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= psy4567
         (803 letters)

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

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



>pdb|1DQV|A Chain A, Crystal Structure Of Synaptotagmin Iii C2aC2B
          Length = 296

 Score = 30.8 bits (68), Expect = 3.2,   Method: Compositional matrix adjust.
 Identities = 23/91 (25%), Positives = 45/91 (49%), Gaps = 12/91 (13%)

Query: 260 KKEGQTQVD----SPVYDKLTVWSHPIDVHFATRGVQGWPKLHLQVYHYDKFGRGEIYGY 315
           KK+ QT+V     +P++++   +S P+    A R      KLH  VY +D+F R ++ G 
Sbjct: 54  KKKFQTKVHRKTLNPIFNETFQFSVPL-AELAQR------KLHFSVYDFDRFSRHDLIGQ 106

Query: 316 GFTNVPMSPGTHNIDCHTWRPLVIQLGADRS 346
              +  +       D   WR  +++ G++++
Sbjct: 107 VVLDNLLELAEQPPDRPLWRD-ILEGGSEKA 136


>pdb|3HN8|A Chain A, Crystal Structure Of Synaptotagmin
 pdb|3HN8|B Chain B, Crystal Structure Of Synaptotagmin
 pdb|3HN8|C Chain C, Crystal Structure Of Synaptotagmin
          Length = 296

 Score = 30.4 bits (67), Expect = 3.6,   Method: Compositional matrix adjust.
 Identities = 23/91 (25%), Positives = 45/91 (49%), Gaps = 12/91 (13%)

Query: 260 KKEGQTQVD----SPVYDKLTVWSHPIDVHFATRGVQGWPKLHLQVYHYDKFGRGEIYGY 315
           KK+ QT+V     +P++++   +S P+    A R      KLH  VY +D+F R ++ G 
Sbjct: 55  KKKFQTKVHRKTLNPIFNETFQFSVPL-AELAQR------KLHFSVYDFDRFSRHDLIGQ 107

Query: 316 GFTNVPMSPGTHNIDCHTWRPLVIQLGADRS 346
              +  +       D   WR  +++ G++++
Sbjct: 108 VVLDNLLELAEQPPDRPLWRD-ILEGGSEKA 137


>pdb|3GM8|A Chain A, Crystal Structure Of A Beta-glycosidase From Bacteroides
           Vulgatus
          Length = 801

 Score = 29.3 bits (64), Expect = 10.0,   Method: Compositional matrix adjust.
 Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 79  IAKSEKTNEVIPDSIAEE-SGVTPSVDNPTVTVL-TVNTDEPITEGAVEPTVGV 130
           I +      +I  SI  E +G TP + +  V++   ++ D P+T+G  +PT G+
Sbjct: 379 IKRDRNHPSIIMWSIGNEVTGATPEIQHNLVSLFHQLDPDRPVTQGGTDPTRGM 432


  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
   0.316    0.134    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,050,103
Number of Sequences: 62578
Number of extensions: 1007776
Number of successful extensions: 2081
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2076
Number of HSP's gapped (non-prelim): 14
length of query: 803
length of database: 14,973,337
effective HSP length: 107
effective length of query: 696
effective length of database: 8,277,491
effective search space: 5761133736
effective search space used: 5761133736
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)