9FHO | pdb_00009fho

Crystal structure of the arginine kinase Der p 20_like (putative isoform)

PDB DOI: https://doi.org/10.2210/pdb9FHO/pdb

Classification: ALLERGEN
Organism(s): Dermatophagoides pteronyssinus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-05-28 Released: 2025-06-11
Deposition Author(s): Schooltink, L., Sagmeister, T., Todorovic, N., Hofer, G., Keller, W.
Funding Organization(s): Austrian Science Fund

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.225 (Depositor), 0.225 (DCC)
R-Value Work:
0.185 (Depositor), 0.185 (DCC)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of arginine kinase To be published.

Schooltink, L., Todorovic, N., Hofer, G., Sagmeister, T., Keller, W.

To be published.

Macromolecule Content

Total Structure Weight: 40.5 kDa
Atom Count: 3,104
Modeled Residue Count: 348
Deposited Residue Count: 356
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
arginine kinase	A	356	Dermatophagoides pteronyssinus	Mutation(s): 0 Gene Names: LOC113799794 EC: 2.7.3.3
UniProt
Find proteins for A0A6P6YM67 (Dermatophagoides pteronyssinus) Explore A0A6P6YM67 Go to UniProtKB: A0A6P6YM67
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A6P6YM67
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.225 (Depositor), 0.225 (DCC)
R-Value Work: 0.185 (Depositor), 0.185 (DCC)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.561	α = 90
b = 61.894	β = 96.442
c = 61.769	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-06-11

Deposition Author(s):

Funding Organization	Location	Grant Number
Austrian Science Fund	Austria	F4604
Austrian Science Fund	Austria	Doc130

Revision History (Full details and data files)

Version 1.0: 2025-06-11
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.