GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvH in Shewanella sp. ANA-3

Align acetolactate synthase (subunit 2/2) (EC 2.2.1.6) (characterized)
to candidate 7025106 Shewana3_2269 acetolactate synthase 3 catalytic subunit (RefSeq)

Query= BRENDA::P00893
         (574 letters)



>FitnessBrowser__ANA3:7025106
          Length = 572

 Score =  887 bits (2291), Expect = 0.0
 Identities = 425/573 (74%), Positives = 491/573 (85%), Gaps = 2/573 (0%)

Query: 1   MEMLSGAEMVVRSLIDQGVKQVFGYPGGAVLDIYDALHTVGGIDHVLVRHEQAAVHMADG 60
           ME LSGA M+VRSLID+GVK +FGYPGG+VLDIYDALH + GI+H+LVRHEQAAVHMADG
Sbjct: 1   MEKLSGASMIVRSLIDEGVKHIFGYPGGSVLDIYDALHLIPGIEHILVRHEQAAVHMADG 60

Query: 61  LARATGEVGVVLVTSGPGATNAITGIATAYMDSIPLVVLSGQVATSLIGYDAFQECDMVG 120
            ARATG+VGVVLVTSGPGATNAITGIATAYMDSIPLVVLSGQV ++LIG DAFQECDM+G
Sbjct: 61  YARATGKVGVVLVTSGPGATNAITGIATAYMDSIPLVVLSGQVPSNLIGNDAFQECDMIG 120

Query: 121 ISRPVVKHSFLVKQTEDIPQVLKKAFWLAASGRPGPVVVDLPKDILNPANKLPYVWPESV 180
           ISRPVVKHSFLV+    IP+++KKAF++A++GRPGPVVVDLPKD LNPA    Y++PES+
Sbjct: 121 ISRPVVKHSFLVQDPTQIPEIIKKAFYIASTGRPGPVVVDLPKDCLNPALLHDYIYPESI 180

Query: 181 SMRSYNPTTTGHKGQIKRALQTLVAAKKPVVYVGGGAITAGCHQQLKETVEALNLPVVCS 240
            MRSYNPTT+GHKGQI+R LQ L+AAKKPV+YVGGGAI + C +Q+    E LN+PVV +
Sbjct: 181 KMRSYNPTTSGHKGQIRRGLQALLAAKKPVLYVGGGAIISSCEKQILALAEKLNIPVVST 240

Query: 241 LMGLGAFPATHRQALGMLGMHGTYEANMTMHNADVIFAVGVRFDDRTTNNLAKYCPNATV 300
           LMGLGAFP TH+ +LGMLGMHG YEANMTMHN D+IF +GVRFDDRTTNN+ KYCPNAT+
Sbjct: 241 LMGLGAFPGTHKNSLGMLGMHGRYEANMTMHNCDLIFGIGVRFDDRTTNNIEKYCPNATI 300

Query: 301 LHIDIDPTSISKTVTADIPIVGDARQVLEQMLELLSQESAHQPLDEIRDWWQQIEQWRAR 360
           LHIDIDP+SISKTV  DIPIVG A  VL+ ML LL +       + I  WWQ+I  WR R
Sbjct: 301 LHIDIDPSSISKTVRVDIPIVGSADIVLDSMLALLEESKESNDSEAINQWWQEITVWRNR 360

Query: 361 QCLKYDTHSEKIKPQAVIETLWRLTKGDAYVTSDVGQHQMFAALYYPFDKPRRWINSGGL 420
            CL YD  S +IKPQ VIETL++LT G+AYV SDVGQHQMFAALYYPFDKPR WINSGGL
Sbjct: 361 NCLAYDKESNRIKPQQVIETLYKLTNGEAYVASDVGQHQMFAALYYPFDKPRHWINSGGL 420

Query: 421 GTMGFGLPAALGVKMALPEETVVCVTGDGSIQMNIQELSTALQYELPVLVVNLNNRYLGM 480
           GTMGFGLPAA+GVKMA+P+ETVVCVTGDGSIQMNIQELSTALQY+ PV ++NLNNR+LGM
Sbjct: 421 GTMGFGLPAAMGVKMAMPDETVVCVTGDGSIQMNIQELSTALQYDTPVKIINLNNRFLGM 480

Query: 481 VKQWQDMIYSGRHSQSYMQSLPDFVRLAEAYGHVGIQISHPHELESKLSEALEQVRNNRL 540
           VKQWQDMIYSGRHS SYM S+P+F ++AEAYGHVG+ IS P ELESK++EAL     +RL
Sbjct: 481 VKQWQDMIYSGRHSHSYMDSVPNFAKIAEAYGHVGMTISDPAELESKMAEAL--AMKDRL 538

Query: 541 VFVDVTVDGSEHVYPMQIRGGGMDEMWLSKTER 573
           VF+D+ VD +EHVYPM IRGG M+EMWLSKTE+
Sbjct: 539 VFIDIMVDETEHVYPMLIRGGAMNEMWLSKTEK 571


Lambda     K      H
   0.319    0.135    0.403 

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: 1083
Number of extensions: 29
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: 574
Length of database: 572
Length adjustment: 36
Effective length of query: 538
Effective length of database: 536
Effective search space:   288368
Effective search space used:   288368
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 7025106 Shewana3_2269 (acetolactate synthase 3 catalytic subunit (RefSeq))
to HMM TIGR00118 (ilvB: acetolactate synthase, large subunit, biosynthetic type (EC 2.2.1.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.7888.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.7888.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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