Conserved Protein Domain Family
RepB_primase

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pfam16793: RepB_primase 
RepB DNA-primase from phage plasmid
RepB_primase is a DNA-primase produced by P4-like phages. It is a zinc-independent primase unlike Pri-type primases. It takes up a dumbbell shaped consisting of an N-terminal catalytic domain separated by a long alpha-helix plus tether and a C-terminal helical-bundle domain. Primases are necessary for phage replication. RepBprime primases such as in this family recognize both ssiA and ssiB, ie only 1 single-stranded primase initiation site on each strand, independently of each other and then synthesize primers that are elongated by DNA polymerase III. The phage is thus replicated exclusively in leading strand mode.
Statistics
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PSSM-Id: 374806
Aligned: 12 rows
Threshold Bit Score: 151.131
Created: 26-Mar-2022
Updated: 17-Oct-2022
Structure
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Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
YP_002456005      23 PEDERVMVGYAEEATVQTDEngrkln----------------agwwpVPWKEGKYI-------NSrSNAYacisssIKTp 79 
jgi:Tint_0396     41 EIAARITPGTRKGAFIQIAElresa-----------------aaadwLDALKKAGAlnrrqppEG-ANIY------IRP- 95 
jgi:Galf_1531     23 DTRFDIGIGDANKALYFRRSglsrlrs--------------ldlqmrIPFFKAANIsgvgqvsRP-LNIY------VCA- 80 
jgi:CAP2UW1_4561  22 DLFASVGAEAFDITHTNLQQekrgfrpgq----------slaqarqsMPYLVPSAA-------RRqNNLI------IRP- 77 
jgi:Pnap_4637    215 RYAQAVDAQRYRVTSVRLKPdggrmtflldkragvsqgctpeevrqrMPRMQRLSE-------RG-ERID------YTP- 279
CAS:pLAtc1_p01   542 RYAEAVGAERYRVTSIKMYPdgkkqtfildkkdgvtrgftpeeiaqrMPEMLRLQR-------RA-ENLY------YTP- 606
jgi:Tint_2201    410 AVQKQMTALGVERLLVGIRDartglmmhrk--------wsrselersVPWLKRMNA-------RG-NDIY------VRP- 466
CCD03923           2 GVPEQVAALRVEKLLVRLADpfhper----------------rmsrrLPAAALTVGlvrewsdSG-YDVS------IAP- 57 
jgi:AciX9_3178    21 LLLRTESPAKTQQRVVTLEQalg---------------------pryLSWLAHENH-------AG-ANVY------VAAn 65 
tigr:ACP_3178     21 LLLRRENPRSVAQRVVRLETale---------------------pryRAWLAYENS-------TG-ANVY------VAAn 65 
jgi:AciPR4_2390   21 ILLRRQDAAAPMQRVVRLERvle---------------------tryMAWLSYENQ-------HGrNNIY------VAAn 66 
jgi:Terro_3046     5 ETVVRNMLQAIEAPLYDVGVlsdrgmlpgld------gitgdavlarLPLLKYRNA-------RG-SHIY------IRP- 63 
YP_002456005      80 npktgqmrywrgeASFGHGLALMVDDIGSGKGSKgdfnrdefrerlePTA------IVETSPNNYQFWYFFK---EPMSH 150
jgi:Tint_0396     96 -------------LHTASHPWILVDDIPAQRAQA-------------LAAqhagiaVQTSDDGNGQFWLLLD---KSLPH 146
jgi:Galf_1531     81 -------------AVTEPQSWLMMDDLTLNQSRR--------------VAgerthmIIQTSPGLHHLWLATS---RLISI 130
jgi:CAP2UW1_4561  78 -------------RAGADVTLVQLDDLAPDTLAHi-----------aPAAf----lILRTSPGGQQAWVAVTn--APRGF 127
jgi:Pnap_4637    280 --------------LSADKHYLLIDAMSQAKLDQllqd------gyrPAV------VLQSSPERFQALITVKkfgAFNDD 333
CAS:pLAtc1_p01   607 --------------LSDKKHHILIDDMDREKLERlihd------gyrPAV------VLESSPGNYQAIITVPklgTPHDR 660
jgi:Tint_2201    467 ---------------DGDHGLVLVDDLKAEALERmqre------gyaPAA------LLETSPGNFQAWVKLSe--APLSV 517
CCD03923          58 ---------------EAPDGLVVISRVTKPGLAKlsaa------glePAC------VVRGSA-RYDAFVRLApkgDPLGT 109
jgi:AciX9_3178    66 plrcgsrrrtkesIDSVRHLYLDIDEDGDARLAAlras------dsvPPAt----aVLSTSPHKHQALWRVD----GFNF 131
tigr:ACP_3178     66 plrsgsrkrtkenIASVRHLYLDIDTDGDARLAAlras------dlvPPPt----sILSTSPGKYQVLWRVE----GFDF 131
jgi:AciPR4_2390   67 plrpgsrkrtkecIASVRHLYLDIDTDGDARLAVlrts------dmvPPPt----sVLSTSPGKYQVLWRVE----DFHF 132
jgi:Terro_3046    64 ---------------SGEHRYTALDDLSEISLSRliad------gftPCA------VVETSAGNFQAWLKHP---AAFPK 113
YP_002456005     151 MLQ-----FKALLYSFvdqvlkkGGDNTVKDVSRYGRMPfGFNNKR-GEDgnfkyadengkPELVRLYHADYSKRYSPEE 224
jgi:Tint_0396    147 TARtd--iAKALAERL-------DGDPGAANGSQFGRLA-GFQQRKgNKT-----------GWTNVLADTTRTLMPWPAD 205
jgi:Galf_1531    131 AERka--cQQVLQQRY-------GGDAASVSGDHFGRLP-GFKNIKrGKW--------------VNFVDSKIVDRRADVD 186
jgi:CAP2UW1_4561 128 AAR--------LKEGT-------GADKEASGATRVA----GTANFKpAYApnfprvridaaQPGLNVTTQTLD------- 181
jgi:Pnap_4637    334 EVGrq--lARQLNTEY-------GNPDLLGGCIQPHPAP-GYVDRQsTLRqad------gaCWEVRLLQAERCECAKTLE 397
CAS:pLAtc1_p01   661 DVGnr--lSEALNREY--------GDRKLSGAIHPHRAP-GFENRKpKHQred------gsYPEVRLLKAERRECAKTLE 723
jgi:Tint_2201    518 AVRtr--aAQELAQHY-------GGDLNSADGRHFGRLA-GFTNRKpQHTrh-------nrQPYVLAQACPGTIARAAAA 580
CCD03923         110 APRvltaaARLVTAIA-------GQDPRA---VHWQRGG-MVVGTKrql----------sgGPPVKLYADDGGLAPAGRM 168
jgi:AciX9_3178   132 EQQea--aLKQLAIAF-------GGDPACTDCNRVLRIP-GFLNRKySPA------------------------------ 171
tigr:ACP_3178    132 ERQeq--mLKLLAIAF-------GGDPACTDCNRVLRIP-GFLNQKyNPA------------------------------ 171
jgi:AciPR4_2390  133 SQQeq--tLKLLAIAF-------GGDPACTDCNRVLRIP-GFLNRKyYPA------------------------------ 172
jgi:Terro_3046   114 LLGtf--aAQHLAARY-------DADPSAADWRRFGRLP-GFTNCKpKYKrpd------glFPFVRLKLHTGEQYPMAES 177
YP_002456005     225 IAQAFgvriimpqmkKVEINRDDWVYDQVWLKYAEHIcTKYKMGEAAGgqvqqnmsgkyrircpwgdehtngdpfgayFR 304
jgi:Tint_0396    206 RLLALt--------gEAGVSRVARACPDVLSPCAAPA-ALPSLSPAPA------------------------------RP 246
jgi:Galf_1531    187 VLLEL---------------------AEKQGFILPPLgGVVSAQPQANlh--------------------------naFA 219
jgi:CAP2UW1_4561 182 ---------------AMGVVAPARPIPVSLPPVASSSdSRTSKWPSYArclegap----------------igaggnpKR 230
jgi:Pnap_4637    398 IALRI----------SAEKGQQAAPQGKEAVKAVTPS----GHTPQPDpalalataaaldaywrhyrdvlsrhtagrvNL 463
CAS:pLAtc1_p01   724 LARQI----------DADYQRQAQERAQKALERAQAV---GDREVQPD-------------------------------- 758
jgi:Tint_2201    581 YLQQI----------AQGLDKEAEELERRERRDAL-----QSARPGAGrdpiqeyqrqa--------qrllaqygadaDL 637
CCD03923         169 LLERA----------ADVVEGVEDSRSMAYEGAVDPIgELDGIAGYNGplaeeqarqvye------qqaaisryygltDP 232
jgi:AciX9_3178   172 --HCV----------TVEYGSEAILSSADFRLPDVPAvTSLSLRSTARsaas-----------------------hkdTR 216
tigr:ACP_3178    172 --HRV----------TVEYPDDSVWTPGDFRLEIAATdTTAYALMNHGrkpp-----------------------rkhSN 216
jgi:AciPR4_2390  173 --YRV----------TVEYPDDSIWTPNDFEIDTGAVdAMLFAQEIPShrsl-----------------------gkhSN 217
jgi:Terro_3046   178 FIEKIkkl-----yeAREQERQARRLQAALSPQKGPRlTTLSLerfrts------------------------skyqdRP 228
YP_002456005     305 GPIPGAEHEYVFGCGHDT 322
jgi:Tint_0396    247 PAATGSRQRPAAGSGDQS 264
jgi:Galf_1531    220 SRVRSIAKPFIATGRNES 237
jgi:CAP2UW1_4561 231 TSADFIWCKIALSWGHGI 248
jgi:Pnap_4637    464 SRVDSMIAVRLRVTGHAQ 481
CAS:pLAtc1_p01   759 ---------ALKIDSRAS 767
jgi:Tint_2201    638 SRVDWMIATDMAKSGRFT 655
CCD03923         233 DAVDRVVAVAALKAGADP 250
jgi:AciX9_3178   217 SEQDWAWISAQIAQGKDA 234
tigr:ACP_3178    217 SESDWAWVSSQLRQGKDA 234
jgi:AciPR4_2390  218 SESDWAWVSHELANGKDA 235
jgi:Terro_3046   229 AAADIAFCVAAYANGMDE 246
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