Hi folks Before anyone points this out, I notice from PDB 2BS2 (I’ve only looked on PDBe for this, RCSB and PDBj might differ in their “added value annotation"!) and UniProt P17596 that one calls iron-sulfur clusters “ligands” and the other calls them “cofactors”.
For my current purposes, I’m using the UniProt nomenclature because I’m parsing files from them. I’ll worry about what’s _really_ a cofactor at a later date! Best wishes Harry > On 20 Dec 2024, at 11:47, Harry Powell <hrp-ccp...@virginmedia.com> wrote: > > Wow. I was right about one thing - this _is_ a good place to ask. > > Many thanks for the flood of responses - that will keep me busy for a while - > I’ll get back to you with what I think are the most useful ones for my > purposes (so many, many apologies to those people who have taken the time to > respond but came up with suggestions that didn’t "hit the spot" for some > reason!). > > Just for the record, I’m not interested in any co-factors like water or > “isolated” metal ions (so not part of a bigger assembly - I’m interested in > things like haem, for example, but not things like hexaaquacobalt). So > anything that has (say) FAD and ADP bound by the same chain would pique my > interest - especially if both are listed in the corresponding UniProt KB > entry (just because a PDB entry has more than one ligand bound, they may not > both really be cofactors…). If UniProt KB tells me that there’s only one > cofactor (or worse, none), then I will rapidly move on (unless someone can > provide a solid justification as to why UniProt is wrong and they’re right…). > > Enjoy a solstice-oriented break! > > best wishes > > Harry > >> On 20 Dec 2024, at 10:37, Harry Powell >> <0000193323b1e616-dmarc-requ...@jiscmail.ac.uk> wrote: >> >> Hi folks >> >> I’m familiar with enzymes that have a single co-factor (for example haem in >> myoglobin [or in the individual chains in haemoglobins] or FAD in >> flavoproteins), but was wondering if there are examples of single-chain >> proteins that have multiple cofactors (or even multiple chain proteins that >> have multiple cofactors bound to a single chain)? >> >> I’m not bothered (at the moment) about proteins that have cofactors bound to >> different chains. >> >> I thought this would be a good place to ask… >> >> Harry >> ######################################################################## >> >> To unsubscribe from the CCP4BB list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 >> >> This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing >> list hosted by www.jiscmail.ac.uk, terms & conditions are available at >> https://www.jiscmail.ac.uk/policyandsecurity/ > ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
