ISDA: 5M56

Deposition Date 2016-10-20

Release Date 2017-01-18

Last Version Date 2024-01-17

Entry Detail

PDB ID:

5M56

Keywords:

TRANSFERASE

Title:

Monoclinic complex structure of human protein kinase CK2 catalytic subunit (isoform CK2alpha') with the inhibitor 4'-carboxy-6,8-chloro-flavonol (FLC21)

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.24 Å

R-Value Free:

0.20

R-Value Work:

0.16

R-Value Observed:

0.16

Space Group:

P 1 21 1

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Casein kinase II subunit alpha'
Gene (Uniprot):CSNK2A2
Mutagens:D39G, C336S
Chain IDs:A, B
Chain Length:364
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:P19784 Pfam ID:PF00069 EC:2.7.11.1

Ligand Molecules

7FC

GOL

Primary Citation

Structural Hypervariability of the Two Human Protein Kinase CK2 Catalytic Subunit Paralogs Revealed by Complex Structures with a Flavonol- and a Thieno[2,3-d]pyrimidine-Based Inhibitor.

Niefind, K, Bischoff, N, Golub, A.G, Bdzhola, V.G, Balanda, A.O, Prykhod'ko, A.O, Yarmoluk, S.M, Guerra, B, Bischoff, N, Bdzhola, V.G, Yarmoluk, S.M, Issinger, O.G, Golub, A.G, Niefind, K, Golub, A.G, Bdzhola, V.G, Briukhovetska, N.V, Balanda, A.O, Kukharenko, O.P, Kotey, I.M, Ostrynska, O.V, Yarmoluk, S.M, Golub, A.G, Bdzhola, V.G, Kyshenia, Y.V, Sapelkin, V.M, Prykhod'ko, A.O, Kukharenko, O.P, Ostrynska, O.V, Yarmoluk, S.M.Show

Pharmaceuticals 10 ? ? (2017)

PMID: 28085026 DOI: 10.3390/ph10010009

Abstact

Protein kinase CK2 is associated with a number of human diseases, among them cancer, and is therefore a target for inhibitor development in industry and academia. Six crystal structures of either CK2α, the catalytic subunit of human protein kinase CK2, or its paralog CK2α' in complex with two ATP-competitive inhibitors-based on either a flavonol or a thieno[2,3-d]pyrimidine framework-are presented. The structures show examples for extreme structural deformations of the ATP-binding loop and its neighbourhood and of the hinge/helix αD region, i.e., of two zones of the broader ATP site environment. Thus, they supplement our picture of the conformational space available for CK2α and CK2α'. Further, they document the potential of synthetic ligands to trap unusual conformations of the enzymes and allow to envision a new generation of inhibitors that stabilize such conformations.

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Primary Citation of related structures