9OS7 | pdb_00009os7

Mycoplasma penetrans Methionyl tRNA Synthetase is an Asymmetric Dimer fused to N-terminal Ancillary Domains

PDB DOI: https://doi.org/10.2210/pdb9OS7/pdb
EM Map EMD-70794: EMDB EMDataResource

Classification: LIGASE
Organism(s): Malacoplasma penetrans
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2025-05-23 Released: 2026-02-25
Deposition Author(s): Ghazi Esfahani, B., Bowman, M., Alexander, R., Stroupe, M.E.
Funding Organization(s): National Science Foundation (NSF, United States)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.66 Å
Aggregation State: TISSUE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

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

Literature

Mycoplasma penetrans Methionyl tRNA Synthetase is an Asymmetric Dimer fused to N-terminal Ancillary Domains

Ghazi Esfahani, B., Bowman, M., Alexander, R., Stroupe, M.E.

To be published.

Macromolecule Content

Total Structure Weight: 186.82 kDa
Atom Count: 10,933
Modeled Residue Count: 1,348
Deposited Residue Count: 1,616
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Methionine--tRNA ligase	A, B	555	Malacoplasma penetrans	Mutation(s): 0 Gene Names: metG, MYPE9380 EC: 6.1.1.10
UniProt
Find proteins for Q8EUI8 (Malacoplasma penetrans (strain HF-2)) Explore Q8EUI8 Go to UniProtKB: Q8EUI8
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8EUI8
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Methionine--tRNA ligase	C	506	Malacoplasma penetrans	Mutation(s): 0 Gene Names: metG, MYPE9380 EC: 6.1.1.10
UniProt
Find proteins for Q8EUI8 (Malacoplasma penetrans (strain HF-2)) Explore Q8EUI8 Go to UniProtKB: Q8EUI8
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8EUI8
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.66 Å
Aggregation State: TISSUE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2026-02-25

Deposition Author(s):

Ghazi Esfahani, B.

Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	MCB1856502
National Science Foundation (NSF, United States)	United States	CHE1904612

Revision History (Full details and data files)

Version 1.0: 2026-02-25
Type: Initial release

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.