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Conserved domains on  [gi|492378688|ref|WP_005825632|]
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YgiW/YdeI family stress tolerance OB fold protein [Actinobacillus minor]

Protein Classification

YgiW/YdeI family stress tolerance OB fold protein( domain architecture ID 10006935)

YgiW/YdeI family stress tolerance OB fold protein may function to bind proteins, small molecules, or other typical OB-fold ligands

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YdeI COG3111
Predicted periplasmic protein YdeI with OB-fold, BOF family [Function unknown];
1-109 4.92e-31

Predicted periplasmic protein YdeI with OB-fold, BOF family [Function unknown];


:

Pssm-ID: 442345  Cd Length: 125  Bit Score: 106.53  E-value: 4.92e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688   1 MKKLFVI--VLCAFSCSAFA---GFN------------PDNSNLKTIEQAEALPNHSTVMLEGYIVSQAKKKEFYFKDMQ 63
Cdd:COG3111    1 MKKTLALaaLLALASAPAFAadgGFKgppsaqdggftgPSDAAVTTVAQALAMRDDAWVTLEGNIVKQLGDDKYLFRDAT 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 492378688  64 NKlIRLKIEDHIWHGLDVSPNTKVRIQGKIDKYLLKSHIEAYQIDK 109
Cdd:COG3111   81 GT-IKVEIDDKVWNGQTVTPKDKVRISGEVDKDWNKVEIDVKRIQK 125
 
Name Accession Description Interval E-value
YdeI COG3111
Predicted periplasmic protein YdeI with OB-fold, BOF family [Function unknown];
1-109 4.92e-31

Predicted periplasmic protein YdeI with OB-fold, BOF family [Function unknown];


Pssm-ID: 442345  Cd Length: 125  Bit Score: 106.53  E-value: 4.92e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688   1 MKKLFVI--VLCAFSCSAFA---GFN------------PDNSNLKTIEQAEALPNHSTVMLEGYIVSQAKKKEFYFKDMQ 63
Cdd:COG3111    1 MKKTLALaaLLALASAPAFAadgGFKgppsaqdggftgPSDAAVTTVAQALAMRDDAWVTLEGNIVKQLGDDKYLFRDAT 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 492378688  64 NKlIRLKIEDHIWHGLDVSPNTKVRIQGKIDKYLLKSHIEAYQIDK 109
Cdd:COG3111   81 GT-IKVEIDDKVWNGQTVTPKDKVRISGEVDKDWNKVEIDVKRIQK 125
stress_OB_fold NF033674
NirD/YgiW/YdeI family stress tolerance protein; Members of this family possess an N-terminal ...
 2-109 5.27e-29

NirD/YgiW/YdeI family stress tolerance protein; Members of this family possess an N-terminal signal peptide, and are associated with tolerance to various toxic stresses. These include antimicrobial peptides (YdeI), hydrogen peroxide (YgiW and YdeI), and nickel (NcrY and NirD).


Pssm-ID: 468134  Cd Length: 110  Bit Score: 100.62  E-value: 5.27e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688   2 KKLFVIVLCAFSCSAFA---GFNPDNSNLKTIEQAEALPNHSTVMLEGYIVSQAKKKEFYFKDmQNKLIRLKIEDHIWHG 78
Cdd:NF033674   1 KLLLAALLALLSAPAFAadgGFTGPAANVTTVAQALKAKDDTPVTLTGNIVKQLGDDKYEFRD-ATGTITVEIDDDLWRG 79

                         90       100       110
                 ....*....|....*....|....*....|.
gi 492378688  79 LDVSPNTKVRIQGKIDKYLLKSHIEAYQIDK 109
Cdd:NF033674  80 QTVTPKDKVRITGEVDKDWKPTEIDVDRIEK 110
BOF pfam04076
Bacterial OB fold (BOF) protein; Proteins in this family form an OB-fold. Analysis of the ...
 15-109 7.57e-18

Bacterial OB fold (BOF) protein; Proteins in this family form an OB-fold. Analysis of the predicted binding site of BOF family proteins implies that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localize in the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesized for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the BOF ligand-binding site may be associated with the presence of BOF proteins in mobile genetic elements and their potential role in bacterial pathogenicity.


Pssm-ID: 281996  Cd Length: 103  Bit Score: 72.19  E-value: 7.57e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688   15 SAFAGFNPDNSNLKTIEQAEALPNHSTVMLEGYIVSQAKKKEFYFKDMQNKlIRLKIEDHIWHGLDVSPNTKVRIQGKID 94
Cdd:pfam04076  10 AIEGGFQGANAKKTTVKAALSAADDTPVSLRGNIVSQIDGDEYVFRDATGE-IKVEIDDRVWNGREVQPKDMVKIQGKVD 88

                          90
                  ....*....|....*
gi 492378688   95 KYLLKSHIEAYQIDK 109
Cdd:pfam04076  89 KDWNKAEIDVKHIEK 103
TIGR00156 TIGR00156
TIGR00156 family protein; As of the last revision, this family consists only of two proteins ...
 2-109 2.92e-15

TIGR00156 family protein; As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae. [Hypothetical proteins, Conserved]


Pssm-ID: 129260  Cd Length: 126  Bit Score: 66.09  E-value: 2.92e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688    2 KKLFVIVLCAFSCS--AFAGFNPDNSNLK-----------------TIEQAEALPNHSTVMLEGYIVSQAKKKEFYFKDM 62
Cdd:TIGR00156   1 MKFQAIVLASALVMpyALADDQGGLSAPPpphaieggfqgtdakkmTVDFAKSMHDGASVTLRGNIISHIGDDRYVFRDK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 492378688   63 QNKlIRLKIEDHIWHGLDVSPNTKVRIQGKIDKYLLKSHIEAYQIDK 109
Cdd:TIGR00156  81 SGE-INVVIPAAVWNGREVQPKDMVNISGSLDKKSAPAEVDVTHIQK 126
PRK10053 PRK10053
YdeI family stress tolerance OB fold protein;
1-95 6.64e-05

YdeI family stress tolerance OB fold protein;


Pssm-ID: 182212  Cd Length: 130  Bit Score: 39.37  E-value: 6.64e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688   1 MKKLFVIVLCAFSC-SAFA----GFNPD-----------------NSNLKTIEQAEALPNHSTVMLEGYIVSQAKKKEFY 58
Cdd:PRK10053   1 MKLQAIALASFLVMpYALAddqgGLKQDaapppphaiedgyrgtdDARKMTVEQAKTMHDGATVSLRGNLIDHKGDDRYV 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 492378688  59 FKDMQNKlIRLKIEDHIWHGLDVSPNTKVRIQGKIDK 95
Cdd:PRK10053  81 FRDKSGE-INVIIPAAVFDGREVQPDQMININGSLDK 116
 
Name Accession Description Interval E-value
YdeI COG3111
Predicted periplasmic protein YdeI with OB-fold, BOF family [Function unknown];
1-109 4.92e-31

Predicted periplasmic protein YdeI with OB-fold, BOF family [Function unknown];


Pssm-ID: 442345  Cd Length: 125  Bit Score: 106.53  E-value: 4.92e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688   1 MKKLFVI--VLCAFSCSAFA---GFN------------PDNSNLKTIEQAEALPNHSTVMLEGYIVSQAKKKEFYFKDMQ 63
Cdd:COG3111    1 MKKTLALaaLLALASAPAFAadgGFKgppsaqdggftgPSDAAVTTVAQALAMRDDAWVTLEGNIVKQLGDDKYLFRDAT 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 492378688  64 NKlIRLKIEDHIWHGLDVSPNTKVRIQGKIDKYLLKSHIEAYQIDK 109
Cdd:COG3111   81 GT-IKVEIDDKVWNGQTVTPKDKVRISGEVDKDWNKVEIDVKRIQK 125
stress_OB_fold NF033674
NirD/YgiW/YdeI family stress tolerance protein; Members of this family possess an N-terminal ...
 2-109 5.27e-29

NirD/YgiW/YdeI family stress tolerance protein; Members of this family possess an N-terminal signal peptide, and are associated with tolerance to various toxic stresses. These include antimicrobial peptides (YdeI), hydrogen peroxide (YgiW and YdeI), and nickel (NcrY and NirD).


Pssm-ID: 468134  Cd Length: 110  Bit Score: 100.62  E-value: 5.27e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688   2 KKLFVIVLCAFSCSAFA---GFNPDNSNLKTIEQAEALPNHSTVMLEGYIVSQAKKKEFYFKDmQNKLIRLKIEDHIWHG 78
Cdd:NF033674   1 KLLLAALLALLSAPAFAadgGFTGPAANVTTVAQALKAKDDTPVTLTGNIVKQLGDDKYEFRD-ATGTITVEIDDDLWRG 79

                         90       100       110
                 ....*....|....*....|....*....|.
gi 492378688  79 LDVSPNTKVRIQGKIDKYLLKSHIEAYQIDK 109
Cdd:NF033674  80 QTVTPKDKVRITGEVDKDWKPTEIDVDRIEK 110
BOF pfam04076
Bacterial OB fold (BOF) protein; Proteins in this family form an OB-fold. Analysis of the ...
 15-109 7.57e-18

Bacterial OB fold (BOF) protein; Proteins in this family form an OB-fold. Analysis of the predicted binding site of BOF family proteins implies that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localize in the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesized for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the BOF ligand-binding site may be associated with the presence of BOF proteins in mobile genetic elements and their potential role in bacterial pathogenicity.


Pssm-ID: 281996  Cd Length: 103  Bit Score: 72.19  E-value: 7.57e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688   15 SAFAGFNPDNSNLKTIEQAEALPNHSTVMLEGYIVSQAKKKEFYFKDMQNKlIRLKIEDHIWHGLDVSPNTKVRIQGKID 94
Cdd:pfam04076  10 AIEGGFQGANAKKTTVKAALSAADDTPVSLRGNIVSQIDGDEYVFRDATGE-IKVEIDDRVWNGREVQPKDMVKIQGKVD 88

                          90
                  ....*....|....*
gi 492378688   95 KYLLKSHIEAYQIDK 109
Cdd:pfam04076  89 KDWNKAEIDVKHIEK 103
TIGR00156 TIGR00156
TIGR00156 family protein; As of the last revision, this family consists only of two proteins ...
 2-109 2.92e-15

TIGR00156 family protein; As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae. [Hypothetical proteins, Conserved]


Pssm-ID: 129260  Cd Length: 126  Bit Score: 66.09  E-value: 2.92e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688    2 KKLFVIVLCAFSCS--AFAGFNPDNSNLK-----------------TIEQAEALPNHSTVMLEGYIVSQAKKKEFYFKDM 62
Cdd:TIGR00156   1 MKFQAIVLASALVMpyALADDQGGLSAPPpphaieggfqgtdakkmTVDFAKSMHDGASVTLRGNIISHIGDDRYVFRDK 80

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 492378688   63 QNKlIRLKIEDHIWHGLDVSPNTKVRIQGKIDKYLLKSHIEAYQIDK 109
Cdd:TIGR00156  81 SGE-INVVIPAAVWNGREVQPKDMVNISGSLDKKSAPAEVDVTHIQK 126
PRK10053 PRK10053
YdeI family stress tolerance OB fold protein;
1-95 6.64e-05

YdeI family stress tolerance OB fold protein;


Pssm-ID: 182212  Cd Length: 130  Bit Score: 39.37  E-value: 6.64e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 492378688   1 MKKLFVIVLCAFSC-SAFA----GFNPD-----------------NSNLKTIEQAEALPNHSTVMLEGYIVSQAKKKEFY 58
Cdd:PRK10053   1 MKLQAIALASFLVMpYALAddqgGLKQDaapppphaiedgyrgtdDARKMTVEQAKTMHDGATVSLRGNLIDHKGDDRYV 80

                         90       100       110
                 ....*....|....*....|....*....|....*..
gi 492378688  59 FKDMQNKlIRLKIEDHIWHGLDVSPNTKVRIQGKIDK 95
Cdd:PRK10053  81 FRDKSGE-INVIIPAAVFDGREVQPDQMININGSLDK 116
 
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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