SMTL ID : 4jcl.1

Crystal structure of Alpha-CGT from Paenibacillus macerans at 1.7 Angstrom resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

4 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.27, D.29, N.32, N.33, G.51, D.53 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.27, A:D.29, A:G.51, A:D.53, H2O.2 CA.2: 1 residues within 4Å: Chain A: N.62 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:N.62, H2O.11, H2O.11 CA.3: 4 residues within 4Å: Chain A: N.139, I.190, D.199, H.233 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:I.190, A:D.199, A:H.233, H2O.10, H2O.10 CA.4: 4 residues within 4Å: Chain A: D.264, E.289, E.292, E.299 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.264, A:E.292, A:E.299, H2O.2, H2O.3

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 2 residues within 4Å: Chain A: F.426, G.427 Ligand excluded by PLIP CL.6: 4 residues within 4Å: Chain A: P.403, T.494, A.495, R.521 Ligand excluded by PLIP CL.7: 1 residues within 4Å: Chain A: I.542 Ligand excluded by PLIP CL.8: 1 residues within 4Å: Chain A: T.124 Ligand excluded by PLIP

9 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 8 residues within 4Å: Chain A: I.190, Y.191, P.235, F.236, G.237, Y.627, Y.639, D.640 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.191, A:F.236, A:G.237, A:D.640, A:D.640 Water bridges: A:M.234 GOL.10: 7 residues within 4Å: Chain A: K.212, I.215, D.216, S.245, I.246, G.249, H.251 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.245 Water bridges: A:I.246, A:G.249, A:D.250, A:D.250 GOL.11: 9 residues within 4Å: Chain A: Y.100, H.140, L.194, Y.195, L.197, D.229, A.230 Ligands: GOL.16, EDO.20 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.229 GOL.12: 5 residues within 4Å: Chain A: E.81, Q.107, T.108, D.110 Ligands: GOL.13 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.81, A:T.108 Water bridges: A:T.108, A:D.110 GOL.13: 7 residues within 4Å: Chain A: E.81, R.103, D.104, Q.107, Y.158, G.161 Ligands: GOL.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.104, A:D.104 GOL.14: 4 residues within 4Å: Chain A: A.144, D.145, F.151, D.196 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.145, A:D.196, A:D.196 GOL.15: 6 residues within 4Å: Chain A: T.67, G.70, V.71, T.72, H.128, N.129 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.71 GOL.16: 8 residues within 4Å: Chain A: K.47, N.94, H.98, W.101, D.372, R.376 Ligands: GOL.11, EDO.20 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.47, A:N.94, A:H.98, A:W.101, A:D.372, A:R.376, A:R.376 GOL.17: 3 residues within 4Å: Chain A: D.29, D.114, D.117 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.31, A:D.114, A:D.117 Water bridges: A:T.31, A:N.32

10 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.18: 9 residues within 4Å: Chain A: Q.19, V.21, W.75, S.77, H.98, Y.100, D.135, R.227, H.328 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.19, A:W.75, A:R.227 Water bridges: A:Q.78 EDO.19: 5 residues within 4Å: Chain A: K.106, D.159, A.209, Y.210, S.213 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.106, A:K.106, A:S.213 EDO.20: 7 residues within 4Å: Chain A: Y.89, W.101, D.196, L.197 Ligands: GOL.11, GOL.16, EDO.27 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.89 EDO.21: 4 residues within 4Å: Chain A: N.275, E.276, D.316, K.561 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.276, A:E.276 Water bridges: A:N.275 EDO.22: 5 residues within 4Å: Chain A: Q.334, V.335, A.336, G.337, S.338 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.337, A:S.338 EDO.23: 3 residues within 4Å: Chain A: Q.629 Ligands: EDO.24, PEG.29 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.628, A:N.628, A:N.628 EDO.24: 4 residues within 4Å: Chain A: Q.629, K.633, Y.634 Ligands: EDO.23 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.629 EDO.25: 2 residues within 4Å: Chain A: N.62 Ligands: EDO.26 No protein-ligand interaction detected (PLIP) EDO.26: 5 residues within 4Å: Chain A: Q.55, I.58, D.59, N.120 Ligands: EDO.25 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.55, A:D.59, A:N.120 Water bridges: A:N.62 EDO.27: 1 residues within 4Å: Ligands: EDO.20 No protein-ligand interaction detected (PLIP)

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.28: 4 residues within 4Å: Chain A: E.412, R.413, W.414, V.415 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.415 PEG.29: 8 residues within 4Å: Chain A: T.599, N.600, Y.601, G.602, T.603, N.604, Y.634 Ligands: EDO.23 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.599, A:G.602 Water bridges: A:N.628

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.30: 5 residues within 4Å: Chain A: K.302, V.415, N.416, N.417, Y.443 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.302, A:V.415, A:N.417, A:N.417, A:Y.443

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, L. et al., Crystal Structure of Alpha-Cgt from Paenibacillus Macerans at 1.7 Angstrom Resolution. To be Published

Release Date

2014-02-26

Peptides

Cyclomaltodextrin glucanotransferase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cyclomaltodextrin glucanotransferase