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(-) Description

Title :  CRYSTAL STRUCTURE OF SETDB1 TUDOR DOMAIN IN COMPLEX WITH INHIBITOR XST06472A
 
Authors :  A. Dong, A. Iqbal, P. Mader, E. Dobrovetsky, J. R. Walker, C. Bountra, C. H. Arrowsmith, A. M. Edwards, P. J. Brown, Structural Genomics Co (Sgc)
Date :  09 Jun 16  (Deposition) - 13 Jul 16  (Release) - 13 Jul 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.56
Chains :  Asym./Biol. Unit :  A
Keywords :  Setdb1, Tudor Domain, Structural Genomics, Structural Genomics Consortium, Sgc, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Iqbal, P. Mader, A. Dong, E. Dobrovetsky, J. R. Walker, C. Bountra, C. H. Arrowsmith, A. M. Edwards, P. J. Brown
Crystal Structure Of Setdb1 Tudor Domain In Complex With Inhibitor Xst06472A
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HISTONE-LYSINE N-METHYLTRANSFERASE SETDB1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28-MHL
    Expression System Strain: BL21(DE3)-V2R-PRARE2
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: SETDB1, KIAA0067, KMT1E
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ERG-ASSOCIATED PROTEIN WITH SET DOMAIN,ESET,HISTONE H3-K9 METHYLTRANSFERASE 4,H3-K9-HMTASE 4,LYSINE N-METHYLTRANSFERASE 1E,SET DOMAIN BIFURCATED 1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 17)

Asymmetric/Biological Unit (4, 17)
No.NameCountTypeFull Name
16S41Ligand/Ion(3~{S})-~{N}-~{TERT}-BUTYL-1,2,3,4-TETRAHYDROISOQUINOLINE-3-CARBOXAMIDE
2EDO2Ligand/Ion1,2-ETHANEDIOL
3SO46Ligand/IonSULFATE ION
4UNX8Ligand/IonUNKNOWN ATOM OR ION

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETRP A:358 , TRP A:363 , PHE A:379 , ASP A:382 , ARG A:384 , CYS A:385binding site for residue 6S4 A 501
2AC2SOFTWARETYR A:193 , SER A:262 , PRO A:316 , THR A:320 , HOH A:611 , HOH A:634 , HOH A:662 , HOH A:737binding site for residue EDO A 502
3AC3SOFTWAREGLU A:322 , ARG A:330 , LEU A:348 , LYS A:349 , HOH A:616 , HOH A:618binding site for residue EDO A 503
4AC4SOFTWAREARG A:209 , TRP A:363 , LYS A:364 , ASP A:381 , HOH A:612 , HOH A:719binding site for residue SO4 A 504
5AC5SOFTWAREHIS A:214 , LYS A:215 , HOH A:609 , HOH A:615 , HOH A:621 , HOH A:646 , HOH A:686binding site for residue SO4 A 505
6AC6SOFTWARELYS A:229 , LEU A:242 , SER A:243 , HIS A:246 , HOH A:602 , HOH A:625 , HOH A:679 , HOH A:690binding site for residue SO4 A 506
7AC7SOFTWARETHR A:306 , GLN A:307 , SER A:308 , ARG A:384binding site for residue SO4 A 507
8AC8SOFTWAREGLU A:357 , GLY A:360 , TRP A:362 , PHE A:399 , HOH A:721 , HOH A:767binding site for residue SO4 A 508
9AC9SOFTWAREARG A:203 , LYS A:215binding site for residue SO4 A 509

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5KE2)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Tyr A:340 -Pro A:341

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5KE2)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5KE2)

(-) Exons   (0, 0)

(no "Exon" information available for 5KE2)

(-) 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    
   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:207
                                                                                                                                                                                                                                               
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .ee.ee..ee...eeeee.....eeeeeeeeeeee..eeeeeeee....eeeehhh.ee.....hhhhh....eeeeee..eeeeeeeee.........eeeee....eeeehhh.eee......hhhhhh.hhhhhhhhhhhhhhh............eeeeee..eeeeeeeeeee..eeeeee....eeeeee.....hhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5ke2 A 190 ENLYFQGDLIVSMRILGKKRTKTWHKGTLIAIQTVGPGKKYKVKFDNKGKSLLSGNHIAYDYHPPADKLYVGSRVVAKYKVWLYAGIVAETPNVKNKLRFLIFFDDGYASYVTQSELYPICRPLKKTWEDIEDISCRDFIEEYVTAYPNRPMVLLKSGQLIKTEWEGTWWKSRVEEVDGSLVRILFLDDKRCEWIYRGSTRLEPMFS 400
                                   199       209       219       229       239       249       259       269|      283       293       303       313       323       333       343       353       363       373       383       393       
                                                                                                         269|                                                                                                                              
                                                                                                          274
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  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 5KE2)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5KE2)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5KE2)

(-) Gene Ontology  (22, 22)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Tyr A:340 - Pro A:341   [ RasMol ]  
 

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  SETB1_HUMAN | Q15047
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 Related Entries

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

UniProtKB/Swiss-Prot
        SETB1_HUMAN | Q15047: 3dlm 4x3s 5kch 5kco 5ke3 5kh6

(-) Related Entries Specified in the PDB File

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