GapMind for catabolism of small carbon sources

 

Alignments for a candidate for fucO in Klebsiella michiganensis M5al

Align L-lactaldehyde reductase (EC 1.1.1.77) (characterized)
to candidate BWI76_RS00645 BWI76_RS00645 lactaldehyde reductase

Query= metacyc::STM4044-MONOMER
         (382 letters)



>FitnessBrowser__Koxy:BWI76_RS00645
          Length = 382

 Score =  690 bits (1780), Expect = 0.0
 Identities = 344/382 (90%), Positives = 364/382 (95%)

Query: 1   MSFMLALPKISLHGAGAIADMVNLVANKQWGKALIVTDGQLVKLGLLDSLFSALDEHQMS 60
           MSFMLALPKISLHGAGAI DMV LVA K+WGKALIVTDGQLVKLGLLDSLF+A+DE QM+
Sbjct: 1   MSFMLALPKISLHGAGAIGDMVKLVAGKRWGKALIVTDGQLVKLGLLDSLFAAMDEQQMA 60

Query: 61  YHLFDEVFPNPTEELVQKGFAAYQSAECDYIIAFGGGSPIDTAKAVKILTANPGPSTAYS 120
           YHLFDEVFPNPTE LVQKG+AAY  A CDY+IAFGGGSPIDTAKAVKILTANPGPSTAYS
Sbjct: 61  YHLFDEVFPNPTEALVQKGYAAYCEAGCDYLIAFGGGSPIDTAKAVKILTANPGPSTAYS 120

Query: 121 GVGKVKNAGVPLVAINTTAGTAAEMTSNAVIIDSARKVKEVIIDPNIIPDIAVDDASVML 180
           GVGKV N GVPLVAINTTAGTAAEMTSNAVIID+ R+VKEVIIDPNIIPDIAVDDASVML
Sbjct: 121 GVGKVTNPGVPLVAINTTAGTAAEMTSNAVIIDAERQVKEVIIDPNIIPDIAVDDASVML 180

Query: 181 EIPASVTAATGMDALTHAVEAYVSVGAHPLTDANALEAIRLINLWLPKAVDDGHNLEARE 240
           +IP ++TAATGMDALTHA+EA+VSVGAHPLTDANA EAIRLINLWLPKAVDDGHNLEARE
Sbjct: 181 DIPPAITAATGMDALTHAIEAFVSVGAHPLTDANAQEAIRLINLWLPKAVDDGHNLEARE 240

Query: 241 QMAFGQYLAGMAFNSAGLGLVHALAHQPGATHNLPHGVCNAILLPIVENFNRPNAVARFA 300
           QMAFGQYLAGMAFNSAGLGLVHALAHQPGATHNLPHGVCNAILLPI+ENFNRPNAV+RFA
Sbjct: 241 QMAFGQYLAGMAFNSAGLGLVHALAHQPGATHNLPHGVCNAILLPIIENFNRPNAVSRFA 300

Query: 301 RIAQAMGVETRGMSDEAASQEAINAIRTLSKRVGIPEGFSKLGVTKEDIEGWLDKALADP 360
           R+AQAMGV+TRGMSDEAAS EAINAIR LSKRVGIP+GFS+LGV+K DIEGWLDKALADP
Sbjct: 301 RVAQAMGVDTRGMSDEAASMEAINAIRALSKRVGIPQGFSQLGVSKADIEGWLDKALADP 360

Query: 361 CAPCNPRTASRDEVRGLYLEAL 382
           CAPCNPR ASRDEVR LYLEAL
Sbjct: 361 CAPCNPRAASRDEVRELYLEAL 382


Lambda     K      H
   0.317    0.133    0.384 

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: 660
Number of extensions: 12
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: 382
Length of database: 382
Length adjustment: 30
Effective length of query: 352
Effective length of database: 352
Effective search space:   123904
Effective search space used:   123904
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_RS00645 BWI76_RS00645 (lactaldehyde reductase)
to HMM TIGR02638 (fucO: lactaldehyde reductase (EC 1.1.1.77))

Software error:

../bin/blast/fastacmd -i /tmp/list.4067.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.4067.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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