GapMind for catabolism of small carbon sources

 

Alignments for a candidate for galU in Pseudomonas fluorescens GW456-L13

Align UTP-glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) (characterized)
to candidate PfGW456L13_4006 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9)

Query= BRENDA::O25363
         (273 letters)



>FitnessBrowser__pseudo13_GW456_L13:PfGW456L13_4006
          Length = 277

 Score =  367 bits (942), Expect = e-106
 Identities = 172/270 (63%), Positives = 221/270 (81%)

Query: 1   MIKKCLFPAAGYGTRFLPITKTIPKEMLPIVDKPLIQYAVEEAMEAGCEVMAIVTGRNKR 60
           MI+KCLFPAAGYGTRFLP TK++PKEMLPIV+KPLIQY VEEA +AG + MAIVTGR KR
Sbjct: 1   MIRKCLFPAAGYGTRFLPATKSMPKEMLPIVNKPLIQYGVEEARDAGLQHMAIVTGRGKR 60

Query: 61  SLEDYFDTSYEIEHQIQGTNKENALKSIRNIIEKCCFSYVRQKQMKGLGHAILTGEALIG 120
           +LED+FD SYE+EHQI+GT+KEN L   R +++ C FSY RQ +MKGLGHAIL+G  LIG
Sbjct: 61  ALEDHFDISYELEHQIRGTDKENYLNGTRELMDTCTFSYTRQVEMKGLGHAILSGRPLIG 120

Query: 121 NEPFAVILADDLCISHDHPSVLKQMTSLYQKYQCSIVAIEEVALEEVSKYGVIRGEWLEE 180
           +EPFAV+LADDLC++ +   VL QM +LY++++CSIVAI+EV  ++  KYG+I GE + E
Sbjct: 121 DEPFAVVLADDLCLNLEGDGVLSQMIALYKQFRCSIVAIQEVPNDQTHKYGIIAGEQIRE 180

Query: 181 GVYEIKDMVEKPNQEDAPSNLAVIGRYILTPDIFEILSETKPGKNNEIQITDALRTQAKR 240
           G+Y +  MVEKP  EDAPSNLA+IGRYILT DIF+++++T+PGK  EIQITDAL  QA+ 
Sbjct: 181 GIYRVNSMVEKPKPEDAPSNLAIIGRYILTADIFDLIADTEPGKGGEIQITDALMKQAQS 240

Query: 241 KRIIAYQFKGKRYDCGSVEGYIEASNAYYK 270
             ++AY+F+G R+DCG  EGYI+A+N  Y+
Sbjct: 241 GCVLAYKFEGHRFDCGGAEGYIDATNFCYE 270


Lambda     K      H
   0.318    0.136    0.391 

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: 287
Number of extensions: 7
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: 273
Length of database: 277
Length adjustment: 25
Effective length of query: 248
Effective length of database: 252
Effective search space:    62496
Effective search space used:    62496
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: 47 (22.7 bits)

Align candidate PfGW456L13_4006 (UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9))
to HMM TIGR01099 (galU: UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9))

Software error:

../bin/blast/fastacmd -i /tmp/list.4868.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.4868.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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