SMTL ID : 6zg3.2 (1 other biounit)

the structure of ECF PanT transporter in a complex with a nanobody

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

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

Ligands

7 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) PEG.5: 2 residues within 4Å: Chain B: K.61 Ligands: PEG.6 No protein-ligand interaction detected (PLIP) PEG.6: 1 residues within 4Å: Ligands: PEG.5 No protein-ligand interaction detected (PLIP) PEG.7: 4 residues within 4Å: Chain B: Y.79, Q.92, P.94, L.158 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Y.79 PEG.9: 1 residues within 4Å: Chain C: R.18 No protein-ligand interaction detected (PLIP) PEG.10: 2 residues within 4Å: Chain C: I.6, F.171 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:I.6 PEG.11: 5 residues within 4Å: Chain E: V.2, Q.3, F.27, Y.32, Y.115 No protein-ligand interaction detected (PLIP)

3 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)

LMT.2: 10 residues within 4Å: Chain B: K.9, N.12, S.16, R.58, A.65, V.69 Chain C: K.150, V.159, I.160 Ligands: LMT.8 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain C Hydrophobic interactions: B:A.65, B:V.69, B:V.69, C:V.159, C:I.160 Hydrogen bonds: B:K.9, B:N.12, B:R.58, C:K.150 Salt bridges: B:R.58 LMT.3: 7 residues within 4Å: Chain B: I.144, L.145, D.148, L.149, I.153, H.154, F.175 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.144, B:L.145, B:D.148, B:F.175 Hydrogen bonds: B:D.148 LMT.8: 9 residues within 4Å: Chain B: L.68, L.72, L.76 Chain C: L.143, L.146, F.149, V.151, I.156 Ligands: LMT.2 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: C:L.143, C:I.156, B:L.72, B:L.76

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.4: 8 residues within 4Å: Chain B: Y.34, P.42, A.43, S.74, N.83, T.87, F.91, R.101 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.91, B:F.91 Hydrogen bonds: B:A.43, B:T.87 Salt bridges: B:R.77, B:R.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Setyawati, I. et al., In vitro reconstitution of dynamically interacting integral membrane subunits of energy-coupling factor transporters. Elife (2020)

Release Date

2021-03-03

Peptides

Energy-coupling factor transporter ATP-binding protein EcfA2: A
Conserved hypothetical membrane protein: B
Putative cobalt ABC transporter, permease protein: C
Energy-coupling factor transporter ATP-binding protein EcfA1: D
CA14381 nanobody: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

D
F

E
J

Membrane

We predict this structure to be a membrane protein.
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Energy-coupling factor transporter ATP-binding protein EcfA2

Conserved hypothetical membrane protein

Putative cobalt ABC transporter, permease protein

Energy-coupling factor transporter ATP-binding protein EcfA1

CA14381 nanobody

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