GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvH in Marinobacter adhaerens HP15

Align acetolactate synthase isozyme 2 large subunit; EC 2.2.1.6 (characterized)
to candidate GFF1038 HP15_1017 acetolactate synthase, large subunit, biosynthetic type

Query= CharProtDB::CH_003896
         (548 letters)



>FitnessBrowser__Marino:GFF1038
          Length = 566

 Score =  580 bits (1496), Expect = e-170
 Identities = 297/555 (53%), Positives = 385/555 (69%), Gaps = 11/555 (1%)

Query: 1   MNGAQWVVHALRAQGVNTVFGYPGGAIMPVYDALYDG-GVEHLLCRHEQGAAMAAIGYAR 59
           MNGAQ ++ A     ++TVFGYPGG IMP+YDAL D  GVEH+LCRHEQG A+AA GYAR
Sbjct: 1   MNGAQHILEAFHRHNISTVFGYPGGCIMPLYDALVDDVGVEHVLCRHEQGCALAADGYAR 60

Query: 60  ATGKTGVCIATSGPGATNLITGLADALLDSIPVVAITGQVSAPFIGTDAFQEVDVLGLSL 119
           A+GK GVCIATSGPGATNLITG+A+A  DSIP++ ITGQV +  IGTDAFQE DVLG++L
Sbjct: 61  ASGKLGVCIATSGPGATNLITGVANAHRDSIPMLVITGQVPSGLIGTDAFQETDVLGMTL 120

Query: 120 ACTKHSFLVQSLEELPRIMAEAFDVACSGRPGPVLVDIPKDIQLASGDLEPWFTTVENEV 179
              KHS+L+   + LP IM EA ++A SGRPGPV +DIPKD+ L+     P+      E 
Sbjct: 121 GIVKHSYLINDADSLPIIMEEAIELAQSGRPGPVWIDIPKDLLLSDVADAPFPQAQPYEP 180

Query: 180 TFPHAEVEQARQMLAKAQKPMLYVGGGVGMAQAVPALREFLAATKMPATCTLKGLGAVEA 239
             P  ++++A  ML  A+KP+LY GGG+ +  A    R F  ++ +PA  TLKG+G    
Sbjct: 181 ASP--DLKEALAMLRAARKPLLYSGGGISLGHAEENFRAFAESSALPAVVTLKGIGNPGK 238

Query: 240 DYPYYLGMLGMHGTKAANFAVQECDLLIAVGARFDDRVTGKLNTFAPHASVIHMDIDPAE 299
             PY LGMLGMHG++AAN AV ECDLL+ +GAR DDR TGKL+ FAP+A +IH+D D AE
Sbjct: 239 HNPYNLGMLGMHGSRAANKAVDECDLLLVIGARLDDRATGKLDGFAPNARMIHIDADAAE 298

Query: 300 MNKLRQAHVALQGDLNALLPALQ-----QPLNQYDWQQHCAQLRDE---HSWRYDHPGDA 351
           +NKLR A +A++GDLN +L +L       PL   +WQ+ C         H+   + P   
Sbjct: 299 INKLRDADLAIRGDLNHILKSLAGELHADPLAISEWQKQCRSWYTTGGFHAADNEEPLAP 358

Query: 352 IYAPLLLKQLSDRKPADCVVTTDVGQHQMWAAQHIAHTRPENFITSSGLGTMGFGLPAAV 411
           I  P  ++QLS   P D V+  DVGQHQMW AQH     P + +TS GLGTMGFGLPAA+
Sbjct: 359 ITGPAFIRQLSRIAPDDTVIACDVGQHQMWVAQHYDFDHPRHHLTSGGLGTMGFGLPAAI 418

Query: 412 GAQVARPNDTVVCISGDGSFMMNVQELGTVKRKQLPLKIVLLDNQRLGMVRQWQQLFFQE 471
           GAQ A  N TV+ ++GDGSFMMN QEL T++R  LP+K++++DNQ LGMVRQ Q+LF+  
Sbjct: 419 GAQFADRNSTVINVTGDGSFMMNAQELATIRRYNLPVKLIVMDNQCLGMVRQQQELFYNN 478

Query: 472 RYSETTLTDNPDFLMLASAFGIHGQHITRKDQVEAALDTMLNSDGPYLLHVSIDELENVW 531
           R S+  L DNPDF+ +A AF I   +I R DQ+   ++T+L  +GP LLHV+I   ENVW
Sbjct: 479 RESQINLDDNPDFVAMARAFDIPALYIERTDQIRRGIETILAYNGPMLLHVAISREENVW 538

Query: 532 PLVPPGASNSEMLEK 546
           P+V PGASN++M+++
Sbjct: 539 PIVKPGASNTDMIDE 553


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: 878
Number of extensions: 33
Number of successful extensions: 4
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: 566
Length adjustment: 36
Effective length of query: 512
Effective length of database: 530
Effective search space:   271360
Effective search space used:   271360
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 GFF1038 HP15_1017 (acetolactate synthase, large subunit, biosynthetic type)
to HMM TIGR00118 (ilvB: acetolactate synthase, large subunit, biosynthetic type (EC 2.2.1.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.31845.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.31845.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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