9RLH | pdb_00009rlh

LolCDE complex with del 9-15 LolB lipoprotein

• PDB DOI: https://doi.org/10.2210/pdb9RLH/pdb
• EM Map EMD-54038: EMDB EMDataResource

• Classification: PROTEIN TRANSPORT
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-06-16 Released: 2026-01-21 
• Deposition Author(s): Symmons, M.F., Szewczyk, P., Greene, N.P., Hardwick, S.W., Koronakis, V.
• Funding Organization(s): Medical Research Council (MRC, United Kingdom)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.19 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico

Literature

LolCDE complex with del 9-15 LolB lipoprotein

Symmons, M.F., Szewczyk, P., Greene, N.P., Hardwick, S.W., Koronakis, V.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A2B1C1D1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 5-mer - A2B2C1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 164.9 kDa 
• Atom Count: 9,869 
• Modeled Residue Count: 1,280 
• Deposited Residue Count: 1,490 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lipoprotein-releasing system transmembrane protein LolC	A [auth C]	399	Escherichia coli K-12	Mutation(s): 0  Gene Names: lolC, ycfU, b1116, JW5161
UniProt
Find proteins for P0ADC3 (Escherichia coli (strain K12)) Explore P0ADC3  Go to UniProtKB:  P0ADC3

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Lipoprotein-releasing system transmembrane protein LolE	B [auth E]	414	Escherichia coli K-12	Mutation(s): 0  Gene Names: lolE, ycfW, b1118, JW1104
UniProt
Find proteins for P75958 (Escherichia coli (strain K12)) Explore P75958  Go to UniProtKB:  P75958

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Lipoprotein-releasing system ATP-binding protein LolD	C [auth D], D [auth F]	241	Escherichia coli K-12	Mutation(s): 0  Gene Names: lolD, ycfV, b1117, JW5162 EC: 7.6.2
UniProt
Find proteins for P75957 (Escherichia coli (strain K12)) Explore P75957  Go to UniProtKB:  P75957

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Outer-membrane lipoprotein LolB	E [auth L]	195	Escherichia coli K-12	Mutation(s): 0  Gene Names: lolB, hemM, ychC, b1209, JW1200
UniProt
Find proteins for P61320 (Escherichia coli (strain K12)) Explore P61320  Go to UniProtKB:  P61320

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
Z41 (Subject of Investigation/LOI)	G [auth L]	(2S)-3-hydroxypropane-1,2-diyl dihexadecanoate C35 H68 O5 JEJLGIQLPYYGEE-XIFFEERXSA-N
PLM	F [auth L]	PALMITIC ACID C16 H32 O2 IPCSVZSSVZVIGE-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.19 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX
RECONSTRUCTION	Warp

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-01-21 
Deposition Author(s): Symmons, M.F., Szewczyk, P., Greene, N.P., Hardwick, S.W., Koronakis, V.

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Funding Organization	Location	Grant Number
Medical Research Council (MRC, United Kingdom)	United Kingdom	MR/V000616/1

Revision History  

• Version 1.0: 2026-01-21
  Type: Initial release