Alignments for a candidate for lysA in Desulfovibrio vulgaris Miyazaki F

Align diaminopimelate decarboxylase (EC 4.1.1.20) (characterized)
to candidate 8499585 DvMF_0353 diaminopimelate decarboxylase (RefSeq)

Query= BRENDA::Q9KVL7
         (417 letters)



>FitnessBrowser__Miya:8499585
          Length = 416

 Score =  451 bits (1161), Expect = e-131
 Identities = 233/413 (56%), Positives = 302/413 (73%), Gaps = 3/413 (0%)

Query: 1   MDYFNYQEDGQLWAEQVPLADLANQYGTPLYVYSRATLERHWHAFDKSVGDYPHLICYAV 60
           M +F Y+E GQL+AE VP+ +LA++YGTPLYVYS ATL RH+ AFD +     HL CY+V
Sbjct: 1   MHHFQYRE-GQLYAEGVPVHELASRYGTPLYVYSAATLRRHFQAFDSAFTGVGHLTCYSV 59

Query: 61  KANSNLGVLNTLARLGSGFDIVSVGELERVLAAGGDPSKVVFSGVGKTEAEMKRALQLKI 120
           KANSN+ +L  LA +G+G DIVS GEL R LAAG    ++V+SGVGK + E++ AL+  I
Sbjct: 60  KANSNVHLLRLLADMGAGMDIVSGGELHRALAAGVPGQRIVYSGVGKQDDEIRAALEADI 119

Query: 121 KCFNVESEPELQRLNKVAGELGVKAPISLRINPDVDAKTHPYISTGLRDNKFGITFDRAA 180
             FNVES  EL+R+N VAG++G  A I +RINPDVD KTHPYISTG+R+NKFG+  ++A 
Sbjct: 120 LLFNVESVQELERINAVAGQMGRTARIGVRINPDVDPKTHPYISTGMRNNKFGLDMEQAL 179

Query: 181 QVYRLAHSLPNLDVHGIDCHIGSQLTALAPFIDATDRLLALIDSLKAEGIHIRHLDVGGG 240
             Y LA  LPN+   GIDCHIGSQLT LAPF++A DR+L   + L+  G+ I HLD+GGG
Sbjct: 180 AAYLLARDLPNVQPVGIDCHIGSQLTTLAPFLEALDRVLDFHERLRDLGLAITHLDLGGG 239

Query: 241 LGVVYRDELPPQPSEYAKALLDRLERHRDLELIFEPGRAIAANAGVLVTKVEFLKHTEHK 300
           LG+ Y +E PP P E+ +A+ +RL R R L LI EPGR IA NAG+LV +V + K T  K
Sbjct: 240 LGITYGEETPPHPREFGEAVSERL-RGRGLSLILEPGRVIAGNAGILVGRVIYTKSTPSK 298

Query: 301 NFAIIDAAMNDLIRPALYQAWQDIIPLRPRQGEAQTYDLVGPVCETSDFLGKDRDLV-LQ 359
           NF I DAAMNDL+RP+LYQ++  I  ++P   +  T D+VGP+CE+ DFL +DR L  +Q
Sbjct: 299 NFIIADAAMNDLVRPSLYQSYHRIAEVQPAGRDEITADVVGPICESGDFLARDRILPDMQ 358

Query: 360 EGDLLAVRSSGAYGFTMSSNYNTRPRVAEVMVDGNKTYLVRQREELSSLWALE 412
           +G+LLAV S+GAYGF+MSSNYN+RPR AEV+VDG     +R+RE L+ L A E
Sbjct: 359 QGELLAVFSAGAYGFSMSSNYNSRPRAAEVLVDGATARCIRKRETLADLVAPE 411


Lambda     K      H
   0.319    0.137    0.405 

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: 507
Number of extensions: 19
Number of successful extensions: 3
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: 417
Length of database: 416
Length adjustment: 31
Effective length of query: 386
Effective length of database: 385
Effective search space:   148610
Effective search space used:   148610
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 (21.7 bits)
S2: 50 (23.9 bits)

Align candidate 8499585 DvMF_0353 (diaminopimelate decarboxylase (RefSeq))
to HMM TIGR01048 (lysA: diaminopimelate decarboxylase (EC 4.1.1.20))

Software error:

../bin/blast/fastacmd -i /tmp/list.12613.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.12613.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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