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Conserved domains on  [gi|269095844|gb|ACZ20280|]
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hypothetical protein Sked_03120 [Sanguibacter keddieii DSM 10542]

Protein Classification

DUF4411 family protein( domain architecture ID 10627302)

DUF4411 family protein is a PIN (PilT N terminus) domain-containing protein that belongs to a large nuclease superfamily

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DUF4411 pfam14367
Domain of unknown function (DUF4411); This family of proteins is functionally uncharacterized. ...
 2-159 1.69e-79

Domain of unknown function (DUF4411); This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 153 and 170 amino acids in length. There is a single completely conserved residue D that may be functionally important.


:

Pssm-ID: 433908  Cd Length: 159  Bit Score: 232.59  E-value: 1.69e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269095844    2 YLLDANVFIQSYRAHYGFDIAPGFWEWLSRGGAVGMLASVRIIKDELDVGQDELTGWAVDH-APLFLAMDAATQPTLAHL 80
Cdd:pfam14367   1 YLLDTNVFIQAWRRYYGFDIFPSFWDWLDQLIAAGKLLSIDEVKDELARGDDELSKWAKENeGLLFSVPDPAVQEEYGHV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 269095844   81 ARWTTSSSTGYTQAAQAEFLASGDYQLVAYAHAYNHTVVTYEVPAPGSKKKIKFPDACRALDVPCTGPYAMLREESARF 159
Cdd:pfam14367  81 ANWVILVSEGYSKAADAEFLSVADPFLIAYALANGATVVTHEVSNPNSKKKVKIPDVCRAFGVPCIDLFEMLRELGATF 159
 
Name Accession Description Interval E-value
DUF4411 pfam14367
Domain of unknown function (DUF4411); This family of proteins is functionally uncharacterized. ...
 2-159 1.69e-79

Domain of unknown function (DUF4411); This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 153 and 170 amino acids in length. There is a single completely conserved residue D that may be functionally important.


Pssm-ID: 433908  Cd Length: 159  Bit Score: 232.59  E-value: 1.69e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269095844    2 YLLDANVFIQSYRAHYGFDIAPGFWEWLSRGGAVGMLASVRIIKDELDVGQDELTGWAVDH-APLFLAMDAATQPTLAHL 80
Cdd:pfam14367   1 YLLDTNVFIQAWRRYYGFDIFPSFWDWLDQLIAAGKLLSIDEVKDELARGDDELSKWAKENeGLLFSVPDPAVQEEYGHV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 269095844   81 ARWTTSSSTGYTQAAQAEFLASGDYQLVAYAHAYNHTVVTYEVPAPGSKKKIKFPDACRALDVPCTGPYAMLREESARF 159
Cdd:pfam14367  81 ANWVILVSEGYSKAADAEFLSVADPFLIAYALANGATVVTHEVSNPNSKKKVKIPDVCRAFGVPCIDLFEMLRELGATF 159
PIN_VapC-like_DUF411 cd18711
VapC-like PIN (DUF411) domain in DUF411 domain-containing proteins and related proteins; This ...
 4-146 1.23e-07

VapC-like PIN (DUF411) domain in DUF411 domain-containing proteins and related proteins; This subfamily includes the DUF411 PIN domain in proteins annotated as DUF411 domain-containing proteins. It is an uncharacterized subfamily of the VapC (virulence-associated protein C)-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The PIN domain belongs to a large nuclease superfamily. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.


Pssm-ID: 350278  Cd Length: 146  Bit Score: 48.40  E-value: 1.23e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269095844   4 LDANVFIQSYraHYGFDIAPGFWEWLSRGGAVGMLASVRIIKDELDVGQ--DELTGWAVDHAPLFlamdaaTQPTLAHLA 81
Cdd:cd18711    2 FDTSSFSDLF--HYYPDVFPSLWEKFDELVSNGKIISTREVLRELEDGNkdDELLAWAKDNKAIF------TTPTAEELR 73

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269095844  82 RWTTSSSTGYTQA--AQAEFLASG---DYQLVAYAHAYNHTVVTYEVPAPGSKkkiKFPDACRALDVPCT 146
Cdd:cd18711   74 FVAEIFAVPHFQAliEEKKRLKGGpvaDPFVIAKAKVKGGTVVTEEKLKPNAA---KIPNVCEHFGIPCI 140
 
Name Accession Description Interval E-value
DUF4411 pfam14367
Domain of unknown function (DUF4411); This family of proteins is functionally uncharacterized. ...
 2-159 1.69e-79

Domain of unknown function (DUF4411); This family of proteins is functionally uncharacterized. This family of proteins is found in bacteria and archaea. Proteins in this family are typically between 153 and 170 amino acids in length. There is a single completely conserved residue D that may be functionally important.


Pssm-ID: 433908  Cd Length: 159  Bit Score: 232.59  E-value: 1.69e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269095844    2 YLLDANVFIQSYRAHYGFDIAPGFWEWLSRGGAVGMLASVRIIKDELDVGQDELTGWAVDH-APLFLAMDAATQPTLAHL 80
Cdd:pfam14367   1 YLLDTNVFIQAWRRYYGFDIFPSFWDWLDQLIAAGKLLSIDEVKDELARGDDELSKWAKENeGLLFSVPDPAVQEEYGHV 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 269095844   81 ARWTTSSSTGYTQAAQAEFLASGDYQLVAYAHAYNHTVVTYEVPAPGSKKKIKFPDACRALDVPCTGPYAMLREESARF 159
Cdd:pfam14367  81 ANWVILVSEGYSKAADAEFLSVADPFLIAYALANGATVVTHEVSNPNSKKKVKIPDVCRAFGVPCIDLFEMLRELGATF 159
PIN_VapC-like_DUF411 cd18711
VapC-like PIN (DUF411) domain in DUF411 domain-containing proteins and related proteins; This ...
 4-146 1.23e-07

VapC-like PIN (DUF411) domain in DUF411 domain-containing proteins and related proteins; This subfamily includes the DUF411 PIN domain in proteins annotated as DUF411 domain-containing proteins. It is an uncharacterized subfamily of the VapC (virulence-associated protein C)-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC toxin-antitoxin (TA) systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include FitB toxin of the FitAB TA system, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. The PIN domain belongs to a large nuclease superfamily. The structural properties of the PIN (PilT N terminus) domain indicate its active center, consisting of three highly conserved catalytic residues which coordinate metal ions, in some members, additional metal coordinating residues can be found. Some members of the superfamily lack several of these key catalytic residues. The PIN active site is geometrically similar in the active center of structure-specific 5' nucleases, PIN-domain ribonucleases of eukaryotic rRNA editing proteins, and bacterial toxins of toxin-antitoxin (TA) operons.


Pssm-ID: 350278  Cd Length: 146  Bit Score: 48.40  E-value: 1.23e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269095844   4 LDANVFIQSYraHYGFDIAPGFWEWLSRGGAVGMLASVRIIKDELDVGQ--DELTGWAVDHAPLFlamdaaTQPTLAHLA 81
Cdd:cd18711    2 FDTSSFSDLF--HYYPDVFPSLWEKFDELVSNGKIISTREVLRELEDGNkdDELLAWAKDNKAIF------TTPTAEELR 73

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269095844  82 RWTTSSSTGYTQA--AQAEFLASG---DYQLVAYAHAYNHTVVTYEVPAPGSKkkiKFPDACRALDVPCT 146
Cdd:cd18711   74 FVAEIFAVPHFQAliEEKKRLKGGpvaDPFVIAKAKVKGGTVVTEEKLKPNAA---KIPNVCEHFGIPCI 140
 
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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