3B6E Hydrolase date Oct 29, 2007
title Crystal Structure Of Human Dech-Box Rna Helicase Mda5 (Melan Differentiation-Associated Protein 5), Dech-Domain
authors T.Karlberg, M.Welin, C.H.Arrowsmith, H.Berglund, R.D.Busam, R.Col L.G.Dahlgren, A.M.Edwards, S.Flodin, A.Flores, S.Graslund, M.Ham I.Johansson, A.Kallas, T.Kotenyova, L.Lehtio, M.Moche, M.E.Nilss P.Nordlund, T.Nyman, C.Persson, J.Sagemark, L.Svensson, A.G.Thor L.Tresaugues, S.Van Den Berg, J.Weigelt, L.Holmberg-Schiavone, Structural Genomics Consortium (Sgc)
compound source
Molecule: Interferon-Induced Helicase C Domain-Containing P
Chain: A
Fragment: Dech Domain: Residues 277-490
Synonym: Interferon-Induced With Helicase C Domain Protein Helicase With 2 Card Domains, Helicard, Melanoma Differenti Associated Protein 5, Mda-5, Rna Helicase-Dead Box Protein Murabutide Down-Regulated Protein;
Ec: 3.6.1.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ifih1, Mda5, Rh116
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3) Gold Prare2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic-Bsa4
symmetry Space Group: P 65 2 2
R_factor 0.179 R_Free 0.204
crystal
cell
length a length b length c angle alpha angle beta angle gamma
72.830 72.830 182.780 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.60 Å
ligand NA enzyme Hydrolase E.C.3.6.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk]
  • Biological Unit Coordinates (3b6e.pdb1.gz) 34 Kb
  • LPC: Ligand-Protein Contacts for 3B6E
  • CSU: Contacts of Structural Units for 3B6E
  • Structure Factors (274 Kb)
  • Retrieve 3B6E in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3B6E from S2C, [Save to disk]
  • Re-refined 3b6e structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3B6E 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 3B6E
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3B6E, from MSDmotif at EBI
  • Fold representative 3b6e from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3b6e] [3b6e_A]
  • SWISS-PROT database: [Q9BYX4]
  • Domain organization of [IFIH1_HUMAN] by SWISSPFAM
  • Domain found in 3B6E: [DEXDc ] by SMART
  • Other resources with information on 3B6E
  • Community annotation for 3B6E at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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