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= 039779
(471 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein
Length = 103
Score = 60.8 bits (146), Expect = 1e-09, Method: Composition-based stats.
Identities = 28/78 (35%), Positives = 52/78 (66%), Gaps = 3/78 (3%)
Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDAL 384
L ++I QI+YYF + NL +D FL++ + D+GWVP+ ++ FN+++ LT + +I++AL
Sbjct: 13 LEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEAL 72
Query: 385 RSST--VVEVQGDRIRKR 400
S ++E+ D+ + R
Sbjct: 73 SKSKAELMEISEDKTKIR 90
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 52/78 (66%), Gaps = 3/78 (3%)
Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDAL 384
L ++I QI+YYF + NL +D FL++ + D+GWVP+ ++ FN+++ LT + +I++AL
Sbjct: 12 LEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEAL 71
Query: 385 RSST--VVEVQGDRIRKR 400
S ++E+ D+ + R
Sbjct: 72 SKSKAELMEISEDKTKIR 89
>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 = 58.5 bits (140), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 50/78 (64%), Gaps = 3/78 (3%)
Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDAL 384
L ++I QI+YYF + NL +D FL++ + D+GWVP+ + FN+++ LT + +I++AL
Sbjct: 14 LEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEAL 73
Query: 385 RSST--VVEVQGDRIRKR 400
S + E+ D+ + R
Sbjct: 74 SKSKAELXEISEDKTKIR 91
>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 = 58.5 bits (140), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 50/78 (64%), Gaps = 3/78 (3%)
Query: 326 LHSRIVTQIDYYFSNENLVKDTFLRQNMD-DQGWVPIRLIAGFNKVSLLTDNIQLILDAL 384
L ++I QI+YYF + NL +D FL++ + D+GWVP+ + FN+++ LT + +I++AL
Sbjct: 13 LEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEAL 72
Query: 385 RSST--VVEVQGDRIRKR 400
S + E+ D+ + R
Sbjct: 73 SKSKAELXEISEDKTKIR 90
>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding
Protein
Length = 101
Score = 54.7 bits (130), Expect = 1e-07, Method: Composition-based stats.
Identities = 27/68 (39%), Positives = 44/68 (64%), Gaps = 2/68 (2%)
Query: 333 QIDYYFSNENLVKDTFLRQNMDDQGWVPIRLIAGFNKVSLLTDNIQLILDALRSSTVVEV 392
Q+++ FS ENL KD +L MD ++PI +A ++ LT + LIL+ LRSS +V+V
Sbjct: 21 QLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSSPMVQV 80
Query: 393 --QGDRIR 398
+G+++R
Sbjct: 81 DEKGEKVR 88
>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain
Length = 92
Score = 40.0 bits (92), Expect = 0.003, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 48/77 (62%), Gaps = 4/77 (5%)
Query: 329 RIVTQIDYYFSNENLVKDTFLRQNMDD--QGWVPIRLIAGFNKVSLLTDNIQLILDALRS 386
++ Q+++YFS+ N+ +D FL+ + +G+V + + F +V+ +T +++ +++A+R
Sbjct: 13 KLQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRP 72
Query: 387 ST--VVEVQGDRIRKRN 401
S V+ G +R+R+
Sbjct: 73 SEKLVLSEDGLXVRRRD 89
>pdb|1EUF|A Chain A, Bovine Duodenase(New Serine Protease), Crystal Structure
Length = 227
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 140 KRNNSHSSSNGG-LPQPPASQGSVVEGRSNNPSPRDHTQKSGFGSQFH 186
KR NS S +GG L +QG V GR++ +P +T+ S F S H
Sbjct: 173 KRKNSFSGDSGGPLVCNGVAQGIVSYGRNDGTTPDVYTRISSFLSWIH 220
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 0.130 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,390,369
Number of Sequences: 62578
Number of extensions: 504764
Number of successful extensions: 1014
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1001
Number of HSP's gapped (non-prelim): 15
length of query: 471
length of database: 14,973,337
effective HSP length: 102
effective length of query: 369
effective length of database: 8,590,381
effective search space: 3169850589
effective search space used: 3169850589
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)