3GKH Transport Protein date Mar 10, 2009
title Npc1(Ntd)
authors H.J.Kwon
compound source
Molecule: Niemann-Pick C1 Protein
Chain: A
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Npc1
Expression_system: Trichoplusia Ni
Expression_system_taxid: 7111
symmetry Space Group: P 64
R_factor 0.180 R_Free 0.221
length a length b length c angle alpha angle beta angle gamma
66.181 66.181 82.644 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.81 Å
ligand GOL, NAG enzyme
Primary referenceStructure of N-terminal domain of NPC1 reveals distinct subdomains for binding and transfer of cholesterol., Kwon HJ, Abi-Mosleh L, Wang ML, Deisenhofer J, Goldstein JL, Brown MS, Infante RE, Cell. 2009 Jun 26;137(7):1213-24. PMID:19563754
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (44 Kb) [Save to disk]
  • Biological Unit Coordinates (3gkh.pdb1.gz) 39 Kb
  • LPC: Ligand-Protein Contacts for 3GKH
  • CSU: Contacts of Structural Units for 3GKH
  • Likely Quarternary Molecular Structure file(s) for 3GKH
  • Structure Factors (130 Kb)
  • Retrieve 3GKH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GKH from S2C, [Save to disk]
  • Re-refined 3gkh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3GKH 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 3GKH
  • 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 3GKH, from MSDmotif at EBI
  • Fold representative 3gkh from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gkh_A] [3gkh]
  • SWISS-PROT database: [O15118]
  • Belongs to the resistance-nodulation-cell division (rnd) superfamily according to TCDB.
  • Domain organization of [NPC1_HUMAN] by SWISSPFAM
  • Other resources with information on 3GKH
  • Community annotation for 3GKH 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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