1ZNF | pdb_00001znf

THREE-DIMENSIONAL SOLUTION STRUCTURE OF A SINGLE ZINC FINGER DNA-BINDING DOMAIN

• PDB DOI: https://doi.org/10.2210/pdb1ZNF/pdb

• Classification: ZINC FINGER DNA BINDING DOMAIN
• Organism(s): Xenopus laevis
• Mutation(s): No 


• Deposited: 1989-09-25 Released: 1991-07-15 
• Deposition Author(s): Lee, M.S., Gippert, G.P., Soman, K.V., Case, D.A., Wright, P.E.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Submitted: 37 

Literature

Three-dimensional solution structure of a single zinc finger DNA-binding domain.

Lee, M.S., Gippert, G.P., Soman, K.V., Case, D.A., Wright, P.E.

(1989) Science 245: 635-637

• PubMed: 2503871 
• DOI: https://doi.org/10.1126/science.2503871
• Primary Citation Related Structures: 
  1ZNF


• PubMed Abstract: 
  

  The three-dimensional solution structure of a zinc finger nucleic acid binding motif has been determined by nuclear magnetic resonance (NMR) spectroscopy. Spectra of a synthetic peptide corresponding to a single zinc finger from the Xenopus protein Xfin yielded distance and dihedral angle constraints that were used to generate structures from distance geometry and restrained molecular dynamics calculations. The zinc finger is an independently folded domain with a compact globular structure in which the zinc atom is bound by two cysteine and two histidine ligands. The polypeptide backbone fold consists of a well-defined helix, starting as alpha and ending as 3(10) helix, packed against two beta strands that are arranged in a hairpin structure. A high density of basic and polar amino acid side chains on the exposed face of the helix are probably involved in DNA binding.

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Organizational Affiliation: 
• Department of Molecular Biology, Research Institute of Scripps Clinic, La Jolla, CA 92037.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 3.07 kDa 
• Atom Count: 212 
• Modeled Residue Count: 27 
• Deposited Residue Count: 27 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
31ST ZINC FINGER FROM XFIN	A	27	Xenopus laevis	Mutation(s): 0
UniProt
Find proteins for P08045 (Xenopus laevis) Explore P08045  Go to UniProtKB:  P08045

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Submitted: 37 

Structure Validation

Entry History 

Deposition Data

• Released Date: 1991-07-15 
Deposition Author(s): Lee, M.S., Gippert, G.P., Soman, K.V., Case, D.A., Wright, P.E.

Revision History  

• Version 1.0: 1991-07-15
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Derived calculations, Other
• Version 1.4: 2024-11-20
  Changes: Data collection, Database references, Derived calculations, Structure summary