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= psy7251
         (151 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



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

 Score = 52.8 bits (125), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 43/63 (68%), Gaps = 2/63 (3%)

Query: 22 EYYFSADNLVRDIFLRKKM--DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          E+YFS  N+ RDIFL+ K   + EGF+ +  + +F RV S+TTD+  V+ AI+ S+KL L
Sbjct: 19 EFYFSDVNVQRDIFLKGKXAENAEGFVSLETLLTFKRVNSVTTDVKEVVEAIRPSEKLVL 78

Query: 80 VDN 82
           ++
Sbjct: 79 SED 81


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

 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/62 (45%), Positives = 43/62 (69%), Gaps = 4/62 (6%)

Query: 22 EYYFSADNLVRDIFLRK--KMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLEL 79
          EYYF   NL RD FL++  K+D EG++P+ ++  F+R+  LTTD N ++ A+ KS K EL
Sbjct: 22 EYYFGDFNLPRDKFLKEQIKLD-EGWVPLEIMIKFNRLNRLTTDFNVIVEALSKS-KAEL 79

Query: 80 VD 81
          ++
Sbjct: 80 ME 81


>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 = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 42/61 (68%), Gaps = 2/61 (3%)

Query: 22 EYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
          EYYF   NL RD FL++++   EG++P+ ++  F+R+  LTTD N ++ A+ KS K EL+
Sbjct: 21 EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIMIKFNRLNRLTTDFNVIVEALSKS-KAELM 79

Query: 81 D 81
          +
Sbjct: 80 E 80


>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 = 46.6 bits (109), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 40/61 (65%), Gaps = 2/61 (3%)

Query: 22 EYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
          EYYF   NL RD FL++++   EG++P+ +   F+R+  LTTD N ++ A+ KS K EL 
Sbjct: 23 EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSKS-KAELX 81

Query: 81 D 81
          +
Sbjct: 82 E 82


>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 = 46.6 bits (109), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 26/61 (42%), Positives = 40/61 (65%), Gaps = 2/61 (3%)

Query: 22 EYYFSADNLVRDIFLRKKMD-PEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELV 80
          EYYF   NL RD FL++++   EG++P+ +   F+R+  LTTD N ++ A+ KS K EL 
Sbjct: 22 EYYFGDFNLPRDKFLKEQIKLDEGWVPLEIXIKFNRLNRLTTDFNVIVEALSKS-KAELX 80

Query: 81 D 81
          +
Sbjct: 81 E 81


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

 Score = 44.7 bits (104), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 18/54 (33%), Positives = 35/54 (64%)

Query: 21 FEYYFSADNLVRDIFLRKKMDPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKS 74
           E+ FS +NL +D++L  +MD + F+P+  +A+   ++ LTTD + +L  ++ S
Sbjct: 22 LEFCFSRENLSKDLYLISQMDSDQFIPIWTVANMEEIKKLTTDPDLILEVLRSS 75


>pdb|4G9Q|A Chain A, Crystal Structure Of A 4-Carboxymuconolactone
           Decarboxylase
          Length = 269

 Score = 28.5 bits (62), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 2/69 (2%)

Query: 2   DPEGFLPVTLITSFSHYMPFEYYFSADNLVRDIFLRKKMDPEGFLPVTLIA--SFSRVRS 59
           + E     T+   F    P    ++ D L RD++LR  + P     VT+ A  S  +V  
Sbjct: 160 EAEAQRATTVGNQFGSVAPGLVQYTTDYLFRDLWLRPDLAPRDRSLVTIAALISVGQVEQ 219

Query: 60  LTTDINRVL 68
           +T  +N+ L
Sbjct: 220 ITFHLNKAL 228


>pdb|1WDU|A Chain A, Endonuclease Domain Of Tras1, A Telomere-Specific Non-Ltr
           Retrotransposon
 pdb|1WDU|B Chain B, Endonuclease Domain Of Tras1, A Telomere-Specific Non-Ltr
           Retrotransposon
          Length = 245

 Score = 28.1 bits (61), Expect = 1.9,   Method: Compositional matrix adjust.
 Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 5/54 (9%)

Query: 43  EGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNFKVNQIIVIADTNG 96
           EG +P     +F  +R      +RV +     D L+L+D ++V++ +V +D NG
Sbjct: 188 EGDVP-----TFDTIRGGKRYQSRVDVTFCTEDMLDLIDGWRVDEDLVSSDHNG 236


>pdb|1Q15|A Chain A, Carbapenam Synthetase
 pdb|1Q15|B Chain B, Carbapenam Synthetase
 pdb|1Q15|C Chain C, Carbapenam Synthetase
 pdb|1Q15|D Chain D, Carbapenam Synthetase
 pdb|1Q19|A Chain A, Carbapenam Synthetase
 pdb|1Q19|B Chain B, Carbapenam Synthetase
 pdb|1Q19|C Chain C, Carbapenam Synthetase
 pdb|1Q19|D Chain D, Carbapenam Synthetase
          Length = 503

 Score = 25.8 bits (55), Expect = 8.9,   Method: Composition-based stats.
 Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 7/43 (16%)

Query: 41  DPEGFLPVTLIASFSRVRSLTTDINRVLLAIQKSDKLELVDNF 83
           D EG+       SF   R+LTT  +  LLA+ +   L L+D +
Sbjct: 191 DSEGY-------SFVESRTLTTPASNQLLALPREPLLALIDRY 226


  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
   0.324    0.140    0.394 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,337,965
Number of Sequences: 62578
Number of extensions: 103702
Number of successful extensions: 189
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 176
Number of HSP's gapped (non-prelim): 11
length of query: 151
length of database: 14,973,337
effective HSP length: 90
effective length of query: 61
effective length of database: 9,341,317
effective search space: 569820337
effective search space used: 569820337
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)