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(-) Description

Title :  ASSEMBLY OF METHYLATED LSD1 AND CHD1 DRIVES AR-DEPENDENT TRANSCRIPTION AND TRANSLOCATION
 
Authors :  E. Metzger, D. Willmann, J. Mcmillan, K. Petroll, P. Metzger, S. Gerhar A. Vonmaessenhausen, A. K. Schott, A. Espejo, A. Eberlin, D. Wohlwend K. M. Schuele, M. Schleicher, S. Perner, M. T. Bedford, J. Dengjel, R. F O. Einsle, R. Schuele
Date :  26 Jan 15  (Deposition) - 13 Jan 16  (Release) - 02 Mar 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Hydrolase, Lsd1K114Me2, Androgen Receptor, Chd1, G9A, Prostate Cancer, Tmprrs2-Erg (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Metzger, D. Willmann, J. Mcmillan, I. Forne, P. Metzger, S. Gerhardt, K. Petroll, A. Von Maessenhausen, S. Urban, A. Schott, A. Espejo, A. Eberlin, D. Wohlwend, K. M. Schule, M. Schleicher, S. Perner, M. T. Bedford, M. Jung, J. Dengjel, R. Flaig, A. Imhof, O. Einsle, R. Schule
Assembly Of Methylated Kdm1A And Chd1 Drives Androgen Receptor-Dependent Transcription And Translocation.
Nat. Struct. Mol. Biol. V. 23 132 2016
PubMed-ID: 26751641  |  Reference-DOI: 10.1038/NSMB.3153

(-) Compounds

Molecule 1 - CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN 1
    Chains: A
    EC Number: 3.6.4.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RESIDUES 270-443
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: CHD-1, ATP-DEPENDENT HELICASE CHD1, CHROMODOMAIN-HELICASE-D NA-BINDING PROTEIN 1, CHD1
 
Molecule 2 - LYSINE-SPECIFIC HISTONE DEMETHYLASE 1A
    Chains: B
    EC Number: 1.-.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RESIDUES 108-119
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BRAF35-HDAC COMPLEX PROTEIN BHC110, FLAVIN-CONTAINING AMINE OXIDASE DOMAIN-CONTAINING PROTEIN 2

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 13)

Asymmetric/Biological Unit (3, 13)
No.NameCountTypeFull Name
1CL3Ligand/IonCHLORIDE ION
2EDO9Ligand/Ion1,2-ETHANEDIOL
3MLY1Mod. Amino AcidN-DIMETHYL-LYSINE

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWARELYS A:321 , TRP A:325 , SER A:326 , GLU A:420 , CYS A:421BINDING SITE FOR RESIDUE EDO A1447
02AC2SOFTWAREHIS A:397 , TYR A:418 , EDO A:1453 , HOH A:2081 , HOH A:2113BINDING SITE FOR RESIDUE EDO A1448
03AC3SOFTWAREGLN A:400 , LYS A:401 , SER A:402 , ASP A:408 , HOH A:2114BINDING SITE FOR RESIDUE EDO A1449
04AC4SOFTWAREGLY A:324 , TRP A:325 , SER A:326 , HIS A:329 , TRP A:423 , GLU A:424 , ARG B:112BINDING SITE FOR RESIDUE EDO A1450
05AC5SOFTWAREPRO A:313 , GLY A:314 , GLN A:340 , HOH A:2038BINDING SITE FOR RESIDUE EDO A1451
06AC6SOFTWARETHR A:292 , GLN A:389 , HOH A:2024 , HOH A:2074BINDING SITE FOR RESIDUE EDO A1452
07AC7SOFTWARESER A:398 , ASN A:399 , GLN A:400 , EDO A:1448BINDING SITE FOR RESIDUE EDO A1453
08AC8SOFTWAREARG A:281 , ASP A:302 , ASN A:304 , HOH A:2115BINDING SITE FOR RESIDUE EDO A1454
09AC9SOFTWAREGLU A:298 , ALA A:299 , ASP A:300 , GLY A:301 , HOH A:2116BINDING SITE FOR RESIDUE EDO A1455
10BC1SOFTWAREALA A:404BINDING SITE FOR RESIDUE CL A1462
11BC2SOFTWARETYR A:440BINDING SITE FOR RESIDUE CL A1464

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5AFW)

(-) 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:163
                                                                                                                                                                                                   
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeeeeeee....hhhhhhhhhhhhh............eeeeeeeee...hhhhheeehhhhhhhh....hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..eeeeeeeeeee.....eeeeeee...hhhhheeeehhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5afw A 270 EFETIERFMDCRIGRKGATGATTTIYAVEADGDPNAGFEKNKEPGEIQYLIKWKGWSHIHNTWETEETLKQQNVRGMKKLDNYKKKDQETKRWYNCQQELTDDLHKQYQIVERIIAHSNQKSAAGYPDYYCKWQGLPYSECSWEDGALISKKFQACIDEYFSR 443
                                   279       289       299       309       319       329       339       349       359  ||   380       390       400       410       420       430       440   
                                                                                                                      362|                                                                     
                                                                                                                       374                                                                     


Chain B from PDB  Type:PROTEIN  Length:7
                                       
               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
                 5afw B 110 TSRRkRA 116
                                |  
                              114-MLY
   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 5AFW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (76, 82)

Asymmetric/Biological Unit(hide GO term definitions)

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  5afw
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  KDM1A_HUMAN | O60341
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  3.6.4.12
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 Related Entries

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

UniProtKB/Swiss-Prot
        CHD1_HUMAN | O14646: 2b2t 2b2u 2b2v 2b2w 2b2y 2n39 4b4c 4nw2 4o42
        KDM1A_HUMAN | O60341: 2com 2dw4 2ejr 2h94 2hko 2iw5 2l3d 2uxn 2uxx 2v1d 2x0l 2xaf 2xag 2xah 2xaj 2xaq 2xas 2y48 2z3y 2z5u 3abt 3abu 3zms 3zmt 3zmu 3zmv 3zmz 3zn0 3zn1 4bay 4czz 4kum 4uv8 4uv9 4uva 4uvb 4uvc 4uxn 4xbf 5h6q 5h6r 5it3 5l3b 5l3c 5l3d 5l3e 5l3f 5l3g 5lbq 5lgn 5lgt 5lgu 5lhg 5lhh 5lhi 5x60

(-) Related Entries Specified in the PDB File

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