5BNW Transferase date May 26, 2015
title The Active Site Of O-Glcnac Transferase Imposes Constraints Substrate Sequence
authors S.Pathak, J.Alonso, M.Schimpl, K.Rafie, D.E.Blair, V.S.Borodkin, O.Albarbarawi, D.M.F.Van Aalten
compound source
Molecule: Udp-N-Acetylglucosamine--Peptide N- Acetylglucosaminyltransferase 110 Kda Subunit;
Chain: A
Fragment: Unp Residues 197-915
Synonym: O-Glcnac Transferase Subunit P110,O-Linked N- Acetylglucosamine Transferase 110 Kda Subunit,Ogt;
Ec: 2.4.1.255
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ogt
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693

Molecule: Laminb1 Residues 179-191
Chain: D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: F 2 2 2
R_factor 0.187 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
138.183 150.176 199.241 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand 12V enzyme Transferase E.C.2.4.1.255 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe active site of O-GlcNAc transferase imposes constraints on substrate sequence., Pathak S, Alonso J, Schimpl M, Rafie K, Blair DE, Borodkin VS, Schuttelkopf AW, Albarbarawi O, van Aalten DM, Nat Struct Mol Biol. 2015 Aug 3. doi: 10.1038/nsmb.3063. PMID:26237509
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (119 Kb) [Save to disk]
  • Biological Unit Coordinates (5bnw.pdb1.gz) 113 Kb
  • LPC: Ligand-Protein Contacts for 5BNW
  • CSU: Contacts of Structural Units for 5BNW
  • Structure Factors (760 Kb)
  • Retrieve 5BNW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5BNW from S2C, [Save to disk]
  • Re-refined 5bnw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5BNW 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 5BNW
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5bnw] [5bnw_A] [5bnw_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5BNW: [TPR ] by SMART
  • Other resources with information on 5BNW
  • Community annotation for 5BNW at PDBWiki (http://pdbwiki.org)

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