1XDN	Ligase	date	Sep 07, 2004
title	High Resolution Crystal Structure Of An Editosome Enzyme Fro Trypanosoma Brucei: Rna Editing Ligase 1
authors	J.Deng, A.Schnaufer, R.Salavati, K.D.Stuart, W.G.Hol
compound		source
Molecule: Rna Editing Ligase Mp52 Chain: A Fragment: Adenylation Domain Engineered: Yes		Organism_scientific: Trypanosoma Brucei Organism_taxid: 5691 Gene: Mp52 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21gold De3 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pskb3
symmetry	Space Group: P 1 21 1	R_factor 0.128 R_Free 0.148
crystal cell	length a length b length c angle alpha angle beta angle gamma 44.911 58.579 52.984 90.00 100.23 90.00
method	X-Ray Diffraction	resolution	1.20 Å
ligand	ATP, MG, MSE	enzyme
note	1XDN is a representative structure
Gene Ontology	Chain Function Process Component A
Primary reference	High resolution crystal structure of a key editosome enzyme from Trypanosoma brucei: RNA editing ligase 1., Deng J, Schnaufer A, Salavati R, Stuart KD, Hol WG, J Mol Biol 2004 Oct 22;343(3):601-13. PMID:15465048

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (108 Kb) [Save to disk] Biological Unit Coordinates (1xdn.pdb1.gz) 104 Kb LPC: Ligand-Protein Contacts for 1XDN CSU: Contacts of Structural Units for 1XDN Likely Quarternary Molecular Structure file(s) for 1XDN Structure Factors (1060 Kb) Retrieve 1XDN in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1XDN from S2C, [Save to disk] Re-refined 1xdn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1XDN 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 1XDN

Ramachandran plot from PDBSum

Structure-derived information

Conformational Epitope Prediction for 1XDN from the CEP Server. Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1XDN, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1xdna_, region A [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1xdn] [1xdn_A] SWISS-PROT database: [Q38FA5] Domain organization of [RLGM1_TRYBB] by SWISSPFAM

Other resources with information on 1XDN

Community annotation for 1XDN at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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