8ZML | pdb_00008zml

Structure of TNIK with inhibitor

PDB DOI: https://doi.org/10.2210/pdb8ZML/pdb

Classification: CELL CYCLE
Organism(s): Homo sapiens
Expression System: Escherichia phage EcSzw-2
Mutation(s): No

Deposited: 2024-05-23 Released: 2025-05-28
Deposition Author(s): Fan, Y.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.49 Å
R-Value Free:
0.326 (Depositor), 0.323 (DCC)
R-Value Work:
0.256 (Depositor), 0.257 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Structure of TNIK with inhibitor

Fan, Y.

To be published.

Macromolecule Content

Total Structure Weight: 70.87 kDa
Atom Count: 5,144
Modeled Residue Count: 601
Deposited Residue Count: 606
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRAF2 and NCK-interacting protein kinase	A, B	303	Homo sapiens	Mutation(s): 0 Gene Names: TNIK, KIAA0551 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UKE5 (Homo sapiens) Explore Q9UKE5 Go to UniProtKB: Q9UKE5
PHAROS: Q9UKE5 GTEx: ENSG00000154310
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9UKE5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1D8H (Subject of Investigation/LOI) Query on A1D8H Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain G [auth B] MOL2 format, chain C [auth A] MOL2 format, chain G [auth B] mmCIF format, chain C [auth A] mmCIF format, chain G [auth B]	C [auth A], G [auth B]	2-[5-(4-fluorophenyl)-3-propan-2-yl-imidazol-4-yl]-~{N}-[4-(4-methylpiperazin-1-yl)phenyl]-1~{H}-imidazole-4-carboxamide C₂₇ H₃₀ F N₇ O ZVDNXHUSIKGTSF-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain G [auth B] Interactions & Density Focus chain C [auth A] Focus chain G [auth B]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] mmCIF format, chain D [auth A] mmCIF format, chain E [auth A]	D [auth A], E [auth A]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain E [auth A] Interactions & Density Focus chain D [auth A] Focus chain E [auth A]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain H [auth B] MOL2 format, chain F [auth A] MOL2 format, chain H [auth B] mmCIF format, chain F [auth A] mmCIF format, chain H [auth B]	F [auth A], H [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain H [auth B] Interactions & Density Focus chain F [auth A] Focus chain H [auth B]