7Z5K

Transcription factor MYF5 bound to non-symmetrical site

• PDB DOI: https://doi.org/10.2210/pdb7Z5K/pdb
• NAKB: 7Z5K

• Classification: TRANSCRIPTION
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-03-09 Released: 2023-03-22 
• Deposition Author(s): Morgunova, E., Popov, A., Yin, Y., Taipale, J.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free: 0.266 
• R-Value Work: 0.229 
• R-Value Observed: 0.231 

Starting Model: experimental

Literature

Transcription factor MYF5 bound to non-symmetrical site

Morgunova, E., Popov, A., Yin, Y., Taipale, J.

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: 24.81 kDa 
• Atom Count: 1,775 
• Modelled Residue Count: 148 
• Deposited Residue Count: 150 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Myogenic factor 5	A, B	57	Homo sapiens	Mutation(s): 0  Gene Names: MYF5, BHLHC2
UniProt & NIH Common Fund Data Resources
Find proteins for P13349 (Homo sapiens) Explore P13349  Go to UniProtKB:  P13349
PHAROS:  P13349 GTEx:  ENSG00000111049

Entity ID: 2
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*GP*CP*GP*CP*AP*AP*CP*AP*GP*CP*TP*GP*AP*CP*GP*CP*GP*T)-3')	C [auth E]	18	Homo sapiens

Entity ID: 3
Molecule	Chains	Length	Organism	Image
DNA (5'-D(P*AP*CP*GP*CP*GP*TP*CP*AP*GP*CP*TP*GP*TP*TP*GP*CP*GP*C)-3')	D [auth F]	18	Homo sapiens

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free: 0.266 
• R-Value Work: 0.229 
• R-Value Observed: 0.231 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 170.443	α = 90
b = 33.839	β = 91.88
c = 53.541	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-22 
Deposition Author(s): Morgunova, E., Popov, A., Yin, Y., Taipale, J.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2023-03-22
  Type: Initial release
  
• Version 1.1: 2024-02-07
  Changes: Data collection, Refinement description