7XNL

human KCNQ1-CaM-ML277-PIP2 complex in state A


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural mechanisms for the activation of human cardiac KCNQ1 channel by electro-mechanical coupling enhancers.

Ma, D.Zhong, L.Yan, Z.Yao, J.Zhang, Y.Ye, F.Huang, Y.Lai, D.Yang, W.Hou, P.Guo, J.

(2022) Proc Natl Acad Sci U S A 119: e2207067119-e2207067119

  • DOI: https://doi.org/10.1073/pnas.2207067119
  • Primary Citation of Related Structures:  
    7XNI, 7XNK, 7XNL, 7XNN

  • PubMed Abstract: 

    The cardiac KCNQ1 potassium channel carries the important I Ks current and controls the heart rhythm. Hundreds of mutations in KCNQ1 can cause life-threatening cardiac arrhythmia. Although KCNQ1 structures have been recently resolved, the structural basis for the dynamic electro-mechanical coupling, also known as the voltage sensor domain-pore domain (VSD-PD) coupling, remains largely unknown. In this study, utilizing two VSD-PD coupling enhancers, namely, the membrane lipid phosphatidylinositol 4,5-bisphosphate (PIP 2 ) and a small-molecule ML277, we determined 2.5-3.5 Å resolution cryo-electron microscopy structures of full-length human KCNQ1-calmodulin (CaM) complex in the apo closed, ML277-bound open, and ML277-PIP 2 -bound open states. ML277 binds at the "elbow" pocket above the S4-S5 linker and directly induces an upward movement of the S4-S5 linker and the opening of the activation gate without affecting the C-terminal domain (CTD) of KCNQ1. PIP 2 binds at the cleft between the VSD and the PD and brings a large structural rearrangement of the CTD together with the CaM to activate the PD. These findings not only elucidate the structural basis for the dynamic VSD-PD coupling process during KCNQ1 gating but also pave the way to develop new therapeutics for anti-arrhythmia.


  • Organizational Affiliation

    Department of Biophysics, and Department of Neurology of the Fourth Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, 310058, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Potassium voltage-gated channel subfamily KQT member 1
A, C, E, G
692Homo sapiensMutation(s): 0 
Gene Names: KCNQ1KCNA8KCNA9KVLQT1
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P51787 (Homo sapiens)
Explore P51787 
Go to UniProtKB:  P51787
PHAROS:  P51787
GTEx:  ENSG00000053918 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP51787
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Calmodulin-3
B, D, F, H
177Homo sapiensMutation(s): 0 
Gene Names: CALM3CALML2CAM3CAMCCAMIII
UniProt & NIH Common Fund Data Resources
Find proteins for P0DP25 (Homo sapiens)
Explore P0DP25 
Go to UniProtKB:  P0DP25
PHAROS:  P0DP25
GTEx:  ENSG00000160014 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0DP25
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PIO (Subject of Investigation/LOI)
Query on PIO

Download Ideal Coordinates CCD File 
N [auth B],
P [auth D],
R [auth F],
T [auth H]
[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate
C25 H49 O19 P3
XLNCEHRXXWQMPK-MJUMVPIBSA-N
I0S (Subject of Investigation/LOI)
Query on I0S

Download Ideal Coordinates CCD File 
M [auth A],
O [auth C],
Q [auth E],
S [auth G]
(2R)-N-[4-(4-methoxyphenyl)-1,3-thiazol-2-yl]-1-(4-methylbenzene-1-sulfonyl)piperidine-2-carboxamide
C23 H25 N3 O4 S2
OXQNLLVUVDAEHC-UHFFFAOYSA-N
K
Query on K

Download Ideal Coordinates CCD File 
I [auth A],
J [auth A],
K [auth A],
L [auth A]
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
I0S BindingDB:  7XNL EC50: 260 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data

  • Released Date: 2022-12-14 
  • Deposition Author(s): Ma, D., Guo, J.

Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China2020YFA0908501
Ministry of Science and Technology (MoST, China)China2018YFA0508100
National Natural Science Foundation of China (NSFC)China31870724
National Natural Science Foundation of China (NSFC)China81800231
Other governmentLR19C050002
Other government2021FZZX001-28

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-14
    Type: Initial release
  • Version 1.1: 2023-02-22
    Changes: Database references
  • Version 1.2: 2024-07-03
    Changes: Data collection