GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvC in Sphingomonas koreensis DSMZ 15582

Align acetohydroxyacid isomeroreductase (EC 1.1.1.86) (characterized)
to candidate Ga0059261_0066 Ga0059261_0066 ketol-acid reductoisomerase (EC 1.1.1.86)

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



>FitnessBrowser__Korea:Ga0059261_0066
          Length = 339

 Score =  455 bits (1171), Expect = e-133
 Identities = 221/339 (65%), Positives = 271/339 (79%), Gaps = 1/339 (0%)

Query: 1   MKVFYDKDADLSLIKGKNVTIIGYGSQGHAHALNLKDSGVN-VTVGLRKSGASWNKAANA 59
           M+V+YD+DADL+LI GK + I+GYGSQGHAHA NL+DSGV  V + LR+  A+  KA  A
Sbjct: 1   MRVYYDRDADLNLITGKKIAIVGYGSQGHAHAQNLRDSGVKEVAIALREGSATAKKAEAA 60

Query: 60  GLQVKEVAEAVKGADVVMILLPDEQIADVYKNEVHDNIKEGAALAFAHGFNVHYGAVIPR 119
           G +V    EA + ADV+MIL PDE  A +++N++  N+K G+A+AFAHG N+H+G +   
Sbjct: 61  GFKVLSNKEAAQWADVLMILAPDEHQAAIWENDLKGNMKPGSAIAFAHGLNIHFGLIEAP 120

Query: 120 ADLDVIMIAPKAPGHTVRATYTQGGGVPHLIAVHQNKSGAARDIALSYATANGGGRAGII 179
           AD+DVIMIAPK PGHTVR+ Y +GGGVP LIAVHQ+ SG A D+AL+YA+  GGGR+GII
Sbjct: 121 ADIDVIMIAPKGPGHTVRSEYVRGGGVPCLIAVHQDASGNAHDVALAYASGVGGGRSGII 180

Query: 180 ETNFREETETDLFGEQAVLCGGTVELIKAGFETLVEAGYAPEMAYFECLHELKLIVDLIY 239
           ETNFREE ETDLFGEQAVLCGG   L++AGFETLVEAGYAPEMAYFECLHELKLIVDL+Y
Sbjct: 181 ETNFREECETDLFGEQAVLCGGATALVQAGFETLVEAGYAPEMAYFECLHELKLIVDLMY 240

Query: 240 EGGIANMNYSISNNAEYGEYVTGPRVVTEETKKAMKQCLTDIQTGEYAKSFLLENKAGAP 299
           EGGIANM YSISN AEYG+  TGPR++TEETKK MK+ L DIQ+G + K F+L+N+AG P
Sbjct: 241 EGGIANMRYSISNTAEYGDIKTGPRIITEETKKEMKRVLADIQSGRFVKDFVLDNRAGQP 300

Query: 300 TLISRRRLTAEHQIEEVGAKLRAMMPWIAKNKMVDQSKN 338
            L + R     HQIE+VG++LRAMMPWI  NK+VD+ KN
Sbjct: 301 ELKASRIAAKRHQIEQVGSELRAMMPWIGANKLVDKEKN 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: 456
Number of extensions: 21
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 Ga0059261_0066 Ga0059261_0066 (ketol-acid reductoisomerase (EC 1.1.1.86))
to HMM TIGR00465 (ilvC: ketol-acid reductoisomerase (EC 1.1.1.86))

Software error:

../bin/blast/fastacmd -i /tmp/list.682.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.682.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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