SAXSdb — 9m5r

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Amyloid-beta protein 40

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 172	No other associated polymer	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	A4_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain 0； PDBConstruct 1–40； UniProt 672–711 Author chain 1； PDBConstruct 1–40； UniProt 672–711 Author chain 2； PDBConstruct 1–40； UniProt 672–711 Author chain 3； PDBConstruct 1–40； UniProt 672–711 Author chain 4； PDBConstruct 1–40； UniProt 672–711 Author chain 5； PDBConstruct 1–40； UniProt 672–711 Author chain 6； PDBConstruct 1–40； UniProt 672–711 Author chain 7； PDBConstruct 1–40； UniProt 672–711 Author chain 8； PDBConstruct 1–40； UniProt 672–711 Author chain 9； PDBConstruct 1–40； UniProt 672–711 Author chain A； PDBConstruct 1–40； UniProt 672–711 Author chain A0； PDBConstruct 1–40； UniProt 672–711 Author chain A1； PDBConstruct 1–40； UniProt 672–711 Author chain A2； PDBConstruct 1–40； UniProt 672–711 Author chain A3； PDBConstruct 1–40； UniProt 672–711 Author chain A4； PDBConstruct 1–40； UniProt 672–711 Author chain A5； PDBConstruct 1–40； UniProt 672–711 Author chain A6； PDBConstruct 1–40； UniProt 672–711 Author chain A7； PDBConstruct 1–40； UniProt 672–711 Author chain A8； PDBConstruct 1–40； UniProt 672–711 Author chain A9； PDBConstruct 1–40； UniProt 672–711 Author chain AA； PDBConstruct 1–40； UniProt 672–711 Author chain AB； PDBConstruct 1–40； UniProt 672–711 Author chain AC； PDBConstruct 1–40； UniProt 672–711 Author chain AD； PDBConstruct 1–40； UniProt 672–711 Author chain AE； PDBConstruct 1–40； UniProt 672–711 Author chain AF； PDBConstruct 1–40； UniProt 672–711 Author chain AG； PDBConstruct 1–40； UniProt 672–711 Author chain AH； PDBConstruct 1–40； UniProt 672–711 Author chain AI； PDBConstruct 1–40； UniProt 672–711 Author chain AJ； PDBConstruct 1–40； UniProt 672–711 Author chain AK； PDBConstruct 1–40； UniProt 672–711 Author chain AL； PDBConstruct 1–40； UniProt 672–711 Author chain AM； PDBConstruct 1–40； UniProt 672–711 Author chain AN； PDBConstruct 1–40； UniProt 672–711 Author chain AO； PDBConstruct 1–40； UniProt 672–711 Author chain AP； PDBConstruct 1–40； UniProt 672–711 Author chain AQ； PDBConstruct 1–40； UniProt 672–711 Author chain AR； PDBConstruct 1–40； UniProt 672–711 Author chain AS； PDBConstruct 1–40； UniProt 672–711 Author chain AT； PDBConstruct 1–40； UniProt 672–711 Author chain AU； PDBConstruct 1–40； UniProt 672–711 Author chain AV； PDBConstruct 1–40； UniProt 672–711 Author chain AW； PDBConstruct 1–40； UniProt 672–711 Author chain AX； PDBConstruct 1–40； UniProt 672–711 Author chain AY； PDBConstruct 1–40； UniProt 672–711 Author chain AZ； PDBConstruct 1–40； UniProt 672–711 Author chain Aa； PDBConstruct 1–40； UniProt 672–711 Author chain Ab； PDBConstruct 1–40； UniProt 672–711 Author chain Ac； PDBConstruct 1–40； UniProt 672–711 Author chain Ad； PDBConstruct 1–40； UniProt 672–711 Author chain Ae； PDBConstruct 1–40； UniProt 672–711 Author chain Af； PDBConstruct 1–40； UniProt 672–711 Author chain Ag； PDBConstruct 1–40； UniProt 672–711 Author chain Ah； PDBConstruct 1–40； UniProt 672–711 Author chain Ai； PDBConstruct 1–40； UniProt 672–711 Author chain Aj； PDBConstruct 1–40； UniProt 672–711 Author chain Ak； PDBConstruct 1–40； UniProt 672–711 Author chain Al； PDBConstruct 1–40； UniProt 672–711 Author chain Am； PDBConstruct 1–40； UniProt 672–711 Author chain An； PDBConstruct 1–40； UniProt 672–711 Author chain Ao； PDBConstruct 1–40； UniProt 672–711 Author chain Ap； PDBConstruct 1–40； UniProt 672–711 Author chain Aq； PDBConstruct 1–40； UniProt 672–711 Author chain Ar； PDBConstruct 1–40； UniProt 672–711 Author chain As； PDBConstruct 1–40； UniProt 672–711 Author chain At； PDBConstruct 1–40； UniProt 672–711 Author chain Au； PDBConstruct 1–40； UniProt 672–711 Author chain Av； PDBConstruct 1–40； UniProt 672–711 Author chain Aw； PDBConstruct 1–40； UniProt 672–711 Author chain Ax； PDBConstruct 1–40； UniProt 672–711 Author chain Ay； PDBConstruct 1–40； UniProt 672–711 Author chain Az； PDBConstruct 1–40； UniProt 672–711 Author chain B； PDBConstruct 1–40； UniProt 672–711 Author chain BA； PDBConstruct 1–40； UniProt 672–711 Author chain BB； PDBConstruct 1–40； UniProt 672–711 Author chain BC； PDBConstruct 1–40； UniProt 672–711 Author chain BD； PDBConstruct 1–40； UniProt 672–711 Author chain BE； PDBConstruct 1–40； UniProt 672–711 Author chain BF； PDBConstruct 1–40； UniProt 672–711 Author chain BG； PDBConstruct 1–40； UniProt 672–711 Author chain BH； PDBConstruct 1–40； UniProt 672–711 Author chain BI； PDBConstruct 1–40； UniProt 672–711 Author chain BJ； PDBConstruct 1–40； UniProt 672–711 Author chain BK； PDBConstruct 1–40； UniProt 672–711 Author chain BL； PDBConstruct 1–40； UniProt 672–711 Author chain BM； PDBConstruct 1–40； UniProt 672–711 Author chain BN； PDBConstruct 1–40； UniProt 672–711 Author chain BO； PDBConstruct 1–40； UniProt 672–711 Author chain BP； PDBConstruct 1–40； UniProt 672–711 Author chain BQ； PDBConstruct 1–40； UniProt 672–711 Author chain BR； PDBConstruct 1–40； UniProt 672–711 Author chain BS； PDBConstruct 1–40； UniProt 672–711 Author chain BT； PDBConstruct 1–40； UniProt 672–711 Author chain BU； PDBConstruct 1–40； UniProt 672–711 Author chain BV； PDBConstruct 1–40； UniProt 672–711 Author chain BW； PDBConstruct 1–40； UniProt 672–711 Author chain BX； PDBConstruct 1–40； UniProt 672–711 Author chain BY； PDBConstruct 1–40； UniProt 672–711 Author chain BZ； PDBConstruct 1–40； UniProt 672–711 Author chain Ba； PDBConstruct 1–40； UniProt 672–711 Author chain Bb； PDBConstruct 1–40； UniProt 672–711 Author chain Bc； PDBConstruct 1–40； UniProt 672–711 Author chain Bd； PDBConstruct 1–40； UniProt 672–711 Author chain Be； PDBConstruct 1–40； UniProt 672–711 Author chain Bf； PDBConstruct 1–40； UniProt 672–711 Author chain Bg； PDBConstruct 1–40； UniProt 672–711 Author chain Bh； PDBConstruct 1–40； UniProt 672–711 Author chain Bi； PDBConstruct 1–40； UniProt 672–711 Author chain Bj； PDBConstruct 1–40； UniProt 672–711 Author chain Bk； PDBConstruct 1–40； UniProt 672–711 Author chain Bl； PDBConstruct 1–40； UniProt 672–711 Author chain Bm； PDBConstruct 1–40； UniProt 672–711 Author chain Bn； PDBConstruct 1–40； UniProt 672–711 Author chain Bo； PDBConstruct 1–40； UniProt 672–711 Author chain Bp； PDBConstruct 1–40； UniProt 672–711 Author chain Bq； PDBConstruct 1–40； UniProt 672–711 Author chain Br； PDBConstruct 1–40； UniProt 672–711 Author chain Bs； PDBConstruct 1–40； UniProt 672–711 Author chain Bt； PDBConstruct 1–40； UniProt 672–711 Author chain Bu； PDBConstruct 1–40； UniProt 672–711 Author chain Bv； PDBConstruct 1–40； UniProt 672–711 Author chain C； PDBConstruct 1–40； UniProt 672–711 Author chain D； PDBConstruct 1–40； UniProt 672–711 Author chain E； PDBConstruct 1–40； UniProt 672–711 Author chain F； PDBConstruct 1–40； UniProt 672–711 Author chain G； PDBConstruct 1–40； UniProt 672–711 Author chain H； PDBConstruct 1–40； UniProt 672–711 Author chain I； PDBConstruct 1–40； UniProt 672–711 Author chain J； PDBConstruct 1–40； UniProt 672–711 Author chain K； PDBConstruct 1–40； UniProt 672–711 Author chain L； PDBConstruct 1–40； UniProt 672–711 Author chain M； PDBConstruct 1–40； UniProt 672–711 Author chain N； PDBConstruct 1–40； UniProt 672–711 Author chain O； PDBConstruct 1–40； UniProt 672–711 Author chain P； PDBConstruct 1–40； UniProt 672–711 Author chain Q； PDBConstruct 1–40； UniProt 672–711 Author chain R； PDBConstruct 1–40； UniProt 672–711 Author chain S； PDBConstruct 1–40； UniProt 672–711 Author chain T； PDBConstruct 1–40； UniProt 672–711 Author chain U； PDBConstruct 1–40； UniProt 672–711 Author chain V； PDBConstruct 1–40； UniProt 672–711 Author chain W； PDBConstruct 1–40； UniProt 672–711 Author chain X； PDBConstruct 1–40； UniProt 672–711 Author chain Y； PDBConstruct 1–40； UniProt 672–711 Author chain Z； PDBConstruct 1–40； UniProt 672–711 Author chain a； PDBConstruct 1–40； UniProt 672–711 Author chain b； PDBConstruct 1–40； UniProt 672–711 Author chain c； PDBConstruct 1–40； UniProt 672–711 Author chain d； PDBConstruct 1–40； UniProt 672–711 Author chain e； PDBConstruct 1–40； UniProt 672–711 Author chain f； PDBConstruct 1–40； UniProt 672–711 Author chain g； PDBConstruct 1–40； UniProt 672–711 Author chain h； PDBConstruct 1–40； UniProt 672–711 Author chain i； PDBConstruct 1–40； UniProt 672–711 Author chain j； PDBConstruct 1–40； UniProt 672–711 Author chain k； PDBConstruct 1–40； UniProt 672–711 Author chain l； PDBConstruct 1–40； UniProt 672–711 Author chain m； PDBConstruct 1–40； UniProt 672–711 Author chain n； PDBConstruct 1–40； UniProt 672–711 Author chain o； PDBConstruct 1–40； UniProt 672–711 Author chain p； PDBConstruct 1–40； UniProt 672–711 Author chain q； PDBConstruct 1–40； UniProt 672–711 Author chain r； PDBConstruct 1–40； UniProt 672–711 Author chain s； PDBConstruct 1–40； UniProt 672–711 Author chain t； PDBConstruct 1–40； UniProt 672–711 Author chain u； PDBConstruct 1–40； UniProt 672–711 Author chain v； PDBConstruct 1–40； UniProt 672–711 Author chain w； PDBConstruct 1–40； UniProt 672–711 Author chain x； PDBConstruct 1–40； UniProt 672–711 Author chain y； PDBConstruct 1–40； UniProt 672–711 Author chain z； PDBConstruct 1–40； UniProt 672–711

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	9m5r
Deposition date deposition_date	2025-03-06
Structure title title	ES-type (short pitch) amyloid fibril (40) of Tottori (D7N) mutant
Keywords keywords	Amyloid, PROTEIN FIBRIL; PROTEIN FIBRIL
Experimental Method method	ELECTRON MICROSCOPY

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

9m5r__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

9m5r__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9m5r__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	0.00 Å
Rg (electron density)	119.90 Å
Total Rg	118.90 Å
Atom count	56072
Residues	3956
Excluded volume	505290 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9m5r__assembly_1__model_1`	172-meric （172）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (1)

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Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	—

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Resolution resolution	3.60 Å
Resolution测定Method resolution_method	—
颗粒数 num_particles	40424

Description description	Amyloid-beta protein 40
Molecular weight formula_weight	4334.9 kDa
Source method src_method	nat
Copy count entity_count	172

Polymer type type	polypeptide(L)
Chain IDs strand_id	;0,A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,a,b,c,d,e,f,g,h,i,j,k,l,m,n,o,p,q,r,s,t,u,v,w,x,y,z,1,2,3,4,5,6,7,8,9,AA,AB,AC,AD,AE,AF,AG,AH,AI,AJ,AK,AL,AM,AN,AO,AP,AQ,AR,AS,AT,AU,AV,AW,AX,AY,AZ,Aa,Ab,Ac,Ad,Ae,Af,Ag,Ah,Ai,Aj,Ak,Al,Am,An,Ao,Ap,Aq,Ar,As,At,Au,Av,Aw,Ax,Ay,Az,A0,A1,A2,A3,A4,A5,A6,A7,A8,A9,BA,BB,BC,BD,BE,BF,BG,BH,BI,BJ,BK,BL,BM,BN,BO,BP,BQ,BR,BS,BT,BU,BV,BW,BX,BY,BZ,Ba,Bb,Bc,Bd,Be,Bf,Bg,Bh,Bi,Bj,Bk,Bl,Bm,Bn,Bo,Bp,Bq,Br,Bs,Bt,Bu,Bv ;
Atom count atom_count	56072

ES-type (short pitch) amyloid fibril (40) of Tottori (D7N) mutant

1. Protein Identity and Related Structures Protein Identity & Related Structures

Amyloid-beta protein 40

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9m5r__assembly_1__model_1

9m5r__assembly_1__model_1 | I(q)

9m5r__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

7. Citations (1)

ES-type (short pitch) amyloid fibril (40) of Tottori (D7N) mutant

1. Protein Identity and Related Structures Protein Identity & Related Structures

Amyloid-beta protein 40

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9m5r__assembly_1__model_1

9m5r__assembly_1__model_1 | I(q)

9m5r__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

冷冻电镜 EM 3D

5. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

7. Citations (1)