7DYR

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)

Experimental Data Snapshot

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

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

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 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.1038/s41421-021-00253-6
Primary Citation of Related Structures:
7DYR

Organizational Affiliation

State Key Laboratory of Membrane Biology, Beijing Advanced Innovation Center for Structural Biology, School of Life Sciences, Tsinghua University, Beijing, 100084, China.

Macromolecule Content

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

Macromolecules

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(by identity cutoff) | 3D Structure

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 Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P69801
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

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 Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P69805
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

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
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9Z4N4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MAN (Subject of Investigation/LOI) Query on MAN Download Ideal Coordinates CCD File SDF format, chain J [auth Z] SDF format, chain K [auth C] SDF format, chain L [auth F] MOL2 format, chain J [auth Z] MOL2 format, chain K [auth C] MOL2 format, chain L [auth F]	J [auth Z], K [auth C], L [auth F]	alpha-D-mannopyranose C₆ H₁₂ O₆ WQZGKKKJIJFFOK-PQMKYFCFSA-N		Interactions Focus chain J [auth Z] Focus chain K [auth C] Focus chain L [auth F] Interactions & Density Focus chain J [auth Z] Focus chain K [auth C] Focus chain L [auth F]