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- PDB-1h3z: Solution structure of a PWWP domain from Schizosaccharomyces Pombe -

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Basic information

Entry
Database: PDB / ID: 1h3z
TitleSolution structure of a PWWP domain from Schizosaccharomyces Pombe
ComponentsHYPOTHETICAL 62.8 KDA PROTEIN C215.07C
KeywordsNUCLEAR PROTEIN / PWWP / CHROMATIN / BETA-BARREL
Function / homology
Function and homology information


NuA3 histone acetyltransferase complex / : / chromatin remodeling / nucleus
Similarity search - Function
IOC4-like, PWWP domain / SH3 type barrels. - #140 / domain with conserved PWWP motif / PWWP domain / PWWP domain profile. / PWWP domain / SH3 type barrels. / Roll / Mainly Beta
Similarity search - Domain/homology
PWWP domain-containing protein2
Similarity search - Component
Biological speciesSCHIZOSACCHAROMYCES POMBE (fission yeast)
MethodSOLUTION NMR / DISTANCE GEOMETRY SIMULATED ANNEALING
AuthorsSlater, L.M. / Allen, M.D. / Bycroft, M.
CitationJournal: J.Mol.Biol. / Year: 2003
Title: Structural Variation in Pwwp Domains
Authors: Slater, L.M. / Allen, M.D. / Bycroft, M.
History
DepositionSep 23, 2002Deposition site: PDBE / Processing site: PDBE
Revision 1.0Jul 10, 2003Provider: repository / Type: Initial release
Revision 1.1May 8, 2011Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Jan 17, 2018Group: Database references / Category: citation / Item: _citation.page_last
Revision 1.4Jan 24, 2018Group: Source and taxonomy / Category: entity_src_gen
Item: _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id / _entity_src_gen.pdbx_host_org_scientific_name ..._entity_src_gen.pdbx_host_org_ncbi_taxonomy_id / _entity_src_gen.pdbx_host_org_scientific_name / _entity_src_gen.pdbx_host_org_strain / _entity_src_gen.pdbx_host_org_variant
Revision 1.5May 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_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_spectrometer.model
Remark 650 HELIX DETERMINATION METHOD: AUTHOR PROVIDED.

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: HYPOTHETICAL 62.8 KDA PROTEIN C215.07C


Theoretical massNumber of molelcules
Total (without water)12,2101
Polymers12,2101
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)23 / 30NO VIOLATION GREATER THAN 0.25A AND NO VIOLATIONS GREATER THAN 5 DEGREES
RepresentativeModel #1

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Components

#1: Protein HYPOTHETICAL 62.8 KDA PROTEIN C215.07C


Mass: 12210.151 Da / Num. of mol.: 1 / Fragment: PWWP DOMAIN, RESIDUES 118-225
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) SCHIZOSACCHAROMYCES POMBE (fission yeast)
Description: SYNTHETIC GENE / Plasmid: PRSETA-GROEL / Production host: ESCHERICHIA COLI BL21(DE3) (bacteria) / Variant (production host): C41 / References: UniProt: O94312
Compound detailsTHE PWWP DOMAIN IS NAMED AFTER A CONSERVED PRO-TRP-TRP-PRO MOTIF. IT IS PRESENT IN PROTEINS OF ...THE PWWP DOMAIN IS NAMED AFTER A CONSERVED PRO-TRP-TRP-PRO MOTIF. IT IS PRESENT IN PROTEINS OF NUCLEAR ORIGIN AND PLAYS A ROLE IN CEL GROWTH AND DIFFERENTIATION.

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experimentType: STANDARD
NMR detailsText: THE STRUCTURE WAS ASSIGNED USING TRIPLE-RESONANCE NMR SPECTROSCOPY ON 13C, 15N-LABELLED PWWP.

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Sample preparation

Sample conditionsIonic strength: 0.2 / pH: 6.5 / Temperature: 290 K
Crystal grow
*PLUS
Method: other / Details: NMR

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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-PLOR3.8BRUNGERrefinement
ANSIG3.3structure solution
RefinementMethod: DISTANCE GEOMETRY SIMULATED ANNEALING / Software ordinal: 1
Details: REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE
NMR ensembleConformer selection criteria: NO VIOLATION GREATER THAN 0.25A AND NO VIOLATIONS GREATER THAN 5 DEGREES
Conformers calculated total number: 30 / Conformers submitted total number: 23

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