2YI1 Transferase date May 10, 2011
title Crystal Structure Of N-Acetylmannosamine Kinase In Complex W Acetyl Mannosamine 6-Phosphate And Adp.
authors J.Martinez, L.D.Nguyen, E.Tauberger, S.Hinderlich, W.Reutter, H.F W.Saenger, S.Moniot
compound source
Molecule: Bifunctional Udp-N-Acetylglucosamine 2-Epimerase Acetylmannosamine Kinase;
Chain: A
Fragment: N-Acetylmannosamine Kinase Domain, Residues 406-7
Synonym: N-Acetyl Mannosamine Kinase, Manac Kinase, Udp-Glc Epimerasemanac Kinase;
Ec: 2.7.1.60
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)-Ril
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet28a
Expression_system_plasmid: Pet28a-Mnk
symmetry Space Group: P 41 21 2
R_factor 0.167 R_Free 0.191
crystal
cell
length a length b length c angle alpha angle beta angle gamma
90.700 90.700 101.490 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.15 Å
ligand 2PE, ACT, ADP, BM3, BMX, CA, EDO, MG, PG4, ZN enzyme Transferase E.C.2.7.1.60 BRENDA
Primary referenceCrystal structures of N-acetylmannosamine kinase provide insights into enzyme activity and inhibition., Martinez J, Nguyen LD, Hinderlich S, Zimmer R, Tauberger E, Reutter W, Saenger W, Fan H, Moniot S, J Biol Chem. 2012 Apr 20;287(17):13656-65. Epub 2012 Feb 16. PMID:22343627
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (108 Kb) [Save to disk]
  • Biological Unit Coordinates (2yi1.pdb1.gz) 200 Kb
  • LPC: Ligand-Protein Contacts for 2YI1
  • CSU: Contacts of Structural Units for 2YI1
  • Structure Factors (178 Kb)
  • Retrieve 2YI1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2YI1 from S2C, [Save to disk]
  • Re-refined 2yi1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2YI1 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 2YI1
  • 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 2YI1, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2yi1_A] [2yi1]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2YI1
  • Community annotation for 2YI1 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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