SMTL ID : 7eiz.1

Coupling of N7-methyltransferase and 3'-5' exoribonuclease with SARS-CoV-2 polymerase reveals mechanisms for capping and proofreading

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-1-1-1-1-2-mer

Ligands

13 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.295, C.301, C.306, C.310 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.295, A:C.301, A:C.306, A:C.310 ZN.2: 5 residues within 4Å: Chain A: C.487, K.532, H.642, C.645, C.646 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:C.487, A:H.642, A:H.642, A:C.645, A:C.646 ZN.3: 5 residues within 4Å: Chain F: C.74, Y.76, C.77, H.83, C.90 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.74, F:C.77, F:H.83, F:C.90 ZN.4: 6 residues within 4Å: Chain F: C.117, V.119, C.120, K.124, C.128, C.130 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:C.117, F:C.120, F:C.130 ZN.5: 5 residues within 4Å: Chain I: C.207, C.208, C.210, C.226, H.229 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.207, I:C.210, I:C.226, I:H.229 ZN.6: 4 residues within 4Å: Chain I: H.257, C.261, H.264, C.279 5 PLIP interactions: 5 interactions with chain I Metal complexes: I:H.257, I:C.261, I:H.264, I:H.264, I:C.279 ZN.7: 4 residues within 4Å: Chain I: P.451, C.452, C.484, H.487 3 PLIP interactions: 3 interactions with chain I Metal complexes: I:C.452, I:C.484, I:H.487 ZN.9: 5 residues within 4Å: Chain J: C.16, C.19, H.33, H.39, A.110 5 PLIP interactions: 5 interactions with chain J Metal complexes: J:C.16, J:C.19, J:H.33, J:H.39, J:H.39 ZN.10: 4 residues within 4Å: Chain J: C.5, C.8, C.26, C.29 4 PLIP interactions: 4 interactions with chain J Metal complexes: J:C.5, J:C.8, J:C.26, J:C.29 ZN.11: 6 residues within 4Å: Chain J: C.50, A.52, C.55, C.72, S.74, H.75 5 PLIP interactions: 5 interactions with chain J Metal complexes: J:C.50, J:C.55, J:C.72, J:S.74, J:H.75 ZN.12: 4 residues within 4Å: Chain K: C.5, C.8, C.26, C.29 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.5, K:C.8, K:C.26, K:C.29 ZN.13: 6 residues within 4Å: Chain K: C.50, A.52, C.55, C.72, S.74, H.75 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.50, K:C.55, K:C.72, K:H.75 ZN.14: 4 residues within 4Å: Chain K: C.16, C.19, H.33, H.39 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.16, K:C.19, K:H.33, K:H.39

1 x MG: MAGNESIUM ION(Non-covalent)

MG.8: 2 residues within 4Å: Chain I: V.269, C.272 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, L. et al., Coupling of N7-methyltransferase and 3'-5' exoribonuclease with SARS-CoV-2 polymerase reveals mechanisms for capping and proofreading. Cell (2021)

Release Date

2021-09-22

Peptides

RNA-directed RNA polymerase: A
Non-structural protein 8: BD
Non-structural protein 7: C
Non-structural protein 9: E
Non-structural protein 10: F
Proofreading exoribonuclease: I
Helicase: JK

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

D
D

C
C

E
G

F
H

I
K

J
E

K
F

RNA-directed RNA polymerase

Non-structural protein 8

Non-structural protein 7

Non-structural protein 9

Non-structural protein 10

Proofreading exoribonuclease

Helicase

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