2VZ4 | pdb_00002vz4

The N-terminal domain of MerR-like protein TipAL bound to promoter DNA

• PDB DOI: https://doi.org/10.2210/pdb2VZ4/pdb
• NAKB: 2VZ4

• Classification: TRANSCRIPTION
• Organism(s): Streptomyces lividans
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2008-07-30 Released: 2009-11-17 
• Deposition Author(s): Allan, M.G., Stetefeld, J., Schirmer, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.274 (Depositor), 0.283 (DCC) 
• R-Value Work: 
  0.239 (Depositor), 0.244 (DCC) 
• R-Value Observed: 
  0.240 (Depositor) 

Starting Model: experimental

Literature

Structure of the Transcriptionally Inactive Merr Domain Tipan in Complex with DNA

Allan, M.G., Newberry, K.J., Schuman, J., Brennan, R.G., Stetefeld, J., Grzesiek, S., Schirmer, T.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 20.02 kDa 
• Atom Count: 1,222 
• Modeled Residue Count: 121 
• Deposited Residue Count: 134 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HTH-TYPE TRANSCRIPTIONAL ACTIVATOR TIPA	A	108	Streptomyces lividans	Mutation(s): 0
UniProt
Find proteins for P0A4T9 (Streptomyces lividans) Explore P0A4T9  Go to UniProtKB:  P0A4T9

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5'-D(*CP*TP*CP*CP*TP*CP*AP*CP*GP*TP *CP*AP*CP*GP*TP*GP*AP*GP*GP*TP*G)-3'	B	26	Streptomyces lividans

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.274 (Depositor), 0.283 (DCC) 
• R-Value Work:  0.239 (Depositor), 0.244 (DCC) 
• R-Value Observed: 0.240 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.85	α = 90
b = 67.467	β = 90
c = 73.129	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-11-17 
Deposition Author(s): Allan, M.G., Stetefeld, J., Schirmer, T.

Revision History  

• Version 1.0: 2009-11-17
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2019-05-08
  Changes: Advisory, Data collection, Experimental preparation, Other
• Version 1.3: 2023-12-13
  Changes: Advisory, Data collection, Database references, Other, Refinement description