SMTL ID : 7svu.1

TnsBctd-TnsC-TniQ complex

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-11-9-2-mer

Ligands

11 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain C: T.67, D.144 Ligands: ATP.2 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:T.67 MG.3: 3 residues within 4Å: Chain E: T.67, D.144 Ligands: ATP.4 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:T.67 MG.5: 3 residues within 4Å: Chain G: T.67, D.144 Ligands: ATP.6 1 PLIP interactions: 1 interactions with chain G Metal complexes: G:T.67 MG.7: 3 residues within 4Å: Chain I: T.67, D.144 Ligands: ATP.8 1 PLIP interactions: 1 interactions with chain I Metal complexes: I:T.67 MG.9: 3 residues within 4Å: Chain K: T.67, D.144 Ligands: ATP.10 1 PLIP interactions: 1 interactions with chain K Metal complexes: K:T.67 MG.11: 3 residues within 4Å: Chain M: T.67, D.144 Ligands: ATP.12 1 PLIP interactions: 1 interactions with chain M Metal complexes: M:T.67 MG.13: 2 residues within 4Å: Chain O: T.67 Ligands: ATP.14 1 PLIP interactions: 1 interactions with chain O Metal complexes: O:T.67 MG.15: 3 residues within 4Å: Chain P: T.67, D.144 Ligands: ATP.16 1 PLIP interactions: 1 interactions with chain P Metal complexes: P:T.67 MG.17: 2 residues within 4Å: Chain R: T.67 Ligands: ATP.18 1 PLIP interactions: 1 interactions with chain R Metal complexes: R:T.67 MG.19: 3 residues within 4Å: Chain S: T.67, D.144 Ligands: ATP.20 1 PLIP interactions: 1 interactions with chain S Metal complexes: S:T.67 MG.21: 3 residues within 4Å: Chain U: T.67, D.144 Ligands: ATP.22 1 PLIP interactions: 1 interactions with chain U Metal complexes: U:T.67

11 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)(Covalent)

ATP.2: 18 residues within 4Å: Chain C: K.31, S.32, I.33, V.34, L.36, E.61, S.62, R.63, T.64, G.65, K.66, T.67, V.68, W.211, I.241, G.242, D.245 Ligands: MG.1 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:V.34, C:V.34, C:T.64, C:T.64, C:G.65, C:K.66, C:T.67, C:V.68 Salt bridges: C:R.63, C:R.63, C:R.63, C:K.66, C:K.66 ATP.4: 20 residues within 4Å: Chain C: Q.185, R.189 Chain E: K.31, S.32, I.33, V.34, L.36, E.61, S.62, R.63, T.64, G.65, K.66, T.67, V.68, W.211, I.241, G.242, D.245 Ligands: MG.3 16 PLIP interactions: 13 interactions with chain E, 3 interactions with chain C Hydrogen bonds: E:V.34, E:V.34, E:T.64, E:T.64, E:G.65, E:K.66, E:T.67, E:V.68, C:Q.185, C:Q.185 Salt bridges: E:R.63, E:R.63, E:R.63, E:K.66, E:K.66, C:R.189 ATP.6: 20 residues within 4Å: Chain E: Q.185, R.189 Chain G: K.31, S.32, I.33, V.34, L.36, E.61, S.62, R.63, T.64, G.65, K.66, T.67, V.68, W.211, I.241, G.242, D.245 Ligands: MG.5 16 PLIP interactions: 13 interactions with chain G, 3 interactions with chain E Hydrogen bonds: G:V.34, G:V.34, G:T.64, G:T.64, G:G.65, G:K.66, G:T.67, G:V.68, E:Q.185, E:Q.185 Salt bridges: G:R.63, G:R.63, G:R.63, G:K.66, G:K.66, E:R.189 ATP.8: 20 residues within 4Å: Chain G: Q.185, R.189 Chain I: K.31, S.32, I.33, V.34, L.36, E.61, S.62, R.63, T.64, G.65, K.66, T.67, V.68, W.211, I.241, G.242, D.245 Ligands: MG.7 16 PLIP interactions: 13 interactions with chain I, 3 interactions with chain G Hydrogen bonds: I:V.34, I:V.34, I:T.64, I:T.64, I:G.65, I:K.66, I:T.67, I:V.68, G:Q.185, G:Q.185 Salt bridges: I:R.63, I:R.63, I:R.63, I:K.66, I:K.66, G:R.189 ATP.10: 20 residues within 4Å: Chain I: Q.185, R.189 Chain K: K.31, S.32, I.33, V.34, L.36, E.61, S.62, R.63, T.64, G.65, K.66, T.67, V.68, W.211, I.241, G.242, D.245 Ligands: MG.9 16 PLIP interactions: 13 interactions with chain K, 3 interactions with chain I Hydrogen bonds: K:V.34, K:V.34, K:T.64, K:T.64, K:G.65, K:K.66, K:T.67, K:V.68, I:Q.185, I:Q.185 Salt bridges: K:R.63, K:R.63, K:R.63, K:K.66, K:K.66, I:R.189 ATP.12: 20 residues within 4Å: Chain K: Q.185, R.189 Chain M: K.31, S.32, I.33, V.34, L.36, E.61, S.62, R.63, T.64, G.65, K.66, T.67, V.68, W.211, I.241, G.242, D.245 Ligands: MG.11 16 PLIP interactions: 13 interactions with chain M, 3 interactions with chain K Hydrogen bonds: M:V.34, M:V.34, M:T.64, M:T.64, M:G.65, M:K.66, M:T.67, M:V.68, K:Q.185, K:Q.185 Salt bridges: M:R.63, M:R.63, M:R.63, M:K.66, M:K.66, K:R.189 ATP.14: 17 residues within 4Å: Chain M: Q.185, R.189 Chain O: K.31, S.32, I.33, V.34, S.62, R.63, G.65, K.66, T.67, V.68, E.145, W.211, I.241, D.245 Ligands: MG.13 16 PLIP interactions: 13 interactions with chain O, 3 interactions with chain M Hydrogen bonds: O:V.34, O:V.34, O:R.63, O:G.65, O:K.66, O:T.67, O:T.67, O:V.68, M:Q.185, M:Q.185 Salt bridges: O:R.63, O:R.63, O:R.63, O:K.66, O:K.66, M:R.189 ATP.16: 16 residues within 4Å: Chain O: Q.185, R.189 Chain P: K.31, S.32, V.34, S.62, R.63, T.64, G.65, K.66, T.67, V.68, W.211, I.241, D.245 Ligands: MG.15 17 PLIP interactions: 2 interactions with chain O, 15 interactions with chain P Hydrogen bonds: O:Q.185, P:K.31, P:V.34, P:V.34, P:G.65, P:G.65, P:K.66, P:T.67, P:T.67, P:V.68, P:D.245 Salt bridges: O:R.189, P:R.63, P:R.63, P:R.63, P:K.66, P:K.66 ATP.18: 17 residues within 4Å: Chain P: Q.185, R.189 Chain R: K.31, S.32, I.33, V.34, S.62, R.63, G.65, K.66, T.67, V.68, E.145, W.211, I.241, D.245 Ligands: MG.17 15 PLIP interactions: 13 interactions with chain R, 2 interactions with chain P Hydrogen bonds: R:V.34, R:V.34, R:R.63, R:G.65, R:K.66, R:T.67, R:T.67, R:V.68, P:Q.185 Salt bridges: R:R.63, R:R.63, R:R.63, R:K.66, R:K.66, P:R.189 ATP.20: 16 residues within 4Å: Chain R: Q.185, R.189 Chain S: S.32, V.34, S.62, R.63, T.64, G.65, K.66, T.67, V.68, W.211, I.241, G.242, D.245 Ligands: MG.19 14 PLIP interactions: 11 interactions with chain S, 3 interactions with chain R Hydrogen bonds: S:V.34, S:V.34, S:G.65, S:K.66, S:T.67, S:V.68, R:Q.185, R:Q.185 Salt bridges: S:R.63, S:R.63, S:R.63, S:K.66, S:K.66, R:R.189 ATP.22: 17 residues within 4Å: Chain S: Q.185, R.189 Chain U: K.31, S.32, I.33, V.34, S.62, R.63, G.65, K.66, T.67, V.68, W.211, I.241, G.242, D.245 Ligands: MG.21 14 PLIP interactions: 11 interactions with chain U, 3 interactions with chain S Hydrogen bonds: U:V.34, U:V.34, U:T.64, U:T.64, U:G.65, U:K.66, U:T.67, U:V.68, S:Q.185, S:Q.185 Salt bridges: U:R.63, U:R.63, U:K.66, S:R.189

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Park, J. et al., Structures of the holo CRISPR RNA-guided transposon integration complex. Nature (2023)

Release Date

2022-11-23

Peptides

TnsC: CEGIKMOPRSU
TnsB-CTD: DFHJLNQTV
TniQ: WX

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

E
B

G
C

I
D

K
E

M
F

O
G

P
H

R
I

S
J

U
K

D
a

F
b

H
c

J
d

L
e

N
f

Q
h

T
j

V
k

W
X

X
Y

TnsC

TnsB-CTD

TniQ

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