Protein Info for SO3171 in Shewanella oneidensis MR-1

Annotation: polysaccharide biosynthesis protein (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 50 100 150 200 250 300 350 400 450 500 550 600 646 transmembrane" amino acids 18 to 37 (20 residues), see Phobius details amino acids 50 to 70 (21 residues), see Phobius details amino acids 82 to 103 (22 residues), see Phobius details amino acids 114 to 131 (18 residues), see Phobius details PF13727: CoA_binding_3" amino acids 69 to 238 (170 residues), 33.9 bits, see alignment E=1.2e-11 PF01370: Epimerase" amino acids 283 to 476 (194 residues), 60.2 bits, see alignment E=7.5e-20 PF04321: RmlD_sub_bind" amino acids 283 to 473 (191 residues), 35 bits, see alignment E=3.1e-12 PF02719: Polysacc_synt_2" amino acids 283 to 576 (294 residues), 425.4 bits, see alignment E=3.8e-131 PF16363: GDP_Man_Dehyd" amino acids 284 to 411 (128 residues), 35.2 bits, see alignment E=3.6e-12 PF01073: 3Beta_HSD" amino acids 284 to 417 (134 residues), 23.6 bits, see alignment E=8.8e-09

Best Hits

KEGG orthology group: None (inferred from 100% identity to son:SO_3171)

MetaCyc: 60% identical to UDP-N-acetylglucosamine 4,6-dehydratase (configuration-retaining) (Shigella sonnei)
RXN-13252 [EC: 4.2.1.135]

Predicted SEED Role

"Nucleoside-diphosphate sugar epimerase/dehydratase"

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 4.2.1.135

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 Q8ECH1 at UniProt or InterPro

Protein Sequence (646 amino acids)

>SO3171 polysaccharide biosynthesis protein (NCBI ptt file) (Shewanella oneidensis MR-1)
MDFLHFLFSLKRSQKRLVSVAIDSVFLLFAFWFALLVRLDSVDVLFKSQYWGLIVLTIPM
SIAGFIRLGLYRAVLRYIGSQAFTAIVAGVGISTIALVLLAYYGGVDLPRTVPFIYAAFA
LVFVGGARALMRSLVGAGINRRGEPVIIYGAGVSGRQTAIALAQSHEYHPVAFVDDDESL
HNTSIQGLHVYASNQLSKLIKQRPTTRVLLAMPSASRSRRQEIINQLEPLTVKVMTLPAM
ADLVSGDKLFSDVKEVEIEDLLGRDSVAPRQHLLTANIKNKVVMVTGAGGSIGSELCRQI
LKQLPKQLVLFELSEFALYSIERELSATATELGIDVEIVPIMGSVQRENRVQAVMQAFKV
QTVYHAAAYKHVPLVEHNVVEGVRNNVFGTLYTARAAIAAKVETFVLVSTDKAVRPTNVM
GTTKRMAELALQALAKENHHTRFCMVRFGNVLGSSGSVVPLFRKQIANGGPVTVTHPEIT
RFFMTIPEASQLVIQAGAMGKGGDVFVLDMGKSVKIIDLAAKMIRLSGYDVKDEANPNGD
IAIEFTGLRPGEKLYEELLIGDDVTGTDHERIMTANEIYLPWVELELILNRLDKACHEFN
HEAIREILLAAPTGFAPTDGICDLVWQQRKLFKPADTKAKVVTLVS