SMTL ID : 5mjc.1

metNeuroglobin under oxygen at 50 bar

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

monomer

Ligands

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

HEM.1: 15 residues within 4Å: Chain A: L.39, F.40, Y.42, H.62, K.65, V.66, V.69, Y.86, L.90, K.93, H.94, V.97, V.99, F.104, V.107 25 PLIP interactions: 25 interactions with chain A, Hydrophobic interactions: A:F.40, A:F.40, A:Y.42, A:K.65, A:K.65, A:V.66, A:V.66, A:V.69, A:V.69, A:V.69, A:V.97, A:V.99, A:V.99, A:V.107, A:V.107 Hydrogen bonds: A:Y.42 Water bridges: A:K.65, A:K.65, A:K.65, A:K.93 Salt bridges: A:H.62, A:K.65, A:K.93 Metal complexes: A:H.62, A:H.94

2 x DIO: 1,4-DIETHYLENE DIOXIDE(Non-covalent)

DIO.2: 4 residues within 4Å: Chain A: E.20, H.21, V.24, S.118 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.20 DIO.3: 6 residues within 4Å: Chain A: W.11, S.15, P.18, M.67, L.68, D.71 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.15, A:L.68

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

SO4.4: 6 residues within 4Å: Chain A: R.16, S.17, P.18, L.19, E.20, R.64 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.19, A:E.20, A:E.20 Salt bridges: A:R.64

1 x OXY: OXYGEN MOLECULE(Non-covalent)

OXY.5: 6 residues within 4Å: Chain A: I.70, L.111, W.131, L.134, Y.135, V.138 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ardiccioni, C. et al., Ligand pathways in neuroglobin revealed by low-temperature photodissociation and docking experiments. Iucrj (2019)

Release Date

2017-12-20

Peptides

Neuroglobin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Neuroglobin

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