1d2o: Difference between revisions

(13 intermediate revisions by the same user not shown)

Line 1:

~~[[Image:1d2o.gif|left|200px]]~~

~~{{Structure~~

==CRYSTAL STRUCTURE OF A SINGLE B REPEAT UNIT (B1) OF COLLAGEN BINDING SURFACE PROTEIN (CNA) OF STAPHYLOCOCCUS AUREUS.==

~~|PDB~~= 1d2o ~~|SIZE~~=~~350|CAPTION~~= ~~<scene name~~='~~initialview01'>~~1d2o~~</scene>~~, resolution 2.00Å

~~|SITE~~=

== Structural highlights ==

~~|LIGAND~~=

<table><tr><td colspan='2'>[[1d2o]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D2O FirstGlance]. <br>

~~|ACTIVITY~~=

</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2Å</td></tr>

~~|GENE~~=

<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d2o OCA], [https://pdbe.org/1d2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d2o RCSB], [https://www.ebi.ac.uk/pdbsum/1d2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d2o ProSAT]</span></td></tr>

~~|DOMAIN~~=

</table>

~~|RELATEDENTRY~~=[[~~1amx~~|~~1AMX~~]], [[~~1d2p~~|~~1D2P~~]]

== Function ==

~~|RESOURCES~~=<span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d2o OCA], [~~http~~://www.ebi.ac.uk/pdbsum/1d2o PDBsum], [~~http~~://www.~~rcsb~~.org/~~pdb~~/~~explore~~.do?~~structureId~~=1d2o ~~RCSB~~]</~~span~~>

[https://www.uniprot.org/uniprot/CNA_STAAU CNA_STAAU] Mediates attachment of staphylococcal cells to collagen-containing substrata.

}}

== Evolutionary Conservation ==

[[Image:Consurf_key_small.gif|200px|right]]

Check<jmol>

<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d2/1d2o_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=1d2o ConSurf].

~~'''CRYSTAL STRUCTURE OF A SINGLE B REPEAT UNIT (B1) OF COLLAGEN BINDING SURFACE PROTEIN (CNA) OF STAPHYLOCOCCUS AUREUS.'''~~

==See Also==

*[[Adhesin 3D structures|Adhesin 3D structures]]

__TOC__

~~==Overview==~~

</StructureSection>

BACKGORUND: The Staphylococcus aureus collagen-binding protein Cna mediates bacterial adherence to collagen. The primary sequence of Cna has a non-repetitive collagen-binding A region, followed by the repetitive B region. The B region has one to four 23 kDa repeat units (B(1)-B(4)), depending on the strain of origin. The affinity of the A region for collagen is independent of the B region. However, the B repeat units have been suggested to serve as a 'stalk' that projects the A region from the bacterial surface and thus facilitate bacterial adherence to collagen. To understand the biological role of these B-region repeats we determined their three-dimensional structure. RESULTS: B(1) has two domains (D(1) and D(2)) placed side-by-side. D(1) and D(2) have similar secondary structure and exhibit a unique fold that resembles but is the inverse of the immunoglobulin-like (IgG-like) domains. Comparison with similar immunoglobulin superfamily (IgSF) structures shows novel packing arrangements between the D(1) and D(2) domains. In the B(1)B(2) crystal structure, an omission of a single glycine residue in the D(2)-D(3) linker loop, compared to the D(1)-D(2) and D(3)-D(4) linker loops, resulted in projection of the D(3) and D(4) in a spatially new orientation. We also present a model for B(1)B(2)B(3)B(4). CONCLUSIONS: The B region of the Cna collagen adhesin has a novel fold that is reminiscent of but is inverse in nature to the IgG fold. This B region assembly could effectively provide the needed flexibility and stability for presenting the ligand binding A region away from the bacterial cell surface.

[[Category: Large Structures]]

==~~About this Structure~~==

~~1D2O is a~~ [[~~Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus~~]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D2O OCA~~].

~~==Reference==~~

Novel fold and assembly of the repetitive B region of the Staphylococcus aureus collagen-binding surface protein., Deivanayagam CC, Rich RL, Carson M, Owens RT, Danthuluri S, Bice T, Hook M, Narayana SV, Structure. 2000 Jan 15;8(1):67-78. PMID:[http:/~~/www.ncbi.nlm.nih.gov/pubmed/10673425 10673425]~~

[[Category: ~~Single protein~~]]

[[Category: Staphylococcus aureus]]

[[Category: Deivanayagam~~, C C.S.~~]]

[[Category: Deivanayagam CCS]]

[[Category: Hook, M.]]

[[Category: Hook M]]

[[Category: Narayana~~, S V.L.~~]]

[[Category: Narayana SVL]]

[[Category: Rich~~, R L.~~]]

[[Category: Rich RL]]

~~[[Category: beta sandwich]]~~

~~[[Category: cna]]~~

~~[[Category: collagen]]~~

~~[[Category: igg]]~~

~~[[Category: igsf]]~~

~~[[Category: staphylococcus aureus]]~~

~~[[Category: structural protein]]~~

~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 19:33:32 2008''~~

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 1: / Line 1: @@
-[[Image:1d2o.gif|left|200px]]
- {{Structure
+==CRYSTAL STRUCTURE OF A SINGLE B REPEAT UNIT (B1) OF COLLAGEN BINDING SURFACE PROTEIN (CNA) OF STAPHYLOCOCCUS AUREUS.==
-|PDB= 1d2o |SIZE=350|CAPTION= <scene name='initialview01'>1d2o</scene>, resolution 2.00&Aring;
+<StructureSection load='1d2o' size='340' side='right'caption='[[1d2o]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND=
+<table><tr><td colspan='2'>[[1d2o]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D2O FirstGlance]. <br>
-|ACTIVITY=
+</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&#8491;</td></tr>
-|GENE=
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d2o OCA], [https://pdbe.org/1d2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d2o RCSB], [https://www.ebi.ac.uk/pdbsum/1d2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d2o ProSAT]</span></td></tr>
-|DOMAIN=
+</table>
-|RELATEDENTRY=[[1amx|1AMX]], [[1d2p|1D2P]]
+== Function ==
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d2o OCA], [http://www.ebi.ac.uk/pdbsum/1d2o PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1d2o RCSB]</span>
+[https://www.uniprot.org/uniprot/CNA_STAAU CNA_STAAU] Mediates attachment of staphylococcal cells to collagen-containing substrata.
-}}
+== 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/d2/1d2o_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=1d2o ConSurf].
+<div style="clear:both"></div>
-'''CRYSTAL STRUCTURE OF A SINGLE B REPEAT UNIT (B1) OF COLLAGEN BINDING SURFACE PROTEIN (CNA) OF STAPHYLOCOCCUS AUREUS.'''
+==See Also==
+*[[Adhesin 3D structures|Adhesin 3D structures]]
+__TOC__
-==Overview==
+</StructureSection>
-BACKGORUND: The Staphylococcus aureus collagen-binding protein Cna mediates bacterial adherence to collagen. The primary sequence of Cna has a non-repetitive collagen-binding A region, followed by the repetitive B region. The B region has one to four 23 kDa repeat units (B(1)-B(4)), depending on the strain of origin. The affinity of the A region for collagen is independent of the B region. However, the B repeat units have been suggested to serve as a 'stalk' that projects the A region from the bacterial surface and thus facilitate bacterial adherence to collagen. To understand the biological role of these B-region repeats we determined their three-dimensional structure. RESULTS: B(1) has two domains (D(1) and D(2)) placed side-by-side. D(1) and D(2) have similar secondary structure and exhibit a unique fold that resembles but is the inverse of the immunoglobulin-like (IgG-like) domains. Comparison with similar immunoglobulin superfamily (IgSF) structures shows novel packing arrangements between the D(1) and D(2) domains. In the B(1)B(2) crystal structure, an omission of a single glycine residue in the D(2)-D(3) linker loop, compared to the D(1)-D(2) and D(3)-D(4) linker loops, resulted in projection of the D(3) and D(4) in a spatially new orientation. We also present a model for B(1)B(2)B(3)B(4). CONCLUSIONS: The B region of the Cna collagen adhesin has a novel fold that is reminiscent of but is inverse in nature to the IgG fold. This B region assembly could effectively provide the needed flexibility and stability for presenting the ligand binding A region away from the bacterial cell surface.
+[[Category: Large Structures]]
-==About this Structure==
-D2O is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D2O OCA].
-==Reference==
-Novel fold and assembly of the repetitive B region of the Staphylococcus aureus collagen-binding surface protein., Deivanayagam CC, Rich RL, Carson M, Owens RT, Danthuluri S, Bice T, Hook M, Narayana SV, Structure. 2000 Jan 15;8(1):67-78. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10673425 10673425]
-[[Category: Single protein]]
 [[Category: Staphylococcus aureus]]
-[[Category: Deivanayagam, C C.S.]]
+[[Category: Deivanayagam CCS]]
-[[Category: Hook, M.]]
+[[Category: Hook M]]
-[[Category: Narayana, S V.L.]]
+[[Category: Narayana SVL]]
-[[Category: Rich, R L.]]
+[[Category: Rich RL]]
-[[Category: beta sandwich]]
-[[Category: cna]]
-[[Category: collagen]]
-[[Category: igg]]
-[[Category: igsf]]
-[[Category: staphylococcus aureus]]
-[[Category: structural protein]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 19:33:32 2008''