- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.36 Å
- Oligo State
- monomer
- Ligands
- 5 x SO4: SULFATE ION(Non-functional Binders)
SO4.1: 4 residues within 4Å:- Chain A: T.65, M.66, R.67, R.68
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.67, A:R.68
- Water bridges: A:D.74
- Salt bridges: A:R.68
SO4.3: 5 residues within 4Å:- Chain A: R.56, K.120, N.121, E.122, Y.220
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:E.122, A:Y.220
- Water bridges: A:R.56, A:R.56, A:Y.123
- Salt bridges: A:R.56, A:K.120
SO4.4: 3 residues within 4Å:- Chain A: V.279, Q.280, E.281
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.281
SO4.5: 3 residues within 4Å:- Chain A: R.13, H.15, R.141
3 PLIP interactions:3 interactions with chain A- Salt bridges: A:R.13, A:H.15, A:R.141
SO4.6: 4 residues within 4Å:- Chain A: G.39, S.40, R.41, R.42
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.41
- Salt bridges: A:R.42
- 1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.2: 4 residues within 4Å:- Chain A: N.19, V.22, R.136
- Ligands: EDO.9
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.136
- 6 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.7: 3 residues within 4Å:- Chain A: R.13, K.35, E.36
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:R.13, A:R.13, A:E.36, A:E.36, A:E.36
EDO.8: 5 residues within 4Å:- Chain A: D.166, R.167, E.170, P.226, E.227
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:R.167, A:E.227
- Water bridges: A:D.166, A:D.166, A:R.228, A:R.228, A:R.228
EDO.9: 2 residues within 4Å:- Chain A: Q.132
- Ligands: NAG.2
No protein-ligand interaction detected (PLIP)EDO.10: 2 residues within 4Å:- Chain A: P.370, S.371
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:P.370
EDO.11: 7 residues within 4Å:- Chain A: R.79, T.80, G.81, T.82, L.85, F.102, I.316
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.79, A:R.79, A:T.82, A:T.82
EDO.12: 3 residues within 4Å:- Chain A: S.362, C.363, P.364
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:S.362
- Water bridges: A:S.362
- 3 x JFS: [4-(1H-benzimidazol-1-yl)phenyl]methanol(Non-covalent)
JFS.13: 4 residues within 4Å:- Chain A: W.51, Y.52, T.268
- Ligands: JFS.15
7 PLIP interactions:7 interactions with chain A- Hydrophobic interactions: A:W.51, A:W.51, A:W.51, A:Y.52, A:Y.52, A:T.268
- pi-Stacking: A:W.51
JFS.14: 12 residues within 4Å:- Chain A: Y.52, F.191, L.192, D.193, N.194, P.210, I.214, F.242, F.243, V.269, D.270
- Ligands: DMS.16
9 PLIP interactions:9 interactions with chain A- Hydrophobic interactions: A:Y.52, A:F.191, A:P.210, A:I.214, A:F.243, A:V.269
- Hydrogen bonds: A:Y.52, A:N.194
- pi-Stacking: A:F.243
JFS.15: 4 residues within 4Å:- Chain A: Y.52, N.58, R.62
- Ligands: JFS.13
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:N.58
- Hydrogen bonds: A:R.62
- 5 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
DMS.16: 5 residues within 4Å:- Chain A: W.51, A.156, T.159, F.191
- Ligands: JFS.14
No protein-ligand interaction detected (PLIP)DMS.17: 6 residues within 4Å:- Chain A: Y.248, L.251, R.252, S.253, P.254, V.255
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:V.255
DMS.18: 7 residues within 4Å:- Chain A: Y.33, E.48, W.75, P.76, R.79, F.102, P.104
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.79
- Water bridges: A:R.68
- Salt bridges: A:E.48
- pi-Cation interactions: A:W.75
DMS.19: 3 residues within 4Å:- Chain A: Y.197, R.198, L.283
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.198, A:R.198
DMS.20: 5 residues within 4Å:- Chain A: R.42, Y.94, W.95, W.96, N.97
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.42, A:R.42, A:N.97
- pi-Cation interactions: A:W.96
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zhao, Y. et al., Structural Analysis and Development of Notum Fragment Screening Hits. Acs Chem Neurosci (2022)
- Release Date
- 2022-01-12
- Peptides
- Palmitoleoyl-protein carboxylesterase NOTUM: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
SMTL ID : 7b84.1
Notum-Fragment065
Palmitoleoyl-protein carboxylesterase NOTUM
Related Entries With Identical Sequence
4uyu.1 | 4uyu.2 | 4uyw.1 | 4uyw.2 | 4uz1.1 | 4uz5.1 | 4uz6.1 | 4uz6.2 | 4uz7.1 | 4uz7.2 | 4uz9.1 | 6r8p.1 | 6r8q.1 | 6r8r.1 | 6t2h.1 | 6t2k.1 | 6tr5.1 | 6tr6.1 | 6tr7.1 | 6tuz.1 | 6tv4.1 | 6ysk.1 | 6yuw.1 | 6yuy.1 | 6yv0.1 | 6yv2.1 | 6yv4.1 | 6yxi.1 | 6zuv.1 | 6zvl.1 more...less...7arg.1 | 7b2v.1 | 7b2y.1 | 7b2z.1 | 7b37.1 | 7b3g.1 | 7b3h.1 | 7b3i.1 | 7b3p.1 | 7b3x.1 | 7b45.1 | 7b4x.1 | 7b50.1 | 7b7w.1 | 7b7x.1 | 7b7y.1 | 7b86.1 | 7b87.1 | 7b89.1 | 7b8a.1 | 7b8c.1 | 7b8d.1 | 7b8f.1 | 7b8g.1 | 7b8j.1 | 7b8k.1 | 7b8l.1 | 7b8m.1 | 7b8n.1 | 7b8o.1 | 7b8u.1 | 7b8x.1 | 7b8y.1 | 7b8z.1 | 7b98.1 | 7b99.1 | 7b9d.1 | 7b9i.1 | 7b9n.1 | 7b9u.1 | 7ba1.1 | 7bac.1 | 7bap.1 | 7bc8.1 | 7bc9.1 | 7bcc.1 | 7bcd.1 | 7bcf.1 | 7bch.1 | 7bci.1 | 7bck.1 | 7bcl.1 | 7bd2.1 | 7bd3.1 | 7bd4.1 | 7bd5.1 | 7bd6.1 | 7bd8.1 | 7bd9.1 | 7bda.1 | 7bdb.1 | 7bdc.1 | 7bdd.1 | 7bdf.1 | 7bdg.1 | 7bdh.1 | 7bli.1 | 7bls.1 | 7blt.1 | 7blu.1 | 7blw.1 | 7bm1.1 | 7bm3.1 | 7bm7.1 | 7bmb.1 | 7bmd.1 | 7bn5.1 | 7bn8.1 | 7bnb.1 | 7bnc.1 | 7bnd.1 | 7bne.1 | 7bnf.1 | 7bnj.1 | 7bnl.1 | 7pjr.1 | 7pk3.1 | 7pkv.1 | 7qvz.1 | 8bsp.1 | 8bsq.1 | 8bsr.1 | 8bsz.1 | 8bt0.1 | 8bt2.1 | 8bt5.1 | 8bt7.1 | 8bt8.1 | 8bta.1 | 8btc.1 | 8bte.1 | 8bth.1 | 8bti.1