8W4U: Human KCNQ2-CaM

human KCNQ2-CaM in complex with PIP2 and HN37. Determined by electron microscopy at 3.3 Å resolution. Released 13 Dec 2023.

Method: Electron microscopy
Resolution: 3.3 Å
Organism: Homo sapiens
Chains: 8
Atoms: 16,148
Mol. weight: 366.27 kDa
Ligands: 9MF, PIO
Released: 13 Dec 2023

Explore 8W4U in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8W4U contains 95 α-helices and 8 β-strands across 8 chains. 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.

Chains A, B, D and G: 14 helices, 0 β-strands

Element	Residues	Length
α-helix	71-85	15
α-helix	91-114	24
α-helix	119-147	29
α-helix	156-164	9
α-helix	167-183	17
α-helix	196-210	15
α-helix	216-227	12
α-helix	229-253	25
α-helix	259-261	3
α-helix	264-275	12
α-helix	288-347	60
α-helix	357-366	10
α-helix	536-558	23
α-helix	564-599	36

Chains C, E and F: 10 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	7-20	14
α-helix	30-40	11
α-helix	46-56	11
α-helix	66-74	9
α-helix	77-80	4
α-helix	83-93	11
β-strand	101	1	1
α-helix	103-109	7
α-helix	116-118	3
α-helix	119-129	11
β-strand	137	1	1
α-helix	139-147	9

Chain H: 9 helices, 2 β-strands

Element	Residues	Length	Sheet
α-helix	7-20	14
α-helix	30-40	11
α-helix	46-56	11
α-helix	66-74	9
α-helix	77-80	4
α-helix	83-93	11
β-strand	101	1	3
α-helix	103-109	7
α-helix	119-129	11
β-strand	137	1	3
α-helix	139-147	9

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Potassium voltage-gated channel subfamily KQT member 2	A, B, D, G	protein	656	Homo sapiens	O43526 (AlphaFold model)
Calmodulin-1	C, E, F, H	protein	149	Homo sapiens	P0DP23 (AlphaFold model)

Sequence of entity 1 (A, B, D, G), FASTA

>8W4U_1 Potassium voltage-gated channel subfamily KQT member 2 (chains A, B, D, G)
MAGKPPKRNAFYRKLQNFLYNVLERPRGWAFIYHAYVFLLVFSCLVLSVFSTIKEYEKSS
EGALYILEIVTIVVFGVEYFVRIWAAGCCCRYRGWRGRLKFARKPFCVIDIMVLIASIAV
LAAGSQGNVFATSALRSLRFLQILRMIRMDRRGGTWKLLGSVVYAHSKELVTAWYIGFLC
LILASFLVYLAEKGENDHFDTYADALWWGLITLTTIGYGDKYPQTWNGRLLAATFTLIGV
SFFALPAGILGSGFALKVQEQHRQKHFEKRRNPAAGLIQSAWRFYATNLSRTDLHSTWQY
YERTVTVPMYSSQTQTYGASRLIPPLNQLELLRNLKSKSGLAFRKDPPPEPSPSKGSPCR
GPLCGCCPGRSSQKVSLKDRVFSSPRGVAAKGKGSPQAQTVRRSPSADQSLEDSPSKVPK
SWSFGDRSRARQAFRIKGAASRQNSEEASLPGEDIVDDKSCPCEFVTEDLTPGLKVSIRA
VCVMRFLVSKRKFKESLRPYDVMDVIEQYSAGHLDMLSRIKSLQSRVDQIVGRGPAITDK
DRTKGPAEAELPEDPSMMGRLGKVEKQVLSMEKKLDFLVNIYMQRMGIPPTETEAYFGAK
EPEPAPPYHSPEDSREHVDRHGCIVKIVRSSSSTGQKNFSVEGGSSGGWSHPQFEK

Sequence of entity 2 (C, E, F, H), FASTA

>8W4U_2 Calmodulin-1 (chains C, E, F, H)
MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADG
NGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDE
EVDEMIREADIDGDGQVNYEEFVQMMTAK

Ligands and cofactors

ID	Name	Formula	Copies
9MF	methyl N-[4-[(4-fluorophenyl)methyl-prop-2-ynyl-amino]-2,6-dimethyl-phenyl]carb…	C20 H21 F N2 O2	4
PIO	[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-d…	C25 H49 O19 P3	4

Primary citation

Ligand activation mechanisms of human KCNQ2 channel. Ma, D., Zheng, Y., Li, X. et al. Nat Commun (2023) 14:6632-6632. DOI 10.1038/s41467-023-42416-x · PubMed

Other PDB entries of the same protein (UniProt O43526 (AlphaFold model), which also has an AlphaFold model), best resolution first:

22AY 2.3 Å, KCNQ2 homotetramer in apo state
22BJ 2.4 Å, KCNQ2/3 heterotetramer with 3:1 stoichiometry
22BF 2.5 Å, XEN1101 bound KCNQ2/3 heteromer with 3:1 stoichiometry, state 2
22BG 2.5 Å, XEN1101 bound KCNQ2/3 heteromer with 3:1 stoichiometry, state 3
8IZY 2.5 Å, Human KCNQ2-CaM in complex with HN37
22BE 2.6 Å, XEN1101 bound KCNQ2/3 heteromer with 3:1 stoichiometry, state 1
22BI 2.6 Å, XEN1101 bound KCNQ2/3 heteromer with 2:2 stoichiometry
22AZ 2.7 Å, ICA-1103811 bound KCNQ2/3 heteromer with 3:1 stoichiometry, state 1
22BK 2.7 Å, KCNQ2/3 heterotetramer with 2:2 stoichiometry
8J03 2.7 Å, Human KCNQ2(F104A)-CaM-PIP2-CBD complex in state I
8J04 2.7 Å, Human KCNQ2-CaM-HN37 complex in the presence of PIP2
8J05 2.7 Å, Human KCNQ2-CaM complex in the presence of PIP2

Browse structure collections

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