GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvC in Caulobacter crescentus NA1000

Align acetohydroxyacid isomeroreductase (EC 1.1.1.86) (characterized)
to candidate CCNA_02204 CCNA_02204 ketol-acid reductoisomerase/2-dehydropantoate 2-reductase

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



>FitnessBrowser__Caulo:CCNA_02204
          Length = 339

 Score =  476 bits (1226), Expect = e-139
 Identities = 231/339 (68%), Positives = 277/339 (81%), Gaps = 1/339 (0%)

Query: 1   MKVFYDKDADLSLIKGKNVTIIGYGSQGHAHALNLKDSGV-NVTVGLRKSGASWNKAANA 59
           M+V+YD+DADL+ I  + + I+GYGSQGHAHALNL+DSG+ NV V LR    +  KA   
Sbjct: 1   MRVYYDRDADLARILDRKIAIVGYGSQGHAHALNLRDSGIKNVAVALRAGSPTAKKAEGE 60

Query: 60  GLQVKEVAEAVKGADVVMILLPDEQIADVYKNEVHDNIKEGAALAFAHGFNVHYGAVIPR 119
           GL+V  VAEA   AD++MIL PDE  A +YKNE+  NI++GAAL FAHG NVH+G + P+
Sbjct: 61  GLKVMTVAEAAAWADLIMILAPDEHQAAIYKNEIALNIRDGAALLFAHGLNVHFGLIEPK 120

Query: 120 ADLDVIMIAPKAPGHTVRATYTQGGGVPHLIAVHQNKSGAARDIALSYATANGGGRAGII 179
             +DV+M+APK PGHTVR  Y +GGGVP LIAVH N +G A D+ L+YA+A GGGR+GII
Sbjct: 121 DTIDVLMVAPKGPGHTVRGEYQKGGGVPCLIAVHHNATGNALDLGLAYASAIGGGRSGII 180

Query: 180 ETNFREETETDLFGEQAVLCGGTVELIKAGFETLVEAGYAPEMAYFECLHELKLIVDLIY 239
           ETNFREE ETDLFGEQAVLCGGTVEL++AGFETLVEAGYAPEMAYFECLHELKLIVDL+Y
Sbjct: 181 ETNFREECETDLFGEQAVLCGGTVELVRAGFETLVEAGYAPEMAYFECLHELKLIVDLMY 240

Query: 240 EGGIANMNYSISNNAEYGEYVTGPRVVTEETKKAMKQCLTDIQTGEYAKSFLLENKAGAP 299
           EGGIANMNYSISN AEYGEYVTGPR++T ETK  MK+ L DIQ+G++ + F+LEN  G P
Sbjct: 241 EGGIANMNYSISNTAEYGEYVTGPRIITPETKAEMKRVLEDIQSGKFVRDFMLENAVGQP 300

Query: 300 TLISRRRLTAEHQIEEVGAKLRAMMPWIAKNKMVDQSKN 338
           +  + RR +AEHQIEEVGA+LR MMPWIAKNK+VDQ+KN
Sbjct: 301 SFKATRRRSAEHQIEEVGARLRGMMPWIAKNKLVDQAKN 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: 427
Number of extensions: 15
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 CCNA_02204 CCNA_02204 (ketol-acid reductoisomerase/2-dehydropantoate 2-reductase)
to HMM TIGR00465 (ilvC: ketol-acid reductoisomerase (EC 1.1.1.86))

Software error:

../bin/blast/fastacmd -i /tmp/list.15237.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.15237.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.