SMTL ID : 6gni.1

Cryo-tomography and subtomogram averaging of Sar1-Sec23-Sec24 - fitted model.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.55, C.60, C.79, C.82 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.55, A:C.60, A:C.79, A:C.82 ZN.2: 4 residues within 4Å: Chain B: C.99, C.102, C.121, C.124 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.99, B:C.102, B:C.121, B:C.124

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.3: 23 residues within 4Å: Chain A: R.721 Chain C: L.9, D.10, N.11, A.12, G.13, K.14, T.15, T.16, T.28, L.29, P.31, T.32, G.53, G.54, N.110, K.111, D.113, A.114, S.150, V.151, V.152 Ligands: MG.4 22 PLIP interactions: 19 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:N.11, C:A.12, C:G.13, C:K.14, C:K.14, C:K.14, C:T.15, C:T.16, C:T.16, C:T.28, C:T.28, C:T.32, C:L.52, C:G.54, C:N.110, C:K.111, C:V.151, C:V.152, A:R.721, A:R.721 Salt bridges: C:D.113, A:R.721

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 3 residues within 4Å: Chain C: T.15, T.32 Ligands: GNP.3 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:T.15, C:T.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hutchings, J. et al., Subtomogram averaging of COPII assemblies reveals how coat organization dictates membrane shape. Nat Commun (2018)

Release Date

2018-10-17

Peptides

Protein transport protein SEC23: A
Protein transport protein SEC24: B
Small COPII coat GTPase SAR1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
E

C
B

Protein transport protein SEC23

Protein transport protein SEC24

Small COPII coat GTPase SAR1

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