5GGI Transferase, Sugar Binding Protein Subst date Jun 16, 2016
title Crystal Structure Of Human Protein O-Mannose Beta-1,2-N- Acetylglucosaminyltransferase In Complex With Mn, Udp And M Peptide
authors N.Kuwabara, T.Senda, R.Kato
compound source
Molecule: Protein O-Linked-Mannose Beta-1,2-N- Acetylglucosaminyltransferase 1;
Chain: A, B
Fragment: Unp Residues 92-660
Synonym: Pomgnt1,Udp-Glcnac:Alpha-D-Mannoside Beta-1,2-N- Acetylglucosaminyltransferase I.2,Gnt I.2;
Ec: 2.4.1.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pomgnt1, Mgat1.2, Unq746pro1475
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell_line: Hek-293t
Expression_system_vector_type: Plasmid

Molecule: Mannosyl-Peptide
Chain: F, G
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
symmetry Space Group: P 2 21 21
R_factor 0.199 R_Free 0.239
crystal
cell
length a length b length c angle alpha angle beta angle gamma
68.162 126.539 172.865 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand ACE, MAN, MN, PO4, UDP enzyme Transferase E.C.2.4.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (333 Kb) [Save to disk]
  • Biological Unit Coordinates (5ggi.pdb1.gz) 137 Kb
  • Biological Unit Coordinates (5ggi.pdb2.gz) 192 Kb
  • LPC: Ligand-Protein Contacts for 5GGI
  • CSU: Contacts of Structural Units for 5GGI
  • Structure Factors (945 Kb)
  • Retrieve 5GGI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5GGI from S2C, [Save to disk]
  • Re-refined 5ggi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5GGI 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 5GGI
  • 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: [5ggi] [5ggi_G] [5ggi_B] [5ggi_F] [5ggi_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5GGI
  • Community annotation for 5GGI at PDBWiki (http://pdbwiki.org)

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