SMTL ID : 4c21.1

L-Fucose Isomerase In Complex With Fucitol

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-hexamer

Ligands

6 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 6 residues within 4Å: Chain A: E.352, D.376, N.407, S.408, H.542 Ligands: FOC.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.376, A:D.376, A:H.542 MN.8: 6 residues within 4Å: Chain B: E.352, D.376, S.408, N.541, H.542 Ligands: FOC.9 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.376, B:D.376, B:H.542, H2O.22 MN.21: 6 residues within 4Å: Chain C: E.352, D.376, N.407, S.408, H.542 Ligands: FOC.22 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.376, C:D.376, C:H.542 MN.28: 6 residues within 4Å: Chain D: E.352, D.376, S.408, N.541, H.542 Ligands: FOC.29 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:D.376, D:D.376, D:H.542, H2O.48 MN.41: 6 residues within 4Å: Chain E: E.352, D.376, N.407, S.408, H.542 Ligands: FOC.42 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:D.376, E:D.376, E:H.542 MN.48: 6 residues within 4Å: Chain F: E.352, D.376, S.408, N.541, H.542 Ligands: FOC.49 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:D.376, F:D.376, F:H.542, H2O.74

6 x FOC: FUCITOL(Non-covalent)

FOC.2: 13 residues within 4Å: Chain A: M.200, Q.317, E.352, D.376, S.408, Y.454, N.541, H.542 Chain C: R.33, W.105, P.131, V.134 Ligands: MN.1 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:Y.454 Hydrogen bonds: A:Q.317, A:S.408, A:S.408, A:N.541, C:R.33, C:R.33, C:W.105 FOC.9: 13 residues within 4Å: Chain B: M.200, I.202, Q.317, E.352, D.376, S.408, Y.454, N.541, H.542 Chain F: R.33, W.105, P.131 Ligands: MN.8 9 PLIP interactions: 3 interactions with chain F, 6 interactions with chain B Hydrogen bonds: F:R.33, F:R.33, F:W.105, B:Q.317, B:E.352, B:S.408, B:N.541 Hydrophobic interactions: B:Y.454 Water bridges: B:S.408 FOC.22: 13 residues within 4Å: Chain C: M.200, Q.317, E.352, D.376, S.408, Y.454, N.541, H.542 Chain E: R.33, W.105, P.131, V.134 Ligands: MN.21 8 PLIP interactions: 5 interactions with chain C, 3 interactions with chain E Hydrophobic interactions: C:Y.454 Hydrogen bonds: C:Q.317, C:S.408, C:S.408, C:N.541, E:R.33, E:R.33, E:W.105 FOC.29: 13 residues within 4Å: Chain B: R.33, W.105, P.131 Chain D: M.200, I.202, Q.317, E.352, D.376, S.408, Y.454, N.541, H.542 Ligands: MN.28 9 PLIP interactions: 6 interactions with chain D, 3 interactions with chain B Hydrophobic interactions: D:Y.454 Hydrogen bonds: D:Q.317, D:E.352, D:S.408, D:N.541, B:R.33, B:R.33, B:W.105 Water bridges: D:S.408 FOC.42: 13 residues within 4Å: Chain A: R.33, W.105, P.131, V.134 Chain E: M.200, Q.317, E.352, D.376, S.408, Y.454, N.541, H.542 Ligands: MN.41 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain E Hydrogen bonds: A:R.33, A:R.33, A:W.105, E:Q.317, E:S.408, E:S.408, E:N.541 Hydrophobic interactions: E:Y.454 FOC.49: 13 residues within 4Å: Chain D: R.33, W.105, P.131 Chain F: M.200, I.202, Q.317, E.352, D.376, S.408, Y.454, N.541, H.542 Ligands: MN.48 9 PLIP interactions: 6 interactions with chain F, 3 interactions with chain D Hydrophobic interactions: F:Y.454 Hydrogen bonds: F:Q.317, F:E.352, F:S.408, F:N.541, D:R.33, D:R.33, D:W.105 Water bridges: F:S.408

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

EDO.3: 7 residues within 4Å: Chain A: N.208, D.210, F.211, E.214, Y.215, L.479, G.484 Ligand excluded by PLIP EDO.4: 6 residues within 4Å: Chain A: N.536 Chain C: L.136, A.137, L.140, G.152, K.579 Ligand excluded by PLIP EDO.5: 4 residues within 4Å: Chain A: H.568, E.572, L.589 Chain C: E.587 Ligand excluded by PLIP EDO.6: 3 residues within 4Å: Chain A: Y.493, R.521, H.549 Ligand excluded by PLIP EDO.7: 3 residues within 4Å: Chain A: R.452, R.456 Chain B: R.234 Ligand excluded by PLIP EDO.10: 10 residues within 4Å: Chain B: I.555, A.558, S.559, I.563, P.564, V.565, R.577, W.581, D.593, C.597 Ligand excluded by PLIP EDO.11: 4 residues within 4Å: Chain B: R.188, D.189, H.604 Chain C: P.116 Ligand excluded by PLIP EDO.12: 10 residues within 4Å: Chain A: M.225, T.226, T.229, W.320, F.324 Chain B: M.225, T.226, T.229, W.320, F.324 Ligand excluded by PLIP EDO.13: 7 residues within 4Å: Chain B: N.208, D.210, F.211, E.214, Y.215, L.479, G.484 Ligand excluded by PLIP EDO.14: 6 residues within 4Å: Chain B: N.536 Chain F: L.136, A.137, L.140, G.152, K.579 Ligand excluded by PLIP EDO.15: 6 residues within 4Å: Chain B: E.172, K.173, R.176, E.573, D.574, F.576 Ligand excluded by PLIP EDO.16: 8 residues within 4Å: Chain B: V.377, M.535, W.538, A.540, N.541 Chain F: A.133, V.134, A.137 Ligand excluded by PLIP EDO.17: 2 residues within 4Å: Chain B: R.521, P.571 Ligand excluded by PLIP EDO.18: 6 residues within 4Å: Chain B: T.59, L.60, K.61, T.368, N.369, W.431 Ligand excluded by PLIP EDO.19: 3 residues within 4Å: Chain B: P.571, E.573, D.574 Ligand excluded by PLIP EDO.20: 3 residues within 4Å: Chain A: R.234 Chain B: R.452, R.456 Ligand excluded by PLIP EDO.23: 7 residues within 4Å: Chain C: N.208, D.210, F.211, E.214, Y.215, L.479, G.484 Ligand excluded by PLIP EDO.24: 6 residues within 4Å: Chain C: N.536 Chain E: L.136, A.137, L.140, G.152, K.579 Ligand excluded by PLIP EDO.25: 4 residues within 4Å: Chain C: H.568, E.572, L.589 Chain E: E.587 Ligand excluded by PLIP EDO.26: 3 residues within 4Å: Chain C: Y.493, R.521, H.549 Ligand excluded by PLIP EDO.27: 3 residues within 4Å: Chain C: R.452, R.456 Chain D: R.234 Ligand excluded by PLIP EDO.30: 10 residues within 4Å: Chain D: I.555, A.558, S.559, I.563, P.564, V.565, R.577, W.581, D.593, C.597 Ligand excluded by PLIP EDO.31: 4 residues within 4Å: Chain D: R.188, D.189, H.604 Chain E: P.116 Ligand excluded by PLIP EDO.32: 10 residues within 4Å: Chain C: M.225, T.226, T.229, W.320, F.324 Chain D: M.225, T.226, T.229, W.320, F.324 Ligand excluded by PLIP EDO.33: 7 residues within 4Å: Chain D: N.208, D.210, F.211, E.214, Y.215, L.479, G.484 Ligand excluded by PLIP EDO.34: 6 residues within 4Å: Chain B: L.136, A.137, L.140, G.152, K.579 Chain D: N.536 Ligand excluded by PLIP EDO.35: 6 residues within 4Å: Chain D: E.172, K.173, R.176, E.573, D.574, F.576 Ligand excluded by PLIP EDO.36: 8 residues within 4Å: Chain B: A.133, V.134, A.137 Chain D: V.377, M.535, W.538, A.540, N.541 Ligand excluded by PLIP EDO.37: 2 residues within 4Å: Chain D: R.521, P.571 Ligand excluded by PLIP EDO.38: 6 residues within 4Å: Chain D: T.59, L.60, K.61, T.368, N.369, W.431 Ligand excluded by PLIP EDO.39: 3 residues within 4Å: Chain D: P.571, E.573, D.574 Ligand excluded by PLIP EDO.40: 3 residues within 4Å: Chain C: R.234 Chain D: R.452, R.456 Ligand excluded by PLIP EDO.43: 7 residues within 4Å: Chain E: N.208, D.210, F.211, E.214, Y.215, L.479, G.484 Ligand excluded by PLIP EDO.44: 6 residues within 4Å: Chain A: L.136, A.137, L.140, G.152, K.579 Chain E: N.536 Ligand excluded by PLIP EDO.45: 4 residues within 4Å: Chain A: E.587 Chain E: H.568, E.572, L.589 Ligand excluded by PLIP EDO.46: 3 residues within 4Å: Chain E: Y.493, R.521, H.549 Ligand excluded by PLIP EDO.47: 3 residues within 4Å: Chain E: R.452, R.456 Chain F: R.234 Ligand excluded by PLIP EDO.50: 10 residues within 4Å: Chain F: I.555, A.558, S.559, I.563, P.564, V.565, R.577, W.581, D.593, C.597 Ligand excluded by PLIP EDO.51: 4 residues within 4Å: Chain A: P.116 Chain F: R.188, D.189, H.604 Ligand excluded by PLIP EDO.52: 10 residues within 4Å: Chain E: M.225, T.226, T.229, W.320, F.324 Chain F: M.225, T.226, T.229, W.320, F.324 Ligand excluded by PLIP EDO.53: 7 residues within 4Å: Chain F: N.208, D.210, F.211, E.214, Y.215, L.479, G.484 Ligand excluded by PLIP EDO.54: 6 residues within 4Å: Chain D: L.136, A.137, L.140, G.152, K.579 Chain F: N.536 Ligand excluded by PLIP EDO.55: 6 residues within 4Å: Chain F: E.172, K.173, R.176, E.573, D.574, F.576 Ligand excluded by PLIP EDO.56: 8 residues within 4Å: Chain D: A.133, V.134, A.137 Chain F: V.377, M.535, W.538, A.540, N.541 Ligand excluded by PLIP EDO.57: 2 residues within 4Å: Chain F: R.521, P.571 Ligand excluded by PLIP EDO.58: 6 residues within 4Å: Chain F: T.59, L.60, K.61, T.368, N.369, W.431 Ligand excluded by PLIP EDO.59: 3 residues within 4Å: Chain F: P.571, E.573, D.574 Ligand excluded by PLIP EDO.60: 3 residues within 4Å: Chain E: R.234 Chain F: R.452, R.456 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Higgins, M.A. et al., Structural and Functional Analysis of Fucose-Processing Enzymes from Streptococcus Pneumoniae. J.Mol.Biol. (2014)

Release Date

2013-12-11

Peptides

L-FUCOSE ISOMERASE: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

L-FUCOSE ISOMERASE