9EGJ | pdb_00009egj

Crystal Structure of EgtUC binding domain mutant I243P bound to L-Ergothioneine from S. pneumoniae

PDB DOI: https://doi.org/10.2210/pdb9EGJ/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Streptococcus pneumoniae D39
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2024-11-21 Released: 2025-11-26
Deposition Author(s): Legg, K.A., Gonzalez-Gutierrez, G., Giedroc, D.P.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.89 Å
R-Value Free:
0.254 (Depositor), 0.254 (DCC)
R-Value Work:
0.214 (Depositor), 0.214 (DCC)
R-Value Observed:
0.216 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

C-H...S hydrogen bonds are essential for molecular recognition of ergothioneine by the bacterial ergothioneine transporter EgtUC in Streptococcus pneumoniae.

Legg, K.A., Gonzalez-Gutierrez, G., Edmonds, K.A., Shushkov, D.P., Giedroc, D.P.

To be published.

Macromolecule Content

Total Structure Weight: 125.42 kDa
Atom Count: 10,086
Modeled Residue Count: 1,096
Deposited Residue Count: 1,108
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ergothioneine transporter EgtUC	A, B, C, D	277	Streptococcus pneumoniae D39	Mutation(s): 1 Gene Names: egtUBC, proWX, SPD_1642
UniProt
Find proteins for A0A0H2ZQB9 (Streptococcus pneumoniae serotype 2 (strain D39 / NCTC 7466)) Explore A0A0H2ZQB9 Go to UniProtKB: A0A0H2ZQB9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0H2ZQB9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
LW8 (Subject of Investigation/LOI) Query on LW8 Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain G [auth B] SDF format, chain H [auth C] SDF format, chain J [auth D] MOL2 format, chain E [auth A] MOL2 format, chain G [auth B] MOL2 format, chain H [auth C] MOL2 format, chain J [auth D] mmCIF format, chain E [auth A] mmCIF format, chain G [auth B] mmCIF format, chain H [auth C] mmCIF format, chain J [auth D]	E [auth A], G [auth B], H [auth C], J [auth D]	trimethyl-[(2S)-1-oxidanyl-1-oxidanylidene-3-(2-sulfanylidene-1,3-dihydroimidazol-4-yl)propan-2-yl]azanium C₉ H₁₆ N₃ O₂ S SSISHJJTAXXQAX-ZETCQYMHSA-O		Interactions Focus chain E [auth A] Focus chain G [auth B] Focus chain H [auth C] Focus chain J [auth D] Interactions & Density Focus chain E [auth A] Focus chain G [auth B] Focus chain H [auth C] Focus chain J [auth D]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain K [auth D] SDF format, chain I [auth C] MOL2 format, chain F [auth A] MOL2 format, chain K [auth D] MOL2 format, chain I [auth C] mmCIF format, chain F [auth A] mmCIF format, chain K [auth D] mmCIF format, chain I [auth C]	F [auth A], I [auth C], K [auth D]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain F [auth A] Focus chain I [auth C] Focus chain K [auth D] Interactions & Density Focus chain F [auth A] Focus chain I [auth C] Focus chain K [auth D]