3FE2	Hydrolase	date	Nov 27, 2008
title	Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I I With Adp
authors	T.Karlberg, M.I.Siponen, C.H.Arrowsmith, H.Berglund, C.Bountra, R L.G.Dahlgren, A.M.Edwards, S.Flodin, A.Flores, S.Graslund, M.Ham A.Johansson, I.Johansson, T.Kotenyova, L.Lehtio, M.Moche, M.E.Ni P.Nordlund, T.Nyman, C.Persson, J.Sagemark, A.G.Thorsell, L.Tres S.Van Den Berg, J.Weigelt, M.Welin, M.Wikstrom, M.Wisniewska, H. Structural Genomics Consortium (Sgc)
compound		source
Molecule: Probable Atp-Dependent Rna Helicase Ddx5 Chain: A, B Fragment: Domain I Synonym: Dead-Box Rna Helicase, Dead Box Protein 5, Rna Hel Ec: 3.6.1.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ddx5 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Bl21 (De3) R3 Prare Expression_system_vector_type: Plasmid Expression_system_plasmid: Pnic-Bsa4
symmetry	Space Group: C 2 2 21	R_factor 0.205 R_Free 0.273
crystal cell	length a length b length c angle alpha angle beta angle gamma 84.570 106.870 117.320 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.60 Å
ligand	ADP, CL, SO4	enzyme	Hydrolase E.C.3.6.1 BRENDA
Gene Ontology	Chain Function Process Component A, B
Primary reference	Comparative structural analysis of human DEAD-box RNA helicases., Schutz P, Karlberg T, van den Berg S, Collins R, Lehtio L, Hogbom M, Holmberg-Schiavone L, Tempel W, Park HW, Hammarstrom M, Moche M, Thorsell AG, Schuler H, PLoS One. 2010 Sep 30;5(9). pii: e12791. PMID:20941364

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk] Biological Unit Coordinates (3fe2.pdb1.gz) 39 Kb Biological Unit Coordinates (3fe2.pdb2.gz) 40 Kb LPC: Ligand-Protein Contacts for 3FE2 CSU: Contacts of Structural Units for 3FE2 Likely Quarternary Molecular Structure file(s) for 3FE2 Structure Factors (140 Kb) Retrieve 3FE2 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3FE2 from S2C, [Save to disk] Re-refined 3fe2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3FE2 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 3FE2

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 3FE2, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3fe2] [3fe2_B] [3fe2_A] SWISS-PROT database: [P17844] Domain organization of [DDX5_HUMAN] by SWISSPFAM Domain found in 3FE2: [DEXDc ] by SMART

Other resources with information on 3FE2

Community annotation for 3FE2 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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