- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x MET: METHIONINE(Non-covalent)
- 2 x 5AD: 5'-DEOXYADENOSINE(Non-covalent)
5AD.2: 16 residues within 4Å:- Chain A: Y.110, M.121, C.122, F.222, E.224, L.270, R.304, M.305, R.306, A.308, R.343, Q.383, F.384
- Ligands: MET.1, SAH.3, TRP.5
8 PLIP interactions:7 interactions with chain A, 1 Ligand-Ligand interactions- Hydrogen bonds: A:E.224, A:R.306, A:R.306, A:R.343, A:Q.383, W.5
- Water bridges: A:N.195
- pi-Stacking: A:F.384
5AD.12: 16 residues within 4Å:- Chain B: Y.110, M.121, C.122, F.222, E.224, L.270, R.304, M.305, R.306, A.308, R.343, Q.383, F.384
- Ligands: MET.11, SAH.13, TRP.15
8 PLIP interactions:7 interactions with chain B, 1 Ligand-Ligand interactions- Hydrogen bonds: B:E.224, B:R.306, B:R.306, B:R.343, B:Q.383, W.15
- Water bridges: B:N.195
- pi-Stacking: B:F.384
- 2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)
SAH.3: 25 residues within 4Å:- Chain A: Y.110, M.121, C.122, L.160, T.161, G.162, E.163, N.195, G.197, F.222, E.224, K.244, R.250, L.270, R.304, M.305, R.306, A.308, R.343, Q.383, F.384
- Ligands: MET.1, 5AD.2, SF4.4, TRP.5
14 PLIP interactions:12 interactions with chain A, 2 Ligand-Ligand interactions- Hydrogen bonds: A:N.195, A:G.197, A:E.224, A:R.306, A:R.306, A:R.343, A:Q.383, W.5
- Water bridges: A:F.222, A:R.250
- Salt bridges: A:K.244, A:R.250
- pi-Stacking: A:F.384
- Hydrophobic interactions: M.1
SAH.13: 25 residues within 4Å:- Chain B: Y.110, M.121, C.122, L.160, T.161, G.162, E.163, N.195, G.197, F.222, E.224, K.244, R.250, L.270, R.304, M.305, R.306, A.308, R.343, Q.383, F.384
- Ligands: MET.11, 5AD.12, SF4.14, TRP.15
14 PLIP interactions:11 interactions with chain B, 3 Ligand-Ligand interactions- Hydrogen bonds: B:N.195, B:G.197, B:E.224, B:R.306, B:R.306, B:R.343, B:Q.383, W.15
- Water bridges: B:R.250, M.11
- Salt bridges: B:K.244, B:R.250
- pi-Stacking: B:F.384
- Hydrophobic interactions: M.11
- 2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
SF4.4: 11 residues within 4Å:- Chain A: C.115, S.117, C.119, C.122, M.124, R.125, G.162, K.244, Q.383
- Ligands: MET.1, SAH.3
6 PLIP interactions:4 interactions with chain A, 2 Ligand-Ligand interactions- Salt bridges: A:E.224
- Metal complexes: A:C.115, A:C.119, A:C.122, MET.1, SAH.3
SF4.14: 11 residues within 4Å:- Chain B: C.115, S.117, C.119, C.122, M.124, R.125, G.162, K.244, Q.383
- Ligands: MET.11, SAH.13
6 PLIP interactions:4 interactions with chain B, 2 Ligand-Ligand interactions- Salt bridges: B:E.224
- Metal complexes: B:C.115, B:C.119, B:C.122, MET.11, SAH.13
- 2 x TRP: TRYPTOPHAN(Non-covalent)
TRP.5: 15 residues within 4Å:- Chain A: F.106, P.108, Y.110, L.160, F.222, T.341, T.342, R.343, S.360, G.362, P.364, F.384, V.386
- Ligands: 5AD.2, SAH.3
14 PLIP interactions:14 interactions with chain A,- Hydrophobic interactions: A:P.108, A:P.108, A:L.160, A:P.364, A:F.384, A:V.386
- Hydrogen bonds: A:Y.110, A:Y.110, A:R.343, A:R.343, A:S.360
- Water bridges: A:N.195, A:S.301
- Salt bridges: A:R.343
TRP.15: 15 residues within 4Å:- Chain B: F.106, P.108, Y.110, L.160, F.222, T.341, T.342, R.343, S.360, G.362, P.364, F.384, V.386
- Ligands: 5AD.12, SAH.13
13 PLIP interactions:13 interactions with chain B,- Hydrophobic interactions: B:P.108, B:P.108, B:L.160, B:P.364, B:F.384, B:V.386
- Hydrogen bonds: B:Y.110, B:R.343, B:R.343, B:S.360
- Water bridges: B:N.195, B:S.301
- Salt bridges: B:R.343
- 2 x GOL: GLYCEROL(Non-functional Binders)
GOL.6: 7 residues within 4Å:- Chain A: H.104, R.191, Y.193, T.218, Y.264, D.299, R.337
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:T.218, A:T.218
- Water bridges: A:D.299, A:R.337
GOL.16: 7 residues within 4Å:- Chain B: H.104, R.191, Y.193, T.218, Y.264, D.299, R.337
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:Y.193, B:T.218
- Water bridges: B:D.299, B:D.299, B:R.337
- 6 x BR: BROMIDE ION(Non-covalent)
BR.7: 3 residues within 4Å:- Chain A: R.306, P.307, K.310
Ligand excluded by PLIPBR.8: 3 residues within 4Å:- Chain A: R.155, E.190, H.408
Ligand excluded by PLIPBR.9: 2 residues within 4Å:- Chain A: R.100, R.102
Ligand excluded by PLIPBR.17: 3 residues within 4Å:- Chain B: R.306, P.307, K.310
Ligand excluded by PLIPBR.18: 3 residues within 4Å:- Chain B: R.155, E.190, H.408
Ligand excluded by PLIPBR.19: 2 residues within 4Å:- Chain B: R.100, R.102
Ligand excluded by PLIP- 2 x NA: SODIUM ION(Non-functional Binders)
NA.10: 3 residues within 4Å:- Chain A: E.400, V.406, F.409
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:V.406, A:V.406
- Water bridges: A:H.408
NA.20: 3 residues within 4Å:- Chain B: E.400, V.406, F.409
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:V.406, B:V.406
- Water bridges: B:H.408
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nicolet, Y. et al., Crystal Structure of Tryptophan Lyase (NosL): Evidence for Radical Formation at the Amino Group of Tryptophan. Angew.Chem.Int.Ed.Engl. (2014)
- Release Date
- 2014-09-17
- Peptides
- NosL: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.80 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x MET: METHIONINE(Non-covalent)
- 2 x 5AD: 5'-DEOXYADENOSINE(Non-covalent)
- 2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)
- 2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
- 2 x TRP: TRYPTOPHAN(Non-covalent)
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 6 x BR: BROMIDE ION(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nicolet, Y. et al., Crystal Structure of Tryptophan Lyase (NosL): Evidence for Radical Formation at the Amino Group of Tryptophan. Angew.Chem.Int.Ed.Engl. (2014)
- Release Date
- 2014-09-17
- Peptides
- NosL: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A