Protein Info for PS417_01315 in Pseudomonas simiae WCS417

Annotation: dTDP-4-dehydrorhamnose reductase

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 50 100 150 200 250 289 PF04321: RmlD_sub_bind" amino acids 1 to 286 (286 residues), 354 bits, see alignment E=1.1e-109 TIGR01214: dTDP-4-dehydrorhamnose reductase" amino acids 2 to 286 (285 residues), 337.5 bits, see alignment E=2.8e-105 PF01370: Epimerase" amino acids 3 to 157 (155 residues), 68.1 bits, see alignment E=1.7e-22 PF16363: GDP_Man_Dehyd" amino acids 33 to 154 (122 residues), 44.2 bits, see alignment E=3.7e-15 PF02719: Polysacc_synt_2" amino acids 35 to 103 (69 residues), 21.1 bits, see alignment E=3.2e-08

Best Hits

Swiss-Prot: 44% 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 91% identity to pfs:PFLU0288)

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 A0A1N7UBB2 at UniProt or InterPro

Protein Sequence (289 amino acids)

>PS417_01315 dTDP-4-dehydrorhamnose reductase (Pseudomonas simiae WCS417)
MKILITGQHGQVSRELQLRLQGLGELVVLGRDQLDLAEAEHIRQQVRAHRPHLIINAAAH
TAVDLAESEPDAAFAINAIAPGILAEEAKALGIPLIHYSTDYVFDGSKPAPYRESDTPNP
LGVYGQSKLAGEQAIAAVGGEYLILRTSWVYSNHGKNFLLTMQRLLQEKPQMRIVADQIG
APTWAGSIANSTRALIERWQAGEPGEWGIYHLSAQGETSWFGFAEAIGDHLRQQGKACAE
LEPIPSSAYPTPAKRPLNSRLDCSRLQQQWHVSQPHWQDALRECLALQH