1ZLA Protein Binding Virus Dna date May 05, 2005
title X-Ray Structure Of A Kaposi'S Sarcoma Herpesvirus Lana Peptide Bound To The Nucleosomal Core
authors J.V.Chodaparambil, A.J.Barbera, K.M.Kaye, K.Luger
compound source
Molecule: Palindromic 146bp Human Alpha-Satellite Dna Fragment;
Chain: I, J
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Alpha-Satellite Dna
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Hb 101
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Puc

Molecule: Histone H3
Chain: A, E
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: Histone H3
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 De3 Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Histone H4
Chain: B, F
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: Histone H4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 De3 Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Xenopus Laevis-Like Histone H2a
Chain: C, G
Engineered: Yes

Organism_scientific: Expression Vector Pet3-H2a
Organism_taxid: 263730
Gene: Histone H2a
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 De3 Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Histone H2b
Chain: D, H
Engineered: Yes

Organism_scientific: Xenopus Laevis
Organism_common: African Clawed Frog
Organism_taxid: 8355
Gene: Histone H2b
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 De3 Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Latent Nuclear Antigen
Chain: K
Engineered: Yes

Synthetic: Yes
Other_details: N-Terminal 1-23 Amino Acid Region Of Latency Associated Nuclear Antigen (Lana)Protein Of Kaposi'S Sarcoma Herpesvirus (Kshv)
symmetry Space Group: P 21 21 21
R_factor 0.222 R_Free 0.277
crystal
cell
length a length b length c angle alpha angle beta angle gamma
106.162 109.599 182.237 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.90 Å
Gene
Ontology
ChainFunctionProcessComponent
A, E


C, G


F, B


H, D


Primary referenceThe nucleosomal surface as a docking station for Kaposi's sarcoma herpesvirus LANA., Barbera AJ, Chodaparambil JV, Kelley-Clarke B, Joukov V, Walter JC, Luger K, Kaye KM, Science. 2006 Feb 10;311(5762):856-61. PMID:16469929
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (249 Kb) [Save to disk]
  • Biological Unit Coordinates (1zla.pdb1.gz) 243 Kb
  • CSU: Contacts of Structural Units for 1ZLA
  • Likely Quarternary Molecular Structure file(s) for 1ZLA
  • Structure Factors (705 Kb)
  • Retrieve 1ZLA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1ZLA from S2C, [Save to disk]
  • Re-refined 1zla structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1ZLA 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 1ZLA
  • 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 1ZLA, from MSDmotif at EBI
  • Fold representative 1zla from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1zla_G] [1zla_K] [1zla_I] [1zla_B] [1zla_D] [1zla_A] [1zla_J] [1zla_C] [1zla_F] [1zla_H] [1zla_E] [1zla]
  • SWISS-PROT database: [P06897] [P02281] [P84233] [P62799]
  • Domain organization of [H2A1_XENLA] [H2B11_XENLA] [H32_XENLA] [H4_XENLA] by SWISSPFAM
  • Domains found in 1ZLA: [H2A] [H2B] [H3] [H4 ] by SMART
  • Other resources with information on 1ZLA
  • Community annotation for 1ZLA 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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