- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.53 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 2 x MGD: 2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE(Non-covalent)
- 4 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
SF4.3: 12 residues within 4Å:- Chain A: C.50, Y.52, C.53, V.55, G.56, C.57, L.87, C.88, K.90, G.91, P.234, I.235
4 PLIP interactions:4 interactions with chain A,- Metal complexes: A:C.50, A:C.53, A:C.57, A:C.88
SF4.17: 12 residues within 4Å:- Chain B: C.12, T.13, A.14, C.15, R.16, C.18, P.71, C.157, P.158, T.159, T.161, M.162
4 PLIP interactions:4 interactions with chain B,- Metal complexes: B:C.12, B:C.15, B:C.18, B:C.157
SF4.18: 14 residues within 4Å:- Chain B: C.74, R.75, H.76, C.77, P.80, P.81, C.82, V.103, C.121, P.122, Y.123, I.125, P.126, K.137
4 PLIP interactions:4 interactions with chain B,- Metal complexes: B:C.74, B:C.77, B:C.82, B:C.121
SF4.19: 12 residues within 4Å:- Chain B: F.5, C.22, K.26, K.51, Q.73, C.138, D.139, M.140, C.141, P.151, A.152, C.153
5 PLIP interactions:5 interactions with chain B,- Salt bridges: B:D.139
- Metal complexes: B:C.22, B:C.138, B:C.141, B:C.153
- 1 x H2S: HYDROSULFURIC ACID(Non-covalent)
- 1 x W: TUNGSTEN ION(Non-covalent)
- 8 x GOL: GLYCEROL(Non-functional Binders)
GOL.6: 12 residues within 4Å:- Chain A: N.228, E.231, R.256, T.258, R.259, Y.883, R.884, V.885, E.911, R.946
- Chain B: H.39, W.67
9 PLIP interactions:9 interactions with chain A- Hydrogen bonds: A:N.228, A:R.256, A:R.256, A:R.259, A:R.259, A:R.884, A:E.911, A:R.946, A:R.946
GOL.7: 11 residues within 4Å:- Chain A: Y.300, R.775, V.778, D.779, K.780, P.810, G.811, T.812, K.813, H.814, P.815
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:R.775, A:D.779, A:G.811, A:T.812, A:K.813, A:K.813, A:H.814
GOL.8: 7 residues within 4Å:- Chain A: R.206, G.207, A.208, Y.462, W.492, W.765, M.818
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:G.207
- Water bridges: A:G.205, A:Y.462
GOL.9: 5 residues within 4Å:- Chain A: F.311, S.312, F.313, L.358, K.361
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:F.313
GOL.10: 3 residues within 4Å:- Chain A: R.103, L.108, E.582
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:E.582
- Water bridges: A:T.105, A:T.105, A:E.582
GOL.11: 6 residues within 4Å:- Chain A: P.464, P.466, N.467, A.470, Y.476, A.479
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.467
- Water bridges: A:N.467, A:Y.476, A:R.495
GOL.12: 7 residues within 4Å:- Chain A: R.298, E.299, S.304, R.345, P.347, H.814, F.823
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:E.299, A:S.304, A:S.304, A:H.814
GOL.14: 5 residues within 4Å:- Chain A: K.131, K.134, K.135, L.655, E.659
2 PLIP interactions:2 interactions with chain A- Water bridges: A:K.134, A:D.138
- 2 x NO3: NITRATE ION(Non-functional Binders)
NO3.13: 6 residues within 4Å:- Chain A: C.845, C.872, P.874, Y.876, P.877, M.999
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Y.876
NO3.16: 4 residues within 4Å:- Chain A: R.875, Y.876, S.931, D.1001
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.931
- Water bridges: A:S.931, A:R.1003
- 1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Oliveira, A.R. et al., Spectroscopic and Structural Characterization of Reduced Desulfovibrio vulgaris Hildenborough W-FdhAB Reveals Stable Metal Coordination during Catalysis. Acs Chem.Biol. (2022)
- Release Date
- 2022-07-13
- Peptides
- Formate dehydrogenase, alpha subunit, selenocysteine-containing: A
Formate dehydrogenase, beta subunit, putative: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AAAB
BBB
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.53 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 2 x MGD: 2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE(Non-covalent)
- 4 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
- 1 x H2S: HYDROSULFURIC ACID(Non-covalent)
- 1 x W: TUNGSTEN ION(Non-covalent)
- 8 x GOL: GLYCEROL(Non-functional Binders)
- 2 x NO3: NITRATE ION(Non-functional Binders)
- 1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Oliveira, A.R. et al., Spectroscopic and Structural Characterization of Reduced Desulfovibrio vulgaris Hildenborough W-FdhAB Reveals Stable Metal Coordination during Catalysis. Acs Chem.Biol. (2022)
- Release Date
- 2022-07-13
- Peptides
- Formate dehydrogenase, alpha subunit, selenocysteine-containing: A
Formate dehydrogenase, beta subunit, putative: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AAAB
BBB