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= 002049
         (975 letters)

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

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



>pdb|4EJR|A Chain A, Crystal Structure Of Major Capsid Protein S Domain From
           Rabbit Hemorrhagic Disease Virus
 pdb|4EJR|B Chain B, Crystal Structure Of Major Capsid Protein S Domain From
           Rabbit Hemorrhagic Disease Virus
          Length = 255

 Score = 31.2 bits (69), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 27/76 (35%), Positives = 37/76 (48%), Gaps = 8/76 (10%)

Query: 86  DDIYVEGSGNLHILPGVTLCCP---IKGCLLTINVTGEFLLGRNSEIVAGTVYVSALNAS 142
           +++Y +GS  L  + G T   P     G   T +V G    G +  +VA T  V+A N  
Sbjct: 14  ENLYFQGS-KLEFMEGKTRTAPQGEAAGTATTASVPGTTTDGMDPGVVAATSVVTAEN-- 70

Query: 143 FSSGSVVNATGLGGEP 158
            SS SV  A G+GG P
Sbjct: 71  -SSASVATA-GIGGPP 84


>pdb|2FUJ|A Chain A, A Putative Acyl-Coa Thioesterase From Xanthomonas
           Campestris (Xc229)
          Length = 137

 Score = 30.8 bits (68), Expect = 3.5,   Method: Composition-based stats.
 Identities = 23/109 (21%), Positives = 52/109 (47%), Gaps = 4/109 (3%)

Query: 368 AKASVPLFWSRVQVRGQIHLSQGAVLSFGLAHYATSEFELLAEELLMSDSIVKIYGALRM 427
           A+  + + W  +   G  H++    +S+     A   + L  E + M+D I  +  A  +
Sbjct: 11  ARVPISVRWRDMDSMG--HVNNAKYISY--LEEARVRWMLGVEGVAMTDRIAPVVAATNV 66

Query: 428 SVKMHLMWNSKMLIDAGDDAILATSLLEATNLMVLKESSVIRSDANLGV 476
           + K  L+W + +L++   + + ++S+     ++  K+  V+ SD N+ V
Sbjct: 67  NYKRPLVWPNDILVELFVERLGSSSVTIGHRILDQKDEGVLYSDGNVVV 115


>pdb|1KLO|A Chain A, Crystal Structure Of Three Consecutive Laminin-Type
           Epidermal Growth Factor-Like (Le) Modules Of Laminin
           Gamma1 Chain Harboring The Nidogen Binding Site
          Length = 162

 Score = 29.6 bits (65), Expect = 8.5,   Method: Composition-based stats.
 Identities = 16/38 (42%), Positives = 19/38 (50%), Gaps = 2/38 (5%)

Query: 798 CPRGLYGVFCEECPVGTFKNVSGSDRA--LCRNCSSNE 833
           CP G  G  CE C  G F +  GS+    LCR C  N+
Sbjct: 23  CPTGTAGKRCELCDDGYFGDPLGSNGPVRLCRPCQCND 60


>pdb|1NPE|B Chain B, Crystal Structure Of Nidogen/laminin Complex
          Length = 164

 Score = 29.6 bits (65), Expect = 8.5,   Method: Composition-based stats.
 Identities = 16/38 (42%), Positives = 19/38 (50%), Gaps = 2/38 (5%)

Query: 798 CPRGLYGVFCEECPVGTFKNVSGSDRA--LCRNCSSNE 833
           CP G  G  CE C  G F +  GS+    LCR C  N+
Sbjct: 25  CPTGTAGKRCELCDDGYFGDPLGSNGPVRLCRPCQCND 62


  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    0.136    0.415 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,272,058
Number of Sequences: 62578
Number of extensions: 867665
Number of successful extensions: 1240
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1238
Number of HSP's gapped (non-prelim): 5
length of query: 975
length of database: 14,973,337
effective HSP length: 108
effective length of query: 867
effective length of database: 8,214,913
effective search space: 7122329571
effective search space used: 7122329571
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: 56 (26.2 bits)