3K2A | pdb_00003k2a

Crystal structure of the homeobox domain of human homeobox protein Meis2

• PDB DOI: https://doi.org/10.2210/pdb3K2A/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-09-29 Released: 2010-10-13 
• Deposition Author(s): Lam, R., Soloveychik, M., Battaile, K.P., Romanov, V., Lam, K., Beletskaya, I., Gordon, E., Pai, E.F., Chirgadze, N.Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.239 (Depositor), 0.261 (DCC) 
• R-Value Work: 
  0.215 (Depositor) 
• R-Value Observed: 
  0.216 (Depositor) 

Literature

Crystal structure of the homeobox domain of human homeobox protein Meis2

Lam, R., Soloveychik, M., Battaile, K.P., Romanov, V., Lam, K., Beletskaya, I., Gordon, E., Pai, E.F., Chirgadze, N.Y.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Dihedral - D8  (Explore in 3D)
Global Stoichiometry: Homo 16-mer - A16 

Biological assembly 3 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 15.95 kDa 
• Atom Count: 989 
• Modeled Residue Count: 111 
• Deposited Residue Count: 134 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Homeobox protein Meis2	A, B	67	Homo sapiens	Mutation(s): 0  Gene Names: MEIS2, MRG1
UniProt & NIH Common Fund Data Resources
Find proteins for O14770 (Homo sapiens) Explore O14770  Go to UniProtKB:  O14770
PHAROS:  O14770 GTEx:  ENSG00000134138

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	D [auth A], F [auth B]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
CL	C [auth A], E [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free:  0.239 (Depositor), 0.261 (DCC) 
• R-Value Work:  0.215 (Depositor) 
• R-Value Observed: 0.216 (Depositor) 

Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 113.597	α = 90
b = 113.597	β = 90
c = 50.251	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
DM	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
JDirector	data collection
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-10-13 
Deposition Author(s): Lam, R., Soloveychik, M., Battaile, K.P., Romanov, V., Lam, K., Beletskaya, I., Gordon, E., Pai, E.F., Chirgadze, N.Y.

Revision History  

• Version 1.0: 2010-10-13
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-01
  Changes: Refinement description
• Version 1.3: 2024-11-27
  Changes: Data collection, Database references, Derived calculations, Structure summary