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= 042898
         (135 letters)

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

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



>pdb|1HYP|A Chain A, Crystal Structure Of Hydrophobic Protein From Soybean; A
           Member Of A New Cystine-Rich Family
          Length = 80

 Score = 31.2 bits (69), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 8/54 (14%)

Query: 53  LGACVDVPGGLIHIGLGHNAKEKCCPLLQGLADLDAAICLCTAIRVNALKLINL 106
           L  C+++ GG +         + CC L+ GL D++A +CLC  +R  AL ++NL
Sbjct: 11  LSICLNILGGSL------GTVDDCCALIGGLGDIEAIVCLCIQLR--ALGILNL 56


>pdb|2JQN|A Chain A, Solution Nmr Structure Of Cc0527 From Caulobacter
          Crescentus. Northeast Structural Genomics Target Ccr55
          Length = 122

 Score = 30.8 bits (68), Expect = 0.21,   Method: Compositional matrix adjust.
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 54 GACVDVPGGLIHIGLGHNAKEKCCPLLQGLADL 86
          G+ VD+  G IH+  G  A+E      +G A+L
Sbjct: 24 GSAVDLADGFIHLSAGEQAQETAAKWFRGQANL 56


>pdb|2O0Q|A Chain A, X-Ray Crystal Structure Of Protein Cc0527 From
          Caulobacter Crescentus. Northeast Structural Genomics
          Consortium Target Ccr55
          Length = 115

 Score = 30.8 bits (68), Expect = 0.22,   Method: Compositional matrix adjust.
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 54 GACVDVPGGLIHIGLGHNAKEKCCPLLQGLADL 86
          G+ VD+  G IH+  G  A+E      +G A+L
Sbjct: 24 GSAVDLADGFIHLSAGEQAQETAAKWFRGQANL 56


>pdb|3SI9|A Chain A, Crystal Structure Of Dihydrodipicolinate Synthase From
           Bartonella Henselae
 pdb|3SI9|B Chain B, Crystal Structure Of Dihydrodipicolinate Synthase From
           Bartonella Henselae
 pdb|3SI9|C Chain C, Crystal Structure Of Dihydrodipicolinate Synthase From
           Bartonella Henselae
 pdb|3SI9|D Chain D, Crystal Structure Of Dihydrodipicolinate Synthase From
           Bartonella Henselae
          Length = 315

 Score = 28.5 bits (62), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 8/64 (12%)

Query: 61  GGLIHIGLGHNAKEKCCPLLQGLADLDAAICLCTAIRVNALKLINLLVPISLQVLVSTTV 120
           GG+  I +  N   K C  L        A CLC+  +  ALKL +LL+P++  V +  + 
Sbjct: 220 GGVGCISVSSNVAPKLCAQLH-------AACLCSDYKT-ALKLNDLLMPLNRAVFIEPSP 271

Query: 121 ANIR 124
           A I+
Sbjct: 272 AGIK 275


  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
   0.324    0.141    0.445 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,547,625
Number of Sequences: 62578
Number of extensions: 77018
Number of successful extensions: 115
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 112
Number of HSP's gapped (non-prelim): 4
length of query: 135
length of database: 14,973,337
effective HSP length: 88
effective length of query: 47
effective length of database: 9,466,473
effective search space: 444924231
effective search space used: 444924231
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 46 (22.3 bits)