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= 0056.0019.p
         (148 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogen...   181   3e-47
gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase [...    58   4e-10
gi|300309865|ref|YP_003773957.1| D-isomer specific 2-hydroxyacid...    54   7e-09

>gi|300311988|ref|YP_003776080.1| D-3-phosphoglycerate dehydrogenase
           [Herbaspirillum seropedicae SmR1]
          Length = 310

 Score =  181 bits (458), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 91/145 (62%), Positives = 108/145 (74%)

Query: 1   MKPQLLVLIHLSEASKAAIGSAFEIIYAPTADTRAAAIADAAKDARVVLTNGSTGLTAAE 60
           MKP LLVLIHLSE S A I + ++I+YAP    R   IA  A+   VVLTNGSTGLTA E
Sbjct: 1   MKPPLLVLIHLSEESTATIAAHYDILYAPDRQRRDEMIAGPARKVAVVLTNGSTGLTAEE 60

Query: 61  MDTLGKLELACALGAGYENIDTAHAAARGIKIATGAGTNDDCVADHAMGLVLAIMRNIRQ 120
           M  L  L+L C LGAG+EN+D AHA A GI+IATGAGTN+DCVADHA+GL+LAI+RNI  
Sbjct: 61  MRALPHLQLVCTLGAGFENVDVAHAEAHGIEIATGAGTNEDCVADHALGLLLAILRNIPV 120

Query: 121 LDLACREGIWRDALVLPPQLAGKRL 145
           LD   R+G WR+ + L PQLAGKR+
Sbjct: 121 LDRYTRDGGWRETIPLQPQLAGKRV 145


>gi|300313156|ref|YP_003777248.1| D-2-hydroxyacid dehydrogenase
           [Herbaspirillum seropedicae SmR1]
          Length = 316

 Score = 57.8 bits (138), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 41/148 (27%), Positives = 66/148 (44%), Gaps = 7/148 (4%)

Query: 2   KPQLLVLIHLSEASKAAIGSAF---EIIYAPTADTRAAAIADAAKDARVVLTNGSTGLTA 58
           +P +L++  L +     +   +    +I  P ++   AAIA      R +  NG   ++ 
Sbjct: 6   RPHVLIVARLPQHLLDLLQQHYTCHNLILQPHSEAELAAIA---PQIRGIAANGEAKVSR 62

Query: 59  AEMDTLGKLELACALGAGYENIDTAHAAARGIKIATGAGTNDDCVADHAMGLVLAIMRNI 118
             M     LE+    G GY+ +D   A  RGI +       +D VAD AM L+LA  RN+
Sbjct: 63  EFMARFPALEIVSVFGVGYDGVDVPAARERGIHVTHTPDVLNDDVADLAMALMLATARNV 122

Query: 119 RQLDLACREGIWRDA-LVLPPQLAGKRL 145
            + D   R G W+        +++G RL
Sbjct: 123 VRADRFARSGEWKKGPFPFTTKVSGARL 150


>gi|300309865|ref|YP_003773957.1| D-isomer specific 2-hydroxyacid
           dehydrogenase NAD-binding protein [Herbaspirillum
           seropedicae SmR1]
          Length = 348

 Score = 53.5 bits (127), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 35/103 (33%), Positives = 56/103 (54%), Gaps = 5/103 (4%)

Query: 48  VLTNGSTGLTAAEMDTLGKLELACALGAGYENIDTAHAAARGIKIATGAGTNDDCVADHA 107
           V+T G TG++ A MD+L  L++    G G + +D  HA ++G+ +    G   + VAD A
Sbjct: 80  VITGGHTGISNALMDSLPALKVVAVNGVGTDAVDLNHARSKGLPVTGTFGALTEDVADLA 139

Query: 108 MGLVLAIMRNIRQLDLACREGIW-----RDALVLPPQLAGKRL 145
           +GL+LA+ R I       + G W       A+ L  +L+GKR+
Sbjct: 140 LGLMLAVSRQICPGHAFVQRGDWVRHPSPTAIPLSRRLSGKRV 182


  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
   0.320    0.133    0.380 

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: 397,544
Number of extensions: 13828
Number of successful extensions: 60
Number of sequences better than 1.0e-08: 4
Number of HSP's gapped: 61
Number of HSP's successfully gapped: 4
Length of query: 148
Length of database: 1,619,870
Length adjustment: 77
Effective length of query: 71
Effective length of database: 1,255,275
Effective search space: 89124525
Effective search space used: 89124525
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 126 (53.1 bits)