BLASTP 2.2.18 [Mar-02-2008]


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= 0004.0089.p
         (159 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300312370|ref|YP_003776462.1| 3-hydroxyisobutyrate dehydrogen...   198   1e-52
gi|300313519|ref|YP_003777611.1| 6-phosphogluconate dehydrogenas...    74   4e-15
gi|300310292|ref|YP_003774384.1| 3-hydroxyisobutyrate dehydrogen...    60   7e-11

>gi|300312370|ref|YP_003776462.1| 3-hydroxyisobutyrate dehydrogenase
           [Herbaspirillum seropedicae SmR1]
          Length = 297

 Score =  198 bits (504), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 99/101 (98%), Positives = 100/101 (99%)

Query: 1   MSANIVFIGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKAD 60
           MSANIVFIGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKAD
Sbjct: 1   MSANIVFIGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKAD 60

Query: 61  VVITMLPASRHVESLYLGDAGVLASAKPGALLIDCSTIAPE 101
           VVITMLPASRHVESLYLG+AGVLASAKPG LLIDCSTIAPE
Sbjct: 61  VVITMLPASRHVESLYLGEAGVLASAKPGTLLIDCSTIAPE 101


>gi|300313519|ref|YP_003777611.1| 6-phosphogluconate dehydrogenase
           [Herbaspirillum seropedicae SmR1]
          Length = 298

 Score = 74.3 bits (181), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 44/115 (38%), Positives = 68/115 (59%), Gaps = 1/115 (0%)

Query: 1   MSANIVFIGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKAD 60
           MS N+  IGLG MG  +A +L++AGF+V   D+ K  +DK    GG   A+      K D
Sbjct: 1   MSRNVGVIGLGAMGYGVASSLLRAGFNVHACDVRKEVLDKFAAAGGVACANPAELAGKVD 60

Query: 61  VVITMLPASRHVESLYLGDAGVLASAKPGALLIDCSTIAPEAARXSQGARLRDAG 115
           VVIT++  +   E++  GD G +++ KPG+++I  +T+AP+ A    G RL + G
Sbjct: 61  VVITLVVNAAQTETVLFGDNGAVSAMKPGSVVISSATVAPDFA-IELGKRLVEKG 114


>gi|300310292|ref|YP_003774384.1| 3-hydroxyisobutyrate dehydrogenase
           [Herbaspirillum seropedicae SmR1]
          Length = 288

 Score = 60.1 bits (144), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 42/109 (38%), Positives = 64/109 (58%), Gaps = 3/109 (2%)

Query: 8   IGLGNMGLPMAQNLVKAGFSVSGHDLVKASVDKLVEVGGKTEADSMAAVAKA-DVVITML 66
           IGLGNMG  MA +L + G+ V G+D  +++   L + G     DS+AA+A A ++V+  L
Sbjct: 7   IGLGNMGRGMAFSLQRGGYEVLGYDAQESTRTALAQQGLHC-VDSIAALAPAVEMVVLSL 65

Query: 67  PASRHVESLYLGDAGVLASAKPGALLIDCSTIAPEAARXSQGARLRDAG 115
           P S  VE +  G+ G+L    PG +++D +T  P + R    ARL+ AG
Sbjct: 66  PTSDIVEQVVEGEGGLLQHGAPGLVIVDTTTADPNSTR-RLAARLQAAG 113


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.316    0.134    0.378 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 464,789
Number of extensions: 17648
Number of successful extensions: 98
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 97
Number of HSP's successfully gapped: 4
Length of query: 159
Length of database: 1,619,870
Length adjustment: 78
Effective length of query: 81
Effective length of database: 1,250,540
Effective search space: 101293740
Effective search space used: 101293740
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 127 (53.5 bits)