SMTL ID : 4k5g.1

Structure of neuronal nitric oxide synthase heme domain in complex with ((2S, 3S)-1,3-bis((6-(2,5-dimethyl-1H-pyrrol-1-yl)-4-methylpyridin-2-yl)methoxy)-2-aminobutane

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 18 residues within 4Å: Chain A: W.113, A.116, R.118, C.119, V.120, G.121, S.161, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408 Ligands: H4B.2, Q13.3, ACT.4 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:W.113, A:W.113, A:W.113, A:A.116, A:R.118, A:F.288, A:F.288, A:F.288, A:W.291, A:E.296, A:W.382, A:F.408, A:F.408 Hydrogen bonds: A:R.118 Water bridges: A:R.300, A:R.300 pi-Stacking: A:W.113 Metal complexes: A:C.119 HEM.6: 17 residues within 4Å: Chain B: W.113, A.116, R.118, C.119, V.120, G.121, S.161, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408 Ligands: H4B.7, Q13.8 21 PLIP interactions: 21 interactions with chain B, Hydrophobic interactions: B:W.113, B:W.113, B:W.113, B:A.116, B:R.118, B:V.120, B:F.288, B:F.288, B:F.288, B:F.288, B:W.291, B:E.296, B:W.382, B:F.408, B:F.408 Hydrogen bonds: B:R.118 Water bridges: B:E.296, B:R.300, B:R.300 pi-Stacking: B:W.113 Metal complexes: B:C.119

2 x H4B: 5,6,7,8-TETRAHYDROBIOPTERIN(Non-covalent)

H4B.2: 11 residues within 4Å: Chain A: S.38, M.40, R.300, V.381, W.382 Chain B: W.380, F.395, H.396, Q.397, E.398 Ligands: HEM.1 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.300, A:V.381, A:W.382 Water bridges: A:S.38, A:W.382 pi-Stacking: A:W.382, A:W.382 pi-Cation interactions: A:W.382 Hydrophobic interactions: B:E.398 H4B.7: 11 residues within 4Å: Chain A: W.380, F.395, H.396, Q.397, E.398 Chain B: S.38, M.40, R.300, V.381, W.382 Ligands: HEM.6 11 PLIP interactions: 1 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:E.398 Hydrogen bonds: B:R.300, B:V.381, B:W.382 Water bridges: B:S.38, B:R.300, B:R.300, B:W.382 pi-Stacking: B:W.382, B:W.382 pi-Cation interactions: B:W.382

2 x Q13: 6,6'-{[(2S,3S)-2-aminobutane-1,3-diyl]bis(oxymethanediyl)}bis(4-methylpyridin-2-amine)(Non-covalent)

Q13.3: 15 residues within 4Å: Chain A: M.40, L.41, R.118, Q.182, P.269, V.271, F.288, G.290, W.291, Y.292, E.296, W.382, Y.410 Chain B: W.10 Ligands: HEM.1 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:L.41, A:P.269, A:V.271, A:F.288, A:Y.410, B:W.10 Hydrogen bonds: A:R.118, A:M.293, A:E.296 Water bridges: A:N.273 Q13.8: 16 residues within 4Å: Chain A: W.10 Chain B: M.40, L.41, R.118, Q.182, R.185, P.269, V.271, F.288, S.289, G.290, W.291, Y.292, E.296, W.382 Ligands: HEM.6 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.41, B:P.269, B:V.271, B:F.288, A:W.10 Hydrogen bonds: B:R.118, B:M.293, B:E.296 Water bridges: B:N.273, B:E.296

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.4: 7 residues within 4Å: Chain A: G.121, I.123, Q.124, W.291, V.353, S.361 Ligands: HEM.1 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.124, A:W.291 Hydrogen bonds: A:S.361 ACT.9: 5 residues within 4Å: Chain B: G.121, I.123, Q.124, W.291, V.353 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.123, B:Q.124 Hydrogen bonds: B:W.291 Water bridges: B:Q.124

1 x ZN: ZINC ION(Non-covalent)

ZN.5: 5 residues within 4Å: Chain A: C.30, C.35, M.36 Chain B: C.30, C.35 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Metal complexes: B:C.30, B:C.35, A:C.30, A:C.35

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jing, Q. et al., Chiral linkers to improve selectivity of double-headed neuronal nitric oxide synthase inhibitors. Bioorg.Med.Chem.Lett. (2013)

Release Date

2013-09-18

Peptides

Nitric oxide synthase, brain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nitric oxide synthase, brain

Related Entries With Identical Sequence