- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.90 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NA: SODIUM ION(Non-functional Binders)
- 3 x CL: CHLORIDE ION(Non-functional Binders)
CL.2: 5 residues within 4Å:- Chain A: H.11, R.287, V.289, A.290
- Ligands: AMZ.4
Ligand excluded by PLIPCL.8: 5 residues within 4Å:- Chain B: H.11, R.287, V.289, A.290
- Ligands: AMZ.10
Ligand excluded by PLIPCL.14: 5 residues within 4Å:- Chain C: H.11, R.287, V.289, A.290
- Ligands: AMZ.16
Ligand excluded by PLIP- 3 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)
AMP.3: 13 residues within 4Å:- Chain A: P.116, I.130, K.132, Y.142, Q.173, E.174, Y.175, V.176, Y.227, F.282, E.283
- Chain C: R.212
- Ligands: MPD.5
13 PLIP interactions:12 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:K.132, A:Q.173, A:V.176, A:E.283, C:R.212
- Water bridges: A:K.132, A:Q.173, A:Q.173, A:Y.182, A:R.202
- Salt bridges: A:K.132
- pi-Stacking: A:F.282, A:F.282
AMP.9: 13 residues within 4Å:- Chain A: R.212
- Chain B: P.116, I.130, K.132, Y.142, Q.173, E.174, Y.175, V.176, Y.227, F.282, E.283
- Ligands: MPD.11
13 PLIP interactions:12 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:K.132, B:Q.173, B:V.176, B:E.283, A:R.212
- Water bridges: B:K.132, B:Q.173, B:Q.173, B:Y.182, B:R.202
- Salt bridges: B:K.132
- pi-Stacking: B:F.282, B:F.282
AMP.15: 13 residues within 4Å:- Chain B: R.212
- Chain C: P.116, I.130, K.132, Y.142, Q.173, E.174, Y.175, V.176, Y.227, F.282, E.283
- Ligands: MPD.17
13 PLIP interactions:12 interactions with chain C, 1 interactions with chain B- Hydrogen bonds: C:K.132, C:Q.173, C:V.176, C:E.283, B:R.212
- Water bridges: C:K.132, C:Q.173, C:Q.173, C:Y.182, C:R.202
- Salt bridges: C:K.132
- pi-Stacking: C:F.282, C:F.282
- 3 x AMZ: AMINOIMIDAZOLE 4-CARBOXAMIDE RIBONUCLEOTIDE(Non-covalent)
AMZ.4: 13 residues within 4Å:- Chain A: S.10, H.11, G.70, S.71, A.74, H.75, R.202, V.229, N.232, A.290
- Chain B: R.238, S.240
- Ligands: CL.2
17 PLIP interactions:11 interactions with chain A, 6 interactions with chain B- Hydrogen bonds: A:S.10, A:N.232, A:N.232, B:S.240
- Water bridges: A:H.11, A:H.75, A:R.287, A:R.287, A:A.290, A:A.290, B:R.238, B:R.238, B:E.239, B:S.240
- Salt bridges: A:H.75, B:R.238
- pi-Stacking: A:H.11
AMZ.10: 13 residues within 4Å:- Chain B: S.10, H.11, G.70, S.71, A.74, H.75, R.202, V.229, N.232, A.290
- Chain C: R.238, S.240
- Ligands: CL.8
17 PLIP interactions:11 interactions with chain B, 6 interactions with chain C- Hydrogen bonds: B:S.10, B:N.232, B:N.232, C:S.240
- Water bridges: B:H.11, B:H.75, B:R.287, B:R.287, B:A.290, B:A.290, C:R.238, C:R.238, C:E.239, C:S.240
- Salt bridges: B:H.75, C:R.238
- pi-Stacking: B:H.11
AMZ.16: 13 residues within 4Å:- Chain A: R.238, S.240
- Chain C: S.10, H.11, G.70, S.71, A.74, H.75, R.202, V.229, N.232, A.290
- Ligands: CL.14
17 PLIP interactions:11 interactions with chain C, 6 interactions with chain A- Hydrogen bonds: C:S.10, C:N.232, C:N.232, A:S.240
- Water bridges: C:H.11, C:H.75, C:R.287, C:R.287, C:A.290, C:A.290, A:R.238, A:R.238, A:E.239, A:S.240
- Salt bridges: C:H.75, A:R.238
- pi-Stacking: C:H.11
- 6 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
MPD.5: 7 residues within 4Å:- Chain A: I.130, Y.142, F.143, Y.227
- Chain C: P.214, D.217
- Ligands: AMP.3
2 PLIP interactions:2 interactions with chain C- Hydrogen bonds: C:D.217, C:D.217
MPD.6: 6 residues within 4Å:- Chain A: L.144, Y.175, L.177
- Chain C: I.213, F.221, M.223
6 PLIP interactions:3 interactions with chain C, 3 interactions with chain A- Hydrophobic interactions: C:F.221, C:F.221, A:L.144, A:Y.175
- Water bridges: C:N.206
- Hydrogen bonds: A:Y.175
MPD.11: 7 residues within 4Å:- Chain A: P.214, D.217
- Chain B: I.130, Y.142, F.143, Y.227
- Ligands: AMP.9
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.217, A:D.217
MPD.12: 6 residues within 4Å:- Chain A: I.213, F.221, M.223
- Chain B: L.144, Y.175, L.177
6 PLIP interactions:3 interactions with chain B, 3 interactions with chain A- Hydrophobic interactions: B:L.144, B:Y.175, A:F.221, A:F.221
- Hydrogen bonds: B:Y.175
- Water bridges: A:N.206
MPD.17: 7 residues within 4Å:- Chain B: P.214, D.217
- Chain C: I.130, Y.142, F.143, Y.227
- Ligands: AMP.15
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:D.217, B:D.217
MPD.18: 6 residues within 4Å:- Chain B: I.213, F.221, M.223
- Chain C: L.144, Y.175, L.177
6 PLIP interactions:3 interactions with chain C, 3 interactions with chain B- Hydrophobic interactions: C:L.144, C:Y.175, B:F.221, B:F.221
- Hydrogen bonds: C:Y.175
- Water bridges: B:N.206
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zhang, Y. et al., Crystal structure and function of 5-formaminoimidazole-4-carboxamide ribonucleotide synthetase from Methanocaldococcus jannaschii. Biochemistry (2008)
- Release Date
- 2007-12-04
- Peptides
- PurP protein PF1517: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.90 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x NA: SODIUM ION(Non-functional Binders)
- 3 x CL: CHLORIDE ION(Non-functional Binders)
- 3 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)
- 3 x AMZ: AMINOIMIDAZOLE 4-CARBOXAMIDE RIBONUCLEOTIDE(Non-covalent)
- 6 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Zhang, Y. et al., Crystal structure and function of 5-formaminoimidazole-4-carboxamide ribonucleotide synthetase from Methanocaldococcus jannaschii. Biochemistry (2008)
- Release Date
- 2007-12-04
- Peptides
- PurP protein PF1517: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A