Alignments for a candidate for ilvD in Desulfovibrio vulgaris Miyazaki F

Align dihydroxy-acid dehydratase subunit (EC 4.2.1.9) (characterized)
to candidate 8501301 DvMF_2034 dihydroxy-acid dehydratase (RefSeq)

Query= metacyc::MONOMER-11919
         (549 letters)



>FitnessBrowser__Miya:8501301
          Length = 555

 Score =  575 bits (1481), Expect = e-168
 Identities = 290/555 (52%), Positives = 401/555 (72%), Gaps = 7/555 (1%)

Query: 1   MKSDTIKRGIQRAPHRSLLARCGLTDDDFEKPFIGIANSYTDIVPGHIHLRELAEAVKEG 60
           M+S  +  G+++APHRSLL   GLT ++ E+P +G+ N+  ++VPGH+HL  +AEAVK G
Sbjct: 1   MRSKKMTHGLEKAPHRSLLHALGLTREEIERPLVGVVNAANEVVPGHVHLHTIAEAVKAG 60

Query: 61  VNAAGGVAFEFNTMAICDGIAMNHDGMKYSLASREIVADTVESMAMAHALDGLVLLPTCD 120
           V AAGG   EF  +A+CDG+AMNH+GM +SL SREI+AD++E MA AH  D LV +P CD
Sbjct: 61  VRAAGGTPMEFPAIAVCDGLAMNHEGMHFSLPSREIIADSIEIMATAHPFDALVFIPNCD 120

Query: 121 KIVPGMLMAAARLDIPAIVVTGGPMLPGEFKGRKVDLINVYEGVGTVSAGEMSEDELEEL 180
           K VPGMLMA  R+DIP+I+V+GGPML G     + DLI+V+E VG V  G+M+  EL+E+
Sbjct: 121 KSVPGMLMAMLRMDIPSIMVSGGPMLAGGTLAGRTDLISVFEAVGRVQRGDMTMAELDEM 180

Query: 181 ERCACPGPRSCAGLFTANTMACLTEALGMSLPGCATAHAVSSRKRQIARLSGKRIVEMVQ 240
              ACPG  SCAG+FTANTM C+ E +G++LPG  T  AV++ + ++A+ +G +++E+++
Sbjct: 181 TETACPGCGSCAGMFTANTMNCMAETMGLALPGNGTIPAVTAARVRLAKHAGMKVMELLE 240

Query: 241 ENLKPTMIMSQEAFENAVMVDLALGGSTNTTLHIPAIAAEIDGLNINLDLFDELSRVIPH 300
           +N+ P  I++  A  NAV VD+ALGGSTNT LH+PA+  E  GL++ LD+FDE+SR  P+
Sbjct: 241 KNITPRSIVTPRAVANAVAVDMALGGSTNTVLHLPAVFGEA-GLDLTLDIFDEVSRKTPN 299

Query: 301 IASISPAGEHMMLDLDRAGGIPAVLK--TLEDHINRECVTCTGRTVQENIE--NVKVGHR 356
           +  +SPAG H + DL  AGGIPAV+   T +  ++   +T TG+T+ EN+   N +V + 
Sbjct: 300 LCKLSPAGHHHIQDLHAAGGIPAVMAELTRKGLVDTSVMTVTGKTLAENLAELNARVLNP 359

Query: 357 DVIRPLDSPVHSEGGLAILRGNLAPRGSVVKQGAVAEDMMVHEGPAKVFNSEDECMEAIF 416
           DVIR  D+P  ++GG+AIL+G+LAP+G+VVKQ AVA +MMV E  A+VF+SE E   AI 
Sbjct: 360 DVIRSADAPYSAQGGIAILKGSLAPQGAVVKQSAVAPEMMVREAVARVFDSEGEAHAAIM 419

Query: 417 GGRIDEGDVIVIRYEGPKGGPGMREMLNPTSAIAGMGL-ERVALITDGRFSGGTRGPCVG 475
           GG+I++GD I+IRYEGP+GGPGMREML+PT+AIAGMGL   VALITDGRFSGGTRG  +G
Sbjct: 420 GGKINKGDAIIIRYEGPRGGPGMREMLSPTAAIAGMGLGADVALITDGRFSGGTRGAAIG 479

Query: 476 HVSPEAMEDGPLAAVNDGDIIRIDIPSRKLEVDLSPREIEERLQSAVKPRRSVKG-WLAR 534
           HVSPEA + G +  V +GD I IDIP+R+L++ +   E+  R ++ V   + V    L R
Sbjct: 480 HVSPEAADGGNIGLVREGDHILIDIPARRLDLLVDEAELAARRETFVPLEKPVTSPLLRR 539

Query: 535 YRKLAGSADTGAVLR 549
           Y +   SA TGA+ R
Sbjct: 540 YARQVTSAATGAMYR 554


Lambda     K      H
   0.319    0.136    0.397 

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: 992
Number of extensions: 59
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: 549
Length of database: 555
Length adjustment: 36
Effective length of query: 513
Effective length of database: 519
Effective search space:   266247
Effective search space used:   266247
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 (21.7 bits)
S2: 53 (25.0 bits)

Align candidate 8501301 DvMF_2034 (dihydroxy-acid dehydratase (RefSeq))
to HMM TIGR00110 (ilvD: dihydroxy-acid dehydratase (EC 4.2.1.9))

Software error:

../bin/blast/fastacmd -i /tmp/list.5035.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.5035.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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