6pb4 - Revision history

OCA at 09:25, 20 March 2024

OCA — Wed, 20 Mar 2024 09:25:58 GMT

←Older revision		Revision as of 09:25, 20 March 2024
Line 3:		Line 3:
	<StructureSection load='6pb4' size='340' side='right'caption='[[6pb4]], [[Resolution\|resolution]] 4.35Å' scene=''>		<StructureSection load='6pb4' size='340' side='right'caption='[[6pb4]], [[Resolution\|resolution]] 4.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6pb4]] is a 11 chain structure with sequence from [~~http://en.wikipedia.org/wiki/Eco45 Eco45], [http://en.wikipedia.org/wiki/Eco57 Eco57] and [http~~://en.wikipedia.org/wiki/~~Ecoli Ecoli~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PB4 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6PB4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6pb4]] is a 11 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PB4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6PB4 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CMP:ADENOSINE-3~~,~~5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 4.35Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~GTP~~:~~GUANOSINE~~-5-~~TRIPHOSPHATE~~'>~~GTP~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td><~~td class~~=~~"sblockDat">rpoA, Z4665, ECs4160 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode=5&id=83334 ECO57]), rpoB, ECS88_4448 ([http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=585035 ECO45]), rpoC, Z5561, ECs4911 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57]), rpoZ, ECS88_4064 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=585035 ECO45]), rpoD, alt, b3067, JW3039 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI]), crp, Z4718, ECs4208 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57])</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=6pb4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pb4 OCA], [https://pdbe.org/6pb4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6pb4 RCSB], [https://www.ebi.ac.uk/pdbsum/6pb4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6pb4 ProSAT]</span></td></tr>
-	<~~tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6]~~ </~~span~~></td></tr>	+
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6pb4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pb4 OCA], [~~http~~://pdbe.org/6pb4 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6pb4 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6pb4 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6pb4 ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/CRP_ECO57 CRP_ECO57]] A global transcription regulator. Complexes with cyclic AMP (cAMP) which allosterically activates DNA binding to regulate transcription. It can act as an activator, repressor, coactivator or corepressor. Induces a severe bend in DNA. Acts as a negative regulator of its own synthesis as well as for adenylate cyclase (cyaA), which generates cAMP. Plays a major role in carbon catabolite repression (CCR) (By similarity). [[http://www.uniprot.org/uniprot/RPOC_ECO57 RPOC_ECO57]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. ~~[[http://www.uniprot.org/uniprot/RPOB_ECO45 RPOB_ECO45]] DNA-dependent RNA polymerase catalyzes~~ the ~~transcription~~ of ~~DNA into RNA using~~ the ~~four ribonucleoside triphosphates as substrates~~. [~~[http~~:~~//www.uniprot.org/uniprot/RPOA_ECO57 RPOA_ECO57~~]~~] DNA-dependent~~ RNA polymerase ~~catalyzes the transcription of DNA into~~ RNA ~~using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOZ_ECO45 RPOZ_ECO45~~]] ~~Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits.~~ [[~~http://www.uniprot.org/uniprot/RPOD_ECOLI RPOD_ECOLI~~]] ~~Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium.~~	+	[https://www.uniprot.org/uniprot/RPOA_ECOLI RPOA_ECOLI] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. This subunit plays an important role in subunit assembly since its dimerization is the first step in the sequential assembly of subunits to form the holoenzyme.[HAMAP-Rule:MF_00059]
		+
		+	==See Also==
		+	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
		+	*[[Sigma factor 3D structures\|Sigma factor 3D structures]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~DNA-directed RNA polymerase]]~~	+	[[Category: Escherichia coli]]
-	~~[[Category: Eco45]]~~	+
-	~~[[Category: Eco57]]~~	+
-	~~[[Category: Ecoli~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Liu, B]]	+	[[Category: Liu B]]
-	[[Category: Shi, W]]	+	[[Category: Shi W]]
-	~~[[Category: Cap-dependent]]~~	+
-	~~[[Category: Class-ii]]~~	+
-	~~[[Category: De novo rna synthesis]]~~	+
-	~~[[Category: Transcription]]~~	+
-	~~[[Category: Transcription activation complex]]~~	+
-	~~[[Category: Transcription-dna-rna complex~~]]	+

OCA at 07:01, 29 April 2020

OCA — Wed, 29 Apr 2020 07:01:37 GMT

←Older revision		Revision as of 07:01, 29 April 2020
Line 3:		Line 3:
	<StructureSection load='6pb4' size='340' side='right'caption='[[6pb4]], [[Resolution\|resolution]] 4.35Å' scene=''>		<StructureSection load='6pb4' size='340' side='right'caption='[[6pb4]], [[Resolution\|resolution]] 4.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6pb4]] is a 11 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PB4 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6PB4 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6pb4]] is a 11 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco45 Eco45], [http://en.wikipedia.org/wiki/Eco57 Eco57] and [http://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PB4 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6PB4 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rpoA, Z4665, ECs4160 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57]), rpoB, ECS88_4448 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=585035 ECO45]), rpoC, Z5561, ECs4911 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57]), rpoZ, ECS88_4064 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=585035 ECO45]), rpoD, alt, b3067, JW3039 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI]), crp, Z4718, ECs4208 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83334 ECO57])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6pb4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pb4 OCA], [http://pdbe.org/6pb4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pb4 RCSB], [http://www.ebi.ac.uk/pdbsum/6pb4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pb4 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6pb4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pb4 OCA], [http://pdbe.org/6pb4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pb4 RCSB], [http://www.ebi.ac.uk/pdbsum/6pb4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pb4 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	</StructureSection>		</StructureSection>
	[[Category: DNA-directed RNA polymerase]]		[[Category: DNA-directed RNA polymerase]]
		+	[[Category: Eco45]]
		+	[[Category: Eco57]]
		+	[[Category: Ecoli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Liu, B]]		[[Category: Liu, B]]

OCA at 09:44, 18 March 2020

OCA — Wed, 18 Mar 2020 09:44:13 GMT

←Older revision		Revision as of 09:44, 18 March 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 6pb4 is ~~ON HOLD~~	+	==The E. coli class-II CAP-dependent transcription activation complex with de novo RNA transcript at the state 2==
-		+	<StructureSection load='6pb4' size='340' side='right'caption='[[6pb4]], [[Resolution\|resolution]] 4.35Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6pb4]] is a 11 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6PB4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6PB4 FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CMP:ADENOSINE-3,5-CYCLIC-MONOPHOSPHATE'>CMP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6pb4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6pb4 OCA], [http://pdbe.org/6pb4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6pb4 RCSB], [http://www.ebi.ac.uk/pdbsum/6pb4 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6pb4 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/CRP_ECO57 CRP_ECO57]] A global transcription regulator. Complexes with cyclic AMP (cAMP) which allosterically activates DNA binding to regulate transcription. It can act as an activator, repressor, coactivator or corepressor. Induces a severe bend in DNA. Acts as a negative regulator of its own synthesis as well as for adenylate cyclase (cyaA), which generates cAMP. Plays a major role in carbon catabolite repression (CCR) (By similarity). [[http://www.uniprot.org/uniprot/RPOC_ECO57 RPOC_ECO57]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOB_ECO45 RPOB_ECO45]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOA_ECO57 RPOA_ECO57]] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. [[http://www.uniprot.org/uniprot/RPOZ_ECO45 RPOZ_ECO45]] Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits. [[http://www.uniprot.org/uniprot/RPOD_ECOLI RPOD_ECOLI]] Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium.
		+	__TOC__
		+	</StructureSection>
		+	[[Category: DNA-directed RNA polymerase]]
		+	[[Category: Large Structures]]
		+	[[Category: Liu, B]]
		+	[[Category: Shi, W]]
		+	[[Category: Cap-dependent]]
		+	[[Category: Class-ii]]
		+	[[Category: De novo rna synthesis]]
		+	[[Category: Transcription]]
		+	[[Category: Transcription activation complex]]
		+	[[Category: Transcription-dna-rna complex]]

OCA at 13:48, 22 January 2020

OCA — Wed, 22 Jan 2020 13:48:56 GMT

←Older revision		Revision as of 13:48, 22 January 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6pb4 is ON HOLD ~~until Paper Publication~~	+	The entry 6pb4 is ON HOLD

	Authors:		Authors:

OCA at 05:10, 27 November 2019

OCA — Wed, 27 Nov 2019 05:10:21 GMT

←Older revision		Revision as of 05:10, 27 November 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6pb4 is ON HOLD	+	The entry 6pb4 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6pb4" [edit=sysop:move=sysop]

OCA — Wed, 19 Jun 2019 04:25:27 GMT

Protected "6pb4" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:25, 19 June 2019

OCA: New page: '''Unreleased structure''' The entry 6pb4 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 19 Jun 2019 04:25:25 GMT

New page: '''Unreleased structure''' The entry 6pb4 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6pb4 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]