SMTL ID : 3eu8.4 (3 other biounits)

Crystal structure of putative glucoamylase (YP_210071.1) from Bacteroides fragilis NCTC 9343 at 2.12 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.12 Å

Oligo State

monomer

Ligands

1 x K: POTASSIUM ION(Non-covalent)

K.1: 2 residues within 4Å: Chain A: S.11, T.14 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.11, A:T.14

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

EDO.2: 4 residues within 4Å: Chain A: E.245, H.247, E.284, N.287 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:H.247, A:E.284 Water bridges: A:E.245, A:E.284 EDO.3: 5 residues within 4Å: Chain A: V.271, V.346, Y.402, W.408 Ligands: EDO.8 No protein-ligand interaction detected (PLIP) EDO.4: 4 residues within 4Å: Chain A: E.93, K.94, G.97, R.162 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.97, A:R.162, A:R.162 EDO.5: 5 residues within 4Å: Chain A: E.86, L.89, S.153, E.155, E.156 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.86, A:E.86, A:S.153 EDO.6: 7 residues within 4Å: Chain A: G.305, Y.306, G.307, P.308, D.309, C.310, H.358 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.307, A:D.309, A:C.310, A:H.358 EDO.7: 5 residues within 4Å: Chain A: D.18, D.350, L.353, Q.354, H.357 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.350, A:D.350, A:Q.354, A:H.357 EDO.8: 4 residues within 4Å: Chain A: V.271, F.282 Ligands: EDO.3, EDO.10 No protein-ligand interaction detected (PLIP) EDO.9: 3 residues within 4Å: Chain A: M.50, P.369, Y.370 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.370 Water bridges: A:Y.370 EDO.10: 6 residues within 4Å: Chain A: V.271, G.272, S.280, F.282, N.283 Ligands: EDO.8 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.272 Water bridges: A:P.279, A:K.429 EDO.11: 7 residues within 4Å: Chain A: E.254, A.255, G.256, G.326, P.327, L.328, D.331 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.254, A:A.255, A:A.255, A:D.331, A:D.331 Water bridges: A:R.330 EDO.12: 3 residues within 4Å: Chain A: T.24, R.28, Y.360 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.28 Water bridges: A:R.27, A:R.27 EDO.13: 1 residues within 4Å: Chain A: E.53 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.53 EDO.14: 5 residues within 4Å: Chain A: E.46, R.47, A.56, Y.317, L.388 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.46, A:R.47 EDO.15: 4 residues within 4Å: Chain A: W.185, N.203, E.204, W.260 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.203

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of putative glucoamylase (YP_210071.1) from Bacteroides fragilis NCTC 9343 at 2.12 A resolution. To be published

Release Date

2008-10-21

Peptides

putative glucoamylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

putative glucoamylase

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