GapMind for catabolism of small carbon sources

 

Alignments for a candidate for glcB in Klebsiella michiganensis M5al

Align malate synthase A (EC 2.3.3.9) (characterized)
to candidate BWI76_RS01660 BWI76_RS01660 malate synthase A

Query= ecocyc::MALATE-SYNTHASE
         (533 letters)



>FitnessBrowser__Koxy:BWI76_RS01660
          Length = 533

 Score =  990 bits (2559), Expect = 0.0
 Identities = 481/533 (90%), Positives = 508/533 (95%)

Query: 1   MTEQATTTDELAFTRPYGEQEKQILTAEAVEFLTELVTHFTPQRNKLLAARIQQQQDIDN 60
           MT+QAT TDELAF++PYG+QEKQILT EAVEFLTELV+ FTP+RN+LLAARIQQQQ ID+
Sbjct: 1   MTQQATITDELAFSQPYGDQEKQILTPEAVEFLTELVSRFTPERNRLLAARIQQQQAIDD 60

Query: 61  GTLPDFISETASIRDADWKIRGIPADLEDRRVEITGPVERKMVINALNANVKVFMADFED 120
           G LPDFISETASIR+++WKIRGIP DL+DRRVEITGPVERKMVINALNANVKVFMADFED
Sbjct: 61  GKLPDFISETASIRNSEWKIRGIPEDLQDRRVEITGPVERKMVINALNANVKVFMADFED 120

Query: 121 SLAPDWNKVIDGQINLRDAVNGTISYTNEAGKIYQLKPNPAVLICRVRGLHLPEKHVTWR 180
           SLAP+WNKVIDGQINLRDAVNGTISYTNEAGKIYQLKPNPA+LICRVRGLHLPEKHVTWR
Sbjct: 121 SLAPEWNKVIDGQINLRDAVNGTISYTNEAGKIYQLKPNPALLICRVRGLHLPEKHVTWR 180

Query: 181 GEAIPGSLFDFALYFFHNYQALLAKGSGPYFYLPKTQSWQEAAWWSEVFSYAEDRFNLPR 240
           GEAIPGSLFDFALYFFHNY+ALL KGSGPYFYLPKTQ+WQEAAWWSEVFS+ EDRF LPR
Sbjct: 181 GEAIPGSLFDFALYFFHNYKALLEKGSGPYFYLPKTQAWQEAAWWSEVFSFTEDRFELPR 240

Query: 241 GTIKATLLIETLPAVFQMDEILHALRDHIVGLNCGRWDYIFSYIKTLKNYPDRVLPDRQA 300
           GT+KATLLIETLPAVFQMDEILHALRDHIVGLNCGRWDYIFSYIKTLKN+PDRVLPDRQ 
Sbjct: 241 GTVKATLLIETLPAVFQMDEILHALRDHIVGLNCGRWDYIFSYIKTLKNHPDRVLPDRQV 300

Query: 301 VTMDKPFLNAYSRLLIKTCHKRGAFAMGGMAAFIPSKDEEHNNQVLNKVKADKSLEANNG 360
           VTMDKPFL+AYSRLLIKTCHKRGAFAMGGMAAFIPSKD E NNQVLNKVKADKSLEANNG
Sbjct: 301 VTMDKPFLSAYSRLLIKTCHKRGAFAMGGMAAFIPSKDAERNNQVLNKVKADKSLEANNG 360

Query: 361 HDGTWIAHPGLADTAMAVFNDILGSRKNQLEVMREQDAPITADQLLAPCDGERTEEGMRA 420
           HDGTWIAHPGLADTAMAVFN +LG  KNQL V RE DAPITA+QLLAPC+GERTEEGMRA
Sbjct: 361 HDGTWIAHPGLADTAMAVFNGVLGENKNQLSVTREDDAPITAEQLLAPCEGERTEEGMRA 420

Query: 421 NIRVAVQYIEAWISGNGCVPIYGLMEDAATAEISRTSIWQWIHHQKTLSNGKPVTKALFR 480
           NIRVAVQYIEAWISGNGCVPIYGLMEDAATAEISRTSIWQWIHH+KTLSNG PVTKALFR
Sbjct: 421 NIRVAVQYIEAWISGNGCVPIYGLMEDAATAEISRTSIWQWIHHEKTLSNGTPVTKALFR 480

Query: 481 QMLGEEMKVIASELGEERFSQGRFDDAARLMEQITTSDELIDFLTLPGYRLLA 533
           Q L EEM+VI  ELGE R+S GRFD+AARLMEQITTSDELIDFLTLPGYRLLA
Sbjct: 481 QWLAEEMRVIQDELGEHRYSSGRFDEAARLMEQITTSDELIDFLTLPGYRLLA 533


Lambda     K      H
   0.320    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: 1035
Number of extensions: 30
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: 533
Length of database: 533
Length adjustment: 35
Effective length of query: 498
Effective length of database: 498
Effective search space:   248004
Effective search space used:   248004
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: 52 (24.6 bits)

Align candidate BWI76_RS01660 BWI76_RS01660 (malate synthase A)
to HMM TIGR01344 (aceB: malate synthase A (EC 2.3.3.9))

Software error:

../bin/blast/fastacmd -i /tmp/list.31625.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.31625.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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