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(-) Description

Title :  PWWP DOMAIN OF HUMAN BROMODOMAIN AND PHD FINGER-CONTAINING PROTEIN 3
 
Authors :  R. Lam, H. Zeng, J. Kania, C. Bountra, J. Weigelt, C. H. Arrowsmith, A. M. J. Min, H. Wu, Structural Genomics Consortium (Sgc)
Date :  29 Oct 10  (Deposition) - 10 Nov 10  (Release) - 21 Mar 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Structural Genomics, Structural Genomics Consortium, Sgc, Pwwp Domain, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  H. Wu, H. Zeng, R. Lam, W. Tempel, M. F. Amaya, C. Xu, L. Dombrovski, W. Qiu, Y. Wang, J. Min
Structural And Histone Binding Ability Characterizations Of Human Pwwp Domains.
Plos One V. 6 18919 2011
PubMed-ID: 21720545  |  Reference-DOI: 10.1371/JOURNAL.PONE.0018919

(-) Compounds

Molecule 1 - BROMODOMAIN AND PHD FINGER-CONTAINING PROTEIN 3
    Chains: A, B
    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
    Fragment: PWWP DOMAIN (UNP RESIDUES 1056-1195)
    Gene: BRPF3, KIAA1286
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric Unit (2, 3)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION
2ZN2Ligand/IonZINC ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1SO41Ligand/IonSULFATE ION
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1SO4-1Ligand/IonSULFATE ION
2ZN-1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:1084 , PHE A:1138 , GLN A:1146BINDING SITE FOR RESIDUE ZN A 1200
2AC2SOFTWAREHOH A:118 , ARG A:1101 , LEU A:1116 , LYS A:1120BINDING SITE FOR RESIDUE SO4 A 1300
3AC3SOFTWARECYS B:1084BINDING SITE FOR RESIDUE ZN B 1200

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3PFS)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3PFS)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3PFS)

(-) PROSITE Motifs  (1, 2)

Asymmetric Unit (1, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PWWPPS50812 PWWP domain profile.BRPF3_HUMAN1076-1159
 		  2A:1076-1159
B:1076-1159
Biological Unit 1 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PWWPPS50812 PWWP domain profile.BRPF3_HUMAN1076-1159
 		  1A:1076-1159
-
Biological Unit 2 (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PWWPPS50812 PWWP domain profile.BRPF3_HUMAN1076-1159
 		  1-
B:1076-1159

(-) Exons   (0, 0)

(no "Exon" information available for 3PFS)

(-) Sequences/Alignments

Asymmetric 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:134
 aligned with BRPF3_HUMAN | Q9ULD4 from UniProtKB/Swiss-Prot  Length:1205

    Alignment length:134
                                  1070      1080      1090      1100      1110      1120      1130      1140      1150      1160      1170      1180      1190    
         BRPF3_HUMAN   1061 GRSLLLPFEDRGDLEPLELVWAKCRGYPSYPALIIDPKMPREGLLHNGVPIPVPPLDVLKLGEQKQAEAGEKLFLVLFFDNKRTWQWLPRDKVLPLGVEDTVDKLKMLEGRKTSIRKSVQVAYDRAMIHLSRVR 1194
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..................eeeee.....eeeeeee........eee..eee...hhhhhhhhhhhhhhhh..eeeeee......eeeee...eee...hhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------PWWP  PDB: A:1076-1159 UniProt: 1076-1159                                           ----------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3pfs A 1061 GRSLLLPFEDRGDLEPLELVWAKCRGYPSYPALIIDPKMPREGLLHNGVPIPVPPLDVLKLGEQKQAEAGEKLFLVLFFDNKRTWQWLPRDKVLPLGVEDTVDKLKMLEGRKTSIRKSVQVAYDRAMIHLSRVR 1194
                                  1070      1080      1090      1100      1110      1120      1130      1140      1150      1160      1170      1180      1190    


Chain B from PDB  Type:PROTEIN  Length:130
 aligned with BRPF3_HUMAN | Q9ULD4 from UniProtKB/Swiss-Prot  Length:1205

    Alignment length:130
                                  1071      1081      1091      1101      1111      1121      1131      1141      1151      1161      1171      1181      1191
         BRPF3_HUMAN   1062 RSLLLPFEDRGDLEPLELVWAKCRGYPSYPALIIDPKMPREGLLHNGVPIPVPPLDVLKLGEQKQAEAGEKLFLVLFFDNKRTWQWLPRDKVLPLGVEDTVDKLKMLEGRKTSIRKSVQVAYDRAMIHLS 1191
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -----------PWWP-3pfsB01 B:1073-1171                                                                           -------------------- Pfam domains (1)
           Pfam domains (2) -----------PWWP-3pfsB02 B:1073-1171                                                                           -------------------- Pfam domains (2)
         Sec.struct. author .................eeee.......eeeeee.........ee..ee....hhhhhhhhhhhhhhhh...eeeee......eeeehhh.eee...hhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------PWWP  PDB: B:1076-1159 UniProt: 1076-1159                                           -------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------- Transcript
                3pfs B 1062 RSLLLPFEDRGDLEPLELVWAKCRGYPSYPALIIDPKMPREGLLHNGVPIPVPPLDVLKLGEQKQAEAGEKLFLVLFFDNKRTWQWLPRDKVLPLGVEDTVDKLKMLEGRKTSIRKSVQVAYDRAMIHLS 1191
                                  1071      1081      1091      1101      1111      1121      1131      1141      1151      1161      1171      1181      1191
   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 3PFS)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3PFS)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Tudor (88)
(-)
Family: PWWP (17)
(-)
Homo sapiens (Human) (15)
1aPWWP-3pfsB01B:1073-1171
1bPWWP-3pfsB02B:1073-1171

(-) Gene Ontology  (8, 8)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (BRPF3_HUMAN | Q9ULD4)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0043966    histone H3 acetylation    The modification of histone H3 by the addition of an acetyl group.
    GO:0002576    platelet degranulation    The regulated exocytosis of secretory granules containing preformed mediators such as histamine and serotonin by a platelet.
cellular component
    GO:0070776    MOZ/MORF histone acetyltransferase complex    A histone acetyltransferase complex that has histone H3 acetyltransferase and coactivator activities. Subunits of the human complex include MYST3/MOZ, MYST4/MORF, ING5, EAF6 and one of BRPF1, BRD1/BRPF2 and BRPF3.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.

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