3EP0 | pdb_00003ep0

Methyltransferase domain of human PR domain-containing protein 12

• PDB DOI: https://doi.org/10.2210/pdb3EP0/pdb

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


• Deposited: 2008-09-29 Released: 2008-11-04 
• Deposition Author(s): Amaya, M.F., Zeng, H., Loppnau, P., Bountra, C., Weigelt, J., Arrowsmith, C.H., Edwards, A.M., Botchkarev, A., Min, J., Plotnikov, A.N., Wu, H., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.286 (Depositor), 0.281 (DCC) 
• R-Value Work: 
  0.257 (Depositor), 0.253 (DCC) 
• R-Value Observed: 
  0.259 (Depositor) 

Starting Model: experimental

Literature

The crystal structure of methyltransferase domain of human PR Domain-containing protein 12.

Zeng, H., Amaya, M.F., Loppnau, P., Min, J., Plotnikov, A.N., Wu, H.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

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

Macromolecule Content 

• Total Structure Weight: 38.19 kDa 
• Atom Count: 1,809 
• Modeled Residue Count: 226 
• Deposited Residue Count: 340 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PR domain zinc finger protein 12	A, B	170	Homo sapiens	Mutation(s): 0  Gene Names: PRDM12, PFM9
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H4Q4 (Homo sapiens) Explore Q9H4Q4  Go to UniProtKB:  Q9H4Q4
PHAROS:  Q9H4Q4 GTEx:  ENSG00000130711

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.286 (Depositor), 0.281 (DCC) 
• R-Value Work:  0.257 (Depositor), 0.253 (DCC) 
• R-Value Observed: 0.259 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 138.882	α = 90
b = 34.358	β = 131.09
c = 103.739	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-11-04 
Deposition Author(s): Amaya, M.F., Zeng, H., Loppnau, P., Bountra, C., Weigelt, J., Arrowsmith, C.H., Edwards, A.M., Botchkarev, A., Min, J., Plotnikov, A.N., Wu, H., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2008-11-04
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-09-06
  Changes: Data collection, Database references, Refinement description