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Conserved domains on  [gi|446313467|ref|WP_000391322|]
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MULTISPECIES: helix-turn-helix domain-containing protein [Bacillus]

Protein Classification

helix-turn-helix domain-containing protein( domain architecture ID 14302692)

helix-turn-helix domain-containing protein such as an XRE (Xenobiotic Response Element) family transcriptional regulator containing a cupin-like domain, controls the expression of genes involved in stress response

Gene Ontology:  GO:0003700|GO:0006355|GO:0003677
PubMed:  10473770|15808743|10556324|14697267

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-81 2.62e-19

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


:

Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 77.73  E-value: 2.62e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467   1 MEEIQLILAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLINNPQPDTKVVLRN 80
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLS 80


                 .
gi 446313467  81 D 81
Cdd:COG1396   81 E 81
cupin_XRE_C cd02209
XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; ...
 92-181 2.34e-17

XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; This family contains transcriptional regulators containing an N-terminal XRE (Xenobiotic Response Element) family helix-turn-helix (HTH) DNA-binding domain and a C-terminal cupin domain. Included in this family is Escherichia coli transcription factor SutR (YdcN) that plays a regulatory role in sulfur utilization; it regulates a set of genes involved in the generation of sulfate and its reduction, the synthesis of cysteine, the synthesis of enzymes containing Fe-S as cofactors, and the modification of tRNA with use of sulfur-containing substrates. This family belongs to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


:

Pssm-ID: 380339 [Multi-domain]  Cd Length: 90  Bit Score: 72.92  E-value: 2.34e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467  92 YKVYPSFPFQDDRNFEVYTVEIETEGKlNSEGHKEGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHNFGR 171
Cdd:cd02209    2 YTYELLSPGLPGRKMEPFLVTLPPGGS-GGEPYSHEGEEFGYVLEGELELTVGGETYVLEAGDSIYFDSDVPHRYRNPGD 80

                         90
                 ....*....|
gi 446313467 172 TLTRLSMTIH 181
Cdd:cd02209   81 EPARVLWVIT 90
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-81 2.62e-19

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 77.73  E-value: 2.62e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467   1 MEEIQLILAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLINNPQPDTKVVLRN 80
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLS 80


                 .
gi 446313467  81 D 81
Cdd:COG1396   81 E 81
cupin_XRE_C cd02209
XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; ...
 92-181 2.34e-17

XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; This family contains transcriptional regulators containing an N-terminal XRE (Xenobiotic Response Element) family helix-turn-helix (HTH) DNA-binding domain and a C-terminal cupin domain. Included in this family is Escherichia coli transcription factor SutR (YdcN) that plays a regulatory role in sulfur utilization; it regulates a set of genes involved in the generation of sulfate and its reduction, the synthesis of cysteine, the synthesis of enzymes containing Fe-S as cofactors, and the modification of tRNA with use of sulfur-containing substrates. This family belongs to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380339 [Multi-domain]  Cd Length: 90  Bit Score: 72.92  E-value: 2.34e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467  92 YKVYPSFPFQDDRNFEVYTVEIETEGKlNSEGHKEGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHNFGR 171
Cdd:cd02209    2 YTYELLSPGLPGRKMEPFLVTLPPGGS-GGEPYSHEGEEFGYVLEGELELTVGGETYVLEAGDSIYFDSDVPHRYRNPGD 80

                         90
                 ....*....|
gi 446313467 172 TLTRLSMTIH 181
Cdd:cd02209   81 EPARVLWVIT 90
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
1-183 2.34e-14

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 67.51  E-value: 2.34e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467   1 MEEIQLILAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLINNPQ-PDT-KVVL 78
Cdd:PRK09943   1 MSDEGLAPGKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFSEPEkPDEpQVVI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467  79 RND--VQVLSEDNGRYKVYPSFPfqdDRN----FEVYTVEIETEGKLNSEGhkegtEEFITVFEGELTIEIKDCQYKLNS 152
Cdd:PRK09943  81 NQDdlIEMGSQGVSMKLVHNGNP---NRTlamiFETYQPGTTTGERIKHQG-----EEIGTVLEGEIVLTINGQDYHLVA 152

                        170       180       190
                 ....*....|....*....|....*....|.
gi 446313467 153 GDSIRFKADRPHSYHNFGRTLTRLsMTIHYP 183
Cdd:PRK09943 153 GQSYAINTGIPHSFSNTSAGICRI-ISAHTP 182
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-66 4.17e-14

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: 63.73  E-value: 4.17e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446313467   9 AKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSL 66
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
COG3837 COG3837
Uncharacterized conserved protein, cupin superfamily [Function unknown];
102-185 6.95e-14

Uncharacterized conserved protein, cupin superfamily [Function unknown];


Pssm-ID: 443048 [Multi-domain]  Cd Length: 115  Bit Score: 64.65  E-value: 6.95e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467 102 DDRNFEVYTVEIEtEGKLNSEGHK-EGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHNFGRTLTRL---S 177
Cdd:COG3837   24 GLTRLGVNLITLP-PGASSSPYHAhSAEEEFVYVLEGELTLRIGGEEYVLEPGDSVGFPAGVPHRLRNRGDEPARYlvvG 102


                 ....*...
gi 446313467 178 MTIHYPVI 185
Cdd:COG3837  103 TRAPYPDS 110
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
11-66 3.10e-13

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 61.38  E-value: 3.10e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 446313467    11 NLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSL 66
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 12-66 6.46e-13

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: 60.25  E-value: 6.46e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 446313467   12 LKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSL 66
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 111-168 8.63e-09

Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel).


Pssm-ID: 462300 [Multi-domain]  Cd Length: 71  Bit Score: 49.95  E-value: 8.63e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 446313467  111 VEIETEGKLNSEGHkEGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHN 168
Cdd:pfam07883   3 VTLPPGESSPPHRH-PGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFRN 59
 
Name Accession Description Interval E-value
HipB COG1396
Transcriptional regulator, contains XRE-family HTH domain [Transcription];
1-81 2.62e-19

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


Pssm-ID: 441006 [Multi-domain]  Cd Length: 83  Bit Score: 77.73  E-value: 2.62e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467   1 MEEIQLILAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLINNPQPDTKVVLRN 80
Cdd:COG1396    1 MSTLKKALGERLRELRKARGLTQEELAERLGVSRSTISRIERGRRNPSLETLLKLAKALGVSLDELLGGADEELPEALLS 80


                 .
gi 446313467  81 D 81
Cdd:COG1396   81 E 81
cupin_XRE_C cd02209
XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; ...
 92-181 2.34e-17

XRE (Xenobiotic Response Element) family transcriptional regulators, C-terminal cupin domain; This family contains transcriptional regulators containing an N-terminal XRE (Xenobiotic Response Element) family helix-turn-helix (HTH) DNA-binding domain and a C-terminal cupin domain. Included in this family is Escherichia coli transcription factor SutR (YdcN) that plays a regulatory role in sulfur utilization; it regulates a set of genes involved in the generation of sulfate and its reduction, the synthesis of cysteine, the synthesis of enzymes containing Fe-S as cofactors, and the modification of tRNA with use of sulfur-containing substrates. This family belongs to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380339 [Multi-domain]  Cd Length: 90  Bit Score: 72.92  E-value: 2.34e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467  92 YKVYPSFPFQDDRNFEVYTVEIETEGKlNSEGHKEGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHNFGR 171
Cdd:cd02209    2 YTYELLSPGLPGRKMEPFLVTLPPGGS-GGEPYSHEGEEFGYVLEGELELTVGGETYVLEAGDSIYFDSDVPHRYRNPGD 80

                         90
                 ....*....|
gi 446313467 172 TLTRLSMTIH 181
Cdd:cd02209   81 EPARVLWVIT 90
PRK09943 PRK09943
HTH-type transcriptional regulator PuuR;
1-183 2.34e-14

HTH-type transcriptional regulator PuuR;


Pssm-ID: 182158 [Multi-domain]  Cd Length: 185  Bit Score: 67.51  E-value: 2.34e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467   1 MEEIQLILAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLINNPQ-PDT-KVVL 78
Cdd:PRK09943   1 MSDEGLAPGKRLSEIRQQQGLSQRRAAELSGLTHSAISTIEQDKVSPAISTLQKLLKVYGLSLSEFFSEPEkPDEpQVVI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467  79 RND--VQVLSEDNGRYKVYPSFPfqdDRN----FEVYTVEIETEGKLNSEGhkegtEEFITVFEGELTIEIKDCQYKLNS 152
Cdd:PRK09943  81 NQDdlIEMGSQGVSMKLVHNGNP---NRTlamiFETYQPGTTTGERIKHQG-----EEIGTVLEGEIVLTINGQDYHLVA 152

                        170       180       190
                 ....*....|....*....|....*....|.
gi 446313467 153 GDSIRFKADRPHSYHNFGRTLTRLsMTIHYP 183
Cdd:PRK09943 153 GQSYAINTGIPHSFSNTSAGICRI-ISAHTP 182
HTH_XRE cd00093
Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the ...
 9-66 4.17e-14

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: 63.73  E-value: 4.17e-14
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 446313467   9 AKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSL 66
Cdd:cd00093    1 GERLKELRKEKGLTQEELAEKLGVSRSTISRIENGKRNPSLETLEKLAKALGVSLDEL 58
COG3837 COG3837
Uncharacterized conserved protein, cupin superfamily [Function unknown];
102-185 6.95e-14

Uncharacterized conserved protein, cupin superfamily [Function unknown];


Pssm-ID: 443048 [Multi-domain]  Cd Length: 115  Bit Score: 64.65  E-value: 6.95e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467 102 DDRNFEVYTVEIEtEGKLNSEGHK-EGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHNFGRTLTRL---S 177
Cdd:COG3837   24 GLTRLGVNLITLP-PGASSSPYHAhSAEEEFVYVLEGELTLRIGGEEYVLEPGDSVGFPAGVPHRLRNRGDEPARYlvvG 102


                 ....*...
gi 446313467 178 MTIHYPVI 185
Cdd:COG3837  103 TRAPYPDS 110
HTH_XRE smart00530
Helix-turn-helix XRE-family like proteins;
11-66 3.10e-13

Helix-turn-helix XRE-family like proteins;


Pssm-ID: 197775 [Multi-domain]  Cd Length: 56  Bit Score: 61.38  E-value: 3.10e-13
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 446313467    11 NLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSL 66
Cdd:smart00530   1 RLKELREEKGLTQEELAEKLGVSRSTLSRIENGKRKPSLETLKKLAKALGVSLDEL 56
HTH_3 pfam01381
Helix-turn-helix; This large family of DNA binding helix-turn helix proteins includes Cro and ...
 12-66 6.46e-13

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: 60.25  E-value: 6.46e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 446313467   12 LKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSL 66
Cdd:pfam01381   1 LKELREELGLSQEELAEKLGVSRSTISKIENGKREPSLETLKKLAEALGVSLDEL 55
XRE COG1476
DNA-binding transcriptional regulator, XRE-family HTH domain [Transcription];
8-67 7.31e-13

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


Pssm-ID: 441085 [Multi-domain]  Cd Length: 68  Bit Score: 60.63  E-value: 7.31e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467   8 LAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLI 67
Cdd:COG1476    5 LGNRLKELRKERGLTQEELAELLGVSRQTISAIENGKYNPSLELALKIARALGVSLEELF 64
QdoI COG1917
Cupin domain protein related to quercetin dioxygenase [General function prediction only];
100-184 2.60e-11

Cupin domain protein related to quercetin dioxygenase [General function prediction only];


Pssm-ID: 441521 [Multi-domain]  Cd Length: 99  Bit Score: 57.55  E-value: 2.60e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467 100 FQDDRNFEVYTVEIETEGKLNSegHKEGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHNFGRTLTRLsMT 179
Cdd:COG1917   17 ADGEDELEVVRVTFEPGARTPW--HSHPGEELIYVLEGEGEVEVGGEEYELKPGDVVFIPPGVPHAFRNLGDEPAVL-LV 93


                 ....*
gi 446313467 180 IHYPV 184
Cdd:COG1917   94 VFSPG 98
aMBF1 COG1813
Archaeal ribosome-binding protein aMBF1, putative translation factor, contains Zn-ribbon and ...
 1-64 4.21e-11

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: 56.10  E-value: 4.21e-11
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446313467   1 MEEIQLILAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFT 64
Cdd:COG1813    6 TGELVEDYGERIREAREARGLSQEELAEKLGVSESTIRRIERGEATPSLDTLRKLEKALGISLA 69
AF2118 COG3620
Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain ...
 8-67 5.04e-10

Predicted transcriptional regulator, contains an XRE-type HTH domain (archaeal members contain CBS pair) [Transcription];


Pssm-ID: 442838 [Multi-domain]  Cd Length: 95  Bit Score: 53.87  E-value: 5.04e-10
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467   8 LAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLI 67
Cdd:COG3620   18 LGEALRLMRKELGLSQLPVAELVGVSQSDILRIESGKRDPTVSTLEKIAEALGKELSAVL 77
Cupin_2 pfam07883
Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ( ...
 111-168 8.63e-09

Cupin domain; This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel).


Pssm-ID: 462300 [Multi-domain]  Cd Length: 71  Bit Score: 49.95  E-value: 8.63e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 446313467  111 VEIETEGKLNSEGHkEGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHN 168
Cdd:pfam07883   3 VTLPPGESSPPHRH-PGEDEFFYVLEGEGELTVDGEEVVLKAGDSVYFPAGVPHRFRN 59
ManC COG0662
Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];
101-183 1.01e-08

Mannose-6-phosphate isomerase, cupin superfamily [Carbohydrate transport and metabolism];


Pssm-ID: 440426 [Multi-domain]  Cd Length: 114  Bit Score: 50.91  E-value: 1.01e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467 101 QDDRNFEVYTVEIETEGKLNSEGHkEGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHNFGRTLTRLsMTI 180
Cdd:COG0662   22 EGGERLSVKRITVPPGAELSLHVH-PHRDEFFYVLEGTGEVTIGDEEVELKAGDSVYIPAGVPHRLRNPGDEPLEL-LEV 99


                 ...
gi 446313467 181 HYP 183
Cdd:COG0662  100 QAP 102
HTH_19 pfam12844
Helix-turn-helix domain; Members of this family contains a DNA-binding helix-turn-helix domain. ...
 10-68 3.71e-08

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: 48.05  E-value: 3.71e-08
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 446313467   10 KNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLIN 68
Cdd:pfam12844   2 ERLRKAREERGLTQEELAERLGISRSQLSAIENGKSVPPAETLYKIAELLGVPANWLLQ 60
HTH_31 pfam13560
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 12-62 1.81e-04

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433309 [Multi-domain]  Cd Length: 64  Bit Score: 38.28  E-value: 1.81e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 446313467   12 LKTIREKEKLSLEKVSQLTGVSKTMIGQIERGE-SSPTLTTIWKIANGLKVS 62
Cdd:pfam13560   6 LRRLRERAGLSQEALARRLGVSRSTLSRLETGRrGRPSPAVVERLARALGVD 57
RodZ COG1426
Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell ...
 12-44 3.54e-04

Cytoskeletal protein RodZ, contains Xre-like HTH and DUF4115 domains [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 441035 [Multi-domain]  Cd Length: 71  Bit Score: 37.48  E-value: 3.54e-04
                         10        20        30
                 ....*....|....*....|....*....|...
gi 446313467  12 LKTIREKEKLSLEKVSQLTGVSKTMIGQIERGE 44
Cdd:COG1426   10 LRQAREAKGLSLEDVAERTKISVSYLEAIEEGD 42
YiaG COG2944
DNA-binding transcriptional regulator YiaG, XRE-type HTH domain [Transcription];
1-52 5.81e-04

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


Pssm-ID: 442187 [Multi-domain]  Cd Length: 64  Bit Score: 36.84  E-value: 5.81e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446313467   1 MEEIQLIlAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTI 52
Cdd:COG2944    1 MTKKPLT-PEEIRALRERLGLSQAEFAALLGVSVSTVRRWEQGRRKPSGAAL 51
cupin_HP0902-like cd02230
Helicobacter pylori HP0902 and related proteins, cupin domain; This family includes ...
 124-165 2.12e-03

Helicobacter pylori HP0902 and related proteins, cupin domain; This family includes prokaryotic and archaeal proteins homologous to HP0902, a functionally uncharacterized protein from Helicobacter pylori and Spy1581, a protein of unknown function from Streptococcus pyogenes. These proteins demonstrate all-beta cupin folds that cannot bind metal ions due to the absence of a metal-binding histidine that is conserved in many metallo-cupins. HP0902 is able to bind bacterial endotoxin lipopolysaccharides (LPS) through its surface-exposed loops, where metal-binding sites are usually found in other metallo-cupins, and thus may have a putative role in H. pylori pathogenicity.


Pssm-ID: 380358 [Multi-domain]  Cd Length: 83  Bit Score: 35.56  E-value: 2.12e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 446313467 124 HKEGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHS 165
Cdd:cd02230   27 HTAPGDATVQVLEGEAEFTIGGETVTLKAGELIVMPANVPHA 68
PRK09726 PRK09726
type II toxin-antitoxin system antitoxin HipB;
8-67 2.40e-03

type II toxin-antitoxin system antitoxin HipB;


Pssm-ID: 182049  Cd Length: 88  Bit Score: 35.73  E-value: 2.40e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467   8 LAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLI 67
Cdd:PRK09726  13 LANAMKLVRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLELSMTLCD 72
cupin_UGlyAH_N cd02211
(S)-ureidoglycine aminohydrolase and related proteins, N-terminal cupin domain; This family ...
 109-176 3.75e-03

(S)-ureidoglycine aminohydrolase and related proteins, N-terminal cupin domain; This family includes the N-terminal cupin domain of (S)-ureidoglycine aminohydrolase (UGlyAH), an enzyme that converts (S)-ureidoglycine into (S)-ureidoglycolate and ammonia, providing the final substrate to the ureide pathway. The ureide pathway has recently been identified as the metabolic route of purine catabolism in plants and some bacteria where, uric acid, which is a major product of the early stage of purine catabolism, is degraded into glyoxylate and ammonia via stepwise reactions by seven different enzymes. Thus, this pathway has a possible physiological role in mobilization of purine ring nitrogen for further assimilation. This enzyme from Arabidopsis thaliana(AtUGlyAH) has been shown to bind a Mn2+ ion, via the C-terminal cupin domain, which acts as a molecular anchor to bind (S)-ureidoglycine, and its binding mode dictates the enantioselectivity of the reaction. The structure of AtUGlyAH shows a bi-cupin fold with a conserved "jelly roll-like" beta-barrel fold and an octameric functional unit. Several structural homologs of UGlyAH, including the Escherichia coli ortholog YlbA (also known as GlxB6), also exhibit similar features.


Pssm-ID: 380341 [Multi-domain]  Cd Length: 117  Bit Score: 35.57  E-value: 3.75e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 446313467 109 YTVEIETEGKLNSEGHKEGTEEFITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHSYHNFGRTLTRL 176
Cdd:cd02211   28 YLVEVEPGGGSTAPEGGEGIERFLYVLEGEVELTVGGETHTLTAGGYAYLPPGTKHSLRNAGDEPARL 95
HTH_25 pfam13413
Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.
 12-46 5.19e-03

Helix-turn-helix domain; This domain is a helix-turn-helix domain that probably binds to DNA.


Pssm-ID: 433187 [Multi-domain]  Cd Length: 62  Bit Score: 34.01  E-value: 5.19e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 446313467   12 LKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESS 46
Cdd:pfam13413   2 LRAAREARGLSLEDVAERTKIRPRYLEALEEDDFD 36
cupin_RmlC-like cd02208
RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP ...
 124-168 6.11e-03

RmlC-like cupin superfamily; This superfamily contains proteins similar to the RmlC (dTDP (deoxythymidine diphosphates)-4-dehydrorhamnose 3,5-epimerase)-like cupins. RmlC is a dTDP-sugar isomerase involved in the synthesis of L-rhamnose, a saccharide required for the virulence of some pathogenic bacteria. Cupins are a functionally diverse superfamily originally discovered based on the highly conserved motif found in germin and germin-like proteins. This conserved motif forms a beta-barrel fold found in all of the cupins, giving rise to the name cupin ('cupa' is the Latin term for small barrel). The active site of members of this superfamily is generally located at the center of a conserved barrel and usually includes a metal ion. The different functional classes in this superfamily include single domain bacterial isomerases and epimerases involved in the modification of cell wall carbohydrates, two domain bicupins such as the desiccation-tolerant seed storage globulins, and multidomain nuclear transcription factors involved in legume root nodulation.


Pssm-ID: 380338 [Multi-domain]  Cd Length: 73  Bit Score: 34.38  E-value: 6.11e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*.
gi 446313467 124 HKEGtEEFITVFEGELTIEI-KDCQYKLNSGDSIRFKADRPHSYHN 168
Cdd:cd02208   17 HPEQ-DEIFYVLSGEGELTLdDGETVELKAGDIVLIPPGVPHSFVN 61
cupin_dsy2733 cd06983
Desulfitobacterium hafniense dsy2733 and related proteins, cupin domain; This family includes ...
 131-165 6.65e-03

Desulfitobacterium hafniense dsy2733 and related proteins, cupin domain; This family includes bacterial proteins homologous to dsy2733, a Desulfitobacterium hafniense protein of unknown function. Proteins in this family belong to the cupin superfamily with a conserved "jelly roll-like" beta-barrel fold capable of homodimerization.


Pssm-ID: 380388 [Multi-domain]  Cd Length: 81  Bit Score: 34.15  E-value: 6.65e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 446313467 131 FITVFEGELTIEIKDCQYKLNSGDSIRFKADRPHS 165
Cdd:cd06983   33 LYYVLEGEAEITIGDEKHRLKAGDVLAVPAGVLHA 67
PRK09706 PRK09706
transcriptional repressor DicA; Reviewed
 6-88 8.26e-03

transcriptional repressor DicA; Reviewed


Pssm-ID: 182039 [Multi-domain]  Cd Length: 135  Bit Score: 35.21  E-value: 8.26e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446313467   6 LILAKNLKTIREKEKLSLEKVSQLTGVSKTMIGQIERGESSPTLTTIWKIANGLKVSFTSLI---NNPQPDTKVVLRNDV 82
Cdd:PRK09706   4 LTLGQRIRYRRKQLKLSQRSLAKAVKVSHVSISQWERDETEPTGKNLFALAKALQCSPTWLLfgdEDKQPTPPVPLNQPV 83


                 ....*.
gi 446313467  83 QvLSED 88
Cdd:PRK09706  84 E-LSED 88
 
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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