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= 037991
         (560 letters)

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

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



>pdb|2VZA|A Chain A, Type Iv Secretion System Effector Protein Bepa
 pdb|2VZA|B Chain B, Type Iv Secretion System Effector Protein Bepa
 pdb|2VZA|C Chain C, Type Iv Secretion System Effector Protein Bepa
 pdb|2VZA|D Chain D, Type Iv Secretion System Effector Protein Bepa
 pdb|2VZA|E Chain E, Type Iv Secretion System Effector Protein Bepa
 pdb|2VZA|F Chain F, Type Iv Secretion System Effector Protein Bepa
 pdb|2VZA|G Chain G, Type Iv Secretion System Effector Protein Bepa
 pdb|2VZA|H Chain H, Type Iv Secretion System Effector Protein Bepa
          Length = 298

 Score = 32.7 bits (73), Expect = 0.49,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 38/78 (48%), Gaps = 2/78 (2%)

Query: 8   RDVVLSHRFLKSYLCVIFSCVFLGGFTFSTFRLLFRERFRPALGSTWRAPIMRATGDESP 67
           R+  L   F  +YLC I   +F   F ++ +  L    F  A G+T   P M+ TG ++ 
Sbjct: 47  REESLPEYFDTAYLCHIHQQLFKNTFEWAGY--LRHIPFTFADGTTAAMPEMKRTGWKNA 104

Query: 68  ISLGVSLRETVMLPDQVL 85
            ++G  ++E +   DQ L
Sbjct: 105 FAIGDEIQEGLQRLDQTL 122


>pdb|2JK8|A Chain A, Type Iv Secretion System Effector Protein Bepa Complexed
           With A Pyrophosphate Moiety
 pdb|2JK8|B Chain B, Type Iv Secretion System Effector Protein Bepa Complexed
           With A Pyrophosphate Moiety
          Length = 302

 Score = 32.7 bits (73), Expect = 0.58,   Method: Compositional matrix adjust.
 Identities = 23/78 (29%), Positives = 38/78 (48%), Gaps = 2/78 (2%)

Query: 8   RDVVLSHRFLKSYLCVIFSCVFLGGFTFSTFRLLFRERFRPALGSTWRAPIMRATGDESP 67
           R+  L   F  +YLC I   +F   F ++ +  L    F  A G+T   P M+ TG ++ 
Sbjct: 55  REESLPEYFDTAYLCHIHQQLFKNTFEWAGY--LRHIPFTFADGTTAAMPEMKRTGWKNA 112

Query: 68  ISLGVSLRETVMLPDQVL 85
            ++G  ++E +   DQ L
Sbjct: 113 FAIGDEIQEGLQRLDQTL 130


  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
   0.326    0.141    0.451 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,746,875
Number of Sequences: 62578
Number of extensions: 762729
Number of successful extensions: 1702
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1702
Number of HSP's gapped (non-prelim): 2
length of query: 560
length of database: 14,973,337
effective HSP length: 104
effective length of query: 456
effective length of database: 8,465,225
effective search space: 3860142600
effective search space used: 3860142600
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)