- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-octamer
- Ligands
- 16 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 8 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
ATP.3: 20 residues within 4Å:- Chain A: I.206, V.207, T.208, S.209, R.210, D.211, T.229, E.233, L.234, V.235, K.255, G.256, K.257, L.258, P.259
- Chain E: R.210, K.254, R.273, K.277
- Ligands: GTP.1
18 PLIP interactions:3 interactions with chain E, 15 interactions with chain A- Salt bridges: E:R.210, E:R.210, E:K.277, A:R.210, A:R.210
- Hydrogen bonds: A:T.208, A:S.209, A:S.209, A:S.209, A:R.210, A:D.211, A:D.211, A:T.229, A:V.235, A:K.255, A:G.256, A:K.257, A:K.257
ATP.8: 20 residues within 4Å:- Chain B: I.206, V.207, T.208, S.209, R.210, D.211, T.229, E.233, L.234, V.235, K.255, G.256, K.257, L.258, P.259
- Chain H: R.210, K.254, R.273, K.277
- Ligands: GTP.6
16 PLIP interactions:14 interactions with chain B, 2 interactions with chain H- Hydrogen bonds: B:T.208, B:S.209, B:S.209, B:S.209, B:R.210, B:D.211, B:D.211, B:T.229, B:V.235, B:K.255, B:G.256, B:K.257, B:K.257, H:R.210
- Salt bridges: B:R.210, H:R.210
ATP.13: 19 residues within 4Å:- Chain C: I.206, V.207, T.208, S.209, R.210, D.211, T.229, E.233, L.234, V.235, K.255, G.256, K.257, L.258, P.259
- Chain G: R.210, K.254, R.273, K.277
16 PLIP interactions:14 interactions with chain C, 2 interactions with chain G- Hydrogen bonds: C:T.208, C:S.209, C:S.209, C:S.209, C:R.210, C:D.211, C:D.211, C:T.229, C:V.235, C:G.256, C:K.257, C:K.257
- Salt bridges: C:R.210, C:R.210, G:R.210, G:K.277
ATP.18: 20 residues within 4Å:- Chain D: I.206, V.207, T.208, S.209, R.210, D.211, T.229, E.233, L.234, V.235, K.255, G.256, K.257, L.258, P.259
- Chain F: R.210, K.254, R.273, K.277
- Ligands: GTP.16
16 PLIP interactions:2 interactions with chain F, 14 interactions with chain D- Salt bridges: F:R.210, F:K.277, D:R.210, D:R.210
- Hydrogen bonds: D:T.208, D:S.209, D:S.209, D:R.210, D:D.211, D:D.211, D:T.229, D:V.235, D:K.255, D:G.256, D:K.257, D:K.257
ATP.23: 20 residues within 4Å:- Chain A: R.210, K.254, R.273, K.277
- Chain E: I.206, V.207, T.208, S.209, R.210, D.211, T.229, E.233, L.234, V.235, K.255, G.256, K.257, L.258, P.259
- Ligands: GTP.21
18 PLIP interactions:16 interactions with chain E, 2 interactions with chain A- Hydrogen bonds: E:T.208, E:S.209, E:S.209, E:S.209, E:R.210, E:D.211, E:D.211, E:D.211, E:T.229, E:V.235, E:K.255, E:G.256, E:K.257, E:K.257
- Salt bridges: E:R.210, E:R.210, A:R.210, A:K.277
ATP.28: 20 residues within 4Å:- Chain D: R.210, K.254, R.273, K.277
- Chain F: I.206, V.207, T.208, S.209, R.210, D.211, T.229, E.233, L.234, V.235, K.255, G.256, K.257, L.258, P.259
- Ligands: GTP.26
18 PLIP interactions:15 interactions with chain F, 3 interactions with chain D- Hydrogen bonds: F:T.208, F:S.209, F:S.209, F:S.209, F:R.210, F:D.211, F:D.211, F:T.229, F:V.235, F:K.255, F:G.256, F:K.257, F:K.257, D:R.210
- Salt bridges: F:R.210, F:R.210, D:R.210, D:K.277
ATP.33: 19 residues within 4Å:- Chain C: R.210, K.254, R.273, K.277
- Chain G: I.206, V.207, T.208, S.209, R.210, D.211, T.229, E.233, L.234, V.235, K.255, G.256, K.257, L.258, P.259
16 PLIP interactions:13 interactions with chain G, 3 interactions with chain C- Hydrogen bonds: G:T.208, G:S.209, G:S.209, G:R.210, G:D.211, G:D.211, G:T.229, G:V.235, G:K.255, G:G.256, G:K.257, G:K.257, C:R.210
- Salt bridges: G:R.210, C:R.210, C:K.277
ATP.38: 20 residues within 4Å:- Chain B: R.210, K.254, R.273, K.277
- Chain H: I.206, V.207, T.208, S.209, R.210, D.211, T.229, E.233, L.234, V.235, K.255, G.256, K.257, L.258, P.259
- Ligands: GTP.36
16 PLIP interactions:14 interactions with chain H, 2 interactions with chain B- Hydrogen bonds: H:T.208, H:S.209, H:R.210, H:D.211, H:D.211, H:D.211, H:T.229, H:V.235, H:K.255, H:G.256, H:K.257, H:K.257
- Salt bridges: H:R.210, H:R.210, B:R.210, B:K.277
- 8 x IMP: INOSINIC ACID(Non-covalent)
IMP.4: 28 residues within 4Å:- Chain A: S.117, M.119, N.352, R.371, G.375, G.377, S.378, I.379, C.380, I.381, T.382, D.413, G.414, G.415, I.416, M.434, M.435, G.436, S.437, L.438, Y.460, G.462, M.463, G.464, S.465, Q.490, G.491
- Ligands: NAD.5
17 PLIP interactions:17 interactions with chain A- Hydrogen bonds: A:S.117, A:N.352, A:R.371, A:S.378, A:S.378, A:D.413, A:D.413, A:G.415, A:G.436, A:S.437, A:S.437, A:S.437, A:S.437, A:Y.460, A:M.463, A:G.464, A:Q.490
IMP.9: 27 residues within 4Å:- Chain B: S.117, M.119, N.352, R.371, G.377, S.378, I.379, C.380, I.381, T.382, D.413, G.414, G.415, I.416, M.434, M.435, G.436, S.437, L.438, Y.460, G.462, M.463, G.464, S.465, Q.490, G.491
- Ligands: NAD.10
17 PLIP interactions:17 interactions with chain B- Hydrogen bonds: B:S.117, B:N.352, B:R.371, B:S.378, B:S.378, B:D.413, B:D.413, B:G.415, B:G.436, B:S.437, B:S.437, B:S.437, B:S.437, B:Y.460, B:M.463, B:G.464, B:Q.490
IMP.14: 27 residues within 4Å:- Chain C: S.117, M.119, N.352, R.371, G.377, S.378, I.379, C.380, I.381, T.382, D.413, G.414, G.415, I.416, M.434, M.435, G.436, S.437, L.438, Y.460, G.462, M.463, G.464, S.465, Q.490, G.491
- Ligands: NAD.15
17 PLIP interactions:17 interactions with chain C- Hydrogen bonds: C:S.117, C:N.352, C:R.371, C:S.378, C:S.378, C:D.413, C:D.413, C:G.415, C:G.436, C:S.437, C:S.437, C:S.437, C:S.437, C:Y.460, C:M.463, C:G.464, C:Q.490
IMP.19: 27 residues within 4Å:- Chain D: S.117, M.119, N.352, R.371, G.377, S.378, I.379, C.380, I.381, T.382, D.413, G.414, G.415, I.416, M.434, M.435, G.436, S.437, L.438, Y.460, G.462, M.463, G.464, S.465, Q.490, G.491
- Ligands: NAD.20
17 PLIP interactions:17 interactions with chain D- Hydrogen bonds: D:S.117, D:N.352, D:R.371, D:S.378, D:S.378, D:D.413, D:D.413, D:G.415, D:G.436, D:S.437, D:S.437, D:S.437, D:S.437, D:Y.460, D:M.463, D:G.464, D:Q.490
IMP.24: 28 residues within 4Å:- Chain E: S.117, P.118, M.119, N.352, R.371, G.377, S.378, I.379, C.380, I.381, T.382, D.413, G.414, G.415, I.416, M.434, M.435, G.436, S.437, L.438, Y.460, G.462, M.463, G.464, S.465, Q.490, G.491
- Ligands: NAD.25
17 PLIP interactions:17 interactions with chain E- Hydrogen bonds: E:S.117, E:N.352, E:R.371, E:S.378, E:S.378, E:D.413, E:D.413, E:G.415, E:G.436, E:S.437, E:S.437, E:S.437, E:S.437, E:Y.460, E:M.463, E:G.464, E:Q.490
IMP.29: 28 residues within 4Å:- Chain F: S.117, P.118, M.119, N.352, R.371, G.377, S.378, I.379, C.380, I.381, T.382, D.413, G.414, G.415, I.416, M.434, M.435, G.436, S.437, L.438, Y.460, G.462, M.463, G.464, S.465, Q.490, G.491
- Ligands: NAD.30
17 PLIP interactions:17 interactions with chain F- Hydrogen bonds: F:S.117, F:N.352, F:R.371, F:S.378, F:S.378, F:D.413, F:D.413, F:G.415, F:G.436, F:S.437, F:S.437, F:S.437, F:S.437, F:Y.460, F:M.463, F:G.464, F:Q.490
IMP.34: 27 residues within 4Å:- Chain G: S.117, M.119, N.352, R.371, G.377, S.378, I.379, C.380, I.381, T.382, D.413, G.414, G.415, I.416, M.434, M.435, G.436, S.437, L.438, Y.460, G.462, M.463, G.464, S.465, Q.490, G.491
- Ligands: NAD.35
17 PLIP interactions:17 interactions with chain G- Hydrogen bonds: G:S.117, G:N.352, G:R.371, G:S.378, G:S.378, G:D.413, G:D.413, G:G.415, G:G.436, G:S.437, G:S.437, G:S.437, G:S.437, G:Y.460, G:M.463, G:G.464, G:Q.490
IMP.39: 29 residues within 4Å:- Chain H: S.117, P.118, M.119, N.352, R.371, C.376, G.377, S.378, I.379, C.380, I.381, T.382, D.413, G.414, G.415, I.416, M.434, M.435, G.436, S.437, L.438, Y.460, G.462, M.463, G.464, S.465, Q.490, G.491
- Ligands: NAD.40
17 PLIP interactions:17 interactions with chain H- Hydrogen bonds: H:S.117, H:N.352, H:R.371, H:S.378, H:S.378, H:D.413, H:D.413, H:G.415, H:G.436, H:S.437, H:S.437, H:S.437, H:S.437, H:Y.460, H:M.463, H:G.464, H:Q.490
- 8 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
NAD.5: 23 residues within 4Å:- Chain A: H.142, T.301, R.302, D.323, S.324, S.325, Q.326, Y.331, N.352, R.371, G.373, M.374, G.375, T.382, M.463, G.464, Q.490
- Chain B: I.91, I.94, A.95, H.515, Q.518
- Ligands: IMP.4
14 PLIP interactions:12 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:T.301, A:T.301, A:R.302, A:D.323, A:D.323, A:S.324, A:S.325, A:G.373, A:G.375, B:Q.518, B:Q.518
- pi-Stacking: A:Y.331
- pi-Cation interactions: A:R.302, A:R.302
NAD.10: 23 residues within 4Å:- Chain B: H.142, T.301, R.302, D.323, S.324, S.325, Y.331, N.352, R.371, G.373, M.374, G.375, C.380, T.382, M.463, G.464, Q.490
- Chain C: I.91, I.94, A.95, H.515, Q.518
- Ligands: IMP.9
13 PLIP interactions:11 interactions with chain B, 2 interactions with chain C- Hydrogen bonds: B:T.301, B:T.301, B:D.323, B:D.323, B:S.324, B:S.325, B:G.373, B:G.375, C:Q.518, C:Q.518
- pi-Stacking: B:Y.331
- pi-Cation interactions: B:R.302, B:R.302
NAD.15: 24 residues within 4Å:- Chain C: H.142, T.301, R.302, D.323, S.324, S.325, Q.326, Y.331, N.352, R.371, G.373, M.374, G.375, C.380, T.382, M.463, G.464, Q.490
- Chain D: I.91, I.94, A.95, H.515, Q.518
- Ligands: IMP.14
14 PLIP interactions:2 interactions with chain D, 12 interactions with chain C- Hydrogen bonds: D:Q.518, D:Q.518, C:T.301, C:T.301, C:D.323, C:D.323, C:S.324, C:S.325, C:G.373, C:G.375
- pi-Stacking: C:Y.331, C:Y.331
- pi-Cation interactions: C:R.302, C:R.302
NAD.20: 24 residues within 4Å:- Chain A: I.91, I.94, A.95, H.515, Q.518
- Chain D: H.142, T.301, R.302, D.323, S.324, S.325, Q.326, Y.331, N.352, R.371, G.373, M.374, G.375, C.380, T.382, M.463, G.464, Q.490
- Ligands: IMP.19
14 PLIP interactions:2 interactions with chain A, 12 interactions with chain D- Hydrogen bonds: A:Q.518, A:Q.518, D:T.301, D:T.301, D:D.323, D:D.323, D:S.324, D:S.325, D:G.373, D:G.375
- pi-Stacking: D:Y.331, D:Y.331
- pi-Cation interactions: D:R.302, D:R.302
NAD.25: 24 residues within 4Å:- Chain E: H.142, T.301, R.302, D.323, S.324, S.325, Q.326, Y.331, N.352, R.371, G.373, M.374, G.375, C.380, T.382, M.463, G.464, Q.490
- Chain F: I.91, I.94, A.95, H.515, Q.518
- Ligands: IMP.24
13 PLIP interactions:11 interactions with chain E, 2 interactions with chain F- Hydrogen bonds: E:T.301, E:T.301, E:D.323, E:D.323, E:S.324, E:S.325, E:G.373, E:G.375, F:Q.518, F:Q.518
- pi-Stacking: E:Y.331
- pi-Cation interactions: E:R.302, E:R.302
NAD.30: 24 residues within 4Å:- Chain F: H.142, T.301, R.302, D.323, S.324, S.325, Q.326, Y.331, N.352, R.371, G.373, M.374, G.375, C.380, T.382, M.463, G.464, Q.490
- Chain G: I.91, I.94, A.95, H.515, Q.518
- Ligands: IMP.29
13 PLIP interactions:11 interactions with chain F, 2 interactions with chain G- Hydrogen bonds: F:T.301, F:T.301, F:D.323, F:D.323, F:S.324, F:S.325, F:G.373, F:G.375, G:Q.518, G:Q.518
- pi-Stacking: F:Y.331
- pi-Cation interactions: F:R.302, F:R.302
NAD.35: 24 residues within 4Å:- Chain G: H.142, T.301, R.302, D.323, S.324, S.325, Q.326, Y.331, N.352, R.371, G.373, M.374, G.375, C.380, T.382, M.463, G.464, Q.490
- Chain H: I.91, I.94, A.95, H.515, Q.518
- Ligands: IMP.34
13 PLIP interactions:2 interactions with chain H, 11 interactions with chain G- Hydrogen bonds: H:Q.518, H:Q.518, G:T.301, G:T.301, G:D.323, G:D.323, G:S.324, G:S.325, G:G.373, G:G.375
- pi-Stacking: G:Y.331
- pi-Cation interactions: G:R.302, G:R.302
NAD.40: 24 residues within 4Å:- Chain E: I.91, I.94, A.95, H.515, Q.518
- Chain H: H.142, T.301, R.302, D.323, S.324, S.325, Q.326, Y.331, N.352, R.371, G.373, M.374, G.375, C.380, T.382, M.463, G.464, Q.490
- Ligands: IMP.39
13 PLIP interactions:11 interactions with chain H, 2 interactions with chain E- Hydrogen bonds: H:T.301, H:T.301, H:D.323, H:D.323, H:S.324, H:S.325, H:G.373, H:G.375, E:Q.518, E:Q.518
- pi-Stacking: H:Y.331
- pi-Cation interactions: H:R.302, H:R.302
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Burrell, A.L. et al., IMPDH1 retinal variants control filament architecture to tune allosteric regulation. Nat.Struct.Mol.Biol. (2022)
- Release Date
- 2022-01-12
- Peptides
- Isoform 5 of Inosine-5'-monophosphate dehydrogenase 1: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
FG
GH
H
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-octamer
- Ligands
- 16 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 8 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 8 x IMP: INOSINIC ACID(Non-covalent)
- 8 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Burrell, A.L. et al., IMPDH1 retinal variants control filament architecture to tune allosteric regulation. Nat.Struct.Mol.Biol. (2022)
- Release Date
- 2022-01-12
- Peptides
- Isoform 5 of Inosine-5'-monophosphate dehydrogenase 1: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
DE
EF
FG
GH
H