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Conserved domains on  [gi|2126482600|ref|WP_227538758|]
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helix-turn-helix transcriptional regulator [Klebsiella quasipneumoniae]

Protein Classification

XRE family transcriptional regulator( domain architecture ID 11443577)

XRE (Xenobiotic Response Element) family transcriptional regulator is a helix-turn-helix domain-containing transcriptional regulator with a peptidase S24 LexA-like domain

Gene Ontology:  GO:0003677
PubMed:  10473770|15808743|10556324

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
COG2932 COG2932
Phage repressor protein C, contains Cro/C1-type HTH and peptisase s24 domains [Mobilome: ...
 122-250 6.24e-40

Phage repressor protein C, contains Cro/C1-type HTH and peptisase s24 domains [Mobilome: prophages, transposons];


:

Pssm-ID: 442176  Cd Length: 121  Bit Score: 134.32  E-value: 6.24e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 122 VPRYNVAAAAGYGAWNDDETPMFTVSFRRywivnhlkADPAKLSVISVVGDSMEGVLNDKDIILINHGDREPREG-IYVL 200
Cdd:COG2932     1 VPLYDGEASAGGGAFNEVEEPVDKLEFPG--------LPPDNLFAVRVSGDSMEPTIRDGDIVLVDPSDTEIRDGgIYVV 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2126482600 201 RLDGQLIVKRVQRLPGSELFVTSTNPAYKPFTINLNNIpSDFDVVGKVVW 250
Cdd:COG2932    73 RTDGELLVKRLQRRPDGKLRLISDNPAYPPIEIPPEDA-DEIEIIGRVVW 121
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
19-92 2.08e-09

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 53.08  E-value: 2.08e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2126482600  19 MDNQKgTTFAERLRKAIGDK--SIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWLATGQNSPAP 92
Cdd:COG1396     1 MSTLK-KALGERLRELRKARglTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELP 75
 
Name Accession Description Interval E-value
COG2932 COG2932
Phage repressor protein C, contains Cro/C1-type HTH and peptisase s24 domains [Mobilome: ...
 122-250 6.24e-40

Phage repressor protein C, contains Cro/C1-type HTH and peptisase s24 domains [Mobilome: prophages, transposons];


Pssm-ID: 442176  Cd Length: 121  Bit Score: 134.32  E-value: 6.24e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 122 VPRYNVAAAAGYGAWNDDETPMFTVSFRRywivnhlkADPAKLSVISVVGDSMEGVLNDKDIILINHGDREPREG-IYVL 200
Cdd:COG2932     1 VPLYDGEASAGGGAFNEVEEPVDKLEFPG--------LPPDNLFAVRVSGDSMEPTIRDGDIVLVDPSDTEIRDGgIYVV 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2126482600 201 RLDGQLIVKRVQRLPGSELFVTSTNPAYKPFTINLNNIpSDFDVVGKVVW 250
Cdd:COG2932    73 RTDGELLVKRLQRRPDGKLRLISDNPAYPPIEIPPEDA-DEIEIIGRVVW 121
S24_LexA-like cd06529
Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of ...
 166-249 3.71e-21

Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the protein. In the presence of single-stranded DNA, the LexA, UmuD and MucA proteins interact with RecA, activating self cleavage, thus either derepressing transcription in the case of LexA or activating the lesion-bypass polymerase in the case of UmuD and MucA. The LexA proteins are serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases. LexA sequence homologs are found in almost all of the bacterial genomes sequenced to date, covering a large number of phyla, suggesting both, an ancient origin and a widespread distribution of lexA and the SOS response.


Pssm-ID: 119397 [Multi-domain]  Cd Length: 81  Bit Score: 84.53  E-value: 3.71e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 166 VISVVGDSMEGVLNDKDIILINHGDREPREGIYVLRLDGQLIVKRVQRLPGSELFVTSTNPAYKPFTINlnniPSDFDVV 245
Cdd:cd06529     2 ALRVKGDSMEPTIPDGDLVLVDPSDTPRDGDIVVARLDGELTVKRLQRRGGGRLRLISDNPAYPPIEID----EEELEIV 77


                  ....
gi 2126482600 246 GKVV 249
Cdd:cd06529    78 GVVG 81
Peptidase_S24 pfam00717
Peptidase S24-like;
129-249 1.96e-18

Peptidase S24-like;


Pssm-ID: 425835  Cd Length: 116  Bit Score: 78.40  E-value: 1.96e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 129 AAAGYGAWNDDETPMFtVSFRRYWIVNhlkadPAKLSVISVVGDSMEGVLNDKDIILInHGDREPREG-IYVLRLDGQLI 207
Cdd:pfam00717   6 VAAGAPILAEEEIEGY-LPLPESLLSP-----PGNLFALRVKGDSMEPGIPDGDLVLV-DPSREARNGdIVVARLDGEAT 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2126482600 208 VKRVQRlPGSELFVTSTNPAYKPFTINLNNipsDFDVVGKVV 249
Cdd:pfam00717  79 VKRLYR-DGGGIRLISLNPEYPPIELPAED---DVEIIGRVV 116
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
19-92 2.08e-09

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 53.08  E-value: 2.08e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2126482600  19 MDNQKgTTFAERLRKAIGDK--SIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWLATGQNSPAP 92
Cdd:COG1396     1 MSTLK-KALGERLRELRKARglTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELP 75
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 30-83 2.12e-08

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 49.47  E-value: 2.12e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2126482600  30 RLRKAIGdKSIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWL 83
Cdd:cd00093     6 ELRKEKG-LTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
30-83 2.34e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 46.36  E-value: 2.34e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2126482600   30 RLRKAIGdKSIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWL 83
Cdd:smart00530   4 ELREEKG-LTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
PRK10276 PRK10276
translesion error-prone DNA polymerase V autoproteolytic subunit;
153-250 1.73e-06

translesion error-prone DNA polymerase V autoproteolytic subunit;


Pssm-ID: 182350  Cd Length: 139  Bit Score: 46.33  E-value: 1.73e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 153 IVNHlkadPAKLSVISVVGDSM-EGVLNDKDIILI------NHGDrepregIYVLRLDGQLIVKRVQRLPGSELfvTSTN 225
Cdd:PRK10276   44 LIQH----PSATYFVKASGDSMiDAGISDGDLLIVdsaitaSHGD------IVIAAVDGEFTVKKLQLRPTVQL--IPMN 111

                          90       100
                  ....*....|....*....|....*
gi 2126482600 226 PAYKPFTINLNnipSDFDVVGKVVW 250
Cdd:PRK10276  112 SAYSPITISSE---DTLDVFGVVTH 133
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 29-83 1.87e-06

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 44.07  E-value: 1.87e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2126482600  29 ERLRKAIGdKSIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWL 83
Cdd:pfam01381   2 KELREELG-LSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 25-100 2.54e-05

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 45.11  E-value: 2.54e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600  25 TTFAERLRKAIGDKSIRQ-----FAIDCGI--SYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWLAtGQNSPAPTGTEL 97
Cdd:PRK13355    2 TTFAERLKQAMKARGLKQedlvhAAEARGVklGKSHISQYVSGKTGPRRDVLPFLAAILGVSEDWLL-GGESPADQESDA 80


                  ...
gi 2126482600  98 QSV 100
Cdd:PRK13355   81 SAV 83
 
Name Accession Description Interval E-value
COG2932 COG2932
Phage repressor protein C, contains Cro/C1-type HTH and peptisase s24 domains [Mobilome: ...
 122-250 6.24e-40

Phage repressor protein C, contains Cro/C1-type HTH and peptisase s24 domains [Mobilome: prophages, transposons];


Pssm-ID: 442176  Cd Length: 121  Bit Score: 134.32  E-value: 6.24e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 122 VPRYNVAAAAGYGAWNDDETPMFTVSFRRywivnhlkADPAKLSVISVVGDSMEGVLNDKDIILINHGDREPREG-IYVL 200
Cdd:COG2932     1 VPLYDGEASAGGGAFNEVEEPVDKLEFPG--------LPPDNLFAVRVSGDSMEPTIRDGDIVLVDPSDTEIRDGgIYVV 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2126482600 201 RLDGQLIVKRVQRLPGSELFVTSTNPAYKPFTINLNNIpSDFDVVGKVVW 250
Cdd:COG2932    73 RTDGELLVKRLQRRPDGKLRLISDNPAYPPIEIPPEDA-DEIEIIGRVVW 121
S24_LexA-like cd06529
Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of ...
 166-249 3.71e-21

Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the protein. In the presence of single-stranded DNA, the LexA, UmuD and MucA proteins interact with RecA, activating self cleavage, thus either derepressing transcription in the case of LexA or activating the lesion-bypass polymerase in the case of UmuD and MucA. The LexA proteins are serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases. LexA sequence homologs are found in almost all of the bacterial genomes sequenced to date, covering a large number of phyla, suggesting both, an ancient origin and a widespread distribution of lexA and the SOS response.


Pssm-ID: 119397 [Multi-domain]  Cd Length: 81  Bit Score: 84.53  E-value: 3.71e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 166 VISVVGDSMEGVLNDKDIILINHGDREPREGIYVLRLDGQLIVKRVQRLPGSELFVTSTNPAYKPFTINlnniPSDFDVV 245
Cdd:cd06529     2 ALRVKGDSMEPTIPDGDLVLVDPSDTPRDGDIVVARLDGELTVKRLQRRGGGRLRLISDNPAYPPIEID----EEELEIV 77


                  ....
gi 2126482600 246 GKVV 249
Cdd:cd06529    78 GVVG 81
Peptidase_S24 pfam00717
Peptidase S24-like;
129-249 1.96e-18

Peptidase S24-like;


Pssm-ID: 425835  Cd Length: 116  Bit Score: 78.40  E-value: 1.96e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 129 AAAGYGAWNDDETPMFtVSFRRYWIVNhlkadPAKLSVISVVGDSMEGVLNDKDIILInHGDREPREG-IYVLRLDGQLI 207
Cdd:pfam00717   6 VAAGAPILAEEEIEGY-LPLPESLLSP-----PGNLFALRVKGDSMEPGIPDGDLVLV-DPSREARNGdIVVARLDGEAT 78

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2126482600 208 VKRVQRlPGSELFVTSTNPAYKPFTINLNNipsDFDVVGKVV 249
Cdd:pfam00717  79 VKRLYR-DGGGIRLISLNPEYPPIELPAED---DVEIIGRVV 116
Peptidase_S24_S26 cd06462
The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal ...
 165-248 7.33e-18

The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the transport of proteins across membranes in all living organisms. All members in this superfamily are unique serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases.


Pssm-ID: 119396 [Multi-domain]  Cd Length: 84  Bit Score: 75.76  E-value: 7.33e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 165 SVISVVGDSMEGVLNDKDIILINHGDREPREG-IYVLRLDG-QLIVKRVQRLPGS-ELFVTSTNPAYKPFTINLnniPSD 241
Cdd:cd06462     1 FALRVEGDSMEPTIPDGDLVLVDKSSYEPKRGdIVVFRLPGgELTVKRVIGLPGEgHYFLLGDNPNSPDSRIDG---PPE 77


                  ....*..
gi 2126482600 242 FDVVGKV 248
Cdd:cd06462    78 LDIVGVV 84
LexA COG1974
SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, ...
 169-250 5.85e-10

SOS-response transcriptional repressor LexA (RecA-mediated autopeptidase) [Transcription, Signal transduction mechanisms];


Pssm-ID: 441577 [Multi-domain]  Cd Length: 199  Bit Score: 57.23  E-value: 5.85e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 169 VVGDSMEGV-LNDKDIILINHGDrEPREG-IYVLRLDGQLIVKRVQRLPGsELFVTSTNPAYKPFTINLNnipsDFDVVG 246
Cdd:COG1974   117 VKGDSMIDAgILDGDLVIVDRQL-EAENGdIVVALIDGEATVKRLYKEGG-RVRLQPENPAYPPIIIEGD----DVEILG 190


                  ....
gi 2126482600 247 KVVW 250
Cdd:COG1974   191 VVVG 194
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
19-92 2.08e-09

Transcriptional regulator, contains XRE-family HTH domain [Transcription];


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 53.08  E-value: 2.08e-09
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2126482600  19 MDNQKgTTFAERLRKAIGDK--SIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWLATGQNSPAP 92
Cdd:COG1396     1 MSTLK-KALGERLRELRKARglTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELP 75
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 30-83 2.12e-08

Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.


Pssm-ID: 238045 [Multi-domain]  Cd Length: 58  Bit Score: 49.47  E-value: 2.12e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2126482600  30 RLRKAIGdKSIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWL 83
Cdd:cd00093     6 ELRKEKG-LTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
30-83 2.34e-07

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 46.36  E-value: 2.34e-07
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2126482600   30 RLRKAIGdKSIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWL 83
Cdd:smart00530   4 ELREEKG-LTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
PRK10276 PRK10276
translesion error-prone DNA polymerase V autoproteolytic subunit;
153-250 1.73e-06

translesion error-prone DNA polymerase V autoproteolytic subunit;


Pssm-ID: 182350  Cd Length: 139  Bit Score: 46.33  E-value: 1.73e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600 153 IVNHlkadPAKLSVISVVGDSM-EGVLNDKDIILI------NHGDrepregIYVLRLDGQLIVKRVQRLPGSELfvTSTN 225
Cdd:PRK10276   44 LIQH----PSATYFVKASGDSMiDAGISDGDLLIVdsaitaSHGD------IVIAAVDGEFTVKKLQLRPTVQL--IPMN 111

                          90       100
                  ....*....|....*....|....*
gi 2126482600 226 PAYKPFTINLNnipSDFDVVGKVVW 250
Cdd:PRK10276  112 SAYSPITISSE---DTLDVFGVVTH 133
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 29-83 1.87e-06

Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and CI. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteriztic of the whole family.


Pssm-ID: 460181 [Multi-domain]  Cd Length: 55  Bit Score: 44.07  E-value: 1.87e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2126482600  29 ERLRKAIGdKSIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWL 83
Cdd:pfam01381   2 KELREELG-LSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
PRK13355 PRK13355
bifunctional HTH-domain containing protein/aminotransferase; Provisional
 25-100 2.54e-05

bifunctional HTH-domain containing protein/aminotransferase; Provisional


Pssm-ID: 237361 [Multi-domain]  Cd Length: 517  Bit Score: 45.11  E-value: 2.54e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600  25 TTFAERLRKAIGDKSIRQ-----FAIDCGI--SYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWLAtGQNSPAPTGTEL 97
Cdd:PRK13355    2 TTFAERLKQAMKARGLKQedlvhAAEARGVklGKSHISQYVSGKTGPRRDVLPFLAAILGVSEDWLL-GGESPADQESDA 80


                  ...
gi 2126482600  98 QSV 100
Cdd:PRK13355   81 SAV 83
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
26-83 6.28e-05

DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 40.22  E-value: 6.28e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600  26 TFAERLRKAIGDKSIRQ--FAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWL 83
Cdd:COG1476     4 KLGNRLKELRKERGLTQeeLAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEEL 63
S26_SPase_I cd06530
The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4. ...
 165-211 5.72e-04

The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa) belong to this family and they process many proteins that enter the ER for retention or for export to the Golgi apparatus, secretory vesicles, plasma membranes or vacuole. An atypical member of the S26 SPase type I family is the TraF peptidase which has the remarkable activity of producing a cyclic protein of the Pseudomonas pilin system. The type I signal peptidases are unique serine proteases that utilize a serine/lysine catalytic dyad mechanism in place of the classical serine/histidine/aspartic acid catalytic triad mechanism.


Pssm-ID: 119398 [Multi-domain]  Cd Length: 85  Bit Score: 37.95  E-value: 5.72e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2126482600 165 SVISVVGDSMEGVLNDKDIILINH---GDREPREG-IYVLRLDG---QLIVKRV 211
Cdd:cd06530     1 EPVVVPGGSMEPTLQPGDLVLVNKlsyGFREPKRGdVVVFKSPGdpgKPIIKRV 54
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 29-86 6.16e-04

Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. This family contains many example antitoxins from bacterial toxin-antitoxin systems. These antitoxins are likely to be DNA-binding domains.


Pssm-ID: 463728 [Multi-domain]  Cd Length: 64  Bit Score: 37.27  E-value: 6.16e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600  29 ERLRKAIGDK--SIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEWLATG 86
Cdd:pfam12844   2 ERLRKAREERglTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLLQG 61
Phage_CI_repr pfam07022
Bacteriophage CI repressor helix-turn-helix domain; This family consists of several phage CI ...
 27-90 9.36e-04

Bacteriophage CI repressor helix-turn-helix domain; This family consists of several phage CI repressor proteins and related bacterial sequences. The CI repressor is known to function as a transcriptional switch, determining whether transcription is lytic or lysogenic.


Pssm-ID: 311152  Cd Length: 65  Bit Score: 36.92  E-value: 9.36e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2126482600  27 FAERLRKAIGDKSIRQFAIDCGISYGAMHKYFTGTTQPtLDNLIILSRTTGVSIEWLATGQNSP 90
Cdd:pfam07022   2 VIERLMKAYGFKSRQELADHLGVSKSTLSTWYTRDSFP-AELVVRCALETGVSLEWLATGDGEL 64
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 25-82 1.12e-03

Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and HTH domains [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441418 [Multi-domain]  Cd Length: 70  Bit Score: 36.84  E-value: 1.12e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2126482600  25 TTFAERLRKAIGDK--SIRQFAIDCGISYGAMHKYFTGTTQPTLDNLIILSRTTGVSIEW 82
Cdd:COG1813    11 EDYGERIREAREARglSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLAE 70
 
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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