2RB4	Hydrolase	date	Sep 18, 2007
title	Crystal Structure Of The Helicase Domain Of Human Ddx25 Rna
authors	L.Lehtio, M.Hogbom, J.Uppenberg, C.H.Arrowsmith, H.Berglund, A.M. M.Ehn, S.Flodin, A.Flores, S.Graslund, B.M.Hallberg, M.Hammarstr T.Kotenyova, P.Nilsson-Ehle, P.Nordlund, T.Nyman, D.Ogg, C.Perss J.Sagemark, P.Stenmark, M.Sundstrom, A.G.Thorsell, S.Van Den Be J.Weigelt, L.Holmberg-Schiavone, Structural Genomics Consorti
compound		source
Molecule: Atp-Dependent Rna Helicase Ddx25 Chain: A, B Fragment: Helicase Domain: Residues 307-479 Synonym: Dead Box Protein 25, Gonadotropin-Regulated Testic Helicase; Ec: 3.6.1.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ddx25, Grth Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pnic-Bsa4
symmetry	Space Group: P 43 21 2	R_factor 0.233 R_Free 0.267
crystal cell	length a length b length c angle alpha angle beta angle gamma 70.310 70.310 187.120 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	CL, SO4, ZN	enzyme	Hydrolase E.C.3.6.1 BRENDA
note	2RB4 supersedes 2G2J
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] (57 Kb) [Save to disk] Biological Unit Coordinates (2rb4.pdb1.gz) 27 Kb Biological Unit Coordinates (2rb4.pdb2.gz) 27 Kb LPC: Ligand-Protein Contacts for 2RB4 CSU: Contacts of Structural Units for 2RB4 Likely Quarternary Molecular Structure file(s) for 2RB4 Structure Factors (179 Kb) Retrieve 2RB4 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2RB4 from S2C, [Save to disk] Re-refined 2rb4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2RB4 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 2RB4

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 2RB4, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2rb4_A] [2rb4] [2rb4_B] SWISS-PROT database: [Q9UHL0] Domain organization of [DDX25_HUMAN] by SWISSPFAM Domain found in 2RB4: [HELICc ] by SMART

Other resources with information on 2RB4

Community annotation for 2RB4 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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