GapMind for Amino acid biosynthesis

 

Alignments for a candidate for ilvH in Desulfovibrio vulgaris Miyazaki F

Align acetolactate synthase (subunit 2/2) (EC 2.2.1.6) (characterized)
to candidate 8501148 DvMF_1883 acetolactate synthase catalytic subunit (RefSeq)

Query= BRENDA::P08142
         (562 letters)



>FitnessBrowser__Miya:8501148
          Length = 615

 Score =  645 bits (1665), Expect = 0.0
 Identities = 331/569 (58%), Positives = 411/569 (72%), Gaps = 9/569 (1%)

Query: 2   ASSGTTSTRKRF-TGAEFIVHFLEQQGIKIVTGIPGGSILPVYDALSQSTQIRHILARHE 60
           AS    + RKR   GA+ ++  LE+QGI ++ GIPGG+ LP+YDAL ++  IRH+LARHE
Sbjct: 14  ASGAAPTPRKRQPNGADLVIRLLERQGIDVIAGIPGGANLPLYDALGRAGSIRHVLARHE 73

Query: 61  QGAGFIAQGMARTDGKPAVCMACSGPGATNLVTAIADARLDSIPLICITGQVPASMIGTD 120
           QGAGF+AQGMAR  G+PAV  A SGPGATN +TAIADA+LDS+P++CITGQVP  ++G+D
Sbjct: 74  QGAGFMAQGMARVTGRPAVFFATSGPGATNTLTAIADAKLDSVPVVCITGQVPLGLVGSD 133

Query: 121 AFQEVDTYGISIPITKHNYLVRHIEELPQVMSDAFRIAQSGRPGPVWIDIPKDVQTAVFE 180
           AFQEVD YG+SIP+TKHN+LVR +EEL +V+  AFRIA SGRPGPV +DIPK+VQ A  +
Sbjct: 134 AFQEVDIYGMSIPVTKHNFLVRSVEELAEVIPAAFRIAASGRPGPVLVDIPKNVQMAEVD 193

Query: 181 ---IETQPAMAEKAAAPAFSEESIRDAAAMINAAKRPVLYLGGGVINAPAR--VRELAEK 235
               +  P   + AA PA     I  AAA++NAA+RP+LYLGGGV+ + A     +LAE+
Sbjct: 194 QAVFDNPPQPGQPAAPPAPDPAGISRAAALLNAAQRPMLYLGGGVVASGASDMAVQLAER 253

Query: 236 AQLPTTMTLMALGMLPKAHPLSLGMLGMHGVRSTNYILQEADLLIVLGARFDDRAIGKTE 295
           A LPT MTLMALG +P  HPLSLGMLGMH  R TN +L E D+L+V GARFDDRA+GK E
Sbjct: 254 AGLPTVMTLMALGAMPAGHPLSLGMLGMHAARHTNLLLAECDVLLVAGARFDDRAVGKAE 313

Query: 296 QFCPNAKIIHVDIDRAELGKIKQPHVAIQADVDDVLAQLIPLVEAQPRA---EWHQLVAD 352
           +FCP A IIH+DID +EL KI   H  I  DV   LA+L+PL+  +  A    W   V +
Sbjct: 314 RFCPGATIIHIDIDESELDKILPVHCGITGDVGLALAELLPLLRTRAEAGREAWLTRVEE 373

Query: 353 LQREFPCPIPKACDPLSHYGLINAVAACVDDNAIITTDVGQHQMWTAQAYPLNRPRQWLT 412
            +R  P  +P A DP + YGLI   A  VD +AI+ TDVGQHQM TAQAYPL  PR+WLT
Sbjct: 374 CRRRHPFVMPGADDPRTPYGLIRCAADAVDHDAIVATDVGQHQMRTAQAYPLRGPRRWLT 433

Query: 413 SGGLGTMGFGLPAAIGAALANPDRKVLCFSGDGSLMMNIQEMATASENQLDVKIILMNNE 472
           SGGLGTMGFGLPAAIGAALA P+  VLCF+GDGSL MNIQE+ATA+E  ++VKI+L +N 
Sbjct: 434 SGGLGTMGFGLPAAIGAALARPEATVLCFTGDGSLQMNIQELATAAEEGVNVKILLADNN 493

Query: 473 ALGLVHQQQSLFYEQGVFAATYPGKINFMQIAAGFGLETCDLNNEADPQASLQEIINRPG 532
           ALGLV QQQ LFYE  + A+TY  K++F +IA GFG+   DL+    P   L + +  PG
Sbjct: 494 ALGLVRQQQELFYEGRLVASTYRRKVDFARIAEGFGVPAVDLDASEHPLRDLADALRAPG 553

Query: 533 PALIHVRIDAEEKVYPMVPPGAANTEMVG 561
           P LI V + A   VYPMVPPGA N +M+G
Sbjct: 554 PCLIRVTVPAGANVYPMVPPGADNLQMIG 582


Lambda     K      H
   0.320    0.135    0.400 

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: 1115
Number of extensions: 52
Number of successful extensions: 5
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: 562
Length of database: 615
Length adjustment: 37
Effective length of query: 525
Effective length of database: 578
Effective search space:   303450
Effective search space used:   303450
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 8501148 DvMF_1883 (acetolactate synthase 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.11856.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11856.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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