GapMind for catabolism of small carbon sources

 

Alignments for a candidate for acs in Dechlorosoma suillum PS

Align Acetyl-coenzyme A synthetase; AcCoA synthetase; Acs; Acetate--CoA ligase; Acyl-activating enzyme; EC 6.2.1.1 (characterized)
to candidate Dsui_2003 Dsui_2003 acetate--CoA ligase

Query= SwissProt::P31638
         (660 letters)



>FitnessBrowser__PS:Dsui_2003
          Length = 658

 Score = 1028 bits (2659), Expect = 0.0
 Identities = 498/660 (75%), Positives = 565/660 (85%), Gaps = 5/660 (0%)

Query: 1   MSAIESVMQEHRVFNPPEGFASQAAIPSMEAYQALCDEAERDYEGFWARHARELLHWTKP 60
           MS IESV+ E+RVF P E    +A I  M AY+ALC EAE DY G+W R A+E + W +P
Sbjct: 1   MSQIESVLVENRVFPPSEEVVKRATISGMAAYEALCKEAETDYTGYWGRLAKEHVVWKQP 60

Query: 61  FTKVLDQSNAPFYKWFEDGELNASYNCLDRNLQNGNADKVAIVFEADDGSVTRVTYRELH 120
           FT VLD+SNAPFYKWF DG+LN SYNCLD+N++ G  DKVAI+FEAD G+V++VTY+EL 
Sbjct: 61  FTSVLDESNAPFYKWFADGKLNVSYNCLDKNVEAGLGDKVAIIFEADGGAVSKVTYKELL 120

Query: 121 GKVCRFANGLKALGIRKGDRVVIYMPMSVEGVVAMQACARLGATHSVVFGGFSAKSLQER 180
            +V +FAN LKA GI+KGDRV+IY+PMS+EG+VAMQACAR+GA HSVVFGGFSAKSL+ER
Sbjct: 121 SRVAKFANALKAKGIKKGDRVIIYLPMSIEGIVAMQACARIGAIHSVVFGGFSAKSLEER 180

Query: 181 LVDVGAVALITADEQMRGGKALPLKAIADDALALGGCEA-VRNVIVYRRTGGKVAWTEGR 239
           ++D GAVA+ITADEQ RGGK +PLK   D+AL L G  + V+ VIV +RTGG      GR
Sbjct: 181 ILDAGAVAVITADEQTRGGKNIPLKPAVDEALTLVGANSPVKTVIVAKRTGGACNMVAGR 240

Query: 240 DRWMEDVSAGQPDTCEAEPVSAEHPLFVLYTSGSTGKPKGVQHSTGGYLLWALMTMKWTF 299
           D W  D  AGQ D CE E V AEHPLF+LYTSGSTGKPKGVQHS+GGYLL A +TMKWTF
Sbjct: 241 DVWWTDAEAGQSDICEPEWVEAEHPLFLLYTSGSTGKPKGVQHSSGGYLLHAALTMKWTF 300

Query: 300 DIKPDDLFWCTADIGWVTGHTYIAYGPLAAGATQVVFEGVPTYPNAGRFWDMIARHKVSI 359
           DIKPDD+FWCTADIGWVTGHTYI YGPLA GAT++VFEGVPT+P+AGRFW MI  HKVSI
Sbjct: 301 DIKPDDVFWCTADIGWVTGHTYITYGPLACGATEIVFEGVPTFPDAGRFWKMIQDHKVSI 360

Query: 360 FYTAPTAIRSLIKAAEADEKIHPKQYDLSSLRLLGTVGEPINPEAWMWYYKNIGNERCPI 419
           FYTAPTAIRSLIKA  AD    PK+YDL+SLRLLG+VGEPINPEAWMWYY  IG  RCPI
Sbjct: 361 FYTAPTAIRSLIKAG-ADL---PKKYDLTSLRLLGSVGEPINPEAWMWYYNEIGGGRCPI 416

Query: 420 VDTFWQTETGGHMITPLPGATPLVPGSCTLPLPGIMAAIVDETGHDVPNGNGGILVVKRP 479
           VDTFWQTETGGHMITPLPG TPLVPGSCTLP PGI AAIVDETGH++  G GG LVVK+P
Sbjct: 417 VDTFWQTETGGHMITPLPGVTPLVPGSCTLPFPGIQAAIVDETGHELEWGKGGFLVVKKP 476

Query: 480 WPAMIRTIWGDPERFRKSYFPEELGGKLYLAGDGSIRDKDTGYFTIMGRIDDVLNVSGHR 539
           WP+MIRTIWGDPERF+KSY+PE+LGG+LYLAGDG++R+  TG FTI GRIDDVLNVSGHR
Sbjct: 477 WPSMIRTIWGDPERFKKSYYPEDLGGRLYLAGDGAVRNAKTGNFTITGRIDDVLNVSGHR 536

Query: 540 MGTMEIESALVSNPLVAEAAVVGRPDDMTGEAICAFVVLKRSRPTGEEAVKIATELRNWV 599
           MGTMEIESALV+NPLVAEAAVVGRPDD+TGEAICAFVVLK SRP+GE+A ++  EL++WV
Sbjct: 537 MGTMEIESALVANPLVAEAAVVGRPDDLTGEAICAFVVLKGSRPSGEDAKRVIKELQDWV 596

Query: 600 GKEIGPIAKPKDIRFGDNLPKTRSGKIMRRLLRSLAKGEEITQDTSTLENPAILEQLKQA 659
           GKEIGPIAKPKDIRFG+NLPKTRSGKIMRRLLRSLAKGEE+TQD STLENPAILEQLKQA
Sbjct: 597 GKEIGPIAKPKDIRFGENLPKTRSGKIMRRLLRSLAKGEEVTQDVSTLENPAILEQLKQA 656


Lambda     K      H
   0.319    0.136    0.422 

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: 1552
Number of extensions: 80
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: 660
Length of database: 658
Length adjustment: 38
Effective length of query: 622
Effective length of database: 620
Effective search space:   385640
Effective search space used:   385640
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: 54 (25.4 bits)

Align candidate Dsui_2003 Dsui_2003 (acetate--CoA ligase)
to HMM TIGR02188 (acs: acetate--CoA ligase (EC 6.2.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.6596.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.6596.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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