5GVS	Hydrolase	date	Sep 06, 2016
title	Crystal Structure Of The Ddx41 Dead Domain In An Apo Open Fo
authors	H.Omura, D.Oikawa, T.Nakane, M.Kato, R.Ishii, Y.Goto, H.Suga, R.Ish F.Tokunaga, O.Nureki
compound		source
Molecule: Probable Atp-Dependent Rna Helicase Ddx41 Chain: A, B, C, D Fragment: Unp Residues 169-399 Synonym: Dead Box Protein 41,Dead Box Protein Abstrakt Homo Ec: 3.6.4.13 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ddx41, Abs Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid
symmetry	Space Group: I 1 2 1	R_factor 0.207 R_Free 0.275
crystal cell	length a length b length c angle alpha angle beta angle gamma 91.188 50.960 202.599 90.00 95.51 90.00
method	X-Ray Diffraction	resolution	2.20 Å
ligand		enzyme	Hydrolase E.C.3.6.4.13 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Structural and Functional Analysis of DDX41: a bispecific immune receptor for DNA and cyclic dinucleotide., Omura H, Oikawa D, Nakane T, Kato M, Ishii R, Ishitani R, Tokunaga F, Nureki O, Sci Rep. 2016 Oct 10;6:34756. doi: 10.1038/srep34756. PMID:27721487

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (138 Kb) [Save to disk] Biological Unit Coordinates (5gvs.pdb1.gz) 37 Kb Biological Unit Coordinates (5gvs.pdb2.gz) 36 Kb Biological Unit Coordinates (5gvs.pdb3.gz) 34 Kb Biological Unit Coordinates (5gvs.pdb4.gz) 34 Kb CSU: Contacts of Structural Units for 5GVS Structure Factors (912 Kb) Retrieve 5GVS in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 5GVS from S2C, [Save to disk] Re-refined 5gvs structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

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Visual 3D analysis of 5GVS

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: [5gvs_C] [5gvs_B] [5gvs_D] [5gvs] [5gvs_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 5GVS: [DEXDc ] by SMART

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