Protein Info for HSERO_RS11500 in Herbaspirillum seropedicae SmR1

Updated annotation (from data): Ribokinase (EC 2.7.1.15)
Rationale: Specifically important for utilizing D-Ribose. Automated validation from mutant phenotype: the predicted function (RIBOKIN-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
Original annotation: ribokinase

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 200 250 299 PF00294: PfkB" amino acids 2 to 294 (293 residues), 227.4 bits, see alignment E=2.7e-71 TIGR02152: ribokinase" amino acids 2 to 297 (296 residues), 347.8 bits, see alignment E=2.7e-108 PF08543: Phos_pyr_kin" amino acids 159 to 276 (118 residues), 28.7 bits, see alignment E=8.5e-11

Best Hits

Swiss-Prot: 46% identical to RBSK_HAEIN: Ribokinase (rbsK) from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

KEGG orthology group: K00852, ribokinase [EC: 2.7.1.15] (inferred from 100% identity to hse:Hsero_2297)

MetaCyc: 44% identical to ribokinase (Escherichia coli K-12 substr. MG1655)
Ribokinase. [EC: 2.7.1.15]

Predicted SEED Role

"Ribokinase (EC 2.7.1.15)" in subsystem D-ribose utilization or Deoxyribose and Deoxynucleoside Catabolism (EC 2.7.1.15)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.7.1.15

Use Curated BLAST to search for 2.7.1.15

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See D8IUD4 at UniProt or InterPro

Protein Sequence (299 amino acids)

>HSERO_RS11500 Ribokinase (EC 2.7.1.15) (Herbaspirillum seropedicae SmR1)
MIVIIGSVNMDLVLRVPRMPLPGETLAGDRFMTIPGGKGANQAVACARLAAPGTRVAMVA
CVGDDAFGGQMRQSITACGIDDRYIDEVAGEATGIASIMVDANAQNSIVIAAGANGRLDV
ERIERARALIEQASIVLLQLEVPMATVIHSIELAHALGKTVVLNPAPAQALPRALLQKID
YLILNEIEAAMLAEEQSEDIPMLARKLHDLGARNVVVTLGEKGVYGSFADGQQRHLPARK
VQAVDTTAAGDTFIGGFIGAIAQGRDQFEAIAYAQAAAALSVTRVGAQTSIPTRDEVVL