Conserved Protein Domain Family

cd01029: TOPRIM_primases 
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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
View PSSM: cd01029
Aligned: 202 rows
Threshold Bit Score: 33.3978
Threshold Setting Gi: 67673855
Created: 1-Nov-2000
Updated: 21-Aug-2020
Aligned Rows:
Conserved site includes 6 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]

Sequence Alignment
Format: Row Display: Color Bits: Type Selection:
Feature 1           ##  #                                                 # # #               
1DD9_A    164 NRLLVVEGYMDVVALAQYginyAVASLGTSTta---dHIQLLFra-------tnNVICCYDGDRAgr----dAAWRALET 229 Escherichia coli
1DDE_A    164 NRLLVVEGYMDVVALAQYginyAVASLGTSTta---dHIQLLFra-------tnNVICCYDGDRAgr----dAAWRALET 229 Escherichia coli
AAS96661  241 GGVLLCEGEGDCLCAFSHgvrnAITQTGKPNewp-edHAEALAg---------rDVVIAYDADQAgqkyaeaAAKNLVRK 310 Desulfovibrio vulg...
NP_039667 225 KTVFIVEGQFDALSIMQEsg-vGAVATSTSQtrlivkTLQKFKeqdp---tinpTIILSMDNDRAg-----qKANRALQR 295 Lactobacillus delb...
CAG73586  169 KAIWLVEGIFDALSLIQNgi-aAVSIMSCNNyp--eqALAQLAqslge--rprpVLVWALDNDPAg-----rKYTARHAR 238 Erwinia carotovora...
YP_429235 221 RRVWVTEGPLKADIASRYlgsvFIGVPGASNwr---pAVEAIQelg------arEVVIAYDRDKIvk----dAVRRAERE 287 Moorella thermoace...
CAD15600  171 GELWLVEGIFDAIALLHHgi-aAAALLSCVNyp--raALAALAeqcaatgrsrpRLVWALDDDRAg-----rRYMAQHIE 242 Ralstonia solanace...
AAM42274  170 TEVWIVEGIFDAIALLQHgv-cAVSAMSCNAfp--deSLRQLAklra---gnlpTLVWGLDNEPGa-----rDYTHKHAR 238 Xanthomonas campes...
NP_957520 230 QPIFIVEGEIDALSIMEVgg-vAVGLGSISNae---kLVNMLDgkk-----lerPLILALDNDSRg-----rQAQEDLKK 295 Streptococcus ther...
CAG35150  176 RPVAVVEGIIDALSLLQMevqaIAVLSSGQDp----aKLEGLEk---------yQLICAFDNDKAg-----tLATKKYLG 237 Desulfotalea psych...
Feature 1                      
1DD9_A    230 alpym-tdgrqLRFMFL 245 Escherichia coli
1DDE_A    230 alpym-tdgrqLRFMFL 245 Escherichia coli
AAS96661  311 gca-----vriIRWPAF 322 Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough
NP_039667 296 dlea---lgftCYVNPV 309 Lactobacillus delbrueckii subsp. bulgaricus
CAG73586  239 rsq-----eagWMVNAA 250 Erwinia carotovora subsp. atroseptica SCRI1043
YP_429235 288 lkadlrrkgirVFIASW 304 Moorella thermoacetica ATCC 39073
CAD15600  243 rara---dgwaASAALP 256 Ralstonia solanacearum
AAM42274  239 rada---lgfnSRAALI 252 Xanthomonas campestris pv. campestris str. ATCC 33913
NP_957520 296 ll-------qaKKIPYT 305 Streptococcus thermophilus
CAG35150  238 afs------aaQAIMPP 248 Desulfotalea psychrophila LSv54

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