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5z8q

Solution structure of the SBDalpha domain of yeast Ssa1

Method: SOLUTION NMR Dmax: 44.5 Å Quality: REASONABLE
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Heat shock protein SSA1

Saccharomyces cerevisiae (strain ATCC 204508 / S288c)

UniProt P10591

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 523–622 Not recorded No other associated polymer SOLUTION NMR NMR measurement conditions：pH 6.5；298 K；Ionic strength (raw mmCIF value) 90；Pressure 1 NMR sample composition：1.0 mM [U-13C; U-15N] Ssa1 SBDalpha, 90% H2O/10% D2O | 90% H2O/10% D2O Resolution not provided

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 5Z8Q Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
3LCA Structure of Tom71 complexed with Hsp70 Ssa1 C terminal tail indicating conformational plasticity Deposited 2010-01-10 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain Q 631–642（12 aa） Fragment：UNP residues 631-642
Not recorded GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；20% Ethylene Glycol, 20% PEG 6000, 0.1M Tris, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.19 Å R-free 0.271
5Z8I Solution structure of the SBDbeta domain of yeast Ssa1 Deposited 2018-01-31 Different construct Different experimental conditions Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 382–554（173 aa）
Not recorded No recorded non-water small molecule SOLUTION NMR
NMR measurement conditions pH 6.5；298 K；Ionic strength (raw mmCIF value) 90；Pressure 1
NMR sample composition 1 mM [U-13C; U-15N] Ssa1, 90% H2O/10% D2O | 90% H2O/10% D2O
Resolution not provided

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

View Construct and Data Evidence
UniProt name HSP71_YEAST
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 2–101； UniProt 523–622

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 5z8q

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5z8q
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2. Structure Basics 2. Structure Basics

Entry ID entry_id5z8q
Deposition date deposition_date2018-02-01
Structure title titleSolution structure of the SBDalpha domain of yeast Ssa1
Keywords keywordsyeast Ssa1, SBDalpha domain, CHAPERONE; CHAPERONE
Experimental Method methodSOLUTION NMR
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier16.50 Å
Radius of gyration Rg (electron density) rg_electron16.14 Å
Forward intensity I(0) i0726522000.00
Molecular weight molecular_weight215370.0 kDa
Excluded volume excluded_volume264730 ų
Envelope volume envelope_volume41280 ų
Hydration-shell volume shell_volume17067 ų
Envelope diameter envelope_diameter75.2 Å
Shell Rg shell_rg27.32 Å
Envelope Rg envelope_rg22.85 Å
Shape Rg shape_rg16.13 Å
Total Rg total_rg16.41 Å
Total atoms total_atoms29860
Residues n_residues2020
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 dmax44.5 Å
Rg (real space) rg_real15.53 Å
Rg uncertainty (real space) rg_real_error0.09 Å
I(0) (real space) i0_real6.9260e+08
I(0) uncertainty (real space) i0_real_error6.1190e+06
Rg (reciprocal space) rg_reciprocal16.74 Å
I(0) (reciprocal space) i0_reciprocal726500000.0000
Solution quality estimate total_estimate0.6676
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary15.0 Å
Skewness Skewness skewness0.375
Kurtosis Kurtosis kurtosis-0.541
Angular range angular_range— – 0.4800 Å−1
Current regularization parameter α current_alpha4.2590
Highest regularization parameter α highest_alpha217000.0000
Real-space data points n_real_points78
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.003; Oscil: 0.922; Stabil: 0.983; Sysdev: 0.000; Positv: 1.000; Valcen: 0.964; Smooth: 0.000
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (1)

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7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id5z8qA01
Class class1 — Mainly Alpha
Architecture architecture20 — Up-down Bundle
Topology topology1270 — Substrate Binding Domain Of Dnak; Chain:A; Domain 2
Homologous superfamily homologous superfamily10 —
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8. Citations (1)

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9. Files and Curves (10)