Nucleoid proteins

Micron

Volumn 26, Issue 5, 1995, Pages 461-480

  Hayat, M A ^a   Mancarella, Denise A ^a  

^a The College of New Jersey   (United States)

Author keywords

Archae; Bacteria; electron microscopy; Eukaryotes; histone like proteins; histones; immunogold labeling; Prokaryotes

Indexed keywords

BACTERIAL PROTEIN; DNA BINDING PROTEIN; NUCLEAR PROTEIN;

ARCHAEBACTERIUM; BACTERIUM; CLASSIFICATION; ELECTRON MICROSCOPY; IMMUNOHISTOCHEMISTRY; METHODOLOGY; REVIEW;

ARCHAEA; BACTERIA; BACTERIAL PROTEINS; DNA-BINDING PROTEINS; IMMUNOHISTOCHEMISTRY; MICROSCOPY, ELECTRON; NUCLEAR PROTEINS;

EID: 0029447826     PISSN: 09684328     EISSN: None     Source Type: Journal    
DOI: 10.1016/0968-4328(95)00022-4     Document Type: Review

References (218)

1. Identity of the 17-kilodalton protein, a DNA-binding protein from Escherichia coli and the fir A gene product
2. T4 bacteriophage gene 32: a structural protein in the replication and recombination of DNA
3. Determinants of affinity and mode of DNA binding at the car☐y terminus ofthe bacteriophage SP01-encoded type II DNA-binding proteins, TF1
4. An analysis of subunit exchange in the dimeric DNA-binding and DNA-binding protein, TF1
5. Interrelation of secondary structure stability and DNA-binding affinity in the bacteriophage SPO1-encoded type II DNA-binding protein TF1
6. Physicochemical properties of DNA binding proteins: gene 32 protein of T4 and Escherichia coli unwinding protein
7. The Bacillus subtilis nucleoid-associated protein HPB12 strongly compacts DNA
8. Dramatic changes in Fis levels upon nutrient upshift in Escherichi coli
9. Solution structure and DNA-binding properties of a thermostable protein from the archaeon Sulfolobus solfataricus
10. Self-splicing introns in prokaryotes: migrant fossils?
11. Mutations in bg1Y, the structural gene for the DNA-binding protein H1, affect the expression of several Escherichia coli genes
12. Involvement of Escherichi coli Fis protein in maintenance of bacteriophage Mu lysogeny by the repressor: control of early transcription and inhibition of transposition
13. Interaction of Fis protein with DNA: bending and specificity of binding
14. Prokaryotic HU and eukaryotic HMG1 a kinked relationship
15. New electron microscopy data on the structure of the nucleoid and their functional consequences
16. Ultrastructural localization of the histone-like protein HTa from the archaeon Thermoplasma acidophilum
17. Localization of histone-like proteins in thermophilic Archaea by immunogold electron microscopy
18. HU and IHF, two homologous histone-like proteins of Escherichia coli, form different protein-DNA complexes with short DNA fragments
19. HU, the major histone-like protein of E. coli, modulates the binding of IHF to oriC
20. DNA-binding parameters of the HU protein of Escherichia coli to cruciform DNA
21. Reverse gyrase, a hallmark of the hyperthermophilic archaebacteria
22. A model for initiation at origins of DNA replication
23. Similarity between the bacterial histone-like protein HU and a protein from spinach chloroplasts
24. Polyadenylated noncapped RNA from the archaebacterium Methanococcus vannielii
25. Polyadenylated RNA isolated from the archaebacterium Halobacterium halobium
26. Gene structure, organization and expression in archaebacteria
27. Interaction of the Escherichia coli HU protein with DNA. Evidence for formation of nucleosome-like structures with altered DNA helical pitch
28. The histone-like H protein of Escherichia coli is ribosomal protein S3
29. Molecular genetics of cyanobacterial development
30. Binding mode transitions of Escherichia coli single strand binding protein-single-stranded DNA complexes
31. control of directionality in lambda site specific recombination
32. Transposition of bacteriophage Mu DNA: expression of the A and B proteins from lambda pL and analysis of infecting Mu DNA
33. Organization of the isolated Bacillus subtilis nucleoid
34. Characterization of the chromosomal protein HMb isolated from Methanosarcina barkeri
35. Characterization of the chromosomal protein MC1 from the thermophilic archaebacterium Methanosarcina sp. CHT155 and its effect on the thermal stability of DNA
36. Primary structure of the chromosomal proteins MC1a, MC1b and MC1c from the archaebactrium Methanothrix soehngenii
37. Primary structure of the chromosomal protein MC1 from the archaebacterium Methanosarcina sp. CHT155
38. Isolation, characterization and microsequence analysis of a small basic methylated DNA-binding protein from the archaebacterium Sulfolobus solfataricus
39. Interaction between the Chlamydia trachomatis histone H1-like protein (Hc1) and DNA
40. Escherichia coli single-stranded binding protein organizes single-stranded DNA in nucleosome-like units
41. E. coli integration host factor binds to specific sites in DNA
42. Upsetting the balance of forces in DNA
43. Methanobacterium formicicium a mesophilic methanogen, contains three HFo histones
44. A histone-like protein (HTa) from Thermoplasma acidophilum
45. Synthesis of the Escherichia coli K-12 nucleoid-associated DNA-binding protein H-NS is subjected to growth-phase control and autoregulation
46. The nucleoid-associated DNA-binding protein H-NS is required for the efficient adaptation of Escherichia coli K-12 to a cold environment
47. Growth phase variation of integration host factor level Escherichia coli
48. Protein HU in the enzymatic replication of the chromosomal origin of E. Coli
49. Tempo, mode, the progenate and the universal root
50. Of Archae and Eo what is in a name?
51. Histon-like proteins of bacteria
52. The Bacteriol Chromosome. Amer. Soc. Microbial.
53. Intracellular localization of the histone-like protein HU in Escherichia coli
54. Proteins from the prokaryotic nucleoid: primary and quaternary structure of the 15 kDa Escherichia coli DNA-binding protein H-NS
55. Mutations altering chromosomal proteins H-NS induce min-Mu transposition
56. In the thermophilic archaeon Sulfolobus solfolobus a DNA-binding protein is in vitro (adpribosyl)ated
57. The requirement of IHF protein for extrachromosomal replication of the Escherichia coli oriC in a mutant deficient in DNA polymerase I activity
58. Involvement of Fis protein in replication of the Escherichia coli chromosome
59. The Fis protein: it's not just for DNA inversion anymore
60. The role of integration host factor in gene expression in Escherichia coli
61. Integration host factor: a protein for all reasons
62. P1 plasmid partition: binding of P1 ParB protein and Escherichia coli integration host factor to altered parS sites
63. Stabilization of bacteriophage Mu repressor-operator complexes by the Escherichia coli integration host factor protein
64. Replication of pSC101: effects of mutations in the E. coli DNA binding protein IHF
65. TF1, a bacteriophage-specific DNA-binding and DNA-bending protein
66. The HMG domain of lymphoid enhancer factor 1 bends DNA and facilitates assembly of functional nucleoprotein structures
67. The Fis protein binds and bends the origin of chromosomal DNA replication, oric, of Escherichia coli
68. Localized unwinding and structural perturbations in the origin of replication, oriC, of Escherichia coli in vitro and in vivo
69. Searching for and predicting the activity of sites for DNA binding proteins: compilation and analysis of the binding sites for Escherichia coli integration host factor (IHF)
70. Detection of high levels of polyadenylate-containing RNA in bacteria by the use of a single-step RNA isolation procedure
71. Transcriptional silencing and thermoregulation of gene expression in Escherichia coli
72. DNA binding and bending are necessary but not sufficient for Fis-dependent activation of rrnB P1
73. Archaeal DNA binding proteins and chromosome structure
74. Site-specific DNA binding by the bacteriophage SPO1-encoded type II DNA-binding protein
75. Complexes of the single-stranded DNA-binding protein from Escherichia coli (Eco SSB) with poly(dT)
76. Visualization of SSB-ssDNA complexes active in the assembly of stable RecA-DNA filaments
77. Phylogenetic analysis of 70 kD heat shock protein sequences suggests a chimeric origin for the eykaryotic cell nucleus
78. Purification and DNA-binding properties of Fis and Cin, two proteins required for the bacteriophage P1 site-specific recombination system, cin
79. Integration of infecting Mu DNA
80. Cloning and analysis of the spc ribosomal protein operon in Bacillus subtilis, comparison with the gene expression of Escherichia coli
81. A physiological role for DNA supercoiling in the osmotic regulation of gene expression in S. typhimurim and Escherichia coli
82. Supercoiling and integration host factor change the DNA conformation and alter the flow of convergent transcription in phage Mu
83. The shape and fine structure of the nucleoid observed on sections of ultrarapid frozen and cryosubstituted bacteria
84. Protein splicing removes intervening sequences in an archael DNA polymerase
85. DNA ring closure mediated by protein HU
86. Affinity of protein HU for different nucleic acids
87. Purification and characterization of the 17 K protein a DNA-binding protein from Escherichia coli
88. Cloning and sequencing of the gene for the DNA-binding 17 K protein from Escherichia coli
89. The integration host factor stimulated interation of RNA polymerase with NIFA, the transcriptional activator for nitrogen fixation operons
90. HMf, a histone-related protein from the hyperthermophilic Archaeon Methanothermus fervidus, binds preferentially to DNA containing phased tracts of adenines
91. Mutational analysis of a prokaryotic recombinational enhancer element with two functions
92. Novel histone H2A-like protein of Escherichia coli
93. Archaebacteria and eukaryotes possess DNA-dependent RNA polymerases of a common type
94. Multiple defects in Escherichia coli mutants lacking HU proteins
95. Purification and characterization of a small DNA-binding protein, HB, from Bacillus globigii
96. The deoxyribonucleoprotein complex from the archaebacterium Methanosarcina barkeri characterization and ultrastructural localization of the chromosomal protein MC1
97. Who are the parents of eukaryotes?
98. Evolutionary relationships of archbacteria eubacteria and eukaryotes inferred from phylogenetic trees of duplicated genes
99. Translation initiation in Escherichia coli: old and new questions
100. Hin-mediated site-specific recombination requires two 26 bp recombination sites and a 60 bp recombinational enhancer
101. DNA gyrase CS7.4 and the cold shock response in Escherichia coli
102. Methanogens and the diversity of archaeabacteria
103. G inversion in bacteriophage Mu DNA is stimulated by a site within invertase gene and a host factor
104. Intron-containing tRNA genes of Sulfolobus solfataricus
105. Cloning and sequencing of the HU-2 gene of Escherichia coli
106. Participation of the histone-like protein HU and of IHF in minichromosomal maintenance in Escherichia coli
107. Determination of the DNA-interacting region of the archaebacterial chromosomal protein MC1. Photocrosslinks with 5-bromouracil-substitued DNA
108. About the organization of condensed and decondensed noneukaryotic DNA and the concept of vegetative DNA (a critical review)
109. Chromatins of low protein content: special features of their compaction and condensation
110. The amino acid sequence of a small DNA-binding protein from the archaebacterium Sulfolobus solfataricus
111. Component H of DNA-dependent RNA polymerase of Archaea is homologous to a subunit shared by the three eucaryal nuclear RNA polymerases
112. Archaea and eukaryotes versus bacteria?
113. Purification and properties of the Escherichia coli host factor required for inversion of the G segment in bacteriophage Mu
114. The N-terminal part of the E coli DNA binding protein Fis is essential for stimulating sit-specific DNA inversion but is not required for specific DNA binding
115. Three-dimensional structure of the E. coli DNA binding protein Fis
116. A consideration of alternative models for the initiation of translation in Eukaryotes
117. Escherichia coli single-strand deoxyribonucleic acid binding protein: stability, specificity and kinetics of complexes with oligonucleotides and deoxyribonucleic acid
118. A DNA-binding protein from E. coli. Isolation, characterization and its relationship with proteins H1 and B1
119. The chromosomal protein MC1 from the archaebacterium Methanasarcina sp. CHT155 induces DNA bending and supercoiling
120. Identification of a cold shock transcriptional enhancer of the Escherichia coli gene encoding nucleoid protein H-NS
121. The isolation and characterization of mutants of the integration host factor (IHF) of Escherichia coli with altered, expanded DNA-binding specificities
122. Characterization of Bacillus subtilis nucleoid DNA-binding proteins
123. Purification and characterization of the Hu-like protein HPB9 from the Bacillus subtilis nucleoid
124. Biosynthesis of cyclic 2,3-diphosphoglycerate. Isolation and characterization of 2-phosphoglycerate synthetase from Methanothermus fervidus
125. Two binding modes in Escherichia coli single strand binding protein-single-stranded DNA complexes
126. Escherichia coli single-stranded DNA-binding protein: multiple DNA-binding modes and cooperativities
127. Interactions of the nucleoid-associated DNA-binding protein H-NS with the regulatory region of the osmotically controlled ProU operon of Escherichia coli
128. Electron microscopic study of DNA complexes with proteins from the archaebacterium Sulfolobus acidocaldarius
129. Quantitation with monoclonal antibodies of Escherichia coli H protein suggests histone function
130. The theory of DNA bending
131. Binding protein dependent transport of glycine betaine and its osmotic regulation in Escherichia coli K-2
132. The osmotic gene encodes the DNA-binding protein H-NS (H1a), a component of the Escherichia coli K-12 nucleoid
133. Genetic and biochemical analysis of the integration host factor of Escherichia coli
134. Molecular cloning, nucleotide sequence and characterization of the Bacillus subtilis gene encoding the DNA-binding protein HBsu
135. An E. coli gene product required for lambda site-specific recombination
136. Asymmetric lateral distribution of unshielded phosphate groups in nucleosomal DNA and its role in DNA-bendng
137. Eucaryotic protein synthesis
138. DNA binding by the archaeal histone HMf results in positive supercoiling
139. Protein HU from the cyanobacterium Anabaena
140. Purification and properties of the Escherichia coli protein factor required for lambda integrative recombination
141. The role of Fis in trans activation of stable RNA operons of E. coli
142. Inactivation of the Fis gene leads to reduced growth rate
143. The E. coli Fis promoter is subject to stringent control and autoregulation
144. Identification of two functional regions in Fis: the N-terminus is required to promote Hin-mediated DNA inversion but not lambda excision
145. Sequence, regulationand functions of Fis in Salmonella typhimurium
146. 65 binding mode. Cation and anion effects and polynucleotide specificity
147. The chromatin-associated protein H-NS interacts with curved DNA to influence DNA topology and gene expression
148. Structure of the Escherichia coli Fis-DNA complex probed by protein conjugated with 1,10-phenanthroline copper(I) complex
149. HU and functional analogs in eukaryotes promote Hin invertasome assembly
150. Histone-like proteins and bacterial chromosome structure
151. Escherichia coli integration host factor bends the DNA at the ends of IS1 and in an insertion hotspot with multiple IHF binding sites
152. Binding of integration host factor (IHF) to the Escherichia coli sodA gene and its role in the regulation of a sodA-lacZ fusion gene
153. Gene regulation by proteins acting nearby and at a distance
154. Novel histone-like DNA-binding proteins in the nucleoid from the acidothermophillic archaebacterium Sulfolobus acidocaldarius that protect DNA against thermal denaturation
155. Archaebacterial histone-like proteins: purification and characterization of helix stabilizing DNA binding proteins from the acidothermophilic arachaebacterium Sulfolobus acidocaldarius
156. Molecular biology of methanogens
157. Structure of the nucleosome core particle at 7 AŸresolution
158. Escherichia coli protein H1a strongly compacts DNA in vitro
159. Evidence that eukaryotes and eocyte prokaryotes are immediate relatives
160. Bending of the bacteriophage lambda attachment site by Escherichia coli integration host factor
161. E. coli Fis protein activities ribosomal RNA transcription in vitro and in vivo
162. Functions of histone-like proteins in the initiation of DNA replication at oriC of Escherichia coli
163. Characterization of a novel low molecular weight DNA-binding protein from Escherichia coli
164. Localization of the HU protein on the E. coli nucleoid
165. Escherichia coli DNA-binding protein HU forms nucleosome-like structure with circular double stranded DNA
166. Regulation of HU protein synthesis in Escherichia coli
167. Studies on the noncooperative binding of the Escherichia coli DNA unwinding protein to single-stranded nucleic acids
168. Isolation and characterization of small heat-stable acid-soluble DNA-binding proteins from Bacillus subtilis
169. Purification and properties of the DNA-binding protein HPB12 from B. subtilis nucleoid
170. Sequences of the ssb gene and protein
171. HMf, a DNA-binding protein isolated from the hyperthermophilic archaeon Methanothermus fervidus, is most closely related to histones
172. Growth phase-dependent synthesis of histones in the archaeon Methanothermus fervidus
173. TF1, the bacteriophage SPO1-encoded type II DNA-binding protein, is essential for viral multiplication
174. Metabolism of formate in Methanobacterium formicicum
175. Universal nucleic acid-binding domain revealed by crystal structure of the B. subtilis major cold shock protein
176. More than just ‘histone-like’ proteins
177. Stoichiometry of DNA binding by the bacteriophage SPO1-encoded type II DNA-binding protein TF1
178. Thermoplasma acidophilum histone-like protein. Partial amino acid sequence suggestive of homology to eukaryotic histones
179. Nucleoprotein subunit structure in an unusual prokaryotic organism: Thermoplasma acidophilum
180. The archaebacterial histone HTa
181. Nucleosome-like structures associated with chromosomes of the archaebacterium Halobacterium salinarium
182. A molecular evolutionary framework for eukaryotic model organisms
183. A DNA unwinding protein isolated from Escherichia coli: its interaction with DNA and with DNA polymerases
184. ser expression and cell morphology
185. Physicochemical properties of a DNA-binding protein: Escherichia coli factor H1
186. H1a, an E. coli DNA-binding protein which accumulates in stationary phase, strongly compacts DNA in vitro
187. Lethal overproduction of the Escherichia coli nucleoid protein H-NS: ultramicroscopic and molecular autopsy
188. Alteration in the helical structure of polynucleotides by a nucleoid associated DNA binding protein from the archaebacterium Sulfolobus acidocaldarius
189. The integration host factor of Escherichia coli binds to bent DNA at the origin of replication of the plasmid pSC101
190. DNA bending by asymmetric phosphate neutralization
191. Histone HMf from the hyperthermophilic archaeon Methanothermus fervidus binds to DNA in vitro using physiological conditions
192. HMt, a histone-related protein from Methanobacterium thermoautotrophicum delta H
193. Chromosomal structure of the halophilic archaebacterium Halobacterium salinarium
194. 3-AŸresolution structure of a protein with histone-like properties in prokaryotes
195. Archaebacterial histone-like protein MC1 can exhibit a sequence-specific binding to DNA
196. DNA dependent RNA polymerases of the three orders of methanogens
197. Transcription in vivo and in vitro of the histone encoding gene HMfB from the hyperthermophilic archaeon Methanothermus fervidus
198. Cellular factors couple recombination with growth phase: characterization of new component in the lambda site-specific recombination pathway
199. Empirical estimation of protein-induced DNA bending angles: application to lamda site-specific recombination complexes
200. Conformational changes of DNA minicircles upon the binding of the archaebacterial histone-like protein MC1
201. Electron microscopic study of compaction of individual DNA molecules with histone H1 in surface films
202. Fis plays a role in Tn5 and IS50 transposition
203. A mutant of Escherichia coli deficient in a host function required for phage lambda integration and excission
204. Limited proteolysis studies on the Escherichia coli single-stranded DNA binding protein. Evidence for a functionally homologous domain in both the Escherichia coli and T4 DNA-binding proteins
205. A template-selective inhibitor of in vitro transcription
206. The thermostability of DNA-binding protein HU from bacilli
207. Towards a natural system of organisms: proposal for the domains Archaea, Bacteria and Eucarya
208. Identification of genes negatively regulated by Fis: Fis and Rpos comodulate growth phase dependent gene expression in E. coli
209. Isolation and characterization of nucleoid proteins from Escherichia coli
210. Isolation and mapping of Mu nu mutants which grow in him mutants of E. coli
211. The molecular structure of wild-type and a mutant Fis protein: relationship between mutational changes and recombinational enhancer function or DNA binding
212. In vivo and in vitro evidence for eucaryotic alpha-type DNA-polymerases in methanogens. Purification of the DNA-polymerase of Methanococcus vannielii
213. Interaction of DNA with DNA binding proteins. II. Displacement of Escherichia coli DNA unwinding protein and the condensed structure of DNA completed with protein HD