Structure of PDB 1wd9 Chain A Binding Site BS03

Receptor Information
>1wd9 Chain A (length=603) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GTLIRVTPEQPTHAVCVLGTLTQLDICSSASFSINASPGVVVDIAWPLDP
GVEVTLTMKAASGSTGDQKVQISYYKTPPVKALLYLTAVEISLCADITRT
QRTWTWGPCGQGAILLVNCDRDNLESSAMDCEDDEVLDSEDLQDMSLMTL
STKTPKDFFTNHTLVLHVARSEMDKVRVFQATCSVVLGPKWPSHYLMVPG
GKHNMDFYVEALAFPDTDFPGLITLTISLLDTSNLELPEAVVFQDSVVFR
VAPWIMTPNTQPPQEVYACSEDFLKSVTTLAMKAKCKLTICPQWMQDEME
IGYIQAPHKTLPVVFDSPRNRGLKEFPIKRVMGPDFGYVTRGPQTGGISG
LDSFGNLEVSPPVTVRGKEYPLGRILFGDSCYPSNDSRQMHQALQDFLSA
QQVQAPVKLYSDWLSVGHVDEFLSFVPAPDRKGFRLLLASPRSCYKLFQE
QQNEGHGEALLFQQKIKNILSNKTLREHNSFVERCIDWNRELLKRELGLA
ESDIIDIPQLFKLKEFSKAEAFFPNMVNMLVLGKHLGIPKPFGPVINGRC
CLEEKVCSLLEPLGLQCTFINDFFTYHIRHGEVHAGTNVRRKPFSFKWWN
MVP
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 chain1wd9 Chain A Residue 902 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB1wd9 Structural basis for Ca(2+)-induced activation of human PAD4
Resolution2.6 Å
Binding residue
(original residue number in PDB)		D155 D157 D179 D388
Binding residue
(residue number reindexed from 1)		D120 D122 D144 D335
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) D350 H471 D473 A645
Catalytic site (residue number reindexed from 1) D297 H418 D420 A585
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
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Biological Process
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Cellular Component
External links
PDB RCSB:1wd9, PDBe:1wd9, PDBj:1wd9
PDBsum1wd9
PubMed15247907
UniProtQ9UM07|PADI4_HUMAN Protein-arginine deiminase type-4 (Gene Name=PADI4)

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