GapMind for Amino acid biosynthesis

 

Alignments for a candidate for dapD in Dechlorosoma suillum PS

Align 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (characterized)
to candidate Dsui_2709 Dsui_2709 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase

Query= CharProtDB::CH_024869
         (274 letters)



>FitnessBrowser__PS:Dsui_2709
          Length = 272

 Score =  410 bits (1053), Expect = e-119
 Identities = 203/271 (74%), Positives = 227/271 (83%)

Query: 1   MQQLQNIIETAFERRAEITPANADTVTREAVNQVIALLDSGALRVAEKIDGQWVTHQWLK 60
           MQ+LQ IIE A+E R  + P  A     EAV+ V+  LD G LRVAEKI+G WVTHQW+K
Sbjct: 1   MQELQQIIEDAWENRTSLQPGTAPAKIGEAVDHVLEQLDKGTLRVAEKINGDWVTHQWIK 60

Query: 61  KAVLLSFRINDNQVIEGAESRYFDKVPMKFADYDEARFQKEGFRVVPPAAVRQGAFIARN 120
           KAVLLSFR+ DN + +  + R+FDKV  KFA+YDE  F++ GFRVVPPA  R+G++IA+ 
Sbjct: 61  KAVLLSFRLQDNVLQQSGDLRFFDKVQTKFANYDEHAFRQGGFRVVPPAVARRGSYIAKG 120

Query: 121 TVLMPSYVNIGAYVDEGTMVDTWATVGSCAQIGKNVHLSGGVGIGGVLEPLQANPTIIED 180
            VLMPSYVNIGAYVDE TMVDTW TVGSCAQIGKNVHLSGGVGIGGVLEPLQANPTIIED
Sbjct: 121 AVLMPSYVNIGAYVDENTMVDTWVTVGSCAQIGKNVHLSGGVGIGGVLEPLQANPTIIED 180

Query: 181 NCFIGARSEVVEGVIVEEGSVISMGVYIGQSTRIYDRETGEIHYGRVPAGSVVVSGNLPS 240
           NCFIGARSEVVEGVIV EGSVISMGVYI QST+IYDRETGEI YGR+P GSVVVSGNLP+
Sbjct: 181 NCFIGARSEVVEGVIVGEGSVISMGVYISQSTKIYDRETGEISYGRIPPGSVVVSGNLPA 240

Query: 241 KDGKYSLYCAVIVKKVDAKTRGKVGINELLR 271
           KDG +SLYCAVIVKKVDA+TR K  INELLR
Sbjct: 241 KDGSHSLYCAVIVKKVDAQTRAKTSINELLR 271


Lambda     K      H
   0.318    0.136    0.391 

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: 308
Number of extensions: 6
Number of successful extensions: 2
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: 272
Length adjustment: 25
Effective length of query: 249
Effective length of database: 247
Effective search space:    61503
Effective search space used:    61503
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 Dsui_2709 Dsui_2709 (2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase)
to HMM TIGR00965 (dapD: 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117))

Software error:

../bin/blast/fastacmd -i /tmp/list.6677.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.6677.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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