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.
2owo
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 2owo |SIZE=350|CAPTION= <scene name='initialview01'>2owo</scene>, resolution 2.300Å | |PDB= 2owo |SIZE=350|CAPTION= <scene name='initialview01'>2owo</scene>, resolution 2.300Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</scene>, <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=OMC:O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE'>OMC</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/DNA_ligase_(NAD(+)) DNA ligase (NAD(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.2 6.5.1.2] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_ligase_(NAD(+)) DNA ligase (NAD(+))], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.5.1.2 6.5.1.2] </span> |
|GENE= ligA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | |GENE= ligA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2owo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2owo OCA], [http://www.ebi.ac.uk/pdbsum/2owo PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2owo RCSB]</span> | ||
}} | }} | ||
| Line 26: | Line 29: | ||
[[Category: Nandakumar, J.]] | [[Category: Nandakumar, J.]] | ||
[[Category: Shuman, S.]] | [[Category: Shuman, S.]] | ||
| - | [[Category: AMP]] | ||
| - | [[Category: SO4]] | ||
| - | [[Category: ZN]] | ||
[[Category: dna]] | [[Category: dna]] | ||
[[Category: ligase]] | [[Category: ligase]] | ||
[[Category: protein/dna complex]] | [[Category: protein/dna complex]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:24:15 2008'' |
Revision as of 01:24, 31 March 2008
| |||||||
| , resolution 2.300Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , , , , | ||||||
| Gene: | ligA (Escherichia coli) | ||||||
| Activity: | DNA ligase (NAD(+)), with EC number 6.5.1.2 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Last Stop on the Road to Repair: Structure of E.coli DNA Ligase Bound to Nicked DNA-Adenylate
Overview
NAD(+)-dependent DNA ligases (LigA) are ubiquitous in bacteria and essential for growth. Their distinctive substrate specificity and domain organization vis-a-vis human ATP-dependent ligases make them outstanding targets for anti-infective drug discovery. We report here the 2.3 A crystal structure of Escherichia coli LigA bound to an adenylylated nick, which captures LigA in a state poised for strand closure and reveals the basis for nick recognition. LigA envelopes the DNA within a protein clamp. Large protein domain movements and remodeling of the active site orchestrate progression through the three chemical steps of the ligation reaction. The structure inspires a strategy for inhibitor design.
About this Structure
2OWO is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.
Reference
Last stop on the road to repair: structure of E. coli DNA ligase bound to nicked DNA-adenylate., Nandakumar J, Nair PA, Shuman S, Mol Cell. 2007 Apr 27;26(2):257-71. PMID:17466627
Page seeded by OCA on Mon Mar 31 04:24:15 2008
