Alignments for a candidate for dapF in Geotalea uraniireducens Rf4

Align Diaminopimelate epimerase; DAP epimerase; PLP-independent amino acid racemase; EC 5.1.1.7 (characterized)
to candidate WP_011940703.1 GURA_RS19900 diaminopimelate epimerase

Query= SwissProt::Q81XR2
         (288 letters)



>NCBI__GCF_000016745.1:WP_011940703.1
          Length = 278

 Score =  286 bits (732), Expect = 4e-82
 Identities = 149/279 (53%), Positives = 188/279 (67%), Gaps = 5/279 (1%)

Query: 6   FTKMHGLGNSYIYVNMFEEQIPEEDLALVAEKVSNINTGIGADGMILICPSDVAPVKMRM 65
           FTKMHG GN Y+YVN F E++  ++ A VA KVSN N GIG+DG+ILI PSD A V+MRM
Sbjct: 3   FTKMHGAGNDYVYVNCFSERV--DNPADVAIKVSNRNFGIGSDGLILIMPSDKADVRMRM 60

Query: 66  FNNDGSEGKSCGNGLRCVAKYAYEHKLVEDTVFTIETLAGIVTAEV-TVEEGKVTLAKID 124
           FN+DGSE + CGNG+RCVAKYAY+H +V     + ET AGI+T ++ T E  KV   +++
Sbjct: 61  FNSDGSESEMCGNGIRCVAKYAYDHGIVGKKEISAETGAGILTLQLFTNEANKVEKVRVN 120

Query: 125 MGAPRLTRAEIPMLGEGETPFIRENFLYNNHRYAFTAVSMGNPHAVIFVDDVEQAPLTTL 184
           MG PRLTR+EIPM GE     I E     +  +  T  SMGNPH VIFVDDVE   +   
Sbjct: 121 MGRPRLTRSEIPMTGEAGAKVINEPLNILHTTFHITCASMGNPHCVIFVDDVENFQVEKY 180

Query: 185 GPVLETHEMFPERVNVEFIEILNEEEMNFRVWERGSGVTQACGTGACAAVVASILNGKME 244
           GP++E HE+FP R NVEF++I++  E+  R WERG+G T ACGTGA A  VA  LNG  E
Sbjct: 181 GPIIENHEIFPRRTNVEFVQIISRTEVRQRTWERGAGETLACGTGASAVCVAGALNGLTE 240

Query: 245 RGKEITVHLAGGDLMIAWTEEGNVLMKGPAEVICRGVYE 283
             K+I  HL+GGDL + W E+G + M GPA  +  G  E
Sbjct: 241 --KKILNHLSGGDLELEWAEDGFLYMTGPAVEVFSGEIE 277


Lambda     K      H
   0.318    0.136    0.398 

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: 274
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: 288
Length of database: 278
Length adjustment: 26
Effective length of query: 262
Effective length of database: 252
Effective search space:    66024
Effective search space used:    66024
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: 47 (22.7 bits)

Align candidate WP_011940703.1 GURA_RS19900 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.28676.in -d ../tmp/NCBI__GCF_000016745.1/orgs.faa -p T > /tmp/gapView.28676.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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