- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.43 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x MN: MANGANESE (II) ION(Non-covalent)
- 2 x I78: (2~{R})-2-(carboxycarbonylamino)propanoic acid(Non-covalent)
I78.2: 14 residues within 4Å:- Chain A: Q.131, W.170, T.178, H.181, D.183, N.187, Y.189, K.196, H.284, V.286, N.296, W.298
- Ligands: MN.1, ACT.6
11 PLIP interactions:11 interactions with chain A- Hydrophobic interactions: A:W.170, A:T.178
- Hydrogen bonds: A:T.178, A:T.178, A:N.187, A:Y.189, A:N.296, A:W.298
- Water bridges: A:K.196
- Salt bridges: A:K.196, A:H.284
I78.11: 13 residues within 4Å:- Chain B: W.170, T.178, H.181, D.183, N.187, Y.189, K.196, H.284, V.286, N.296, W.298
- Ligands: MN.10, EDO.12
7 PLIP interactions:7 interactions with chain B- Hydrophobic interactions: B:T.178
- Hydrogen bonds: B:T.178, B:N.187, B:Y.189, B:W.298
- Salt bridges: B:K.196, B:H.284
- 9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.3: 7 residues within 4Å:- Chain A: S.159, F.160, N.161, K.162, D.302
- Chain B: R.44, E.45
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:N.161, A:D.302
- Water bridges: B:K.49
EDO.4: 8 residues within 4Å:- Chain A: S.246, V.247, D.248, S.251, P.252, D.253, K.256, Y.257
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.248, A:S.251, A:D.253
EDO.5: 12 residues within 4Å:- Chain A: Y.47, S.48, N.50, E.186, N.280, L.301, D.302, D.304, R.306
- Chain B: S.48, K.49, R.306
4 PLIP interactions:1 interactions with chain B, 3 interactions with chain A- Hydrogen bonds: B:S.48, A:N.280, A:R.306
- Water bridges: A:Y.47
EDO.7: 3 residues within 4Å:- Chain A: Y.90, L.94, D.248
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:L.94, A:D.248, A:D.248
- Water bridges: A:L.94
EDO.8: 7 residues within 4Å:- Chain A: K.162, P.163, P.164, D.165, W.298, Y.299, D.300
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.165, A:D.300
EDO.9: 7 residues within 4Å:- Chain A: E.174, H.195, D.197, R.269, S.287, Q.288, S.289
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.197, A:R.269
- Water bridges: A:R.269
EDO.12: 8 residues within 4Å:- Chain B: Y.129, Q.131, N.168, F.169, W.170, Y.189, N.296
- Ligands: I78.11
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.296
EDO.13: 7 residues within 4Å:- Chain B: S.29, V.30, E.32, R.56, L.266, K.267, V.268
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:V.30
EDO.14: 10 residues within 4Å:- Chain A: S.48, R.306
- Chain B: Y.47, S.48, N.50, E.186, N.280, D.302, D.304, R.306
5 PLIP interactions:4 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:N.280, B:D.304, B:R.306, A:S.48
- Water bridges: B:N.50
- 2 x ACT: ACETATE ION(Non-functional Binders)
ACT.6: 10 residues within 4Å:- Chain A: Y.129, Q.131, W.170, L.171, G.172, A.176, T.178, K.196, Q.288
- Ligands: I78.2
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:Y.129
- Hydrogen bonds: A:L.171, A:Q.288
- Water bridges: A:K.196
- Salt bridges: A:K.196
ACT.15: 9 residues within 4Å:- Chain B: A.21, E.22, C.25, I.26, S.28, P.202, H.204, Q.205, K.264
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Q.205
- Salt bridges: B:H.204
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Chowdhury, R. et al., Conservation of the unusual dimeric JmjC fold of JMJD7 from Drosophila melanogaster to humans. Sci Rep (2022)
- Release Date
- 2022-04-27
- Peptides
- GH14974p: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.43 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x MN: MANGANESE (II) ION(Non-covalent)
- 2 x I78: (2~{R})-2-(carboxycarbonylamino)propanoic acid(Non-covalent)
- 9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x ACT: ACETATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Chowdhury, R. et al., Conservation of the unusual dimeric JmjC fold of JMJD7 from Drosophila melanogaster to humans. Sci Rep (2022)
- Release Date
- 2022-04-27
- Peptides
- GH14974p: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B