SMTL ID : 7lt3.1

NHEJ Long-range synaptic complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-2-4-2-2-mer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 12 residues within 4Å: Chain C: S.3731, L.3732, L.3751, K.3753, E.3804, W.3805, L.3806, T.3811, N.3926, N.3927, I.3940, D.3941 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:S.3731, C:E.3804, C:L.3806, C:T.3811, C:T.3811, C:N.3926, C:D.3941 Salt bridges: C:K.3753, C:K.3753 ADP.2: 12 residues within 4Å: Chain M: S.3731, L.3732, L.3751, K.3753, E.3804, W.3805, L.3806, T.3811, N.3926, N.3927, I.3940, D.3941 9 PLIP interactions: 9 interactions with chain M Hydrogen bonds: M:S.3731, M:E.3804, M:L.3806, M:T.3811, M:T.3811, M:N.3926, M:D.3941 Salt bridges: M:K.3753, M:K.3753

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, S. et al., Structural basis of long-range to short-range synaptic transition in NHEJ. Nature (2021)

Release Date

2021-04-14

Peptides

X-ray repair cross-complementing protein 6: AK
X-ray repair cross-complementing protein 5: BL
DNA-dependent protein kinase catalytic subunit: CM
Unknown peptide: DN
DNA repair protein XRCC4: GHQR
Non-homologous end-joining factor 1: IJ
DNA ligase 4: ST

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

K
J

B
B

L
K

C
C

M
L

D
Q

N
R

G
F

H
G

Q
O

R
P

I
H

J
I

S
X

T
Y

X-ray repair cross-complementing protein 6

X-ray repair cross-complementing protein 5

DNA-dependent protein kinase catalytic subunit

Unknown peptide

DNA repair protein XRCC4

Non-homologous end-joining factor 1

DNA ligase 4

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