Conserved Protein Domain Family
ParB_N_like_MT

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cd16403: ParB_N_like_MT 
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.
Statistics
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PSSM-Id: 319260
View PSSM: cd16403
Aligned: 154 rows
Threshold Bit Score: 97.1424
Threshold Setting Gi: 524181433
Created: 4-Mar-2016
Updated: 18-Aug-2016
Structure
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Aligned Rows:
 
putative ParB
Feature 1:putative ParB Box II like motif [polypeptide binding site]
Evidence:
  • Comment:Motif identified in related ParB/Spo0J family proteins
  • Comment:partial match to Spo0J motif
  • Comment:Bacillus subtilis ParB Box II shown to be essential for DNA loop formation in vitro and Spo0J complex formation in vivo
  • Comment:Mutations in B. subtilis (R79A, R80A, R82A) incapacitate Spo0J spreading from parS sites
  • Comment:ParB box may interact with a negatively charged region of another Spo0J molecule
  • Citation:PMID 9915704

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                      # ## ##                           
gi 564889576   8 PVDRLVPYiRNARtHSDDQIAQIAASIAEFGFTNPILIGeDEVIIAGHGRLMAAKALGLTEVPVIVLDhLTEAQRRALVI 87
gi 524181433  36 NLSEIIIPnNLSEkHSKNQLNKLIQAILKFGFSIPIIIDeRNCLISGYLRILAAKELGMTQIPVIILRnISETEANAIRL 115
gi 302193738  25 PIATLCIGgRQLRiRRKRDLEVMAASIRQFGFIVPVLIGaDNMIICGKGRVQAAHLLGMVEVPCIRVThLSEAERRVFAI 104
gi 630771376  21 PIGDLNIPrRQLRrHAKSQIRKIARSLDTFGFVSPILIDqHNNVIAGVARIQAAKELGLITALVLRVEhLSDEEIRLYRI 100
gi 385736765  21 PIGELRPLgHQTRrHPQSQIEKLAASLREFGFVLPIIVDaTRRVVAGWAMVLAAKLLGLDVVPAVTIVdLGEAQLRVLKL 100
gi 83851302   20 SVADLRPHpRNVKkHPERQLRLLADEIKRDGFNAPIAVWrDTFVIAGEGRLEAAKLAGLTEIPGIDCNhLDEAGARRFML 99
gi 945869242  11 RVDELKPPrRSLRnHNRKNLNMLRASMEQSGMVIPIIVDeNNYIIDGHARWVVAKVLGIKVVPTICLAnRTEAEKIALQM 90
gi 88699024   10 EIASLHVRdAHPRkHPEKQLKKLTQAISASGIVMPLVIDgEGTVFAGAARLEALKRLGITTAPVLLVEhLCEAELRAYAL 89
gi 928223747   9 DPHKLVSSnRPLRhHSTAKLNKLEANLLEFGFVVPLIVDrDNRVIAGEARLALSKTLAMPKVPVIKAKhLNQAQAKAFQI 88
gi 806529896   6 KLDDITVNaRNPReHPQKQLHMLAQAVSATRILNPLMLDeHGSLLAGHARLEVARMLGLKHVPVIRAAkLTEAQKRTFIL 85

                 ....*...
Feature 1                
gi 564889576  88 ADNRIAEN 95
gi 524181433 116 LTGWQKIQ 123
gi 302193738 105 AENQLGQL 112
gi 630771376 101 ADNRLAEE 108
gi 385736765 101 TLNRLVED 108
gi 83851302  100 ADNRLGEL 107
gi 945869242  91 ALNRLVEL 98
gi 88699024   90 ADNRIAED 97
gi 928223747  89 ADNKLVEL 96
gi 806529896  86 SDNQIATQ 93

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