3gzt

VP7 recoated rotavirus DLP

Method: ELECTRON MICROSCOPY

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

Outer capsid glycoprotein VP7

OrganismNot specified

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Other combination	Homooligomer	Protein 780 其他Polymer 780	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 780 CALCIUM ION × 1800	Consistent with protein count
2	Other combination	Homooligomer	Protein 13 其他Polymer 13	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 13 CALCIUM ION × 30	Review required
3	Other combination	Homooligomer	Protein 65 其他Polymer 65	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 65 CALCIUM ION × 150	Review required
4	Other combination	Homooligomer	Protein 78 其他Polymer 78	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 78 CALCIUM ION × 180	Review required
5	Other combination	Homooligomer	Protein 13 其他Polymer 13	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 13 CALCIUM ION × 30	Review required

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	VS09_ROTRH
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain B； PDBConstruct 1–255； UniProt 58–312 Author chain F； PDBConstruct 1–255； UniProt 58–312 Author chain G； PDBConstruct 1–255； UniProt 58–312 Author chain H； PDBConstruct 1–255； UniProt 58–312 Author chain I； PDBConstruct 1–255； UniProt 58–312 Author chain J； PDBConstruct 1–255； UniProt 58–312 Author chain K； PDBConstruct 1–255； UniProt 58–312 Author chain L； PDBConstruct 1–255； UniProt 58–312 Author chain M； PDBConstruct 1–255； UniProt 58–312 Author chain N； PDBConstruct 1–255； UniProt 58–312 Author chain O； PDBConstruct 1–255； UniProt 58–312 Author chain P； PDBConstruct 1–255； UniProt 58–312 Author chain Q； PDBConstruct 1–255； UniProt 58–312

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	3gzt
Deposition date deposition_date	2009-04-07
Structure title title	VP7 recoated rotavirus DLP
Keywords keywords	;rotavirus, VP7, VP6, VP2, 7RP, DLP, Icosahedral virus, Capsid protein, Disulfide bond, Endoplasmic reticulum, Glycoprotein, Membrane, Transmembrane, Virion, VIRUS ;; VIRUS
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.

3gzt__assembly_1__model_1

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

Download this curve (.dat)

3gzt__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

3gzt__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)	364.90 Å
Total Rg	364.90 Å
Atom count	1592220
Residues	198900
Excluded volume	28508000 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`3gzt__assembly_1__model_1`	780-MERIC （780）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`3gzt__assembly_2__model_1`	tetradecameric （14）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
3	1	`3gzt__assembly_3__model_1`	70-meric （70）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
4	1	`3gzt__assembly_4__model_1`	84-meric （84）	Excluded	—	—
	Exclusion reason： Auxiliary symmetry representation; not a complete or representative biological assembly.
5	1	`3gzt__assembly_5__model_1`	tetradecameric （14）	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	Outer capsid glycoprotein VP7
Molecular weight formula_weight	28740.5 kDa
Source method src_method	nat
Copy count entity_count	13

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	B,F,G,H,I,J,K,L,M,N,O,P,Q
Atom count atom_count	26537

PITGSMDTAYANSTQEETFLTSTLCLYYPTEAATEINDNSWKDTLSQLFLTKGWPTGSVYFKEYTDIASFSVDPQLYCDYNVVLMKYDATLQLDMSELADLILNEWLCNPMDITLYYYQQTDEANKWISMGSSCTIKVCPLNTQTLGIGCLTTDTATFEEVATAEKLVITDVVDGVNHKLDVTTATCTIRNCKKLGPRENVAVIQVGGSDVLDITADPTTAPQTERMMRINWKKWWQVFYTVVDYVNQIIQAMSK

Entity 2 Entity 2 branched

Description description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
Molecular weight formula_weight	424.4 kDa
Source method src_method	man
Copy count entity_count	13

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	30

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6. Fold Classification (SCOP + CATH) 26 domains

CATH v4.4 (26 domains)

Domain ID domain_id	3gztB01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztB02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztF01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztF02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztG01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztG02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztH01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztH02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztI01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztI02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztJ01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztJ02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztK01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztK02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztL01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztL02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztM01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztM02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztN01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztN02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztO01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztO02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztP01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztP02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

Domain ID domain_id	3gztQ01
Class class	3 — Alpha Beta
Architecture architecture	40 — 3-Layer(aba) Sandwich
Topology topology	50 — Rossmann fold
Homologous superfamily homologous superfamily	11130 — Glycoprotein VP7, domain 1

Domain ID domain_id	3gztQ02
Class class	2 — Mainly Beta
Architecture architecture	60 — Sandwich
Topology topology	120 — Jelly Rolls
Homologous superfamily homologous superfamily	800 — Rotavirus outer-layer protein VP7, domain 2

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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	90.01 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	1

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

Resolution resolution	3.80 Å
Resolution测定Method resolution_method	projection matching and refinement using FREALIGN
颗粒数 num_particles	3780

VP7 recoated rotavirus DLP

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

Outer capsid glycoprotein VP7

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

3gzt__assembly_1__model_1

3gzt__assembly_1__model_1 | I(q)

3gzt__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 branched

Entity 3 Entity 3 non-polymer

6. Fold Classification (SCOP + CATH) 26 domains

CATH v4.4 (26 domains)

7. Citations (1)

VP7 recoated rotavirus DLP

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

Outer capsid glycoprotein VP7

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

3gzt__assembly_1__model_1

3gzt__assembly_1__model_1 | I(q)

3gzt__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 (3)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 branched

Entity 3 Entity 3 non-polymer

6. Fold Classification (SCOP + CATH) 26 domains

CATH v4.4 (26 domains)

7. Citations (1)