7MYQ

Crystal structure of a tRNA (guanine-N1)-methyltransferase from Acinetobacter baumannii

• PDB DOI: https://doi.org/10.2210/pdb7MYQ/pdb

• Classification: TRANSFERASE
• Organism(s): Acinetobacter baumannii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-05-21 Released: 2021-06-09 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.55 Å
• R-Value Free: 0.229 
• R-Value Work: 0.193 
• R-Value Observed: 0.197 

Starting Model: experimental

Literature

Crystal structure of a tRNA (guanine-N1)-methyltransferase from Acinetobacter baumannii

Edwards, T.E., Abendroth, J., Horanyi, P.S., Lorimer, D.D., Seattle Structural Genomics Center for Infectious Disease

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 Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 57.85 kDa 
• Atom Count: 3,519 
• Modelled Residue Count: 458 
• Deposited Residue Count: 508 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
tRNA (guanine-N(1)-)-methyltransferase	A, B	254	Acinetobacter baumannii	Mutation(s): 0  Gene Names: trmD, ABC003_01337, ABUW_0322, EA686_14030, FDO31_01140, FJU79_00125, GNY86_14875, HYI42_11650 EC: 2.1.1.228
UniProt
Find proteins for B0V8J1 (Acinetobacter baumannii (strain AYE)) Explore B0V8J1  Go to UniProtKB:  B0V8J1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.55 Å
• R-Value Free: 0.229 
• R-Value Work: 0.193 
• R-Value Observed: 0.197 
• Space Group: P 4₁
• Diffraction Data: https://doi.org/10.18430/m37myq

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.25	α = 90
b = 66.25	β = 90
c = 133.01	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-06-09 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease, Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2021-06-09
  Type: Initial release
  
• Version 1.1: 2023-10-18
  Changes: Data collection, Database references, Refinement description