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Conserved domains on  [gi|1160605061|ref|WP_079467314|]
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toprim domain-containing protein [Chryseobacterium balustinum]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Toprim_2 super family cl48160
Toprim-like; This is a family or Toprim-like proteins.
 189-274 1.01e-09

Toprim-like; This is a family or Toprim-like proteins.


The actual alignment was detected with superfamily member pfam13155:

Pssm-ID: 463793 [Multi-domain]  Cd Length: 88  Bit Score: 54.10  E-value: 1.01e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160605061 189 ILFEGFFDYLTYRAINIINdetADYLILNSTAMFFKVENLLMGY-DKIFLFLDNDDNGK--TVKQMIQTKYRNVEDCSSL 265
Cdd:pfam13155   1 VVFEGYIDALSLAQAGIKN---VLYVATLGTALTEAQIKLLKRYpKEVILAFDNDEAGRkaAKRLAELLKEAGVDVKIRL 77


                  ....*....
gi 1160605061 266 YTDCKDLNE 274
Cdd:pfam13155  78 LPDGKDWNE 86
 
Name Accession Description Interval E-value
Toprim_2 pfam13155
Toprim-like; This is a family or Toprim-like proteins.
 189-274 1.01e-09

Toprim-like; This is a family or Toprim-like proteins.


Pssm-ID: 463793 [Multi-domain]  Cd Length: 88  Bit Score: 54.10  E-value: 1.01e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160605061 189 ILFEGFFDYLTYRAINIINdetADYLILNSTAMFFKVENLLMGY-DKIFLFLDNDDNGK--TVKQMIQTKYRNVEDCSSL 265
Cdd:pfam13155   1 VVFEGYIDALSLAQAGIKN---VLYVATLGTALTEAQIKLLKRYpKEVILAFDNDEAGRkaAKRLAELLKEAGVDVKIRL 77


                  ....*....
gi 1160605061 266 YTDCKDLNE 274
Cdd:pfam13155  78 LPDGKDWNE 86
TOPRIM_primases cd01029
TOPRIM_primases: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ...
 186-246 3.79e-03

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: 35.71  E-value: 3.79e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1160605061 186 NEIILFEGFFDYLTYRAINIINdetAdyLILNSTAMFFKVENLLMGY-DKIFLFLDNDDNGK 246
Cdd:cd01029     1 DEVIIVEGYMDVLALHQAGIKN---V--VAALGTANTEEQLRLLKRFaRTVILAFDNDEAGK 57
 
Name Accession Description Interval E-value
Toprim_2 pfam13155
Toprim-like; This is a family or Toprim-like proteins.
 189-274 1.01e-09

Toprim-like; This is a family or Toprim-like proteins.


Pssm-ID: 463793 [Multi-domain]  Cd Length: 88  Bit Score: 54.10  E-value: 1.01e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160605061 189 ILFEGFFDYLTYRAINIINdetADYLILNSTAMFFKVENLLMGY-DKIFLFLDNDDNGK--TVKQMIQTKYRNVEDCSSL 265
Cdd:pfam13155   1 VVFEGYIDALSLAQAGIKN---VLYVATLGTALTEAQIKLLKRYpKEVILAFDNDEAGRkaAKRLAELLKEAGVDVKIRL 77


                  ....*....
gi 1160605061 266 YTDCKDLNE 274
Cdd:pfam13155  78 LPDGKDWNE 86
TOPRIM_primases cd01029
TOPRIM_primases: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ...
 186-246 3.79e-03

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: 35.71  E-value: 3.79e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1160605061 186 NEIILFEGFFDYLTYRAINIINdetAdyLILNSTAMFFKVENLLMGY-DKIFLFLDNDDNGK 246
Cdd:cd01029     1 DEVIIVEGYMDVLALHQAGIKN---V--VAALGTANTEEQLRLLKRFaRTVILAFDNDEAGK 57
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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