- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x AYC: ALAREMYCIN 2(Covalent)
- 32 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
MG.2: 1 residues within 4Å:- Ligands: EPE.17
No protein-ligand interaction detected (PLIP)MG.3: 3 residues within 4Å:- Chain A: R.181, E.245, D.249
6 PLIP interactions:1 interactions with chain A, 5 Ligand-Water interactions- Metal complexes: A:E.245, H2O.5, H2O.5, H2O.6, H2O.6, H2O.6
MG.4: 6 residues within 4Å:- Chain A: A.129, D.131, D.139, S.175, D.176
- Ligands: AYC.1
5 PLIP interactions:3 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.131, A:D.139, A:D.176, H2O.4, H2O.5
MG.5: 4 residues within 4Å:- Chain A: D.37, D.319
- Chain B: L.27, R.29
5 PLIP interactions:2 interactions with chain A, 3 Ligand-Water interactions- Metal complexes: A:D.37, A:D.319, H2O.2, H2O.8, H2O.8
MG.13: 1 residues within 4Å:- Ligands: EPE.6
No protein-ligand interaction detected (PLIP)MG.14: 3 residues within 4Å:- Chain B: R.181, E.245, D.249
6 PLIP interactions:1 interactions with chain B, 5 Ligand-Water interactions- Metal complexes: B:E.245, H2O.11, H2O.11, H2O.13, H2O.13, H2O.13
MG.15: 6 residues within 4Å:- Chain B: A.129, D.131, D.139, S.175, D.176
- Ligands: AYC.12
5 PLIP interactions:3 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.131, B:D.139, B:D.176, H2O.11, H2O.11
MG.16: 4 residues within 4Å:- Chain A: L.27, R.29
- Chain B: D.37, D.319
5 PLIP interactions:2 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:D.37, B:D.319, H2O.1, H2O.1, H2O.8
MG.24: 1 residues within 4Å:- Ligands: EPE.39
No protein-ligand interaction detected (PLIP)MG.25: 3 residues within 4Å:- Chain C: R.181, E.245, D.249
6 PLIP interactions:1 interactions with chain C, 5 Ligand-Water interactions- Metal complexes: C:E.245, H2O.18, H2O.18, H2O.19, H2O.19, H2O.19
MG.26: 6 residues within 4Å:- Chain C: A.129, D.131, D.139, S.175, D.176
- Ligands: AYC.23
5 PLIP interactions:3 interactions with chain C, 2 Ligand-Water interactions- Metal complexes: C:D.131, C:D.139, C:D.176, H2O.17, H2O.18
MG.27: 4 residues within 4Å:- Chain C: D.37, D.319
- Chain D: L.27, R.29
5 PLIP interactions:2 interactions with chain C, 3 Ligand-Water interactions- Metal complexes: C:D.37, C:D.319, H2O.15, H2O.21, H2O.22
MG.35: 1 residues within 4Å:- Ligands: EPE.28
No protein-ligand interaction detected (PLIP)MG.36: 3 residues within 4Å:- Chain D: R.181, E.245, D.249
6 PLIP interactions:1 interactions with chain D, 5 Ligand-Water interactions- Metal complexes: D:E.245, H2O.25, H2O.25, H2O.26, H2O.26, H2O.26
MG.37: 6 residues within 4Å:- Chain D: A.129, D.131, D.139, S.175, D.176
- Ligands: AYC.34
5 PLIP interactions:3 interactions with chain D, 2 Ligand-Water interactions- Metal complexes: D:D.131, D:D.139, D:D.176, H2O.24, H2O.25
MG.38: 4 residues within 4Å:- Chain C: L.27, R.29
- Chain D: D.37, D.319
5 PLIP interactions:2 interactions with chain D, 3 Ligand-Water interactions- Metal complexes: D:D.37, D:D.319, H2O.15, H2O.15, H2O.22
MG.46: 1 residues within 4Å:- Ligands: EPE.72
No protein-ligand interaction detected (PLIP)MG.47: 3 residues within 4Å:- Chain E: R.181, E.245, D.249
6 PLIP interactions:1 interactions with chain E, 5 Ligand-Water interactions- Metal complexes: E:E.245, H2O.32, H2O.32, H2O.33, H2O.33, H2O.33
MG.48: 6 residues within 4Å:- Chain E: A.129, D.131, D.139, S.175, D.176
- Ligands: AYC.45
5 PLIP interactions:3 interactions with chain E, 2 Ligand-Water interactions- Metal complexes: E:D.131, E:D.139, E:D.176, H2O.31, H2O.32
MG.49: 4 residues within 4Å:- Chain E: D.37, D.319
- Chain G: L.27, R.29
5 PLIP interactions:2 interactions with chain E, 3 Ligand-Water interactions- Metal complexes: E:D.37, E:D.319, H2O.29, H2O.42, H2O.42
MG.57: 1 residues within 4Å:- Ligands: EPE.83
No protein-ligand interaction detected (PLIP)MG.58: 3 residues within 4Å:- Chain F: R.181, E.245, D.249
6 PLIP interactions:1 interactions with chain F, 5 Ligand-Water interactions- Metal complexes: F:E.245, H2O.38, H2O.38, H2O.40, H2O.40, H2O.40
MG.59: 6 residues within 4Å:- Chain F: A.129, D.131, D.139, S.175, D.176
- Ligands: AYC.56
5 PLIP interactions:3 interactions with chain F, 2 Ligand-Water interactions- Metal complexes: F:D.131, F:D.139, F:D.176, H2O.38, H2O.38
MG.60: 4 residues within 4Å:- Chain F: D.37, D.319
- Chain H: L.27, R.29
5 PLIP interactions:2 interactions with chain F, 3 Ligand-Water interactions- Metal complexes: F:D.37, F:D.319, H2O.36, H2O.49, H2O.49
MG.68: 1 residues within 4Å:- Ligands: EPE.50
No protein-ligand interaction detected (PLIP)MG.69: 3 residues within 4Å:- Chain G: R.181, E.245, D.249
6 PLIP interactions:1 interactions with chain G, 5 Ligand-Water interactions- Metal complexes: G:E.245, H2O.45, H2O.45, H2O.46, H2O.46, H2O.46
MG.70: 6 residues within 4Å:- Chain G: A.129, D.131, D.139, S.175, D.176
- Ligands: AYC.67
5 PLIP interactions:3 interactions with chain G, 2 Ligand-Water interactions- Metal complexes: G:D.131, G:D.139, G:D.176, H2O.45, H2O.45
MG.71: 4 residues within 4Å:- Chain E: L.27, R.29
- Chain G: D.37, D.319
5 PLIP interactions:2 interactions with chain G, 3 Ligand-Water interactions- Metal complexes: G:D.37, G:D.319, H2O.28, H2O.28, H2O.42
MG.79: 1 residues within 4Å:- Ligands: EPE.61
No protein-ligand interaction detected (PLIP)MG.80: 3 residues within 4Å:- Chain H: R.181, E.245, D.249
6 PLIP interactions:1 interactions with chain H, 5 Ligand-Water interactions- Metal complexes: H:E.245, H2O.52, H2O.52, H2O.53, H2O.53, H2O.53
MG.81: 6 residues within 4Å:- Chain H: A.129, D.131, D.139, S.175, D.176
- Ligands: AYC.78
5 PLIP interactions:3 interactions with chain H, 2 Ligand-Water interactions- Metal complexes: H:D.131, H:D.139, H:D.176, H2O.51, H2O.52
MG.82: 4 residues within 4Å:- Chain F: L.27, R.29
- Chain H: D.37, D.319
5 PLIP interactions:2 interactions with chain H, 3 Ligand-Water interactions- Metal complexes: H:D.37, H:D.319, H2O.35, H2O.35, H2O.49
- 16 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)
EPE.6: 10 residues within 4Å:- Chain A: E.30, N.31, V.32, K.314
- Chain B: E.30, N.31, V.32, K.314
- Ligands: MG.13, EPE.17
Ligand excluded by PLIPEPE.7: 7 residues within 4Å:- Chain A: G.193, T.195, N.196
- Chain B: R.20
- Chain E: D.143, Y.147, L.149
Ligand excluded by PLIPEPE.17: 10 residues within 4Å:- Chain A: E.30, N.31, V.32, K.314
- Chain B: E.30, N.31, V.32, K.314
- Ligands: MG.2, EPE.6
Ligand excluded by PLIPEPE.18: 7 residues within 4Å:- Chain A: R.20
- Chain B: G.193, T.195, N.196
- Chain H: D.143, Y.147, L.149
Ligand excluded by PLIPEPE.28: 10 residues within 4Å:- Chain C: E.30, N.31, V.32, K.314
- Chain D: E.30, N.31, V.32, K.314
- Ligands: MG.35, EPE.39
Ligand excluded by PLIPEPE.29: 7 residues within 4Å:- Chain C: G.193, T.195, N.196
- Chain D: R.20
- Chain F: D.143, Y.147, L.149
Ligand excluded by PLIPEPE.39: 10 residues within 4Å:- Chain C: E.30, N.31, V.32, K.314
- Chain D: E.30, N.31, V.32, K.314
- Ligands: MG.24, EPE.28
Ligand excluded by PLIPEPE.40: 7 residues within 4Å:- Chain C: R.20
- Chain D: G.193, T.195, N.196
- Chain G: D.143, Y.147, L.149
Ligand excluded by PLIPEPE.50: 10 residues within 4Å:- Chain E: E.30, N.31, V.32, K.314
- Chain G: E.30, N.31, V.32, K.314
- Ligands: MG.68, EPE.72
Ligand excluded by PLIPEPE.51: 7 residues within 4Å:- Chain C: D.143, Y.147, L.149
- Chain E: G.193, T.195, N.196
- Chain G: R.20
Ligand excluded by PLIPEPE.61: 10 residues within 4Å:- Chain F: E.30, N.31, V.32, K.314
- Chain H: E.30, N.31, V.32, K.314
- Ligands: MG.79, EPE.83
Ligand excluded by PLIPEPE.62: 7 residues within 4Å:- Chain A: D.143, Y.147, L.149
- Chain F: G.193, T.195, N.196
- Chain H: R.20
Ligand excluded by PLIPEPE.72: 10 residues within 4Å:- Chain E: E.30, N.31, V.32, K.314
- Chain G: E.30, N.31, V.32, K.314
- Ligands: MG.46, EPE.50
Ligand excluded by PLIPEPE.73: 7 residues within 4Å:- Chain B: D.143, Y.147, L.149
- Chain E: R.20
- Chain G: G.193, T.195, N.196
Ligand excluded by PLIPEPE.83: 10 residues within 4Å:- Chain F: E.30, N.31, V.32, K.314
- Chain H: E.30, N.31, V.32, K.314
- Ligands: MG.57, EPE.61
Ligand excluded by PLIPEPE.84: 7 residues within 4Å:- Chain D: D.143, Y.147, L.149
- Chain F: R.20
- Chain H: G.193, T.195, N.196
Ligand excluded by PLIP- 32 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)
PE5.8: 7 residues within 4Å:- Chain A: E.190, S.191
- Chain B: Y.10, P.11, Y.12, R.14
- Chain E: D.151
Ligand excluded by PLIPPE5.9: 5 residues within 4Å:- Chain A: I.141, L.142, L.149, V.152
- Ligands: PE5.10
Ligand excluded by PLIPPE5.10: 4 residues within 4Å:- Chain A: D.97, V.152, D.155
- Ligands: PE5.9
Ligand excluded by PLIPPE5.11: 5 residues within 4Å:- Chain A: A.99, E.100, Y.102, N.103, P.104
Ligand excluded by PLIPPE5.19: 7 residues within 4Å:- Chain A: Y.10, P.11, Y.12, R.14
- Chain B: E.190, S.191
- Chain H: D.151
Ligand excluded by PLIPPE5.20: 5 residues within 4Å:- Chain B: I.141, L.142, L.149, V.152
- Ligands: PE5.21
Ligand excluded by PLIPPE5.21: 4 residues within 4Å:- Chain B: D.97, V.152, D.155
- Ligands: PE5.20
Ligand excluded by PLIPPE5.22: 5 residues within 4Å:- Chain B: A.99, E.100, Y.102, N.103, P.104
Ligand excluded by PLIPPE5.30: 7 residues within 4Å:- Chain C: E.190, S.191
- Chain D: Y.10, P.11, Y.12, R.14
- Chain F: D.151
Ligand excluded by PLIPPE5.31: 5 residues within 4Å:- Chain C: I.141, L.142, L.149, V.152
- Ligands: PE5.32
Ligand excluded by PLIPPE5.32: 4 residues within 4Å:- Chain C: D.97, V.152, D.155
- Ligands: PE5.31
Ligand excluded by PLIPPE5.33: 5 residues within 4Å:- Chain C: A.99, E.100, Y.102, N.103, P.104
Ligand excluded by PLIPPE5.41: 7 residues within 4Å:- Chain C: Y.10, P.11, Y.12, R.14
- Chain D: E.190, S.191
- Chain G: D.151
Ligand excluded by PLIPPE5.42: 5 residues within 4Å:- Chain D: I.141, L.142, L.149, V.152
- Ligands: PE5.43
Ligand excluded by PLIPPE5.43: 4 residues within 4Å:- Chain D: D.97, V.152, D.155
- Ligands: PE5.42
Ligand excluded by PLIPPE5.44: 5 residues within 4Å:- Chain D: A.99, E.100, Y.102, N.103, P.104
Ligand excluded by PLIPPE5.52: 7 residues within 4Å:- Chain C: D.151
- Chain E: E.190, S.191
- Chain G: Y.10, P.11, Y.12, R.14
Ligand excluded by PLIPPE5.53: 5 residues within 4Å:- Chain E: I.141, L.142, L.149, V.152
- Ligands: PE5.54
Ligand excluded by PLIPPE5.54: 4 residues within 4Å:- Chain E: D.97, V.152, D.155
- Ligands: PE5.53
Ligand excluded by PLIPPE5.55: 5 residues within 4Å:- Chain E: A.99, E.100, Y.102, N.103, P.104
Ligand excluded by PLIPPE5.63: 7 residues within 4Å:- Chain A: D.151
- Chain F: E.190, S.191
- Chain H: Y.10, P.11, Y.12, R.14
Ligand excluded by PLIPPE5.64: 5 residues within 4Å:- Chain F: I.141, L.142, L.149, V.152
- Ligands: PE5.65
Ligand excluded by PLIPPE5.65: 4 residues within 4Å:- Chain F: D.97, V.152, D.155
- Ligands: PE5.64
Ligand excluded by PLIPPE5.66: 5 residues within 4Å:- Chain F: A.99, E.100, Y.102, N.103, P.104
Ligand excluded by PLIPPE5.74: 7 residues within 4Å:- Chain B: D.151
- Chain E: Y.10, P.11, Y.12, R.14
- Chain G: E.190, S.191
Ligand excluded by PLIPPE5.75: 5 residues within 4Å:- Chain G: I.141, L.142, L.149, V.152
- Ligands: PE5.76
Ligand excluded by PLIPPE5.76: 4 residues within 4Å:- Chain G: D.97, V.152, D.155
- Ligands: PE5.75
Ligand excluded by PLIPPE5.77: 5 residues within 4Å:- Chain G: A.99, E.100, Y.102, N.103, P.104
Ligand excluded by PLIPPE5.85: 7 residues within 4Å:- Chain D: D.151
- Chain F: Y.10, P.11, Y.12, R.14
- Chain H: E.190, S.191
Ligand excluded by PLIPPE5.86: 5 residues within 4Å:- Chain H: I.141, L.142, L.149, V.152
- Ligands: PE5.87
Ligand excluded by PLIPPE5.87: 4 residues within 4Å:- Chain H: D.97, V.152, D.155
- Ligands: PE5.86
Ligand excluded by PLIPPE5.88: 5 residues within 4Å:- Chain H: A.99, E.100, Y.102, N.103, P.104
Ligand excluded by PLIP- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Heinemann, I.U. et al., Structure of the heme biosynthetic Pseudomonas aeruginosa porphobilinogen synthase in complex with the antibiotic alaremycin. Antimicrob. Agents Chemother. (2010)
- Release Date
- 2009-10-27
- Peptides
- DELTA-AMINOLEVULINIC ACID DEHYDRATASE: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- homo-octamer
- Ligands
- 8 x AYC: ALAREMYCIN 2(Covalent)
- 32 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)
- 16 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)
- 32 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Heinemann, I.U. et al., Structure of the heme biosynthetic Pseudomonas aeruginosa porphobilinogen synthase in complex with the antibiotic alaremycin. Antimicrob. Agents Chemother. (2010)
- Release Date
- 2009-10-27
- Peptides
- DELTA-AMINOLEVULINIC ACID DEHYDRATASE: ABCDEFGH
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
AD
AE
AF
AG
AH
A