BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules 		Member of WWPDB

BMRB Entry 11497

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_anomalous, AVS_full, LACS
BMRB Entry DOI: doi:10.13018/BMR11497
MolProbity Validation Chart

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Title: Solution structure of the chromodomain of Swi6   PubMed: 22727667

Deposition date: 2012-04-18 Original release date: 2012-08-27

Authors: Shimojo, Hideaki; Nishimura, Yoshifumi

Citation: Ishida, Mayumi; Shimojo, Hideaki; Hayashi, Aki; Kawaguchi, Rika; Ohtani, Yasuko; Uegaki, Koichi; Nishimura, Yoshifumi; Nakayama, Jun-ichi. "Intrinsic nucleic Acid-binding activity of chp1 chromodomain is required for heterochromatic gene silencing"  Mol. Cell 47, 228-241 (2012).

Assembly members:
entity, polymer, 92 residues, 10503.414 Da.

Natural source:   Common Name: fission yeast   Taxonomy ID: 4896   Superkingdom: Eukaryota   Kingdom: Fungi   Genus/species: Schizosaccharomyces pombe

Experimental source:   Production method: recombinant technology   Host organism: Escherichia coli

Entity Sequences (FASTA):
entity: GSHMESKSSSKKLKENAKEE EGGEEEEEDEYVVEKVLKHR MARKGGGYEYLLKWEGYDDP SDNTWSSEADCSGCKQLIEA YWNEHGGRPEPS

Data sets:
Data typeCount
13C chemical shifts386
15N chemical shifts90
1H chemical shifts579

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
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Assembly:

Entity Assembly IDEntity NameEntity ID
1entity1

Entities:

Entity 1, entity 92 residues - 10503.414 Da.

1   GLYSERHISMETGLUSERLYSSERSERSER
2   LYSLYSLEULYSGLUASNALALYSGLUGLU
3   GLUGLYGLYGLUGLUGLUGLUGLUASPGLU
4   TYRVALVALGLULYSVALLEULYSHISARG
5   METALAARGLYSGLYGLYGLYTYRGLUTYR
6   LEULEULYSTRPGLUGLYTYRASPASPPRO
7   SERASPASNTHRTRPSERSERGLUALAASP
8   CYSSERGLYCYSLYSGLNLEUILEGLUALA
9   TYRTRPASNGLUHISGLYGLYARGPROGLU
10   PROSER

Samples:

sample_1: Swi6-CD, [U-99% 13C; U-99% 15N], 0.3 – 0.5 mM; potassium chloride 10 mM; sodium phosphate 20 mM; DTT, [U-100% 2H], 5 mM; H2O 90%; D2O 10%

sample_conditions_1: pH: 6.8; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQC aliphaticsample_1isotropicsample_conditions_1
2D 1H-13C HSQC aromaticsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCACBsample_1isotropicsample_conditions_1
3D C(CO)NHsample_1isotropicsample_conditions_1
3D HBHA(CO)NHsample_1isotropicsample_conditions_1
3D H(CCO)NHsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_1isotropicsample_conditions_1
3D HCCH-COSYsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aliphaticsample_1isotropicsample_conditions_1
3D 1H-13C NOESY aromaticsample_1isotropicsample_conditions_1

Software:

NMRPipe, Delaglio, Grzesiek, Vuister, Zhu, Pfeifer and Bax - processing

Olivia, Yokochi, Sekiguchi and Inagaki - chemical shift assignment, data analysis, peak picking

CYANA, Guntert, Mumenthaler and Wuthrich - structure solution

NMR spectrometers:

  • Bruker Avance 600 MHz
  • Bruker Avance 700 MHz

Related Database Links:

PDB
EMBL CAA50668 CAB57340
REF NP_593449
SP P40381

Download simulated HSQC data in one of the following formats:
CSV: Backbone or all simulated shifts
SPARKY: Backbone or all simulated shifts