- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-1-2-2-2-1-1-1-1-1-mer
- Ligands
- 2 x F43: FACTOR 430(Covalent)
- 1 x COM: 1-THIOETHANESULFONIC ACID(Non-covalent)
- 1 x TP7: Coenzyme B
TP7.4: 19 residues within 4Å:- Chain E: F.361, F.362, Y.367, G.368, G.369, H.379, V.381
- Chain F: R.274, L.323, M.327, S.328, F.333, F.446, M.483, N.484, V.485
- Chain G: R.229, K.260, H.261
15 PLIP interactions:7 interactions with chain E, 4 interactions with chain F, 4 interactions with chain G- Hydrophobic interactions: E:F.361, E:F.362, E:Y.367, E:V.381, F:L.323, F:M.327
- Hydrogen bonds: E:Y.367, E:G.369, F:M.327, G:K.260
- Salt bridges: E:H.379, F:R.274, G:R.229, G:K.260, G:K.260
- 1 x SHT: O-PHOSPHONO-N-{(2E)-7-[(2-SULFOETHYL)DITHIO]HEPT-2-ENOYL}-L-THREONINE(Non-covalent)
SHT.5: 15 residues within 4Å:- Chain C: L.120, R.123
- Chain D: F.361, Y.367
- Chain G: R.275, W.322, L.323, M.327, F.333, Y.336, F.446, Y.447, A.482, M.483
- Ligands: F43.2
11 PLIP interactions:6 interactions with chain G, 4 interactions with chain D, 1 interactions with chain C- Hydrophobic interactions: G:L.323, G:M.327, G:F.446, D:F.361, D:F.361, D:Y.367, D:Y.367
- Hydrogen bonds: G:Y.447, G:A.482, G:M.483
- Salt bridges: C:R.123
- 3 x S5Q: FeFe cofactor(Non-covalent)
S5Q.6: 16 residues within 4Å:- Chain H: Y.17, P.141, E.142, G.143
- Chain I: P.78, H.84, A.112, G.113, K.114, M.137, G.138, N.139, F.140, C.143, K.147, R.178
2 PLIP interactions:2 interactions with chain I,- Metal complexes: I:H.84, I:C.143
S5Q.7: 15 residues within 4Å:- Chain F: H.142, V.150, E.152
- Chain J: M.79, R.84, H.85, G.112, G.114, F.148, G.149, N.150, V.151, H.154, K.158, R.213
4 PLIP interactions:2 interactions with chain J, 2 interactions with chain F,- Metal complexes: J:H.85, J:H.154
- Salt bridges: F:E.152, F:E.152
S5Q.8: 14 residues within 4Å:- Chain I: L.85, C.90, S.93, R.97, M.105
- Chain J: V.46, C.48, R.49, L.60, A.61, A.67, C.91, R.98, V.106
2 PLIP interactions:2 interactions with chain J,- Metal complexes: J:C.48, J:C.91
- 1 x ZN: ZINC ION(Non-covalent)
- 2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
ATP.10: 20 residues within 4Å:- Chain K: Y.13, V.18, R.37, S.38, G.39, A.40, G.41, K.42, S.43, V.44, Q.117, K.424, S.427, E.428, L.429, S.430, V.431, E.433, T.458
- Ligands: MG.13
19 PLIP interactions:19 interactions with chain K- Hydrogen bonds: K:G.39, K:G.39, K:A.40, K:G.41, K:K.42, K:S.43, K:V.44, K:Q.117, K:K.424, K:S.427, K:S.430, K:S.430, K:V.431, K:V.431, K:E.433, K:T.458
- Salt bridges: K:K.42, K:K.42
- pi-Stacking: K:Y.13
ATP.11: 19 residues within 4Å:- Chain K: R.162, H.165, D.169, L.170, S.171, G.173, E.174, Y.290, V.298, A.300, S.320, G.321, A.322, G.323, K.324, T.325, T.326, Q.373
- Ligands: MG.12
16 PLIP interactions:16 interactions with chain K- Hydrogen bonds: K:R.162, K:S.171, K:G.173, K:E.174, K:G.321, K:G.321, K:A.322, K:G.323, K:K.324, K:T.325, K:T.326, K:T.326
- Salt bridges: K:K.324, K:K.324
- pi-Stacking: K:Y.290, K:Y.290
- 2 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ramirez-Amador, F. et al., Structure of the ATP-driven methyl-coenzyme M reductase activation complex. Nature (2025)
- Release Date
- 2025-02-26
- Peptides
- UPF0288 protein MmarC6_0796: A
Methyl-coenzyme M reductase subunit gamma: BC
Methyl-coenzyme M reductase subunit beta: DE
Methyl-coenzyme M reductase subunit alpha: FG
Methanogenesis marker protein 17: H
Methanogenesis marker protein 7: I
Methyl-coenzyme M reductase operon protein C: J
Glycine betaine/carnitine/choline transport ATP-binding protein OpuCA: K
DUF2098 domain-containing protein: L - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
JB
AC
BD
EE
DF
CG
FH
GI
HJ
IK
KL
L
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- hetero-1-2-2-2-1-1-1-1-1-mer
- Ligands
- 2 x F43: FACTOR 430(Covalent)
- 1 x COM: 1-THIOETHANESULFONIC ACID(Non-covalent)
- 1 x TP7: Coenzyme B
- 1 x SHT: O-PHOSPHONO-N-{(2E)-7-[(2-SULFOETHYL)DITHIO]HEPT-2-ENOYL}-L-THREONINE(Non-covalent)
- 3 x S5Q: FeFe cofactor(Non-covalent)
- 1 x ZN: ZINC ION(Non-covalent)
- 2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ramirez-Amador, F. et al., Structure of the ATP-driven methyl-coenzyme M reductase activation complex. Nature (2025)
- Release Date
- 2025-02-26
- Peptides
- UPF0288 protein MmarC6_0796: A
Methyl-coenzyme M reductase subunit gamma: BC
Methyl-coenzyme M reductase subunit beta: DE
Methyl-coenzyme M reductase subunit alpha: FG
Methanogenesis marker protein 17: H
Methanogenesis marker protein 7: I
Methyl-coenzyme M reductase operon protein C: J
Glycine betaine/carnitine/choline transport ATP-binding protein OpuCA: K
DUF2098 domain-containing protein: L - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
JB
AC
BD
EE
DF
CG
FH
GI
HJ
IK
KL
L