GapMind for catabolism of small carbon sources

 

Alignments for a candidate for glk in Sphingomonas koreensis DSMZ 15582

Align Glucokinase; EC 2.7.1.2; Glucose kinase (uncharacterized)
to candidate Ga0059261_0355 Ga0059261_0355 glucokinase, proteobacterial type

Query= curated2:P21908
         (324 letters)



>FitnessBrowser__Korea:Ga0059261_0355
          Length = 323

 Score =  407 bits (1045), Expect = e-118
 Identities = 199/323 (61%), Positives = 248/323 (76%), Gaps = 1/323 (0%)

Query: 1   MEIVAIDIGGTHARFSIAEVSNGRVLSLGEETTFKTAEHASLQLAWERFGEKLGRPLPRA 60
           +E+VA+DIGGTHARF+IAEV  GRV+S+GE  T KTAEH S QLAW+     LGR +PRA
Sbjct: 1   VEVVAVDIGGTHARFAIAEVEGGRVVSIGEPVTQKTAEHGSFQLAWQASARALGREMPRA 60

Query: 61  AAIAWAGPVHGEVLKLTNNPWVLRPATLNEKLDIDTHVLINDFGAVAHAVAHMDSSYLDH 120
           AAIA A P++ E++KLTNNPW++RP  + E+L++D++ LINDFGAV HAVA + S +  H
Sbjct: 61  AAIAIASPINDELIKLTNNPWIIRPPLIKERLEVDSYSLINDFGAVGHAVAQLPSEHFLH 120

Query: 121 ICGPDEALPSDGVITILGPGTGLGVAHLLRTEG-RYFVIETEGGHIDFAPLDRLEDKILA 179
           ICGPD      G IT+ GPGTGLGVA + RT    Y VI TEGGH+DFAPLD +ED I+ 
Sbjct: 121 ICGPDAPFAEKGAITVCGPGTGLGVAQVFRTGPLSYHVISTEGGHMDFAPLDGIEDSIVK 180

Query: 180 RLRERFRRVSIERIISGPGLGNIYEALAAIEGVPFSLLDDIKLWQMALEGKDNLAEAALD 239
           RLR  + RVS ERI++GPG+  IYE LA IEG     L+D ++W +A EGKD+LA AALD
Sbjct: 181 RLRSTYTRVSAERIVAGPGIVPIYETLAEIEGKRTHRLNDKEIWTLAFEGKDSLAMAALD 240

Query: 240 RFCLSLGAIAGDLALAQGATSVVIGGGVGLRIASHLPESGFRQRFVSKGRFERVMSKIPV 299
           RFCLSLGA+AGDLALA G T VVI GG+GL++  HL  SGF QRF++KGRF+ +MS IPV
Sbjct: 241 RFCLSLGAVAGDLALAHGPTGVVIAGGLGLKLKDHLVNSGFGQRFIAKGRFQALMSSIPV 300

Query: 300 KLITYPQPGLLGAAAAYANKYSE 322
           KLIT+PQPGL GAAAAYA ++++
Sbjct: 301 KLITHPQPGLYGAAAAYAQEHTQ 323


Lambda     K      H
   0.320    0.139    0.411 

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: 431
Number of extensions: 17
Number of successful extensions: 2
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: 324
Length of database: 323
Length adjustment: 28
Effective length of query: 296
Effective length of database: 295
Effective search space:    87320
Effective search space used:    87320
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: 48 (23.1 bits)

Align candidate Ga0059261_0355 Ga0059261_0355 (glucokinase, proteobacterial type)
to HMM TIGR00749 (glk: glucokinase (EC 2.7.1.2))

Software error:

../bin/blast/fastacmd -i /tmp/list.12131.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.12131.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

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