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7bbh

Structure of Coronavirus Spike from Smuggled Guangdong Pangolin

Method: ELECTRON MICROSCOPY Dmax: 168.0 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Surface glycoprotein

Pangolin coronavirus

UniProt A0A6M3G9R1

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Homooligomer Protein × 3 其他Polymer 12 PDB declaration: trimeric（3） Consistent with protein copy count Chain A； UniProt 1–1200 Chain B； UniProt 1–1200 Chain C； UniProt 1–1200 Not recorded 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 12 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 45 ELECTRON MICROSCOPY cryo-EM buffer：pH 6 cryo-EM vitrification conditions：Cryogen ETHANE Resolution 2.90 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.

Other PDB Difference from Current Entry 7BBH Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
7DDO Cryo-EM structure of human ACE2 and GD/1/2019 RBD Deposited 2020-10-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 315–523（209 aa）
Not recorded ZN ZINC ION × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
Resolution 3.40 Å

1 other PDB entries and 1 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name A0A6M3G9R1_9BETC
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–1200； UniProt 1–1200 Author chain B； PDBConstruct 1–1200； UniProt 1–1200 Author chain C； PDBConstruct 1–1200； UniProt 1–1200

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 7bbh

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id7bbh
Deposition date deposition_date2020-12-17
Structure title titleStructure of Coronavirus Spike from Smuggled Guangdong Pangolin
Keywords keywordsCoronavirus, Pangolin, Spike, Smuggled, DSP, VIRAL PROTEIN; VIRAL PROTEIN
Experimental Method methodELECTRON MICROSCOPY
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier50.12 Å
Radius of gyration Rg (electron density) rg_electron49.82 Å
Forward intensity I(0) i01885630000.00
Molecular weight molecular_weight366850.0 kDa
Excluded volume excluded_volume460510 ų
Envelope volume envelope_volume660310 ų
Hydration-shell volume shell_volume107330 ų
Envelope diameter envelope_diameter168.6 Å
Shell Rg shell_rg55.68 Å
Envelope Rg envelope_rg49.40 Å
Shape Rg shape_rg49.86 Å
Total Rg total_rg49.89 Å
Total atoms total_atoms25827
Residues n_residues3189
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−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
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax168.0 Å
Rg (real space) rg_real50.07 Å
Rg uncertainty (real space) rg_real_error1.58 Å
I(0) (real space) i0_real1.8860e+09
I(0) uncertainty (real space) i0_real_error3.4050e+07
Rg (reciprocal space) rg_reciprocal50.15 Å
I(0) (reciprocal space) i0_reciprocal1886000000.0000
Solution quality estimate total_estimate0.8690
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary59.6 Å
Skewness Skewness skewness0.336
Kurtosis Kurtosis kurtosis-0.350
Angular range angular_range— – 0.1550 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha385800000.0000
Real-space data points n_real_points32
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.831; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.800
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (3)

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7. Fold Classification (SCOP + CATH) 3 domains

CATH v4.4 (3 domains)

Domain ID domain_id7bbhA01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily960 — Spike glycoprotein, N-terminal domain
Domain ID domain_id7bbhB01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily960 — Spike glycoprotein, N-terminal domain
Domain ID domain_id7bbhC01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology120 — Jelly Rolls
Homologous superfamily homologous superfamily960 — Spike glycoprotein, N-terminal domain
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8. Citations (1)

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9. Files and Curves (10)