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= 022973
         (289 letters)

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

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



>pdb|3A2E|A Chain A, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
 pdb|3A2E|B Chain B, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
 pdb|3A2E|C Chain C, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
 pdb|3A2E|D Chain D, Crystal Structure Of Ginkbilobin-2, The Novel Antifungal
           Protein From Ginkgo Biloba Seeds
          Length = 108

 Score = 63.2 bits (152), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/104 (31%), Positives = 58/104 (55%), Gaps = 4/104 (3%)

Query: 34  FVFGGCSQQKYTPGSAYENSVNSMLTSLVNSAMFSSYNNFTIQ----GQQTLYGLFQCRG 89
           FV   C+ QK   GS +  ++ +ML  L  +  FS Y+  T +    G  T YG   C+ 
Sbjct: 5   FVSSACNTQKIPSGSPFNRNLRAMLADLRQNTAFSGYDYKTSRAGSGGAPTAYGRATCKQ 64

Query: 90  DLSTADCGRCVAHAVSQLGTLCLDSCGGVLQLDGCFVKYDNISF 133
            +S +DC  C+++ V+++ ++C ++ G  +QL  CF++Y+  SF
Sbjct: 65  SISQSDCTACLSNLVNRIFSICNNAIGARVQLVDCFIQYEQRSF 108



 Score = 37.0 bits (84), Expect = 0.013,   Method: Compositional matrix adjust.
 Identities = 21/63 (33%), Positives = 31/63 (49%), Gaps = 2/63 (3%)

Query: 174 YKPYRVGGSGDVT--GVAQCVGDLSASECQDCLSDAIGRLKTDCGAAKWGDMFLAKCYAR 231
           YK  R G  G  T  G A C   +S S+C  CLS+ + R+ + C  A    + L  C+ +
Sbjct: 43  YKTSRAGSGGAPTAYGRATCKQSISQSDCTACLSNLVNRIFSICNNAIGARVQLVDCFIQ 102

Query: 232 YSE 234
           Y +
Sbjct: 103 YEQ 105


>pdb|3VAA|A Chain A, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
           Kinase From Bacteroides Thetaiotaomicron
 pdb|3VAA|B Chain B, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
           Kinase From Bacteroides Thetaiotaomicron
 pdb|3VAA|C Chain C, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
           Kinase From Bacteroides Thetaiotaomicron
          Length = 199

 Score = 32.7 bits (73), Expect = 0.25,   Method: Compositional matrix adjust.
 Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 6/66 (9%)

Query: 78  QQTLYGLFQCRGDLSTADCGRCVAHAVSQLGTLCLDSCGGVLQLDGCFVKYDNISFLGVE 137
            +T+  LF  RG+    +  R + H V++   + + + GG      CF  YDN+ F+   
Sbjct: 65  HKTVGELFTERGEAGFRELERNMLHEVAEFENVVISTGGGA----PCF--YDNMEFMNRT 118

Query: 138 DKTVVV 143
            KTV +
Sbjct: 119 GKTVFL 124


  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    0.136    0.417 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,777,167
Number of Sequences: 62578
Number of extensions: 244178
Number of successful extensions: 557
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 555
Number of HSP's gapped (non-prelim): 5
length of query: 289
length of database: 14,973,337
effective HSP length: 98
effective length of query: 191
effective length of database: 8,840,693
effective search space: 1688572363
effective search space used: 1688572363
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: 51 (24.3 bits)