GapMind for catabolism of small carbon sources

 

Alignments for a candidate for acs in Echinicola vietnamensis KMM 6221, DSM 17526

Align Acetyl-coenzyme A synthetase (EC 6.2.1.1) (characterized)
to candidate Echvi_1268 Echvi_1268 acetate--CoA ligase

Query= reanno::pseudo5_N2C3_1:AO356_18695
         (651 letters)



>FitnessBrowser__Cola:Echvi_1268
          Length = 632

 Score =  721 bits (1861), Expect = 0.0
 Identities = 356/618 (57%), Positives = 441/618 (71%), Gaps = 6/618 (0%)

Query: 28  YQQSVVNPDGFWREQAKRLDWIKPFTTVKQTSFDDHHVDIKWFADGTLNVSYNCLDRHLA 87
           YQ+SV  P+ FW   A    W K +  V +  F+    D+KWF +G +N++ N L+RHL 
Sbjct: 15  YQKSVTEPEQFWARIADSFHWKKRWDKVLEWDFEGP--DVKWFVNGKVNITENILERHLF 72

Query: 88  ERGDQIAIIWEGDDPSES-RNITYRELHEEVCKFANALRGQDVHRGDVVTIYMPMIPEAV 146
             GD+ AIIWE +DP+E  R +TYR+L+ EVCKF+NAL+ + + +GD V IYMPM+PEA 
Sbjct: 73  IMGDRPAIIWEPNDPNEEGRTLTYRQLYHEVCKFSNALKAKGIGKGDKVIIYMPMVPEAA 132

Query: 147 VAMLACTRIGAIHSVVFGGFSPEALAGRIIDCKSKVVITADEGVRAGKKIPLKANVDDAL 206
           +AMLAC RIGA+HSVVF GFS  ALA RI DC++K V+T+D   R  KKI +K  VD+AL
Sbjct: 133 IAMLACARIGAVHSVVFAGFSSSALADRINDCEAKAVLTSDGNFRGTKKIAVKDLVDEAL 192

Query: 207 TNPETSSIQKVIVCKRTAGNIKWNQHRDIWYEDLMKVAGTVCAPKEMGAEEALFILYTSG 266
              +T +I+ VIV +RT   +K  + RDIW+ D +         + M +E+ LFILYTSG
Sbjct: 193 E--KTKTIETVIVYQRTKQEVKMVEGRDIWWHDAIDGQPDTNEAEVMDSEDMLFILYTSG 250

Query: 267 STGKPKGVQHTTAGYLLYAALTHERVFDYKPGEVYWCTADVGWVTGHSYIVYGPLANGAT 326
           STGKPKGV HTT GY++Y+  T E VF Y PG+VYWCTAD+GW+TGHSYIVYGPL  GAT
Sbjct: 251 STGKPKGVVHTTGGYMVYSKYTFENVFQYSPGDVYWCTADIGWITGHSYIVYGPLLAGAT 310

Query: 327 TLLFEGVPNYPDITRVAKVIDKHKVSILYTAPTAIRAMMASGTAAVEGADGSSLRLLGSV 386
           +++FEGVP YPD  R   ++DK++V+  YTAPTAIRA+ A GT  +E     SL++LGSV
Sbjct: 311 SIMFEGVPTYPDAGRFWAIVDKYQVNQFYTAPTAIRALEAHGTKPIEPYKLDSLKVLGSV 370

Query: 387 GEPINPEAWDWYYKNVGKERCPIVDTWWQTETGGVLISPLPGATALKPGSATRPFFGVVP 446
           GEPIN EAW WY+ +VGK RCPIVDTWWQTETGG+++SP+ G T  KP  AT P  GV  
Sbjct: 371 GEPINEEAWHWYHTHVGKNRCPIVDTWWQTETGGIMVSPIAGITPNKPAYATMPLPGVQL 430

Query: 447 ALVDNLGNLIEG-AAEGNLVILDSWPGQARTLYGDHDRFVDTYFKTFSGMYFTGDGARRD 505
           A+VD  G  ++G A EGNL I   WPG  RT YGDHDR   TYF  + GMYFTGDG +RD
Sbjct: 431 AIVDPEGKELKGKAVEGNLCIKFPWPGMLRTTYGDHDRCKQTYFSAYPGMYFTGDGVKRD 490

Query: 506 EDGYYWITGRVDDVLNVSGHRMGTAEIESAMVAHPKVAEAAVVGVPHDIKGQGIYVYVTL 565
            DGYY I GRVDDV+NVSGHRMGTAEIE+A+  HPKV E+AVVG PH++KGQGIY YV  
Sbjct: 491 HDGYYRILGRVDDVINVSGHRMGTAEIENAINEHPKVIESAVVGYPHEVKGQGIYAYVIC 550

Query: 566 NAGEETSEALRLELKNWVRKEIGPIASPDVIQWAPGLPKTRSGKIMRRILRKIATAEYDG 625
           +    T E L  E+K+ + K IGPIA PD IQ  PGLPKTRSGKIMRRILRK+A   +D 
Sbjct: 551 DLKNRTEENLIGEIKDTITKSIGPIAKPDKIQIVPGLPKTRSGKIMRRILRKVAEGSFDN 610

Query: 626 LGDISTLADPGVVAHLIE 643
           +GD STL DP VV  +IE
Sbjct: 611 MGDTSTLLDPAVVEEIIE 628


Lambda     K      H
   0.318    0.135    0.418 

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: 1327
Number of extensions: 59
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: 651
Length of database: 632
Length adjustment: 38
Effective length of query: 613
Effective length of database: 594
Effective search space:   364122
Effective search space used:   364122
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)

Align candidate Echvi_1268 Echvi_1268 (acetate--CoA ligase)
to HMM TIGR02188 (acs: acetate--CoA ligase (EC 6.2.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.16983.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.16983.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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