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1c8f

FELINE PANLEUKOPENIA VIRUS EMPTY CAPSID STRUCTURE

Method: X-RAY DIFFRACTION Dmax: 103.1 Å Quality: REASONABLE
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1. Protein Identity and Related Structures Protein Identity & Related Structures

FELINE PANLEUKOPENIA VIRUS CAPSID

OrganismNot specified

UniProt P24840

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 × 60 PDB declaration: complete icosahedral assembly（60） Consistent with protein copy count Chain A； UniProt 37–584 Not recorded CA CALCIUM ION × 180 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM Tris pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K Resolution 3.00 Å
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain A； UniProt 37–584 Not recorded CA CALCIUM ION × 3 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM Tris pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K Resolution 3.00 Å
3 Protein homooligomer Homooligomer Protein × 5 PDB declaration: pentameric（5） Consistent with protein copy count Chain A； UniProt 37–584 Not recorded CA CALCIUM ION × 15 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM Tris pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K Resolution 3.00 Å
4 Protein homooligomer Homooligomer Protein × 6 PDB declaration: hexameric（6） Consistent with protein copy count Chain A； UniProt 37–584 Not recorded CA CALCIUM ION × 18 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM Tris pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K Resolution 3.00 Å
5 Protein monomer Monomer Protein × 1 PDB declaration: monomeric（1） Consistent with protein copy count Chain A； UniProt 37–584 Not recorded CA CALCIUM ION × 3 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM Tris pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K Resolution 3.00 Å
6 Protein homooligomer Homooligomer Protein × 60 PDB declaration: 60-meric（60） Consistent with protein copy count Chain A； UniProt 37–584 Not recorded CA CALCIUM ION × 180 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.5；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM Tris pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K Resolution 3.00 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 1C8F Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1C8G FELINE PANLEUKOPENIA VIRUS EMPTY CAPSID STRUCTURE Deposited 2000-05-05 Different ligand/ion Different experimental conditions Assembly 1 Protein homooligomer Homooligomer；Protein × 60 PDB declaration: 60-MERIC
Chain A 37–584（548 aa）
Not recorded CA CALCIUM ION × 120 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM bis-Tris pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Resolution 3.00 Å
1C8G FELINE PANLEUKOPENIA VIRUS EMPTY CAPSID STRUCTURE Deposited 2000-05-05 Different ligand/ion Different experimental conditions Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 37–584（548 aa）
Not recorded CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM bis-Tris pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Resolution 3.00 Å
1C8G FELINE PANLEUKOPENIA VIRUS EMPTY CAPSID STRUCTURE Deposited 2000-05-05 Different ligand/ion Different experimental conditions Assembly 3 Protein homooligomer Homooligomer；Protein × 5 PDB declaration: pentameric
Chain A 37–584（548 aa）
Not recorded CA CALCIUM ION × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM bis-Tris pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Resolution 3.00 Å
1C8G FELINE PANLEUKOPENIA VIRUS EMPTY CAPSID STRUCTURE Deposited 2000-05-05 Different ligand/ion Different experimental conditions Assembly 4 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric
Chain A 37–584（548 aa）
Not recorded CA CALCIUM ION × 12 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM bis-Tris pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Resolution 3.00 Å
1C8G FELINE PANLEUKOPENIA VIRUS EMPTY CAPSID STRUCTURE Deposited 2000-05-05 Different ligand/ion Different experimental conditions Assembly 5 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 37–584（548 aa）
Not recorded CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；294 K；0.75-1.5% PEG8000, 8 mM CaCl2, 20 mM bis-Tris pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Resolution 3.00 Å
1FPV STRUCTURE DETERMINATION OF FELINE PANLEUKOPENIA VIRUS EMPTY PARTICLES Deposited 1993-03-04 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 60 PDB declaration: complete icosahedral assembly
Chain A 144–727（584 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.30 Å
1FPV STRUCTURE DETERMINATION OF FELINE PANLEUKOPENIA VIRUS EMPTY PARTICLES Deposited 1993-03-04 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 144–727（584 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.30 Å
1FPV STRUCTURE DETERMINATION OF FELINE PANLEUKOPENIA VIRUS EMPTY PARTICLES Deposited 1993-03-04 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 3 Protein homooligomer Homooligomer；Protein × 5 PDB declaration: pentameric
Chain A 144–727（584 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.30 Å
1FPV STRUCTURE DETERMINATION OF FELINE PANLEUKOPENIA VIRUS EMPTY PARTICLES Deposited 1993-03-04 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 4 Protein homooligomer Homooligomer；Protein × 6 PDB declaration: hexameric
Chain A 144–727（584 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.30 Å
1FPV STRUCTURE DETERMINATION OF FELINE PANLEUKOPENIA VIRUS EMPTY PARTICLES Deposited 1993-03-04 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 5 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 144–727（584 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.30 Å
1FPV STRUCTURE DETERMINATION OF FELINE PANLEUKOPENIA VIRUS EMPTY PARTICLES Deposited 1993-03-04 Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 6 Protein homooligomer Homooligomer；Protein × 60 PDB declaration: 60-meric
Chain A 144–727（584 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.30 Å

2 other PDB entries and 11 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name COAT_FPV19
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–548； UniProt 37–584

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 1c8f

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1c8f
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1c8f
Deposition date deposition_date2000-05-05
Structure title titleFELINE PANLEUKOPENIA VIRUS EMPTY CAPSID STRUCTURE
Keywords keywordsbeta barrel, viral capsid, icosahedral symmetry, Icosahedral virus, Virus; VIRUS
Experimental Method methodX-RAY DIFFRACTION
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier29.26 Å
Radius of gyration Rg (electron density) rg_electron28.57 Å
Forward intensity I(0) i063279200.00
Molecular weight molecular_weight61677.0 kDa
Excluded volume excluded_volume76847 ų
Envelope volume envelope_volume107310 ų
Hydration-shell volume shell_volume32248 ų
Envelope diameter envelope_diameter109.0 Å
Shell Rg shell_rg34.48 Å
Envelope Rg envelope_rg29.17 Å
Shape Rg shape_rg28.53 Å
Total Rg total_rg29.29 Å
Total atoms total_atoms4354
Residues n_residues548
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 dmax103.1 Å
Rg (real space) rg_real29.36 Å
Rg uncertainty (real space) rg_real_error1.21 Å
I(0) (real space) i0_real6.3280e+07
I(0) uncertainty (real space) i0_real_error1.1260e+06
Rg (reciprocal space) rg_reciprocal29.32 Å
I(0) (reciprocal space) i0_reciprocal63280000.0000
Solution quality estimate total_estimate0.6399
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary32.5 Å
Skewness Skewness skewness0.527
Kurtosis Kurtosis kurtosis0.124
Angular range angular_range— – 0.2700 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha6647000.0000
Real-space data points n_real_points55
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.734; Stabil: 1.000; Sysdev: 0.092; Positv: 1.000; Valcen: 0.977; Smooth: 0.859
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (2)

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7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd1c8fa_
Class classb — All beta proteins
Fold Fold foldb.121 — Nucleoplasmin-like/VP (viral coat and capsid proteins)
Superfamily Superfamily superfamilyb.121.5 — ssDNA viruses
Family Family familyb.121.5.2 — Parvoviridae-like VP

CATH v4.4 (1 domains)

Domain ID domain_id1c8fA00
Class class2 — Mainly Beta
Architecture architecture170 — Beta Complex
Topology topology30 — Empty Capsid Viral Protein 2
Homologous superfamily homologous superfamily10 — Parvovirus coat protein VP1/VP2
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8. Citations (5)

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9. Files and Curves (10)