Nitric Oxide Synthase: Difference between revisions

{{STRUCTURE_2g6h|  PDB=2g6h  | SIZE=400| SCENE=Nitric_oxide_synthase/Nos/1 |right|CAPTION=Neuronal nitric oxide synthase dimer complex with cofactor tetrahydrobiopterin, acetate and Zn+2 (grey), [[2g6h]] }}

'''Nitric Oxide Synthase''' (NOS) is an enzyme catalysing the formation of L-citrulline and [http://en.wikipedia.org/wiki/Nitric_Oxide/ nitric oxide] (NO) from L-arginine. NOS is a homodimeric protein with 125- to 160-kDa per monomer.  In mammals, NOS appears as 3 isozymes: neuronal NOS (nNOS), cytokine-inducible NOS (iNOS) and endothelial NOS (eNOS).  The N-terminal domain of NOS is an oxygenase domain (OD).  NOS cofactors are: NADPH, FAD, FMN, heme and O2.

== The Oxygenase domain of NOS ==

The <scene name='Sandbox_5/Nos_oxygenase_med_cofaktore/3'>oxygenase domain</scene> contains the active site of the enzyme. The active site binds the substrate <scene name='Nitric_oxide_synthase/Nos_oxygenase_arg/3'>L-Arginine</scene>([http://en.wikipedia.org/wiki/Arginine Arginine]) which is converted into citruline and NO (explained in details below). The domain has three cofactors bound:  

The active site is highly conserved in the different NOS species. Thus it is possible to discuss substrate binding i general terms. The NOS enzyme binds its substrate (L-arginine) in the distal pocket by hydrogen bindings both to the guanidino[http://en.wikipedia.org/wiki/Guanidino] end and the amino acid end. <scene name='Nitric_oxide_synthase/Substratebinding_test/1'>Substrate in the catalytic site</scene> is shown in green with the heme and H₄B shown. NOS binds its substrate by coordinating CO(or O₂) to the heme at the site occupied by oxygen<ref>PMID:9376373 </ref>(it is the opposite site of the Cys coordination to heme - look in the 'heme' section). The binding of substrate leads to a 2-step transformation first to N-hydroxy-L-arginine (the tightly bound intermediate) and then NO and L-Citrulline. The product NO can then either diffuse out of the <scene name='Nitric_oxide_synthase/Substratebinding_distal_pocket/1'>cavity</scene> or bind to the heme and function in NO auto-inhibition though this inhibition is diverse throughout the 3 isoforms<ref>PMID:15598509</ref>.

PDB structures used in the section above: [[3nos]], [[2g6h]]

===H₄B===

[[image:bh4.png|left|frame|Structure of tetrahydrobiopterin]]

<scene name='Sandbox_5/Nos_oxygenase_bh4/11'>H4B</scene> is an essential cofactor in NOS and in the [[aromatic amino acid hydroxylases]]. NOS contains two molecules of <scene name='Sandbox_5/Begge_h4b/1'>H4B</scene>, one in each monomer. The active site forms part of the cavity already described. This cavity can be visualized as a <scene name='Nitric_oxide_synthase/Substratebinding_distal_pocket/2'>tunnel</scene>. Here H₄B helps substrate interactions by lining the active-center tunnel and hydrogen bonding to the heme propionate and to alfa helix 7. The propionate group and alpha helix 7 are also involved in the L-Arg binding. This gives H₄B the opportunity to play an important role in the control of subunit interactions and active site formation. H₄B is therefore more or less a structural cofactor and has a stabilizing effect. Its structural importance is further reconned to play a role in dimer formation (dimerization requires bound zinc ion along with H₄B), and major conformational changes leading to the formation of the active site channelform<ref name="Raman">PMID:9875848</ref>.

The H₄B is bound by H-bonds to several of the residues surrounding it. For example is O4 of H₄B H-bonded to Arg 367 and H₄B N3 is H-bonded to one of the heme propionate groups ( the heme propionate group has two carboxylate oxygens in use for H-bonds)<ref name="Raman"/>. The overall picture of all the H-bonds can be seen by clicking on the figure on the left. [[image:mette.png|thumb|right|model for NOS oxygen activation]]

But H₄B is not only a structural cofactor, it also plays a very important role in NO synthesis, donating an electron to the heme.<ref name="heme">PMID:12237227</ref> H₄B can deliver an electron to the heme much faster than the reductase domain can, therefor H₄B is used by NOS in the Arg hydroxylation, activating O₂ by providing the second electron. Thus, H₄B is a kinetically prefered electron donor. As shown in the reaction (bottom right, click for enlargement) the second electron, that H₄B donates, helps the Fe^IIO₂ intermediate to be reduced to oxidants that are able to react with Arg and N-hydroxy-L-arginine (NOHA) <ref name="heme"/> If H₄B was not present the Fe^IIO₂ intermediate would decay to superoxide and ferric enzyme due to the reductase domain being slower to deliver an electron than the proces of decay is to happen. H₄B is faster than both of these processes<ref name="heme"/>.

PDB structures used in the section above: [[3nos]], [[2g6h]]

As mentioned, the heme group takes part in the creation of the cavity running through the monomer. Arginine/citrulline diffuses in and out this cavity. The heme group in the cavity is held in place by van der Waals interactions with hydrophobic and aliphatic side chains of the protein making up the cavity. The propionic acid groups of heme forms several hydrogen bonds with water molecules inside the cavity. The iron in heme in pentacoordinated, with its axial ligand supplied by S of cysteine 186 ([[2nse]]) <ref name="penta">PMID:10074942</ref>.

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===Zinc===

In order for NOS to be active it has to dimerize and bind H₄B. The dimer is structurally stabilized by a <scene name='Nitric_oxide_synthase/Zink/4'>zinc ion</scene>.

which is situated at the oxygenase domain interface of the dimer<ref name="penta"/>.  The zinc ion is tetrahedrally coordinated by four cysteins (two from each monomer - Cys109 and Cys104). The zinc ion is found at a region which connects the N-terminal hook and the subunit core. The coordination of zinc arranges the N-terminal hooks so that they interact with their own subunit. However, when there is no zinc ion present, two of the thiolate ligands (cysteines) form a disulfide bond connecting the two subunits<ref>PMID: 10562539</ref>.

PDB structures used in the section above: [[2g6h]]

== The Reductase Domain of NOS ==

The reductase domain of the NOS homodimer will not be discussed thoroughly on this page. However, a short discussion of the electron transfer which occurs will be given along with an introduction to the bound cofactors and the general structure.  

<scene name='Nitric_oxide_synthase/Nos_reductase_fmn/1'>FMN</scene>([http://en.wikipedia.org/wiki/Flavin_mononucleotide Flavin mononucleotide])

The reductase domain is, as mentioned, bound to the oxygenase domain by a linker region that binds [http://en.wikipedia.org/wiki/Calmodulin calmodulin].  The calmodulin linker consists of 32 residues. The binding of Ca²⁺ loaded calmodulin to the linker region is found to be crucial in that it induces a conformational change which is essential for electron transfer. The NOS activity is thereby dependent upon the Ca²⁺ concentration It is important to emphasize that the electron transfer occurs from the reductase domain of one subunit to the oxygenase domain of the opposite subunit (i.e. a trans transfer).  The conformational change induced by calmodulin binding brings the mentioned reductase and oxygenase  domains closer together, thus the linker acts as a hinge. The electron transfer occurs two times per  NO molecule produced. The first transfer supplies an electron for the conversion of L-arginine to its intermediate, the second transfer for the conversion of the intermediate Citrulline and NO. In general the reductase domain can be divided into three subdomains: the NADPH binding domain, the FAD binding domain, and the FMN binding domain. The NADPH and FAD binding domains are associated whereas the FAD and FMN domains are connected by an α-helical binding domain. The electrons donated by NADPH is passed on to FAD. FAD then shuttles the electron to FMN. The FMN binding domain is a flexible domain and here the conformational change occurs. The binding of calmodulin rotates the reductase domain and oxygenase domain along a vertical axis, thus bringing the reductase domain closer to the opposite oxygenase domain. The electron can then due to shorter distance be passed on the the heme group of the oxygenase domain <ref>PMID: 15208315</ref>. The iron ion in the heme group is reduces from iron (III) to iron (II) which catalyses the substrate reaction.