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= psy8849
         (112 letters)

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

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



>pdb|2ID1|A Chain A, X-Ray Crystal Structure Of Protein Cv0518 From
           Chromobacterium Violaceum, Northeast Structural Genomics
           Consortium Target Cvr5.
 pdb|2ID1|B Chain B, X-Ray Crystal Structure Of Protein Cv0518 From
           Chromobacterium Violaceum, Northeast Structural Genomics
           Consortium Target Cvr5
          Length = 130

 Score = 65.9 bits (159), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 34/103 (33%), Positives = 51/103 (49%)

Query: 9   IVIKILKDIKAQDIKVYDTSNLTNLFDRITIASGSSKRQINALAVSIRXXXXXXXXXXXX 68
           + I+ L+DIK +DI   DTS LT+LF R  +A+G S RQ+ ALA S++            
Sbjct: 9   LAIEALEDIKGKDIIELDTSKLTSLFQRXIVATGDSNRQVKALANSVQVKLKEAGVDIVG 68

Query: 69  XXXXXSSEWXXXXXXXXXXXXMNPYIRNMYNLEEIWGEKEIKF 111
                S EW              P +R+ Y++E +WG ++  F
Sbjct: 69  SEGHESGEWVLVDAGDVVVHVXLPAVRDYYDIEALWGGQKPSF 111


>pdb|3UPS|A Chain A, Crystal Structure Of Iojap-Like Protein From Zymomonas
           Mobilis
          Length = 136

 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 24/97 (24%), Positives = 38/97 (39%)

Query: 9   IVIKILKDIKAQDIKVYDTSNLTNLFDRITIASGSSKRQINALAVSIRXXXXXXXXXXXX 68
           +V   L D +A +I     +  +++ D   IASG S RQ+ A A  +             
Sbjct: 25  LVTDSLDDDQALEIATIPLAGKSSIADYXVIASGRSSRQVTAXAQKLADRIKAATGYVSK 84

Query: 69  XXXXXSSEWXXXXXXXXXXXXMNPYIRNMYNLEEIWG 105
                +++W              P +R+ YNLE  WG
Sbjct: 85  IEGLPAADWVLLDAGDIIIHLFRPEVRSFYNLERXWG 121


>pdb|2O5A|A Chain A, Crystal Structure Of Q9kd89 From Bacillus Halodurans.
           Northeast Structural Genomics Target Bhr21
 pdb|2O5A|B Chain B, Crystal Structure Of Q9kd89 From Bacillus Halodurans.
           Northeast Structural Genomics Target Bhr21
          Length = 125

 Score = 32.3 bits (72), Expect = 0.071,   Method: Compositional matrix adjust.
 Identities = 18/98 (18%), Positives = 39/98 (39%)

Query: 9   IVIKILKDIKAQDIKVYDTSNLTNLFDRITIASGSSKRQINALAVSIRXXXXXXXXXXXX 68
           + +  + D KA+ +   +   ++ + D   I  G+S++Q+ A+A  ++            
Sbjct: 9   LAVNAVDDKKAEQVVALNXKGISLIADFFLICHGNSEKQVQAIAHELKKVAQEQGIEIKR 68

Query: 69  XXXXXSSEWXXXXXXXXXXXXMNPYIRNMYNLEEIWGE 106
                 + W             +   R  YNLE++WG+
Sbjct: 69  LEGYEQARWVLIDLGDVVVHVFHKDERAYYNLEKLWGD 106


  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    0.133    0.372 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,048,788
Number of Sequences: 62578
Number of extensions: 40702
Number of successful extensions: 145
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 129
Number of HSP's gapped (non-prelim): 14
length of query: 112
length of database: 14,973,337
effective HSP length: 76
effective length of query: 36
effective length of database: 10,217,409
effective search space: 367826724
effective search space used: 367826724
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)