ISDA: 4UAI

Deposition Date 2014-08-09

Release Date 2014-11-12

Last Version Date 2024-11-13

Entry Detail

PDB ID:

4UAI

Keywords:

CYTOKINE/CYTOKINE INHIBITOR

Title:

Crystal structure of CXCL12 in complex with inhibitor

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.90 Å

R-Value Free:

0.23

R-Value Work:

0.18

Space Group:

P 21 21 21

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Stromal cell-derived factor 1
Gene (Uniprot):CXCL12
Chain IDs:A, B
Chain Length:68
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:P48061 Pfam ID:PF00048

Ligand Molecules

3GG

SO4

Primary Citation

Structural Analysis of a Novel Small Molecule Ligand Bound to the CXCL12 Chemokine.

Smith, E.W, Liu, Y, Getschman, A.E, Peterson, F.C, Ziarek, J.J, Li, R, Volkman, B.F, Chen, Y.Show

J.Med.Chem. 57 9693 9699 (2014)

PMID: 25356720 DOI: 10.1021/jm501194p

Abstact

CXCL12 binds to CXCR4, promoting both chemotaxis of lymphocytes and metastasis of cancer cells. We previously identified small molecule ligands that bind CXCL12 and block CXCR4-mediated chemotaxis. We now report a 1.9 Å resolution X-ray structure of CXCL12 bound by such a molecule at a site normally bound by sY21 of CXCR4. The complex structure reveals binding hot spots for future inhibitor design and suggests a new approach to targeting CXCL12-CXCR4 signaling in drug discovery.

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