5YP6	Transcription Inhibitor	date	Nov 01, 2017
title	Rorgamma (263-509) Complexed With Src2 And Compound 6
authors	M.Gao, W.Cai
compound		source
Molecule: Nuclear Receptor Ror-Gamma Chain: A Synonym: Nuclear Receptor Rzr-Gamma,Nuclear Receptor Subfam Group F Member 3,Rar-Related Orphan Receptor C,Retinoid-Rel Orphan Receptor-Gamma; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Rorc, Nr1f3, Rorg, Rzrg Expression_system: Escherichia Coli-Thermus Thermophilus Sh Vector Ptrh1t; Expression_system_taxid: 1085940 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet21d
Molecule: Src2 Chain: B Engineered: Yes		Synthetic: Yes Organism_scientific: Homo Sapiens Organism_taxid: 9606
symmetry	Space Group: P 41 21 2	R_factor 0.213 R_Free 0.254
crystal cell	length a length b length c angle alpha angle beta angle gamma 62.201 62.201 154.822 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand	4CX	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	From RORgammat Agonist to Two Types of RORgammat Inverse Agonists., Wang Y, Cai W, Tang T, Liu Q, Yang T, Yang L, Ma Y, Zhang G, Huang Y, Song X, Orband-Miller LA, Wu Q, Zhou L, Xiang Z, Xiang JN, Leung S, Shao L, Lin X, Lobera M, Ren F, ACS Med Chem Lett. 2018 Jan 22;9(2):120-124. doi: 10.1021/acsmedchemlett.7b00476., eCollection 2018 Feb 8. PMID:29456799

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk] Biological Unit Coordinates (5yp6.pdb1.gz) 42 Kb LPC: Ligand-Protein Contacts for 5YP6 CSU: Contacts of Structural Units for 5YP6 Structure Factors (455 Kb) Retrieve 5YP6 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5YP6 from S2C, [Save to disk]

View 5YP6 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 5YP6

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [5yp6_B] [5yp6_A] SWISS-PROT database: Domain organization of by SWISSPFAM

Other resources with information on 5YP6

Community annotation for 5YP6 at PDBWiki (http://pdbwiki.org)

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