GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvH in Magnetospirillum magneticum AMB-1

Align acetohydroxyacid synthase subunit B (EC 2.2.1.6) (characterized)
to candidate WP_011385867.1 AMB_RS17740 acetolactate synthase 3 large subunit

Query= metacyc::MONOMER-18810
         (585 letters)



>NCBI__GCF_000009985.1:WP_011385867.1
          Length = 588

 Score =  644 bits (1660), Expect = 0.0
 Identities = 321/569 (56%), Positives = 416/569 (73%), Gaps = 6/569 (1%)

Query: 19  MIGAEILVHALAEEGVEYVWGYPGGAVLYIYDELHKQTKFEHILVRHEQAAVHAADGYAR 78
           + GAEIL+ AL ++GVE ++GYPGGAVL IYDEL KQ +  H+LVRHEQAAVHAA+GYAR
Sbjct: 7   LTGAEILLKALVDQGVEVIFGYPGGAVLPIYDELFKQNRLRHVLVRHEQAAVHAAEGYAR 66

Query: 79  ATGKVGVALVTSGPGVTNAVTGIATAYLDSIPMVVITGNVPTHAIGQDAFQECDTVGITR 138
           +TGKVG  LVTSGPG TNAVTG+A A  DS+P+V +TG VPTH IG DAFQE D  GITR
Sbjct: 67  STGKVGCVLVTSGPGATNAVTGLADAQCDSVPLVCLTGQVPTHLIGNDAFQEADITGITR 126

Query: 139 PIVKHNFLVKDVRDLAATIKKAFFIAATGRPGPVVVDIPKDVSRNACKYEYPKSIDMRSY 198
           P  KHN+LVKDV DLA T+ +AF +A +GRPGPV+VD+PKDV +   +Y+ P  +  + Y
Sbjct: 127 PCTKHNYLVKDVADLARTVHEAFHVARSGRPGPVLVDLPKDVVQAKGEYQPPSKLKSK-Y 185

Query: 199 NPVNKGHSGQIRKAVALLQGAERPYIYTGGGVVLAN--ASDELRQLAALTGHPVTNTLMG 256
            P  KG    I KA+ ++  A++P  Y GGGVV +   A   L Q   +TG+P T TLMG
Sbjct: 186 KPQVKGDLKAIEKAIEMIAHAKKPIFYVGGGVVNSGPAACQLLTQFVRMTGYPCTLTLMG 245

Query: 257 LGAFPGTSKQFVGMLGMHGTYEANMAMQNCDVLIAIGARFDDRVIGNPAHFTSQARKIIH 316
           LGAFPG+   F+GMLGMHGT EANMAM +CD++I IGARFDDRV G    F+ +++K IH
Sbjct: 246 LGAFPGSDPLFLGMLGMHGTVEANMAMHDCDLMINIGARFDDRVTGKLDGFSPKSKK-IH 304

Query: 317 IDIDPSSISKRVKVDIPIVGNVKDVLQELIAQIKASDIKPKREALAKWWEQIEQWRSVDC 376
           +DIDPSSI+K V VD+PIVG+   VL+++I   KA   +   +AL  WW +I+QWR  DC
Sbjct: 305 VDIDPSSINKNVAVDLPIVGDCAHVLEDMIKVWKAKQSRVDDKALKAWWAKIDQWRGADC 364

Query: 377 LKYDRSSEIIKPQYVVEKIWELTK-GDAFICSDVGQHQMWAAQFYKFDEPRRWINSGGLG 435
           L ++ S++IIKPQY +++++E+T+  + + C++VGQHQMWAAQ  KFD P  W+ SGGLG
Sbjct: 365 LSFENSNKIIKPQYAIQRLYEMTRHRNPYFCTEVGQHQMWAAQHLKFDLPLHWLTSGGLG 424

Query: 436 TMGVGLPYAMGIKKAFPEKEVVTITGEGSIQMCIQELSTCLQYDTPVKICSLNNGYLGMV 495
           TMG GLP AMG++ A PE  V+ I GE SIQM IQE++T +Q+  PVKI  LNN YLGMV
Sbjct: 425 TMGYGLPSAMGVQMAHPEALVINIAGEASIQMNIQEMATLVQHRLPVKIVILNNQYLGMV 484

Query: 496 RQWQEIEYDNRYSHSYMDALPDFVKLAEAYGHVGMRVEKTSDVEPALREAFRLKDRTVFL 555
           RQWQE+ +  RYS S+M   PDFVKLAEA+G VG+R +K  +V+ A++E   + DR V L
Sbjct: 485 RQWQELIHGGRYSESHMIHHPDFVKLAEAFGAVGLRADKPGEVDGAIKEMIAV-DRPVIL 543

Query: 556 DFQTDPTENVWPMVQAGKGISEMLLGAED 584
           + +TD +ENV+PM+  G   +EM+LG ED
Sbjct: 544 ELRTDASENVFPMIMPGMAHNEMVLGPED 572


Lambda     K      H
   0.319    0.135    0.407 

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: 962
Number of extensions: 30
Number of successful extensions: 6
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: 585
Length of database: 588
Length adjustment: 37
Effective length of query: 548
Effective length of database: 551
Effective search space:   301948
Effective search space used:   301948
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: 53 (25.0 bits)

Align candidate WP_011385867.1 AMB_RS17740 (acetolactate synthase 3 large subunit)
to HMM TIGR00118 (ilvB: acetolactate synthase, large subunit, biosynthetic type (EC 2.2.1.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.8192.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.8192.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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