRSILGTLTVEQIYQDRDQFAKLVREVAAPDVGRMGIEILSFTI 119
Score = 80.1 bits (196), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 43/76 (56%), Positives = 53/76 (69%), Gaps = 9/76 (11%)
Query: 220 QRISLE---------DVETLQGVPVTVTGTAQVKIMKAEELIQSASEQFLGKSKEEIQKT 270
QRISLE DVET +GV +TVTG AQVKIM +EL+ A EQFLGK+ ++I+
Sbjct: 8 QRISLEIMTLQPRCEDVETAEGVALTVTGVAQVKIMTEKELLAVACEQFLGKNVQDIKNV 67
Query: 271 ILHTLEGHLRAILAPL 286
+L TLEGHLR+IL L
Sbjct: 68 VLQTLEGHLRSILGTL 83
>pdb|1WIX|A Chain A, The Solution Structure Of Rsgi Ruh-026, Conserved Domain
Of Hook1 Protein From Mouse
Length = 164
Score = 32.0 bits (71), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 19/92 (20%)
Query: 74 SEQFLGKSKEEIQ----------KTILHTLEGHLRAILGTLTVEEIVKDRDQFASLVREV 123
SE +L + K+++ K +LH + + LG EE++ D +Q + E
Sbjct: 52 SESWLSRIKDDVGDNWRIKASNLKKVLHGITSYYHEFLGQQISEELIPDLNQ----ITEC 107
Query: 124 AAP-DVGRMGIEILSFTIGEEAECEKSAMDIK 154
A P ++GR+ L +G CEK IK
Sbjct: 108 ADPVELGRL----LQLILGCAVNCEKKQEHIK 135
>pdb|2C9E|A Chain A, Peridinin-Chlorophyll A Protein, High-Salt Form
Length = 327
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 86 QKTILHTLEGHLRAILGTLTVEEIVKDRDQFA----SLVREVAAPDVGRMGIEILSF 138
Q I + H+RAI G L +V +RD FA +L + +A D + + +F
Sbjct: 234 QNAINDAVFAHVRAIKGALNTPGLVAERDDFARVNLALAKMIATADPAKFKALLTAF 290
>pdb|1BQN|B Chain B, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 430
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
E IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 EPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRALSKLLRGTKALTEVIPL 295
>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 = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 244 QPIVLPEKDSWTVNDICKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 297
>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 = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 244 QPIVLPEKDSWTVNDICKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 297
>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 = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 244 QPIVLPEKDSWTVNDICKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 297
>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 = 28.5 bits (62), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 244 QPIVLPEKDSWTVNDICKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 297
>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 = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDICKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>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 = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDICKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>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 = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDICKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>pdb|3KLF|B Chain B, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|F Chain F, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|J Chain J, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
pdb|3KLF|N Chain N, Crystal Structure Of Wild-Type Hiv-1 Reverse Transcriptase
Crosslinked To A Dsdna With A Bound Excision Product,
Aztppppa
Length = 444
Score = 28.5 bits (62), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 258 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 311
>pdb|1BQN|A Chain A, Tyr 188 Leu Hiv-1 RtHBY 097
Length = 558
Score = 28.5 bits (62), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPQKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>pdb|2IAJ|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Atp
pdb|2IC3|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Nonnucleoside
Inhibitor Hby 097
Length = 447
Score = 28.1 bits (61), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>pdb|1UWB|B Chain B, Tyr 181 Cys Hiv-1 Rt8-Cl Tibo
Length = 427
Score = 28.1 bits (61), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>pdb|1SH8|A Chain A, 1.5 A Crystal Structure Of A Protein Of Unknown Function
Pa5026 From Pseudomonas Aeruginosa, Probable
Thioesterase
pdb|1SH8|B Chain B, 1.5 A Crystal Structure Of A Protein Of Unknown Function
Pa5026 From Pseudomonas Aeruginosa, Probable
Thioesterase
Length = 154
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 309 VAQLPPAVQALTGVDISKIQRREKELTATVKLPAEAECYRLETLAEAKKIQSIELAKAEA 368
+A+LP LT D ++ KE+T + PA+ + R+E +A++I+ +E E
Sbjct: 60 LAELPGGALFLTSFDSARFYPIVKEMTLRFRRPAKGDI-RVEARLDAERIRQLETEAGER 118
Query: 369 WK 370
K
Sbjct: 119 GK 120
>pdb|3KLE|B Chain B, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|F Chain F, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|J Chain J, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLE|N Chain N, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To A Dsdna With A Bound
Excision Product, Aztppppa
pdb|3KLG|B Chain B, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLG|F Chain F, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Pre-Translocation
Aztmp-Terminated Dna (Complex N)
pdb|3KLH|B Chain B, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
pdb|3KLI|B Chain B, Crystal Structure Of Unliganded Azt-Resistant Hiv-1
Reverse Transcriptase
Length = 437
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>pdb|3KJV|B Chain B, Hiv-1 Reverse Transcriptase In Complex With Dna
pdb|3KK1|B Chain B, Hiv-1 Reverse Transcriptase-Dna Complex With Nuceotide
Inhibitor Gs- 9148-Diphosphate Bound In Nucleotide Site
pdb|3KK2|B Chain B, Hiv-1 Reverse Transcriptase-Dna Complex With Datp Bound In
The Nucleotide Binding Site
pdb|3KK3|B Chain B, Hiv-1 Reverse Transcriptase-Dna Complex With Gs-9148
Terminated Primer
Length = 452
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 254 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 307
>pdb|2ZD1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tmc278 (Rilpivirine), A Non-Nucleoside Rt
Inhibitor
pdb|2ZE2|B Chain B, Crystal Structure Of L100iK103N MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
pdb|3BGR|B Chain B, Crystal Structure Of K103nY181C MUTANT HIV-1 Reverse
Transcriptase (Rt) In Complex With Tmc278 (Rilpivirine),
A Non-Nucleoside Rt Inhibitor
pdb|3IG1|B Chain B, Hiv-1 Reverse Transcriptase With The Inhibitor Beta-
Thujaplicinol Bound At The Rnase H Active Site
pdb|3IRX|B Chain B, 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|B Chain B, 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).
pdb|3QO9|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Tsao-T, A Non-Nucleoside Rt Inhibitor
(Nnrti)
pdb|2YKM|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
pdb|2YKN|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With A Difluoromethylbenzoxazole (Dfmb)
Pyrimidine Thioether Derivative, A Non-Nucleoside Rt
Inhibitor (Nnrti)
pdb|3V4I|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V4I|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And Azttp
pdb|3V6D|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V6D|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt)
Cross-Linked With Azt-Terminated Dna
pdb|3V81|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|3V81|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Dna And The Nonnucleoside Inhibitor Nevirapine
pdb|4H4M|B Chain B, 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|B Chain B, 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|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With Rilpivirine (tmc278) Based Analogue
pdb|4I2Q|B Chain B, Crystal Structure Of K103n/y181c Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Rilpivirine (tmc278)
Analogue
pdb|4G1Q|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (rt) In
Complex With Rilpivirine (tmc278, Edurant), A
Non-nucleoside Rt-inhibiting Drug
Length = 428
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>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 = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 244 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 297
>pdb|1QE1|B Chain B, Crystal Structure Of 3tc-Resistant M184i Mutant Of Hiv-1
Reverse Transcriptase
Length = 427
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>pdb|1HNV|B Chain B, Structure Of Hiv-1 Rt(Slash)tibo R 86183 Complex Reveals
Similarity In The Binding Of Diverse Nonnucleoside
Inhibitors
pdb|1DLO|B Chain B, Human Immunodeficiency Virus Type 1
pdb|1TVR|B Chain B, Hiv-1 Rt9-Cl Tibo
pdb|4DG1|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) With
Polymorphism Mutation K172a And K173a
Length = 427
Score = 28.1 bits (61), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
>pdb|4I7G|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At Nnrti
Adjacent Site
pdb|4ICL|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Incoming Dntp Binding Site
pdb|4ID5|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Rnase H Primer Grip Site
pdb|4IDK|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The 428
Site
pdb|4IFV|B Chain B, Detecting Allosteric Sites Of Hiv-1 Reverse Transcriptase
By X-ray Crystallographic Fragment Screening
pdb|4IFY|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The
Knuckles Site
pdb|4IG0|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment At The 507
Site
pdb|4IG3|B Chain B, Hiv-1 Reverse Transcriptase With Bound Fragment Near
Knuckles Site
Length = 429
Score = 28.1 bits (61), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 243 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 296
>pdb|1R0A|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
pdb|2I5J|B Chain B, Crystal Structure Of Hiv-1 Reverse Transcriptase (Rt) In
Complex With Dhbnh, An Rnase H Inhibitor
Length = 429
Score = 28.1 bits (61), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 290 EEIVLLGGNDHVTNDITRLVAQLPPAVQALTGVDI---SKIQRREKELTATVKL 340
+ IVL + NDI +LV +L A Q G+ + SK+ R K LT + L
Sbjct: 242 QPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKALTEVIPL 295
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
0.313 0.129 0.339
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,615,168
Number of Sequences: 62578
Number of extensions: 313240
Number of successful extensions: 1083
Number of sequences better than 100.0: 138
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 129
Number of HSP's that attempted gapping in prelim test: 899
Number of HSP's gapped (non-prelim): 269
length of query: 467
length of database: 14,973,337
effective HSP length: 102
effective length of query: 365
effective length of database: 8,590,381
effective search space: 3135489065
effective search space used: 3135489065
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)