SAXSdb — 4rwu

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

Protein SIS1

Saccharomyces cerevisiae S288c

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 1–89	Fragment：J-domain (UNP residues 1-89)	No other associated polymer	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, SITTING DROP；pH 7；289 K；2.4 M sodium malonate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 289K	Resolution 1.25 Å R-free 0.149

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 4RWU	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
1C3G S. CEREVISIAE HEAT SHOCK PROTEIN 40 SIS1 Deposited 1999-07-27	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 180–349（170 aa） Fragment：SIS1 C-TERMINAL PEPTIDE-BINDING DOMAIN	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.2；298 K；PEG 3350 20%, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 25K	Resolution 2.70 Å R-free 0.311
2B26 The crystal structure of the protein complex of yeast Hsp40 Sis1 and Hsp70 Ssa1 Deposited 2005-09-16	Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain A 181–352（172 aa） Fragment：Yeast Hsp40 Sis1 C-terminal domain Chain B 181–352（172 aa） Fragment：Yeast Hsp40 Sis1 C-terminal domain	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 3.20 Å R-free 0.339
2B26 The crystal structure of the protein complex of yeast Hsp40 Sis1 and Hsp70 Ssa1 Deposited 2005-09-16	Different construct Different oligomeric state Different experimental conditions Different structure-quality metrics	Assembly 2 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain C 181–352（172 aa） Fragment：Yeast Hsp40 Sis1 C-terminal domain	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 3.20 Å R-free 0.339
8EOD EEVD:Sis1-81 (J domain) bound conformation Deposited 2022-10-03	Different construct Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 2–81（80 aa）	Not recorded	No recorded non-water small molecule	SOLUTION NMR NMR measurement conditions pH 7.2；298 K；Ionic strength (raw mmCIF value) 0.2；Pressure 1 NMR sample composition 500 uM [U-13C; U-15N] 15N-13C-Sis11-81:EEVD, 1 mM [U-90% 15N] 15N-Sis11-81:EEVD, 90% H2O/10% D2O \| 90% H2O/10% D2O	Resolution not provided

3 other PDB entries and 4 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	SIS1_YEAST
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 4–92； UniProt 1–89

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	4rwu
Deposition date deposition_date	2014-12-05
Structure title title	J-domain of Sis1 protein, Hsp40 co-chaperone from Saccharomyces cerevisiae
Keywords keywords	;hsp40, J-domain, cochaperone, structural genomics, APC90055.5, PSI-2, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, CHAPERONE ;; CHAPERONE
Experimental Method method	X-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier	13.91 Å
Radius of gyration Rg (electron density) rg_electron	12.61 Å
Forward intensity I(0) i0	1802620.00
Molecular weight molecular_weight	9103.0 kDa
Excluded volume excluded_volume	11424 Å³
Envelope volume envelope_volume	12965 Å³
Hydration-shell volume shell_volume	9175 Å³
Envelope diameter envelope_diameter	44.6 Å
Shell Rg shell_rg	17.65 Å
Envelope Rg envelope_rg	12.90 Å
Shape Rg shape_rg	12.58 Å
Total Rg total_rg	13.94 Å
Total atoms total_atoms	643
Residues n_residues	81
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	46.0 Å
Rg (real space) rg_real	13.86 Å
Rg uncertainty (real space) rg_real_error	0.30 Å
I(0) (real space) i0_real	1.8030e+06
I(0) uncertainty (real space) i0_real_error	2.1400e+04
Rg (reciprocal space) rg_reciprocal	13.86 Å
I(0) (reciprocal space) i0_reciprocal	1803000.0000
Solution quality estimate total_estimate	0.7382
Solution quality rating solution_quality	REASONABLE a REASONABLE solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	15.7 Å
Skewness Skewness skewness	0.192
Kurtosis Kurtosis kurtosis	-0.397
Angular range angular_range	— – 0.5000 Å⁻¹
Current regularization parameter α current_alpha	0.0000
Highest regularization parameter α highest_alpha	347600.0000
Real-space data points n_real_points	80
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.844; Stabil: 1.000; Sysdev: 0.368; Positv: 1.000; Valcen: 0.996; Smooth: 0.960

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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_id	d4rwua_
Class class	a — All alpha proteins
Fold Fold fold	a.2 — Long alpha-hairpin
Superfamily Superfamily superfamily	a.2.3 — Chaperone J-domain
Family Family family	a.2.3.0 — automated matches

CATH v4.4 (1 domains)

Domain ID domain_id	4rwuA00
Class class	1 — Mainly Alpha
Architecture architecture	10 — Orthogonal Bundle
Topology topology	287 — Helix Hairpins
Homologous superfamily homologous superfamily	110 — DnaJ domain

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8. Citations (1)

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Unit-cell length a length_a	31.645 Å
Unit-cell length b length_b	43.564 Å
Unit-cell length c length_c	65.572 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	4

Space group space_group	P 21 21 21
Space-group number int_tables_number	19
Crystal system crystal_system	—

Resolution resolution	1.250 Å
Low-resolution limit resolution_low	26.200 Å
R factor r_factor	0.1234
R_work r_work	0.1220
R_free r_free	0.1494

Description description	Protein SIS1
Molecular weight formula_weight	9918.0 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	919

J-domain of Sis1 protein, Hsp40 co-chaperone from Saccharomyces cerevisiae

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

Protein SIS1

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

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

6. Entities and Polymers Entities & Polymers (2)

Entity 1 Entity 1 polymer

Polymer Polymer

来源 Source

Entity 2 Entity 2 water

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

CATH v4.4 (1 domains)

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)

来源生物 organism	Saccharomyces cerevisiae S288c
通用名 common_name	;Baker's yeast ;
NCBI Class编号 ncbi_taxonomy_id	559292
宿主生物 host_organism	Escherichia coli

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	146

fit	/app/data/saxs_computation/rw/4rwu/4rwu.fit
pddf	/app/data/pr_computation/rw/4rwu/4rwu.pr.out
profile	/app/data/saxs_computation/rw/4rwu/4rwu.dat