SMTL ID : 1tzf.1

X-ray Crystal Structure of alpha-D-glucose-1-phosphate cytidylyltransferase from Salmonella typhi

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-hexamer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: K.25, D.131, D.236 Ligands: C5G.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.131, A:D.236, H2O.7, H2O.7 MG.3: 4 residues within 4Å: Chain B: K.25, D.131, D.236 Ligands: C5G.4 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.131, B:D.236, H2O.13, H2O.13 MG.5: 4 residues within 4Å: Chain C: K.25, D.131, D.236 Ligands: C5G.6 4 PLIP interactions: 2 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.131, C:D.236, H2O.19, H2O.19 MG.7: 4 residues within 4Å: Chain D: K.25, D.131, D.236 Ligands: C5G.8 4 PLIP interactions: 2 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.131, D:D.236, H2O.25, H2O.25 MG.9: 4 residues within 4Å: Chain E: K.25, D.131, D.236 Ligands: C5G.10 4 PLIP interactions: 2 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:D.131, E:D.236, H2O.32, H2O.32 MG.11: 4 residues within 4Å: Chain F: K.25, D.131, D.236 Ligands: C5G.12 4 PLIP interactions: 2 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:D.131, F:D.236, H2O.38, H2O.38

6 x C5G: [CYTIDINE-5'-PHOSPHATE]-BETA-GLUCOSYL-PHOSPHORIC ACID ESTER(Non-covalent)

C5G.2: 24 residues within 4Å: Chain A: L.8, A.9, G.10, G.11, K.25, P.26, S.106, M.107, T.108, R.111, Y.129, G.130, D.131, N.188, E.210, W.232, P.234, D.236 Chain F: F.163, G.164, F.176, E.178, K.179 Ligands: MG.1 18 PLIP interactions: 14 interactions with chain A, 4 interactions with chain F Hydrophobic interactions: A:T.108 Hydrogen bonds: A:G.10, A:G.10, A:S.106, A:R.111, A:G.130, A:N.188, A:N.188, A:E.210, A:D.236, F:G.164, F:E.178 Water bridges: A:G.11, A:K.25, A:T.108 Salt bridges: A:K.25, F:K.179, F:K.179 C5G.4: 24 residues within 4Å: Chain B: L.8, A.9, G.10, G.11, K.25, P.26, S.106, M.107, T.108, R.111, Y.129, G.130, D.131, N.188, E.210, W.232, P.234, D.236 Chain E: F.163, G.164, F.176, E.178, K.179 Ligands: MG.3 18 PLIP interactions: 14 interactions with chain B, 4 interactions with chain E Hydrophobic interactions: B:T.108 Hydrogen bonds: B:G.10, B:G.10, B:S.106, B:R.111, B:G.130, B:N.188, B:N.188, B:E.210, B:D.236, E:G.164, E:E.178 Water bridges: B:G.11, B:K.25, B:T.108 Salt bridges: B:K.25, E:K.179, E:K.179 C5G.6: 24 residues within 4Å: Chain C: L.8, A.9, G.10, G.11, K.25, P.26, S.106, M.107, T.108, R.111, Y.129, G.130, D.131, N.188, E.210, W.232, P.234, D.236 Chain D: F.163, G.164, F.176, E.178, K.179 Ligands: MG.5 18 PLIP interactions: 14 interactions with chain C, 4 interactions with chain D Hydrophobic interactions: C:T.108 Hydrogen bonds: C:G.10, C:G.10, C:S.106, C:R.111, C:G.130, C:N.188, C:N.188, C:E.210, C:D.236, D:G.164, D:E.178 Water bridges: C:G.11, C:K.25, C:T.108 Salt bridges: C:K.25, D:K.179, D:K.179 C5G.8: 24 residues within 4Å: Chain C: F.163, G.164, F.176, E.178, K.179 Chain D: L.8, A.9, G.10, G.11, K.25, P.26, S.106, M.107, T.108, R.111, Y.129, G.130, D.131, N.188, E.210, W.232, P.234, D.236 Ligands: MG.7 19 PLIP interactions: 15 interactions with chain D, 4 interactions with chain C Hydrophobic interactions: D:T.108 Hydrogen bonds: D:G.10, D:G.10, D:S.106, D:R.111, D:Y.129, D:G.130, D:N.188, D:N.188, D:E.210, D:D.236, C:G.164, C:E.178 Water bridges: D:G.11, D:K.25, D:T.108 Salt bridges: D:K.25, C:K.179, C:K.179 C5G.10: 24 residues within 4Å: Chain B: F.163, G.164, F.176, E.178, K.179 Chain E: L.8, A.9, G.10, G.11, K.25, P.26, S.106, M.107, T.108, R.111, Y.129, G.130, D.131, N.188, E.210, W.232, P.234, D.236 Ligands: MG.9 19 PLIP interactions: 15 interactions with chain E, 4 interactions with chain B Hydrophobic interactions: E:T.108 Hydrogen bonds: E:G.10, E:G.10, E:S.106, E:R.111, E:Y.129, E:G.130, E:N.188, E:N.188, E:E.210, E:D.236, B:G.164, B:E.178 Water bridges: E:G.11, E:K.25, E:T.108 Salt bridges: E:K.25, B:K.179, B:K.179 C5G.12: 24 residues within 4Å: Chain A: F.163, G.164, F.176, E.178, K.179 Chain F: L.8, A.9, G.10, G.11, K.25, P.26, S.106, M.107, T.108, R.111, Y.129, G.130, D.131, N.188, E.210, W.232, P.234, D.236 Ligands: MG.11 19 PLIP interactions: 15 interactions with chain F, 4 interactions with chain A Hydrophobic interactions: F:T.108 Hydrogen bonds: F:G.10, F:G.10, F:S.106, F:R.111, F:Y.129, F:G.130, F:N.188, F:N.188, F:E.210, F:D.236, A:G.164, A:E.178 Water bridges: F:G.11, F:K.25, F:T.108 Salt bridges: F:K.25, A:K.179, A:K.179

Links

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Citation

Koropatkin, N.M. et al., Molecular structure of alpha-D-glucose-1-phosphate cytidylyltransferase from Salmonella typhi. J.Biol.Chem. (2004)

Release Date

2004-09-07

Peptides

Glucose-1-phosphate cytidylyltransferase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Glucose-1-phosphate cytidylyltransferase

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