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.
1ql0
From Proteopedia
| Line 1: | Line 1: | ||
| - | [[Image:1ql0.jpg|left|200px]] | + | [[Image:1ql0.jpg|left|200px]] |
| - | + | ||
| - | '''SM ENDONUCLEASE FROM SERATIA MARCENSCENS AT ATOMIC RESOLUTION''' | + | {{Structure |
| + | |PDB= 1ql0 |SIZE=350|CAPTION= <scene name='initialview01'>1ql0</scene>, resolution 1.1Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=MG:MAGNESIUM ION'>MG</scene> | ||
| + | |ACTIVITY= [http://en.wikipedia.org/wiki/Serratia_marcescens_nuclease Serratia marcescens nuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.30.2 3.1.30.2] | ||
| + | |GENE= | ||
| + | }} | ||
| + | |||
| + | '''SM ENDONUCLEASE FROM SERATIA MARCENSCENS AT ATOMIC RESOLUTION''' | ||
| + | |||
==Overview== | ==Overview== | ||
| Line 7: | Line 16: | ||
==About this Structure== | ==About this Structure== | ||
| - | 1QL0 is a [ | + | 1QL0 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Serratia_marcescens Serratia marcescens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1QL0 OCA]. |
==Reference== | ==Reference== | ||
| - | Atomic structure of the Serratia marcescens endonuclease at 1.1 A resolution and the enzyme reaction mechanism., Shlyapnikov SV, Lunin VV, Perbandt M, Polyakov KM, Lunin VY, Levdikov VM, Betzel C, Mikhailov AM, Acta Crystallogr D Biol Crystallogr. 2000 May;56(Pt 5):567-72. PMID:[http:// | + | Atomic structure of the Serratia marcescens endonuclease at 1.1 A resolution and the enzyme reaction mechanism., Shlyapnikov SV, Lunin VV, Perbandt M, Polyakov KM, Lunin VY, Levdikov VM, Betzel C, Mikhailov AM, Acta Crystallogr D Biol Crystallogr. 2000 May;56(Pt 5):567-72. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10771425 10771425] |
[[Category: Serratia marcescens]] | [[Category: Serratia marcescens]] | ||
[[Category: Serratia marcescens nuclease]] | [[Category: Serratia marcescens nuclease]] | ||
| Line 24: | Line 33: | ||
[[Category: signal]] | [[Category: signal]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 13:39:04 2008'' |
Revision as of 11:39, 20 March 2008
| |||||||
| , resolution 1.1Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | |||||||
| Activity: | Serratia marcescens nuclease, with EC number 3.1.30.2 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
SM ENDONUCLEASE FROM SERATIA MARCENSCENS AT ATOMIC RESOLUTION
Overview
The three-dimensional crystal structure of Serratia marcescens endonuclease has been refined at 1.1 A resolution to an R factor of 12.9% and an R(free) of 15.6% with the use of anisotropic temperature factors. The model contains 3694 non-H atoms, 715 water molecules, four sulfate ions and two Mg(2+)-binding sites at the active sites of the homodimeric protein. It is shown that the magnesium ion linked to the active-site Asn119 of each monomer is surrounded by five water molecules and shows an octahedral coordination geometry. The temperature factors for the bound Mg(2+) ions in the A and B subunits are 7.08 and 4.60 A(2), respectively, and the average temperature factors for the surrounding water molecules are 12.13 and 10.3 A(2), respectively. In comparison with earlier structures, alternative side-chain conformations are defined for 51 residues of the dimer, including the essential active-site residue Arg57. A plausible mechanism of enzyme function is proposed based on the high-resolution S. marcescens nuclease structure, the functional characteristics of the natural and mutational forms of the enzyme and consideration of its structural analogy with homing endo-nuclease I-PpoI.
About this Structure
1QL0 is a Single protein structure of sequence from Serratia marcescens. Full crystallographic information is available from OCA.
Reference
Atomic structure of the Serratia marcescens endonuclease at 1.1 A resolution and the enzyme reaction mechanism., Shlyapnikov SV, Lunin VV, Perbandt M, Polyakov KM, Lunin VY, Levdikov VM, Betzel C, Mikhailov AM, Acta Crystallogr D Biol Crystallogr. 2000 May;56(Pt 5):567-72. PMID:10771425
Page seeded by OCA on Thu Mar 20 13:39:04 2008
