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= 035575
         (132 letters)

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

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



>pdb|1C5B|L Chain L, Decarboxylase Catalytic Antibody 21d8 Unliganded Form
 pdb|1C5C|L Chain L, Decarboxylase Catalytic Antibody 21d8-Hapten Complex
          Length = 214

 Score = 26.6 bits (57), Expect = 4.0,   Method: Compositional matrix adjust.
 Identities = 28/89 (31%), Positives = 39/89 (43%), Gaps = 11/89 (12%)

Query: 37  IERATRIVDQRGVRRISGEPSGRSIFKVVGESRRKEEYLCFAENYCACYSFFYDIVNKGE 96
           I  AT++ D    +R SG  SG S + +   S   E+   FA+ YC  Y+ F      G 
Sbjct: 48  IYDATKL-DSGAPKRFSGSRSG-SDYSLTISSLESED---FADYYCLQYASFPRTFGGGT 102

Query: 97  QLCCKHQLAARLASALGACVEVNVSDEQL 125
           +L  K  +AA       +      SDEQL
Sbjct: 103 KLEIKRTVAAP------SVFIFPPSDEQL 125


>pdb|3VAB|A Chain A, Crystal Structure Of Diaminopimelate Decarboxylase From
           Brucella Melitensis Bound To Plp
 pdb|3VAB|B Chain B, Crystal Structure Of Diaminopimelate Decarboxylase From
           Brucella Melitensis Bound To Plp
          Length = 443

 Score = 25.8 bits (55), Expect = 7.0,   Method: Composition-based stats.
 Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 2/41 (4%)

Query: 44  VDQRGVRRI--SGEPSGRSIFKVVGESRRKEEYLCFAENYC 82
           V Q  +RR   +G P+ R +F  VG++ R+ ++   A  YC
Sbjct: 103 VSQGEIRRALAAGIPANRIVFSGVGKTPREMDFALEAGIYC 143


  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
   0.321    0.133    0.384 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,216,575
Number of Sequences: 62578
Number of extensions: 111149
Number of successful extensions: 278
Number of sequences better than 100.0: 2
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 278
Number of HSP's gapped (non-prelim): 2
length of query: 132
length of database: 14,973,337
effective HSP length: 88
effective length of query: 44
effective length of database: 9,466,473
effective search space: 416524812
effective search space used: 416524812
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)