7dnz - Revision history

OCA at 19:43, 7 September 2022

2022-09-07T19:43:48Z

←Older revision		Revision as of 19:43, 7 September 2022
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	<StructureSection load='7dnz' size='340' side='right'caption='[[7dnz]], [[Resolution\|resolution]] 3.60Å' scene=''>		<StructureSection load='7dnz' size='340' side='right'caption='[[7dnz]], [[Resolution\|resolution]] 3.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7dnz]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DNZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DNZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7dnz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DNZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DNZ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GSH:GLUTATHIONE'>GSH</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=Y01:CHOLESTEROL+HEMISUCCINATE'>Y01</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GSH:GLUTATHIONE'>GSH</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=Y01:CHOLESTEROL+HEMISUCCINATE'>Y01</scene></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=7dnz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dnz OCA], [https://pdbe.org/7dnz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dnz RCSB], [https://www.ebi.ac.uk/pdbsum/7dnz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dnz ProSAT]</span></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=7dnz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dnz OCA], [https://pdbe.org/7dnz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dnz RCSB], [https://www.ebi.ac.uk/pdbsum/7dnz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dnz ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[[https://www.uniprot.org/uniprot/ABCB6_HUMAN ABCB6_HUMAN]] Ocular coloboma;Dyschromatosis universalis;Colobomatous microphthalmia. The disease is caused by mutations affecting the gene represented in this entry. The disease is caused by mutations affecting the gene represented in this entry. ABCB6 mutations are involved in familial pseudohyperkalemia, a dominantly inherited condition characterized by increased serum potassium levels, measured in whole-blood specimens stored at or below room temperature. This condition is not accompanied by clinical symptoms or biological signs except for borderline abnormalities of red cell shape (PubMed:23180570).<ref>PMID:23180570</ref>	+	[[https://www.uniprot.org/uniprot/ABCB6_HUMAN ABCB6_HUMAN]] Ocular coloboma;Dyschromatosis universalis;Colobomatous microphthalmia. The disease is caused by mutations affecting the gene represented in this entry. The disease is caused by mutations affecting the gene represented in this entry. ABCB6 mutations are involved in familial pseudohyperkalemia, a dominantly inherited condition characterized by increased serum potassium levels, measured in whole-blood specimens stored at or below room temperature. This condition is not accompanied by clinical symptoms or biological signs except for borderline abnormalities of red cell shape (PubMed:23180570).<ref>PMID:23180570</ref>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/ABCB6_HUMAN ABCB6_HUMAN]] Binds heme and porphyrins and functions in their ATP-dependent uptake into the mitochondria. Plays a crucial role in heme synthesis.<ref>PMID:10837493</ref> <ref>PMID:17006453</ref>	+	[[https://www.uniprot.org/uniprot/ABCB6_HUMAN ABCB6_HUMAN]] Binds heme and porphyrins and functions in their ATP-dependent uptake into the mitochondria. Plays a crucial role in heme synthesis.<ref>PMID:10837493</ref> <ref>PMID:17006453</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hong, S]]	+	[[Category: Hong S]]
-	[[Category: Jin~~, M S~~]]	+	[[Category: Jin MS]]
-	[[Category: Kang~~, J Y~~]]	+	[[Category: Kang JY]]
-	[[Category: Kim~~, J W~~]]	+	[[Category: Kim JW]]
-	[[Category: Kim~~, N J~~]]	+	[[Category: Kim NJ]]
-	[[Category: Kim, S]]	+	[[Category: Kim S]]
-	[[Category: Lee~~, S S~~]]	+	[[Category: Lee SS]]
-	[[Category: Park~~, J G]]~~	+	[[Category: Park JG]]
-	~~[[Category: Abcb6]]~~	+
-	~~[[Category: Heme transporter]]~~	+
-	~~[[Category: Membrane protein~~]]	+

OCA at 06:41, 31 August 2022

2022-08-31T06:41:49Z

←Older revision		Revision as of 06:41, 31 August 2022
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	==Cryo-EM structure of the human ABCB6 (Hemin and GSH-bound)==		==Cryo-EM structure of the human ABCB6 (Hemin and GSH-bound)==
-	<StructureSection load='7dnz' size='340' side='right'caption='[[7dnz]]' scene=''>	+	<StructureSection load='7dnz' size='340' side='right'caption='[[7dnz]], [[Resolution\|resolution]] 3.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DNZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DNZ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7dnz]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DNZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DNZ FirstGlance]. <br>
-	</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=7dnz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dnz OCA], [https://pdbe.org/7dnz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dnz RCSB], [https://www.ebi.ac.uk/pdbsum/7dnz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dnz ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GSH:GLUTATHIONE'>GSH</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=Y01:CHOLESTEROL+HEMISUCCINATE'>Y01</scene></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=7dnz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dnz OCA], [https://pdbe.org/7dnz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dnz RCSB], [https://www.ebi.ac.uk/pdbsum/7dnz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dnz ProSAT]</span></td></tr>
	</table>		</table>
		+	== Disease ==
		+	[[https://www.uniprot.org/uniprot/ABCB6_HUMAN ABCB6_HUMAN]] Ocular coloboma;Dyschromatosis universalis;Colobomatous microphthalmia. The disease is caused by mutations affecting the gene represented in this entry. The disease is caused by mutations affecting the gene represented in this entry. ABCB6 mutations are involved in familial pseudohyperkalemia, a dominantly inherited condition characterized by increased serum potassium levels, measured in whole-blood specimens stored at or below room temperature. This condition is not accompanied by clinical symptoms or biological signs except for borderline abnormalities of red cell shape (PubMed:23180570).<ref>PMID:23180570</ref>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/ABCB6_HUMAN ABCB6_HUMAN]] Binds heme and porphyrins and functions in their ATP-dependent uptake into the mitochondria. Plays a crucial role in heme synthesis.<ref>PMID:10837493</ref> <ref>PMID:17006453</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Human ABCB6 is an ATP-binding cassette transporter that regulates heme biosynthesis by translocating various porphyrins from the cytoplasm into the mitochondria. Here we report the cryo-electron microscopy (cryo-EM) structures of human ABCB6 with its substrates, coproporphyrin III (CPIII) and hemin, at 3.5 and 3.7 A resolution, respectively. Metalfree porphyrin CPIII binds to ABCB6 within the central cavity, where its propionic acids form hydrogen bonds with the highly conserved Y550. The resulting structure has an overall fold similar to the inward-facing apo structure, but the two nucleotide-binding domains (NBDs) are slightly closer to each other. In contrast, when ABCB6 binds a metal-centered porphyrin hemin in complex with two glutathione molecules (1 hemin: 2 glutathione), the two NBDs end up much closer together, aligning them to bind and hydrolyze ATP more efficiently. In our structures, a glycine-rich and highly flexible "bulge" loop on TM helix 7 undergoes significant conformational changes associated with substrate binding. Our findings suggest that ABCB6 utilizes at least two distinct mechanisms to fine-tune substrate specificity and transport efficiency.
		+
		+	Structural Insights into Porphyrin Recognition by the Human ATP-Binding Cassette Transporter ABCB6.,Kim S, Lee SS, Park JG, Kim JW, Ju S, Choi SH, Kim S, Kim NJ, Hong S, Kang JY, Jin MS Mol Cells. 2022 Aug 31;45(8):575-587. doi: 10.14348/molcells.2022.0040. Epub 2022, Jul 28. PMID:35950458<ref>PMID:35950458</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7dnz" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[ABC transporter 3D structures\|ABC transporter 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hong S]]	+	[[Category: Hong, S]]
-	[[Category: Jin MS]]	+	[[Category: Jin, M S]]
-	[[Category: Kang JY]]	+	[[Category: Kang, J Y]]
-	[[Category: Kim JW]]	+	[[Category: Kim, J W]]
-	[[Category: Kim NJ]]	+	[[Category: Kim, N J]]
-	[[Category: Kim S]]	+	[[Category: Kim, S]]
-	[[Category: Lee SS]]	+	[[Category: Lee, S S]]
-	[[Category: Park JG]]	+	[[Category: Park, J G]]
		+	[[Category: Abcb6]]
		+	[[Category: Heme transporter]]
		+	[[Category: Membrane protein]]

OCA at 09:42, 22 June 2022

2022-06-22T09:42:42Z

←Older revision		Revision as of 09:42, 22 June 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7dnz ~~is ON HOLD until Jun 18 2023~~	+	==Cryo-EM structure of the human ABCB6 (Hemin and GSH-bound)==
-		+	<StructureSection load='7dnz' size='340' side='right'caption='[[7dnz]]' scene=''>
-	~~Authors~~: ~~Kim, S~~.~~, Lee, S~~.S.~~, Park, J~~.G.~~, Kim, J~~.W.~~, Kim, S~~., ~~Kim, N~~.J., ~~Hong~~, S., ~~Kang, J~~.Y., ~~Jin, M~~.S.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7DNZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7DNZ FirstGlance]. <br>
-	~~Description: Cryo-EM structure of the human ABCB6 (Hemin and GSH-bound)~~	+	</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=7dnz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7dnz OCA], [https://pdbe.org/7dnz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7dnz RCSB], [https://www.ebi.ac.uk/pdbsum/7dnz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7dnz ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Kim,~~ S]]	+	__TOC__
-	[[Category: ~~Kang, J.Y~~]]	+	</StructureSection>
-	[[Category: ~~Park, J.G~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Jin, M.S~~]]	+	[[Category: Hong S]]
-	[[Category: Kim~~, J.W~~]]	+	[[Category: Jin MS]]
-	[[Category: ~~Hong,~~ S]]	+	[[Category: Kang JY]]
-	[[Category: Lee~~, S.S~~]]	+	[[Category: Kim JW]]
-	[[Category: ~~Kim, N.J~~]]	+	[[Category: Kim NJ]]
		+	[[Category: Kim S]]
		+	[[Category: Lee SS]]
		+	[[Category: Park JG]]

OCA at 03:48, 15 June 2022

2022-06-15T03:48:14Z

←Older revision		Revision as of 03:48, 15 June 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7dnz is ON HOLD until Jun 11 2023	+	The entry 7dnz is ON HOLD until Jun 18 2023

	Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.		Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.

OCA at 14:49, 20 October 2021

2021-10-20T14:49:51Z

←Older revision		Revision as of 14:49, 20 October 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7dnz is ON HOLD until ~~Paper Publication~~	+	The entry 7dnz is ON HOLD until Jun 11 2023

	Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.		Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.

OCA at 07:44, 21 July 2021

2021-07-21T07:44:29Z

←Older revision		Revision as of 07:44, 21 July 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7dnz is ON HOLD	+	The entry 7dnz is ON HOLD until Paper Publication

	Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.		Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.
Line 7:		Line 7:
	Description: Cryo-EM structure of the human ABCB6 (Hemin and GSH-bound)		Description: Cryo-EM structure of the human ABCB6 (Hemin and GSH-bound)
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
		+	[[Category: Kim, S]]
		+	[[Category: Kang, J.Y]]
	[[Category: Park, J.G]]		[[Category: Park, J.G]]
	[[Category: Jin, M.S]]		[[Category: Jin, M.S]]
Line 12:		Line 14:
	[[Category: Hong, S]]		[[Category: Hong, S]]
	[[Category: Lee, S.S]]		[[Category: Lee, S.S]]
-	[[Category: Kim, S]]
-	[[Category: Kang, J.Y]]
	[[Category: Kim, N.J]]		[[Category: Kim, N.J]]

OCA at 08:37, 7 July 2021

2021-07-07T08:37:31Z

←Older revision		Revision as of 08:37, 7 July 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7dnz is ON HOLD ~~until Paper Publication~~	+	The entry 7dnz is ON HOLD

	Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.		Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.
Line 7:		Line 7:
	Description: Cryo-EM structure of the human ABCB6 (Hemin and GSH-bound)		Description: Cryo-EM structure of the human ABCB6 (Hemin and GSH-bound)
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Kim, S]]
-	[[Category: Kang, J.Y]]
	[[Category: Park, J.G]]		[[Category: Park, J.G]]
	[[Category: Jin, M.S]]		[[Category: Jin, M.S]]
Line 14:		Line 12:
	[[Category: Hong, S]]		[[Category: Hong, S]]
	[[Category: Lee, S.S]]		[[Category: Lee, S.S]]
		+	[[Category: Kim, S]]
		+	[[Category: Kang, J.Y]]
	[[Category: Kim, N.J]]		[[Category: Kim, N.J]]

OCA at 09:06, 10 February 2021

2021-02-10T09:06:03Z

←Older revision		Revision as of 09:06, 10 February 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7dnz is ON HOLD	+	The entry 7dnz is ON HOLD until Paper Publication

	Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.		Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.

OCA: Protected "7dnz" [edit=sysop:move=sysop]

2020-12-16T11:09:27Z

Protected "7dnz" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:09, 16 December 2020

OCA: New page: '''Unreleased structure''' The entry 7dnz is ON HOLD Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S. Description: Cryo-EM struct...

2020-12-16T11:09:26Z

New page: '''Unreleased structure''' The entry 7dnz is ON HOLD Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S. Description: Cryo-EM struct...

New page

'''Unreleased structure'''

The entry 7dnz is ON HOLD

Authors: Kim, S., Lee, S.S., Park, J.G., Kim, J.W., Kim, S., Kim, N.J., Hong, S., Kang, J.Y., Jin, M.S.

Description: Cryo-EM structure of the human ABCB6 (Hemin and GSH-bound)
[[Category: Unreleased Structures]]
[[Category: Kim, S]]
[[Category: Kang, J.Y]]
[[Category: Park, J.G]]
[[Category: Jin, M.S]]
[[Category: Kim, J.W]]
[[Category: Hong, S]]
[[Category: Lee, S.S]]
[[Category: Kim, N.J]]