3ZC6

Crystal structure of JAK3 kinase domain in complex with an indazole substituted pyrrolopyrazine inhibitor

PDB DOI: https://doi.org/10.2210/pdb3ZC6/pdb

Classification: TRANSFERASE
Organism(s): Homo sapiens
Expression System: Spodoptera frugiperda
Mutation(s): Yes

Deposited: 2012-11-16 Released: 2013-09-25
Deposition Author(s): Kuglstatter, A., Jestel, A., Nagel, S., Boettcher, J., Blaesse, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.42 Å
R-Value Free: 0.254
R-Value Work: 0.191
R-Value Observed: 0.193

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Strategic Use of Conformational Bias and Structure Based Design to Identify Potent Jak3 Inhibitors with Improved Selectivity Against the Jak Family and the Kinome.

Lynch, S.M., Devicente, J., Hermann, J.C., Jaime-Figueroa, S., Jin, S., Kuglstatter, A., Li, H., Lovey, A., Menke, J., Niu, L., Patel, V., Roy, D., Soth, M., Steiner, S., Tivitmahaisoon, P., Vu, M.D., Yee, C.

(2013) Bioorg Med Chem Lett 23: 2793

PubMed: 23540648 Search on PubMed
DOI: https://doi.org/10.1016/j.bmcl.2013.02.012
Primary Citation of Related Structures:
3ZC6

PubMed Abstract:

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TYROSINE-PROTEIN KINASE JAK3	A, B, C, D	288	Homo sapiens	Mutation(s): 2 Gene Names: JAK3 EC: 2.7.10.2 (PDB Primary Data), 2.7.1.112 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P52333 (Homo sapiens) Explore P52333 Go to UniProtKB: P52333
PHAROS: P52333
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P52333
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
VFC Query on VFC Download Ideal Coordinates CCD File SDF format, chain J [auth B] SDF format, chain M [auth C] SDF format, chain O [auth D] SDF format, chain E [auth A] MOL2 format, chain J [auth B] MOL2 format, chain M [auth C] MOL2 format, chain O [auth D] MOL2 format, chain E [auth A]	E [auth A], J [auth B], M [auth C], O [auth D]	N-[(2R)-1-(3-cyanoazetidin-1-yl)-1-oxidanylidene-propan-2-yl]-2-(6-fluoranyl-1-methyl-indazol-3-yl)-5H-pyrrolo[2,3-b]pyrazine-7-carboxamide C₂₂ H₁₉ F N₈ O₂ AGTYRXOJPORGGM-LLVKDONJSA-N		Ligand Interaction
PG4 Query on PG4 Download Ideal Coordinates CCD File SDF format, chain K [auth B] SDF format, chain N [auth C] MOL2 format, chain K [auth B] MOL2 format, chain N [auth C]	K [auth B], N [auth C]	TETRAETHYLENE GLYCOL C₈ H₁₈ O₅ UWHCKJMYHZGTIT-UHFFFAOYSA-N		Ligand Interaction
PEG Query on PEG Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain L [auth B] MOL2 format, chain F [auth A] MOL2 format, chain L [auth B]	F [auth A], L [auth B]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Ligand Interaction
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain H [auth A] SDF format, chain I [auth A] SDF format, chain P [auth D] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A] MOL2 format, chain I [auth A] MOL2 format, chain P [auth D]	G [auth A], H [auth A], I [auth A], P [auth D]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Ligand Interaction

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PTR Query on PTR	A, B, C, D	L-PEPTIDE LINKING	C₉ H₁₂ N O₆ P		TYR

Binding Affinity Annotations
ID	Source	Binding Affinity
VFC	Binding MOAD: 3ZC6	IC50: 0.6 (nM) from 1 assay(s)
	BindingDB: 3ZC6	IC50: min: 0.6, max: 150 (nM) from 2 assay(s)
	PDBBind: 3ZC6	IC50: 0.6 (nM) from 1 assay(s)