- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-tetramer
- Ligands
- 5 x NA: SODIUM ION(Non-functional Binders)
- 6 x NO3: NITRATE ION(Non-functional Binders)
NO3.4: 3 residues within 4Å:- Chain A: Q.139, F.140, N.143
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.139, A:N.143
NO3.5: 1 residues within 4Å:- Ligands: NA.2
No protein-ligand interaction detected (PLIP)NO3.6: 5 residues within 4Å:- Chain A: R.137
- Chain B: R.166, Q.169, F.170, E.173
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:R.166, B:R.166, A:R.137
NO3.13: 2 residues within 4Å:- Chain C: R.137
- Chain D: E.173
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:R.137, C:R.137
NO3.14: 2 residues within 4Å:- Chain C: P.129, M.132
2 PLIP interactions:2 interactions with chain C- Water bridges: C:I.126, C:M.132
NO3.16: 3 residues within 4Å:- Chain C: I.146
- Chain D: S.159, K.162
No protein-ligand interaction detected (PLIP)- 2 x NH4: AMMONIUM ION(Non-functional Binders)
- 5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.8: 4 residues within 4Å:- Chain A: I.126, N.127, D.128
- Chain B: K.181
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:N.127, A:D.128, B:K.181
EDO.10: 2 residues within 4Å:- Chain B: K.172
- Chain C: M.132
No protein-ligand interaction detected (PLIP)EDO.15: 7 residues within 4Å:- Chain C: I.134, R.137, L.138, N.141
- Chain D: R.166, F.170, E.173
4 PLIP interactions:3 interactions with chain C, 1 interactions with chain D- Hydrogen bonds: C:I.134, C:L.138, C:N.141, D:Q.169
EDO.18: 2 residues within 4Å:- Chain D: Q.169, K.172
No protein-ligand interaction detected (PLIP)EDO.19: 4 residues within 4Å:- Chain C: L.130
- Chain D: E.173, Y.177, K.180
3 PLIP interactions:3 interactions with chain D- Hydrogen bonds: D:E.173, D:K.180, D:K.180
- 1 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ohashi, Y. et al., Characterization of Atg38 and NRBF2, a fifth subunit of the autophagic Vps34/PIK3C3 complex. Autophagy (2016)
- Release Date
- 2016-10-05
- Peptides
- Autophagy-related protein 38: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
KB
LC
ID
J
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-tetramer
- Ligands
- 5 x NA: SODIUM ION(Non-functional Binders)
- 6 x NO3: NITRATE ION(Non-functional Binders)
- 2 x NH4: AMMONIUM ION(Non-functional Binders)
- 5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ohashi, Y. et al., Characterization of Atg38 and NRBF2, a fifth subunit of the autophagic Vps34/PIK3C3 complex. Autophagy (2016)
- Release Date
- 2016-10-05
- Peptides
- Autophagy-related protein 38: ABCD
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
KB
LC
ID
J