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5z8i

Solution structure of the SBDbeta domain of yeast Ssa1

Method: SOLUTION NMR Dmax: 67.2 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 382–554 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 mM [U-13C; U-15N] Ssa1, 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 5Z8I 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
5Z8Q Solution structure of the SBDalpha domain of yeast Ssa1 Deposited 2018-02-01 Different construct Different experimental conditions Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 523–622（100 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 1.0 mM [U-13C; U-15N] Ssa1 SBDalpha, 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 1–173； UniProt 382–554

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 5z8i

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5z8i
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2. Structure Basics 2. Structure Basics

Entry ID entry_id5z8i
Deposition date deposition_date2018-01-31
Structure title titleSolution structure of the SBDbeta domain of yeast Ssa1
Keywords keywordsHsp70, SBDbeta, 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_guinier17.18 Å
Radius of gyration Rg (electron density) rg_electron16.88 Å
Forward intensity I(0) i01946240000.00
Molecular weight molecular_weight374960.0 kDa
Excluded volume excluded_volume470770 ų
Envelope volume envelope_volume64423 ų
Hydration-shell volume shell_volume24470 ų
Envelope diameter envelope_diameter80.3 Å
Shell Rg shell_rg29.02 Å
Envelope Rg envelope_rg22.37 Å
Shape Rg shape_rg16.86 Å
Total Rg total_rg17.18 Å
Total atoms total_atoms53360
Residues n_residues3460
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 dmax67.2 Å
Rg (real space) rg_real17.18 Å
Rg uncertainty (real space) rg_real_error0.67 Å
I(0) (real space) i0_real1.9460e+09
I(0) uncertainty (real space) i0_real_error2.5740e+07
Rg (reciprocal space) rg_reciprocal17.18 Å
I(0) (reciprocal space) i0_reciprocal1946000000.0000
Solution quality estimate total_estimate0.7039
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks4
Primary peak position r_peak_primary18.6 Å
Skewness Skewness skewness0.384
Kurtosis Kurtosis kurtosis-0.017
Angular range angular_range— – 0.4650 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha1128000.0000
Real-space data points n_real_points77
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.475; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.725; 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_id5z8iA01
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology34 — Substrate Binding Domain Of DNAk; Chain A, domain 1
Homologous superfamily homologous superfamily10 — Substrate Binding Domain Of DNAk; Chain A, domain 1
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8. Citations (1)

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9. Files and Curves (10)