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= psy10920
         (271 letters)

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

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



>pdb|1G4U|S Chain S, Crystal Structure Of The Salmonella Tyrosine Phosphatase
           And Gtpase Activating Protein Sptp Bound To Rac1
 pdb|1G4W|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase
           And Gtpase Activating Protein Sptp
          Length = 383

 Score = 28.9 bits (63), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 11/29 (37%), Positives = 19/29 (65%)

Query: 39  NVHGMAEEVKNVHGIAEEVKNVHGMAEEV 67
           + H + + VK +H IA+E+KNV    E++
Sbjct: 102 STHELTQAVKKIHVIAKELKNVTAELEKI 130



 Score = 27.3 bits (59), Expect = 8.5,   Method: Compositional matrix adjust.
 Identities = 10/29 (34%), Positives = 19/29 (65%)

Query: 49  NVHGIAEEVKNVHGMAEEVKNVHGMAEEV 77
           + H + + VK +H +A+E+KNV    E++
Sbjct: 102 STHELTQAVKKIHVIAKELKNVTAELEKI 130


>pdb|3BF8|A Chain A, 1.1 Resolution Structure Of Ybff, A New Esterase From
          Escherichia Coli: A Unique Substrate-Binding Crevice
          Generated By Domain Arrangement
 pdb|3BF8|B Chain B, 1.1 Resolution Structure Of Ybff, A New Esterase From
          Escherichia Coli: A Unique Substrate-Binding Crevice
          Generated By Domain Arrangement
          Length = 255

 Score = 28.1 bits (61), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 11/71 (15%)

Query: 17 KFNVHGMAEEVKH-------VHGMAEEVKNVHGMAEEVKNVHGIAE-EVKNVHGMA--EE 66
          K N+     + +H       VHG+   + N+  +A ++ N H I + +V+N HG++  E 
Sbjct: 2  KLNIRAQTAQNQHNNSPIVLVHGLFGSLDNLGVLARDLVNDHNIIQVDVRN-HGLSPREP 60

Query: 67 VKNVHGMAEEV 77
          V N   MA+++
Sbjct: 61 VMNYPAMAQDL 71


>pdb|3BF7|A Chain A, 1.1 Resolution Structure Of Ybff, A New Esterase From
          Escherichia Coli: A Unique Substrate-Binding Crevice
          Generated By Domain Arrangement
 pdb|3BF7|B Chain B, 1.1 Resolution Structure Of Ybff, A New Esterase From
          Escherichia Coli: A Unique Substrate-Binding Crevice
          Generated By Domain Arrangement
          Length = 255

 Score = 28.1 bits (61), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 20/71 (28%), Positives = 37/71 (52%), Gaps = 11/71 (15%)

Query: 17 KFNVHGMAEEVKH-------VHGMAEEVKNVHGMAEEVKNVHGIAE-EVKNVHGMA--EE 66
          K N+     + +H       VHG+   + N+  +A ++ N H I + +V+N HG++  E 
Sbjct: 2  KLNIRAQTAQNQHNNSPIVLVHGLFGSLDNLGVLARDLVNDHNIIQVDVRN-HGLSPREP 60

Query: 67 VKNVHGMAEEV 77
          V N   MA+++
Sbjct: 61 VMNYPAMAQDL 71


  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    0.136    0.477 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,269,269
Number of Sequences: 62578
Number of extensions: 603204
Number of successful extensions: 861
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 824
Number of HSP's gapped (non-prelim): 36
length of query: 271
length of database: 14,973,337
effective HSP length: 97
effective length of query: 174
effective length of database: 8,903,271
effective search space: 1549169154
effective search space used: 1549169154
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: 51 (24.3 bits)