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.


1deq

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (05:56, 9 August 2023) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:1deq.png|left|200px]]
 
-
<!--
+
==THE CRYSTAL STRUCTURE OF MODIFIED BOVINE FIBRINOGEN (AT ~4 ANGSTROM RESOLUTION)==
-
The line below this paragraph, containing "STRUCTURE_1deq", creates the "Structure Box" on the page.
+
<StructureSection load='1deq' size='340' side='right'caption='[[1deq]], [[Resolution|resolution]] 3.50&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[1deq]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DEQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DEQ FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.5&#8491;</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=1deq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1deq OCA], [https://pdbe.org/1deq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1deq RCSB], [https://www.ebi.ac.uk/pdbsum/1deq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1deq ProSAT]</span></td></tr>
-
{{STRUCTURE_1deq| PDB=1deq | SCENE= }}
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/FIBA_BOVIN FIBA_BOVIN] Fibrinogen has a double function: yielding monomers that polymerize into fibrin and acting as a cofactor in platelet aggregation.
 +
== 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/de/1deq_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=1deq ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Here we report the crystal structure at approximately 4-A resolution of a selectively proteolyzed bovine fibrinogen. This key component in hemostasis is an elongated 340-kDa glycoprotein in the plasma that upon activation by thrombin self-assembles to form the fibrin clot. The crystals are unusual because they are made up of end-to-end bonded molecules that form flexible filaments. We have visualized the entire coiled-coil region of the molecule, which has a planar sigmoidal shape. The primary polymerization receptor pockets at the ends of the molecule face the same way throughout the end-to-end bonded filaments, and based on this conformation, we have developed an improved model of the two-stranded protofibril that is the basic building block in fibrin. Near the middle of the coiled-coil region, the plasmin-sensitive segment is a hinge about which the molecule adopts different conformations. This segment also includes the boundary between the three- and four-stranded portions of the coiled coil, indicating the location on the backbone that anchors the extended flexible Aalpha arm. We suggest that a flexible branch point in the molecule may help accommodate variability in the structure of the fibrin clot.
-
===THE CRYSTAL STRUCTURE OF MODIFIED BOVINE FIBRINOGEN (AT ~4 ANGSTROM RESOLUTION)===
+
The crystal structure of modified bovine fibrinogen.,Brown JH, Volkmann N, Jun G, Henschen-Edman AH, Cohen C Proc Natl Acad Sci U S A. 2000 Jan 4;97(1):85-90. PMID:10618375<ref>PMID:10618375</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 1deq" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_10618375}}, adds the Publication Abstract to the page
+
*[[Fibrinogen|Fibrinogen]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 10618375 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_10618375}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
-
1DEQ is a 14 chains structure of sequences from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DEQ OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:10618375</ref><references group="xtra"/>
+
[[Category: Bos taurus]]
[[Category: Bos taurus]]
-
[[Category: Brown, J H.]]
+
[[Category: Large Structures]]
-
[[Category: Cohen, C.]]
+
[[Category: Brown JH]]
-
[[Category: Henschen-Edman, A H.]]
+
[[Category: Cohen C]]
-
[[Category: Jun, G.]]
+
[[Category: Henschen-Edman AH]]
-
[[Category: Volkmann, N.]]
+
[[Category: Jun G]]
-
[[Category: Coiled-coil]]
+
[[Category: Volkmann N]]
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 04:59:11 2009''
+

Current revision

THE CRYSTAL STRUCTURE OF MODIFIED BOVINE FIBRINOGEN (AT ~4 ANGSTROM RESOLUTION)

PDB ID 1deq

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/1deq"
Personal tools