7nja

14-3-3 sigma with Pin1 binding site pS72 and covalently bound LvD1006

Method: X-RAY DIFFRACTION Dmax: 63.9 Å Quality: GOOD

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

14-3-3 protein sigma

Homo sapiens

UniProt P31947

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 heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 1–248 Non-standard monomer:Yes (specific site not provided by mmCIF) Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1 × 2 (Q13526) UG2 [4-(2-phenylimidazol-1-yl)phenyl]methanol × 2 CL CHLORIDE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7.1;277 K;0.095 M HEPES Na pH 7.1, 27% PEG400, 0.19M Calcium chloride, 5% Glycerol Resolution 1.75 Å R-free 0.265

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.

523 other PDB entries and 543 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name 1433S_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 6–253; UniProt 1–248

Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1

OrganismNot specified

UniProt Q13526

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 heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain P; UniProt 61–77 Non-standard monomer:Yes (specific site not provided by mmCIF) 14-3-3 protein sigma × 2 (P31947) UG2 [4-(2-phenylimidazol-1-yl)phenyl]methanol × 2 CL CHLORIDE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7.1;277 K;0.095 M HEPES Na pH 7.1, 27% PEG400, 0.19M Calcium chloride, 5% Glycerol Resolution 1.75 Å R-free 0.265

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.

189 other PDB entries and 218 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name PIN1_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain P; PDBConstruct 1–17; UniProt 61–77

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 7nja

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 7nja
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2. Structure Basics 2. Structure Basics

Entry ID entry_id7nja
Deposition date deposition_date2021-02-16
Structure title title14-3-3 sigma with Pin1 binding site pS72 and covalently bound LvD1006
Keywords keywords1433, PEPTIDE BINDING PROTEIN, Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1; PEPTIDE BINDING PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier19.53
Radius of gyration Rg (electron density) rg_electron18.38
Forward intensity I(0) i012958600.00
Molecular weight molecular_weight26322.0 kDa
Excluded volume excluded_volume32695 ų
Envelope volume envelope_volume38512 ų
Hydration-shell volume shell_volume17724 ų
Envelope diameter envelope_diameter66.1
Shell Rg shell_rg24.42
Envelope Rg envelope_rg18.80
Shape Rg shape_rg18.36
Total Rg total_rg19.34
Total atoms total_atoms1845
Residues n_residues232
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −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

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

Maximum dimension Dmax dmax63.9
Rg (real space) rg_real19.44
Rg uncertainty (real space) rg_real_error0.40
I(0) (real space) i0_real1.2960e+07
I(0) uncertainty (real space) i0_real_error1.5320e+05
Rg (reciprocal space) rg_reciprocal19.46
I(0) (reciprocal space) i0_reciprocal12960000.0000
Solution quality estimate total_estimate0.8093
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks3
Primary peak position r_peak_primary24.3
Skewness Skewness skewness0.222
Kurtosis Kurtosis kurtosis-0.361
Angular range angular_range— – 0.4050 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha2832000.0000
Real-space data points n_real_points72
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.841; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

8. Citations (1)

9. Files and Curves (10)