GapMind for catabolism of small carbon sources

 

Alignments for a candidate for galU in Pseudomonas stutzeri RCH2

Align UTP-glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) (characterized)
to candidate GFF2187 Psest_2232 UTP-glucose-1-phosphate uridylyltransferase

Query= BRENDA::O25363
         (273 letters)



>FitnessBrowser__psRCH2:GFF2187
          Length = 279

 Score =  371 bits (953), Expect = e-108
 Identities = 178/270 (65%), Positives = 218/270 (80%)

Query: 1   MIKKCLFPAAGYGTRFLPITKTIPKEMLPIVDKPLIQYAVEEAMEAGCEVMAIVTGRNKR 60
           MIKKCLFPAAGYGTRFLP TK +PKEMLP+V+KPLIQY VEEA+ AG   +AIVTGR KR
Sbjct: 1   MIKKCLFPAAGYGTRFLPATKAMPKEMLPVVNKPLIQYGVEEALAAGLNQIAIVTGRGKR 60

Query: 61  SLEDYFDTSYEIEHQIQGTNKENALKSIRNIIEKCCFSYVRQKQMKGLGHAILTGEALIG 120
           SLED+FD SYE+EHQI+ T+KE  L  IR +I++C FSY RQ +MKGLGHAIL+G  LIG
Sbjct: 61  SLEDHFDISYELEHQIRNTDKEKYLVGIRRLIDECSFSYTRQVEMKGLGHAILSGRPLIG 120

Query: 121 NEPFAVILADDLCISHDHPSVLKQMTSLYQKYQCSIVAIEEVALEEVSKYGVIRGEWLEE 180
           +EPFAV+LADDLCI+ D   VL QM  LY +++CSIVAI+EV  EE SKYGVI GE + +
Sbjct: 121 DEPFAVVLADDLCINLDGDPVLAQMVKLYNQFRCSIVAIQEVPPEETSKYGVIAGEMIRD 180

Query: 181 GVYEIKDMVEKPNQEDAPSNLAVIGRYILTPDIFEILSETKPGKNNEIQITDALRTQAKR 240
            +Y +  MVEKP  EDAPSN+A+IGRYILTPDIF+++ +T+PGK  EIQITDAL  QA+ 
Sbjct: 181 DIYRVSHMVEKPKPEDAPSNMAIIGRYILTPDIFDLIEQTEPGKGGEIQITDALMRQAQD 240

Query: 241 KRIIAYQFKGKRYDCGSVEGYIEASNAYYK 270
             ++AY+FKG+R+DCGS EGYI A+N  Y+
Sbjct: 241 GCVLAYKFKGQRFDCGSAEGYIAATNFCYE 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: 292
Number of extensions: 5
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: 279
Length adjustment: 25
Effective length of query: 248
Effective length of database: 254
Effective search space:    62992
Effective search space used:    62992
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 GFF2187 Psest_2232 (UTP-glucose-1-phosphate uridylyltransferase)
to HMM TIGR01099 (galU: UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9))

Software error:

../bin/blast/fastacmd -i /tmp/list.6319.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.6319.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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