SMTL ID : 2ji5.1

Structure of UMP kinase from Pyrococcus furiosus complexed with UTP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

homo-hexamer

Ligands

6 x UTP: URIDINE 5'-TRIPHOSPHATE(Non-covalent)

UTP.1: 16 residues within 4Å: Chain A: G.45, G.46, R.51, I.54, D.68, G.71, I.72, G.115, T.116, H.117, P.118, G.119, H.120, T.121, T.122, V.125 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:I.72, A:T.122 Hydrogen bonds: A:S.12, A:S.12, A:G.46, A:R.51, A:D.68, A:D.68, A:T.116, A:H.117, A:H.117, A:G.119, A:H.120, A:T.122 Water bridges: A:G.11, A:G.47, A:T.122 UTP.2: 17 residues within 4Å: Chain B: G.45, G.46, G.47, R.51, I.54, D.68, G.71, I.72, T.75, G.115, T.116, H.117, P.118, H.120, T.121, T.122, V.125 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:I.72 Hydrogen bonds: B:G.46, B:G.47, B:G.47, B:D.68, B:T.116, B:H.117, B:H.117, B:G.119, B:T.122 Water bridges: B:G.11, B:G.11, B:S.12, B:T.122 Salt bridges: B:R.51 UTP.3: 16 residues within 4Å: Chain C: G.45, G.46, R.51, I.54, D.68, G.71, I.72, G.115, T.116, H.117, P.118, G.119, H.120, T.121, T.122, V.125 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:I.72, C:T.122 Hydrogen bonds: C:S.12, C:S.12, C:G.46, C:R.51, C:D.68, C:D.68, C:T.116, C:H.117, C:H.117, C:G.119, C:H.120, C:T.122 Water bridges: C:G.11, C:G.47, C:T.122 UTP.4: 17 residues within 4Å: Chain D: G.45, G.46, G.47, R.51, I.54, D.68, G.71, I.72, T.75, G.115, T.116, H.117, P.118, H.120, T.121, T.122, V.125 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:I.72 Hydrogen bonds: D:G.46, D:G.47, D:G.47, D:D.68, D:T.116, D:H.117, D:H.117, D:G.119, D:T.122 Water bridges: D:G.11, D:G.11, D:S.12, D:T.122 Salt bridges: D:R.51 UTP.5: 16 residues within 4Å: Chain E: G.45, G.46, R.51, I.54, D.68, G.71, I.72, G.115, T.116, H.117, P.118, G.119, H.120, T.121, T.122, V.125 16 PLIP interactions: 16 interactions with chain E Hydrophobic interactions: E:I.72, E:T.122 Hydrogen bonds: E:S.12, E:S.12, E:G.46, E:R.51, E:D.68, E:T.116, E:H.117, E:H.117, E:G.119, E:T.122 Water bridges: E:G.11, E:G.47, E:T.122, E:T.122 UTP.6: 17 residues within 4Å: Chain F: G.45, G.46, G.47, R.51, I.54, D.68, G.71, I.72, T.75, G.115, T.116, H.117, P.118, H.120, T.121, T.122, V.125 15 PLIP interactions: 15 interactions with chain F Hydrophobic interactions: F:I.72 Hydrogen bonds: F:G.46, F:G.47, F:G.47, F:D.68, F:T.116, F:H.117, F:H.117, F:G.119, F:T.122 Water bridges: F:G.11, F:G.11, F:S.12, F:T.122 Salt bridges: F:R.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marco-Marin, C. et al., The Structure of Ump Kinase from Pyrococcus Furiosus Complexed with Utp. To be Published

Release Date

2007-10-16

Peptides

URIDYLATE KINASE: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

URIDYLATE KINASE