Protein Info for SO1653 in Shewanella oneidensis MR-1

Name: rfbD
Annotation: dTDP-4-dehydrorhamnose reductase (NCBI ptt file)

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 50 100 150 200 250 300 328 PF04321: RmlD_sub_bind" amino acids 10 to 295 (286 residues), 264.7 bits, see alignment E=1.8e-82 TIGR01214: dTDP-4-dehydrorhamnose reductase" amino acids 10 to 296 (287 residues), 268.1 bits, see alignment E=3.8e-84 PF01370: Epimerase" amino acids 11 to 184 (174 residues), 70 bits, see alignment E=4.3e-23 PF16363: GDP_Man_Dehyd" amino acids 43 to 175 (133 residues), 46 bits, see alignment E=1.1e-15 PF02719: Polysacc_synt_2" amino acids 45 to 113 (69 residues), 26.8 bits, see alignment E=5.9e-10

Best Hits

KEGG orthology group: K00067, dTDP-4-dehydrorhamnose reductase [EC: 1.1.1.133] (inferred from 100% identity to son:SO_1653)

Predicted SEED Role

"dTDP-4-dehydrorhamnose reductase (EC 1.1.1.133)" in subsystem Rhamnose containing glycans or dTDP-rhamnose synthesis or linker unit-arabinogalactan synthesis (EC 1.1.1.133)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.1.1.133

Use Curated BLAST to search for 1.1.1.133

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

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

Compare to protein 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 Q8EGF1 at UniProt or InterPro

Protein Sequence (328 amino acids)

>SO1653 dTDP-4-dehydrorhamnose reductase (NCBI ptt file) (Shewanella oneidensis MR-1)
MQDVTPARPTVLLTGAHSQLAKALIRTHLNGGLVFNLHPLTHAALDISDKYSVAEVFAQV
KPDWVINCAAYNAVDKAETAVDEAYRVNSLGPELLATECALTGARLVHISSDYVFSGLLT
GVEANALSETVTPSPLSVYGKSKLAGEQAVQRILGERAIVIRTAWLYGVDGHNFVKTMLR
LMAATPDAQPLFVIDDQIGSPTWVDALASLIWQLMLRGESGLFHYAGQGQCSWYEFAAEI
QQQALALKLLKKAVPIIATDSLSYAAKALEKGNVLAQRPSYSALNSAKLRDTLGKDNLAA
IQCPEVWQDWRVQLNCMLNALITQSAKP