3SJZ | pdb_00003sjz

The structure of aIF2gamma subunit delta 41-45 from archaeon Sulfolobus solfataricus complexed with GDP and GDPNP

• PDB DOI: https://doi.org/10.2210/pdb3SJZ/pdb

• Classification: TRANSLATION
• Organism(s): Saccharolobus solfataricus P2
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-06-22 Released: 2012-07-04 
• Deposition Author(s): Arkhipova, V.I., Lazopulo, S.M., Lazopulo, A.M., Nikonov, O.S., Stolboushkina, E.A., Gabdoulkhakov, A.G., Garber, M.B., Nikonov, S.V.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.248 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.189 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.192 (Depositor) 

Starting Model: experimental

Literature

HOLD FOR PUBLICATION

Arkhipova, V.I., Lazopulo, S.M., Lazopulo, A.M., Nikonov, O.S., Stolboushkina, E.A., Gabdoulkhakov, A.G., Garber, M.B., Nikonov, S.V.

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)

Macromolecule Content 

• Total Structure Weight: 46.17 kDa 
• Atom Count: 3,346 
• Modeled Residue Count: 409 
• Deposited Residue Count: 409 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Translation initiation factor 2 subunit gamma	A	409	Saccharolobus solfataricus P2	Mutation(s): 0  Gene Names: eif2g, SSO0412 EC: 3.6.5.3
UniProt
Find proteins for Q980A5 (Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)) Explore Q980A5  Go to UniProtKB:  Q980A5

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GNP	C [auth A]	PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER C10 H17 N6 O13 P3 UQABYHGXWYXDTK-UUOKFMHZSA-N
GDP	B [auth A]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
BME	D [auth A]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.248 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.189 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.192 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 94.75	α = 90
b = 94.75	β = 90
c = 165.37	γ = 120

Software Package:

Software Name	Purpose
PHASER	phasing
PHENIX	refinement
XDS	data reduction
XDS	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-07-04 
Deposition Author(s): Arkhipova, V.I., Lazopulo, S.M., Lazopulo, A.M., Nikonov, O.S., Stolboushkina, E.A., Gabdoulkhakov, A.G., Garber, M.B., Nikonov, S.V.

Revision History  

• Version 1.0: 2012-07-04
  Type: Initial release
  
• Version 1.1: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description