7UGD | pdb_00007ugd

Asp-bound GltPh RSMR mutant in IFS-A1 state

• PDB DOI: https://doi.org/10.2210/pdb7UGD/pdb
• EM Map EMD-26487: EMDB EMDataResource

• Classification: TRANSPORT PROTEIN
• Organism(s): Pyrococcus horikoshii
• Expression System: Escherichia coli
• Mutation(s): Yes 
• Membrane Protein: Yes  OPMPDBTM


• Deposited: 2022-03-24 Released: 2023-03-29 
• Deposition Author(s): Huang, Y., Boudker, O.
• Funding Organization(s): Howard Hughes Medical Institute (HHMI), National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.95 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Environmentally Ultrasensitive Fluorine Probe to Resolve Protein Conformational Ensembles by 19F NMR and Cryo-EM

Huang, Y., Reddy, K.D., Bracken, C., Qiu, B., Zhan, W., Eliezer, D., Boudker, O.

(2023) J Am Chem Soc 145: 8583-8592

• DOI: https://doi.org/10.1021/jacs.3c01003

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 44.34 kDa 
• Atom Count: 3,079 
• Modeled Residue Count: 414 
• Deposited Residue Count: 418 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutamate transporter homolog	A	418	Pyrococcus horikoshii	Mutation(s): 14  Gene Names: PH1295 Membrane Entity: Yes
UniProt
Find proteins for O59010 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O59010  Go to UniProtKB:  O59010

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ASP (Subject of Investigation/LOI)	B [auth A]	ASPARTIC ACID C4 H7 N O4 CKLJMWTZIZZHCS-REOHCLBHSA-N
NA (Subject of Investigation/LOI)	C [auth A], D [auth A], E [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
EFC	A	L-PEPTIDE LINKING	C5 H10 F N O2 S2		CYS

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.95 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-03-29 
Deposition Author(s): Huang, Y., Boudker, O.

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Funding Organization	Location	Grant Number
Howard Hughes Medical Institute (HHMI)	United States	--
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)	United States	R37NS085318

Revision History  

• Version 1.0: 2023-03-29
  Type: Initial release
  
• Version 1.1: 2023-04-19
  Changes: Database references
• Version 1.2: 2023-05-03
  Changes: Database references
• Version 1.3: 2023-05-10
  Changes: Database references
• Version 1.4: 2025-05-21
  Changes: Data collection, Structure summary