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Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

6WUU

Crystal structure of the SARS CoV-2 Papain-like protease in complex with peptide inhibitor VIR250

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0006508	biological_process	proteolysis
A	0008234	molecular_function	cysteine-type peptidase activity
B	0006508	biological_process	proteolysis
B	0008234	molecular_function	cysteine-type peptidase activity
C	0006508	biological_process	proteolysis
C	0008234	molecular_function	cysteine-type peptidase activity
D	0006508	biological_process	proteolysis
D	0008234	molecular_function	cysteine-type peptidase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue ZN A 501

Chain	Residue
A	CYS189
A	CYS192
A	CYS224
A	CYS226

site_id	AC2
Number of Residues	4
Details	binding site for residue ZN B 501

Chain	Residue
B	CYS189
B	CYS192
B	CYS224
B	CYS226

site_id	AC3
Number of Residues	3
Details	binding site for residue MG B 502

Chain	Residue
D	CYS155
D	ASN156
B	GLN174

site_id	AC4
Number of Residues	4
Details	binding site for residue ZN C 501

Chain	Residue
C	CYS189
C	CYS192
C	CYS224
C	CYS226

site_id	AC5
Number of Residues	4
Details	binding site for residue ZN D 501

Chain	Residue
D	CYS189
D	CYS192
D	CYS224
D	CYS226

site_id	AC6
Number of Residues	2
Details	binding site for residue MG D 502

Chain	Residue
D	ILE285
D	GLY287

site_id	AC7
Number of Residues	1
Details	binding site for residue MG D 503

Chain	Residue
D	ASP61

site_id	AC8
Number of Residues	11
Details	binding site for residues ACE G 1 and UB4 G 2

Chain	Residue
A	GLY163
A	ASP164
A	MET208
A	PRO247
A	PRO248
A	TYR264
A	TYR268
A	TYR273
A	THR301
G	DPP3
I	ACE1

site_id	AC9
Number of Residues	16
Details	binding site for residues UB4 G 2 and DPP G 3

Chain	Residue
A	LEU162
A	GLY163
A	ASP164
A	MET208
A	PRO247
A	PRO248
A	TYR264
A	TYR268
A	GLN269
A	CYS270
A	GLY271
A	TYR273
A	THR301
G	ACE1
G	GLY4
I	ACE1

site_id	AD1
Number of Residues	10
Details	binding site for Di-peptide DPP G 3 and GLY G 4

Chain	Residue
A	CYS111
A	LEU162
A	GLY163
A	TYR264
A	TYR268
A	GLN269
A	CYS270
A	GLY271
G	UB42
G	GVE5

site_id	AD2
Number of Residues	8
Details	binding site for Di-peptide GLY G 4 and GVE G 5

Chain	Residue
A	TRP106
A	ASN109
A	CYS111
A	LEU162
A	GLY163
A	GLY271
A	HIS272
G	DPP3

site_id	AD3
Number of Residues	8
Details	binding site for residues ACE H 1 and UB4 H 2

Chain	Residue
B	GLY163
B	ASP164
B	MET208
B	TYR264
B	TYR273
D	MET208
H	DPP3
J	UB42

site_id	AD4
Number of Residues	13
Details	binding site for residues UB4 H 2 and DPP H 3

Chain	Residue
B	LEU162
B	GLY163
B	ASP164
B	MET208
B	TYR264
B	TYR268
B	GLN269
B	CYS270
B	GLY271
B	TYR273
D	MET208
H	ACE1
H	GLY4

site_id	AD5
Number of Residues	10
Details	binding site for Di-peptide DPP H 3 and GLY H 4

Chain	Residue
B	CYS111
B	LEU162
B	GLY163
B	TYR268
B	GLN269
B	CYS270
B	GLY271
D	MET208
H	UB42
H	GVE5

site_id	AD6
Number of Residues	8
Details	binding site for Di-peptide GLY H 4 and GVE H 5

Chain	Residue
B	ASN109
B	CYS111
B	LEU162
B	GLY163
B	GLY271
B	HIS272
H	DPP3
B	TRP106

site_id	AD7
Number of Residues	10
Details	binding site for residues ACE I 1 and UB4 I 2

Chain	Residue
A	MET208
C	GLY163
C	ASP164
C	MET208
C	PRO247
C	TYR264
C	TYR268
C	TYR273
G	UB42
I	DPP3

site_id	AD8
Number of Residues	14
Details	binding site for residues UB4 I 2 and DPP I 3

Chain	Residue
A	MET208
C	LEU162
C	GLY163
C	ASP164
C	MET208
C	PRO247
C	TYR264
C	TYR268
C	GLN269
C	CYS270
C	GLY271
C	TYR273
I	ACE1
I	GLY4

site_id	AD9
Number of Residues	11
Details	binding site for Di-peptide DPP I 3 and GLY I 4

Chain	Residue
A	MET208
C	CYS111
C	LEU162
C	GLY163
C	TYR264
C	TYR268
C	GLN269
C	CYS270
C	GLY271
I	UB42
I	GVE5

site_id	AE1
Number of Residues	8
Details	binding site for Di-peptide GLY I 4 and GVE I 5

Chain	Residue
B	LEU317
C	ASN109
C	CYS111
C	LEU162
C	GLY163
C	GLY271
C	HIS272
I	DPP3

site_id	AE2
Number of Residues	17
Details	binding site for Di-peptide GVE I 5 and CYS C 111

Chain	Residue
B	LEU317
C	THR4
C	LYS6
C	VAL20
C	VAL21
C	HIS47
C	GLU51
C	ASN109
C	ASN110
C	TYR112
C	LEU113
C	ALA114
C	THR115
C	GLY271
C	HIS272
C	TYR273
I	GLY4

site_id	AE3
Number of Residues	10
Details	binding site for residues ACE J 1 and UB4 J 2

Chain	Residue
D	GLY163
D	ASP164
D	MET208
D	PRO247
D	PRO248
D	TYR264
D	TYR273
D	THR301
H	ACE1
J	DPP3

site_id	AE4
Number of Residues	16
Details	binding site for residues UB4 J 2 and DPP J 3

Chain	Residue
D	LEU162
D	GLY163
D	ASP164
D	MET208
D	PRO247
D	PRO248
D	TYR264
D	TYR268
D	GLN269
D	CYS270
D	GLY271
D	TYR273
D	THR301
H	ACE1
J	ACE1
J	GLY4

site_id	AE5
Number of Residues	10
Details	binding site for Di-peptide DPP J 3 and GLY J 4

Chain	Residue
D	CYS111
D	LEU162
D	GLY163
D	TYR264
D	TYR268
D	GLN269
D	CYS270
D	GLY271
J	UB42
J	GVE5

site_id	AE6
Number of Residues	7
Details	binding site for Di-peptide GLY J 4 and GVE J 5

Chain	Residue
D	ASN109
D	CYS111
D	LEU162
D	GLY163
D	GLY271
D	HIS272
J	DPP3

site_id	AE7
Number of Residues	17
Details	binding site for Di-peptide GVE J 5 and CYS D 111

Chain	Residue
D	THR4
D	LYS6
D	VAL20
D	VAL21
D	MET23
D	HIS47
D	GLU51
D	ASN109
D	ASN110
D	TYR112
D	LEU113
D	ALA114
D	THR115
D	GLY271
D	HIS272
D	TYR273
J	GLY4

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	220
Details	Domain: {"description":"Ubiquitin-like 2","evidences":[{"source":"PROSITE-ProRule","id":"PRU00214","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	88
Details	Repeat: {"description":"LRR 3","evidences":[{"evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	148
Details	Zinc finger: {"description":"C4-type","evidences":[{"source":"PROSITE-ProRule","id":"PRU00444","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	4
Details	Active site: {"description":"For PL-PRO activity","evidences":[{"source":"PROSITE-ProRule","id":"PRU00444","evidenceCode":"ECO:0000255"},{"source":"PubMed","id":"32726803","evidenceCode":"ECO:0000269"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	8
Details	Active site: {"description":"For PL-PRO activity","evidences":[{"source":"PROSITE-ProRule","id":"PRU00444","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	16
Details	Binding site: {"evidences":[{"source":"PROSITE-ProRule","id":"PRU00444","evidenceCode":"ECO:0000255"}]}

Chain

Residue

Details

247536

PDB entries from 2026-01-14

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