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= 047686
         (139 letters)

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

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



>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 = 27.3 bits (59), Expect = 2.9,   Method: Compositional matrix adjust.
 Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 5/37 (13%)

Query: 70  GRTVADFIS-----QFIGIELQKPYLEARIAVLNGSR 101
           G+ VAD +S     + IG+   KP  EAR+AV  G +
Sbjct: 14  GKRVADAVSMQDDMEVIGVTKTKPDFEARLAVEKGYK 50


>pdb|4FMR|A Chain A, Crystal Structure Of A Hypothetical Protein (Bvu_2165)
           From Bacteroides Vulgatus Atcc 8482 At 2.25 A Resolution
 pdb|4FMR|B Chain B, Crystal Structure Of A Hypothetical Protein (Bvu_2165)
           From Bacteroides Vulgatus Atcc 8482 At 2.25 A Resolution
 pdb|4FMR|C Chain C, Crystal Structure Of A Hypothetical Protein (Bvu_2165)
           From Bacteroides Vulgatus Atcc 8482 At 2.25 A Resolution
 pdb|4FMR|D Chain D, Crystal Structure Of A Hypothetical Protein (Bvu_2165)
           From Bacteroides Vulgatus Atcc 8482 At 2.25 A Resolution
          Length = 265

 Score = 25.8 bits (55), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 11/26 (42%), Positives = 17/26 (65%)

Query: 105 PANGINFASAGSGVLTETNKDWKVLN 130
           P+ G+  ASA +G +T+ + D  VLN
Sbjct: 168 PSVGVTLASAATGTVTKIDNDXIVLN 193


>pdb|3QAN|A Chain A, Crystal Structure Of 1-Pyrroline-5-Carboxylate
           Dehydrogenase From Bacillus Halodurans
 pdb|3QAN|B Chain B, Crystal Structure Of 1-Pyrroline-5-Carboxylate
           Dehydrogenase From Bacillus Halodurans
 pdb|3QAN|C Chain C, Crystal Structure Of 1-Pyrroline-5-Carboxylate
           Dehydrogenase From Bacillus Halodurans
          Length = 538

 Score = 25.8 bits (55), Expect = 9.2,   Method: Compositional matrix adjust.
 Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 8/33 (24%)

Query: 35  FDAGNNHFNKNCTAQADFPPYGSSFFHHPTGRF 67
           F  GN +FN+NCT        G+   +HP G F
Sbjct: 464 FHVGNLYFNRNCT--------GAIVGYHPFGGF 488


  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    0.138    0.423 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,014,032
Number of Sequences: 62578
Number of extensions: 162618
Number of successful extensions: 294
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 290
Number of HSP's gapped (non-prelim): 8
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
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: 46 (22.3 bits)