- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.40 Å
- Oligo State
- homo-dimer
- Ligands
- 6 x CA: CALCIUM ION(Non-covalent)
- 2 x NI: NICKEL (II) ION(Non-covalent)
NI.4: 3 residues within 4Å:- Chain A: H.169, H.172, D.178
6 PLIP interactions:3 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:H.169, A:H.172, A:D.178, H2O.6, H2O.8, H2O.9
NI.29: 3 residues within 4Å:- Chain B: H.169, H.172, D.178
6 PLIP interactions:3 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:H.169, B:H.172, B:D.178, H2O.24, H2O.26, H2O.36
- 7 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
MG.5: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)MG.6: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)MG.7: 1 residues within 4Å:- Chain A: E.329
No protein-ligand interaction detected (PLIP)MG.8: 2 residues within 4Å:- Chain A: D.298, E.301
5 PLIP interactions:1 interactions with chain A, 4 Ligand-Water interactions- Metal complexes: A:D.298, H2O.9, H2O.9, H2O.10, H2O.15
MG.30: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)MG.31: 1 residues within 4Å:- Chain B: E.134
No protein-ligand interaction detected (PLIP)MG.32: 2 residues within 4Å:- Chain B: D.298, T.311
6 PLIP interactions:1 interactions with chain B, 5 Ligand-Water interactions- Metal complexes: B:D.298, H2O.26, H2O.27, H2O.28, H2O.32, H2O.40
- 7 x TB: TERBIUM(III) ION(Non-covalent)
TB.9: 4 residues within 4Å:- Chain A: E.265, G.267, E.272
- Chain B: Q.553
5 PLIP interactions:2 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:E.265, A:E.272, H2O.1, H2O.24, H2O.25
TB.10: 2 residues within 4Å:- Chain A: E.587, E.590
3 PLIP interactions:2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:E.587, A:E.590, H2O.2
TB.11: 2 residues within 4Å:- Chain A: E.708, E.745
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:E.708, A:E.745
TB.12: 3 residues within 4Å:- Chain A: D.358, D.1165
- Ligands: SO4.24
5 PLIP interactions:4 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.358, A:D.358, A:D.1165, A:D.1165, H2O.8
TB.25: 4 residues within 4Å:- Chain A: Q.553
- Chain B: E.265, G.267, E.272
5 PLIP interactions:3 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:E.265, B:E.272, B:E.272, H2O.6, H2O.6
TB.33: 2 residues within 4Å:- Chain B: E.587, E.590
4 PLIP interactions:2 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:E.587, B:E.590, H2O.30, H2O.31
TB.34: 2 residues within 4Å:- Chain B: E.708, E.745
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:E.708, B:E.708, B:E.745, B:E.745
- 15 x SO4: SULFATE ION(Non-functional Binders)
SO4.13: 4 residues within 4Å:- Chain A: G.25, A.26, T.90, R.108
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:A.26, A:A.26
- Salt bridges: A:R.108
SO4.14: 2 residues within 4Å:- Chain A: R.151, H.169
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:D.168, A:D.168
- Water bridges: A:H.169
- Salt bridges: A:R.151, A:H.169
SO4.15: 3 residues within 4Å:- Chain A: Y.385, Q.386, Q.387
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.387
- Water bridges: A:R.390
SO4.16: 4 residues within 4Å:- Chain A: S.740, R.767, G.825, S.826
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:G.825
- Water bridges: A:R.767, A:R.767
- Salt bridges: A:R.767
SO4.17: 2 residues within 4Å:- Chain A: R.843, R.851
2 PLIP interactions:2 interactions with chain A- Salt bridges: A:R.843, A:R.851
SO4.24: 3 residues within 4Å:- Chain A: D.358
- Chain B: R.380
- Ligands: TB.12
1 PLIP interactions:1 interactions with chain B- Salt bridges: B:R.380
SO4.35: 4 residues within 4Å:- Chain B: T.24, G.25, A.26, R.108
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:T.24, B:A.26
- Salt bridges: B:R.108
SO4.36: 3 residues within 4Å:- Chain B: R.151, D.168, H.169
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.168
- Water bridges: B:H.169
- Salt bridges: B:R.151, B:H.169
SO4.38: 3 residues within 4Å:- Chain B: Y.385, Q.386, Q.387
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:Y.385, B:Q.387
- Water bridges: B:A.388, B:R.390
SO4.39: 4 residues within 4Å:- Chain B: Y.653, S.654, Q.657, R.1075
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:S.654, B:Q.657
- Salt bridges: B:R.1075
SO4.40: 4 residues within 4Å:- Chain B: S.740, R.767, G.825, S.826
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:G.825
- Salt bridges: B:R.767
SO4.41: 2 residues within 4Å:- Chain B: R.843, R.851
4 PLIP interactions:4 interactions with chain B- Water bridges: B:R.843, B:K.869
- Salt bridges: B:R.843, B:R.851
SO4.42: 3 residues within 4Å:- Chain B: A.924, W.925, S.926
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:W.925, B:S.926
- Water bridges: B:H.858, B:H.858
SO4.44: 3 residues within 4Å:- Chain B: A.1183, T.1184, R.1261
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:T.1184, B:T.1184
- Salt bridges: B:R.1261
SO4.45: 3 residues within 4Å:- Chain B: R.1192, V.1222, W.1223
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:W.1223
- Salt bridges: B:R.1192
- 4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
MES.18: 7 residues within 4Å:- Chain A: F.993, R.1027, N.1060, L.1061, W.1062, V.1176, D.1177
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:W.1062, A:D.1177
- Water bridges: A:R.1027, A:R.1027, A:W.1062, A:N.1126
- Salt bridges: A:R.1027
MES.19: 6 residues within 4Å:- Chain A: Q.352, Y.355, D.356, N.1195, T.1196, Y.1249
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.352, A:D.356
MES.37: 5 residues within 4Å:- Chain B: Q.352, Y.355, N.1195, T.1196, Y.1249
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Q.352
- pi-Cation interactions: B:Y.1249
MES.43: 7 residues within 4Å:- Chain B: F.993, R.1027, N.1060, L.1061, W.1062, V.1176, D.1177
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:W.1062, B:D.1177
- Salt bridges: B:R.1027
- 7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.20: 7 residues within 4Å:- Chain A: S.196, D.197, Y.213, R.221, Y.223, T.224, K.225
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.197, A:K.225
- Water bridges: A:R.221, A:K.225
EDO.21: 5 residues within 4Å:- Chain A: A.583, Y.584, E.587, F.711, T.712
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:E.587, A:E.587, A:T.712
- Water bridges: A:S.710, A:F.711
EDO.22: 5 residues within 4Å:- Chain A: Q.651, T.652, Y.1015, G.1074, R.1075
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:T.652, A:T.652, A:R.1075
EDO.23: 6 residues within 4Å:- Chain A: F.478, E.482, L.483, P.526, S.527, L.530
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.482, A:S.527
EDO.46: 7 residues within 4Å:- Chain B: S.196, D.197, Y.213, R.221, Y.223, T.224, K.225
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.197, B:K.225
- Water bridges: B:R.221, B:K.225
EDO.47: 6 residues within 4Å:- Chain B: A.583, Y.584, E.587, D.620, F.711, T.712
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:E.587, B:T.712
- Water bridges: B:D.620, B:D.620
EDO.48: 6 residues within 4Å:- Chain B: F.478, E.482, L.483, P.526, S.527, L.530
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:E.482, B:N.525, B:S.527, B:N.1145
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fujimoto, Z. et al., Carbohydrate-binding architecture of the multi-modular alpha-1,6-glucosyltransferase from Paenibacillus sp. 598K, which produces alpha-1,6-glucosyl-alpha-glucosaccharides from starch. Biochem. J. (2017)
- Release Date
- 2017-07-26
- Peptides
- Glycoside hydrolase family 31 alpha-glucosidase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.40 Å
- Oligo State
- homo-dimer
- Ligands
- 6 x CA: CALCIUM ION(Non-covalent)
- 2 x NI: NICKEL (II) ION(Non-covalent)
- 7 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
- 7 x TB: TERBIUM(III) ION(Non-covalent)
- 15 x SO4: SULFATE ION(Non-functional Binders)
- 4 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)
- 7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fujimoto, Z. et al., Carbohydrate-binding architecture of the multi-modular alpha-1,6-glucosyltransferase from Paenibacillus sp. 598K, which produces alpha-1,6-glucosyl-alpha-glucosaccharides from starch. Biochem. J. (2017)
- Release Date
- 2017-07-26
- Peptides
- Glycoside hydrolase family 31 alpha-glucosidase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B