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= 028914
         (202 letters)

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

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



>pdb|3AIH|A Chain A, Human Os-9 Mrh Domain Complexed With Alpha3,Alpha6-Man5
 pdb|3AIH|B Chain B, Human Os-9 Mrh Domain Complexed With Alpha3,Alpha6-Man5
          Length = 124

 Score = 94.0 bits (232), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 49/127 (38%), Positives = 70/127 (55%), Gaps = 13/127 (10%)

Query: 25  CFMRQEGWWSYEFCYQNKLRQLHLEDDKVVQEFI-LGVYDAEATAAFNQNLSDISTLKDP 83
           C ++ + WW+YEFCY   ++Q H+ED ++  E + LG Y     +AF+ +       K  
Sbjct: 5   CLLKTKDWWTYEFCYGRHIQQYHMEDSEIKGEVLYLGYY----QSAFDWDDETAKASKQH 60

Query: 84  RSKDASQRYHAHQYTNGTLCDLTNQPRETEVRFVCSEPRAM----ISSITELSTCKYALT 139
           R K    RYH+  Y NG+ CDL  +PRE EVRF+C E   +    I  + E  +C Y LT
Sbjct: 61  RLK----RYHSQTYGNGSKCDLNGRPREAEVRFLCDEGAGISGDYIDRVDEPLSCSYVLT 116

Query: 140 IQCPMLC 146
           I+ P LC
Sbjct: 117 IRTPRLC 123


>pdb|1EJ6|A Chain A, Reovirus Core
 pdb|2CSE|U Chain U, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
           Electron And Image Reconstruction Of The Virion At 7.0-A
           Resolution
          Length = 1289

 Score = 28.9 bits (63), Expect = 2.2,   Method: Composition-based stats.
 Identities = 24/92 (26%), Positives = 39/92 (42%), Gaps = 13/92 (14%)

Query: 88  ASQRYHAHQYTNGTLCDLTNQPRETEVRFVCSEPRAMI---------SSITE--LSTCKY 136
           +S R   +    G + DL       + +FV S+   ++         S + E  LS+C +
Sbjct: 545 SSVRQFGYDVARGAIVDLARPFPSGDYQFVYSDVDQVVDGHDDLSISSGLVESLLSSCMH 604

Query: 137 ALTIQCPMLCKHPLFQEERPVWHTIDCNVLPN 168
           A       + K  +    RPVWH I+  +LPN
Sbjct: 605 ATAPGGSFVVK--INFPTRPVWHYIEQKILPN 634


>pdb|3DSM|A Chain A, Crystal Structure Of The Surface Layer Protein
           Bacuni_02894 From Bacteroides Uniformis, Northeast
           Structural Genomics Consortium Target Btr193d
          Length = 328

 Score = 27.3 bits (59), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 10/25 (40%), Positives = 17/25 (68%)

Query: 37  FCYQNKLRQLHLEDDKVVQEFILGV 61
           + YQN++ ++  E DKVV E  +G+
Sbjct: 148 WSYQNRILKIDTETDKVVDELTIGI 172


  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
   0.318    0.132    0.398 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,856,173
Number of Sequences: 62578
Number of extensions: 216496
Number of successful extensions: 426
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 419
Number of HSP's gapped (non-prelim): 9
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)