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= 003471
         (817 letters)

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

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



>pdb|3A5V|A Chain A, Crystal Structure Of Alpha-Galactosidase I From
           Mortierella Vinacea
          Length = 397

 Score = 30.8 bits (68), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 3/49 (6%)

Query: 198 IVDKFGWCSWDAFYLTVEPVGLWHGVKSFAENGLPP---RFLIIDDGWQ 243
           I  + GW +W+ +   V+   +    K+ A +GL      ++IIDD WQ
Sbjct: 7   ITPQMGWNTWNKYGCNVDEQLILDAAKAIASSGLKDLGYNYVIIDDCWQ 55


>pdb|3A21|A Chain A, Crystal Structure Of Streptomyces Avermitilis Beta-L-
           Arabinopyranosidase
 pdb|3A21|B Chain B, Crystal Structure Of Streptomyces Avermitilis Beta-L-
           Arabinopyranosidase
 pdb|3A22|A Chain A, Crystal Structure Of Beta-L-Arabinopyranosidase Complexed
           With L- Arabinose
 pdb|3A22|B Chain B, Crystal Structure Of Beta-L-Arabinopyranosidase Complexed
           With L- Arabinose
 pdb|3A23|A Chain A, Crystal Structure Of Beta-l-arabinopyranosidase Complexed
           With D- Galactose
 pdb|3A23|B Chain B, Crystal Structure Of Beta-l-arabinopyranosidase Complexed
           With D- Galactose
          Length = 614

 Score = 30.8 bits (68), Expect = 3.1,   Method: Compositional matrix adjust.
 Identities = 38/160 (23%), Positives = 60/160 (37%), Gaps = 14/160 (8%)

Query: 191 EEKTVPKIVDKFGWCSWDAFYLTVEPVGLWHGVKSFAENGLPP---RFLIIDDGWQSINM 247
            + TVP      GW SW++F   ++   +   V +F   GLP     ++ ID+GW     
Sbjct: 5   RQITVPSA--PMGWASWNSFAAKIDYSVIKKQVDAFVAAGLPAAGYTYINIDEGWWQGTR 62

Query: 248 DHEPALQ-DSKDLTTLGSQMLCRLYR--LKENEKFAKYKSGTML-----RPNAPKFDQEK 299
           D    +  D+ +     S +   ++   LK        K G        RP AP    E 
Sbjct: 63  DSAGNITVDTAEWPGGMSAITAYIHSKGLKAGIYTDAGKDGCGYYYPTGRPAAPGSGSEG 122

Query: 300 H-DAMFKEMVALAEKKRKIKEEGGDVLALPSPKTIEYLND 338
           H D    +         K+   GGD   L +  T + ++D
Sbjct: 123 HYDQDMLQFSTWGFDFVKVDWCGGDAEGLDAATTYKSISD 162


>pdb|1VYU|A Chain A, Beta3 Subunit Of Voltage-Gated Ca2+-Channel
 pdb|1VYU|B Chain B, Beta3 Subunit Of Voltage-Gated Ca2+-Channel
          Length = 351

 Score = 29.6 bits (65), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 12/41 (29%), Positives = 25/41 (60%)

Query: 316 KIKEEGGDVLALPSPKTIEYLNDDEDDGQERGGLMALVSDL 356
           ++ +EGGD+  +PSP+ +E +   ++    R G  + +SD+
Sbjct: 92  RLVKEGGDIAFIPSPQRLESIRLKQEQKARRSGNPSSLSDI 132


>pdb|1VYT|A Chain A, Beta3 Subunit Complexed With Aid
 pdb|1VYT|B Chain B, Beta3 Subunit Complexed With Aid
          Length = 351

 Score = 29.6 bits (65), Expect = 7.2,   Method: Compositional matrix adjust.
 Identities = 12/41 (29%), Positives = 25/41 (60%)

Query: 316 KIKEEGGDVLALPSPKTIEYLNDDEDDGQERGGLMALVSDL 356
           ++ +EGGD+  +PSP+ +E +   ++    R G  + +SD+
Sbjct: 92  RLVKEGGDIAFIPSPQRLESIRLKQEQKARRSGNPSSLSDI 132


  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
   0.319    0.137    0.422 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,930,901
Number of Sequences: 62578
Number of extensions: 1163169
Number of successful extensions: 2343
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 2341
Number of HSP's gapped (non-prelim): 5
length of query: 817
length of database: 14,973,337
effective HSP length: 107
effective length of query: 710
effective length of database: 8,277,491
effective search space: 5877018610
effective search space used: 5877018610
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)