NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2104638780|ref|WP_224757945|]
View 

AraC family transcriptional regulator [Streptococcus pneumoniae]

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
AraC super family cl34429
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
27-53 1.79e-05

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


The actual alignment was detected with superfamily member COG2207:

Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 39.38  E-value: 1.79e-05
                          10        20
                  ....*....|....*....|....*..
gi 2104638780  27 FSSQPYFQNQFKKITGYTPLQYRKENR 53
Cdd:COG2207   229 FSSQSHFSRAFKKRFGVTPSEYRKRLR 255
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
27-53 1.79e-05

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 39.38  E-value: 1.79e-05
                          10        20
                  ....*....|....*....|....*..
gi 2104638780  27 FSSQPYFQNQFKKITGYTPLQYRKENR 53
Cdd:COG2207   229 FSSQSHFSRAFKKRFGVTPSEYRKRLR 255
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
27-49 3.92e-04

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 34.45  E-value: 3.92e-04
                          10        20
                  ....*....|....*....|...
gi 2104638780  27 FSSQPYFQNQFKKITGYTPLQYR 49
Cdd:smart00342 62 FSSQSYFSRAFKKLFGVTPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
27-50 7.02e-04

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 33.72  E-value: 7.02e-04
                         10        20
                 ....*....|....*....|....
gi 2104638780 27 FSSQPYFQNQFKKITGYTPLQYRK 50
Cdd:pfam12833 57 FSDASHFSRAFRRLFGLTPSEYRR 80
 
Name Accession Description Interval E-value
AraC COG2207
AraC-type DNA-binding domain and AraC-containing proteins [Transcription];
27-53 1.79e-05

AraC-type DNA-binding domain and AraC-containing proteins [Transcription];


Pssm-ID: 441809 [Multi-domain]  Cd Length: 258  Bit Score: 39.38  E-value: 1.79e-05
                          10        20
                  ....*....|....*....|....*..
gi 2104638780  27 FSSQPYFQNQFKKITGYTPLQYRKENR 53
Cdd:COG2207   229 FSSQSHFSRAFKKRFGVTPSEYRKRLR 255
HTH_ARAC smart00342
helix_turn_helix, arabinose operon control protein;
27-49 3.92e-04

helix_turn_helix, arabinose operon control protein;


Pssm-ID: 197666 [Multi-domain]  Cd Length: 84  Bit Score: 34.45  E-value: 3.92e-04
                          10        20
                  ....*....|....*....|...
gi 2104638780  27 FSSQPYFQNQFKKITGYTPLQYR 49
Cdd:smart00342 62 FSSQSYFSRAFKKLFGVTPSEYR 84
HTH_18 pfam12833
Helix-turn-helix domain;
27-50 7.02e-04

Helix-turn-helix domain;


Pssm-ID: 432818 [Multi-domain]  Cd Length: 81  Bit Score: 33.72  E-value: 7.02e-04
                         10        20
                 ....*....|....*....|....
gi 2104638780 27 FSSQPYFQNQFKKITGYTPLQYRK 50
Cdd:pfam12833 57 FSDASHFSRAFRRLFGLTPSEYRR 80
HTH_AraC pfam00165
Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the ...
 29-50 1.37e-03

Bacterial regulatory helix-turn-helix proteins, AraC family; In the absence of arabinose, the N-terminal arm of AraC binds to the DNA binding domain (pfam00165) and helps to hold the two DNA binding domains in a relative orientation that favours DNA looping. In the presence of arabinose, the arms bind over the arabinose on the dimerization domain, thus freeing the DNA-binding domains. The freed DNA-binding domains are then able to assume a conformation suitable for binding to the adjacent DNA sites that are utilized when AraC activates transcription, and hence AraC ceases looping the DNA when arabinose is added.


Pssm-ID: 425497 [Multi-domain]  Cd Length: 42  Bit Score: 32.13  E-value: 1.37e-03
                         10        20
                 ....*....|....*....|..
gi 2104638780 29 SQPYFQNQFKKITGYTPLQYRK 50
Cdd:pfam00165 21 SRSYFSRLFKKYTGVTPSQYRH 42
GlxA COG4977
Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH ...
 27-53 3.02e-03

Transcriptional regulator GlxA, contains an amidase domain and an AraC-type DNA-binding HTH domain [Transcription];


Pssm-ID: 444002 [Multi-domain]  Cd Length: 318  Bit Score: 33.21  E-value: 3.02e-03
                          10        20
                  ....*....|....*....|....*..
gi 2104638780  27 FSSQPYFQNQFKKITGYTPLQYRKENR 53
Cdd:COG4977   287 FGSASHFRRAFRRRFGVSPSAYRRRFR 313
AdaA COG2169
Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), ...
 27-53 3.56e-03

Methylphosphotriester-DNA--protein-cysteine methyltransferase (N-terminal fragment of Ada), contains Zn-binding and two AraC-type DNA-binding domains [Replication, recombination and repair];


Pssm-ID: 441772 [Multi-domain]  Cd Length: 358  Bit Score: 32.72  E-value: 3.56e-03
                          10        20
                  ....*....|....*....|....*..
gi 2104638780  27 FSSQPYFQNQFKKITGYTPLQYRKENR 53
Cdd:COG2169   160 FGSLSRFYEAFKKLLGMTPSAYRRGGA 186
 
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