Structure of PDB 7p14 Chain A Binding Site BS01

Receptor Information
>7p14 Chain A (length=328) Species: 10116 (Rattus norvegicus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MKYTICNFMMSVLGIIIYVTDLVADIVLTVRYFYDGQYVFGVLTLSFVLC
GTLIVHCFSYSWLKDDLLHCLQGGVFTRYWFVLRTGYHVVFKDPHKEAID
MATDLSMLRLFETYLEGCPQLILQLYAFLERGQANFSQYMVIMVSCCAIS
WSTVDYQIALRKSLPDKNLLRGFWPKLTYLFYKLFTLLSWMLSVVLLLFV
DVRTVLLLLLFLWTVGFIWAFINHTQFCNSLSMEFLYRLVVGFILVFTFF
NIKGQNTKCPMSCYYTVRVLGTLGILTVFWIYPLSIFNSDYFIPISATIV
LSLLFGIIFLGVYYGTYHCRIRYFLMDA
Ligand information
Ligand IDP5S
InChIInChI=1S/C42H82NO10P/c1-3-5-7-9-11-13-15-17-19-21-23-25-27-29-31-33-40(44)50-35-38(36-51-54(48,49)52-37-39(43)42(46)47)53-41(45)34-32-30-28-26-24-22-20-18-16-14-12-10-8-6-4-2/h38-39H,3-37,43H2,1-2H3,(H,46,47)(H,48,49)/t38-,39+/m1/s1
InChIKeyTZCPCKNHXULUIY-RGULYWFUSA-N
SMILES
SoftwareSMILES
CACTVS 3.370CCCCCCCCCCCCCCCCCC(=O)OC[CH](CO[P](O)(=O)OC[CH](N)C(O)=O)OC(=O)CCCCCCCCCCCCCCCCC
CACTVS 3.370CCCCCCCCCCCCCCCCCC(=O)OC[C@H](CO[P](O)(=O)OC[C@H](N)C(O)=O)OC(=O)CCCCCCCCCCCCCCCCC
ACDLabs 12.01O=C(OC(COP(=O)(OCC(C(=O)O)N)O)COC(=O)CCCCCCCCCCCCCCCCC)CCCCCCCCCCCCCCCCC
OpenEye OEToolkits 1.7.6CCCCCCCCCCCCCCCCCC(=O)OCC(COP(=O)(O)OCC(C(=O)O)N)OC(=O)CCCCCCCCCCCCCCCCC
OpenEye OEToolkits 1.7.6CCCCCCCCCCCCCCCCCC(=O)OC[C@H](COP(=O)(O)OC[C@@H](C(=O)O)N)OC(=O)CCCCCCCCCCCCCCCCC
FormulaC42 H82 N O10 P
NameO-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine;
phosphatidyl serine
ChEMBLCHEMBL4297669
DrugBankDB00144
ZINCZINC000085588270
PDB chain7p14 Chain A Residue 403 [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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PDB7p14 Cryo-EM structures of the caspase activated protein XKR9 involved in apoptotic lipid scrambling.
Resolution3.66 Å
Binding residue
(original residue number in PDB)
C6 M10 S176 R187 G198 F199 K202 L206
Binding residue
(residue number reindexed from 1)
C6 M10 S150 R161 G172 F173 K176 L180
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Biological Process
GO:0043652 engulfment of apoptotic cell
GO:0070782 phosphatidylserine exposure on apoptotic cell surface
GO:1902742 apoptotic process involved in development
Cellular Component
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0071944 cell periphery

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:7p14, PDBe:7p14, PDBj:7p14
PDBsum7p14
PubMed34263724
UniProtQ5GH54

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