Conserved Protein Domain Family
ParB_N_like

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cd16408: ParB_N_like 
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.
Statistics
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PSSM-Id: 319265
View PSSM: cd16408
Aligned: 22 rows
Threshold Bit Score: 98.0827
Threshold Setting Gi: 576978956
Created: 18-Feb-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 158141151  36 LIPFKNHPFkLYEGQRLEDMVESIKEHGVITPIIVRPmpi---------qeEQYEILSGHNRANAAKIVGLeKIPAVIKE 106
gi 302198529  42 MESFPNHRFkLYEGQQLTDMVDSICQFGILLPIILWYte-----------dGRYIILSGHNRKNAAQLAGFaKGPVIIRE 110
gi 542978790  61 FPDHEEHFP-LYTGARLEDMVESIRRHGVQSPILVWKta-----------eGTYIIISGHNRVNASKIAGLtTIPAVIRT 128
gi 288868577  64 MKPFSDHRFkLYTGKRLEDMVDSIRNYGILQPLILWHr------------rEEYILLSGYNRRNAGILAGLkKAPVVIKE 131
gi 554919316  45 LIPYSRNPFkLYEGERLEEMEKSILRYGILQPILVREie----------gsSKYEILAGHNRYNVAKILSE-TDKRFLKV 113
gi 576978956  74 LSDSPNNVFkEYDEKKKKEMVDSINEHGVLEAIFVRPvaciedeklkryvtGKYEILAGHNRVTCAREAGLtEIPAIIVE 153
gi 576979361  51 LQESSLNHFhAISGEEWDEFVASIKSHGILTPITVRPia-----------dGKYEILAGHNRVRGAKTAGItEVPAIIKD 119
gi 308739185  41 LVPSPFHPIpLYGEEKEKEMVESIKAFGVLQPILIREski---------qiGKYEILNGRNRVHCSELAGKtTIPYILEE 111
gi 524453058  45 LEHFPEHPFeLYTGERFEDLKESIREHGVLTPVLVRKld-----------nDNYQILSGHNRCECAKAVGFkTVPCVVLS 113
gi 524509304  43 PYTESLHPFkSYTVDKIDELAESIKVNGLLQPIIVSRks-----------dGRYMIIAGHNRFRACQKNNMdTIDAVIRN 111
                         90       100
                 ....*....|....*....|.
Feature 1                             
gi 158141151 107 GLtd------eEAMLIVTETN 121
gi 302198529 111 NLty------eDAVLIVTETN 125
gi 542978790 129 DLtq------eTAEDLFYEMN 143
gi 288868577 132 NLsh------eEAVLIMAETN 146
gi 554919316 114 PVrilrgiddeTAELIVSESN 134
gi 576978956 154 ADd-------sTAVVFITQTN 167
gi 576979361 120 VDd-------vEASIIIADTN 133
gi 308739185 112 YSdadaqyvtlDAIIQQRGFN 132
gi 524453058 114 NLtd------dDALMIVLDSN 128
gi 524509304 112 ELta------tQRKLMMVDTN 126

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