GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvH in Burkholderia phytofirmans PsJN

Align acetolactate synthase isozyme 2 large subunit; EC 2.2.1.6 (characterized)
to candidate BPHYT_RS10500 BPHYT_RS10500 acetolactate synthase

Query= CharProtDB::CH_003896
         (548 letters)



>FitnessBrowser__BFirm:BPHYT_RS10500
          Length = 600

 Score =  431 bits (1107), Expect = e-125
 Identities = 252/577 (43%), Positives = 343/577 (59%), Gaps = 37/577 (6%)

Query: 1   MNGAQWVVHALRAQGVNTVFGYPGGAIMPVYDALYDGGVEH----------LLCRHEQGA 50
           M+GA  ++  L  QGV+TVFGY GGAI+P YDA++     H          ++  +EQ A
Sbjct: 1   MSGADIILRVLSEQGVDTVFGYSGGAILPTYDAVFRFNEMHAQTPERQIKLVVPANEQAA 60

Query: 51  AMAAIGYARATGKTGVCIATSGPGATNLITGLADALLDSIPVVAITGQVSAPFIGTDAFQ 110
              A GYARA+GK GV + TSGPGATN +T +AD   DSIPVV I GQV    IGTDAFQ
Sbjct: 61  GFMAAGYARASGKVGVFMVTSGPGATNAVTPIADCNGDSIPVVLICGQVPRAMIGTDAFQ 120

Query: 111 EVDVLGLSLACTKHSFLVQSLEELPRIMAEAFDVACSGRPGPVLVDIPKDIQ------LA 164
           E  V  +  AC K  FLV    +L + +  AF+VA +GRPGPV+VD+PKDIQ        
Sbjct: 121 EAPVFNIMSACAKQVFLVTDPAKLEQTLRTAFEVARTGRPGPVVVDVPKDIQNWTGTYQG 180

Query: 165 SGDLEPWFTTVENEVTFPHAEVEQARQ-----MLAKAQKPMLYVGGGVGMAQAVPALREF 219
            G LE    +    +    A +++ ++     +LA++++P+LY GGG+  A A   LR F
Sbjct: 181 QGTLEFRGYSDRLRMVAKGARLDEGKRNDFFGLLAQSKRPLLYAGGGIITAGATAELRRF 240

Query: 220 LAATKMPATCTLKGLGAVEADYPYYLGMLGMHGTKAANFAVQECDLLIAVGARFDDRVTG 279
                +P   TL GLGA+   +   LGMLGMHG   AN+AV++CD LIAVGARFDDRV G
Sbjct: 241 AERFGIPVVTTLMGLGAISVRHELGLGMLGMHGAACANYAVEDCDFLIAVGARFDDRVAG 300

Query: 280 -KLNTFAPHAS-VIHMDIDPAEMNKLRQAHVALQGDLNALL-------PALQQPLNQYDW 330
            + + FAP A  V H+DID AE+NK+++AH A  GD    L       PA+Q  L   DW
Sbjct: 301 GRPDAFAPRARHVAHIDIDEAEINKVKRAHWAHVGDAKESLLSLMKHGPAVQPRL---DW 357

Query: 331 QQHCAQLRDEHSWRYDHPGDAIYAPLLLKQLSDRKPADCVVTTDVGQHQMWAAQHIAHTR 390
                +L+  +   YD    AI    ++++LS       +VTT VGQHQMWAAQ      
Sbjct: 358 LDRIKELKRVYGMNYDRNSPAIQPQFVVEKLSALTGGRAIVTTGVGQHQMWAAQFFDFVE 417

Query: 391 PENFITSSGLGTMGFGLPAAVGAQVARPNDTVVCISGDGSFMMNVQELGTVKRKQLPLKI 450
           P +F+TS  +GTMGFGLPAA+GAQ+ARP+  V+ I GDGS  MN+ +L T     +P+K+
Sbjct: 418 PRSFLTSGSMGTMGFGLPAAIGAQLARPDALVIDIDGDGSIRMNIGDLETATTYGVPVKV 477

Query: 451 VLLDNQRLGMVRQWQQLFFQER--YSETTLTDNPDFLMLASAFGIH-GQHITRKDQVEAA 507
           +LL+N   GM+RQWQ+LF++ R   S+ +L    DF+M A A G    + +   +++E  
Sbjct: 478 LLLNNLGDGMIRQWQRLFYEGRLCVSDKSL-HRKDFVMAAQADGFEFARRVATLNELEDQ 536

Query: 508 LDTMLNSDGPYLLHVSIDELENVWPLVPPGASNSEML 544
           L   +  DGP  L V +DE  +V+P+V PG S + M+
Sbjct: 537 LKAFIEFDGPAFLEVMVDENADVFPMVGPGQSYANMV 573


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: 848
Number of extensions: 35
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: 600
Length adjustment: 36
Effective length of query: 512
Effective length of database: 564
Effective search space:   288768
Effective search space used:   288768
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 BPHYT_RS10500 BPHYT_RS10500 (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.27600.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.27600.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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