plasmid partitioning protein RepB C-terminal domain-containing protein [Agrobacterium fabrum]
Protein Classification
ParB/RepB/Spo0J family partition protein( domain architecture ID 11979185)
ParB/RepB/Spo0J family partition protein may be involved in segregation and competition between plasmids and chromosomes, such as the ParB/SpoJ-type DNA-binding component of the prokaryotic parABS partitioning system
List of domain hits
| Name | Accession | Description | Interval | E-value | ||||
| RepB | pfam07506 | RepB plasmid partitioning protein; This family includes proteins with sequence similarity to ... |
101-283 | 2.52e-66 | ||||
RepB plasmid partitioning protein; This family includes proteins with sequence similarity to the RepB partitioning protein of the large Ti (tumour-inducing) plasmids of Agrobacterium tumefaciens. : Pssm-ID: 311449 Cd Length: 185 Bit Score: 205.40 E-value: 2.52e-66
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| ParB_N_Srx super family | cl28891 | ParB N-terminal domain and sulfiredoxin protein-related families; The ParB N-terminal domain ... |
23-96 | 2.52e-08 | ||||
ParB N-terminal domain and sulfiredoxin protein-related families; The ParB N-terminal domain/Sulfiredoxin (Srx) superfamily contains proteins with diverse activities. Many of the families are involved in segregation and competition between plasmids and chromosomes. Several families share similar activities with the N-terminal domain of ParB (Spo0J in Bacillus subtilis), a DNA-binding component of the prokaryotic parABS partitioning system. Also within this superfamily is sulfiredoxin (Srx; reactivator of oxidatively inactivated 2-cys peroxiredoxins), RepB N-terminal domain (plasmid segregation replication protein B like protein), nucleoid occlusion protein, KorB N-terminal domain partition protein of low copy number plasmid RK2, irbB (immunoglobulin-binding regulator that activates eib genes), N-terminal domain of sopB protein (promotes proper partitioning of F1 plasmid), fertility inhibition factors OSA and FiwA,DNA sulfur modification protein DndB, and a ParB-like toxin domain. Other activities includes a StrR (regulator in the streptomycin biosynthetic gene cluster), and a family containing a Pyrococcus furiosus nuclease and putative transcriptional regulators sbnI (Staphylococcus aureus siderophore biosynthetic gene cluster ). Nuclease activity has also been reported in Arabidopsis Srx. The actual alignment was detected with superfamily member cd16401: Pssm-ID: 452888 [Multi-domain] Cd Length: 85 Bit Score: 50.30 E-value: 2.52e-08
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| Name | Accession | Description | Interval | E-value | |||||
| RepB | pfam07506 | RepB plasmid partitioning protein; This family includes proteins with sequence similarity to ... |
101-283 | 2.52e-66 | |||||
RepB plasmid partitioning protein; This family includes proteins with sequence similarity to the RepB partitioning protein of the large Ti (tumour-inducing) plasmids of Agrobacterium tumefaciens. Pssm-ID: 311449 Cd Length: 185 Bit Score: 205.40 E-value: 2.52e-66
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| Spo0J | COG1475 | Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, ... |
10-232 | 1.40e-16 | |||||
Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, cell division, chromosome partitioning]; Pssm-ID: 441084 [Multi-domain] Cd Length: 241 Bit Score: 77.34 E-value: 1.40e-16
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| ParB_N_like_MT | cd16401 | ParB N-terminal-like domain, some attached to C-terminal S-adenosylmethionine-dependent ... |
23-96 | 2.52e-08 | |||||
ParB N-terminal-like domain, some attached to C-terminal S-adenosylmethionine-dependent methyltransferase domain; This family represents domains related to the N-terminal domain of ParB, a DNA-binding component of the prokaryotic parABS partitioning system, fused to a variety of C-terminal domains, including S-adenosylmethionine-dependent methyltransferase-like domains. parABS contributes to the efficient segregation of chromosomes and low-copy number plasmids to daughter cells during prokaryotic cell division. The process includes the parA (Walker box) ATPase, the ParB DNA-binding protein and a parS cis-acting DNA sites. Binding of ParB to centromere-like parS sites is followed by non-specific binding to DNA ("spreading", which has been implicated in gene silencing in plasmid P1) and oligomerization of additional ParB molecules near the parS sites. It has been proposed that ParB-ParB cross-linking compacts the DNA, binds to parA via the N-terminal region, and leads to parA separating the ParB-parS complexes and the recruitment of the SMC (structural maintenance of chromosomes) complexes. The ParB N-terminal domain of Bacillus subtilis and other species contains a Arginine-rich ParB Box II with residues essential for bridging of the ParB-parS complexes. The arginine-rich ParB Box II consensus (I[VIL]AGERR[FYW]RA[AS] identified in several species is partially conserved with this family and related families. Mutations within the basic columns particularly debilitate spreading from the parS sites and impair SMC recruitment. The C-terminal domain contains a HTH DNA-binding motif and is the primary homo-dimerization domain, and binds to parS DNA sites. Additional homo-dimerization contacts are found along the N-terminal domain, but dimerization of the N-terminus may only occur after concentration at ParB-parS foci. Pssm-ID: 319258 [Multi-domain] Cd Length: 85 Bit Score: 50.30 E-value: 2.52e-08
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| PRK13832 | PRK13832 | plasmid partitioning protein; Provisional |
40-95 | 8.41e-03 | |||||
plasmid partitioning protein; Provisional Pssm-ID: 184353 [Multi-domain] Cd Length: 520 Bit Score: 37.76 E-value: 8.41e-03
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| Name | Accession | Description | Interval | E-value | |||||
| RepB | pfam07506 | RepB plasmid partitioning protein; This family includes proteins with sequence similarity to ... |
101-283 | 2.52e-66 | |||||
RepB plasmid partitioning protein; This family includes proteins with sequence similarity to the RepB partitioning protein of the large Ti (tumour-inducing) plasmids of Agrobacterium tumefaciens. Pssm-ID: 311449 Cd Length: 185 Bit Score: 205.40 E-value: 2.52e-66
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| Spo0J | COG1475 | Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, ... |
10-232 | 1.40e-16 | |||||
Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, cell division, chromosome partitioning]; Pssm-ID: 441084 [Multi-domain] Cd Length: 241 Bit Score: 77.34 E-value: 1.40e-16
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| ParB_N_like_MT | cd16401 | ParB N-terminal-like domain, some attached to C-terminal S-adenosylmethionine-dependent ... |
23-96 | 2.52e-08 | |||||
ParB N-terminal-like domain, some attached to C-terminal S-adenosylmethionine-dependent methyltransferase domain; This family represents domains related to the N-terminal domain of ParB, a DNA-binding component of the prokaryotic parABS partitioning system, fused to a variety of C-terminal domains, including S-adenosylmethionine-dependent methyltransferase-like domains. parABS contributes to the efficient segregation of chromosomes and low-copy number plasmids to daughter cells during prokaryotic cell division. The process includes the parA (Walker box) ATPase, the ParB DNA-binding protein and a parS cis-acting DNA sites. Binding of ParB to centromere-like parS sites is followed by non-specific binding to DNA ("spreading", which has been implicated in gene silencing in plasmid P1) and oligomerization of additional ParB molecules near the parS sites. It has been proposed that ParB-ParB cross-linking compacts the DNA, binds to parA via the N-terminal region, and leads to parA separating the ParB-parS complexes and the recruitment of the SMC (structural maintenance of chromosomes) complexes. The ParB N-terminal domain of Bacillus subtilis and other species contains a Arginine-rich ParB Box II with residues essential for bridging of the ParB-parS complexes. The arginine-rich ParB Box II consensus (I[VIL]AGERR[FYW]RA[AS] identified in several species is partially conserved with this family and related families. Mutations within the basic columns particularly debilitate spreading from the parS sites and impair SMC recruitment. The C-terminal domain contains a HTH DNA-binding motif and is the primary homo-dimerization domain, and binds to parS DNA sites. Additional homo-dimerization contacts are found along the N-terminal domain, but dimerization of the N-terminus may only occur after concentration at ParB-parS foci. Pssm-ID: 319258 [Multi-domain] Cd Length: 85 Bit Score: 50.30 E-value: 2.52e-08
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| ParB_N_Srx | cd16387 | ParB N-terminal domain and sulfiredoxin protein-related families; The ParB N-terminal domain ... |
36-88 | 7.46e-06 | |||||
ParB N-terminal domain and sulfiredoxin protein-related families; The ParB N-terminal domain/Sulfiredoxin (Srx) superfamily contains proteins with diverse activities. Many of the families are involved in segregation and competition between plasmids and chromosomes. Several families share similar activities with the N-terminal domain of ParB (Spo0J in Bacillus subtilis), a DNA-binding component of the prokaryotic parABS partitioning system. Also within this superfamily is sulfiredoxin (Srx; reactivator of oxidatively inactivated 2-cys peroxiredoxins), RepB N-terminal domain (plasmid segregation replication protein B like protein), nucleoid occlusion protein, KorB N-terminal domain partition protein of low copy number plasmid RK2, irbB (immunoglobulin-binding regulator that activates eib genes), N-terminal domain of sopB protein (promotes proper partitioning of F1 plasmid), fertility inhibition factors OSA and FiwA,DNA sulfur modification protein DndB, and a ParB-like toxin domain. Other activities includes a StrR (regulator in the streptomycin biosynthetic gene cluster), and a family containing a Pyrococcus furiosus nuclease and putative transcriptional regulators sbnI (Staphylococcus aureus siderophore biosynthetic gene cluster ). Nuclease activity has also been reported in Arabidopsis Srx. Pssm-ID: 319246 [Multi-domain] Cd Length: 54 Bit Score: 42.58 E-value: 7.46e-06
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| ParB_N_like | cd16408 | ParB N-terminal, parA -binding, -like domain of bacterial and plasmid parABS partitioning ... |
36-94 | 8.76e-05 | |||||
ParB N-terminal, parA -binding, -like domain of bacterial and plasmid parABS partitioning systems; This family represents the N-terminal domain of ParB, a DNA-binding component of the prokaryotic parABS partitioning system. parABS contributes to the efficient segregation of chromosomes and low-copy number plasmids to daughter cells during prokaryotic cell division. The process includes the parA (Walker box) ATPase, the ParB DNA-binding protein and a parS cis-acting DNA sites. Binding of ParB to centromere-like parS sites is followed by non-specific binding to DNA ("spreading", which has been implicated in gene silencing in plasmid P1) and oligomerization of additional ParB molecules near the parS sites. It has been proposed that ParB-ParB cross-linking compacts the DNA, binds to parA via the N-terminal region, and leads to parA separating the ParB-parS complexes and the recruitment of the SMC (structural maintenance of chromosomes) complexes. The ParB N-terminal domain of Bacillus subtilis and other species contains a Arginine-rich ParB Box II with residues essential for bridging of the ParB-parS complexes. The arginine-rich ParB Box II consensus (I[VIL]AGERR[FYW]RA[AS] identified in several species is partially conserved with this family and related families. Mutations within the basic columns particularly debilitate spreading from the parS sites and impair SMC recruitment. The C-terminal domain contains a HTH DNA-binding motif and is the primary homo-dimerization domain, and binds to parS DNA sites. Additional homo-dimerization contacts are found along the N-terminal domain, but dimerization of the N-terminus may only occur after concentration at ParB-parS foci. Pssm-ID: 319265 [Multi-domain] Cd Length: 84 Bit Score: 40.30 E-value: 8.76e-05
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| Noc_N | cd16396 | nucleoid occlusion protein, N-terminal domain, and related domains of the ParB partitioning ... |
13-94 | 2.77e-04 | |||||
nucleoid occlusion protein, N-terminal domain, and related domains of the ParB partitioning protein family; Nucleoid occlusion protein has been shown in Bacillus subtilis to bind to specific DNA sequences on the chromosome (Noc-binding DNA sequences, NBS), inhibiting cell division near the nucleoid and thereby protecting the chromosome. This N-terminal domain is related to the N-terminal domain of ParB/repB partitioning system proteins. Pssm-ID: 319254 [Multi-domain] Cd Length: 95 Bit Score: 39.13 E-value: 2.77e-04
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| ParB_N_like_MT | cd16403 | ParB N-terminal-like domain, some attached to C-terminal S-adenosylmethionine-dependent ... |
38-92 | 4.44e-03 | |||||
ParB N-terminal-like domain, some attached to C-terminal S-adenosylmethionine-dependent methyltransferase; This family represents domains related to the N-terminal domain of ParB, a DNA-binding component of the prokaryotic parABS partitioning system, fused to a variety of C-terminal domains, including S-adenosylmethionine-dependent methyltransferase-like domains. parABS contributes to the efficient segregation of chromosomes and low-copy number plasmids to daughter cells during prokaryotic cell division. The process includes the parA (Walker box) ATPase, the ParB DNA-binding protein and a parS cis-acting DNA sites. Binding of ParB to centromere-like parS sites is followed by non-specific binding to DNA ("spreading", which has been implicated in gene silencing in plasmid P1) and oligomerization of additional ParB molecules near the parS sites. It has been proposed that ParB-ParB cross-linking compacts the DNA, binds to parA via the N-terminal region, and leads to parA separating the ParB-parS complexes and the recruitment of the SMC (structural maintenance of chromosomes) complexes. The ParB N-terminal domain of Bacillus subtilis and other species contains a Arginine-rich ParB Box II with residues essential for bridging of the ParB-parS complexes. The arginine-rich ParB Box II consensus (I[VIL]AGERR[FYW]RA[AS] identified in several species is partially conserved with this family and related families. Mutations within the basic columns particularly debilitate spreading from the parS sites and impair SMC recruitment. The C-terminal domain contains a HTH DNA-binding motif and is the primary homo-dimerization domain, and binds to parS DNA sites. Additional homo-dimerization contacts are found along the N-terminal domain, but dimerization of the N-terminus may only occur after concentration at ParB-parS foci. Pssm-ID: 319260 [Multi-domain] Cd Length: 88 Bit Score: 35.51 E-value: 4.44e-03
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| PRK13832 | PRK13832 | plasmid partitioning protein; Provisional |
40-95 | 8.41e-03 | |||||
plasmid partitioning protein; Provisional Pssm-ID: 184353 [Multi-domain] Cd Length: 520 Bit Score: 37.76 E-value: 8.41e-03
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| pNOB8_ParB_N_like | cd16404 | pNOB8 ParB-like N-terminal domain, plasmid partitioning system protein domain; archaeal pNOB8 ... |
36-94 | 8.86e-03 | |||||
pNOB8 ParB-like N-terminal domain, plasmid partitioning system protein domain; archaeal pNOB8 ParB acts in a plasmid partitioning system made up of 3 parts: AspA, ParA motor protein, and ParB, which links ParA to the protein-DNA superhelix. As demonstrated in Sulfolobus, AspA spreads along DNA, which allows ParB binding, and links to the Walker-motif containing ParA motor protein. The Sulfolobus ParB C-terminal domain resembles eukaryotic segregation protein CenpA, and other histones. This family is related to the N-terminal domain of ParB (Spo0J in Bacillus subtilis), a DNA-binding component of the prokaryotic parABS partitioning system and related proteins. Pssm-ID: 319261 [Multi-domain] Cd Length: 69 Bit Score: 34.17 E-value: 8.86e-03
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| ParB_N_like_MT | cd16844 | ParB N-terminal-like domain, some attached to C-terminal S-adenosylmethionine-dependent ... |
39-90 | 9.46e-03 | |||||
ParB N-terminal-like domain, some attached to C-terminal S-adenosylmethionine-dependent methyltransferase domain; This family represents domains related to the N-terminal domain of ParB, a DNA-binding component of the prokaryotic parABS partitioning system, fused to a variety of C-terminal domains, including S-adenosylmethionine-dependent methyltransferase-like domains and DUF4417. parABS contributes to the efficient segregation of chromosomes and low-copy number plasmids to daughter cells during prokaryotic cell division. The process includes the parA (Walker box) ATPase, the ParB DNA-binding protein and a parS cis-acting DNA sites. Binding of ParB to centromere-like parS sites is followed by non-specific binding to DNA ("spreading", which has been implicated in gene silencing in plasmid P1) and oligomerization of additional ParB molecules near the parS sites. It has been proposed that ParB-ParB cross-linking compacts the DNA, binds to parA via the N-terminal region, and leads to parA separating the ParB-parS complexes and the recruitment of the SMC (structural maintenance of chromosomes) complexes. The ParB N-terminal domain of Bacillus subtilis and other species contains a Arginine-rich ParB Box II with residues essential for bridging of the ParB-parS complexes. The arginine-rich ParB Box II consensus (I[VIL]AGERR[FYW]RA[AS] identified in several species is partially conserved with this family and related families. Mutations within the basic columns particularly debilitate spreading from the parS sites and impair SMC recruitment. The C-terminal domain contains a HTH DNA-binding motif and is the primary homo-dimerization domain, and binds to parS DNA sites. Additional homo-dimerization contacts are found along the N-terminal domain, but dimerization of the N-terminus may only occur after concentration at ParB-parS foci. Pssm-ID: 319272 [Multi-domain] Cd Length: 54 Bit Score: 33.78 E-value: 9.46e-03
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