1RXQ Metal-Binding Protein date Dec 18, 2003
title Yfit From Bacillus Subtilis Is A Probable Metal-Dependent Hy With An Unusual Four-Helix Bundle Topology
authors S.S.Rajan, X.Yang, W.F.Anderson, Midwest Center For Structural (Mcsg)
compound source
Molecule: Yfit
Chain: A, B, C, D
Engineered: Yes
Organism_scientific: Bacillus Subtilis
Organism_taxid: 1423
Gene: Yfit
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21-De3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pmcsg7
symmetry Space Group: P 1
R_factor 0.186 R_Free 0.217
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.370 50.420 89.410 104.38 90.61 112.05
method X-Ray Diffractionresolution 1.70 Å
ligand ALA, GLU, GLY, MSE, NI, SER, THR enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceYfiT from Bacillus subtilis is a probable metal-dependent hydrolase with an unusual four-helix bundle topology., Rajan SS, Yang X, Shuvalova L, Collart F, Anderson WF, Biochemistry 2004 Dec 14;43(49):15472-9. PMID:15581359
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (134 Kb) [Save to disk]
  • Biological Unit Coordinates (1rxq.pdb1.gz) 127 Kb
  • Biological Unit Coordinates (1rxq.pdb2.gz) 65 Kb
  • Biological Unit Coordinates (1rxq.pdb3.gz) 65 Kb
  • LPC: Ligand-Protein Contacts for 1RXQ
  • CSU: Contacts of Structural Units for 1RXQ
  • Likely Quarternary Molecular Structure file(s) for 1RXQ
  • Structure Factors (996 Kb)
  • Retrieve 1RXQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RXQ from S2C, [Save to disk]
  • Re-refined 1rxq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1RXQ 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 1RXQ
  • 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 1RXQ, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1rxqa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1rxqb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1rxqc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1rxqd_, region D [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1rxq_D] [1rxq_C] [1rxq_B] [1rxq] [1rxq_A]
  • SWISS-PROT database: [O31562]
  • Domain organization of [YFIT_BACSU] by SWISSPFAM
  • Other resources with information on 1RXQ
  • Community annotation for 1RXQ 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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