- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-4-4-mer
- Ligands
- 6 x PGT: (1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)
- 25 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)(Non-functional Binders)
LMT.2: 5 residues within 4Å:- Chain A: F.60, F.61
- Chain B: I.57
- Ligands: LMT.12, PGT.16
Ligand excluded by PLIPLMT.3: 9 residues within 4Å:- Chain A: G.40, F.231, V.232, Q.235
- Chain B: L.30, L.33, I.89
- Ligands: LMT.5, DGA.6
Ligand excluded by PLIPLMT.4: 10 residues within 4Å:- Chain A: P.54, I.57, G.58, F.61, K.62, K.63, F.65
- Ligands: PGT.16, LMT.29, LMT.31
Ligand excluded by PLIPLMT.5: 7 residues within 4Å:- Chain A: P.34, H.35, L.36, Y.47, I.50, L.79
- Ligands: LMT.3
Ligand excluded by PLIPLMT.8: 5 residues within 4Å:- Ligands: LMT.9, LMT.10, PGT.16, PGT.25, LMT.27
Ligand excluded by PLIPLMT.9: 8 residues within 4Å:- Chain B: F.56, I.57, F.60, F.61, R.209
- Ligands: LMT.8, LMT.10, PGT.16
Ligand excluded by PLIPLMT.10: 5 residues within 4Å:- Chain B: L.213
- Ligands: LMT.8, LMT.9, LMT.11, LMT.20
Ligand excluded by PLIPLMT.11: 8 residues within 4Å:- Chain B: D.210, L.213, N.214, E.217
- Chain C: K.63, F.65
- Ligands: LMT.10, LMT.20
Ligand excluded by PLIPLMT.12: 10 residues within 4Å:- Chain A: F.56, I.57, F.60, L.213, L.216
- Chain B: I.57, F.61, K.63, F.65
- Ligands: LMT.2
Ligand excluded by PLIPLMT.13: 8 residues within 4Å:- Chain B: K.221, Y.229, F.272, F.297, K.299
- Chain C: I.67, I.74
- Ligands: LMT.24
Ligand excluded by PLIPLMT.14: 4 residues within 4Å:- Chain B: P.34, H.35, L.79
- Ligands: DGA.6
Ligand excluded by PLIPLMT.15: 5 residues within 4Å:- Chain B: E.37, G.40, P.42, V.232, Q.235
Ligand excluded by PLIPLMT.19: 7 residues within 4Å:- Chain C: I.57, K.62, R.209
- Chain D: F.61
- Ligands: LMT.20, LMT.21, PGT.25
Ligand excluded by PLIPLMT.20: 10 residues within 4Å:- Chain C: P.54, I.57, F.61, K.62, K.63, F.65
- Ligands: LMT.10, LMT.11, LMT.19, PGT.25
Ligand excluded by PLIPLMT.21: 9 residues within 4Å:- Chain C: F.56, F.60, R.209, L.216
- Chain D: I.57, F.61, K.63, F.65
- Ligands: LMT.19
Ligand excluded by PLIPLMT.22: 6 residues within 4Å:- Chain C: P.42, F.231, V.232, Q.235
- Chain D: Q.32
- Ligands: DGA.18
Ligand excluded by PLIPLMT.23: 5 residues within 4Å:- Chain C: P.34, H.35, Y.47, A.51, L.79
Ligand excluded by PLIPLMT.24: 6 residues within 4Å:- Chain C: A.66, I.74, T.174, L.179, L.183
- Ligands: LMT.13
Ligand excluded by PLIPLMT.27: 5 residues within 4Å:- Ligands: LMT.8, PGT.16, PGT.25, LMT.28, LMT.31
Ligand excluded by PLIPLMT.28: 8 residues within 4Å:- Chain D: L.53, I.57, F.60, F.61, R.209
- Ligands: PGT.25, LMT.27, LMT.31
Ligand excluded by PLIPLMT.29: 8 residues within 4Å:- Chain A: K.63, F.65
- Chain D: D.210, L.213, E.217, V.220
- Ligands: LMT.4, LMT.31
Ligand excluded by PLIPLMT.30: 13 residues within 4Å:- Chain D: R.304, D.305, M.306, E.308, F.373, G.377, N.381, W.384, L.385, K.388, T.409, G.413, T.420
Ligand excluded by PLIPLMT.31: 6 residues within 4Å:- Chain D: L.213
- Ligands: LMT.4, PGT.16, LMT.27, LMT.28, LMT.29
Ligand excluded by PLIPLMT.32: 10 residues within 4Å:- Chain A: I.67, C.70
- Chain D: K.221, L.225, Y.229, F.272, M.280, D.298, K.299, P.300
Ligand excluded by PLIPLMT.33: 6 residues within 4Å:- Chain D: P.34, H.35, N.41, A.51, L.79
- Ligands: DGA.18
Ligand excluded by PLIP- 2 x DGA: DIACYL GLYCEROL(Non-covalent)
DGA.6: 12 residues within 4Å:- Chain A: P.42, I.46, I.223, F.227, L.228
- Chain B: L.71, I.74, T.75, V.78, L.79
- Ligands: LMT.3, LMT.14
6 PLIP interactions:4 interactions with chain A, 2 interactions with chain B- Hydrophobic interactions: A:I.46, A:I.223, A:F.227, A:L.228, B:L.71, B:I.74
DGA.18: 16 residues within 4Å:- Chain C: P.42, I.46, G.49, L.53, F.56, L.216, I.223, M.224, F.227
- Chain D: P.34, I.74, T.75, V.78, L.79
- Ligands: LMT.22, LMT.33
11 PLIP interactions:9 interactions with chain C, 2 interactions with chain D- Hydrophobic interactions: C:P.42, C:I.46, C:L.53, C:L.53, C:F.56, C:L.216, C:I.223, C:F.227, C:F.227, D:I.74, D:T.75
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zhang, P. et al., Structural insights into the transporting and catalyzing mechanism of DltB in LTA D-alanylation. Nat Commun (2024)
- Release Date
- 2024-05-22
- Peptides
- Teichoic acid D-alanyltransferase: ABCD
D-alanyl carrier protein: EFGH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
FF
GG
HH
I - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-4-4-mer
- Ligands
- 6 x PGT: (1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)
- 25 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)(Non-functional Binders)
- 2 x DGA: DIACYL GLYCEROL(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zhang, P. et al., Structural insights into the transporting and catalyzing mechanism of DltB in LTA D-alanylation. Nat Commun (2024)
- Release Date
- 2024-05-22
- Peptides
- Teichoic acid D-alanyltransferase: ABCD
D-alanyl carrier protein: EFGH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
FF
GG
HH
I - Membrane
-
We predict this structure to be a membrane protein.