7bg7

HRV14 in complex with its receptor ICAM-1

Method: ELECTRON MICROSCOPY Dmax: 94.9 Å Quality: GOOD

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

Genome polyprotein

OrganismNot specified

UniProt P03303

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: 300-meric(300) Consistent with protein copy count Chain 1; UniProt 564–856 Chain 2; UniProt 70–331 Chain 3; UniProt 332–567 Chain 4; UniProt 2–69 Not recorded Intercellular adhesion molecule 1 × 60 (P05362) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.4;PBS cryo-EM vitrification conditions:Cryogen ETHANE Resolution 2.40 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.

58 other PDB entries and 240 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name POLG_HRV14
Isoform
PDB entities 1, 2, 3, 4
Chains and sequence ranges Author chain 1; PDBConstruct 1–293; UniProt 564–856 Author chain 2; PDBConstruct 1–262; UniProt 70–331 Author chain 3; PDBConstruct 1–236; UniProt 332–567 Author chain 4; PDBConstruct 1–68; UniProt 2–69

Intercellular adhesion molecule 1

Homo sapiens

UniProt P05362

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: 300-meric(300) Consistent with protein copy count Chain B; UniProt 28–480 Not recorded Genome polyprotein × 60 (P03303) Genome polyprotein × 60 (P03303) Genome polyprotein × 60 (P03303) Genome polyprotein × 60 (P03303) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.4;PBS cryo-EM vitrification conditions:Cryogen ETHANE Resolution 2.40 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.

12 other PDB entries and 40 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ICAM1_HUMAN
Isoform
PDB entities 5
Chains and sequence ranges Author chain B; PDBConstruct 1–453; UniProt 28–480

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 7bg7

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 7bg7
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2. Structure Basics 2. Structure Basics

Entry ID entry_id7bg7
Deposition date deposition_date2021-01-06
Structure title titleHRV14 in complex with its receptor ICAM-1
Keywords keywordsenterovirus, rhinovirus 14, HRV14, RV14, native particle, VIRUS, receptor, virus-receptor complex, ICAM-1; VIRUS
Experimental Method methodELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier29.99
Radius of gyration Rg (electron density) rg_electron28.96
Forward intensity I(0) i0150123000.00
Molecular weight molecular_weight97840.0 kDa
Excluded volume excluded_volume122670 ų
Envelope volume envelope_volume149180 ų
Hydration-shell volume shell_volume41721 ų
Envelope diameter envelope_diameter100.7
Shell Rg shell_rg37.37
Envelope Rg envelope_rg29.43
Shape Rg shape_rg28.96
Total Rg total_rg29.71
Total atoms total_atoms6887
Residues n_residues885
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 dmax94.9
Rg (real space) rg_real29.90
Rg uncertainty (real space) rg_real_error0.55
I(0) (real space) i0_real1.5010e+08
I(0) uncertainty (real space) i0_real_error2.1270e+06
Rg (reciprocal space) rg_reciprocal29.94
I(0) (reciprocal space) i0_reciprocal150100000.0000
Solution quality estimate total_estimate0.8968
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary35.8
Skewness Skewness skewness0.276
Kurtosis Kurtosis kurtosis-0.382
Angular range angular_range— – 0.2650 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha30760000.0000
Real-space data points n_real_points54
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.915; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.998; Smooth: 0.911

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (6)

7. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd7bg71_
Class classb — All beta proteins
Fold Fold foldb.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamilyb.121.4 — Positive stranded ssRNA viruses
Family Family familyb.121.4.1 — Picornaviridae-like VP (VP1, VP2, VP3 and VP4)
Domain ID domain_idd7bg73_
Class classb — All beta proteins
Fold Fold foldb.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamilyb.121.4 — Positive stranded ssRNA viruses
Family Family familyb.121.4.1 — Picornaviridae-like VP (VP1, VP2, VP3 and VP4)

CATH v4.4 (1 domains)

Domain ID domain_id7bg7201
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily20

8. Citations (1)

9. Files and Curves (10)