3C2I	Transcription Regulator	date	Jan 25, 2008
title	The Crystal Structure Of Methyl-Cpg Binding Domain Of Human Complex With A Methylated Dna Sequence From Bdnf
authors	K.L.Ho, I.W.Mcnae, L.Schmiedeberg, R.J.Klose, A.P.Bird, M.D.Walki
compound		source
Molecule: Methyl-Cpg-Binding Protein 2 Chain: A Fragment: Unp Residues 77-167, Human Mecp2 Mbd Domain Synonym: Mecp-2 Protein, Mecp2 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Mecp2 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21(De3)Plys Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30b
Molecule: Dna (5'-D(Dtpdcpdtpdgpdgpdapdap(5cm) Pdgpdgpdapdapdtpdtpdcpdtpdtpdcpdtpda)-3'); Chain: B Engineered: Yes		Synthetic: Yes Other_details: Synthetic Oligonucleotide
Molecule: Dna (5'- D(Dapdtpdapdgpdapdapdgpdapdapdtpdtpdcp(5cm) Pdgpdtpdtpdcpdcpdapdg)-3'); Chain: C Engineered: Yes		Synthetic: Yes Other_details: Synthetic Oligonucleotide
symmetry	Space Group: C 1 2 1	R_factor 0.212 R_Free 0.276
crystal cell	length a length b length c angle alpha angle beta angle gamma 79.710 53.600 65.730 90.00 132.10 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	5CM, MSE	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	MeCP2 binding to DNA depends upon hydration at methyl-CpG., Ho KL, McNae IW, Schmiedeberg L, Klose RJ, Bird AP, Walkinshaw MD, Mol Cell. 2008 Feb 29;29(4):525-31. PMID:18313390

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (66 Kb) [Save to disk] Biological Unit Coordinates (3c2i.pdb1.gz) 60 Kb LPC: Ligand-Protein Contacts for 3C2I CSU: Contacts of Structural Units for 3C2I Likely Quarternary Molecular Structure file(s) for 3C2I Structure Factors (200 Kb) Retrieve 3C2I in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3C2I from S2C, [Save to disk] Re-refined 3c2i structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3C2I 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 3C2I

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 3D motif for 3C2I, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3c2i_B] [3c2i] [3c2i_C] [3c2i_A] SWISS-PROT database: [P51608] Domain organization of [MECP2_HUMAN] by SWISSPFAM Domain found in 3C2I: [MBD ] by SMART

Other resources with information on 3C2I

Community annotation for 3C2I at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---