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= 038077
         (428 letters)

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

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



>pdb|1SVD|M Chain M, The Structure Of Halothiobacillus Neapolitanus Rubisco
          Length = 110

 Score = 29.6 bits (65), Expect = 3.8,   Method: Composition-based stats.
 Identities = 17/47 (36%), Positives = 21/47 (44%)

Query: 151 FRGNQPAINTLREVEAFLSQYPTEIVTIIIEDYVQTPKGLTSLFVRA 197
           F G Q   N L E+EA  S YPT  V ++  D      GL  +  R 
Sbjct: 63  FFGEQNVDNVLAEIEACRSAYPTHQVKLVAYDNYAQSLGLAFVVYRG 109


>pdb|3FFH|A Chain A, The Crystal Structure Of Histidinol-phosphate
           Aminotransferase From Listeria Innocua Clip11262.
 pdb|3FFH|B Chain B, The Crystal Structure Of Histidinol-phosphate
           Aminotransferase From Listeria Innocua Clip11262
          Length = 363

 Score = 29.3 bits (64), Expect = 4.9,   Method: Compositional matrix adjust.
 Identities = 14/48 (29%), Positives = 30/48 (62%), Gaps = 7/48 (14%)

Query: 145 IWLCHSFRGNQPAIN--TLREVEAFLSQYPTEIVTIIIEDYVQ--TPK 188
           +W+C+    N P  N   L +++AFL + P++++ ++ E Y++  TP+
Sbjct: 159 VWICNP---NNPTGNYIELADIQAFLDRVPSDVLVVLDEAYIEYVTPQ 203


>pdb|1SQ1|A Chain A, Crystal Structure Of The Chorismate Synthase From
           Campylobacter Jejuni, Northeast Structural Genomics
           Target Br19
          Length = 370

 Score = 28.1 bits (61), Expect = 8.6,   Method: Compositional matrix adjust.
 Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 17/97 (17%)

Query: 337 VFDVLDKMNGQTLCGCSTVLACQSGAPF------GSCKNIAVPRGSQTNNNSAGSFSGSV 390
           ++D LD      L G + V A + G         GSC N A+  G   +N+S G   G  
Sbjct: 222 LYDKLDSKLAHALXGINAVKAVEIGEGINASKXRGSCNNDALKDGKFLSNHSGGILGG-- 279

Query: 391 QFSRSASAVHSPNCMVFYSFYLPL-VVFSLMSVIDKI 426
                   + +   ++  +++ P   +F+    IDK 
Sbjct: 280 --------ISNGENLILKTYFKPTPSIFAKQESIDKF 308


>pdb|4IIN|A Chain A, Crystal Structure Of A Putative 3-Oxoacyl-[acyl-Carrier
           Protein]reductase From Helicobacter Pylori 26695
           Complexed With Nad+
 pdb|4IIN|B Chain B, Crystal Structure Of A Putative 3-Oxoacyl-[acyl-Carrier
           Protein]reductase From Helicobacter Pylori 26695
           Complexed With Nad+
 pdb|4IIN|C Chain C, Crystal Structure Of A Putative 3-Oxoacyl-[acyl-Carrier
           Protein]reductase From Helicobacter Pylori 26695
           Complexed With Nad+
 pdb|4IIN|D Chain D, Crystal Structure Of A Putative 3-Oxoacyl-[acyl-Carrier
           Protein]reductase From Helicobacter Pylori 26695
           Complexed With Nad+
 pdb|4IJK|A Chain A, Crystal Structure Of A Putative 3-Oxoacyl-[acyl-Carrier
           Protein]reductase From Helicobacter Pylori 26695
 pdb|4IJK|B Chain B, Crystal Structure Of A Putative 3-Oxoacyl-[acyl-Carrier
           Protein]reductase From Helicobacter Pylori 26695
 pdb|4IJK|C Chain C, Crystal Structure Of A Putative 3-Oxoacyl-[acyl-Carrier
           Protein]reductase From Helicobacter Pylori 26695
 pdb|4IJK|D Chain D, Crystal Structure Of A Putative 3-Oxoacyl-[acyl-Carrier
           Protein]reductase From Helicobacter Pylori 26695
          Length = 271

 Score = 28.1 bits (61), Expect = 9.0,   Method: Compositional matrix adjust.
 Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 3/59 (5%)

Query: 340 VLDKMNGQTLCGCSTVLACQSGAPFGSCKNIAV---PRGSQTNNNSAGSFSGSVQFSRS 395
           V+D        GC   L   S + FGS  N+A     RG+    N + S  G +  S+S
Sbjct: 134 VIDNNLTSAFIGCREALKVMSKSRFGSVVNVASIIGERGNMGQTNYSASKGGMIAMSKS 192


  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    0.135    0.425 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,892,016
Number of Sequences: 62578
Number of extensions: 545917
Number of successful extensions: 887
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: 886
Number of HSP's gapped (non-prelim): 4
length of query: 428
length of database: 14,973,337
effective HSP length: 102
effective length of query: 326
effective length of database: 8,590,381
effective search space: 2800464206
effective search space used: 2800464206
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: 53 (25.0 bits)