5CVD	Transferase Peptide	date	Jul 26, 2015
title	Crystal Structure Of Human Nrmt1 In Complex With Alpha-N-Dim Human Cenp-A Peptide
authors	R.Wu, H.Li
compound		source
Molecule: N-Terminal Xaa-Pro-Lys N-Methyltransferase 1 Chain: A, B Synonym: Alpha N-Terminal Protein Methyltransferase 1a, Methyltransferase-Like Protein 11a,N-Terminal Rcc1 Methyltr X-Pro-Lys N-Terminal Protein Methyltransferase 1a,Ntm1a; Ec: 2.1.1.244 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ntmt1, Nrmt1 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28b
Molecule: N-Teminal Peptide From Histone H3-Like Centromeri A; Chain: D, E Fragment: Unp Residues 2-10 Synonym: Centromere Autoantigen A,Centromere Protein A,Cenp Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Cenpa Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3)
symmetry	Space Group: C 1 2 1	R_factor 0.132 R_Free 0.160
crystal cell	length a length b length c angle alpha angle beta angle gamma 114.839 66.245 68.998 90.00 106.69 90.00
method	X-Ray Diffraction	resolution	1.30 Å
ligand	DMG, SAH	enzyme	Transferase E.C.2.1.1.244 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Molecular basis for histone N-terminal methylation by NRMT1., Wu R, Yue Y, Zheng X, Li H, Genes Dev. 2015 Nov 15;29(22):2337-42. doi: 10.1101/gad.270926.115. Epub 2015 Nov, 5. PMID:26543159

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (246 Kb) [Save to disk] Biological Unit Coordinates (5cvd.pdb1.gz) 123 Kb Biological Unit Coordinates (5cvd.pdb2.gz) 120 Kb LPC: Ligand-Protein Contacts for 5CVD CSU: Contacts of Structural Units for 5CVD Structure Factors (1428 Kb) Retrieve 5CVD in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5CVD from S2C, [Save to disk] Re-refined 5cvd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 5CVD 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 5CVD

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: [5cvd_A] [5cvd_E] [5cvd] [5cvd_D] [5cvd_B] SWISS-PROT database: Domain organization of by SWISSPFAM

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