Protein Info for PP_5064 in Pseudomonas putida KT2440

Annotation: choline dehydrogenase

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 50 100 150 200 250 300 350 400 450 500 565 PF00732: GMC_oxred_N" amino acids 5 to 302 (298 residues), 194.9 bits, see alignment E=2.5e-61 TIGR01810: choline dehydrogenase" amino acids 6 to 539 (534 residues), 937.4 bits, see alignment E=1.2e-286 PF05199: GMC_oxred_C" amino acids 395 to 529 (135 residues), 141.8 bits, see alignment E=3.5e-45

Best Hits

Swiss-Prot: 100% identical to BETA_PSEPK: Oxygen-dependent choline dehydrogenase (betA) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

KEGG orthology group: K00108, choline dehydrogenase [EC: 1.1.99.1] (inferred from 100% identity to ppu:PP_5064)

MetaCyc: 86% identical to choline dehydrogenase (Pseudomonas aeruginosa)
Choline dehydrogenase. [EC: 1.1.99.1]

Predicted SEED Role

"Choline dehydrogenase (EC 1.1.99.1)" in subsystem Choline and Betaine Uptake and Betaine Biosynthesis (EC 1.1.99.1)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.1.99.1

Use Curated BLAST to search for 1.1.99.1

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 Q88CW6 at UniProt or InterPro

Protein Sequence (565 amino acids)

>PP_5064 choline dehydrogenase (Pseudomonas putida KT2440)
MSQEFDYIIVGAGSAGNTLATRLTEDAGVTVLLLEAGGPDYRFDFRTQMPAALAFPLQGR
RYNWAYETDPEPYMDGRRMECGRGKGLGGSSLINGMCYIRGNAMDFDGWAELPGLEDWTY
LDCLPYFRKAETRDIGPNDYHGGEGPVSVTTPKAGNNPLFHAMVEAGVQAGYPRTEDLNG
YQQEGFGPMDRTVTKNGRRSSTARGYLDQAKKRPNLTIVTHALTDRVLFDGKRAIGVTYL
VGDSEERVEARARKEVIVSSGAIASPQLLQRSGVGPRALLESLDIPVVHDLPGVGENLQD
HLELYLQYACTQPVSLYPSLLWWNQPAIGAEWMFNGTGIGASNQFEAGGFIRTRPEFKWP
NIQYHFLPVAINYNGSNGVKEHGFQAHMGSMRSPARGRIQVKSKDPRQHPSILFNYMSTE
QDWQEFRDGIRLTREIMAQPALDPYRGREISPGADVQTDEQLDKFIREHAETAFHPSCSC
KMGTDDMAVVDGEGRVHGMKGLRVVDASIMPLIITGNLNATTIMIAEKISDKIRGRKPLP
RSTAKYYVAGDAPVKGKPMREVKQG