NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|616614194|gb|KAE14082|]
View 

replication initiation protein, partial [Staphylococcus aureus VET0340R]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Rep_trans super family cl47209
Replication initiation factor; Plasmid replication is initiated by the replication initiation ...
 138-221 3.11e-09

Replication initiation factor; Plasmid replication is initiated by the replication initiation factor (REP). This family represents a probable topoisomerase that makes a sequence-specific single-stranded nick in the plasmid DNA at the origin of replication. Human proteins also belong to this family, including myelin transcription factor 2 and cerebrin-50.


The actual alignment was detected with superfamily member pfam02486:

Pssm-ID: 426796  Cd Length: 201  Bit Score: 55.42  E-value: 3.11e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616614194  138 FTRLDLAFDFEDDLSDYYAMTDK-------SVKKTIFYGRNGKPE---------TKYFGVRDSDRFIRIYNKKQERKDNA 201
Cdd:pfam02486   3 ITRIDLAIDDFDGELDIEELKKKyrnglciSRFRRFKYYGSGELVdgedvgtgkTLYIGSRKSEKYLRIYEKGYEQGDKE 82

                          90       100
                  ....*....|....*....|.
gi 616614194  202 DIEVMSehLW-RVEIELKRDM 221
Cdd:pfam02486  83 GIPVES--PWvRYELRLRNER 101
 
Name Accession Description Interval E-value
Rep_trans pfam02486
Replication initiation factor; Plasmid replication is initiated by the replication initiation ...
 138-221 3.11e-09

Replication initiation factor; Plasmid replication is initiated by the replication initiation factor (REP). This family represents a probable topoisomerase that makes a sequence-specific single-stranded nick in the plasmid DNA at the origin of replication. Human proteins also belong to this family, including myelin transcription factor 2 and cerebrin-50.


Pssm-ID: 426796  Cd Length: 201  Bit Score: 55.42  E-value: 3.11e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616614194  138 FTRLDLAFDFEDDLSDYYAMTDK-------SVKKTIFYGRNGKPE---------TKYFGVRDSDRFIRIYNKKQERKDNA 201
Cdd:pfam02486   3 ITRIDLAIDDFDGELDIEELKKKyrnglciSRFRRFKYYGSGELVdgedvgtgkTLYIGSRKSEKYLRIYEKGYEQGDKE 82

                          90       100
                  ....*....|....*....|.
gi 616614194  202 DIEVMSehLW-RVEIELKRDM 221
Cdd:pfam02486  83 GIPVES--PWvRYELRLRNER 101
NicK COG2946
DNA relaxase NicK [Replication, recombination and repair];
138-218 9.94e-07

DNA relaxase NicK [Replication, recombination and repair];


Pssm-ID: 442189 [Multi-domain]  Cd Length: 302  Bit Score: 48.84  E-value: 9.94e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616614194 138 FTRLDLAFDFEDDLSDYYAMTDKsVKKTIFYGRNGKP----------------ETKYFGVRDSDRFIRIYNKKQERKDNA 201
Cdd:COG2946  107 ITRIDLAIDDFDGELSIEQAVSK-YKKGLFISRGRRPkyelvgtdwengkgkgRTLYIGSRESGKYWRIYEKGKELGDKE 185

                         90
                 ....*....|....*..
gi 616614194 202 DIEVmsehlwRVEIELK 218
Cdd:COG2946  186 SSWV------RFELRLK 196
 
Name Accession Description Interval E-value
Rep_trans pfam02486
Replication initiation factor; Plasmid replication is initiated by the replication initiation ...
 138-221 3.11e-09

Replication initiation factor; Plasmid replication is initiated by the replication initiation factor (REP). This family represents a probable topoisomerase that makes a sequence-specific single-stranded nick in the plasmid DNA at the origin of replication. Human proteins also belong to this family, including myelin transcription factor 2 and cerebrin-50.


Pssm-ID: 426796  Cd Length: 201  Bit Score: 55.42  E-value: 3.11e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616614194  138 FTRLDLAFDFEDDLSDYYAMTDK-------SVKKTIFYGRNGKPE---------TKYFGVRDSDRFIRIYNKKQERKDNA 201
Cdd:pfam02486   3 ITRIDLAIDDFDGELDIEELKKKyrnglciSRFRRFKYYGSGELVdgedvgtgkTLYIGSRKSEKYLRIYEKGYEQGDKE 82

                          90       100
                  ....*....|....*....|.
gi 616614194  202 DIEVMSehLW-RVEIELKRDM 221
Cdd:pfam02486  83 GIPVES--PWvRYELRLRNER 101
NicK COG2946
DNA relaxase NicK [Replication, recombination and repair];
138-218 9.94e-07

DNA relaxase NicK [Replication, recombination and repair];


Pssm-ID: 442189 [Multi-domain]  Cd Length: 302  Bit Score: 48.84  E-value: 9.94e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 616614194 138 FTRLDLAFDFEDDLSDYYAMTDKsVKKTIFYGRNGKP----------------ETKYFGVRDSDRFIRIYNKKQERKDNA 201
Cdd:COG2946  107 ITRIDLAIDDFDGELSIEQAVSK-YKKGLFISRGRRPkyelvgtdwengkgkgRTLYIGSRESGKYWRIYEKGKELGDKE 185

                         90
                 ....*....|....*..
gi 616614194 202 DIEVmsehlwRVEIELK 218
Cdd:COG2946  186 SSWV------RFELRLK 196
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH