3c0e

Yeast Hsp82 N-terminal domain: effects of mutants 98-99 KS-AA

Method: X-RAY DIFFRACTION Dmax: 64.2 Å Quality: GOOD

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

ATP-dependent molecular chaperone HSP82

Saccharomyces cerevisiae

UniProt P02829

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 monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 1–220 Fragment:N-terminal Domain (Residues 1-220) Mutation:K98A, S99A No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 5;291 K;100mM Na Succinate, 45-75 mM CaCl2, 10-15% PEG 550MME, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K Resolution 1.90 Å R-free 0.231

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.

47 other PDB entries and 61 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name HSP82_YEAST
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 21–240; UniProt 1–220

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 3c0e

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 3c0e
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2. Structure Basics 2. Structure Basics

Entry ID entry_id3c0e
Deposition date deposition_date2008-01-19
Structure title titleYeast Hsp82 N-terminal domain: effects of mutants 98-99 KS-AA
Keywords keywordsGRP94, HSP82, HSP90, HTPG, chaperone, ligand, GELDANAMYCIN, ATP-binding, Cytoplasm, Nucleotide-binding, Stress response; CHAPERONE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier18.22
Radius of gyration Rg (electron density) rg_electron16.91
Forward intensity I(0) i09934790.00
Molecular weight molecular_weight23917.0 kDa
Excluded volume excluded_volume30172 ų
Envelope volume envelope_volume34319 ų
Hydration-shell volume shell_volume16926 ų
Envelope diameter envelope_diameter64.9
Shell Rg shell_rg23.14
Envelope Rg envelope_rg17.38
Shape Rg shape_rg16.89
Total Rg total_rg17.95
Total atoms total_atoms1685
Residues n_residues215
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 dmax64.2
Rg (real space) rg_real18.12
Rg uncertainty (real space) rg_real_error0.40
I(0) (real space) i0_real9.9350e+06
I(0) uncertainty (real space) i0_real_error1.2220e+05
Rg (reciprocal space) rg_reciprocal18.13
I(0) (reciprocal space) i0_reciprocal9935000.0000
Solution quality estimate total_estimate0.8495
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary24.3
Skewness Skewness skewness0.151
Kurtosis Kurtosis kurtosis-0.306
Angular range angular_range— – 0.4350 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha2452000.0000
Real-space data points n_real_points75
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.681; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.999

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

7. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd3c0ea1
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.122 — ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily Superfamily superfamilyd.122.1 — ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family Family familyd.122.1.1 — Heat shock protein 90, HSP90, N-terminal domain
Domain ID domain_idd3c0ea2
Class classl — Artifacts
Fold Fold foldl.1 — Tags
Superfamily Superfamily superfamilyl.1.1 — Tags
Family Family familyl.1.1.1 — Tags

CATH v4.4 (1 domains)

Domain ID domain_id3c0eA00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology565 — Heat Shock Protein 90
Homologous superfamily homologous superfamily10 — Histidine kinase-like ATPase, C-terminal domain

8. Citations (1)

9. Files and Curves (10)