3bs6
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 3bs6 |SIZE=350|CAPTION= <scene name='initialview01'>3bs6</scene>, resolution 1.800Å | |PDB= 3bs6 |SIZE=350|CAPTION= <scene name='initialview01'>3bs6</scene>, resolution 1.800Å | ||
|SITE= <scene name='pdbsite=AC1:Ca+Binding+Site+For+Residue+A+1'>AC1</scene>, <scene name='pdbsite=AC2:Ca+Binding+Site+For+Residue+A+2'>AC2</scene>, <scene name='pdbsite=AC3:Ca+Binding+Site+For+Residue+A+3'>AC3</scene>, <scene name='pdbsite=AC4:Ca+Binding+Site+For+Residue+A+4'>AC4</scene>, <scene name='pdbsite=AC5:Ca+Binding+Site+For+Residue+A+5'>AC5</scene>, <scene name='pdbsite=AC6:2pe+Binding+Site+For+Residue+B+1'>AC6</scene>, <scene name='pdbsite=AC7:Pg4+Binding+Site+For+Residue+A+336'>AC7</scene>, <scene name='pdbsite=AC8:Pge+Binding+Site+For+Residue+A+337'>AC8</scene>, <scene name='pdbsite=AC9:Pge+Binding+Site+For+Residue+B+336'>AC9</scene>, <scene name='pdbsite=BC1:Pge+Binding+Site+For+Residue+A+338'>BC1</scene>, <scene name='pdbsite=BC2:Edo+Binding+Site+For+Residue+B+337'>BC2</scene>, <scene name='pdbsite=BC3:Edo+Binding+Site+For+Residue+A+339'>BC3</scene>, <scene name='pdbsite=BC4:Edo+Binding+Site+For+Residue+B+3'>BC4</scene>, <scene name='pdbsite=BC5:Edo+Binding+Site+For+Residue+A+340'>BC5</scene>, <scene name='pdbsite=BC6:Edo+Binding+Site+For+Residue+B+6'>BC6</scene> and <scene name='pdbsite=BC7:Edo+Binding+Site+For+Residue+A+7'>BC7</scene> | |SITE= <scene name='pdbsite=AC1:Ca+Binding+Site+For+Residue+A+1'>AC1</scene>, <scene name='pdbsite=AC2:Ca+Binding+Site+For+Residue+A+2'>AC2</scene>, <scene name='pdbsite=AC3:Ca+Binding+Site+For+Residue+A+3'>AC3</scene>, <scene name='pdbsite=AC4:Ca+Binding+Site+For+Residue+A+4'>AC4</scene>, <scene name='pdbsite=AC5:Ca+Binding+Site+For+Residue+A+5'>AC5</scene>, <scene name='pdbsite=AC6:2pe+Binding+Site+For+Residue+B+1'>AC6</scene>, <scene name='pdbsite=AC7:Pg4+Binding+Site+For+Residue+A+336'>AC7</scene>, <scene name='pdbsite=AC8:Pge+Binding+Site+For+Residue+A+337'>AC8</scene>, <scene name='pdbsite=AC9:Pge+Binding+Site+For+Residue+B+336'>AC9</scene>, <scene name='pdbsite=BC1:Pge+Binding+Site+For+Residue+A+338'>BC1</scene>, <scene name='pdbsite=BC2:Edo+Binding+Site+For+Residue+B+337'>BC2</scene>, <scene name='pdbsite=BC3:Edo+Binding+Site+For+Residue+A+339'>BC3</scene>, <scene name='pdbsite=BC4:Edo+Binding+Site+For+Residue+B+3'>BC4</scene>, <scene name='pdbsite=BC5:Edo+Binding+Site+For+Residue+A+340'>BC5</scene>, <scene name='pdbsite=BC6:Edo+Binding+Site+For+Residue+B+6'>BC6</scene> and <scene name='pdbsite=BC7:Edo+Binding+Site+For+Residue+A+7'>BC7</scene> | ||
| - | |LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=2PE:NONAETHYLENE+GLYCOL'>2PE</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PGE:TRIETHYLENE+GLYCOL'>PGE</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= oxaA, yidC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | |GENE= oxaA, yidC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3bs6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bs6 OCA], [http://www.ebi.ac.uk/pdbsum/3bs6 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=3bs6 RCSB]</span> | ||
}} | }} | ||
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[[Category: Ravaud, S.]] | [[Category: Ravaud, S.]] | ||
[[Category: Sinning, I.]] | [[Category: Sinning, I.]] | ||
| - | [[Category: 2PE]] | ||
| - | [[Category: CA]] | ||
| - | [[Category: EDO]] | ||
| - | [[Category: PG4]] | ||
| - | [[Category: PGE]] | ||
[[Category: beta supersandwich fold]] | [[Category: beta supersandwich fold]] | ||
[[Category: chaperone]] | [[Category: chaperone]] | ||
| Line 39: | Line 37: | ||
[[Category: yidc/oxa1/alb3 family]] | [[Category: yidc/oxa1/alb3 family]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:28:36 2008'' |
Revision as of 02:28, 31 March 2008
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| , resolution 1.800Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | , , , , , , , , , , , , , , and | ||||||
| Ligands: | , , , , , | ||||||
| Gene: | oxaA, yidC (Escherichia coli) | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
1.8 Angstrom crystal structure of the periplasmic domain of the membrane insertase YidC
Overview
In bacteria the biogenesis of inner membrane proteins requires targeting and insertion factors such as the signal recognition particle and the Sec-translocon. YidC is an essential membrane protein involved in the insertion of inner membrane proteins together with the Sec-translocon, but also as a separate entity. YidC of Escherichia coli is a member of the conserved YidC (in bacteria)/Oxa1 (in mitochondria)/Alb3 (in chloroplasts) protein family and contains six transmembrane segments and a large periplasmic domain (P1). We determined the crystal structure of the periplasmic domain of YidC from E.coli (P1D) at 1.8A resolution. The structure of P1D shows the conserved ss-supersandwich-fold of carbohydrate binding proteins and an a-helical linker region at the C-terminus that packs against the ss-supersandwich by a highly conserved interface. P1D exhibits an elongated cleft of similar architecture as found in the structural homologs. However the electrostatic properties and molecular details of the cleft make it unlikely to interact with carbohydrate substrates. The cleft in P1D is occupied by a polyethylene glycol molecule suggesting an elongated peptide or acyl chain as a natural ligand. The region of P1D previously reported to interact with SecF maps to a surface area in the vicinity of the cleft. The conserved C-terminal region of the P1 domain was reported to be essential for the membrane insertase function of YidC. The analysis of this region suggests a role in membrane interaction and/or in the regulation of YidC interaction with binding partners.
About this Structure
3BS6 is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.
Reference
The crystal structure of the periplasmic domain of the Escherichia coli membrane protein insertase YidC contains a conserved substrate binding cleft., Ravaud S, Stjepanovic G, Wild K, Sinning I, J Biol Chem. 2008 Jan 30;. PMID:18234665
Page seeded by OCA on Mon Mar 31 05:28:36 2008
