GapMind for catabolism of small carbon sources

 

Alignments for a candidate for tpi in Klebsiella michiganensis M5al

Align triose-phosphate isomerase (EC 5.3.1.1) (characterized)
to candidate BWI76_RS27465 BWI76_RS27465 triose-phosphate isomerase

Query= BRENDA::P0A858
         (255 letters)



>FitnessBrowser__Koxy:BWI76_RS27465
          Length = 255

 Score =  466 bits (1199), Expect = e-136
 Identities = 237/255 (92%), Positives = 243/255 (95%)

Query: 1   MRHPLVMGNWKLNGSRHMVHELVSNLRKELAGVAGCAVAIAPPEMYIDMAKREAEGSHIM 60
           MRHPLVMGNWKLNGSRHMV+ELV+NLR ELAGV GCAVAIAPPEMYID+AK+ A GSHI 
Sbjct: 1   MRHPLVMGNWKLNGSRHMVNELVANLRTELAGVTGCAVAIAPPEMYIDLAKQAAAGSHIH 60

Query: 61  LGAQNVDLNLSGAFTGETSAAMLKDIGAQYIIIGHSERRTYHKESDELIAKKFAVLKEQG 120
           LGAQNVDLNLSGAFTGETSA MLKDIGAQYIIIGHSERRTYHKESDELIAKKFAVLKEQG
Sbjct: 61  LGAQNVDLNLSGAFTGETSAEMLKDIGAQYIIIGHSERRTYHKESDELIAKKFAVLKEQG 120

Query: 121 LTPVLCIGETEAENEAGKTEEVCARQIDAVLKTQGAAAFEGAVIAYEPVWAIGTGKSATP 180
           L PVLCIGETEAENEAGKTEEVCARQIDAVLKTQGAAAFEG VIAYEPVWAIGTGKSATP
Sbjct: 121 LIPVLCIGETEAENEAGKTEEVCARQIDAVLKTQGAAAFEGVVIAYEPVWAIGTGKSATP 180

Query: 181 AQAQAVHKFIRDHIAKVDANIAEQVIIQYGGSVNASNAAELFAQPDIDGALVGGASLKAD 240
           AQAQAVHKFIRDHIAK DA +AEQVIIQYGGSVNA NAAELF QPDIDGALVGGASLKAD
Sbjct: 181 AQAQAVHKFIRDHIAKADAKVAEQVIIQYGGSVNAGNAAELFTQPDIDGALVGGASLKAD 240

Query: 241 AFAVIVKAAEAAKQA 255
           AFAVIVKAAEAAK+A
Sbjct: 241 AFAVIVKAAEAAKKA 255


Lambda     K      H
   0.316    0.130    0.366 

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: 310
Number of extensions: 6
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: 255
Length of database: 255
Length adjustment: 24
Effective length of query: 231
Effective length of database: 231
Effective search space:    53361
Effective search space used:    53361
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 (21.6 bits)
S2: 47 (22.7 bits)

Align candidate BWI76_RS27465 BWI76_RS27465 (triose-phosphate isomerase)
to HMM TIGR00419 (tpiA: triose-phosphate isomerase (EC 5.3.1.1))

Software error:

../bin/blast/fastacmd -i /tmp/list.21532.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.21532.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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