SMTL ID : 7o1t.1

Fe(CO)2CNCl species bound [HydE from T. Maritima

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

1 x CYS: CYSTEINE(Non-covalent)

CYS.1: 13 residues within 4Å: Chain A: I.66, Q.117, R.169, T.278, T.279, A.280, L.315, Y.316 Ligands: FE2.2, CMO.3, CMO.4, CYN.5, 5X8.7 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:T.279, A:T.279, A:T.279, A:A.280, A:Y.316 Water bridges: A:R.169, A:R.169, A:K.319 Salt bridges: A:R.169

2 x FE2: FE (II) ION(Non-functional Binders)(Non-covalent)

FE2.2: 4 residues within 4Å: Ligands: CYS.1, CMO.3, CMO.4, CYN.5 1 PLIP interactions: 1 Ligand-Ligand interactions Metal complexes: CYS.1 FE2.11: 6 residues within 4Å: Chain A: M.234 Ligands: CL.10, CMO.12, CMO.13, CYN.14, IOD.15 No protein-ligand interaction detected (PLIP)

4 x CMO: CARBON MONOXIDE(Non-functional Binders)

CMO.3: 8 residues within 4Å: Chain A: I.66, Q.117, L.167, M.301 Ligands: CYS.1, FE2.2, CMO.4, CYN.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.117 CMO.4: 9 residues within 4Å: Chain A: L.167, R.169, G.236, P.276, T.278 Ligands: CYS.1, FE2.2, CMO.3, CYN.5 No protein-ligand interaction detected (PLIP) CMO.12: 9 residues within 4Å: Chain A: L.167, M.234, V.235, G.236, P.276 Ligands: CL.10, FE2.11, CMO.13, CYN.14 No protein-ligand interaction detected (PLIP) CMO.13: 9 residues within 4Å: Chain A: T.144, L.167, M.234, M.301 Ligands: CL.10, FE2.11, CMO.12, CYN.14, IOD.15 No protein-ligand interaction detected (PLIP)

2 x CYN: CYANIDE ION(Non-covalent)

CYN.5: 7 residues within 4Å: Chain A: T.278, T.279, M.301 Ligands: CYS.1, FE2.2, CMO.3, CMO.4 2 PLIP interactions: 1 Ligand-Ligand interactions, 1 interactions with chain A Hydrogen bonds: C.1, A:T.279 CYN.14: 9 residues within 4Å: Chain A: R.64, T.144, R.165, M.234 Ligands: CL.10, FE2.11, CMO.12, CMO.13, IOD.15 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.144, A:R.165, A:R.165

1 x PYR: PYRUVIC ACID(Non-covalent)

PYR.6: 1 residues within 4Å: Chain A: L.78 No protein-ligand interaction detected (PLIP)

1 x 5X8: S-adenosyl-L-cysteine(Non-covalent)

5X8.7: 16 residues within 4Å: Chain A: Y.79, C.80, Q.117, S.118, G.148, R.169, E.171, R.190, M.209, P.239, F.240, I.241, L.315, Y.316 Ligands: CYS.1, SF4.9 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:E.171, A:I.241, A:I.241 Water bridges: A:S.146, A:G.148, A:R.169, A:R.169, A:R.182, A:R.190, A:R.190, A:R.190, A:R.190 Salt bridges: A:R.190

1 x CPS: 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE(Non-covalent)

CPS.8: 4 residues within 4Å: Chain A: K.47, I.291, R.294, C.295 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.294 Hydrogen bonds: A:R.294, A:R.294

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

SF4.9: 8 residues within 4Å: Chain A: C.73, K.75, C.77, Y.79, C.80, R.83, G.119 Ligands: 5X8.7 4 PLIP interactions: 4 interactions with chain A, Salt bridges: A:E.120 Metal complexes: A:C.73, A:C.77, A:C.80

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.10: 9 residues within 4Å: Chain A: R.64, M.234, N.274, V.299 Ligands: FE2.11, CMO.12, CMO.13, CYN.14, IOD.15 Ligand excluded by PLIP

1 x IOD: IODIDE ION(Non-functional Binders)

IOD.15: 7 residues within 4Å: Chain A: R.64, T.144, R.165 Ligands: CL.10, FE2.11, CMO.13, CYN.14 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rohac, R. et al., Crystal Structure of the [FeFe]-Hydrogenase Maturase HydE Bound to Complex-B. J.Am.Chem.Soc. (2021)

Release Date

2021-05-26

Peptides

[FeFe] hydrogenase maturase subunit HydE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

[FeFe] hydrogenase maturase subunit HydE

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