SMTL ID : 5o0t.1

CRYSTAL STRUCTURE OF TRANS-MEMBRANE DOMAIN OF Cylindrospermum stagnale NADPH-OXIDASE 5 (NOX5)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: K.94, A.151, R.154 Ligands: SO4.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.151 Water bridges: A:K.94 Salt bridges: A:K.94, A:R.154 SO4.2: 6 residues within 4Å: Chain A: I.90, E.91, K.94, R.154, K.155 Ligands: SO4.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.91 Water bridges: A:K.94, A:K.94 Salt bridges: A:K.94, A:R.154, A:K.155 SO4.3: 1 residues within 4Å: Chain A: G.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.1

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

HEM.4: 21 residues within 4Å: Chain A: I.63, L.64, M.67, I.90, H.93, K.94, G.97, Q.98, F.142, M.145, W.146, A.149, Q.150, R.154, F.159, F.162, H.166, M.167, Y.169, W.172, F.173 17 PLIP interactions: 17 interactions with chain A, Hydrophobic interactions: A:I.63, A:M.67, A:I.90, A:K.94, A:F.142, A:A.149, A:F.162, A:Y.169, A:W.172, A:F.173 Water bridges: A:R.69, A:R.69 Salt bridges: A:R.69 pi-Stacking: A:H.93, A:F.162 Metal complexes: A:H.93, A:H.166 HEM.5: 21 residues within 4Å: Chain A: R.50, G.53, L.56, N.57, A.104, H.107, T.108, H.111, F.112, Y.115, L.126, A.131, G.135, F.136, L.138, L.139, F.142, W.172, H.179, G.180, P.181 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:L.56, A:A.104, A:T.108, A:F.112, A:Y.115, A:L.126, A:A.131, A:F.136, A:L.138, A:L.138, A:L.139, A:F.142, A:W.172 Water bridges: A:R.50, A:R.50, A:R.50, A:A.54, A:A.54 Salt bridges: A:R.50, A:R.50 pi-Cation interactions: A:H.111 Metal complexes: A:H.107, A:H.179

2 x LFA: EICOSANE(Non-covalent)

LFA.6: 9 residues within 4Å: Chain A: K.15, F.18, I.65, P.66, M.72, P.85, E.88, S.89, F.92 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.15, A:F.18, A:I.65, A:F.92, A:F.92 LFA.7: 6 residues within 4Å: Chain A: F.30, E.91, K.94, L.95, A.102, L.103 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.30, A:K.94, A:A.102, A:L.103

3 x D10: DECANE(Non-covalent)

D10.8: 2 residues within 4Å: Chain A: Y.8, A.20 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.20 D10.9: 6 residues within 4Å: Chain A: G.109, F.112, T.116, F.122 Ligands: D10.10, GOL.12 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.112, A:T.116, A:F.122, A:F.122, A:F.122 D10.10: 5 residues within 4Å: Chain A: F.122, L.126, F.136 Ligands: D10.9, GOL.12 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.122, A:L.126, A:F.136

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.11: 4 residues within 4Å: Chain A: V.106, G.109, A.110, L.113 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.109 GOL.12: 4 residues within 4Å: Chain A: F.112, F.122 Ligands: D10.9, D10.10 No protein-ligand interaction detected (PLIP)

4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.13: 3 residues within 4Å: Chain A: L.198, V.199, W.202 No protein-ligand interaction detected (PLIP) PEG.14: 4 residues within 4Å: Chain A: W.74, I.200, K.203, A.204 No protein-ligand interaction detected (PLIP) PEG.15: 2 residues within 4Å: Chain A: Y.8, I.9 No protein-ligand interaction detected (PLIP) PEG.16: 3 residues within 4Å: Chain A: A.123, F.127, G.128 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Magnani, F. et al., Crystal structures and atomic model of NADPH oxidase. Proc. Natl. Acad. Sci. U.S.A. (2017)

Release Date

2017-06-28

Peptides

Putative ferric reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Putative ferric reductase