Alignments for a candidate for sdaB in Echinicola vietnamensis KMM 6221, DSM 17526

Align L-serine dehydratase, alpha chain; SDH; EC 4.3.1.17; L-serine deaminase; L-SD (uncharacterized)
to candidate Echvi_0600 Echvi_0600 L-serine dehydratase, iron-sulfur-dependent, alpha subunit

Query= curated2:P33073
         (292 letters)



>FitnessBrowser__Cola:Echvi_0600
          Length = 302

 Score =  204 bits (519), Expect = 2e-57
 Identities = 114/279 (40%), Positives = 163/279 (58%), Gaps = 3/279 (1%)

Query: 10  DVCNERGIKIYDLVLEEEIKNSHTTEEEIRKKLDAVIDVMHASATKNLTQSDVTEYKMID 69
           + C  + + +Y  V+E E      +EE+I + L +   VM  +    L +  V+   MI+
Sbjct: 13  EYCEAKNVPLYAPVMEYEKDQRGKSEEQIWEGLRSAYKVMKDAVETGLKEEMVSRSGMIN 72

Query: 70  GFAKRTYEYANSGKSIVGDFLAKAMAMAFSTSEVNASMGKIVAAPTAGSSGIMPAMLVAA 129
             AK+ Y +     S++     + ++ A +  EVN+ MG++VAAPTAG+SGI+P  L   
Sbjct: 73  NGAKKVYHHP---LSVLSPEFQRLISRALAAKEVNSCMGRVVAAPTAGASGILPGTLYTL 129

Query: 130 TEKYNFDRTTIQNGFLTSIGIGQVITKYATFAGAEGGCQAECGSASAMAAAALVEMLGGT 189
            E +      +  G L   G+  +I + A+ AGA GGCQAE GSA+AMA+ A+V  LGG 
Sbjct: 130 QEIHGLSDDKVLEGLLIGAGVALIIEQNASLAGAVGGCQAETGSAAAMASGAMVYCLGGN 189

Query: 190 VEQALHAASITIINVLGLVCDPIAGLVQYPCTFRNASGVINAFISADLALAGVESLVPFD 249
            +Q  +A +ITI  +LGLVCDP+AGLV+ PC  RNAS    A  SA +ALA V  ++P D
Sbjct: 190 TDQVFNAVAITIQCMLGLVCDPVAGLVEIPCVVRNASAAAIANSSAQIALADVSGVIPVD 249

Query: 250 EVVIAMGEVGNSMIEALRETGLGGLAGSKTGQKIRRDFL 288
           E V AMGE+G SM    +ET LGGLA + TG+ I +  L
Sbjct: 250 ECVEAMGEIGASMENKYKETALGGLAATLTGKGIAKKVL 288


Lambda     K      H
   0.317    0.132    0.361 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 201
Number of extensions: 6
Number of successful extensions: 2
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 292
Length of database: 302
Length adjustment: 26
Effective length of query: 266
Effective length of database: 276
Effective search space:    73416
Effective search space used:    73416
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 (21.7 bits)
S2: 48 (23.1 bits)

Align candidate Echvi_0600 Echvi_0600 (L-serine dehydratase, iron-sulfur-dependent, alpha subunit)
to HMM TIGR00718 (sdaAA: L-serine dehydratase, iron-sulfur-dependent, alpha subunit (EC 4.3.1.17))

Software error:

../bin/blast/fastacmd -i /tmp/list.28708.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.28708.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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