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= 020629
         (323 letters)

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

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



>pdb|1RBU|A Chain A, Structural Study Of Mutants Of Escherichia Coli
           Ribonuclease Hi With Enhanced Thermostability
          Length = 155

 Score = 30.0 bits (66), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 2/53 (3%)

Query: 213 FFRSGLKPRLQNWSSRQDKTLRSSNKVTDQYDLWKALKTVFSKERVMFGLVSG 265
           + R G+   + NW  R  KT  + NK     DLW+ L     + ++ +  V G
Sbjct: 73  YVRQGITQWIHNWKKRGWKT--ADNKPVKNVDLWQRLDAALGQHQIKWEWVKG 123


>pdb|1MHP|L Chain L, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
           In Complex With The Fab Fragment Of A Humanized
           Neutralizing Antibody
 pdb|1MHP|Y Chain Y, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
           In Complex With The Fab Fragment Of A Humanized
           Neutralizing Antibody
          Length = 212

 Score = 28.9 bits (63), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 14/38 (36%), Positives = 19/38 (50%)

Query: 135 PEDLCMYSAVVWLFNPFTFTIGTRGNCEPIVCAMILWI 172
           PED   Y    W  NP+TF  GT+   +  V A  ++I
Sbjct: 78  PEDFATYYCQQWSGNPWTFGQGTKVEIKRTVAAPSVFI 115


>pdb|3BKY|L Chain L, Crystal Structure Of Chimeric Antibody C2h7 Fab In Complex
           With A Cd20 Peptide
          Length = 213

 Score = 28.1 bits (61), Expect = 6.9,   Method: Compositional matrix adjust.
 Identities = 14/37 (37%), Positives = 18/37 (48%)

Query: 136 EDLCMYSAVVWLFNPFTFTIGTRGNCEPIVCAMILWI 172
           ED   Y    W FNP TF  GT+   +  V A  ++I
Sbjct: 80  EDAATYYCQQWSFNPPTFGAGTKLELKRTVAAPSVFI 116


  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
   0.329    0.141    0.459 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,842,522
Number of Sequences: 62578
Number of extensions: 319012
Number of successful extensions: 798
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 794
Number of HSP's gapped (non-prelim): 5
length of query: 323
length of database: 14,973,337
effective HSP length: 99
effective length of query: 224
effective length of database: 8,778,115
effective search space: 1966297760
effective search space used: 1966297760
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 51 (24.3 bits)