SMTL ID : 7b9a.2 (1 other biounit)

CooS-V with Xe-soaked

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.1: 12 residues within 4Å: Chain A: C.47, L.49, C.50, G.53, C.55, G.66, V.67, C.68, I.70, M.75, R.78, T.196 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.47, A:C.50, A:C.55, A:C.68 SF4.30: 13 residues within 4Å: Chain B: C.47, L.49, C.50, N.52, G.53, C.55, G.66, V.67, C.68, I.70, M.75, R.78, T.196 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.47, B:C.50, B:C.55, B:C.68

29 x XE: XENON(Non-covalent)(Non-functional Binders)

XE.2: 2 residues within 4Å: Chain A: T.207, L.210 Ligand excluded by PLIP XE.3: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP XE.4: 5 residues within 4Å: Chain A: I.447, V.549, A.559, D.562, A.563 Ligand excluded by PLIP XE.5: 1 residues within 4Å: Chain A: S.528 Ligand excluded by PLIP XE.6: 4 residues within 4Å: Chain A: A.443, V.444, G.445 Ligands: XE.10 Ligand excluded by PLIP XE.7: 2 residues within 4Å: Chain A: I.420, L.431 Ligand excluded by PLIP XE.8: 4 residues within 4Å: Chain A: V.581, M.582, T.592, I.603 Ligand excluded by PLIP XE.9: 2 residues within 4Å: Chain A: N.497, L.498 Ligand excluded by PLIP XE.10: 4 residues within 4Å: Chain A: A.443, V.530, L.534 Ligands: XE.6 Ligand excluded by PLIP XE.11: 3 residues within 4Å: Chain A: S.24, N.342, P.345 Ligand excluded by PLIP XE.12: 1 residues within 4Å: Chain A: E.97 Ligand excluded by PLIP XE.13: 2 residues within 4Å: Chain A: P.374, S.375 Ligand excluded by PLIP XE.14: 1 residues within 4Å: Chain A: G.426 Ligand excluded by PLIP XE.15: 2 residues within 4Å: Chain A: N.492, L.493 Ligand excluded by PLIP XE.31: 2 residues within 4Å: Chain B: T.207, L.210 Ligand excluded by PLIP XE.32: 3 residues within 4Å: Chain B: M.582, T.592, I.603 Ligand excluded by PLIP XE.33: 1 residues within 4Å: Chain B: M.80 Ligand excluded by PLIP XE.34: 4 residues within 4Å: Chain B: I.447, V.549, A.551, A.563 Ligand excluded by PLIP XE.35: 2 residues within 4Å: Chain B: L.571 Ligands: XE.45 Ligand excluded by PLIP XE.36: 4 residues within 4Å: Chain B: V.444, G.445, V.531, V.547 Ligand excluded by PLIP XE.37: 2 residues within 4Å: Chain B: L.431, L.510 Ligand excluded by PLIP XE.38: 1 residues within 4Å: Chain B: V.434 Ligand excluded by PLIP XE.39: 2 residues within 4Å: Chain B: P.417, L.421 Ligand excluded by PLIP XE.40: 1 residues within 4Å: Chain B: F.232 Ligand excluded by PLIP XE.41: 1 residues within 4Å: Chain B: K.100 Ligand excluded by PLIP XE.42: 3 residues within 4Å: Chain B: K.373, P.374, S.375 Ligand excluded by PLIP XE.43: 2 residues within 4Å: Chain B: E.239, N.492 Ligand excluded by PLIP XE.44: 3 residues within 4Å: Chain B: T.110, P.111, R.378 Ligand excluded by PLIP XE.45: 5 residues within 4Å: Chain B: G.445, I.447, I.527, V.549 Ligands: XE.35 Ligand excluded by PLIP

2 x T2N: 3,5-dioxa-7-thia-1-thionia-2$l^{2},4$l^{2},6$l^{3},8$l^{2}-tetraferrabicyclo[4.2.0]octane(Non-covalent)

T2N.16: 11 residues within 4Å: Chain A: H.259, I.294, E.295, W.317, N.337, C.338, C.449, C.480, C.521, E.556 Ligands: H2S.23 10 PLIP interactions: 10 interactions with chain A, Hydrogen bonds: A:E.295, A:N.337, A:C.480 Salt bridges: A:E.556 Metal complexes: A:E.295, A:C.338, A:C.449, A:C.480, A:E.556, A:E.556 T2N.46: 10 residues within 4Å: Chain B: I.294, N.337, C.338, N.448, C.449, C.480, C.521, E.556, K.558 Ligands: H2S.47 4 PLIP interactions: 4 interactions with chain B, Hydrogen bonds: B:N.337, B:C.480 Salt bridges: B:E.556 Metal complexes: B:C.480

11 x BR: BROMIDE ION(Non-covalent)

BR.17: 2 residues within 4Å: Chain A: M.80, R.83 Ligand excluded by PLIP BR.18: 1 residues within 4Å: Chain A: N.39 Ligand excluded by PLIP BR.19: 1 residues within 4Å: Chain A: V.265 Ligand excluded by PLIP BR.20: 3 residues within 4Å: Chain A: E.273, A.274, V.275 Ligand excluded by PLIP BR.21: 2 residues within 4Å: Chain A: W.148, Y.151 Ligand excluded by PLIP BR.22: 3 residues within 4Å: Chain A: L.129, N.130, R.141 Ligand excluded by PLIP BR.25: 4 residues within 4Å: Chain B: M.80, R.83, N.84, Q.557 Ligand excluded by PLIP BR.26: 1 residues within 4Å: Chain B: N.39 Ligand excluded by PLIP BR.27: 2 residues within 4Å: Chain B: N.130, R.141 Ligand excluded by PLIP BR.28: 2 residues within 4Å: Chain B: W.148, Y.151 Ligand excluded by PLIP BR.29: 3 residues within 4Å: Chain B: L.23, S.24, P.345 Ligand excluded by PLIP

2 x H2S: HYDROSULFURIC ACID(Non-covalent)

H2S.23: 6 residues within 4Å: Chain A: N.448, C.449, C.521, K.558, A.559 Ligands: T2N.16 No protein-ligand interaction detected (PLIP) H2S.47: 5 residues within 4Å: Chain B: N.448, C.449, C.521, A.559 Ligands: T2N.46 No protein-ligand interaction detected (PLIP)

1 x FES: FE2/S2 (INORGANIC) CLUSTER(Non-covalent)

FES.24: 8 residues within 4Å: Chain A: C.38, C.41, S.46, R.56 Chain B: C.38, C.41, S.46, R.56 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A, Metal complexes: B:C.38, B:C.41, A:C.38, A:C.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jeoung, J.H. et al., A Morphing [4Fe-3S-nO]-Cluster within a Carbon Monoxide Dehydrogenase Scaffold. Angew.Chem.Int.Ed.Engl. (2022)

Release Date

2022-01-12

Peptides

Carbon monoxide dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Carbon monoxide dehydrogenase

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