1ej6

Reovirus core

Method: X-RAY DIFFRACTION Dmax: 235.8 Å Quality: GOOD

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

LAMBDA2

OrganismNot specified

UniProt P11079

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 300 PDB declaration: complete icosahedral assembly(300) Consistent with protein copy count Chain A; UniProt 1–1289 Not recorded LAMBDA1 × 120 (P15024) SIGMA2 × 120 (P03525) ZN ZINC ION × 60 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
2 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain A; UniProt 1–1289 Not recorded LAMBDA1 × 2 (P15024) SIGMA2 × 2 (P03525) ZN ZINC ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
3 Protein heterocomplex Heteromer Protein × 25 PDB declaration: 25-meric(25) Consistent with protein copy count Chain A; UniProt 1–1289 Not recorded LAMBDA1 × 10 (P15024) SIGMA2 × 10 (P03525) ZN ZINC ION × 5 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
4 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric(30) Consistent with protein copy count Chain A; UniProt 1–1289 Not recorded LAMBDA1 × 12 (P15024) SIGMA2 × 12 (P03525) ZN ZINC ION × 6 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
5 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain A; UniProt 1–1289 Not recorded LAMBDA1 × 2 (P15024) SIGMA2 × 2 (P03525) ZN ZINC ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
6 Protein heterocomplex Heteromer Protein × 25 PDB declaration: 25-meric(25) Consistent with protein copy count Chain A; UniProt 1–1289 Not recorded LAMBDA1 × 10 (P15024) SIGMA2 × 10 (P03525) ZN ZINC ION × 5 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

5 other PDB entries and 9 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name MCE_REOVD
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–1289; UniProt 1–1289

LAMBDA1

OrganismNot specified

UniProt P15024

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 300 PDB declaration: complete icosahedral assembly(300) Consistent with protein copy count Chain B; UniProt 1–1275 Chain C; UniProt 1–1275 Not recorded LAMBDA2 × 60 (P11079) SIGMA2 × 120 (P03525) ZN ZINC ION × 60 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
2 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain B; UniProt 1–1275 Chain C; UniProt 1–1275 Not recorded LAMBDA2 × 1 (P11079) SIGMA2 × 2 (P03525) ZN ZINC ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
3 Protein heterocomplex Heteromer Protein × 25 PDB declaration: 25-meric(25) Consistent with protein copy count Chain B; UniProt 1–1275 Chain C; UniProt 1–1275 Not recorded LAMBDA2 × 5 (P11079) SIGMA2 × 10 (P03525) ZN ZINC ION × 5 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
4 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric(30) Consistent with protein copy count Chain B; UniProt 1–1275 Chain C; UniProt 1–1275 Not recorded LAMBDA2 × 6 (P11079) SIGMA2 × 12 (P03525) ZN ZINC ION × 6 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
5 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain B; UniProt 1–1275 Chain C; UniProt 1–1275 Not recorded LAMBDA2 × 1 (P11079) SIGMA2 × 2 (P03525) ZN ZINC ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
6 Protein heterocomplex Heteromer Protein × 25 PDB declaration: 25-meric(25) Consistent with protein copy count Chain B; UniProt 1–1275 Chain C; UniProt 1–1275 Not recorded LAMBDA2 × 5 (P11079) SIGMA2 × 10 (P03525) ZN ZINC ION × 5 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence
UniProt name VL1_REOVD
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–1275; UniProt 1–1275 Author chain C; PDBConstruct 1–1275; UniProt 1–1275

SIGMA2

OrganismNot specified

UniProt P03525

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein heterocomplex Heteromer Protein × 300 PDB declaration: complete icosahedral assembly(300) Consistent with protein copy count Chain D; UniProt 1–418 Chain E; UniProt 1–418 Not recorded LAMBDA2 × 60 (P11079) LAMBDA1 × 120 (P15024) ZN ZINC ION × 60 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
2 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain D; UniProt 1–418 Chain E; UniProt 1–418 Not recorded LAMBDA2 × 1 (P11079) LAMBDA1 × 2 (P15024) ZN ZINC ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
3 Protein heterocomplex Heteromer Protein × 25 PDB declaration: 25-meric(25) Consistent with protein copy count Chain D; UniProt 1–418 Chain E; UniProt 1–418 Not recorded LAMBDA2 × 5 (P11079) LAMBDA1 × 10 (P15024) ZN ZINC ION × 5 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
4 Protein heterocomplex Heteromer Protein × 30 PDB declaration: 30-meric(30) Consistent with protein copy count Chain D; UniProt 1–418 Chain E; UniProt 1–418 Not recorded LAMBDA2 × 6 (P11079) LAMBDA1 × 12 (P15024) ZN ZINC ION × 6 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
5 Protein heterocomplex Heteromer Protein × 5 PDB declaration: pentameric(5) Consistent with protein copy count Chain D; UniProt 1–418 Chain E; UniProt 1–418 Not recorded LAMBDA2 × 1 (P11079) LAMBDA1 × 2 (P15024) ZN ZINC ION × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208
6 Protein heterocomplex Heteromer Protein × 25 PDB declaration: 25-meric(25) Consistent with protein copy count Chain D; UniProt 1–418 Chain E; UniProt 1–418 Not recorded LAMBDA2 × 5 (P11079) LAMBDA1 × 10 (P15024) ZN ZINC ION × 5 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7;298 K;sodium chloride, sodium acetate, magnesium chloride, hepes, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K Resolution 3.60 Å R-free 0.208

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

2 other PDB entries and 2 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name VSI2_REOVD
Isoform
PDB entities 3
Chains and sequence ranges Author chain D; PDBConstruct 1–418; UniProt 1–418 Author chain E; PDBConstruct 1–418; UniProt 1–418

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.

SAXS scattering curve SAXS Profile

SAXS profile for 1ej6

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1ej6
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1ej6
Deposition date deposition_date2000-02-29
Structure title titleReovirus core
Keywords keywordsvirus, icosahedral, non-equivalence, dsRNA virus, methylase, methyltransferase, guanylyltransferase, zinc finger, Icosahedral virus; VIRUS
Experimental Method methodX-RAY DIFFRACTION

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier67.08
Radius of gyration Rg (electron density) rg_electron67.15
Forward intensity I(0) i03328250000.00
Molecular weight molecular_weight489630.0 kDa
Excluded volume excluded_volume612960 ų
Envelope volume envelope_volume906350 ų
Hydration-shell volume shell_volume113020 ų
Envelope diameter envelope_diameter231.3
Shell Rg shell_rg66.82
Envelope Rg envelope_rg66.33
Shape Rg shape_rg67.20
Total Rg total_rg66.98
Total atoms total_atoms34486
Residues n_residues4369
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax235.8
Rg (real space) rg_real67.11
Rg uncertainty (real space) rg_real_error3.17
I(0) (real space) i0_real3.3280e+09
I(0) uncertainty (real space) i0_real_error7.9060e+07
Rg (reciprocal space) rg_reciprocal66.80
I(0) (reciprocal space) i0_reciprocal3326000000.0000
Solution quality estimate total_estimate0.8673
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary71.8
Skewness Skewness skewness0.225
Kurtosis Kurtosis kurtosis-0.716
Angular range angular_range— – 0.1150 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha174700000.0000
Real-space data points n_real_points24
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.838; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.938; Smooth: 0.818

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (4)

7. Fold Classification (SCOP + CATH) 14 domains

SCOP 2.08 (5 domains)

Domain ID domain_idd1ej6a_
Class classi — Low resolution protein structures
Fold Fold foldi.7 — Reovirus components
Superfamily Superfamily superfamilyi.7.1 — Reovirus components
Family Family familyi.7.1.1 — Reovirus components
Domain ID domain_idd1ej6b_
Class classi — Low resolution protein structures
Fold Fold foldi.7 — Reovirus components
Superfamily Superfamily superfamilyi.7.1 — Reovirus components
Family Family familyi.7.1.1 — Reovirus components
Domain ID domain_idd1ej6c_
Class classi — Low resolution protein structures
Fold Fold foldi.7 — Reovirus components
Superfamily Superfamily superfamilyi.7.1 — Reovirus components
Family Family familyi.7.1.1 — Reovirus components
Domain ID domain_idd1ej6d_
Class classi — Low resolution protein structures
Fold Fold foldi.7 — Reovirus components
Superfamily Superfamily superfamilyi.7.1 — Reovirus components
Family Family familyi.7.1.1 — Reovirus components
Domain ID domain_idd1ej6e_
Class classi — Low resolution protein structures
Fold Fold foldi.7 — Reovirus components
Superfamily Superfamily superfamilyi.7.1 — Reovirus components
Family Family familyi.7.1.1 — Reovirus components

CATH v4.4 (9 domains)

Domain ID domain_id1ej6A01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1810 — Reovirus components fold
Homologous superfamily homologous superfamily10 — Reovirus components
Domain ID domain_id1ej6A02
Class class3 — Alpha Beta
Architecture architecture55 — 3-Layer(bab) Sandwich
Topology topology60 — Reovirus components fold
Homologous superfamily homologous superfamily10 — Reovirus components
Domain ID domain_id1ej6A03
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily10760 — Reovirus core
Domain ID domain_id1ej6A04
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily150 — Vaccinia Virus protein VP39
Domain ID domain_id1ej6A05
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id1ej6B00
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1830 — Inner capsid protein lambda-1
Homologous superfamily homologous superfamily10 — Inner capsid protein lambda-1
Domain ID domain_id1ej6C00
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1830 — Inner capsid protein lambda-1
Homologous superfamily homologous superfamily10 — Inner capsid protein lambda-1
Domain ID domain_id1ej6D02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily1520
Domain ID domain_id1ej6E02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology287 — Helix Hairpins
Homologous superfamily homologous superfamily1520

8. Citations (1)

9. Files and Curves (10)