SMTL ID : 5clq.1 (1 other biounit)

Ran Y39A in complex with GPPNHP and RanBD1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GNP: PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER(Non-covalent)

GNP.1: 27 residues within 4Å: Chain A: D.18, G.19, G.20, T.21, G.22, K.23, T.24, T.25, F.35, E.36, K.37, K.38, A.39, V.40, A.41, T.42, A.67, G.68, Q.69, N.122, K.123, D.125, I.126, S.150, A.151, K.152 Ligands: MG.2 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:G.20, A:T.21, A:T.21, A:G.22, A:K.23, A:K.23, A:K.23, A:T.24, A:T.25, A:T.25, A:E.36, A:T.42, A:G.68, A:Q.69, A:N.122, A:K.123, A:A.151, A:K.152 Water bridges: A:T.24 Salt bridges: A:D.125 pi-Stacking: A:F.35, A:F.35

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 5 residues within 4Å: Chain A: T.24, T.42, D.65, T.66 Ligands: GNP.1 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.24, A:T.42, H2O.1

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: P.102, F.138, R.140 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.140 SO4.4: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.134 SO4.5: 2 residues within 4Å: Chain B: R.49, D.119 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rudack, T. et al., Catalysis of GTP Hydrolysis by Small GTPases at Atomic Detail by Integration of X-ray Crystallography, Experimental, and Theoretical IR Spectroscopy. J.Biol.Chem. (2015)

Release Date

2015-09-09

Peptides

GTP-binding nuclear protein Ran: A
E3 SUMO-protein ligase RanBP2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GTP-binding nuclear protein Ran

E3 SUMO-protein ligase RanBP2

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