- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.78 Å
- Oligo State
- hetero-12-12-mer
- Ligands
- 16 x SO4: SULFATE ION(Non-functional Binders)
- 24 x GOL: GLYCEROL(Non-functional Binders)
GOL.2: 5 residues within 4Å:- Chain A: I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.3: 7 residues within 4Å:- Chain A: R.38, L.39, K.41, L.85, N.87, A.88, N.90
Ligand excluded by PLIPGOL.9: 7 residues within 4Å:- Chain C: E.168, T.169, I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.14: 6 residues within 4Å:- Chain D: Q.203, I.205, K.207, R.222, F.223, D.224
Ligand excluded by PLIPGOL.17: 6 residues within 4Å:- Chain E: T.169, I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.19: 4 residues within 4Å:- Chain F: Q.203, R.222, F.223, D.224
Ligand excluded by PLIPGOL.23: 5 residues within 4Å:- Chain G: I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.24: 7 residues within 4Å:- Chain G: R.38, L.39, K.41, L.85, N.87, A.88, N.90
Ligand excluded by PLIPGOL.30: 7 residues within 4Å:- Chain I: E.168, T.169, I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.35: 6 residues within 4Å:- Chain J: Q.203, I.205, K.207, R.222, F.223, D.224
Ligand excluded by PLIPGOL.38: 6 residues within 4Å:- Chain K: T.169, I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.40: 4 residues within 4Å:- Chain L: Q.203, R.222, F.223, D.224
Ligand excluded by PLIPGOL.44: 5 residues within 4Å:- Chain M: I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.45: 7 residues within 4Å:- Chain M: R.38, L.39, K.41, L.85, N.87, A.88, N.90
Ligand excluded by PLIPGOL.51: 7 residues within 4Å:- Chain O: E.168, T.169, I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.56: 6 residues within 4Å:- Chain P: Q.203, I.205, K.207, R.222, F.223, D.224
Ligand excluded by PLIPGOL.59: 6 residues within 4Å:- Chain Q: T.169, I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.61: 4 residues within 4Å:- Chain R: Q.203, R.222, F.223, D.224
Ligand excluded by PLIPGOL.65: 5 residues within 4Å:- Chain S: I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.66: 7 residues within 4Å:- Chain S: R.38, L.39, K.41, L.85, N.87, A.88, N.90
Ligand excluded by PLIPGOL.72: 7 residues within 4Å:- Chain U: E.168, T.169, I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.77: 6 residues within 4Å:- Chain V: Q.203, I.205, K.207, R.222, F.223, D.224
Ligand excluded by PLIPGOL.80: 6 residues within 4Å:- Chain W: T.169, I.171, R.184, F.185, D.186, R.188
Ligand excluded by PLIPGOL.82: 4 residues within 4Å:- Chain X: Q.203, R.222, F.223, D.224
Ligand excluded by PLIP- 12 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)
BME.4: 4 residues within 4Å:- Chain A: N.152, P.164, R.167, E.168
1 PLIP interactions:1 interactions with chain A- Water bridges: A:N.152
BME.10: 4 residues within 4Å:- Chain C: L.23, N.28, P.29
- Chain D: F.67
1 PLIP interactions:1 interactions with chain C- Water bridges: C:N.28
BME.11: 8 residues within 4Å:- Chain C: E.69, V.70, N.127, I.128, S.129, H.140, F.200
- Chain D: I.170
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:H.140
BME.25: 4 residues within 4Å:- Chain G: N.152, P.164, R.167, E.168
1 PLIP interactions:1 interactions with chain G- Water bridges: G:N.152
BME.31: 4 residues within 4Å:- Chain I: L.23, N.28, P.29
- Chain J: F.67
1 PLIP interactions:1 interactions with chain I- Water bridges: I:N.28
BME.32: 8 residues within 4Å:- Chain I: E.69, V.70, N.127, I.128, S.129, H.140, F.200
- Chain J: I.170
1 PLIP interactions:1 interactions with chain I- Hydrogen bonds: I:H.140
BME.46: 4 residues within 4Å:- Chain M: N.152, P.164, R.167, E.168
1 PLIP interactions:1 interactions with chain M- Water bridges: M:N.152
BME.52: 4 residues within 4Å:- Chain O: L.23, N.28, P.29
- Chain P: F.67
1 PLIP interactions:1 interactions with chain O- Water bridges: O:N.28
BME.53: 8 residues within 4Å:- Chain O: E.69, V.70, N.127, I.128, S.129, H.140, F.200
- Chain P: I.170
1 PLIP interactions:1 interactions with chain O- Hydrogen bonds: O:H.140
BME.67: 4 residues within 4Å:- Chain S: N.152, P.164, R.167, E.168
1 PLIP interactions:1 interactions with chain S- Water bridges: S:N.152
BME.73: 4 residues within 4Å:- Chain U: L.23, N.28, P.29
- Chain V: F.67
1 PLIP interactions:1 interactions with chain U- Water bridges: U:N.28
BME.74: 8 residues within 4Å:- Chain U: E.69, V.70, N.127, I.128, S.129, H.140, F.200
- Chain V: I.170
1 PLIP interactions:1 interactions with chain U- Hydrogen bonds: U:H.140
- 12 x FE: FE (III) ION(Non-covalent)
FE.5: 5 residues within 4Å:- Chain B: Y.108, R.157, H.160, Y.162
- Ligands: DHY.7
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:Y.108, B:H.160, B:Y.162
FE.12: 5 residues within 4Å:- Chain D: Y.108, R.157, H.160, Y.162
- Ligands: DHY.15
3 PLIP interactions:3 interactions with chain D- Metal complexes: D:Y.108, D:H.160, D:Y.162
FE.18: 5 residues within 4Å:- Chain F: Y.108, R.157, H.160, Y.162
- Ligands: DHY.21
3 PLIP interactions:3 interactions with chain F- Metal complexes: F:Y.108, F:H.160, F:Y.162
FE.26: 5 residues within 4Å:- Chain H: Y.108, R.157, H.160, Y.162
- Ligands: DHY.28
3 PLIP interactions:3 interactions with chain H- Metal complexes: H:Y.108, H:H.160, H:Y.162
FE.33: 5 residues within 4Å:- Chain J: Y.108, R.157, H.160, Y.162
- Ligands: DHY.36
3 PLIP interactions:3 interactions with chain J- Metal complexes: J:Y.108, J:H.160, J:Y.162
FE.39: 5 residues within 4Å:- Chain L: Y.108, R.157, H.160, Y.162
- Ligands: DHY.42
3 PLIP interactions:3 interactions with chain L- Metal complexes: L:Y.108, L:H.160, L:Y.162
FE.47: 5 residues within 4Å:- Chain N: Y.108, R.157, H.160, Y.162
- Ligands: DHY.49
3 PLIP interactions:3 interactions with chain N- Metal complexes: N:Y.108, N:H.160, N:Y.162
FE.54: 5 residues within 4Å:- Chain P: Y.108, R.157, H.160, Y.162
- Ligands: DHY.57
3 PLIP interactions:3 interactions with chain P- Metal complexes: P:Y.108, P:H.160, P:Y.162
FE.60: 5 residues within 4Å:- Chain R: Y.108, R.157, H.160, Y.162
- Ligands: DHY.63
3 PLIP interactions:3 interactions with chain R- Metal complexes: R:Y.108, R:H.160, R:Y.162
FE.68: 5 residues within 4Å:- Chain T: Y.108, R.157, H.160, Y.162
- Ligands: DHY.70
3 PLIP interactions:3 interactions with chain T- Metal complexes: T:Y.108, T:H.160, T:Y.162
FE.75: 5 residues within 4Å:- Chain V: Y.108, R.157, H.160, Y.162
- Ligands: DHY.78
3 PLIP interactions:3 interactions with chain V- Metal complexes: V:Y.108, V:H.160, V:Y.162
FE.81: 5 residues within 4Å:- Chain X: Y.108, R.157, H.160, Y.162
- Ligands: DHY.84
3 PLIP interactions:3 interactions with chain X- Metal complexes: X:Y.108, X:H.160, X:Y.162
- 4 x CO3: CARBONATE ION(Non-functional Binders)
CO3.6: 1 residues within 4Å:- Chain B: R.83
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:R.83
CO3.27: 1 residues within 4Å:- Chain H: R.83
1 PLIP interactions:1 interactions with chain H- Hydrogen bonds: H:R.83
CO3.48: 1 residues within 4Å:- Chain N: R.83
1 PLIP interactions:1 interactions with chain N- Hydrogen bonds: N:R.83
CO3.69: 1 residues within 4Å:- Chain T: R.83
1 PLIP interactions:1 interactions with chain T- Hydrogen bonds: T:R.83
- 12 x DHY: 2-(3,4-DIHYDROXYPHENYL)ACETIC ACID(Non-covalent)
DHY.7: 10 residues within 4Å:- Chain A: P.15, Y.16, R.133
- Chain B: Y.108, H.147, W.149, R.157, H.160, Y.162
- Ligands: FE.5
10 PLIP interactions:6 interactions with chain B, 4 interactions with chain A- Hydrophobic interactions: B:W.149, B:W.149, B:R.157, A:P.15, A:Y.16
- Hydrogen bonds: B:R.157
- Water bridges: B:R.150, A:R.133
- pi-Cation interactions: B:H.147
- Salt bridges: A:R.133
DHY.15: 11 residues within 4Å:- Chain C: P.15, Y.16
- Chain D: Y.108, H.147, P.148, W.149, R.150, R.157, H.160, Y.162
- Ligands: FE.12
9 PLIP interactions:7 interactions with chain D, 2 interactions with chain C- Hydrophobic interactions: D:W.149, D:W.149, D:R.157, C:P.15, C:Y.16
- Hydrogen bonds: D:R.150, D:R.157
- Salt bridges: D:H.147
- pi-Cation interactions: D:H.147
DHY.21: 10 residues within 4Å:- Chain E: P.15, Y.16
- Chain F: Y.108, H.147, W.149, R.150, R.157, H.160, Y.162
- Ligands: FE.18
9 PLIP interactions:6 interactions with chain F, 3 interactions with chain E- Hydrophobic interactions: F:W.149, F:W.149, F:R.157, E:P.15, E:Y.16
- Hydrogen bonds: F:R.150, F:R.157
- pi-Cation interactions: F:H.147
- Water bridges: E:R.133
DHY.28: 10 residues within 4Å:- Chain G: P.15, Y.16, R.133
- Chain H: Y.108, H.147, W.149, R.157, H.160, Y.162
- Ligands: FE.26
10 PLIP interactions:4 interactions with chain G, 6 interactions with chain H- Hydrophobic interactions: G:P.15, G:Y.16, H:W.149, H:W.149, H:R.157
- Water bridges: G:R.133, H:R.150
- Salt bridges: G:R.133
- Hydrogen bonds: H:R.157
- pi-Cation interactions: H:H.147
DHY.36: 11 residues within 4Å:- Chain I: P.15, Y.16
- Chain J: Y.108, H.147, P.148, W.149, R.150, R.157, H.160, Y.162
- Ligands: FE.33
9 PLIP interactions:2 interactions with chain I, 7 interactions with chain J- Hydrophobic interactions: I:P.15, I:Y.16, J:W.149, J:W.149, J:R.157
- Hydrogen bonds: J:R.150, J:R.157
- Salt bridges: J:H.147
- pi-Cation interactions: J:H.147
DHY.42: 10 residues within 4Å:- Chain K: P.15, Y.16
- Chain L: Y.108, H.147, W.149, R.150, R.157, H.160, Y.162
- Ligands: FE.39
9 PLIP interactions:3 interactions with chain K, 6 interactions with chain L- Hydrophobic interactions: K:P.15, K:Y.16, L:W.149, L:W.149, L:R.157
- Water bridges: K:R.133
- Hydrogen bonds: L:R.150, L:R.157
- pi-Cation interactions: L:H.147
DHY.49: 10 residues within 4Å:- Chain M: P.15, Y.16, R.133
- Chain N: Y.108, H.147, W.149, R.157, H.160, Y.162
- Ligands: FE.47
10 PLIP interactions:4 interactions with chain M, 6 interactions with chain N- Hydrophobic interactions: M:P.15, M:Y.16, N:W.149, N:W.149, N:R.157
- Water bridges: M:R.133, N:R.150
- Salt bridges: M:R.133
- Hydrogen bonds: N:R.157
- pi-Cation interactions: N:H.147
DHY.57: 11 residues within 4Å:- Chain O: P.15, Y.16
- Chain P: Y.108, H.147, P.148, W.149, R.150, R.157, H.160, Y.162
- Ligands: FE.54
10 PLIP interactions:3 interactions with chain O, 7 interactions with chain P- Hydrophobic interactions: O:P.15, O:Y.16, P:W.149, P:W.149, P:R.157
- Hydrogen bonds: O:Y.16, P:R.150, P:R.157
- Salt bridges: P:H.147
- pi-Cation interactions: P:H.147
DHY.63: 10 residues within 4Å:- Chain Q: P.15, Y.16
- Chain R: Y.108, H.147, W.149, R.150, R.157, H.160, Y.162
- Ligands: FE.60
10 PLIP interactions:6 interactions with chain R, 4 interactions with chain Q- Hydrophobic interactions: R:W.149, R:W.149, R:R.157, Q:P.15, Q:Y.16
- Hydrogen bonds: R:R.150, R:R.157
- pi-Cation interactions: R:H.147
- Water bridges: Q:Y.16, Q:R.133
DHY.70: 10 residues within 4Å:- Chain S: P.15, Y.16, R.133
- Chain T: Y.108, H.147, W.149, R.157, H.160, Y.162
- Ligands: FE.68
10 PLIP interactions:6 interactions with chain T, 4 interactions with chain S- Hydrophobic interactions: T:W.149, T:W.149, T:R.157, S:P.15, S:Y.16
- Hydrogen bonds: T:R.157
- Water bridges: T:R.150, S:R.133
- pi-Cation interactions: T:H.147
- Salt bridges: S:R.133
DHY.78: 11 residues within 4Å:- Chain U: P.15, Y.16
- Chain V: Y.108, H.147, P.148, W.149, R.150, R.157, H.160, Y.162
- Ligands: FE.75
10 PLIP interactions:7 interactions with chain V, 3 interactions with chain U- Hydrophobic interactions: V:W.149, V:W.149, V:R.157, U:P.15, U:Y.16
- Hydrogen bonds: V:R.150, V:R.157, U:Y.16
- Salt bridges: V:H.147
- pi-Cation interactions: V:H.147
DHY.84: 10 residues within 4Å:- Chain W: P.15, Y.16
- Chain X: Y.108, H.147, W.149, R.150, R.157, H.160, Y.162
- Ligands: FE.81
10 PLIP interactions:4 interactions with chain W, 6 interactions with chain X- Hydrophobic interactions: W:P.15, W:Y.16, X:W.149, X:W.149, X:R.157
- Water bridges: W:Y.16, W:R.133
- Hydrogen bonds: X:R.150, X:R.157
- pi-Cation interactions: X:H.147
- 4 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Purpero, V.M. et al., Axial Ligand Swapping In Double Mutant Maintains Intradiol-cleavage Chemistry in Protocatechuate 3,4-Dioxygenase. To be Published
- Release Date
- 2011-04-13
- Peptides
- Protocatechuate 3,4-dioxygenase alpha chain: ACEGIKMOQSUW
Protocatechuate 3,4-dioxygenase beta chain: BDFHJLNPRTVX - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
BE
CG
AI
BK
CM
AO
BQ
CS
AU
BW
CB
MD
NF
OH
MJ
NL
ON
MP
NR
OT
MV
NX
O
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.78 Å
- Oligo State
- hetero-12-12-mer
- Ligands
- 16 x SO4: SULFATE ION(Non-functional Binders)
- 24 x GOL: GLYCEROL(Non-functional Binders)
- 12 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)
- 12 x FE: FE (III) ION(Non-covalent)
- 4 x CO3: CARBONATE ION(Non-functional Binders)
- 12 x DHY: 2-(3,4-DIHYDROXYPHENYL)ACETIC ACID(Non-covalent)
- 4 x CL: CHLORIDE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Purpero, V.M. et al., Axial Ligand Swapping In Double Mutant Maintains Intradiol-cleavage Chemistry in Protocatechuate 3,4-Dioxygenase. To be Published
- Release Date
- 2011-04-13
- Peptides
- Protocatechuate 3,4-dioxygenase alpha chain: ACEGIKMOQSUW
Protocatechuate 3,4-dioxygenase beta chain: BDFHJLNPRTVX - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AC
BE
CG
AI
BK
CM
AO
BQ
CS
AU
BW
CB
MD
NF
OH
MJ
NL
ON
MP
NR
OT
MV
NX
O