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= 012351
         (465 letters)

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

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



>pdb|2GP4|A Chain A, Structure Of [fes]cluster-free Apo Form Of
           6-phosphogluconate Dehydratase From Shewanella
           Oneidensis
 pdb|2GP4|B Chain B, Structure Of [fes]cluster-free Apo Form Of
           6-phosphogluconate Dehydratase From Shewanella
           Oneidensis
          Length = 628

 Score = 30.4 bits (67), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 1/46 (2%)

Query: 19  GQLSNILAPAGPVAETIPAKRKENT-ESLAEGQAKDKHVVEAEKNS 63
           G L  +  PAGP    IP K K    +  A+G+     ++EAE  S
Sbjct: 189 GHLPXLFVPAGPXKSGIPNKEKARIRQQFAQGKVDRAQLLEAEAQS 234


>pdb|3EWK|A Chain A, Structure Of The Redox Sensor Domain Of Methylococcus
           Capsulatus (Bath) Mmos
          Length = 227

 Score = 28.9 bits (63), Expect = 6.2,   Method: Compositional matrix adjust.
 Identities = 25/94 (26%), Positives = 46/94 (48%), Gaps = 13/94 (13%)

Query: 128 YAKGKWVVDDSRPLYSGAHCKQWLSQMWACRLMQRTDFAYERLRWQPKDCQMEEFEGSQF 187
           Y + + V  D R + SG H K ++  MW  R + R +       WQ + C   + +G+++
Sbjct: 24  YGREELVGQDHRIVNSGYHGKAYIRDMW--RTISRGNI------WQGEFCNRRK-DGTRY 74

Query: 188 LTRMQDRTLAFIGDSLGR-QQFQSLMCMVTGGKE 220
                D T+  + D+ G+ +Q+ S+   +T  KE
Sbjct: 75  WV---DSTIVPLMDNAGKPRQYISIRRDITAQKE 105


  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
   0.317    0.132    0.413 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,812,781
Number of Sequences: 62578
Number of extensions: 576473
Number of successful extensions: 1580
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1577
Number of HSP's gapped (non-prelim): 5
length of query: 465
length of database: 14,973,337
effective HSP length: 102
effective length of query: 363
effective length of database: 8,590,381
effective search space: 3118308303
effective search space used: 3118308303
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)