6EJQ | pdb_00006ejq

Crystal structure of a C-terminally truncated small terminase protein from the thermophilic bacteriophage G20c

• PDB DOI: https://doi.org/10.2210/pdb6EJQ/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Thermus phage G20c
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2017-09-22 Released: 2018-10-10 
• Deposition Author(s): Xu, R.G., Loredo-Varela, J., Jenkins, H.T., Antson, A.A.
• Funding Organization(s): Wellcome Trust

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.238 (Depositor), 0.243 (DCC) 
• R-Value Work: 
  0.208 (Depositor), 0.211 (DCC) 
• R-Value Observed: 
  0.209 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a C-terminally truncated small terminase protein from the thermophilic bacteriophage G20c

Xu, R.G., Loredo-Varela, J., Jenkins, H.T., Antson, A.A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 9-mer - A7B2 Pseudo Symmetry: Cyclic - C9  (Explore in 3D)
Pseudo Stoichiometry: Homo 9-mer - A9 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - B2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - B2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 142.25 kDa 
• Atom Count: 9,665 
• Modeled Residue Count: 1,146 
• Deposited Residue Count: 1,269 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Terminase small subunit	A, B, C, D, E, F, G, H, I	141	Thermus phage G20c	Mutation(s): 0  Gene Names: G20c_79
UniProt
Find proteins for A0A1L4BKP6 (Thermus phage G20c) Explore A0A1L4BKP6  Go to UniProtKB:  A0A1L4BKP6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.238 (Depositor), 0.243 (DCC) 
• R-Value Work:  0.208 (Depositor), 0.211 (DCC) 
• R-Value Observed: 0.209 (Depositor) 

Space Group: P 4₂ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 167.275	α = 90
b = 167.275	β = 90
c = 139.732	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data processing
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2018-10-10 
Deposition Author(s): Xu, R.G., Loredo-Varela, J., Jenkins, H.T., Antson, A.A.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	098230
Wellcome Trust	United Kingdom	101528

Revision History  

• Version 1.0: 2018-10-10
  Type: Initial release
  
• Version 1.1: 2024-01-17
  Changes: Data collection, Database references, Refinement description, Structure summary