Alignments for a candidate for dapD in Herbaspirillum seropedicae SmR1

Align 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (characterized)
to candidate HSERO_RS10800 HSERO_RS10800 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase

Query= CharProtDB::CH_024869
         (274 letters)



>FitnessBrowser__HerbieS:HSERO_RS10800
          Length = 277

 Score =  384 bits (986), Expect = e-111
 Identities = 195/273 (71%), Positives = 221/273 (80%), Gaps = 3/273 (1%)

Query: 2   QQLQNIIETAFERRAEITPANADTVTREAVNQVIALLDSGALRVAEKID-GQWVTHQWLK 60
           Q +Q II+ A+E RA ++P +A    R AV +VIA L+ G LRVA +   GQW  +QW+K
Sbjct: 3   QSIQQIIDQAWEDRASLSPKSAPADIRNAVAEVIAGLNDGTLRVANRQGVGQWEVNQWVK 62

Query: 61  KAVLLSFRINDNQVIEGAES--RYFDKVPMKFADYDEARFQKEGFRVVPPAAVRQGAFIA 118
           KA+LLSFR+ DN  +       +++DKVP KFA+Y    F K GFRVVPPA  R G+FI 
Sbjct: 63  KAILLSFRLEDNVPMSAGTGYPQFYDKVPTKFANYTAEDFAKGGFRVVPPAVARHGSFIG 122

Query: 119 RNTVLMPSYVNIGAYVDEGTMVDTWATVGSCAQIGKNVHLSGGVGIGGVLEPLQANPTII 178
           RN VLMPSYVNIGAYVDEGTMVDTWATVGS AQIGKNVHLSGGVGIGGVLEP+QA P II
Sbjct: 123 RNVVLMPSYVNIGAYVDEGTMVDTWATVGSAAQIGKNVHLSGGVGIGGVLEPVQAGPVII 182

Query: 179 EDNCFIGARSEVVEGVIVEEGSVISMGVYIGQSTRIYDRETGEIHYGRVPAGSVVVSGNL 238
           EDNCFIGARSEVVEGVI+EE SV+SMGVYIGQST+IYDRETGE+HYGRVPAGSVVV GNL
Sbjct: 183 EDNCFIGARSEVVEGVIIEENSVLSMGVYIGQSTKIYDRETGEVHYGRVPAGSVVVPGNL 242

Query: 239 PSKDGKYSLYCAVIVKKVDAKTRGKVGINELLR 271
           PSKDGKYSLY A+IVKKVDA+TR K  INELLR
Sbjct: 243 PSKDGKYSLYAAIIVKKVDAQTRSKTSINELLR 275


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: 302
Number of extensions: 6
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: 277
Length adjustment: 25
Effective length of query: 249
Effective length of database: 252
Effective search space:    62748
Effective search space used:    62748
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 HSERO_RS10800 HSERO_RS10800 (2,3,4,5-tetrahydropyridine-2,6-carboxylate 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.22353.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.22353.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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