Alignments for a candidate for dapF in Stenotrophomonas chelatiphaga DSM 21508

Align Diaminopimelate epimerase; DAP epimerase; EC 5.1.1.7; PLP-independent amino acid racemase (uncharacterized)
to candidate WP_152983468.1 ABB28_RS12205 diaminopimelate epimerase

Query= curated2:Q3BXU3
         (284 letters)



>NCBI__GCF_001431535.1:WP_152983468.1
          Length = 270

 Score =  419 bits (1076), Expect = e-122
 Identities = 199/269 (73%), Positives = 228/269 (84%)

Query: 15  MHGAGNDFVVLDLRDGTPPPDAALAAQLADRHFGVGCDQILTIEAPRSEGAVAAYGIWNS 74
           MHGAGNDF+++DLRDGTPPP   LAA+LADRH GVGCDQI+TIE PRS  AVA+Y IWNS
Sbjct: 1   MHGAGNDFIMIDLRDGTPPPSPQLAARLADRHTGVGCDQIITIEPPRSATAVASYRIWNS 60

Query: 75  DGSAARQCGNGARCVAAWLVRDGTAQGERFIIDSPMSAHAVERLDGDRYAVAMGVPQFEP 134
           DGS+++QCGNGARCVAAWLVR+G      F IDSP++ H V  L  D +AV MGVP FEP
Sbjct: 61  DGSSSQQCGNGARCVAAWLVRNGDTADSEFAIDSPLATHPVRTLGEDHFAVEMGVPVFEP 120

Query: 135 AQIPLAGFAHARDEYALPVHGETVRFGAVSMGNPHAVVEVGRVDAAPVERVGALLQQNAA 194
           AQIPL GFAH RDEY LPV GETVRFGAVSMGNPHAV+EVG VDAAPVER+GA LQQ+A+
Sbjct: 121 AQIPLIGFAHPRDEYLLPVQGETVRFGAVSMGNPHAVIEVGLVDAAPVERLGASLQQHAS 180

Query: 195 FPDSVNVGFVQVVDPAHVRLRVFERGVGETLACGSGACAAAVVLMQRGRVERDVQVSLPG 254
           FP+SVNVGF QV++P H RLRV+ERGVGETLACGSGACAAAV LMQRGR+  D ++SLPG
Sbjct: 181 FPESVNVGFAQVLEPDHARLRVYERGVGETLACGSGACAAAVSLMQRGRLGPDARISLPG 240

Query: 255 GELRIRWPGDQEQVVMSGPAVFVFDGEWN 283
           GELRI+W G+ + VVMSGP+ FVF+GEWN
Sbjct: 241 GELRIQWAGEGQPVVMSGPSAFVFEGEWN 269


Lambda     K      H
   0.321    0.137    0.423 

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: 331
Number of extensions: 11
Number of successful extensions: 1
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: 284
Length of database: 270
Length adjustment: 25
Effective length of query: 259
Effective length of database: 245
Effective search space:    63455
Effective search space used:    63455
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 (21.9 bits)
S2: 47 (22.7 bits)

Align candidate WP_152983468.1 ABB28_RS12205 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.16760.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.16760.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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