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5kgr

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Revision as of 15:24, 8 July 2020

Spin-Labeled T4 Lysozyme Construct I9V1/V131V1 (30 days)

Structural highlights

5kgr is a 1 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , ,
Related:	5jgn, 5jgr, 5jgu, 5jgv, 5jgx, 5jgz
Activity:	Lysozyme, with EC number 3.2.1.17
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[ENLYS_BPT4] Endolysin with lysozyme activity that degrades host peptidoglycans and participates with the holin and spanin proteins in the sequential events which lead to the programmed host cell lysis releasing the mature viral particles. Once the holin has permeabilized the host cell membrane, the endolysin can reach the periplasm and break down the peptidoglycan layer.^[1]

Publication Abstract from PubMed

Pulsed electron paramagnetic resonance experiments can measure individual distances between two spin-labeled side chains in proteins in the range of approximately 1.5-8 nm. However, the flexibility of traditional spin-labeled side chains leads to diffuse spin density loci and thus distance distributions with relatively broad peaks, thereby complicating the interpretation of protein conformational states. Here we analyzed the spin-labeled V1 side chain, which is internally anchored and hence less flexible. Crystal structures of V1-labeled T4 lysozyme constructs carrying the V1 side chain on alpha-helical segments suggest that V1 side chains adopt only a few discrete rotamers. In most cases, only one rotamer is observed at a given site, explaining the frequently observed narrow distance distribution for doubly V1-labeled proteins. We used the present data to derive guidelines that may allow distance interpretation of other V1-labeled proteins for higher-precision structural modeling.

Toward Precise Interpretation of DEER-Based Distance Distributions: Insights from Structural Characterization of V1 Spin-Labeled Side Chains.,Balo AR, Feyrer H, Ernst OP Biochemistry. 2016 Sep 20;55(37):5256-63. doi: 10.1021/acs.biochem.6b00608. Epub , 2016 Sep 2. PMID:27532325^[2]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Moussa SH, Kuznetsov V, Tran TA, Sacchettini JC, Young R. Protein determinants of phage T4 lysis inhibition. Protein Sci. 2012 Apr;21(4):571-82. doi: 10.1002/pro.2042. Epub 2012 Mar 2. PMID:22389108 doi:http://dx.doi.org/10.1002/pro.2042
↑ Balo AR, Feyrer H, Ernst OP. Toward Precise Interpretation of DEER-Based Distance Distributions: Insights from Structural Characterization of V1 Spin-Labeled Side Chains. Biochemistry. 2016 Sep 20;55(37):5256-63. doi: 10.1021/acs.biochem.6b00608. Epub , 2016 Sep 2. PMID:27532325 doi:http://dx.doi.org/10.1021/acs.biochem.6b00608

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5kgr"

@@ Line 1: / Line 1: @@
 ==Spin-Labeled T4 Lysozyme Construct I9V1/V131V1 (30 days)==
-<StructureSection load='5kgr' size='340' side='right' caption='[[5kgr]], [[Resolution|resolution]] 1.47&Aring;' scene=''>
+<StructureSection load='5kgr' size='340' side='right'caption='[[5kgr]], [[Resolution|resolution]] 1.47&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5kgr]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KGR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KGR FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5kgr]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KGR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5KGR FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEZ:HEXANE-1,6-DIOL'>HEZ</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=V1A:S-(1-OXYL-2,2,5,5-TETRAMETHYL-2,5-DIHYDRO-1H-IMIDAZOL-4-YL)+METHANESULFONOTHIOATE'>V1A</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=HEZ:HEXANE-1,6-DIOL'>HEZ</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=V1A:S-(1-OXYL-2,2,5,5-TETRAMETHYL-2,5-DIHYDRO-1H-IMIDAZOL-4-YL)+METHANESULFONOTHIOATE'>V1A</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5jgn|5jgn]], [[5jgr|5jgr]], [[5jgu|5jgu]], [[5jgv|5jgv]], [[5jgx|5jgx]], [[5jgz|5jgz]]</td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=5kgr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kgr OCA], [http://pdbe.org/5kgr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kgr RCSB], [http://www.ebi.ac.uk/pdbsum/5kgr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kgr 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=5kgr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kgr OCA], [http://pdbe.org/5kgr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kgr RCSB], [http://www.ebi.ac.uk/pdbsum/5kgr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kgr ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 24: / Line 24: @@
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Lysozyme]]
 [[Category: Balo, A R]]

5kgr

From Proteopedia

Revision as of 15:24, 8 July 2020

Spin-Labeled T4 Lysozyme Construct I9V1/V131V1 (30 days)

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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