SAXSdb — 2d9d

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

BAG family molecular chaperone regulator 5

Homo sapiens

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 275–350	Fragment：BAG domain	No other associated polymer	SOLUTION NMR NMR measurement conditions：pH 7；298 K；Ionic strength (raw mmCIF value) 345mM；Pressure ambient NMR sample composition：0.96mM 13C, 15N-labeled protein; 20mM d-Tris-HCl (pH7.0); 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 75mM GuOx; 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 2D9D	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
3A8Y Crystal structure of the complex between the BAG5 BD5 and Hsp70 NBD Deposited 2009-10-13	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 C 341–447（107 aa） Fragment：BAG domain 5, UNP residues 341-447	Not recorded	TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M Tris-HCL, 0.25M Trimethylamine n-oxide, 20% PEG MME 2000, 3% Hexanediol , pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K	Resolution 2.30 Å R-free 0.281
3A8Y Crystal structure of the complex between the BAG5 BD5 and Hsp70 NBD Deposited 2009-10-13	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 341–447（107 aa） Fragment：BAG domain 5, UNP residues 341-447	Not recorded	TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；293 K；0.1M Tris-HCL, 0.25M Trimethylamine n-oxide, 20% PEG MME 2000, 3% Hexanediol , pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K	Resolution 2.30 Å R-free 0.281

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

View Construct and Data Evidence

UniProt name	BAG5_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 8–83； UniProt 275–350

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.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	2d9d
Deposition date deposition_date	2005-12-09
Structure title title	Solution structure of the BAG domain (275-350) of BAG-family molecular chaperone regulator-5
Keywords keywords	;triple helix bundle, Structural Genomics, NPPSFA, National Project on Protein Structural and Functional Analyses, RIKEN Structural Genomics/Proteomics Initiative, RSGI, CHAPERONE ;; CHAPERONE
Experimental Method method	SOLUTION NMR

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

Radius of gyration Rg (Guinier) rg_guinier	15.63 Å
Radius of gyration Rg (electron density) rg_electron	15.10 Å
Forward intensity I(0) i0	547848000.00
Molecular weight molecular_weight	196270.0 kDa
Excluded volume excluded_volume	246200 Å³
Envelope volume envelope_volume	35531 Å³
Hydration-shell volume shell_volume	15963 Å³
Envelope diameter envelope_diameter	69.2 Å
Shell Rg shell_rg	25.03 Å
Envelope Rg envelope_rg	20.29 Å
Shape Rg shape_rg	15.09 Å
Total Rg total_rg	15.35 Å
Total atoms total_atoms	28160
Residues n_residues	1780
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	41.4 Å
Rg (real space) rg_real	14.80 Å
Rg uncertainty (real space) rg_real_error	0.06 Å
I(0) (real space) i0_real	5.2220e+08
I(0) uncertainty (real space) i0_real_error	3.8810e+06
Rg (reciprocal space) rg_reciprocal	15.76 Å
I(0) (reciprocal space) i0_reciprocal	547800000.0000
Solution quality estimate total_estimate	0.6747
Solution quality rating solution_quality	REASONABLE a REASONABLE solution
P(r) peaks n_peaks	1
Primary peak position r_peak_primary	15.2 Å
Skewness Skewness skewness	0.323
Kurtosis Kurtosis kurtosis	-0.536
Angular range angular_range	— – 0.5000 Å⁻¹
Current regularization parameter α current_alpha	5.1460
Highest regularization parameter α highest_alpha	192300.0000
Real-space data points n_real_points	80
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.003; Oscil: 0.948; Stabil: 0.979; Sysdev: 0.000; Positv: 1.000; Valcen: 0.990; 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_id	2d9dA00
Class class	1 — Mainly Alpha
Architecture architecture	20 — Up-down Bundle
Topology topology	58 — Methane Monooxygenase Hydroxylase; Chain G, domain 1
Homologous superfamily homologous superfamily	120 — BAG domain

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8. Citations (1)

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Description description	BAG family molecular chaperone regulator 5
Molecular weight formula_weight	9842.2 kDa
Source method src_method	man
Copy count entity_count	1

Polymer type type	polypeptide(L)
Chain IDs strand_id	A
Atom count atom_count	28160

来源生物 organism	Homo sapiens
通用名 common_name	human
NCBI Class编号 ncbi_taxonomy_id	9606
宿主生物 host_organism	cell free protein synthesis

fit	/app/data/saxs_computation/d9/2d9d/2d9d.fit
pddf	/app/data/pr_computation/d9/2d9d/2d9d.pr.out
profile	/app/data/saxs_computation/d9/2d9d/2d9d.dat

Solution structure of the BAG domain (275-350) of BAG-family molecular chaperone regulator-5

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

BAG family molecular chaperone regulator 5

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

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

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (1)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)