8HQV: Coatomer subunit beta'

The complex structure of COPI cargo sorting module with HCoV-OC43 Spike KTSHxx sorting motif. Determined by X-ray diffraction at 1.4 Å resolution. Released 20 Dec 2023.

Method: X-ray diffraction
Resolution: 1.4 Å
Organisms: Saccharomyces cerevisiae (strain YJM789), Human coronavirus OC43
Chains: 2
Atoms: 2,770
Mol. weight: 35.45 kDa
Released: 20 Dec 2023

Explore 8HQV in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8HQV contains 3 α-helices and 28 β-strands across 1 chain. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 3 helices, 28 β-strands

Element	Residues	Length	Sheet
β-strand	6-12	7	1
β-strand	16-21	6	2
β-strand	27-32	6	2
β-strand	36-41	6	2
β-strand	46-52	7	2
β-strand	58-64	7	3
α-helix	65-67	3
β-strand	69-74	6	3
β-strand	78-83	6	3
β-strand	89-94	6	3
β-strand	100-105	6	4
β-strand	111-116	6	4
β-strand	121-125	5	4
α-helix	126-128	3
β-strand	131-136	6	4
β-strand	143-148	6	5
β-strand	155-160	6	5
β-strand	164-169	6	5
β-strand	177-180	4	5
β-strand	189-192	4	6
β-strand	200-204	5	6
β-strand	210-214	5	6
β-strand	220-224	5	6
β-strand	231-236	6	7
β-strand	242-247	6	7
β-strand	251-256	6	7
β-strand	262-267	6	7
β-strand	273-278	6	1
α-helix	283-285	3
β-strand	286-291	6	1
β-strand	294-299	6	1

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Coatomer subunit beta'	A	protein	301	Saccharomyces cerevisiae (strain YJM789)	P41811 (AlphaFold model)
HCoV-OC43 Spike KTSHxx sorting motif	B	protein	10	Human coronavirus OC43	P36334

Sequence of entity 1 (A), FASTA

>8HQV_1 Coatomer subunit beta' (chains A)
MKLDIKKTFSNRSDRVKGIDFHPTEPWVLTTLYSGRVEIWNYETQVEVRSIQVTETPVRA
GKFIARKNWIIVGSDDFRIRVFNYNTGEKVVDFEAHPDYIRSIAVHPTKPYVLSGSDDLT
VKLWNWENNWALEQTFEGHEHFVMCVAFNPKDPSTFASGCLDRTVKVWSLGQSTPNFTLT
TGQERGVNYVDYYPLPDKPYMITASDDLTIKIWDYQTKSCVATLEGHMSNVSFAVFHPTL
PIIISGSEDGTLKIWNSSTYKVEKTLNVGLERSWCIATHPTGRKNYIASGFDNGFTVLSL
G

Sequence of entity 2 (B), FASTA

>8HQV_2 HCoV-OC43 Spike KTSHxx sorting motif (chains B)
ELVIKTSHDD

Primary citation

SARS-CoV-2 spike host cell surface exposure promoted by a COPI sorting inhibitor. Li, Y., Yang, M., Nan, Y. et al. Acta Pharm Sin B (2023) 13:3043-3053. DOI 10.1016/j.apsb.2023.04.007 · PubMed

Other PDB entries of the same protein (UniProt P41811 (AlphaFold model), which also has an AlphaFold model), best resolution first:

8EWX 1.24 Å, N-terminal WD40 domain of beta'-COPI subunit with two chains in the asymmetric unit
8F0E 1.31 Å, N-terminal WD40 domain of beta'-COPI subunit with four chains in the asymmetric unit
8HQW 1.41 Å, The complex structure of COPI cargo sorting module with MHV Spike Hxx sorting motif
4J73 1.44 Å, Crystal structure of beta'-COP/p25 complex
8ENS 1.45 Å, Crystal structure of beta'-COPI-WD40 domain in complex with SARS-CoV-2 spike tail…
8ENW 1.45 Å, Crystal structure of beta'-COPI-WD40 domain in complex with SARS-CoV-2 clientized spike…
4J82 1.46 Å, Crystal structure of beta'-COP/Insig-2 complex
4J84 1.47 Å, Crystal structure of beta'-COP/Scyl1 complex
4J78 1.48 Å, Crystal structure of beta'-COP/Emp47p complex
4J86 1.48 Å, Crystal structure of beta'-COP/yWbp1 complex
8HQX 1.54 Å, The complex structure of COPI cargo sorting module with TAT-WDM peptide
4J79 1.56 Å, Crystal structure of beta'-COP/PEDVspike complex

Browse structure collections

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