NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1183725359|ref|WP_084951097|]
View 

MULTISPECIES: replication initiator protein A [Staphylococcus]

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
HTH_ARSR super family cl46857
Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric ...
 15-90 2.44e-27

Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.


The actual alignment was detected with superfamily member pfam06970:

Pssm-ID: 481197  Cd Length: 76  Bit Score: 101.60  E-value: 2.44e-27
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1183725359  15 ERFYQLPKYLFEDVYFKKMSAEAKIMYALLKDRFELSIQNEWVDKNNNIYFIFSNKHLCEYLGYAEQKIIKLKKEL 90
Cdd:pfam06970   1 ESFYQLPKVLFEDERYKKLSAEAKVLYAVLLDRLELSIKNGWIDEDGRVYFIFTIEELMELLGCSKQKAIKIKKEL 76
Bac_RepA_C super family cl39431
Replication initiator protein A C-terminal domain; This is the C-terminal domain (CTD) that ...
 207-292 2.76e-16

Replication initiator protein A C-terminal domain; This is the C-terminal domain (CTD) that can be found in the conserved replication initiator, RepA,essential for staphylococcal propagation. RepA CTD shared the strongest structural homology to the Enterococcus faecalis DnaD CTD, yet perform distinct functions. RepA CTD shows strong sequence homology between RepA_N plasmids in genus-specific clusters, suggesting that it may perform host-specific functions necessary for replication. The RepA CTD interacts with the host DnaG primase, which binds the replicative helicase. Structural data indicate that the RepA CTD exists as a monomeric entity, flexibly tethered to the DNA-bound NTD.


The actual alignment was detected with superfamily member pfam18008:

Pssm-ID: 436207  Cd Length: 95  Bit Score: 72.86  E-value: 2.76e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1183725359 207 LPQSIQRYLSNF--SVKEIKIIKPVLLKAK-TSFNNSVD---TYYLLE--DMEIETLHVLKRFKAMLI-QKNETVEAMQG 277
Cdd:pfam18008   1 LPPSLVNLLSVYagTPQKLYEYAGLIFKAKkYAVENAERdlgVYILLDrfELNHLITTKLRRYFNSLIiNKNRKVHNVEG 80

                          90
                  ....*....|....*
gi 1183725359 278 YLMKSLKSEFAEMHT 292
Cdd:pfam18008  81 YLMRTLKNLFEEWAN 95
 
Name Accession Description Interval E-value
RepA_N pfam06970
Replication initiator protein A (RepA) N-terminus; This of family of predicted proteins ...
 15-90 2.44e-27

Replication initiator protein A (RepA) N-terminus; This of family of predicted proteins represents the N-terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids. Most proteins in this family are bacterial, but archaeal and eukaryotic members are also included.


Pssm-ID: 429221  Cd Length: 76  Bit Score: 101.60  E-value: 2.44e-27
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1183725359  15 ERFYQLPKYLFEDVYFKKMSAEAKIMYALLKDRFELSIQNEWVDKNNNIYFIFSNKHLCEYLGYAEQKIIKLKKEL 90
Cdd:pfam06970   1 ESFYQLPKVLFEDERYKKLSAEAKVLYAVLLDRLELSIKNGWIDEDGRVYFIFTIEELMELLGCSKQKAIKIKKEL 76
Bac_RepA_C pfam18008
Replication initiator protein A C-terminal domain; This is the C-terminal domain (CTD) that ...
 207-292 2.76e-16

Replication initiator protein A C-terminal domain; This is the C-terminal domain (CTD) that can be found in the conserved replication initiator, RepA,essential for staphylococcal propagation. RepA CTD shared the strongest structural homology to the Enterococcus faecalis DnaD CTD, yet perform distinct functions. RepA CTD shows strong sequence homology between RepA_N plasmids in genus-specific clusters, suggesting that it may perform host-specific functions necessary for replication. The RepA CTD interacts with the host DnaG primase, which binds the replicative helicase. Structural data indicate that the RepA CTD exists as a monomeric entity, flexibly tethered to the DNA-bound NTD.


Pssm-ID: 436207  Cd Length: 95  Bit Score: 72.86  E-value: 2.76e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1183725359 207 LPQSIQRYLSNF--SVKEIKIIKPVLLKAK-TSFNNSVD---TYYLLE--DMEIETLHVLKRFKAMLI-QKNETVEAMQG 277
Cdd:pfam18008   1 LPPSLVNLLSVYagTPQKLYEYAGLIFKAKkYAVENAERdlgVYILLDrfELNHLITTKLRRYFNSLIiNKNRKVHNVEG 80

                          90
                  ....*....|....*
gi 1183725359 278 YLMKSLKSEFAEMHT 292
Cdd:pfam18008  81 YLMRTLKNLFEEWAN 95
 
Name Accession Description Interval E-value
RepA_N pfam06970
Replication initiator protein A (RepA) N-terminus; This of family of predicted proteins ...
 15-90 2.44e-27

Replication initiator protein A (RepA) N-terminus; This of family of predicted proteins represents the N-terminus (approximately 80 residues) of replication initiator protein A (RepA), a DNA replication initiator in plasmids. Most proteins in this family are bacterial, but archaeal and eukaryotic members are also included.


Pssm-ID: 429221  Cd Length: 76  Bit Score: 101.60  E-value: 2.44e-27
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1183725359  15 ERFYQLPKYLFEDVYFKKMSAEAKIMYALLKDRFELSIQNEWVDKNNNIYFIFSNKHLCEYLGYAEQKIIKLKKEL 90
Cdd:pfam06970   1 ESFYQLPKVLFEDERYKKLSAEAKVLYAVLLDRLELSIKNGWIDEDGRVYFIFTIEELMELLGCSKQKAIKIKKEL 76
Bac_RepA_C pfam18008
Replication initiator protein A C-terminal domain; This is the C-terminal domain (CTD) that ...
 207-292 2.76e-16

Replication initiator protein A C-terminal domain; This is the C-terminal domain (CTD) that can be found in the conserved replication initiator, RepA,essential for staphylococcal propagation. RepA CTD shared the strongest structural homology to the Enterococcus faecalis DnaD CTD, yet perform distinct functions. RepA CTD shows strong sequence homology between RepA_N plasmids in genus-specific clusters, suggesting that it may perform host-specific functions necessary for replication. The RepA CTD interacts with the host DnaG primase, which binds the replicative helicase. Structural data indicate that the RepA CTD exists as a monomeric entity, flexibly tethered to the DNA-bound NTD.


Pssm-ID: 436207  Cd Length: 95  Bit Score: 72.86  E-value: 2.76e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1183725359 207 LPQSIQRYLSNF--SVKEIKIIKPVLLKAK-TSFNNSVD---TYYLLE--DMEIETLHVLKRFKAMLI-QKNETVEAMQG 277
Cdd:pfam18008   1 LPPSLVNLLSVYagTPQKLYEYAGLIFKAKkYAVENAERdlgVYILLDrfELNHLITTKLRRYFNSLIiNKNRKVHNVEG 80

                          90
                  ....*....|....*
gi 1183725359 278 YLMKSLKSEFAEMHT 292
Cdd:pfam18008  81 YLMRTLKNLFEEWAN 95
 
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