Protein Info for LRK54_RS09795 in Rhodanobacter denitrificans FW104-10B01
Annotation: oxygen-dependent coproporphyrinogen oxidase
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: 74% identical to HEM6_CHRVO: Oxygen-dependent coproporphyrinogen-III oxidase (hemF) from Chromobacterium violaceum (strain ATCC 12472 / DSM 30191 / JCM 1249 / NBRC 12614 / NCIMB 9131 / NCTC 9757)
KEGG orthology group: K00228, coproporphyrinogen III oxidase [EC: 1.3.3.3] (inferred from 74% identity to cvi:CV_0757)MetaCyc: 69% identical to coproporphyrinogen III oxidase (Escherichia coli K-12 substr. MG1655)
Coproporphyrinogen oxidase. [EC: 1.3.3.3]
Predicted SEED Role
"Coproporphyrinogen III oxidase, aerobic (EC 1.3.3.3)" in subsystem Experimental tye or Heme and Siroheme Biosynthesis (EC 1.3.3.3)
MetaCyc Pathways
- superpathway of heme b biosynthesis from glutamate (10/10 steps found)
- superpathway of heme b biosynthesis from glycine (7/8 steps found)
- heme b biosynthesis I (aerobic) (4/4 steps found)
- heme b biosynthesis V (aerobic) (3/4 steps found)
- superpathway of heme b biosynthesis from uroporphyrinogen-III (4/6 steps found)
- 3,8-divinyl-chlorophyllide a biosynthesis I (aerobic, light-dependent) (3/9 steps found)
- 3,8-divinyl-chlorophyllide a biosynthesis III (aerobic, light independent) (3/9 steps found)
KEGG Metabolic Maps
Isozymes
No predicted isozymesUse Curated BLAST to search for 1.3.3.3
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
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 (304 amino acids)
>LRK54_RS09795 oxygen-dependent coproporphyrinogen oxidase (Rhodanobacter denitrificans FW104-10B01) MSEQANQAETFLRELQDRICSAIERADGDARFAEDAWTREAGGGGRTRVLRGGAVFEQAG VNFSRVSGHQLPPSATAHRPELAGGSFIATGVSLVLHPNNPHVPTTHANVRYFEASKEGV EPVWWFGGGFDLTPFYPVDDDVRHWHTVAHELCAPYGADVYPRYKQWCDEYFYLKHRDET RGVGGLFYDDLNEGGFERCFAFTRDVGQGFLDAYLPIVARRRDTPYGEREREFQLYRRGR YVEFNLVYDRGTLFGLQSGGRTESILMSLPPRVRFEYAYQPEAGSAEAKLAEYLQPRDWL AAPL