6NIL Antiviral Protein date Dec 29, 2018
title Cryoem Structure Of The Truncated Hiv-1 Vifcbfbetaa3f Comp
authors Y.Hu, Y.Xiong
compound source
Molecule: Dna Dc->Du-Editing Enzyme Apobec-3f
Chain: A, D, G, J
Fragment: C-Terminal Domain
Synonym: Apolipoprotein B Mrna-Editing Enzyme Catalytic Pol Like 3f,A3f;
Ec: 3.5.4.38
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Apobec3f
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Core-Binding Factor Subunit Beta
Chain: B, E, H, K
Synonym: Cbf-Beta,Polyomavirus Enhancer-Binding Protein 2 B Subunit,Pebp2-Beta,Sl3-3 Enhancer Factor 1 Subunit Beta,Sl3 Binding Factor Beta Subunit;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cbfb
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Virion Infectivity Factor
Chain: C, F, I, L
Synonym: Vif,Sor Protein
Engineered: Yes
Other_details: Residues 114-157 Was Replaced With A 6 Amino Linker (Easegs). The C-Terminal Residues 177-192 Were Delet

Organism_scientific: Human Immunodeficiency Virus 1
Organism_common: Hiv-1
Organism_taxid: 11676
Gene: Vif
Expression_system: Escherichia Coli
Expression_system_taxid: 562
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
enzyme Hydrolase E.C.3.5.4.38 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, J, D, G


F, C, I, L


K, E, B, H


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (320 Kb) [Save to disk]
  • Biological Unit Coordinates (6nil.pdb1.gz) 314 Kb
  • CSU: Contacts of Structural Units for 6NIL
  • Retrieve 6NIL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6NIL from S2C, [Save to disk]
  • View 6NIL 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 6NIL
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6nil from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6nil_C] [6nil_D] [6nil_I] [6nil_H] [6nil_L] [6nil_A] [6nil_B] [6nil_G] [6nil_F] [6nil_E] [6nil_K] [6nil_J]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6NIL
  • Community annotation for 6NIL at PDBWiki (http://pdbwiki.org)

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