GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvC in Sinorhizobium meliloti 1021

Align acetohydroxyacid isomeroreductase (EC 1.1.1.86) (characterized)
to candidate SMc04346 SMc04346 ketol-acid reductoisomerase

Query= metacyc::MONOMER-18814
         (338 letters)



>FitnessBrowser__Smeli:SMc04346
          Length = 339

 Score =  462 bits (1189), Expect = e-135
 Identities = 227/339 (66%), Positives = 272/339 (80%), Gaps = 1/339 (0%)

Query: 1   MKVFYDKDADLSLIKGKNVTIIGYGSQGHAHALNLKDSGV-NVTVGLRKSGASWNKAANA 59
           M+V+YD+DADL+LIK K V IIGYGSQG AHALNLKDSG  NV + L+   A+  KA   
Sbjct: 1   MRVYYDRDADLNLIKSKKVAIIGYGSQGRAHALNLKDSGAQNVAIALKSGSATAKKAEAD 60

Query: 60  GLQVKEVAEAVKGADVVMILLPDEQIADVYKNEVHDNIKEGAALAFAHGFNVHYGAVIPR 119
           G +V  VAEA   AD++M+  PDE  AD+YK ++  NI++GAA+AFAHG NVH+G + P+
Sbjct: 61  GFKVMTVAEAAAWADLMMMATPDELQADIYKADIAGNIRDGAAIAFAHGLNVHFGLIEPK 120

Query: 120 ADLDVIMIAPKAPGHTVRATYTQGGGVPHLIAVHQNKSGAARDIALSYATANGGGRAGII 179
           A +DV+MIAPK PGHTVR  Y +GGGVP L+AVHQ+ SG A D+ALSYA   GGGR+GII
Sbjct: 121 ASVDVVMIAPKGPGHTVRGEYQKGGGVPCLVAVHQDASGNALDLALSYACGVGGGRSGII 180

Query: 180 ETNFREETETDLFGEQAVLCGGTVELIKAGFETLVEAGYAPEMAYFECLHELKLIVDLIY 239
           ETNF+EE ETDLFGEQ VLCGG VELI+AGFETLVEAGYAPEMAYFECLHE+KLIVDLIY
Sbjct: 181 ETNFKEECETDLFGEQVVLCGGLVELIRAGFETLVEAGYAPEMAYFECLHEVKLIVDLIY 240

Query: 240 EGGIANMNYSISNNAEYGEYVTGPRVVTEETKKAMKQCLTDIQTGEYAKSFLLENKAGAP 299
           EGGIANMNYSISN AE+GEYVTGPR++TE+TK  MK+ L DIQTG++   ++ E ++GA 
Sbjct: 241 EGGIANMNYSISNTAEWGEYVTGPRIITEDTKAEMKRVLKDIQTGKFTSEWMQEYRSGAA 300

Query: 300 TLISRRRLTAEHQIEEVGAKLRAMMPWIAKNKMVDQSKN 338
                RR+   HQIEEVGAKLRAMMPWI KNK+VD++KN
Sbjct: 301 RFKGIRRVNDSHQIEEVGAKLRAMMPWIGKNKLVDKAKN 339


Lambda     K      H
   0.316    0.133    0.379 

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: 436
Number of extensions: 16
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: 338
Length of database: 339
Length adjustment: 28
Effective length of query: 310
Effective length of database: 311
Effective search space:    96410
Effective search space used:    96410
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 (21.6 bits)
S2: 49 (23.5 bits)

Align candidate SMc04346 SMc04346 (ketol-acid reductoisomerase)
to HMM TIGR00465 (ilvC: ketol-acid reductoisomerase (EC 1.1.1.86))

Software error:

../bin/blast/fastacmd -i /tmp/list.15800.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.15800.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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