Viral protein-Other molecule complex

Macro molecule
Gene
Interacting molecule/ protein
Interacting gene
PDB ID
Title
Structure Title
Experimental Method
Resolution (Å)
PubMed ID
Structure
Replicase polyprotein 1ab
rep, 1a-1b
ADP-HPM
~
6Z72
Viral macrodomains: a structural and evolutionary assessment of the pharmacological potential.
SARS-CoV-2 Macrodomain in complex with ADP-HPM
X-ray diffraction
2.3
33202171
3D view
Replicase polyprotein 1ab
rep, 1a-1b
ADP-HPD
~
6Z6I
Viral macrodomains: a structural and evolutionary assessment of the pharmacological potential.
SARS-CoV-2 Macrodomain in complex with ADP-HPD
X-ray diffraction
2
33202171
3D view
Replicase polyprotein 1ab
rep, 1a-1b
ADP-ribose
~
6Z5T
Viral macrodomains: a structural and evolutionary assessment of the pharmacological potential.
SARS-CoV-2 Macrodomain in complex with ADP-ribose
X-ray diffraction
1.571
33202171
3D view
NSP3 macrodomain
rep, 1a-1b
ADP-ribose
~
6YWL
Crystal structure of SARS-CoV-2 (Covid-19) NSP3 macrodomain in complex with ADP-ribose
Crystal structure of SARS-CoV-2 (Covid-19) NSP3 macrodomain in complex with ADP-ribose
X-ray diffraction
2.5
To be published
3D view
ORF1ab polyprotein
ORF1ab
Uridine 5' monophosphate
~
7K0R
Cryo-EM Structures of the SARS-CoV-2 Endoribonuclease Nsp15 Reveal Insight into Nuclease Specificity and Dynamics
Nucleotide bound SARS-CoV-2 Nsp15
Electron Microscopy
3.3
To be published
3D view
Uridylate-specific endoribonuclease
rep, 1a-1b
Uridine-3',5'-Diphosphate
~
7K1O
Crystal Structure of NSP15 Endoribonuclease from SARS CoV-2 in the Complex with Uridine-3',5'-Diphosphate
Crystal Structure of NSP15 Endoribonuclease from SARS CoV-2 in the Complex with Uridine-3',5'-Diphosphate
X-ray diffraction
2.4
To be published
3D view
Uridylate-specific endoribonuclease
rep, 1a-1b
Uridine-2',3'-Vanadate
~
7K1L
Crystal Structure of NSP15 Endoribonuclease from SARS CoV-2 in the Complex with Uridine-2',3'-Vanadate
Crystal Structure of NSP15 Endoribonuclease from SARS CoV-2 in the Complex with Uridine-2',3'-Vanadate
X-ray diffraction
2.25
To be published
3D view
Nsp 3 -Macro domain
rep, 1a-1b
ADP-ribose
~
7C33
Structural, Biophysical, and Biochemical Elucidation of the SARS-CoV-2 Nonstructural Protein 3 Macro Domain.
Macro domain of SARS-CoV-2 in complex with ADP-ribose
X-ray diffraction
3.83
32946224
3D view
Macro domain from non-structural protein 3
~
ADP-ribose
~
7CZ4
Structural, Biophysical, and Biochemical Elucidation of the SARS-CoV-2 Nonstructural Protein 3 Macro Domain.
Structure of SARS-CoV-2 macro domain in complex with ADP-ribose
X-ray diffraction
2.64
32946224
3D view
NSP3 macrodomain
rep, 1a-1b
cyclic AMP
~
7JME
Structure of the SARS-CoV-2 NSP3 Macro X domain in complex with cyclic AMP
Structure of the SARS-CoV-2 NSP3 Macro X domain in complex with cyclic AMP
X-ray diffraction
1.55
To be published
3D view
Nsp10, 2'-O-methyltransferase
rep, 1a-1b
Cap-0 and SAM (S-adenosylmethionine )
~
7KOA
Room Temperature Structure of SARS-CoV-2 Nsp10/Nsp16 Methyltransferase in a Complex with Cap-0 and SAM Determined by Pink-Beam Serial Crystallography
Room Temperature Structure of SARS-CoV-2 Nsp10/16 Methyltransferase in a Complex with Cap-0 and SAM Determined by Pink-Beam Serial Crystallography
X-ray diffraction
2.4
To be published
3D view
Nsp3
rep, 1a-1b
ADP-ribose
~
7KQP
Crystal structure of SARS-CoV-2 NSP3 macrodomain in complex with ADP-ribose (P43 crystal form)
Crystal structure of SARS-CoV-2 NSP3 macrodomain in complex with ADP-ribose (P43 crystal form)
X-ray diffraction
0.88
To be published
3D view
Non-structural protein 3
rep, 1a-1b
ADP ribose
~
6W02
Crystal structures of SARS-CoV-2 ADP-ribose phosphatase: from the apo form to ligand complexes.
Crystal Structure of ADP ribose phosphatase of NSP3 from SARS CoV-2 in the complex with ADP ribose
X-ray diffraction
1.5
32939273
3D view
Uridylate-specific endoribonuclease
rep, 1a-1b
Citrate
~
6W01
Crystal structure of Nsp15 endoribonuclease NendoU from SARS-CoV-2.
The 1.9 A Crystal Structure of NSP15 Endoribonuclease from SARS CoV-2 in the Complex with a Citrate
X-ray diffraction
1.9
32304108
3D view
Non-structural protein 3
rep, 1a-1b
AMP
~
6W6Y
Crystal structures of SARS-CoV-2 ADP-ribose phosphatase: from the apo form to ligand complexes.
Crystal Structure of ADP ribose phosphatase of NSP3 from SARS CoV-2 in complex with AMP
X-ray diffraction
1.451
32939273
3D view
Nsp3
rep, 1a-1b
MES (2-(N-morpholino)ethanesulfonic acid)
~
6WCF
Crystal structures of SARS-CoV-2 ADP-ribose phosphatase: from the apo form to ligand complexes.
Crystal Structure of ADP ribose phosphatase of NSP3 from SARS-CoV-2 in complex with MES
X-ray diffraction
1.065
32939273
3D view
2'-O-methyltransferase Nsp10
rep, 1a-1b
S-Adenosyl-L-Homocysteine
~
6WJT
2.0 Angstrom Resolution Crystal Structure of Nsp16-Nsp10 Heterodimer from SARS-CoV-2 in Complex with S-Adenosyl-L-Homocysteine
2.0 Angstrom Resolution Crystal Structure of Nsp16-Nsp10 Heterodimer from SARS-CoV-2 in Complex with S-Adenosyl-L-Homocysteine
X-ray diffraction
2
To be published
3D view
Uridylate-specific endoribonuclease
rep, 1a-1b
Uridine-5'-Monophosphate
~
6WLC
Tipiracil binds to uridine site and inhibits Nsp15 endoribonuclease NendoU from SARS-CoV-2
Crystal Structure of NSP15 Endoribonuclease from SARS CoV-2 in the Complex with Uridine-5'-Monophosphate
X-ray diffraction
1.82
To be published
3D view
2'-O-methyltransferase Nsp10
rep, 1a-1b
RNA cap analogue (m7GpppA) and S-adenosylmethionine
~
6WKS
Structure of SARS-CoV-2 nsp16/nsp10 ternary complex
Structure of SARS-CoV-2 nsp16/nsp10 in complex with RNA cap analogue (m7GpppA) and S-adenosylmethionine
X-ray diffraction
1.8
To be published
3D view
Nsp3
rep, 1a-1b
ADP-ribose
~
6WOJ
The SARS-CoV-2 conserved macrodomain is a mono-ADP-ribosylhydrolase.
Structure of the SARS-CoV-2 macrodomain (NSP3) in complex with ADP-ribose
X-ray diffraction
2.2
33158944
3D view
2'-O-methyltransferase Nsp10
rep, 1a-1b
7-methyl-GpppA and S-adenosyl-L-homocysteine.
~
6WQ3
Crystal Structure of Nsp16-Nsp10 Heterodimer from SARS-CoV-2 in Complex with 7-methyl-GpppA and S-adenosyl-L-homocysteine.
Crystal Structure of Nsp16-Nsp10 Heterodimer from SARS-CoV-2 in Complex with 7-methyl-GpppA and S-adenosyl-L-homocysteine.
X-ray diffraction
2.1
To be published
3D view
Uridylate-specific endoribonuclease
rep, 1a-1b
3'-uridinemonophosphate
~
6X4I
Tipiracil binds to uridine site and inhibits Nsp15 endoribonuclease NendoU from SARS-CoV-2
Crystal Structure of NSP15 Endoribonuclease from SARS CoV-2 in the Complex with 3'-uridinemonophosphate
X-ray diffraction
1.85
To be published
3D view
2'-O-methyltransferase Nsp10
rep, 1a-1b
7-methyl-GpppA and S-adenosyl-L-homocysteine
~
6WRZ
Crystal Structure of Nsp16-Nsp10 Heterodimer from SARS-CoV-2 with 7-methyl-GpppA and S-adenosyl-L-homocysteine in the Active Site and Sulfates in the mRNA Binding Groove.
Crystal Structure of Nsp16-Nsp10 Heterodimer from SARS-CoV-2 with 7-methyl-GpppA and S-adenosyl-L-homocysteine in the Active Site and Sulfates in the mRNA Binding Groove.
X-ray diffraction
2.25
To be published
3D view
2'-O-methyltransferase Nsp10
rep, 1a-1b
7-methyl-GpppA and S-Adenosylmethionine
~
6WVN
Crystal Structure of Nsp16-Nsp10 from SARS-CoV-2 in Complex with 7-methyl-GpppA and S-Adenosylmethionine.
Crystal Structure of Nsp16-Nsp10 from SARS-CoV-2 in Complex with 7-methyl-GpppA and S-Adenosylmethionine.
X-ray diffraction
2
To be published
3D view