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= 026427
         (238 letters)

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

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



>pdb|1AQC|A Chain A, X11 Ptb Domain-10mer Peptide Complex
 pdb|1AQC|B Chain B, X11 Ptb Domain-10mer Peptide Complex
 pdb|1X11|A Chain A, X11 Ptb Domain
 pdb|1X11|B Chain B, X11 Ptb Domain
          Length = 172

 Score = 30.4 bits (67), Expect = 0.80,   Method: Compositional matrix adjust.
 Identities = 21/58 (36%), Positives = 31/58 (53%), Gaps = 7/58 (12%)

Query: 145 EDIVDGIACFMAAYLLSLK------QAKNLTPNQLQEALSKTFSVKKRKGKLRKAWDG 196
           ED++DGI  F A YL S +       +KN+   Q QEA+S+    +K     +KA +G
Sbjct: 2   EDLIDGI-IFAANYLGSTQLLSDKTPSKNVRXXQAQEAVSRIKXAQKLAKSRKKAPEG 58


>pdb|4FMB|A Chain A, Vira-Rab1 Complex Structure
 pdb|4FMB|C Chain C, Vira-Rab1 Complex Structure
 pdb|4FMB|E Chain E, Vira-Rab1 Complex Structure
          Length = 361

 Score = 28.1 bits (61), Expect = 3.9,   Method: Compositional matrix adjust.
 Identities = 9/23 (39%), Positives = 15/23 (65%)

Query: 213 IYQNPVILRAASKAFWTSCHVIS 235
           ++Q+P  + A + AFW S H+ S
Sbjct: 225 LFQDPAFISALTSAFWQSLHITS 247


>pdb|3EB8|A Chain A, Vira
 pdb|3EB8|B Chain B, Vira
          Length = 358

 Score = 28.1 bits (61), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 9/23 (39%), Positives = 15/23 (65%)

Query: 213 IYQNPVILRAASKAFWTSCHVIS 235
           ++Q+P  + A + AFW S H+ S
Sbjct: 222 LFQDPAFISALTSAFWQSLHITS 244


>pdb|3EE1|A Chain A, Novel Fold Of Vira, A Type Iii Secretion System Effector
           Protein From Shigella Flexneri
 pdb|3EE1|B Chain B, Novel Fold Of Vira, A Type Iii Secretion System Effector
           Protein From Shigella Flexneri
          Length = 400

 Score = 28.1 bits (61), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 9/25 (36%), Positives = 15/25 (60%)

Query: 211 VGIYQNPVILRAASKAFWTSCHVIS 235
             ++Q+P  + A + AFW S H+ S
Sbjct: 262 TSLFQDPAFISALTSAFWQSLHITS 286


>pdb|1DOI|A Chain A, 2fe-2s Ferredoxin From Haloarcula Marismortui
          Length = 128

 Score = 27.7 bits (60), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 11/27 (40%), Positives = 18/27 (66%)

Query: 113 IEGSSWDMVSDNDLWESGNIDLDREDY 139
           ++ + WDM  D+   E+ ++DLD EDY
Sbjct: 11  VDDNGWDMYDDDVFGEASDMDLDDEDY 37


>pdb|3FXJ|A Chain A, Crystal Structure Of Human Protein Phosphatase 1a (Ppm1a)
           Bound With Phosphate At 3 Mm Of Mn2+
 pdb|3FXK|A Chain A, Crystal Structure Of Human Protein Phosphatase 1a (Ppm1a)
           Bound With Phosphate At 10 Mm Of Mn2+
 pdb|3FXL|A Chain A, Crystal Structure Of Human Protein Phosphatase 1a (Ppm1a)
           Bound With Citrate At 1 Mm Of Mn2+
 pdb|3FXM|A Chain A, Crystal Structure Of Human Protein Phosphatase 1a (Ppm1a)
           Bound With Citrate At 10 Mm Of Mn2+
 pdb|3FXO|A Chain A, Crystal Structure Of Human Protein Phosphatase 1a (Ppm1a)
           Bound With Phosphate At 1 Mm Of Mn2+
          Length = 390

 Score = 27.3 bits (59), Expect = 7.9,   Method: Compositional matrix adjust.
 Identities = 11/20 (55%), Positives = 16/20 (80%)

Query: 82  DELCDLLRSRVECPDFLDKL 101
           +ELCD +RSR+E  D L+K+
Sbjct: 248 EELCDFVRSRLEVTDDLEKV 267


>pdb|1A6Q|A Chain A, Crystal Structure Of The Protein SerineTHREONINE
           PHOSPHATASE 2C AT 2 A Resolution
          Length = 382

 Score = 27.3 bits (59), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 11/20 (55%), Positives = 16/20 (80%)

Query: 82  DELCDLLRSRVECPDFLDKL 101
           +ELCD +RSR+E  D L+K+
Sbjct: 248 EELCDFVRSRLEVTDDLEKV 267


  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
   0.314    0.130    0.375 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,224,734
Number of Sequences: 62578
Number of extensions: 245739
Number of successful extensions: 413
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 406
Number of HSP's gapped (non-prelim): 14
length of query: 238
length of database: 14,973,337
effective HSP length: 96
effective length of query: 142
effective length of database: 8,965,849
effective search space: 1273150558
effective search space used: 1273150558
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)