SAXSdb — 2ke9

▼

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

Caskin-2

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 284–348	Fragment：SH3 domain	No other associated polymer	SOLUTION NMR NMR measurement conditions：pH 7.8；293 K；Ionic strength (raw mmCIF value) 0.15；Pressure ambient NMR sample composition：0.6 mM [U-98% 13C; U-98% 15N] caskinSH3-1, 10 mM D2O-2, 0.05 % sodium azide-3, 150 mM sodium chloride-4, 20 mM sodium phosphate-5, 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 2KE9	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
4IS7 Crystal Structure of the CASKIN2 SAM Domain Tandem Deposited 2013-01-16	Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 483–633（151 aa） Fragment：UNP residues 483-633	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；298 K；2.4 M NaF, 15% glycerol, 0.1 M Tris-HCl, 0.5 mM protein, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 2.75 Å R-free 0.267
5L1M CASKIN2 SAM domain tandem Deposited 2016-07-29	Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 483–633（151 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；278 K；0.1 M Tris pH 7.5, 2.4 M sodium formate, 5 mM DTT	Resolution 2.75 Å R-free 0.265
7ZW4 Crystal structure of Talin R7R8 domains with Caskin-2 LD-peptide Deposited 2022-05-18	Different construct Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 1178–1202（25 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；293 K；0.1 M bis-Tris propane pH 7.0, 0.1 M NaBr and 24% PEG3350	Resolution 2.72 Å R-free 0.269

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

View Construct and Data Evidence

UniProt name	CSKI2_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 19–83； UniProt 284–348

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.

▼

2. Structure Basics 2. Structure Basics

Entry ID entry_id	2ke9
Deposition date deposition_date	2009-01-27
Structure title title	NMR solution structure of the CASKIN SH3 domain
Keywords keywords	SH3 domain, ANK repeat, Cytoplasm, Phosphoprotein, PROTEIN BINDING; PROTEIN BINDING
Experimental Method method	SOLUTION NMR

▼

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

Radius of gyration Rg (Guinier) rg_guinier	12.17 Å
Radius of gyration Rg (electron density) rg_electron	11.69 Å
Forward intensity I(0) i0	188316000.00
Molecular weight molecular_weight	113600.0 kDa
Excluded volume excluded_volume	141870 Å³
Envelope volume envelope_volume	22513 Å³
Hydration-shell volume shell_volume	13182 Å³
Envelope diameter envelope_diameter	51.4 Å
Shell Rg shell_rg	20.40 Å
Envelope Rg envelope_rg	14.80 Å
Shape Rg shape_rg	11.65 Å
Total Rg total_rg	12.15 Å
Total atoms total_atoms	13440
Residues n_residues	1005
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

▼

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

Maximum dimension Dmax dmax	48.4 Å
Rg (real space) rg_real	12.12 Å
Rg uncertainty (real space) rg_real_error	0.36 Å
I(0) (real space) i0_real	1.8830e+08
I(0) uncertainty (real space) i0_real_error	1.9910e+06
Rg (reciprocal space) rg_reciprocal	12.12 Å
I(0) (reciprocal space) i0_reciprocal	188300000.0000
Solution quality estimate total_estimate	0.7800
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	15.3 Å
Skewness Skewness skewness	0.226
Kurtosis Kurtosis kurtosis	-0.118
Angular range angular_range	— – 0.5000 Å⁻¹
Current regularization parameter α current_alpha	0.0000
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: 0.000; Oscil: 0.427; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.854; Smooth: 1.000

▶

5. Crystallography and Experiment 5. Crystallography & Experiment

▶

6. Entities and Polymers Entities & Polymers (1)

▼

7. Fold Classification (SCOP + CATH) 1 domains

CATH v4.4 (1 domains)

Domain ID domain_id	2ke9A00
Class class	2 — Mainly Beta
Architecture architecture	30 — Roll
Topology topology	30 — SH3 type barrels.
Homologous superfamily homologous superfamily	40 — SH3 Domains

▶

8. Citations (1)

▶

Unit-cell length a length_a	1.000 Å
Unit-cell length b length_b	1.000 Å
Unit-cell length c length_c	1.000 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	1

Space group space_group	P 1
Space-group number int_tables_number	1
Crystal system crystal_system	—

Description description	Caskin-2
Molecular weight formula_weight	9343.5 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	13440

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	Escherichia coli

NMR solution structure of the CASKIN SH3 domain

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

Caskin-2

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

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)

fit	/app/data/saxs_computation/ke/2ke9/2ke9.fit
pddf	/app/data/pr_computation/ke/2ke9/2ke9.pr.out
profile	/app/data/saxs_computation/ke/2ke9/2ke9.dat