Alignments for a candidate for dapF in Bradyrhizobium sp. BTAi1

Align Diaminopimelate epimerase; DAP epimerase; EC 5.1.1.7; PLP-independent amino acid racemase (uncharacterized)
to candidate WP_012040712.1 BBTA_RS01775 diaminopimelate epimerase

Query= curated2:Q89X45
         (291 letters)



>NCBI__GCF_000015165.1:WP_012040712.1
          Length = 289

 Score =  510 bits (1313), Expect = e-149
 Identities = 248/289 (85%), Positives = 268/289 (92%), Gaps = 4/289 (1%)

Query: 1   MSALANHAFAKMNGIGNEIVVVDMRDSTAKVTPDDARAVASAQGGVPYDQLMVLQKPRLD 60
           MSALANH+F KMNGIGNEIVV+D+RD    VTPD+ARAVA+    VPYDQLMVLQ PRLD
Sbjct: 1   MSALANHSFVKMNGIGNEIVVLDLRDVKHVVTPDEARAVAAR---VPYDQLMVLQPPRLD 57

Query: 61  GTEAFISIYNNDGSEAGACGNGMRCVVRRIFEKTGQATATFETAAGLLNAWQGPAPDLYT 120
           GTEAFI IYNNDGSE+GACGNGMRCVVR++FEKTGQA+ATFET AGLLN WQGPAPDLYT
Sbjct: 58  GTEAFIRIYNNDGSESGACGNGMRCVVRQVFEKTGQASATFETRAGLLNCWQGPAPDLYT 117

Query: 121 VDMGVPKFGWQDIPLAEEFRDTRYIELQIGPIDNPILHSPSVVSMGNPHAIFWVD-DVNA 179
           VDMGVPKFGWQ+IPLAEEFRDTRYIELQIGPID PILHSPSVV+MGNPHA+FWVD DVN+
Sbjct: 118 VDMGVPKFGWQEIPLAEEFRDTRYIELQIGPIDAPILHSPSVVNMGNPHAVFWVDGDVNS 177

Query: 180 YDLARFGPLLENHPIFPERANITLAHIVDRDHITIRTWERGAGLTRACGSAACATAVAAA 239
           YDL RFGPLLENHPIFPERANITLAHIVDRDHIT+RTWERGAGLT+ACGSAACATAVAAA
Sbjct: 178 YDLERFGPLLENHPIFPERANITLAHIVDRDHITMRTWERGAGLTKACGSAACATAVAAA 237

Query: 240 RLKRAERNVEITLPGGKLGIEWRERDDHVLMTGTATFEYEGNFDPALFA 288
           RLKRA R V++TLPGG+L IEWRERDDHVLMTGTATFE+EG F+P LFA
Sbjct: 238 RLKRANRIVQMTLPGGELTIEWRERDDHVLMTGTATFEFEGRFEPQLFA 286


Lambda     K      H
   0.320    0.136    0.420 

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: 372
Number of extensions: 13
Number of successful extensions: 3
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: 291
Length of database: 289
Length adjustment: 26
Effective length of query: 265
Effective length of database: 263
Effective search space:    69695
Effective search space used:    69695
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)

Align candidate WP_012040712.1 BBTA_RS01775 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.1400.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.1400.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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