1TF3

TFIIIA FINGER 1-3 BOUND TO DNA, NMR, 22 STRUCTURES

• PDB DOI: https://doi.org/10.2210/pdb1TF3/pdb
• NAKB: 1TF3

• Classification: TRANSCRIPTION/DNA
• Organism(s): Xenopus laevis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 1997-07-01 Released: 1997-09-17 
• Deposition Author(s): Foster, M.P., Wuttke, D.S., Radhakrishnan, I., Case, D.A., Gottesfeld, J.M., Wright, P.E.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 64 
• Conformers Submitted: 22 
• Selection Criteria: RESTRAINT ENERGIES < 11 KCAL, NO DISTANCE VIOLATIONS > 0.3 A 

Literature

Domain packing and dynamics in the DNA complex of the N-terminal zinc fingers of TFIIIA.

Foster, M.P., Wuttke, D.S., Radhakrishnan, I., Case, D.A., Gottesfeld, J.M., Wright, P.E.

(1997) Nat Struct Biol 4: 605-608

• PubMed: 9253405 
• DOI: https://doi.org/10.1038/nsb0897-605
• Primary Citation of Related Structures:  
  1TF3


• PubMed Abstract: 
  

  The three N-terminal zinc fingers of transcription factor IIIA bind in the DNA major groove. Substantial packing interfaces are formed between adjacent fingers, the linkers lose their intrinsic flexibility upon DNA binding, and several lysine side chains implicated in DNA recognition are dynamically disordered.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 20.06 kDa 
• Atom Count: 1,358 
• Modelled Residue Count: 122 
• Deposited Residue Count: 122 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
TRANSCRIPTION FACTOR IIIA	C [auth A]	92	Xenopus laevis	Mutation(s): 2
UniProt
Find proteins for P03001 (Xenopus laevis) Explore P03001  Go to UniProtKB:  P03001

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5S RNA GENE	A [auth E]	15	N/A

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5S RNA GENE	B [auth F]	15	N/A

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 64 
• Conformers Submitted: 22 
• Selection Criteria: RESTRAINT ENERGIES < 11 KCAL, NO DISTANCE VIOLATIONS > 0.3 A 

Structure Validation

Entry History 

Deposition Data

• Released Date: 1997-09-17 
Deposition Author(s): Foster, M.P., Wuttke, D.S., Radhakrishnan, I., Case, D.A., Gottesfeld, J.M., Wright, P.E.

Revision History  

• Version 1.0: 1997-09-17
  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: 2021-11-03
  Changes: Data collection, Database references, Derived calculations, Other
• Version 1.4: 2024-05-22
  Changes: Data collection