GapMind for catabolism of small carbon sources

 

Alignments for a candidate for aacS in Dechlorosoma suillum PS

Align acetoacetate-CoA ligase (EC 6.2.1.16) (characterized)
to candidate Dsui_2297 Dsui_2297 acetoacetyl-CoA synthase

Query= BRENDA::Q9Z3R3
         (650 letters)



>FitnessBrowser__PS:Dsui_2297
          Length = 656

 Score =  797 bits (2058), Expect = 0.0
 Identities = 401/650 (61%), Positives = 471/650 (72%), Gaps = 7/650 (1%)

Query: 7   LWVPDREIVERSPMAEFIDWCGERFGRSFADYDAFHDWSVSERGAFWTAVWEHCKVIGES 66
           LW P  E V  + +  F+    +       DYDA   WSV +  AFW+ +W+ C V+G+ 
Sbjct: 8   LWRPGPERVAAANLTRFMGAASQAAAAPLNDYDALWQWSVDQPAAFWSLLWDFCGVVGDK 67

Query: 67  GEKALVDGDRMLDARFFPEARLNFAENLLRKTGSGDALIFRGEDKVSYRLTWDELRALVS 126
           G   L DGD+M  AR+FP+ RLN+AENLLR +G  DAL+F GEDKV   L+ DELRA VS
Sbjct: 68  GGTVLEDGDKMPGARWFPQGRLNYAENLLRFSGPEDALVFWGEDKVKRHLSRDELRAQVS 127

Query: 127 RLQQALRAQGIGAGDRVAAMMPNMPETIALMLATASVGAIWSSCSPDFGEQGVLDRFGQI 186
           R QQ L   G+  GDRVA  +PN+PET+  MLA AS+GAIWSS SPDFG QGVLDRFGQI
Sbjct: 128 RFQQFLEDAGVQPGDRVAGYLPNLPETLIAMLAAASLGAIWSSASPDFGVQGVLDRFGQI 187

Query: 187 APKLFIVCDGYWYNGKRQDVDSKVRAVAKSLGA--PTVIVPYAGDSAALAPTVEGGVTLA 244
            PK+ +  DGYWYNGK  D  +K    A  L      V+VPY   +  +   +   VT  
Sbjct: 188 GPKVLVCVDGYWYNGKAVDCLTKNAEAAAQLPTLEKVVVVPYLAATPDIG-AIPKAVTWD 246

Query: 245 DFIAGFQAGPLVFERLPFGHPLYILFSSGTTGVPKCIVHSAGGTLLQHLKEHRFHCGLRD 304
             +A F A    F RLPF HPL+I++SSGTTGVPKCIVH  GG +LQHLKEH+    ++ 
Sbjct: 247 QALAPFSATAPAFARLPFSHPLFIMYSSGTTGVPKCIVHCHGGAVLQHLKEHQLQGDVKP 306

Query: 305 GERLFYFTTCGWMMWNWLASGLAVGATLCLYDGSPFCPDGNVLFDYAAAERFAVFGTSAK 364
           G+R+FYFTTCGWMMWNWL SGLA GATL LYDGSPF   G VLFDYA AE    FGTSAK
Sbjct: 307 GDRVFYFTTCGWMMWNWLVSGLASGATLLLYDGSPFADQGKVLFDYADAEAMTHFGTSAK 366

Query: 365 YIDAVRKGGFTPARTHDLSSLRLMTSTGSPLSPEGFSFVYEGIKPDVQLASISGGTDIVS 424
           +IDA  K G  P  TH L +LR + STGSPLSPEGF +VY  IKP++QLASISGGTDI+S
Sbjct: 367 FIDAAAKMGLKPRETHKLQALRSLFSTGSPLSPEGFDYVYRDIKPELQLASISGGTDIIS 426

Query: 425 CFVLGNPLKPVWRGEIQGPGLGLAVDVWNDEGKPVRGEKGELVCTRAFPSMPVMFWNDPD 484
           CFVLG P  PV+RGEIQ  GLG+AVDV++D+G+PVR +KGELVCT+ FP MPV FWNDPD
Sbjct: 427 CFVLGAPTLPVYRGEIQCRGLGMAVDVFDDDGQPVRRQKGELVCTKPFPVMPVGFWNDPD 486

Query: 485 GAKYRAAYFDRFDNVWCHGDFAEWTPHGGIVIHGRSDATLNPGGVRIGTAEIYNQVEQMD 544
           GAKY AAYF+RF NVWCHGDFAE T H G+VI+GRSDATLNPGGVRIGTAEIY QVEQ++
Sbjct: 487 GAKYHAAYFERFPNVWCHGDFAELTEHNGMVIYGRSDATLNPGGVRIGTAEIYRQVEQLE 546

Query: 545 EVAEALCIGQDWE----DDVRVVLFVRLARGVELTEALTREIKNRIRSGASPRHVPAKII 600
           EV E+L IGQDW     DDVRVVLFV+L  G+ L +AL+  IK +IR   +PRHVPAK++
Sbjct: 547 EVVESLVIGQDWPPGKYDDVRVVLFVKLRDGLTLDDALSVRIKEQIRRNTTPRHVPAKVV 606

Query: 601 AVADIPRTKSGKIVELAVRDVVHGRPVKNKEALANPEALDLFAGLEELKS 650
            V DIPRTKSGKIVELAVR+VVH RPVKN EALANPEAL+ F    EL S
Sbjct: 607 QVRDIPRTKSGKIVELAVRNVVHQRPVKNVEALANPEALEEFRERPELAS 656


Lambda     K      H
   0.322    0.139    0.441 

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: 1475
Number of extensions: 59
Number of successful extensions: 3
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: 650
Length of database: 656
Length adjustment: 38
Effective length of query: 612
Effective length of database: 618
Effective search space:   378216
Effective search space used:   378216
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 (21.9 bits)
S2: 54 (25.4 bits)

Align candidate Dsui_2297 Dsui_2297 (acetoacetyl-CoA synthase)
to HMM TIGR01217 (acetoacetate-CoA ligase (EC 6.2.1.16))

Software error:

../bin/blast/fastacmd -i /tmp/list.15954.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.15954.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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