9HKM | pdb_00009hkm

Transient activated state of BetP-M150E

• PDB DOI: https://doi.org/10.2210/pdb9HKM/pdb
• EM Map EMD-52232: EMDB EMDataResource

• Classification: TRANSPORT PROTEIN
• Organism(s): Corynebacterium glutamicum
• Expression System: Escherichia coli DH5[alpha]
• Mutation(s): Yes 


• Deposited: 2024-12-03 Released: 2025-12-17 
• Deposition Author(s): Urbansky, K., Gauthier-Manuel, L., Fu, L., Madej, M.G., Ziegler, C.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.74 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Structural evidence for a link between substrate promiscuity and transport regulation in BetP mutants

Urbansky, K., Fu, L., Klinger, S., Madej, M.G., Ziegler, C.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 198.75 kDa 
• Atom Count: 11,447 
• Modeled Residue Count: 1,493 
• Deposited Residue Count: 1,809 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycine betaine transporter BetP	A, B, C	603	Corynebacterium glutamicum	Mutation(s): 1  Gene Names: betP, Cgl0892, cg1016
UniProt
Find proteins for P54582 (Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / JCM 1318 / BCRC 11384 / CCUG 27702 / LMG 3730 / NBRC 12168 / NCIMB 10025 / NRRL B-2784 / 534)) Explore P54582  Go to UniProtKB:  P54582

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PGT	D [auth A], E [auth A], G [auth B]	(1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE C40 H79 O10 P KBPVYRBBONZJHF-AMAPPZPBSA-N
LMT	H [auth C]	DODECYL-BETA-D-MALTOSIDE C24 H46 O11 NLEBIOOXCVAHBD-QKMCSOCLSA-N
ABU	F [auth A]	GAMMA-AMINO-BUTANOIC ACID C4 H9 N O2 BTCSSZJGUNDROE-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.74 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: 2025-12-17 
Deposition Author(s): Urbansky, K., Gauthier-Manuel, L., Fu, L., Madej, M.G., Ziegler, C.

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Funding Organization	Location	Grant Number
Other government		--

Revision History  

• Version 1.0: 2025-12-17
  Type: Initial release