7W4O

The structure of KATP H175K mutant in pre-open state

PDB DOI: https://doi.org/10.2210/pdb7W4O/pdb
EM Map EMD-32310: EMDB EMDataResource

Classification: TRANSPORT PROTEIN
Organism(s): Mus musculus, Mesocricetus auratus
Expression System: Homo sapiens
Mutation(s): Yes
Membrane Protein: Yes OPMPDBTMmpstruc

Deposited: 2021-11-28 Released: 2022-06-01
Deposition Author(s): Chen, L., Wang, M.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.96 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Structural insights into the mechanism of pancreatic K ATP channel regulation by nucleotides.

Wang, M., Wu, J.X., Ding, D., Chen, L.

(2022) Nat Commun 13: 2770-2770

PubMed: 35589716 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1038/s41467-022-30430-4
Primary Citation of Related Structures:
7W4O, 7W4P

PubMed Abstract:
ATP-sensitive potassium channels (K _ATP) are metabolic sensors that convert the intracellular ATP/ADP ratio to the excitability of cells. They are involved in many physiological processes and implicated in several human diseases. Here we present the cryo-EM structures of the pancreatic K _ATP channel in both the closed state and the pre-open state, resolved in the same sample. We observe the binding of nucleotides at the inhibitory sites of the Kir6.2 channel in the closed but not in the pre-open state. Structural comparisons reveal the mechanism for ATP inhibition and Mg-ADP activation, two fundamental properties of K _ATP channels. Moreover, the structures also uncover the activation mechanism of diazoxide-type K _ATP openers.

Organizational Affiliation

State Key Laboratory of Membrane Biology, College of Future Technology, Institute of Molecular Medicine, Peking University, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, 100871, Beijing, China.

Macromolecule Content

Total Structure Weight: 888.71 kDa
Atom Count: 54,748
Modelled Residue Count: 6,944
Deposited Residue Count: 7,888
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP-sensitive inward rectifier potassium channel 11	A, C, E, G	390	Mus musculus	Mutation(s): 1 Gene Names: Kcnj11 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q61743 (Mus musculus) Explore Q61743 Go to UniProtKB: Q61743
IMPC: MGI:107501
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q61743
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP-binding cassette sub-family C member 8 isoform X2	B, D, F, H	1,582	Mesocricetus auratus	Mutation(s): 0 Gene Names: Abcc8 Membrane Entity: Yes
UniProt
Find proteins for A0A1U7R319 (Mesocricetus auratus) Explore A0A1U7R319 Go to UniProtKB: A0A1U7R319
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A1U7R319
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ATP Query on ATP Download Ideal Coordinates CCD File SDF format, chain BA [auth H] SDF format, chain M [auth B] SDF format, chain R [auth D] SDF format, chain W [auth F] MOL2 format, chain BA [auth H] MOL2 format, chain M [auth B] MOL2 format, chain R [auth D] MOL2 format, chain W [auth F]	BA [auth H], M [auth B], R [auth D], W [auth F]	ADENOSINE-5'-TRIPHOSPHATE C₁₀ H₁₆ N₅ O₁₃ P₃ ZKHQWZAMYRWXGA-KQYNXXCUSA-N		Interactions Focus chain BA [auth H] Focus chain M [auth B] Focus chain R [auth D] Focus chain W [auth F] Interactions & Density Focus chain BA [auth H] Focus chain M [auth B] Focus chain R [auth D] Focus chain W [auth F]
ADP Query on ADP Download Ideal Coordinates CCD File SDF format, chain X [auth H] SDF format, chain I [auth B] SDF format, chain N [auth D] SDF format, chain S [auth F] MOL2 format, chain X [auth H] MOL2 format, chain I [auth B] MOL2 format, chain N [auth D] MOL2 format, chain S [auth F]	I [auth B], N [auth D], S [auth F], X [auth H]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain I [auth B] Focus chain N [auth D] Focus chain S [auth F] Focus chain X [auth H] Interactions & Density Focus chain I [auth B] Focus chain N [auth D] Focus chain S [auth F] Focus chain X [auth H]
E2H (Subject of Investigation/LOI) Query on E2H Download Ideal Coordinates CCD File SDF format, chain AA [auth H] SDF format, chain L [auth B] SDF format, chain Q [auth D] SDF format, chain V [auth F] MOL2 format, chain AA [auth H] MOL2 format, chain L [auth B] MOL2 format, chain Q [auth D] MOL2 format, chain V [auth F]	AA [auth H], L [auth B], Q [auth D], V [auth F]	6-chloranyl-~{N}-(1-methylcyclopropyl)-1,1-bis(oxidanylidene)-4~{H}-thieno[3,2-e][1,2,4]thiadiazin-3-amine C₉ H₁₀ Cl N₃ O₂ S₂ KYSFUHHFTIGRJN-UHFFFAOYSA-N		Interactions Focus chain AA [auth H] Focus chain L [auth B] Focus chain Q [auth D] Focus chain V [auth F] Interactions & Density Focus chain AA [auth H] Focus chain L [auth B] Focus chain Q [auth D] Focus chain V [auth F]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain J [auth B] SDF format, chain K [auth B] SDF format, chain O [auth D] SDF format, chain P [auth D] SDF format, chain T [auth F] SDF format, chain U [auth F] SDF format, chain Y [auth H] SDF format, chain Z [auth H] MOL2 format, chain J [auth B] MOL2 format, chain K [auth B] MOL2 format, chain O [auth D] MOL2 format, chain P [auth D] MOL2 format, chain T [auth F] MOL2 format, chain U [auth F] MOL2 format, chain Y [auth H] MOL2 format, chain Z [auth H]	J [auth B] K [auth B] O [auth D] P [auth D] T [auth F] J [auth B], K [auth B], O [auth D], P [auth D], T [auth F], U [auth F], Y [auth H], Z [auth H]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain J [auth B] Focus chain K [auth B] Focus chain O [auth D] Focus chain P [auth D] Focus chain T [auth F] Focus chain U [auth F] Focus chain Y [auth H] Focus chain Z [auth H] Interactions & Density Focus chain J [auth B] Focus chain K [auth B] Focus chain O [auth D] Focus chain P [auth D] Focus chain T [auth F] Focus chain U [auth F] Focus chain Y [auth H] Focus chain Z [auth H]