GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvH in Paraburkholderia bryophila 376MFSha3.1

Align acetolactate synthase isozyme 2 large subunit; EC 2.2.1.6 (characterized)
to candidate H281DRAFT_00356 H281DRAFT_00356 acetolactate synthase, large subunit

Query= CharProtDB::CH_003896
         (548 letters)



>FitnessBrowser__Burk376:H281DRAFT_00356
          Length = 621

 Score =  429 bits (1102), Expect = e-124
 Identities = 246/573 (42%), Positives = 336/573 (58%), Gaps = 29/573 (5%)

Query: 1   MNGAQWVVHALRAQGVNTVFGYPGGAIMPVYDALYDGGVEH----------LLCRHEQGA 50
           M+GA  ++  L  QGV+T+FGY GGAI+P YDA++     H          ++  +EQ A
Sbjct: 22  MSGADIILRVLAEQGVDTLFGYSGGAILPTYDAVFRFNESHAARPERQIKFVVPANEQAA 81

Query: 51  AMAAIGYARATGKTGVCIATSGPGATNLITGLADALLDSIPVVAITGQVSAPFIGTDAFQ 110
              A GYARA+GK GV + TSGPGATN +T +AD   DSIPVV I GQV    IG+DAFQ
Sbjct: 82  GFMAAGYARASGKVGVFMVTSGPGATNAVTPIADCNGDSIPVVLICGQVPRAAIGSDAFQ 141

Query: 111 EVDVLGLSLACTKHSFLVQSLEELPRIMAEAFDVACSGRPGPVLVDIPKDIQLASGDLEP 170
           E  V  +  AC K  FLV    +L + +  AF++A +GRPGPV+VD+PKDIQ   G  + 
Sbjct: 142 EAPVFNIMSACAKQVFLVTDPAKLEQTLRTAFEIARTGRPGPVVVDVPKDIQNWVGQYQG 201

Query: 171 WFTT-----------VENEVTFPHAEVEQARQMLAKAQKPMLYVGGGVGMAQAVPALREF 219
             T            V N       +  Q   +L ++++P+LYVGGGV  A A   LR+F
Sbjct: 202 QGTLHFRGYSDRLQLVANGSRLDEQKGAQFFDLLRQSERPLLYVGGGVIAAGATAELRQF 261

Query: 220 LAATKMPATCTLKGLGAVEADYPYYLGMLGMHGTKAANFAVQECDLLIAVGARFDDRVTG 279
               ++P   TL GLGA+ A +P  LGMLGMHG   AN+AV++CD LIAVGARFDDRV G
Sbjct: 262 AERYEIPVVTTLMGLGAIPAQHPLSLGMLGMHGAACANYAVEDCDFLIAVGARFDDRVAG 321

Query: 280 -KLNTFAPHAS-VIHMDIDPAEMNKLRQAHVALQGDLNALLPALQQ----PLNQYDWQQH 333
            + + FA  A  V H+DID AE+NK+++AH +  GD    L AL +     L+   W   
Sbjct: 322 GRPDMFAAGARHVAHIDIDEAEINKVKRAHWSHIGDARQALRALMEHESVALSSALWIGW 381

Query: 334 CAQLRDEHSWRYDHPGDAIYAPLLLKQLSDRKPADCVVTTDVGQHQMWAAQHIAHTRPEN 393
             +LR  H   YD     I    ++++LS+      +++T VGQHQMW AQ    T P +
Sbjct: 382 VTELRQRHGMNYDRSNPLIQPQRVIEKLSEITGGRAIISTGVGQHQMWTAQFYQFTEPRS 441

Query: 394 FITSSGLGTMGFGLPAAVGAQVARPNDTVVCISGDGSFMMNVQELGTVKRKQLPLKIVLL 453
           F+TS  +GTMGFGLPAA+GAQ+ARP+  V+ I GDGS  MN  EL T     +P+K++LL
Sbjct: 442 FLTSGSMGTMGFGLPAAIGAQLARPDALVIDIDGDGSIRMNAGELETASTYGVPVKVLLL 501

Query: 454 DNQRLGMVRQWQQLFFQER-YSETTLTDNPDFLMLASAFGIH-GQHITRKDQVEAALDTM 511
           +N+  GM+RQWQ+LF++ R +         DF+M A A G      +    +++  L   
Sbjct: 502 NNRGDGMIRQWQRLFYEGRTFVSDKALHRKDFVMAARADGFEFACRVETPSELDEKLKAF 561

Query: 512 LNSDGPYLLHVSIDELENVWPLVPPGASNSEML 544
           +  +GP  L V ID+  +V+P+V PG S S M+
Sbjct: 562 VAFEGPAFLEVMIDQNADVFPMVGPGQSYSNMI 594


Lambda     K      H
   0.320    0.135    0.410 

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: 884
Number of extensions: 50
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: 548
Length of database: 621
Length adjustment: 36
Effective length of query: 512
Effective length of database: 585
Effective search space:   299520
Effective search space used:   299520
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 H281DRAFT_00356 H281DRAFT_00356 (acetolactate synthase, 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.23753.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.23753.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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