9K2N | pdb_00009k2n

Crystal structure of Glutamine Synthetase-apo

PDB DOI: https://doi.org/10.2210/pdb9K2N/pdb

Classification: LIGASE
Organism(s): Acinetobacter baumannii AB0057
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-10-17 Released: 2025-03-19
Deposition Author(s): Chandrasekaran, P., Killivalavan, A., Vaigundan, D., Yuvaraj, I., Manju, B., Sekar, K.
Funding Organization(s): Department of Science & Technology (DST, India)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.40 Å
R-Value Free:
0.270 (Depositor), 0.270 (DCC)
R-Value Work:
0.233 (Depositor), 0.235 (DCC)

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

Structure of glutamine synthetase from ESKAPE pathogen Acinetobacter baumannii

Chandrasekaran, P., Killivalavan, A., Vaigundan, D., Yuvaraj, I., Manju, B., Sekar, K.

To be published.

Macromolecule Content

Total Structure Weight: 313.93 kDa
Atom Count: 21,886
Modeled Residue Count: 2,808
Deposited Residue Count: 2,808
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glutamine synthetase	A, B, C, D, E A, B, C, D, E, F	468	Acinetobacter baumannii AB0057	Mutation(s): 0 Gene Names: AB57_2783 EC: 6.3.1.2
UniProt
Find proteins for A0A7U3Y893 (Acinetobacter baumannii (strain AB0057)) Explore A0A7U3Y893 Go to UniProtKB: A0A7U3Y893
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A7U3Y893
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PGE (Subject of Investigation/LOI) Query on PGE Download:Ideal Coordinates CCD File SDF format, chain G [auth A] MOL2 format, chain G [auth A] mmCIF format, chain G [auth A]	G [auth A]	TRIETHYLENE GLYCOL C₆ H₁₄ O₄ ZIBGPFATKBEMQZ-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Interactions & Density Focus chain G [auth A]
GOL (Subject of Investigation/LOI) Query on GOL Download:Ideal Coordinates CCD File SDF format, chain V [auth E] SDF format, chain S [auth D] SDF format, chain P [auth C] SDF format, chain M [auth B] SDF format, chain L [auth B] SDF format, chain I [auth A] SDF format, chain H [auth A] MOL2 format, chain V [auth E] MOL2 format, chain S [auth D] MOL2 format, chain P [auth C] MOL2 format, chain M [auth B] MOL2 format, chain L [auth B] MOL2 format, chain I [auth A] MOL2 format, chain H [auth A] mmCIF format, chain V [auth E] mmCIF format, chain S [auth D] mmCIF format, chain P [auth C] mmCIF format, chain M [auth B] mmCIF format, chain L [auth B] mmCIF format, chain I [auth A] mmCIF format, chain H [auth A]	H [auth A] I [auth A] L [auth B] M [auth B] P [auth C] H [auth A], I [auth A], L [auth B], M [auth B], P [auth C], S [auth D], V [auth E]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain I [auth A] Focus chain L [auth B] Focus chain M [auth B] Focus chain P [auth C] Focus chain S [auth D] Focus chain V [auth E] Interactions & Density Focus chain H [auth A] Focus chain I [auth A] Focus chain L [auth B] Focus chain M [auth B] Focus chain P [auth C] Focus chain S [auth D] Focus chain V [auth E]
EDO (Subject of Investigation/LOI) Query on EDO Download:Ideal Coordinates CCD File SDF format, chain Y [auth F] MOL2 format, chain Y [auth F] mmCIF format, chain Y [auth F]	Y [auth F]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain Y [auth F] Interactions & Density Focus chain Y [auth F]
MG (Subject of Investigation/LOI) Query on MG Download:Ideal Coordinates CCD File SDF format, chain Z [auth F] SDF format, chain X [auth E] SDF format, chain W [auth E] SDF format, chain U [auth D] SDF format, chain T [auth D] SDF format, chain R [auth C] SDF format, chain Q [auth C] SDF format, chain O [auth B] SDF format, chain N [auth B] SDF format, chain K [auth A] SDF format, chain J [auth A] SDF format, chain AA [auth F] MOL2 format, chain Z [auth F] MOL2 format, chain X [auth E] MOL2 format, chain W [auth E] MOL2 format, chain U [auth D] MOL2 format, chain T [auth D] MOL2 format, chain R [auth C] MOL2 format, chain Q [auth C] MOL2 format, chain O [auth B] MOL2 format, chain N [auth B] MOL2 format, chain K [auth A] MOL2 format, chain J [auth A] MOL2 format, chain AA [auth F] mmCIF format, chain Z [auth F] mmCIF format, chain X [auth E] mmCIF format, chain W [auth E] mmCIF format, chain U [auth D] mmCIF format, chain T [auth D] mmCIF format, chain R [auth C] mmCIF format, chain Q [auth C] mmCIF format, chain O [auth B] mmCIF format, chain N [auth B] mmCIF format, chain K [auth A] mmCIF format, chain J [auth A] mmCIF format, chain AA [auth F]	AA [auth F] J [auth A] K [auth A] N [auth B] O [auth B] AA [auth F], J [auth A], K [auth A], N [auth B], O [auth B], Q [auth C], R [auth C], T [auth D], U [auth D], W [auth E], X [auth E], Z [auth F]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain AA [auth F] Focus chain J [auth A] Focus chain K [auth A] Focus chain N [auth B] Focus chain O [auth B] Focus chain Q [auth C] Focus chain R [auth C] Focus chain T [auth D] Focus chain U [auth D] Focus chain W [auth E] Focus chain X [auth E] Focus chain Z [auth F] Interactions & Density Focus chain AA [auth F] Focus chain J [auth A] Focus chain K [auth A] Focus chain N [auth B] Focus chain O [auth B] Focus chain Q [auth C] Focus chain R [auth C] Focus chain T [auth D] Focus chain U [auth D] Focus chain W [auth E] Focus chain X [auth E] Focus chain Z [auth F]