Conserved Protein Domain Family
ParB_N_like

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cd16411: ParB_N_like 
ParB N-terminal, parA -binding, 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: 319268
View PSSM: cd16411
Aligned: 24 rows
Threshold Bit Score: 138.887
Threshold Setting Gi: 653404144
Created: 26-Mar-2015
Updated: 18-Aug-2016
Structure
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Aligned Rows:
 
putative ParB
Feature 1: putative ParB Box II like motif [polypeptide binding site], 5 residue positions
Conserved feature residue pattern:G G R E AClick to see conserved feature residue pattern help
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 612172826  21 IPIDRIRVLNPRsRNQKVFSGLVESIATVGLKRPVTVTengadgegpFYDLVCGQGRMEAFKALGEtRIPAMVVEageAD 100
gi 607733595  12 VDISDIYIANPRkRNKFIHNEIKENIKTIGLKRPVSVRpvnn--enyKYALICGQGRLEAYIEYGEtKIPAIIKQvdeET 89
gi 431318797  10 IDISEIRIVNPRsRIKSIHDELVESIKNIGLKKPITVRlsdstcktyVYDLICGQGRIEAYEILGEkQIPAIVKSvdhED 89
gi 612502171   7 VPVSKIHVLNPRaRNQRQYRTIVENIEKIGLKRPITVTrrsqqgeedQFDLVCGQGRLEAYQLLGMdCIPSMVVSadeED 86
gi 699055237  12 IPIDEIIVANPRvRNSRIHQEITDNISAVGLKRPITVRrlsh-gaekSYALVCGQGRLESCKSLGHeHIPAIVVDaneEV 90
gi 223525227 147 RATIEIRVLNPRgRGRRQHRAIVDSIASVGLKRPITVSahcspdgttSYDLVCGQGRIEAVRLLGQtSIPARVINsdeCG 226
gi 448883113   2 IPLDQISVVNPReRGQKKFRQIAKNIANIGLKKPITVTpkpg--skdKFLLVCGQGRYEAYQTLGQdEIPCIVVDvseSK 79
gi 653404144  11 IRTLSIKVFNPRsRNKFKHAEITKSIDIAGLRKPVTVRriqd--knyEYALICGQGRLESLIMLKEeFVPAFIIDvdeET 88
gi 196226471  12 IPIESIRIINSReRDRVKHDQIRESIAKVGLKKPIQVSrrse-tdeaGYDLVYGEGRLKAFIALGAkEIPAIVVDlpkDE 90
gi 476683286   9 IKISDIKVVIPRsRNKLRHSEITESIDTSGLRKPITVRrivd--kkyQFALICGQGRLESLTALGEeLTPAIVLDideNK 86
                         90
                 ....*....|
Feature 1                  
gi 612172826 101 LYLISLIENL 110
gi 607733595  90 AHLMSLAENI 99
gi 431318797  90 GHIMSLAENI 99
gi 612502171  87 CMVMSLVENI 96
gi 699055237  91 GHVMSIVENI 100
gi 223525227 227 CLEMSLVENV 236
gi 448883113  80 LLLMSLVENL 89
gi 653404144  89 ALIMSLAENL 98
gi 196226471  91 RLLRSLVENM 100
gi 476683286  87 AYIMSLVENM 96

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