Macromolecule Content

Total Structure Weight: 28.95 kDa
Atom Count: 2204
Residue Count: 249
Unique protein chains: 2

5F8X

The crystal structure of human plasma kallikrein in complex with its peptide inhibitor pkalin-3

DOI: 10.2210/pdb5F8X/pdb
Entry: 5F8X supersedes: 4ZJ6

Classification: HYDROLASE/HYDROLASE INHIBITOR
Organism(s): Homo sapiens, synthetic construct
Expression System: Komagataella pastoris
Mutation(s): Yes

Deposited: 2015-12-09 Released: 2016-12-14
Deposition Author(s): Xu, M., Jiang, L., Xu, P., Luo, Z., Andreasen, P., Huang, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.243
R-Value Work: 0.221
R-Value Observed: 0.222

wwPDB Validation 3D Report Full Report

Literature

The Crystal Structure Of Human Plasma Kallikrein In Complex With Its Peptide Inhibitor Pkalin-3

Xu, M., Jiang, L., Xu, P., Luo, Z., Andreasen, P., Huang, M.

To be published.

Macromolecules

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(by identity cutoff) | Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Plasma kallikrein	A	239	Homo sapiens	Mutation(s): 1 Gene Names: KLKB1, KLK3 EC: 3.4.21.34
Find proteins for P03952 (Homo sapiens) Explore P03952 Go to UniProtKB: P03952
NIH Common Fund Data Resources
PHAROS: P03952 GTEx: ENSG00000164344
Protein Feature View Expand
Reference Sequence

Find similar proteins by: Sequence | Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
CYS-PRO-ALA-ARG-PHE-M70-ALA-LEU-TRP-CYS	B	10	synthetic construct	Mutation(s): 0
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MRZ Query on MRZ Download Ideal Coordinates CCD File SDF format, chain K [B] MOL2 format, chain K [B]	B	piperidine-1-carboximidamide C₆ H₁₃ N₃ QUUYRYYUKNNNNS-UHFFFAOYSA-N		Ligand Interaction
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain C [A] SDF format, chain D [A] SDF format, chain E [A] SDF format, chain F [A] SDF format, chain G [A] SDF format, chain H [A] SDF format, chain I [A] SDF format, chain J [A] MOL2 format, chain C [A] MOL2 format, chain D [A] MOL2 format, chain E [A] MOL2 format, chain F [A] MOL2 format, chain G [A] MOL2 format, chain H [A] MOL2 format, chain I [A] MOL2 format, chain J [A]	A	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.243
R-Value Work: 0.221
R-Value Observed: 0.222
Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.339	α = 90
b = 90.339	β = 90
c = 57.346	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data scaling

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Deposited Date: 2015-12-09
Released Date: 2016-12-14

Deposition Author(s):

This entry supersedes: 4ZJ6

Revision History

Version 1.0: 2016-12-14
Type: Initial release

RCSB PDB is funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.