SMTL ID : 2h16.1

Structure of human ADP-ribosylation factor-like 5 (ARL5)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

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

GDP.1: 15 residues within 4Å: Chain A: L.30, D.31, N.32, A.33, G.34, K.35, T.36, T.37, N.131, K.132, D.134, V.135, C.164, A.165, L.166 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:L.30, A:N.32, A:A.33, A:G.34, A:K.35, A:T.36, A:T.36, A:T.36, A:T.37, A:T.37, A:N.131, A:K.132, A:K.132, A:A.165, A:L.166 Salt bridges: A:K.35, A:D.134 GDP.7: 15 residues within 4Å: Chain B: L.30, D.31, N.32, A.33, G.34, K.35, T.36, T.37, N.131, K.132, D.134, V.135, C.164, A.165, L.166 19 PLIP interactions: 18 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:L.30, B:N.32, B:A.33, B:G.34, B:K.35, B:T.36, B:T.36, B:T.36, B:T.37, B:T.37, B:N.131, B:K.132, B:K.132, B:A.165, B:L.166 Water bridges: B:T.37, C:T.151 Salt bridges: B:K.35, B:D.134 GDP.16: 15 residues within 4Å: Chain C: L.30, D.31, N.32, A.33, G.34, K.35, T.36, T.37, N.131, K.132, D.134, V.135, C.164, A.165, L.166 21 PLIP interactions: 21 interactions with chain C Hydrogen bonds: C:L.30, C:N.32, C:A.33, C:G.34, C:K.35, C:T.36, C:T.36, C:T.36, C:T.37, C:T.37, C:N.131, C:K.132, C:K.132, C:A.165, C:L.166 Water bridges: C:K.35, C:K.35, C:T.37 Salt bridges: C:K.35, C:D.134 pi-Cation interactions: C:K.132 GDP.27: 15 residues within 4Å: Chain D: L.30, D.31, N.32, A.33, G.34, K.35, T.36, T.37, N.131, K.132, D.134, V.135, C.164, A.165, L.166 19 PLIP interactions: 18 interactions with chain D, 1 interactions with chain B Hydrogen bonds: D:L.30, D:N.32, D:A.33, D:G.34, D:K.35, D:T.36, D:T.36, D:T.37, D:T.37, D:N.131, D:K.132, D:K.132, D:A.165, D:L.166, B:Q.146 Water bridges: D:T.36, D:T.36 Salt bridges: D:K.35, D:D.134

28 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.2: 5 residues within 4Å: Chain A: T.140, V.141, A.142 Chain C: D.134 Ligands: UNX.18 Ligand excluded by PLIP UNX.3: 1 residues within 4Å: Chain A: H.156 Ligand excluded by PLIP UNX.4: 1 residues within 4Å: Chain A: Q.133 Ligand excluded by PLIP UNX.5: 2 residues within 4Å: Chain A: Q.161, A.162 Ligand excluded by PLIP UNX.6: 4 residues within 4Å: Chain A: Y.113, K.149, S.152, I.153 Ligand excluded by PLIP UNX.8: 4 residues within 4Å: Chain B: Y.86, Y.87, T.88, D.120 Ligand excluded by PLIP UNX.9: 2 residues within 4Å: Chain B: C.163, E.169 Ligand excluded by PLIP UNX.10: 4 residues within 4Å: Chain B: T.100, D.101, R.102, E.103 Ligand excluded by PLIP UNX.11: 2 residues within 4Å: Chain B: R.102, I.105 Ligand excluded by PLIP UNX.12: 4 residues within 4Å: Chain B: I.153, K.154, D.155, H.156 Ligand excluded by PLIP UNX.13: 3 residues within 4Å: Chain B: T.151 Chain D: Y.40 Ligands: UNX.30 Ligand excluded by PLIP UNX.14: 2 residues within 4Å: Chain B: K.154 Chain D: Y.40 Ligand excluded by PLIP UNX.15: 2 residues within 4Å: Chain B: Q.161, A.162 Ligand excluded by PLIP UNX.17: 5 residues within 4Å: Chain C: Q.133, C.163, C.164, E.169 Ligands: UNX.19 Ligand excluded by PLIP UNX.18: 6 residues within 4Å: Chain A: V.141 Chain C: C.164, T.167, E.169 Ligands: UNX.2, UNX.19 Ligand excluded by PLIP UNX.19: 5 residues within 4Å: Chain C: Q.133, D.134, C.164 Ligands: UNX.17, UNX.18 Ligand excluded by PLIP UNX.20: 4 residues within 4Å: Chain C: I.153, K.154, D.155, H.156 Ligand excluded by PLIP UNX.21: 4 residues within 4Å: Chain C: V.28, G.29, K.35, I.73 Ligand excluded by PLIP UNX.22: 2 residues within 4Å: Chain C: K.136, E.137 Ligand excluded by PLIP UNX.23: 2 residues within 4Å: Chain C: I.105 Ligands: UNX.24 Ligand excluded by PLIP UNX.24: 1 residues within 4Å: Ligands: UNX.23 Ligand excluded by PLIP UNX.25: 5 residues within 4Å: Chain C: V.97, D.98, D.101, I.105, M.139 Ligand excluded by PLIP UNX.26: 2 residues within 4Å: Chain B: E.46 Chain C: H.159 Ligand excluded by PLIP UNX.28: 2 residues within 4Å: Chain D: Q.161, A.162 Ligand excluded by PLIP UNX.29: 2 residues within 4Å: Chain D: Q.133, C.163 Ligand excluded by PLIP UNX.30: 2 residues within 4Å: Chain D: T.37 Ligands: UNX.13 Ligand excluded by PLIP UNX.31: 4 residues within 4Å: Chain B: H.159 Chain D: T.167, G.168, E.169 Ligand excluded by PLIP UNX.32: 4 residues within 4Å: Chain D: I.153, K.154, D.155, H.156 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rabeh, W.M. et al., Structure of human ADP-ribosylation factor-like 5 (ARL5). To be Published

Release Date

2006-06-13

Peptides

ADP-ribosylation factor-like protein 5A: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

ADP-ribosylation factor-like protein 5A