GapMind for catabolism of small carbon sources

 

Alignments for a candidate for pgmB in Escherichia coli BW25113

Align Beta-phosphoglucomutase; Beta-PGM; EC 5.4.2.6 (characterized)
to candidate 15437 b1317 predicted beta-phosphoglucomutase (NCBI)

Query= SwissProt::P77366
         (219 letters)



>FitnessBrowser__Keio:15437
          Length = 219

 Score =  429 bits (1103), Expect = e-125
 Identities = 219/219 (100%), Positives = 219/219 (100%)

Query: 1   MKLQGVIFDLDGVITDTAHLHFQAWQQIAAEIGISIDAQFNESLKGISRDESLRRILQHG 60
           MKLQGVIFDLDGVITDTAHLHFQAWQQIAAEIGISIDAQFNESLKGISRDESLRRILQHG
Sbjct: 1   MKLQGVIFDLDGVITDTAHLHFQAWQQIAAEIGISIDAQFNESLKGISRDESLRRILQHG 60

Query: 61  GKEGDFNSQERAQLAYRKNLLYVHSLRELTVNAVLPGIRSLLADLRAQQISVGLASVSLN 120
           GKEGDFNSQERAQLAYRKNLLYVHSLRELTVNAVLPGIRSLLADLRAQQISVGLASVSLN
Sbjct: 61  GKEGDFNSQERAQLAYRKNLLYVHSLRELTVNAVLPGIRSLLADLRAQQISVGLASVSLN 120

Query: 121 APTILAALELREFFTFCADASQLKNSKPDPEIFLAACAGLGVPPQACIGIEDAQAGIDAI 180
           APTILAALELREFFTFCADASQLKNSKPDPEIFLAACAGLGVPPQACIGIEDAQAGIDAI
Sbjct: 121 APTILAALELREFFTFCADASQLKNSKPDPEIFLAACAGLGVPPQACIGIEDAQAGIDAI 180

Query: 181 NASGMRSVGIGAGLTGAQLLLPSTESLTWPRLSAFWQNV 219
           NASGMRSVGIGAGLTGAQLLLPSTESLTWPRLSAFWQNV
Sbjct: 181 NASGMRSVGIGAGLTGAQLLLPSTESLTWPRLSAFWQNV 219


Lambda     K      H
   0.320    0.135    0.392 

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: 321
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: 219
Length of database: 219
Length adjustment: 22
Effective length of query: 197
Effective length of database: 197
Effective search space:    38809
Effective search space used:    38809
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)

Align candidate 15437 b1317 (predicted beta-phosphoglucomutase (NCBI))
to HMM TIGR01990 (pgmB: beta-phosphoglucomutase (EC 5.4.2.6))

Software error:

../bin/blast/fastacmd -i /tmp/list.27857.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.27857.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.