- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.42 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ZN: ZINC ION(Non-covalent)
- 2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
ADP.2: 19 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: AMP.3, K.5, PGE.8
12 PLIP interactions:12 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:I.326
ADP.17: 17 residues within 4Å:- Chain B: S.94, T.143, 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: EDO.20
16 PLIP interactions:16 interactions with chain B- Hydrogen bonds: B:A.215, B:S.237, B:G.239, B:T.241, B:T.241, B:D.305, B:R.329, B:K.425
- Water bridges: B:S.137, B:T.143, B:T.143, B:G.144, B:N.236, B:N.236
- Salt bridges: B:K.425, B:K.425
- 1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)
AMP.3: 17 residues within 4Å:- Chain A: 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, N.340
- Ligands: ADP.2, K.5, PGE.8
12 PLIP interactions:12 interactions with chain A- Hydrogen bonds: A:T.143, 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:N.236, A:I.326
- 1 x COA: COENZYME A(Non-covalent)
COA.4: 12 residues within 4Å:- Chain A: S.136, A.164, G.165, N.166, S.167, I.185, Y.188, R.191, K.337, V.407, T.408
- Ligands: SO4.9
13 PLIP interactions:13 interactions with chain A- Hydrogen bonds: A:G.165, A:N.166, A:S.167, A:K.337, A:Q.370, A:T.408, A:T.408, A:T.408
- Water bridges: A:N.166
- Salt bridges: A:R.191, A:K.337, A:K.337
- pi-Stacking: A:Y.188
- 3 x K: POTASSIUM ION(Non-covalent)
K.5: 6 residues within 4Å:- Chain A: A.215, I.335, G.338, N.340
- Ligands: ADP.2, AMP.3
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:A.215, A:G.338
K.6: 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 B, 2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: B:K.129, B:G.156, A:K.85, A:G.88, H2O.7
K.7: 7 residues within 4Å:- Chain A: K.129, G.156, C.157, L.158
- Chain B: M.84, K.85, G.88
4 PLIP interactions:2 interactions with chain B, 2 interactions with chain A- Metal complexes: B:K.85, B:G.88, A:K.129, A:G.156
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.9: 5 residues within 4Å:- Chain A: N.166, S.167, Y.188, R.191
- Ligands: COA.4
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:N.166, A:S.167, A:S.167, A:Y.188
- Water bridges: A:K.168
- Salt bridges: A:R.191
SO4.10: 4 residues within 4Å:- Chain A: G.48, D.52, S.53, K.62
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.52
- Water bridges: A:K.62
- Salt bridges: A:K.62
SO4.11: 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
SO4.18: 4 residues within 4Å:- Chain B: N.166, S.167, Y.188, R.191
7 PLIP interactions:6 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:N.166, B:S.167, B:S.167, B:Y.188
- Water bridges: B:N.166, A:D.403
- Salt bridges: B:R.191
- 7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.12: 7 residues within 4Å:- Chain A: I.31, N.32, A.35, F.44, I.49, T.50, G.51
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.32, A:I.49
EDO.13: 1 residues within 4Å:- Chain A: K.46
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.46
EDO.14: 8 residues within 4Å:- Chain A: M.71, N.74, Y.75, P.76, P.101, T.102, V.103, M.296
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:P.101, A:V.103
EDO.15: 7 residues within 4Å:- Chain A: Q.23, L.57, E.262, Y.265, L.266, V.267, L.321
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Q.23, A:E.262, A:V.267
- Water bridges: A:Q.23
EDO.19: 6 residues within 4Å:- Chain B: N.47, R.61, K.62, I.63, P.64, R.300
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:N.47, B:R.61, B:R.300
- Water bridges: B:F.65
EDO.20: 5 residues within 4Å:- Chain B: G.144, H.183, A.215, P.246
- Ligands: ADP.17
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:S.137
- Water bridges: B:G.144
EDO.21: 1 residues within 4Å:- Chain B: W.7
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:W.7
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Joint Center for Structural Genomics (JCSG), Crystal structure of a Hypothetical Acyl-CoA ligase (BT_0428) from Bacteroides thetaiotaomicron VPI-5482 at 2.42 A resolution. To be published
- Release Date
- 2014-08-27
- Peptides
- Phenylacetate-coenzyme A ligase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.42 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x ZN: ZINC ION(Non-covalent)
- 2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)
- 1 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)
- 1 x COA: COENZYME A(Non-covalent)
- 3 x K: POTASSIUM ION(Non-covalent)
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- 7 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 Hypothetical Acyl-CoA ligase (BT_0428) from Bacteroides thetaiotaomicron VPI-5482 at 2.42 A resolution. To be published
- Release Date
- 2014-08-27
- Peptides
- Phenylacetate-coenzyme A ligase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B