- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-12-mer
- Ligands
- 36 x MG: MAGNESIUM ION(Non-covalent)
- 12 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)
ANP.4: 26 residues within 4Å:- Chain A: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, R.332, R.337, R.343, E.345, R.347
- Chain C: D.82
- Ligands: MG.1, MG.2, MG.3, MSL.5
23 PLIP interactions:23 interactions with chain A- Hydrogen bonds: A:G.140, A:E.142, A:Y.194, A:Q.195, A:W.209, A:Y.211, A:S.259, A:S.259, A:N.267, A:R.332, A:R.337, A:R.337, A:R.343, A:R.347
- Water bridges: A:V.141, A:V.141, A:N.208, A:N.208, A:W.209
- Salt bridges: A:H.257
- pi-Stacking: A:Y.211, A:Y.211
- pi-Cation interactions: A:R.343
ANP.9: 26 residues within 4Å:- Chain A: D.82
- Chain B: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, R.332, R.337, R.343, E.345, R.347
- Ligands: MG.6, MG.7, MG.8, MSL.10
23 PLIP interactions:22 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:G.140, B:E.142, B:Y.194, B:Q.195, B:N.208, B:W.209, B:Y.211, B:S.259, B:S.259, B:N.267, B:R.332, B:R.337, B:R.337, B:R.347
- Water bridges: B:V.141, B:V.141, B:W.209, B:R.343, B:R.343, A:K.50
- Salt bridges: B:H.257
- pi-Stacking: B:Y.211, B:Y.211
ANP.14: 27 residues within 4Å:- Chain C: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, N.267, R.332, R.337, R.343, E.345, R.347
- Chain K: D.82
- Ligands: MG.11, MG.12, MG.13, MSL.15
24 PLIP interactions:24 interactions with chain C- Hydrogen bonds: C:G.140, C:E.142, C:E.142, C:Y.194, C:Q.195, C:W.209, C:Y.211, C:H.255, C:S.259, C:S.259, C:N.267, C:R.332, C:R.337, C:R.337, C:R.343, C:R.347
- Water bridges: C:V.141, C:V.141, C:N.208, C:N.208, C:W.209
- Salt bridges: C:H.257
- pi-Stacking: C:Y.211, C:Y.211
ANP.19: 26 residues within 4Å:- Chain D: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, R.332, R.337, R.343, E.345, R.347
- Chain F: D.82
- Ligands: MG.16, MG.17, MG.18, MSL.20
23 PLIP interactions:23 interactions with chain D- Hydrogen bonds: D:G.140, D:E.142, D:Y.194, D:Q.195, D:W.209, D:Y.211, D:S.259, D:S.259, D:N.267, D:R.332, D:R.337, D:R.337, D:R.343, D:R.347
- Water bridges: D:V.141, D:V.141, D:N.208, D:N.208, D:W.209
- Salt bridges: D:H.257
- pi-Stacking: D:Y.211, D:Y.211
- pi-Cation interactions: D:R.343
ANP.24: 26 residues within 4Å:- Chain D: D.82
- Chain E: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, R.332, R.337, R.343, E.345, R.347
- Ligands: MG.21, MG.22, MG.23, MSL.25
23 PLIP interactions:22 interactions with chain E, 1 interactions with chain D- Hydrogen bonds: E:G.140, E:E.142, E:Y.194, E:Q.195, E:N.208, E:W.209, E:Y.211, E:S.259, E:S.259, E:N.267, E:R.332, E:R.337, E:R.337, E:R.347
- Water bridges: E:V.141, E:V.141, E:W.209, E:R.343, E:R.343, D:K.50
- Salt bridges: E:H.257
- pi-Stacking: E:Y.211, E:Y.211
ANP.29: 27 residues within 4Å:- Chain F: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, N.267, R.332, R.337, R.343, E.345, R.347
- Chain H: D.82
- Ligands: MG.26, MG.27, MG.28, MSL.30
24 PLIP interactions:24 interactions with chain F- Hydrogen bonds: F:G.140, F:E.142, F:E.142, F:Y.194, F:Q.195, F:W.209, F:Y.211, F:H.255, F:S.259, F:S.259, F:N.267, F:R.332, F:R.337, F:R.337, F:R.343, F:R.347
- Water bridges: F:V.141, F:V.141, F:N.208, F:N.208, F:W.209
- Salt bridges: F:H.257
- pi-Stacking: F:Y.211, F:Y.211
ANP.34: 26 residues within 4Å:- Chain G: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, R.332, R.337, R.343, E.345, R.347
- Chain I: D.82
- Ligands: MG.31, MG.32, MG.33, MSL.35
26 PLIP interactions:26 interactions with chain G- Hydrogen bonds: G:G.140, G:E.142, G:Y.194, G:Q.195, G:W.209, G:Y.211, G:H.255, G:S.259, G:S.259, G:N.267, G:R.332, G:R.337, G:R.337, G:R.343, G:R.347
- Water bridges: G:V.141, G:V.141, G:Y.167, G:N.208, G:N.208, G:W.209, G:D.210
- Salt bridges: G:H.257
- pi-Stacking: G:Y.211, G:Y.211
- pi-Cation interactions: G:R.343
ANP.39: 26 residues within 4Å:- Chain G: D.82
- Chain H: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, R.332, R.337, R.343, E.345, R.347
- Ligands: MG.36, MG.37, MG.38, MSL.40
26 PLIP interactions:25 interactions with chain H, 1 interactions with chain G- Hydrogen bonds: H:G.140, H:E.142, H:E.142, H:Y.194, H:Q.195, H:N.208, H:W.209, H:Y.211, H:H.255, H:S.259, H:S.259, H:N.267, H:R.332, H:R.337, H:R.337, H:R.347
- Water bridges: H:V.141, H:V.141, H:W.209, H:D.210, H:R.343, H:R.343, G:K.50
- Salt bridges: H:H.257
- pi-Stacking: H:Y.211, H:Y.211
ANP.44: 27 residues within 4Å:- Chain E: D.82
- Chain I: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, N.267, R.332, R.337, R.343, E.345, R.347
- Ligands: MG.41, MG.42, MG.43, MSL.45
24 PLIP interactions:24 interactions with chain I- Hydrogen bonds: I:G.140, I:E.142, I:Y.194, I:Q.195, I:W.209, I:Y.211, I:S.259, I:S.259, I:N.267, I:R.332, I:R.337, I:R.337, I:R.343, I:R.347
- Water bridges: I:V.141, I:V.141, I:E.199, I:N.208, I:N.208, I:W.209, I:D.210
- Salt bridges: I:H.257
- pi-Stacking: I:Y.211, I:Y.211
ANP.49: 26 residues within 4Å:- Chain J: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, R.332, R.337, R.343, E.345, R.347
- Chain L: D.82
- Ligands: MG.46, MG.47, MG.48, MSL.50
26 PLIP interactions:26 interactions with chain J- Hydrogen bonds: J:G.140, J:E.142, J:Y.194, J:Q.195, J:W.209, J:Y.211, J:H.255, J:S.259, J:S.259, J:N.267, J:R.332, J:R.337, J:R.337, J:R.343, J:R.347
- Water bridges: J:V.141, J:V.141, J:Y.167, J:N.208, J:N.208, J:W.209, J:D.210
- Salt bridges: J:H.257
- pi-Stacking: J:Y.211, J:Y.211
- pi-Cation interactions: J:R.343
ANP.54: 26 residues within 4Å:- Chain J: D.82
- Chain K: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, R.332, R.337, R.343, E.345, R.347
- Ligands: MG.51, MG.52, MG.53, MSL.55
26 PLIP interactions:25 interactions with chain K, 1 interactions with chain J- Hydrogen bonds: K:G.140, K:E.142, K:E.142, K:Y.194, K:Q.195, K:N.208, K:W.209, K:Y.211, K:H.255, K:S.259, K:S.259, K:N.267, K:R.332, K:R.337, K:R.337, K:R.347
- Water bridges: K:V.141, K:V.141, K:W.209, K:D.210, K:R.343, K:R.343, J:K.50
- Salt bridges: K:H.257
- pi-Stacking: K:Y.211, K:Y.211
ANP.59: 27 residues within 4Å:- Chain B: D.82
- Chain L: K.138, H.139, G.140, E.142, Y.194, Q.195, E.199, E.206, N.208, W.209, D.210, Y.211, H.255, H.257, L.258, S.259, N.267, R.332, R.337, R.343, E.345, R.347
- Ligands: MG.56, MG.57, MG.58, MSL.60
24 PLIP interactions:24 interactions with chain L- Hydrogen bonds: L:G.140, L:E.142, L:Y.194, L:Q.195, L:W.209, L:Y.211, L:S.259, L:S.259, L:N.267, L:R.332, L:R.337, L:R.337, L:R.343, L:R.347
- Water bridges: L:V.141, L:V.141, L:E.199, L:N.208, L:N.208, L:W.209, L:D.210
- Salt bridges: L:H.257
- pi-Stacking: L:Y.211, L:Y.211
- 12 x MSL: (2S)-2-AMINO-4-(METHYLSULFONIMIDOYL)BUTANOIC ACID(Non-covalent)
MSL.5: 14 residues within 4Å:- Chain A: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.3, ANP.4
9 PLIP interactions:9 interactions with chain A- Hydrophobic interactions: A:W.320
- Hydrogen bonds: A:E.199, A:Q.204, A:G.251, A:G.251, A:G.253
- Water bridges: A:G.251
- Salt bridges: A:H.255, A:R.308
MSL.10: 14 residues within 4Å:- Chain B: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.8, ANP.9
8 PLIP interactions:8 interactions with chain B- Hydrophobic interactions: B:W.320
- Hydrogen bonds: B:E.199, B:Q.204, B:G.251, B:G.253, B:R.347
- Salt bridges: B:H.255, B:R.308
MSL.15: 14 residues within 4Å:- Chain C: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.13, ANP.14
8 PLIP interactions:8 interactions with chain C- Hydrophobic interactions: C:W.320
- Hydrogen bonds: C:E.199, C:Q.204, C:G.251, C:G.251, C:G.253
- Salt bridges: C:H.255, C:R.308
MSL.20: 14 residues within 4Å:- Chain D: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.18, ANP.19
9 PLIP interactions:9 interactions with chain D- Hydrophobic interactions: D:W.320
- Hydrogen bonds: D:E.199, D:Q.204, D:G.251, D:G.251, D:G.253
- Water bridges: D:G.251
- Salt bridges: D:H.255, D:R.308
MSL.25: 14 residues within 4Å:- Chain E: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.23, ANP.24
8 PLIP interactions:8 interactions with chain E- Hydrophobic interactions: E:W.320
- Hydrogen bonds: E:E.199, E:Q.204, E:G.251, E:G.253, E:R.347
- Salt bridges: E:H.255, E:R.308
MSL.30: 14 residues within 4Å:- Chain F: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.28, ANP.29
8 PLIP interactions:8 interactions with chain F- Hydrophobic interactions: F:W.320
- Hydrogen bonds: F:E.199, F:Q.204, F:G.251, F:G.251, F:G.253
- Salt bridges: F:H.255, F:R.308
MSL.35: 14 residues within 4Å:- Chain G: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.33, ANP.34
10 PLIP interactions:10 interactions with chain G- Hydrophobic interactions: G:W.320
- Hydrogen bonds: G:E.199, G:Q.204, G:G.251, G:G.251, G:G.253
- Water bridges: G:Y.167, G:G.251
- Salt bridges: G:H.255, G:R.308
MSL.40: 14 residues within 4Å:- Chain H: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.38, ANP.39
10 PLIP interactions:10 interactions with chain H- Hydrophobic interactions: H:W.320
- Hydrogen bonds: H:E.199, H:Q.204, H:G.251, H:G.253, H:R.347
- Water bridges: H:E.142, H:Y.167
- Salt bridges: H:H.255, H:R.308
MSL.45: 14 residues within 4Å:- Chain I: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.43, ANP.44
9 PLIP interactions:9 interactions with chain I- Hydrophobic interactions: I:W.320
- Hydrogen bonds: I:E.199, I:Q.204, I:G.251, I:G.251, I:G.253
- Water bridges: I:Y.167
- Salt bridges: I:H.255, I:R.308
MSL.50: 14 residues within 4Å:- Chain J: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.48, ANP.49
10 PLIP interactions:10 interactions with chain J- Hydrophobic interactions: J:W.320
- Hydrogen bonds: J:E.199, J:Q.204, J:G.251, J:G.251, J:G.253
- Water bridges: J:Y.167, J:G.251
- Salt bridges: J:H.255, J:R.308
MSL.55: 14 residues within 4Å:- Chain K: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.53, ANP.54
10 PLIP interactions:10 interactions with chain K- Hydrophobic interactions: K:W.320
- Hydrogen bonds: K:E.199, K:Q.204, K:G.251, K:G.253, K:R.347
- Water bridges: K:E.142, K:Y.167
- Salt bridges: K:H.255, K:R.308
MSL.60: 14 residues within 4Å:- Chain L: E.144, E.199, T.250, G.251, G.253, H.255, R.308, T.319, W.320, S.321, R.332, R.347
- Ligands: MG.58, ANP.59
9 PLIP interactions:9 interactions with chain L- Hydrophobic interactions: L:W.320
- Hydrogen bonds: L:E.199, L:Q.204, L:G.251, L:G.251, L:G.253
- Water bridges: L:Y.167
- Salt bridges: L:H.255, L:R.308
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Wang, N. et al., Crystal structures of gamma-glutamylmethylamide synthetase provide insight into bacterial metabolism of oceanic monomethylamine. J.Biol.Chem. (2020)
- Release Date
- 2020-11-18
- Peptides
- Type III glutamate--ammonia ligase: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
AE
BF
CG
AH
BI
CJ
AK
BL
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- homo-12-mer
- Ligands
- 36 x MG: MAGNESIUM ION(Non-covalent)
- 12 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)
- 12 x MSL: (2S)-2-AMINO-4-(METHYLSULFONIMIDOYL)BUTANOIC ACID(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Wang, N. et al., Crystal structures of gamma-glutamylmethylamide synthetase provide insight into bacterial metabolism of oceanic monomethylamine. J.Biol.Chem. (2020)
- Release Date
- 2020-11-18
- Peptides
- Type III glutamate--ammonia ligase: ABCDEFGHIJKL
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
CD
AE
BF
CG
AH
BI
CJ
AK
BL
C