Alignments for a candidate for dapF in Azospirillum brasilense Sp245

Align Diaminopimelate epimerase; DAP epimerase; PLP-independent amino acid racemase; EC 5.1.1.7 (characterized)
to candidate AZOBR_RS14160 AZOBR_RS14160 diaminopimelate epimerase

Query= SwissProt::Q81XR2
         (288 letters)



>FitnessBrowser__azobra:AZOBR_RS14160
          Length = 278

 Score =  197 bits (501), Expect = 2e-55
 Identities = 117/277 (42%), Positives = 155/277 (55%), Gaps = 14/277 (5%)

Query: 6   FTKMHGLGNSYIYVNMFEEQIPEEDLALVAEKVSNINTGIGADGMILICPS--DVAPVKM 63
           F KMHGLGN ++ ++    + P          +++  TG+G D  I+I P+  D     M
Sbjct: 5   FLKMHGLGNDFVVIDA--RKTPYSPAEAEVRAIADRKTGVGCDQFIVIEPAKTDGTAGFM 62

Query: 64  RMFNNDGSEGKSCGNGLRCVAKYAYEHKLVEDTVFTIETLAGIVTAEVTVEEGKVTLAKI 123
           R+ N DG E  +CGN  RCV     E    E   F  ET AGI+ A    + G++T   +
Sbjct: 63  RIRNADGGEVSACGNASRCVGWLLMEEAGAERVAF--ETNAGILQAS-RADNGRIT---V 116

Query: 124 DMGAPRLTRAEIPMLGEGETPFIRENFLYNNHRYAFTAVSMGNPHAVIFVDDVEQAPLTT 183
           DMG   L   +IP+    +T  +R + + +      TAVSMGNPHAV FVDD E  PL  
Sbjct: 117 DMGPANLDWTQIPLAEPADT--LRLDAVSHGGFAGPTAVSMGNPHAVFFVDDAEAVPLAE 174

Query: 184 LGPVLETHEMFPERVNVEFIEILNEEEMNFRVWERGSGVTQACGTGACAAVVASILNGKM 243
           +GPV E H  FP+R NVEF+++L+   +  RVWERG+GVTQACGTGACA  VA+I  G  
Sbjct: 175 VGPVFENHPAFPQRTNVEFVQVLSPTAVRMRVWERGAGVTQACGTGACATAVAAIRRGLT 234

Query: 244 ERGKEITVHLAGGDLMIAWTEEGNVLMKGPAEVICRG 280
            R  ++ V L GG L I W E+G VLM GP  +   G
Sbjct: 235 NR--KVDVILDGGTLTIEWREDGRVLMTGPVALSYTG 269


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: 218
Number of extensions: 14
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 AZOBR_RS14160 AZOBR_RS14160 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.13954.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.13954.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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