Protein Info for GFF6881 in Variovorax sp. SCN45

Annotation: dTDP-4-dehydrorhamnose reductase (EC 1.1.1.133)

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 50 100 150 200 250 296 PF04321: RmlD_sub_bind" amino acids 1 to 294 (294 residues), 356.1 bits, see alignment E=2.5e-110 TIGR01214: dTDP-4-dehydrorhamnose reductase" amino acids 2 to 294 (293 residues), 326.6 bits, see alignment E=5.6e-102 PF01370: Epimerase" amino acids 4 to 177 (174 residues), 57.3 bits, see alignment E=3.2e-19 PF16363: GDP_Man_Dehyd" amino acids 37 to 140 (104 residues), 41.5 bits, see alignment E=2.5e-14

Best Hits

Swiss-Prot: 65% identical to RMLD_SHIFL: dTDP-4-dehydrorhamnose reductase (rfbD) from Shigella flexneri

KEGG orthology group: K00067, dTDP-4-dehydrorhamnose reductase [EC: 1.1.1.133] (inferred from 85% identity to vap:Vapar_0753)

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

No predicted isozymes

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

Find the best match in UniProt

Protein Sequence (296 amino acids)

>GFF6881 dTDP-4-dehydrorhamnose reductase (EC 1.1.1.133) (Variovorax sp. SCN45)
MKLLLLGKDGQVGWELQRSLASLGELIALGSASTDFHADFSSPEQLADTVMKVRPDVIVN
AAAHTAVDKAESEPDFARKLNATAPGVLADAAQRVGALIVHYSTDYVFDGSGSAPWKESD
ATGPLSAYGRTKLEGEQLVAGNCARHLIFRTSWVYAARGGNFAKTMLRLAKERDRLTVIN
DQFGAPTGAELLADITAHAIRATLKDVAKTGIYHAVASGETSWHGYARFVLEQARQAGVE
LKAPPEAVEAVPTSAFPTPATRPHNSRLDTTKLQATFDLTMPPWQNGVARMLRETL