6UW4: Human TRPV3 determined in lipid nanodisc

Cryo-EM structure of human TRPV3 determined in lipid nanodisc. Determined by electron microscopy at 3.1 Å resolution. Released 1 Jul 2020.

Method: Electron microscopy
Resolution: 3.1 Å
Organism: Homo sapiens
Chains: 4
Atoms: 20,281
Mol. weight: 377.3 kDa
Ligands: 6OU
Released: 1 Jul 2020

Explore 6UW4 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6UW4 contains 128 α-helices and 28 β-strands across 4 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, C and D: 32 helices, 7 β-strands

Element	Residues	Length	Sheet
α-helix	119-129	11
α-helix	132-145	14
α-helix	155-162	8
β-strand	163	1	1
β-strand	170	1	1
α-helix	171-176	6
α-helix	183-195	13
α-helix	200-203	4
α-helix	218-224	7
α-helix	228-235	8
α-helix	265-270	6
α-helix	275-283	9
α-helix	299-306	8
α-helix	316-328	13
α-helix	344-351	8
α-helix	354-361	8
β-strand	376-382	7	2
β-strand	385-390	6	2
α-helix	403-408	6
α-helix	416-418	3
α-helix	423-432	10
α-helix	433-437	5
α-helix	438-461	24
α-helix	482-484	3
α-helix	485-505	21
α-helix	521-540	20
α-helix	547-560	14
α-helix	561-566	6
α-helix	570-582	13
α-helix	583-587	5
α-helix	588-607	20
β-strand	609	1	3
α-helix	625-636	12
β-strand	648	1	3
α-helix	651-662	12
α-helix	663-669	7
α-helix	670-684	15
α-helix	688-706	19
β-strand	733-737	5	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Transient receptor potential cation channel subfamily V member 3	A, B, C, D	protein	790	Homo sapiens	Q8NET8 (AlphaFold model)

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

>6UW4_1 Transient receptor potential cation channel subfamily V member 3 (chains A, B, C, D)
MKAHPKEMVPLMGKRVAAPSGNPAVLPEKRPAEITPTKKSAHFFLEIEGFEPNPTVAKTS
PPVFSKPMDSNIRQCISGNCDDMDSPQSPQDDVTETPSNPNSPSAQLAKEEQRRKKRRLK
KRIFAAVSEGCVEELVELLVELQELCRRRHDEDVPDFLMHKLTASDTGKTCLMKALLNIN
PNTKEIVRILLAFAEENDILGRFINAEYTEEAYEGQTALNIAIERRQGDIAALLIAAGAD
VNAHAKGAFFNPKYQHEGFYFGETPLALAACTNQPEIVQLLMEHEQTDITSRDSRGNNIL
HALVTVAEDFKTQNDFVKRMYDMILLRSGNWELETTRNNDGLTPLQLAAKMGKAEILKYI
LSREIKEKRLRSLSRKFTDWAYGPVSSSLYDLTNVDTTTDNSVLEITVYNTNIDNRHEML
TLEPLHTLLHMKWKKFAKHMFFLSFCFYFFYNITLTLVSYYRPREEEAIPHPLALTHKMG
WLQLLGRMFVLIWAMCISVKEGIAIFLLRPSDLQSILSDAWFHFVFFIQAVLVILSVFLY
LFAYKEYLACLVLAMALGWANMLYYTRGFQSMGMYSVMIQKVILHDVLKFLFVYIVFLLG
FGVALASLIEKCPKDNKDCSSYGSFSDAVLELFKLTIGLGDLNIQQNSKYPILFLFLLIT
YVILTFVLLLNMLIALMGETVENVSKESERIWRLQRARTILEFEKMLPEWLRSRFRMGEL
CKVAEDDFRLCLRINEVKWTEWKTHVSFLNEDPGPVRRTDFNKIQDSSRNNSKTTLNAFE
EVEEFPETSV

Ligands and cofactors

ID	Name	Formula	Copies
6OU	[(2~{R})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-hexadecanoyloxy-propan-2-y…	C39 H76 N O8 P	20

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

Primary citation

Gating of human TRPV3 in a lipid bilayer. Deng, Z., Maksaev, G., Rau, M. et al. Nat Struct Mol Biol (2020) 27:635-644. DOI 10.1038/s41594-020-0428-2 · PubMed

Other PDB entries of the same protein (UniProt Q8NET8 (AlphaFold model), which also has an AlphaFold model), best resolution first:

6H9J 1.83 Å, Factor Inhibiting HIF (FIH) in complex with zinc, NOG and TRPV3 (229-255)
6HA6 1.98 Å, Factor Inhibiting HIF (FIH) in complex with zinc, NOG and TRPV3 (220-246)
7QQN 2.45 Å, The PDZ domain of SNTG1 complexed with the acetylated PDZ-binding motif of TRPV3
8V6K 2.46 Å, Apo-state cryo-EM structure of human TRPV3 in cNW30 nanodiscs
13LU 2.49 Å, Structure of human TRPV3-W521S Olmsted syndrome mutant in the closed state
7XJ0 2.53 Å, Structure of human TRPV3 in complex with Trpvicin
8GKA 2.55 Å, Human TRPV3 tetramer structure, closed conformation
8V6N 2.59 Å, Open-state cryo-EM structure of human TRPV3 in presence of 2-APB in cNW30 nanodiscs
9PJ5 2.76 Å, Closed-state structure of wild-type human TRPV3 purified in GDN detergent
8V6O 2.83 Å, Inactivated-state cryo-EM structure of human TRPV3 in presence of 2-APB in cNW30 nanodiscs
13LJ 2.86 Å, Structure of human TRPV3-G568C Olmsted syndrome mutant in the closed state
7XJ1 2.93 Å, Structure of human TRPV3_G573S in complex with Trpvicin in C2 symmetry

Browse structure collections

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