2GK1 Hydrolase date Mar 31, 2006
title X-Ray Crystal Structure Of Ngt-Bound Hexa
authors M.J.Lemieux, B.L.Mark, M.M.Cherney, S.G.Withers, D.J.Mahuran, M.N
compound source
Molecule: Beta-Hexosaminidase Alpha Chain
Chain: A, C, E, G
Synonym: N-Acetyl- Beta-Glucosaminidase, Beta-N-Acetylhexos Hexosaminidase A;
Ec: 3.2.1.52
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Human Placenta

Molecule: Beta-Hexosaminidase Beta Chain
Chain: B, D, F, H
Ec: 3.2.1.52

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Other_details: Human Placenta
symmetry Space Group: C 1 2 1
R_factor 0.274 R_Free 0.322
crystal
cell
length a length b length c angle alpha angle beta angle gamma
322.246 109.796 132.764 90.00 91.48 90.00
method X-Ray Diffractionresolution 3.25 Å
ligand BMA, NAG, NGT BindingDB enzyme Hydrolase E.C.3.2.1.52 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, E, C, G


F, B, H, D


Primary referenceCrystallographic Structure of Human beta-Hexosaminidase A: Interpretation of Tay-Sachs Mutations and Loss of G(M2) Ganglioside Hydrolysis., Lemieux MJ, Mark BL, Cherney MM, Withers SG, Mahuran DJ, James MN, J Mol Biol. 2006 Apr 27;. PMID:16698036
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (636 Kb) [Save to disk]
  • Biological Unit Coordinates (2gk1.pdb1.gz) 165 Kb
  • Biological Unit Coordinates (2gk1.pdb2.gz) 165 Kb
  • Biological Unit Coordinates (2gk1.pdb3.gz) 163 Kb
  • Biological Unit Coordinates (2gk1.pdb4.gz) 163 Kb
  • Biological Unit Coordinates (2gk1.pdb5.gz) 315 Kb
  • Biological Unit Coordinates (2gk1.pdb6.gz) 320 Kb
  • LPC: Ligand-Protein Contacts for 2GK1
  • CSU: Contacts of Structural Units for 2GK1
  • Likely Quarternary Molecular Structure file(s) for 2GK1
  • Structure Factors (624 Kb)
  • Retrieve 2GK1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GK1 from S2C, [Save to disk]
  • Re-refined 2gk1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2GK1 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 2GK1
  • 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
  • 3D motif for 2GK1, from MSDmotif at EBI
  • Fold representative 2gk1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2gk1] [2gk1_H] [2gk1_A] [2gk1_B] [2gk1_D] [2gk1_G] [2gk1_C] [2gk1_F] [2gk1_E]
  • SWISS-PROT database: [P06865] [P07686]
  • Domain organization of [HEXA_HUMAN] [HEXB_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 2GK1 with the sequences similar proteins can be viewed for 2GK1's classification [HEXA_HUMAN] [HEXB_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [HEXA_HUMAN] [HEXB_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2GK1
  • Community annotation for 2GK1 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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