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.

5ybd

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 09:15, 21 October 2020

X-ray structure of ETS domain of Ergp55 in complex with E74DNA

Structural highlights

5ybd is a 6 chain structure. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Disease

[ERG_HUMAN] Defects in ERG are a cause of Ewing sarcoma (ES) [MIM:612219]. A highly malignant, metastatic, primitive small round cell tumor of bone and soft tissue that affects children and adolescents. It belongs to the Ewing sarcoma family of tumors, a group of morphologically heterogeneous neoplasms that share the same cytogenetic features. They are considered neural tumors derived from cells of the neural crest. Ewing sarcoma represents the less differentiated form of the tumors. Note=A chromosomal aberration involving ERG is found in patients with Erwing sarcoma. Translocation t(21;22)(q22;q12) with EWSR1. Note=Chromosomal aberrations involving ERG have been found in acute myeloid leukemia (AML). Translocation t(16;21)(p11;q22) with FUS. Translocation t(X;21)(q25-26;q22) with ELF4.

Function

[ERG_HUMAN] Transcriptional regulator. May participate in transcriptional regulation through the recruitment of SETDB1 histone methyltransferase and subsequent modification of local chromatin structure.

Publication Abstract from PubMed

ERG3 (ETS-related gene) is a member of the ETS (erythroblast transformation-specific) family of transcription factors, which contain a highly conserved DNA-binding domain. The ETS family of transcription factors differ in their binding to promoter DNA sequences, and the mechanism of their DNA-sequence discrimination is little known. In the current study, crystals of the ETSi domain (the ETS domain of ERG3 containing a CID motif) in space group P41212 and of its complex with the E74 DNA sequence (DNA9) in space group C2221 were obtained and their structures were determined. Comparative structure analysis of the ETSi domain and its complex with DNA9 with previously determined structures of the ERGi domain (the ETS domain of ERG containing inhibitory motifs) in space group P65212 and of the ERGi-DNA12 complex in space group P41212 were performed. The ETSi domain is observed as a homodimer in solution as well as in the crystallographic asymmetric unit. Superposition of the structure of the ETSi domain on that of the ERGi domain showed a major conformational change at the C-terminal DNA-binding autoinhibitory (CID) motif, while minor changes are observed in the loop regions of the ETSi-domain structure. The ETSi-DNA9 complex in space group C2221 forms a structure that is quite similar to that of the ERG-DNA12 complex in space group P41212. Upon superposition of the complexes, major conformational changes are observed at the 5' and 3' ends of DNA9, while the conformation of the core GGA nucleotides was quite conserved. Comparison of the ETSi-DNA9 structure with known structures of ETS class 1 protein-DNA complexes shows the similarities and differences in the promoter DNA binding and specificity of the class 1 ETS proteins.

Comparative structure analysis of the ETSi domain of ERG3 and its complex with the E74 promoter DNA sequence.,Sharma R, Gangwar SP, Saxena AK Acta Crystallogr F Struct Biol Commun. 2018 Oct 1;74(Pt 10):656-663. doi:, 10.1107/S2053230X1801110X. Epub 2018 Sep 21. PMID:30279318^[1]

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

References

↑ Sharma R, Gangwar SP, Saxena AK. Comparative structure analysis of the ETSi domain of ERG3 and its complex with the E74 promoter DNA sequence. Acta Crystallogr F Struct Biol Commun. 2018 Oct 1;74(Pt 10):656-663. doi:, 10.1107/S2053230X1801110X. Epub 2018 Sep 21. PMID:30279318 doi:http://dx.doi.org/10.1107/S2053230X1801110X

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

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

@@ Line 1: / Line 1: @@
 ==X-ray structure of ETS domain of Ergp55 in complex with E74DNA==
-<StructureSection load='5ybd' size='340' side='right' caption='[[5ybd]], [[Resolution|resolution]] 2.77&Aring;' scene=''>
+<StructureSection load='5ybd' size='340' side='right'caption='[[5ybd]], [[Resolution|resolution]] 2.77&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5ybd]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YBD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YBD FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5ybd]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YBD OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5YBD 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=5ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ybd OCA], [http://pdbe.org/5ybd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ybd RCSB], [http://www.ebi.ac.uk/pdbsum/5ybd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ybd ProSAT]</span></td></tr>
+</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=5ybd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ybd OCA], [http://pdbe.org/5ybd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ybd RCSB], [http://www.ebi.ac.uk/pdbsum/5ybd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ybd ProSAT]</span></td></tr>
 </table>
 == Disease ==
@@ Line 23: / Line 23: @@
 __TOC__
 </StructureSection>
+[[Category: Large Structures]]
 [[Category: Gangwar, S P]]
 [[Category: Saxena, A K]]

5ybd

From Proteopedia

Revision as of 09:15, 21 October 2020

X-ray structure of ETS domain of Ergp55 in complex with E74DNA

Structural highlights

Disease

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox