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 6005

Title: Structural Basis for Recognition of the mRNA Class II AU-Rich Element by the Tandem Zinc Finger Domain of TIS11d   PubMed: 14981510

Authors: Hudson, Brian; Martinez-Yamout, Maria; Dyson, H.; Wright, Peter

Citation: Hudson, Brian; Martinez-Yamout, Maria; Dyson, H.; Wright, Peter. "Recognition of the mRNA AU-Rich Element by the Zinc Finger Domain of TIS11d"  Nat. Struct. Biol. 11, 257-264 (2004).

Assembly members:
TIS11d TZF, polymer, 70 residues, 8298 Da.
5'-UUAUUUAUU-3', polymer, 7 residues, 2830 Da.
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):
TIS11d TZF: STRYKTELCRPFEESGTCKY GEKCQFAHGFHELRSLTRHP KYKTELCRTFHTIGFCPYGP RCHFIHNADE
5'-UUAUUUAUU-3': UUAUUUAUU

Data sets:
Data typeCount
13C chemical shifts282
15N chemical shifts70
1H chemical shifts483

Additional metadata:

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

Assembly:

Entity Assembly IDEntity NameEntity ID
1TIS11d TZF1
25'-UUAUUUAUU-3'2
3ZINC (II) ION 13
4ZINC (II) ION 23

Entities:

Entity 1, TIS11d TZF 70 residues - 8298 Da.

1   SERTHRARGTYRLYSTHRGLULEUCYSARG
2   PROPHEGLUGLUSERGLYTHRCYSLYSTYR
3   GLYGLULYSCYSGLNPHEALAHISGLYPHE
4   HISGLULEUARGSERLEUTHRARGHISPRO
5   LYSTYRLYSTHRGLULEUCYSARGTHRPHE
6   HISTHRILEGLYPHECYSPROTYRGLYPRO
7   ARGCYSHISPHEILEHISASNALAASPGLU

Entity 2, 5'-UUAUUUAUU-3' 7 residues - 2830 Da.

1   UUAUUUAUU

Entity 3, ZINC (II) ION 1 - Zn - 65.409 Da.

1   ZN

Samples:

sample_1: TIS11d TZF, [U-15N], 0.5 mM; 5'-UUAUUUAUU-3' 0.5 mM; TrisHCl 10 mM; KCl 20 mM; DTT 2.5 mM; ZnSO4 25 uM; H20 95%; D2O 5%

sample_2: TIS11d TZF, [U-13C; U-15N], 0.5 mM; 5'-UUAUUUAUU-3' 0.5 mM; TrisHCl 10 mM; KCl 20 mM; DTT 2.5 mM; ZnSO4 25 uM; H20 95%; D2O 5%

sample_3: TIS11d TZF, [U-13C; U-15N], 0.5 mM; 5'-UUAUUUAUU-3' 0.5 mM; Tris-HCl 10 mM; KCl 20 mM; DTT 2.5 mM; ZnSO4 25 uM; D2O 100%

sample_4: TIS11d TZF, [U-13C; U-15N], 0.5 mM; 5'-UUAUUUAUU-3' 0.5 mM; TrisHCl 10 mM; KCl 20 mM; DTT 2.5 mM; ZnSO4 25 uM; Pf1 filamentous phage 12 mg/mL; D2O 100%

Conditions_1: ionic strength: 0.02 M; pH: 6.2; temperature: 298 K

Conditions_2: ionic strength: 0.02 M; pH: 6.2; temperature: 298 K

Experiments:

NameSampleSample stateSample conditions
1H-15N HSQCnot availablenot availablenot available
1H-15N-HMQCnot availablenot availablenot available
1H-13C-HSQCnot availablenot availablenot available
1H-13C-CT-HSQCnot availablenot availablenot available
HNCACBnot availablenot availablenot available
CBCA(CO)NHnot availablenot availablenot available
HNCOnot availablenot availablenot available
C(CO)NH-TOCSYnot availablenot availablenot available
H(CCO)NH-TOCSYnot availablenot availablenot available
CCH-COSYnot availablenot availablenot available
CCH-TOCSYnot availablenot availablenot available
H(C)CH-COSYnot availablenot availablenot available
H(C)CH-TOCSYnot availablenot availablenot available
(HB)CB(CGCD)HDnot availablenot availablenot available
(HB)CB(CGCDCE)HEnot availablenot availablenot available
3D 15N-separated NOESYnot availablenot availablenot available
3D 13C-separated NOESYnot availablenot availablenot available
3D 13C F1-edited, F3-separated NOESYnot availablenot availablenot available
2D 13C double-half-filtered NOESYnot availablenot availablenot available
2D 13C double-half-filtered TOCSYnot availablenot availablenot available
HNHAnot availablenot availablenot available
HNHBnot availablenot availablenot available
HACAHB-COSYnot availablenot availablenot available
13C-{13CO} spin-echo difference CT-HSQCnot availablenot availablenot available
13C-{15N} spin-echo difference CT-HSQCnot availablenot availablenot available
IPAP-[1H,15N]-HSQCnot availablenot availablenot available
IPAP-HNCOnot availablenot availablenot available

Software:

xwinnmr v2.1 - data collection

NMRPipe v2.1 - data processing

NMRView v5.0 - data analysis

SANE vn/a - automatic NOE assignment

DYANA v1.5 - structure determination

AMBER v8.0 - structure refinement

NMR spectrometers:

  • Bruker Avance 600 MHz
  • Bruker DMX 750 MHz
  • Bruker Avance 900 MHz

Related Database Links:

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