Alignments for a candidate for ilvD in Desulfovibrio vulgaris Hildenborough JW710

Align dihydroxy-acid dehydratase subunit (EC 4.2.1.9) (characterized)
to candidate 208900 DVU3373 dihydroxy-acid dehydratase (TIGR)

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



>FitnessBrowser__DvH:208900
          Length = 554

 Score =  594 bits (1531), Expect = e-174
 Identities = 301/552 (54%), Positives = 402/552 (72%), Gaps = 7/552 (1%)

Query: 1   MKSDTIKRGIQRAPHRSLLARCGLTDDDFEKPFIGIANSYTDIVPGHIHLRELAEAVKEG 60
           M+S  +  G+++APHRSLL   GLT ++  +P +G+ N+  ++VPGHIHL ++AEAVK G
Sbjct: 1   MRSKKMTHGLEKAPHRSLLHALGLTREELARPLVGVVNAANEVVPGHIHLDDIAEAVKAG 60

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

Query: 121 KIVPGMLMAAARLDIPAIVVTGGPMLPGEFKGRKVDLINVYEGVGTVSAGEMSEDELEEL 180
           K VPGMLMA  RLD+P+++V+GGPML G     + DLI V+EGVG V  G+M+E EL+EL
Sbjct: 121 KSVPGMLMAMLRLDVPSVMVSGGPMLAGATLAGRADLITVFEGVGRVQRGDMTEAELDEL 180

Query: 181 ERCACPGPRSCAGLFTANTMACLTEALGMSLPGCATAHAVSSRKRQIARLSGKRIVEMVQ 240
              ACPG  SCAG+FTAN+M CL E +G++LPG  T  AV++ + ++A+ +G +++EM++
Sbjct: 181 VEGACPGCGSCAGMFTANSMNCLAETIGLALPGNGTTPAVTAARIRLAKHAGMKVMEMLE 240

Query: 241 ENLKPTMIMSQEAFENAVMVDLALGGSTNTTLHIPAIAAEIDGLNINLDLFDELSRVIPH 300
            N++P  I++++A  NAV VD+ALG STNT LH+PA+ AE  GL++ LD+FD++SR  P+
Sbjct: 241 RNIRPRDIVTEKAVANAVAVDMALGCSTNTVLHLPAVFAEA-GLDLTLDIFDKVSRKTPN 299

Query: 301 IASISPAGEHMMLDLDRAGGIPAVLKTLE--DHINRECVTCTGRTVQENIE--NVKVGHR 356
           +  +SPAG H + DL  AGGIPAV+  L+    I+R  +T TGRTV EN++    KV   
Sbjct: 300 LCKLSPAGHHHIQDLHAAGGIPAVMAELDRIGLIDRSAMTVTGRTVGENLDALGAKVRDA 359

Query: 357 DVIRPLDSPVHSEGGLAILRGNLAPRGSVVKQGAVAEDMMVHEGPAKVFNSEDECMEAIF 416
           DVIRP+D+P   +GG+AIL+G+LAP G+VVKQ AVA +MMV E  A+VF+SE+   EAI 
Sbjct: 360 DVIRPVDAPYSPQGGIAILKGSLAPGGAVVKQSAVAPEMMVREAVARVFDSEEAACEAIM 419

Query: 417 GGRIDEGDVIVIRYEGPKGGPGMREMLNPTSAIAGMGL-ERVALITDGRFSGGTRGPCVG 475
           GGRI  GD IVIRYEGPKGGPGMREML PTSAIAGMGL   VALITDGRFSGGTRG  +G
Sbjct: 420 GGRIKAGDAIVIRYEGPKGGPGMREMLTPTSAIAGMGLGADVALITDGRFSGGTRGAAIG 479

Query: 476 HVSPEAMEDGPLAAVNDGDIIRIDIPSRKLEVDLSPREIEERLQSAVKPRRSVKG-WLAR 534
           HVSPEA E GP+  V +GD IRIDIP+R L++ +   E+  R  + V   + +    L R
Sbjct: 480 HVSPEAAEGGPIGLVQEGDRIRIDIPARALDLLVDEDELARRRAAFVPVEKEITSPLLRR 539

Query: 535 YRKLAGSADTGA 546
           Y ++  SA TGA
Sbjct: 540 YARMVSSAATGA 551


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: 1008
Number of extensions: 53
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: 549
Length of database: 554
Length adjustment: 36
Effective length of query: 513
Effective length of database: 518
Effective search space:   265734
Effective search space used:   265734
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 208900 DVU3373 (dihydroxy-acid dehydratase (TIGR))
to HMM TIGR00110 (ilvD: dihydroxy-acid dehydratase (EC 4.2.1.9))

Software error:

../bin/blast/fastacmd -i /tmp/list.5908.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.5908.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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