6hbl

Echovirus 18 Open particle without three pentamers

Method: ELECTRON MICROSCOPY Dmax: 267.2 Å Quality: GOOD

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

Echovirus 18 capsid protein 1

OrganismNot specified

UniProt Q8V635

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 homooligomer Homooligomer Protein × 135 PDB declaration: 45-meric(45) Count mismatch; review required Chain A; UniProt 569–855 Chain B; UniProt 70–329 Chain C; UniProt 330–568 Chain D; UniProt 569–855 Chain E; UniProt 70–329 Chain F; UniProt 330–568 Chain G; UniProt 569–855 Chain H; UniProt 70–329 Chain I; UniProt 330–568 Chain J; UniProt 569–855 Chain K; UniProt 70–329 Chain L; UniProt 330–568 Chain M; UniProt 569–855 Chain N; UniProt 70–329 Chain O; UniProt 330–568 Chain P; UniProt 569–855 Chain Q; UniProt 70–329 Chain R; UniProt 330–568 Chain S; UniProt 569–855 Chain T; UniProt 70–329 Chain U; UniProt 330–568 Chain V; UniProt 569–855 Chain W; UniProt 70–329 Chain X; UniProt 330–568 Chain Y; UniProt 569–855 Chain Z; UniProt 70–329 Chain a; UniProt 330–568 Chain b; UniProt 569–855 Chain c; UniProt 70–329 Chain d; UniProt 330–568 Chain e; UniProt 569–855 Chain f; UniProt 70–329 Chain g; UniProt 330–568 Chain h; UniProt 569–855 Chain i; UniProt 70–329 Chain j; UniProt 330–568 Chain k; UniProt 569–855 Chain l; UniProt 70–329 Chain m; UniProt 330–568 Chain n; UniProt 569–855 Chain o; UniProt 70–329 Chain p; UniProt 330–568 Chain q; UniProt 569–855 Chain r; UniProt 70–329 Chain s; UniProt 330–568 Not recorded No other associated polymer ELECTRON MICROSCOPY cryo-EM buffer:pH 6 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.70 Å

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.

6 other PDB entries and 14 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q8V635_9ENTO
Isoform
PDB entities 1, 2, 3
Chains and sequence ranges Author chain A; PDBConstruct 1–287; UniProt 569–855 Author chain D; PDBConstruct 1–287; UniProt 569–855 Author chain G; PDBConstruct 1–287; UniProt 569–855 Author chain J; PDBConstruct 1–287; UniProt 569–855 Author chain M; PDBConstruct 1–287; UniProt 569–855 Author chain P; PDBConstruct 1–287; UniProt 569–855 Author chain S; PDBConstruct 1–287; UniProt 569–855 Author chain V; PDBConstruct 1–287; UniProt 569–855 Author chain Y; PDBConstruct 1–287; UniProt 569–855 Author chain b; PDBConstruct 1–287; UniProt 569–855 Author chain e; PDBConstruct 1–287; UniProt 569–855 Author chain h; PDBConstruct 1–287; UniProt 569–855 Author chain k; PDBConstruct 1–287; UniProt 569–855 Author chain n; PDBConstruct 1–287; UniProt 569–855 Author chain q; PDBConstruct 1–287; UniProt 569–855 Author chain B; PDBConstruct 1–260; UniProt 70–329 Author chain E; PDBConstruct 1–260; UniProt 70–329 Author chain H; PDBConstruct 1–260; UniProt 70–329 Author chain K; PDBConstruct 1–260; UniProt 70–329 Author chain N; PDBConstruct 1–260; UniProt 70–329 Author chain Q; PDBConstruct 1–260; UniProt 70–329 Author chain T; PDBConstruct 1–260; UniProt 70–329 Author chain W; PDBConstruct 1–260; UniProt 70–329 Author chain Z; PDBConstruct 1–260; UniProt 70–329 Author chain c; PDBConstruct 1–260; UniProt 70–329 Author chain f; PDBConstruct 1–260; UniProt 70–329 Author chain i; PDBConstruct 1–260; UniProt 70–329 Author chain l; PDBConstruct 1–260; UniProt 70–329 Author chain o; PDBConstruct 1–260; UniProt 70–329 Author chain r; PDBConstruct 1–260; UniProt 70–329 Author chain C; PDBConstruct 1–239; UniProt 330–568 Author chain F; PDBConstruct 1–239; UniProt 330–568 Author chain I; PDBConstruct 1–239; UniProt 330–568 Author chain L; PDBConstruct 1–239; UniProt 330–568 Author chain O; PDBConstruct 1–239; UniProt 330–568 Author chain R; PDBConstruct 1–239; UniProt 330–568 Author chain U; PDBConstruct 1–239; UniProt 330–568 Author chain X; PDBConstruct 1–239; UniProt 330–568 Author chain a; PDBConstruct 1–239; UniProt 330–568 Author chain d; PDBConstruct 1–239; UniProt 330–568 Author chain g; PDBConstruct 1–239; UniProt 330–568 Author chain j; PDBConstruct 1–239; UniProt 330–568 Author chain m; PDBConstruct 1–239; UniProt 330–568 Author chain p; PDBConstruct 1–239; UniProt 330–568 Author chain s; PDBConstruct 1–239; UniProt 330–568

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 6hbl

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 6hbl
Download Download

2. Structure Basics 2. Structure Basics

Entry ID entry_id6hbl
Deposition date deposition_date2018-08-10
Structure title titleEchovirus 18 Open particle without three pentamers
Keywords keywordsechovirus, echovirus 18, open particle, O-particle, enterovirus, picornavirus, VIRUS; VIRUS
Experimental Method methodELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier94.69
Radius of gyration Rg (electron density) rg_electron94.37
Forward intensity I(0) i016441200000.00
Molecular weight molecular_weight1109100.0 kDa
Excluded volume excluded_volume1391100 ų
Envelope volume envelope_volume2425600 ų
Hydration-shell volume shell_volume215230 ų
Envelope diameter envelope_diameter278.5
Shell Rg shell_rg93.72
Envelope Rg envelope_rg88.58
Shape Rg shape_rg94.36
Total Rg total_rg94.42
Total atoms total_atoms77940
Residues n_residues10200
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 dmax267.2
Rg (real space) rg_real94.39
Rg uncertainty (real space) rg_real_error1.54
I(0) (real space) i0_real1.6440e+10
I(0) uncertainty (real space) i0_real_error3.5410e+08
Rg (reciprocal space) rg_reciprocal94.63
I(0) (reciprocal space) i0_reciprocal16430000000.0000
Solution quality estimate total_estimate0.8465
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary133.6
Skewness Skewness skewness0.019
Kurtosis Kurtosis kurtosis-0.900
Angular range angular_range— – 0.0800 −1
Current regularization parameter α current_alpha0.0025
Highest regularization parameter α highest_alpha288700000.0000
Real-space data points n_real_points17
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 1.000; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 45 domains

CATH v4.4 (45 domains)

Domain ID domain_id6hblA00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblB00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblC00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblD00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblE00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblF00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblG00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblH00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblI00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblJ00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblK00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblL00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblM00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblN00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblO00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblP00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblQ00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblR00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblS00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblT00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblU00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblV00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblW00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblX00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblY00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblZ00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hbla00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblb00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblc00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hbld00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hble00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblf00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblg00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblh00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hbli00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblj00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblk00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hbll00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblm00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hbln00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblo00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblp00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblq00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hblr00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20
Domain ID domain_id6hbls00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20

8. Citations (1)

9. Files and Curves (10)