1X25 Structural Genomics, Unknown Function date Apr 20, 2005
title Crystal Structure Of A Member Of Yjgf Family From Sulfolobus (St0811)
authors T.Miyakawa, W.C.Lee, K.Hatano, Y.Kato, Y.Sawano, K.Miyazono, K.Nag M.Tanokura
compound source
Molecule: Hypothetical Upf0076 Protein St0811
Chain: A, B
Synonym: Yjgf-Like Protein
Engineered: Yes
Organism_scientific: Sulfolobus Tokodaii
Organism_taxid: 273063
Strain: Str. 7
Gene: St0811
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: H 3
R_factor 0.146 R_Free 0.188
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.980 54.980 221.557 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.00 Å
Primary referenceCrystal structure of the YjgF/YER057c/UK114 family protein from the hyperthermophilic archaeon Sulfolobus tokodaii strain 7., Miyakawa T, Lee WC, Hatano K, Kato Y, Sawano Y, Miyazono K, Nagata K, Tanokura M, Proteins. 2006 Feb 1;62(2):557-61. PMID:16323205
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (48 Kb) [Save to disk]
  • Biological Unit Coordinates (1x25.pdb1.gz) 64 Kb
  • Biological Unit Coordinates (1x25.pdb2.gz) 23 Kb
  • Biological Unit Coordinates (1x25.pdb3.gz) 66 Kb
  • CSU: Contacts of Structural Units for 1X25
  • Likely Quarternary Molecular Structure file(s) for 1X25
  • Structure Factors (135 Kb)
  • Retrieve 1X25 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1X25 from S2C, [Save to disk]
  • Re-refined 1x25 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1X25 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 1X25
  • 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 1X25, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1x25] [1x25_B] [1x25_A]
  • SWISS-PROT database: [Q973T6]
  • Domain organization of [Y811_SULTO] by SWISSPFAM
  • Other resources with information on 1X25
  • Community annotation for 1X25 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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