SMTL ID : 1t9h.1

The crystal structure of YloQ, a circularly permuted GTPase.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

8 x IUM: URANYL (VI) ION(Non-functional Binders)(Non-covalent)

IUM.1: 3 residues within 4Å: Ligands: IUM.7, IUM.8, ACT.15 No protein-ligand interaction detected (PLIP) IUM.2: 8 residues within 4Å: Chain A: E.114, Q.119, P.120, P.252, R.255 Ligands: IUM.3, IUM.8, ACT.14 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.255, A:R.255 IUM.3: 7 residues within 4Å: Chain A: R.255 Ligands: IUM.2, IUM.4, IUM.6, IUM.8, ACT.14, ACT.16 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.255 IUM.4: 4 residues within 4Å: Ligands: IUM.3, IUM.5, IUM.6, ACT.16 No protein-ligand interaction detected (PLIP) IUM.5: 2 residues within 4Å: Ligands: IUM.4, IUM.6 No protein-ligand interaction detected (PLIP) IUM.6: 5 residues within 4Å: Ligands: IUM.3, IUM.4, IUM.5, IUM.8, ACT.15 No protein-ligand interaction detected (PLIP) IUM.7: 2 residues within 4Å: Chain A: D.117 Ligands: IUM.1 No protein-ligand interaction detected (PLIP) IUM.8: 6 residues within 4Å: Chain A: R.255 Ligands: IUM.1, IUM.2, IUM.3, IUM.6, ACT.15 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.9: 4 residues within 4Å: Chain A: C.261, C.266, H.268, C.274 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.261, A:C.266, A:H.268, A:C.274

4 x CA: CALCIUM ION(Non-covalent)

CA.10: 2 residues within 4Å: Chain A: D.152, Y.154 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.152, A:Y.154, H2O.6 CA.11: 1 residues within 4Å: Chain A: E.256 No protein-ligand interaction detected (PLIP) CA.12: 1 residues within 4Å: Chain A: E.219 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.219, A:E.219, H2O.10, H2O.10 CA.13: 1 residues within 4Å: Chain A: E.295 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.295, H2O.4, H2O.7

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.14: 8 residues within 4Å: Chain A: E.114, I.149, G.150, Y.151, P.252 Ligands: IUM.2, IUM.3, ACT.16 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.151, A:P.252 Hydrogen bonds: A:Y.151 ACT.15: 3 residues within 4Å: Ligands: IUM.1, IUM.6, IUM.8 No protein-ligand interaction detected (PLIP) ACT.16: 4 residues within 4Å: Chain A: G.150 Ligands: IUM.3, IUM.4, ACT.14 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Levdikov, V.M. et al., The Crystal Structure of YloQ, a Circularly Permuted GTPase Essential for Bacillus Subtilis Viability. J.Mol.Biol. (2004)

Release Date

2004-11-02

Peptides

Probable GTPase engC: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Probable GTPase engC