SMTL ID : 1r4a.1

Crystal Structure of GTP-bound ADP-ribosylation Factor Like Protein 1 (Arl1) and GRIP Domain of Golgin245 COMPLEX

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

hetero-4-4-mer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: T.16, T.30, I.31, T.33 Ligands: GNP.2 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:T.16, A:I.31, A:T.33 MG.3: 4 residues within 4Å: Chain C: T.16, I.31, T.33 Ligands: GNP.4 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:T.16, C:T.33, H2O.3 MG.5: 5 residues within 4Å: Chain E: T.16, T.30, I.31, T.33 Ligands: GNP.6 3 PLIP interactions: 2 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:T.16, E:T.33, H2O.7 MG.7: 4 residues within 4Å: Chain G: T.16, I.31, T.33 Ligands: GNP.8 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:T.16, G:T.33

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

GNP.2: 21 residues within 4Å: Chain A: D.11, G.12, A.13, G.14, K.15, T.16, T.17, V.28, T.30, P.32, T.33, G.54, G.55, N.111, K.112, D.114, M.115, S.144, A.145, T.146 Ligands: MG.1 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:G.12, A:A.13, A:G.14, A:K.15, A:K.15, A:T.16, A:T.16, A:T.17, A:T.17, A:T.30, A:T.33, A:G.55, A:N.111, A:K.112, A:K.112, A:A.145, A:T.146, A:T.146 Salt bridges: A:D.114 GNP.4: 21 residues within 4Å: Chain C: L.10, D.11, G.12, A.13, G.14, K.15, T.16, T.17, V.28, T.30, T.33, G.54, G.55, N.111, K.112, D.114, M.115, S.144, A.145, T.146 Ligands: MG.3 19 PLIP interactions: 19 interactions with chain C Hydrogen bonds: C:G.12, C:G.14, C:K.15, C:K.15, C:T.16, C:T.17, C:T.17, C:T.30, C:T.33, C:T.33, C:G.55, C:N.111, C:K.112, C:K.112, C:A.145, C:T.146, C:T.146 Salt bridges: C:D.114 pi-Cation interactions: C:K.112 GNP.6: 22 residues within 4Å: Chain E: L.10, D.11, G.12, A.13, G.14, K.15, T.16, T.17, V.28, T.30, P.32, T.33, G.54, G.55, N.111, K.112, D.114, M.115, S.144, A.145, T.146 Ligands: MG.5 20 PLIP interactions: 20 interactions with chain E Hydrogen bonds: E:G.12, E:A.13, E:G.14, E:K.15, E:K.15, E:T.16, E:T.16, E:T.17, E:T.17, E:T.30, E:T.33, E:G.55, E:N.111, E:K.112, E:K.112, E:A.145, E:T.146 Water bridges: E:Q.56, E:Q.56 Salt bridges: E:D.114 GNP.8: 22 residues within 4Å: Chain G: L.10, D.11, G.12, A.13, G.14, K.15, T.16, T.17, V.28, T.30, P.32, T.33, G.54, G.55, N.111, K.112, D.114, M.115, S.144, A.145, T.146 Ligands: MG.7 20 PLIP interactions: 20 interactions with chain G Hydrogen bonds: G:G.12, G:A.13, G:G.14, G:K.15, G:K.15, G:T.16, G:T.16, G:T.17, G:T.17, G:T.33, G:G.55, G:N.111, G:K.112, G:K.112, G:A.145, G:T.146, G:T.146 Water bridges: G:Q.56, G:Q.56 Salt bridges: G:D.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, M. et al., Structural basis for recruitment of GRIP domain golgin-245 by small GTPase Arl1. Nat.Struct.Mol.Biol. (2004)

Release Date

2004-01-13

Peptides

ADP-ribosylation factor-like protein 1: ACEG
Golgi autoantigen, golgin subfamily A member 4: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

E
C

G
D

B
E

D
F

F
G

H
H

ADP-ribosylation factor-like protein 1

Golgi autoantigen, golgin subfamily A member 4