4D0T	GalNAc-T2 crystal soaked with UDP-GalNAc, EA2 peptide and manganese	date
authors	Lira-Navarrete, E., Iglesias-Fernandez, J., Zandberg, W.F., Companon, I., Kong, Y., Corzana, F., Pinto, B.M., Clausen, H., Peregrina, J.M., Vocadlo, D., Rovira, C., Hurtado-Guerrero, R.
compound		source
symmetry		R_factor R_Free 0.24116
crystal cell	length a length b length c angle alpha angle beta angle gamma
method	X-Ray Diffraction	resolution	2.45
ligand	EDO, MN, NGA, UD2, UDP	enzyme
Gene Ontology	Chain Function Process Component F, A, D, C, E, B
Primary reference	Substrate-Guided Front-Face Reaction Revealed by Combined Structural Snapshots and Metadynamics for the Polypeptide N-Acetylgalactosaminyltransferase 2., Lira-Navarrete E, Iglesias-Fernandez J, Zandberg WF, Companon I, Kong Y, Corzana F, Pinto BM, Clausen H, Peregrina JM, Vocadlo DJ, Rovira C, Hurtado-Guerrero R, Angew Chem Int Ed Engl. 2014 Jun 20. doi: 10.1002/anie.201402781. PMID:24954443

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (980 Kb) [Save to disk] Biological Unit Coordinates (4d0t.pdb1.gz) 328 Kb Biological Unit Coordinates (4d0t.pdb2.gz) 326 Kb Biological Unit Coordinates (4d0t.pdb3.gz) 330 Kb LPC: Ligand-Protein Contacts for 4D0T CSU: Contacts of Structural Units for 4D0T Structure Factors (7324 Kb) Retrieve 4D0T in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 4D0T from S2C, [Save to disk] Re-refined 4d0t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 4D0T 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 4D0T

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 4D0T, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [4d0t_D] [4d0t_F] [4d0t_E] [4d0t_Z] [4d0t_A] [4d0t_P] [4d0t_C] [4d0t_B] [4d0t] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 4D0T: [RICIN ] by SMART

Other resources with information on 4D0T

Community annotation for 4D0T at PDBWiki (http://pdbwiki.org)

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2014,2022 Bioinformatics Unit Weizmann Institute of Science

---