SMTL ID : 2bq1.1

Ribonucleotide reductase class 1b holocomplex R1E,R2F from Salmonella typhimurium

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.99 Å

Oligo State

hetero-2-2-mer

Ligands

2 x DGT: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

DGT.1: 13 residues within 4Å: Chain A: D.185, N.186, M.187, I.190, L.214, R.215, I.221, K.222 Chain B: K.202, Y.244, A.245, N.246 Ligands: MG.2 11 PLIP interactions: 7 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:I.190 Hydrogen bonds: A:D.185, A:M.187, A:R.215, A:K.222, B:Y.244, B:Y.244, B:N.246 Salt bridges: A:R.215, A:K.222 pi-Cation interactions: B:Y.244 DGT.3: 13 residues within 4Å: Chain A: K.202, Y.244, N.246 Chain B: D.185, N.186, M.187, I.190, L.214, R.215, I.221, K.222, S.229 Ligands: MG.4 9 PLIP interactions: 6 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:D.185, B:M.187, B:K.222, B:S.229, A:Y.244, A:N.246 Salt bridges: B:R.215, B:K.222 pi-Cation interactions: A:Y.244

2 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 1 residues within 4Å: Ligands: DGT.1 No protein-ligand interaction detected (PLIP) MG.4: 1 residues within 4Å: Ligands: DGT.3 No protein-ligand interaction detected (PLIP)

4 x FE: FE (III) ION(Non-covalent)

FE.5: 6 residues within 4Å: Chain C: D.67, E.98, H.101, F.162, E.192 Ligands: FE.6 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:D.67, C:E.98, C:H.101, C:E.192, C:E.192 FE.6: 5 residues within 4Å: Chain C: E.98, E.158, E.192, H.195 Ligands: FE.5 5 PLIP interactions: 5 interactions with chain C Metal complexes: C:E.98, C:E.158, C:E.158, C:E.192, C:H.195 FE.7: 5 residues within 4Å: Chain D: D.67, E.98, H.101, E.192 Ligands: FE.8 5 PLIP interactions: 5 interactions with chain D Metal complexes: D:D.67, D:E.98, D:H.101, D:E.192, D:E.192 FE.8: 6 residues within 4Å: Chain D: Q.70, E.98, E.158, E.192, H.195 Ligands: FE.7 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:E.98, D:E.158, D:E.158, D:H.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Uppsten, M. et al., The First Holocomplex Structure of Ribonucleotide Reductase Gives New Insight Into its Mechanism of Action. J.Mol.Biol. (2006)

Release Date

2006-05-17

Peptides

RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE 2 ALPHA SUBUNIT: AB
RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE 2 BETA SUBUNIT: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
I

D
J

RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE 2 ALPHA SUBUNIT

RIBONUCLEOSIDE-DIPHOSPHATE REDUCTASE 2 BETA SUBUNIT

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