New complex term (BLOC-1)

[gocentral]

Hi,

Could a new term be created for the BLOC-1 complex (biogenesis of lysosome-related organelles complex-1)? The complex is required for normal biogenesis of specialized organelles of the endosomal-lysosomal system and is described in PubMed 15102850.

Thanks, Michele.

Reported by: magrane

Original Ticket: "geneontology/ontology-requests/2185":https://sourceforge.net/p/geneontology/ontology-requests/2185

[gocentral]

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I second this! Just came from a seminar by Lusanne Peters on some of the components of this complex in mice!

Original comment by: hdrabkin

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• assigned_to: nobody --> gomidori

Original comment by: mah11

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Although PMID:15102850 says 'the complex exists in soluble (cytosolic) and peripheral membrane protein pools', both of the references cited actually look at the localization of one of the individual protein, rather than the whole complex; also, one ref (PMID:12019270) says that only the soluble form of the protein of interest is associated with the complex. So I think it would be OK to have BLOC-1 as part_of cytosol.

BLOC-2 is apparently also cytosolic (PMIDs 12756248, 12548288)

BLOC-3 is mostly cytosolic (and again, membrane association was detected for individual subunits) (PMID 12756248).

I'm inclined to put all three under cytosol unless there are good reasons not to. That would give us:

protein complex --[i] BLOC complex ----[i] BLOC-1 complex ----[i] BLOC-2 complex ----[i] BLOC-3 complex

cytosol --[p] BLOC complex ----[i] BLOC-1 complex ----[i] BLOC-2 complex ----[i] BLOC-3 complex

Comments?

m

Original comment by: mah11

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Looks fine to me. The original work in identifying the BLOC-1 complex in PMID:15102850 was done by isolating it from bovine liver cytosol so it seems fine to put it under cytosol.

Michele.

Original comment by: magrane

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Do we need to have all three rather than just "BlOC" complex, as part of the cytosol, and not get as granular as -I, -II, and -III? This might be a good reference, but I can't get at it (we don't have a subscription 8-( Curr Opin Cell Biol. 2004 Aug;16(4):458-64. The building BLOC(k)s of lysosomes and related organelles. Dell'Angelica E PMID: 15261680

Original comment by: hdrabkin

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The Dell'Angelica reference lists the known components of each complex and they are all different so I don't see why they can't be listed as 3 separate terms. Harold, if you want a copy of the paper, let me know and I can fax it to you.

Michele.

Original comment by: magrane

[gocentral]

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Well, they've all got quite different subunit compositions, and we often do the same thing in other simiilar situations.

Proposed defs might help:

BLOC complex Any of several protein complexes required for the biogenesis of specialized organelles of the endosomal-lysosomal system, such as melanosomes and platelet dense granules; acronym for biogenesis of lysosomal-related organelles complex. PMID:15102850, PMID:15261680

BLOC-1 complex A protein complex required for the biogenesis of specialized organelles of the endosomal-lysosomal system, such as melanosomes and platelet dense granules. Many of the protein subunits are conserved between mouse and human; the mouse complx contains the Pallidin, Muted, Cappuccino, Dysbindin, Sapin, BLOS1, BLOS2, AND BLOS3 proteins. PMID:15102850

BLOC-2 complex A protein complex required for the biogenesis of specialized organelles of the endosomal-lysosomal system, such as melanosomes and platelet dense granules. The human complex contains the Hps3, Hps5, and Hps6 proteins; the mouse complex contains ru2 and ru. PMID:12548288, PMID:14718540, PMID:15031569

BLOC-3 complex A protein complex required for the biogenesis of specialized organelles of the endosomal-lysosomal system, such as melanosomes and platelet dense granules. The human complex contains the Hps1 and Hps4 proteins. PMID:12756248

Original comment by: mah11

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Hi, I just read that reivew that Midori kindly sent to me, , and I now agree that since they appear to not share any subunits, we should probably list all three.

Original comment by: hdrabkin

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In that case I shall fire up DAG-Edit :)

Original comment by: mah11

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added with parentage and definitions as shown in previous comments:

BLOC complex ; GO:0031082 --[i] BLOC-1 complex ; GO:0031083 --[i] BLOC-2 complex ; GO:0031084 --[i] BLOC-3 complex ; GO:0031085

Original comment by: mah11

[gocentral]

• milestone: --> TermGenie
• status: open --> closed-accepted

Original comment by: mah11