3ORH | pdb_00003orh

Human guanidinoacetate N-methyltransferase with SAH

• PDB DOI: https://doi.org/10.2210/pdb3ORH/pdb
• Entry: 3ORH supersedes: 1ZX0

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


• Deposited: 2010-09-07 Released: 2010-09-15 
• Deposition Author(s): Dong, A., Wu, H., Zeng, H., Loppnau, P., Sundstrom, M., Arrowsmith, C.H., Edwards, A.M., Bochkarev, A., Plotnikov, A.N., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.86 Å
• R-Value Free: 
  0.236 (Depositor), 0.180 (DCC) 
• R-Value Work: 
  0.209 (Depositor), 0.170 (DCC) 

Starting Model: experimental

Literature

The crystal structure of human guanidinoacetate N-methyltransferase with SAH

Wu, H., Dong, A., Zeng, H., Loppnau, P., Sundstrom, M., Arrowsmith, C.H., Edwards, A.M., Bochkarev, A., Plotnikov, A.N.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 generated by PISA (software)

Biological Assembly 4  

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

Biological assembly 4 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 106.93 kDa 
• Atom Count: 8,261 
• Modeled Residue Count: 908 
• Deposited Residue Count: 944 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Guanidinoacetate N-methyltransferase	A, B, C, D	236	Homo sapiens	Mutation(s): 0  Gene Names: GAMT EC: 2.1.1.2
UniProt & NIH Common Fund Data Resources
Find proteins for Q14353 (Homo sapiens) Explore Q14353  Go to UniProtKB:  Q14353
PHAROS:  Q14353 GTEx:  ENSG00000130005

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SAH	E [auth A], F [auth B], G [auth C], H [auth D]	S-ADENOSYL-L-HOMOCYSTEINE C14 H20 N6 O5 S ZJUKTBDSGOFHSH-WFMPWKQPSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.86 Å
• R-Value Free:  0.236 (Depositor), 0.180 (DCC) 
• R-Value Work:  0.209 (Depositor), 0.170 (DCC) 

Space Group: P 6₄

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 200.327	α = 90
b = 200.327	β = 90
c = 52.06	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
BUSTER-TNT	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing
BUSTER	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-09-15 
Deposition Author(s): Dong, A., Wu, H., Zeng, H., Loppnau, P., Sundstrom, M., Arrowsmith, C.H., Edwards, A.M., Bochkarev, A., Plotnikov, A.N., Structural Genomics Consortium (SGC)
• This entry supersedes: 1ZX0

Revision History  

• Version 1.0: 2010-09-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description