Structure of PDB 8smk Chain D

Receptor sequence
>8smkD (length=555) Species: 9606 (Homo sapiens) [Search protein sequence]
GTLIRVTPEQPTHAVCVLGTLTQLDICSSASFSINASPGVVVDIAEVTLT
MKAASGSTGDQKVQISYKALLYLTGVEISLCADITRTGKVKRTWTWGPCG
QGAILLVNCDRDNLESSAMDCEDDEVLDSEDLQDMSLMTLSTKTPKDFFT
NHTLVLHVARSEMDKVRVFQATRGKLSSKCSVVLGPKWPSHYLMVPGGKH
NMDFYVEALAFPDTDFPGLITLTISLLDTSNLELPEAVVFQDSVVFRVAP
WIMTPNTQPPQEVYAFLKSVTTLAMKAKCKLTIQDEMEIGYIQAPHKTLP
VVFDSVMGPDFGYVTRGLDSFGNLEVSPPVTVRGKEYPLGRILFGDSCYP
SNDSRQMHQALQDFLSAQQVQAPVKLYSDWLSVGHVDEFLSFVPAPDRKG
FRLLLASPRSCYKLFQEQQNEGHGEALKIKNILSNKTLREHNSFVERCID
WNRELLKRELGLAESDIIDIPQLFKLKEFSKAEAFFPNMVNMLVLGKHLG
IPKPFGPVINGRCCLEEKVCSLLEPLGLQCTFINDFFGTNVRRKPFSFKW
WNMVP
3D structure
PDB8smk Antibody discovery identifies regulatory mechanisms of protein arginine deiminase 4.
ChainD
Resolution3.5 Å
3D
structure
[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]
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 D E353 F407 L410 E411 E288 F321 L324 E325
BS02 CA D N153 D155 D157 D165 D176 N108 D110 D112 D120 D131
BS03 CA D D155 D157 D179 P387 D388 D110 D112 D134 P309 D310
BS04 CA D D165 D168 E170 D120 D123 E125
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

View graph for
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)

[Back to BioLiP]