7DYR | pdb_00007dyr

CryoEM Structure of Mannose Transporter ManYZ and Microcin E492 (MceA) complex

• PDB DOI: https://doi.org/10.2210/pdb7DYR/pdb
• EM Map EMD-30923: EMDB EMDataResource

• Classification: PROTEIN TRANSPORT
• Organism(s): Escherichia coli K-12, Klebsiella pneumoniae
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc


• Deposited: 2021-01-22 Released: 2021-09-01 
• Deposition Author(s): Wang, J.W., Zeng, J.W.
• Funding Organization(s): Ministry of Science and Technology (MoST, China), National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.28 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of the mannose phosphotransferase system (man-PTS) complexed with microcin E492, a pore-forming bacteriocin.

Huang, K., Zeng, J., Liu, X., Jiang, T., Wang, J.

(2021) Cell Discov 7: 20-20

• PubMed: 33820910 
• DOI: https://doi.org/10.1038/s41421-021-00253-6
• Primary Citation Related Structures: 
  7DYR

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Organizational Affiliation: 
• State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing, 100084, China.
State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing, 100084, China. [e-mail].
State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing, 100084, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 9-mer - A3B3C3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 200.1 kDa 
• Atom Count: 13,326 
• Modeled Residue Count: 1,791 
• Deposited Residue Count: 1,899 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PTS system mannose-specific EIIC component	A [auth Y], D [auth B], G [auth E]	266	Escherichia coli K-12	Mutation(s): 0  Gene Names: manY, pel, ptsP, b1818, JW1807 Membrane Entity: Yes
UniProt
Find proteins for P69801 (Escherichia coli (strain K12)) Explore P69801  Go to UniProtKB:  P69801

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PTS system mannose-specific EIID component	B [auth Z], E [auth C], H [auth F]	283	Escherichia coli K-12	Mutation(s): 0  Gene Names: manZ, gptB, ptsM, b1819, JW1808 Membrane Entity: Yes
UniProt
Find proteins for P69805 (Escherichia coli (strain K12)) Explore P69805  Go to UniProtKB:  P69805

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Microcin E492	C [auth A], F [auth D], I [auth G]	84	Klebsiella pneumoniae	Mutation(s): 0  Gene Names: mceA Membrane Entity: Yes
UniProt
Find proteins for Q9Z4N4 (Klebsiella pneumoniae) Explore Q9Z4N4  Go to UniProtKB:  Q9Z4N4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MAN (Subject of Investigation/LOI)	J [auth Z], K [auth C], L [auth F]	alpha-D-mannopyranose C6 H12 O6 WQZGKKKJIJFFOK-PQMKYFCFSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.28 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2021-09-01 
Deposition Author(s): Wang, J.W., Zeng, J.W.

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Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, China)	China	2016YFA0501103
National Natural Science Foundation of China (NSFC)	China	31621092

Revision History  

• Version 1.0: 2021-09-01
  Type: Initial release
  
• Version 1.1: 2024-06-05
  Changes: Data collection