7UNT | pdb_00007unt

Compact IF2-GDP bound to the Pseudomonas aeruginosa 70S ribosome initiation complex, from focused classification and refinement (I-B)

• PDB DOI: https://doi.org/10.2210/pdb7UNT/pdb
• EM Map EMD-26632: EMDB EMDataResource

• Classification: RIBOSOME
• Organism(s): Pseudomonas aeruginosa PAO1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-04-11 Released: 2022-06-22 
• Deposition Author(s): Basu, R.S., Sherman, M.B., Gagnon, M.G.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Robert A. Welch Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Compact IF2 allows initiator tRNA accommodation into the P site and gates the ribosome to elongation

Basu, R.S., Sherman, M.B., Gagnon, M.G.

(2022) Nat Commun 13: 3388

• DOI: https://doi.org/10.1038/s41467-022-31129-2

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 91.49 kDa 
• Atom Count: 3,270 
• Modeled Residue Count: 472 
• Deposited Residue Count: 840 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Translation initiation factor IF-2	A [auth x]	840	Pseudomonas aeruginosa PAO1	Mutation(s): 0  Gene Names: infB, PA4744
UniProt
Find proteins for Q9HV55 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9HV55  Go to UniProtKB:  Q9HV55

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GDP (Subject of Investigation/LOI)	B [auth x]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.19.2
RECONSTRUCTION	cryoSPARC	3.1.0

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-06-22 
Deposition Author(s): Basu, R.S., Sherman, M.B., Gagnon, M.G.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01GM136936
Robert A. Welch Foundation	United States	H-2032-20200401

Revision History  

• Version 1.0: 2022-06-22
  Type: Initial release
  
• Version 1.1: 2024-02-14
  Changes: Data collection, Refinement description