5U1C Viral Protein date Nov 28, 2016
title Structure Of Tetrameric Hiv-1 Strand Transfer Complex Intaso
authors D.Lyumkis, D.Passos
compound source
Molecule: Hiv-1 Integrase, Sso7d Chimera
Chain: A, B, C, D
Synonym: 7 Kda Dna-Binding Protein D, Sso7d
Engineered: Yes
Mutation: Yes
 Organism_scientific: Sulfolobus Solfataricus, Human Immunod Virus 1;
Organism_common: Hiv-1
Organism_taxid: 2287, 11676
Gene: Ssop1_2677, Pol
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (11-Mer)
Chain: G, H
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 11676

Molecule: Dna (23-Mer)
Chain: E, I
Engineered: Yes
Synthetic: Yes
Organism_scientific: Human Immunodeficiency Virus 1
Organism_common: Hiv-1
Organism_taxid: 11676

Molecule: Dna (37-Mer)
Chain: F, J
Engineered: Yes
Synthetic: Yes
Organism_scientific: Human Immunodeficiency Virus 1, Homo S
Organism_common: Hiv-1, Human
Organism_taxid: 11676, 9606
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.90 Å
ligand MG, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceCryo-EM structures and atomic model of the HIV-1 strand transfer complex intasome., Passos DO, Li M, Yang R, Rebensburg SV, Ghirlando R, Jeon Y, Shkriabai N, Kvaratskhelia M, Craigie R, Lyumkis D, Science. 2017 Jan 6;355(6320):89-92. doi: 10.1126/science.aah5163. PMID:28059769
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (156 Kb) [Save to disk]
  • Biological Unit Coordinates (5u1c.pdb1.gz) 148 Kb
  • LPC: Ligand-Protein Contacts for 5U1C
  • CSU: Contacts of Structural Units for 5U1C
  • Retrieve 5U1C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5U1C from S2C, [Save to disk]
    • View 5U1C 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 5U1C
  • 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: [5u1c_E] [5u1c_I] [5u1c_A] [5u1c_H] [5u1c_F] [5u1c_D] [5u1c_J] [5u1c_G] [5u1c] [5u1c_C] [5u1c_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5U1C
  • Community annotation for 5U1C 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