SMTL ID : 3eu8.1 (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: 4 residues within 4Å: Chain A: S.11, T.14, S.15 Ligands: EDO.14 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:S.11, A:T.14

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

EDO.2: 6 residues within 4Å: Chain A: R.27, F.30, N.31, Y.82 Ligands: EDO.3, EDO.4 Ligand excluded by PLIP EDO.3: 3 residues within 4Å: Chain A: G.81, Y.82 Ligands: EDO.2 Ligand excluded by PLIP EDO.4: 4 residues within 4Å: Chain A: R.27, R.28 Ligands: EDO.2, EDO.30 Ligand excluded by PLIP EDO.5: 5 residues within 4Å: Chain A: E.245, H.247, N.283, E.284, N.287 Ligand excluded by PLIP EDO.6: 4 residues within 4Å: Chain A: W.185, N.203, E.204, W.260 Ligand excluded by PLIP EDO.7: 6 residues within 4Å: Chain A: N.40, S.41, K.94, G.97, F.98, K.101 Ligand excluded by PLIP EDO.8: 4 residues within 4Å: Chain A: M.50, P.369, Y.373, K.385 Ligand excluded by PLIP EDO.9: 3 residues within 4Å: Chain A: E.53, P.55, R.386 Ligand excluded by PLIP EDO.10: 5 residues within 4Å: Chain A: V.271, V.346, Y.402, W.408 Ligands: EDO.23 Ligand excluded by PLIP EDO.11: 5 residues within 4Å: Chain A: S.15, L.16, H.357, Y.360, E.361 Ligand excluded by PLIP EDO.12: 6 residues within 4Å: Chain A: G.305, G.307, P.308, D.309, C.310, H.358 Ligand excluded by PLIP EDO.13: 6 residues within 4Å: Chain A: R.85, E.86, L.89, S.153, E.155, E.156 Ligand excluded by PLIP EDO.14: 5 residues within 4Å: Chain A: S.11, S.12, T.14, L.16 Ligands: K.1 Ligand excluded by PLIP EDO.15: 1 residues within 4Å: Chain A: R.168 Ligand excluded by PLIP EDO.16: 2 residues within 4Å: Chain A: E.93, R.162 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain A: K.274, D.275, E.276, G.425, N.427 Ligand excluded by PLIP EDO.18: 4 residues within 4Å: Chain A: D.381, W.382, Y.383 Ligands: EDO.20 Ligand excluded by PLIP EDO.19: 2 residues within 4Å: Chain A: R.176, G.179 Ligand excluded by PLIP EDO.20: 4 residues within 4Å: Chain A: A.380, D.381, W.382 Ligands: EDO.18 Ligand excluded by PLIP EDO.21: 3 residues within 4Å: Chain A: N.287, L.290 Ligands: EDO.22 Ligand excluded by PLIP EDO.22: 4 residues within 4Å: Chain A: N.283, R.286, N.287 Ligands: EDO.21 Ligand excluded by PLIP EDO.23: 6 residues within 4Å: Chain A: F.282, R.286, V.346, Y.347, P.349 Ligands: EDO.10 Ligand excluded by PLIP EDO.24: 4 residues within 4Å: Chain A: D.79, T.404, L.406, K.409 Ligand excluded by PLIP EDO.25: 5 residues within 4Å: Chain A: E.46, R.47, A.56, Y.317, L.388 Ligand excluded by PLIP EDO.26: 5 residues within 4Å: Chain A: K.101, D.103, T.117, G.118, H.119 Ligand excluded by PLIP EDO.27: 4 residues within 4Å: Chain A: R.47, I.61, W.112, F.123 Ligand excluded by PLIP EDO.28: 4 residues within 4Å: Chain A: Q.418, K.422, F.426, N.427 Ligand excluded by PLIP EDO.29: 10 residues within 4Å: Chain A: F.33, G.42, L.43, A.44, S.67, G.70, I.71, I.74, R.91, I.95 Ligand excluded by PLIP EDO.30: 5 residues within 4Å: Chain A: T.24, R.28, Y.360 Ligands: EDO.4, EDO.32 Ligand excluded by PLIP EDO.31: 5 residues within 4Å: Chain A: D.269, W.408, K.409, M.412, K.430 Ligand excluded by PLIP EDO.32: 6 residues within 4Å: Chain A: R.28, D.364, F.367, G.368, P.369 Ligands: EDO.30 Ligand excluded by PLIP

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
A

putative glucoamylase

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