SMTL ID : 8elf.1

Structure of Get3d, a homolog of Get3, from Arabidopsis thaliana

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 10 residues within 4Å: Chain A: K.10, G.11, G.12, S.13, G.14, K.15, T.16 Chain B: K.10, G.11 Ligands: MG.2 15 PLIP interactions: 10 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:K.10, A:G.12, A:S.13, A:S.13, A:G.14, A:K.15, A:T.16, A:T.16 Water bridges: A:D.41, B:K.10, B:K.10, B:K.10, B:G.11 Salt bridges: A:K.15, B:K.10 PO4.3: 4 residues within 4Å: Chain A: S.271, H.272, L.273, P.293 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:H.272 Salt bridges: A:H.272 PO4.4: 10 residues within 4Å: Chain A: K.10, G.11 Chain B: K.10, G.11, G.12, S.13, G.14, K.15, T.16 Ligands: MG.5 11 PLIP interactions: 3 interactions with chain A, 8 interactions with chain B Water bridges: A:K.10, A:K.10, B:K.15 Salt bridges: A:K.10, B:K.15 Hydrogen bonds: B:G.12, B:S.13, B:S.13, B:G.14, B:K.15, B:T.16

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: G.14, T.16, T.17 Ligands: PO4.1 No protein-ligand interaction detected (PLIP) MG.5: 5 residues within 4Å: Chain B: G.14, K.15, T.16, T.17 Ligands: PO4.4 No protein-ligand interaction detected (PLIP)

1 x XP4: 1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHATE(Non-covalent)

XP4.6: 19 residues within 4Å: Chain A: I.112, M.115, L.157, Y.164 Chain B: P.77, Q.80, L.81, L.106, P.107, G.108, M.109, I.112, F.113, L.116, R.120, R.126, V.189, S.192, M.193 10 PLIP interactions: 2 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:L.157, A:Y.164, B:L.81, B:L.81, B:L.106, B:L.106, B:F.113 Hydrogen bonds: B:Q.80, B:R.126 Salt bridges: B:R.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Barlow, A.N. et al., Structures of Get3d reveal a distinct architecture associated with the emergence of photosynthesis. J.Biol.Chem. (2023)

Release Date

2023-05-03

Peptides

Uncharacterized protein At1g26090, chloroplastic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Uncharacterized protein At1g26090, chloroplastic