Structure of PDB 8smk Chain D Binding Site BS01

Receptor Information
>8smk Chain D (length=555) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GTLIRVTPEQPTHAVCVLGTLTQLDICSSASFSINASPGVVVDIAEVTLT
MKAASGSTGDQKVQISYKALLYLTGVEISLCADITRTGKVKRTWTWGPCG
QGAILLVNCDRDNLESSAMDCEDDEVLDSEDLQDMSLMTLSTKTPKDFFT
NHTLVLHVARSEMDKVRVFQATRGKLSSKCSVVLGPKWPSHYLMVPGGKH
NMDFYVEALAFPDTDFPGLITLTISLLDTSNLELPEAVVFQDSVVFRVAP
WIMTPNTQPPQEVYAFLKSVTTLAMKAKCKLTIQDEMEIGYIQAPHKTLP
VVFDSVMGPDFGYVTRGLDSFGNLEVSPPVTVRGKEYPLGRILFGDSCYP
SNDSRQMHQALQDFLSAQQVQAPVKLYSDWLSVGHVDEFLSFVPAPDRKG
FRLLLASPRSCYKLFQEQQNEGHGEALKIKNILSNKTLREHNSFVERCID
WNRELLKRELGLAESDIIDIPQLFKLKEFSKAEAFFPNMVNMLVLGKHLG
IPKPFGPVINGRCCLEEKVCSLLEPLGLQCTFINDFFGTNVRRKPFSFKW
WNMVP
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain8smk Chain D Residue 701 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB8smk Antibody discovery identifies regulatory mechanisms of protein arginine deiminase 4.
Resolution3.5 Å
Binding residue
(original residue number in PDB)		E353 F407 L410 E411
Binding residue
(residue number reindexed from 1)		E288 F321 L324 E325
Annotation score1
Enzymatic activity
Enzyme Commision number 3.5.3.15: protein-arginine deiminase.
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
GO:0046872 metal ion binding
GO:0140794 histone arginine deiminase activity
GO:0140795 histone H3R2 arginine deiminase activity
GO:0140796 histone H3R8 arginine deiminase activity
GO:0140797 histone H3R17 arginine deiminase activity
GO:0140798 histone H3R26 arginine deiminase activity
Biological Process
GO:0006325 chromatin organization
GO:0006334 nucleosome assembly
GO:0006338 chromatin remodeling
GO:0019827 stem cell population maintenance
GO:0036211 protein modification process
GO:0043687 post-translational protein modification
GO:0045087 innate immune response
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0032991 protein-containing complex

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Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8smk, PDBe:8smk, PDBj:8smk
PDBsum8smk
PubMed38308046
UniProtQ9UM07|PADI4_HUMAN Protein-arginine deiminase type-4 (Gene Name=PADI4)

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