SMTL ID : 1xjm.1

Structural mechanism of allosteric substrate specificity in a ribonucleotide reductase: dTTP complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

MG.1: 1 residues within 4Å: Ligands: TTP.2 No protein-ligand interaction detected (PLIP) MG.4: 2 residues within 4Å: Chain B: S.142 Ligands: TTP.5 No protein-ligand interaction detected (PLIP)

4 x TTP: THYMIDINE-5'-TRIPHOSPHATE(Non-covalent)

TTP.2: 16 residues within 4Å: Chain A: D.141, S.142, I.143, I.146, R.171, V.177, A.178, G.179, T.180, A.184, S.185, F.190 Chain B: K.158, V.200, V.201 Ligands: MG.1 16 PLIP interactions: 12 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:I.143, A:I.143, A:I.146, A:V.177, A:F.190, B:K.158 Hydrogen bonds: A:D.141, A:I.143, A:A.178, A:G.179, A:S.185, B:V.200 Water bridges: A:E.144 Salt bridges: A:R.171, B:K.158, B:K.158 TTP.3: 16 residues within 4Å: Chain A: R.26, N.90, S.91, P.92, F.95, A.133, N.320, C.322, E.324, L.335, A.489, P.490, T.491, G.492, S.493, I.494 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.91, A:S.91, A:E.324, A:T.491, A:G.492, A:S.493, A:S.493, A:I.494 pi-Cation interactions: A:R.26 TTP.5: 17 residues within 4Å: Chain A: H.127, L.128, K.158, V.201 Chain B: D.141, S.142, I.143, I.146, L.170, R.171, V.177, A.178, G.179, A.184, S.185, F.190 Ligands: MG.4 19 PLIP interactions: 16 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:I.143, B:I.146, B:V.177, B:F.190, A:K.158 Hydrogen bonds: B:D.141, B:I.143, B:R.171, B:A.178, B:G.179, B:S.185 Water bridges: B:S.142, B:E.144, B:K.183, B:S.185, B:G.186 Salt bridges: B:R.171, A:K.158, A:K.158 TTP.6: 13 residues within 4Å: Chain B: R.26, S.91, A.133, N.320, C.322, E.324, L.335, A.489, P.490, T.491, G.492, S.493, I.494 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.26, B:R.26, B:S.91, B:E.324, B:T.491, B:G.492, B:S.493, B:I.494

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Larsson, K.-M. et al., Structural mechanism of allosteric substrate specificity regulation in a ribonucleotide reductase. Nat.Struct.Mol.Biol. (2004)

Release Date

2005-12-20

Peptides

ribonucleotide reductase, B12-dependent: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ribonucleotide reductase, B12-dependent

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