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- PDB-2wbr: The RRM domain in GW182 proteins contributes to miRNA-mediated ge... -

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Basic information

Entry
Database: PDB / ID: 2wbr
TitleThe RRM domain in GW182 proteins contributes to miRNA-mediated gene silencing
ComponentsGW182
KeywordsDNA BINDING PROTEIN / DNA-BINDING PROTEIN / RRM / RBD / GW182 / TNRC6A / MIRNAS / P-BODIES / ARGONAUTE / MRNA DECAY
Function / homology
Function and homology information


Transcriptional regulation by small RNAs / Post-transcriptional silencing by small RNAs / embryonic development via the syncytial blastoderm / post-transcriptional gene silencing / miRNA-mediated post-transcriptional gene silencing / miRNA-mediated gene silencing by inhibition of translation / positive regulation of nuclear-transcribed mRNA poly(A) tail shortening / mRNA catabolic process / locomotor rhythm / P-body ...Transcriptional regulation by small RNAs / Post-transcriptional silencing by small RNAs / embryonic development via the syncytial blastoderm / post-transcriptional gene silencing / miRNA-mediated post-transcriptional gene silencing / miRNA-mediated gene silencing by inhibition of translation / positive regulation of nuclear-transcribed mRNA poly(A) tail shortening / mRNA catabolic process / locomotor rhythm / P-body / regulation of protein localization / negative regulation of gene expression / RNA binding / nucleoplasm / cytoplasm
Similarity search - Function
Protein Gawky / Gawky, UBA domain / GW182, middle domain / M domain of GW182 / Argonaute hook domain / Argonaute hook / UBA/TS-N domain / Ubiquitin-associated domain / Ubiquitin-associated domain (UBA) profile. / UBA-like superfamily ...Protein Gawky / Gawky, UBA domain / GW182, middle domain / M domain of GW182 / Argonaute hook domain / Argonaute hook / UBA/TS-N domain / Ubiquitin-associated domain / Ubiquitin-associated domain (UBA) profile. / UBA-like superfamily / RRM (RNA recognition motif) domain / RNA-binding domain superfamily / Nucleotide-binding alpha-beta plait domain superfamily / Alpha-Beta Plaits / 2-Layer Sandwich / Alpha Beta
Similarity search - Domain/homology
Biological speciesDROSOPHILA MELANOGASTER (fruit fly)
MethodSOLUTION NMR / XPLOR
AuthorsEulalio, A. / Tritschler, F. / Buettner, R. / Weichenrieder, O. / Izaurralde, E. / Truffault, V.
CitationJournal: Nucleic Acids Res. / Year: 2009
Title: The Rrm Domain in Gw182 Proteins Contributes to Mirna-Mediated Gene Silencing.
Authors: Eulalio, A. / Tritschler, F. / Buettner, R. / Weichenrieder, O. / Izaurralde, E. / Truffault, V.
History
DepositionMar 3, 2009Deposition site: PDBE / Processing site: PDBE
Revision 1.0Mar 24, 2009Provider: repository / Type: Initial release
Revision 1.1May 8, 2011Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3May 15, 2024Group: Data collection / Database references / Other
Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_database_status / pdbx_nmr_software / pdbx_nmr_spectrometer
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.status_code_mr / _pdbx_nmr_software.name / _pdbx_nmr_spectrometer.model

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: GW182


Theoretical massNumber of molelcules
Total (without water)9,8281
Polymers9,8281
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)24 / 50LOWEST RESTRAINT VIOLATIONS
RepresentativeModel #1

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Components

#1: Protein GW182 / GAWKY / LD47780P


Mass: 9828.227 Da / Num. of mol.: 1 / Fragment: RRM DOMAIN, RESIDUES 1114-1198
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) DROSOPHILA MELANOGASTER (fruit fly) / Plasmid: PETM60 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) ROSETTA 2 / References: UniProt: Q8SY33

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
111CBCA(CO)NH
121CC(CO)NH
131CCHCOSY
141CCHNOESY
151CCHTOCSY
161CHSQC
171CNHNOESY
181HBHA(CO)NH
191HCHNOESY
1101HNCA
1111HN(CA)CO
1121HN(CA)CB
1131HNCO
1141HNHA
1151HNHB
1161HNHNOESY
1171NHSQC
1181NNHNOESY
1191NOESYNON
NMR detailsText: NONE

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Sample preparation

DetailsContents: 10% WATER/90% D2O
Sample conditionspH: 7.0 / Pressure: 1.0 atm / Temperature: 298.0 K

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NMR measurement

NMR spectrometerType: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 800 MHz

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Processing

NMR software
NameVersionDeveloperClassification
X-PLOR2.9.4ABRUNGERrefinement
Sparkystructure solution
RefinementMethod: XPLOR / Software ordinal: 1
NMR ensembleConformer selection criteria: LOWEST RESTRAINT VIOLATIONS / Conformers calculated total number: 50 / Conformers submitted total number: 24

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