This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


6oqt

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:25, 20 March 2024) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
-
==E. coli ATP synthase State 1C==
+
==E. coli ATP synthase State 1c==
-
<StructureSection load='6oqt' size='340' side='right'caption='[[6oqt]], [[Resolution|resolution]] 3.30&Aring;' scene=''>
+
<StructureSection load='6oqt' size='340' side='right'caption='[[6oqt]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[6oqt]] is a 22 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OQT OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OQT FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[6oqt]] is a 22 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=6OQT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6OQT FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 3.1&#8491;</td></tr>
-
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">atpH ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), atpA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), atpF ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), atpC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), atpG ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), atpD, CDCO157_4410 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), atpE, ECJG_03465 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895]), atpB, A6581_09625, A8C65_04635, A8G17_13205, A9819_21465, AC789_1c41260, ACN002_3840, ACN77_20010, ACN81_06510, ACU57_03300, ACU90_00315, AKG99_01200, AM464_11965, AMK83_17435, AML07_02005, AML35_23925, APZ14_19970, AU473_02230, AUQ13_19445, AUS26_01135, AW059_18665, AW106_23235, B1K96_28785, B7C53_19560, BANRA_02401, BANRA_03128, BANRA_03214, BANRA_04536, BANRA_04611, BB545_21600, BHF46_03220, BHS81_22305, BIZ41_19310, BK292_20055, BK400_00980, BMT53_14990, BMT91_10650, BN17_36921, BTQ04_25560, BTQ06_19305, BUE81_18230, BVL39_06790, BW690_12705, BWP17_17405, BZL31_21415, C2U48_14255, C4J69_12205, C5N07_23075, C5P01_14375, C5P43_18495, C5P44_14015, C6669_08960, C7235_25075, C7B02_15545, C7B06_18115, C7B07_18555, CA593_07300, CG691_14695, CG692_21460, CG705_13230, CG706_05505, COD30_14545, COD46_05110, CR538_25535, CR539_00375, CRD98_06365, CRE06_22220, CRM83_19985, CV83915_02325, CVH05_22810, CWS33_22485, D0X26_21590, D2F89_18645, D3821_26125, D3I61_22220, D6Z21_17295, D7K63_14130, D8K42_12760, D9D20_15080, D9D23_18435, D9D65_17115, D9D69_04800, D9D77_23770, D9E35_19420, D9F57_04785, D9G42_23250, D9H12_19550, D9H53_20710, D9H66_14770, D9H68_12120, D9H70_07975, D9H84_13135, D9I18_08055, D9I52_22315, D9I93_11990, D9J11_15870, D9J44_15620, D9J48_14640, D9K10_12565, DIV22_14605, DL800_26315, DL925_10465, DLU27_05670, DM262_10125, DMI41_02740, DNQ45_04220, DOT75_06920, DP258_23940, DP277_10610, DQF57_16240, DS732_00235, DTL43_15450, DTL90_16085, DV750_19840, E2855_04743, EAI42_11905, EAI44_10320, EAI52_06435, EB510_22250, EB553_22600, EB569_11805, EB595_21530, EC1094V2_4559, EC3234A_68c00800, EC95NR1_03180, ECs4680, ED060_20795, ED098_20360, ED124_20405, ED133_14365, ED287_08070, ED600_20035, ED648_17305, ED653_18700, ED658_09750, ED944_14625, EEP03_14120, EEP23_14845, EF364_23525, EFV06_19295, EIA21_14165, EL75_4432, EL79_4683, EL80_4591, ERS085374_04660, ERS085379_02386, ERS085383_02615, ERS085386_04244, ERS085404_04407, ERS150876_04315, FORC28_6046, GJ11_23870, HW43_00205, JD73_04915, NCTC10090_03054, NCTC10418_07533, NCTC10429_00459, NCTC10444_05020, NCTC11022_03985, NCTC11126_01888, NCTC11181_02279, NCTC13125_03147, NCTC13127_06463, NCTC13462_03577, NCTC7152_05030, NCTC8179_05398, NCTC8622_01220, NCTC8960_02611, NCTC9036_04909, NCTC9037_05079, NCTC9045_05855, NCTC9054_05546, NCTC9055_01929, NCTC9058_01885, NCTC9062_03146, NCTC9073_06659, NCTC9111_05225, NCTC9117_06282, NCTC9119_05322, NCTC9701_05266, NCTC9703_04488, NCTC9706_02267, NCTC9969_05235, PU06_21025, RG28_23995, RK56_018685, RX35_03591, SAMEA3472044_00548, SAMEA3472047_02992, SAMEA3472055_04839, SAMEA3472056_03685, SAMEA3472067_04030, SAMEA3472070_05212, SAMEA3472080_03392, SAMEA3472108_02423, SAMEA3472114_05011, SAMEA3472147_03706, SAMEA3484427_03569, SAMEA3484429_03570, SAMEA3484433_04143, SAMEA3485101_04107, SAMEA3752557_01245, SAMEA3752559_04742, SAMEA3753064_05400, SAMEA3753097_00985, SAMEA3753290_05396, SAMEA3753300_04372, SAMEA3753397_02464, SK85_04068, UN86_05680, UN91_09915, WQ89_11300, WR15_16550 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 "Bacillus coli" Migula 1895])</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ATP:ADENOSINE-5-TRIPHOSPHATE'>ATP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/H(+)-transporting_two-sector_ATPase H(+)-transporting two-sector ATPase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=7.1.2.2 7.1.2.2] </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=6oqt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oqt OCA], [https://pdbe.org/6oqt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6oqt RCSB], [https://www.ebi.ac.uk/pdbsum/6oqt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6oqt 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=6oqt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6oqt OCA], [http://pdbe.org/6oqt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6oqt RCSB], [http://www.ebi.ac.uk/pdbsum/6oqt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6oqt ProSAT]</span></td></tr>
+
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/A0A073FPT7_ECOLX A0A073FPT7_ECOLX]] Component of the F(0) channel, it forms part of the peripheral stalk, linking F(1) to F(0).[HAMAP-Rule:MF_01398][SAAS:SAAS00535352] F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation.[HAMAP-Rule:MF_01398][SAAS:SAAS00002149] [[http://www.uniprot.org/uniprot/F4TL55_ECOLX F4TL55_ECOLX]] F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation.[HAMAP-Rule:MF_01396] Key component of the F(0) channel; it plays a direct role in translocation across the membrane. A homomeric c-ring of between 10-14 subunits forms the central stalk rotor element with the F(1) delta and epsilon subunits.[HAMAP-Rule:MF_01396] [[http://www.uniprot.org/uniprot/A0A073FQ32_ECOLX A0A073FQ32_ECOLX]] Produces ATP from ADP in the presence of a proton gradient across the membrane. The alpha chain is a regulatory subunit.[HAMAP-Rule:MF_01346] [[http://www.uniprot.org/uniprot/C3SL77_ECOLX C3SL77_ECOLX]] Key component of the proton channel; it plays a direct role in the translocation of protons across the membrane.[HAMAP-Rule:MF_01393][RuleBase:RU000483] [[http://www.uniprot.org/uniprot/V0ZA15_ECOLX V0ZA15_ECOLX]] F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation.[HAMAP-Rule:MF_01416] This protein is part of the stalk that links CF(0) to CF(1). It either transmits conformational changes from CF(0) to CF(1) or is implicated in proton conduction.[HAMAP-Rule:MF_01416] [[http://www.uniprot.org/uniprot/A0A4V1DSB5_ECOLX A0A4V1DSB5_ECOLX]] Produces ATP from ADP in the presence of a proton gradient across the membrane.[HAMAP-Rule:MF_00530][SAAS:SAAS00872986] [[http://www.uniprot.org/uniprot/J7RYJ3_ECOLX J7RYJ3_ECOLX]] Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is believed to be important in regulating ATPase activity and the flow of protons through the CF(0) complex.[HAMAP-Rule:MF_00815][SAAS:SAAS00725627]
+
[https://www.uniprot.org/uniprot/ATPD_ECOLI ATPD_ECOLI] F(1)F(0) ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F(1) containing the extramembraneous catalytic core and F(0) containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F(1) is coupled via a rotary mechanism of the central stalk subunits to proton translocation.[HAMAP-Rule:MF_01416] This protein is part of the stalk that links CF(0) to CF(1). It either transmits conformational changes from CF(0) to CF(1) or is implicated in proton conduction.[HAMAP-Rule:MF_01416]
-
<div style="background-color:#fffaf0;">
+
-
== Publication Abstract from PubMed ==
+
-
F1Fo ATP synthase functions as a biological rotary generator that makes a major contribution to cellular energy production. It comprises two molecular motors coupled together by a central and a peripheral stalk. Proton flow through the Fo motor generates rotation of the central stalk, inducing conformational changes in the F1 motor that catalyzes ATP production. Here we present nine cryo-EM structures of E. coli ATP synthase to 3.1-3.4 A resolution, in four discrete rotational sub-states, which provide a comprehensive structural model for this widely studied bacterial molecular machine. We observe torsional flexing of the entire complex and a rotational sub-step of Fo associated with long-range conformational changes that indicates how this flexibility accommodates the mismatch between the 3- and 10-fold symmetries of the F1 and Fo motors. We also identify density likely corresponding to lipid molecules that may contribute to the rotor/stator interaction within the Fo motor.
+
-
Cryo-EM structures provide insight into how E. coli F1Fo ATP synthase accommodates symmetry mismatch.,Sobti M, Walshe JL, Wu D, Ishmukhametov R, Zeng YC, Robinson CV, Berry RM, Stewart AG Nat Commun. 2020 May 26;11(1):2615. doi: 10.1038/s41467-020-16387-2. PMID:32457314<ref>PMID:32457314</ref>
+
==See Also==
-
 
+
*[[ATPase 3D structures|ATPase 3D structures]]
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 6oqt" style="background-color:#fffaf0;"></div>
+
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Bacillus coli migula 1895]]
+
[[Category: Escherichia coli]]
[[Category: Large Structures]]
[[Category: Large Structures]]
-
[[Category: Sobti, M]]
+
[[Category: Sobti M]]
-
[[Category: Stewart, A G]]
+
[[Category: Stewart AG]]
-
[[Category: Walshe, J W]]
+
[[Category: Walshe JL]]
-
[[Category: Atpase]]
+
-
[[Category: E coli atp synthase]]
+
-
[[Category: Ion channel]]
+
-
[[Category: Membrane protein]]
+

Current revision

E. coli ATP synthase State 1c

PDB ID 6oqt

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6oqt"
Personal tools