- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.41 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ZN: ZINC ION(Non-covalent)
- 2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
ADP.2: 18 residues within 4Å:- Chain A: G.214, A.215, E.216, P.217, N.236, S.237, F.238, G.239, M.240, T.241, D.305, I.326, R.329, I.335, G.338, N.340
- Ligands: K.3, UNL.6
15 PLIP interactions:15 interactions with chain A- Hydrogen bonds: A:A.215, A:S.237, A:G.239, A:T.241, A:T.241, A:T.241, A:D.305, A:R.329, A:N.340
- Water bridges: A:T.143, A:G.144, A:G.144, A:N.236, A:I.326
- pi-Stacking: A:F.238
ADP.19: 16 residues within 4Å:- Chain B: S.95, G.214, A.215, E.216, P.217, N.236, S.237, F.238, G.239, M.240, T.241, D.305, I.326, R.329, K.425
- Ligands: UNL.20
16 PLIP interactions:16 interactions with chain B- Hydrogen bonds: B:S.95, B:S.95, B:A.215, B:N.236, B:G.239, B:T.241, B:T.241, B:D.305, B:R.329, B:K.425
- Water bridges: B:T.143, B:G.144, B:G.144, B:N.236
- Salt bridges: B:K.425, B:K.425
- 3 x K: POTASSIUM ION(Non-covalent)
K.3: 5 residues within 4Å:- Chain A: A.215, I.335, G.338, N.340
- Ligands: ADP.2
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:A.215, A:G.338
K.4: 8 residues within 4Å:- Chain A: K.129, G.156, C.157, L.158
- Chain B: M.84, K.85, R.86, G.88
4 PLIP interactions:2 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: A:K.129, A:G.156, B:G.88, H2O.9
K.5: 7 residues within 4Å:- Chain A: M.84, K.85, G.88
- Chain B: K.129, G.156, C.157, L.158
5 PLIP interactions:2 interactions with chain A, 2 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: A:K.85, A:G.88, B:K.129, B:G.156, H2O.2
- 2 x UNL: UNKNOWN LIGAND
UNL.6: 9 residues within 4Å:- Chain A: S.137, G.138, G.144, A.164, H.183, A.215, G.239, P.246
- Ligands: ADP.2
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:G.138, A:G.239
- Water bridges: A:S.137, A:G.144, A:G.338
UNL.20: 11 residues within 4Å:- Chain B: S.137, G.138, G.144, H.183, I.185, G.214, A.215, S.237, G.239, P.246
- Ligands: ADP.19
10 PLIP interactions:10 interactions with chain B- Hydrogen bonds: B:G.138, B:T.143, B:A.215, B:S.237
- Water bridges: B:S.137, B:G.144, B:H.183, B:G.214, B:S.237, B:S.237
- 5 x SO4: SULFATE ION(Non-functional Binders)
SO4.7: 3 residues within 4Å:- Chain A: G.48, S.53, K.62
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:S.53
- Salt bridges: A:K.62
SO4.8: 5 residues within 4Å:- Chain A: G.165, N.166, S.167, Y.188, R.191
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:N.166, A:S.167, A:S.167, A:Y.188
- Salt bridges: A:R.191
SO4.9: 2 residues within 4Å:- Chain A: R.394, R.395
2 PLIP interactions:2 interactions with chain A- Salt bridges: A:R.394, A:R.395
SO4.21: 4 residues within 4Å:- Chain B: N.166, S.167, Y.188, R.191
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:N.166, B:S.167, B:S.167, B:Y.188, B:Y.188
- Water bridges: B:K.168
- Salt bridges: B:R.191
SO4.22: 2 residues within 4Å:- Chain B: R.394, R.395
2 PLIP interactions:2 interactions with chain B- Salt bridges: B:R.394, B:R.395
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.13: 2 residues within 4Å:- Chain A: W.7, Y.123
No protein-ligand interaction detected (PLIP)EDO.14: 6 residues within 4Å:- Chain A: N.32, A.35, F.44, I.49, T.50, G.51
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:N.32
EDO.15: 5 residues within 4Å:- Chain A: T.67, K.68, S.69, R.302, R.304
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:K.68, A:S.69, A:R.302
- Water bridges: A:T.67, A:T.67
EDO.16: 3 residues within 4Å:- Chain A: Y.150, E.153
- Chain B: Y.150
No protein-ligand interaction detected (PLIP)EDO.17: 3 residues within 4Å:- Chain A: A.81, G.82, D.83
1 PLIP interactions:1 interactions with chain A- Water bridges: A:D.83
EDO.24: 3 residues within 4Å:- Chain B: K.129, R.154, L.155
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:K.129, B:R.154
EDO.25: 3 residues within 4Å:- Chain B: W.7, Y.123
- Ligands: EDO.26
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:Y.123
- Water bridges: B:W.7, B:K.129, B:K.129
EDO.26: 5 residues within 4Å:- Chain B: W.7, E.8, N.116, R.154
- Ligands: EDO.25
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.116, B:R.154
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Joint Center for Structural Genomics (JCSG), Crystal structure of a Putative Acyl-CoA ligase (BT_0428) from Bacteroides thetaiotaomicron VPI-5482 at 2.41 A resolution. To be published
- Release Date
- 2014-12-31
- Peptides
- Phenylacetate-coenzyme A ligase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.41 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ZN: ZINC ION(Non-covalent)
- 2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
- 3 x K: POTASSIUM ION(Non-covalent)
- 2 x UNL: UNKNOWN LIGAND
- 5 x SO4: SULFATE ION(Non-functional Binders)
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 8 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Joint Center for Structural Genomics (JCSG), Crystal structure of a Putative Acyl-CoA ligase (BT_0428) from Bacteroides thetaiotaomicron VPI-5482 at 2.41 A resolution. To be published
- Release Date
- 2014-12-31
- Peptides
- Phenylacetate-coenzyme A ligase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B