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= 008506
(563 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding
Protein
Length = 101
Score = 62.0 bits (149), Expect = 9e-10, Method: Composition-based stats.
Identities = 32/75 (42%), Positives = 51/75 (68%), Gaps = 2/75 (2%)
Query: 299 LKANIVKQIEYYFSDENLQNDHYLISLMDAQGWVPIAIIADFKRVKRMSTDLPFILDALQ 358
LK + KQ+E+ FS ENL D YLIS MD+ ++PI +A+ + +K+++TD IL+ L+
Sbjct: 14 LKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLR 73
Query: 359 NSSTVEA--QGDKVR 371
+S V+ +G+KVR
Sbjct: 74 SSPMVQVDEKGEKVR 88
>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein
Length = 103
Score = 62.0 bits (149), Expect = 9e-10, Method: Composition-based stats.
Identities = 36/87 (41%), Positives = 50/87 (57%), Gaps = 3/87 (3%)
Query: 298 ALKANIVKQIEYYFSDENLQNDHYLISLMDA-QGWVPIAIIADFKRVKRMSTDLPFILDA 356
AL+A I QIEYYF D NL D +L + +GWVP+ I+ F R+ R++TD I++A
Sbjct: 12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 71
Query: 357 LQNSST--VEAQGDKVRRRDEWSKWIP 381
L S +E DK + R SK +P
Sbjct: 72 LSKSKAELMEISEDKTKIRRSPSKPLP 98
>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 = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 33/79 (41%), Positives = 46/79 (58%), Gaps = 3/79 (3%)
Query: 298 ALKANIVKQIEYYFSDENLQNDHYLISLMDA-QGWVPIAIIADFKRVKRMSTDLPFILDA 356
AL+A I QIEYYF D NL D +L + +GWVP+ I+ F R+ R++TD I++A
Sbjct: 11 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 70
Query: 357 LQNSST--VEAQGDKVRRR 373
L S +E DK + R
Sbjct: 71 LSKSKAELMEISEDKTKIR 89
>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 = 59.3 bits (142), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 298 ALKANIVKQIEYYFSDENLQNDHYLISLMDA-QGWVPIAIIADFKRVKRMSTDLPFILDA 356
AL+A I QIEYYF D NL D +L + +GWVP+ I F R+ R++TD I++A
Sbjct: 12 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEA 71
Query: 357 LQNSST----VEAQGDKVRR 372
L S + K+RR
Sbjct: 72 LSKSKAELXEISEDKTKIRR 91
>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 = 59.3 bits (142), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 298 ALKANIVKQIEYYFSDENLQNDHYLISLMDA-QGWVPIAIIADFKRVKRMSTDLPFILDA 356
AL+A I QIEYYF D NL D +L + +GWVP+ I F R+ R++TD I++A
Sbjct: 13 ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEA 72
Query: 357 LQNSST----VEAQGDKVRR 372
L S + K+RR
Sbjct: 73 LSKSKAELXEISEDKTKIRR 92
>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain
Length = 92
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 48/79 (60%), Gaps = 4/79 (5%)
Query: 300 KANIVKQIEYYFSDENLQNDHYLISLM--DAQGWVPIAIIADFKRVKRMSTDLPFILDAL 357
K + KQ+E+YFSD N+Q D +L +A+G+V + + FKRV ++TD+ +++A+
Sbjct: 11 KQKLQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAI 70
Query: 358 QNSS--TVEAQGDKVRRRD 374
+ S + G VRRRD
Sbjct: 71 RPSEKLVLSEDGLXVRRRD 89
>pdb|2VQA|A Chain A, Protein-Folding Location Can Regulate Mn Versus Cu- Or Zn-
Binding. Crystal Structure Of Mnca.
pdb|2VQA|B Chain B, Protein-Folding Location Can Regulate Mn Versus Cu- Or Zn-
Binding. Crystal Structure Of Mnca.
pdb|2VQA|C Chain C, Protein-Folding Location Can Regulate Mn Versus Cu- Or Zn-
Binding. Crystal Structure Of Mnca
Length = 361
Score = 32.3 bits (72), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 34/149 (22%), Positives = 62/149 (41%), Gaps = 16/149 (10%)
Query: 401 ENPVDSIGNGDINKDNKREMPKENVGFSSNTGNLMENVPPSFDSVEIEPDNGEEHCDEFL 460
+ P+ S+G ++ + +E P G + TG L+ P + + P+ DE+
Sbjct: 209 QQPLVSLGGNELRLASAKEFP----GSFNMTGALIHLEPGAMRQLHWHPN-----ADEWQ 259
Query: 461 LLDDGK---PAFSAENGDSRTSLSESDMKFSNLGTNHNISSEDLSQRTESARFGDYGTQG 517
+ DG+ F++E S + L + D+ + G H I + F D Q
Sbjct: 260 YVLDGEMDLTVFASEGKASVSRLQQGDVGYVPKGYGHAIRNSSQKPLDIVVVFNDGDYQS 319
Query: 518 LERSSTVAVQNLIELSNDFANTFMLDEEL 546
++ S+ +A S+ NTF + EL
Sbjct: 320 IDLSTWLASNP----SSVLGNTFQISPEL 344
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
0.312 0.131 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,655,558
Number of Sequences: 62578
Number of extensions: 720480
Number of successful extensions: 909
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 898
Number of HSP's gapped (non-prelim): 8
length of query: 563
length of database: 14,973,337
effective HSP length: 104
effective length of query: 459
effective length of database: 8,465,225
effective search space: 3885538275
effective search space used: 3885538275
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: 54 (25.4 bits)