SAXSdb — 9w7x

▼

1. Structure Basics

entry_id	9w7x
deposition_date	2025-08-07
title	Cryo-EM structure of dPIEZO channel
keywords	dPIEZO channel, MEMBRANE PROTEIN; MEMBRANE PROTEIN
method	ELECTRON MICROSCOPY

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	65.54 Å
rg_electron	64.41 Å
i0	2345020000.00
molecular_weight	453200.0 kDa
excluded_volume	585570 Å³
envelope_volume	1065300 Å³
shell_volume	136620 Å³
envelope_diameter	197.1 Å
shell_rg	67.63 Å
envelope_rg	62.15 Å
shape_rg	64.42 Å
total_rg	64.47 Å
total_atoms	31971
n_residues	3915
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

▼

3. P(r) Analysis (GNOM)

dmax	180.5 Å
rg_real	65.09 Å
rg_real_error	1.11 Å
i0_real	2.3450e+09
i0_real_error	4.5390e+07
rg_reciprocal	65.88 Å
i0_reciprocal	2348000000.0000
total_estimate	0.8385
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	97.8 Å
skewness	0.002
kurtosis	-0.568
angular_range	— – 0.1200 Å⁻¹
current_alpha	0.0000
highest_alpha	189500000.0000
n_real_points	25
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.969; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.991; Smooth: 0.000

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (4)

Entity 1 polymer

description	Piezo-type mechanosensitive ion channel component
formula_weight	289746.2 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	B,A,C
atom_count	31971

MVFSYACMVLQRIVVPAVLVLAALMRPVGISFVYLLMFFVSPFVPLATRRNFKGSVTAFFIILLTLSTLVLLGHITLQILAVSLTLPIYNCSFSERLLRHIGFVSFIDLQPFAIIEWLVPEVLVFATSLGSYLTVKRVASQPVGAEQLENGEVVDGQAENAQTSSQPSAADANGGDVQQATVTTPLQQQQQQLRKRVSMISQHIHFEGLVKISPLFCLATLFFAAVLRPSVPGGFYFLIFLLSGTYWATCQTLQRGFALLLRCVMVVLVLHSLSIVSYQTPWMQSHLNHTTLTARLIGLEPLIESYCSPDIRVFLYNNKLSLDSYLNPFALFFAYFALALTTKHLIKPRLVRQSTRKARTPQPLESGSSVAPSVTQRGNDMQLESMEQRSEQENTTTSILDQISYGFVSVGGFIYQNSYIFTNILMMAWSIVYHSWLTFVLLLSANVLWMIPNQRKAMMRSSPFIVLYAEALLIAQYIYGMDLNNEELPTSVPTAGINLQQIGFERPIENQMRPCVPLIVKTAFVLMFWVTSRQFFKEKRDRRRDSTLADFIAPLQITVGSAGSSYLINDGKKTSKFLKKAGDVIKNLLVRLWIWLLVLVIFLCAITGENMTGFRICYMALFLFFLLVFQSSSKAWVKIMYGFWLFLIFYAMSILILIYTYQFDKFDTYWSDYLNVSATLQKDIGLKRYQTKDLFLHLVSPTIIVILTVIQVHYFHKRFIASLQQQPLAGGSAQQKPTETTALEPAPSKRRGSAGSLRKSQGPSAEAAPGATTDFETSVRDLVRISFRKIKNKSEYIFKNFKDVFWRFLELHIMKAVYIAAFVCSVSEVCVLHIIFVGFCVLGATSRKAVQVVISRLISFIVTVIVLSKMIYQIEYLSHSQHNVVCSDNRTANNAEWIGLTKADKVTGGLMSLLRTYIIYMVIVTMHAVISLRQLQMRVKIGALNAPPTKLLFPNIIRADAEKDLVGLVKYLLNFGFYKFGIEISLIALVSTITYRQDIVAVVYALWLVVLLLLRRSQCAKIWGVFQAFFAISILTQYIVLVGLPPSSCLVFPWDEGPFGEGIQRWAMLPGALHFNHVPKLIFDFIVLVILNRQKSIFCIEQRYASNDDYPGGSNRSVIADIAQLGRVPFDNPTHDFCSYIRNYSDILKNGVLCGFYWFTLAVVFLAGTNIADLLALGYLIGAFIFLWQGSDFYLRPIHTIIFRWKWLLAFNVANILIKTSFQMAGCLFMTQLTKDCCWLVHMLGITCTSNVLTEQIMLPEEAELALKPGECPKITHQVVLLWDTICFAFIIFQLRIFKSHYFCHIITDTKANNILASRGADIIESLRHKQIAHRHDHEKQVLHKIKRKMERIRATQQKMLRPLDKQTHFDEHGYPLPAPTVRRRKEIKLHPHATRAGDYYMFEEMDDKFELDLIHDEIDFLEEENITESEMKMQRRKTLYDKSKDAPTGEFPSTSKGISKERDAATASSSASPAPTRDVGDLPVIPPPSTGLGREQTSKETSDSKSKMEVDSGEVTAKDSDEDFDTNPIIRLLEGFLVTLTIRLNRFSRNYRFVNRILAGEKKTLKESSSLNRLGLSSAAAMFHFLKSNLESDESEPPASSSTPRRVVIAPPNATEHSDPTSTTLNTNTTTTPLSPPEPLQPLQPLQPNTTSTPQQQHQHIRAAEEIIELPVDTVDGVAHRKQSINSSPPAKGAGEFNLEEENFAQRDHHIIVEVLISSWYALLANTDLICYIVVFINQVVNASLISLPLPIMVFLWGTLSLPRPTKTFWVTLIAYTQAIVLIKCIFQFKLIWSNYHQLPNQPLTPAKIFGVENKAHYAIYDLILLLVLFLHRYLLKSQGLWKSGYKDTDNQFTKPTASIDERDDSDNLSQPDSRQLNDDAAQKLSLQVSQASLPGSPEFSKTGINQLERTKYTSSLYKFFFSLVHKSRLATDVYALMFLCDFVNFFVLLFGFTAFGTQQTESDEGVQTYLAENKVPIPFLIMLLVQFLLIVIDRALYLRKALVNKIIFHFFSVIGIHIWMFFVVPAVTERTFNSLAPPIIFYVIKCFYMLLSSYQIKSGYPKRILGNFFTKGFSMVNMIAFKVYMQIPFLYELRTILDWVCIDSTMTIFDWLKMEDIFSNIYLIRCTRQSETDFPAMRAQKKASLSKLIMGGTIVLLIVICIWGPLCLFALGNAVGTSNVPFHVSLSIRIGPYDPIYTTNNYDSIFEINPEMYSQMTNAYIKEKQALTFIAGYDATDVAAVRLAGNSPSLWNIAPPDRQRLLNDLRNNHTLKARFSYSLTRKAPAKGLKENVGDEHAISLDESFEGRAALIHMLSETHDVEPIYSNGTTNGTTPEVEEVVVIPGMIPKFIKVLNSGDAAVVSVLSPKHYDYRPLVIKMHRDNETNGLWWEIRDYCNDTFYNETLSKFAYSNCTSGIVMYTFNDKKFPSTFSFLTAGGIIGLYTTFVLLASRFMKSFIGGQNRKIMFEDLPYVDRVLQLCLDIYLVREALEFALEEDLFAKLLFLYRSPETLIKWTRPKEEYVDDDGDTDSIPSRMSVRRPEQLQPQQPQ

Source

organism	Drosophila
common_name	fruit flies
ncbi_taxonomy_id	7215
host_organism	Homo sapiens

Entity 2 non-polymer

description	;(9R,11S)-9-({[(1S)-1-HYDROXYHEXADECYL]OXY}METHYL)-2,2-DIMETHYL-5,7,10-TRIOXA-2LAMBDA~5~-AZA-6LAMBDA~5~-PHOSPHAOCTACOSANE-6,6,11-TRIOL ;
formula_weight	767.1 kDa
src_method	syn
entity_count	12

Entity 3 non-polymer

description	1,2-dioleoyl-sn-glycero-3-phosphoethanolamine
formula_weight	744.0 kDa
src_method	syn
entity_count	3

Entity 4 non-polymer

description	O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine
formula_weight	792.1 kDa
src_method	syn
entity_count	3

▶

6. Citations (1)

▶

length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	3.95 Å
resolution_method	—
num_particles	678118

fit	/app/data/saxs_computation/w7/9w7x/9w7x.fit
pddf	/app/data/pr_computation/w7/9w7x/9w7x.pr.out
profile	/app/data/saxs_computation/w7/9w7x/9w7x.dat

Cryo-EM structure of dPIEZO channel

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

EM 3D