|
Name |
Accession |
Description |
Interval |
E-value |
| COG3378 |
COG3378 |
DNA primase, phage- or plasmid-associated [Mobilome: prophages, transposons]; |
358-765 |
4.64e-109 |
|
DNA primase, phage- or plasmid-associated [Mobilome: prophages, transposons];
Pssm-ID: 442605 [Multi-domain] Cd Length: 403 Bit Score: 338.45 E-value: 4.64e-109
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 358 RYENGIWKVITPsDFARDVAGLFQRL-----RAPFSSGRIASVVETLKLIIPQQEAPARRLIGFRNGVLDTRSGIFSPHS 432
Cdd:COG3378 10 VYDGGRWEEDDG-EVRRLIKELLRAIlakwaKKSRSSRRIKAVLELLKAELPDELDADPNLINVKNGVLDLRTGELRPHS 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 433 KSHWLRTLCDVDFTPpvegetlKTHAPNFWRWLDRAASGNPTKRDVILAALFMVLANRYDWQLFLEVTGPGGSGKSILAE 512
Cdd:COG3378 89 PEDYLTKVLPVEYDP-------DAKCPRWLKFLDEIFPGDKELIDLLQEALGYCLTGRTSEQKFFFLYGPGGNGKSTFLN 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 513 IATMLAGEDNATSADIDTLEDPR-KRASLIGFSLIRLPDQ-EKWSGDGAGLKAITGGDAVSVDPKYQNPYSTHIPAVILA 590
Cdd:COG3378 162 LLTALLGKDNASSASLETLTENRfDLARLKGKRLNIASELeEGYRLDESLLKALTGGDPITARRKYKDPFSFKPTAKLLF 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 591 VNNNPMRFTDRSGGVSRRRVIIHFPEQIAPEERDPQLRDKIARELAVIVRQLMQQFSDPMSARSLLQSQQNSDEALSIKR 670
Cdd:COG3378 242 ATNHLPRIRDTDDGIWRRLLIIPFNVTFPEEERDPNLKEKLLEELPGILNWALEGLLRLLENGGLTEPESVKEATEEYRE 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 671 DADPTFDFCGYLEALPEPDgmymgnaniipRQPRLYLYHAYLVYMEAHGYRnALSLTMFGKglsaMLKEYGLNYEKRRTN 750
Cdd:COG3378 322 ESDPLGAFLEECCELDPGA-----------RVPKKDLYEAYREWCEDNGEK-PLSKRTFGK----ELKKLGFEYEKRRTN 385
|
410
....*....|....*...
gi 839730638 751 QGMQ---TNLALREESNA 765
Cdd:COG3378 386 GGKRrgyRGIRLKDDSDS 403
|
|
| COG4643 |
COG4643 |
Uncharacterized domain associated with phage/plasmid primase [Mobilome: prophages, transposons] ... |
1-417 |
5.38e-92 |
|
Uncharacterized domain associated with phage/plasmid primase [Mobilome: prophages, transposons];
Pssm-ID: 443681 [Multi-domain] Cd Length: 435 Bit Score: 295.23 E-value: 5.38e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 1 MKMNVTDTVKQACGHWPRILPALGMkVIKNRHQACPvCGGADRFRFDDKEGR--GTWFCNQCG--AGDGLKLVEKVFGIS 76
Cdd:COG4643 1 MSTNVKEVKAAARGRWPDILAALGL-DPPALHGPCP-CGGKDRFRFDDKRGRksGWYVCNQCGppAGDGLDLLMKVFGWD 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 77 ASEAAGKVNAVTGHLPPV--------APEVMAAADAGTEAERKAAAALAVRLLEKTRPAT--GNAYLTRKGFAGRECLTL 146
Cdd:COG4643 79 FKEAALGLDAKGRELTPEeraaararAAAARAAREAEREARQAAAARRAAALWAEARPATpgDHPYLARKGLAAHGLRFH 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 147 TTSHKTGGVayragdVAVPLYDESGTLVNLQLINAEGLKRTLKGGQVKGACHLIDGQKQAGKRLWIAEGYATALTVHHLT 226
Cdd:COG4643 159 PALLLPGGA------LLVPLTDADGELVTLQRIYLDGEKRFLKGGRKKGAFIRIGPLPPPGGTLLIAEGYATALSVHEAT 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 227 GETVMVALSSVNLLSLASLARQKHPACQIILAADRDLNGD---GQTKAAAAAAACEGVVALPPV----FGDWNDAVMLRG 299
Cdd:COG4643 233 GLPVVAALDAGNLLPVAQALRERYPVAELIIAADNDRNTDgnpGQAAAEEAARAVGGLVALPPFppkkGTDFNDLHQARG 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 300 EDTTRKAIYAAIRPAAQSPF--DTMSEAEFTAMSASDKAMRVHEHYGEALAVDANGQLLSRYENGIWKVITPSDFARDVA 377
Cdd:COG4643 313 LEAVRAAFEAALYQPAGQTAaaVALALAAVGSATAEVAAALALAPSAVEGVGLSEDDAAIAADLRWGAALRPSLGAAAGL 392
|
410 420 430 440
....*....|....*....|....*....|....*....|
gi 839730638 378 GLFQRLRAPFSSGRIASVVETLKLIIPQQEAPARRLIGFR 417
Cdd:COG4643 393 RLLLAAEAGEDAAKKAALALTKLASLAAQLPLDGLSLSDA 432
|
|
| primase_Cterm |
TIGR01613 |
phage/plasmid primase, P4 family, C-terminal domain; This model represents a clade within a ... |
412-720 |
4.68e-27 |
|
phage/plasmid primase, P4 family, C-terminal domain; This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus. [DNA metabolism, DNA replication, recombination, and repair, Mobile and extrachromosomal element functions, Prophage functions]
Pssm-ID: 273716 [Multi-domain] Cd Length: 304 Bit Score: 112.05 E-value: 4.68e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 412 RLIGFRNGVLDTRSGIFSPHSKSHWLRTLCDVDFTPpvegetlKTHAPNFWRWLDRAASGNPTKRDVILAALFMVLANRY 491
Cdd:TIGR01613 1 YKLNVANGVYDLRTGQLEPHDPDEIHTRKITTEYDP-------KADCPTWNGFLLETFGGDNELIEYLQRVIGYSLTGNY 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 492 DWQLFLEVTGPGGSGKSILAEIATMLAGEDNaTSADIDTL-----EDPRKRASLIGFSLIRLPDQEKWS-GDGAGLKAIT 565
Cdd:TIGR01613 74 TEQKLFFLYGNGGNGKSTFQNLLSNLLGDYA-ITAVASLKmnelsEHRFGLARLEGKRAVIGDEVQKGYrDDESTFKSLT 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 566 GGDAVSVDPKYQNPYS-THIPAVILAVNNNPmRFTDRSGGVSRRRVIIHFPEQIAPEERDPQLRDKIARELAVIVRQLMQ 644
Cdd:TIGR01613 153 GGDTITARFKNKDPFEfTPKFTLVQSTNHLP-RIRGFDGGIKRRLRIIPFTKVFPGEKKNKALKEDYINEKDVILYWAVE 231
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 839730638 645 QFSDPMSARSLLQSQQnSDEALS-IKRDADPTFDFcgyleaLPEpdgmyMGNANIIPRQPRLYLYHAYLVYMEAHGY 720
Cdd:TIGR01613 232 GIRLDQRIGDFSIPKA-VLEATEeYKEENDVVARF------LEE-----CCDDSEGEKVPVRFVYEAYKEWCEEGGY 296
|
|
| D5_N |
smart00885 |
D5 N terminal like; This domain is found in D5 proteins of DNA viruses and bacteriophage P4 ... |
336-462 |
7.37e-26 |
|
D5 N terminal like; This domain is found in D5 proteins of DNA viruses and bacteriophage P4 DNA primases phages.
Pssm-ID: 197953 [Multi-domain] Cd Length: 141 Bit Score: 103.60 E-value: 7.37e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 336 AMRVHEHYGEALAVDANGQLLSRYENGIWKVITPSDFARDVAGLFQRLRAPFSSG----------RIASVVETLKL---I 402
Cdd:smart00885 1 AERLAEHYGDRLRYVPETGKWYVYDGGIWEPDEDLELARKLIRALLPEAAELSERkklrdevkkaLTASALEALLKeapV 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 403 IPQQEAPARRLIGFRNGVLDTRSGIFSPHSKSHWLRTLCDVDFTPPVEGETLKTHAPNFW 462
Cdd:smart00885 81 TPEELDADPHLINFPNGVLDLRTGELRPHDPEDYITKKIPVAYDPNAKCPRWDGFLNEIF 140
|
|
| Pox_D5 |
pfam03288 |
Poxvirus D5 protein-like; This family includes D5 from Poxviruses which is necessary for viral ... |
671-769 |
8.07e-22 |
|
Poxvirus D5 protein-like; This family includes D5 from Poxviruses which is necessary for viral DNA replication, and is a nucleic acid independent nucleoside triphosphatase. Members of this family are also found outside of poxviruses. This domain is a DNA-binding winged HTH domain.
Pssm-ID: 367437 [Multi-domain] Cd Length: 85 Bit Score: 90.09 E-value: 8.07e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 671 DADPTFDFCGYLEALPEpdgmymgnaniIPRQPRLYLYHAYLVYMEAHGYRNALSLTMFGKGLSAMLKEyglNYEKRRTN 750
Cdd:pfam03288 1 DNDPVPDFLEELFVLDK-----------SLRVPSDYLYHAYKAWCEKNGYKPVLSLRTFQKRLKKHLNE---GFIKKKKK 66
|
90
....*....|....*....
gi 839730638 751 QGMQTNLALREESNADWLP 769
Cdd:pfam03288 67 YGNVPNEYLEYIFIDDLLP 85
|
|
| Prim_Zn_Ribbon |
smart00778 |
Zinc-binding domain of primase-helicase; This region represents the zinc binding domain. It is ... |
30-66 |
2.37e-20 |
|
Zinc-binding domain of primase-helicase; This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Pssm-ID: 129016 [Multi-domain] Cd Length: 37 Bit Score: 84.31 E-value: 2.37e-20
10 20 30
....*....|....*....|....*....|....*..
gi 839730638 30 NRHQACPVCGGADRFRFDDKEGRGTWFCNQCGAGDGL 66
Cdd:smart00778 1 GRHGPCPNCGGSDRFRFDDKDGRGTWFCSVCGAGDGI 37
|
|
| Prim_Zn_Ribbon |
pfam08273 |
Zinc-binding domain of primase-helicase; |
30-66 |
6.80e-20 |
|
Zinc-binding domain of primase-helicase;
Pssm-ID: 400529 Cd Length: 37 Bit Score: 83.19 E-value: 6.80e-20
10 20 30
....*....|....*....|....*....|....*..
gi 839730638 30 NRHQACPVCGGADRFRFDDKEGRGTWFCNQCGAGDGL 66
Cdd:pfam08273 1 GYHGPCPVCGGRDRFRFDDKDGRGTWFCRVCGAGDGL 37
|
|
| PRK07078 |
PRK07078 |
hypothetical protein; Validated |
413-644 |
8.10e-09 |
|
hypothetical protein; Validated
Pssm-ID: 235927 [Multi-domain] Cd Length: 759 Bit Score: 59.01 E-value: 8.10e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 413 LIGFRNGVLDTRSGIFSPHSKShwlrtlcdvDFTPPVEGETLKTHAPNFWRWLDRAASGnptkrDVILAAlFMVLANRY- 491
Cdd:PRK07078 419 LLNTPGGVVDLRTGRLRPHRRE---------DRMTKITTATPAGDCPTWRRFLAEVTGG-----DAELQA-YLQRMAGYa 483
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 492 ------DWQLFLeVTGPGGSGKSI-LAEIATMLAgeDNATSADIDTLED------PRKRASLIGFSLIRLPDQE---KWS 555
Cdd:PRK07078 484 ltgstsEHALFF-LYGTGANGKSVfVNTLATILG--DYAANAPMDTFMEtrgdrhPTDLAGLRGARFVSAIETEqgrRWA 560
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 556 GdgAGLKAITGGDAVSVDPKYQNpYSTHIP--AVILAVNNNP-MRFTDRSggVSRRRVIIHFPEQIAPEERDPQLRDKIA 632
Cdd:PRK07078 561 E--SKVKNLTGGDKISARFMRQD-FFEFFPqfKLLIAGNHKPaIRNVDEA--MKRRLHLIPFTVTVPPERRDKRLQQKLL 635
|
250
....*....|..
gi 839730638 633 RELAVIVRQLMQ 644
Cdd:PRK07078 636 AERDGILAWAVE 647
|
|
| TOPRIM_primases |
cd01029 |
TOPRIM_primases: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
208-286 |
3.47e-08 |
|
TOPRIM_primases: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.
Pssm-ID: 173779 [Multi-domain] Cd Length: 79 Bit Score: 51.12 E-value: 3.47e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 208 KRLWIAEGYATALTVHHLTGETVMVALSSVNLLSLASLARQKHPacQIILAADRDLNGD-GQTKAAAAAAACEGVVALPP 286
Cdd:cd01029 1 DEVIIVEGYMDVLALHQAGIKNVVAALGTANTEEQLRLLKRFAR--TVILAFDNDEAGKkAAARALELLLALGGRVRVPP 78
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| COG3378 |
COG3378 |
DNA primase, phage- or plasmid-associated [Mobilome: prophages, transposons]; |
358-765 |
4.64e-109 |
|
DNA primase, phage- or plasmid-associated [Mobilome: prophages, transposons];
Pssm-ID: 442605 [Multi-domain] Cd Length: 403 Bit Score: 338.45 E-value: 4.64e-109
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 358 RYENGIWKVITPsDFARDVAGLFQRL-----RAPFSSGRIASVVETLKLIIPQQEAPARRLIGFRNGVLDTRSGIFSPHS 432
Cdd:COG3378 10 VYDGGRWEEDDG-EVRRLIKELLRAIlakwaKKSRSSRRIKAVLELLKAELPDELDADPNLINVKNGVLDLRTGELRPHS 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 433 KSHWLRTLCDVDFTPpvegetlKTHAPNFWRWLDRAASGNPTKRDVILAALFMVLANRYDWQLFLEVTGPGGSGKSILAE 512
Cdd:COG3378 89 PEDYLTKVLPVEYDP-------DAKCPRWLKFLDEIFPGDKELIDLLQEALGYCLTGRTSEQKFFFLYGPGGNGKSTFLN 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 513 IATMLAGEDNATSADIDTLEDPR-KRASLIGFSLIRLPDQ-EKWSGDGAGLKAITGGDAVSVDPKYQNPYSTHIPAVILA 590
Cdd:COG3378 162 LLTALLGKDNASSASLETLTENRfDLARLKGKRLNIASELeEGYRLDESLLKALTGGDPITARRKYKDPFSFKPTAKLLF 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 591 VNNNPMRFTDRSGGVSRRRVIIHFPEQIAPEERDPQLRDKIARELAVIVRQLMQQFSDPMSARSLLQSQQNSDEALSIKR 670
Cdd:COG3378 242 ATNHLPRIRDTDDGIWRRLLIIPFNVTFPEEERDPNLKEKLLEELPGILNWALEGLLRLLENGGLTEPESVKEATEEYRE 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 671 DADPTFDFCGYLEALPEPDgmymgnaniipRQPRLYLYHAYLVYMEAHGYRnALSLTMFGKglsaMLKEYGLNYEKRRTN 750
Cdd:COG3378 322 ESDPLGAFLEECCELDPGA-----------RVPKKDLYEAYREWCEDNGEK-PLSKRTFGK----ELKKLGFEYEKRRTN 385
|
410
....*....|....*...
gi 839730638 751 QGMQ---TNLALREESNA 765
Cdd:COG3378 386 GGKRrgyRGIRLKDDSDS 403
|
|
| COG4643 |
COG4643 |
Uncharacterized domain associated with phage/plasmid primase [Mobilome: prophages, transposons] ... |
1-417 |
5.38e-92 |
|
Uncharacterized domain associated with phage/plasmid primase [Mobilome: prophages, transposons];
Pssm-ID: 443681 [Multi-domain] Cd Length: 435 Bit Score: 295.23 E-value: 5.38e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 1 MKMNVTDTVKQACGHWPRILPALGMkVIKNRHQACPvCGGADRFRFDDKEGR--GTWFCNQCG--AGDGLKLVEKVFGIS 76
Cdd:COG4643 1 MSTNVKEVKAAARGRWPDILAALGL-DPPALHGPCP-CGGKDRFRFDDKRGRksGWYVCNQCGppAGDGLDLLMKVFGWD 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 77 ASEAAGKVNAVTGHLPPV--------APEVMAAADAGTEAERKAAAALAVRLLEKTRPAT--GNAYLTRKGFAGRECLTL 146
Cdd:COG4643 79 FKEAALGLDAKGRELTPEeraaararAAAARAAREAEREARQAAAARRAAALWAEARPATpgDHPYLARKGLAAHGLRFH 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 147 TTSHKTGGVayragdVAVPLYDESGTLVNLQLINAEGLKRTLKGGQVKGACHLIDGQKQAGKRLWIAEGYATALTVHHLT 226
Cdd:COG4643 159 PALLLPGGA------LLVPLTDADGELVTLQRIYLDGEKRFLKGGRKKGAFIRIGPLPPPGGTLLIAEGYATALSVHEAT 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 227 GETVMVALSSVNLLSLASLARQKHPACQIILAADRDLNGD---GQTKAAAAAAACEGVVALPPV----FGDWNDAVMLRG 299
Cdd:COG4643 233 GLPVVAALDAGNLLPVAQALRERYPVAELIIAADNDRNTDgnpGQAAAEEAARAVGGLVALPPFppkkGTDFNDLHQARG 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 300 EDTTRKAIYAAIRPAAQSPF--DTMSEAEFTAMSASDKAMRVHEHYGEALAVDANGQLLSRYENGIWKVITPSDFARDVA 377
Cdd:COG4643 313 LEAVRAAFEAALYQPAGQTAaaVALALAAVGSATAEVAAALALAPSAVEGVGLSEDDAAIAADLRWGAALRPSLGAAAGL 392
|
410 420 430 440
....*....|....*....|....*....|....*....|
gi 839730638 378 GLFQRLRAPFSSGRIASVVETLKLIIPQQEAPARRLIGFR 417
Cdd:COG4643 393 RLLLAAEAGEDAAKKAALALTKLASLAAQLPLDGLSLSDA 432
|
|
| primase_Cterm |
TIGR01613 |
phage/plasmid primase, P4 family, C-terminal domain; This model represents a clade within a ... |
412-720 |
4.68e-27 |
|
phage/plasmid primase, P4 family, C-terminal domain; This model represents a clade within a larger family of proteins from viruses of bacteria and animals. Members of this family are found in phage and plasmids of bacteria and archaea only. The model describes a domain of about 300 residues, found generally toward the protein C-terminus. [DNA metabolism, DNA replication, recombination, and repair, Mobile and extrachromosomal element functions, Prophage functions]
Pssm-ID: 273716 [Multi-domain] Cd Length: 304 Bit Score: 112.05 E-value: 4.68e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 412 RLIGFRNGVLDTRSGIFSPHSKSHWLRTLCDVDFTPpvegetlKTHAPNFWRWLDRAASGNPTKRDVILAALFMVLANRY 491
Cdd:TIGR01613 1 YKLNVANGVYDLRTGQLEPHDPDEIHTRKITTEYDP-------KADCPTWNGFLLETFGGDNELIEYLQRVIGYSLTGNY 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 492 DWQLFLEVTGPGGSGKSILAEIATMLAGEDNaTSADIDTL-----EDPRKRASLIGFSLIRLPDQEKWS-GDGAGLKAIT 565
Cdd:TIGR01613 74 TEQKLFFLYGNGGNGKSTFQNLLSNLLGDYA-ITAVASLKmnelsEHRFGLARLEGKRAVIGDEVQKGYrDDESTFKSLT 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 566 GGDAVSVDPKYQNPYS-THIPAVILAVNNNPmRFTDRSGGVSRRRVIIHFPEQIAPEERDPQLRDKIARELAVIVRQLMQ 644
Cdd:TIGR01613 153 GGDTITARFKNKDPFEfTPKFTLVQSTNHLP-RIRGFDGGIKRRLRIIPFTKVFPGEKKNKALKEDYINEKDVILYWAVE 231
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 839730638 645 QFSDPMSARSLLQSQQnSDEALS-IKRDADPTFDFcgyleaLPEpdgmyMGNANIIPRQPRLYLYHAYLVYMEAHGY 720
Cdd:TIGR01613 232 GIRLDQRIGDFSIPKA-VLEATEeYKEENDVVARF------LEE-----CCDDSEGEKVPVRFVYEAYKEWCEEGGY 296
|
|
| D5_N |
smart00885 |
D5 N terminal like; This domain is found in D5 proteins of DNA viruses and bacteriophage P4 ... |
336-462 |
7.37e-26 |
|
D5 N terminal like; This domain is found in D5 proteins of DNA viruses and bacteriophage P4 DNA primases phages.
Pssm-ID: 197953 [Multi-domain] Cd Length: 141 Bit Score: 103.60 E-value: 7.37e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 336 AMRVHEHYGEALAVDANGQLLSRYENGIWKVITPSDFARDVAGLFQRLRAPFSSG----------RIASVVETLKL---I 402
Cdd:smart00885 1 AERLAEHYGDRLRYVPETGKWYVYDGGIWEPDEDLELARKLIRALLPEAAELSERkklrdevkkaLTASALEALLKeapV 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 403 IPQQEAPARRLIGFRNGVLDTRSGIFSPHSKSHWLRTLCDVDFTPPVEGETLKTHAPNFW 462
Cdd:smart00885 81 TPEELDADPHLINFPNGVLDLRTGELRPHDPEDYITKKIPVAYDPNAKCPRWDGFLNEIF 140
|
|
| Pox_D5 |
pfam03288 |
Poxvirus D5 protein-like; This family includes D5 from Poxviruses which is necessary for viral ... |
671-769 |
8.07e-22 |
|
Poxvirus D5 protein-like; This family includes D5 from Poxviruses which is necessary for viral DNA replication, and is a nucleic acid independent nucleoside triphosphatase. Members of this family are also found outside of poxviruses. This domain is a DNA-binding winged HTH domain.
Pssm-ID: 367437 [Multi-domain] Cd Length: 85 Bit Score: 90.09 E-value: 8.07e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 671 DADPTFDFCGYLEALPEpdgmymgnaniIPRQPRLYLYHAYLVYMEAHGYRNALSLTMFGKGLSAMLKEyglNYEKRRTN 750
Cdd:pfam03288 1 DNDPVPDFLEELFVLDK-----------SLRVPSDYLYHAYKAWCEKNGYKPVLSLRTFQKRLKKHLNE---GFIKKKKK 66
|
90
....*....|....*....
gi 839730638 751 QGMQTNLALREESNADWLP 769
Cdd:pfam03288 67 YGNVPNEYLEYIFIDDLLP 85
|
|
| Prim_Zn_Ribbon |
smart00778 |
Zinc-binding domain of primase-helicase; This region represents the zinc binding domain. It is ... |
30-66 |
2.37e-20 |
|
Zinc-binding domain of primase-helicase; This region represents the zinc binding domain. It is found in the N-terminal region of the bacteriophage P4 alpha protein, which is a multifunctional protein with origin recognition, helicase and primase activities.
Pssm-ID: 129016 [Multi-domain] Cd Length: 37 Bit Score: 84.31 E-value: 2.37e-20
10 20 30
....*....|....*....|....*....|....*..
gi 839730638 30 NRHQACPVCGGADRFRFDDKEGRGTWFCNQCGAGDGL 66
Cdd:smart00778 1 GRHGPCPNCGGSDRFRFDDKDGRGTWFCSVCGAGDGI 37
|
|
| Prim_Zn_Ribbon |
pfam08273 |
Zinc-binding domain of primase-helicase; |
30-66 |
6.80e-20 |
|
Zinc-binding domain of primase-helicase;
Pssm-ID: 400529 Cd Length: 37 Bit Score: 83.19 E-value: 6.80e-20
10 20 30
....*....|....*....|....*....|....*..
gi 839730638 30 NRHQACPVCGGADRFRFDDKEGRGTWFCNQCGAGDGL 66
Cdd:pfam08273 1 GYHGPCPVCGGRDRFRFDDKDGRGTWFCRVCGAGDGL 37
|
|
| D5_N |
pfam08706 |
D5 N terminal like; This domain is found in D5 proteins of DNA viruses and bacteriophage P4 ... |
336-468 |
6.49e-11 |
|
D5 N terminal like; This domain is found in D5 proteins of DNA viruses and bacteriophage P4 DNA primases phages.
Pssm-ID: 378029 [Multi-domain] Cd Length: 145 Bit Score: 60.94 E-value: 6.49e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 336 AMRVHEHYGEALAVDANGQLLSRYENGIWKVITPSD---FARDVAGLFQR-----------LRAPFSSGRIASVVETLKL 401
Cdd:pfam08706 1 AERLRDRYGKDLRYVPGLGGWYVWDGKRWREDSKKAireLADKLLRKILReaealkelrkfAKRSRSKKGVKNVLKEAKA 80
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 402 IIP--QQEAPA-RRLIGFRNGVLDTRSGIFSPHSKSHWLRTLCDVDFTPPVEgetlkthAPNFWRWLDRA 468
Cdd:pfam08706 81 MLDvtLDELDAdPYLLNFPNGVLDLRTGELRPHDPEDRLTKITPVDYDPDAD-------CPEWKQFLEDI 143
|
|
| PRK07078 |
PRK07078 |
hypothetical protein; Validated |
413-644 |
8.10e-09 |
|
hypothetical protein; Validated
Pssm-ID: 235927 [Multi-domain] Cd Length: 759 Bit Score: 59.01 E-value: 8.10e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 413 LIGFRNGVLDTRSGIFSPHSKShwlrtlcdvDFTPPVEGETLKTHAPNFWRWLDRAASGnptkrDVILAAlFMVLANRY- 491
Cdd:PRK07078 419 LLNTPGGVVDLRTGRLRPHRRE---------DRMTKITTATPAGDCPTWRRFLAEVTGG-----DAELQA-YLQRMAGYa 483
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 492 ------DWQLFLeVTGPGGSGKSI-LAEIATMLAgeDNATSADIDTLED------PRKRASLIGFSLIRLPDQE---KWS 555
Cdd:PRK07078 484 ltgstsEHALFF-LYGTGANGKSVfVNTLATILG--DYAANAPMDTFMEtrgdrhPTDLAGLRGARFVSAIETEqgrRWA 560
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 556 GdgAGLKAITGGDAVSVDPKYQNpYSTHIP--AVILAVNNNP-MRFTDRSggVSRRRVIIHFPEQIAPEERDPQLRDKIA 632
Cdd:PRK07078 561 E--SKVKNLTGGDKISARFMRQD-FFEFFPqfKLLIAGNHKPaIRNVDEA--MKRRLHLIPFTVTVPPERRDKRLQQKLL 635
|
250
....*....|..
gi 839730638 633 RELAVIVRQLMQ 644
Cdd:PRK07078 636 AERDGILAWAVE 647
|
|
| PRK14709 |
PRK14709 |
hypothetical protein; Provisional |
309-644 |
2.92e-08 |
|
hypothetical protein; Provisional
Pssm-ID: 173172 [Multi-domain] Cd Length: 469 Bit Score: 57.03 E-value: 2.92e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 309 AAIRPAAQSPFDTMSEAEFTAMSAsdkAMRVHEHYGEALAVDANGQLLSRYENGIWK---VITPSDFARDVA-----GLF 380
Cdd:PRK14709 16 EAKRKSAPKSDARMFDDLLTEDSV---AAVFAERYGGRLRFCHDTGKWFEWTGTAWKqdrVGLAFHWARELVremcrGEP 92
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 381 QRLRAPFSSGRIASVVETLKLIIPQQEAPA------RRLIGFRNGVLDTRSGIFSPHSKSHWLRTLCDVdfTPPVEGEtl 454
Cdd:PRK14709 93 PKLRYIASKASFAGGVEKFARTDPRFAVTSedwdadPWLLGTPGGTVDLRTGKLRAADPEDMITRLTAV--APADTAD-- 168
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 455 kthAPNFWRWLDRAASGNPTKRDVILAALFMVLANRYDWQLFLEVTGPGGSGKSILAEIATMLAGeDNATSADIDTL--- 531
Cdd:PRK14709 169 ---CPRWLRFLDEATGGDDELIRFLQQWCGYCLTGDTREHALVFVFGGGGNGKSVFLNVLAGILG-DYATTAAMDTFtas 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 532 ---EDPRKRASLIGFSLI---RLPDQEKWsgDGAGLKAITGGDAVSVDPKYQNPYsTHIPAVILAV--NNNP-MRFTDRS 602
Cdd:PRK14709 245 khdRHPTDLAMLRGARLVtasETEEGRAW--AEARIKQMTGGDTITARFMRQDFF-EFVPQFKLTIvgNHKPrLRNVDEA 321
|
330 340 350 360
....*....|....*....|....*....|....*....|..
gi 839730638 603 ggvSRRRVIIhFPEQIAPEERDPQLRDKIARELAVIVRQLMQ 644
Cdd:PRK14709 322 ---ARRRFNI-VPFTRKPARPDPDLEAKLRAEWPAILRWMID 359
|
|
| TOPRIM_primases |
cd01029 |
TOPRIM_primases: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
208-286 |
3.47e-08 |
|
TOPRIM_primases: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.
Pssm-ID: 173779 [Multi-domain] Cd Length: 79 Bit Score: 51.12 E-value: 3.47e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 208 KRLWIAEGYATALTVHHLTGETVMVALSSVNLLSLASLARQKHPacQIILAADRDLNGD-GQTKAAAAAAACEGVVALPP 286
Cdd:cd01029 1 DEVIIVEGYMDVLALHQAGIKNVVAALGTANTEEQLRLLKRFAR--TVILAFDNDEAGKkAAARALELLLALGGRVRVPP 78
|
|
| Toprim_3 |
pfam13362 |
Toprim domain; The toprim domain is found in a wide variety of enzymes involved in nucleic ... |
209-301 |
4.61e-07 |
|
Toprim domain; The toprim domain is found in a wide variety of enzymes involved in nucleic acid manipulation.
Pssm-ID: 433146 [Multi-domain] Cd Length: 97 Bit Score: 48.55 E-value: 4.61e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 209 RLWIAEGYATALTVHH---LTGETVMVALSSVNLLSLASLARQKhpacQIILAADRDLNGDGQTKAAAAAAACEG----- 280
Cdd:pfam13362 1 RLIIGEGIETALSLTQrlnPPGTPVIALLSAANLKAVAWPERVK----RVYIAADNDAANDGQAAAEKLAERLEAagiea 76
|
90 100
....*....|....*....|.
gi 839730638 281 VVALPPVFGDWNDAVMLRGED 301
Cdd:pfam13362 77 VLLEPEAGEDWNDDLQQTGAA 97
|
|
| DUF5906 |
pfam19263 |
Family of unknown function (DUF5906); This is a family of proteins of unknown function found ... |
502-608 |
2.18e-06 |
|
Family of unknown function (DUF5906); This is a family of proteins of unknown function found in viruses. This family is a P-loop member whose proteins are thought to be SF3 helicases, which are involved in replication initiation.
Pssm-ID: 466016 [Multi-domain] Cd Length: 114 Bit Score: 46.98 E-value: 2.18e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 839730638 502 PGGSGKSILAE-IATMLAGEDNATSADIDTLEDPRKRASLIGFSLIRLPD-QEKWSGDGAG---LKAITGGDaVSVDPKY 576
Cdd:pfam19263 5 LQGTGKSTLLEfILGKLLGPSNVTALSDLLKLLGRFNSALQGKLLIIIDEiGMASGEWHKAngrLKSLITEP-ISIERKG 83
|
90 100 110
....*....|....*....|....*....|....
gi 839730638 577 QNPYSTHIPA-VILAVNNN-PMRFTDRSGgvsRR 608
Cdd:pfam19263 84 KDPYEVKNYArFIFTSNHNwPLPAEDDDD---RR 114
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
208-266 |
3.48e-06 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 45.33 E-value: 3.48e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 839730638 208 KRLWIAEGYATALTVHHLTGE--TVMVALSSVNLLSLASLARQKHPACQIILAADRDLNGD 266
Cdd:smart00493 1 KVLIIVEGPADAIALEKAGGKrgNVVALGGHLLSKEQIKLLKKLAKKAEVILATDPDREGE 61
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
209-266 |
9.13e-05 |
|
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR proteins. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase EC:2.7.7.6 is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases. Type II DNA topoisomerases catalyze the relaxation of DNA supercoiling by causing transient double strand breaks.
Pssm-ID: 396354 [Multi-domain] Cd Length: 93 Bit Score: 41.96 E-value: 9.13e-05
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 839730638 209 RLWIAEGYATALTVHHLTGETVMVALSSV-NLLSLAS---------LARQKHPACQIILAADRDLNGD 266
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLgHLLSLEKgpkkkalkaLKELALKAKEVILATDPDREGE 68
|
|
| zf-RRN7 |
pfam11781 |
Zinc-finger of RNA-polymerase I-specific TFIIB, Rrn7; This is the zinc-finger at the start of ... |
31-61 |
7.61e-04 |
|
Zinc-finger of RNA-polymerase I-specific TFIIB, Rrn7; This is the zinc-finger at the start of transcription-binding factor that associates strongly with both Rrn6 and Rrn7 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter.
Pssm-ID: 463348 Cd Length: 32 Bit Score: 37.57 E-value: 7.61e-04
10 20 30
....*....|....*....|....*....|.
gi 839730638 31 RHQACPVCgGADRFRFDDkegrGTWFCNQCG 61
Cdd:pfam11781 3 KGPPCGVC-GCRLFYLDD----GFYYCRRCH 28
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
208-266 |
9.70e-04 |
|
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173773 [Multi-domain] Cd Length: 83 Bit Score: 38.56 E-value: 9.70e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 839730638 208 KRLWIAEGYATALTVHHLTGE--TVMVALSSVNLLSLASLARQKHPACQIILAADRDLNGD 266
Cdd:cd00188 1 KKLIIVEGPSDALALAQAGGYggAVVALGGHALNKTRELLKRLLGEAKEVIIATDADREGE 61
|
|
| |
