6APL Transferase date Aug 17, 2017
title Crystal Structure Of Human St6galnac2 In Complex With Cmp
authors F.Forouhar, K.W.Moremen, Northeast Structural Genomics Consort (Nesg), L.Tong
compound source
Molecule: Alpha-N-Acetylgalactosaminide Alpha-2,6-Sialyltra 2;
Chain: A, B, C, D, E, F
Synonym: Galnac Alpha-2,6-Sialyltransferase II,St6galnac II St6galnacii,Sthm,Sialyltransferase 7b,Siat7-B;
Ec: 2.4.99.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: St6galnac2, Siat7b, Siatl1, Sthm
Expression_system: Homo Sapiens
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293s Gnt1-
Expression_system_atcc_number: Crl-3022
Expression_system_plasmid: Pgen2
symmetry Space Group: P 1
R_factor 0.196 R_Free 0.236
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.168 71.125 138.608 103.69 97.26 103.03
method X-Ray Diffractionresolution 2.35 Å
ligand C5P, MSE, NAG enzyme Transferase E.C.2.4.99 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceExpression system for structural and functional studies of human glycosylation enzymes., Moremen KW, Ramiah A, Stuart M, Steel J, Meng L, Forouhar F, Moniz HA, Gahlay G, Gao Z, Chapla D, Wang S, Yang JY, Prabhakar PK, Johnson R, Rosa MD, Geisler C, Nairn AV, Seetharaman J, Wu SC, Tong L, Gilbert HJ, LaBaer J, Jarvis DL, Nat Chem Biol. 2017 Dec 18. pii: nchembio.2539. doi: 10.1038/nchembio.2539. PMID:29251719
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (617 Kb) [Save to disk]
  • Biological Unit Coordinates (6apl.pdb1.gz) 104 Kb
  • Biological Unit Coordinates (6apl.pdb2.gz) 107 Kb
  • Biological Unit Coordinates (6apl.pdb3.gz) 109 Kb
  • Biological Unit Coordinates (6apl.pdb4.gz) 109 Kb
  • Biological Unit Coordinates (6apl.pdb5.gz) 102 Kb
  • Biological Unit Coordinates (6apl.pdb6.gz) 101 Kb
  • LPC: Ligand-Protein Contacts for 6APL
  • CSU: Contacts of Structural Units for 6APL
  • Structure Factors (906 Kb)
  • Retrieve 6APL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6APL from S2C, [Save to disk]
  • View 6APL 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 6APL
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6apl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6apl_F] [6apl_B] [6apl_D] [6apl_A] [6apl_E] [6apl_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6APL
  • Community annotation for 6APL at PDBWiki (http://pdbwiki.org)

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