6KHY Dna Binding Protein date Jul 16, 2019
title The Crystal Structure Of Asfvap:Ag
authors Y.Q.Chen, J.H.Gan
compound source
Molecule: Probable Ap Endonuclease
Chain: A, B, C, D
Synonym: Ape
Ec: 3.1.21.-
Engineered: Yes
Organism_scientific: African Swine Fever Virus (Isolate Tic Africapretoriuskop Pr41996);
Organism_common: Asfv
Organism_taxid: 561443
Strain: Isolate Ticksouth Africapretoriuskop Pr41996
Gene: Pret-146
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008

Molecule: Dna(Cctcgtcggggacgctg)
Chain: E
Engineered: Yes

Synthetic: Yes
Organism_scientific: African Swine Fever Virus
Organism_taxid: 10497

Molecule: Dna(Gcagcgtcaccgacgagg)
Chain: F
Engineered: Yes

Synthetic: Yes
Organism_scientific: African Swine Fever Virus
Organism_taxid: 10497

Molecule: Dna(Cctcgtcggggacgct)
Chain: G
Engineered: Yes

Synthetic: Yes
Organism_scientific: African Swine Fever Virus
Organism_taxid: 10497

Molecule: Dna(Agcgtcaccgacgagg)
Chain: H
Engineered: Yes

Synthetic: Yes
Organism_scientific: African Swine Fever Virus
Organism_taxid: 10497

Molecule: Dna(Cctcgtcggggacgc)
Chain: I
Engineered: Yes

Synthetic: Yes
Organism_scientific: African Swine Fever Virus
Organism_taxid: 10497

Molecule: Dna (Agcgtcaccgacgaggc)
Chain: J
Engineered: Yes

Synthetic: Yes
Organism_scientific: African Swine Fever Virus
Organism_taxid: 10497
symmetry Space Group: C 2 2 21
R_factor 0.211 R_Free 0.249
crystal
cell
length a length b length c angle alpha angle beta angle gamma
110.512 148.504 178.058 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.01 Å
ligand MES, ZN enzyme Hydrolase E.C.3.1.21 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B
  • nuclease activity
  • endonuclease activity
  • exonuclease activity


  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (237 Kb) [Save to disk]
  • Biological Unit Coordinates (6khy.pdb1.gz) 109 Kb
  • Biological Unit Coordinates (6khy.pdb2.gz) 122 Kb
  • Biological Unit Coordinates (6khy.pdb3.gz) 124 Kb
  • LPC: Ligand-Protein Contacts for 6KHY
  • CSU: Contacts of Structural Units for 6KHY
  • Structure Factors (654 Kb)
  • Retrieve 6KHY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6KHY from S2C, [Save to disk]
  • View 6KHY 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 6KHY
  • 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: [6khy_I] [6khy_F] [6khy_J] [6khy_G] [6khy_B] [6khy_E] [6khy_H] [6khy_C] [6khy_D] [6khy_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6KHY
  • Community annotation for 6KHY at PDBWiki (http://pdbwiki.org)

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