Structure of PDB 7d8n Chain B

Receptor sequence

>7d8nB (length=628) Species: 9606 (Homo sapiens)

SLQRIVRVSLEHPTSAVCVAGVETLVDIYGSVPEGTEMFEVYGTPGVDIY
ISDTRRWRFDATLEIIVVMNSPSNDLNDSHVQISYHSSHEPLPLAYAVLY
LTCVDISLDCDLNCEGRNFVDKRQWVWGPSGYGGILLVNCDRDDPSCDVQ
DNCDQHVHCLQDLEDMSVMVLRTQGPAALFDDHKLVLHTSSYDAKRAQVF
HICGPEDVCEAYRHVLGQDKVSYEVPRLHGDEERFFVEGLSFPDAGFTGL
ISFHVTLLDDSNEDFSASPIFTDTVVFRVAPWIMTPSTLPPLEVYVCRVR
NNTCFVDAVAELARKAGCKLTICPQRWIQDEMELGYVQAPHKTLPVVFDS
PRNGELQDFPILGPDFGYVTREPRDRSLDSFGNLEVSPPVVANGKEYPLG
RILIGGNLPGSSGRRVTQVVRDFLHAQKVQPPVELFVDWLAVGHVDEFLS
FVPAPDGKGFRMLLASPGACFKLFQEKQKCGHGRALLFQGVVDDEQVKTI
SINQVLSNKDLINYNKFVQSCIDWNREVLKRELGLAECDIIDIPQLFKTE
RKKATAFFPDLVNMLVLGKHLGIPKPFGPIINGCCCLEEKVRSLLEPLGL
HCTFIDDFTCGTNVCRKPFSFKWWNMVP

3D structure

• PDB: 7d8n Structures of human peptidylarginine deiminase type III provide insights into substrate recognition and inhibitor design.
• Chain: B
• Resolution: 2.753 Å

Enzymatic activity

• Enzyme Commision number: 3.5.3.15: protein-arginine deiminase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	CA	B	D165 D168 H170	D151 D154 H156
BS02	CA	B	D155 D157 D179 D388	D141 D143 D165 D365
BS03	CA	B	E353 F407 L410 E411	E333 F381 L384 E385
BS04	CA	B	N153 D155 D157 D165 D176 D179	N139 D141 D143 D151 D162 D165
BS05	CA	B	R372 E395	R352 E372

Gene Ontology

Molecular Function

• GO:0004668 protein-arginine deiminase activity
• GO:0005509 calcium ion binding
• GO:0005515 protein binding
• GO:0016787 hydrolase activity
• GO:0042802 identical protein binding

Cellular Component

• GO:0005634 nucleus
• GO:0005654 nucleoplasm
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0043231 intracellular membrane-bounded organelle

External links

• PDB: RCSB:7d8n, PDBe:7d8n, PDBj:7d8n
• PDBsum: 7d8n
• PubMed: 33971157
• UniProt: Q9ULW8|PADI3_HUMAN Protein-arginine deiminase type-3 (Gene Name=PADI3)