4B3G Hydrolase Rna date Jul 24, 2012
title Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
authors S.C.Lim, H.Song
compound source
Molecule: Dna-Binding Protein Smubp-2
Chain: A, B
Fragment: Residues 3-648
Synonym: Ighmbp2, Atp-Dependent Helicase Ighmbp2, Glial Fac Gf-1, Immunoglobulin Mu-Binding Protein 2;
Ec: 3.6.4.12, 3.6.4.13
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_variant: Rosetta
Expression_system_plasmid: Pgex6p-1

Molecule: Rna (5'-(Apapapapapapapapap)-3')
Chain: G, H

Synthetic: Yes
symmetry Space Group: P 31 2 1
R_factor 0.2064 R_Free 0.2922
crystal
cell
length a length b length c angle alpha angle beta angle gamma
87.288 87.288 372.692 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.85 Å
ligand
enzyme Hydrolase E.C.3.6.4.12 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe Ighmbp2 helicase structure reveals the molecular basis for disease-causing mutations in DMSA1., Lim SC, Bowler MW, Lai TF, Song H, Nucleic Acids Res. 2012 Sep 10. PMID:22965130
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (209 Kb) [Save to disk]
  • Biological Unit Coordinates (4b3g.pdb1.gz) 104 Kb
  • Biological Unit Coordinates (4b3g.pdb2.gz) 103 Kb
  • CSU: Contacts of Structural Units for 4B3G
  • Structure Factors (1558 Kb)
  • Retrieve 4B3G in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4B3G from S2C, [Save to disk]
  • Re-refined 4b3g structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4B3G 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 4B3G
  • 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 4B3G, from MSDmotif at EBI
  • Fold representative 4b3g from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4b3g_B] [4b3g_H] [4b3g_A] [4b3g] [4b3g_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4B3G: [AAA] [DEXDc ] by SMART
  • Other resources with information on 4B3G
  • Community annotation for 4B3G at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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