Protein Info for GFF1358 in Methylophilus sp. DMC18

Annotation: 3-deoxy-D-manno-octulosonic acid transferase

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

Best Hits

Swiss-Prot: 40% identical to KDTA_ECO57: 3-deoxy-D-manno-octulosonic acid transferase (waaA) from Escherichia coli O157:H7

KEGG orthology group: K02527, 3-deoxy-D-manno-octulosonic-acid transferase [EC: 2.-.-.-] (inferred from 54% identity to meh:M301_2725)

MetaCyc: 40% identical to KDO transferase (Escherichia coli K-12 substr. MG1655)
KDOTRANS2-RXN [EC: 2.4.99.13]; KDOTRANS-RXN [EC: 2.4.99.13, 2.4.99.12]

Predicted SEED Role

"Lipid IVA 3-deoxy-D-manno-octulosonic acid transferase (EC 2.4.99.12) [often with (EC 2.4.99.13) also]" (EC 2.4.99.12, EC 2.4.99.13)

MetaCyc Pathways

superpathway of (Kdo)₂-lipid A biosynthesis (13/17 steps found)
Kdo transfer to lipid IV_A (Brucella) (2/2 steps found)
Kdo transfer to lipid IV_A (E. coli) (2/2 steps found)
Kdo transfer to lipid IV_A (H. pylori) (2/2 steps found)
Kdo transfer to lipid IV_A (P. gingivalis) (2/2 steps found)
Kdo transfer to lipid IV_A (P. putida) (2/2 steps found)
Kdo transfer to lipid IV_A (generic) (2/2 steps found)
Kdo transfer to lipid IV_A (Haemophilus) (1/2 steps found)
Kdo transfer to lipid IV_A (Vibrio cholerae serogroup O1 El Tor) (1/2 steps found)
Kdo transfer to lipid IV_A (Chlamydia) (2/5 steps found)
superpathway of Kdo₂-lipid A biosynthesis (13/25 steps found)

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.-.-.-

Use Curated BLAST to search for 2.-.-.- or 2.4.99.12 or 2.4.99.13

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 (421 amino acids)

>GFF1358 3-deoxy-D-manno-octulosonic acid transferase (Methylophilus sp. DMC18)
MPRFVYTLLMTVVAVLLPLKLFWRGLKQPEYRQHVAERYGFYRQSVQSPLIWVHCVSVGE
TRATQPLIHALLSTYPQHQLLITHGTPTGRATSSQLFSVEIASGRVLQAYLPVDTPGAAK
RFLTHFKPVFGVLMETELWFHLINQASRQHLPMALLSARLSEKSARGYAKLGSLTRQGLQ
QLTLIAAQTQADAERLHTLGAAQPMICGNLKFDVTPPADSTDKGTALRQQLGPHRTVCMA
ASTREGEELLILDAVQGLNVLTLLVPRHPQRFAEVEALLKARGLRYVLRTELVQPLPADV
QVVLGNSMGEMYTYYAASDFAVMGGSLQPLGGQNLIEAAAMGVPTILGPHMFNFAQVAQA
AVMADAAVQLKDVSELHGMIAALAADKVKVRTMAEAAKGFTLQHRGTTERLMAAIGPLFK
R