7joe

Crystal structure of BbKI complexed with Human Kallikrein 4

Method: X-RAY DIFFRACTION Dmax: 75.9 Å Quality: GOOD

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

Kallikrein 4 (Prostase, enamel matrix, prostate), isoform CRA_a

Homo sapiens

UniProt A0A0C4DFQ5

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 × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain E; UniProt 31–253 Not recorded Kunitz-type inihibitor × 1 (Q6VEQ7) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.5;293 K;25% PEG3350, 0.2M NaCl Resolution 2.60 Å R-free 0.226

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.

5 other PDB entries and 12 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name A0A0C4DFQ5_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain E; PDBConstruct 1–223; UniProt 31–253

Kunitz-type inihibitor

Bauhinia bauhinioides

UniProt Q6VEQ7

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 × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain I; UniProt 19–183 Not recorded Kallikrein 4 (Prostase, enamel matrix, prostate), isoform CRA_a × 1 (A0A0C4DFQ5) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.5;293 K;25% PEG3350, 0.2M NaCl Resolution 2.60 Å R-free 0.226

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.

13 other PDB entries and 80 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q6VEQ7_BAUBA
Isoform
PDB entities 2
Chains and sequence ranges Author chain I; PDBConstruct 1–165; UniProt 19–183

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 7joe

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id7joe
Deposition date deposition_date2020-08-06
Structure title titleCrystal structure of BbKI complexed with Human Kallikrein 4
Keywords keywordsinhibitor, PLANT PROTEIN, HYDROLASE-HYDROLASE INHIBITOR complex; HYDROLASE/HYDROLASE INHIBITOR
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier22.84
Radius of gyration Rg (electron density) rg_electron21.81
Forward intensity I(0) i030633600.00
Molecular weight molecular_weight41939.0 kDa
Excluded volume excluded_volume52274 ų
Envelope volume envelope_volume61674 ų
Hydration-shell volume shell_volume23802 ų
Envelope diameter envelope_diameter77.9
Shell Rg shell_rg28.46
Envelope Rg envelope_rg22.04
Shape Rg shape_rg21.83
Total Rg total_rg22.58
Total atoms total_atoms2947
Residues n_residues384
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 dmax75.9
Rg (real space) rg_real22.85
Rg uncertainty (real space) rg_real_error0.43
I(0) (real space) i0_real3.0630e+07
I(0) uncertainty (real space) i0_real_error3.9710e+05
Rg (reciprocal space) rg_reciprocal22.84
I(0) (reciprocal space) i0_reciprocal30630000.0000
Solution quality estimate total_estimate0.8792
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary25.3
Skewness Skewness skewness0.408
Kurtosis Kurtosis kurtosis-0.252
Angular range angular_range— – 0.3500 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha11030000.0000
Real-space data points n_real_points67
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.813; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.995; Smooth: 0.992

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 1 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd7joee_
Class classb — All beta proteins
Fold Fold foldb.47 — Trypsin-like serine proteases
Superfamily Superfamily superfamilyb.47.1 — Trypsin-like serine proteases
Family Family familyb.47.1.0 — automated matches

8. Citations (1)

9. Files and Curves (10)