SMTL ID : 1zzr.1

Rat nNOS D597N/M336V double mutant with L-N(omega)-Nitroarginine-(4R)-amino-L-proline amide bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

homo-dimer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.28, C.33 Chain B: C.28, C.33 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Metal complexes: A:C.28, A:C.33, B:C.28, B:C.33

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

HEM.2: 20 residues within 4Å: Chain A: W.111, A.114, R.116, C.117, V.118, G.119, S.159, M.272, F.286, S.287, G.288, W.289, M.291, E.294, W.380, F.406, Y.408 Ligands: H4B.3, DP9.4, TFA.5 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:W.111, A:W.111, A:A.114, A:R.116, A:V.118, A:F.286, A:F.286, A:F.286, A:W.289, A:W.289, A:F.406, A:F.406, A:F.406 Hydrogen bonds: A:Y.408 Water bridges: A:R.298, A:R.298 pi-Stacking: A:W.111 Metal complexes: A:C.117 HEM.7: 19 residues within 4Å: Chain B: W.111, A.114, R.116, C.117, V.118, G.119, S.159, M.272, F.286, S.287, G.288, W.289, E.294, W.380, F.406, Y.408 Ligands: H4B.8, DP9.9, TFA.10 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:W.111, B:W.111, B:A.114, B:R.116, B:V.118, B:F.286, B:F.286, B:F.286, B:W.289, B:E.294, B:F.406, B:F.406 Water bridges: B:R.298 pi-Stacking: B:W.111 Metal complexes: B:C.117

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

H4B.3: 12 residues within 4Å: Chain A: S.36, V.38, R.298, V.379, W.380 Chain B: W.378, F.393, H.394, Q.395, E.396 Ligands: HEM.2, GOL.6 11 PLIP interactions: 9 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.298, A:V.379, A:W.380 Water bridges: A:S.36, A:R.298, A:W.380, B:H.394 pi-Stacking: A:W.380, A:W.380 pi-Cation interactions: A:W.380 Hydrophobic interactions: B:E.396 H4B.8: 12 residues within 4Å: Chain A: W.378, F.393, H.394, Q.395, E.396 Chain B: S.36, V.38, R.298, V.379, W.380 Ligands: HEM.7, GOL.11 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.298, B:R.298, B:V.379, B:W.380 pi-Stacking: B:W.380, B:W.380 pi-Cation interactions: B:W.380 Hydrophobic interactions: A:E.396

2 x DP9: L-N(OMEGA)-NITROARGININE-(4R)-AMINO-L-PROLINE AMIDE(Non-covalent)

DP9.4: 12 residues within 4Å: Chain A: Q.180, P.267, V.269, F.286, S.287, G.288, W.289, E.294, W.380, Y.408 Ligands: HEM.2, GOL.6 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.269 Hydrogen bonds: A:Q.180, A:W.289, A:E.294, A:E.294, A:Y.408, A:Y.408 Water bridges: A:Y.264, A:P.267, A:F.286, A:N.299 Salt bridges: A:E.294 DP9.9: 13 residues within 4Å: Chain B: Q.180, R.183, P.267, V.269, F.286, S.287, G.288, W.289, E.294, W.380, Y.408 Ligands: HEM.7, GOL.11 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:V.269 Hydrogen bonds: B:Q.180, B:R.183, B:W.289, B:E.294, B:E.294, B:Y.408 Water bridges: B:P.267, B:F.286, B:N.299 Salt bridges: B:E.294

2 x TFA: trifluoroacetic acid(Non-covalent)

TFA.5: 8 residues within 4Å: Chain A: G.119, I.121, Q.122, W.289, V.351, A.356, S.359 Ligands: HEM.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.119 Halogen bonds: A:Q.122 TFA.10: 8 residues within 4Å: Chain B: G.119, I.121, Q.122, W.289, V.351, A.356, S.359 Ligands: HEM.7 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.122 Water bridges: B:S.359, B:S.359 Halogen bonds: B:G.119

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 5 residues within 4Å: Chain A: V.38, R.298, W.380 Ligands: H4B.3, DP9.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.298 Water bridges: A:R.298 GOL.11: 5 residues within 4Å: Chain B: V.38, R.298, W.380 Ligands: H4B.8, DP9.9 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.298 Water bridges: B:R.298

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., Exploring the Binding Conformations of Bulkier Dipeptide Amide Inhibitors in Constitutive Nitric Oxide Synthases. Biochemistry (2005)

Release Date

2005-12-06

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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