Structure of PDB 7thd Chain A Binding Site BS01

Receptor Information
>7thd Chain A (length=163) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NPLVYLDVDANGKPLGRVVLELKADVVPKTAENFRALCTGEKGFGYKGST
FHRVIPSFMCQAGDFTNHNGTGGKSIYGSRFPDENFTLKHVGPGVLSMAN
AGPNTNGSQFFICTIKTDWLDGKHVVFGHVIEGMDVVKKIESFGSKSGRT
SKKIVITDCGQLS
Ligand information
Ligand IDI4V
InChIInChI=1S/C53H61N7O11/c54-23-27-71-28-25-56-48(64)43-21-24-55-45(61)19-20-47(63)60-26-6-22-53(34-60,32-37-7-2-1-3-8-37)52(70)59-44(49(65)57-33-41-10-5-4-9-40(41)31-46(62)58-43)30-36-13-17-39(18-14-36)38-15-11-35(12-16-38)29-42(50(66)67)51(68)69/h1-5,7-20,42-44H,6,21-34,54H2,(H,55,61)(H,56,64)(H,57,65)(H,58,62)(H,59,70)(H,66,67)(H,68,69)/b20-19+/t43-,44-,53-/m0/s1
InChIKeyZHNYUSCORILKFS-FCZRSVTRSA-N
SMILES
SoftwareSMILES
ACDLabs 12.01O=C(O)C(Cc1ccc(cc1)c1ccc(cc1)CC1NC(=O)C2(CCCN(C2)C(=O)C=CC(=O)NCCC(NC(=O)Cc2ccccc2CNC1=O)C(=O)NCCOCCN)Cc1ccccc1)C(=O)O
CACTVS 3.385NCCOCCNC(=O)[CH]1CCNC(=O)C=CC(=O)[N]2CCC[C](C2)(Cc3ccccc3)C(=O)N[CH](Cc4ccc(cc4)c5ccc(CC(C(O)=O)C(O)=O)cc5)C(=O)NCc6ccccc6CC(=O)N1
CACTVS 3.385NCCOCCNC(=O)[C@@H]1CCNC(=O)\C=C\C(=O)[N@@]2CCC[C@@](C2)(Cc3ccccc3)C(=O)N[C@@H](Cc4ccc(cc4)c5ccc(CC(C(O)=O)C(O)=O)cc5)C(=O)NCc6ccccc6CC(=O)N1
OpenEye OEToolkits 2.0.7c1ccc(cc1)C[C@@]23CCCN(C2)C(=O)/C=C/C(=O)NCC[C@H](NC(=O)Cc4ccccc4CNC(=O)[C@@H](NC3=O)Cc5ccc(cc5)c6ccc(cc6)CC(C(=O)O)C(=O)O)C(=O)NCCOCCN
OpenEye OEToolkits 2.0.7c1ccc(cc1)CC23CCCN(C2)C(=O)C=CC(=O)NCCC(NC(=O)Cc4ccccc4CNC(=O)C(NC3=O)Cc5ccc(cc5)c6ccc(cc6)CC(C(=O)O)C(=O)O)C(=O)NCCOCCN
FormulaC53 H61 N7 O11
Name[(4'-{[(4S,7S,11R,13E,19S)-19-{[2-(2-aminoethoxy)ethyl]carbamoyl}-7-benzyl-3,6,12,15,21-pentaoxo-1,3,4,5,6,7,8,9,10,12,15,16,17,18,19,20,21,22-octadecahydro-2H-7,11-methano-2,5,11,16,20-benzopentaazacyclotetracosin-4-yl]methyl}[1,1'-biphenyl]-4-yl)methyl]propanedioic acid
ChEMBL
DrugBank
ZINC
PDB chain7thd Chain A Residue 301 [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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PDB7thd Discovery and molecular basis of subtype-selective cyclophilin inhibitors.
Resolution1.16 Å
Binding residue
(original residue number in PDB)
R97 F102 Q105 G114 T115 G116 K118 S123 R124 A143 N144 A145 G151 Q153 F155 W163 H168
Binding residue
(residue number reindexed from 1)
R53 F58 Q61 G70 T71 G72 K74 S79 R80 A99 N100 A101 G107 Q109 F111 W119 H124
Annotation score1
Enzymatic activity
Enzyme Commision number 5.2.1.8: peptidylprolyl isomerase.
Gene Ontology
Molecular Function
GO:0003755 peptidyl-prolyl cis-trans isomerase activity
Biological Process
GO:0000413 protein peptidyl-prolyl isomerization
GO:0006457 protein folding

View graph for
Molecular Function

View graph for
Biological Process
External links
PDB RCSB:7thd, PDBe:7thd, PDBj:7thd
PDBsum7thd
PubMed36163383
UniProtP30405|PPIF_HUMAN Peptidyl-prolyl cis-trans isomerase F, mitochondrial (Gene Name=PPIF)

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