Protein Info for GFF83 in Sphingobium sp. HT1-2

Annotation: Cytochrome c heme lyase subunit CcmF

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 50 100 150 200 250 300 350 400 450 500 550 600 642 transmembrane" amino acids 6 to 30 (25 residues), see Phobius details amino acids 42 to 62 (21 residues), see Phobius details amino acids 96 to 113 (18 residues), see Phobius details amino acids 124 to 143 (20 residues), see Phobius details amino acids 177 to 196 (20 residues), see Phobius details amino acids 209 to 229 (21 residues), see Phobius details amino acids 249 to 267 (19 residues), see Phobius details amino acids 274 to 293 (20 residues), see Phobius details amino acids 313 to 331 (19 residues), see Phobius details amino acids 351 to 372 (22 residues), see Phobius details amino acids 392 to 412 (21 residues), see Phobius details amino acids 424 to 442 (19 residues), see Phobius details amino acids 448 to 468 (21 residues), see Phobius details amino acids 478 to 498 (21 residues), see Phobius details amino acids 604 to 624 (21 residues), see Phobius details TIGR00353: cytochrome c-type biogenesis protein CcmF" amino acids 53 to 629 (577 residues), 598.6 bits, see alignment E=8.1e-184 PF01578: Cytochrom_C_asm" amino acids 89 to 295 (207 residues), 159.3 bits, see alignment E=1.1e-50 PF16327: CcmF_C" amino acids 315 to 626 (312 residues), 331.9 bits, see alignment E=4.3e-103

Best Hits

Swiss-Prot: 44% identical to CCMF_ECOLI: Cytochrome c-type biogenesis protein CcmF (ccmF) from Escherichia coli (strain K12)

KEGG orthology group: K02198, cytochrome c-type biogenesis protein CcmF (inferred from 87% identity to sjp:SJA_C1-17490)

MetaCyc: 44% identical to holocytochrome c synthase CcmF component (Escherichia coli K-12 substr. MG1655)
RXN-21423

Predicted SEED Role

"Cytochrome c heme lyase subunit CcmF" in subsystem Biogenesis of c-type cytochromes or Copper homeostasis

MetaCyc Pathways

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 (642 amino acids)

>GFF83 Cytochrome c heme lyase subunit CcmF (Sphingobium sp. HT1-2)
MIAEAGLAALWFAAVLALLQLFLVGMGLAGGKGEVLGAVRPVAVLQGVLTAAAFVALISL
FLRSDMSVLLVATNSHSAKPWLYKFAGTWGNHEGSMLLWVTVMGVAGAAVALFERALKRD
AHMATLGAQAAISLGFYAFLLFSSNPFARISPAPADGQGLNPLLQDPGLAFHPPTLYLGY
VGLSVAFSFAVGALLTRQVDAAFARAMRPWVLAAWVMLTLGITAGSYWAYYELGWGGWWF
WDPVENASLMPWLAATALLHSVTVLATRDALRAWTVMLAVVAFSMSMVGTFLVRSGILTS
VHAFAVDPERGSFILALLALYIGGALALFGWRIGTVREGAPFELVSRETFLVVNNLLLSV
ILGLVLIGTLYPLMTEAFGHKVSVGAPYFDRIAGPIALILLIVMAAGPLTRWRRDQARAV
AGRMLIPAAVALAAVVLVGALAWGRIGLLPYCGLVVALAVGVGSLAPLWKRNLRRTPLFT
YGMVIAHLGCAVSLAGMACDSAFTVEKLVAVRPGDSIETAGWTLRFQRILPLAGDNWTAL
QADVIAERSGRAVVIHPQSRFFASPPTTTTEAALLTRWNGQLYVVLGQEADAGRWQMRIW
WKPFVTLIWLGGIMIALGGLLALVGRERRGWLMKWRARRAMA