5NKK Transcription date Mar 31, 2017
title Smg8-Smg9 Complex Gdp Bound
authors L.Li, J.Basquin, E.Conti
compound source
Molecule: Protein Smg-8
Chain: A, C, E
Synonym: Suppressor With Morphogenetic Effect On Genitalia
Engineered: Yes
 Organism_scientific: Caenorhabditis Elegans
Organism_taxid: 6239
Gene: Smg-8, K04b12.3
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_plasmid: Multibac Pfl

Molecule: Protein Smg-9
Chain: B, D, F
Synonym: Suppressor With Morphogenetic Effect On Genitalia
Engineered: Yes
Organism_scientific: Caenorhabditis Elegans
Organism_taxid: 6239
Gene: Smg-9, Y54e2a.2
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_plasmid: Multibac Pfl
symmetry Space Group: P 32 2 1
R_factor 0.232 R_Free 0.274
crystal
cell
length a length b length c angle alpha angle beta angle gamma
110.605 110.605 360.266 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.64 Å
ligand EDO, GDP, MG, POP enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C, E


F, D, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (607 Kb) [Save to disk]
  • Biological Unit Coordinates (5nkk.pdb1.gz) 201 Kb
  • Biological Unit Coordinates (5nkk.pdb2.gz) 198 Kb
  • Biological Unit Coordinates (5nkk.pdb3.gz) 198 Kb
  • LPC: Ligand-Protein Contacts for 5NKK
  • CSU: Contacts of Structural Units for 5NKK
  • Structure Factors (892 Kb)
  • Retrieve 5NKK in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5NKK from S2C, [Save to disk]
  • Re-refined 5nkk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5NKK 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 5NKK
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5nkk_D] [5nkk] [5nkk_C] [5nkk_F] [5nkk_A] [5nkk_B] [5nkk_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5NKK
  • Community annotation for 5NKK at PDBWiki (http://pdbwiki.org)

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