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= 012704
         (458 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 = 53.1 bits (126), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 34/48 (70%), Gaps = 1/48 (2%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 441
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct: 11  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 58


>pdb|1S7A|A Chain A, Nmr Structure Of The La Motif Of Human La Protein
          Length = 103

 Score = 52.8 bits (125), Expect = 4e-07,   Method: Composition-based stats.
 Identities = 22/48 (45%), Positives = 34/48 (70%), Gaps = 1/48 (2%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 441
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ ++  F R++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLN 59


>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 = 52.4 bits (124), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 33/48 (68%), Gaps = 1/48 (2%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 441
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ +   F R++
Sbjct: 13  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLN 60


>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 = 52.0 bits (123), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 33/48 (68%), Gaps = 1/48 (2%)

Query: 395 SLAAMLIHQIDYYFSDANLVKDEFLKSNMD-DQGWVPITLIASFPRVS 441
           +L A + HQI+YYF D NL +D+FLK  +  D+GWVP+ +   F R++
Sbjct: 12  ALEAKICHQIEYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLN 59


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

 Score = 33.9 bits (76), Expect = 0.20,   Method: Composition-based stats.
 Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 2/44 (4%)

Query: 400 LIHQIDYYFSDANLVKDEFLKSNMDD--QGWVPITLIASFPRVS 441
           L  Q+++YFSD N+ +D FLK    +  +G+V +  + +F RV+
Sbjct: 14  LQKQVEFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVN 57


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

 Score = 33.9 bits (76), Expect = 0.21,   Method: Composition-based stats.
 Identities = 16/45 (35%), Positives = 25/45 (55%)

Query: 396 LAAMLIHQIDYYFSDANLVKDEFLKSNMDDQGWVPITLIASFPRV 440
           L   L  Q+++ FS  NL KD +L S MD   ++PI  +A+   +
Sbjct: 14  LKECLKKQLEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEI 58


  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
   0.315    0.132    0.402 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,802,655
Number of Sequences: 62578
Number of extensions: 351754
Number of successful extensions: 355
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: 343
Number of HSP's gapped (non-prelim): 9
length of query: 458
length of database: 14,973,337
effective HSP length: 102
effective length of query: 356
effective length of database: 8,590,381
effective search space: 3058175636
effective search space used: 3058175636
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)