5EF6	Transcription	date	Oct 23, 2015
title	Structure Of Hoxb13 Complex With Methylated Dna
authors	E.Morgunova, Y.Yin, A.Jolma, A.Popov, J.Taipale
compound		source
Molecule: Homeobox Protein Hox-B13 Chain: A, B, G, J Fragment: Unp Residues 217-278 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_plasmid: Petg20a
Molecule: Dna (5'-D(Ptptpgptpgptptptptpap(5cm) Pgpapgpgptpcpc)-3'); Chain: C, D, H, K Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
Molecule: Dna (5'-D(Pgpgpapcpcptp(5cm) Pgptpapapapapcpapcpapa)-3'); Chain: F, E, I, L Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 1 2 1	R_factor 0.291 R_Free 0.320
crystal cell	length a length b length c angle alpha angle beta angle gamma 77.969 55.557 102.010 90.00 102.24 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	5CM	enzyme
Gene Ontology	Chain Function Process Component A, J, G, 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] (109 Kb) [Save to disk] Biological Unit Coordinates (5ef6.pdb1.gz) 27 Kb Biological Unit Coordinates (5ef6.pdb2.gz) 27 Kb Biological Unit Coordinates (5ef6.pdb3.gz) 27 Kb Biological Unit Coordinates (5ef6.pdb4.gz) 27 Kb LPC: Ligand-Protein Contacts for 5EF6 CSU: Contacts of Structural Units for 5EF6 Structure Factors (1128 Kb) Retrieve 5EF6 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5EF6 from S2C, [Save to disk] Re-refined 5ef6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

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Visual 3D analysis of 5EF6

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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: [5ef6_A] [5ef6_B] [5ef6_G] [5ef6_F] [5ef6_L] [5ef6] [5ef6_D] [5ef6_I] [5ef6_K] [5ef6_E] [5ef6_H] [5ef6_J] [5ef6_C] SWISS-PROT database: Domain organization of by SWISSPFAM

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