2bml - Revision history

OCA at 13:45, 13 December 2023

2023-12-13T13:45:42Z

← Older revision		Revision as of 13:45, 13 December 2023
Line 3:		Line 3:
	<StructureSection load='2bml' size='340' side='right'caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2bml' size='340' side='right'caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus~~ pneumoniae~~" (klein 1884) weichselbaum 1886~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BML FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BML FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene>, <scene name='pdbligand=XED:DEXTROFLOXACINE'>XED</scene~~></td></tr>~~		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.6Å</td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</div></td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene>, <scene name='pdbligand=XED:DEXTROFLOXACINE'>XED</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </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=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [https://pdbe.org/2bml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [https://www.ebi.ac.uk/pdbsum/2bml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bml 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=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [https://pdbe.org/2bml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [https://www.ebi.ac.uk/pdbsum/2bml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bml ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[https://www.uniprot.org/uniprot/ALYS_STRPN ALYS_STRPN]] Autolysins are involved in some important biological processes such as cell separation, cell-wall turnover, competence for genetic transformation, formation of the flagella and sporulation. Autolysin strictly depends on the presence of choline-containing cell walls for activity.		[https://www.uniprot.org/uniprot/ALYS_STRPN ALYS_STRPN] Autolysins are involved in some important biological processes such as cell separation, cell-wall turnover, competence for genetic transformation, formation of the flagella and sporulation. Autolysin strictly depends on the presence of choline-containing cell walls for activity.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~N-acetylmuramoyl-L-alanine amidase~~]]		[[Category: Streptococcus pneumoniae]]
	[[Category: Fernandez-Tornero, C]]		[[Category: Fernandez-Tornero C]]
	[[Category: Garcia, E]]		[[Category: Garcia E]]
	[[Category: Gimenez-Gallego, G]]		[[Category: Gimenez-Gallego G]]
	[[Category: Lopez, R]]		[[Category: Lopez R]]
	[[Category: Pascual-Teresa~~, B D~~]]		[[Category: Pascual-Teresa BD]]
	[[Category: Romero, A]]		[[Category: Romero A]]
	~~[[Category: Cell wall attachment]]~~
	~~[[Category: Choline-binding domain]]~~
	~~[[Category: Ofloxacin-like antibiotic~~]]

OCA at 13:13, 24 November 2021

2021-11-24T13:13:12Z

← Older revision		Revision as of 13:13, 24 November 2021
Line 3:		Line 3:
	<StructureSection load='2bml' size='340' side='right'caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2bml' size='340' side='right'caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2BML FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BML FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene>, <scene name='pdbligand=XED:DEXTROFLOXACINE'>XED</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene>, <scene name='pdbligand=XED:DEXTROFLOXACINE'>XED</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</div></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </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=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [~~http~~://pdbe.org/2bml PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2bml PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2bml 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=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [https://pdbe.org/2bml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [https://www.ebi.ac.uk/pdbsum/2bml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bml ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[[~~http~~://www.uniprot.org/uniprot/ALYS_STRPN ALYS_STRPN]] Autolysins are involved in some important biological processes such as cell separation, cell-wall turnover, competence for genetic transformation, formation of the flagella and sporulation. Autolysin strictly depends on the presence of choline-containing cell walls for activity.		[[https://www.uniprot.org/uniprot/ALYS_STRPN ALYS_STRPN]] Autolysins are involved in some important biological processes such as cell separation, cell-wall turnover, competence for genetic transformation, formation of the flagella and sporulation. Autolysin strictly depends on the presence of choline-containing cell walls for activity.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 07:56, 19 February 2020

2020-02-19T07:56:12Z

← Older revision		Revision as of 07:56, 19 February 2020
Line 1:		Line 1:

	==Ofloxacin-like antibiotics inhibit pneumococcal cell wall degrading virulence factors==		==Ofloxacin-like antibiotics inhibit pneumococcal cell wall degrading virulence factors==
	<StructureSection load='2bml' size='340' side='right' caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2bml' size='340' side='right'caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BML FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BML FirstGlance]. <br>
Line 34:		Line 34:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: N-acetylmuramoyl-L-alanine amidase]]		[[Category: N-acetylmuramoyl-L-alanine amidase]]
	[[Category: Fernandez-Tornero, C]]		[[Category: Fernandez-Tornero, C]]

OCA at 06:15, 16 May 2018

2018-05-16T06:15:39Z

← Older revision		Revision as of 06:15, 16 May 2018
Line 1:		Line 1:
	==~~OFLOXACIN~~-~~LIKE ANTIBIOTICS INHIBIT PNEUMOCOCCAL CELL WALL DEGRADING VIRULENCE FACTORS~~==
			==Ofloxacin-like antibiotics inhibit pneumococcal cell wall degrading virulence factors==
	<StructureSection load='2bml' size='340' side='right' caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2bml' size='340' side='right' caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
Line 6:		Line 7:
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </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=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [http://pdbe.org/2bml PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [http://www.ebi.ac.uk/pdbsum/2bml PDBsum]</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=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [http://pdbe.org/2bml PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [http://www.ebi.ac.uk/pdbsum/2bml PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2bml ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 14:		Line 15:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bm/2bml_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bm/2bml_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 09:04, 9 February 2016

2016-02-09T09:04:39Z

← Older revision		Revision as of 09:04, 9 February 2016
Line 18:		Line 18:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2bml ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 20:42, 10 September 2015

2015-09-10T20:42:56Z

← Older revision		Revision as of 20:42, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2bml' size='340' side='right' caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>		<StructureSection load='2bml' size='340' side='right' caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Streptococcus_pneumoniae Streptococcus~~ pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BML FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"diplococcus_pneumoniae"_(klein_1884)_weichselbaum_1886 "diplococcus pneumoniae" (klein 1884) weichselbaum 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BML FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene>, <scene name='pdbligand=XED:DEXTROFLOXACINE'>XED</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene>, <scene name='pdbligand=XED:DEXTROFLOXACINE'>XED</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </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=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [http://www.ebi.ac.uk/pdbsum/2bml PDBsum]</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=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [http://pdbe.org/2bml PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [http://www.ebi.ac.uk/pdbsum/2bml PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 28:		Line 28:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
			<div class="pdbe-citations 2bml" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 33:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: N-acetylmuramoyl-L-alanine amidase]]		[[Category: N-acetylmuramoyl-L-alanine amidase]]
	~~[[Category: Streptococcus pneumoniae]]~~
	[[Category: Fernandez-Tornero, C]]		[[Category: Fernandez-Tornero, C]]
	[[Category: Garcia, E]]		[[Category: Garcia, E]]

OCA at 05:54, 25 December 2014

2014-12-25T05:54:02Z

← Older revision		Revision as of 05:54, 25 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BML FirstGlance]. <br>		<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BML FirstGlance]. <br>
	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene>, <scene name='pdbligand=XED:DEXTROFLOXACINE'>XED</scene><br>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene>, <scene name='pdbligand=XED:DEXTROFLOXACINE'>XED</scene></td></tr>
	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</td></tr>
	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </span></td></tr>
	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [http://www.ebi.ac.uk/pdbsum/2bml PDBsum]</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=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [http://www.ebi.ac.uk/pdbsum/2bml PDBsum]</span></td></tr>
	<table>		</table>
			== Function ==
			[[http://www.uniprot.org/uniprot/ALYS_STRPN ALYS_STRPN]] Autolysins are involved in some important biological processes such as cell separation, cell-wall turnover, competence for genetic transformation, formation of the flagella and sporulation. Autolysin strictly depends on the presence of choline-containing cell walls for activity.
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 32:		Line 34:
	[[Category: N-acetylmuramoyl-L-alanine amidase]]		[[Category: N-acetylmuramoyl-L-alanine amidase]]
	[[Category: Streptococcus pneumoniae]]		[[Category: Streptococcus pneumoniae]]
	[[Category: Fernandez-Tornero, C.]]		[[Category: Fernandez-Tornero, C]]
	[[Category: Garcia, E.]]		[[Category: Garcia, E]]
	[[Category: Gimenez-Gallego, G.]]		[[Category: Gimenez-Gallego, G]]
	[[Category: Lopez, R.]]		[[Category: Lopez, R]]
	[[Category: Pascual-Teresa, B D.]]		[[Category: Pascual-Teresa, B D]]
	[[Category: Romero, A.]]		[[Category: Romero, A]]
	[[Category: Cell wall attachment]]		[[Category: Cell wall attachment]]
	[[Category: Choline-binding domain]]		[[Category: Choline-binding domain]]
	[[Category: Ofloxacin-like antibiotic]]		[[Category: Ofloxacin-like antibiotic]]

OCA at 01:36, 30 September 2014

2014-09-30T01:36:38Z

← Older revision		Revision as of 01:36, 30 September 2014
Line 1:		Line 1:
	[[Image:~~2bml~~.~~png~~\|~~left~~\|~~200px~~]]		==OFLOXACIN-LIKE ANTIBIOTICS INHIBIT PNEUMOCOCCAL CELL WALL DEGRADING VIRULENCE FACTORS==
			<StructureSection load='2bml' size='340' side='right' caption='[[2bml]], [[Resolution\|resolution]] 2.60Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2bml]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BML FirstGlance]. <br>
			</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene>, <scene name='pdbligand=XED:DEXTROFLOXACINE'>XED</scene><br>
			<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1gvm\|1gvm]], [[1h8g\|1h8g]], [[1hcx\|1hcx]]</td></tr>
			<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/N-acetylmuramoyl-L-alanine_amidase N-acetylmuramoyl-L-alanine amidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.28 3.5.1.28] </span></td></tr>
			<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2bml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bml OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2bml RCSB], [http://www.ebi.ac.uk/pdbsum/2bml PDBsum]</span></td></tr>
			<table>
			== Evolutionary Conservation ==
			[[Image:Consurf_key_small.gif\|200px\|right]]
			Check<jmol>
			<jmolCheckbox>
			<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bm/2bml_consurf.spt"</scriptWhenChecked>
			<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
			<text>to colour the structure by Evolutionary Conservation</text>
			</jmolCheckbox>
			</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
			<div style="clear:both"></div>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The search for new drugs against Streptococcus pneumoniae (pneumococcus) is driven by the 1.5 million deaths it causes annually. Choline-binding proteins attach to the pneumococcal cell wall through domains that recognize choline moieties, and their involvement in pneumococcal virulence makes them potential targets for drug development. We have defined chemical criteria involved in the docking of small molecules from a three-dimensional structural library to the major pneumococcal autolysin (LytA) choline binding domain. These criteria were used to identify compounds that could interfere with the attachment of this protein to the cell wall, and several quinolones that fit this framework were found to inhibit the cell wall-degrading activity of LytA. Furthermore, these compounds produced similar effects on other enzymes with different catalytic activities but that contained a similar choline binding domain; that is, autolysin (LytC) and the phage lytic enzyme (Cpl-1). Finally, we resolved the crystal structure of the complex between the choline binding domain of LytA and ofloxacin at a resolution of 2.6 Angstroms. These data constitute an important launch pad from which effective drugs to combat pneumococcal infections can be developed.

	~~{{STRUCTURE_2bml\| PDB=2bml \| SCENE= }}~~		Ofloxacin-like antibiotics inhibit pneumococcal cell wall-degrading virulence factors.,Fernandez-Tornero C, Garcia E, de Pascual-Teresa B, Lopez R, Gimenez-Gallego G, Romero A J Biol Chem. 2005 May 20;280(20):19948-57. Epub 2005 Mar 15. PMID:15769740<ref>PMID:15769740</ref>

	~~===OFLOXACIN-LIKE ANTIBIOTICS INHIBIT PNEUMOCOCCAL CELL WALL DEGRADING VIRULENCE FACTORS===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_15769740}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[2bml]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2BML OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:015769740<~~/~~ref><ref group="xtra">PMID:011694890</ref~~><~~references group="xtra"~~/>
	[[Category: N-acetylmuramoyl-L-alanine amidase]]		[[Category: N-acetylmuramoyl-L-alanine amidase]]
	[[Category: Streptococcus pneumoniae]]		[[Category: Streptococcus pneumoniae]]

OCA at 12:18, 23 January 2013

2013-01-23T12:18:14Z

← Older revision		Revision as of 12:18, 23 January 2013
Line 1:		Line 1:
	[[Image:2bml.png\|left\|200px]]		[[Image:2bml.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2bml", creates the "Structure Box" on the page.~~
	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~
	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~
	~~or leave the SCENE parameter empty for the default display.~~
	~~-->~~
	{{STRUCTURE_2bml\| PDB=2bml \| SCENE= }}		{{STRUCTURE_2bml\| PDB=2bml \| SCENE= }}

	===OFLOXACIN-LIKE ANTIBIOTICS INHIBIT PNEUMOCOCCAL CELL WALL DEGRADING VIRULENCE FACTORS===		===OFLOXACIN-LIKE ANTIBIOTICS INHIBIT PNEUMOCOCCAL CELL WALL DEGRADING VIRULENCE FACTORS===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_15769740}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 15769740 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_15769740}}		{{ABSTRACT_PUBMED_15769740}}

Line 22:		Line 11:

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~15769740~~</ref><ref group="xtra">PMID:~~11694890~~</ref><references group="xtra"/>		<ref group="xtra">PMID:015769740</ref><ref group="xtra">PMID:011694890</ref><references group="xtra"/>
	[[Category: N-acetylmuramoyl-L-alanine amidase]]		[[Category: N-acetylmuramoyl-L-alanine amidase]]
	[[Category: Streptococcus pneumoniae]]		[[Category: Streptococcus pneumoniae]]

OCA: Protected "2bml" [edit=sysop:move=sysop]

2011-03-14T21:31:34Z

Protected "2bml" [edit=sysop:move=sysop]

← Older revision	Revision as of 21:31, 14 March 2011
(No difference)