TRAP dicarboxylate transporter, DctP subunit - Revision history

Michal Harel at 08:18, 1 February 2021

Michal Harel — Mon, 01 Feb 2021 08:18:16 GMT

←Older revision		Revision as of 08:18, 1 February 2021
Line 6:		Line 6:

	== Disease ==		== Disease ==
-
-	RPE1 has been shown to mitigate host cell defenses leading to the development of cancer induces apoptosis of its host cells<ref>PMID:29495005</ref>.

	==Relevance==		==Relevance==
-
-	The detection of RPE1 mRNA and promoter methylation may serve as cancer prognostic marker.

	== Structural highlights ==		== Structural highlights ==

-	The complex between BPV1 DBD and 21-bp DNA (PDB code [[1ksx]]) shows 2 DBD-DNA binding modules: a binding loop and a binding helix each interacting with a single strand. The protein-DNA interactions are hydrophilic to phosphate atoms and van der Waals hydrophobic ones<ref>PMID:11889054</ref>.
	</StructureSection>		</StructureSection>
	==3D structures of TRAP dicarboxylate transporter, DctP subunit==		==3D structures of TRAP dicarboxylate transporter, DctP subunit==

Michal Harel at 12:25, 31 January 2021

Michal Harel — Sun, 31 Jan 2021 12:25:00 GMT

←Older revision		Revision as of 12:25, 31 January 2021
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-	<StructureSection load='4mhf' size='340' side='right' caption='~~Bovine papillomavirus 1 replication protein E1~~ complex with ~~DNA~~ (PDB code [[4mhf]])' scene=''>	+	<StructureSection load='4mhf' size='340' side='right' caption='DctP complex with glucuronate (PDB code [[4mhf]])' scene=''>

	==Function==		==Function==

Michal Harel at 12:23, 31 January 2021

Michal Harel — Sun, 31 Jan 2021 12:23:11 GMT

←Older revision		Revision as of 12:23, 31 January 2021
Line 3:		Line 3:
	==Function==		==Function==

-	'''TRAP dicarboxylate transporter, DctP subunit'''	+	'''TRAP dicarboxylate transporter, DctP subunit''' is part of the tripartite ATP-dependent transporters which consist of three protiens: DctP, DctM and DctQ. DctP is a periplasmic C4-dicarboxylate-binding receptor<ref>PMID:10627041</ref>.
-	<ref>PMID:~~12086149~~</ref>.	+

	== Disease ==		== Disease ==

Michal Harel at 12:14, 31 January 2021

Michal Harel — Sun, 31 Jan 2021 12:14:55 GMT

←Older revision		Revision as of 12:14, 31 January 2021
Line 1:		Line 1:
-	<StructureSection load='~~1ksx~~' size='340' side='right' caption='Bovine papillomavirus 1 replication protein E1 complex with DNA (PDB code [[~~1ksx~~]])' scene=''>	+	<StructureSection load='4mhf' size='340' side='right' caption='Bovine papillomavirus 1 replication protein E1 complex with DNA (PDB code [[4mhf]])' scene=''>

	==Function==		==Function==

Michal Harel at 12:12, 31 January 2021

Michal Harel — Sun, 31 Jan 2021 12:12:25 GMT

←Older revision		Revision as of 12:12, 31 January 2021
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	Updated on {{REVISIONDAY2}}-{{MONTHNAME\|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}		Updated on {{REVISIONDAY2}}-{{MONTHNAME\|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
		+	{{#tree:id=OrganizedByTopic\|openlevels=0\|

-	~~Domains: helicase 301-605; DNA-binding (DBD) 286-365~~	+	*TRAP dicarboxylate transporter, DctP subunit

-	[[4pfi]] - DctP - ''Marinobacter hydrocarbonoclasticus''<br />	+	**[[4pfi]] - DctP - ''Marinobacter hydrocarbonoclasticus''<br />
-	[[~~4n6d~~]] - ~~DsDctP~~ - ''~~Desulfovibrio salexigens~~''<br />	+	**[[4pe3]] - RsDctP - ''Rhodobacter sphaeroides''<br />
-	[[~~4n6k]] - DsDctP + diglycerolphosphate<br />~~	+	**[[4p1e]] - DctP - ''Escherichia fergusonii''<br />
-	~~[[4nn3]] - DsDctP + orotate<br />~~	+	**[[4p47]] - OaDctP - ''Ochtrobactrum anthropi''<br />
-	~~[[4nhb~~]] - DctP ~~+ glycerolphosphate~~ - ''~~Desulfovibrio desulfuricans~~''<br />	+	**[[4n6d]] - DsDctP - ''Desulfovibrio salexigens''<br />
-	[[~~4ngu~~]] - ~~DctP + Ala-Ala - ''Desulfovibrio alaskensis''<br />~~	+
-	~~[[4xeq]] - DctP + pantoate - ''Desulfovibrio vulgaris''<br />~~	+
-	~~[[4mco]], [[4mev]] - DctP + malonate - ''Rhodoferax ferrireducens''<br />~~	+
-	~~[[4ovt]] - DctP + fuconate~~ - ''Ochtrobactrum anthropi''<br />	+
-	[[~~5cm6~~]] - ~~DctP + pyruvate~~ - ''~~Pseudoalteromonas atlantica''<br />~~	+
-	~~[[4n91]] - DctP + glucuronate - ''Anaerococcus prevotii''<br />~~	+
-	~~[[4ovq]] - DctP + glucuronate - ''Roeobacter denitrificans''<br />~~	+
-	~~[[4ovr]] - DctP + galacturonate - ''Xanthobacter autotrophicus''<br />~~	+
-	~~[[4mig]] - PoDctP + galacturonate - ''Polaromonas''<br />~~	+
-	~~[[4n8g]] - DctP + Ala-Ala - ''Chromohalobacter~~ salexigens~~''<br />~~	+
-	~~[[4ovs]] - DctP + succinate - ''Sulfurospirillum deleyianum''<br />~~	+
-	~~[[4o94]] - DctP + succinate - ''Rhodopseudomonas palustris''<br />~~	+
-	~~[[4pfr]] - RsDctP + malate - ''Rhodobacter sphaeroides''<br />~~	+
-	~~[[4x8r]] - RsDctP + glucuronate <br />~~	+
-	~~[[4xfe]] - DctP + glucuronate - ''Pseudomonas putida''<br />~~	+
-	~~[[4o7m]] - DctP + malate - ''Shewanella loihica~~''<br />	+

		+	*TRAP dicarboxylate transporter, DctP subunit complex with glucuronate derivative
		+
		+	**[[4n91]] - DctP + glucuronate - ''Anaerococcus prevotii''<br />
		+	**[[4ovq]] - DctP + glucuronate - ''Roeobacter denitrificans''<br />
		+	**[[4ovr]] - DctP + galacturonate - ''Xanthobacter autotrophicus''<br />
		+	**[[4mig]] - PoDctP + galacturonate - ''Polaromonas''<br />
		+	**[[4mhf]] - PoDctP + glucuronate <br />
		+	**[[4p1l]], [[4p3l]] - CsDctP + glucuronate <br />
		+	**[[4x8r]] - RsDctP + glucuronate <br />
		+	**[[4xfe]] - DctP + glucuronate - ''Pseudomonas putida''<br />
		+	**[[4n15]] - BaDctP + glucuronate - ''Burkholderia ambifaria''<br />
		+	**[[4n17]] - BaDctP + galacturonate <br />
		+
		+	*TRAP dicarboxylate transporter, DctP subunit other complexes
		+
		+	**[[4n6k]] - DsDctP + diglycerolphosphate<br />
		+	**[[4nn3]] - DsDctP + orotate<br />
		+	**[[4nhb]] - DctP + glycerolphosphate - ''Desulfovibrio desulfuricans''<br />
		+	**[[4ngu]] - DctP + Ala-Ala - ''Desulfovibrio alaskensis''<br />
		+	**[[4xeq]] - DctP + pantoate - ''Desulfovibrio vulgaris''<br />
		+	**[[4mco]], [[4mev]] - DctP + malonate - ''Rhodoferax ferrireducens''<br />
		+	**[[4ovt]] - OaDctP + fuconate<br />
		+	**[[5cm6]] - DctP + pyruvate - ''Pseudoalteromonas atlantica''<br />
		+	**[[4pdd]], [[4pdh]] - PoDctP + erythronate <br />
		+	**[[4mnc]], [[4mni]] - PoDctP + benzoyl formate <br />
		+	**[[4n8g]] - CsDctP + Ala-Ala - ''Chromohalobacter salexigens''<br />
		+	**[[4ovs]] - DctP + succinate - ''Sulfurospirillum deleyianum''<br />
		+	**[[4o94]] - RpDctP + succinate - ''Rhodopseudomonas palustris''<br />
		+	**[[4oan]] - RpDctP + acetolactate derivative<br />
		+	**[[4paf]], [[4pai]], [[4pbh]] - DctP + benzoate derivative - ''Ruegeria pomeroyi''<br />
		+	**[[4pfr]] - RsDctP + malate<br />
		+	**[[4o7m]] - SlDctP + malate - ''Shewanella loihica''<br />
		+	**[[4oa4]] - SlDctP + succinate <br />
		+	**[[4ln5]] - BaDctP + glycerol <br />
		+	**[[3fxb]] - DctP + ectoine - ''Silicibacter pomeroyi''<br />
		+	**[[4o8m]] - RsDctP + galactonate - ''Actinobacillus succinogenes''<br />
		+	**[[4p9k]] - ewDctP + erythronate - earthworm<br />
		+	**[[4pak]] - ewDctP + pantoate<br />
		+	}}
	== References ==		== References ==
	<references/>		<references/>
	[[Category:Topic Page]]		[[Category:Topic Page]]

Michal Harel at 08:22, 31 January 2021

Michal Harel — Sun, 31 Jan 2021 08:22:13 GMT

←Older revision		Revision as of 08:22, 31 January 2021
Line 24:		Line 24:
	Domains: helicase 301-605; DNA-binding (DBD) 286-365		Domains: helicase 301-605; DNA-binding (DBD) 286-365

		+	[[4pfi]] - DctP - ''Marinobacter hydrocarbonoclasticus''<br />
	[[4n6d]] - DsDctP - ''Desulfovibrio salexigens''<br />		[[4n6d]] - DsDctP - ''Desulfovibrio salexigens''<br />
	[[4n6k]] - DsDctP + diglycerolphosphate<br />		[[4n6k]] - DsDctP + diglycerolphosphate<br />
-	[[4mco]] - DctP + malonate - ''Rhodoferax ferrireducens''<br />	+	[[4nn3]] - DsDctP + orotate<br />
		+	[[4nhb]] - DctP + glycerolphosphate - ''Desulfovibrio desulfuricans''<br />
		+	[[4ngu]] - DctP + Ala-Ala - ''Desulfovibrio alaskensis''<br />
		+	[[4xeq]] - DctP + pantoate - ''Desulfovibrio vulgaris''<br />
		+	[[4mco]], [[4mev]] - DctP + malonate - ''Rhodoferax ferrireducens''<br />
	[[4ovt]] - DctP + fuconate - ''Ochtrobactrum anthropi''<br />		[[4ovt]] - DctP + fuconate - ''Ochtrobactrum anthropi''<br />
	[[5cm6]] - DctP + pyruvate - ''Pseudoalteromonas atlantica''<br />		[[5cm6]] - DctP + pyruvate - ''Pseudoalteromonas atlantica''<br />
-	[[4n91]] - DctP + ~~glucoronate~~ - ''Anaerococcus prevotii''<br />	+	[[4n91]] - DctP + glucuronate - ''Anaerococcus prevotii''<br />
		+	[[4ovq]] - DctP + glucuronate - ''Roeobacter denitrificans''<br />
		+	[[4ovr]] - DctP + galacturonate - ''Xanthobacter autotrophicus''<br />
		+	[[4mig]] - PoDctP + galacturonate - ''Polaromonas''<br />
	[[4n8g]] - DctP + Ala-Ala - ''Chromohalobacter salexigens''<br />		[[4n8g]] - DctP + Ala-Ala - ''Chromohalobacter salexigens''<br />
		+	[[4ovs]] - DctP + succinate - ''Sulfurospirillum deleyianum''<br />
		+	[[4o94]] - DctP + succinate - ''Rhodopseudomonas palustris''<br />
		+	[[4pfr]] - RsDctP + malate - ''Rhodobacter sphaeroides''<br />
		+	[[4x8r]] - RsDctP + glucuronate <br />
		+	[[4xfe]] - DctP + glucuronate - ''Pseudomonas putida''<br />
		+	[[4o7m]] - DctP + malate - ''Shewanella loihica''<br />

	== References ==		== References ==
	<references/>		<references/>
	[[Category:Topic Page]]		[[Category:Topic Page]]
-
-
-	==Your Heading Here (maybe something like 'Structure')==
-	<StructureSection load='1stp' size='340' side='right' caption='Caption for this structure' scene=''>
-	This is a default text for your page '''TRAP dicarboxylate transporter, DctP subunit'''. Click above on '''edit this page''' to modify. Be careful with the < and > signs.
-	You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.
-
-	== Function ==
-
-	== Disease ==
-
-	== Relevance ==
-
-	== Structural highlights ==
-
-	This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.
-
-	</StructureSection>
-	== References ==
-	<references/>

Michal Harel: New page: ==Function== '''TRAP dicarbo...

Michal Harel — Sun, 31 Jan 2021 07:43:02 GMT

New page: <StructureSection load='1ksx' size='340' side='right' caption='Bovine papillomavirus 1 replication protein E1 complex with DNA (PDB code 1ksx)' scene=''> ==Function== '''TRAP dicarbo...

New page

<StructureSection load='1ksx' size='340' side='right' caption='Bovine papillomavirus 1 replication protein E1 complex with DNA (PDB code [[1ksx]])' scene=''>

==Function==

'''TRAP dicarboxylate transporter, DctP subunit'''
<ref>PMID:12086149</ref>.

== Disease ==

RPE1 has been shown to mitigate host cell defenses leading to the development of cancer induces apoptosis of its host cells<ref>PMID:29495005</ref>.

==Relevance==

The detection of RPE1 mRNA and promoter methylation may serve as cancer prognostic marker.

== Structural highlights ==

The complex between BPV1 DBD and 21-bp DNA (PDB code [[1ksx]]) shows 2 DBD-DNA binding modules: a binding loop and a binding helix each interacting with a single strand. The protein-DNA interactions are hydrophilic to phosphate atoms and van der Waals hydrophobic ones<ref>PMID:11889054</ref>.
</StructureSection>
==3D structures of TRAP dicarboxylate transporter, DctP subunit==

Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}

Domains: helicase 301-605; DNA-binding (DBD) 286-365

[[4n6d]] - DsDctP - ''Desulfovibrio salexigens'' 
[[4n6k]] - DsDctP + diglycerolphosphate 
[[4mco]] - DctP + malonate - ''Rhodoferax ferrireducens'' 
[[4ovt]] - DctP + fuconate - ''Ochtrobactrum anthropi'' 
[[5cm6]] - DctP + pyruvate - ''Pseudoalteromonas atlantica'' 
[[4n91]] - DctP + glucoronate - ''Anaerococcus prevotii'' 
[[4n8g]] - DctP + Ala-Ala - ''Chromohalobacter salexigens'' 

== References ==
<references/>
[[Category:Topic Page]]

==Your Heading Here (maybe something like 'Structure')==
<StructureSection load='1stp' size='340' side='right' caption='Caption for this structure' scene=''>
This is a default text for your page '''TRAP dicarboxylate transporter, DctP subunit'''. Click above on '''edit this page''' to modify. Be careful with the < and > signs.
You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.

== Function ==

== Disease ==

== Relevance ==

== Structural highlights ==

This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.

</StructureSection>
== References ==
<references/>