Alignments for a candidate for ilvD in Dinoroseobacter shibae DFL-12

Align Dihydroxy-acid dehydratase; DAD; EC 4.2.1.9 (characterized)
to candidate 3606698 Dshi_0129 dihydroxy-acid dehydratase (RefSeq)

Query= SwissProt::P9WKJ5
         (575 letters)



>FitnessBrowser__Dino:3606698
          Length = 577

 Score =  538 bits (1385), Expect = e-157
 Identities = 283/556 (50%), Positives = 369/556 (66%), Gaps = 9/556 (1%)

Query: 21  SRDVTDGLEKAAARGMLRAVGMDDEDFAKPQIGVASSWNEITPCNLSLDRLANAVKEGVF 80
           SR VT+G  +A  R    A+GM +E+  +P +GVA+ WNE  PCN++L R A AVK GV 
Sbjct: 13  SRHVTEGPSRAPHRSYYYAMGMTEEEIHQPLVGVATCWNEAAPCNIALSRQAQAVKMGVK 72

Query: 81  SAGGYPLEFGTISVSDGISMGHEGMHFSLVSREVIADSVEVVMQAERLDGSVLLAGCDKS 140
            A G P EF TI+V+DGI+MGHEGM  SL SRE IAD+VE+ M+    D  V LAGCDKS
Sbjct: 73  QASGTPREFTTITVTDGIAMGHEGMRSSLASREAIADTVELTMRGHCYDAIVGLAGCDKS 132

Query: 141 LPGMLMAAARLDLAAVFLYAGSILPGRAKLSDGSERDVTIIDAFEAVGACSRGLMSRADV 200
           LPGM+MA  RL++ +VF+Y GSILPGR      +  DVT+ D FEAVG    G  + A++
Sbjct: 133 LPGMMMAMVRLNVPSVFIYGGSILPGRL-----NGEDVTVQDVFEAVGKHQAGNYTDAEL 187

Query: 201 DAIERAICPGEGACGGMYTANTMASAAEALGMSLPGSAAPPATDRRRDGFARRSGQAVVE 260
           + +ER  CP  GACGG +TANTMA  +EA+G++LP SA  PA    RD +   SG+AV++
Sbjct: 188 EVLERVACPSAGACGGQFTANTMACVSEAIGLALPNSAGAPAPYESRDQYGEASGRAVMD 247

Query: 261 LLRRGITARDILTKEAFENAIAVVMAFGGSTNAVLHLLAIAHEANVALSLQDFSRIGSGV 320
           L+ +GI ARDI+T+++ ENA  +V   GGSTNA LHL AIAHEA +  +LQD   I    
Sbjct: 248 LIEKGIRARDIVTRKSLENAARIVACTGGSTNAGLHLPAIAHEAGIEFTLQDVCDIFRDT 307

Query: 321 PHLADVKPFGRHVMSDVDHIGGVPVVMKALLDAGLLHGDCLTVTGHTMAENLAAITPPDP 380
           P+  D+KP G++V  D+   GGVPVVM+ L  AGL+H DC+TVTG+++ E L  +T  + 
Sbjct: 308 PYFVDLKPGGKYVAKDMYEAGGVPVVMRELRRAGLIHEDCMTVTGYSIGEELDKVT-LEA 366

Query: 381 DGKVLRALANPIHPSGGITILHGSLAPEGAVVKTAGFDSD--VFEGTARVFDGERAALDA 438
           DG+V+  +  P+  +GG+  L G+LAPEGA+VK AG   D  VF G ARVF+ E  A +A
Sbjct: 367 DGRVIYPVDTPLSTTGGVVGLEGNLAPEGAIVKIAGMSDDQLVFTGPARVFECEEDAFEA 426

Query: 439 LEDGTITVGDAVVIRYEGPKGGPGMREMLAITGAIKGAGLGKDVLLLTDGRFSGGTTGLC 498
           +++     GD  VIR EGP GGPGMREMLA T A+ G G+GK V L+TDGRFSG T G C
Sbjct: 427 VQNRAYAEGDVFVIRNEGPAGGPGMREMLATTAALSGQGMGKKVALITDGRFSGATRGFC 486

Query: 499 VGHIAPEAVDGGPIALLRNGDRIRLDVAGRVLDVLADPAEFASRQQDFSPPPPR-YTTGV 557
           VGH+ PEA  GGPIA+L++GD I +D     L V     E A+R+  +S P    Y +G 
Sbjct: 487 VGHVGPEAAHGGPIAMLKDGDMITIDALKGELSVALSEDELAARKDAWSGPRETIYASGA 546

Query: 558 LSKYVKLVSSAAVGAV 573
           L KY +LV  A +GAV
Sbjct: 547 LWKYAQLVGGARLGAV 562


Lambda     K      H
   0.318    0.136    0.393 

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: 956
Number of extensions: 48
Number of successful extensions: 6
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: 575
Length of database: 577
Length adjustment: 36
Effective length of query: 539
Effective length of database: 541
Effective search space:   291599
Effective search space used:   291599
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)

Align candidate 3606698 Dshi_0129 (dihydroxy-acid dehydratase (RefSeq))
to HMM TIGR00110 (ilvD: dihydroxy-acid dehydratase (EC 4.2.1.9))

Software error:

../bin/blast/fastacmd -i /tmp/list.32644.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.32644.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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