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= 039676
         (103 letters)

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

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



>pdb|3CUX|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
           Bacillis Anthracis Malate Synthase A: Comparison With
           Isoform G And Implications For Structure Based Drug
           Design
          Length = 528

 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/74 (29%), Positives = 38/74 (51%)

Query: 28  VEIRGRYSEEFAKILNKDALQFVADLQREFRNRLKYAMECRREAKRRYNEGALPGFDAAT 87
           V + G     + +IL  +AL F+ +L   F  R    ++ R + +++ + G  P F   T
Sbjct: 7   VTLVGEMLPAYNEILTPEALSFLKELHENFNERRIELLQKRMKKQQKIDAGEFPKFLEET 66

Query: 88  RYIREGEWTCALVP 101
           + IRE +WT A +P
Sbjct: 67  KRIREADWTIAKLP 80


>pdb|3CV2|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
           Bacillis Anthracis Malate Synthase A: Comparison With
           Isoform G And Implications For Structure Based Drug
           Design
 pdb|3CV2|B Chain B, Atomic Resolution Structures Of Escherichia Coli And
           Bacillis Anthracis Malate Synthase A: Comparison With
           Isoform G And Implications For Structure Based Drug
           Design
          Length = 532

 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 18/68 (26%), Positives = 35/68 (51%)

Query: 34  YSEEFAKILNKDALQFVADLQREFRNRLKYAMECRREAKRRYNEGALPGFDAATRYIREG 93
           Y E+  +IL  +A++F+ +L   F  +    +  R + ++  + G LP F + T  IR+ 
Sbjct: 16  YGEQEKQILTAEAVEFLTELVTHFTPQRNKLLAARIQQQQDIDNGTLPDFISETASIRDA 75

Query: 94  EWTCALVP 101
           +W    +P
Sbjct: 76  DWKIRGIP 83


>pdb|3CUZ|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
           Bacillis Anthracis Malate Synthase A: Comparison With
           Isoform G And Implications For Structure Based Drug
           Design
 pdb|3CV1|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
           Bacillis Anthracis Malate Synthase A: Comparison With
           Isoform G And Implications For Structure Based Drug
           Design
          Length = 532

 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 18/68 (26%), Positives = 35/68 (51%)

Query: 34  YSEEFAKILNKDALQFVADLQREFRNRLKYAMECRREAKRRYNEGALPGFDAATRYIREG 93
           Y E+  +IL  +A++F+ +L   F  +    +  R + ++  + G LP F + T  IR+ 
Sbjct: 16  YGEQEKQILTAEAVEFLTELVTHFTPQRNKLLAARIQQQQDIDNGTLPDFISETASIRDA 75

Query: 94  EWTCALVP 101
           +W    +P
Sbjct: 76  DWKIRGIP 83


>pdb|3VUE|A Chain A, Crystal Structure Of Rice Granule Bound Starch Synthase I
           Catalytic Domain
 pdb|3VUF|A Chain A, Crystal Structure Of Rice Granule Bound Starch Synthase I
           Catalytic Domain In Complex With Adp
          Length = 536

 Score = 25.4 bits (54), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 17/42 (40%), Positives = 21/42 (50%), Gaps = 9/42 (21%)

Query: 12  PTMTKKISAHYDVPEGVEIRGRYSEEFAKILNKDALQFVADL 53
           P+  K I+A YD    +E         AK LNK+ALQ  A L
Sbjct: 289 PSKDKYITAKYDATTAIE---------AKALNKEALQAEAGL 321


>pdb|3RJ2|X Chain X, Structural And Functional Characterization Of A Novel
           Histone H3 Binding Protein Orf158l From The Singapore
           Grouper Iridovirus (Sgiv)
          Length = 138

 Score = 25.4 bits (54), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 11/25 (44%), Positives = 15/25 (60%)

Query: 18  ISAHYDVPEGVEIRGRYSEEFAKIL 42
           +  HYD  EG +IR   + EFA+ L
Sbjct: 111 VHMHYDETEGEQIRSYDAAEFARTL 135


  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
   0.321    0.137    0.418 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,226,103
Number of Sequences: 62578
Number of extensions: 113079
Number of successful extensions: 344
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 340
Number of HSP's gapped (non-prelim): 5
length of query: 103
length of database: 14,973,337
effective HSP length: 68
effective length of query: 35
effective length of database: 10,718,033
effective search space: 375131155
effective search space used: 375131155
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: 45 (21.9 bits)