P0DTC1 | SWISS-MODEL Repository

P0DTC1 (R1A_SARS2) Severe acute respiratory syndrome coronavirus 2 (2019-nCoV) (SARS-CoV-2)

Replicase polyprotein 1a UniProtKB InterPro Interactive Modelling

4405 aa; Sequence (Fasta) ; 2 identical sequences: Severe acute respiratory syndrome coronavirus 2: A0A6G7KRG6, A0A6G6A224

It is possible new templates exist for this target since these models were created.

Available Structures

Host translation inhibitor nsp1 1-180; PRO_0000449635

Template	Oligo-state	QMEANDisCo	Range	Trg-Tpl Seq id (%)
7k7p.1.A	monomer	0.76	10-126	100.00
Assess
6zoj.1.8	monomer	0.67	148-180	100.00
Assess

Non-structural protein 2 181-818; PRO_0000449636

Template	Oligo-state	QMEANDisCo	Range	Ligands	Trg-Tpl Seq id (%)
7msw.1.A	monomer	0.84	184-818	3×ZN;	100.00
Assess

Papain-like protease nsp3 819-2763; PRO_0000449637

Description	PDB ID	Oligo-state	Range	Ligands
Structure of the SARS-COV2 PLpro (C111S) in complex with a dimeric Ubv that inhibits activity by an…	8cx9 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P62987;	1565-1878	1×ZN; 2×BR;
Assess
Crystal structure of the SARS-CoV-2 papain-like protease (PLPro) C112S mutant	7d6h SMTL PDBe PDBe-KB PDBj PDBsum RCSB	monomer	1563-1878	1×ZN; 1×PO4;
Assess
Structure of SARS-CoV-2 Papain-like protease PLpro in complex with 3, 4-Dihydroxybenzoic acid, meth…	7ofu SMTL PDBe PDBe-KB PDBj PDBsum RCSB	monomer	1564-1878	1×HE9; 2×GOL; 1×ZN; 4×PO4; 1×CL;
Assess
SARS-CoV-2 papain-like protease (PLpro) bound to inhibitor XR8-89	7lbr SMTL PDBe PDBe-KB PDBj PDBsum RCSB	monomer	1564-1878	1×ZN; 2×SO4; 1×XT7; 1×GOL;
Assess
SARS-CoV-2 papain-like protease (PLpro) bound to inhibitor XR8-83	7llf SMTL PDBe PDBe-KB PDBj PDBsum RCSB	monomer	1564-1878	1×ZN; 4×SO4; 2×BO3; 1×Y54;
Assess
SARS-CoV-2 papain-like protease (PLpro) bound to inhibitor XR8-24	7lbs SMTL PDBe PDBe-KB PDBj PDBsum RCSB	monomer	1564-1878	1×XR8; 1×ZN; 2×SO4; 3×BO3;
Assess
SARS CoV-2 PLpro in complex with inhibitor 3k	7tzj SMTL PDBe PDBe-KB PDBj PDBsum RCSB	monomer	1566-1875	1×S88; 4×ZN; 1×DMS;
Assess
Structure of SARS-CoV-2 NSP3 macrodomain in the apo form	8azc SMTL PDBe PDBe-KB PDBj PDBsum RCSB	monomer	1024-1192	1×CL; 1×MPO;
Assess

Template	Oligo-state	QMEANDisCo	Range	Ligands	Trg-Tpl Seq id (%)
6ywk.3.A	monomer	0.84	1025-1194		100.00
Assess
6w9c.1.A	monomer	0.80	1566-1878	1×ZN;	100.00
Assess
3e9s.1.A	monomer	0.79	1564-1877	1×TTT; 1×ZN;	82.86
Assess
7cmd.4.A	monomer	0.79	1564-1878	1×TTT; 1×ZN;	100.00
Assess
2w2g.1.A	monomer	0.79	1231-1494		75.00
Assess
6wuu.2.A	monomer	0.79	1562-1879	1×ACE; 1×ZN;	99.69
Assess
2kqv.1.A	monomer	0.75	1369-1493		78.13
Assess
2kqw.1.A	monomer	0.71	1496-1550		80.22
Assess
2k87.1.A	monomer	0.69	1907-2021		81.74
Assess

Non-structural protein 4 2764-3263; PRO_0000449638

Template	Oligo-state	QMEANDisCo	Range	Ligands	Trg-Tpl Seq id (%)
3vcb.1.A	homo-2-mer	0.72	3174-3262		61.36
Assess

3C-like proteinase nsp5 3264-3569; PRO_0000449639

Description	PDB ID	Oligo-state	Range	Ligands
CRYSTAL STRUCTURE OF THE SARS-COV-2 MAIN PROTEASE COMPLEXED WITH FRAGMENT F01	7p51 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	homo-2-mer	3264-3569	4×NA; 4×DMS; 2×5P9;
Assess
Crystal structure of SARS-CoV-2 Mpro-S144A mutant in complex with 13b-K	8c9o SMTL PDBe PDBe-KB PDBj PDBsum RCSB	homo-2-mer	3264-3569	2×O6K;
Assess
Crystal structure of SARS-CoV-2 Mpro in complex with cyclic peptide GM4 including unnatural amino a…	7z4s SMTL PDBe PDBe-KB PDBj PDBsum RCSB	homo-2-mer	3264-3569	2×PEG; 1×DMS; 2×EDO; 1×PGE;
Assess
Crystal structure of the SARS-CoV-2 main protease in complex with SY110	8hhu SMTL PDBe PDBe-KB PDBj PDBsum RCSB	homo-2-mer	3264-3566	2×LVX;
Assess
Crystal structure of SARS-CoV-2 Mpro-S144A mutant, free enzyme	8c9l SMTL PDBe PDBe-KB PDBj PDBsum RCSB	homo-2-mer	3264-3565
Assess
Crystal structure of the SARS-CoV-2 main protease in complex with Hit-1	8hht SMTL PDBe PDBe-KB PDBj PDBsum RCSB	homo-2-mer	3264-3564	2×LV0; 4×DMS;
Assess
Crystal structure of SARS-Cov-2 main protease in complex with S217622	8hur SMTL PDBe PDBe-KB PDBj PDBsum RCSB	homo-2-mer	3266-3563	2×7YY;
Assess
Crystal structure of SARS-Cov-2 main protease D48N mutant in complex with PF07321332	7xb4 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	homo-2-mer	3266-3563	2×4WI;
Assess
Crystal structure of SARS-Cov-2 main protease D48N mutant	7xb3 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	homo-2-mer	3267-3561
Assess
SARS-COV2 Main Protease in complex with inhibitor MG-131	7z0p SMTL PDBe PDBe-KB PDBj PDBsum RCSB	monomer	3264-3567	1×I8H; 1×NA;
Assess
SARS-COV2 Main Protease in complex with inhibitor MG78	7ql8 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	monomer	3264-3564	1×I70; 1×CL; 2×NA;
Assess

Template	Oligo-state	QMEANDisCo	Range	Ligands	Trg-Tpl Seq id (%)
5rfv.1.B	homo-2-mer	0.91	3264-3567	2×T8J;	100.00
Assess
5r7z.1.B	homo-2-mer	0.91	3264-3567	2×HWH;	100.00
Assess
2z9j.1.A	homo-2-mer	0.89	3264-3567	2×DTZ;	96.08
Assess
6lu7.1.B	homo-2-mer	0.89	3264-3569		100.00
Assess
6y2g.1.A	homo-2-mer	0.88	3264-3566	1×GLY; 2×O6K;	100.00
Assess
2a5i.1.B	homo-2-mer	0.87	3264-3569	2×AZP;	96.08
Assess

Non-structural protein 7 3860-3942; PRO_0000449641

Description	PDB ID	Oligo-state	Range	Ligands
Coupling of N7-methyltransferase and 3'-5' exoribonuclease with SARS-CoV-2 polymerase reveals mecha…	7eiz SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	3861-3932	13×ZN; 1×MG;
Assess
SARS-CoV-2 E-RTC complex with RNA-nsp9	8gwb SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	3861-3932	8×ZN; 2×MN;
Assess

Template	Oligo-state	QMEANDisCo	Range	Trg-Tpl Seq id (%)
6m71.1.B	monomer	0.80	3861-3930	100.00
Assess
7jlt.1.A	monomer	0.79	3860-3938	100.00
Assess
2ahm.1.B	monomer	0.75	3860-3933	98.80
Assess

Non-structural protein 8 3943-4140; PRO_0000449642

Template	Oligo-state	QMEANDisCo	Range	Trg-Tpl Seq id (%)
2ahm.1.H	monomer	0.77	3944-4134	97.47
Assess
7jlt.1.D	monomer	0.76	4019-4135	100.00
Assess
6nur.1.B	monomer	0.76	4019-4133	97.47
Assess
2ahm.1.E	monomer	0.70	3980-4134	97.47
Assess
6m71.1.D	monomer	0.70	4020-4133	100.00
Assess

RNA-capping enzyme subunit nsp9 4141-4253; PRO_0000449643

Template	Oligo-state	QMEANDisCo	Range	Trg-Tpl Seq id (%)
1qz8.1.A	homo-2-mer	0.79	4143-4253	97.35
Assess
6w4b.1.A	homo-2-mer	0.79	4141-4253	100.00
Assess
1uw7.1.B	homo-2-mer	0.73	4141-4253	97.35
Assess

Non-structural protein 10 4254-4392; PRO_0000449644

Description	PDB ID	Oligo-state	Range	Ligands
SARS CoV-2 nsp10 in complex with theExoN domain from nsp14	9fzk SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4254-4384	4×ZN;
Assess
SARS CoV-2 nsp10 in complex with the ExoN domain from nsp14	9fw2 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4254-4384	4×ZN; 2×GOL; 1×NA;
Assess
SARS CoV-2 nsp10 in complex with theExoN domain from nsp14	9fz4 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4254-4384	4×ZN; 1×MG; 1×GOL;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 11	8rzc SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4270-4385	1×MES; 1×A1H4D; 2×ZN;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 5	8rv8 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4271-4385	1×MES; 1×A1H28; 2×GOL; 2×ZN;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 7	8rva SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4271-4385	1×MES; 1×A1H3D; 2×ZN;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 4	8rv7 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4271-4385	1×MES; 1×A1H3E; 2×ZN;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 6	8rv9 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4271-4385	1×MES; 1×A1H3A; 2×GOL; 2×ZN;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 8	8rvb SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4271-4385	1×MES; 1×A1H29; 2×ZN;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 10	8rze SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4271-4385	1×A1H4B; 1×MES; 2×ZN;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 9	8rzd SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4271-4385	1×A1H4C; 1×MES; 2×ZN;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 2	8rv6 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4271-4385	1×MES; 1×A1H3B; 3×GOL; 2×ZN;
Assess
SARS-CoV-2 nsp16-nsp10 in complex with SAM derivative inhibitor 2	8rv4 SMTL PDBe PDBe-KB PDBj PDBsum RCSB	Heteromer P0DTD1;	4271-4385	1×MES; 1×A1H3C; 2×ZN;
Assess

Template	Oligo-state	QMEANDisCo	Range	Ligands	Trg-Tpl Seq id (%)
2g9t.1.A	homo-12-mer	0.80	4261-4382	24×ZN;	97.12
Assess
6w4h.1.B	monomer	0.77	4271-4386	2×ZN;	100.00
Assess

Model ID	Oligo-state	Avg pLDDT	Range	Trg-Mdl Seq Id (%)

Model ID	Oligo-state	Avg Confidence	Range	Trg-Mdl Seq id (%)