1zm5
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 1zm5 |SIZE=350|CAPTION= <scene name='initialview01'>1zm5</scene>, resolution 2.50Å | |PDB= 1zm5 |SIZE=350|CAPTION= <scene name='initialview01'>1zm5</scene>, resolution 2.50Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</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=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1qx0|1qx0]], [[1omh|1omh]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1zm5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zm5 OCA], [http://www.ebi.ac.uk/pdbsum/1zm5 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1zm5 RCSB]</span> | ||
}} | }} | ||
| Line 29: | Line 32: | ||
[[Category: Lucas, M.]] | [[Category: Lucas, M.]] | ||
[[Category: Russi, S.]] | [[Category: Russi, S.]] | ||
| - | [[Category: CU]] | ||
| - | [[Category: SO4]] | ||
[[Category: bacterial conjugation]] | [[Category: bacterial conjugation]] | ||
[[Category: dna]] | [[Category: dna]] | ||
| Line 36: | Line 37: | ||
[[Category: relaxase]] | [[Category: relaxase]] | ||
| - | ''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 01:38:38 2008'' |
Revision as of 22:38, 30 March 2008
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| , resolution 2.50Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , , , | ||||||
| Related: | 1qx0, 1omh
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Conjugative Relaxase TRWC in complex with ORIT dna, cooper-bound structure
Overview
TrwC is a DNA strand transferase that catalyzes the initial and final stages of conjugative DNA transfer. We have solved the crystal structure of the N-terminal relaxase domain of TrwC in complex with a 27 base-long DNA oligonucleotide that contains both the recognition hairpin and the scissile phosphate. In addition, a series of ternary structures of protein-DNA complexes with different divalent cations at the active site have been solved. Systematic anomalous difference analysis allowed us to determine unambiguously the nature of the metal bound. Zn2+, Ni2+ and Cu2+ were found to bind the histidine-triad metal binding site. Comparison of the structures of the different complexes suggests two pathways for the DNA to exit the active pocket. They are probably used at different steps of the conjugative DNA-processing reaction. The structural information allows us to propose (i) an enzyme mechanism where the scissile phosphate is polarized by the metal ion facilitating the nucleophilic attack of the catalytic tyrosine, and (ii) a probable sequence of events during conjugative DNA processing that explains the biological function of the relaxase.
About this Structure
1ZM5 is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.
Reference
Unveiling the molecular mechanism of a conjugative relaxase: The structure of TrwC complexed with a 27-mer DNA comprising the recognition hairpin and the cleavage site., Boer R, Russi S, Guasch A, Lucas M, Blanco AG, Perez-Luque R, Coll M, de la Cruz F, J Mol Biol. 2006 May 5;358(3):857-69. Epub 2006 Feb 28. PMID:16540117
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