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.

5ce6

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 12:01, 14 June 2023

N-terminal domain of FACT complex subunit SPT16 from Cicer arietinum (chickpea)

Structural highlights

5ce6 is a 1 chain structure with sequence from Cicer arietinum. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

A0A182DWB2_CICAR Component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication and DNA repair. During transcription elongation the FACT complex acts as a histone chaperone that both destabilizes and restores nucleosomal structure. It facilitates the passage of RNA polymerase II and transcription by promoting the dissociation of one histone H2A-H2B dimer from the nucleosome, then subsequently promotes the reestablishment of the nucleosome following the passage of RNA polymerase II.[RuleBase:RU367052]

Publication Abstract from PubMed

The facilitates chromatin transcription (FACT) complex, a heterodimer of SSRP1 and Spt16 proteins, is an essential histone chaperone that transiently reorganizes nucleosomes during transcription, replication and repair. N-terminal domain of Spt16 subunit (Spt16N) is strictly conserved in all the known Spt16 orthologs. Genetic studies in yeast have revealed a partially redundant role of Spt16N for the FACT functionality. Here, we report the crystal structure of Spt16N from a plant origin (Spt16Nca, Cicer arietinum) and its comparisons with the known Spt16N structures from yeasts and human. The inter-domain angle in Spt16Nca is significantly different from that of the yeast and human Spt16N structures. Normal mode analysis and classical molecular dynamics simulations reveal inter-domain movement in Spt16Nca and later also shows conformational flexibility of the critical loops. Spt16Nca binds to histone H3/H4 complex, similar to its orthologs from yeast and human origins. Further, conservation of electrostatic surface potentials in Spt16N structures from evolutionary distinct domains of eukaryotes (plant, human and fungi) have provided the potential sites on Spt16N for histone interactions. The structural comparisons with M24 peptidases show that the hydrophobic pocket shielded by a flexible loop of C-terminal domain of Spt16N that may be functionally important.

Crystal structure and dynamics of Spt16N-domain of FACT complex from Cicer arietinum.,Are VN, Ghosh B, Kumar A, Gadre R, Makde RD Int J Biol Macromol. 2016 Mar 16;88:36-43. doi: 10.1016/j.ijbiomac.2016.03.029. PMID:26995613^[1]

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

References

↑ Are VN, Ghosh B, Kumar A, Gadre R, Makde RD. Crystal structure and dynamics of Spt16N-domain of FACT complex from Cicer arietinum. Int J Biol Macromol. 2016 Mar 16;88:36-43. doi: 10.1016/j.ijbiomac.2016.03.029. PMID:26995613 doi:http://dx.doi.org/10.1016/j.ijbiomac.2016.03.029

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/5ce6"

@@ Line 1: / Line 1: @@
 ==N-terminal domain of FACT complex subunit SPT16 from Cicer arietinum (chickpea)==
-<StructureSection load='5ce6' size='340' side='right' caption='[[5ce6]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+<StructureSection load='5ce6' size='340' side='right'caption='[[5ce6]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5ce6]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Cicar Cicar]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CE6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CE6 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5ce6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Cicer_arietinum Cicer arietinum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CE6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CE6 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">LOC101489759 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=3827 CICAR])</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=5ce6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ce6 OCA], [https://pdbe.org/5ce6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ce6 RCSB], [https://www.ebi.ac.uk/pdbsum/5ce6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ce6 ProSAT]</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=5ce6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ce6 OCA], [http://pdbe.org/5ce6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ce6 RCSB], [http://www.ebi.ac.uk/pdbsum/5ce6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ce6 ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/A0A182DWB2_CICAR A0A182DWB2_CICAR] Component of the FACT complex, a general chromatin factor that acts to reorganize nucleosomes. The FACT complex is involved in multiple processes that require DNA as a template such as mRNA elongation, DNA replication and DNA repair. During transcription elongation the FACT complex acts as a histone chaperone that both destabilizes and restores nucleosomal structure. It facilitates the passage of RNA polymerase II and transcription by promoting the dissociation of one histone H2A-H2B dimer from the nucleosome, then subsequently promotes the reestablishment of the nucleosome following the passage of RNA polymerase II.[RuleBase:RU367052]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 21: / Line 22: @@
 __TOC__
 </StructureSection>
-[[Category: Cicar]]
+[[Category: Cicer arietinum]]
-[[Category: Are, V N]]
+[[Category: Large Structures]]
-[[Category: Ghosh, B]]
+[[Category: Are VN]]
-[[Category: Kumar, A]]
+[[Category: Ghosh B]]
-[[Category: Makde, R]]
+[[Category: Kumar A]]
-[[Category: Fact complex]]
+[[Category: Makde R]]
-[[Category: H3-h4 binding]]
-[[Category: Histone chaperone]]
-[[Category: Spt16]]
-[[Category: Transcription]]

5ce6

From Proteopedia

Revision as of 12:01, 14 June 2023

N-terminal domain of FACT complex subunit SPT16 from Cicer arietinum (chickpea)

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox