GapMind for catabolism of small carbon sources

 

Alignments for a candidate for acs in Desulfovibrio vulgaris Hildenborough

Align acetate-CoA ligase (EC 6.2.1.1) (characterized)
to candidate 408300 DVU0748 acetyl-CoA synthetase

Query= BRENDA::Q2XNL6
         (634 letters)



>MicrobesOnline__882:408300
          Length = 648

 Score =  700 bits (1806), Expect = 0.0
 Identities = 334/638 (52%), Positives = 454/638 (71%), Gaps = 14/638 (2%)

Query: 8   LLEEKRVFKPHYTVVEEAHIKNWE---AELEKGKDHENYWAEKAERLEWFRKWDRVLDES 64
           LL E+RVF+P   VV +A +   +   A  + G     +W E AE LEWFR+WD VLD+S
Sbjct: 11  LLREERVFRPLPRVVADAVVNPQDVARAREQAGTAPLAFWEEAAEELEWFRRWDGVLDDS 70

Query: 65  NRPFYRWFVNGKINMTYNAVDRWLDTDKRNQVAILYVNERGDERKLTYYELYREVSRTAN 124
           N PF RWF     N+ +NA+DR ++T  R+++A+++  E GD R+ TY++LYREV+R AN
Sbjct: 71  NAPFMRWFPGALCNIVHNALDRHIETSNRHRLALIWEGEPGDSRRFTYFDLYREVNRLAN 130

Query: 125 ALKSLGIKKGDAVALYLPMCPELVVSMLACAKIGAVHSVIYSGLSVGALVERLNDARAKI 184
           A++SLG+ KGD V +Y+P  PE V +MLACAKIGAVHS ++ G S  +L +R+ DAR  +
Sbjct: 131 AMRSLGVTKGDRVVIYMPPLPETVFAMLACAKIGAVHSTVFGGFSARSLCDRVEDARPTL 190

Query: 185 IITADGTYRRGGVIKLKPIVDEAILQCPT-----IETTVVVKHTDIDIEMSDISGREMLF 239
           ++T DG YR G V+ LKP+ D+A+          +   VVV    ++  M D  GR++ +
Sbjct: 191 LLTVDGFYRNGRVVPLKPVADDAVDALSPEARAGLHHVVVVHRAHLETPMRD--GRDIWY 248

Query: 240 DKLIEGEGDRCDAEEMDAEDPLFILYTSGSTGKPKGVLHTTGGYMVGVASTLEMTFDIHN 299
             L+ G+      E + A DPLF+LYTSG+TGKPKG++H+ GGYMVGV  T+   FD+  
Sbjct: 249 HDLVRGQSTEALTEVLSANDPLFVLYTSGTTGKPKGLVHSHGGYMVGVHRTMRWVFDVRP 308

Query: 300 GDLWWCTADIGWITGHSYVVYGPLLLGTTTLLYEGAPDYPDPGVWWSIVEKYGVTKFYTA 359
            D++WCTA+ GWITGHSY VYGPL+ GTTT+LYEG P YP+ G  WS+VE++GVT  YT 
Sbjct: 309 TDIFWCTAEPGWITGHSYGVYGPLMAGTTTVLYEGHPLYPEAGRLWSMVERWGVTILYTV 368

Query: 360 PTAIRHLMRFGDKHPKRYNLESLKILGTVGEPINPEAWMWYYRNIGREKCPIIDTWWQTE 419
           PT IR LMRFG  +P R+++ +L++L TVGEPI+PE W+W+YR IGR +CP++DTWWQTE
Sbjct: 369 PTVIRMLMRFGPLYPARHDITTLRLLATVGEPISPETWVWFYRTIGRGRCPVLDTWWQTE 428

Query: 420 TGMHLIAPLPVTPLKPGSVTKPLPGIEADVVDENGDPVPLGKGGFLVIRKPWPAMFRTLF 479
           TGM +++PLPV+ LKPGSV +PLPG++ D+VD  G PVP G+GG LV++ PWPAM   +F
Sbjct: 429 TGMIMVSPLPVSALKPGSVARPLPGVDVDIVDGEGAPVPPGRGGLLVVKNPWPAMACGVF 488

Query: 480 NDEQRYIDVYWKQIPGGVYTAGDMARKDEDGYFWIQGRSDDVLNIAGHRIGTAEVESVFV 539
            D++ +  +YW++ PG  Y  GD+AR+D+DGY WIQGR+DDV+ IAGHRIGTAE+E+   
Sbjct: 489 GDDEAFRRLYWERFPGW-YCTGDVARRDDDGYIWIQGRADDVILIAGHRIGTAEMEAALA 547

Query: 540 AHPAVAEAAVIGKADPIKGEVIKAFLILKKGHKLNA---ALIEELKRHLRHELGPVAVVG 596
           +HPAVAE AVIG  D +KGEV KAF++L+   +  A   AL   L  H+R ELGPVAV+ 
Sbjct: 548 SHPAVAECAVIGVPDRLKGEVGKAFVVLRDTEEAAAEEQALATSLVGHVRRELGPVAVIR 607

Query: 597 EMVQVDSLPKTRSGKIMRRILRAREEGEDLGDTSTLEE 634
           ++V  + LP+ RSGKIMRRILR+ E G + GD STLE+
Sbjct: 608 DVVFREGLPRNRSGKIMRRILRSEEMGVETGDLSTLED 645


Lambda     K      H
   0.319    0.138    0.428 

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: 1335
Number of extensions: 63
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: 634
Length of database: 648
Length adjustment: 38
Effective length of query: 596
Effective length of database: 610
Effective search space:   363560
Effective search space used:   363560
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 408300 DVU0748 (acetyl-CoA synthetase)
to HMM TIGR02188 (acs: acetate--CoA ligase (EC 6.2.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.11627.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11627.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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