7VNP: Human KCNQ4-ML213 complex with PIP2

Structure of human KCNQ4-ML213 complex with PIP2. Determined by electron microscopy at 2.79 Å resolution. Released 1 Dec 2021.

Method: Electron microscopy
Resolution: 2.79 Å
Organisms: Homo sapiens, Escherichia coli (strain B / BL21-DE3)
Chains: 8
Atoms: 14,656
Mol. weight: 543.14 kDa
Ligands: 7YV, PT5
Released: 1 Dec 2021

Explore 7VNP in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7VNP contains 100 α-helices and 0 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, C, E and G: 17 helices, 0 β-strands

Element	Residues	Length
α-helix	75-92	18
α-helix	96-98	3
α-helix	99-120	22
α-helix	126-152	27
α-helix	162-171	10
α-helix	173-190	18
α-helix	201-215	15
α-helix	223-233	11
α-helix	235-260	26
α-helix	270-281	12
α-helix	294-311	18
α-helix	313-355	43
α-helix	529-536	8
α-helix	537-541	5
α-helix	542-551	10
α-helix	557-561	5
α-helix	562-583	22

Chains B, D, F and H: 8 helices, 0 β-strands

Element	Residues	Length
α-helix	7-19	13
α-helix	30-40	11
α-helix	46-55	10
α-helix	68-72	5
α-helix	80-93	14
α-helix	103-112	10
α-helix	119-128	10
α-helix	139-147	9

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Potassium voltage-gated channel subfamily KQT member 4,Maltodextrin-binding protein	A, C, E, G	protein	1049	Homo sapiens, Escherichia coli (strain B / BL21-DE3)	P56696 (AlphaFold model)
Calmodulin-3	B, D, F, H	protein	149	Homo sapiens	P0DP25 (AlphaFold model)

Sequence of entity 1 (A, C, E, G), FASTA

>7VNP_1 Potassium voltage-gated channel subfamily KQT member 4,Maltodextrin-binding protein (chains A, C, E, G)
MDYKDDDDKAEAPPRRLGLGPPPGDAPRAELVALTAVQSEQGEAGGGGSPRRLGLLGSPL
PPGAPLPGPGSGSGSACGQRSSAAHKRYRRLQNWVYNVLERPRGWAFVYHVFIFLLVFSC
LVLSVLSTIQEHQELANECLLILEFVMIVVFGLEYIVRVWSAGCCCRYRGWQGRFRFARK
PFCVIDFIVFVASVAVIAAGTQGNIFATSALRSMRFLQILRMVRMDRRGGTWKLLGSVVY
AHSKELITAWYIGFLVLIFASFLVYLAEKDANSDFSSYADSLWWGTITLTTIGYGDKTPH
TWLGRVLAAGFALLGISFFALPAGILGSGFALKVQEQHRQKHFEKRRMPAANLIQAAWRL
YSTDMSRAYLTATWYYYDSILPSFRELALLFEHVQRARNGGLRPLEVRRAPVPDGAPSRY
PPVATCHRPGSTSFCPGESSRMGIKDRIRMGSSQRRTGPSKQHLAPPTMPTSPSSEQVGE
ATSPTKVQKSWSFNDRTRFRASLRLKPRTSAEDAPSEEVAEEKSYQCELTVDDIMPAVKT
VIRSIRILKFLVAKRKFKETLRPYDVKDVIEQYSAGHLDMLGRIKSLQTRVDQIVGRGPG
DRKAREKGDKGPSDAEVVDEISMMGRVVKVEKQVQSIEHKLDLLLGFYSRCLRSGTSALE
VLFQGPMAKIEEGKLVIWINGDKGYNGLAEVGKKFEKDTGIKVTVEHPDKLEEKFPQVAA
TGDGPDIIFWAHDRFGGYAQSGLLAEITPDKAFQDKLYPFTWDAVRYNGKLIAYPIAVEA
LSLIYNKDLLPNPPKTWEEIPALDKELKAKGKSALMFNLQEPYFTWPLIAADGGYAFKYE
NGKYDIKDVGVDNAGAKAGLTFLVDLIKNKHMNADTDYSIAEAAFNKGETAMTINGPWAW
SNIDTSKVNYGVTVLPTFKGQPSKPFVGVLSAGINAASPNKELAKEFLENYLLTDEGLEA
VNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEIMPNIPQMSAFWYAVRTAVINAAS
GRQTVDEALKDAQTNAAAEHHHHHHHHHH

Sequence of entity 2 (B, D, F, H), FASTA

>7VNP_2 Calmodulin-3 (chains B, D, F, H)
MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADG
NGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDE
EVDEMIREADIDGDGQVNYEEFVQMMTAK

Ligands and cofactors

ID	Name	Formula	Copies
7YV	(1S,2S,4R)-N-(2,4,6-trimethylphenyl)bicyclo[2.2.1]heptane-2-carboxamid	C17 H23 N O	4
PT5	[(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4…	C47 H85 O19 P3	8

Water and common crystallization additives (K) are not listed.

Primary citation

Structural insights into the lipid and ligand regulation of a human neuronal KCNQ channel. Zheng, Y., Liu, H., Chen, Y. et al. Neuron (2022) 110:237. DOI 10.1016/j.neuron.2021.10.029 · PubMed

Other PDB entries of the same protein (UniProt P56696 (AlphaFold model), which also has an AlphaFold model), best resolution first:

2OVC 2.07 Å, Crystal structure of a coiled-coil tetramerization domain from Kv7.4 channels
6N5W 2.15 Å, Crystal structure of the Ca2+/CaM complex with independent peptides of Kv7.4 (KCNQ4) A &…
6B8P 2.2 Å, Crystal Structure of the Mg2+/CaM:Kv7.4 (KCNQ4) AB domain complex
6B8N 2.2 Å, Crystal Structure of the Ca2+/CaM:Kv7.4 (KCNQ4) AB Domain Complex, 10 uM CaCl2 soak
6B8L 2.3 Å, Crystal Structure of the Apo/CaM:Kv7.4 (KCNQ4) AB Domain Complex
6B8M 2.3 Å, Crystal Structure of the Ca2+/CaM:Kv7.4 (KCNQ4) AB Domain Complex, 1 mM CaCl2 soak
7BYL 2.5 Å, Cryo-EM structure of human KCNQ4
4GOW 2.6 Å, Crystal Structure of Ca2+/CaM:Kv7.4 (KCNQ4) B helix complex
7VNR 2.8 Å, Structure of human KCNQ4-ML213 complex in digitonin
7VNQ 2.96 Å, Structure of human KCNQ4-ML213 complex in nanodisc
7BYM 3.1 Å, Cryo-EM structure of human KCNQ4 with retigabine
7BYN 3.3 Å, Cryo-EM structure of human KCNQ4 with linopirdine

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