3ZXV

Crystal structure of Mycobacterium Tuberculosis Glutamine Synthetase in complex with tri-substituted imidazole inhibitor (4-(2-tert-butyl- 4-(6-methoxynaphthalen-2-yl)-1H-imidazol-5-yl)pyridin-2-amine) and L- methionine-S-sulfoximine phosphate

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3zxva1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Glutamine synthetase, N-terminal domain	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
A	d3zxva2	Alpha and beta proteins (a+b)	Glutamine synthetase/guanido kinase	Glutamine synthetase/guanido kinase	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
B	d3zxvb1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Glutamine synthetase, N-terminal domain	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
B	d3zxvb2	Alpha and beta proteins (a+b)	Glutamine synthetase/guanido kinase	Glutamine synthetase/guanido kinase	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
C	d3zxvc1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Glutamine synthetase, N-terminal domain	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
C	d3zxvc2	Alpha and beta proteins (a+b)	Glutamine synthetase/guanido kinase	Glutamine synthetase/guanido kinase	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
D	d3zxvd1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Glutamine synthetase, N-terminal domain	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
D	d3zxvd2	Alpha and beta proteins (a+b)	Glutamine synthetase/guanido kinase	Glutamine synthetase/guanido kinase	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
E	d3zxve1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Glutamine synthetase, N-terminal domain	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
E	d3zxve2	Alpha and beta proteins (a+b)	Glutamine synthetase/guanido kinase	Glutamine synthetase/guanido kinase	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
F	d3zxvf1	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Glutamine synthetase, N-terminal domain	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)
F	d3zxvf2	Alpha and beta proteins (a+b)	Glutamine synthetase/guanido kinase	Glutamine synthetase/guanido kinase	automated matches	automated matches	(Mycobacterium tuberculosis H37Rv ) [TaxId: 83332 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Glutamine synthetase/guanido kinase	8038671	3000676	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GS N-terminal domain-like	8038669	3000408	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GS N-terminal domain-like	8038669	3000408	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Glutamine synthetase/guanido kinase	8038671	3000676	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GS N-terminal domain-like	8038669	3000408	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Glutamine synthetase/guanido kinase	8038671	3000676	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Glutamine synthetase/guanido kinase	8038671	3000676	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GS N-terminal domain-like	8038669	3000408	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	GS N-terminal domain-like	8038669	3000408	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Glutamine synthetase/guanido kinase	8038671	3000676	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	GS N-terminal domain-like	8038669	3000408	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Glutamine synthetase/guanido kinase	8038671	3000676	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Gln-synt_N	e3zxvA4	A: beta barrels	X: Ribosomal protein L25-like	H: Glutamine synthetase, N-terminal domain (From Topology)	T: Glutamine synthetase, N-terminal domain	F: Gln-synt_N	ECOD (1.6)
A	Gln-synt_C	e3zxvA3	A: a+b two layers	X: Glutamine synthetase-like	H: Glutamine synthetase/guanido kinase (From Topology)	T: Glutamine synthetase/guanido kinase	F: Gln-synt_C	ECOD (1.6)
B	Gln-synt_N	e3zxvB4	A: beta barrels	X: Ribosomal protein L25-like	H: Glutamine synthetase, N-terminal domain (From Topology)	T: Glutamine synthetase, N-terminal domain	F: Gln-synt_N	ECOD (1.6)
B	Gln-synt_C	e3zxvB3	A: a+b two layers	X: Glutamine synthetase-like	H: Glutamine synthetase/guanido kinase (From Topology)	T: Glutamine synthetase/guanido kinase	F: Gln-synt_C	ECOD (1.6)
C	Gln-synt_N	e3zxvC4	A: beta barrels	X: Ribosomal protein L25-like	H: Glutamine synthetase, N-terminal domain (From Topology)	T: Glutamine synthetase, N-terminal domain	F: Gln-synt_N	ECOD (1.6)
C	Gln-synt_C	e3zxvC3	A: a+b two layers	X: Glutamine synthetase-like	H: Glutamine synthetase/guanido kinase (From Topology)	T: Glutamine synthetase/guanido kinase	F: Gln-synt_C	ECOD (1.6)
D	Gln-synt_N	e3zxvD4	A: beta barrels	X: Ribosomal protein L25-like	H: Glutamine synthetase, N-terminal domain (From Topology)	T: Glutamine synthetase, N-terminal domain	F: Gln-synt_N	ECOD (1.6)
D	Gln-synt_C	e3zxvD3	A: a+b two layers	X: Glutamine synthetase-like	H: Glutamine synthetase/guanido kinase (From Topology)	T: Glutamine synthetase/guanido kinase	F: Gln-synt_C	ECOD (1.6)
E	Gln-synt_N	e3zxvE4	A: beta barrels	X: Ribosomal protein L25-like	H: Glutamine synthetase, N-terminal domain (From Topology)	T: Glutamine synthetase, N-terminal domain	F: Gln-synt_N	ECOD (1.6)
E	Gln-synt_C	e3zxvE3	A: a+b two layers	X: Glutamine synthetase-like	H: Glutamine synthetase/guanido kinase (From Topology)	T: Glutamine synthetase/guanido kinase	F: Gln-synt_C	ECOD (1.6)
F	Gln-synt_N	e3zxvF4	A: beta barrels	X: Ribosomal protein L25-like	H: Glutamine synthetase, N-terminal domain (From Topology)	T: Glutamine synthetase, N-terminal domain	F: Gln-synt_N	ECOD (1.6)
F	Gln-synt_C	e3zxvF3	A: a+b two layers	X: Glutamine synthetase-like	H: Glutamine synthetase/guanido kinase (From Topology)	T: Glutamine synthetase/guanido kinase	F: Gln-synt_C	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.10.20.70	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Glutamine synthetase, N-terminal domain	CATH (4.3.0)
A	3.30.590.10	Alpha Beta	2-Layer Sandwich	Creatine Kinase	Chain A, domain 2	CATH (4.3.0)
B	3.10.20.70	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Glutamine synthetase, N-terminal domain	CATH (4.3.0)
B	3.30.590.10	Alpha Beta	2-Layer Sandwich	Creatine Kinase	Chain A, domain 2	CATH (4.3.0)
C	3.10.20.70	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Glutamine synthetase, N-terminal domain	CATH (4.3.0)
C	3.30.590.10	Alpha Beta	2-Layer Sandwich	Creatine Kinase	Chain A, domain 2	CATH (4.3.0)
D	3.10.20.70	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Glutamine synthetase, N-terminal domain	CATH (4.3.0)
D	3.30.590.10	Alpha Beta	2-Layer Sandwich	Creatine Kinase	Chain A, domain 2	CATH (4.3.0)
E	3.10.20.70	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Glutamine synthetase, N-terminal domain	CATH (4.3.0)
E	3.30.590.10	Alpha Beta	2-Layer Sandwich	Creatine Kinase	Chain A, domain 2	CATH (4.3.0)
F	3.10.20.70	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Glutamine synthetase, N-terminal domain	CATH (4.3.0)
F	3.30.590.10	Alpha Beta	2-Layer Sandwich	Creatine Kinase	Chain A, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00120	Glutamine synthetase, catalytic domain (Gln-synt_C)	Glutamine synthetase, catalytic domain	-	Domain
A, B, C, D, E A, B, C, D, E, F	PF03951	Glutamine synthetase, beta-Grasp domain (Gln-synt_N)	Glutamine synthetase, beta-Grasp domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	GLUTAMINE SYNTHETASE 1	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding organic cyclic compound binding anion binding cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding protein binding enzyme binding zymogen binding fibronectin binding acid-ammonia (or amide) ligase activity ammonia ligase activity glutamine synthetase activity catalytic activity ligase activity, forming carbon-nitrogen bonds ligase activity	response to nutrient levels cellular homeostasis chemical homeostasis response to stimulus homeostatic process intracellular nitrogen homeostasis nitrogen utilization intracellular chemical homeostasis regulation of protein maturation positive regulation of protein maturation regulation of cellular process cellular biosynthetic process positive regulation of protein metabolic process positive regulation of biological process response to nutrient levels cellular homeostasis chemical homeostasis response to stimulus homeostatic process intracellular nitrogen homeostasis nitrogen utilization intracellular chemical homeostasis regulation of protein maturation positive regulation of protein maturation regulation of cellular process cellular biosynthetic process positive regulation of protein metabolic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of protein processing protein maturation regulation of primary metabolic process positive regulation of metabolic process positive regulation of plasminogen activation regulation of proteolysis positive regulation of biosynthetic process proteolysis regulation of plasminogen activation positive regulation of macromolecule metabolic process protein metabolic process plasminogen activation positive regulation of cellular process zymogen activation regulation of biosynthetic process regulation of biological process cellular metabolic process regulation of protein metabolic process biological regulation primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression positive regulation of proteolysis regulation of protein processing protein processing metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis glutamine family amino acid biosynthetic process oxoacid metabolic process amino acid metabolic process organic acid metabolic process organic acid biosynthetic process alpha-amino acid metabolic process carboxylic acid biosynthetic process glutamine family amino acid metabolic process small molecule metabolic process glutamine metabolic process small molecule biosynthetic process carboxylic acid metabolic process L-amino acid biosynthetic process L-amino acid metabolic process proteinogenic amino acid metabolic process amino acid biosynthetic process proteinogenic amino acid biosynthetic process glutamine biosynthetic process alpha-amino acid biosynthetic process	membrane cellular anatomical entity extracellular region intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane external encapsulating structure cell wall peptidoglycan-based cell wall

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR004809	Glutamine synthetase type I	Family
A, B, C, D, E A, B, C, D, E, F	IPR008146	Glutamine synthetase, catalytic domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR001637	Glutamine synthetase class-I, adenylation site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR027303	Glutamine synthetase, glycine-rich site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR027302	Glutamine synthetase, N-terminal conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR014746	Glutamine synthetase/guanido kinase, catalytic domain	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR008147	Glutamine synthetase, N-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR036651	Glutamine synthetase, N-terminal domain superfamily	Homologous Superfamily

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.