6PX3 Gene Regulation date Jul 24, 2019
title Set2 Bound To Nucleosome
authors M.Halic, S.Bilokapic
compound source
Molecule: Histone H3
Chain: A, E
Engineered: Yes
Mutation: Yes
Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: Xelaev_18002543mg
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H4
Chain: B, F
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Ubiquitin-60s Ribosomal Protein L40,Histone H2a
Chain: C, G
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae (Strain Atcc S288c), Xenopus Laevis;
Organism_common: Baker'S Yeast, African Clawed Frog
Organism_taxid: 559292, 8355
Strain: Atcc 204508 S288c
Gene: Rpl40b, Ubi2, Ykr094c, Hist1h2aj, Loc494591, Xelaev_18003602mg;
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Histone H2b 1.1
Chain: D, H
Synonym: H2b1.1
Engineered: Yes
Mutation: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (145-Mer)
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (145-Mer)
Chain: J
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Histone-Lysine N-Methyltransferase
Chain: S
Ec: 2.1.1.43
Engineered: Yes

Organism_scientific: Chaetomium Thermophilum (Strain Dsm 14 144.50 Imi 039719);
Organism_taxid: 759272
Strain: Dsm 1495 Cbs 144.50 Imi 039719
Gene: Ctht_0025760
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 4.10 Å
ligand ZN enzyme Transferase E.C.2.1.1.43 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


S


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (267 Kb) [Save to disk]
  • Biological Unit Coordinates (6px3.pdb1.gz) 256 Kb
  • LPC: Ligand-Protein Contacts for 6PX3
  • CSU: Contacts of Structural Units for 6PX3
  • Retrieve 6PX3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6PX3 from S2C, [Save to disk]
  • View 6PX3 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 6PX3
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6px3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6px3_D] [6px3_J] [6px3_I] [6px3_S] [6px3_F] [6px3_H] [6px3_G] [6px3_A] [6px3_B] [6px3_E] [6px3_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6PX3
  • Community annotation for 6PX3 at PDBWiki (http://pdbwiki.org)

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