Structure of PDB 7yfx Chain A Binding Site BS03

Receptor Information
>7yfx Chain A (length=746) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VKQGSKGTPQSLGLNLVKIQCHNEAVYQYHVTFSPNVECKSMRFGMLKDH
QAVTGNVTAFDGSILYLPVKLQQVLELKSQRKTDSAEISIKIQMTKILEP
CSDLCIPFYNVVFRRVMKLLDMKLVGRNFYDPTSAMVLQQHRLQIWPGYA
ASIRRTDGGLFLLADVSHKVIRNDCVLDVMHAIYQQNKEHFQDECTKLLV
GNIVITRYNNRTYRIDDVDWNKTPKDSFTMSDGKEITFLEYYSKNYGITV
KEEDQPLLIHRGEILLLPELSFMTGIPEKMKKDFRAMKDLAQQINLSPKQ
HHSALECLLQRIAKNEAATNELMRWGLRLQKDVHKIEGRVLPMERINLKN
TSFITSQELNWVKEVTRDPSILTIPMHFWALFYPKRAMDQARELVNMLEK
IAGPIGMRMSPPAWVELKDDRIETYVRTIQSTLGAEGKIQMVVCIIMGPR
DDLYGAIKKLCCVQSPVPSQVVNVRTIGQPTRLRSVAQKILLQINCKLGG
ELWGVDIPLKQLMVIGMDVYHDPSRGMRSVVGFVASINLTLTKWYSRVVF
QMPHQEIVDSLKLCLVGSLKKFYEVNHCLPEKIVVYRDGVSDGQLKTVAN
YEIPQLQKCFEAFENYQPKMVVFVVQKKISTNLYLAAPQNFVTPTPGTVV
DHTITSCEWVDFYLLAHHVRQGCGIPTHYVCVLNTANLSPDHMQRLTFKL
CHMYWNWPGTIRVPAPCKYAHKLAFLSGHILHHEPAIQLCENLFFL
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain7yfx Chain B Residue 1001 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7yfx Structure basis of mammalian Piwi-piRNA silencing machinery
Resolution3.4 Å
Binding residue
(original residue number in PDB)		Q720 L973
Binding residue
(residue number reindexed from 1)		Q493 L746
Annotation score4
Enzymatic activity
Enzyme Commision number 3.1.26.-
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0004519 endonuclease activity
GO:0004521 RNA endonuclease activity
GO:0005515 protein binding
GO:0034584 piRNA binding
GO:0046872 metal ion binding
GO:0061980 regulatory RNA binding
Biological Process
GO:0006417 regulation of translation
GO:0007283 spermatogenesis
GO:0030154 cell differentiation
GO:0030718 germ-line stem cell population maintenance
GO:0031047 regulatory ncRNA-mediated gene silencing
GO:0034587 piRNA processing
GO:0042754 negative regulation of circadian rhythm
GO:0048477 oogenesis
GO:0048511 rhythmic process
GO:0051321 meiotic cell cycle
GO:0060903 positive regulation of meiosis I
GO:0140965 secondary piRNA processing
GO:0140991 piRNA-mediated gene silencing by mRNA destabilization
GO:0141005 retrotransposon silencing by heterochromatin formation
GO:0141006 piRNA-mediated retrotransposon silencing by heterochromatin formation
GO:0141008 retrotransposon silencing by mRNA destabilization
GO:0141196 retrotransposon silencing by piRNA-directed DNA methylation
GO:2000767 positive regulation of cytoplasmic translation
Cellular Component
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0010370 perinucleolar chromocenter
GO:0033391 chromatoid body
GO:0043186 P granule
GO:0071546 pi-body
GO:0097433 dense body
GO:1990923 PET complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7yfx, PDBe:7yfx, PDBj:7yfx
PDBsum7yfx
PubMed38658622
UniProtQ8TC59|PIWL2_HUMAN Piwi-like protein 2 (Gene Name=PIWIL2)

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