SMTL ID : 4fw0.1

Structure of rat nNOS heme domain in complex with N(delta)-methyl- N(omega)-hydroxy-L-arginine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 22 residues within 4Å: Chain A: W.113, A.116, R.118, C.119, V.120, G.121, L.128, S.161, M.274, F.288, S.289, G.290, W.291, M.293, E.296, V.353, W.382, F.408, Y.410 Ligands: H4B.2, ACT.3, 5KJ.4 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:W.113, A:W.113, A:A.116, A:R.118, A:V.120, A:L.128, A:F.288, A:F.288, A:F.288, A:F.288, A:W.291, A:E.296, A:V.353, A:W.382, A:W.382, A:F.408, A:F.408, A:F.408 Hydrogen bonds: A:Y.410 Water bridges: A:R.300, A:R.300 pi-Stacking: A:W.113 Metal complexes: A:C.119 HEM.6: 19 residues within 4Å: Chain B: W.113, A.116, R.118, C.119, V.120, G.121, S.161, M.274, F.288, S.289, G.290, W.291, M.293, E.296, W.382, F.408, Y.410 Ligands: H4B.7, 5KJ.9 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:W.113, B:W.113, B:W.113, B:A.116, 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 Water bridges: 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 14 PLIP interactions: 2 interactions with chain B, 12 interactions with chain A Hydrophobic interactions: B:E.398 Water bridges: B:H.396, A:S.38, A:R.300, A:R.300, A:R.300, A:W.382 Hydrogen bonds: A:R.300, A:V.381, A:W.382 pi-Stacking: A:W.382, A:W.382 pi-Cation interactions: A:W.382, A:W.382 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 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.300, B:R.300, B:V.381, B:W.382 Water bridges: B:S.38, B:W.382 pi-Stacking: B:W.382, B:W.382 pi-Cation interactions: B:W.382 Hydrophobic interactions: A:E.398

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

ACT.3: 6 residues within 4Å: Chain A: G.121, 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.8: 4 residues within 4Å: Chain B: G.121, Q.124, W.291, V.353 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Q.124 Hydrogen bonds: B:W.291 Water bridges: B:Q.124, B:S.361

2 x 5KJ: N~5~-(N-hydroxycarbamimidoyl)-N~5~-methyl-L-ornithine(Non-covalent)

5KJ.4: 11 residues within 4Å: Chain A: Q.182, Y.266, P.269, V.271, S.289, G.290, W.291, Y.292, E.296, D.301 Ligands: HEM.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.292 Hydrogen bonds: A:Q.182, A:Y.266, A:G.290, A:E.296, A:E.296 Water bridges: A:D.301 Salt bridges: A:E.296 5KJ.9: 11 residues within 4Å: Chain B: Q.182, Y.266, P.269, V.271, S.289, G.290, W.291, Y.292, E.296, D.301 Ligands: HEM.6 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:Y.292 Hydrogen bonds: B:Q.182, B:Q.182, B:G.290, B:W.291, B:Y.292, B:E.296 Water bridges: B:R.185, B:D.301, B:R.307 Salt bridges: B:E.296

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

Jansen Labby, K. et al., Methylated N(omega)-Hydroxy-l-arginine Analogues as Mechanistic Probes for the Second Step of the Nitric Oxide Synthase-Catalyzed Reaction. Biochemistry (2013)

Release Date

2013-05-15

Peptides

Nitric oxide synthase, brain: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Nitric oxide synthase, brain

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