2sni: Difference between revisions

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New page: left|200px<br /><applet load="2sni" size="450" color="white" frame="true" align="right" spinBox="true" caption="2sni, resolution 2.1Å" /> '''STRUCTURAL COMPARISON...
 
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[[Image:2sni.jpg|left|200px]]<br /><applet load="2sni" size="450" color="white" frame="true" align="right" spinBox="true"
caption="2sni, resolution 2.1&Aring;" />
'''STRUCTURAL COMPARISON OF TWO SERINE PROTEINASE-PROTEIN INHIBITOR COMPLEXES. EGLIN-C-SUBTILISIN CARLSBERG AND CI-2-SUBTILISIN NOVO'''<br />


==Overview==
==STRUCTURAL COMPARISON OF TWO SERINE PROTEINASE-PROTEIN INHIBITOR COMPLEXES. EGLIN-C-SUBTILISIN CARLSBERG AND CI-2-SUBTILISIN NOVO==
The crystal structures of the molecular complexes between two serine, proteinases and two of their protein inhibitors have been determined:, subtilisin Carlsberg with the recombinant form of eglin-c from the leech, Hirudo medicinalis and subtilisin Novo with chymotrypsin inhibitor 2 from, barley seeds. The structures have been fully refined by, restrained-parameter least-squares methods to crystallographic R factors, (sigma[[Fo[ - [Fc[[/sigma[Fo[) of 0.136 at 1.8-A resolution and 0.154 at, 2.1-A resolution, respectively. The 274 equivalent alpha-carbon atoms of, the enzymes superpose with an rms deviation of 0.53 A. Sequence changes, between the enzymes result in localized structural adjustments. Functional, groups in the active sites superpose with an rms deviation of 0.19 A for, 161 equivalent atoms; this close similarity in the conformation of, active-site residues provides no obvious reason for known differences in, catalytic activity between Carlsberg and Novo. Conformational changes in, the active-site region indicate a small induced fit of enzyme and, inhibitor. Some conformational differences are observed between equivalent, active-site residues of subtilisin Carlsberg and alpha-chymotrypsin., Despite differences in tertiary architecture, most enzyme-substrate, (inhibitor) interactions are maintained. Subtilisin Carlsberg has a rare, cis-peptide bond preceding Thr211 (Gly211 in Novo). Both enzymes contain, tightly bound Ca2+ ions. Site 1 is heptacoordinate with the oxygen atoms, at the vertices of a pentagonal bipyramid. Site 2 in Carlsberg is probably, occupied by a K+ ion in Novo. Conserved water molecules appear to play, important structural roles in the enzyme interior, in the inhibitor, beta-sheet, and at the enzyme-inhibitor interface. The 62 equivalent, alpha-carbon atoms of the inhibitors superpose with an rms deviation of, 1.68 A. Sequence changes result in somewhat different packing of the, alpha-helix, beta-sheet, and reactive-site loop relative to each other., Hydrogen bonds and electrostatic interactions supporting the conformation, of the reactive-site loop are conserved. The 24 main-chain plus C beta, atoms of P4 to P1' overlap with an rms deviation of 0.19 A. Features, contributing to the inhibitory nature of eglin-c and CI-2 are discussed.
<StructureSection load='2sni' size='340' side='right'caption='[[2sni]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[2sni]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_amyloliquefaciens Bacillus amyloliquefaciens] and [https://en.wikipedia.org/wiki/Hordeum_sp. Hordeum sp.]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1sni 1sni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2SNI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2SNI FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2sni FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2sni OCA], [https://pdbe.org/2sni PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2sni RCSB], [https://www.ebi.ac.uk/pdbsum/2sni PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2sni ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/SUBT_BACAM SUBT_BACAM] Subtilisin is an extracellular alkaline serine protease, it catalyzes the hydrolysis of proteins and peptide amides. Has a high substrate specificity to fibrin.<ref>PMID:12524032</ref>
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/sn/2sni_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2sni ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
2SNI is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Bacillus_amyloliquefaciens Bacillus amyloliquefaciens] and [http://en.wikipedia.org/wiki/Hordeum_sp. Hordeum sp.] with CA as [http://en.wikipedia.org/wiki/ligand ligand]. This structure superseeds the now removed PDB entry 1SNI. Active as [http://en.wikipedia.org/wiki/Subtilisin Subtilisin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.62 3.4.21.62] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2SNI OCA].
*[[Chymotrypsin inhibitor 3D structures|Chymotrypsin inhibitor 3D structures]]
 
*[[Subtilisin 3D structures|Subtilisin 3D structures]]
==Reference==
== References ==
Structural comparison of two serine proteinase-protein inhibitor complexes: eglin-c-subtilisin Carlsberg and CI-2-subtilisin Novo., McPhalen CA, James MN, Biochemistry. 1988 Aug 23;27(17):6582-98. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=3064813 3064813]
<references/>
__TOC__
</StructureSection>
[[Category: Bacillus amyloliquefaciens]]
[[Category: Bacillus amyloliquefaciens]]
[[Category: Hordeum sp.]]
[[Category: Hordeum sp]]
[[Category: Protein complex]]
[[Category: Large Structures]]
[[Category: Subtilisin]]
[[Category: James MNG]]
[[Category: James, M.N.G.]]
[[Category: Mcphalen CA]]
[[Category: Mcphalen, C.A.]]
[[Category: CA]]
[[Category: complex (proteinase/inhibitor)]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 14:02:16 2007''

Latest revision as of 12:23, 21 February 2024

STRUCTURAL COMPARISON OF TWO SERINE PROTEINASE-PROTEIN INHIBITOR COMPLEXES. EGLIN-C-SUBTILISIN CARLSBERG AND CI-2-SUBTILISIN NOVOSTRUCTURAL COMPARISON OF TWO SERINE PROTEINASE-PROTEIN INHIBITOR COMPLEXES. EGLIN-C-SUBTILISIN CARLSBERG AND CI-2-SUBTILISIN NOVO

Structural highlights

2sni is a 2 chain structure with sequence from Bacillus amyloliquefaciens and Hordeum sp.. This structure supersedes the now removed PDB entry 1sni. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.1Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SUBT_BACAM Subtilisin is an extracellular alkaline serine protease, it catalyzes the hydrolysis of proteins and peptide amides. Has a high substrate specificity to fibrin.[1]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

References

  1. ↑ Peng Y, Huang Q, Zhang RH, Zhang YZ. Purification and characterization of a fibrinolytic enzyme produced by Bacillus amyloliquefaciens DC-4 screened from douchi, a traditional Chinese soybean food. Comp Biochem Physiol B Biochem Mol Biol. 2003 Jan;134(1):45-52. PMID:12524032

2sni, resolution 2.10Å

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