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= 041134
(267 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PM9|A Chain A, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|B Chain B, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|C Chain C, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|D Chain D, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|E Chain E, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
pdb|3PM9|F Chain F, Crystal Structure Of A Putative Dehydrogenase (Rpa1076)
From Rhodopseudomonas Palustris Cga009 At 2.57 A
Resolution
Length = 476
Score = 36.2 bits (82), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 41/71 (57%), Gaps = 9/71 (12%)
Query: 70 PLPLEVHMTKERNVYCKKREI----EAPEEFSKKCVKLDVQSEVSFLPQ--DLKLI--QS 121
PL LE ++T+ERN+Y + + EE C KL ++ V+ +PQ + L+ Q+
Sbjct: 34 PLELEAYITEERNLYRGHSPLVLRPGSTEEVVAIC-KLANEARVALVPQGGNTGLVGGQT 92
Query: 122 PHDDALVISIK 132
PH+ +VIS+K
Sbjct: 93 PHNGEVVISLK 103
>pdb|1DZL|A Chain A, L1 Protein Of Human Papillomavirus 16
Length = 505
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 97 SKKCVKLDVQSEVSFLPQDLKLIQSPHDDALVISIKIGNCLVRRILIDNGS-SVNILDDA 155
+K V LD+ + + P +K++ P+ D+L ++ VR + G+ N+ DD
Sbjct: 216 NKSEVPLDICTSICKYPDYIKMVSEPYGDSLFFYLRREQMFVRHLFNRAGTVGENVPDDL 275
Query: 156 TVE 158
++
Sbjct: 276 YIK 278
>pdb|2DAO|A Chain A, Solution Structure Of Ets Domain Transcriptional Factor
Etv6 Protein
Length = 118
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 19/29 (65%)
Query: 14 CRTLKKYIEELISKGQLKEFVKVEDKQPQ 42
CR L Y+ +L+S + + F++ EDK+ +
Sbjct: 8 CRLLWDYVYQLLSDSRYENFIRWEDKESK 36
>pdb|2R5J|A Chain A, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|B Chain B, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|C Chain C, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|D Chain D, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|E Chain E, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|F Chain F, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|G Chain G, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|H Chain H, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|I Chain I, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|J Chain J, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|K Chain K, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|L Chain L, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|M Chain M, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|N Chain N, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
pdb|2R5J|O Chain O, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 35
Length = 423
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 24/51 (47%)
Query: 97 SKKCVKLDVQSEVSFLPQDLKLIQSPHDDALVISIKIGNCLVRRILIDNGS 147
+K V LD+ S + P LK++ P+ D L ++ VR + G+
Sbjct: 197 NKSDVPLDICSSICKYPDYLKMVSEPYGDMLFFYLRREQMFVRHLFNRAGT 247
>pdb|2R5H|A Chain A, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|B Chain B, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|C Chain C, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|D Chain D, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|E Chain E, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|F Chain F, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|G Chain G, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|H Chain H, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|I Chain I, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|J Chain J, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|K Chain K, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|L Chain L, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|M Chain M, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|N Chain N, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
pdb|2R5H|O Chain O, Pentamer Structure Of Major Capsid Protein L1 Of Human
Papilloma Virus Type 16
Length = 424
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 97 SKKCVKLDVQSEVSFLPQDLKLIQSPHDDALVISIKIGNCLVRRILIDNGS-SVNILDDA 155
+K V LD+ + + P +K++ P+ D+L ++ VR + G+ N+ DD
Sbjct: 197 NKSEVPLDICTSICKYPDYIKMVSEPYGDSLFFYLRREQMFVRHLFNRAGTVGENVPDDL 256
Query: 156 TVE 158
++
Sbjct: 257 YIK 259
>pdb|3OAE|A Chain A, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
pdb|3OAE|B Chain B, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
pdb|3OAE|C Chain C, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
pdb|3OAE|D Chain D, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
pdb|3OAE|E Chain E, Crystal Structure Of Hpv16 L1 Pentamer Bound To Heparin
Oligosaccharides
Length = 428
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 97 SKKCVKLDVQSEVSFLPQDLKLIQSPHDDALVISIKIGNCLVRRILIDNGS-SVNILDDA 155
+K V LD+ + + P +K++ P+ D+L ++ VR + G+ N+ DD
Sbjct: 199 NKSEVPLDICTSICKYPDYIKMVSEPYGDSLFFYLRREQMFVRHLFNRAGTVGENVPDDL 258
Query: 156 TVE 158
++
Sbjct: 259 YIK 261
>pdb|3ENB|A Chain A, Crystal Structure Of Prp8 Core Domain Iv
pdb|3ENB|B Chain B, Crystal Structure Of Prp8 Core Domain Iv
Length = 222
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 43/93 (46%), Gaps = 4/93 (4%)
Query: 59 EPEQIVNTIMAPL-PLEVHMTKERNVYCKKREIEAPEEFSKKCVKLDVQSEVSFLPQDLK 117
+P+QI+ T L PLEVH+ N+ K E++ P + C+K++ ++ + +
Sbjct: 89 QPKQIIVTRKGMLDPLEVHLLDFPNIVIKGSELQLP---FQACLKVEKFGDLILKATEPQ 145
Query: 118 LIQSPHDDALVISIKIGNCLVRRILIDNGSSVN 150
++ D + +I R ILI VN
Sbjct: 146 MVLFNLYDDWLKTISSYTAFSRLILILRALHVN 178
>pdb|3E9L|A Chain A, Crystal Structure Of Human Prp8, Residues 1755-2016
Length = 257
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 43/93 (46%), Gaps = 4/93 (4%)
Query: 59 EPEQIVNTIMAPL-PLEVHMTKERNVYCKKREIEAPEEFSKKCVKLDVQSEVSFLPQDLK 117
+P+QI+ T L PLEVH+ N+ K E++ P + C+K++ ++ + +
Sbjct: 98 QPKQIIVTRKGMLDPLEVHLLDFPNIVIKGSELQLP---FQACLKVEKFGDLILKATEPQ 154
Query: 118 LIQSPHDDALVISIKIGNCLVRRILIDNGSSVN 150
++ D + +I R ILI VN
Sbjct: 155 MVLFNLYDDWLKTISSYTAFSRLILILRALHVN 187
>pdb|3E9P|A Chain A, Crystal Structure Of Yeast Prp8, Residues 1827-2092
pdb|3E9P|B Chain B, Crystal Structure Of Yeast Prp8, Residues 1827-2092
Length = 255
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 59 EPEQIVNTIMAPL-PLEVHMTKERNVYCKKREIEAP 93
+P+QI+ T A L PLEVHM N+ + E+ P
Sbjct: 97 QPKQIIVTRKAMLDPLEVHMLDFPNIAIRPTELRLP 132
>pdb|3SBT|A Chain A, Crystal Structure Of A Aar2-prp8 Complex
Length = 260
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 59 EPEQIVNTIMAPL-PLEVHMTKERNVYCKKREIEAP 93
+P+QI+ T A L PLEVHM N+ + E+ P
Sbjct: 97 QPKQIIVTRKAMLDPLEVHMLDFPNIAIRPTELRLP 132
>pdb|3E66|A Chain A, Crystal Structure Of The Beta-Finger Domain Of Yeast Prp8
pdb|3E66|B Chain B, Crystal Structure Of The Beta-Finger Domain Of Yeast Prp8
Length = 282
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 59 EPEQIVNTIMAPL-PLEVHMTKERNVYCKKREIEAP 93
+P+QI+ T A L PLEVHM N+ + E+ P
Sbjct: 116 QPKQIIVTRKAMLDPLEVHMLDFPNIAIRPTELRLP 151
>pdb|4I43|B Chain B, Crystal Structure Of Prp8:aar2 Complex
Length = 1564
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 4/52 (7%)
Query: 59 EPEQIVNTIMAPL-PLEVHMTKERNVYCKKREIEAPEEFSKKCVKLDVQSEV 109
+P+QI+ T A L PLEVHM N+ + E+ P FS + +D S+V
Sbjct: 1080 QPKQIIVTRKAMLDPLEVHMLDFPNIAIRPTELRLP--FS-AAMSIDKLSDV 1128
>pdb|3SBG|A Chain A, Crystal Structure Of A Prp8 C-Terminal Fragment
Length = 565
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 59 EPEQIVNTIMAPL-PLEVHMTKERNVYCKKREIEAP 93
+P+QI+ T A L PLEVHM N+ + E+ P
Sbjct: 97 QPKQIIVTRKAMLDPLEVHMLDFPNIAIRPTELRLP 132
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 0.134 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,927,951
Number of Sequences: 62578
Number of extensions: 315227
Number of successful extensions: 714
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 712
Number of HSP's gapped (non-prelim): 17
length of query: 267
length of database: 14,973,337
effective HSP length: 97
effective length of query: 170
effective length of database: 8,903,271
effective search space: 1513556070
effective search space used: 1513556070
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)