Alignments for a candidate for lysA in Phaeobacter inhibens BS107

Align diaminopimelate decarboxylase (EC 4.1.1.20) (characterized)
to candidate GFF336 PGA1_c03470 diaminopimelate decarboxylase LysA

Query= reanno::Korea:Ga0059261_2051
         (419 letters)



>FitnessBrowser__Phaeo:GFF336
          Length = 421

 Score =  421 bits (1082), Expect = e-122
 Identities = 221/422 (52%), Positives = 293/422 (69%), Gaps = 5/422 (1%)

Query: 1   MDHFNRKNGVLHAENVSIPAIAAEVGTPVYVYSTATLERHASALKNALAGLPSVHLAFAI 60
           MDHF  ++G L+AE+V +  IAA VGTP Y+YSTATL RH +   +AL G+  + + +A+
Sbjct: 1   MDHFLYRDGALYAEDVPVAEIAATVGTPFYLYSTATLLRHFNLFDDALKGMDHL-VCYAM 59

Query: 61  KANPNLAVLGVLARQGYGADVVSGGELKRALAAGMPAEDVVFSGVGKTRAELQLGLDEGI 120
           KA  N A+L  LA+ G G DVVS GE  RA AAG+P + +VFSGVGKT+ E++  L  GI
Sbjct: 60  KAASNQAILKTLAQAGAGMDVVSQGEYLRAKAAGVPGDRIVFSGVGKTQDEIRTALSGGI 119

Query: 121 GQFNLELEEEGEVLADLAHAQGKTAPAVLRVNPDVDAGTHAKISTGKAENKFGVAIDRAL 180
            QFN+E E E +V+  +A   G  AP  +RVNPDVDA THAKI+TGK+ENKFG+ I RA 
Sbjct: 120 RQFNVESEPEMDVINAVALELGVVAPITVRVNPDVDAKTHAKIATGKSENKFGIPIARAR 179

Query: 181 EIFDRLAKRPGLNLRGVAIHIGSQLTELAPLEAAYKRVGELVAQLRAAGHTITHVDLGGG 240
           E++ R A  PGL + G+ +HIGSQLTELAP E AY++V EL  QLRA GH I  +DLGGG
Sbjct: 180 EVYARAASLPGLKVIGIDVHIGSQLTELAPFELAYQKVAELTEQLRADGHDIHRLDLGGG 239

Query: 241 LGVPY-HAGQTVSTAEEFGAMVARVTQGWNVTLMFEPGRFICGNAGVLVTEVIWVKPAAG 299
           LG+PY  +  T     E+GAMV R        +  EPGR I GNAG++V++VI+VK    
Sbjct: 240 LGIPYTRSNDTPPLPVEYGAMVQRTLGHLGCEIEIEPGRLIAGNAGIMVSKVIYVKSGED 299

Query: 300 NPYVIVDAAMNDLARPALYDAYHEF-EAVEPTG--EKFVANIAGPVCETGDTFAMGREID 356
             ++I+D AMNDL RPA+Y+AYH+    +EP+   E+   +I GPVCETGDTFA  R++ 
Sbjct: 300 RDFLIIDGAMNDLIRPAMYEAYHDIVPVIEPSAGVEQRAYDIVGPVCETGDTFARHRDMP 359

Query: 357 VVKSGDLAVFRTAGAYGATMASTYNSRALVPEVLVSGDRFAVVADRIQPETIMGAERVPE 416
            +++GDL  FR+AGAYGA MAS YNSR L+PEVLV+GD+FAV+  R   + ++  + +PE
Sbjct: 360 PLEAGDLVAFRSAGAYGAVMASEYNSRPLIPEVLVNGDQFAVIRRRPDFDEMINRDTIPE 419

Query: 417 WV 418
           W+
Sbjct: 420 WL 421


Lambda     K      H
   0.318    0.135    0.389 

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: 537
Number of extensions: 24
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: 419
Length of database: 421
Length adjustment: 32
Effective length of query: 387
Effective length of database: 389
Effective search space:   150543
Effective search space used:   150543
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: 50 (23.9 bits)

Align candidate GFF336 PGA1_c03470 (diaminopimelate decarboxylase LysA)
to HMM TIGR01048 (lysA: diaminopimelate decarboxylase (EC 4.1.1.20))

Software error:

../bin/blast/fastacmd -i /tmp/list.11375.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.11375.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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