5TL7: SARS-CoV papain-like protease

Crystal structure of SARS-CoV papain-like protease in complex with C-terminal domain mouse ISG15. Determined by X-ray diffraction at 2.44 Å resolution. Released 3 May 2017.

Method: X-ray diffraction
Resolution: 2.44 Å
Organisms: Mus musculus, SARS coronavirus
Chains: 4
Atoms: 6,350
Mol. weight: 90.31 kDa
Ligands: ZN
Released: 3 May 2017

Explore 5TL7 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

5TL7 contains 35 α-helices and 56 β-strands across 4 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chains A and C: 5 helices, 7 β-strands

Element	Residues	Length	Sheet
β-strand	80-85	6	1
β-strand	91-96	6	1
β-strand	101	1	2
α-helix	102-113	12
α-helix	117-119	3
β-strand	120-124	5	1
β-strand	127-128	2	1
α-helix	129-130	2
β-strand	134	1	2
α-helix	135-138	4
β-strand	145-150	6	1
α-helix	151-152	2

Chain B: 12 helices, 21 β-strands

Element	Residues	Length	Sheet
α-helix	2-4	3
β-strand	5-11	7	3
β-strand	18-23	6	3
α-helix	28-32	5
β-strand	35-37	3	3
β-strand	40-41	2	3
α-helix	49-51	3
β-strand	55-58	4	3
α-helix	65-73	9
α-helix	80-91	12
β-strand	98-99	2	4
β-strand	102-103	2	4
α-helix	112-121	10
β-strand	128	1	5
α-helix	131-141	11
α-helix	146-155	10
α-helix	158-159	2
α-helix	166-174	9
β-strand	177	1	5
β-strand	183-190	8	6
β-strand	194-201	8	6
α-helix	203-206	4
β-strand	207-209	3	7
α-helix	214-219	6
β-strand	221-224	4	6
β-strand	230-239	10	6
β-strand	242-255	14	7
β-strand	261-267	7	7
β-strand	272-279	8	7
β-strand	283-287	5	7
β-strand	290-294	5	7
β-strand	296-307	12	7
β-strand	310-312	3	6

Chain D: 13 helices, 21 β-strands

Element	Residues	Length	Sheet
β-strand	5-11	7	10
β-strand	18-23	6	10
α-helix	28-32	5
β-strand	35-37	3	10
β-strand	40-41	2	10
α-helix	46-47	2
α-helix	49-51	3
β-strand	55-58	4	10
α-helix	64-68	5
α-helix	69-73	5
α-helix	80-91	12
β-strand	98-99	2	11
β-strand	102-103	2	11
α-helix	112-121	10
β-strand	128	1	12
α-helix	131-142	12
α-helix	146-156	11
α-helix	166-173	8
α-helix	174-176	3
β-strand	177	1	12
β-strand	183-190	8	13
β-strand	194-201	8	13
α-helix	203-206	4
β-strand	207-209	3	14
α-helix	214-219	6
β-strand	221-224	4	13
β-strand	230-239	10	13
β-strand	242-254	13	14
β-strand	261-267	7	14
β-strand	272-279	8	14
β-strand	283-287	5	14
β-strand	290-294	5	14
β-strand	297-307	11	14
β-strand	310-312	3	13

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Ubiquitin-like protein ISG15	A, C	protein	79	Mus musculus	Q64339 (AlphaFold model)
Replicase polyprotein 1ab	B, D	protein	319	SARS coronavirus	P0C6X7 (AlphaFold model)

Sequence of entity 1 (A, C), FASTA

>5TL7_1 Ubiquitin-like protein ISG15 (chains A, C)
MEPLSILVRNERGHSNIYEVFLTQTVDTLKKKVSQREQVHEDQFWLSFEGRPMEDKELLG
EYGLKPQCTVIKHLRLRGX

Sequence of entity 2 (B, D), FASTA

>5TL7_2 Replicase polyprotein 1ab (chains B, D)
MASMEVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFF
VLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSV
LLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHA
NLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQ
QESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEY
KGPVTDVFYKETSYTTTIK

Ligands and cofactors

ID	Name	Formula	Copies
ZN	Zinc ion	Zn	2

Primary citation

Structural Insights into the Interaction of Coronavirus Papain-Like Proteases and Interferon-Stimulated Gene Product 15 from Different Species. Daczkowski, C.M., Dzimianski, J.V., Clasman, J.R. et al. J Mol Biol (2017) 429:1661-1683. DOI 10.1016/j.jmb.2017.04.011 · PubMed

Other PDB entries of the same protein (UniProt Q64339 (AlphaFold model), which also has an AlphaFold model), best resolution first:

5CHW 2.1 Å, Structure of ISG15 in space group P212121
5CHF 2.3 Å, Crystal structure of murine ISG15 in space group P21212
5JZE 2.47 Å, Erve virus viral OTU domain protease in complex with mouse ISG15
6J62 2.49 Å, Crystal structure of mISG15/NS1B complex
5CHV 3.0 Å, Crystal structure of USP18-ISG15 complex
6YVA 3.18 Å, PLpro-C111S with mISG15
5TLA 3.24 Å, Crystal structure of mouse ISG15

Browse structure collections

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