SMTL ID : 7k9p.1

Room temperature structure of NSP15 Endoribonuclease from SARS CoV-2 solved using SFX.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-hexamer

Ligands

6 x CIT: CITRIC ACID(Non-functional Binders)

CIT.1: 9 residues within 4Å: Chain A: H.237, Q.247, L.248, G.249, G.250, H.252, K.292, T.343, Y.345 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:Q.247, A:G.250, A:T.343 Salt bridges: A:H.237, A:H.252, A:H.252, A:K.292, A:K.292, A:K.292 CIT.2: 9 residues within 4Å: Chain B: H.237, Q.247, L.248, G.249, G.250, H.252, K.292, T.343, Y.345 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:Q.247, B:G.250, B:T.343 Salt bridges: B:H.237, B:H.252, B:H.252, B:K.292, B:K.292, B:K.292 CIT.3: 9 residues within 4Å: Chain C: H.237, Q.247, L.248, G.249, G.250, H.252, K.292, T.343, Y.345 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:Q.247, C:G.250, C:T.343 Salt bridges: C:H.237, C:H.252, C:H.252, C:K.292, C:K.292, C:K.292 CIT.4: 9 residues within 4Å: Chain D: H.237, Q.247, L.248, G.249, G.250, H.252, K.292, T.343, Y.345 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:G.250, D:T.343 Salt bridges: D:H.237, D:H.237, D:H.252, D:H.252, D:K.292, D:K.292, D:K.292 CIT.5: 9 residues within 4Å: Chain E: H.237, Q.247, L.248, G.249, G.250, H.252, K.292, T.343, Y.345 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:G.250, E:T.343 Salt bridges: E:H.237, E:H.237, E:H.252, E:H.252, E:K.292, E:K.292, E:K.292 CIT.6: 9 residues within 4Å: Chain F: H.237, Q.247, L.248, G.249, G.250, H.252, K.292, T.343, Y.345 9 PLIP interactions: 9 interactions with chain F Hydrogen bonds: F:G.250, F:T.343 Salt bridges: F:H.237, F:H.237, F:H.252, F:H.252, F:K.292, F:K.292, F:K.292

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jernigan, R.J. et al., Room-temperature structural studies of SARS-CoV-2 protein NendoU with an X-ray free-electron laser. Structure (2022)

Release Date

2020-10-21

Peptides

Uridylate-specific endoribonuclease: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
B

E
B

F
B

Uridylate-specific endoribonuclease