Structure of PDB 7sxo Chain B Binding Site BS01

Receptor Information
>7sxo Chain B (length=487) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SKEQYSIPRAKKILDEDHYGMVDVKDRILEFIAVGKLLGKVDGKIICFVG
PPGVGKTSIGKSIARALNRKFFRFSVGGMTDVAEIKGHRRTYIGALPGRV
VQALKKCQTQNPLILIDEIDKIGDPSAALLEVLDPEQNNSFLDNYLDIPI
DLSKVLFVCTANSLETIPRPLLDRMEVIELTGYVAEDKVKIAEQYLVPSA
KKSAGLENSHVDMTEDAITALMKYYCRESGVRNLKKHIEKIYRKAALQVV
KKLKINVSISQKNLKDYVGPPVYTTDRLYETTPPGVVMGLAWTNMGGCSL
YVESVLEQPLHNCKHPTFERTGQLGDVMKESSRLAYSFAKMYLAQKFPEN
RFFEKASIHLHCPEGATPKDGPSAGVTMATSFLSLALNKSIDPTVAMTGE
LTLTGKVLRIGGLREKAVAAKRSGAKTIIFPKDNLNDWEELPDNVKEGLE
PLAADWYNDIFQKLFKDVNTKEGNSVWKAEFEILDAK
Ligand information
Ligand IDADP
InChIInChI=1S/C10H15N5O10P2/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(24-10)1-23-27(21,22)25-26(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1
InChIKeyXTWYTFMLZFPYCI-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
CACTVS 3.341Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N
FormulaC10 H15 N5 O10 P2
NameADENOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL14830
DrugBankDB16833
ZINCZINC000012360703
PDB chain7sxo Chain B Residue 1200 [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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PDB7sxo Cryo-EM structure of hexameric yeast Lon protease (PIM1) highlights the importance of conserved structural elements.
Resolution3.3 Å
Binding residue
(original residue number in PDB)		P634 G635 G637 K638 T639 I779 L784 V819
Binding residue
(residue number reindexed from 1)		P52 G53 G55 K56 T57 I191 L196 V231
Annotation score5
Enzymatic activity
Enzyme Commision number 3.4.21.53: endopeptidase La.
Gene Ontology
Molecular Function
GO:0004176 ATP-dependent peptidase activity
GO:0004252 serine-type endopeptidase activity
GO:0005524 ATP binding
GO:0016887 ATP hydrolysis activity
Biological Process
GO:0006508 proteolysis
GO:0006515 protein quality control for misfolded or incompletely synthesized proteins
GO:0030163 protein catabolic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:7sxo, PDBe:7sxo, PDBj:7sxo
PDBsum7sxo
PubMed35143841
UniProtP36775|LONM_YEAST Lon protease homolog, mitochondrial (Gene Name=PIM1)

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