BMRB

Biological Magnetic Resonance Data Bank


A Repository for Data from NMR Spectroscopy on Proteins, Peptides, Nucleic Acids, and other Biomolecules
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BMRB Entry 16577

Title: Backbone Chemical Shift Assignments of Mouse HOXA13 DNA Binding Domain in Complex with DNA Duplex   PubMed: 20232265

Authors: Zhang, Yonghong

Citation: Zhang, Yonghong; Thornburg, Chelsea; Stadler, H. Scott; Ames, James. "Backbone chemical shift assignments of mouse HOXA13 DNA binding domain bound to duplex DNA."  Biomol. NMR Assignments 4, 97-99 (2010).

Assembly members:
DNA_duplex_chain_1, polymer, 11 residues, Formula weight is not available
DNA_duplex_chain_2, polymer, 11 residues, Formula weight is not available
Hoxa13_DNA_binding_domain, polymer, 73 residues, 8792 Da.

Natural source:   Common Name: Mouse   Taxonomy ID: 10090   Superkingdom: Eukaryota   Kingdom: Metazoa   Genus/species: Mus musculus

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

Entity Sequences (FASTA):
DNA_duplex_chain_1: CAAATAAAATC
DNA_duplex_chain_2: GATTTTATTTG
Hoxa13_DNA_binding_domain: GSHMLEGRKKRVPYTKVQLK ELEREYATNKFITKDKRRRI SATTNLSERQVTIWFQNRRV KEKKVINKLKTTS

Data sets:
Data typeCount
13C chemical shifts211
15N chemical shifts70
1H chemical shifts142

Additional metadata:

  • Assembly
  • Samples and Experiments
  • Software
  • Spectrometers
  • Hide all

Assembly:

Entity Assembly IDEntity NameEntity ID
1DNA duplex, chain 11
2DNA duplex, chain 22
3Hoxa13 DNA binding domain3

Entities:

Entity 1, DNA duplex, chain 1 11 residues - Formula weight is not available

1   DCDADADADTDADADADADT
2   DC

Entity 2, DNA duplex, chain 2 11 residues - Formula weight is not available

1   DGDADTDTDTDTDADTDTDT
2   DG

Entity 3, Hoxa13 DNA binding domain 73 residues - 8792 Da.

1   GLYSERHISMETLEUGLUGLYARGLYSLYS
2   ARGVALPROTYRTHRLYSVALGLNLEULYS
3   GLULEUGLUARGGLUTYRALATHRASNLYS
4   PHEILETHRLYSASPLYSARGARGARGILE
5   SERALATHRTHRASNLEUSERGLUARGGLN
6   VALTHRILETRPPHEGLNASNARGARGVAL
7   LYSGLULYSLYSVALILEASNLYSLEULYS
8   THRTHRSER

Samples:

sample_1: DNA duplex, chain 1 0.5 mM; DNA duplex, chain 2 0.5 mM; Hoxa13 DNA binding domain, [U-98% 13C; U-98% 15N], 0.5 mM; sodium phosphate 20 mM; magnesium chloride 5 mM

sample_2: DNA duplex, chain 1 0.5 mM; DNA duplex, chain 2 0.5 mM; Hoxa13 DNA binding domain, [U-98% 13C; U-98% 15N], 0.5 mM; sodium phosphate 20 mM; magnesium chloride 5 mM

sample_conditions_1: ionic strength: 0.025 M; pH: 6.0; pressure: 1 atm; temperature: 310 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1
3D CBCA(CO)NHsample_1isotropicsample_conditions_1
3D HNCOsample_1isotropicsample_conditions_1
3D HNCACBsample_2isotropicsample_conditions_1
3D HNCAsample_2isotropicsample_conditions_1
3D HBHA(CO)NHsample_1isotropicsample_conditions_1
3D 1H-15N NOESYsample_1isotropicsample_conditions_1

Software:

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

NMR spectrometers:

  • Bruker Avance 800 MHz

Related Database Links:

BMRB 16252
PDB
EMBL CAC44975
GB AAA86506 AAB03322 AAC50993 AAH75791 AAI00732
REF NP_000513 NP_001079321 NP_001162372 NP_001182271 NP_001258284
SP P31271 P50210 Q62424 Q90X25
TPG DAA30521