GapMind for catabolism of small carbon sources

 

Alignments for a candidate for fadA in Klebsiella michiganensis M5al

Align acetyl-CoA C-acetyltransferase (EC 2.3.1.16) (characterized)
to candidate BWI76_RS23445 BWI76_RS23445 acetyl-CoA acetyltransferase

Query= metacyc::MONOMER-20831
         (393 letters)



>FitnessBrowser__Koxy:BWI76_RS23445
          Length = 391

 Score =  533 bits (1374), Expect = e-156
 Identities = 260/392 (66%), Positives = 328/392 (83%), Gaps = 1/392 (0%)

Query: 1   MQDVVIVAATRTAVGSFQGSLASIPAPELGAAVIRRLLEQTGLDPAQVDEVILGQVLTAG 60
           M+DVVIV A RT +G FQG+L+   A ELG+ V++ L+E++G+DP  +DEVILGQVLTAG
Sbjct: 1   MKDVVIVGALRTPIGCFQGTLSRHSAVELGSVVVKALVERSGVDPQSIDEVILGQVLTAG 60

Query: 61  SGQNPARQASILAGLPHAVPSLTLNKVCGSGLKALHLGAQAIRCGDAEVIIAGGMENMSL 120
           +GQNPARQ++I  GLP+ V ++T+N VCGSGLKALHL  QAI+CG+A+V+IAGG ENMS 
Sbjct: 61  TGQNPARQSAIRGGLPNTVSAITINDVCGSGLKALHLATQAIQCGEADVVIAGGQENMSR 120

Query: 121 APYVLPAARTGLRMGHAKMIDSMITDGLWDAFNDYHMGITAENLVDKYGISREAQDAFAA 180
           AP+VL  +RTG ++G++++IDS++ DGLWDAFNDYHMG+TAENL  +YGISRE QDA+A 
Sbjct: 121 APHVLTDSRTGAQLGNSQLIDSLVHDGLWDAFNDYHMGVTAENLAREYGISRELQDAWAL 180

Query: 181 ASQQKATAAIEAGRFVDEITPILIPQRKGDPVAFAVDEQPRAGTTAESLAKLKPAFKKDG 240
           +SQ KA  AI++GRF DEI P+   +  G P     DEQPR   +AE+LA L P F + G
Sbjct: 181 SSQHKARRAIDSGRFRDEIVPVT-SELNGIPRLVDTDEQPRVDPSAEALASLLPTFDQQG 239

Query: 241 SVTAGNASSLNDGAAAVLLMSADKAKALGLPVLARIASYANAGVDPAIMGIGPVSATRRC 300
           SVTAGNASS+NDGAAAV++MS  KA+ALGLP+LARI ++A+ GVDPA+MGI PV ATRRC
Sbjct: 240 SVTAGNASSINDGAAAVMMMSETKAEALGLPILARIRAFASVGVDPALMGIAPVHATRRC 299

Query: 301 LDKAGWSLGDLDLIEANEAFAAQSLAVGKELEWDAEKVNVNGGAIAIGHPIGASGCRVLV 360
           L++AGW L ++DLIEANEAFAAQ+++VG+ LEWD  +VNVNGGAIA+GHPIGASGCR+LV
Sbjct: 300 LERAGWKLDEVDLIEANEAFAAQAISVGRVLEWDERRVNVNGGAIALGHPIGASGCRILV 359

Query: 361 TLLHEMIKRDAKKGLATLCIGGGQGVALALER 392
           +L+HEMIKRDA+KGLATLCIGGGQGVALA+ER
Sbjct: 360 SLVHEMIKRDARKGLATLCIGGGQGVALAVER 391


Lambda     K      H
   0.317    0.133    0.378 

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: 471
Number of extensions: 16
Number of successful extensions: 2
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: 393
Length of database: 391
Length adjustment: 31
Effective length of query: 362
Effective length of database: 360
Effective search space:   130320
Effective search space used:   130320
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: 50 (23.9 bits)

Align candidate BWI76_RS23445 BWI76_RS23445 (acetyl-CoA acetyltransferase)
to HMM TIGR01930 (acetyl-CoA C-acyltransferase (EC 2.3.1.16))

Software error:

../bin/blast/fastacmd -i /tmp/list.11897.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.11897.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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