SAXSdb — 4ar2

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

L2 PROTEIN III (PENTON BASE)

HUMAN ADENOVIRUS 3

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 120	FIBER PROTEIN × 60 （P03275） CALCIUM ION × 60	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 2	FIBER PROTEIN × 1 （P03275） CALCIUM ION × 1	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 10	FIBER PROTEIN × 5 （P03275） CALCIUM ION × 5	Consistent with protein count
4	Protein heterocomplex	Heteromer	Protein 12	FIBER PROTEIN × 6 （P03275） CALCIUM ION × 6	Consistent with protein count
5	Protein heterocomplex	Heteromer	Protein 2	FIBER PROTEIN × 1 （P03275） CALCIUM ION × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q2Y0H9_ADE03
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–509； UniProt 1–542

FIBER PROTEIN

HUMAN ADENOVIRUS 3

UniProt P03275

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein heterocomplex	Heteromer	Protein 120	L2 PROTEIN III (PENTON BASE) × 60 （Q2Y0H9） CALCIUM ION × 60	Consistent with protein count
2	Protein heterocomplex	Heteromer	Protein 2	L2 PROTEIN III (PENTON BASE) × 1 （Q2Y0H9） CALCIUM ION × 1	Consistent with protein count
3	Protein heterocomplex	Heteromer	Protein 10	L2 PROTEIN III (PENTON BASE) × 5 （Q2Y0H9） CALCIUM ION × 5	Consistent with protein count
4	Protein heterocomplex	Heteromer	Protein 12	L2 PROTEIN III (PENTON BASE) × 6 （Q2Y0H9） CALCIUM ION × 6	Consistent with protein count
5	Protein heterocomplex	Heteromer	Protein 2	L2 PROTEIN III (PENTON BASE) × 1 （Q2Y0H9） CALCIUM ION × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	FIBP_ADE02
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain P； PDBConstruct 1–20； UniProt 1–20

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	4ar2
Deposition date deposition_date	2012-04-20
Structure title title	Dodecahedron formed of penton base protein from adenovirus Ad3
Keywords keywords	VIRAL PROTEIN, CAPSID PROTEIN, DSDNA VIRUS, DODECAHEDRON, VIRUS-LIKE PARTICLE, STRAND SWAPPING; VIRAL PROTEIN
Experimental Method method	X-RAY DIFFRACTION

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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.

4ar2__assembly_1__model_1

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

Download this curve (.dat)

4ar2__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

4ar2__assembly_1__model_1 | P(r) · Pending

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

Rg（Guinier）	99.09 Å
Rg (electron density)	98.34 Å
Total Rg	98.36 Å
Atom count	225384
Residues	27900
Excluded volume	3993800 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`4ar2__assembly_1__model_1`	120-MERIC （120）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`4ar2__assembly_2__model_1`	dimeric （2）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3	1	`4ar2__assembly_3__model_1`	decameric （10）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4	1	`4ar2__assembly_4__model_1`	dodecameric （12）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5	1	`4ar2__assembly_5__model_1`	dimeric （2）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Description description	L2 PROTEIN III (PENTON BASE)
Molecular weight formula_weight	58050.3 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A
Atom count atom_count	3757

MRRRAVLGGAVVYPEGPPPSYESVMQQQAAMIQPPLEAPFVPPRYLAPTEGRNSIRYSELSPLYDTTKLYLVDNKSADIASLNYQNDHSNFLTTVVQNNDFTPTEASTQTINFDERSRWGGQLKTIMHTNMPNVNEYMFSNKFKARVMVSRKAPEGVTVNDTYDHKEDILKYEWFEFILPEGNFSATMTIDLMNNAIIDNYLEIGRQNGVLESDIGVKFDTRNFRLGWDPETKLIMPGVYTYEAFHPDIVLLPGCGVDFTESRLSNLLGIRKRHPFQEGFKIMYEDLEGGNIPALLDVTAYEESKKDTTTETTTKKELKIQPLEKDSKSRSYNVLEDKINTAYRSWYLSYNYGNPEKGIRSWTLLTTSDVTCGAEQVYWSLPDMMQDPVTFRSTRQVNNYPVVGAELMPVFSKSFYNEQAVYSQQLRQATSLTHVFNRFPENQILIRPPAPTITTVSENVPALTDHGTLPLRSSIRGVQRVTVTDARRRTCPYVYKALGIVAPRVLSSR

Source Source

Source organism organism	HUMAN ADENOVIRUS 3
NCBI taxonomy ID ncbi_taxonomy_id	45659
Host organism host_organism	TRICHOPLUSIA NI

Entity 2 Entity 2 polymer

Description description	FIBER PROTEIN
Molecular weight formula_weight	2522.8 kDa
Source method src_method	man
Copy count entity_count	1

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	P

MKRARPSEDTFNPVYPYDTEC

Source Source

Source organism organism	HUMAN ADENOVIRUS 3
NCBI taxonomy ID ncbi_taxonomy_id	45659
Host organism host_organism	TRICHOPLUSIA NI

Entity 3 Entity 3 non-polymer

Description description	CALCIUM ION
Molecular weight formula_weight	40.1 kDa
Source method src_method	syn
Copy count entity_count	1

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6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id	4ar2A01
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	550 — Penton protein; domain 1

Domain ID domain_id	4ar2A02
Class class	3 — Alpha Beta
Architecture architecture	90 — Alpha-Beta Complex
Topology topology	1620 — adenovirus 2 penton base, domain 2
Homologous superfamily homologous superfamily	10 — adenovirus 2 penton base, domain 2

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Unit-cell length a length_a	346.040 Å
Unit-cell length b length_b	348.550 Å
Unit-cell length c length_c	372.870 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	240

Space group space_group	P 21 21 21
Space-group number int_tables_number	19
Crystal system crystal_system	—

Resolution resolution	3.800 Å
Low-resolution limit resolution_low	258.200 Å
R factor r_factor	0.2804
R_work r_work	0.2805
R_free r_free	0.2781

Dodecahedron formed of penton base protein from adenovirus Ad3

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

L2 PROTEIN III (PENTON BASE)

State in the Current Structure

Other States of the Same Protein in the Database

FIBER PROTEIN

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

4ar2__assembly_1__model_1

4ar2__assembly_1__model_1 | I(q)

4ar2__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 non-polymer

6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

7. Citations (1)

Dodecahedron formed of penton base protein from adenovirus Ad3

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

L2 PROTEIN III (PENTON BASE)

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

FIBER PROTEIN

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

4ar2__assembly_1__model_1

4ar2__assembly_1__model_1 | I(q)

4ar2__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 polymer

Polymer Polymer

Source Source

Entity 3 Entity 3 non-polymer

6. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

7. Citations (1)