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= 037899
         (113 letters)

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

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



>pdb|4FL3|A Chain A, Structural And Biophysical Characterization Of The Syk
           Activation Switch
          Length = 635

 Score = 26.9 bits (58), Expect = 3.2,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 5/62 (8%)

Query: 40  RINEYDENEMLMPTEESRRQLWG----GGFISYGALRANSVPCNRRGTSYYNCNHGGGPV 95
           RI++    ++ +P  +    LW       + + G LR  +VPC + GT   N N GG P 
Sbjct: 217 RIDKDKTGKLSIPEGKKFDTLWQLVEHYSYKADGLLRVLTVPCQKIGTQ-GNVNFGGRPQ 275

Query: 96  NP 97
            P
Sbjct: 276 LP 277


>pdb|4FL2|A Chain A, Structural And Biophysical Characterization Of The Syk
           Activation Switch
          Length = 636

 Score = 26.9 bits (58), Expect = 3.2,   Method: Composition-based stats.
 Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 5/62 (8%)

Query: 40  RINEYDENEMLMPTEESRRQLWG----GGFISYGALRANSVPCNRRGTSYYNCNHGGGPV 95
           RI++    ++ +P  +    LW       + + G LR  +VPC + GT   N N GG P 
Sbjct: 218 RIDKDKTGKLSIPEGKKFDTLWQLVEHYSYKADGLLRVLTVPCQKIGTQ-GNVNFGGRPQ 276

Query: 96  NP 97
            P
Sbjct: 277 LP 278


>pdb|4AG5|A Chain A, Structure Of Virb4 Of Thermoanaerobacter
          Pseudethanolicus
 pdb|4AG5|B Chain B, Structure Of Virb4 Of Thermoanaerobacter
          Pseudethanolicus
 pdb|4AG5|C Chain C, Structure Of Virb4 Of Thermoanaerobacter
          Pseudethanolicus
 pdb|4AG5|D Chain D, Structure Of Virb4 Of Thermoanaerobacter
          Pseudethanolicus
          Length = 392

 Score = 25.8 bits (55), Expect = 6.0,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 25/68 (36%), Gaps = 5/68 (7%)

Query: 30 SNWGRINNVGRINEYDENEMLMPTEESRRQLWGGGFISYGALRANSVPCNRRGTSYYNCN 89
          SNW  +   G    +    +L+     R  + G   I     R     C + G  + NC 
Sbjct: 36 SNWTILAKPGAGKSFTAKMLLL-----REYMQGSRVIIIDPEREYKEMCRKLGGVWINCT 90

Query: 90 HGGGPVNP 97
           G G +NP
Sbjct: 91 GGEGKINP 98


>pdb|2A1R|A Chain A, Crystal Structure Of Parn Nuclease Domain
 pdb|2A1R|B Chain B, Crystal Structure Of Parn Nuclease Domain
 pdb|2A1S|A Chain A, Crystal Structure Of Native Parn Nuclease Domain
 pdb|2A1S|B Chain B, Crystal Structure Of Native Parn Nuclease Domain
 pdb|2A1S|C Chain C, Crystal Structure Of Native Parn Nuclease Domain
 pdb|2A1S|D Chain D, Crystal Structure Of Native Parn Nuclease Domain
          Length = 430

 Score = 25.8 bits (55), Expect = 6.8,   Method: Composition-based stats.
 Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)

Query: 24  SRAFDGSNWGRINNVGRINEYDENEMLMPTEESRRQLWGGGFISYGALRANSVP 77
           S+ FD +   R N +  +N+ +E ++    +E R Q  G G +SY +   +  P
Sbjct: 118 SQGFDFNKVFR-NGIPYLNQEEERQLREQYDEKRSQANGAGALSYVSPNTSKCP 170


>pdb|4AG6|A Chain A, Structure Of Virb4 Of Thermoanaerobacter
          Pseudethanolicus
 pdb|4AG6|B Chain B, Structure Of Virb4 Of Thermoanaerobacter
          Pseudethanolicus
 pdb|4AG6|C Chain C, Structure Of Virb4 Of Thermoanaerobacter
          Pseudethanolicus
 pdb|4AG6|D Chain D, Structure Of Virb4 Of Thermoanaerobacter
          Pseudethanolicus
          Length = 392

 Score = 25.4 bits (54), Expect = 8.1,   Method: Composition-based stats.
 Identities = 17/68 (25%), Positives = 24/68 (35%), Gaps = 5/68 (7%)

Query: 30 SNWGRINNVGRINEYDENEMLMPTEESRRQLWGGGFISYGALRANSVPCNRRGTSYYNCN 89
          SNW  +   G    +    +L+     R    G   I     R     C + G  + NC 
Sbjct: 36 SNWTILAKPGAGKSFTAKXLLL-----REYXQGSRVIIIDPEREYKEXCRKLGGVWINCT 90

Query: 90 HGGGPVNP 97
           G G +NP
Sbjct: 91 GGEGKINP 98


  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
   0.318    0.135    0.431 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,234,152
Number of Sequences: 62578
Number of extensions: 120581
Number of successful extensions: 532
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 531
Number of HSP's gapped (non-prelim): 6
length of query: 113
length of database: 14,973,337
effective HSP length: 77
effective length of query: 36
effective length of database: 10,154,831
effective search space: 365573916
effective search space used: 365573916
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)