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(-) Description

Title :  DISCOVERY OF A NOVEL CLASS OF HIGHLY POTENT INHIBITORS OF THE P53-MDM2 INTERACTION BY STRUCTURE-BASED DESIGN STARTING FROM A CONFORMATIONAL ARGUMENT
 
Authors :  J. Kallen
Date :  02 Aug 16  (Deposition) - 07 Sep 16  (Release) - 21 Sep 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.58
Chains :  Asym./Biol. Unit :  A
Keywords :  Ppi With P53, Inhibitor Complex, Cell Cycle (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  P. Furet, K. Masuya, J. Kallen, T. Stachyra-Valat, S. Ruetz, V. Guagnano, P. Holzer, R. Mah, S. Stutz, A. Vaupel, P. Chene, S. Jeay, A. Schlapbach
Discovery Of A Novel Class Of Highly Potent Inhibitors Of The P53-Mdm2 Interaction By Structure-Based Design Starting From A Conformational Argument.
Bioorg. Med. Chem. Lett. V. 26 4837 2016
PubMed-ID: 27542305  |  Reference-DOI: 10.1016/J.BMCL.2016.08.010

(-) Compounds

Molecule 1 - E3 UBIQUITIN-PROTEIN LIGASE MDM2
    ChainsA
    EC Number6.3.2.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21
    Expression System Taxid511693
    Expression System Vector TypePLASMID
    FragmentN-TERMINAL DOMAIN, P53 BINDING DOMAIN
    GeneMDM2
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymDOUBLE MINUTE 2 PROTEIN,HDM2,ONCOPROTEIN MDM2,P53-BINDING PROTEIN MDM2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 3)

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
16ZT1Ligand/Ion(4~{S})-5-[5-CHLORANYL-2-[2-(DIMETHYLAMINO)ETHOXY]PHENYL]-4-(4-CHLORANYL-2-METHYL-PHENYL)-2-(2-METHOXYPHENYL)-3-PROPAN-2-YL-4~{H}-PYRROLO[3,4-C]PYRAZOL-6-ONE
2CL1Ligand/IonCHLORIDE ION
3SO41Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELEU A:54 , GLY A:58 , TYR A:67 , GLN A:72 , VAL A:93 , HIS A:96 , ILE A:99 , TYR A:100 , HOH A:348 , HOH A:361binding site for residue 6ZT A 201
2AC2SOFTWARESER A:17 , GLN A:18 , ILE A:19 , HIS A:96 , HOH A:303 , HOH A:308 , HOH A:312 , HOH A:336 , HOH A:353binding site for residue SO4 A 202
3AC3SOFTWARELYS A:64 , ASP A:80 , LEU A:81 , HOH A:351binding site for residue CL A 203

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5LN2)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5LN2)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5LN2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5LN2)

(-) Exons   (0, 0)

(no "Exon" information available for 5LN2)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
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Chain A from PDB  Type:PROTEIN  Length:95
                                                                                                                               
               SCOP domains ----------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhh.eeeehhhhhhhhh........eehhhhhhhhhhhhhhh.........eee...hhhhhhhh..eee..hhhhhhhhhhh.eee.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------- Transcript
                 5ln2 A  17 SQIPASEQETLVRPKPLLLKLLKSVGAQKDTYTMKEVLFYLGQYIMTKRLYDEKQQHIVYCSNDLLGDLFGVPSFSVKEHRKIYTMIYRNLVVVN 111
                                    26        36        46        56        66        76        86        96       106     

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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 5LN2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5LN2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5LN2)

(-) Gene Ontology  (83, 83)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        MDM2_HUMAN | Q009871rv1 1t4e 1t4f 1ycr 1z1m 2axi 2c6a 2c6b 2f1y 2fop 2gv2 2hdp 2lzg 2m86 2mps 2ruh 2vje 2vjf 3eqs 3g03 3iux 3iwy 3jzk 3jzr 3jzs 3lbk 3lbl 3lnj 3lnz 3mqs 3tj2 3tpx 3tu1 3v3b 3vbg 3vzv 3w69 4dij 4ere 4erf 4hbm 4hfz 4hg7 4jv7 4jv9 4jve 4jvr 4jwr 4mdn 4mdq 4oas 4oba 4occ 4ode 4odf 4ogn 4ogt 4ogv 4oq3 4qo4 4qoc 4ud7 4ue1 4umn 4wt2 4xxb 4zfi 4zgk 4zyc 4zyf 4zyi 5afg 5c5a 5hmh 5hmi 5hmk 5j7f 5j7g 5lav 5law 5lay 5laz 5mnj 5trf

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5LN2)