Structure of PDB 6trq Chain A Binding Site BS02

Receptor Information
>6trq Chain A (length=332) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MFASLIKRFQFVSVLDSNPQTKVMSLLGTIDNKDAIITAEKTHFLFDETD
GRSTPVLYNCENEYSCINGIQELKEITSNDIYYWGLSVIKQDMESNPTAK
LNLIWPATPIHIKKYEQQNFHLVRETPEMYKRIVQPYIEEMCNNGRLKWV
NNILYEGAESERVVYKDFSEKDDGFLILPDMKWDGMNLDSLYLVAIVYRT
DIKTIRDLRYSDRQWLINLNNKIRSIVPGCYNYAVHPDELRILVHYQPSY
YHFNIHIVNIKHPGLGNSIAAGKAILLEDIIEMLNYLGPEGYMNKTITYA
IGENHDLWKRGLEEELTKQLERDGIPKIPKIV
Ligand information
Ligand ID0G
InChIInChI=1S/C10H14N5O8P/c11-10-13-7-4(8(18)14-10)12-2-15(7)9-6(17)5(16)3(23-9)1-22-24(19,20)21/h2-3,5-6,9,16-17H,1H2,(H2,19,20,21)(H3,11,13,14,18)/t3-,5-,6-,9-/m0/s1
InChIKeyRQFCJASXJCIDSX-GIMIYPNGSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.0c1nc2c(n1[C@@H]3[C@H]([C@H]([C@@H](O3)COP(=O)(O)O)O)O)N=C(NC2=O)N
CACTVS 3.352NC1=Nc2n(cnc2C(=O)N1)[CH]3O[CH](CO[P](O)(O)=O)[CH](O)[CH]3O
CACTVS 3.352NC1=Nc2n(cnc2C(=O)N1)[C@H]3O[C@@H](CO[P](O)(O)=O)[C@H](O)[C@@H]3O
OpenEye OEToolkits 1.7.0c1nc2c(n1C3C(C(C(O3)COP(=O)(O)O)O)O)N=C(NC2=O)N
ACDLabs 11.02O=P(O)(O)OCC3OC(n2cnc1c2N=C(N)NC1=O)C(O)C3O
FormulaC10 H14 N5 O8 P
NameL-GUANOSINE-5'-MONOPHOSPHATE
ChEMBL
DrugBank
ZINCZINC000001532555
PDB chain6trq Chain A Residue 403 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6trq Molecular basis of the selective processing of short mRNA substrates by the DcpS mRNA decapping enzyme.
Resolution2.944 Å
Binding residue
(original residue number in PDB)		N114 K126 Y127 K196 S263 L279
Binding residue
(residue number reindexed from 1)		N102 K114 Y115 K182 S249 L265
Annotation score3
Enzymatic activity
Enzyme Commision number 3.6.1.59: 5'-(N(7)-methyl 5'-triphosphoguanosine)-[mRNA] diphosphatase.
Gene Ontology
Molecular Function
GO:0000340 RNA 7-methylguanosine cap binding
GO:0005515 protein binding
GO:0016787 hydrolase activity
GO:0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
GO:0042802 identical protein binding
GO:0042803 protein homodimerization activity
GO:0044692 exoribonuclease activator activity
GO:0046982 protein heterodimerization activity
GO:0140932 5'-(N(7)-methyl 5'-triphosphoguanosine)-[mRNA] diphosphatase activity
Biological Process
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay
GO:0000290 deadenylation-dependent decapping of nuclear-transcribed mRNA
GO:0000956 nuclear-transcribed mRNA catabolic process
GO:0006970 response to osmotic stress
GO:0006979 response to oxidative stress
GO:0007584 response to nutrient
GO:0009267 cellular response to starvation
GO:0009408 response to heat
GO:0031086 nuclear-transcribed mRNA catabolic process, deadenylation-independent decay
GO:0110156 mRNA methylguanosine-cap decapping
Cellular Component
GO:0000932 P-body
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0048471 perinuclear region of cytoplasm
GO:0106095 m7G(5')pppN diphosphatase complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6trq, PDBe:6trq, PDBj:6trq
PDBsum6trq
PubMed32723815
UniProtQ06151|DCPS_YEAST m7GpppX diphosphatase (Gene Name=DCS1)

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