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= psy15628
         (90 letters)

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

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



>pdb|3PWU|A Chain A, An Immmunodominant Ctl Epitope From Rinderpest Virus
          Presented By Cattle Mhc Class I Molecule
          N01801(Bola-A11)
 pdb|3PWV|A Chain A, An Immmunodominant Ctl Epitope From Rinderpest Virus
          Presented By Cattle Mhc Class I Molecule N01801
          (Bola-A11)
 pdb|3PWV|D Chain D, An Immmunodominant Ctl Epitope From Rinderpest Virus
          Presented By Cattle Mhc Class I Molecule N01801
          (Bola-A11)
          Length = 274

 Score = 27.7 bits (60), Expect = 1.7,   Method: Composition-based stats.
 Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 23 YSSVSTLGEAGIVQFRDVSITLDTQFNRFQEERPMCVSSSRVDW 66
          Y++VS  G  G  +F  V    DTQF RF  + P      RV W
Sbjct: 8  YTAVSRPG-LGEPRFIAVGYVDDTQFTRFDSDAPNPRDEPRVPW 50


>pdb|1A0D|A Chain A, Xylose Isomerase From Bacillus Stearothermophilus
 pdb|1A0D|B Chain B, Xylose Isomerase From Bacillus Stearothermophilus
 pdb|1A0D|C Chain C, Xylose Isomerase From Bacillus Stearothermophilus
 pdb|1A0D|D Chain D, Xylose Isomerase From Bacillus Stearothermophilus
          Length = 440

 Score = 26.9 bits (58), Expect = 2.7,   Method: Composition-based stats.
 Identities = 11/27 (40%), Positives = 16/27 (59%)

Query: 54  ERPMCVSSSRVDWNTSHAFRHTPFVKG 80
           E  M  S +++ WNT++ F H  FV G
Sbjct: 124 EEYMKTSKTKLLWNTANLFTHPRFVHG 150


>pdb|2LX4|A Chain A, Nmr Solution Structure Of Peptide A2n(1-17) From Mus
          Musculus V-atpase
          Length = 17

 Score = 26.9 bits (58), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 11/17 (64%), Positives = 14/17 (82%)

Query: 1  MGAMFRSEEMALCQLFI 17
          MG++FRSE M L QLF+
Sbjct: 1  MGSLFRSESMCLAQLFL 17


>pdb|3UE9|A Chain A, Crystal Structure Of Adenylosuccinate Synthetase (Ampsase)
           (Pura) From Burkholderia Thailandensis
 pdb|3UE9|B Chain B, Crystal Structure Of Adenylosuccinate Synthetase (Ampsase)
           (Pura) From Burkholderia Thailandensis
 pdb|3UE9|C Chain C, Crystal Structure Of Adenylosuccinate Synthetase (Ampsase)
           (Pura) From Burkholderia Thailandensis
 pdb|3UE9|D Chain D, Crystal Structure Of Adenylosuccinate Synthetase (Ampsase)
           (Pura) From Burkholderia Thailandensis
          Length = 452

 Score = 26.9 bits (58), Expect = 3.1,   Method: Composition-based stats.
 Identities = 19/59 (32%), Positives = 24/59 (40%), Gaps = 4/59 (6%)

Query: 29  LGEAGIVQFRDVSITLDTQFNRFQEERPMCVSSSRVDWNTSHAFRHTPFVKGLGITLPL 87
           LG A +    D   TLDT        RPM    SR  +  +HA R+  F    G  L +
Sbjct: 190 LGGAAV----DFQATLDTMLGYADRLRPMVADVSRRLYEENHAGRNLLFEGAQGTLLDI 244


  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    0.134    0.400 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,424,862
Number of Sequences: 62578
Number of extensions: 76901
Number of successful extensions: 211
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 207
Number of HSP's gapped (non-prelim): 5
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 45 (21.9 bits)