6q3t

From Proteopedia

(Difference between revisions)

Current revision

Structure of Protease1 from Pyrococcus horikoshii at room temperature in ChipX microfluidic device

Structural highlights

6q3t is a 3 chain structure with sequence from Pyrococcus horikoshii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.15Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

DEGLY_PYRHO Deglycase that catalyzes the deglycation of the Maillard adducts formed between amino groups of proteins and reactive carbonyl groups of glyoxals. Thus, functions as a protein deglycase that repairs methylglyoxal- and glyoxal-glycated proteins, and releases repaired proteins and lactate or glycolate, respectively. Deglycates cysteine, arginine and lysine residues in proteins, and thus reactivates these proteins by reversing glycation by glyoxals. Acts on early glycation intermediates (hemithioacetals and aminocarbinols), preventing the formation of advanced glycation endproducts (AGE) that cause irreversible damage (By similarity). Also displays proteolytic activity (PubMed:11114201).[UniProtKB:Q51732]^[1]

Publication Abstract from PubMed

Determining optimal conditions for the production of well diffracting crystals is a key step in every biocrystallography project. Here, a microfluidic device is described that enables the production of crystals by counter-diffusion and their direct on-chip analysis by serial crystallography at room temperature. Nine 'non-model' and diverse biomacromolecules, including seven soluble proteins, a membrane protein and an RNA duplex, were crystallized and treated on-chip with a variety of standard techniques including micro-seeding, crystal soaking with ligands and crystal detection by fluorescence. Furthermore, the crystal structures of four proteins and an RNA were determined based on serial data collected on four synchrotron beamlines, demonstrating the general applicability of this multipurpose chip concept.

A simple and versatile microfluidic device for efficient biomacromolecule crystallization and structural analysis by serial crystallography.,de Wijn R, Hennig O, Roche J, Engilberge S, Rollet K, Fernandez-Millan P, Brillet K, Betat H, Morl M, Roussel A, Girard E, Mueller-Dieckmann C, Fox GC, Olieric V, Gavira JA, Lorber B, Sauter C IUCrJ. 2019 Apr 19;6(Pt 3):454-464. doi: 10.1107/S2052252519003622. eCollection, 2019 May 1. PMID:31098026^[2]

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

References

↑ Du X, Choi IG, Kim R, Wang W, Jancarik J, Yokota H, Kim SH. Crystal structure of an intracellular protease from Pyrococcus horikoshii at 2-A resolution. Proc Natl Acad Sci U S A. 2000 Dec 19;97(26):14079-84. PMID:11114201 doi:10.1073/pnas.260503597
↑ de Wijn R, Hennig O, Roche J, Engilberge S, Rollet K, Fernandez-Millan P, Brillet K, Betat H, Morl M, Roussel A, Girard E, Mueller-Dieckmann C, Fox GC, Olieric V, Gavira JA, Lorber B, Sauter C. A simple and versatile microfluidic device for efficient biomacromolecule crystallization and structural analysis by serial crystallography. IUCrJ. 2019 Apr 19;6(Pt 3):454-464. doi: 10.1107/S2052252519003622. eCollection, 2019 May 1. PMID:31098026 doi:http://dx.doi.org/10.1107/S2052252519003622

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/6q3t"

@@ Line 3: / Line 3: @@
 <StructureSection load='6q3t' size='340' side='right'caption='[[6q3t]], [[Resolution|resolution]] 2.15&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6q3t]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43587 Atcc 43587]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q3T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6Q3T FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6q3t]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q3T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6Q3T FirstGlance]. <br>
-</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=6q3t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q3t OCA], [http://pdbe.org/6q3t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6q3t RCSB], [http://www.ebi.ac.uk/pdbsum/6q3t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6q3t ProSAT]</span></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]] 2.15&#8491;</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=6q3t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q3t OCA], [https://pdbe.org/6q3t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6q3t RCSB], [https://www.ebi.ac.uk/pdbsum/6q3t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6q3t ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/DEGLY_PYRHO DEGLY_PYRHO] Deglycase that catalyzes the deglycation of the Maillard adducts formed between amino groups of proteins and reactive carbonyl groups of glyoxals. Thus, functions as a protein deglycase that repairs methylglyoxal- and glyoxal-glycated proteins, and releases repaired proteins and lactate or glycolate, respectively. Deglycates cysteine, arginine and lysine residues in proteins, and thus reactivates these proteins by reversing glycation by glyoxals. Acts on early glycation intermediates (hemithioacetals and aminocarbinols), preventing the formation of advanced glycation endproducts (AGE) that cause irreversible damage (By similarity). Also displays proteolytic activity (PubMed:11114201).[UniProtKB:Q51732]<ref>PMID:11114201</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 19: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Atcc 43587]]
 [[Category: Large Structures]]
-[[Category: Engilberge, S]]
+[[Category: Pyrococcus horikoshii]]
-[[Category: Girard, E]]
+[[Category: Engilberge S]]
-[[Category: Olieric, V]]
+[[Category: Girard E]]
-[[Category: Sauter, C]]
+[[Category: Olieric V]]
-[[Category: Wijn, R de]]
+[[Category: Sauter C]]
-[[Category: Chipx]]
+[[Category: De Wijn R]]
-[[Category: Counterdiffusion]]
-[[Category: Crystallophore]]
-[[Category: Hydrolase]]
-[[Category: Nucleation]]
-[[Category: Room temperature]]
-[[Category: Xo4]]

6q3t

From Proteopedia

Current revision

Structure of Protease1 from Pyrococcus horikoshii at room temperature in ChipX microfluidic device

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox