SMTL ID : 4d1n.1

Structure of human nNOS heme domain with L-Arg bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

homo-tetramer

Ligands

4 x ARG: ARGININE(Non-covalent)

ARG.1: 9 residues within 4Å: Chain A: Q.182, Y.266, P.269, V.271, W.291, Y.292, E.296, D.301 Ligands: HEM.2 16 PLIP interactions: 15 interactions with chain A, 1 Ligand-Ligand interactions Hydrophobic interactions: A:V.271, A:Y.292 Hydrogen bonds: A:Q.182, A:Q.182, A:Y.266, A:P.269, A:G.290, A:W.291, A:Y.292, A:E.296 Water bridges: A:R.185, A:R.185, A:D.301, A:R.307, R.1 Salt bridges: A:E.296 ARG.6: 9 residues within 4Å: Chain B: Q.182, Y.266, P.269, V.271, W.291, Y.292, E.296, D.301 Ligands: HEM.7 15 PLIP interactions: 13 interactions with chain B, 2 Ligand-Ligand interactions Hydrophobic interactions: B:P.269, B:V.271, B:Y.292 Hydrogen bonds: B:Q.182, B:Q.182, B:Y.266, B:P.269, B:G.290, B:W.291 Water bridges: B:R.185, B:D.301, B:R.307, R.6, R.6 Salt bridges: B:E.296 ARG.10: 9 residues within 4Å: Chain C: Q.182, Y.266, P.269, V.271, W.291, Y.292, E.296, D.301 Ligands: HEM.11 12 PLIP interactions: 10 interactions with chain C, 2 Ligand-Ligand interactions Hydrophobic interactions: C:V.271, C:Y.292 Hydrogen bonds: C:Q.182, C:Q.182, C:W.291, C:E.296 Water bridges: C:P.269, C:D.301, C:R.307, R.10, R.10 Salt bridges: C:E.296 ARG.17: 9 residues within 4Å: Chain D: Q.182, Y.266, P.269, V.271, W.291, Y.292, E.296, D.301 Ligands: HEM.18 13 PLIP interactions: 12 interactions with chain D, 1 Ligand-Ligand interactions Hydrophobic interactions: D:V.271, D:Y.292 Hydrogen bonds: D:Q.182, D:Q.182, D:W.291, D:W.291, D:Y.292, D:E.296 Water bridges: D:Y.266, D:Y.266, D:D.301, R.17 Salt bridges: D:E.296

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

HEM.2: 19 residues within 4Å: Chain A: W.113, A.116, R.118, C.119, V.120, G.121, Q.124, S.161, M.274, F.288, S.289, G.290, W.291, E.296, W.382, F.408, Y.410 Ligands: ARG.1, H4B.3 23 PLIP interactions: 20 interactions with chain A, 3 Ligand-Ligand interactions Hydrophobic interactions: A:W.113, A:W.113, A:A.116, A:Q.124, A:F.288, A:F.288, A:F.288, A:F.288, A:W.291, A:W.291, A:E.296, A:W.382, A:F.408, A:F.408, A:F.408, R.1 Water bridges: A:R.300, A:R.300, A:Y.410 pi-Stacking: A:W.113 Metal complexes: A:C.119 Hydrogen bonds: R.1 pi-Cation interactions: R.1 HEM.7: 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: ARG.6, H4B.8 21 PLIP interactions: 18 interactions with chain B, 3 Ligand-Ligand interactions Hydrophobic interactions: B:W.113, B:W.113, B:A.116, B:R.118, B:F.288, B:F.288, B:F.288, B:F.288, B:W.291, B:W.291, B:E.296, B:F.408, B:F.408, B:F.408, R.6 Water bridges: B:R.300, B:Y.410 pi-Stacking: B:W.113 Metal complexes: B:C.119 Hydrogen bonds: R.6 pi-Cation interactions: R.6 HEM.11: 19 residues within 4Å: Chain C: 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, V.353, W.382, F.408, Y.410 Ligands: ARG.10, H4B.12 20 PLIP interactions: 17 interactions with chain C, 3 Ligand-Ligand interactions Hydrophobic interactions: C:W.113, C:W.113, C:A.116, C:F.288, C:F.288, C:F.288, C:W.291, C:E.296, C:V.353, C:W.382, C:F.408, C:F.408, R.10 Hydrogen bonds: C:Y.410, R.10 Water bridges: C:R.300, C:Y.410 pi-Stacking: C:W.113 Metal complexes: C:C.119 pi-Cation interactions: R.10 HEM.18: 18 residues within 4Å: Chain D: 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, Y.410 Ligands: ARG.17, H4B.19 17 PLIP interactions: 14 interactions with chain D, 3 Ligand-Ligand interactions Hydrophobic interactions: D:W.113, D:W.113, D:A.116, D:F.288, D:F.288, D:F.288, D:W.291, D:E.296, D:F.408, D:F.408, R.17 Water bridges: D:R.300, D:Y.410 pi-Stacking: D:W.113 Metal complexes: D:C.119 Hydrogen bonds: R.17 pi-Cation interactions: R.17

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

H4B.3: 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.2 11 PLIP interactions: 10 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.300, 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, A:W.382 Hydrophobic interactions: B:E.398 H4B.8: 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.7 14 PLIP interactions: 2 interactions with chain A, 12 interactions with chain B Hydrophobic interactions: A:E.398 Water bridges: A:H.396, B:S.38, B:R.300, B:R.300, B:R.300, B:W.382 Hydrogen bonds: B:R.300, B:V.381, B:W.382 pi-Stacking: B:W.382, B:W.382 pi-Cation interactions: B:W.382, B:W.382 H4B.12: 11 residues within 4Å: Chain C: S.38, M.40, R.300, V.381, W.382 Chain D: W.380, F.395, H.396, Q.397, E.398 Ligands: HEM.11 14 PLIP interactions: 12 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:R.300, C:V.381, C:W.382 Water bridges: C:S.38, C:R.300, C:R.300, C:R.300, C:W.382, D:H.396 pi-Stacking: C:W.382, C:W.382 pi-Cation interactions: C:W.382, C:W.382 Hydrophobic interactions: D:E.398 H4B.19: 10 residues within 4Å: Chain C: W.380, F.395, H.396, Q.397, E.398 Chain D: S.38, R.300, V.381, W.382 Ligands: HEM.18 13 PLIP interactions: 2 interactions with chain C, 11 interactions with chain D Hydrophobic interactions: C:E.398 Water bridges: C:H.396, D:R.300, D:R.300, D:R.300, D:W.382 Hydrogen bonds: D:R.300, D:V.381, D:W.382 pi-Stacking: D:W.382, D:W.382 pi-Cation interactions: D:W.382, D:W.382

7 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: I.106, K.110, S.126, L.128, Q.129, V.130 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.110, A:L.128, A:V.130, A:V.130 GOL.9: 5 residues within 4Å: Chain B: I.106, K.110, L.128, Q.129, V.130 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:K.110, B:L.128, B:V.130, B:V.130 GOL.13: 6 residues within 4Å: Chain C: I.106, K.110, S.126, L.128, Q.129, V.130 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:K.110, C:L.128, C:V.130, C:V.130 GOL.14: 6 residues within 4Å: Chain C: L.20, K.23, Q.68, H.111, R.114, R.373 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:K.23, C:H.111, C:R.373 Water bridges: C:Y.107, C:R.114 GOL.15: 3 residues within 4Å: Chain C: D.132, D.135, Y.145 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:Y.145 Water bridges: C:D.132, C:D.132, C:D.132 GOL.20: 5 residues within 4Å: Chain D: I.106, K.110, L.128, Q.129, V.130 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:K.110, D:L.128, D:V.130, D:V.130 GOL.21: 6 residues within 4Å: Chain D: L.20, K.23, Q.68, H.111, R.114, R.373 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:H.111, D:R.373 Water bridges: D:Q.68, D:Y.107

2 x ZN: ZINC ION(Non-covalent)

ZN.5: 6 residues within 4Å: Chain A: C.30, C.35, M.36 Chain B: C.30, C.35, M.36 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 ZN.16: 6 residues within 4Å: Chain C: C.30, C.35, M.36 Chain D: C.30, C.35, M.36 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain D Metal complexes: C:C.30, C:C.35, D:C.30, D:C.35

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., Structures of Human Constitutive Nitric Oxide Synthases. Acta Crystallogr.,Sect.D (2014)

Release Date

2014-10-15

Peptides

NITRIC OXIDE SYNTHASE, BRAIN: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

NITRIC OXIDE SYNTHASE, BRAIN

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