Alignments for a candidate for dapF in Calditerrivibrio nitroreducens DSM 19672

Align Diaminopimelate epimerase; DAP epimerase; EC 5.1.1.7; PLP-independent amino acid racemase (uncharacterized)
to candidate WP_013451925.1 CALNI_RS09135 diaminopimelate epimerase

Query= curated2:O67693
         (279 letters)



>NCBI__GCF_000183405.1:WP_013451925.1
          Length = 272

 Score =  248 bits (632), Expect = 1e-70
 Identities = 138/286 (48%), Positives = 185/286 (64%), Gaps = 24/286 (8%)

Query: 1   MEFWKLQGSGNDFVVIDDRDEKLESFLKERGVSKEDF---VRKVCAFHTGVGADGLILIK 57
           + FWK+ GSGNDF++ID+R   ++         K DF   V K+C     VGADG+ILI+
Sbjct: 4   VSFWKMSGSGNDFIIIDNRTLFID---------KTDFRNTVAKICKRSMSVGADGVILIE 54

Query: 58  NPDNPENDFKWEFFNSDGSVAEMCGNGSRCAVRFAYERGIVGNKVRFETLAGVIKAEVYE 117
            P N + DFKW+F+NSDGS AEMCGNGSRCA RF YE GI G +++FE+LAG+I+AE+  
Sbjct: 55  -PSN-KVDFKWDFYNSDGSTAEMCGNGSRCAARFCYENGIAGKQMKFESLAGIIEAEI-T 111

Query: 118 NGRKVKVQLTPPSKPEEKTLTVD----GEEVIGVFINTGVPHFVVPVEDVEKVNVIKLGR 173
               VKV+LT PS   +  L +D       + G F+NTGVPH  + V+D+   +V K GR
Sbjct: 112 GCSSVKVKLTRPS---DLKLNIDIPLTDLTLNGSFVNTGVPHIAIEVDDIYNFDVKKYGR 168

Query: 174 AIRFHEEFQPKGTNVNFVQPVSEDTIKVRTYERGVESETLACGTGATACAIVSYLKGLVK 233
            IRFH+ F PKGTNVNF + + + T+K+RTYERGVE ETLACGTG+ A A + + K ++ 
Sbjct: 169 EIRFHKLFSPKGTNVNFYKILPDKTVKIRTYERGVEDETLACGTGSAAVAFILHKKSIL- 227

Query: 234 KKPVNVLTRSGEVLTIDFSEDLKEVFLTGSVYKVFEGRLSEEVLEY 279
           K PV ++T  G  L I    D   V+L G    V++G L+EE  +Y
Sbjct: 228 KSPVELITTGGMKLIIHIDVD-DNVYLEGEARLVYKGTLTEESYKY 272


Lambda     K      H
   0.317    0.138    0.399 

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: 250
Number of extensions: 11
Number of successful extensions: 5
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: 279
Length of database: 272
Length adjustment: 25
Effective length of query: 254
Effective length of database: 247
Effective search space:    62738
Effective search space used:    62738
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 (21.6 bits)
S2: 47 (22.7 bits)

Align candidate WP_013451925.1 CALNI_RS09135 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.26311.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.26311.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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