SMTL ID : 3clv.1

Crystal Structure of Rab5a from plasmodium falciparum, PFB0500c

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

homo-dimer

Ligands

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 2 residues within 4Å: Chain A: T.36, N.37 Ligand excluded by PLIP CL.2: 2 residues within 4Å: Chain A: E.34 Ligands: GDP.3 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain B: T.36, N.37 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain B: E.34 Ligands: GDP.6 Ligand excluded by PLIP

2 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.3: 20 residues within 4Å: Chain A: E.15, S.16, S.17, V.18, G.19, K.20, S.21, S.22, F.32, H.33, E.34, T.36, N.155, K.156, D.158, K.159, S.184, A.185, K.186 Ligands: CL.2 30 PLIP interactions: 30 interactions with chain A Hydrogen bonds: A:S.17, A:V.18, A:G.19, A:K.20, A:S.21, A:S.21, A:S.22, A:S.22, A:H.33, A:T.36, A:N.155, A:K.156, A:K.156, A:S.184, A:A.185, A:K.186 Water bridges: A:K.20, A:K.20, A:S.21, A:S.21, A:E.34, A:T.36, A:T.36, A:T.36, A:D.158, A:K.186 Salt bridges: A:K.20, A:D.158 pi-Stacking: A:F.32, A:F.32 GDP.6: 20 residues within 4Å: Chain B: E.15, S.16, S.17, V.18, G.19, K.20, S.21, S.22, F.32, H.33, E.34, T.36, N.155, K.156, D.158, K.159, S.184, A.185, K.186 Ligands: CL.5 29 PLIP interactions: 29 interactions with chain B Hydrogen bonds: B:S.17, B:V.18, B:G.19, B:K.20, B:S.21, B:S.21, B:S.22, B:S.22, B:H.33, B:N.155, B:K.156, B:K.156, B:S.184, B:A.185, B:K.186 Water bridges: B:K.20, B:K.20, B:S.21, B:S.21, B:E.34, B:T.36, B:T.36, B:T.36, B:D.158, B:D.158 Salt bridges: B:K.20, B:D.158 pi-Stacking: B:F.32, B:F.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chattopadhyay, D. et al., Crystal Structure of Rab5a from plasmodium falciparum, PFB0500c. To be Published

Release Date

2008-07-15

Peptides

Rab5 protein, putative: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Rab5 protein, putative