Protein Info for Pf1N1B4_5023 in Pseudomonas fluorescens FW300-N1B4

Annotation: Alkylated DNA repair protein AlkB

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 50 100 150 200 226 transmembrane" amino acids 152 to 172 (21 residues), see Phobius details PF13532: 2OG-FeII_Oxy_2" amino acids 46 to 223 (178 residues), 194 bits, see alignment E=1.6e-61

Best Hits

Swiss-Prot: 54% identical to ALKB_ECOLI: Alpha-ketoglutarate-dependent dioxygenase AlkB (alkB) from Escherichia coli (strain K12)

KEGG orthology group: K03919, alkylated DNA repair protein [EC: 1.14.11.-] (inferred from 78% identity to pba:PSEBR_a3424)

MetaCyc: 54% identical to DNA oxidative demethylase (Escherichia coli K-12 substr. MG1655)
RXN-21233 [EC: 1.14.11.54]; 1.14.11.54 [EC: 1.14.11.54]; RXN-18737 [EC: 1.14.11.54, 1.14.11.33]; 1.14.11.33 [EC: 1.14.11.54, 1.14.11.33]; 1.14.11.33 [EC: 1.14.11.54, 1.14.11.33]; 1.14.11.33 [EC: 1.14.11.54, 1.14.11.33]; 1.14.11.33 [EC: 1.14.11.54, 1.14.11.33]; 1.14.11.- [EC: 1.14.11.54, 1.14.11.33]; RXN0-7275 [EC: 1.14.11.54, 1.14.11.33]

Predicted SEED Role

"Alkylated DNA repair protein AlkB" in subsystem DNA repair, bacterial

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.14.11.-

Use Curated BLAST to search for 1.14.11.- or 1.14.11.33 or 1.14.11.54

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 A0A161Z8T3 at UniProt or InterPro

Protein Sequence (226 amino acids)

>Pf1N1B4_5023 Alkylated DNA repair protein AlkB (Pseudomonas fluorescens FW300-N1B4)
MRYDPMSPITFDLFADAEPEQQPRREQIGEQSYVLRGFALHWLERLLPALETVLAAAPFR
QMVTPGGFTMSVALSSCGTWGWTTDRSGYQYTRNDPQTGDPWPEMPEVFFELAQAAAREA
GFMDFVPDSCLINRYIPGARMSLHQDKNEDSYAAPIVSVSLGLPATFLFGGFERSANSQR
VPLLHGDIVVWGGVDRLRYHGVLPIKQGYHPQLGEQRINFTFRTAG