3QSV | pdb_00003qsv

Structural basis for DNA recognition by constitutive Smad4 MH1 dimers

• PDB DOI: https://doi.org/10.2210/pdb3QSV/pdb
• NAKB: 3QSV

• Classification: TRANSCRIPTION/DNA
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-02-22 Released: 2011-06-22 
• Deposition Author(s): Baburajendran, N., Jauch, R., Zhen, C.T.Y., Kolatkar, P.R.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.71 Å
• R-Value Free: 
  0.272 (Depositor), 0.281 (DCC) 
• R-Value Work: 
  0.212 (Depositor), 0.217 (DCC) 
• R-Value Observed: 
  0.215 (Depositor) 

Literature

Structural basis for DNA recognition by constitutive Smad4 MH1 dimers

Baburajendran, N., Jauch, R., Zhen, C.T.Y., Kolatkar, P.R.

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)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 79.94 kDa 
• Atom Count: 5,401 
• Modeled Residue Count: 571 
• Deposited Residue Count: 592 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mothers against decapentaplegic homolog 4	A, B, C, D	132	Mus musculus	Mutation(s): 0  Gene Names: Smad4
UniProt
Find proteins for P97471 (Mus musculus) Explore P97471  Go to UniProtKB:  P97471

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*TP*GP*CP*AP*GP*TP*CP*TP*AP*GP*AP*CP*TP*GP*CP*A)-3')	E, F, G, H	16	N/A

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.71 Å
• R-Value Free:  0.272 (Depositor), 0.281 (DCC) 
• R-Value Work:  0.212 (Depositor), 0.217 (DCC) 
• R-Value Observed: 0.215 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 178.357	α = 90
b = 35.354	β = 93.83
c = 139.544	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHENIX	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-06-22 
Deposition Author(s): Baburajendran, N., Jauch, R., Zhen, C.T.Y., Kolatkar, P.R.

Revision History  

• Version 1.0: 2011-06-22
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-03-20
  Changes: Data collection, Database references, Derived calculations, Refinement description