Alignments for a candidate for dapF in Thermomonospora curvata DSM 43183

Align diaminopimelate epimerase (EC 5.1.1.7) (characterized)
to candidate WP_012853604.1 TCUR_RS16175 diaminopimelate epimerase

Query= BRENDA::E4NI20
         (295 letters)



>NCBI__GCF_000024385.1:WP_012853604.1
          Length = 273

 Score =  271 bits (693), Expect = 1e-77
 Identities = 161/281 (57%), Positives = 187/281 (66%), Gaps = 21/281 (7%)

Query: 15  FLKGHGTQNDFVIVPDPDGRIDLSAADVAALCDRRAGIGADGVLRVVRS--AAEPAAAGM 72
           F+KGHGT+NDFVI+PDPDG +DL  A VAALCDRRAGIGADGVLRVVR+  A +P A  +
Sbjct: 3   FIKGHGTENDFVILPDPDGALDLRPATVAALCDRRAGIGADGVLRVVRTKAAGDPIAEEL 62

Query: 73  AGQAEWFMDYRNADGSIAEMCGNGVRVFARYLVHAGHAGSGELAVATRGGVKRVRIAADA 132
           AG+AEWFMDYRNADGS+AEMCGNGVRVFARYLV AG A  GE  VATR G++RV +    
Sbjct: 63  AGEAEWFMDYRNADGSLAEMCGNGVRVFARYLVDAGLAAPGEWDVATRAGLRRVTL---- 118

Query: 133 PDGTPGDVTVDMGRAAFPGPDGVTVTVDGRSWPALNVNMGNPHAVAFVEDLAHAGHLYEA 192
             G  GDV+VDMG     G     +   G  +  L V+MGNPH +A   D   A      
Sbjct: 119 --GPSGDVSVDMGAPLVQGRGRARLA--GEDFTGLRVSMGNPH-LACPVDRPVAELDLTR 173

Query: 193 PATAPAGAYPQGVNVEFVVDRGERHVAMRVHERGSGETRSCGTGACAVAVAAIRRDGADP 252
           P       +P GVNVE     G+R V MRVHERGSGETRSCGTGA A AVAA    G DP
Sbjct: 174 PPQVDERDFPDGVNVELFRIVGDRQVEMRVHERGSGETRSCGTGAVATAVAAA---GEDP 230

Query: 253 AATGEAVRYTVDVPGGRLVIEEFPDGRI-EMTGPAVIVAEG 292
            + GE   + +DVPGGR+ +    DGR   + GPAV+VAEG
Sbjct: 231 -SPGE---WIIDVPGGRVTVT--LDGRTSHLRGPAVLVAEG 265


Lambda     K      H
   0.318    0.135    0.408 

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: 420
Number of extensions: 29
Number of successful extensions: 7
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: 295
Length of database: 273
Length adjustment: 26
Effective length of query: 269
Effective length of database: 247
Effective search space:    66443
Effective search space used:    66443
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 WP_012853604.1 TCUR_RS16175 (diaminopimelate epimerase)
to HMM TIGR00652 (dapF: diaminopimelate epimerase (EC 5.1.1.7))

Software error:

../bin/blast/fastacmd -i /tmp/list.8378.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.8378.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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