ISDA

Entry Detail

PDB ID:

7D8N

Keywords:

Title:

Structure of the inactive form of wild-type peptidylarginine deiminase type III (PAD3) crystallized under the condition with high concentrations of Ca2+

Biological Source:

Source Organism:

Homo sapiens

Host Organism:

Escherichia coli

PDB Version:

Deposition Date:

2020-10-08

Release Date:

2021-06-02

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.75 Å

R-Value Free:

0.25

R-Value Work:

0.20

R-Value Observed:

0.20

Space Group:

C 1 2 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:Protein-arginine deiminase type-3
Chain IDs:A, B
Chain Length:664
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:Q9ULW8 Pfam ID:PF08526, PF08527, PF03068 EC:3.5.3.15

Ligand Molecules

GOL

Primary Citation

Structures of human peptidylarginine deiminase type III provide insights into substrate recognition and inhibitor design.

Funabashi, K, Sawata, M, Nagai, A, Akimoto, M, Mashimo, R, Takahara, H, Kizawa, K, Thompson, P.R, Ite, K, Kitanishi, K, Unno, M.Show

Arch.Biochem.Biophys. 708 108911 108911 (2021)

PMID: 33971157 DOI: 10.1016/j.abb.2021.108911

Abstact

Peptidylarginine deiminase type III (PAD3) is an isozyme belonging to the PAD enzyme family that converts arginine to citrulline residue(s) within proteins. PAD3 is expressed in most differentiated keratinocytes of the epidermis and hair follicles, while S100A3, trichohyalin, and filaggrin are its principal substrates. In this study, the X-ray crystal structures of PAD3 in six states, including its complex with the PAD inhibitor Cl-amidine, were determined. This structural analysis identified a large space around Gly374 in the PAD3-Ca2+-Cl-amidine complex, which may be used to develop novel PAD3-selective inhibitors. In addition, similarities between PAD3 and PAD4 were found based on the investigation of PAD4 reactivity with S100A3 in vitro. A comparison of the structures of PAD1, PAD2, PAD3, and PAD4 implied that the flexibility of the structures around the active site may lead to different substrate selectivity among these PAD isozymes.

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Primary Citation of related structures