- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NAG- NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 3 x UDH: 6-AMINOHEXYL-URIDINE-C1,5'-DIPHOSPHATE(Non-covalent)
UDH.2: 16 residues within 4Å:- Chain A: P.72, F.73, R.74, R.76, F.111, D.137, V.138, D.139, K.164, W.199, H.229, H.232, R.234, D.235
- Ligands: MN.3, GOL.4
22 PLIP interactions:22 interactions with chain A- Hydrophobic interactions: A:R.234
- Hydrogen bonds: A:P.72, A:R.74, A:R.74, A:R.76, A:V.138, A:D.139, A:D.235, A:D.235
- Water bridges: A:R.74, A:R.74, A:K.164, A:K.164, A:D.235, A:N.238
- Salt bridges: A:R.76, A:K.164, A:H.229, A:H.232, A:H.232
- pi-Stacking: A:F.111
- pi-Cation interactions: A:R.76
UDH.13: 17 residues within 4Å:- Chain B: P.72, F.73, R.74, R.76, F.111, D.137, V.138, D.139, K.164, W.199, H.229, H.232, R.234, D.235, N.238
- Ligands: MN.14, GOL.15
19 PLIP interactions:19 interactions with chain B- Hydrophobic interactions: B:R.234
- Hydrogen bonds: B:P.72, B:R.74, B:R.74, B:R.76, B:V.138, B:D.139, B:D.235, B:D.235, B:N.238
- Water bridges: B:D.137, B:K.164, B:D.235
- Salt bridges: B:R.76, B:K.164, B:H.232, B:H.232
- pi-Stacking: B:F.111
- pi-Cation interactions: B:R.76
UDH.26: 17 residues within 4Å:- Chain C: P.72, F.73, R.74, R.76, F.111, D.137, V.138, D.139, K.164, W.199, H.229, H.232, R.234, D.235, N.238
- Ligands: MN.27, GOL.28
21 PLIP interactions:21 interactions with chain C- Hydrophobic interactions: C:R.234
- Hydrogen bonds: C:P.72, C:R.74, C:R.74, C:R.76, C:V.138, C:D.139, C:D.235, C:D.235
- Water bridges: C:R.74, C:R.74, C:D.137, C:K.164, C:N.238, C:N.238
- Salt bridges: C:R.76, C:K.164, C:H.232, C:H.232
- pi-Stacking: C:F.111
- pi-Cation interactions: C:R.76
- 3 x MN: MANGANESE (II) ION(Non-covalent)
MN.3: 4 residues within 4Å:- Chain A: D.139, H.229, H.232
- Ligands: UDH.2
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.139, A:H.229, A:H.232, H2O.2
MN.14: 4 residues within 4Å:- Chain B: D.139, H.229, H.232
- Ligands: UDH.13
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.139, B:H.229, B:H.232, H2O.9
MN.27: 4 residues within 4Å:- Chain C: D.139, H.229, H.232
- Ligands: UDH.26
4 PLIP interactions:3 interactions with chain C, 1 Ligand-Water interactions- Metal complexes: C:D.139, C:H.229, C:H.232, H2O.17
- 7 x GOL: GLYCEROL(Non-functional Binders)
GOL.4: 7 residues within 4Å:- Chain A: R.113, W.199, G.200, E.202, D.203
- Ligands: NAG-NAG-NAG.1, UDH.2
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:W.199, A:G.200, A:E.202
- Water bridges: A:G.198, A:E.202
GOL.5: 5 residues within 4Å:- Chain A: S.153, Q.184, Q.185, T.188, M.215
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Q.185
GOL.15: 7 residues within 4Å:- Chain B: R.113, W.199, G.200, E.202, D.203
- Ligands: NAG-NAG-NAG.11, UDH.13
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:W.199, B:G.200, B:E.202
- Water bridges: B:G.177, B:G.177, B:G.198, B:E.202
GOL.16: 3 residues within 4Å:- Chain B: F.207, S.216, I.217
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:I.217
- Water bridges: B:S.216
GOL.17: 4 residues within 4Å:- Chain B: F.73, R.74, N.75, N.104
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:N.75, B:N.75, B:N.104
GOL.18: 5 residues within 4Å:- Chain B: N.195, W.197, R.247, P.286, S.287
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:N.195, B:W.197, B:R.247, B:R.247, B:S.287, B:S.287, B:S.287
GOL.28: 7 residues within 4Å:- Chain C: R.113, W.199, G.200, E.202, D.203
- Ligands: NAG-NAG-NAG.12, UDH.26
6 PLIP interactions:6 interactions with chain C- Hydrogen bonds: C:W.199, C:G.200
- Water bridges: C:G.177, C:G.177, C:G.198, C:G.200
- 16 x SO4: SULFATE ION(Non-functional Binders)
SO4.6: 4 residues within 4Å:- Chain A: E.33, F.34, N.35, R.228
Ligand excluded by PLIPSO4.7: 5 residues within 4Å:- Chain A: N.49, Y.56, P.58, R.59
- Chain C: R.231
Ligand excluded by PLIPSO4.8: 2 residues within 4Å:- Chain A: R.156, P.220
Ligand excluded by PLIPSO4.9: 2 residues within 4Å:- Chain A: H.232, S.233
Ligand excluded by PLIPSO4.19: 2 residues within 4Å:- Chain B: R.156, P.220
Ligand excluded by PLIPSO4.20: 2 residues within 4Å:- Ligands: NAG-NAG-NAG.11, NAG-NAG-NAG.11
Ligand excluded by PLIPSO4.21: 6 residues within 4Å:- Chain B: E.33, F.34, N.35, R.228, R.231
- Chain C: N.49
Ligand excluded by PLIPSO4.22: 4 residues within 4Å:- Chain B: N.49, Y.56, P.58, R.59
Ligand excluded by PLIPSO4.23: 2 residues within 4Å:- Chain B: H.232, S.233
Ligand excluded by PLIPSO4.24: 4 residues within 4Å:- Chain B: D.39, L.40, E.41, K.81
Ligand excluded by PLIPSO4.25: 2 residues within 4Å:- Chain B: S.233, R.234
Ligand excluded by PLIPSO4.29: 5 residues within 4Å:- Chain B: R.231
- Chain C: N.49, Y.56, P.58, R.59
Ligand excluded by PLIPSO4.30: 5 residues within 4Å:- Chain A: N.49
- Chain C: F.34, N.35, R.228, R.231
Ligand excluded by PLIPSO4.31: 2 residues within 4Å:- Chain C: H.232, S.233
Ligand excluded by PLIPSO4.32: 2 residues within 4Å:- Chain C: S.233, R.234
Ligand excluded by PLIPSO4.33: 3 residues within 4Å:- Chain C: F.152, R.156, P.220
Ligand excluded by PLIP- 2 x DIO: 1,4-DIETHYLENE DIOXIDE(Non-covalent)
DIO.10: 7 residues within 4Å:- Chain A: P.37, V.38, D.39, L.42, V.43, Q.46, Y.85
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.39, A:Q.46
DIO.34: 4 residues within 4Å:- Chain C: N.195, W.197, R.247, S.287
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:R.247, C:S.287
- 1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ramasamy, V. et al., Oligosaccharide Preferences of beta1,4-Galactosyltransferase-I: Crystal Structures of Met340His Mutant of Human beta1,4-Galactosyltransferase-I with a Pentasaccharide and Trisaccharides of the N-Glycan Moiety. J.Mol.Biol. (2005)
- Release Date
- 2005-10-04
- Peptides
- Beta-1,4-galactosyltransferase 1: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.00 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NAG- NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)
- 3 x UDH: 6-AMINOHEXYL-URIDINE-C1,5'-DIPHOSPHATE(Non-covalent)
- 3 x MN: MANGANESE (II) ION(Non-covalent)
- 7 x GOL: GLYCEROL(Non-functional Binders)
- 16 x SO4: SULFATE ION(Non-functional Binders)
- 2 x DIO: 1,4-DIETHYLENE DIOXIDE(Non-covalent)
- 1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ramasamy, V. et al., Oligosaccharide Preferences of beta1,4-Galactosyltransferase-I: Crystal Structures of Met340His Mutant of Human beta1,4-Galactosyltransferase-I with a Pentasaccharide and Trisaccharides of the N-Glycan Moiety. J.Mol.Biol. (2005)
- Release Date
- 2005-10-04
- Peptides
- Beta-1,4-galactosyltransferase 1: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C