Alignments for a candidate for leuB in Desulfovibrio vulgaris Hildenborough JW710

Align 3-isopropylmalate dehydrogenase; 3-IPM-DH; Beta-IPM dehydrogenase; IMDH; EC 1.1.1.85 (characterized)
to candidate 208498 DVU2985 3-isopropylmalate dehydrogenase (TIGR)

Query= SwissProt::Q56268
         (358 letters)



>FitnessBrowser__DvH:208498
          Length = 357

 Score =  432 bits (1110), Expect = e-126
 Identities = 218/353 (61%), Positives = 271/353 (76%), Gaps = 2/353 (0%)

Query: 4   IAIFAGDGIGPEIVAAARQVLDAVDQAAHLGLRCTEGLVGGAALDASDDPLPAASLQLAM 63
           I +  GDGIGPEIVA   +VLDAV +     +  +  L+GGAA+DA+  PLP A+++   
Sbjct: 5   ICLLPGDGIGPEIVAQGTKVLDAVARRFGHTVSTSSALIGGAAIDATGSPLPDATVEACR 64

Query: 64  AADAVILGAVGGPRWDAYPPAKRPEQGLLRLRKGLDLYANLRPAQIFPQLLDASPLRPEL 123
            +DAV+LGAVGGP+WD  P  KRPE+GLL +RK L L+ANLRPA +FP+L  A  LR ++
Sbjct: 65  TSDAVLLGAVGGPKWDDLPSEKRPEKGLLGIRKALGLFANLRPAALFPELAGACLLRADI 124

Query: 124 VR-DVDILVVRELTGDIYFGQPRGLEVIDGKRRGFNTMVYDEDEIRRIAHVAFRAAQGRR 182
               +D++VVRELTGD+YFGQP G+E  DG R GFNTM+YDEDE+RRIA VAF  A+ R+
Sbjct: 125 AAAGLDLVVVRELTGDVYFGQPAGIETRDGLRTGFNTMIYDEDEVRRIARVAFDTARARK 184

Query: 183 KQLCSVDKANVLETTRLWREVVTEVARDYPDVRLSHMYVDNAAMQLIRAPAQFDVLLTGN 242
           +++CSVDKANVL T+RLWREVV EVARDYPDV LSHMYVDNAAMQL+R PAQFDV++TGN
Sbjct: 185 RRVCSVDKANVLATSRLWREVVEEVARDYPDVELSHMYVDNAAMQLVRWPAQFDVIVTGN 244

Query: 243 MFGDILSDEASQLTGSIGMLPSASLGE-GRAMYEPIHGSAPDIAGQDKANPLATILSVAM 301
           +FGDILSDEA+ +TGSIGMLPSAS+G  G A++EPIHGSAPDIAGQDKANP+ATILSV M
Sbjct: 245 LFGDILSDEAAVITGSIGMLPSASMGSGGPALFEPIHGSAPDIAGQDKANPIATILSVGM 304

Query: 302 MLRHSLNAEPWAQRVEAAVQRVLDQGLRTADIAAPGTPVIGTKAMGAAVVNAL 354
           MLR        A  ++AAV+RVL +G RT DI   G  ++GT +MG  +   +
Sbjct: 305 MLRLGFGLAAEADAIDAAVRRVLAEGYRTGDIMENGRTLVGTVSMGNLIAERI 357


Lambda     K      H
   0.320    0.137    0.396 

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: 449
Number of extensions: 10
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: 358
Length of database: 357
Length adjustment: 29
Effective length of query: 329
Effective length of database: 328
Effective search space:   107912
Effective search space used:   107912
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 (21.8 bits)
S2: 49 (23.5 bits)

Align candidate 208498 DVU2985 (3-isopropylmalate dehydrogenase (TIGR))
to HMM TIGR00169 (leuB: 3-isopropylmalate dehydrogenase (EC 1.1.1.85))

Software error:

../bin/blast/fastacmd -i /tmp/list.4459.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.4459.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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