Align Diaminopimelate epimerase; DAP epimerase; EC 5.1.1.7; PLP-independent amino acid racemase (uncharacterized)
to candidate PP_3790 PP_3790 diaminopimelate epimerase
Query= curated2:Q8R9S4 (274 letters) >FitnessBrowser__Putida:PP_3790 Length = 268 Score = 168 bits (426), Expect = 1e-46 Identities = 92/265 (34%), Positives = 150/265 (56%), Gaps = 15/265 (5%) Query: 1 MRFTKMHGLGNDFIVIEAVEGVDYSELAV-KLCDRHFGIGADGLLVVEPSHIADIKMRIF 59 M+F K H GND++V D S+ + ++CDRH G+G+DG+LV + +RI+ Sbjct: 1 MQFYKYHAAGNDYLVYRDCVPFDCSKPMISRICDRHRGLGSDGILVPVIKEGERLSVRIY 60 Query: 60 NADGSEAEMCGNGSRCFAKYVYEKGIVSKQKMTVETLAGVIMPELFVENGKIKSVKVYMG 119 N DGS+AE GNG R +Y++++ IV+ + T G++ ++ ++NG+ + + MG Sbjct: 61 NTDGSQAEKSGNGLRILCRYLWDQNIVAGSPFEISTKGGIVTCQV-LDNGQ--RISIAMG 117 Query: 120 SPIFESSKIPVKSEKQKFIDEPVKIDGKTYRLSSVRVGVPHTILFVSSFEESFMKELGPK 179 F ++ V +DG +L V +G PH ++FV E+ ++LGP Sbjct: 118 QAAFANTAAFT-----------VDVDGTPLQLHPVSMGNPHCVVFVDQPTETLARQLGPL 166 Query: 180 IEKSSLFPEGTNVDFVKVEDEENISVRTWERGVGLTLACGSGASASAVVSSLLGRTRRSV 239 IE+ S+FP+ TNV FV+V D + + V+ WERGVG TL+ G+ + A+A VS LG V Sbjct: 167 IERLSIFPDRTNVQFVRVIDRQTLEVQIWERGVGYTLSSGTSSCAAAAVSRRLGLVGPRV 226 Query: 240 NVHFKAGVLLVEWKEDNSIYLSGEV 264 V+ GV+++E +D + + G V Sbjct: 227 AVNMAGGVIMIELDDDYHVLMQGPV 251 Lambda K H 0.318 0.136 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: 183 Number of extensions: 9 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: 274 Length of database: 268 Length adjustment: 25 Effective length of query: 249 Effective length of database: 243 Effective search space: 60507 Effective search space used: 60507 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 PP_3790 PP_3790 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))
../bin/blast/fastacmd -i /tmp/list.32122.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.32122.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.
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