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Conserved domains on  [gi|2796897254|ref|WP_373284025|]
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nucleotidyltransferase [Myxococcus virescens]

Protein Classification

nucleotidyltransferase domain-containing protein( domain architecture ID 34097)

nucleotidyltransferase domain-containing protein, similar to African swine fever virus repair DNA polymerase X

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
NT_Pol-beta-like super family cl11966
Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; This ...
 33-187 1.67e-06

Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; This superfamily includes the NT domains of DNA polymerase beta and other family X DNA polymerases, as well as the NT domains of Class I and Class II CCA-adding enzymes, RelA- and SpoT-like ppGpp synthetases and hydrolases, 2'5'-oligoadenylate (2-5A)synthetases, Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), poly (A) polymerases, terminal uridylyl transferases, and Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins. The Escherichia coli CCA-adding enzyme belongs to this superfamily but is not included as this enzyme lacks the N-terminal helix conserved in the remainder of the superfamily. In the majority of the Pol beta-like superfamily NTs, two carboxylates, Dx[D/E], together with a third more distal carboxylate coordinate two divalent metal cations that are essential for catalysis. These divalent metal ions are involved in a two-metal ion mechanism of nucleotide addition. Two of the three catalytic carboxylates are found in Rel-Spo enzymes, with the second carboxylate of the DXD motif missing. Evidence supports a single-cation synthetase mechanism for Rel-Spo enzymes.


The actual alignment was detected with superfamily member pfam14907:

Pssm-ID: 472251  Cd Length: 249  Bit Score: 48.09  E-value: 1.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2796897254  33 RAVGLLIDAGVPFVV--GGAYAYAtYTGIY-RDTKDLDLFPRKADALRALQVLEKDGWRTERADE-VWLYKAFKGDYFVD 108
Cdd:pfam14907  62 RLLRLLEEEGIPVLPlkGAALAQL-YPDPAlRPFGDIDLLVPREDLDRAEEILEELGYELDHDDEyHDVYYREERGVMIE 140

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2796897254 109 F---IFSSGNGVAVVD--DEWFEHAPRATIFGHECLVAPAEEMIW------SKAFVNERER-YDGADVNHLLLKAGRNMD 176
Cdd:pfam14907 141 LhwrLLPPRTPRLRPDfdELLWGRAVPVEIGGQSVYTLSPEDLLLylalhlAKHGWNRGLGlRWLVDIALLLRRYADELD 220

                         170
                  ....*....|.
gi 2796897254 177 WERMMRRFDRY 187
Cdd:pfam14907 221 WEALLARAREL 231
 
Name Accession Description Interval E-value
NTP_transf_5 pfam14907
Uncharacterized nucleotidyltransferase; This family is likely to be an uncharacterized group ...
 33-187 1.67e-06

Uncharacterized nucleotidyltransferase; This family is likely to be an uncharacterized group of nucleotidyltransferases.


Pssm-ID: 434302  Cd Length: 249  Bit Score: 48.09  E-value: 1.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2796897254  33 RAVGLLIDAGVPFVV--GGAYAYAtYTGIY-RDTKDLDLFPRKADALRALQVLEKDGWRTERADE-VWLYKAFKGDYFVD 108
Cdd:pfam14907  62 RLLRLLEEEGIPVLPlkGAALAQL-YPDPAlRPFGDIDLLVPREDLDRAEEILEELGYELDHDDEyHDVYYREERGVMIE 140

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2796897254 109 F---IFSSGNGVAVVD--DEWFEHAPRATIFGHECLVAPAEEMIW------SKAFVNERER-YDGADVNHLLLKAGRNMD 176
Cdd:pfam14907 141 LhwrLLPPRTPRLRPDfdELLWGRAVPVEIGGQSVYTLSPEDLLLylalhlAKHGWNRGLGlRWLVDIALLLRRYADELD 220

                         170
                  ....*....|.
gi 2796897254 177 WERMMRRFDRY 187
Cdd:pfam14907 221 WEALLARAREL 231
 
Name Accession Description Interval E-value
NTP_transf_5 pfam14907
Uncharacterized nucleotidyltransferase; This family is likely to be an uncharacterized group ...
 33-187 1.67e-06

Uncharacterized nucleotidyltransferase; This family is likely to be an uncharacterized group of nucleotidyltransferases.


Pssm-ID: 434302  Cd Length: 249  Bit Score: 48.09  E-value: 1.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2796897254  33 RAVGLLIDAGVPFVV--GGAYAYAtYTGIY-RDTKDLDLFPRKADALRALQVLEKDGWRTERADE-VWLYKAFKGDYFVD 108
Cdd:pfam14907  62 RLLRLLEEEGIPVLPlkGAALAQL-YPDPAlRPFGDIDLLVPREDLDRAEEILEELGYELDHDDEyHDVYYREERGVMIE 140

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2796897254 109 F---IFSSGNGVAVVD--DEWFEHAPRATIFGHECLVAPAEEMIW------SKAFVNERER-YDGADVNHLLLKAGRNMD 176
Cdd:pfam14907 141 LhwrLLPPRTPRLRPDfdELLWGRAVPVEIGGQSVYTLSPEDLLLylalhlAKHGWNRGLGlRWLVDIALLLRRYADELD 220

                         170
                  ....*....|.
gi 2796897254 177 WERMMRRFDRY 187
Cdd:pfam14907 221 WEALLARAREL 231
DUF2204 pfam09970
Nucleotidyl transferase of unknown function (DUF2204); This domain, found in various ...
 28-157 7.52e-04

Nucleotidyl transferase of unknown function (DUF2204); This domain, found in various hypothetical archaeal proteins, has no known function. However, this family was identified as belonging to the nucleotidyltransferase superfamily.


Pssm-ID: 378331  Cd Length: 181  Bit Score: 39.64  E-value: 7.52e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2796897254  28 LNARARAVGLLIDAGVPFVV-GGAYAYATYtGIYRDTKDLDLFPRKADALRALQVL----EKDGW---RTERADEVWLYK 99
Cdd:pfam09970   2 LRDLAEVLKVLQERGVKFVViGGTVVELAL-GRKRFEGDVDLFITEPSPLLEEDFYreiaEEEDWdmgSTALGTPRYIAK 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2796897254 100 AFKGDYFVDFIFSSGNgvAVVDDEWFEHAPRATIFGHECLVAPAEEMIWSKA--FVNERE 157
Cdd:pfam09970  81 VGGEEVRVDFYENIMD--FYIPEEILERAERVEIGGVKFKVIRPEDYIVLKAraARDEAE 138
 
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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