SMTL ID : 5aur.1 (1 other biounit)

Hydrogenobacter thermophilus cytochrome c552 dimer formed by domain swapping at N-terminal region

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.26 Å

Oligo State

homo-dimer

Ligands

2 x HEC: HEME C(Covalent)

HEC.1: 27 residues within 4Å: Chain A: V.24, G.25, P.26, Y.28, Y.35, Y.44, L.45, K.48, I.49, G.53, S.54, G.55, V.56, W.57, G.58, V.60, P.61, M.62, P.63, Q.65, V.67, I.79 Chain B: G.9, C.10, C.13, H.14 Ligands: IOD.8 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:Y.28, A:L.45, A:K.48, A:I.49, A:V.60, A:M.62, A:Q.65, A:Q.65, A:V.67, A:I.79 Hydrogen bonds: A:Y.35, A:Y.44, A:G.55, A:V.56, A:W.57, A:G.58, A:V.60 Salt bridges: A:K.34 Metal complexes: B:H.14 HEC.9: 27 residues within 4Å: Chain A: G.9, C.10, C.13, H.14 Chain B: V.24, G.25, P.26, Y.28, Y.35, Y.44, L.45, K.48, I.49, G.53, S.54, G.55, V.56, W.57, G.58, V.60, M.62, P.63, Q.65, V.67, L.75, I.79 Ligands: IOD.10 17 PLIP interactions: 16 interactions with chain B, 1 interactions with chain A, Hydrophobic interactions: B:V.24, B:Y.28, B:I.49, B:I.49, B:M.62, B:Q.65, B:V.67, B:L.75, B:I.79 Hydrogen bonds: B:G.55, B:V.56, B:W.57, B:G.58 Water bridges: B:G.58, B:V.60 Salt bridges: B:K.34 Metal complexes: A:H.14

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

IOD.2: 2 residues within 4Å: Chain A: A.46, D.69 Ligand excluded by PLIP IOD.3: 2 residues within 4Å: Chain A: L.4, Q.7 Ligand excluded by PLIP IOD.4: 2 residues within 4Å: Chain A: K.50, K.51 Ligand excluded by PLIP IOD.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.6: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.7: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.8: 2 residues within 4Å: Chain A: Q.65 Ligands: HEC.1 Ligand excluded by PLIP IOD.10: 3 residues within 4Å: Chain B: P.63, Q.65 Ligands: HEC.9 Ligand excluded by PLIP IOD.11: 1 residues within 4Å: Chain B: Q.7 Ligand excluded by PLIP IOD.12: 1 residues within 4Å: Chain B: K.39 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ren, C. et al., Oligomerization enhancement and two domain swapping mode detection for thermostable cytochrome c552via the elongation of the major hinge loop. Mol Biosyst (2015)

Release Date

2015-10-21

Peptides

Cytochrome c-552: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

Cytochrome c-552

Related Entries With Identical Sequence