Alignments for a candidate for dapF in Algiphilus aromaticivorans DG1253

Align Diaminopimelate epimerase; DAP epimerase; PLP-independent amino acid racemase; EC 5.1.1.7 (characterized)
to candidate WP_043769320.1 U743_RS14940 diaminopimelate epimerase

Query= SwissProt::P0A6K1
         (274 letters)



>NCBI__GCF_000733765.1:WP_043769320.1
          Length = 286

 Score =  251 bits (640), Expect = 2e-71
 Identities = 141/282 (50%), Positives = 173/282 (61%), Gaps = 19/282 (6%)

Query: 1   MQFSKMHGLGNDFMVVDAVTQNVFFSPELIRRLADRHLGVGFDQLLVVEPPYDPELDFHY 60
           ++FSKMHGLGNDF+VVDA  Q    S E +  L DRH GVG DQ+LVV+PP   E DF Y
Sbjct: 5   LRFSKMHGLGNDFVVVDATRQAFAPSTEQLAWLCDRHFGVGADQVLVVDPPAGDE-DFGY 63

Query: 61  RIFNADGSEVAQCGNGARCFARFVRLKGLTNKRDIRVSTANGRMVLTVTDDDLVRVNMGE 120
           RI+NADGS   QCGNGARC   F+  +GL++K  + V T++ RM +   DD    V +  
Sbjct: 64  RIYNADGSRSGQCGNGARCLGLFIHGQGLSDKDRLSVRTSDTRMHIARCDDADYEVELAP 123

Query: 121 PNFEPSAVPFRANKAEKTYIMRAAEQTI--------LCGVVSMGNPHCVIQVDDVDTAAV 172
           P  EP+A+P R + A       AAE  +          G+V +GNPH V+ VDDVDT  V
Sbjct: 124 PVLEPAALPSRLDAAP------AAEHELEVPGFGLLRVGLVQLGNPHAVLLVDDVDTTPV 177

Query: 173 ETLGPVLESHERFPERANIGFMQVVKREHIRLRVYERGAGETQACGSGACAAVAVGIQQG 232
             LG  L++   FP   N+GF+Q+  R   RLRVYERGAGET ACGSGACAA    + +G
Sbjct: 178 AELGAALQALPLFPASVNVGFLQMQGRGEGRLRVYERGAGETLACGSGACAAAVSAVLRG 237

Query: 233 LLAEEVRVELPGGRLDIAWKG----PGHPLYMTGPAVHVYDG 270
           L  E V +EL GG L IAW G    P  P+ M GPA HVYDG
Sbjct: 238 LADEAVTLELRGGSLHIAWSGSLSSPQSPVRMRGPATHVYDG 279


Lambda     K      H
   0.323    0.140    0.425 

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: 257
Number of extensions: 12
Number of successful extensions: 5
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: 274
Length of database: 286
Length adjustment: 26
Effective length of query: 248
Effective length of database: 260
Effective search space:    64480
Effective search space used:    64480
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)

Align candidate WP_043769320.1 U743_RS14940 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.9399.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.9399.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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