GapMind for Amino acid biosynthesis

 

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

Align acetolactate synthase isozyme 2 large subunit; EC 2.2.1.6 (characterized)
to candidate 7023118 Shewana3_0356 acetolactate synthase 2 catalytic subunit (RefSeq)

Query= CharProtDB::CH_003896
         (548 letters)



>FitnessBrowser__ANA3:7023118
          Length = 557

 Score =  723 bits (1866), Expect = 0.0
 Identities = 357/547 (65%), Positives = 429/547 (78%)

Query: 1   MNGAQWVVHALRAQGVNTVFGYPGGAIMPVYDALYDGGVEHLLCRHEQGAAMAAIGYARA 60
           + GA  V+  L A GV TVFGYPGGAIMP+YDALY   VEHLL RHEQGAA AA+GYARA
Sbjct: 7   IRGADAVIKVLAAHGVTTVFGYPGGAIMPIYDALYGSPVEHLLSRHEQGAAFAAVGYARA 66

Query: 61  TGKTGVCIATSGPGATNLITGLADALLDSIPVVAITGQVSAPFIGTDAFQEVDVLGLSLA 120
           +GKTGVC ATSGPGATNLIT LADALLDS+PVVAITGQVS   IGTDAFQE+DVLG+SL+
Sbjct: 67  SGKTGVCFATSGPGATNLITSLADALLDSVPVVAITGQVSTAVIGTDAFQEIDVLGMSLS 126

Query: 121 CTKHSFLVQSLEELPRIMAEAFDVACSGRPGPVLVDIPKDIQLASGDLEPWFTTVENEVT 180
           CTKHSF+V  + +L   + +AF++A SGRPGPVLVDIPKDIQ+A  +       V NE  
Sbjct: 127 CTKHSFMVTDVNDLIPTLYQAFEIAASGRPGPVLVDIPKDIQIAQLEYRTPLLAVTNEPQ 186

Query: 181 FPHAEVEQARQMLAKAQKPMLYVGGGVGMAQAVPALREFLAATKMPATCTLKGLGAVEAD 240
              +E++ AR +LA+A++PMLYVGGGVGMA AV  LREF+ AT MP+  TLKGLG++   
Sbjct: 187 ASASEIDAARALLAEAKQPMLYVGGGVGMAGAVDQLREFIKATGMPSVATLKGLGSIAHG 246

Query: 241 YPYYLGMLGMHGTKAANFAVQECDLLIAVGARFDDRVTGKLNTFAPHASVIHMDIDPAEM 300
            P YLGMLGMHG KAAN AVQ+CDLL+  GARFDDRVTG+L TFA  A VIH+DID AE+
Sbjct: 247 TPGYLGMLGMHGGKAANLAVQDCDLLVVAGARFDDRVTGRLATFANKAKVIHLDIDAAEL 306

Query: 301 NKLRQAHVALQGDLNALLPALQQPLNQYDWQQHCAQLRDEHSWRYDHPGDAIYAPLLLKQ 360
            KLRQ  VA+ GDL  + PAL   LN   WQ     L  +H W Y HPG  IYAP +L++
Sbjct: 307 GKLRQPDVAIAGDLRQIFPALAMALNITPWQAEVEHLARKHQWDYQHPGSLIYAPAMLRR 366

Query: 361 LSDRKPADCVVTTDVGQHQMWAAQHIAHTRPENFITSSGLGTMGFGLPAAVGAQVARPND 420
           L+++ P D VV  DVGQHQMW AQH+   RPE+ ++S+GLGTMGFGLPAA+GAQVARP+ 
Sbjct: 367 LANKLPEDSVVCCDVGQHQMWVAQHMWFRRPEDHLSSAGLGTMGFGLPAAIGAQVARPDA 426

Query: 421 TVVCISGDGSFMMNVQELGTVKRKQLPLKIVLLDNQRLGMVRQWQQLFFQERYSETTLTD 480
           TVV +SGDGSFMMNVQEL T+KR++LP+KI+L+DNQ+LGMV+QWQQLFF+ERYSET L+D
Sbjct: 427 TVVTVSGDGSFMMNVQELTTIKRRKLPVKILLIDNQKLGMVKQWQQLFFEERYSETDLSD 486

Query: 481 NPDFLMLASAFGIHGQHITRKDQVEAALDTMLNSDGPYLLHVSIDELENVWPLVPPGASN 540
           NPDF+ LASAF I G+ I   D+VE AL  ML + GPYLLHV+ID+  NVWPLVPPGASN
Sbjct: 487 NPDFVQLASAFDIPGRTIFSSDEVEEALTEMLAAKGPYLLHVAIDDAFNVWPLVPPGASN 546

Query: 541 SEMLEKL 547
           S+M++++
Sbjct: 547 SDMMDEM 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: 925
Number of extensions: 29
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: 548
Length of database: 557
Length adjustment: 36
Effective length of query: 512
Effective length of database: 521
Effective search space:   266752
Effective search space used:   266752
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 7023118 Shewana3_0356 (acetolactate synthase 2 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.28023.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.28023.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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