- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- hetero-oligomer
- Ligands
- 12 x MN: MANGANESE (II) ION(Non-covalent)
- 22 x K: POTASSIUM ION(Non-covalent)
K.3: 6 residues within 4Å:- Chain A: E.215, N.236, D.238, A.239, I.242, S.247
Ligand excluded by PLIPK.4: 6 residues within 4Å:- Chain A: A.126, E.127, E.299, M.300, N.301
- Ligands: MN.1
Ligand excluded by PLIPK.7: 6 residues within 4Å:- Chain A: E.761, H.781, E.783, Q.784, V.787, S.792
Ligand excluded by PLIPK.9: 3 residues within 4Å:- Chain A: T.143, A.144, R.145
Ligand excluded by PLIPK.14: 2 residues within 4Å:- Chain B: H.16, D.112
Ligand excluded by PLIPK.17: 6 residues within 4Å:- Chain C: E.215, N.236, D.238, A.239, I.242, S.247
Ligand excluded by PLIPK.18: 6 residues within 4Å:- Chain C: A.126, E.127, E.299, M.300, N.301
- Ligands: MN.15
Ligand excluded by PLIPK.21: 7 residues within 4Å:- Chain C: E.761, H.781, E.783, Q.784, A.785, V.787, S.792
Ligand excluded by PLIPK.23: 3 residues within 4Å:- Chain C: T.143, A.144, R.145
Ligand excluded by PLIPK.28: 2 residues within 4Å:- Chain D: H.16, D.112
Ligand excluded by PLIPK.34: 6 residues within 4Å:- Chain E: E.215, N.236, D.238, A.239, I.242, S.247
Ligand excluded by PLIPK.35: 6 residues within 4Å:- Chain E: A.126, E.127, E.299, M.300, N.301
- Ligands: MN.32
Ligand excluded by PLIPK.38: 7 residues within 4Å:- Chain E: E.761, H.781, E.783, Q.784, A.785, V.787, S.792
Ligand excluded by PLIPK.39: 3 residues within 4Å:- Chain E: D.84, G.112, T.114
Ligand excluded by PLIPK.41: 2 residues within 4Å:- Chain E: T.143, A.144
Ligand excluded by PLIPK.46: 2 residues within 4Å:- Chain F: H.16, D.112
Ligand excluded by PLIPK.51: 6 residues within 4Å:- Chain G: E.215, N.236, D.238, A.239, I.242, S.247
Ligand excluded by PLIPK.52: 6 residues within 4Å:- Chain G: A.126, E.127, E.299, M.300, N.301
- Ligands: MN.49
Ligand excluded by PLIPK.55: 6 residues within 4Å:- Chain G: E.761, H.781, E.783, Q.784, V.787, S.792
Ligand excluded by PLIPK.56: 3 residues within 4Å:- Chain G: D.84, G.112, T.114
Ligand excluded by PLIPK.58: 3 residues within 4Å:- Chain G: T.143, A.144, R.145
Ligand excluded by PLIPK.63: 2 residues within 4Å:- Chain H: H.16, D.112
Ligand excluded by PLIP- 5 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.5: 11 residues within 4Å:- Chain A: M.174, G.175, H.243, Q.285, E.299, N.301, R.303, R.306
- Ligands: MN.1, MN.2, ADP.67
9 PLIP interactions:9 interactions with chain A- Hydrogen bonds: A:G.175, A:N.301
- Water bridges: A:Q.285, A:R.303, A:S.305, A:R.306
- Salt bridges: A:H.243, A:R.303, A:R.306
PO4.19: 11 residues within 4Å:- Chain C: M.174, G.175, H.243, Q.285, E.299, N.301, R.303, R.306
- Ligands: MN.15, MN.16, ADP.72
10 PLIP interactions:10 interactions with chain C- Hydrogen bonds: C:G.175
- Water bridges: C:T.244, C:T.244, C:R.303, C:R.303, C:S.305, C:R.306
- Salt bridges: C:H.243, C:R.303, C:R.306
PO4.31: 2 residues within 4Å:- Chain C: E.560, D.592
No protein-ligand interaction detected (PLIP)PO4.36: 11 residues within 4Å:- Chain E: M.174, G.175, H.243, Q.285, E.299, N.301, R.303, R.306
- Ligands: MN.32, MN.33, ADP.77
8 PLIP interactions:8 interactions with chain E- Hydrogen bonds: E:G.175, E:N.301
- Water bridges: E:Q.285, E:R.303, E:S.305
- Salt bridges: E:H.243, E:R.303, E:R.306
PO4.53: 11 residues within 4Å:- Chain G: M.174, G.175, H.243, Q.285, E.299, N.301, R.303, R.306
- Ligands: MN.49, MN.50, ADP.82
11 PLIP interactions:11 interactions with chain G- Hydrogen bonds: G:G.175, G:N.301
- Water bridges: G:T.244, G:T.244, G:Q.285, G:R.303, G:S.305, G:R.306
- Salt bridges: G:H.243, G:R.303, G:R.306
- 27 x CL: CHLORIDE ION(Non-functional Binders)
CL.8: 5 residues within 4Å:- Chain A: Q.93, T.173, M.174, S.177
- Ligands: NET.70
Ligand excluded by PLIPCL.10: 2 residues within 4Å:- Chain A: H.70, W.71
Ligand excluded by PLIPCL.11: 3 residues within 4Å:- Chain A: N.289, N.292, R.294
Ligand excluded by PLIPCL.12: 5 residues within 4Å:- Chain A: A.370, N.371, F.900, P.901, G.902
Ligand excluded by PLIPCL.13: 3 residues within 4Å:- Chain A: K.475, N.485, F.488
Ligand excluded by PLIPCL.22: 5 residues within 4Å:- Chain C: Q.93, T.173, M.174, S.177
- Ligands: NET.75
Ligand excluded by PLIPCL.24: 2 residues within 4Å:- Chain C: H.70, W.71
Ligand excluded by PLIPCL.25: 3 residues within 4Å:- Chain C: N.289, N.292, R.294
Ligand excluded by PLIPCL.26: 5 residues within 4Å:- Chain C: A.370, N.371, F.900, P.901, G.902
Ligand excluded by PLIPCL.27: 2 residues within 4Å:- Chain C: K.475, N.485
Ligand excluded by PLIPCL.29: 5 residues within 4Å:- Chain C: E.549
- Chain D: F.15, H.16, I.113, D.114
Ligand excluded by PLIPCL.30: 4 residues within 4Å:- Chain C: F.578, R.845, A.847, R.848
Ligand excluded by PLIPCL.40: 5 residues within 4Å:- Chain E: Q.93, T.173, M.174, S.177
- Ligands: NET.80
Ligand excluded by PLIPCL.42: 1 residues within 4Å:- Chain E: W.71
Ligand excluded by PLIPCL.43: 4 residues within 4Å:- Chain E: W.213, N.289, N.292, R.294
Ligand excluded by PLIPCL.44: 5 residues within 4Å:- Chain E: A.370, N.371, F.900, P.901, G.902
Ligand excluded by PLIPCL.45: 3 residues within 4Å:- Chain E: K.475, N.485, F.488
Ligand excluded by PLIPCL.47: 4 residues within 4Å:- Chain E: E.549
- Chain F: F.15, I.113, D.114
Ligand excluded by PLIPCL.48: 4 residues within 4Å:- Chain E: F.578, R.845, A.847, R.848
Ligand excluded by PLIPCL.57: 4 residues within 4Å:- Chain G: Q.93, T.173, M.174
- Ligands: NET.85
Ligand excluded by PLIPCL.59: 2 residues within 4Å:- Chain G: H.70, W.71
Ligand excluded by PLIPCL.60: 3 residues within 4Å:- Chain G: N.289, N.292, R.294
Ligand excluded by PLIPCL.61: 5 residues within 4Å:- Chain G: A.370, N.371, F.900, P.901, G.902
Ligand excluded by PLIPCL.62: 3 residues within 4Å:- Chain G: K.475, N.485, F.488
Ligand excluded by PLIPCL.64: 4 residues within 4Å:- Chain G: E.549
- Chain H: F.15, I.113, D.114
Ligand excluded by PLIPCL.65: 4 residues within 4Å:- Chain G: F.578, R.845, A.847, R.848
Ligand excluded by PLIPCL.66: 5 residues within 4Å:- Chain H: S.169, W.170, T.171, Q.172, A.184
Ligand excluded by PLIP- 8 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
ADP.67: 25 residues within 4Å:- Chain A: R.129, I.167, R.169, T.173, M.174, G.175, G.176, D.207, E.208, S.209, L.210, I.211, E.215, M.240, G.241, I.242, H.243, T.244, Q.285, I.298, E.299, T.376
- Ligands: MN.1, MN.2, PO4.5
18 PLIP interactions:18 interactions with chain A- Hydrogen bonds: A:M.174, A:G.175, A:G.176, A:E.208, A:L.210, A:E.215, A:G.241, A:T.244, A:Q.285, A:E.299, A:N.301
- Water bridges: A:R.129, A:R.129, A:Q.285
- Salt bridges: A:R.129, A:R.129, A:R.169, A:H.243
ADP.68: 17 residues within 4Å:- Chain A: P.690, R.715, M.725, H.754, F.755, L.756, E.761, A.785, G.786, V.787, H.788, S.789, Q.829, I.840, E.841, P.909
- Ligands: MN.6
16 PLIP interactions:16 interactions with chain A- Hydrogen bonds: A:H.754, A:L.756, A:E.761, A:G.786, A:S.789, A:S.789, A:E.841
- Water bridges: A:R.715, A:R.715, A:Q.829, A:Q.829, A:E.841, A:E.841, A:E.841
- Salt bridges: A:R.715, A:H.788
ADP.72: 25 residues within 4Å:- Chain C: R.129, I.167, R.169, T.173, M.174, G.175, G.176, D.207, E.208, S.209, L.210, I.211, E.215, M.240, G.241, I.242, H.243, T.244, Q.285, I.298, E.299, T.376
- Ligands: MN.15, MN.16, PO4.19
18 PLIP interactions:18 interactions with chain C- Hydrogen bonds: C:T.173, C:G.175, C:G.176, C:E.208, C:L.210, C:E.215, C:G.241, C:T.244, C:Q.285, C:E.299
- Water bridges: C:T.173, C:T.173, C:H.243, C:Q.285
- Salt bridges: C:R.129, C:R.129, C:R.169, C:H.243
ADP.73: 17 residues within 4Å:- Chain C: P.690, R.715, M.725, H.754, F.755, L.756, E.761, A.785, G.786, V.787, H.788, S.789, Q.829, I.840, E.841, P.909
- Ligands: MN.20
18 PLIP interactions:18 interactions with chain C- Hydrogen bonds: C:R.715, C:R.715, C:H.754, C:L.756, C:E.761, C:G.786, C:S.789, C:Q.829, C:E.841
- Water bridges: C:Q.829, C:Q.829, C:Q.829, C:E.841, C:E.841, C:N.843, C:R.848
- Salt bridges: C:R.715, C:H.788
ADP.77: 24 residues within 4Å:- Chain E: R.129, I.167, R.169, T.173, M.174, G.175, G.176, E.208, S.209, L.210, I.211, E.215, M.240, G.241, I.242, H.243, T.244, Q.285, I.298, E.299, T.376
- Ligands: MN.32, MN.33, PO4.36
19 PLIP interactions:19 interactions with chain E- Hydrogen bonds: E:T.173, E:G.175, E:G.176, E:E.208, E:L.210, E:E.215, E:G.241, E:I.242, E:T.244, E:Q.285, E:E.299, E:E.299
- Water bridges: E:R.129, E:R.129, E:Q.285
- Salt bridges: E:R.129, E:R.129, E:R.169, E:H.243
ADP.78: 18 residues within 4Å:- Chain E: P.690, V.713, R.715, M.725, H.754, F.755, L.756, E.761, A.785, G.786, V.787, H.788, S.789, Q.829, I.840, E.841, P.909
- Ligands: MN.37
17 PLIP interactions:17 interactions with chain E- Hydrogen bonds: E:H.754, E:L.756, E:E.761, E:G.786, E:S.789, E:S.789, E:E.841
- Water bridges: E:R.715, E:H.788, E:S.789, E:Q.829, E:Q.829, E:Q.829, E:E.841, E:E.841
- Salt bridges: E:R.715, E:H.788
ADP.82: 25 residues within 4Å:- Chain G: R.129, I.167, R.169, T.173, M.174, G.175, G.176, D.207, E.208, S.209, L.210, I.211, E.215, M.240, G.241, I.242, H.243, T.244, Q.285, I.298, E.299, T.376
- Ligands: MN.49, MN.50, PO4.53
19 PLIP interactions:19 interactions with chain G- Hydrogen bonds: G:T.173, G:G.175, G:G.176, G:E.208, G:L.210, G:E.215, G:G.241, G:I.242, G:T.244, G:Q.285, G:E.299
- Water bridges: G:R.129, G:T.173, G:H.243, G:T.244
- Salt bridges: G:R.129, G:R.129, G:R.169, G:H.243
ADP.83: 16 residues within 4Å:- Chain G: P.690, R.715, H.754, F.755, L.756, E.761, A.785, G.786, V.787, H.788, S.789, Q.829, I.840, E.841, P.909
- Ligands: MN.54
17 PLIP interactions:17 interactions with chain G- Hydrogen bonds: G:R.715, G:R.715, G:H.754, G:L.756, G:E.761, G:G.786, G:S.789, G:E.841
- Water bridges: G:D.753, G:H.788, G:Q.829, G:Q.829, G:E.841, G:N.843, G:N.843
- Salt bridges: G:R.715, G:H.788
- 4 x ORN: L-ORNITHINE(Non-covalent)
ORN.69: 10 residues within 4Å:- Chain A: E.783, D.791, S.792, A.793, E.892, V.893, L.907, Y.1040, D.1041, T.1042
7 PLIP interactions:7 interactions with chain A- Hydrophobic interactions: A:L.907
- Hydrogen bonds: A:D.791, A:A.793, A:D.1041, A:D.1041, A:T.1042
- Water bridges: A:T.1043
ORN.74: 10 residues within 4Å:- Chain C: E.783, D.791, A.793, E.892, V.893, L.895, L.907, Y.1040, D.1041, T.1042
7 PLIP interactions:7 interactions with chain C- Hydrophobic interactions: C:L.895
- Hydrogen bonds: C:D.791, C:A.793, C:D.1041, C:T.1042
- Water bridges: C:E.783, C:Y.1040
ORN.79: 10 residues within 4Å:- Chain E: E.783, D.791, A.793, E.892, V.893, L.895, L.907, Y.1040, D.1041, T.1042
8 PLIP interactions:8 interactions with chain E- Hydrophobic interactions: E:L.895
- Hydrogen bonds: E:D.791, E:A.793, E:D.1041, E:D.1041, E:T.1042
- Water bridges: E:Y.1040, E:T.1043
ORN.84: 10 residues within 4Å:- Chain G: E.783, D.791, A.793, E.892, V.893, L.895, L.907, Y.1040, D.1041, T.1042
6 PLIP interactions:6 interactions with chain G- Hydrophobic interactions: G:L.895
- Hydrogen bonds: G:D.791, G:A.793, G:D.1041, G:T.1042
- Water bridges: G:T.1043
- 4 x NET: TETRAETHYLAMMONIUM ION(Non-covalent)
NET.70: 6 residues within 4Å:- Chain A: Q.22, Q.93, T.94, N.97, N.936
- Ligands: CL.8
No protein-ligand interaction detected (PLIP)NET.75: 6 residues within 4Å:- Chain C: Q.22, Q.93, T.94, N.97, N.936
- Ligands: CL.22
1 PLIP interactions:1 interactions with chain C- Hydrophobic interactions: C:Q.93
NET.80: 6 residues within 4Å:- Chain E: Q.22, Q.93, T.94, N.97, N.936
- Ligands: CL.40
1 PLIP interactions:1 interactions with chain E- Hydrophobic interactions: E:Q.93
NET.85: 6 residues within 4Å:- Chain G: Q.22, Q.93, T.94, N.97, N.936
- Ligands: CL.57
1 PLIP interactions:1 interactions with chain G- Hydrophobic interactions: G:Q.93
- 4 x U: URIDINE-5'-MONOPHOSPHATE(Non-covalent)
U.71: 17 residues within 4Å:- Chain A: S.948, V.949, R.950, K.954, T.974, H.975, G.976, T.977, K.993, H.995, N.1015, T.1016, T.1017, A.1022, D.1025, S.1026, I.1029
30 PLIP interactions:15 interactions with chain A, 15 interactions with chain C- Hydrophobic interactions: A:K.993, A:I.1029, C:K.993, C:I.1029
- Hydrogen bonds: A:T.974, A:T.974, A:G.976, A:T.977, A:T.977, A:N.1015, A:T.1016, A:S.1026, C:T.974, C:T.974, C:G.976, C:T.977, C:N.1015, C:N.1015, C:S.1026
- Water bridges: A:V.994, A:S.1018, C:V.994, C:H.995, C:S.1018
- Salt bridges: A:K.954, A:K.993, C:K.954, C:K.993
- pi-Cation interactions: A:K.993, C:K.993
U.76: 16 residues within 4Å:- Chain C: S.948, V.949, K.954, T.974, H.975, G.976, T.977, K.993, H.995, N.1015, T.1016, T.1017, A.1022, D.1025, S.1026, I.1029
Protein-ligand interaction information (PLIP) not availableU.81: 17 residues within 4Å:- Chain E: S.948, V.949, R.950, K.954, T.974, H.975, G.976, T.977, K.993, H.995, N.1015, T.1016, T.1017, A.1022, D.1025, S.1026, I.1029
29 PLIP interactions:16 interactions with chain E, 13 interactions with chain G- Hydrophobic interactions: E:K.993, E:I.1029, G:K.993, G:I.1029
- Hydrogen bonds: E:T.974, E:T.974, E:G.976, E:T.977, E:T.977, E:H.995, E:N.1015, E:N.1015, E:S.1026, G:T.974, G:T.974, G:G.976, G:T.977, G:N.1015, G:N.1015, G:S.1026
- Water bridges: E:V.994, E:S.1018, G:V.994
- Salt bridges: E:K.954, E:K.993, G:K.954, G:K.993
- pi-Cation interactions: E:K.993, G:K.993
U.86: 17 residues within 4Å:- Chain G: S.948, V.949, R.950, K.954, T.974, H.975, G.976, T.977, K.993, H.995, N.1015, T.1016, T.1017, A.1022, D.1025, S.1026, I.1029
Protein-ligand interaction information (PLIP) not available- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
-
Thoden, J.B. et al., Long-range allosteric transitions in carbamoyl phosphate synthetase. Protein Sci. (2004)
- Release Date
- 2004-09-21
- Peptides
- Carbamoyl-phosphate synthase large chain: ACEG
Carbamoyl-phosphate synthase small chain: BDFH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
CE
EG
GB
BD
DF
FH
H
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.10 Å
- Oligo State
- hetero-oligomer
- Ligands
- 12 x MN: MANGANESE (II) ION(Non-covalent)
- 22 x K: POTASSIUM ION(Non-covalent)
- 5 x PO4: PHOSPHATE ION(Non-functional Binders)
- 27 x CL: CHLORIDE ION(Non-functional Binders)
- 8 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
- 4 x ORN: L-ORNITHINE(Non-covalent)
- 4 x NET: TETRAETHYLAMMONIUM ION(Non-covalent)
- 4 x U: URIDINE-5'-MONOPHOSPHATE(Non-covalent)
- Links
- RCSB PDBe PDBj PDBsum CATH PLIP
- Citation
-
Thoden, J.B. et al., Long-range allosteric transitions in carbamoyl phosphate synthetase. Protein Sci. (2004)
- Release Date
- 2004-09-21
- Peptides
- Carbamoyl-phosphate synthase large chain: ACEG
Carbamoyl-phosphate synthase small chain: BDFH - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
CE
EG
GB
BD
DF
FH
H