SMTL ID : 7b2l.1

Structure of the endocytic adaptor complex AENTH

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-8-8-mer

Ligands

20 x PIO: [(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate(Non-covalent)

PIO.1: 10 residues within 4Å: Chain A: K.8, R.12, K.15, R.29, S.33, N.34, K.66, R.67, Y.74, H.77 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:R.29, A:N.34, A:N.34 Salt bridges: A:K.8, A:R.12, A:K.15, A:R.29, A:R.29, A:K.66, A:R.67, A:R.67, A:H.77 PIO.2: 4 residues within 4Å: Chain A: K.15, K.19 Chain C: K.15, K.19 7 PLIP interactions: 2 interactions with chain A, 5 interactions with chain C Salt bridges: A:K.15, A:K.19, C:K.15, C:K.19, C:K.66 Hydrogen bonds: C:K.15, C:K.15 PIO.3: 7 residues within 4Å: Chain A: K.71, G.72, K.73 Chain B: K.19, K.29, K.31, H.32 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Salt bridges: B:K.19, B:K.29, B:K.29, B:K.31, B:K.31, B:H.32, A:K.71, A:K.73 Hydrogen bonds: A:G.72, A:K.73 PIO.4: 10 residues within 4Å: Chain C: K.8, R.12, K.15, R.29, S.33, N.34, K.66, R.67, Y.74, H.77 12 PLIP interactions: 12 interactions with chain C Hydrogen bonds: C:K.15, C:S.33, C:N.34, C:N.34 Salt bridges: C:R.12, C:R.29, C:R.29, C:K.66, C:R.67, C:R.67, C:H.77, C:H.77 PIO.5: 6 residues within 4Å: Chain C: K.71, G.72, K.73 Chain D: K.29, K.31, H.32 10 PLIP interactions: 5 interactions with chain C, 5 interactions with chain D Hydrogen bonds: C:G.72, C:K.73, C:K.73, C:K.73 Salt bridges: C:K.73, D:K.19, D:K.29, D:K.29, D:K.31, D:K.31 PIO.6: 10 residues within 4Å: Chain E: K.8, R.12, K.15, R.29, S.33, N.34, K.66, R.67, Y.74, H.77 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:R.29, E:N.34, E:N.34 Salt bridges: E:K.8, E:R.12, E:K.15, E:R.29, E:R.29, E:K.66, E:R.67, E:R.67, E:H.77 PIO.7: 4 residues within 4Å: Chain E: K.15, K.19 Chain G: K.15, K.19 7 PLIP interactions: 2 interactions with chain E, 5 interactions with chain G Salt bridges: E:K.15, E:K.19, G:K.15, G:K.19, G:K.66 Hydrogen bonds: G:K.15, G:K.15 PIO.8: 7 residues within 4Å: Chain E: K.71, G.72, K.73 Chain F: K.19, K.29, K.31, H.32 10 PLIP interactions: 4 interactions with chain E, 6 interactions with chain F Hydrogen bonds: E:G.72, E:K.73 Salt bridges: E:K.71, E:K.73, F:K.19, F:K.29, F:K.29, F:K.31, F:K.31, F:H.32 PIO.9: 10 residues within 4Å: Chain G: K.8, R.12, K.15, R.29, S.33, N.34, K.66, R.67, Y.74, H.77 12 PLIP interactions: 12 interactions with chain G Hydrogen bonds: G:K.15, G:S.33, G:N.34, G:N.34 Salt bridges: G:R.12, G:R.29, G:R.29, G:K.66, G:R.67, G:R.67, G:H.77, G:H.77 PIO.10: 6 residues within 4Å: Chain G: K.71, G.72, K.73 Chain H: K.29, K.31, H.32 10 PLIP interactions: 5 interactions with chain H, 5 interactions with chain G Salt bridges: H:K.19, H:K.29, H:K.29, H:K.31, H:K.31, G:K.73 Hydrogen bonds: G:G.72, G:K.73, G:K.73, G:K.73 PIO.11: 10 residues within 4Å: Chain I: K.8, R.12, K.15, R.29, S.33, N.34, K.66, R.67, Y.74, H.77 11 PLIP interactions: 11 interactions with chain I Hydrogen bonds: I:N.34, I:Y.74 Salt bridges: I:K.8, I:R.12, I:K.15, I:R.29, I:R.29, I:K.66, I:R.67, I:R.67, I:H.77 PIO.12: 4 residues within 4Å: Chain I: K.15, K.19 Chain K: K.15, K.19 7 PLIP interactions: 2 interactions with chain I, 5 interactions with chain K Salt bridges: I:K.15, I:K.19, K:K.15, K:K.19, K:K.66 Hydrogen bonds: K:K.15, K:K.15 PIO.13: 7 residues within 4Å: Chain I: K.71, G.72, K.73 Chain J: K.19, K.29, K.31, H.32 10 PLIP interactions: 4 interactions with chain I, 6 interactions with chain J Hydrogen bonds: I:G.72, I:K.73 Salt bridges: I:K.71, I:K.73, J:K.19, J:K.29, J:K.29, J:K.31, J:K.31, J:H.32 PIO.14: 10 residues within 4Å: Chain K: K.8, R.12, K.15, R.29, S.33, N.34, K.66, R.67, Y.74, H.77 11 PLIP interactions: 11 interactions with chain K Hydrogen bonds: K:K.15, K:S.33, K:N.34 Salt bridges: K:R.12, K:R.29, K:R.29, K:K.66, K:R.67, K:R.67, K:H.77, K:H.77 PIO.15: 6 residues within 4Å: Chain K: K.71, G.72, K.73 Chain L: K.29, K.31, H.32 10 PLIP interactions: 5 interactions with chain K, 5 interactions with chain L Hydrogen bonds: K:G.72, K:K.73, K:K.73, K:K.73 Salt bridges: K:K.73, L:K.19, L:K.29, L:K.29, L:K.31, L:K.31 PIO.16: 10 residues within 4Å: Chain M: K.8, R.12, K.15, R.29, S.33, N.34, K.66, R.67, Y.74, H.77 11 PLIP interactions: 11 interactions with chain M Hydrogen bonds: M:N.34, M:Y.74 Salt bridges: M:K.8, M:R.12, M:K.15, M:R.29, M:R.29, M:K.66, M:R.67, M:R.67, M:H.77 PIO.17: 4 residues within 4Å: Chain M: K.15, K.19 Chain O: K.15, K.19 7 PLIP interactions: 5 interactions with chain O, 2 interactions with chain M Hydrogen bonds: O:K.15, O:K.15 Salt bridges: O:K.15, O:K.19, O:K.66, M:K.15, M:K.19 PIO.18: 7 residues within 4Å: Chain M: K.71, G.72, K.73 Chain N: K.19, K.29, K.31, H.32 10 PLIP interactions: 6 interactions with chain N, 4 interactions with chain M Salt bridges: N:K.19, N:K.29, N:K.29, N:K.31, N:K.31, N:H.32, M:K.71, M:K.73 Hydrogen bonds: M:G.72, M:K.73 PIO.19: 10 residues within 4Å: Chain O: K.8, R.12, K.15, R.29, S.33, N.34, K.66, R.67, Y.74, H.77 11 PLIP interactions: 11 interactions with chain O Hydrogen bonds: O:K.15, O:S.33, O:N.34 Salt bridges: O:R.12, O:R.29, O:R.29, O:K.66, O:R.67, O:R.67, O:H.77, O:H.77 PIO.20: 6 residues within 4Å: Chain O: K.71, G.72, K.73 Chain P: K.29, K.31, H.32 10 PLIP interactions: 5 interactions with chain P, 5 interactions with chain O Salt bridges: P:K.19, P:K.29, P:K.29, P:K.31, P:K.31, O:K.73 Hydrogen bonds: O:G.72, O:K.73, O:K.73, O:K.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lizarrondo, J. et al., Structure of the endocytic adaptor complex reveals the basis for efficient membrane anchoring during clathrin-mediated endocytosis. Nat Commun (2021)

Release Date

2021-05-05

Peptides

ENTH domain of epsin Ent1: ACEGIKMO
ANTH domain of Sla2: BDFHJLNP

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

E
F

G
H

I
K

K
M

M
P

O
R

B
B

D
D

F
G

H
I

J
L

L
N

N
Q

P
S

ENTH domain of epsin Ent1

ANTH domain of Sla2