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= 006281
         (652 letters)

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

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



>pdb|1DOS|A Chain A, Structure Of Fructose-Bisphosphate Aldolase
 pdb|1DOS|B Chain B, Structure Of Fructose-Bisphosphate Aldolase
          Length = 358

 Score = 30.8 bits (68), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 7/52 (13%)

Query: 119 SSVYRFIIPSLIQGKNTQKAFSVFNEVKF-----NCEDIGPEICNSLLAVLA 165
           S ++ F+ P +I G + QK F V  E  F     NC  +G +  N++L   A
Sbjct: 1   SKIFDFVKPGVITGDDVQKVFQVAKENNFALPAVNC--VGTDSINAVLETAA 50


>pdb|1B57|A Chain A, Class Ii Fructose-1,6-Bisphosphate Aldolase In Complex
           With Phosphoglycolohydroxamate
 pdb|1B57|B Chain B, Class Ii Fructose-1,6-Bisphosphate Aldolase In Complex
           With Phosphoglycolohydroxamate
 pdb|1GYN|A Chain A, Class Ii Fructose 1,6-Bisphosphate Aldolase With Cadmium
           (Not Zinc) In The Active Site
 pdb|1ZEN|A Chain A, Class Ii Fructose-1,6-Bisphosphate Aldolase
          Length = 358

 Score = 30.8 bits (68), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 7/52 (13%)

Query: 119 SSVYRFIIPSLIQGKNTQKAFSVFNEVKF-----NCEDIGPEICNSLLAVLA 165
           S ++ F+ P +I G + QK F V  E  F     NC  +G +  N++L   A
Sbjct: 1   SKIFDFVKPGVITGDDVQKVFQVAKENNFALPAVNC--VGTDSINAVLETAA 50


>pdb|1VRP|A Chain A, The 2.1 Structure Of T. Californica Creatine Kinase
           Complexed With The Transition-State Analogue Complex,
           Adp- Mg 2+ NO3-CREATINE
 pdb|1VRP|B Chain B, The 2.1 Structure Of T. Californica Creatine Kinase
           Complexed With The Transition-State Analogue Complex,
           Adp- Mg 2+ NO3-CREATINE
          Length = 381

 Score = 29.6 bits (65), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 44/191 (23%), Positives = 75/191 (39%), Gaps = 24/191 (12%)

Query: 433 PDVSFYNSLMEACCREDLLRPAKKLWDQMFASGCS-------GNLKTYNILISKFSEVGE 485
           PD+S +N+ M      D+    KKL D+   SG +       G     +  I     V  
Sbjct: 21  PDLSKHNNHMAKALTLDIY---KKLRDKETPSGFTLDDIIQTGVDNPGHPFIMTVGCVAG 77

Query: 486 IEGALRLFHNMLEK-------GVAPDATTYTSLLEGLCQETNLQAAFEV-FNKSVNHDVM 537
            E    +F ++ +        G  P     T L      + NL+   ++  N  ++  V 
Sbjct: 78  DEECYEVFKDLFDPVIEDRHGGYKPTDKHKTDL-----NQENLKGGDDLDPNYVLSSRVR 132

Query: 538 LARSILSTFMISLCRRGHFLVATKL-LRGLSSDLGHSDSHVILLKSLADAREVEMAIEHI 596
             RSI    +   C RG   +  KL + GL++  G        L S++DA + ++  +H 
Sbjct: 133 TGRSIKGIALPPHCSRGERRLVEKLCIDGLATLTGEFQGKYYPLSSMSDAEQQQLIDDHF 192

Query: 597 KWIQESSPTML 607
            + +  SP +L
Sbjct: 193 LFDKPISPLLL 203


>pdb|2YYY|A Chain A, Crystal Structure Of Glyceraldehyde-3-Phosphate
           Dehydrogenase
 pdb|2YYY|B Chain B, Crystal Structure Of Glyceraldehyde-3-Phosphate
           Dehydrogenase
          Length = 343

 Score = 29.3 bits (64), Expect = 6.7,   Method: Compositional matrix adjust.
 Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 4/59 (6%)

Query: 229 AVLIIHGFCK-GKRVEEAFKVLDELRI---RECKPDFIAYRIVAEEFKLMGSVFEREVV 283
           A ++I+G+   GKRV +A  + D++ +    + KPDF A   V + +KL  ++ + E V
Sbjct: 3   AKVLINGYGSIGKRVADAVSMQDDMEVIGVTKTKPDFEARLAVEKGYKLFVAIPDNERV 61


  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
   0.322    0.136    0.393 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,624,590
Number of Sequences: 62578
Number of extensions: 625479
Number of successful extensions: 1459
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1455
Number of HSP's gapped (non-prelim): 7
length of query: 652
length of database: 14,973,337
effective HSP length: 105
effective length of query: 547
effective length of database: 8,402,647
effective search space: 4596247909
effective search space used: 4596247909
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)