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 27366

Title: Backbone 1H, 15N chemical shift assignments of Kaiso E535Q zinc finger DNA binding domain in complex with its double CpG-methylated DNA consensus binding site (MeCG2)   PubMed: 29546986

Authors: Nikolova, Evgenia; Stanfield, Robyn; Dyson, H. Jane; Wright, Peter

Citation: Nikolova, Evgenia; Stanfield, Robyn; Dyson, H. Jane; Wright, Peter. "CH---O Hydrogen Bonds Mediate Highly Specific Recognition of Methylated CpG steps by the Zinc Finger Protein Kaiso"  Biochemistry ., .-. (2018).

Assembly members:
Kaiso_E535Q, polymer, 134 residues, Formula weight is not available
MeCG2_DNA, polymer, 18 residues, Formula weight is not available
entity_ZN, non-polymer, 65.409 Da.

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):
Kaiso_E535Q: MANKRMKVKHDDHYELIVDG RVYYICIVCKRSYVCLTSLR RHFNIHSWEKKYPCRYCEKV FPLAQYRTKHEIHHTGERRY QCLACGKSFINYQFMSSHIK SVHSQDPSGDSKLYRLHPCR SLQIRQYAYLSDRS
MeCG2_DNA: TGCTTCTXGXGAGAAGCA

Data sets:
Data typeCount
15N chemical shifts111
1H chemical shifts111

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1Kaiso E535Q1
2DNA strand 12
3DNA strand 22
4Zinc ion 13
5Zinc ion 23
6Zinc ion 33

Entities:

Entity 1, Kaiso E535Q 134 residues - Formula weight is not available

1   METALAASNLYSARGMETLYSVALLYSHIS
2   ASPASPHISTYRGLULEUILEVALASPGLY
3   ARGVALTYRTYRILECYSILEVALCYSLYS
4   ARGSERTYRVALCYSLEUTHRSERLEUARG
5   ARGHISPHEASNILEHISSERTRPGLULYS
6   LYSTYRPROCYSARGTYRCYSGLULYSVAL
7   PHEPROLEUALAGLNTYRARGTHRLYSHIS
8   GLUILEHISHISTHRGLYGLUARGARGTYR
9   GLNCYSLEUALACYSGLYLYSSERPHEILE
10   ASNTYRGLNPHEMETSERSERHISILELYS
11   SERVALHISSERGLNASPPROSERGLYASP
12   SERLYSLEUTYRARGLEUHISPROCYSARG
13   SERLEUGLNILEARGGLNTYRALATYRLEU
14   SERASPARGSER

Entity 2, DNA strand 1 18 residues - Formula weight is not available

1   DTDGDCDTDTDCDT5CMDG5CM
2   DGDADGDADADGDCDA

Entity 3, Zinc ion 1 - Zn - 65.409 Da.

1   ZN

Samples:

sample_1: Kaiso E535Q, [U-99% 15N], 0.2 mM; MeCG2 DNA 0.2 mM; TRIS 10 mM; TCEP 1 mM; H2O 95%; D2O 5%

sample_conditions_1: pH: 7.0; pressure: 1 atm; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
2D 1H-15N HSQCsample_1isotropicsample_conditions_1

Software:

xwinnmr, Bruker Biospin - collection

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

SPARKY, Goddard - chemical shift assignment, data analysis

NMR spectrometers:

  • Bruker DMX 800 MHz

Related Database Links:

SP Q86T24