SMTL ID : 3re3.2 (2 other biounits)

Crystal Structure of 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase from Francisella tularensis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.64 Å

Oligo State

homo-trimer

Ligands

1 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.1: 10 residues within 4Å: Chain A: D.13, V.14, H.15, D.42, G.43, V.45, H.48 Chain B: T.138, T.139, E.141 8 PLIP interactions: 5 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:D.13, A:V.14, B:E.141 Water bridges: A:D.44, B:T.139, B:T.139 Salt bridges: A:H.48, A:H.48

2 x NA: SODIUM ION(Non-functional Binders)

NA.2: 7 residues within 4Å: Chain A: N.99, I.100, Q.132, N.134 Chain C: R.7, G.56, A.57 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain A Hydrogen bonds: C:R.7, C:A.57, A:N.99, A:I.100, A:N.134 NA.5: 8 residues within 4Å: Chain B: R.7, G.56, A.57 Chain C: N.99, I.100, S.131, Q.132, N.134 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:N.99, C:I.100, C:I.100, C:N.134, B:G.59

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 7 residues within 4Å: Chain A: Y.12, H.155 Chain B: Y.12, H.155 Chain C: Y.12, H.155 Ligands: MPD.4 6 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: A:Y.12, B:Y.12, C:Y.12 Salt bridges: A:H.155, B:H.155, C:H.155 PO4.7: 9 residues within 4Å: Chain A: G.144, F.145, R.148 Chain B: G.144, R.148 Chain C: G.144, F.145, R.148 Ligands: MPD.4 7 PLIP interactions: 3 interactions with chain C, 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: C:F.145, A:F.145, B:F.145 Water bridges: C:R.148 Salt bridges: C:R.148, A:R.148, B:R.148

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.4: 7 residues within 4Å: Chain A: G.144, F.145 Chain B: G.144, F.145 Chain C: F.145 Ligands: PO4.3, PO4.7 6 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C, 2 interactions with chain B Hydrophobic interactions: A:F.145, C:F.145, B:F.145, B:F.145 Hydrogen bonds: A:F.145 Water bridges: A:L.143 MPD.6: 6 residues within 4Å: Chain B: D.13, V.14, H.48 Chain C: T.138, T.139, E.141 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:D.13, B:V.14, C:T.139, C:T.139

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

CL.8: 2 residues within 4Å: Chain C: D.13, H.48 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase from Francisella tularensis. To be Published

Release Date

2011-04-27

Peptides

2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

C
D

2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

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