GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvH in Shewanella amazonensis SB2B

Align acetolactate synthase isozyme 2 large subunit; EC 2.2.1.6 (characterized)
to candidate 6939187 Sama_3281 acetolactate synthase 2 catalytic subunit (RefSeq)

Query= CharProtDB::CH_003896
         (548 letters)



>FitnessBrowser__SB2B:6939187
          Length = 556

 Score =  729 bits (1883), Expect = 0.0
 Identities = 358/547 (65%), Positives = 434/547 (79%)

Query: 1   MNGAQWVVHALRAQGVNTVFGYPGGAIMPVYDALYDGGVEHLLCRHEQGAAMAAIGYARA 60
           M GA  V+  L A GVNTVFGYPGGAIMP+YDALY   VEH LCRHEQGA  AA+GYARA
Sbjct: 6   MRGADAVIKVLAAHGVNTVFGYPGGAIMPIYDALYGSEVEHTLCRHEQGAGFAAVGYARA 65

Query: 61  TGKTGVCIATSGPGATNLITGLADALLDSIPVVAITGQVSAPFIGTDAFQEVDVLGLSLA 120
           +GKTGVC ATSGPGATNLIT LADALLDS+PVVAITGQVS   IGTDAFQE+DVLG+SL+
Sbjct: 66  SGKTGVCFATSGPGATNLITALADALLDSVPVVAITGQVSTSVIGTDAFQEIDVLGMSLS 125

Query: 121 CTKHSFLVQSLEELPRIMAEAFDVACSGRPGPVLVDIPKDIQLASGDLEPWFTTVENEVT 180
           CTKHSF+VQ+++EL   +  AF++A SGRPGPVLVDIPKDIQ+A  +       V +E  
Sbjct: 126 CTKHSFMVQTVDELVPTLYRAFELAASGRPGPVLVDIPKDIQIAKLEYRAPLLAVADEPK 185

Query: 181 FPHAEVEQARQMLAKAQKPMLYVGGGVGMAQAVPALREFLAATKMPATCTLKGLGAVEAD 240
              A+++ AR ++A A+KPMLYVGGGVGMA AV  LR F+ AT MP+  TLKGLGA+   
Sbjct: 186 VQDADIDAARALIAAAKKPMLYVGGGVGMAGAVEPLRHFIKATYMPSVATLKGLGAIPHG 245

Query: 241 YPYYLGMLGMHGTKAANFAVQECDLLIAVGARFDDRVTGKLNTFAPHASVIHMDIDPAEM 300
            P YLGMLGMHG KAAN AVQECDLL+ VGARFDDRVTG+L +FAP+A V+H+DID AE+
Sbjct: 246 TPGYLGMLGMHGGKAANLAVQECDLLMVVGARFDDRVTGRLASFAPNAKVLHLDIDAAEL 305

Query: 301 NKLRQAHVALQGDLNALLPALQQPLNQYDWQQHCAQLRDEHSWRYDHPGDAIYAPLLLKQ 360
            KLRQ  VA+  +L  +LP L+  L+   W+     L  EH W Y+HPG  IYAP +L++
Sbjct: 306 GKLRQPDVAIAAELRVVLPMLEMQLDIDPWRAEVEALAAEHRWDYNHPGSLIYAPAMLRR 365

Query: 361 LSDRKPADCVVTTDVGQHQMWAAQHIAHTRPENFITSSGLGTMGFGLPAAVGAQVARPND 420
           L+++ P D VV+ DVGQHQMW AQH+   RPE+ ++S+GLGTMGFGLPAA+GAQ+ARP+ 
Sbjct: 366 LANKLPEDSVVSCDVGQHQMWVAQHMHFRRPEDHLSSAGLGTMGFGLPAAIGAQMARPDA 425

Query: 421 TVVCISGDGSFMMNVQELGTVKRKQLPLKIVLLDNQRLGMVRQWQQLFFQERYSETTLTD 480
           TVV +SGDGSFMMNVQEL T+KR++LP+KI+L+DNQRLGMV+QWQQLFF+ERYSET L+D
Sbjct: 426 TVVAVSGDGSFMMNVQELTTIKRRKLPVKILLIDNQRLGMVKQWQQLFFEERYSETNLSD 485

Query: 481 NPDFLMLASAFGIHGQHITRKDQVEAALDTMLNSDGPYLLHVSIDELENVWPLVPPGASN 540
           NPDF+ LASAF I G+ I   ++VE AL  ML S GPYLLHV+ID+  NVWPLVPPGASN
Sbjct: 486 NPDFVALASAFDIPGRTIFAAEEVEEALTEMLTSKGPYLLHVAIDDAFNVWPLVPPGASN 545

Query: 541 SEMLEKL 547
           S+M+E++
Sbjct: 546 SDMMEEM 552


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: 899
Number of extensions: 26
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: 556
Length adjustment: 36
Effective length of query: 512
Effective length of database: 520
Effective search space:   266240
Effective search space used:   266240
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 6939187 Sama_3281 (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.9047.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.9047.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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