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Biological Magnetic Resonance Data Bank


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BMRB Entry 15348

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PDB ID:
Entry in NMR Restraints Grid
Validation report in NRG-CING
Chem Shift validation: AVS_full, LACS, SPARTA
BMRB Entry DOI: doi:10.13018/BMR15348
MolProbity Validation Chart

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Title: Solution structure of the Bright/ARID domain from the human JARID1C protein.   PubMed: 19636912

Deposition date: 2007-06-29 Original release date: 2007-12-10

Authors: Koehler, Christian; Bishop, Shurene; Dowler, Elizabeth; Diehl, Annette; Schmieder, Peter; Leidert, Martina; Sundstrom, Michael; Arrowsmith, Cheryl; Wiegelt, Johan; Edwards, Aled; Oschkinat, Hartmut; Ball, Linda

Citation: Koehler, Christian; Bishop, Shurene; Dowler, Elizabeth; Schmieder, Peter; Diehl, Anne; Oschkinat, Hartmut; Ball, Linda. "Backbone and sidechain 1H, 13C and 15N resonance assignments of the Bright/ARID domain from the human JARID1C (SMCX) protein"  Biomol. NMR Assignments 2, 9-11 (2008).

Assembly members:
JARID1C, polymer, 117 residues, Formula weight is not available

Natural source:   Common Name: Human   Taxonomy ID: 9606   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Homo sapiens

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

Entity Sequences (FASTA):
JARID1C: SMNELEAQTRVKLNYLDQIA KFWEIQGSSLKIPNVERRIL DLYSLSKIVVEEGGYEAICK DRRWARVAQRLNYPPGKNIG SLLRSHYERIVYPYEMYQSG ANLVCNTRPFDNEEKDK

Data sets:
Data typeCount
13C chemical shifts432
15N chemical shifts124
1H chemical shifts828

Additional metadata:

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

Entity Assembly IDEntity NameEntity ID
1Bright/ARID domain1

Entities:

Entity 1, Bright/ARID domain 117 residues - Formula weight is not available

residues 1-2 are from the affinity tag

1   SERMETASNGLULEUGLUALAGLNTHRARG
2   VALLYSLEUASNTYRLEUASPGLNILEALA
3   LYSPHETRPGLUILEGLNGLYSERSERLEU
4   LYSILEPROASNVALGLUARGARGILELEU
5   ASPLEUTYRSERLEUSERLYSILEVALVAL
6   GLUGLUGLYGLYTYRGLUALAILECYSLYS
7   ASPARGARGTRPALAARGVALALAGLNARG
8   LEUASNTYRPROPROGLYLYSASNILEGLY
9   SERLEULEUARGSERHISTYRGLUARGILE
10   VALTYRPROTYRGLUMETTYRGLNSERGLY
11   ALAASNLEUVALCYSASNTHRARGPROPHE
12   ASPASNGLUGLULYSASPLYS

Samples:

sample_1: JARID1C, [U-100% 15N], 1 mM; sodium phosphate 50 mM; sodium chloride 50 mM; sodium azide 0.02%; DTT 5 mM

sample_2: JARID1C, [U-13C; U-15N], 1 mM; sodium phosphate 50 mM; sodium chloride 50 mM; sodium azide 0.02%; DTT 5 mM

sample_3: JARID1C, [U-100% 15N], 1 mM; sodium phosphate 50 mM; sodium chloride 50 mM; sodium azide 0.02%; DTT 5 mM

sample_4: JARID1C, [U-13C; U-15N], 1 mM; sodium phosphate 50 mM; sodium chloride 50 mM; sodium azide 0.02%; DTT 5 mM

sample_conditions_1: pH: 6.0; pressure: 1 atm; temperature: 297 K

sample_conditions_2: pH*: 6.0; pressure: 1 atm; temperature: 297 K

Experiments:

NameSampleSample stateSample conditions
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D CBCANHsample_1isotropicsample_conditions_1
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
2D 1H-13C HSQCsample_1isotropicsample_conditions_1
3D HNCAsample_1isotropicsample_conditions_1
3D HNCACOsample_1isotropicsample_conditions_1
3D HBHA(CO)NHsample_1isotropicsample_conditions_1
3D H(CCCO)NH-TOCSYsample_1isotropicsample_conditions_1
(H)CC(CO)NH-TOCSYsample_1isotropicsample_conditions_1
3D HCCH-TOCSYsample_2isotropicsample_conditions_1
3D HCCH-COSYsample_2isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1
3D 1H-13C NOESYsample_1isotropicsample_conditions_1

Software:

xwinnmr v2.6 and 3.1, Bruker Biospin - collection, processing

SPARKY v3.10, Goddard - chemical shift assignment, data analysis, peak picking

CYANA v2,0, Guntert, Mumenthaler and Wuthrich - structure solution

X-PLOR NIH v2.14, Schwieters, Kuszewski, Tjandra and Clore - refinement, structure solution

CNS, Brunger, Adams, Clore, Gros, Nilges and Read - reffnement in explicit water, structure solution

TALOS, Cornilescu, Delaglio and Bax - dihedral angle estimation

NMR spectrometers:

  • Bruker DRX 600 MHz
  • Bruker DMX 750 MHz

Related Database Links:

SWS P41229
GB NP_004178 GI:11321605 AAA61302 AAC48698 AAD53049 AAF36510 AAH26777
PDB
DBJ BAB25462 BAE33367 BAE34464 BAG65494 BAK62496
EMBL CAA82759 CAH91220
REF NP_001041497 NP_001090902 NP_001125719 NP_001140174 NP_001269551
SP A1YVX4 P41229 P41230 Q38JA7
TPG DAA12808

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