5EGO	Transcription	date	Oct 27, 2015
title	Hoxb13-Meis1 Heterodimer Bound To Methylated Dna
authors	E.Morgunova, Y.Yin, A.Jolma, A.Popov, J.Taipale
compound		source
Molecule: Homeobox Protein Meis1 Chain: A Fragment: Unp Residues 279-333 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Meis1 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_variant: Rosetta Expression_system_vector_type: Plasmid Expression_system_plasmid: Petg20a
Molecule: Dna (5'-D(Pgptptpgpapcpapgptptptptpa Pgpapgpg)-3'); Chain: D Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: Dna (5'-D(Cpcptp(5cm) Pgptpapapapapcptpgptpcpapapc)-3'); Chain: E Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: Homeobox Protein Hox-B13 Chain: B Fragment: Unp Residues 217-277 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Hoxb13 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_variant: Rosetta Expression_system_vector_type: Plasmid Expression_system_plasmid: Petg20a
symmetry	Space Group: P 21 21 21	R_factor 0.228 R_Free 0.265
crystal cell	length a length b length c angle alpha angle beta angle gamma 40.976 51.480 113.575 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.54 Å
ligand	5CM	enzyme
Gene Ontology	Chain Function Process Component A B
Primary reference	Impact of cytosine methylation on DNA binding specificities of human transcription factors., Yin Y, Morgunova E, Jolma A, Kaasinen E, Sahu B, Khund-Sayeed S, Das PK, Kivioja T, Dave K, Zhong F, Nitta KR, Taipale M, Popov A, Ginno PA, Domcke S, Yan J, Schubeler D, Vinson C, Taipale J, Science. 2017 May 5;356(6337). pii: eaaj2239. doi: 10.1126/science.aaj2239. PMID:28473536

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (40 Kb) [Save to disk] Biological Unit Coordinates (5ego.pdb1.gz) 36 Kb LPC: Ligand-Protein Contacts for 5EGO CSU: Contacts of Structural Units for 5EGO Structure Factors (183 Kb) Retrieve 5EGO in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5EGO from S2C, [Save to disk] Re-refined 5ego structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5EGO 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 5EGO

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: [5ego] [5ego_A] [5ego_D] [5ego_E] [5ego_B] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 5EGO: [HOX ] by SMART

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

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