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.


1r13

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1r13" size="450" color="white" frame="true" align="right" spinBox="true" caption="1r13, resolution 2.1&Aring;" /> '''Carbohydrate recognit...)
Current revision (06:08, 17 April 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1r13.gif|left|200px]]<br /><applet load="1r13" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1r13, resolution 2.1&Aring;" />
 
-
'''Carbohydrate recognition and neck domains of surfactant protein A (SP-A)'''<br />
 
-
==Overview==
+
==Carbohydrate recognition and neck domains of surfactant protein A (SP-A)==
-
Surfactant protein A (SP-A), one of four proteins associated with, pulmonary surfactant, binds with high affinity to alveolar phospholipid, membranes, positioning the protein at the first line of defense against, inhaled pathogens. SP-A exhibits both calcium-dependent carbohydrate, binding, a characteristic of the collectin family, and specific, interactions with lipid membrane components. The crystal structure of the, trimeric carbohydrate recognition domain and neck domain of SP-A was, solved to 2.1-A resolution with multiwavelength anomalous dispersion, phasing from samarium. Two metal binding sites were identified, one in the, highly conserved lectin site and the other 8.5 A away. The interdomain, carbohydrate recognition domain-neck angle is significantly less in SP-A, than in the homologous collectins, surfactant protein D, and, mannose-binding protein. This conformational difference may endow the SP-A, trimer with a more extensive hydrophobic surface capable of binding, lipophilic membrane components. The appearance of this surface suggests a, putative binding region for membrane-derived SP-A ligands such as, phosphatidylcholine and lipid A, the endotoxic lipid component of, bacterial lipopolysaccharide that mediates the potentially lethal effects, of Gram-negative bacterial infection.
+
<StructureSection load='1r13' size='340' side='right'caption='[[1r13]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[1r13]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1R13 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1R13 FirstGlance]. <br>
-
1R13 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus] with CA, SO4 and MES as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1R13 OCA].
+
</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>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-
==Reference==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1r13 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1r13 OCA], [https://pdbe.org/1r13 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1r13 RCSB], [https://www.ebi.ac.uk/pdbsum/1r13 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1r13 ProSAT]</span></td></tr>
-
Crystal structure of trimeric carbohydrate recognition and neck domains of surfactant protein A., Head JF, Mealy TR, McCormack FX, Seaton BA, J Biol Chem. 2003 Oct 31;278(44):43254-60. Epub 2003 Aug 11. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12913002 12913002]
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/SFTPA_RAT SFTPA_RAT] In presence of calcium ions, it binds to surfactant phospholipids and contributes to lower the surface tension at the air-liquid interface in the alveoli of the mammalian lung and is essential for normal respiration.
 +
== 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/r1/1r13_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=1r13 ConSurf].
 +
<div style="clear:both"></div>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
[[Category: Rattus norvegicus]]
[[Category: Rattus norvegicus]]
-
[[Category: Single protein]]
+
[[Category: Head JF]]
-
[[Category: Head, J.F.]]
+
[[Category: McCormack FX]]
-
[[Category: McCormack, F.X.]]
+
[[Category: Mealy TR]]
-
[[Category: Mealy, T.R.]]
+
[[Category: Seaton BA]]
-
[[Category: Seaton, B.A.]]
+
-
[[Category: CA]]
+
-
[[Category: MES]]
+
-
[[Category: SO4]]
+
-
[[Category: alpha helical neck region]]
+
-
[[Category: crd]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 01:11:00 2007''
+

Current revision

Carbohydrate recognition and neck domains of surfactant protein A (SP-A)

PDB ID 1r13

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/1r13"
Personal tools