SMTL ID : 7ux3.1

Asymmetric unit of AP-1, Arf1, Nef lattice on MHC-I lipopeptide incorporated narrow membrane tubes

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-1-1-1-1-1-mer

Ligands

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 15 residues within 4Å: Chain A: D.26, A.27, A.28, G.29, K.30, T.31, T.32, T.45, P.47, T.48, G.69, G.70, A.160, T.161 Ligands: MG.2 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:A.27, A:A.28, A:G.29, A:K.30, A:T.31, A:T.32, A:T.48, A:G.70, A:A.160, A:T.161 GTP.3: 14 residues within 4Å: Chain B: D.26, A.27, A.28, G.29, K.30, T.31, T.32, P.47, T.48, G.69, G.70, A.160, T.161 Ligands: MG.4 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:A.27, B:A.28, B:G.29, B:K.30, B:T.31, B:T.32, B:T.48, B:G.70, B:A.160, B:T.161

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 2 residues within 4Å: Chain A: T.31 Ligands: GTP.1 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain B: T.31 Ligands: GTP.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hooy, R.M. et al., Self-assembly and structure of a clathrin-independent AP-1:Arf1 tubular membrane coat. Sci Adv (2022)

Release Date

2023-05-10

Peptides

ADP-ribosylation factor 1: AB
Protein Nef: CG
HLA class I histocompatibility antigen, A alpha chain: D
AP-1 complex subunit beta-1: E
AP-1 complex subunit gamma-1: F
AP-1 complex subunit mu-1: H
AP-1 complex subunit sigma-3: I

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
H

C
N

G
L

D
Y

E
B

F
G

H
M

I
S

ADP-ribosylation factor 1

Protein Nef

HLA class I histocompatibility antigen, A alpha chain

AP-1 complex subunit beta-1

AP-1 complex subunit gamma-1

AP-1 complex subunit mu-1

AP-1 complex subunit sigma-3

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