3ZD7	Hydrolase Rna	date	Nov 25, 2012
title	Snapshot 3 Of Rig-I Scanning On Rna Duplex
authors	D.Luo, A.M.Pyle
compound		source
Molecule: Probable Atp-Dependent Rna Helicase Ddx58 Chain: A Synonym: Dead Box Protein 58, Rig-I-Like Receptor 1, Rlr-1, Acid-Inducible Gene 1 Protein, Rig-1, Retinoic Acid-Inducib Protein, Rig-I; Ec: 3.6.4.13		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606
Molecule: Rna Duplex Chain: C, D Engineered: Yes		Synthetic: Yes Organism_scientific: Synthetic Construct Organism_taxid: 32630
symmetry	Space Group: P 21 21 21	R_factor 0.229 R_Free 0.288
crystal cell	length a length b length c angle alpha angle beta angle gamma 48.252 75.996 207.279 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.50 Å
ligand	ADP, MG, ZN	enzyme	Hydrolase E.C.3.6.4.13 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Defining the functional determinants for RNA surveillance by RIG-I., Kohlway A, Luo D, Rawling DC, Ding SC, Pyle AM, EMBO Rep. 2013 Jul 30. doi: 10.1038/embor.2013.108. PMID:23897087

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (230 Kb) [Save to disk] Biological Unit Coordinates (3zd7.pdb1.gz) 222 Kb LPC: Ligand-Protein Contacts for 3ZD7 CSU: Contacts of Structural Units for 3ZD7 Structure Factors (379 Kb) Retrieve 3ZD7 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3ZD7 from S2C, [Save to disk] Re-refined 3zd7 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3ZD7 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 3ZD7

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 3ZD7, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3zd7_C] [3zd7] [3zd7_D] [3zd7_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domains found in 3ZD7: [AAA] [DEXDc] [HELICc ] by SMART

Other resources with information on 3ZD7

Community annotation for 3ZD7 at PDBWiki (http://pdbwiki.org)

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