8vjg

Human R14A Pin1 covalently bound to inhibitor 164A10

Method: X-RAY DIFFRACTION Dmax: 54.2 Å Quality: GOOD

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

Peptidyl-prolyl cis-trans isomerase NIMA-interacting 1

Homo sapiens

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 monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 1–163 Mutation:R14A A1ACH Nalpha-{(2S)-1-[(3S)-2-acetyl-2,3,4,9-tetrahydro-1H-pyrido[3,4-b]indole-3-carbonyl]piperidine-2-carbonyl}-5-fluoro-L-tryptophanamide × 1 P33 3,6,9,12,15,18-HEXAOXAICOSANE-1,20-DIOL × 1 DTT 2,3-DIHYDROXY-1,4-DITHIOBUTANE × 1 SO4 SULFATE ION × 5 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 7.4;277 K;HEPES-NaOH, Ammonium sulfate, PEG400, DTT Resolution 1.58 Å R-free 0.229

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 1
Chains and sequence ranges Author chain A; PDBConstruct 4–166; UniProt 1–163

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 8vjg

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8vjg
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2. Structure Basics 2. Structure Basics

Entry ID entry_id8vjg
Deposition date deposition_date2024-01-06
Structure title titleHuman R14A Pin1 covalently bound to inhibitor 164A10
Keywords keywordsDestabilizing Inhibitor, PPIase, Structure-Activity Relationship, Drug Design, ISOMERASE, ISOMERASE-INHIBITOR complex; ISOMERASE/INHIBITOR
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier16.82
Radius of gyration Rg (electron density) rg_electron15.59
Forward intensity I(0) i06986870.00
Molecular weight molecular_weight17943.0 kDa
Excluded volume excluded_volume21882 ų
Envelope volume envelope_volume25332 ų
Hydration-shell volume shell_volume13878 ų
Envelope diameter envelope_diameter55.1
Shell Rg shell_rg21.21
Envelope Rg envelope_rg15.92
Shape Rg shape_rg15.53
Total Rg total_rg16.70
Total atoms total_atoms1252
Residues n_residues145
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 dmax54.2
Rg (real space) rg_real16.75
Rg uncertainty (real space) rg_real_error0.31
I(0) (real space) i0_real6.9870e+06
I(0) uncertainty (real space) i0_real_error7.3100e+04
Rg (reciprocal space) rg_reciprocal16.76
I(0) (reciprocal space) i0_reciprocal6987000.0000
Solution quality estimate total_estimate0.8204
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks3
Primary peak position r_peak_primary21.1
Skewness Skewness skewness0.200
Kurtosis Kurtosis kurtosis-0.435
Angular range angular_range— – 0.4750 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha1603000.0000
Real-space data points n_real_points78
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.888; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (6)

8. Citations (1)

9. Files and Curves (10)