SMTL ID : 8rxb.1

Human UPF1 CH domain in complex with SMG6 peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-6-6-mer

Ligands

13 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: C.9, Y.11, C.12, I.14, C.31, H.41, Q.137 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.9, A:C.12, A:C.31, A:H.41 ZN.2: 7 residues within 4Å: Chain A: C.69, N.71, C.72, C.74, C.95, C.99 Chain C: K.52 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.69, A:C.72, A:C.95, A:C.99 ZN.3: 4 residues within 4Å: Chain A: C.74, N.76 Chain C: C.74, N.76 No protein-ligand interaction detected (PLIP) ZN.4: 6 residues within 4Å: Chain C: C.9, Y.11, C.12, I.14, C.31, H.41 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.9, C:C.12, C:C.31, C:H.41 ZN.5: 7 residues within 4Å: Chain A: K.52 Chain C: C.69, N.71, C.72, C.74, C.95, C.99 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.69, C:C.72, C:C.95, C:C.99 ZN.6: 6 residues within 4Å: Chain E: C.9, Y.11, C.12, I.14, C.31, H.41 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.9, E:C.12, E:C.31, E:H.41 ZN.7: 7 residues within 4Å: Chain E: C.69, N.71, C.72, C.74, C.95, C.99 Chain I: K.52 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.69, E:C.72, E:C.95, E:C.99 ZN.8: 5 residues within 4Å: Chain G: C.9, Y.11, C.12, C.31, H.41 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.9, G:C.12, G:C.31, G:H.41 ZN.9: 6 residues within 4Å: Chain G: C.69, N.71, C.72, C.74, C.95, C.99 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.69, G:C.72, G:C.95, G:C.99 ZN.10: 6 residues within 4Å: Chain I: C.9, Y.11, C.12, I.14, C.31, H.41 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.9, I:C.12, I:C.31, I:H.41 ZN.11: 7 residues within 4Å: Chain E: K.52 Chain I: C.69, N.71, C.72, C.74, C.95, C.99 4 PLIP interactions: 4 interactions with chain I Metal complexes: I:C.69, I:C.72, I:C.95, I:C.99 ZN.12: 7 residues within 4Å: Chain K: C.9, Y.11, C.12, I.14, C.31, H.41, Q.137 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.9, K:C.12, K:C.31, K:H.41 ZN.13: 6 residues within 4Å: Chain K: C.69, N.71, C.72, C.74, C.95, C.99 4 PLIP interactions: 4 interactions with chain K Metal complexes: K:C.69, K:C.72, K:C.95, K:C.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Langer, L.M. et al., UPF1 helicase orchestrates mutually exclusive interactions with the SMG6 endonuclease and UPF2. Nucleic Acids Res. (2024)

Release Date

2024-05-15

Peptides

Regulator of nonsense transcripts 1: ACEGIK
Telomerase-binding protein EST1A: BDFHJL

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

C
A

E
D

G
I

I
L

K
P

B
F

D
B

F
G

H
J

J
N

L
Q

Regulator of nonsense transcripts 1

Telomerase-binding protein EST1A