Structure of PDB 2c37 Chain N Binding Site BS01

Receptor Information
>2c37 Chain N (length=241) Species: 2287 (Saccharolobus solfataricus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ERPKLILDDGKRTDGRKPDELRSIKIELGVLKNADGSAIFEMGNTKAIAA
VYGPKEMHPRHLSLPDRAVLRVRYHMTPFSTDERKNPAPSRREIELSKVI
REALESAVLVELFPRTAIDVFTEILQADAGSRLVSLMAASLALADAGIPM
RDLIAGVAVGKADGVIILDLNETEDMWGEADMPIAMMPSLNQVTLFQLNG
SMTPDEFRQAFDLAVKGINIIYNLEREALKSKYVEFKEEGV
Ligand information
Ligand IDRP5
InChIInChI=1S/C5H11O8P/c6-3-2(1-12-14(9,10)11)13-5(8)4(3)7/h2-8H,1H2,(H2,9,10,11)/t2-,3-,4-,5-/m1/s1
InChIKeyKTVPXOYAKDPRHY-TXICZTDVSA-N
SMILES
SoftwareSMILES
CACTVS 3.370O[CH]1O[CH](CO[P](O)(O)=O)[CH](O)[CH]1O
OpenEye OEToolkits 1.7.0C([C@@H]1[C@H]([C@H]([C@@H](O1)O)O)O)OP(=O)(O)O
OpenEye OEToolkits 1.7.0C(C1C(C(C(O1)O)O)O)OP(=O)(O)O
CACTVS 3.370O[C@@H]1O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]1O
ACDLabs 12.01O=P(O)(O)OCC1OC(O)C(O)C1O
FormulaC5 H11 O8 P
Name5-O-phosphono-beta-D-ribofuranose;
[(2R,3S,4S,5R)-3,4,5-TRIHYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN PHOSPHATE;
5-O-phosphono-beta-D-ribose;
5-O-phosphono-D-ribose;
5-O-phosphono-ribose
ChEMBLCHEMBL1235722
DrugBankDB04352
ZINCZINC000004228241
PDB chain2c37 Chain N Residue 303 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB2c37 Structural Basis of 3' End RNA Recognition and Exoribonucleolytic Cleavage by an Exosome Rnase Ph Core.
Resolution2.8 Å
Binding residue
(original residue number in PDB)
R99 R139 D182
Binding residue
(residue number reindexed from 1)
R92 R132 D175
Annotation score4
Enzymatic activity
Enzyme Commision number 3.1.13.-
Gene Ontology
Molecular Function
GO:0000175 3'-5'-RNA exonuclease activity
GO:0003723 RNA binding
GO:0004527 exonuclease activity
GO:0005515 protein binding
GO:0016896 RNA exonuclease activity, producing 5'-phosphomonoesters
Biological Process
GO:0006401 RNA catabolic process
GO:0016075 rRNA catabolic process
Cellular Component
GO:0000177 cytoplasmic exosome (RNase complex)
GO:0000178 exosome (RNase complex)
GO:0005737 cytoplasm

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:2c37, PDBe:2c37, PDBj:2c37
PDBsum2c37
PubMed16285928
UniProtQ9UXC2|RRP41_SACS2 Exosome complex component Rrp41 (Gene Name=rrp41)

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