GapMind for catabolism of small carbon sources

 

Alignments for a candidate for acs in Burkholderia phytofirmans PsJN

Align Acetyl-coenzyme A synthetase; AcCoA synthetase; Acs; Acetate--CoA ligase; Acyl-activating enzyme; EC 6.2.1.1 (characterized)
to candidate BPHYT_RS07000 BPHYT_RS07000 acetyl-CoA synthetase

Query= SwissProt::P31638
         (660 letters)



>FitnessBrowser__BFirm:BPHYT_RS07000
          Length = 660

 Score = 1120 bits (2898), Expect = 0.0
 Identities = 526/659 (79%), Positives = 595/659 (90%)

Query: 1   MSAIESVMQEHRVFNPPEGFASQAAIPSMEAYQALCDEAERDYEGFWARHARELLHWTKP 60
           MSAIESV+ E RVF P    A+ AAI  M+AY+AL  EAE DYEGFW R ARE L W  P
Sbjct: 1   MSAIESVLHERRVFPPSAEAAAGAAISGMDAYRALAAEAESDYEGFWGRLARETLSWNTP 60

Query: 61  FTKVLDQSNAPFYKWFEDGELNASYNCLDRNLQNGNADKVAIVFEADDGSVTRVTYRELH 120
           FTKVLD++NAPFY WFEDG++NASYN +DR+++ GN ++VAI+FEADDG+VT VTY++L 
Sbjct: 61  FTKVLDETNAPFYTWFEDGQINASYNSIDRHVEAGNGERVAIIFEADDGTVTNVTYQDLL 120

Query: 121 GKVCRFANGLKALGIRKGDRVVIYMPMSVEGVVAMQACARLGATHSVVFGGFSAKSLQER 180
            +V RFAN LK  G++KGDRVVIYMPMS+EG+VAMQACAR+GATHSVVFGGFS+KSL ER
Sbjct: 121 QRVSRFANALKKRGVKKGDRVVIYMPMSIEGIVAMQACARIGATHSVVFGGFSSKSLNER 180

Query: 181 LVDVGAVALITADEQMRGGKALPLKAIADDALALGGCEAVRNVIVYRRTGGKVAWTEGRD 240
           LVDVGAVAL+T+DEQMRGGKALPLK IAD+ALA+GGCEAV +VIVY+RTGGKVAW EGRD
Sbjct: 181 LVDVGAVALVTSDEQMRGGKALPLKNIADEALAMGGCEAVTSVIVYQRTGGKVAWNEGRD 240

Query: 241 RWMEDVSAGQPDTCEAEPVSAEHPLFVLYTSGSTGKPKGVQHSTGGYLLWALMTMKWTFD 300
            WM +++  + D C  E V AEHPLF+LYTSGSTGKPKGVQHSTGGYLLWA  T+KWTFD
Sbjct: 241 LWMHELTQAESDQCAPEWVGAEHPLFILYTSGSTGKPKGVQHSTGGYLLWAAQTLKWTFD 300

Query: 301 IKPDDLFWCTADIGWVTGHTYIAYGPLAAGATQVVFEGVPTYPNAGRFWDMIARHKVSIF 360
            KP D+FWCTADIGW+TGH+YI YGPL  G TQVVFEGVPTYPNAGRFWDMIA+HKVS+F
Sbjct: 301 WKPSDVFWCTADIGWITGHSYITYGPLTLGGTQVVFEGVPTYPNAGRFWDMIAKHKVSLF 360

Query: 361 YTAPTAIRSLIKAAEADEKIHPKQYDLSSLRLLGTVGEPINPEAWMWYYKNIGNERCPIV 420
           YTAPTAIRSLIKAA+AD+K+HPK YDLS+LR++GTVGEPINPEAW+WYY+N+G  RCPIV
Sbjct: 361 YTAPTAIRSLIKAADADQKVHPKSYDLSTLRIIGTVGEPINPEAWIWYYENVGGSRCPIV 420

Query: 421 DTFWQTETGGHMITPLPGATPLVPGSCTLPLPGIMAAIVDETGHDVPNGNGGILVVKRPW 480
           DT+WQTETGGHMITPLPGATPLVPGSCTLPLPGIMAA+VDETG DVPNG GGILVVKRPW
Sbjct: 421 DTWWQTETGGHMITPLPGATPLVPGSCTLPLPGIMAAVVDETGQDVPNGQGGILVVKRPW 480

Query: 481 PAMIRTIWGDPERFRKSYFPEELGGKLYLAGDGSIRDKDTGYFTIMGRIDDVLNVSGHRM 540
           P+M+R +WGDP+R++KSYFPEELGGKLYLAGDG++RDKDTGYFTIMGRIDDVLNVSGHR+
Sbjct: 481 PSMLRNVWGDPDRYKKSYFPEELGGKLYLAGDGAVRDKDTGYFTIMGRIDDVLNVSGHRL 540

Query: 541 GTMEIESALVSNPLVAEAAVVGRPDDMTGEAICAFVVLKRSRPTGEEAVKIATELRNWVG 600
           GTMEIESALVSNPLVAEAAVVGRPD  TGEA+CAFVVLKR+RP GEEAVK+A ELRNWVG
Sbjct: 541 GTMEIESALVSNPLVAEAAVVGRPDATTGEAVCAFVVLKRARPEGEEAVKLANELRNWVG 600

Query: 601 KEIGPIAKPKDIRFGDNLPKTRSGKIMRRLLRSLAKGEEITQDTSTLENPAILEQLKQA 659
           KEIGPIAKPKDIRFG+NLPKTRSGKIMRRLLRSLAKGEEITQD STLENPAIL+QL ++
Sbjct: 601 KEIGPIAKPKDIRFGENLPKTRSGKIMRRLLRSLAKGEEITQDVSTLENPAILDQLGES 659


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: 1590
Number of extensions: 70
Number of successful extensions: 1
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: 660
Length adjustment: 38
Effective length of query: 622
Effective length of database: 622
Effective search space:   386884
Effective search space used:   386884
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 BPHYT_RS07000 BPHYT_RS07000 (acetyl-CoA synthetase)
to HMM TIGR02188 (acs: acetate--CoA ligase (EC 6.2.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.20874.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.20874.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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