Structure of PDB 2hbm Chain A Binding Site BS01

Receptor Information
>2hbm Chain A (length=390) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GMVEKPQLKFKSPIDNSESHPFIPLLKEKPNALKPLSESLRLVDDDENNP
SHYPHPYEYEIDHQEYSPEILQIREEIPSKSWDDSVPIWVDTSTELESML
EDLKNTKEIAVDLEHHDYRSYYGIVCLMQISTRERDYLVDTLKLRENLHI
LNEVFTNPSIVKVFHGAFMDIIWLQRDLGLYVVGLFDTYHASKAIGLPRH
SLAYLLENFANFKTSKKYQLADWRIRPLSKPMTAAARADTHFLLNIYDQL
RNKLIESNKLAGVLYESRNVAKRRFEYSKYRPLTPSSEVYSPIEKESPWK
ILMYQYNIPPEREVLVRELYQWRDLIARRDDESPRFVMPNQLLAALVAYT
PTDVIGVVSLTNGVTEHVRQNAKLLANLIRDALRNIKNTN
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain2hbm Chain A 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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PDB2hbm Structure of the nuclear exosome component Rrp6p reveals an interplay between the active site and the HRDC domain.
Resolution2.7 Å
Binding residue
(original residue number in PDB)		D238 E240 D365
Binding residue
(residue number reindexed from 1)		D112 E114 D239
Annotation score4
Enzymatic activity
Catalytic site (original residue number in PDB) D238 E240 D296 A361 D365
Catalytic site (residue number reindexed from 1) D112 E114 D170 A235 D239
Enzyme Commision number 3.1.13.-
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0000175 3'-5'-RNA exonuclease activity
GO:0003676 nucleic acid binding
GO:0008408 3'-5' exonuclease activity
Biological Process
GO:0000467 exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0006139 nucleobase-containing compound metabolic process
GO:0044237 cellular metabolic process

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Molecular Function
View graph for
Biological Process
External links
PDB RCSB:2hbm, PDBe:2hbm, PDBj:2hbm
PDBsum2hbm
PubMed16882719
UniProtQ12149|RRP6_YEAST Exosome complex exonuclease RRP6 (Gene Name=RRP6)

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