Identification of intrinsic order and disorder in the DNA repair protein XPA

Protein Science

Volumn 10, Issue 3, 2001, Pages 560-571

  Iakoucheva, Lilia M ^a   Kimzey, Amy L ^a   Masselon, Christophe D ^b   Bruce, James E ^b,d   Garner, Ethan C ^c   Brown, Celeste J ^c   Dunker, A Keith ^c   Smith, Richard D ^b   Ackerman, Eric J ^a  

^a PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

^b PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

^c WASHINGTON STATE UNIVERSITY   (United States)

^d MERCK RESEARCH LABORATORIES   (United States)

Author keywords

DNA repair; Intrinsic disorder; Mass spectrometry; Partial proteolysis; Unstructured proteins; XPA

Indexed keywords

DNA; GENE PRODUCT; PROTEIN XPA; TRYPSIN; UNCLASSIFIED DRUG;

ARTICLE; DNA BINDING; DNA REPAIR; EXCISION REPAIR; FOURIER TRANSFORMATION; MASS SPECTROMETRY; MOLECULAR WEIGHT; NONHUMAN; NUCLEAR MAGNETIC RESONANCE; POLYACRYLAMIDE GEL ELECTROPHORESIS; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN DOMAIN; PROTEIN STRUCTURE; XENOPUS; XERODERMA PIGMENTOSUM;

AMINO ACID MOTIFS; AMINO ACID SEQUENCE; ANIMALS; DNA REPAIR; DNA-BINDING PROTEINS; ELECTROPHORESIS, POLYACRYLAMIDE GEL; HYDROLYSIS; NEURAL NETWORKS (COMPUTER); PROTEIN STRUCTURE, SECONDARY; SPECTROMETRY, MASS, ELECTROSPRAY IONIZATION; SPECTROSCOPY, FOURIER TRANSFORM INFRARED; TRYPSIN; XENOPUS LAEVIS; XERODERMA PIGMENTOSUM GROUP A PROTEIN;

EID: 0035107306     PISSN: 09618368     EISSN: None     Source Type: Journal    
DOI: 10.1110/ps.29401     Document Type: Article

References (50)

1. Nucleotide excision repair in oocyte nuclear extracts from Xenopus laevis. Methods: Companion Meth
2. Protein complexes in nucleotide excision repair
3. The conformation of histone H5. Isolation and characterisation of the globular segment
4. The transition of bovine trypsinogen to a trypsin-like state upon strong ligand binding. The refined crystal structures of the bovine trypsinogen-pancreatic trypsin inhibitor complex and of its ternary complex with Ile-Val at 1.9 A resolution
5. Evidence of viral capsid dynamics using limited proteolysis and mass spectrometry
6. High-mass-measurement accuracy and 100% sequence coverage of enzymatically digested bovine serum albumin from an ESI-FTICR mass spectrum
7. Structural features of the minimal DNA binding domain (M98-F219) of human nucleotide excision repair protein XPA
8. Interactions of human nucleotide excision repair protein XPA with DNA and RPA70ΔC327: Chemical shift mapping and 15N NMR relaxation studies
9. Extended X-ray absorption fine structure evidence for a single metal binding domain in Xenopus laevis nucleotide excision repair protein XPA
10. Empirical predictions of protein conformation
11. Probing the solution structure of the DNA-binding protein Max by a combination of proteolysis and mass spectrometry
12. The C-terminal half of the anti-σ factor, FlgM, becomes structured when bound to its target, σ28
13. α-Lactalbumin: Compact state with fluctuating tertiary structure?
14. Protein disorder and the evolution of molecular recognition: Theory, predictions and observations
15. 4E binding proteins inhibit the translation factor eIF4E without folded structure
16. Correlation between sites of limited proteolysis and segmental mobility in thermolysin
17. Identification of the binding surface on β-lactamase for GroEL by limited proteolysis and MALDI-mass spectrometry
18. Automated reduction and interpretation of high resolution electrospray mass spectra of large molecules
19. Modeling studies of the change in conformation required for cleavage of limited proteolytic sites
20. Assessment of conformational parameters as predictors of limited proteolytic sites in native protein structures
21. Conformational flexibility in protein molecules
22. Solution structure of the DNA- and RPA-binding domain of the human repair factor XPA
23. Crystal structures of human calcineurin and the human FKBP12-FK506-calcineurin complex
24. Identification of a damaged-DNA binding domain of the XPA protein
25. Cleavage of structural proteins during the assembly of the head of bacteriophage T4
26. Predicting protein disorder for N-, C-, and internal regions
27. Improving the microdialysis procedure for electrospray ionization-mass spectrometry of biological samples
28. Activation of calcineurin by limited proteolysis
29. Structure of the membrane-bound form of the pore-forming domain of colicin A: A partial proteolysis and mass spectrometry study
30. Mutational analysis of the structure and function of the xeroderma pigmentosum group A complementing protein. Identification of essential domains for nuclear localization and DNA excision repair
31. Nucleocytoplasmic transport: Signals, mechanisms and regulation
32. DNA polymerases a and b are required for DNA repair in an efficient nuclear extract from Xenopus oocytes
33. 'Molten-globule state': A compact form of globular proteins with mobile side-chains
34. High throughput proteome-wide precision measurements of protein expression using mass spectrometry
35. NMR structure of the mouse prion protein domain PrP(121-321)
36. Identifying disordered regions in proteins from amino acid sequence
37. Sequence complexity of disordered protein
38. Combining evolutionary information and neural networks to predict protein secondary structure
39. Nucleotide binding proteins
40. Structural studies of τ protein and Alzheimer paired helical filaments show no evidence for β-structure
41. Automated assignment of charge states from resolved isotopic peaks for multiply charged ions
42. Molecular cloning of human XPAC gene homologs from chicken, Xenopus laevis and Drosophila melanogaster
43. Predicting α-helix and β-strand segments of globular proteins
44. Xeroderma pigmentosum group C protein complex is the initiator of global genome nucleotide excision repair
45. Continuing development of the 11.5 tesla FT-ICR instrumentation
46. Order of assembly of human DNA repair excision nuclease
47. NACP, a protein implicated in Alzheimer's disease and learning, is natively unfolded
48. The protein non-folding problem: Amino acid determinants of intrinsic order and disorder
49. Intrinsically unstructured proteins: Reassessing the protein structure- function paradigm