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(-) Description

Title :  CRYSTAL STRUCTURE OF EED IN COMPLEX WITH UNC4859
 
Authors :  J. The, K. D. Barnash, P. J. Brown, A. M. Edwards, C. Bountra, S. V. Frye, L C. H. Arrowsmith
Date :  04 Nov 16  (Deposition) - 11 Jan 17  (Release) - 29 Mar 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.74
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Wd40, Eed Peptide Inhibitor, Transcription Regulator-Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. D. Barnash, J. The, J. L. Norris-Drouin, S. H. Cholensky, B. M. Worley, F. Li, J. I. Stuckey, P. J. Brown, M. Vedadi, C. H. Arrowsmith, S. V. Frye, L. I. James
Discovery Of Peptidomimetic Ligands Of Eed As Allosteric Inhibitors Of Prc2.
Acs Comb Sci V. 19 161 2017
PubMed-ID: 28165227  |  Reference-DOI: 10.1021/ACSCOMBSCI.6B00174

(-) Compounds

Molecule 1 - POLYCOMB PROTEIN EED
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28-MHL
    Expression System Strain: BL21(DE3)CODON PLUS RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: EED
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HEED,WD PROTEIN ASSOCIATING WITH INTEGRIN CYTOPLASMIC TAILS 1,WAIT-1
 
Molecule 2 - UNC4859
    Chains: B, D
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Other Details: THE PEPTIDE WAS SYNTHESIZED TO MIMIC THE JARID2 PEPTIDE LIGAND OF EED
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 28)

Asymmetric Unit (4, 28)
No.NameCountTypeFull Name
1M3L2Mod. Amino AcidN-TRIMETHYLLYSINE
2NLW2Mod. Amino AcidL-LEUCINAMIDE
3SO42Ligand/IonSULFATE ION
4UNX22Ligand/IonUNKNOWN ATOM OR ION
Biological Unit 1 (4, 14)
No.NameCountTypeFull Name
1M3L1Mod. Amino AcidN-TRIMETHYLLYSINE
2NLW1Mod. Amino AcidL-LEUCINAMIDE
3SO41Ligand/IonSULFATE ION
4UNX11Ligand/IonUNKNOWN ATOM OR ION
Biological Unit 2 (4, 14)
No.NameCountTypeFull Name
1M3L1Mod. Amino AcidN-TRIMETHYLLYSINE
2NLW1Mod. Amino AcidL-LEUCINAMIDE
3SO41Ligand/IonSULFATE ION
4UNX11Ligand/IonUNKNOWN ATOM OR ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:105 , ARG A:269 , HOH A:605 , HOH A:672binding site for residue SO4 A 501
2AC2SOFTWAREHIS A:407 , LYS A:408 , PHE C:289 , SER C:291 , LYS C:293 , HOH C:604 , HOH C:786binding site for residue SO4 C 501

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5TTW)

(-) 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:362
                                                                                                                                                                                                                                                                                                                                                                                                          
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeee......eeeeee.........eeeeeee..eeeeeee.hhh.eeeeeeee.......eeeeeeee......eeeeeee...eeeeee....eeeeeee.....eeeeee......eeeeee....eeeee....eeeeee.........eeeeee.....eeeeee....eeeee..hhhhhhhhhhhhhhhhhhh......eee....eee.........eeeee..eeeee....eeeeeee.....hhhhh......eeeeeeee...........ee.....eeeee.....eeeee....hhhhheeeee........eeeeee.....eeeeee...eeeeeee. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ttw A  79 KYSFKCVNSLKEDHNQPLFGVQFNWHSKEGDPLVFATVGSNRVTLYECHSQGEIRLLQSYVDADADENFYTCAWTYDSNTSHPLLAVAGSRGIIRIINPITMQCIKHYVGHGNAINELKFHPRDPNLLLSVSKDHALRLWNIQTDTLVAIFGGVEGHRDEVLSADYDLLGEKIMSCGMDHSLKLWRINSKRMMNAIKESYDYNPNKTNRPFISQKIHFPDFSTRDIHRNYVDCVRWLGDLILSKSCENAIVCWKPGKMEDDIDKIKPSESNVTILGRFDYSQCDIWYMRFSMDFWQKMLALGNQVGKLYVWDLEVEDPHKAKCTTLTHHKCGAAIRQTSFSRDSSILIAVCDDASIWRWDRL 440
                                    88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438  


Chain B from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..... Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 5ttw B   1 PSkFx   5
                              | |
                              3-M3L
                                5-NLW


Chain C from PDB  Type:PROTEIN  Length:361
                                                                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeee......eeeeee.........eeeeeee..eeeeeee.....eeeeeeee.......eeeeeeee......eeeeeee....eeeee....eeeeee......eeeeee......eeeeee....eeeee....eeeeee.........eeeeee.....eeeeee....eeeee..hhhhhhhhhhhhhh...........eee....eee.........eeeee..eeeee....eeeeeee....hhhhh......eeeeeeee...........ee.....eeeee.....eeeee.......eeee........eeeeee.....eeeeee...eeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ttw C  77 KCKYSFKCVNSLKEDHNQPLFGVQFNWHSKEGDPLVFATVGSNRVTLYECHSQGEIRLLQSYVDADADENFYTCAWTYDSNTSHPLLAVAGSRGIIRIINPITMQCIKHYVGHGNAINELKFHPRDPNLLLSVSKDHALRLWNIQTDTLVAIFGGVEGHRDEVLSADYDLLGEKIMSCGMDHSLKLWRINSKRMMNAIKESYDYNPNKTNRPFISQKIHFPDFSTRDIHRNYVDCVRWLGDLILSKSCENAIVCWKPGKMDDIDKIKPSESNVTILGRFDYSQCDIWYMRFSMDFWQKMLALGNQVGKLYVWDLEVEKAKCTTLTHHKCGAAIRQTSFSRDSSILIAVCDDASIWRWDRLR 441
                                    86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296       306       316       326       336|      347       357       367       377       387      |400       410       420       430       440 
                                                                                                                                                                                                                                                                                             336|                                                     394|                                           
                                                                                                                                                                                                                                                                                              338                                                      398                                           


Chain D from PDB  Type:PROTEIN  Length:5
                                     
               SCOP domains ----- SCOP domains
               CATH domains ----- CATH domains
               Pfam domains ----- Pfam domains
         Sec.struct. author ..... Sec.struct. author
                 SAPs(SNPs) ----- SAPs(SNPs)
                    PROSITE ----- PROSITE
                 Transcript ----- Transcript
                 5ttw D   1 PSkFx   5
                              | |
                              3-M3L
                                5-NLW
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  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 5TTW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (20, 20)

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  5ttw
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  EED_HUMAN | O75530
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 Related Entries

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

UniProtKB/Swiss-Prot
        EED_HUMAN | O75530: 3iiw 3iiy 3ij0 3ij1 3ijc 3jpx 3jzg 3jzh 3jzn 3k26 3k27 4x3e 5gsa 5h13 5h14 5h15 5h17 5h19 5h24 5h25 5hyn 5ij7 5ij8 5k0m 5ls6 5u5h 5u5k 5u5t 5u62 5u69 5u6d 5u8a 5u8f 5wuk

(-) Related Entries Specified in the PDB File

3k26 ENTRY WAS USED AS STARTING MODEL