This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1n4f

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1n4f" size="450" color="white" frame="true" align="right" spinBox="true" caption="1n4f, resolution 1.78&Aring;" /> '''Para-Arsanilate Deri...)
Current revision (08:45, 10 April 2024) (edit) (undo)
 
(16 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1n4f.jpg|left|200px]]<br /><applet load="1n4f" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1n4f, resolution 1.78&Aring;" />
 
-
'''Para-Arsanilate Derivative of Hen Egg-White Lysozyme'''<br />
 
-
==Overview==
+
==Para-Arsanilate Derivative of Hen Egg-White Lysozyme==
-
Single/multiple-wavelength anomalous dispersion (SAD/MAD) experiments were, performed on a crystal of an organic arsenic derivative of hen egg-white, lysozyme. A para-arsanilate compound used as a crystallizing reagent was, incorporated into the ordered solvent region of the lysozyme molecule., Diffraction data were collected to high resolution (&lt;/=2.0 A) at three, wavelengths around the K edge (1.04 A) of arsenic at beamline BM30A, ESRF, synchrotron. Anomalous Patterson maps clearly showed the main arsanilate, site to be between three symmetry-related lysozyme molecules, at a, location previously occupied by a para-toluenesulfonate anion. MAD phases, at 2 A derived using the program SHARP led to an electron-density map of, sufficient quality to start manual building of the protein model., Amplitudes from a second crystal measured to a resolution of 1.8 A at the, peak wavelength revealed two additional heavy-atom sites, which reinforced, the anomalous subset model and therefore dramatically improved the phasing, power of the arsenic derivative. The subsequent solvent-flattened map was, of such high accuracy that the program ARP/wARP was able to build a nearly, complete model automatically. This work emphasizes the great potential of, arsenic for de novo structure determination using anomalous dispersion, methods.
+
<StructureSection load='1n4f' size='340' side='right'caption='[[1n4f]], [[Resolution|resolution]] 1.78&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1n4f]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1N4F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1N4F 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]] 1.78&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ASR:4-AMINOPHENYLARSONIC+ACID'>ASR</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=1n4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1n4f OCA], [https://pdbe.org/1n4f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1n4f RCSB], [https://www.ebi.ac.uk/pdbsum/1n4f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1n4f ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/LYSC_CHICK LYSC_CHICK] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. Has bacteriolytic activity against M.luteus.<ref>PMID:22044478</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/n4/1n4f_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=1n4f ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1N4F is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus] with NA, ASR and EDO as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1N4F OCA].
+
*[[Lysozyme 3D structures|Lysozyme 3D structures]]
-
 
+
== References ==
-
==Reference==
+
<references/>
-
Phasing power at the K absorption edge of organic arsenic., Retailleau P, Prange T, Acta Crystallogr D Biol Crystallogr. 2003 May;59(Pt 5):887-96. Epub 2003, Apr 25. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12777806 12777806]
+
__TOC__
 +
</StructureSection>
[[Category: Gallus gallus]]
[[Category: Gallus gallus]]
-
[[Category: Lysozyme]]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Prange T]]
-
[[Category: Prange, T.]]
+
[[Category: Retailleau P]]
-
[[Category: Retailleau, P.]]
+
-
[[Category: ASR]]
+
-
[[Category: EDO]]
+
-
[[Category: NA]]
+
-
[[Category: hydrolase]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 21:57:13 2007''
+

Current revision

Para-Arsanilate Derivative of Hen Egg-White Lysozyme

PDB ID 1n4f

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1n4f"
Personal tools