4XBD | pdb_00004xbd

1.45A resolution structure of Norovirus 3CL protease complex with a covalently bound dipeptidyl inhibitor (1R,2S)-2-({N-[(benzyloxy)carbonyl]-3-cyclohexyl-L-alanyl}amino)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid (Orthorhombic P Form)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	d4xbdb1	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	automated matches	Hu/NV/NV/1968/US (Norovirus Hu/1968/US ) [TaxId: 524364 ],	SCOPe (2.08)
B	d4xbdb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Hu/NV/NV/1968/US (Norovirus Hu/1968/US ) [TaxId: 524364 ],	SCOPe (2.08)
A	d4xbda1	All beta proteins	Trypsin-like serine proteases	Trypsin-like serine proteases	Viral cysteine protease of trypsin fold	automated matches	Hu/NV/NV/1968/US (Norovirus Hu/1968/US ) [TaxId: 524364 ],	SCOPe (2.08)
A	d4xbda2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Hu/NV/NV/1968/US (Norovirus Hu/1968/US ) [TaxId: 524364 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Trypsin-like serine proteases	8106436	3000114	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Trypsin-like serine proteases	8106436	3000114	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)
B	SBP_bac_5	e4xbdB1	A: alpha bundles	X: Alpha-beta plaits	H: Protease propeptides/inhibitors	T: Protease propeptides/inhibitors	F: SBP_bac_5	ECOD (develop294)
A	SBP_bac_5	e4xbdA1	A: alpha bundles	X: Alpha-beta plaits	H: Protease propeptides/inhibitors	T: Protease propeptides/inhibitors	F: SBP_bac_5	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)
A	2.40.10.10	Mainly Beta	Beta Barrel	Thrombin, subunit H	Trypsin-like serine proteases	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	3C-LIKE PROTEASE	cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase activity RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity cysteine-type peptidase activity peptidase activity catalytic activity, acting on a protein cysteine-type endopeptidase activity hydrolase activity catalytic activity endopeptidase activity RNA-directed RNA polymerase activity 5'-3' RNA polymerase activity catalytic activity, acting on RNA catalytic activity, acting on a nucleic acid RNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups RNA binding binding nucleic acid binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity, acting on acid anhydrides nucleic acid conformation isomerase activity isomerase activity helicase activity RNA helicase activity ATP-dependent activity, acting on RNA macromolecular conformation isomerase activity ATP-dependent activity cation binding metal ion binding	RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process RNA metabolic process viral life cycle primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process viral genome replication biosynthetic process viral RNA genome replication viral process metabolic process cellular process macromolecule metabolic process gene expression DNA-templated transcription proteolysis protein metabolic process	host cellular component host intracellular part host cell perinuclear region of cytoplasm cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part host cell cytoplasm part extracellular region host intracellular membrane-bounded organelle host cell endoplasmic reticulum host cell membrane host intracellular organelle host cellular component host intracellular part host cell perinuclear region of cytoplasm cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part host cell cytoplasm part extracellular region host intracellular membrane-bounded organelle host cell endoplasmic reticulum host cell membrane host intracellular organelle host cell endomembrane system host cell endoplasmic reticulum membrane host cell Golgi membrane host cell Golgi apparatus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001205	RNA-directed RNA polymerase, C-terminal domain	Domain
A, B	IPR001665	Norovirus peptidase C37	Domain
A, B	IPR043128	Reverse transcriptase/Diguanylate cyclase domain	Homologous Superfamily
A, B	IPR014759	Helicase, superfamily 3, single-stranded RNA virus	Domain
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B	IPR043504	Peptidase_S1_PA_chymotrypsin	Unknown
A, B	IPR013614	Viral polyprotein, Caliciviridae N-terminal	Domain
A, B	IPR009003	Peptidase S1, PA clan	Homologous Superfamily
A, B	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A, B	IPR007094	RNA-directed RNA polymerase, catalytic domain	Domain
A, B	IPR000605	Helicase, superfamily 3, single-stranded DNA/RNA virus	Domain

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.