Structure of PDB 3tdd Chain K Binding Site BS01

Receptor Information
>3tdd Chain K (length=212) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAA
DCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTM
ICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSV
EDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKV
KEEEGSFNNVIG
Ligand information
Ligand IDBFO
InChIInChI=1S/C35H43N3O8/c1-4-23(2)29(20-39)31(40)33(42)36-18-10-15-30(34(43)45-21-25-11-6-5-7-12-25)38-32(41)24(3)37-35(44)46-22-26-16-17-27-13-8-9-14-28(27)19-26/h5-9,11-14,16-17,19-20,23-24,29-31,40H,4,10,15,18,21-22H2,1-3H3,(H,36,42)(H,37,44)(H,38,41)/t23-,24-,29-,30-,31+/m0/s1
InChIKeyTYMGDBRPOJUXRJ-WRYWSPJMSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.2CC[C@H](C)[C@H](C=O)[C@H](C(=O)NCCC[C@@H](C(=O)OCc1ccccc1)NC(=O)[C@H](C)NC(=O)OCc2ccc3ccccc3c2)O
OpenEye OEToolkits 1.7.2CCC(C)C(C=O)C(C(=O)NCCCC(C(=O)OCc1ccccc1)NC(=O)C(C)NC(=O)OCc2ccc3ccccc3c2)O
CACTVS 3.370CC[CH](C)[CH](C=O)[CH](O)C(=O)NCCC[CH](NC(=O)[CH](C)NC(=O)OCc1ccc2ccccc2c1)C(=O)OCc3ccccc3
ACDLabs 12.01O=CC(C(C)CC)C(O)C(=O)NCCCC(C(=O)OCc1ccccc1)NC(=O)C(NC(=O)OCc3cc2ccccc2cc3)C
CACTVS 3.370CC[C@H](C)[C@H](C=O)[C@@H](O)C(=O)NCCC[C@H](NC(=O)[C@H](C)NC(=O)OCc1ccc2ccccc2c1)C(=O)OCc3ccccc3
FormulaC35 H43 N3 O8
Namebenzyl N-[(naphthalen-2-ylmethoxy)carbonyl]-L-alanyl-N~5~-[(2R,3S,4S)-3-formyl-2-hydroxy-4-methylhexanoyl]-L-ornithinate
ChEMBL
DrugBank
ZINCZINC000098208698
PDB chain3tdd Chain K Residue 999 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB3tdd Synthesis and biological activity of optimized belactosin C congeners.
Resolution2.7 Å
Binding residue
(original residue number in PDB)		T1 M45 A46 G47 G128 Y168
Binding residue
(residue number reindexed from 1)		T1 M45 A46 G47 G130 Y170
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) T1 D17 R19 K33 G47 S129 D166 S169
Catalytic site (residue number reindexed from 1) T1 D17 R19 K33 G47 S131 D168 S171
Enzyme Commision number 3.4.25.1: proteasome endopeptidase complex.
Gene Ontology
Molecular Function
GO:0004298 threonine-type endopeptidase activity
Biological Process
GO:0051603 proteolysis involved in protein catabolic process
Cellular Component
GO:0005839 proteasome core complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:3tdd, PDBe:3tdd, PDBj:3tdd
PDBsum3tdd
PubMed21946808
UniProtP30656|PSB5_YEAST Proteasome subunit beta type-5 (Gene Name=PRE2)

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