- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-tetramer
- Ligands
- 6 x PGT: (1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)
- 35 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)(Non-functional Binders)
LMT.2: 9 residues within 4Å:- Chain A: P.42, F.231, V.232, Q.235
- Chain B: F.29, L.30, Q.32, L.93
- Ligands: DGA.3
Ligand excluded by PLIPLMT.4: 5 residues within 4Å:- Chain A: P.34, H.35, A.51, V.72, L.79
Ligand excluded by PLIPLMT.5: 14 residues within 4Å:- Chain A: R.304, D.305, M.306, F.373, N.381, W.384, L.385, K.388, N.392, L.403, P.404, E.405, T.409, T.420
Ligand excluded by PLIPLMT.6: 7 residues within 4Å:- Chain A: A.66, I.74, T.174, G.176, E.177, L.179
- Ligands: LMT.38
Ligand excluded by PLIPLMT.7: 8 residues within 4Å:- Chain A: L.53, I.57, F.61
- Ligands: LMT.8, PGT.9, LMT.18, LMT.39, LMT.42
Ligand excluded by PLIPLMT.8: 9 residues within 4Å:- Chain A: P.54, I.57, G.58, F.61, K.62
- Chain D: L.213
- Ligands: LMT.7, LMT.41, LMT.42
Ligand excluded by PLIPLMT.11: 7 residues within 4Å:- Chain A: F.43, I.46
- Chain B: P.34, H.35, Y.68, L.79
- Ligands: DGA.3
Ligand excluded by PLIPLMT.12: 7 residues within 4Å:- Chain B: G.40, P.42, F.231, V.232, Q.235
- Chain C: T.75
- Ligands: LMT.13
Ligand excluded by PLIPLMT.13: 6 residues within 4Å:- Chain B: N.41, P.42, F.43, I.46, I.223
- Ligands: LMT.12
Ligand excluded by PLIPLMT.14: 16 residues within 4Å:- Chain B: R.304, D.305, M.306, F.373, I.376, G.377, I.380, W.384, K.388, L.403, P.404, E.405, T.409, G.413, I.416, T.420
Ligand excluded by PLIPLMT.15: 4 residues within 4Å:- Chain B: V.325, L.329, N.336
- Ligands: PGT.10
Ligand excluded by PLIPLMT.16: 13 residues within 4Å:- Chain B: K.221, Y.222, L.225, L.228, Y.229, F.272, F.297, D.298, K.299
- Chain C: I.67, L.71
- Ligands: LMT.17, LMT.27
Ligand excluded by PLIPLMT.17: 6 residues within 4Å:- Chain B: Y.229, F.237, K.299, I.302
- Ligands: LMT.16, LMT.27
Ligand excluded by PLIPLMT.18: 7 residues within 4Å:- Ligands: LMT.7, PGT.9, LMT.19, LMT.20, LMT.28, PGT.30, LMT.39
Ligand excluded by PLIPLMT.19: 8 residues within 4Å:- Chain B: L.53, I.57, F.60, F.61, R.209
- Ligands: PGT.9, LMT.18, LMT.20
Ligand excluded by PLIPLMT.20: 9 residues within 4Å:- Chain B: R.209, D.210, L.213, L.216
- Ligands: LMT.18, LMT.19, LMT.21, LMT.28, LMT.29
Ligand excluded by PLIPLMT.21: 10 residues within 4Å:- Chain B: D.210, L.213, N.214, E.217, V.220
- Chain C: P.54, K.63, F.65
- Ligands: LMT.20, LMT.29
Ligand excluded by PLIPLMT.22: 15 residues within 4Å:- Chain A: F.56, I.57, F.60, R.209, D.210, L.213, L.216
- Chain B: I.57, G.58, F.61, K.62, K.63, F.65
- Ligands: DGA.3, PGT.9
Ligand excluded by PLIPLMT.24: 7 residues within 4Å:- Chain C: P.34, H.35, L.36, A.51, T.75, L.79
- Ligands: LMT.25
Ligand excluded by PLIPLMT.25: 13 residues within 4Å:- Chain C: N.41, P.42, F.231, V.232, Q.235
- Chain D: M.26, F.29, L.30, Q.32, L.33, L.93
- Ligands: LMT.24, DGA.31
Ligand excluded by PLIPLMT.26: 10 residues within 4Å:- Chain C: R.304, D.305, M.306, F.373, N.381, W.384, L.385, K.388, I.416, T.420
Ligand excluded by PLIPLMT.27: 9 residues within 4Å:- Chain C: R.64, I.74, T.174, G.176, E.177, L.179, L.183
- Ligands: LMT.16, LMT.17
Ligand excluded by PLIPLMT.28: 6 residues within 4Å:- Chain C: F.61
- Ligands: LMT.18, LMT.20, LMT.29, PGT.30, LMT.39
Ligand excluded by PLIPLMT.29: 7 residues within 4Å:- Chain B: L.213
- Chain C: P.54, I.57, F.61
- Ligands: LMT.20, LMT.21, LMT.28
Ligand excluded by PLIPLMT.33: 5 residues within 4Å:- Chain D: V.325, L.329, V.332, V.338
- Ligands: PGT.32
Ligand excluded by PLIPLMT.34: 9 residues within 4Å:- Chain C: F.43
- Chain D: Q.32, L.33, P.34, H.35, L.36, Y.47, A.51, L.79
Ligand excluded by PLIPLMT.35: 6 residues within 4Å:- Chain A: L.71, T.75
- Chain D: N.41, P.42, F.231, Q.235
Ligand excluded by PLIPLMT.36: 13 residues within 4Å:- Chain D: R.304, D.305, M.306, F.373, I.376, G.377, I.380, W.384, L.385, K.388, G.413, I.416, T.420
Ligand excluded by PLIPLMT.37: 5 residues within 4Å:- Chain D: Y.229, L.233, K.299, I.302
- Ligands: LMT.38
Ligand excluded by PLIPLMT.38: 12 residues within 4Å:- Chain A: I.67, I.74
- Chain D: K.221, L.225, Y.229, F.272, M.280, F.297, D.298, K.299
- Ligands: LMT.6, LMT.37
Ligand excluded by PLIPLMT.39: 7 residues within 4Å:- Ligands: LMT.7, PGT.9, LMT.18, LMT.28, PGT.30, LMT.40, LMT.42
Ligand excluded by PLIPLMT.40: 10 residues within 4Å:- Chain D: L.53, I.57, F.60, F.61, K.62, R.209
- Ligands: PGT.30, LMT.39, LMT.42, LMT.43
Ligand excluded by PLIPLMT.41: 9 residues within 4Å:- Chain A: K.63, F.65
- Chain D: D.210, L.213, N.214, E.217, V.220
- Ligands: LMT.8, LMT.42
Ligand excluded by PLIPLMT.42: 8 residues within 4Å:- Chain D: R.209, D.210, L.213
- Ligands: LMT.7, LMT.8, LMT.39, LMT.40, LMT.41
Ligand excluded by PLIPLMT.43: 10 residues within 4Å:- Chain C: F.60, L.213
- Chain D: P.54, I.57, F.61, K.63, F.65
- Ligands: PGT.30, DGA.31, LMT.40
Ligand excluded by PLIP- 2 x DGA: DIACYL GLYCEROL(Non-covalent)
DGA.3: 18 residues within 4Å:- Chain A: P.42, I.46, L.216, V.220, I.223, M.224, F.227, L.228, L.288
- Chain B: P.34, P.54, I.74, T.75, V.78, L.79
- Ligands: LMT.2, LMT.11, LMT.22
9 PLIP interactions:8 interactions with chain A, 1 interactions with chain B- Hydrophobic interactions: A:P.42, A:I.46, A:L.216, A:V.220, A:I.223, A:F.227, A:L.228, A:L.288, B:P.54
DGA.31: 18 residues within 4Å:- Chain C: F.43, F.45, I.46, G.49, L.53, F.56, L.216, I.223, M.224, F.227, L.228
- Chain D: P.34, I.74, T.75, V.78, L.79
- Ligands: LMT.25, LMT.43
12 PLIP interactions:10 interactions with chain C, 2 interactions with chain D- Hydrophobic interactions: C:F.45, C:L.53, C:F.56, C:F.56, C:L.216, C:I.223, C:F.227, C:F.227, C:F.227, C:L.228, 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
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D - Membrane
-
We predict this structure to be a membrane protein.
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-tetramer
- Ligands
- 6 x PGT: (1S)-2-{[{[(2R)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL STEARATE(Non-covalent)
- 35 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
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
D - Membrane
-
We predict this structure to be a membrane protein.