SMTL ID : 3ucq.1

Crystal structure of amylosucrase from Deinococcus geothermalis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

homo-dimer

Ligands

2 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.1: 9 residues within 4Å: Chain A: I.226, F.227, F.253, D.401, D.402, F.444, R.454, R.525 Ligands: GOL.12 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.454 Water bridges: A:D.289, A:D.289, A:E.331, A:E.331, A:D.401, A:R.454, A:R.454 TRS.15: 9 residues within 4Å: Chain B: I.226, F.227, F.253, D.401, D.402, F.444, R.454, R.525 Ligands: GOL.26 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:R.454 Water bridges: B:D.289, B:D.289, B:E.331, B:E.331, B:D.401, B:D.401, B:R.454, B:R.454

26 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: Y.102, D.104, R.105, G.143, G.144, R.154, W.526 Ligand excluded by PLIP GOL.3: 7 residues within 4Å: Chain A: E.140, F.230, N.254, Y.256, P.522, D.523 Ligands: GOL.10 Ligand excluded by PLIP GOL.4: 9 residues within 4Å: Chain A: D.229, V.443, F.444, Q.445, P.522, D.523, N.524 Ligands: GOL.6, GOL.10 Ligand excluded by PLIP GOL.5: 3 residues within 4Å: Chain A: A.191, K.195, Y.203 Ligand excluded by PLIP GOL.6: 6 residues within 4Å: Chain A: D.229, V.443, Q.445, Y.446, N.524 Ligands: GOL.4 Ligand excluded by PLIP GOL.7: 6 residues within 4Å: Chain A: R.116, Y.119, W.534, A.537, R.541 Ligands: GOL.14 Ligand excluded by PLIP GOL.8: 5 residues within 4Å: Chain A: R.188, W.237, D.238, S.255, W.258 Ligand excluded by PLIP GOL.9: 1 residues within 4Å: Chain A: R.541 Ligand excluded by PLIP GOL.10: 5 residues within 4Å: Chain A: D.229, F.230, P.522 Ligands: GOL.3, GOL.4 Ligand excluded by PLIP GOL.11: 4 residues within 4Å: Chain A: F.219, K.296, R.297, L.298 Ligand excluded by PLIP GOL.12: 9 residues within 4Å: Chain A: D.142, Y.145, H.185, F.227, F.253, Q.257, D.289, R.525 Ligands: TRS.1 Ligand excluded by PLIP GOL.13: 7 residues within 4Å: Chain A: R.287, E.331, Y.357, N.359, Y.396, C.399, H.400 Ligand excluded by PLIP GOL.14: 5 residues within 4Å: Chain A: V.540, R.541, N.552, R.556 Ligands: GOL.7 Ligand excluded by PLIP GOL.16: 7 residues within 4Å: Chain B: Y.102, D.104, R.105, G.143, G.144, R.154, W.526 Ligand excluded by PLIP GOL.17: 7 residues within 4Å: Chain B: E.140, F.230, N.254, Y.256, P.522, D.523 Ligands: GOL.24 Ligand excluded by PLIP GOL.18: 9 residues within 4Å: Chain B: D.229, V.443, F.444, Q.445, P.522, D.523, N.524 Ligands: GOL.20, GOL.24 Ligand excluded by PLIP GOL.19: 3 residues within 4Å: Chain B: A.191, K.195, Y.203 Ligand excluded by PLIP GOL.20: 6 residues within 4Å: Chain B: D.229, V.443, Q.445, Y.446, N.524 Ligands: GOL.18 Ligand excluded by PLIP GOL.21: 6 residues within 4Å: Chain B: R.116, Y.119, W.534, A.537, R.541 Ligands: GOL.28 Ligand excluded by PLIP GOL.22: 5 residues within 4Å: Chain B: R.188, W.237, D.238, S.255, W.258 Ligand excluded by PLIP GOL.23: 1 residues within 4Å: Chain B: R.541 Ligand excluded by PLIP GOL.24: 5 residues within 4Å: Chain B: D.229, F.230, P.522 Ligands: GOL.17, GOL.18 Ligand excluded by PLIP GOL.25: 4 residues within 4Å: Chain B: F.219, K.296, R.297, L.298 Ligand excluded by PLIP GOL.26: 9 residues within 4Å: Chain B: D.142, Y.145, H.185, F.227, F.253, Q.257, D.289, R.525 Ligands: TRS.15 Ligand excluded by PLIP GOL.27: 7 residues within 4Å: Chain B: R.287, E.331, Y.357, N.359, Y.396, C.399, H.400 Ligand excluded by PLIP GOL.28: 5 residues within 4Å: Chain B: V.540, R.541, N.552, R.556 Ligands: GOL.21 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guerin, F. et al., Structural Investigation of the Thermostability and Product Specificity of Amylosucrase from the Bacterium Deinococcus geothermalis. J.Biol.Chem. (2012)

Release Date

2012-01-11

Peptides

Amylosucrase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Amylosucrase

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