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= 007304
         (608 letters)

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

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



>pdb|1MKF|A Chain A, Viral Chemokine Binding Protein M3 From Murine
           Gammaherpesvirus 68
 pdb|1MKF|B Chain B, Viral Chemokine Binding Protein M3 From Murine
           Gammaherpesvirus 68
 pdb|1ML0|A Chain A, Viral Chemokine Binding Protein M3 From Murine
           Gammaherpesvirus68 In Complex With The P8a Variant Of
           Cc-Chemokine Mcp-1
 pdb|2NYZ|A Chain A, Viral Chemokine Binding Protein M3 From Murine
           Gammaherpesvirus68 In Complex With The C- Chemokine Xcl1
 pdb|2NYZ|B Chain B, Viral Chemokine Binding Protein M3 From Murine
           Gammaherpesvirus68 In Complex With The C- Chemokine Xcl1
 pdb|2NZ1|A Chain A, Viral Chemokine Binding Protein M3 From Murine
           Gammaherpesvirus68 In Complex With The Cc-Chemokine
           Ccl2MCP-1
 pdb|2NZ1|B Chain B, Viral Chemokine Binding Protein M3 From Murine
           Gammaherpesvirus68 In Complex With The Cc-Chemokine
           Ccl2MCP-1
 pdb|2NZ1|X Chain X, Viral Chemokine Binding Protein M3 From Murine
           Gammaherpesvirus68 In Complex With The Cc-Chemokine
           Ccl2MCP-1
          Length = 382

 Score = 31.6 bits (70), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 17/39 (43%), Positives = 22/39 (56%)

Query: 97  PVRKYAKIKHRALILTSTDGSQTSFPLKGCEIKAVSASS 135
           PVR  +K+ H AL +TS DG  TS   + C I+ V   S
Sbjct: 308 PVRPSSKLYHCALQMTSHDGVWTSTSSEQCPIRLVEGQS 346


>pdb|3P42|A Chain A, Structure Of Gfcc (Ymcb), Protein Encoded By The E. Coli
           Group 4 Capsule Operon
 pdb|3P42|B Chain B, Structure Of Gfcc (Ymcb), Protein Encoded By The E. Coli
           Group 4 Capsule Operon
 pdb|3P42|C Chain C, Structure Of Gfcc (Ymcb), Protein Encoded By The E. Coli
           Group 4 Capsule Operon
 pdb|3P42|D Chain D, Structure Of Gfcc (Ymcb), Protein Encoded By The E. Coli
           Group 4 Capsule Operon
          Length = 236

 Score = 31.6 bits (70), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 9/16 (56%), Positives = 13/16 (81%)

Query: 551 HIKPPPSDQLWFGFTS 566
           H++PPP  QLW GF++
Sbjct: 189 HVEPPPGSQLWLGFSA 204


>pdb|3OPN|A Chain A, The Crystal Structure Of A Putative Hemolysin From
           Lactococcus Lactis
          Length = 232

 Score = 31.6 bits (70), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 38/137 (27%), Positives = 54/137 (39%), Gaps = 28/137 (20%)

Query: 113 STDGSQTSFPLKGCEIKAVSASSLSSRKWAKRFPIKVENKSSV-------------LYNG 159
           S DG  T   LKG +++ VS   L   K  K F +++  K+ +             L NG
Sbjct: 2   SLDG--TELRLKGEKLRYVSRGGLKLEKALKEFHLEINGKTCLDIGSSTGGFTDVXLQNG 59

Query: 160 SKLIYIFLETSWEKEAWCKALRLASCEDKKRLEWFTKLNEDFHIYLTTLVAGYPSFTKPS 219
           +KL+Y  L+    + AW    ++ S E     E F   N      L     G PSFT   
Sbjct: 60  AKLVYA-LDVGTNQLAW----KIRSDERVVVXEQFNFRNA----VLADFEQGRPSFTSID 110

Query: 220 TGMTGESPSMGLIADPM 236
                   S+ LI  P+
Sbjct: 111 VSFI----SLDLILPPL 123


  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
   0.317    0.132    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,147,549
Number of Sequences: 62578
Number of extensions: 641707
Number of successful extensions: 1193
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1191
Number of HSP's gapped (non-prelim): 3
length of query: 608
length of database: 14,973,337
effective HSP length: 104
effective length of query: 504
effective length of database: 8,465,225
effective search space: 4266473400
effective search space used: 4266473400
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: 54 (25.4 bits)