GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvH in Herbaspirillum seropedicae SmR1

Align acetohydroxyacid synthase subunit B (EC 2.2.1.6) (characterized)
to candidate HSERO_RS08650 HSERO_RS08650 acetolactate synthase

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



>FitnessBrowser__HerbieS:HSERO_RS08650
          Length = 572

 Score =  874 bits (2258), Expect = 0.0
 Identities = 420/571 (73%), Positives = 491/571 (85%)

Query: 15  AAPEMIGAEILVHALAEEGVEYVWGYPGGAVLYIYDELHKQTKFEHILVRHEQAAVHAAD 74
           +A ++ GA+ILV  LAEEGVE+V+GYPGGAVLYIYD + KQ KF+HILVRHEQAAVHAAD
Sbjct: 2   SAEQLTGADILVRCLAEEGVEHVFGYPGGAVLYIYDAIFKQDKFQHILVRHEQAAVHAAD 61

Query: 75  GYARATGKVGVALVTSGPGVTNAVTGIATAYLDSIPMVVITGNVPTHAIGQDAFQECDTV 134
            Y+R++ KVGVA+VTSGPGVTNAVTG+ATAY+DSIPMVVI+G VP+ AIGQDAFQECDTV
Sbjct: 62  AYSRSSQKVGVAIVTSGPGVTNAVTGLATAYMDSIPMVVISGQVPSTAIGQDAFQECDTV 121

Query: 135 GITRPIVKHNFLVKDVRDLAATIKKAFFIAATGRPGPVVVDIPKDVSRNACKYEYPKSID 194
           GITRP VKHNFLVKDV+DLA T+KKAF+IA TGRPGPV+VDIPKD++ + C Y YPK+++
Sbjct: 122 GITRPCVKHNFLVKDVKDLAETVKKAFYIATTGRPGPVLVDIPKDITMHTCAYAYPKAVE 181

Query: 195 MRSYNPVNKGHSGQIRKAVALLQGAERPYIYTGGGVVLANASDELRQLAALTGHPVTNTL 254
           MRSY PV+KGHSGQIRKA+ LL  AERP IYTGGG++LANA+ EL +L    G+P TNTL
Sbjct: 182 MRSYKPVDKGHSGQIRKALQLLLSAERPMIYTGGGIILANAAPELNKLVDRLGYPCTNTL 241

Query: 255 MGLGAFPGTSKQFVGMLGMHGTYEANMAMQNCDVLIAIGARFDDRVIGNPAHFTSQARKI 314
           MGLGA+  +S +FVGM GMHGTYEANMAMQ+CDVLIAIGARFDDRVIGNP HF S ARKI
Sbjct: 242 MGLGAYRSSSDKFVGMPGMHGTYEANMAMQHCDVLIAIGARFDDRVIGNPKHFASHARKI 301

Query: 315 IHIDIDPSSISKRVKVDIPIVGNVKDVLQELIAQIKASDIKPKREALAKWWEQIEQWRSV 374
           IHIDIDPSSISKRVKVDIPIVGNVKDVLQEL++Q+ A++ +    AL  WW+QI +WR  
Sbjct: 302 IHIDIDPSSISKRVKVDIPIVGNVKDVLQELLSQLDAAETRQNGAALDAWWKQINEWRKR 361

Query: 375 DCLKYDRSSEIIKPQYVVEKIWELTKGDAFICSDVGQHQMWAAQFYKFDEPRRWINSGGL 434
           DCLK+  S E IKPQ VV+K+WE+TKGDAFI SDVGQHQMWAAQ+Y FD+PRRWINSGGL
Sbjct: 362 DCLKFATSEEFIKPQSVVQKVWEVTKGDAFITSDVGQHQMWAAQYYGFDKPRRWINSGGL 421

Query: 435 GTMGVGLPYAMGIKKAFPEKEVVTITGEGSIQMCIQELSTCLQYDTPVKICSLNNGYLGM 494
           GTMGVGLPYAMG++ A P+  V  ITGE SIQMCIQEL+TC QY    KI  LNN +LGM
Sbjct: 422 GTMGVGLPYAMGVQMANPDATVACITGEASIQMCIQELATCKQYHLTPKIILLNNRFLGM 481

Query: 495 VRQWQEIEYDNRYSHSYMDALPDFVKLAEAYGHVGMRVEKTSDVEPALREAFRLKDRTVF 554
           VRQWQ+I+Y +RYS SYMD+LPDF KLAE+YGHVGM++EK  DV+ ALREAF +KDR VF
Sbjct: 482 VRQWQQIDYGSRYSESYMDSLPDFNKLAESYGHVGMKIEKPGDVDGALREAFAMKDRLVF 541

Query: 555 LDFQTDPTENVWPMVQAGKGISEMLLGAEDL 585
           ++F TD TENVWPMV+AGKG++EMLLG+EDL
Sbjct: 542 MNFITDQTENVWPMVKAGKGLTEMLLGSEDL 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: 1036
Number of extensions: 31
Number of successful extensions: 1
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: 572
Length adjustment: 36
Effective length of query: 549
Effective length of database: 536
Effective search space:   294264
Effective search space used:   294264
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 HSERO_RS08650 HSERO_RS08650 (acetolactate synthase)
to HMM TIGR00118 (ilvB: acetolactate synthase, large subunit, biosynthetic type (EC 2.2.1.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.22883.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.22883.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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