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= 043740
(718 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VOD|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VOD|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auauuuu
pdb|2VON|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VON|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auaauuu
pdb|2VOO|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOO|B Chain B, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Uuuuuuuu
pdb|2VOP|A Chain A, Crystal Structure Of N-Terminal Domains Of Human La
Protein Complexed With Rna Oligomer Auuuu
Length = 193
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 47/104 (45%), Gaps = 7/104 (6%)
Query: 447 DQQKIMKNQEDTVEKLTEESKQAKRQILGSKTSLQIAERKMTELAEDFRKRLEDNIRVLF 506
D+ KI ++ + ++T+E K + S+ I +D ++ LED +VL
Sbjct: 84 DKTKIRRSPSKPLPEVTDEYKNDVKN-----RSVYIKGFPTDATLDDIKEWLEDKGQVL- 137
Query: 507 RRIQVAEQLHNETKDSYKKTLEQLEESNRLLSSEGQSRKMRDML 550
IQ+ LH K S + +E + + + + GQ K D+L
Sbjct: 138 -NIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLL 180
>pdb|1YTY|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1YTY|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 194
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 7/104 (6%)
Query: 447 DQQKIMKNQEDTVEKLTEESKQAKRQILGSKTSLQIAERKMTELAEDFRKRLEDNIRVLF 506
D+ KI ++ + ++T+E K + S+ I +D ++ LED +VL
Sbjct: 85 DKTKIRRSPSKPLPEVTDEYKNDVKN-----RSVYIKGFPTDATLDDIKEWLEDKGQVL- 138
Query: 507 RRIQVAEQLHNETKDSYKKTLEQLEESNRLLSSEGQSRKMRDML 550
IQ LH K S + +E + + + + GQ K D+L
Sbjct: 139 -NIQXRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLL 181
>pdb|1ZH5|A Chain A, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
pdb|1ZH5|B Chain B, Structural Basis For Recognition Of Uuuoh 3'-Terminii Of
Nascent Rna Pol Iii Transcripts By La Autoantigen
Length = 195
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 46/104 (44%), Gaps = 7/104 (6%)
Query: 447 DQQKIMKNQEDTVEKLTEESKQAKRQILGSKTSLQIAERKMTELAEDFRKRLEDNIRVLF 506
D+ KI ++ + ++T+E K + S+ I +D ++ LED +VL
Sbjct: 86 DKTKIRRSPSKPLPEVTDEYKNDVKN-----RSVYIKGFPTDATLDDIKEWLEDKGQVL- 139
Query: 507 RRIQVAEQLHNETKDSYKKTLEQLEESNRLLSSEGQSRKMRDML 550
IQ LH K S + +E + + + + GQ K D+L
Sbjct: 140 -NIQXRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLL 182
>pdb|1PEM|A Chain A, Ribonucleotide Reductase Protein R1e From Salmonella
Typhimurium
pdb|1PEO|A Chain A, Ribonucleotide Reductase Protein R1e From Salmonella
Typhimurium
pdb|1PEQ|A Chain A, Ribonucleotide Reductase Protein R1e From Salmonella
Typhimurium
pdb|1PEU|A Chain A, Ribonucleotide Reductase Protein R1e From Salmonella
Typhimurium
pdb|2BQ1|E Chain E, Ribonucleotide Reductase Class 1b Holocomplex R1e,R2f From
Salmonella Typhimurium
pdb|2BQ1|F Chain F, Ribonucleotide Reductase Class 1b Holocomplex R1e,R2f From
Salmonella Typhimurium
Length = 714
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/96 (23%), Positives = 46/96 (47%), Gaps = 2/96 (2%)
Query: 421 QKIMKNQEDKIADQQKIIKNLEDKIADQQKIMKNQEDTV-EKLTEESKQAKRQILGSKTS 479
K + K D ++ +++ ED++ + ++T+ +LT+E + Q + T
Sbjct: 106 WKFYTSYTLKTFDGKRYLEHFEDRVTMVALTLAQGDETLATQLTDEMLSGRFQP-ATPTF 164
Query: 480 LQIAERKMTELAEDFRKRLEDNIRVLFRRIQVAEQL 515
L +++ EL F R+EDN+ + R + A QL
Sbjct: 165 LNCGKQQRGELVSCFLLRIEDNMESIGRAVNSALQL 200
>pdb|1S79|A Chain A, Solution Structure Of The Central Rrm Of Human La Protein
Length = 103
Score = 29.6 bits (65), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 492 EDFRKRLEDNIRVLFRRIQVAEQLHNETKDSYKKTLEQLEESNRLLSSEGQSRKMRDML 550
+D ++ LED +VL IQ+ LH K S + +E + + + + GQ K D+L
Sbjct: 26 DDIKEWLEDKGQVL--NIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLL 82
>pdb|4F3E|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8 Casa
pdb|4F3E|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8 Casa
Length = 502
Score = 29.3 bits (64), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 33/69 (47%), Gaps = 7/69 (10%)
Query: 614 RMEEQESFLREEISNFEAKLGKQGGDKLNIIKTMSELEKKVGELEKRIKEQDAELLTLGE 673
R+ E+ SF R +F A L +QGG + T+ E GELE E L LG+
Sbjct: 292 RLSEERSFWR----DFSAMLPRQGG---KVAATLEHAENLQGELEDEGLEGRITLRVLGQ 344
Query: 674 LENKIKQQD 682
+ ++ K D
Sbjct: 345 VSDQAKVLD 353
>pdb|4EJ3|A Chain A, Crystal Structure Of A Crispr Associated Protein From
Thermus Thermophilus Hb8
pdb|4EJ3|B Chain B, Crystal Structure Of A Crispr Associated Protein From
Thermus Thermophilus Hb8
Length = 514
Score = 29.3 bits (64), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 33/69 (47%), Gaps = 7/69 (10%)
Query: 614 RMEEQESFLREEISNFEAKLGKQGGDKLNIIKTMSELEKKVGELEKRIKEQDAELLTLGE 673
R+ E+ SF R +F A L +QGG + T+ E GELE E L LG+
Sbjct: 304 RLSEERSFWR----DFSAMLPRQGG---KVAATLEHAENLQGELEDEGLEGRITLRVLGQ 356
Query: 674 LENKIKQQD 682
+ ++ K D
Sbjct: 357 VSDQAKVLD 365
>pdb|4AN8|A Chain A, Structure Of Thermus Thermophilus Casa (Cse1)
pdb|4AN8|B Chain B, Structure Of Thermus Thermophilus Casa (Cse1)
Length = 506
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 33/69 (47%), Gaps = 7/69 (10%)
Query: 614 RMEEQESFLREEISNFEAKLGKQGGDKLNIIKTMSELEKKVGELEKRIKEQDAELLTLGE 673
R+ E+ SF R +F A L +QGG + T+ E GELE E L LG+
Sbjct: 296 RLSEERSFWR----DFSAMLPRQGG---KVAATLEHAENLQGELEDEGLEGRITLRVLGQ 348
Query: 674 LENKIKQQD 682
+ ++ K D
Sbjct: 349 VSDQAKVLD 357
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
0.308 0.126 0.318
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,507,195
Number of Sequences: 62578
Number of extensions: 539627
Number of successful extensions: 2440
Number of sequences better than 100.0: 132
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 102
Number of HSP's that attempted gapping in prelim test: 2222
Number of HSP's gapped (non-prelim): 303
length of query: 718
length of database: 14,973,337
effective HSP length: 106
effective length of query: 612
effective length of database: 8,340,069
effective search space: 5104122228
effective search space used: 5104122228
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 55 (25.8 bits)