← Back to search

9y0l

Incorrectly assembled half-Pf20S

Method: ELECTRON MICROSCOPY D_max: 136.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9y0l
deposition_date	2025-08-28
title	Incorrectly assembled half-Pf20S
keywords	Proteasome, 20S proteasome, Plasmodium falciparum, HYDROLASE; HYDROLASE
method	ELECTRON MICROSCOPY

▼

Download Data

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

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	44.56 Å
rg_electron	43.87 Å
i0	1660220000.00
molecular_weight	346740.0 kDa
excluded_volume	436780 Å³
envelope_volume	573630 Å³
shell_volume	101700 Å³
envelope_diameter	139.0 Å
shell_rg	53.71 Å
envelope_rg	43.40 Å
shape_rg	43.86 Å
total_rg	44.27 Å
total_atoms	24452
n_residues	3206
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	136.9 Å
rg_real	44.23 Å
rg_real_error	0.76 Å
i0_real	1.6600e+09
i0_real_error	2.5740e+07
rg_reciprocal	44.56 Å
i0_reciprocal	1661000000.0000
total_estimate	0.8927
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	58.7 Å
skewness	0.058
kurtosis	-0.533
angular_range	— – 0.1750 Å⁻¹
current_alpha	0.0000
highest_alpha	285000000.0000
n_real_points	36
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.908; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.960; Smooth: 0.917

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (15)

Entity 1 polymer

description	Proteasome subunit alpha type-6
formula_weight	29531.7 kDa
ec_number	3.4.25.1
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	24452

MVRPSQSMYDRHLTIFSPDGNLYQIEYAIKAVKNTNITSVGVKGENCAVIISQKKMATQYISQDKLLDYNNITNIYNITDEIGCSMVGMPGDCLSMVYKARSEASEFLYSNGYNVNAETLCRNICDKIQVYTQHAYMRLHACSGMIIGIDENNKPELFKFDPSGFCAGYRACVIGNKEQESISVLERLLEKRKKKIQQETIDEDIRNTTILAIEALQTILAFDLKASEIEVAIVSTKNRNFTQISEKEIDNYLTYIAERD

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 2 polymer

description	Proteasome subunit alpha type-2
formula_weight	26556.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	B

MADGEYSFSLTTFSPTGKLVQIEYALNRVSSSSPALGIRAKNGVIIATEKKSPNELIEENSIFKIQQISEHIGIVYAGMPGDFRVLLKRARKEAIRYSLQYGSEILVKELVKIIASIVQEFTQTGGVRPFGLSLLICGVDVYGYHLYQIDPSGCYFNWMATCVGKDYQNNMSFLEKRYNKDIEIEDAIHTAILTLKESYEGVLNEKNIEIGVAYDNKPFKILTQNEIKDYLIEIE

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 3 polymer

description	Proteasome subunit alpha type-3
formula_weight	27977.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

MARRYDSRTTTFSPEGRLYQVEYALEAINNASITIGLITKDGVILGADKVFISKLIDKANNYEKIYKIDKHIFCGVAGLNADANILINQSRLYAQRYLYNYNEVQPVSQLVVQICDIKQSYTQYGGLRPYGVSFLIGGYDTKDGYQLYHTDPSGNYSGWFATAIGTNNLTASSVLKQEWKNDMTLEEGLLLALKTLAKSTDTEIPKSEKIELAYLTNKDGEVYQKYLTEKEIEELIKLYTQKYIKE

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 4 polymer

description	Proteasome subunit alpha type-4
formula_weight	27263.3 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	D

MSYDRAITVFSPDGHLLQVEHALEAVKKGGCAVAIKSSNFAVLAVEKKNIPKLQNPKTTEKLIKLDEHNCLAFAGLNADARVLVNKTRLECQRYYLNMDEPAPVDYIAKYVAKVQQKFTHRGGVRPFGIATLIAGFKNNKEICIYQTEPSGIYAAWKAQAIGKNAKIVQEFLEKNYQENMEQKDCIFLALKAIFEVVELSSKNVEVALLTEKDLTFIEEQEINSMVELIDQERTKNNEQNE

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 5 polymer

description	Proteasome subunit alpha type-5
formula_weight	28417.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	E

MFSTRSEYDRGVNTFSPEGRLFQVEYALGAIKLGSTAVGICVNDGVILASERRISSTLIEKDSVEKLLSIDDHIGCAMSGLMADARTLIDYARVECNHYKFIYNENINIKSCVELISELALDFSNLSDSKRKKIMSRPFGVALLIGGVDKNGPCLWYTEPSGTNTRFSAASIGSAQEGAELLLQENYKKDMTFEQAEILALTVLRQVMEDKLSTSNVEICAIKKSDQTFYKYNTDDISRIIDVLPSPVYPTIDMTA

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 6 polymer

description	Proteasome subunit alpha type-1
formula_weight	28871.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	F

MYRNLYDTDNIIYSPEGRLYQVEYASEAIKQGTCAVAIKSKDYVVVSGLKKCISKLSFPQEKIFKIDDYIGISMSGITSDAKVLTKFMQNECLSHKFLYNENINIESLVRSVADKYQKNTQKSSKRAFGVGLMIAAYHNEPCIFETRPNGSYFEYDALSFGARSHASKTYLEKNLHLFEECSLEELILHCLKALKCSLSSESELTISNTALAVVGKNHPWQEISSLQLEEYLSKVKMDAEQEQVEENVQNEANE

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 7 polymer

description	Proteasome subunit alpha type-3
formula_weight	29324.3 kDa
ec_number	3.4.25.1
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	G

MAGLSAGYDLSVSTFSPDGRLYQVEYIYKSINNNNTALCLECKDGIICCCINSNMDKNKMIKKNSYNRIYHVNNNIIITYSGFDGDARNIIDRARSEANTYYYNFHTNIPLHILVNRISLYIHAYTLYWHMRPFAASIIISSFNEKDKGDIYCIEPNGACYKYSGIVIGKNKEMFKTEIEKKDYKDINVRDAIEDIYKFILTSDDHMNKNNLQNLVNFSWICKESSYEFQNIHEEILTPALNKAVEYIEKLN

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 8 polymer

description	Proteasome endopeptidase complex
formula_weight	32641.7 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

MDVVNESQIKCHEEKSWDDEYDIKTPISDGTTIIGIIYDNGVMLACDSRTSSGTFISNKCSRKINRINENLYVCRSGASAHSQKIIEIIKHYCVSMKNENRKKGRFHEGETIYDETTYDEEIDIDSINYLDYNNNNDNNLVTKNKYFYEDKFNDYNPLVENVAHITKKIIYTNNNFLSCALIFGGYDKIKKQQLYAVNLNGSIIEKHDFAVSGSGSIYIQSYLQDKYKKFMTKKECFNLILNCVKYAMHNDNSSGGLIRIVNITKSFVEEFTVVNTQMNFQY

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 9 polymer

description	Proteasome subunit beta
formula_weight	29999.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	I

MKLEYINILKEENGGYNFDNLKRNEILKEKGVKFPQFRKTGTTICGLVCQNAVILGADTRATEGPIVADKNCSKLHYISKNIWCAGAGVAGDLEHTTLWLQHNVELHRLNTNTQPRVSMCVSRLTQELFKYQGYKVCAIVLGGVDVNGPQLYGIHPHGSSCLLPFTALGSGSLNAMAVLEAKYRDNMTIEEGKNLVCEAICAGIFNDLGSGGNVDICVITKDSYQHIRPYKEPNMRLYHLPHPTIYPKGTTPILSEKIEYIKKFISVEDA

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 10 polymer

description	Proteasome subunit beta-3
formula_weight	24533.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	J

MGSIYNYNGGCVLGMSGSNCVAIACDLRLGANTFTTVSTKFSKIFKMNNNVYVGLSGLATDIQTLYEILRYRVNLYEVRQDAEMDVECFANMLSSILYSNRFSPYFVNPIVVGFKLKHYVDEEGEKKVNYEPYLTAYDLIGAKCETRDFVVNGVTSEQLFGMCESLYVKDQDENGLFETISQCLLSALDRDCISGWGAEVLVLTPEKIIKKKLKARMD

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 11 polymer

description	Proteasome subunit beta-4
formula_weight	22889.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	K

MDTLIGLRGNNFVVLAADTYSINSIIKLKNDDNTKFYDIHGNKCLLLGGSIGDRLQFGEFIRKNVHLYQYQNNTDMFVKSFAFFTRKNLAYYLRRNPFEVNCLIAGYDKKDGYQLYWCDYLSNMDSVNKGAHGYGAYLVSAILDKYYHENLTVDEALDIFKLCFEELKKRFLLTQINYELRIMYDNKVETQYVTV

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 12 polymer

description	Proteasome subunit beta
formula_weight	30630.4 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L

MVIASDESFMNEIDNLINDVEDERIDNDELEFCVAPVNVPRNFIKYAQTQNKKLFDFHKGTTTLAFKFKDGIIVAVDSRASMGSFISSQNVEKIIEINKNILGTMAGGAADCLYWEKYLGKIIKIYELRNNEKISVRAASTILSNILYQYKGYGLCCGIILSGYDHTGFNMFYVDDSGKKVEGNLFSCGSGSTYAYSILDSAYDYNLNLDQAVELARNAIYHATFRDGGSGGKVRVFHIHKNGYDKIIEGEDVFDLHYHYTNPEQKDQYVM

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 13 polymer

description	Proteasome subunit beta
formula_weight	27301.2 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	M

MDLILYNDNLTEKKTEKENVIEHGRGFKRWYPYIDNGGTVIGLTGKDYVILAADTRLSLSYSIYTRFCPKISKLTDKCIIGSSGMQSDIKTLHSLLQKKIQLFVLEHSHYPDIHVIARLLCVILYSRRFFPYYAFNILAGVDENNKGVLYNYDSVGSYCEATHSCVGSGSQLILPILDNRVEQKNQLIKNTNFNLGDDINFVKDAITSATERDIYTGDKTLIYVIDKMGINVNTLDLKQD

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 14 polymer

description	Proteasome subunit beta
formula_weight	34823.0 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	N

MTLGPVVTGTSVIAIKYKHGIMIAADRKASYGSYAKFQNVERIFKINNKTVMGFSGELADAQYLHELLTRKNINNLSEKKRKEDMYTPQHYHSYVSRVFYVRKNRIDPLFNNIIIAGINSQKYDNNDDNVLLYTNKNNDDEQNEYKNNEEYKEIHKDDLYIGFVDMHGTNFCDDYITTGYARYFALTLLRDHYKDNMTEEEARILINECLRILYFRDATSSNFIQIVKVTSKGVEYEEPYILPCVLNSADYVYPSTLLPPAGCMWENLYFQSSAWSHPQFEKGGGSGGGSGGSAWSHPQFEK

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

Entity 15 polymer

description	Proteasome maturation factor UMP1
formula_weight	14623.8 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	e

MANNYLEKLNFDFKVKDVVSIRDINLEGKEKNIETFHDTILLNEEKNFLKRTGLIYGSQEVYKNILDREIVSLSRRLPGIKSSLLSLDIVRNTIDRIDSYEYMEKIDEHPLEPLSEIIEKKMNI

Source

organism	Plasmodium falciparum Dd2
ncbi_taxonomy_id	57267
host_organism	Spodoptera frugiperda

▶

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	triclinic

resolution	3.00 Å
resolution_method	—
num_particles	456152

fit	/app/data/saxs_computation/y0/9y0l/9y0l.fit
pddf	/app/data/pr_computation/y0/9y0l/9y0l.pr.out
profile	/app/data/saxs_computation/y0/9y0l/9y0l.dat

Incorrectly assembled half-Pf20S

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

5. Entities & Polymer Info (15)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 polymer

Polymer

Source

Entity 6 polymer

Polymer

Source

Entity 7 polymer

Polymer

Source

Entity 8 polymer

Polymer

Source

Entity 9 polymer

Polymer

Source

Entity 10 polymer

Polymer

Source

Entity 11 polymer

Polymer

Source

Entity 12 polymer

Polymer

Source

Entity 13 polymer

Polymer

Source

Entity 14 polymer

Polymer

Source

Entity 15 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)