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= 024612
         (265 letters)

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

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



>pdb|2ZV6|A Chain A, Crystal Structure Of Human Squamous Cell Carcinoma Antigen
           1
 pdb|2ZV6|B Chain B, Crystal Structure Of Human Squamous Cell Carcinoma Antigen
           1
 pdb|2ZV6|C Chain C, Crystal Structure Of Human Squamous Cell Carcinoma Antigen
           1
          Length = 401

 Score = 31.6 bits (70), Expect = 0.48,   Method: Compositional matrix adjust.
 Identities = 26/99 (26%), Positives = 40/99 (40%), Gaps = 4/99 (4%)

Query: 52  STSLARKVFRLFKFVNDLHALISPVPQGTPLPLVLLGKSKNAL--LSTFLFLDQVVW--L 107
           +T     +F+ F+   + +   SP+   + L +VLLG   N    +   L  DQV     
Sbjct: 19  NTKFMFDLFQQFRKSKENNIFYSPISITSALGMVLLGAKDNTAQQIKKVLHFDQVTENTT 78

Query: 108 GRSGIYKVKTVLYVHFRFVSFFLPFPKRSTTMVLLQQNK 146
           G++  Y V     VH +F      F K +    L   NK
Sbjct: 79  GKAATYHVDRSGNVHHQFQKLLTEFNKSTDAYELKIANK 117


  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
   0.323    0.136    0.389 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,089,156
Number of Sequences: 62578
Number of extensions: 212427
Number of successful extensions: 388
Number of sequences better than 100.0: 1
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 388
Number of HSP's gapped (non-prelim): 1
length of query: 265
length of database: 14,973,337
effective HSP length: 97
effective length of query: 168
effective length of database: 8,903,271
effective search space: 1495749528
effective search space used: 1495749528
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)