Conserved Protein Domain Family
ParB_N_like

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cd16407: 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: 319264
View PSSM: cd16407
Aligned: 69 rows
Threshold Bit Score: 116.078
Threshold Setting Gi: 524078400
Created: 11-May-2015
Updated: 18-Aug-2016
Structure
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Aligned Rows:
 
putative ParBarginine patch
Feature 1: putative ParB Box II [polypeptide binding site], 5 residue positions
Conserved feature residue pattern:G R R [RKH] AClick to see conserved feature residue pattern help
Evidence:
  • Comment:Motif identified in related ParB/Spo0J family proteins
  • Comment:partially conserved motif similar to Bacillus subtilis ParB Box II, which has been 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 511539446  34 LESLYPYAQHPFRv-lDDAKMDELVESIRENGVLEPALVRPrt--lGGYEIISGHRRKRACEKAGLeEMPVIIRELtDDE 110
gi 291543042   6 INKLHEFKDHPYQv-lDNDEMNNLIESVQQQGIMTPLIVRPlegttDEYEIISGHRRFRAAQKAGLtEVPAFIRPVsRDE 84
gi 167655385  10 IEKLHPFENHPYKv-qDNEEMDALAESIKMHGVVSPIIVRPlentaDEYEIISGHRRVMASRKAGItEVPALVVSLdRDA 88
gi 524695808  22 LTECRAFEGNPFAv-rDDAEMEMLKDSIRESGVLTPITVRAv---pDGYEIVSGHRRVHACLSVGLeMIPAIAEDMsHEQ 97
gi 323091822   9 IKDLTSAPDNLFKl-qMDSEMEQLIESIAENGVITPIISREie--nRKYEIISGHRRKFACEYLGLqTVSVLFRVLnLEE 85
gi 524374845  36 AEQVFPYARQPYSvdrPSADLVRLMDSIERTGIAEPLIVRPrs--eGGYEIISGHRRDYCAKVVGLdTRPVIVRDYsDED 113
gi 365260328  12 RSKLRPFRYHPYKv-kEDEDMANLVNSIKEEGVISPIIVRKvg--kDNYEILSGHRRFKACQILDIkEIPVIVKDIqMPE 88
gi 969858187  11 LNRLTEFPEHPFKv-rDDEFMDQLTDSIRSLGVLTPIVVRPe---gDAWQIISGHRRVHACEILDMeTIPAIVKDIeMDD 86
gi 806787187   2 QPDVTIRTDNPYHv-aDNDELQAIAESIRKHGVISPLVVRPrd--gGGYEIISGHRRKAACEKAGIaAVPAFIREMdRNA 78
gi 291543143   7 IDLLVPFENHPFKk-rNGIEQQELTESIKENGLLEPIIVRSfp--aGKYEIISGHRRVEACKELGItSIPVTIKELtKDE 83

                 ....*....
Feature 1                 
gi 511539446 111 SAILMVDSN 119
gi 291543042  85 AAIMLVDSN 93
gi 167655385  89 AAIVLVDSN 97
gi 524695808  98 AVIALVDSN 106
gi 323091822  86 AVITLVDSN 94
gi 524374845 114 ADILVVDYN 122
gi 365260328  89 AAIYVVDSN 97
gi 969858187  87 AIVMMVDSN 95
gi 806787187  79 AIIALVDSN 87
gi 291543143  84 AIVQMVDSN 92

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