Alignments for a candidate for dapF in Trichormus variabilis ATCC 29413

Align Diaminopimelate epimerase; DAP epimerase; PLP-independent amino acid racemase; EC 5.1.1.7 (characterized)
to candidate WP_041456242.1 AVA_RS15605 diaminopimelate epimerase

Query= SwissProt::Q81XR2
         (288 letters)



>NCBI__GCF_000204075.1:WP_041456242.1
          Length = 279

 Score =  209 bits (531), Expect = 7e-59
 Identities = 118/284 (41%), Positives = 173/284 (60%), Gaps = 20/284 (7%)

Query: 6   FTKMHGLGNSYIYVNMFEEQIPEEDLALVAEKVSNI---NTGIGADGMILICPSDVAP-V 61
           FTK HGLGN +I ++    + P    A+  EK   +   + GIGADG+I   P +     
Sbjct: 5   FTKYHGLGNDFILIDNRASKTP----AITPEKAVEMCDRHFGIGADGVIFALPGENGTDY 60

Query: 62  KMRMFNNDGSEGKSCGNGLRCVAKYAYEHKLV---EDTVFTIETLAGIVTAEVTVEEGKV 118
            MR+FN+DGSE + CGNG+RC+A +  + + +   +DT + I TLAG++T ++T  +G++
Sbjct: 61  TMRIFNSDGSEPEMCGNGIRCLAAFLADLEGLSRNKDT-YRIHTLAGVITPQLT-PDGQI 118

Query: 119 TLAKIDMGAPRLTRAEIPM-LGEGETPFIRENFLYNNHRYAFTAVSMGNPHAVIFVDDVE 177
              K+DMG PRL   EIP  +   +   I +        +  T VSMGNPH + FV+DV 
Sbjct: 119 ---KVDMGLPRLLAGEIPTNIAAADQKVINQPLEVEGKTWEVTCVSMGNPHCITFVEDVA 175

Query: 178 QAPLTTLGPVLETHEMFPERVNVEFIEILNEEEMNFRVWERGSGVTQACGTGACAAVVAS 237
             PL T+GP  E H  FP+R N EFI++++ + +  RVWERG+G+T ACGTGACA++VA+
Sbjct: 176 AIPLETIGPKFEHHPAFPQRTNTEFIQVVSRDYLKMRVWERGAGITLACGTGACASLVAA 235

Query: 238 ILNGKMERGKEITVHLAGGDLMIAWTE-EGNVLMKGPAEVICRG 280
           +L G+ +R    TV L GG L I W+E +  + M GPA+ +  G
Sbjct: 236 VLTGRSDR--LATVELPGGPLEIEWSEVDQRIYMTGPADRVFTG 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: 241
Number of extensions: 18
Number of successful extensions: 7
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: 279
Length adjustment: 26
Effective length of query: 262
Effective length of database: 253
Effective search space:    66286
Effective search space used:    66286
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_041456242.1 AVA_RS15605 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.11460.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.11460.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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