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= 008981
         (547 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 = 63.2 bits (152), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 27/64 (42%), Positives = 44/64 (68%), Gaps = 1/64 (1%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  +I+++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 71

Query: 454 LRTS 457
           L  S
Sbjct: 72  LSKS 75


>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 = 62.8 bits (151), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 44/64 (68%), Gaps = 1/64 (1%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R+  LT++  +I+++
Sbjct: 11  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEA 70

Query: 454 LRTS 457
           L  S
Sbjct: 71  LSKS 74


>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 = 62.0 bits (149), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 43/64 (67%), Gaps = 1/64 (1%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ +   F R+  LT++  +I+++
Sbjct: 13  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEA 72

Query: 454 LRTS 457
           L  S
Sbjct: 73  LSKS 76


>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 = 61.6 bits (148), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/64 (42%), Positives = 43/64 (67%), Gaps = 1/64 (1%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVKNLTSNIQLILDS 453
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ +   F R+  LT++  +I+++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEA 71

Query: 454 LRTS 457
           L  S
Sbjct: 72  LSKS 75


>pdb|2CQK|A Chain A, Solution Structure Of The La Domain Of C-Mpl Binding
           Protein
          Length = 101

 Score = 49.3 bits (116), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 25/62 (40%), Positives = 38/62 (61%)

Query: 396 LAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRVKNLTSNIQLILDSLR 455
           L   L  Q+++ FS  NL KD +L S MD   ++PI  +A+   +K LT++  LIL+ LR
Sbjct: 14  LKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLR 73

Query: 456 TS 457
           +S
Sbjct: 74  SS 75


>pdb|1S29|A Chain A, La Autoantigen N-Terminal Domain
          Length = 92

 Score = 43.5 bits (101), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 19/60 (31%), Positives = 41/60 (68%), Gaps = 2/60 (3%)

Query: 400 LIHQIDYYFSDANLVKDEFLKSNMDD--QGWVPITLIASFPRVKNLTSNIQLILDSLRTS 457
           L  Q+++YFSD N+ +D FLK    +  +G+V +  + +F RV ++T++++ +++++R S
Sbjct: 14  LQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPS 73


  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    0.129    0.390 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,228,661
Number of Sequences: 62578
Number of extensions: 436371
Number of successful extensions: 451
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 439
Number of HSP's gapped (non-prelim): 9
length of query: 547
length of database: 14,973,337
effective HSP length: 104
effective length of query: 443
effective length of database: 8,465,225
effective search space: 3750094675
effective search space used: 3750094675
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 54 (25.4 bits)