SMTL ID : 8brl.1

Room temperature crystal structure of cytochrome c' from Hydrogenophilus thermoluteolus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.88 Å

Oligo State

homo-dimer

Ligands

2 x HEC: HEME C(Covalent)

HEC.1: 18 residues within 4Å: Chain A: V.9, R.12, Q.13, Y.16, T.17, A.20, M.23, Y.61, K.72, S.74, R.75, L.76, F.94, C.124, C.127, H.128, R.132 Chain B: F.71 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:Y.16, A:A.20, A:Y.61, A:L.76, A:F.94, A:F.94, A:R.132 Hydrogen bonds: A:Q.13, A:T.17, A:R.75 Water bridges: A:R.75 Salt bridges: A:R.12, A:K.72 pi-Stacking: A:Y.16, A:Y.16 pi-Cation interactions: A:R.132, A:R.132 Metal complexes: A:H.128 HEC.3: 18 residues within 4Å: Chain A: F.71 Chain B: V.9, R.12, Q.13, Y.16, T.17, A.20, M.23, Y.61, K.72, S.74, R.75, L.76, F.94, C.124, C.127, H.128, R.132 18 PLIP interactions: 18 interactions with chain B, Hydrophobic interactions: B:Y.16, B:A.20, B:Y.61, B:L.76, B:F.94, B:F.94, B:R.132 Hydrogen bonds: B:Q.13, B:T.17, B:R.75 Water bridges: B:R.75 Salt bridges: B:R.12, B:K.72 pi-Stacking: B:Y.16, B:Y.16 pi-Cation interactions: B:R.132, B:R.132 Metal complexes: B:H.128

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 1 residues within 4Å: Chain A: K.77 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.77 SO4.4: 1 residues within 4Å: Chain B: K.77 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mikolajek, H. et al., Protein-to-structure pipeline for ambient-temperature in situ crystallography at VMXi. Iucrj (2023)

Release Date

2023-05-24

Peptides

Cytochrome c prime: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
D

Cytochrome c prime

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