GapMind for catabolism of small carbon sources

 

Alignments for a candidate for galE in Caulobacter crescentus NA1000

Align UDP-glucose 4-epimerase; EC 5.1.3.2; Galactowaldenase; UDP-galactose 4-epimerase (uncharacterized)
to candidate CCNA_00090 CCNA_00090 UDP-glucose 4-epimerase

Query= curated2:Q59745
         (327 letters)



>FitnessBrowser__Caulo:CCNA_00090
          Length = 327

 Score =  425 bits (1092), Expect = e-124
 Identities = 202/318 (63%), Positives = 245/318 (77%)

Query: 4   ETVLVVGGAGYIGSHTCLDLANKGYRPVVFDNFSNGHREFVRWGPAEEGDIRDRARLDEV 63
           +TVLV GGAGY+GSH CL LA  G+RPVVFD+ SNGHRE V+WGP E GDIRD ARLD V
Sbjct: 2   QTVLVTGGAGYVGSHCCLALAEAGFRPVVFDDLSNGHREHVQWGPLEVGDIRDAARLDAV 61

Query: 64  LAKHKPAAILHFAALIEVGESVKDPVSFYENNVIGTLTLLSAAQAAGINAFVFSSTCATY 123
            A + P A+LHFAA IEVGESVK+P +F++ NV GT+TL+ AA+ AG+   VFSSTCAT+
Sbjct: 62  FAAYAPVAVLHFAARIEVGESVKNPGAFFDTNVGGTITLIEAARRAGVKVVVFSSTCATF 121

Query: 124 GLPQSVPLDETHRQVPINPYGRTKYIVEQALADYDQYGSLRSVVLRYFNAAGADFEGRIG 183
           G P  +P+ ETH Q P+NPYGR+K +VEQALADYD+Y  L+S V+RYFNAAGAD +GRIG
Sbjct: 122 GDPVDLPMKETHPQAPLNPYGRSKLMVEQALADYDRYVGLKSAVMRYFNAAGADPQGRIG 181

Query: 184 EWHQPETHAIPLAIDAALGRRQGFKVFGSDYETRDGTCVRDYIHVLDLADAHVRAVEYLL 243
           EWH+PETHA+PLAI  ALG+R  F +FG DY+TRDGT VRDY+HVLDLADAHV A++ LL
Sbjct: 182 EWHEPETHAVPLAIQVALGQRPRFTIFGDDYDTRDGTAVRDYVHVLDLADAHVAALKRLL 241

Query: 244 KGGDSVALNLGTGTGTTVKELLGAIEEVSNRPFPVEYIGRREGDSHTLVANNDKARDVLG 303
            GG S   NLGTGTGTTV+EL+  + +V+  P PVE   RR GD+  LV ++ KAR  LG
Sbjct: 242 VGGSSETYNLGTGTGTTVRELVDGVGKVAGAPLPVEIASRRPGDAPVLVGDHAKARAELG 301

Query: 304 WVPQYDLSEIIRSAWDWH 321
           W     L EI+ +AW WH
Sbjct: 302 WKASRSLDEILSTAWRWH 319


Lambda     K      H
   0.319    0.137    0.415 

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: 412
Number of extensions: 11
Number of successful extensions: 1
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: 327
Length of database: 327
Length adjustment: 28
Effective length of query: 299
Effective length of database: 299
Effective search space:    89401
Effective search space used:    89401
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 (21.7 bits)
S2: 48 (23.1 bits)

Align candidate CCNA_00090 CCNA_00090 (UDP-glucose 4-epimerase)
to HMM TIGR01179 (galE: UDP-glucose 4-epimerase GalE (EC 5.1.3.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.21364.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.21364.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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