SMTL ID : 4dcn.1

Crystal Structure Analysis of the Arfaptin2 BAR domain in Complex with ARL1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.01 Å

Oligo State

hetero-2-2-mer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 4 residues within 4Å: Chain A: T.18, I.33, T.35 Ligands: GNP.2 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:T.18, A:T.35, H2O.1, H2O.1 MG.3: 3 residues within 4Å: Chain B: T.18, T.35 Ligands: GNP.4 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:T.18, B:T.35, H2O.1, H2O.1

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

GNP.2: 21 residues within 4Å: Chain A: L.12, D.13, G.14, A.15, G.16, K.17, T.18, T.19, T.32, P.34, T.35, G.56, G.57, N.113, K.114, D.116, M.117, S.146, A.147, T.148 Ligands: MG.1 23 PLIP interactions: 23 interactions with chain A Hydrogen bonds: A:G.14, A:A.15, A:G.16, A:K.17, A:K.17, A:T.18, A:T.18, A:T.19, A:T.19, A:T.32, A:T.32, A:T.35, A:G.57, A:N.113, A:K.114, A:K.114, A:S.146, A:A.147, A:T.148 Water bridges: A:T.18, A:T.35, A:T.35 Salt bridges: A:D.116 GNP.4: 20 residues within 4Å: Chain B: D.13, G.14, A.15, G.16, K.17, T.18, T.19, T.32, P.34, T.35, G.56, G.57, N.113, K.114, D.116, M.117, S.146, A.147, T.148 Ligands: MG.3 21 PLIP interactions: 21 interactions with chain B Hydrogen bonds: B:G.14, B:G.16, B:K.17, B:K.17, B:K.17, B:T.18, B:T.19, B:T.19, B:T.32, B:T.35, B:T.35, B:G.57, B:N.113, B:K.114, B:K.114, B:S.146, B:A.147, B:T.148 Water bridges: B:T.18, B:T.18 Salt bridges: B:D.116

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakamura, K. et al., Structural basis for membrane binding specificity of the Bin/Amphiphysin/Rvs (BAR) domain of Arfaptin-2 determined by Arl1 GTPase. J.Biol.Chem. (2012)

Release Date

2012-06-13

Peptides

ADP-ribosylation factor-like protein 1: AB
Arfaptin-2: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

ADP-ribosylation factor-like protein 1

Arfaptin-2