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(-) Description

Title :  X-RAY CRYSTAL STRUCTURE OF BRPF1 PZP DOMAIN
 
Authors :  B. J. Klein, F. H. Andrews, T. G. Kutateladze
Date :  13 Nov 15  (Deposition) - 30 Dec 15  (Release) - 20 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.05
Chains :  Asym./Biol. Unit :  A
Keywords :  Reader Domain, Methyllysine, Dna, H3 Histone, Transcription (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. J. Klein, U. M. Muthurajan, M. E. Lalonde, M. D. Gibson, F. H. Andrews M. Hepler, S. Machida, K. Yan, H. Kurumizaka, M. G. Poirier, J. Cote, K. Luger, T. G. Kutateladze
Bivalent Interaction Of The Pzp Domain Of Brpf1 With The Nucleosome Impacts Chromatin Dynamics And Acetylation.
Nucleic Acids Res. V. 44 472 2016
PubMed-ID: 26626149  |  Reference-DOI: 10.1093/NAR/GKV1321

(-) Compounds

Molecule 1 - PEREGRIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: PZP DOMAIN (UNP RESIDUES 274-450)
    Gene: BRPF1, BR140
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: BROMODOMAIN AND PHD FINGER-CONTAINING PROTEIN 1,PROTEIN BR140

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2ZN5Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:293 , CYS A:296 , CYS A:317 , CYS A:320binding site for residue ZN A 501
2AC2SOFTWARECYS A:276 , CYS A:279 , HIS A:301 , CYS A:304binding site for residue ZN A 502
3AC3SOFTWARECYS A:330 , CYS A:333 , HIS A:350 , CYS A:353binding site for residue ZN A 503
4AC4SOFTWARECYS A:386 , CYS A:389 , HIS A:410 , CYS A:413binding site for residue ZN A 504
5AC5SOFTWARECYS A:400 , CYS A:405 , CYS A:444 , HIS A:447binding site for residue ZN A 505
6AC6SOFTWAREGLY A:346 , HOH A:693 , HOH A:713 , HOH A:748binding site for residue CA A 506

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Glu A:369 -Pro A:370

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5ERC)

(-) 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:167
                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................eee......eeehhhhh..........hhhhhh.................eee.....eeehhhhhhh...eeee....eeeehhhhhhhhhhhh.............ee........eehhhhhhhh..eeeee....eeeee....... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5erc A 274 AVCCICNDGECQNSNVILFCDMCNLAVHQECYGVPYIPEGQWLCRRCLQSPSRAVDCALCPNKGGAFKQTDDGRWAHVVCALWIPEVCFANTVFLEPIDSIEHIPPARWKLTCYICKQRGSGACIQCHKANCYTAFHVTCAQQAGLYMKMEPVRVRKTAYCDIHTPP 450
                                   283       293       303       313       323       333       343       353       363       373       383       393       403       413       423   ||  443       
                                                                                                                                                                                   427|            
                                                                                                                                                                                    438
   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 5ERC)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (13, 13)

Asymmetric/Biological Unit(hide GO term definitions)

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  5erc
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  BRPF1_HUMAN | P55201
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 Related Entries

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

UniProtKB/Swiss-Prot
        BRPF1_HUMAN | P55201: 2d9e 2rs9 2x35 2x4w 2x4x 2x4y 3l42 3mo8 4lc2 4qyd 4qyl 4uye 5c6s 5c7n 5c85 5c87 5c89 5d7x 5dy7 5dya 5dyc 5e3d 5e3g 5em3 5epr 5eps 5eq1 5etb 5etd 5ev9 5eva 5ewc 5ewd 5ewh 5ewv 5eww 5ffv 5ffw 5ffy 5fg4 5fg5 5g4r 5g4s 5t4u 5t4v

(-) Related Entries Specified in the PDB File

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