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= 030063
         (183 letters)

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

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



>pdb|3QUM|H Chain H, Crystal Structure Of Human Prostate Specific Antigen (Psa)
           In Fab Sandwich With A High Affinity And A Pca Selective
           Antibody
 pdb|3QUM|K Chain K, Crystal Structure Of Human Prostate Specific Antigen (Psa)
           In Fab Sandwich With A High Affinity And A Pca Selective
           Antibody
          Length = 219

 Score = 28.1 bits (61), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 14/42 (33%), Positives = 23/42 (54%)

Query: 125 EFPHQCLIRRNKKTSTFYLYLALTPYVLSYLDFCKREGYICY 166
           +F  +  +  +K +ST Y+ L+    V S + FC R+GY  Y
Sbjct: 63  KFKDKATLTVDKSSSTAYMQLSSLTSVDSAVYFCARDGYRYY 104


>pdb|4F2M|A Chain A, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
           Complex With The Tgev Neutralizing Monoclonal Antibody
           1af10
 pdb|4F2M|C Chain C, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
           Complex With The Tgev Neutralizing Monoclonal Antibody
           1af10
          Length = 221

 Score = 27.7 bits (60), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 13/40 (32%), Positives = 22/40 (55%)

Query: 124 REFPHQCLIRRNKKTSTFYLYLALTPYVLSYLDFCKREGY 163
            +F  +  +  +K +ST Y++L+    V S + FC R GY
Sbjct: 62  EKFKGKATLTADKSSSTAYMHLSSLTSVDSAVYFCARGGY 101


>pdb|3ESV|F Chain F, Crystal Structure Of The Engineered Neutralizing Antibody
           M18
 pdb|3ESV|G Chain G, Crystal Structure Of The Engineered Neutralizing Antibody
           M18
 pdb|3ETB|F Chain F, Crystal Structure Of The Engineered Neutralizing Antibody
           M18 Complexed With Anthrax Protective Antigen Domain 4
 pdb|3ETB|G Chain G, Crystal Structure Of The Engineered Neutralizing Antibody
           M18 Complexed With Anthrax Protective Antigen Domain 4
 pdb|3ETB|H Chain H, Crystal Structure Of The Engineered Neutralizing Antibody
           M18 Complexed With Anthrax Protective Antigen Domain 4
 pdb|3ETB|I Chain I, Crystal Structure Of The Engineered Neutralizing Antibody
           M18 Complexed With Anthrax Protective Antigen Domain 4
          Length = 252

 Score = 27.3 bits (59), Expect = 4.6,   Method: Compositional matrix adjust.
 Identities = 13/43 (30%), Positives = 23/43 (53%)

Query: 125 EFPHQCLIRRNKKTSTFYLYLALTPYVLSYLDFCKREGYICYC 167
           +F  + ++  +K +ST Y+ L+    V S + FC R G + Y 
Sbjct: 196 KFEGKAILTADKSSSTAYMQLSSLTSVDSAVYFCARSGLLRYA 238


  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
   0.325    0.138    0.445 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,503,732
Number of Sequences: 62578
Number of extensions: 148845
Number of successful extensions: 319
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 315
Number of HSP's gapped (non-prelim): 4
length of query: 183
length of database: 14,973,337
effective HSP length: 93
effective length of query: 90
effective length of database: 9,153,583
effective search space: 823822470
effective search space used: 823822470
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)