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(-) Description

Title :  STRUCTURE OF THE BROMODOMAIN OF HUMAN ATPASE FAMILY AAA DOMAIN-CONTAINING PROTEIN 2 (ATAD2) COMPLEXED WITH HISTONE H4-K(AC)12
 
Authors :  A. Chaikuad, I. Felletar, F. Von Delft, C. H. Arrowsmith, A. M. Edwards C. Bountra, S. Knapp, Structural Genomics Consortium (Sgc)
Date :  12 Jul 14  (Deposition) - 30 Jul 14  (Release) - 06 Apr 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.70
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Structural Genomics, Structural Genomics Consortium, Sgc, Signaling Protein, Bromodomain, Actyl-Lysine Binding, Atpase Family Aaa Domain-Containing Protein 2, Epigenetics, Histone, Bromodomain- Histone, Structural Genomics Consortium (Sgc) (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Y. Morozumi, F. Boussouar, M. Tan, A. Chaikuad, M. Jamshidikia, G. Colak, H. He, L. Nie, C. Petosa, M. De Dieuleveult, S. Curtet, A. L. Vitte, C. Rabatel, A. Debernardi, F. L. Cosset, E. Verhoeyen, A. Emadali, N. Schweifer, D. Gianni, M. Gut, P. Guardiola, S. Rousseaux, M. Gerard, S. Knapp, Y. Zhao, S. Khochbin
Atad2 Is A Generalist Facilitator Of Chromatin Dynamics In Embryonic Stem Cells.
J Mol Cell Biol 2015
PubMed-ID: 26459632  |  Reference-DOI: 10.1093/JMCB/MJV060

(-) Compounds

Molecule 1 - ATPASE FAMILY AAA DOMAIN-CONTAINING PROTEIN 2
    ChainsA
    EC Number3.6.1.3
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPNIC28-BSA4
    Expression System StrainBL21-R3-PRARE2
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentBROMODOMAIN (RESIDUES 981-1108)
    GeneATAD2, L16, PRO2000
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymAAA NUCLEAR COREGULATOR CANCER-ASSOCIATED PROTEIN, ANCCA
 
Molecule 2 - HISTONE H4
    ChainsB
    EngineeredYES
    FragmentHISTONE H4 TAIL
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsTHIS SEQUENCE OCCURS NATURALLY IN HUMANS
    SyntheticYES

 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
1ALY1Mod. Amino AcidN(6)-ACETYLLYSINE
2EDO11Ligand/Ion1,2-ETHANEDIOL
3SO41Ligand/IonSULFATE ION

(-) Sites  (12, 12)

Asymmetric Unit (12, 12)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREARG A:987 , ARG A:990 , ARG A:994 , ARG A:1067 , ARG A:1072 , HOH A:1421 , HOH A:1444 , HOH A:1445BINDING SITE FOR RESIDUE SO4 A 1201
02AC2SOFTWAREGLU A:988 , ASP A:1094 , PHE A:1097 , HOH A:1398 , HOH A:1461BINDING SITE FOR RESIDUE EDO A 1202
03AC3SOFTWARETYR A:1063 , HOH A:1405 , HOH A:1469 , GLY B:9 , LEU B:10BINDING SITE FOR RESIDUE EDO A 1203
04AC4SOFTWAREILE A:1089 , LYS A:1090 , LEU A:1093 , GLU A:1095 , EDO A:1212 , HOH A:1441 , HOH A:1477BINDING SITE FOR RESIDUE EDO A 1204
05AC5SOFTWAREHIS A:998 , GLU A:1092 , HOH A:1346 , HOH A:1477BINDING SITE FOR RESIDUE EDO A 1205
06AC6SOFTWAREARG A:1082 , ASP A:1083 , HOH A:1325 , HOH A:1553BINDING SITE FOR RESIDUE EDO A 1206
07AC7SOFTWAREARG A:1072 , ARG A:1075 , HOH A:1371 , HOH A:1411 , HOH A:1476BINDING SITE FOR RESIDUE EDO A 1207
08AC8SOFTWARELYS A:1026 , SER A:1033 , SER A:1036 , HOH A:1349 , HOH A:1430BINDING SITE FOR RESIDUE EDO A 1208
09AC9SOFTWARELYS A:1037 , LYS A:1042 , ASP A:1048 , ARG A:1051 , HOH A:1487BINDING SITE FOR RESIDUE EDO A 1209
10BC1SOFTWARELYS A:1004 , ARG A:1007 , ARG A:1077 , EDO A:1211 , HOH A:1415 , HOH A:1464BINDING SITE FOR RESIDUE EDO A 1210
11BC2SOFTWAREARG A:1077 , EDO A:1210 , HOH A:1345BINDING SITE FOR RESIDUE EDO A 1211
12BC3SOFTWARELYS A:1047 , GLU A:1098 , EDO A:1204 , HOH A:1441BINDING SITE FOR RESIDUE EDO A 1212

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4QUT)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4QUT)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4QUT)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4QUT)

(-) Exons   (0, 0)

(no "Exon" information available for 4QUT)

(-) 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:130
                                                                                                                                                                   
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhh....hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                4qut A  979 SMQEEDTFRELRIFLRNVTHRLAIDKRFRVFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIKEELDEDFEQLCEEIQESR 1108
                                   988       998      1008      1018      1028      1038      1048      1058      1068      1078      1088      1098      1108

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
                4qut B    9 GLGkG   13
                               | 
                              12-ALY

   Legend:   → Mismatch (orange background)
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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 4QUT)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4QUT)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4QUT)

(-) Gene Ontology  (41, 45)

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
        ATAD2_HUMAN | Q6PL183dai 4qsp 4qsq 4qsr 4qss 4qst 4qsu 4qsv 4qsw 4qsx 4quu 4tt2 4tt4 4tt6 4tte 4tu4 4tu6 4tyl 4tz2 4tz8 5a5n 5a5o 5a5p 5a5q 5a5r 5a81 5a82 5a83 5epb 5f36 5f3a 5lj0
        H4_HUMAN | P628051kx4 1kx5 1m18 1m19 1m1a 1s32 1zkk 2bqz 2cv5 2ig0 2kwn 2kwo 2lvm 2qqs 2rje 2rny 2rs9 3a6n 3afa 3an2 3av1 3av2 3ayw 3aze 3azf 3azg 3azh 3azi 3azj 3azk 3azl 3azm 3azn 3cfs 3cfv 3f9w 3f9x 3f9y 3f9z 3ij1 3jpx 3nqj 3nqu 3o36 3qby 3qzs 3qzt 3qzv 3r45 3uvw 3uvx 3uvy 3uw9 3w96 3w97 3w98 3w99 3wa9 3waa 3wkj 3wtp 3x1s 3x1t 3x1u 3x1v 4gqb 4h9n 4h9o 4h9p 4h9q 4h9r 4h9s 4hga 4m38 4n3w 4n4f 4quu 4qyd 4u9w 4ym5 4ym6 4yy6 4yyd 4yyg 4yyh 4yyi 4yyj 4yyk 4yym 4yyn 4z2m 4z5t 5av5 5av6 5av8 5av9 5avb 5avc 5ay8 5b0y 5b0z 5b24 5b2i 5b2j 5b31 5b32 5b33 5b40 5bnv 5bnx 5bo0 5c3i 5cpi 5cpj 5cpk 5fa5 5ffw 5fwe 5gse 5gsu 5gt0 5gt3 5gtc 5gxq 5ja4 5jrg 5kdm 5teg 5x7x

(-) Related Entries Specified in the PDB File

4quu