GapMind for catabolism of small carbon sources

 

Clusters of Characterized Proteins

Clustering the characterized proteins for deoB (phosphopentomutase) in thymidine catabolism

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Definition of deoB

Fetched 12 sequences

Running BLASTp

Found similarities, at above 30% identity and 75% coverage, for 11 of these sequences

Found 2 clusters of similar sequences. Another 1 sequences are not clustered. Download as table or as draft rules or view by organism

Cluster 1 390-407 amino acids (not heteromeric)

B3ITC5 phosphopentomutase (EC 5.4.2.7) from Lysinibacillus sphaericus
PFams: Metalloenzyme
393 amino acids: PaperBLAST, CDD, Compare to cluster

b4383 phosphopentomutase (EC 5.4.2.7) from Escherichia coli K-12 substr. MG1655
P0A6K6 phosphopentomutase (EC 5.4.2.7) from Escherichia coli
P0A6K6 phosphopentomutase (EC 5.4.2.7) from Escherichia coli (strain K12)
RF|NP_418800 phosphopentomutase; EC 5.4.2.7 from Escherichia coli K12
CH_088295 phosphopentomutase; EC 5.4.2.7 from Escherichia coli K12
PFams: Metalloenzyme
407 amino acids: PaperBLAST, CDD, Compare to cluster

Q818Z9 phosphopentomutase (EC 5.4.2.7) from Bacillus cereus
PFams: Metalloenzyme
394 amino acids: PaperBLAST, CDD, Compare to cluster

Q9WY14 phosphopentomutase (EC 5.4.2.7) from Thermotoga maritima
PFams: Metalloenzyme
390 amino acids: PaperBLAST, CDD, Compare to cluster

DEOB_STRR6 / Q8DQD0 Phosphopentomutase; Phosphodeoxyribomutase; EC 5.4.2.7 from Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
PFams: Metalloenzyme
403 amino acids: PaperBLAST, CDD, Compare to cluster

Dshi_0829 Phosphopentomutase (EC 5.4.2.7) from Dinoroseobacter shibae DFL-12
PFams: Metalloenzyme
399 amino acids: PaperBLAST, CDD, Compare to cluster

SO1219 Phosphopentomutase (EC 5.4.2.7) from Shewanella oneidensis MR-1
PFams: Metalloenzyme
404 amino acids: PaperBLAST, CDD, Compare to cluster

Cluster 2 587-622 amino acids (not heteromeric)

PGM3_SCHPO / O74478 Probable phosphoribomutase; PRM; Phosphoglucomutase 3 homolog; PGM 3 homolog; EC 5.4.2.7 from Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
PFams: PGM_PMM_I, PGM_PMM_II, PGM_PMM_III, PGM_PMM_IV
587 amino acids: PaperBLAST, CDD, Compare to cluster

PGM3_YEAST / Q03262 Phosphoribomutase; PRM; Phosphoglucomutase 3; PGM 3; EC 5.4.2.7 from Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
PFams: PGM_PMM_I, PGM_PMM_II, PGM_PMM_III, PGM_PMM_IV
622 amino acids: PaperBLAST, CDD, Compare to cluster

PGM2_MOUSE / Q7TSV4 Phosphoglucomutase-2; PGM 2; Glucose phosphomutase 2; Phosphodeoxyribomutase; Phosphoglucomutase-1; Phosphopentomutase; EC 5.4.2.2; EC 5.4.2.7 from Mus musculus (Mouse)
PFams: PGM_PMM_I, PGM_PMM_II, PGM_PMM_III, PGM_PMM_IV
620 amino acids: PaperBLAST, CDD, Compare to cluster

PGM2_HUMAN / Q96G03 Phosphoglucomutase-2; PGM 2; Glucose phosphomutase 2; Phosphodeoxyribomutase; Phosphopentomutase; EC 5.4.2.2; EC 5.4.2.7 from Homo sapiens (Human)
Q96G03 phosphoglucomutase-2 (EC 5.4.2.2; EC 5.4.2.7) from Homo sapiens
PFams: PGM_PMM_I, PGM_PMM_II, PGM_PMM_III, PGM_PMM_IV
612 amino acids: PaperBLAST, CDD, Compare to cluster

Singletons (0/1 heteromeric)

PPM_THEKO / Q6I7B6 Phosphopentomutase; PPM; EC 5.4.2.7 from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) (Pyrococcus kodakaraensis (strain KOD1))
Q6I7B6 phosphopentomutase (EC 5.4.2.7) from Thermococcus kodakarensis
PFams: PGM_PMM_I, PGM_PMM_II, PGM_PMM_IV
450 amino acids: PaperBLAST, CDD