SMTL ID : 8zxr.4 (3 other biounits)

Crystal structure of Ssr1698 in complex with heme c

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

hetero-2-2-mer

Ligands

2 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 3 residues within 4Å: Chain A: H.17 Ligands: CL.2, CL.3 No protein-ligand interaction detected (PLIP) NI.6: 3 residues within 4Å: Chain C: H.17 Ligands: CL.7, CL.8 No protein-ligand interaction detected (PLIP)

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

CL.2: 2 residues within 4Å: Ligands: NI.1, CL.3 Ligand excluded by PLIP CL.3: 4 residues within 4Å: Chain A: H.17 Ligands: NI.1, CL.2, HEC.4 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Ligands: NI.6, CL.8 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain C: H.17 Ligands: NI.6, CL.7, HEC.9 Ligand excluded by PLIP

2 x HEC: HEME C(Covalent)

HEC.4: 18 residues within 4Å: Chain A: R.13, I.14, H.17, M.18, D.21, H.22, A.25, Y.29, H.80, L.83, I.84, A.87 Chain B: Q.2, K.3, C.4, C.7, H.8 Ligands: CL.3 9 PLIP interactions: 7 interactions with chain A, 2 interactions with chain B, Hydrophobic interactions: A:A.25, A:I.84, A:A.87, B:Q.2 Salt bridges: A:R.13, A:H.17, A:H.17 Metal complexes: A:H.22, B:H.8 HEC.9: 18 residues within 4Å: Chain C: R.13, I.14, H.17, M.18, D.21, H.22, A.25, Y.29, H.80, L.83, I.84, A.87 Chain D: Q.2, K.3, C.4, C.7, H.8 Ligands: CL.8 10 PLIP interactions: 8 interactions with chain C, 2 interactions with chain D, Hydrophobic interactions: C:A.25, C:I.84, C:A.87, D:Q.2 Hydrogen bonds: C:D.21 Salt bridges: C:R.13, C:H.17, C:H.17 Metal complexes: C:H.22, D:H.8

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 4 residues within 4Å: Chain B: A.5, Q.6, T.9, Q.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.6, B:Q.11 GOL.10: 4 residues within 4Å: Chain D: A.5, Q.6, T.9, Q.11 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:Q.6, D:Q.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, X.Y. et al., Structural Basis for Monomer-Dimer Transition of Dri1 Upon Heme Binding. Proteins (2025)

Release Date

2024-12-25

Peptides

Ssr1698 protein: AC
Cytochrome c: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

B
B

D
B

Ssr1698 protein

Cytochrome c

Related Entries With Identical Sequence