Align Diaminopimelate epimerase; DAP epimerase; EC 5.1.1.7; PLP-independent amino acid racemase (uncharacterized)
to candidate GFF3342 PGA1_c33950 diaminopimelate epimerase DapF
Query= curated2:Q3IZB6 (279 letters) >FitnessBrowser__Phaeo:GFF3342 Length = 281 Score = 298 bits (763), Expect = 9e-86 Identities = 143/275 (52%), Positives = 193/275 (70%), Gaps = 2/275 (0%) Query: 2 MDMGASSGLGFMKMHGAGNDFVVIDSRGRGGALVTAGLARALGDRHRGVGFDQLAEIRDQ 61 M +G+ + L FMKMHG GNDFVV+D+R + +T +A + R G+GFDQL I Sbjct: 4 MTIGSDTRLPFMKMHGLGNDFVVVDARDQTWD-ITPAMAEGIAHRQMGIGFDQLTVITKG 62 Query: 62 EGADCALDFWNSDGSRSGTCGNATRCVSDYLMRDLGRDEVNLVTARGRLHARRREDGLVA 121 + D L F+N+DGS S CGNATRC++ +L+ + G+ + L T RG L A +GL + Sbjct: 63 D-EDAHLTFYNADGSTSAACGNATRCIARHLLDESGKTHLRLTTDRGLLLAEDAGNGLTS 121 Query: 122 VNMGAPQLLWSEIPLARAMETDSLPLEGTPSAVGMGNPHCIYFVEDAEAVDLAGRGAAVE 181 VNMG PQL W +IPLA ++T LP+EG P+A GMGNPHC +FV++AE + LA GA E Sbjct: 122 VNMGEPQLDWQDIPLAEDVDTLELPIEGAPTATGMGNPHCTFFVDNAEVIPLAEFGARYE 181 Query: 182 TDPLFPERTNVEFASLIGPDRLRLRVWERGAGITLACGSGACATAVAAARRGLTGRQVRL 241 PL+PERTNV+ A ++ PD LR+RVWERG GITLA GS +CATAVAAARRGLT R+V++ Sbjct: 182 HHPLYPERTNVQVAHVVAPDHLRMRVWERGVGITLASGSSSCATAVAAARRGLTSRKVQI 241 Query: 242 EMDGGVLEVDWRDEGVWLSGPVARVFEGHLSPEMM 276 ++DGG L +DWR +GVW++GP V +GH + + + Sbjct: 242 DLDGGTLWIDWRKDGVWMTGPTMHVADGHFTRQFL 276 Lambda K H 0.321 0.138 0.423 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: 310 Number of extensions: 11 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: 279 Length of database: 281 Length adjustment: 26 Effective length of query: 253 Effective length of database: 255 Effective search space: 64515 Effective search space used: 64515 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: 47 (22.7 bits)
Align candidate GFF3342 PGA1_c33950 (diaminopimelate epimerase DapF)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))
../bin/blast/fastacmd -i /tmp/list.22622.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.22622.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.
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