5JH5	Metal Binding Protein Transcription	date	Apr 20, 2016
title	Structural Basis For The Hierarchical Assembly Of The Core O
authors	S.J.Wong, A.B.Taylor, P.J.Hart, C.A.Kim
compound		source
Molecule: Lysine-Specific Demethylase 2b Chain: A Fragment: Residues 1059-1336 Synonym: Cxxc-Type Zinc Finger Protein 2,F-Box And Leucine- Repeat Protein 10,F-Box Protein Fbl10,F-Boxlrr-Repeat Prot Jmjc Domain-Containing Histone Demethylation Protein 1b,Jum Domain-Containing Emsy-Interactor Methyltransferase Motif P Protein Jemma,Protein-Containing Cxxc Domain 2,[Histone-H3] Demethylase 1b; Ec: 1.14.11.27 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Kdm2b, Cxxc2, Fbl10, Fbxl10, Jhdm1b, Pccx2 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: S-Phase Kinase-Associated Protein 1 Chain: B Fragment: Residues 2-163 Synonym: Cyclin-Acdk2-Associated Protein P19,P19a,Organ Of Protein 2,Ocp-2,Organ Of Corti Protein II,Ocp-II,Rna Polyme Elongation Factor-Like Protein,Siii,Transcription Elongatio Polypeptide 1-Like,P19skp1; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Skp1, Emc19, Ocp2, Skp1a, Tceb1l Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Polycomb Group Ring Finger Protein 1 Chain: C Fragment: Residues 150-255 Synonym: Nervous System Polycomb-1,Nspc1,Ring Finger Protei Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pcgf1, Nspc1, Rnf68 Expression_system: Escherichia Coli Expression_system_taxid: 562
Molecule: Bcl-6 Corepressor-Like Protein 1 Chain: D Fragment: Residues 1594-1711 Synonym: Bcor-Like Protein 1 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Bcorl1 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 21 21 21	R_factor 0.206 R_Free 0.257
crystal cell	length a length b length c angle alpha angle beta angle gamma 70.049 73.796 123.014 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.55 Å
ligand	MSE	enzyme	Oxidoreductase E.C.1.14.11.27 BRENDA
Gene Ontology	Chain Function Process Component B
Primary reference	KDM2B Recruitment of the Polycomb Group Complex, PRC1.1, Requires Cooperation between PCGF1 and BCORL1., Wong SJ, Gearhart MD, Taylor AB, Nanyes DR, Ha DJ, Robinson AK, Artigas JA, Lee OJ, Demeler B, Hart PJ, Bardwell VJ, Kim CA, Structure. 2016 Aug 23. pii: S0969-2126(16)30222-2. doi:, 10.1016/j.str.2016.07.011. PMID:27568929

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (110 Kb) [Save to disk] Biological Unit Coordinates (5jh5.pdb1.gz) 103 Kb LPC: Ligand-Protein Contacts for 5JH5 CSU: Contacts of Structural Units for 5JH5 Structure Factors (301 Kb) Retrieve 5JH5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5JH5 from S2C, [Save to disk] Re-refined 5jh5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5JH5 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 5JH5

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5jh5_A] [5jh5] [5jh5_B] [5jh5_D] [5jh5_C] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 5JH5: [FBOX] [LRR] [Skp1 ] by SMART

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