Cryo-EM structure of Oryza sativa multidrug resistance protein 5 (MRP5)

Method: ELECTRON MICROSCOPY D_max: 126.0 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9vrc
deposition_date	2025-07-06
title	Cryo-EM structure of Oryza sativa multidrug resistance protein 5 (MRP5)
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	37.17 Å
rg_electron	37.39 Å
i0	98456300.00
molecular_weight	84759.0 kDa
excluded_volume	108320 Å³
envelope_volume	145140 Å³
shell_volume	34971 Å³
envelope_diameter	128.1 Å
shell_rg	40.41 Å
envelope_rg	36.65 Å
shape_rg	37.40 Å
total_rg	37.55 Å
total_atoms	5965
n_residues	756
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	126.0 Å
rg_real	37.52 Å
rg_real_error	1.31 Å
i0_real	9.8460e+07
i0_real_error	1.7490e+06
rg_reciprocal	37.31 Å
i0_reciprocal	98440000.0000
total_estimate	0.8156
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	29.3 Å
skewness	0.424
kurtosis	-0.667
angular_range	— – 0.2150 Å⁻¹
current_alpha	0.0000
highest_alpha	11550000.0000
n_real_points	44
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.728; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.573; Smooth: 0.842

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4. Crystallography & Experiment

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5. Entities & Polymer Info (1)

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	5965

MPHFPNLPLPEAAAAAAHAALLALALLLLLLRSARALASRCASCLKTAPRRAAAVDGGLAAASSVGAWYRAALACCGYALLAQVAALSYEVAVAGSHVAVEALLLPAVQALAWAALLALAMQARAVGWGRFPVLVRVWWVVSFVLCVGIAYDDTRHLMGDDDDDEVDYAHMVANFASAPALGFLCLVGVMGSTGVELEFTDDDSSVHEPLLLGGQRRDADEEPGCLRVTPYGDAGIVSLATLSWLSPLLSVGAQRPLELADIPLMAHKDRAKSCYKAMSSHYERQRMERPGSEPSLAWAILKSFWREAAINGAFAAVNTIVSYVGPYLISYFVDYLSGKIEFPHEGYILASVFFVAKLLETLTARQWYLGVDVMGIHVKSGLTAMVYRKGLRLSNSSRQSHTSGEIVNYMAVDVQRVGDYAWYFHDIWMLPLQIILALAILYKNVGIAMVSTLVATVLSIAASVPVAKLQEHYQDKLMASKDERMRKTSECLKNMRILKLQAWEDRYRLKLEEMRNVECKWLRWALYSQAAVTFVFWSSPIFVAVITFGTCILLGGELTAGGVLSALATFRILQEPLRNFPDLISMIAQTRVSLDRLSHFLQQEELPDDATITVPHGSTDKAININDATFSWNPSSPTPTLSGINLSVVRGMRVAVCGVIGSGKSSLLSSILGEIPKLCGQVRISGSAAYVPQTAWIQSGNIEENILFGSPMDKQRYKRVIEACSLKKDLQLLQYGDQTIIGDRGINLSGGQKQRVQLARALYQDADIYLLDDPFSAVDAHTGSELFREYILTALASKTVIYVTHQIEFLPAADLILVLKDGHITQAGKYDDLLQAGTDFNALVCAHKEAIETMEFSEDSDEDTVSSVPIKRLTPSVSNIDNLKNKVSNNEKPSSTRGIKEKKKKPEERKKKRSVQEEERERGRVSLQVYLSYMGEAYKGTLIPLIILAQTMFQVLQIASNWWMAWANPQTEGDAPKTDSVVLLVVYMSLAFGSSLFVFVRSLLVATFGLATAQKLFVKMLRCVFRAPMSFFDTTPSGRILNRVSVDQSVVDLDIAFRLGGFASTTIQLLGIVAVMSKVTWQVLILIVPMAVACMWMQRYYIASSRELTRILSVQKSPVIHLFSESIAGAATIRGFGQEKRFMKRNLYLLDCFARPLFSSLAAIEWLCLRMELLSTFVFAFCMAILVSFPPGTIEPSMAGLAVTYGLNLNARMSRWILSFCKLENRIISVERIYQYCKLPSEAPLIIENSRPSSSWPENGNIELVDLKVRYKDDLPLVLHGISCIFPGGKKIGIVGRTGSGKSTLIQALFRLIEPTGGKVIIDDVDISRIGLHDLRSRLSIIPQDPTLFEGTIRMNLDPLEECTDQEIWEALEKCQLGEVIRSKDEKLDSPVLENGDNWSVGQRQLIALGRALLKQAKILVLDEATASVDTATDNLIQKIIRSEFKDCTVCTIAHRIPTVIDSDLVLVLSDGKIAEFDTPQRLLEDKSSMFMQLVSEYSTRSSCI

Source

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

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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	3.210 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.21 Å
resolution_method	—
num_particles	136844

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

Cryo-EM structure of Oryza sativa multidrug resistance protein 5 (MRP5)

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 (1)

Entity 1 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)