SMTL ID : 8js7.1 (4 other biounits)

Dimeric PAS domains of oxygen sensor FixL in complex with imidazole-bound heme

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.85 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 22 residues within 4Å: Chain A: I.156, I.158, V.187, L.190, M.191, D.195, H.199, Y.202, I.203, Y.206, H.213, I.214, I.215, R.219, V.221, T.222, M.233, L.235, I.237, F.248, G.250 Ligands: IMD.3 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:I.156, A:I.158, A:I.158, A:V.187, A:L.190, A:Y.202, A:Y.202, A:Y.202, A:Y.202, A:I.203, A:Y.206, A:Y.206, A:V.221, A:I.237, A:F.248 Hydrogen bonds: A:I.214 Salt bridges: A:H.213, A:R.219 Metal complexes: A:H.199 HEM.6: 21 residues within 4Å: Chain B: I.156, I.158, V.187, L.190, M.191, D.195, H.199, Y.202, Y.206, H.213, I.214, I.215, R.219, V.221, T.222, M.233, L.235, I.237, F.248, G.250 Ligands: IMD.7 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:I.156, B:I.158, B:V.187, B:L.190, B:Y.202, B:Y.202, B:Y.202, B:Y.206, B:Y.206, B:V.221, B:I.237, B:F.248 Hydrogen bonds: B:I.214 Salt bridges: B:H.213, B:R.219 Metal complexes: B:H.199

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: T.139, R.140, H.143 Chain B: V.157, Q.165, Y.247 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.140, A:R.140 GOL.4: 4 residues within 4Å: Chain A: V.157, Y.247 Chain B: R.140, H.143 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:Y.247, B:R.140, B:R.140, B:H.143 GOL.5: 6 residues within 4Å: Chain A: R.140, H.143, L.144 Chain B: R.140, H.143, L.144 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.140, A:H.143, B:R.140, B:R.140, B:H.143

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.3: 4 residues within 4Å: Chain A: H.199, L.235, I.237 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) IMD.7: 3 residues within 4Å: Chain B: L.235, I.237 Ligands: HEM.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Koteishi, H. et al., Dimeric PAS domains of oxygen sensor FixL in complex with imidazole-bound heme. To be published

Release Date

2024-06-26

Peptides

Sensor protein FixL: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Sensor protein FixL

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