8S59

Cryo-EM structure of the active dodecameric Methanosarcina mazei glutamine synthetase.

PDB DOI: https://doi.org/10.2210/pdb8S59/pdb
EM Map EMD-19730: EMDB EMDataResource

Classification: CYTOSOLIC PROTEIN
Organism(s): Methanosarcina mazei Go1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-02-23 Released: 2025-01-08
Deposition Author(s): Kumar, A., Schuller, J.M., Schmitz, R.A.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.39 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

Cryo-EM structure of the active dodecameric Methanosarcina mazei glutamine synthetase.

Kumar, A., Schuller, J.M., Schmitz, R.A.

(2024) Elife

DOI: https://doi.org/10.7554/eLife.97484.1

Macromolecule Content

Total Structure Weight: 608.06 kDa
Atom Count: 46,968
Modelled Residue Count: 5,352
Deposited Residue Count: 5,352
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutamine synthetase	A [auth O] B [auth D] C [auth A] D [auth B] E [auth C] A [auth O], B [auth D], C [auth A], D [auth B], E [auth C], F [auth L], G [auth M], H [auth P], I [auth Q], J [auth V], K [auth X], L [auth Y]	446	Methanosarcina mazei Go1	Mutation(s): 0 Gene Names: glnA1, MM_0964 EC: 6.3.1.2
UniProt
Find proteins for Q8PY99 (Methanosarcina mazei (strain ATCC BAA-159 / DSM 3647 / Goe1 / Go1 / JCM 11833 / OCM 88)) Explore Q8PY99 Go to UniProtKB: Q8PY99
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8PY99
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
AKG (Subject of Investigation/LOI) Query on AKG Download Ideal Coordinates CCD File SDF format, chain M [auth O] SDF format, chain N [auth D] SDF format, chain O [auth A] SDF format, chain P [auth B] SDF format, chain Q [auth C] SDF format, chain R [auth L] SDF format, chain S [auth M] SDF format, chain T [auth P] SDF format, chain U [auth Q] SDF format, chain V SDF format, chain X [auth Y] SDF format, chain W [auth X] MOL2 format, chain M [auth O] MOL2 format, chain N [auth D] MOL2 format, chain O [auth A] MOL2 format, chain P [auth B] MOL2 format, chain Q [auth C] MOL2 format, chain R [auth L] MOL2 format, chain S [auth M] MOL2 format, chain T [auth P] MOL2 format, chain U [auth Q] MOL2 format, chain V MOL2 format, chain X [auth Y] MOL2 format, chain W [auth X] mmCIF format, chain M [auth O] mmCIF format, chain N [auth D] mmCIF format, chain O [auth A] mmCIF format, chain P [auth B] mmCIF format, chain Q [auth C] mmCIF format, chain R [auth L] mmCIF format, chain S [auth M] mmCIF format, chain T [auth P] mmCIF format, chain U [auth Q] mmCIF format, chain V mmCIF format, chain X [auth Y] mmCIF format, chain W [auth X]	M [auth O] N [auth D] O [auth A] P [auth B] Q [auth C] M [auth O], N [auth D], O [auth A], P [auth B], Q [auth C], R [auth L], S [auth M], T [auth P], U [auth Q], V, W [auth X], X [auth Y]	2-OXOGLUTARIC ACID C₅ H₆ O₅ KPGXRSRHYNQIFN-UHFFFAOYSA-N		Interactions Focus chain M [auth O] Focus chain N [auth D] Focus chain O [auth A] Focus chain P [auth B] Focus chain Q [auth C] Focus chain R [auth L] Focus chain S [auth M] Focus chain T [auth P] Focus chain U [auth Q] Focus chain V Focus chain W [auth X] Focus chain X [auth Y] Interactions & Density Focus chain M [auth O] Focus chain N [auth D] Focus chain O [auth A] Focus chain P [auth B] Focus chain Q [auth C] Focus chain R [auth L] Focus chain S [auth M] Focus chain T [auth P] Focus chain U [auth Q] Focus chain V Focus chain W [auth X] Focus chain X [auth Y]