5YC8: PDB entry 5YC8

Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor bound with NMS (Hg-derivative). Determined by X-ray diffraction at 2.5 Å resolution. Released 21 Nov 2018.

Method: X-ray diffraction
Resolution: 2.5 Å
Organism: Homo sapiens
Chains: 1
Atoms: 3,090
Mol. weight: 48.21 kDa
Ligands: 3C0, HG
Released: 21 Nov 2018

Explore 5YC8 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5YC8 contains 23 α-helices and 0 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: 23 helices, 0 β-strands

Element	Residues	Length
α-helix	17-50	34
α-helix	52-54	3
α-helix	57-71	15
α-helix	72-76	5
α-helix	77-86	10
α-helix	93-126	34
α-helix	132-134	3
α-helix	137-166	30
α-helix	179-182	4
α-helix	184-191	8
α-helix	192-196	5
α-helix	197-213	17
α-helix	1003-1018	16
α-helix	1024-1041	18
α-helix	1044-1045	2
α-helix	1056-1081	26
α-helix	1084-1100	17
α-helix	382-410	29
α-helix	414-416	3
α-helix	419-435	17
α-helix	437-439	3
α-helix	441-443	3
α-helix	445-455	11

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Muscarinic acetylcholine receptor M2,Redesigned apo-cytochrome b562,Muscarinic acetylcholine…	A	protein	421	Homo sapiens	P08172 (AlphaFold model), P0ABE7 (AlphaFold model)

Sequence of entity 1 (A), FASTA

>5YC8_1 Muscarinic acetylcholine receptor M2,Redesigned apo-cytochrome b562,Muscarinic acetylcholine receptor M2 (chains A)
GPMDDSTDSSDNSLALTSPYKTFEVVFIVLVAGSLSLVTIIGNILVMVSIKVNRHLQTVN
NYFLFSLACADLIIGVFSMNLYTLYTVIGYWPLGPVVCDLWLALDYVVSNARVMNLLIIS
FDRYFCVTKPLTYPVKRTTKMAGMMIAAAWVLSFILWAPAILFWQFIVGVRTVEDGECYI
QFFSNAAVTFGTAIAAFYLPVIIMTVLYWHISRASKSRIADLEDNWETLNDNLKVIEKAD
NAAQVKDALTKMRAAALDAQKATPPKLEDKSPDSPEMKDFRHGFDILVGQIDDALKLANE
GKVKEAQAAAEQLKTTRNAYIQKYLPPPSREKKVTRTILAILLAFIITWAPYNVMVLINT
FCAPCIPNTVWTIGYWLCYINSTINPACYALCNATFKKTFKHLLMCHYKNIGATRLEVLF
Q

Ligands and cofactors

ID	Name	Formula	Copies
3C0	N-methyl scopolamine	C18 H24 N O4	1
HG	Mercury (II) ion	Hg	3

Primary citation

Structural insights into the subtype-selective antagonist binding to the M2muscarinic receptor. Suno, R., Lee, S., Maeda, S. et al. Nat Chem Biol (2018) 14:1150-1158. DOI 10.1038/s41589-018-0152-y · PubMed

Other PDB entries of the same protein (UniProt P08172 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5ZKC 2.3 Å, Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor…
5ZK3 2.6 Å, Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor…
8J8R 2.9 Å, Structure of beta-arrestin2 in complex with M2Rpp
5ZKB 2.95 Å, Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor…
3UON 3.0 Å, Structure of the human M2 muscarinic acetylcholine receptor bound to an antagonist
5ZK8 3.0 Å, Crystal structure of M2 muscarinic acetylcholine receptor bound with NMS
8JAF 3.1 Å, Structure of Muscarinic receptor (M2R) in complex with beta-arrestin1 (Local Refine,…
7T94 3.16 Å, Cryo-EM structure of S1 state ACh-bound M2R-Go signaling complex with a PAM
8J97 3.2 Å, Structure of Muscarinic receptor (M2R) in complex with beta-arrestin1 (Local refine,…
7T8X 3.21 Å, Cryo-EM structure of ACh-bound M2R-Go signaling complex in S1 state
7T96 3.22 Å, Cryo-EM structure of S2 state ACh-bound M2R-Go signaling complex with a PAM
7T90 3.32 Å, Cryo-EM structure of ACh-bound M2R-Go signaling complex in S2 state

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