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(-) Description

Title :  UBN1 PEPTIDE BOUND TO H3.3/H4/ASF1
 
Authors :  R. Marmorstein, M. D. Ricketts, Y. Tang
Date :  14 Apr 15  (Deposition) - 15 Jul 15  (Release) - 29 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.25
Chains :  Asym./Biol. Unit :  A,B,C,D
Keywords :  Histone Chaperone, Complex, Chromatin Assembly, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Daniel Ricketts, B. Frederick, H. Hoff, Y. Tang, D. C. Schultz, T. Singh Rai, M. Grazia Vizioli, P. D. Adams, R. Marmorstein
Ubinuclein-1 Confers Histone H3. 3-Specific-Binding By The Hira Histone Chaperone Complex.
Nat Commun V. 6 7711 2015
PubMed-ID: 26159857  |  Reference-DOI: 10.1038/NCOMMS8711

(-) Compounds

Molecule 1 - HISTONE CHAPERONE ASF1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Cell Line: ROSETTA2(DE3)
    Expression System Plasmid: PST39
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 2-169
    Gene: ASF1, CIA1, YJL115W, J0755
    Organism Common: BAKER'S YEAST
    Organism Scientific: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / S288C)
    Organism Taxid: 559292
    Strain: ATCC 204508 / S288C
    Synonym: ANTI-SILENCING FUNCTION PROTEIN 1,YASF1
 
Molecule 2 - HISTONE H3
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Cell Line: ROSETTA2(DE3)
    Expression System Plasmid: PST39
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 62-136
    Mutation: YES
    Organism Common: AFRICAN CLAWED FROG
    Organism Scientific: XENOPUS LAEVIS
    Organism Taxid: 8355
 
Molecule 3 - HISTONE H4
    Chains: C
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Cell Line: ROSETTA2(DE3)
    Expression System Plasmid: PST39
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 21-103
    Organism Common: AFRICAN CLAWED FROG
    Organism Scientific: XENOPUS LAEVIS
    Organism Taxid: 8355
 
Molecule 4 - UBINUCLEIN-1
    Chains: D
    Engineered: YES
    Fragment: UNP RESIDUES 122-148
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: HIRA-BINDING PROTEIN,PROTEIN VT4,UBIQUITOUSLY EXPRESSED NUCLEAR PROTEIN
    Synthetic: YES

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABCD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
1ACE1Mod. Amino AcidACETYL GROUP
2CL8Ligand/IonCHLORIDE ION
3MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL

(-) Sites  (9, 9)

Asymmetric Unit (9, 9)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:5 , LEU A:6 , ARG A:148binding site for residue CL A 201
2AC2SOFTWAREGLU A:116 , TYR A:117binding site for residue CL A 202
3AC3SOFTWAREALA A:141 , GLU A:142 , HOH A:358binding site for residue CL A 203
4AC4SOFTWAREPRO A:21 , PRO A:78 , HOH A:347 , ALA B:60 , ARG C:36binding site for residue MPD A 204
5AC5SOFTWARESER A:91 , VAL A:92 , ARG B:116 , LYS B:122binding site for residue CL B 201
6AC6SOFTWAREARG B:63 , ARG C:36 , HOH C:308 , HOH C:320binding site for residue CL B 202
7AC7SOFTWAREPRO B:121 , LYS B:122binding site for residue CL B 203
8AC8SOFTWAREARG B:63 , LYS B:64binding site for residue CL B 204
9AC9SOFTWARESER A:75 , HOH A:308 , HOH A:390 , ARG C:35binding site for residue CL C 201

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Asn A:14 -Pro A:15
2Gly A:63 -Pro A:64

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4ZBJ)

(-) 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:160
                                                                                                                                                                                                
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........eeeeeeee....ee....eeeeeeeee.......eeeeeeee........eeeeeeeee.....eeeeeeeee...hhhhhhhhhhh..eeeeeeeee..eeeeeeeeeeeeee.hhhhhhh.....hhh.eeeee.....eeee...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4zbj A  -5 PLGSPNSSIVSLLGIKVLNNPAKFTDPYEFEITFECLESLKHDLEWKLTYVGSSRSLDHDQELDSILVGPVPVGVNKFVFSADPPSAELIPASELVSVTVILLSCSYDGREFVRVGYYVNNEYDEEELRENPPAKVQVDHIVRNILAEKPRVTRFNIVWD 154
                                     4        14        24        34        44        54        64        74        84        94       104       114       124       134       144       154


Chain B from PDB  Type:PROTEIN  Length:74
                                                                                                          
               SCOP domains -------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhh...eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------- Transcript
                 4zbj B  60 ALIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQEASEAYLVALFEDTNLCAIHAKRVTIMPKDIQLARRIRGE 133
                                    69        79        89        99       109       119       129    


Chain C from PDB  Type:PROTEIN  Length:82
                                                                                                                  
               SCOP domains ---------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhhh...eehhhhhhhhhh...eeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------- Transcript
                 4zbj C  21 VLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG 102
                                    30        40        50        60        70        80        90       100  


Chain D from PDB  Type:PROTEIN  Length:22
                                                      
               SCOP domains ---------------------- SCOP domains
               CATH domains ---------------------- CATH domains
               Pfam domains ---------------------- Pfam domains
         Sec.struct. author .hhhhhhh.............. Sec.struct. author
                 SAPs(SNPs) ---------------------- SAPs(SNPs)
                    PROSITE ---------------------- PROSITE
                 Transcript ---------------------- Transcript
                 4zbj D 121 xIQDLIDMGYGYDESDSFIDNS 142
                            |      130       140  
                          121-ACE
   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 4ZBJ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (34, 46)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Asn A:14 - Pro A:15   [ RasMol ]  
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  UBN1_HUMAN | Q9NPG3
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 Related Entries

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

UniProtKB/Swiss-Prot
        ASF1_YEAST | P32447: 1roc 1wg3 2hue 2idc 2ygv 4eo5 5eii
        H4_XENLA | P62799: 1aoi 1kx3 1kx4 1kx5 1m18 1m19 1m1a 1p34 1p3a 1p3b 1p3f 1p3g 1p3i 1p3k 1p3l 1p3m 1p3o 1p3p 1s32 1zbb 1zla 2f8n 2fj7 2hue 2io5 2nzd 3b6f 3b6g 3c1b 3c1c 3kuy 3kwq 3kxb 3lel 3lja 3lz0 3lz1 3mgp 3mgq 3mgr 3mgs 3mnn 3mvd 3o62 3reh 3rei 3rej 3rek 3rel 3tu4 3ut9 3uta 3utb 4eo5 4j8u 4j8v 4j8w 4j8x 4kgc 4ld9 4r8p 4wu8 4wu9 4xuj 4xzq 4ys3 4z66 4zux 5bs7 5bsa 5cp6 5dnm 5dnn 5e5a 5f99 5hq2 5kgf 5mlu 5nl0 5x0x 5x0y

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4ZBJ)