GapMind for catabolism of small carbon sources

 

Alignments for a candidate for aacS in Marinobacter adhaerens HP15

Align acetoacetate-CoA ligase (EC 6.2.1.16) (characterized)
to candidate GFF4237 HP15_4177 acetyl-CoA synthetase

Query= BRENDA::D6EQU8
         (658 letters)



>FitnessBrowser__Marino:GFF4237
          Length = 662

 Score =  561 bits (1445), Expect = e-164
 Identities = 283/653 (43%), Positives = 407/653 (62%), Gaps = 15/653 (2%)

Query: 2   STENPQPLWQPDAQRIAQARITRFQAWAAEHHGAPAEGGYAALHRWSVDELDTFWKAVTE 61
           +T +P  LW P    +  +R+ +F+AW  E  G      Y AL++WS+DEL+TFW+ V +
Sbjct: 5   TTPSPDILWSPSEDTLKNSRMGQFKAWL-EQQGLGPFTDYHALYQWSIDELETFWQKVWD 63

Query: 62  WFDVRFSTPYARVLGDRTMPGAQWFPGATLNYAEHALRAA-GTRPDEPALLYVDETHEPA 120
           +  +   TP  +VLG R MPGA+WFPG  LN+A + LR A G   D+ A++   ET    
Sbjct: 64  YCGLVCDTPAEKVLGKRDMPGAEWFPGMKLNFAANLLRLADGEHADQEAVVAYCETRPVL 123

Query: 121 PVTWAELRRQVASLAAELRALGVRPGDRVSGYLPNIPQAVVALLATAAVGGVWTSCAPDF 180
             T+A+L+    +L A LR  G++ GDRV+G + N  +A+V +LA  ++G +W+S +PDF
Sbjct: 124 RRTYAQLKADAGALEAFLRDKGIQQGDRVAGVVTNGYEALVGMLAATSMGAIWSSASPDF 183

Query: 181 GARSVLDRFQQVEPVVLFTVDGYRYGGKEHDRRDTVAELRRELPTLRAVIHIPLLGTEAP 240
           G  ++LDRF Q+EP  L  V+GY YGGK   R+   AEL   LPTL++V+ +  L  E P
Sbjct: 184 GIGAILDRFGQIEPAALIVVNGYGYGGKVFARQQDFAELIAGLPTLKSVVSVQQLPDEPP 243

Query: 241 -DGTL--DWETLTAADA--EPVYEQVPFDHPLWVLYSSGTTGLPKAIVQSQGGILVEHLK 295
             G L   WE + A      P +  +P DHP+++LYSSGTTG PK IV    G+LV H K
Sbjct: 244 IAGNLVTTWEDMLAYGKGNAPSFTPLPPDHPVYILYSSGTTGKPKCIVHGNAGLLVNHAK 303

Query: 296 QLGLHCDLGPGDRFFWYTSTGWMMWNFLVSGLLTGTTIVLYDGSPGFPATDAQWRIAERT 355
           +L LH D+GP DRF ++T+ GWMMWN+  S L+TG  ++  DGSPG+P+ +  W      
Sbjct: 304 ELMLHGDVGPEDRFLYFTTCGWMMWNWQASALMTGAAVITVDGSPGYPSLNFLWDTVAEE 363

Query: 356 GATLFGTSAAYVMACRKAGVHPARDLDLSAIQCVATTGSPLPPDGFRWLHDEFAAGGADL 415
             T FGTSA ++  CRK  + PA+ LD S ++ V +TGSPL P+ + W++ +   G  D 
Sbjct: 364 KVTHFGTSARFIAGCRKGELKPAKTLDQSKLRVVFSTGSPLLPEDYDWVYSD---GAPDA 420

Query: 416 WIASVSGGTDVCSCFAGAVPTLPVHIGELQAPGLGTDLQSWDPSGDPLTDEVGELVVTNP 475
            + S++GGTD+C CF G+ P LPV  GE+Q   LG D  ++   G P+++  GELV   P
Sbjct: 421 LLGSIAGGTDICGCFVGSTPLLPVRRGEIQCRFLGVDAVAYGDDGQPVSEGRGELVCRQP 480

Query: 476 MPSMPIRFWNDPDGSRYHDSYFDTYPGVWRHGDWITLTSRGSVVIHGRSDSTLNRQGVRM 535
           +PSMP+ FW DP   RY D+YF+T+PGVW HGD+I  T  G  +I+GRSD+TLN  GVR+
Sbjct: 481 LPSMPVSFWQDPGDERYKDAYFNTFPGVWAHGDFIEFTEHGGAIIYGRSDATLNPGGVRI 540

Query: 536 GSADIYEAVERLPEIRESLVIGIEQPDGGYWMPLFVHLAPGATLDDALLDRIKRTIRVNL 595
           G+A+IY  VE + E+++SLV+G  Q DG   + L V  A G  + + LL ++K  IR   
Sbjct: 541 GTAEIYRQVETVAEVKDSLVVG-RQIDGDVEVVLLVVPAAGQEITNDLLKQLKSRIREGA 599

Query: 596 SPRHVPDEVIEVPGIPHTLTGKRIEVPVKRLLQGTP----LDKAVNPGSIDNL 644
           SPRHVP  +++V  IP+T +GK++E+ V RL+ G+      D   NP ++D +
Sbjct: 600 SPRHVPKRIVQVNDIPYTRSGKKVELAVARLINGSKKSDNRDALSNPEALDEI 652


Lambda     K      H
   0.320    0.138    0.442 

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: 1418
Number of extensions: 69
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: 658
Length of database: 662
Length adjustment: 38
Effective length of query: 620
Effective length of database: 624
Effective search space:   386880
Effective search space used:   386880
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: 54 (25.4 bits)

Align candidate GFF4237 HP15_4177 (acetyl-CoA synthetase)
to HMM TIGR01217 (acetoacetate-CoA ligase (EC 6.2.1.16))

Software error:

../bin/blast/fastacmd -i /tmp/list.756.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.756.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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