SMTL ID : 4fi4.1 (1 other biounit)

Crystal structure of mannonate dehydratase PRK15072 (TARGET EFI-502214) from Caulobacter sp. K31

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-octamer

Ligands

8 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: D.233, E.259, E.285, R.306 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.233, A:E.259, A:E.285, H2O.1, H2O.12, H2O.12 MG.9: 4 residues within 4Å: Chain B: D.233, E.259, E.285, R.306 6 PLIP interactions: 3 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.233, B:E.259, B:E.285, H2O.12, H2O.24, H2O.24 MG.17: 4 residues within 4Å: Chain C: D.233, E.259, E.285, R.306 6 PLIP interactions: 3 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:D.233, C:E.259, C:E.285, H2O.24, H2O.36, H2O.36 MG.25: 4 residues within 4Å: Chain D: D.233, E.259, E.285, R.306 6 PLIP interactions: 3 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:D.233, D:E.259, D:E.285, H2O.36, H2O.48, H2O.48 MG.33: 4 residues within 4Å: Chain E: D.233, E.259, E.285, R.306 6 PLIP interactions: 3 interactions with chain E, 3 Ligand-Water interactions Metal complexes: E:D.233, E:E.259, E:E.285, H2O.48, H2O.60, H2O.60 MG.41: 4 residues within 4Å: Chain F: D.233, E.259, E.285, R.306 6 PLIP interactions: 3 interactions with chain F, 3 Ligand-Water interactions Metal complexes: F:D.233, F:E.259, F:E.285, H2O.60, H2O.72, H2O.72 MG.49: 4 residues within 4Å: Chain G: D.233, E.259, E.285, R.306 6 PLIP interactions: 3 interactions with chain G, 3 Ligand-Water interactions Metal complexes: G:D.233, G:E.259, G:E.285, H2O.72, H2O.83, H2O.84 MG.57: 4 residues within 4Å: Chain H: D.233, E.259, E.285, R.306 6 PLIP interactions: 3 interactions with chain H, 3 Ligand-Water interactions Metal complexes: H:D.233, H:E.259, H:E.285, H2O.84, H2O.95, H2O.95

32 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 11 residues within 4Å: Chain A: N.60, Y.182, H.235, E.285, H.335, A.337, D.339, L.412, W.425 Chain F: Y.98, W.99 Ligand excluded by PLIP GOL.4: 5 residues within 4Å: Chain A: R.254, L.255, P.280 Chain D: L.210, E.242 Ligand excluded by PLIP GOL.6: 8 residues within 4Å: Chain A: P.263, E.265, N.266 Chain C: D.326, L.327, H.328, H.329 Chain F: W.291 Ligand excluded by PLIP GOL.7: 6 residues within 4Å: Chain A: Y.363, D.371, H.376, Y.378, S.379, Y.380 Ligand excluded by PLIP GOL.10: 11 residues within 4Å: Chain B: N.60, Y.182, H.235, E.285, H.335, A.337, D.339, L.412, W.425 Chain E: Y.98, W.99 Ligand excluded by PLIP GOL.12: 5 residues within 4Å: Chain B: R.254, L.255, P.280 Chain C: L.210, E.242 Ligand excluded by PLIP GOL.14: 8 residues within 4Å: Chain B: P.263, E.265, N.266 Chain D: D.326, L.327, H.328, H.329 Chain E: W.291 Ligand excluded by PLIP GOL.15: 6 residues within 4Å: Chain B: Y.363, D.371, H.376, Y.378, S.379, Y.380 Ligand excluded by PLIP GOL.18: 11 residues within 4Å: Chain C: N.60, Y.182, H.235, E.285, H.335, A.337, D.339, L.412, W.425 Chain G: Y.98, W.99 Ligand excluded by PLIP GOL.20: 5 residues within 4Å: Chain A: L.210, E.242 Chain C: R.254, L.255, P.280 Ligand excluded by PLIP GOL.22: 8 residues within 4Å: Chain B: D.326, L.327, H.328, H.329 Chain C: P.263, E.265, N.266 Chain G: W.291 Ligand excluded by PLIP GOL.23: 6 residues within 4Å: Chain C: Y.363, D.371, H.376, Y.378, S.379, Y.380 Ligand excluded by PLIP GOL.26: 11 residues within 4Å: Chain D: N.60, Y.182, H.235, E.285, H.335, A.337, D.339, L.412, W.425 Chain H: Y.98, W.99 Ligand excluded by PLIP GOL.28: 5 residues within 4Å: Chain B: L.210, E.242 Chain D: R.254, L.255, P.280 Ligand excluded by PLIP GOL.30: 8 residues within 4Å: Chain A: D.326, L.327, H.328, H.329 Chain D: P.263, E.265, N.266 Chain H: W.291 Ligand excluded by PLIP GOL.31: 6 residues within 4Å: Chain D: Y.363, D.371, H.376, Y.378, S.379, Y.380 Ligand excluded by PLIP GOL.34: 11 residues within 4Å: Chain B: Y.98, W.99 Chain E: N.60, Y.182, H.235, E.285, H.335, A.337, D.339, L.412, W.425 Ligand excluded by PLIP GOL.36: 5 residues within 4Å: Chain E: R.254, L.255, P.280 Chain H: L.210, E.242 Ligand excluded by PLIP GOL.38: 8 residues within 4Å: Chain B: W.291 Chain E: P.263, E.265, N.266 Chain G: D.326, L.327, H.328, H.329 Ligand excluded by PLIP GOL.39: 6 residues within 4Å: Chain E: Y.363, D.371, H.376, Y.378, S.379, Y.380 Ligand excluded by PLIP GOL.42: 11 residues within 4Å: Chain A: Y.98, W.99 Chain F: N.60, Y.182, H.235, E.285, H.335, A.337, D.339, L.412, W.425 Ligand excluded by PLIP GOL.44: 5 residues within 4Å: Chain F: R.254, L.255, P.280 Chain G: L.210, E.242 Ligand excluded by PLIP GOL.46: 8 residues within 4Å: Chain A: W.291 Chain F: P.263, E.265, N.266 Chain H: D.326, L.327, H.328, H.329 Ligand excluded by PLIP GOL.47: 6 residues within 4Å: Chain F: Y.363, D.371, H.376, Y.378, S.379, Y.380 Ligand excluded by PLIP GOL.50: 11 residues within 4Å: Chain C: Y.98, W.99 Chain G: N.60, Y.182, H.235, E.285, H.335, A.337, D.339, L.412, W.425 Ligand excluded by PLIP GOL.52: 5 residues within 4Å: Chain E: L.210, E.242 Chain G: R.254, L.255, P.280 Ligand excluded by PLIP GOL.54: 8 residues within 4Å: Chain C: W.291 Chain F: D.326, L.327, H.328, H.329 Chain G: P.263, E.265, N.266 Ligand excluded by PLIP GOL.55: 6 residues within 4Å: Chain G: Y.363, D.371, H.376, Y.378, S.379, Y.380 Ligand excluded by PLIP GOL.58: 11 residues within 4Å: Chain D: Y.98, W.99 Chain H: N.60, Y.182, H.235, E.285, H.335, A.337, D.339, L.412, W.425 Ligand excluded by PLIP GOL.60: 5 residues within 4Å: Chain F: L.210, E.242 Chain H: R.254, L.255, P.280 Ligand excluded by PLIP GOL.62: 8 residues within 4Å: Chain D: W.291 Chain E: D.326, L.327, H.328, H.329 Chain H: P.263, E.265, N.266 Ligand excluded by PLIP GOL.63: 6 residues within 4Å: Chain H: Y.363, D.371, H.376, Y.378, S.379, Y.380 Ligand excluded by PLIP

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

CL.3: 3 residues within 4Å: Chain A: K.30, V.31, R.71 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain A: T.150, I.151, H.212 Ligand excluded by PLIP CL.8: 7 residues within 4Å: Chain A: G.102, P.103, V.104 Chain F: G.102, P.103, V.104 Ligands: CL.48 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain B: K.30, V.31, R.71 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain B: T.150, I.151, H.212 Ligand excluded by PLIP CL.16: 7 residues within 4Å: Chain B: G.102, P.103, V.104 Chain E: G.102, P.103, V.104 Ligands: CL.40 Ligand excluded by PLIP CL.19: 3 residues within 4Å: Chain C: K.30, V.31, R.71 Ligand excluded by PLIP CL.21: 3 residues within 4Å: Chain C: T.150, I.151, H.212 Ligand excluded by PLIP CL.24: 7 residues within 4Å: Chain C: G.102, P.103, V.104 Chain G: G.102, P.103, V.104 Ligands: CL.56 Ligand excluded by PLIP CL.27: 3 residues within 4Å: Chain D: K.30, V.31, R.71 Ligand excluded by PLIP CL.29: 3 residues within 4Å: Chain D: T.150, I.151, H.212 Ligand excluded by PLIP CL.32: 7 residues within 4Å: Chain D: G.102, P.103, V.104 Chain H: G.102, P.103, V.104 Ligands: CL.64 Ligand excluded by PLIP CL.35: 3 residues within 4Å: Chain E: K.30, V.31, R.71 Ligand excluded by PLIP CL.37: 3 residues within 4Å: Chain E: T.150, I.151, H.212 Ligand excluded by PLIP CL.40: 7 residues within 4Å: Chain B: G.102, P.103, V.104 Chain E: G.102, P.103, V.104 Ligands: CL.16 Ligand excluded by PLIP CL.43: 3 residues within 4Å: Chain F: K.30, V.31, R.71 Ligand excluded by PLIP CL.45: 3 residues within 4Å: Chain F: T.150, I.151, H.212 Ligand excluded by PLIP CL.48: 7 residues within 4Å: Chain A: G.102, P.103, V.104 Chain F: G.102, P.103, V.104 Ligands: CL.8 Ligand excluded by PLIP CL.51: 3 residues within 4Å: Chain G: K.30, V.31, R.71 Ligand excluded by PLIP CL.53: 3 residues within 4Å: Chain G: T.150, I.151, H.212 Ligand excluded by PLIP CL.56: 7 residues within 4Å: Chain C: G.102, P.103, V.104 Chain G: G.102, P.103, V.104 Ligands: CL.24 Ligand excluded by PLIP CL.59: 3 residues within 4Å: Chain H: K.30, V.31, R.71 Ligand excluded by PLIP CL.61: 3 residues within 4Å: Chain H: T.150, I.151, H.212 Ligand excluded by PLIP CL.64: 7 residues within 4Å: Chain D: G.102, P.103, V.104 Chain H: G.102, P.103, V.104 Ligands: CL.32 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patskovsky, Y. et al., Crystal Structure of Enolase Prk15072 (Target Efi-502214) from Caulobacter Sp. K31. To be Published

Release Date

2012-06-27

Peptides

Mandelate racemase/muconate lactonizing protein: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

G
A

H
A

Mandelate racemase/muconate lactonizing protein

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