GapMind for Amino acid biosynthesis

 

Alignments for a candidate for leuC in Echinicola vietnamensis KMM 6221, DSM 17526

Align 3-isopropylmalate dehydratase large subunit; Alpha-IPM isomerase; IPMI; Isopropylmalate isomerase; EC 4.2.1.33 (characterized)
to candidate Echvi_2059 Echvi_2059 3-isopropylmalate dehydratase, large subunit

Query= SwissProt::Q7TXH6
         (473 letters)



>FitnessBrowser__Cola:Echvi_2059
          Length = 465

 Score =  513 bits (1321), Expect = e-150
 Identities = 254/466 (54%), Positives = 326/466 (69%), Gaps = 2/466 (0%)

Query: 7   EPRTLAEKIWDDHIVVSGGGCAPDLIYIDLHLVHEVTSPQAFDGLRLAGRRVRRPELTLA 66
           E +TL +K+WD+H+V S  G  PD+ +ID H +HEVTSP AF  L   G  V  PE T+A
Sbjct: 2   EKKTLFDKVWDEHVVKSVPG-GPDVFFIDKHFIHEVTSPVAFLNLENRGNNVLFPERTVA 60

Query: 67  TEDHNVPTVDIDQPIADPVSRTQVETLRRNCAEFGIRLHSMGDIEQGIVHVVGPQLGLTQ 126
           T DHNVPT+D D+ I D +SR QVE LR NC+++GI LH +G    GIVHV+GP+LG+TQ
Sbjct: 61  TPDHNVPTIDQDKTIKDKLSRMQVEKLRDNCSKYGIELHDLGTDHHGIVHVIGPELGITQ 120

Query: 127 PGMTIVCGDSHTSTHGAFGALAMGIGTSEVEHVLATQTLPLRPFKTMAVNVDGRLPDGVS 186
           PGMTIVCGDSHTSTHGAFGA+A GIGTSEVE V A+Q +     K M + V+G L  GV+
Sbjct: 121 PGMTIVCGDSHTSTHGAFGAIAFGIGTSEVEMVFASQCIMQSKPKRMRITVNGELGKGVT 180

Query: 187 AKDIILALIAKIGTGGGQGHVIEYRGSAIESLSMEGRMTICNMSIEAGARAGMVAPDETT 246
           +KDIIL +I+KI   GG G+ IEY GSAI+SLSME RMTICNMSIE GAR G++APDE T
Sbjct: 181 SKDIILYIISKISASGGTGYFIEYAGSAIQSLSMEARMTICNMSIEMGARGGLIAPDEVT 240

Query: 247 YAFLRGRPHAPTGAQWDTALVYWQRLRTDVGAVFDTEVYLDAASLSPFVTWGTNPGQGVP 306
           + +L+G+ HAP G  WD A+ YW+ LRTD GA FD E   DA  + P +T+GTNPG G+ 
Sbjct: 241 FDYLKGKEHAPKGEDWDKAVEYWKSLRTDEGAEFDLEYTYDAEDIEPMITYGTNPGMGIK 300

Query: 307 LAAAVPDPQLMTDDAERQAAEKALAYMDLRPGTAMREIAVDAVFVGSCTNGRIEDLRVVA 366
           +   +P  + M + + ++   K+L YM  +PG  ++   +D VFVGSCTNGRIED+R VA
Sbjct: 301 IKDIIPTTEGM-EGSNKKTYLKSLDYMGFQPGEPIKGKKIDYVFVGSCTNGRIEDIRAVA 359

Query: 367 EVLRGRKVADGVRMLIVPGSMRVRAQAEAEGLGEIFTDAGAQWRQAGCSMCLGMNPDQLA 426
           E ++G+K AD +   IVPGS  V +QA  EGL  I  +AG + RQ GCS CL MN D++ 
Sbjct: 360 EFVKGKKKADNITAWIVPGSREVESQAIEEGLVSILEEAGFKLRQPGCSACLAMNDDKIP 419

Query: 427 SGERCAATSNRNFEGRQGAGGRTHLVSPAVAAATAVRGTLSSPADL 472
           +G+   +TSNRNFEGRQG G RT L SP   AA A+ G ++ P ++
Sbjct: 420 AGKYAVSTSNRNFEGRQGPGARTLLASPLTVAAVAITGEVADPREV 465


Lambda     K      H
   0.319    0.135    0.402 

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: 637
Number of extensions: 22
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: 473
Length of database: 465
Length adjustment: 33
Effective length of query: 440
Effective length of database: 432
Effective search space:   190080
Effective search space used:   190080
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: 51 (24.3 bits)

Align candidate Echvi_2059 Echvi_2059 (3-isopropylmalate dehydratase, large subunit)
to HMM TIGR00170 (leuC: 3-isopropylmalate dehydratase, large subunit (EC 4.2.1.33))

Software error:

../bin/blast/fastacmd -i /tmp/list.29713.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.29713.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.