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9vre

Cryo-EM structure of rice multidrug resistance protein 5 (MRP5) with InsP6 in state B

Method: ELECTRON MICROSCOPY D_max: 125.0 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9vre
deposition_date	2025-07-06
title	Cryo-EM structure of rice multidrug resistance protein 5 (MRP5) with InsP6 in state B
keywords	ABC-type transporter, Monomer, TRANSPORT PROTEIN; TRANSPORT PROTEIN
method	ELECTRON MICROSCOPY

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Download Data

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

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2. SAXS Parameters (CRYSOL)

rg_guinier	37.79 Å
rg_electron	37.71 Å
i0	178277000.00
molecular_weight	112440.0 kDa
excluded_volume	142710 Å³
envelope_volume	193670 Å³
shell_volume	44071 Å³
envelope_diameter	131.4 Å
shell_rg	42.81 Å
envelope_rg	36.93 Å
shape_rg	37.73 Å
total_rg	37.96 Å
total_atoms	7898
n_residues	997
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

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3. P(r) Analysis (GNOM)

dmax	125.0 Å
rg_real	37.87 Å
rg_real_error	1.06 Å
i0_real	1.7830e+08
i0_real_error	3.3280e+06
rg_reciprocal	37.82 Å
i0_reciprocal	178300000.0000
total_estimate	0.8884
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	41.7 Å
skewness	0.303
kurtosis	-0.531
angular_range	— – 0.2100 Å⁻¹
current_alpha	0.0000
highest_alpha	22980000.0000
n_real_points	43
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.918; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.970; Smooth: 0.821

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4. Crystallography & Experiment

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5. Entities & Polymer Info (2)

Entity 1 polymer

description	ABC transporter C family member 13
formula_weight	166321.9 kDa
ec_number	7.-.-.-
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	7898

MPHFPNLPLPEAAAAAAHAALLALALLLLLLRSARALASRCASCLKTAPRRAAAVDGGLAAASSVGAWYRAALACCGYALLAQVAALSYEVAVAGSHVAVEALLLPAVQALAWAALLALAMQARAVGWGRFPVLVRVWWVVSFVLCVGIAYDDTRHLMGDDDDDEVDYAHMVANFASAPALGFLCLVGVMGSTGVELEFTDDDSSVHEPLLLGGQRRDADEEPGCLRVTPYGDAGIVSLATLSWLSPLLSVGAQRPLELADIPLMAHKDRAKSCYKAMSSHYERQRMERPGSEPSLAWAILKSFWREAAINGAFAAVNTIVSYVGPYLISYFVDYLSGKIEFPHEGYILASVFFVAKLLETLTARQWYLGVDVMGIHVKSGLTAMVYRKGLRLSNSSRQSHTSGEIVNYMAVDVQRVGDYAWYFHDIWMLPLQIILALAILYKNVGIAMVSTLVATVLSIAASVPVAKLQEHYQDKLMASKDERMRKTSECLKNMRILKLQAWEDRYRLKLEEMRNVECKWLRWALYSQAAVTFVFWSSPIFVAVITFGTCILLGGELTAGGVLSALATFRILQEPLRNFPDLISMIAQTRVSLDRLSHFLQQEELPDDATITVPHGSTDKAININDATFSWNPSSPTPTLSGINLSVVRGMRVAVCGVIGSGKSSLLSSILGEIPKLCGQVRISGSAAYVPQTAWIQSGNIEENILFGSPMDKQRYKRVIEACSLKKDLQLLQYGDQTIIGDRGINLSGGQKQRVQLARALYQDADIYLLDDPFSAVDAHTGSELFREYILTALASKTVIYVTHQIEFLPAADLILVLKDGHITQAGKYDDLLQAGTDFNALVCAHKEAIETMEFSEDSDEDTVSSVPIKRLTPSVSNIDNLKNKVSNNEKPSSTRGIKEKKKKPEERKKKRSVQEEERERGRVSLQVYLSYMGEAYKGTLIPLIILAQTMFQVLQIASNWWMAWANPQTEGDAPKTDSVVLLVVYMSLAFGSSLFVFVRSLLVATFGLATAQKLFVKMLRCVFRAPMSFFDTTPSGRILNRVSVDQSVVDLDIAFRLGGFASTTIQLLGIVAVMSKVTWQVLILIVPMAVACMWMQRYYIASSRELTRILSVQKSPVIHLFSESIAGAATIRGFGQEKRFMKRNLYLLDCFARPLFSSLAAIEWLCLRMELLSTFVFAFCMAILVSFPPGTIEPSMAGLAVTYGLNLNARMSRWILSFCKLENRIISVERIYQYCKLPSEAPLIIENSRPSSSWPENGNIELVDLKVRYKDDLPLVLHGISCIFPGGKKIGIVGRTGSGKSTLIQALFRLIEPTGGKVIIDDVDISRIGLHDLRSRLSIIPQDPTLFEGTIRMNLDPLEECTDQEIWEALEKCQLGEVIRSKDEKLDSPVLENGDNWSVGQRQLIALGRALLKQAKILVLDEATASVDTATDNLIQKIIRSEFKDCTVCTIAHRIPTVIDSDLVLVLSDGKIAEFDTPQRLLEDKSSMFMQLVSEYSTRSSCI

Source

organism	Oryza sativa Japonica Group
common_name	Japanese rice
ncbi_taxonomy_id	39947
host_organism	Homo

Entity 2 non-polymer

description	INOSITOL HEXAKISPHOSPHATE
formula_weight	660.0 kDa
src_method	syn
entity_count	1

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6. Citations (1)

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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	3.500 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.50 Å
resolution_method	—
num_particles	152640

fit	/app/data/saxs_computation/vr/9vre/9vre.fit
pddf	/app/data/pr_computation/vr/9vre/9vre.pr.out
profile	/app/data/saxs_computation/vr/9vre/9vre.dat

Cryo-EM structure of rice multidrug resistance protein 5 (MRP5) with InsP6 in state B

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

Refinement

EM 3D

5. Entities & Polymer Info (2)

Entity 1 polymer

Polymer

Source

Entity 2 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)