Alignments for a candidate for dapA in Phaeobacter inhibens BS107

Align 4-hydroxy-tetrahydrodipicolinate synthase (EC 4.3.3.7) (characterized)
to candidate GFF2847 PGA1_c28930 dihydrodipicolinate synthase DapA

Query= BRENDA::Q8UGL3
         (294 letters)



>FitnessBrowser__Phaeo:GFF2847
          Length = 290

 Score =  380 bits (975), Expect = e-110
 Identities = 195/293 (66%), Positives = 228/293 (77%), Gaps = 3/293 (1%)

Query: 1   MFKGSIPALITPFTDNGSVDEKAFAAHVEWQIAEGSNGLVPVGTTGESPTLSHDEHKRVV 60
           MFKGS+PAL+TPF+ NG +D       VEW I +GS  LVPVGTTGESPTL+H+EH+ V+
Sbjct: 1   MFKGSMPALVTPFS-NGELDLDTLKRLVEWHIDQGSTALVPVGTTGESPTLTHEEHETVI 59

Query: 61  ELCIEVAAKRVPVIAGAGSNNTDEAIELALHAQEAGADALLVVTPYYNKPTQKGLFAHFS 120
              +++AA RVPVIAGAGSNNT E       A E GADA LVVTPYYNKPTQ+GL AHF+
Sbjct: 60  AEVVKIAAGRVPVIAGAGSNNTVEGKRFVQFAAEVGADAALVVTPYYNKPTQRGLIAHFT 119

Query: 121 AVAEAVKLPIVIYNIPPRSVVDMSPETMGALVKAHKNIIGVKDATGKLDRVSEQRISCGK 180
            +     +PIVIYNIP RSV+DM+P TMG L K  + IIGVKDATG + RVS+QR SCG 
Sbjct: 120 ELHNCADIPIVIYNIPGRSVIDMTPATMGELAKLER-IIGVKDATGDIARVSQQRASCGA 178

Query: 181 DFVQLSGEDGTALGFNAHGGVGCISVTANVAPRLCSEFQAAMLAGDYAKALEYQDRLMPL 240
           DF+QLSGED TALGFNAHGGVGCISVTANVAP+LC+EFQAA LAGDYA ALEYQD+LMPL
Sbjct: 179 DFIQLSGEDATALGFNAHGGVGCISVTANVAPKLCAEFQAATLAGDYALALEYQDKLMPL 238

Query: 241 HRAIFMEPGVCGTKYALSKTRGGNRRVRSPLMSTLEPATEAAIDAALKHAGLM 293
           H AIF+EPG+ G KY LSK    +  VR PL + LE +T+AAIDAA+ HAGL+
Sbjct: 239 HEAIFIEPGLAGAKYGLSKLGLCSEEVRLPL-TGLEDSTKAAIDAAMAHAGLL 290


Lambda     K      H
   0.317    0.133    0.384 

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: 352
Number of extensions: 11
Number of successful extensions: 4
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: 294
Length of database: 290
Length adjustment: 26
Effective length of query: 268
Effective length of database: 264
Effective search space:    70752
Effective search space used:    70752
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 GFF2847 PGA1_c28930 (dihydrodipicolinate synthase DapA)
to HMM TIGR00674 (dapA: 4-hydroxy-tetrahydrodipicolinate synthase (EC 4.3.3.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.1125.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.1125.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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