SMTL ID : 1w77.1

2C-methyl-D-erythritol 4-phosphate cytidylyltransferase (IspD) from Arabidopsis thaliana

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x CD: CADMIUM ION(Non-covalent)

CD.1: 2 residues within 4Å: Chain A: E.47, E.117 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.47, A:E.47, A:E.117, A:E.117, H2O.1 CD.7: 2 residues within 4Å: Chain B: E.47, E.117 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.47, B:E.47, B:E.117, B:E.117, H2O.8

8 x CU: COPPER (II) ION(Non-covalent)(Non-functional Binders)

CU.2: 1 residues within 4Å: Chain A: E.93 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.93 CU.3: 2 residues within 4Å: Chain A: E.64, E.67 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:E.64, A:E.64, A:E.67, A:E.67 CU.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CU.5: 2 residues within 4Å: Chain A: T.212, D.216 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.216, A:D.216 CU.8: 1 residues within 4Å: Chain B: E.93 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:E.93 CU.9: 2 residues within 4Å: Chain B: E.64, E.67 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:E.64, B:E.64, B:E.67, B:E.67 CU.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CU.11: 2 residues within 4Å: Chain B: T.212, D.216 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.216, B:D.216

2 x C5P: CYTIDINE-5'-MONOPHOSPHATE(Non-covalent)

C5P.6: 13 residues within 4Å: Chain A: L.10, A.11, G.12, G.13, Q.25, G.80, K.81, E.82, R.83, S.86, D.105, S.106, K.210 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.12, A:G.12, A:Q.25, A:G.80, A:S.86 Salt bridges: A:K.210 C5P.12: 13 residues within 4Å: Chain B: L.10, A.11, G.12, G.13, Q.25, G.80, K.81, E.82, R.83, S.86, D.105, S.106, K.210 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.12, B:G.12, B:Q.25, B:G.80, B:S.86 Salt bridges: B:K.210

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gabrielsen, M. et al., The Crystal Structure of a Plant 2C-Methyl-D-Erythritol 4-Phosphate Cytidylyltransferase Exhibits a Distinct Quaternary Structure Compared to Bacterial Homologues and a Possible Role in Feedback Regulation for Cytidine Monophosphate. FEBS J. (2006)

Release Date

2006-02-21

Peptides

2C-METHYL-D-ERYTHRITOL 4-PHOSPHATE CYTIDYLYLTRANSFERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

2C-METHYL-D-ERYTHRITOL 4-PHOSPHATE CYTIDYLYLTRANSFERASE

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