- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.87 Å
- Oligo State
- homo-tetramer
- Ligands
- 3 x G1P: 1-O-phosphono-alpha-D-glucopyranose(Non-covalent)
- 11 x SO4: SULFATE ION(Non-functional Binders)
SO4.2: 4 residues within 4Å:- Chain A: Q.127, R.128, Q.129, T.130
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Q.127, A:Q.129, A:T.130
SO4.3: 6 residues within 4Å:- Chain A: G.218, R.219, G.220
- Chain D: H.116, D.117
- Ligands: THM.22
8 PLIP interactions:5 interactions with chain D, 3 interactions with chain A- Hydrogen bonds: D:D.117, A:G.218, A:R.219, A:G.220
- Water bridges: D:D.117, D:F.118, D:E.120
- Salt bridges: D:H.116
SO4.6: 2 residues within 4Å:- Chain A: R.62
- Chain B: R.62
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain A- Water bridges: B:R.62, B:Q.65
- Salt bridges: B:R.62, A:R.62
SO4.7: 7 residues within 4Å:- Chain B: H.116, D.117, H.119
- Chain C: G.218, R.219, G.220
- Ligands: THM.11
8 PLIP interactions:3 interactions with chain C, 5 interactions with chain B- Hydrogen bonds: C:G.218, C:R.219, C:G.220, B:D.117, B:D.117, B:H.119
- Water bridges: B:F.118
- Salt bridges: B:H.116
SO4.8: 4 residues within 4Å:- Chain B: Q.127, R.128, Q.129, T.130
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:Q.127, B:Q.129, B:T.130, B:T.130
SO4.9: 2 residues within 4Å:- Chain B: D.151, Q.152
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Q.152, B:Q.152
SO4.13: 6 residues within 4Å:- Chain B: G.218, R.219, G.220
- Chain C: H.116, D.117
- Ligands: THM.16
7 PLIP interactions:4 interactions with chain B, 3 interactions with chain C- Hydrogen bonds: B:G.218, B:R.219, B:G.220, C:D.117
- Water bridges: B:G.218, C:D.117
- Salt bridges: C:H.116
SO4.14: 5 residues within 4Å:- Chain C: E.160, E.161, R.194, T.200, R.204
9 PLIP interactions:9 interactions with chain C- Hydrogen bonds: C:E.161
- Water bridges: C:R.194, C:R.194, C:R.194, C:R.194, C:R.204, C:R.204
- Salt bridges: C:R.194, C:R.204
SO4.18: 6 residues within 4Å:- Chain A: H.116, D.117
- Chain D: G.218, R.219, G.220
- Ligands: THM.5
6 PLIP interactions:3 interactions with chain A, 3 interactions with chain D- Hydrogen bonds: A:D.117, D:G.218, D:R.219, D:G.220
- Water bridges: A:H.119
- Salt bridges: A:H.116
SO4.19: 7 residues within 4Å:- Chain D: G.11, S.12, G.13, T.14, R.15, K.25
- Ligands: THM.21
8 PLIP interactions:8 interactions with chain D- Hydrogen bonds: D:G.13, D:T.14, D:R.15
- Water bridges: D:S.12, D:S.12, D:K.25, D:K.25
- Salt bridges: D:K.25
SO4.20: 3 residues within 4Å:- Chain D: E.160, E.161, R.204
4 PLIP interactions:4 interactions with chain D- Hydrogen bonds: D:E.161
- Water bridges: D:R.204, D:R.204
- Salt bridges: D:R.204
- 8 x THM: THYMIDINE(Non-covalent)
THM.4: 15 residues within 4Å:- Chain A: L.8, A.9, G.10, G.11, K.25, Q.26, Q.82, P.85, D.86, G.87, L.88, L.108, D.110, E.196
- Ligands: G1P.1
10 PLIP interactions:10 interactions with chain A- Hydrophobic interactions: A:L.88
- Hydrogen bonds: A:G.10, A:Q.82, A:Q.82, A:G.87, A:G.109, A:D.110, A:D.110
- Water bridges: A:G.11, A:G.11
THM.5: 13 residues within 4Å:- Chain A: L.45, Y.114, G.115, F.118, K.249, V.250, A.251, E.255, I.256, R.259
- Chain D: R.219, G.220
- Ligands: SO4.18
8 PLIP interactions:5 interactions with chain A, 3 interactions with chain D- Hydrophobic interactions: A:L.45
- Hydrogen bonds: A:G.115, A:A.251
- Water bridges: A:S.41, A:K.249, D:R.219, D:R.219
- pi-Cation interactions: D:R.219
THM.10: 14 residues within 4Å:- Chain B: L.8, A.9, G.10, G.11, K.25, Q.26, Q.82, P.85, D.86, G.87, L.88, G.109, D.110, E.196
11 PLIP interactions:11 interactions with chain B- Hydrophobic interactions: B:P.85, B:L.88
- Hydrogen bonds: B:G.10, B:Q.26, B:Q.82, B:Q.82, B:G.87, B:G.109, B:D.110, B:D.110
- Water bridges: B:K.25
THM.11: 12 residues within 4Å:- Chain B: L.45, Y.114, G.115, F.118, V.250, A.251, E.255, I.256, R.259
- Chain C: R.219, G.220
- Ligands: SO4.7
8 PLIP interactions:5 interactions with chain B, 3 interactions with chain C- Hydrophobic interactions: B:L.45
- Hydrogen bonds: B:G.115, B:G.115, B:A.251
- Water bridges: B:E.255, C:R.219, C:R.219
- pi-Cation interactions: C:R.219
THM.15: 14 residues within 4Å:- Chain C: L.8, A.9, G.10, G.11, Q.26, Q.82, P.85, D.86, G.87, L.88, L.108, G.109, D.110
- Ligands: G1P.12
11 PLIP interactions:11 interactions with chain C- Hydrophobic interactions: C:L.88
- Hydrogen bonds: C:G.10, C:Q.82, C:Q.82, C:G.87, C:G.109, C:D.110, C:D.110
- Water bridges: C:G.11, C:G.11, C:K.25
THM.16: 12 residues within 4Å:- Chain B: R.219, G.220
- Chain C: L.45, Y.114, G.115, F.118, V.250, A.251, E.255, I.256, R.259
- Ligands: SO4.13
9 PLIP interactions:6 interactions with chain C, 3 interactions with chain B- Hydrophobic interactions: C:L.45
- Hydrogen bonds: C:G.115, C:G.115, C:A.251
- Water bridges: C:D.117, C:E.255, B:R.219, B:R.219
- pi-Cation interactions: B:R.219
THM.21: 15 residues within 4Å:- Chain D: L.8, A.9, G.10, G.11, Q.26, Q.82, P.85, D.86, G.87, L.88, L.108, G.109, D.110
- Ligands: G1P.17, SO4.19
10 PLIP interactions:10 interactions with chain D- Hydrophobic interactions: D:L.88
- Hydrogen bonds: D:G.10, D:Q.82, D:Q.82, D:G.87, D:G.109, D:D.110, D:D.110
- Water bridges: D:G.11, D:G.11
THM.22: 12 residues within 4Å:- Chain A: R.219, G.220
- Chain D: L.45, Y.114, G.115, F.118, V.250, A.251, E.255, I.256, R.259
- Ligands: SO4.3
9 PLIP interactions:2 interactions with chain A, 7 interactions with chain D- Water bridges: A:R.219, D:F.118, D:C.252
- pi-Cation interactions: A:R.219
- Hydrophobic interactions: D:L.45
- Hydrogen bonds: D:G.115, D:G.115, D:K.249, D:A.251
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Blankenfeldt, W. et al., The structural basis of the catalytic mechanism and regulation of glucose-1-phosphate thymidylyltransferase (RmlA). EMBO J. (2000)
- Release Date
- 2000-12-27
- Peptides
- GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
EB
FC
GD
H
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.87 Å
- Oligo State
- homo-tetramer
- Ligands
- 3 x G1P: 1-O-phosphono-alpha-D-glucopyranose(Non-covalent)
- 11 x SO4: SULFATE ION(Non-functional Binders)
- 8 x THM: THYMIDINE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Blankenfeldt, W. et al., The structural basis of the catalytic mechanism and regulation of glucose-1-phosphate thymidylyltransferase (RmlA). EMBO J. (2000)
- Release Date
- 2000-12-27
- Peptides
- GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
EB
FC
GD
H