- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x IMP: INOSINIC ACID(Non-covalent)
- 8 x 8N1: N-{2-chloro-5-[({2-[3-(prop-1-en-2-yl)phenyl]propan-2-yl}carbamoyl)amino]phenyl}-beta-D-xylofuranosylamine(Non-covalent)
8N1.2: 20 residues within 4Å:- Chain A: V.103, T.126, A.127, H.128, S.131, G.133, V.134, T.184, M.265, G.266, M.271, V.288, E.290
- Chain D: V.26, L.27, P.28, S.315, G.318, Y.319
- Ligands: IMP.1
17 PLIP interactions:10 interactions with chain A, 7 interactions with chain D- Hydrophobic interactions: A:A.127, D:P.28, D:Y.319, D:Y.319
- Hydrogen bonds: A:A.127, A:H.128, A:S.131, A:S.131, A:G.133, A:V.134, A:E.290, A:E.290, D:Y.319
- Water bridges: A:K.132, D:S.315, D:S.315
- Halogen bonds: D:V.26
8N1.7: 16 residues within 4Å:- Chain A: L.27, P.28, S.315, G.318, Y.319
- Chain B: T.126, A.127, H.128, S.131, T.184, M.265, G.266, M.271, V.288, E.290
- Ligands: IMP.6
11 PLIP interactions:8 interactions with chain B, 3 interactions with chain A- Hydrophobic interactions: B:A.127, A:P.28, A:Y.319
- Hydrogen bonds: B:A.127, B:H.128, B:S.131, B:E.290, B:E.290
- Water bridges: B:S.131, B:E.290, A:S.315
8N1.11: 17 residues within 4Å:- Chain B: V.26, L.27, P.28, S.315, G.318, Y.319
- Chain C: T.126, A.127, H.128, S.131, T.184, M.265, G.266, M.271, V.288, E.290
- Ligands: IMP.10
12 PLIP interactions:9 interactions with chain C, 3 interactions with chain B- Hydrophobic interactions: C:A.127, C:E.290, B:P.28, B:Y.319
- Hydrogen bonds: C:A.127, C:H.128, C:H.128, C:S.131, C:E.290, C:E.290
- Water bridges: C:S.131, B:S.315
8N1.15: 20 residues within 4Å:- Chain C: V.26, L.27, P.28, S.315, G.318, Y.319
- Chain D: V.103, T.126, A.127, H.128, S.131, G.133, V.134, T.184, M.265, G.266, M.271, V.288, E.290
- Ligands: IMP.14
15 PLIP interactions:6 interactions with chain C, 9 interactions with chain D- Hydrophobic interactions: C:P.28, C:Y.319, C:Y.319, D:A.127
- Hydrogen bonds: C:Y.319, D:A.127, D:H.128, D:S.131, D:G.133, D:V.134, D:E.290, D:E.290
- Water bridges: C:S.315, C:S.315, D:K.132
8N1.19: 20 residues within 4Å:- Chain E: V.103, T.126, A.127, H.128, S.131, G.133, V.134, T.184, M.265, G.266, M.271, V.288, E.290
- Chain H: V.26, L.27, P.28, S.315, G.318, Y.319
- Ligands: IMP.18
17 PLIP interactions:12 interactions with chain E, 5 interactions with chain H- Hydrophobic interactions: E:A.127, H:P.28, H:Y.319, H:Y.319
- Hydrogen bonds: E:T.126, E:A.127, E:H.128, E:S.131, E:S.131, E:G.133, E:V.134, E:E.290, E:E.290
- Water bridges: E:K.132, E:E.290, H:S.315
- Halogen bonds: H:V.26
8N1.24: 16 residues within 4Å:- Chain E: L.27, P.28, S.315, G.318, Y.319
- Chain F: T.126, A.127, H.128, S.131, T.184, M.265, G.266, M.271, V.288, E.290
- Ligands: IMP.23
12 PLIP interactions:8 interactions with chain F, 4 interactions with chain E- Hydrophobic interactions: F:A.127, E:P.28, E:Y.319
- Hydrogen bonds: F:T.126, F:A.127, F:H.128, F:S.131, F:E.290, F:E.290
- Water bridges: F:S.131, E:S.315, E:S.315
8N1.28: 17 residues within 4Å:- Chain F: V.26, L.27, P.28, S.315, G.318, Y.319
- Chain G: T.126, A.127, H.128, S.131, T.184, M.265, G.266, M.271, V.288, E.290
- Ligands: IMP.27
12 PLIP interactions:3 interactions with chain F, 9 interactions with chain G- Hydrophobic interactions: F:P.28, F:Y.319, G:A.127, G:E.290
- Water bridges: F:S.315, G:S.131
- Hydrogen bonds: G:A.127, G:H.128, G:H.128, G:S.131, G:E.290, G:E.290
8N1.32: 20 residues within 4Å:- Chain G: V.26, L.27, P.28, S.315, G.318, Y.319
- Chain H: V.103, T.126, A.127, H.128, S.131, G.133, V.134, T.184, M.265, G.266, M.271, V.288, E.290
- Ligands: IMP.31
14 PLIP interactions:10 interactions with chain H, 4 interactions with chain G- Hydrophobic interactions: H:A.127, G:P.28, G:Y.319, G:Y.319
- Hydrogen bonds: H:A.127, H:H.128, H:S.131, H:G.133, H:V.134, H:E.290, H:E.290
- Water bridges: H:K.132, H:E.290, G:S.315
- 6 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
MPD.3: 7 residues within 4Å:- Chain A: L.8, K.9, A.156, T.157, P.158, D.200
- Chain D: V.20
3 PLIP interactions:1 interactions with chain D, 2 interactions with chain A- Hydrophobic interactions: D:V.20, A:T.157
- Hydrogen bonds: A:D.200
MPD.8: 6 residues within 4Å:- Chain A: V.20
- Chain B: K.9, A.156, P.158, V.192, D.200
5 PLIP interactions:4 interactions with chain B, 1 interactions with chain A- Hydrophobic interactions: B:V.192, B:D.200, A:V.20
- Hydrogen bonds: B:D.200
- Water bridges: B:T.157
MPD.16: 6 residues within 4Å:- Chain C: V.335
- Chain D: L.8, K.9, A.156, P.158, D.200
4 PLIP interactions:3 interactions with chain D, 1 interactions with chain C- Hydrophobic interactions: D:P.158, C:V.335
- Hydrogen bonds: D:K.9, D:D.200
MPD.20: 7 residues within 4Å:- Chain E: L.8, K.9, A.156, T.157, P.158, D.200
- Chain H: V.20
4 PLIP interactions:3 interactions with chain E, 1 interactions with chain H- Hydrophobic interactions: E:T.157, H:V.20
- Hydrogen bonds: E:D.200, E:D.200
MPD.25: 6 residues within 4Å:- Chain E: V.20
- Chain F: K.9, A.156, P.158, V.192, D.200
6 PLIP interactions:1 interactions with chain E, 5 interactions with chain F- Hydrophobic interactions: E:V.20, F:V.192, F:D.200
- Hydrogen bonds: F:D.200, F:D.200
- Water bridges: F:T.157
MPD.33: 6 residues within 4Å:- Chain G: V.335
- Chain H: L.8, K.9, A.156, P.158, D.200
5 PLIP interactions:4 interactions with chain H, 1 interactions with chain G- Hydrophobic interactions: H:P.158, G:V.335
- Hydrogen bonds: H:K.9, H:D.200, H:D.200
- 6 x ACY: ACETIC ACID(Non-functional Binders)
ACY.4: 2 residues within 4Å:- Chain A: K.219, K.299
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:K.219
- Salt bridges: A:K.299
ACY.13: 1 residues within 4Å:- Chain C: K.219
No protein-ligand interaction detected (PLIP)ACY.17: 2 residues within 4Å:- Chain D: K.219, N.358
1 PLIP interactions:1 interactions with chain D- Water bridges: D:S.221
ACY.21: 2 residues within 4Å:- Chain E: K.219, K.299
2 PLIP interactions:2 interactions with chain E- Hydrogen bonds: E:K.219
- Salt bridges: E:K.299
ACY.30: 1 residues within 4Å:- Chain G: K.219
1 PLIP interactions:1 interactions with chain G- Water bridges: G:T.305
ACY.34: 2 residues within 4Å:- Chain H: K.219, N.358
1 PLIP interactions:1 interactions with chain H- Water bridges: H:S.221
- 4 x FMT: FORMIC ACID(Non-functional Binders)
FMT.5: 4 residues within 4Å:- Chain A: S.339
- Chain B: S.339
- Chain C: S.339
- Chain D: S.339
4 PLIP interactions:1 interactions with chain D, 1 interactions with chain A, 1 interactions with chain C, 1 interactions with chain B- Hydrogen bonds: D:S.339, A:S.339, C:S.339, B:S.339
FMT.9: 1 residues within 4Å:- Chain B: K.219
No protein-ligand interaction detected (PLIP)FMT.22: 4 residues within 4Å:- Chain E: S.339
- Chain F: S.339
- Chain G: S.339
- Chain H: S.339
4 PLIP interactions:1 interactions with chain E, 1 interactions with chain F, 1 interactions with chain G, 1 interactions with chain H- Hydrogen bonds: E:S.339, F:S.339, G:S.339, H:S.339
FMT.26: 1 residues within 4Å:- Chain F: K.219
No protein-ligand interaction detected (PLIP)- 2 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)
MRD.12: 5 residues within 4Å:- Chain B: V.335
- Chain C: K.9, A.156, P.158, D.200
4 PLIP interactions:3 interactions with chain C, 1 interactions with chain B- Hydrogen bonds: C:K.9, C:D.200, C:D.200
- Hydrophobic interactions: B:V.335
MRD.29: 5 residues within 4Å:- Chain F: V.335
- Chain G: K.9, A.156, P.158, D.200
3 PLIP interactions:2 interactions with chain G, 1 interactions with chain F- Hydrogen bonds: G:K.9, G:D.200
- Hydrophobic interactions: F:V.335
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Maltseva, N. et al., Crystal Structure of Inosine 5'-monophosphate Dehydrogenase fromClostridium perfringens Complexed with IMP and P221. To Be Published
- Release Date
- 2017-03-22
- Peptides
- Inosine-5'-monophosphate dehydrogenase: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
AF
BG
CH
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.85 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x IMP: INOSINIC ACID(Non-covalent)
- 8 x 8N1: N-{2-chloro-5-[({2-[3-(prop-1-en-2-yl)phenyl]propan-2-yl}carbamoyl)amino]phenyl}-beta-D-xylofuranosylamine(Non-covalent)
- 6 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- 6 x ACY: ACETIC ACID(Non-functional Binders)
- 4 x FMT: FORMIC ACID(Non-functional Binders)
- 2 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Maltseva, N. et al., Crystal Structure of Inosine 5'-monophosphate Dehydrogenase fromClostridium perfringens Complexed with IMP and P221. To Be Published
- Release Date
- 2017-03-22
- Peptides
- Inosine-5'-monophosphate dehydrogenase: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
AF
BG
CH
D