Protein Info for PP_0310 in Pseudomonas putida KT2440

Annotation: putative dimethylglycine dehydrogenase subunit

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 50 100 150 200 250 300 350 400 450 500 550 600 650 686 PF00724: Oxidored_FMN" amino acids 6 to 341 (336 residues), 219 bits, see alignment E=5.1e-68 PF01262: AlaDh_PNT_C" amino acids 382 to 425 (44 residues), 23.5 bits, see alignment 1.5e-08 PF01266: DAO" amino acids 392 to 428 (37 residues), 28.4 bits, see alignment 5.5e-10 PF01134: GIDA" amino acids 392 to 426 (35 residues), 25 bits, see alignment (E = 4.4e-09) PF00070: Pyr_redox" amino acids 392 to 426 (35 residues), 30.5 bits, see alignment (E = 1.9e-10) PF07992: Pyr_redox_2" amino acids 392 to 643 (252 residues), 41.8 bits, see alignment E=4.3e-14 PF00890: FAD_binding_2" amino acids 393 to 432 (40 residues), 29 bits, see alignment 2.9e-10 PF12831: FAD_oxidored" amino acids 393 to 436 (44 residues), 38.5 bits, see alignment 4e-13 PF13450: NAD_binding_8" amino acids 395 to 430 (36 residues), 38.1 bits, see alignment 7.1e-13

Best Hits

KEGG orthology group: None (inferred from 100% identity to ppf:Pput_0331)

MetaCyc: 80% identical to N,N-dimethylglycine/sarcosine dehydrogenase (ferredoxin) (Chromohalobacter salexigens)
RXN-22743 [EC: 1.5.7.3]; 1.5.7.3 [EC: 1.5.7.3]

Predicted SEED Role

"DgcA Dimethylglycine demethylase subunit A"

MetaCyc Pathways

Isozymes

No predicted isozymes

Use Curated BLAST to search for 1.5.7.3

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 Q88R24 at UniProt or InterPro

Protein Sequence (686 amino acids)

>PP_0310 putative dimethylglycine dehydrogenase subunit (Pseudomonas putida KT2440)
MAFEAMFQPIQIGKLTIRNRVLSTAHAEVYATDGGMTTDRYVKYYEEKAKGGIGLAICGG
SSVVAIDSPQEWWASVNLSTDRIIPHFQNLADAMHKHGAKIMIQITHMGRRSRWDGFNWP
TLMSPSGIREPVHRATCKTIEVEEIWRVIGNYAQAARRAKEGGLDGVELSAVHQHMIDQF
WSPRVNKRTDEWGGTFEGRMKFGLEVLKAVRAEVGDDFCVGMRICGDEFHPDGLSHEDMK
QIAAYYDATGMLDFIGVVGSGCDTHNTLANVIPNMSYPPEPFLHLAAGIKEVVKVPVLHA
QNIKDPNQATRILEGGYVDMVGMTRAHMADPHLIAKIKMGQIDQIKQCVGANYCIDRQYQ
GLDVLCIQNAATSREYMGVPHIIEKTTGVKRKVVVVGAGPAGMEAARVAAERGHDVTLFE
KRDQIGGQITIAAKAPQRDQIAGITRWYQLELARLKVDLRLGTAADVAAIQDLRPDVIVL
AVGGHSFLEQNEHWGAAEGLVVSSWDVLDGKVAPGKNVLVYDTICEFTGMSVADFIADKG
SQVEIVTDDIKPGVAMGGTTFPTYYRSMYPKEVIMTGDMMLEKVYREGDKLVAVLENEYT
GAKEERVVDQVVVENGVRPDEELYYALKEGSRNKGQIDVEALFAIKPQPILSQPGEGYLL
YRIGDCVAQRNVHAAIYDALRLCKDF