Alignments for a candidate for dapF in Echinicola vietnamensis KMM 6221, DSM 17526

Align Diaminopimelate epimerase; DAP epimerase; EC 5.1.1.7; PLP-independent amino acid racemase (uncharacterized)
to candidate Echvi_1430 Echvi_1430 diaminopimelate epimerase

Query= curated2:A6GYX5
         (256 letters)



>FitnessBrowser__Cola:Echvi_1430
          Length = 257

 Score =  248 bits (634), Expect = 7e-71
 Identities = 130/257 (50%), Positives = 172/257 (66%), Gaps = 5/257 (1%)

Query: 1   MKLYKYQGTGNDFIMIDNRLQIFPKQNTALIQKLCDRRFGIGADGLILLENDQSTDFKMV 60
           +  YKYQGTGNDF+MID+R   F ++N  L+ +LCDR+FGIGADGLIL+ N +  DF+M+
Sbjct: 3   ISFYKYQGTGNDFVMIDDRSAHFDEKNLKLVSQLCDRKFGIGADGLILIRNKEGYDFEMI 62

Query: 61  YYNSDGNQSTMCGNGGRCLVAFAKKLNIIKNKTTFIAIDGLHHATINENDIISLQMKNVE 120
           YYN+DG+QS MCGNG RC VAF+  L I+  +  F+AIDG H A I + +I +L M +V 
Sbjct: 63  YYNADGSQS-MCGNGARCAVAFSSFLGIVTEEAHFLAIDGPHDARIEDGNI-ALGMGDVT 120

Query: 121 EVNIHDNYVFLNTGSPHHVQFADNLSNFDVKNEGAKIRYSDLYGQAGSNINFVHQTSPTQ 180
            +   D+  ++NTGSPHHV+F  ++ N+ V + GA IRYSD Y   G+N+NFV   +   
Sbjct: 121 AIERVDDDFYVNTGSPHHVRFVKDVENYPVVDTGASIRYSDHYTPKGTNVNFVSTLAEDH 180

Query: 181 FSIRTYERGVEDETLSCGTGATATAIAMKATGKTNSNNITINVQGGKLEVSFNQ-ENSIF 239
             +RTYERGVEDETLSCGTG TA A+      +   ++I I   GG L V F    +  F
Sbjct: 181 IYVRTYERGVEDETLSCGTGVTACALIY--GDQKGIDHIKIKALGGNLAVKFKALPDGRF 238

Query: 240 TNIFLKGPAEFVFETTI 256
           TNI L GPA+ VF+ TI
Sbjct: 239 TNILLIGPAQQVFKGTI 255


Lambda     K      H
   0.318    0.135    0.386 

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: 246
Number of extensions: 10
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: 256
Length of database: 257
Length adjustment: 24
Effective length of query: 232
Effective length of database: 233
Effective search space:    54056
Effective search space used:    54056
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 Echvi_1430 Echvi_1430 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.8253.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.8253.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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