GapMind for catabolism of small carbon sources

 

Alignments for a candidate for galE in Desulfovibrio vulgaris Hildenborough

Align UDP-glucose 4-epimerase; EC 5.1.3.2; Galactowaldenase; UDP-galactose 4-epimerase (uncharacterized)
to candidate 206802 DVU1360 UDP-glucose 4-epimerase

Query= curated2:Q9KDV3
         (334 letters)



>MicrobesOnline__882:206802
          Length = 331

 Score =  334 bits (856), Expect = 2e-96
 Identities = 163/319 (51%), Positives = 212/319 (66%)

Query: 3   ILVTGGAGYIGSHTVLFLLEQGEQVIVLDNLQKGHAGALSDVTFYHGDIRDDQLLDTIFT 62
           +LV GGAGYIGSH V  L+E G   I+ DNL  GHA ++ DV    GD+ D Q L  +F 
Sbjct: 10  VLVCGGAGYIGSHMVRALVEHGYVPIIFDNLSTGHAESVGDVDLVRGDLLDRQALRRLFA 69

Query: 63  THSIDTVIHFAANSLVGESVKQPIEYYENNVIGTHTLLKKMLEHDVKKIVFSSTAATYGE 122
            HS D V+HF+A SLVGES+  P  Y+ NNV+GT  LL+ M E  V ++VFSS+AA +G 
Sbjct: 70  EHSFDAVMHFSAKSLVGESMTDPGIYFVNNVVGTINLLEAMREAGVSRLVFSSSAAVFGN 129

Query: 123 PVQIPIQESDPTIPTNPYGETKLAIEKMFHWCQEAYGLQYVCLRYFNAAGADPNGRIGED 182
           P+   I E  P  P NPYG +KL IE+       AYG++ V LRYFNAAGAD  G IGE 
Sbjct: 130 PLTARIAEDHPRQPVNPYGRSKLMIEQALRDYANAYGMRSVSLRYFNAAGADEAGDIGES 189

Query: 183 HSPESHLIPIVLQVALGQRERVAIFGDDYQTEDGSCIRDYIHVMDLANAHYLACEHLRKD 242
           H PE+HLIP VL+ ALG    + IFGDDY T DG+C+RDYIHV DL +AH  A  +++  
Sbjct: 190 HKPETHLIPNVLRAALGTGPELKIFGDDYDTPDGTCVRDYIHVADLCDAHLRALSYMQLK 249

Query: 243 GQSGSFNLGNGKGFSVKEVIEVCRQVTGHPIPAEIAPRRSGDPASLIASSEKAQTILGWE 302
             + +FNLGNG GFSVK+V+E   +VTG  +P  +APRR GDPA L+A S  A+  LGW+
Sbjct: 250 PGAHAFNLGNGNGFSVKQVVEAAWRVTGRDVPHSMAPRRPGDPAWLVADSTLAERELGWK 309

Query: 303 PKYPSLETMVEHAWNWHKE 321
           P +  ++ +++ AW WH++
Sbjct: 310 PSFTDIDAIIDSAWRWHQK 328


Lambda     K      H
   0.317    0.135    0.411 

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: 355
Number of extensions: 10
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: 334
Length of database: 331
Length adjustment: 28
Effective length of query: 306
Effective length of database: 303
Effective search space:    92718
Effective search space used:    92718
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: 49 (23.5 bits)

Align candidate 206802 DVU1360 (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.1583.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.1583.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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