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(-) Description

Title :  CRYSTAL STRUCTURE OF PT2385 BOUND TO HIF2A-B*:ARNT-B* COMPLEX
 
Authors :  X. Du
Date :  12 Sep 16  (Deposition) - 21 Sep 16  (Release) - 05 Oct 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.85
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  A (1x),B (1x)
Keywords :  Hif2 Inhibitor Hif2 Ligand Pas-B Hypoxia Inducible Factor 2 Epas1, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. M. Wallace, J. P. Rizzi, G. Han, P. M. Wehn, Z. Cao, X. Du, T. Cheng, R. M. Czerwinski, D. D. Dixon, B. S. Goggin, J. A. Grina, M. M. Halfmann, M. A. Maddie, S. R. Olive, S. T. Schlachter, H. Tan, B. Wang, K. Wang, S. Xie, R. Xu, H. Yang, J. A. Josey
A Small-Molecule Antagonist Of Hif2 Alpha Is Efficacious In Preclinical Models Of Renal Cell Carcinoma.
Cancer Res. V. 76 5491 2016
PubMed-ID: 27635045  |  Reference-DOI: 10.1158/0008-5472.CAN-16-0473

(-) Compounds

Molecule 1 - ENDOTHELIAL PAS DOMAIN-CONTAINING PROTEIN 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 237-248
    Gene: EPAS1, BHLHE73, HIF2A, MOP2, PASD2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: EPAS-1,BASIC-HELIX-LOOP-HELIX-PAS PROTEIN MOP2,CLASS E BASIC HELIX-LOOP-HELIX PROTEIN 73,BHLHE73,HIF-1-ALPHA-LIKE FACTOR,HLF, HYPOXIA-INDUCIBLE FACTOR 2-ALPHA,HIF2-ALPHA,MEMBER OF PAS PROTEIN 2, PAS DOMAIN-CONTAINING PROTEIN 2
 
Molecule 2 - ARYL HYDROCARBON RECEPTOR NUCLEAR TRANSLOCATOR
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 340-453
    Gene: ARNT, BHLHE2
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ARNT PROTEIN,CLASS E BASIC HELIX-LOOP-HELIX PROTEIN 2, BHLHE2,DIOXIN RECEPTOR,NUCLEAR TRANSLOCATOR,HYPOXIA-INDUCIBLE FACTOR 1-BETA,HIF1-BETA

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): AB
Biological Unit 2 (1x): A (1x)B (1x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
179A1Ligand/Ion3-{[(1S)-2,2-DIFLUORO-1-HYDROXY-7-(METHYLSULFONYL)-2,3-DIHYDRO-1H-INDEN-4-YL]OXY}-5-FLUOROBENZONITRILE
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
179A1Ligand/Ion3-{[(1S)-2,2-DIFLUORO-1-HYDROXY-7-(METHYLSULFONYL)-2,3-DIHYDRO-1H-INDEN-4-YL]OXY}-5-FLUOROBENZONITRILE
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
179A1Ligand/Ion3-{[(1S)-2,2-DIFLUORO-1-HYDROXY-7-(METHYLSULFONYL)-2,3-DIHYDRO-1H-INDEN-4-YL]OXY}-5-FLUOROBENZONITRILE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:244 , SER A:246 , HIS A:248 , MET A:252 , ALA A:277 , PHE A:280 , TYR A:281 , MET A:289 , SER A:292 , HIS A:293 , LEU A:296 , VAL A:302 , SER A:304 , TYR A:307 , MET A:309 , THR A:321 , ILE A:337 , CYS A:339 , ASN A:341 , HOH A:502binding site for residue 79A A 401

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5TBM)

(-) Sequences/Alignments

Asymmetric 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    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:106
                                                                                                                                          
               SCOP domains ---------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhh.eeeeee.....eeee...hhhhhh.hhhhh...hhhhh.hhhhhhhhhhhhhhhhhhheee...eeee.....eeeeeeeeeee.....eeeeeeee..... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------- Transcript
                 5tbm A 239 LDSKTFLSEHSMDMKFTYCDDRITELIGYHPEELLGRSAYEFYHALDSENMTKSHQNLCTKGQVVSGQYRMLAKHGGYVWLETQGTVIYNPPQCIMCVNYVLSEIE 348
                                   248       258       268       278       288       298       308       318       328||     342      
                                                                                                                    329|              
                                                                                                                     334              


Chain B from PDB  Type:PROTEIN  Length:110
                                                                                                                                              
               SCOP domains -------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeee.....eeee..hhhhhhh.hhhhhh..hhhhhh...hhhhhhhhhhhhh......eeeeeeee.....eeeeeeeeeee.........eeeeeeee.... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------- Transcript
                 5tbm B 358 CQPTRFISRHNIEGIFTFVDHRCVATVGYQPQELLGKNIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKNQEWLWMRTSSFTFQNPYSDEIEYIICTNTNVKNS 467
                                   367       377       387       397       407       417       427       437       447       457       467
   Legend:   → Mismatch (orange background)
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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 5TBM)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (60, 79)

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  5tbm
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  ARNT_HUMAN | P27540
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  EPAS1_HUMAN | Q99814
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 Related Entries

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

UniProtKB/Swiss-Prot
        ARNT_HUMAN | P27540: 1d7g 1x0o 2a24 2arn 2b02 2hv1 2k7s 3f1n 3f1o 3f1p 3h7w 3h82 4eq1 4ghi 4gs9 4h6j 4lpz 4pky 4xt2 5nj8 5ufp 5v0l
        EPAS1_HUMAN | Q99814: 1p97 2a24 3f1n 3f1o 3f1p 3h7w 3h82 4ghi 4gs9 4pky 4xt2 5kiz 5ufp

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