SMTL ID : 5jua.1

Nitric oxide complex of the L16I mutant of cytochrome c prime from Alcaligenes xylosoxidans

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.13 Å

Oligo State

homo-dimer

Ligands

2 x HEC: HEME C(Non-covalent)

HEC.1: 25 residues within 4Å: Chain A: R.12, Q.13, I.16, T.17, M.19, A.20, F.23, W.56, F.59, G.65, G.66, D.67, A.68, I.72, F.79, K.82, Q.83, F.86, S.115, C.116, C.119, H.120, Y.123, R.124 Ligands: NO.2 21 PLIP interactions: 20 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:I.16, A:A.20, A:F.23, A:W.56, A:W.56, A:F.59, A:I.72, A:F.79, A:Q.83, A:F.86, A:F.86, A:R.124 Hydrogen bonds: A:Q.13, A:T.17, A:D.67, A:A.68 Salt bridges: A:R.12 pi-Stacking: A:H.120 pi-Cation interactions: A:R.124 Metal complexes: A:H.120 Water bridges: B:S.14 HEC.3: 25 residues within 4Å: Chain B: R.12, Q.13, I.16, T.17, M.19, A.20, F.23, W.56, F.59, G.65, G.66, D.67, A.68, I.72, F.79, K.82, Q.83, F.86, S.115, C.116, C.119, H.120, Y.123, R.124 Ligands: NO.4 22 PLIP interactions: 21 interactions with chain B, 1 interactions with chain A, Hydrophobic interactions: B:I.16, B:A.20, B:F.23, B:W.56, B:W.56, B:F.59, B:I.72, B:F.79, B:Q.83, B:F.86, B:F.86, B:R.124 Hydrogen bonds: B:Q.13, B:T.17, B:T.17, B:D.67, B:A.68 Salt bridges: B:R.12 pi-Stacking: B:H.120 pi-Cation interactions: B:R.124 Metal complexes: B:H.120 Water bridges: A:S.14

2 x NO: NITRIC OXIDE(Non-covalent)

NO.2: 5 residues within 4Å: Chain A: I.16, M.19, W.56, H.120 Ligands: HEC.1 No protein-ligand interaction detected (PLIP) NO.4: 5 residues within 4Å: Chain B: I.16, M.19, W.56, H.120 Ligands: HEC.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kekilli, D. et al., Engineering proximal vs. distal heme-NO coordination via dinitrosyl dynamics: implications for NO sensor design. Chem Sci (2017)

Release Date

2017-03-08

Peptides

Cytochrome c': AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cytochrome c'