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Conserved domains on  [gi|857890041|emb|CDT05455|]
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conserved hypothetical protein [Vibrio coralliirubri]

Protein Classification

ParB/RepB/Spo0J family partition protein( domain architecture ID 19785526)

ParB/RepB/Spo0J family partition protein which 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

CATH:  1.10.10.2830
Gene Ontology:  GO:0003677
PubMed:  16677298|17161598
SCOP:  4002475

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ParB_N_Srx cd16387
ParB N-terminal domain and sulfiredoxin protein-related families; The ParB N-terminal domain ...
 54-99 9.44e-05

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: 39.49  E-value: 9.44e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 857890041  54 EGIKDLIDSVKSNGFLKidNILVKKLDDSNYVVVEGNRRIATLKTL 99
Cdd:cd16387    3 EELEELAESIREHGVLQ--PIIVRPLPDGRYEIIAGERRWRAAKLA 46
Spo0J super family cl34278
Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, ...
 41-190 4.95e-04

Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, cell division, chromosome partitioning];


The actual alignment was detected with superfamily member COG1475:

Pssm-ID: 441084 [Multi-domain]  Cd Length: 241  Bit Score: 41.13  E-value: 4.95e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857890041  41 RRTLDmitegdrNEGIKDLIDSVKSNGFLkiDNILVKKLDDSNYVVVEGNRRIATLKTLshdyskGYDignvseelltnq 120
Cdd:COG1475   23 RRTFD-------EEALEELAASIREHGLL--QPILVRPLGDGRYEIIAGERRLRAAKLL------GLE------------ 75

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857890041 121 MIDVVEYDVGQDESESYLLLMGLRHvtkvKDWGDFEQSELVHDLHIDHGLSFSDISDKLGIHLIQVRRRI 190
Cdd:COG1475   76 TVPAIVRDLDDEEALELALIENLQR----EDLNPLEEARAYQRLLEEFGLTQEEIAERLGKSRSEVSNLL 141
 
Name Accession Description Interval E-value
ParB_N_Srx cd16387
ParB N-terminal domain and sulfiredoxin protein-related families; The ParB N-terminal domain ...
 54-99 9.44e-05

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: 39.49  E-value: 9.44e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 857890041  54 EGIKDLIDSVKSNGFLKidNILVKKLDDSNYVVVEGNRRIATLKTL 99
Cdd:cd16387    3 EELEELAESIREHGVLQ--PIIVRPLPDGRYEIIAGERRWRAAKLA 46
Spo0J COG1475
Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, ...
 41-190 4.95e-04

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: 41.13  E-value: 4.95e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857890041  41 RRTLDmitegdrNEGIKDLIDSVKSNGFLkiDNILVKKLDDSNYVVVEGNRRIATLKTLshdyskGYDignvseelltnq 120
Cdd:COG1475   23 RRTFD-------EEALEELAASIREHGLL--QPILVRPLGDGRYEIIAGERRLRAAKLL------GLE------------ 75

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857890041 121 MIDVVEYDVGQDESESYLLLMGLRHvtkvKDWGDFEQSELVHDLHIDHGLSFSDISDKLGIHLIQVRRRI 190
Cdd:COG1475   76 TVPAIVRDLDDEEALELALIENLQR----EDLNPLEEARAYQRLLEEFGLTQEEIAERLGKSRSEVSNLL 141
ParBc pfam02195
ParB/Sulfiredoxin domain; Proteins containing this domain include Escherichia coli plasmid ...
 51-97 1.72e-03

ParB/Sulfiredoxin domain; Proteins containing this domain include Escherichia coli plasmid protein ParB and mammalian Sulfiredoxin-1. ParB is involved in chromosome partition. It localizes to both poles of the predivisional cell following completion of DNA replication. Sulfiredoxin-1 contributes to oxidative stress resistance by reducing cysteine-sulfinic acid formed under exposure to oxidants in the peroxiredoxins PRDX1, PRDX2, PRDX3 and PRDX4.


Pssm-ID: 426651 [Multi-domain]  Cd Length: 90  Bit Score: 37.26  E-value: 1.72e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 857890041   51 DRNEGIKDLIDSVKSNGFLkiDNILVKKLDDSNYVVVEGNRRIATLK 97
Cdd:pfam02195  18 DSEESLEELAASIKKRGLL--QPIIVRKTPDGRYEIIAGERRLRAAK 62
 
Name Accession Description Interval E-value
ParB_N_Srx cd16387
ParB N-terminal domain and sulfiredoxin protein-related families; The ParB N-terminal domain ...
 54-99 9.44e-05

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: 39.49  E-value: 9.44e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 857890041  54 EGIKDLIDSVKSNGFLKidNILVKKLDDSNYVVVEGNRRIATLKTL 99
Cdd:cd16387    3 EELEELAESIREHGVLQ--PIIVRPLPDGRYEIIAGERRWRAAKLA 46
Noc_N cd16396
nucleoid occlusion protein, N-terminal domain, and related domains of the ParB partitioning ...
 54-99 2.61e-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: 39.51  E-value: 2.61e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 857890041  54 EGIKDLIDSVKSNGFLKidNILVKKLDDSNYVVVEGNRRIATLKTL 99
Cdd:cd16396   25 EEIEELAESIKEHGLLQ--PIVVRKTKDGGYEIVAGERRWRAAKLL 68
Spo0J COG1475
Chromosome segregation protein Spo0J, contains ParB-like nuclease domain [Cell cycle control, ...
 41-190 4.95e-04

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: 41.13  E-value: 4.95e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857890041  41 RRTLDmitegdrNEGIKDLIDSVKSNGFLkiDNILVKKLDDSNYVVVEGNRRIATLKTLshdyskGYDignvseelltnq 120
Cdd:COG1475   23 RRTFD-------EEALEELAASIREHGLL--QPILVRPLGDGRYEIIAGERRLRAAKLL------GLE------------ 75

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 857890041 121 MIDVVEYDVGQDESESYLLLMGLRHvtkvKDWGDFEQSELVHDLHIDHGLSFSDISDKLGIHLIQVRRRI 190
Cdd:COG1475   76 TVPAIVRDLDDEEALELALIENLQR----EDLNPLEEARAYQRLLEEFGLTQEEIAERLGKSRSEVSNLL 141
ParBc pfam02195
ParB/Sulfiredoxin domain; Proteins containing this domain include Escherichia coli plasmid ...
 51-97 1.72e-03

ParB/Sulfiredoxin domain; Proteins containing this domain include Escherichia coli plasmid protein ParB and mammalian Sulfiredoxin-1. ParB is involved in chromosome partition. It localizes to both poles of the predivisional cell following completion of DNA replication. Sulfiredoxin-1 contributes to oxidative stress resistance by reducing cysteine-sulfinic acid formed under exposure to oxidants in the peroxiredoxins PRDX1, PRDX2, PRDX3 and PRDX4.


Pssm-ID: 426651 [Multi-domain]  Cd Length: 90  Bit Score: 37.26  E-value: 1.72e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 857890041   51 DRNEGIKDLIDSVKSNGFLkiDNILVKKLDDSNYVVVEGNRRIATLK 97
Cdd:pfam02195  18 DSEESLEELAASIKKRGLL--QPIIVRKTPDGRYEIIAGERRLRAAK 62
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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