6V24 | pdb_00006v24

Complex of mutant (K162M) of E. coli L-asparaginase II with L-Asp. Covalent acyl-enzyme intermediate.

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d6v24c1	Alpha and beta proteins (a/b)	Glutaminase/Asparaginase	Glutaminase/Asparaginase	Glutaminase/Asparaginase	Asparaginase type II	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d6v24c2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d6v24b1	Alpha and beta proteins (a/b)	Glutaminase/Asparaginase	Glutaminase/Asparaginase	Glutaminase/Asparaginase	Asparaginase type II	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d6v24b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D	d6v24d1	Alpha and beta proteins (a/b)	Glutaminase/Asparaginase	Glutaminase/Asparaginase	Glutaminase/Asparaginase	Asparaginase type II	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D	d6v24d2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d6v24a1	Alpha and beta proteins (a/b)	Glutaminase/Asparaginase	Glutaminase/Asparaginase	Glutaminase/Asparaginase	Asparaginase type II	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d6v24a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Glutaminase/Asparaginase	8033474	3001625	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Glutaminase/Asparaginase	8033474	3001625	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Glutaminase/Asparaginase	8033474	3001625	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Glutaminase/Asparaginase	8033474	3001625	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)
C	RNase_P_p30	e6v24C1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: RNase_P_p30	ECOD (develop294)
B	RNase_P_p30	e6v24B1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: RNase_P_p30	ECOD (develop294)
D	RNase_P_p30	e6v24D1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: RNase_P_p30	ECOD (develop294)
A	RNase_P_p30	e6v24A1	A: alpha bundles	X: Immunoglobulin-like beta-sandwich	H: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	T: Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	F: RNase_P_p30	ECOD (develop294)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, C	PF00710	Asparaginase, N-terminal (Asparaginase)	Asparaginase, N-terminal	This is the N-terminal domain of this enzyme.	Domain
B, C	PF17763	Glutaminase/Asparaginase C-terminal domain (Asparaginase_C)	Glutaminase/Asparaginase C-terminal domain	This domain is found at the C-terminus of asparaginase enzymes.	Domain
A, D	PF00710	Asparaginase, N-terminal (Asparaginase)	Asparaginase, N-terminal	This is the N-terminal domain of this enzyme.	Domain
A, D	PF17763	Glutaminase/Asparaginase C-terminal domain (Asparaginase_C)	Glutaminase/Asparaginase C-terminal domain	This domain is found at the C-terminus of asparaginase enzymes.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, C	L-asparaginase 2	asparaginase activity amidase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds identical protein binding protein binding binding	protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular process cellular component organization or biogenesis catabolic process oxoacid metabolic process L-amino acid catabolic process protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular process cellular component organization or biogenesis catabolic process oxoacid metabolic process L-amino acid catabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process L-amino acid metabolic process L-asparagine catabolic process proteinogenic amino acid metabolic process asparagine metabolic process alpha-amino acid catabolic process proteinogenic amino acid catabolic process carboxylic acid catabolic process L-asparagine metabolic process metabolic process small molecule metabolic process small molecule catabolic process amino acid catabolic process	cellular anatomical structure periplasmic space outer membrane-bounded periplasmic space cell envelope protein-containing complex
A, D	L-asparaginase 2	asparaginase activity amidase activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds identical protein binding protein binding binding	protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular process cellular component organization or biogenesis catabolic process oxoacid metabolic process L-amino acid catabolic process protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular process cellular component organization or biogenesis catabolic process oxoacid metabolic process L-amino acid catabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid catabolic process organic acid metabolic process alpha-amino acid metabolic process L-amino acid metabolic process L-asparagine catabolic process proteinogenic amino acid metabolic process asparagine metabolic process alpha-amino acid catabolic process proteinogenic amino acid catabolic process carboxylic acid catabolic process L-asparagine metabolic process metabolic process small molecule metabolic process small molecule catabolic process amino acid catabolic process	cellular anatomical structure periplasmic space outer membrane-bounded periplasmic space cell envelope protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, C	IPR027473	L-asparaginase, C-terminal	Homologous Superfamily
B, C	IPR027475	Asparaginase/glutaminase, active site 2	Active Site
B, C	IPR036152	Asparaginase/glutaminase-like superfamily	Homologous Superfamily
B, C	IPR020827	Asparaginase/glutaminase, active site 1	Active Site
B, C	IPR037152	L-asparaginase, N-terminal domain superfamily	Homologous Superfamily
B, C	IPR040919	Asparaginase/glutaminase, C-terminal	Domain
B, C	IPR027474	L-asparaginase, N-terminal	Domain
B, C	IPR004550	L-asparaginase, type II	Family
B, C	IPR006034	Asparaginase/glutaminase-like	Family
A, D	IPR027473	L-asparaginase, C-terminal	Homologous Superfamily
A, D	IPR027475	Asparaginase/glutaminase, active site 2	Active Site
A, D	IPR036152	Asparaginase/glutaminase-like superfamily	Homologous Superfamily
A, D	IPR020827	Asparaginase/glutaminase, active site 1	Active Site
A, D	IPR037152	L-asparaginase, N-terminal domain superfamily	Homologous Superfamily
A, D	IPR040919	Asparaginase/glutaminase, C-terminal	Domain
A, D	IPR027474	L-asparaginase, N-terminal	Domain
A, D	IPR004550	L-asparaginase, type II	Family
A, D	IPR006034	Asparaginase/glutaminase-like	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B, C	AEI	Parent Component: THR RESID: AA0525 PSI-MOD : O-(L-isoaspartyl)-L-threonine (active site intermediate) MOD:01671 , O-(L-isoaspartyl)-L-threonine (cross-link) MOD:01947
A, D	AEI	Parent Component: THR RESID: AA0525 , AA0525 PSI-MOD : O-(L-isoaspartyl)-L-threonine (active site intermediate) MOD:01671 , O-(L-isoaspartyl)-L-threonine (cross-link) MOD:01947 , O-(L-isoaspartyl)-L-threonine (active site intermediate) MOD:01671 , O-(L-isoaspartyl)-L-threonine (cross-link) MOD:01947

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.