The solution structure and DNA-binding properties of the cold-shock domain of the human Y-box protein YB-1

Journal of Molecular Biology

Volumn 316, Issue 2, 2002, Pages 317-326

  Kloks, Cathelijne P A M ^a   Spronk, Christian A E M ^a   Lasonder, Edwin ^a   Hoffmann, Astrid ^b   Vuister, Geerten W ^a   Grzesiek, Stephan ^c   Hilbers, Cornelis W ^a  

^a RADBOUD UNIVERSITY NIJMEGEN   (Netherlands)

^b FORSCHUNGSZENTRUM JÜLICH   (Germany)

^c UNIVERSITY OF BASEL   (Switzerland)

Author keywords

Cold shock; OB fold; Single stranded DNA binding; Solution structure; Y box protein

Indexed keywords

BACTERIAL PROTEIN; COLD SHOCK PROTEIN; DNA; DNA BINDING PROTEIN; NUCLEIC ACID BINDING PROTEIN; PYRIMIDINE; SINGLE STRANDED DNA; UNCLASSIFIED DRUG; Y BOX BINDING PROTEIN 1;

ARTICLE; BINDING AFFINITY; BINDING SITE; CONTROLLED STUDY; EUKARYOTE; HUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN DNA BINDING; PROTEIN DOMAIN; PROTEIN FAMILY; PROTEIN FUNCTION; PROTEIN STRUCTURE; SPECIES COMPARISON; SURFACE CHARGE;

BACTERIA (MICROORGANISMS); EUKARYOTA;

EID: 0036295228     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.2001.5334     Document Type: Article

References (49)

1. Multifunctional proteins suggest connections between transcriptional and post-translational processes
2. A multiplicity of CCAAT box-binding proteins
3. Characterization of the cDNA encoding a protein binding to the major histocompatibility complex class II Y box
4. Nuclear translocation of the Y-box binding protein by ultraviolet irradiation
5. A human protein containing a "cold-shock" domain binds specifically to H-DNA upstream from the human γ-globin genes
6. DNA binding, multimerization, and transcription stimulation by the Xenopus Y box proteins in vitro
7. Structural and functional properties of the evolutionarily ancient Y-box family of nucleic acid binding proteins
8. Sequence analysis of cytoplasmic mRNA-binding proteins of Xenopus oocytes identifies a family of RNA-binding proteins
9. Sequence-specific RNA recognition by the Xenopus Y-box proteins. An essential role for the cold-shock domain
10. Translational repression dependent on the interaction of the Xenopus Y-box protein FRGY2 with mRNA. Role of the cold-shock domain, tail domain and selective RNA sequence recognition
11. RNP-1, an RNA binding motif is conserved in the DNA-binding cold-shock domain
12. Selective recruitment of masked maternal mRNA from messenger ribonucleoprotein particles containing FRGY2 (mRNP4)
13. Nucleosome positioning and modification: Chromatin structures that potentiate transcription
14. The transcriptional regulatary protein, YB-1, promotes single-stranded regions in the DRA-promoter
15. The cold-shock response - A hot topic
16. The cold-shock response in bacteria
17. OB (oligonucleotide/oligosaccharide binding)-fold: Common structural and functional solution for non-homologous sequences
18. Resonance assignment and secondary structure of the cold shock domain of the human YB-1 protein
19. 1H NMR studies of the binding of bacteriophage M13 encoded gene-5 protein to oligo(deoxyadenylic acid)s of variable lenghts
20. Structure of the single-stranded DNA binding domain of replication protein A bound to DNA
21. Crystal structure of Csp A, the major cold-shock protein of Escherichia coli
22. Solution NMR structure of the major cold-shock protein (CspA) from Escherichia coli: Identification of a binding epitope for DNA
23. Universal nucleic acid-binding domain revealed by crystal structure of the B. subtilis major cold-shock protein
24. Structure in solution of the major cold-shock protein from Bacillus subtilis
25. The solution structure of the synthetic circular peptide CGVSRQGKPYC: NMR studies of the folding of a synthetic model for the DNA-binding loop of the ssDNA-binding protein encoded by gene V of phage M13
26. Structure of the DNA binding wing of the gene-V encoded single-stranded DNA binding protein of the filamentous bacteriophage M13
27. Different DNA-binding modes and cooperativities for bacteriophage M-13 gene-5 protein revealed by means of fluorescence depolarization studies
28. Interactions of the major cold-shock protein of Bacillus subtilis CspB with single-stranded DNA templates of different base composition
29. Solution NMR structure of the cold-shock protein from the hyperthermophilic bacterium Thermotoga maritima
30. Specificity of the binding of bacteriophage M-13 encoded gene-5 protein to DNA and RNA studied by means of fluorescence titrations
31. Characterization of the DNA-binding domain of the avian Y-box protein, chkYB-2, and mutational analysis of its single-strand binding motif in the Rous sarcoma virus enhancer
32. Cloning of a novel Y-box homology protein (chkYB-1HP) cDNA lacking the cold-shock domain
33. 4
34. NMRPipe: A multidimensional spectral processing system based on UNIX pipes
35. A common sense approach to peak-picking in two-, three-, and four-dimensional spectra using automatic computer analysis of contour diagrams
36. 1H TOCSY experiment for assignment of aromatic ring resonances and selective identification of tyrosine ring resonances in proteins
37. 13C decoupling
38. Quantitative J correlation: A new approach for measuring homonuclear three-bond J(H-NH-alpha) coupling constants in nitrogen-15 enriched proteins
39. 13C nuclear magnetic resonance chemical shifts
40. Torsion angle dynamics: Reduced variable conformational sampling enhances crystallographic structure refinement
41. Torsion-angle dynamics as a new efficient tool for NMR structure calculation
42. The solution structure of lac repressor headpiece 62 complexed to a symmetric lac operator sequence determined by NMR and restrained molecular dynamics
43. AQUA and PROCHECK-NMR. Programs for checking the quality of protein structures by NMR
44. WHAT IF: A molecular modeling and drug design program
45. MOLMOL: A program for display and analysis of macromolecular structures
46. Immobilization of proteins to a carboxymethyldextran-modified gold surface for biospecific interaction analysis in surface plasmon resonance sensors
47. Analysis of oligonucleotide probe affinities using surface plasmon resonance: A means for mutational scanning
48. Pilus chaperone Fim C-edhesin FimH interactions mapped by TROSY-NMR