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Conserved domains on  [gi|446834062|ref|WP_000911318|]
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MULTISPECIES: type II toxin-antitoxin system VapC family toxin [Enterobacteriaceae]

Protein Classification

type II toxin-antitoxin system VapC family toxin( domain architecture ID 10793851)

type II toxin-antitoxin (TA) system VapC family toxin functions as a ribonuclease that is neutralized by its cognate antitoxin VapB; similar to Salmonella enterica tRNA(fMet)-specific endonuclease VapC, a site-specific tRNA-(fMet) endonuclease that cleaves both charged and uncharged tRNA-(fMet) between positions 38 and 39 at the anticodon stem-loop boundary

EC:  3.1.-.-
Gene Ontology:  GO:0004540
PubMed:  21036780|28279904

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK13725 PRK13725
tRNA(fMet)-specific endonuclease VapC;
1-132 6.78e-101

tRNA(fMet)-specific endonuclease VapC;


:

Pssm-ID: 184277  Cd Length: 132  Bit Score: 284.23  E-value: 6.78e-101
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   1 MLKFMLDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT 80
Cdd:PRK13725   1 MLKFMLDTNICIFTIKNKPEHVRERFNLNTGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRLEVLDYDTAAATHT 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446834062  81 GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS 132
Cdd:PRK13725  81 GQIRAELARQGRPVGPFDQMIAGHARSRGLIVVTNNTREFERVPGIRIEDWS 132
 
Name Accession Description Interval E-value
PRK13725 PRK13725
tRNA(fMet)-specific endonuclease VapC;
1-132 6.78e-101

tRNA(fMet)-specific endonuclease VapC;


Pssm-ID: 184277  Cd Length: 132  Bit Score: 284.23  E-value: 6.78e-101
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   1 MLKFMLDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT 80
Cdd:PRK13725   1 MLKFMLDTNICIFTIKNKPEHVRERFNLNTGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRLEVLDYDTAAATHT 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446834062  81 GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS 132
Cdd:PRK13725  81 GQIRAELARQGRPVGPFDQMIAGHARSRGLIVVTNNTREFERVPGIRIEDWS 132
PIN_VapC4-5_FitB-like cd09881
VapC-like PIN domain of Mycobacterium tuberculosis VapC4 and VapC5, and Neisseria gonorrhoeae ...
 5-130 1.22e-58

VapC-like PIN domain of Mycobacterium tuberculosis VapC4 and VapC5, and Neisseria gonorrhoeae FitB and related proteins; This family includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This family belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350229  Cd Length: 127  Bit Score: 177.29  E-value: 1.22e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERF-NLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQI 83
Cdd:cd09881    1 LLDTNICIDLLRGRPPSVLERLeELLPEDLAISSITLAELLYGAEKSQRPEKNLAALEAFLSRLEVLPFDEEAAEIYGEI 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446834062  84 RAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTED 130
Cdd:cd09881   81 RAELEKKGKPIGDNDLLIAATALAHGLTLVTNNTKHFERIPGLKVEN 127
VapC COG1487
Ribonuclease/mRNA interferase VapC, contains PIN domain [Defense mechanisms];
4-131 3.34e-51

Ribonuclease/mRNA interferase VapC, contains PIN domain [Defense mechanisms];


Pssm-ID: 441096  Cd Length: 128  Bit Score: 158.49  E-value: 3.34e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   4 FMLDTNICIFTIKNKPASVRERFN-LNQGRMCISSVTLMELIYGAEKSQmPERNLAVIEGFVSRIDVLDYDAAAATHTGQ 82
Cdd:COG1487    1 YLLDTNVLIDLLRGRPPAVLAWLAeLEAGELAISAITLAELLYGARRSP-DAKRRAALEAFLEAFPVLPFDAEAARRAGE 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 446834062  83 IRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:COG1487   80 LRAALRRAGRPIGLADLLIAATALAHGLTLVTRNTKDFERIPGLKVEPW 128
PIN pfam01850
PIN domain;
5-126 3.40e-18

PIN domain;


Pssm-ID: 426475  Cd Length: 121  Bit Score: 74.37  E-value: 3.40e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062    5 MLDTNICIFTIKNKPASVRERFNLN-QGRMCISSVTLMELIYGAEK--SQMPERNLAVIEGFVSRIDVLDYDAAAATHTG 81
Cdd:pfam01850   2 VLDTSVLIALLRGEPLHEAARELLEaAGELVTSAIVLAELLYGLNRrlGLGKAAELVELLLLLSALEVLPIDAELAEEAA 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 446834062   82 QIRAELarqgRPVGPFDQMIAGHARSRGLIIVTNNTReFERVGGL 126
Cdd:pfam01850  82 ELRLKY----GKLGPNDALIAATAKEHGAKLITFDED-FARVAKL 121
 
Name Accession Description Interval E-value
PRK13725 PRK13725
tRNA(fMet)-specific endonuclease VapC;
1-132 6.78e-101

tRNA(fMet)-specific endonuclease VapC;


Pssm-ID: 184277  Cd Length: 132  Bit Score: 284.23  E-value: 6.78e-101
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   1 MLKFMLDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHT 80
Cdd:PRK13725   1 MLKFMLDTNICIFTIKNKPEHVRERFNLNTGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRLEVLDYDTAAATHT 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446834062  81 GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS 132
Cdd:PRK13725  81 GQIRAELARQGRPVGPFDQMIAGHARSRGLIVVTNNTREFERVPGIRIEDWS 132
PIN_VapC4-5_FitB-like cd09881
VapC-like PIN domain of Mycobacterium tuberculosis VapC4 and VapC5, and Neisseria gonorrhoeae ...
 5-130 1.22e-58

VapC-like PIN domain of Mycobacterium tuberculosis VapC4 and VapC5, and Neisseria gonorrhoeae FitB and related proteins; This family includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This family belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350229  Cd Length: 127  Bit Score: 177.29  E-value: 1.22e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERF-NLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQI 83
Cdd:cd09881    1 LLDTNICIDLLRGRPPSVLERLeELLPEDLAISSITLAELLYGAEKSQRPEKNLAALEAFLSRLEVLPFDEEAAEIYGEI 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446834062  84 RAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTED 130
Cdd:cd09881   81 RAELEKKGKPIGDNDLLIAATALAHGLTLVTNNTKHFERIPGLKVEN 127
PIN_VapC4-5_FitB-like cd18745
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 4-132 8.47e-58

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350312  Cd Length: 130  Bit Score: 175.38  E-value: 8.47e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   4 FMLDTNICIFTIKNKPASVRERF-NLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQ 82
Cdd:cd18745    1 YLLDTNTVIALFRGRGPVLRARLrAAAPSDLALSSIVLYELEYGAAKSARPERNRARLEELLSLIEVLPFDEEDARAAAE 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 446834062  83 IRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDWS 132
Cdd:cd18745   81 IRADLERAGTPIGPYDTLIAGQALARGATLVTHNVREFSRVPGLKVEDWY 130
PIN_HiVapC1-like cd18735
VapC-like PIN domain of Haemophilus influenzae VapC1 and related proteins; Haemophilus ...
 5-131 1.10e-57

VapC-like PIN domain of Haemophilus influenzae VapC1 and related proteins; Haemophilus influenzae VapC1 has endonucleolytic activity with RNA, it cleaves initiator tRNA between the anticodon stem and loop, but does not cleave mRNA, rRNA or tmRNA, and has no activity on ssDNA or dsDNA. This subfamily belongs to the PIN_VapC4-5_FitB-like 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 TA systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. FitB is a toxin of the FitAB TA system. Other members of the VapC-like nuclease family include eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350302  Cd Length: 128  Bit Score: 174.71  E-value: 1.10e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERFN-LNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQI 83
Cdd:cd18735    1 LLDTNICIYIRKQRPPSVLERFAqLQPGEVAMSVITYGELLYGAEKSQRRAKALEALERLAELIPVLPLPEEVAEHYGEI 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 446834062  84 RAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:cd18735   81 RADLEKKGTPIGNNDLWIAAHALALGLTLVTNNTREFQRVPGLKVENW 128
VapC COG1487
Ribonuclease/mRNA interferase VapC, contains PIN domain [Defense mechanisms];
4-131 3.34e-51

Ribonuclease/mRNA interferase VapC, contains PIN domain [Defense mechanisms];


Pssm-ID: 441096  Cd Length: 128  Bit Score: 158.49  E-value: 3.34e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   4 FMLDTNICIFTIKNKPASVRERFN-LNQGRMCISSVTLMELIYGAEKSQmPERNLAVIEGFVSRIDVLDYDAAAATHTGQ 82
Cdd:COG1487    1 YLLDTNVLIDLLRGRPPAVLAWLAeLEAGELAISAITLAELLYGARRSP-DAKRRAALEAFLEAFPVLPFDAEAARRAGE 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 446834062  83 IRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:COG1487   80 LRAALRRAGRPIGLADLLIAATALAHGLTLVTRNTKDFERIPGLKVEPW 128
PIN_VapC4-5_FitB-like cd18742
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 6-131 1.04e-44

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350309  Cd Length: 127  Bit Score: 141.91  E-value: 1.04e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKPaSVRERFNLNQGR-MCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQIR 84
Cdd:cd18742    2 LDTDICIYWLKGNE-SVKEKFLEVGNEpLSISVITYAELYYGAYNSQRVEKNLARVERFKELLPVLPLSEAIAETFGKIK 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446834062  85 AELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:cd18742   81 ADLRKKGNPIDDFDLLIASTALANNLILVTNNTKHFKRIPGLKIENW 127
PIN_RfVapC2-like cd18734
VapC-like PIN domain of Rickettsia felis VapC2 and related proteins; This subfamily includes ...
 5-131 3.28e-44

VapC-like PIN domain of Rickettsia felis VapC2 and related proteins; This subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Rickettsia felis VapC2, a ribonuclease toxin of the VapBC toxin/antitoxin (TA) system. Rickettsia felis VapC2 cleaves single-stranded RNA. This subfamily belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC 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 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: 350301  Cd Length: 129  Bit Score: 140.71  E-value: 3.28e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERFNLNQ--GRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQ 82
Cdd:cd18734    1 MLDTNICVYLIKKKPDSYYARLEKLQknNDIAISSIVLAELQYGVSKSQYKEQNQAALNMFLMKLEVLPFEEKATFYYGE 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 446834062  83 IRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:cd18734   81 IRAELEKSGQVIGGNDLLIAAHALAENATLVTNNIKEFARVPNLILENW 129
PIN_VapC4-5_FitB-like cd18740
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 5-130 3.01e-42

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350307  Cd Length: 126  Bit Score: 135.76  E-value: 3.01e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERF-NLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQI 83
Cdd:cd18740    1 MLDTNTVSHIIKGRPPAVRERLrAVPMASICISSITEAELLYGLAKRPEAKRLHAAVREFLLRVDVLPWDSSVARTYGDL 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446834062  84 RAELARQGRPVGPFDQMIAGHARSRGLIIVTNNtREFERVGGLRTED 130
Cdd:cd18740   81 RAALEAQGKTLGPLDMMIAAHALALGATLVTND-RAFRRVPGLAVED 126
PIN_VapC4-5_FitB-like cd18748
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 5-131 5.68e-42

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350315  Cd Length: 128  Bit Score: 134.97  E-value: 5.68e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRER-FNLNQGRMCISSVTLMELIYGAEKSQMPeRNLAVIEGFVSRIDVLDYDAAAATHTGQI 83
Cdd:cd18748    1 LLDTNIISDLIRNPRGKVARRiREVGEDAVCTSIIVASELRFGAAKKGSE-RLARRVEAVLSRIPVLPLEPPADEHYARI 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 446834062  84 RAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:cd18748   80 RADLERQGTPIGPNDLLIAAHALALDLTLVTDNTREFSRVPGLKVENW 127
PIN_CcVapC1-like cd18736
VapC-like PIN domain of Caulobacter Crescentus VapC1-like and related proteins; This subfamily ...
 5-131 1.70e-40

VapC-like PIN domain of Caulobacter Crescentus VapC1-like and related proteins; This subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Caulobacter Crescentus VapC1, a ribonuclease toxin of the VapBC toxin/antitoxin (TA) system. This subfamily belongs to the PIN_VapC4-5_FitB-like subfamily of the VapC-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC TA systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. FitB is a toxin of the FitAB TA system. Other members of the VapC-like nuclease family include eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350303  Cd Length: 123  Bit Score: 131.15  E-value: 1.70e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERFN-LNQGRMCISSVTLMELIYGAEKSQMPERnlAVIEGFVSRIDVLDYDAAAATHTGQI 83
Cdd:cd18736    1 LLDTNICIYLLKGQPPALARRVAaCEPGEVVISAITLAELAYGVRRSAPPRR--AALDALLEVIPVLPFDEAAAAAYARI 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 446834062  84 RAEL-ARQGRpvgpFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:cd18736   79 RAAFpFRRAS----FDRLIAAHALALGLTLVTNNEADFADIPGLRVENW 123
PIN_VapC4-5_FitB-like cd18750
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 5-130 1.19e-37

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350317  Cd Length: 127  Bit Score: 124.27  E-value: 1.19e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIYGAEKSQMPERNLA-VIEGFVSRIDVLDYDAAAATHTGQI 83
Cdd:cd18750    1 LLDTCTISDFVRGNPNTLERLKSTSPSLIAISSITVMEIEYGLRLNPQRAKKLRpILEAFLSSITILPFDEEDAIAAAAI 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446834062  84 RAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTED 130
Cdd:cd18750   81 RAALKKQGTPIGAYDVLIAGTALAHGLILVTSNTKEFQRVDGLVIEN 127
PIN_VapC4-5_FitB-like cd18743
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 6-131 1.45e-33

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350310  Cd Length: 127  Bit Score: 113.77  E-value: 1.45e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKpASVRERF-NLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHtGQIR 84
Cdd:cd18743    2 LDTNICIFLLRGK-YGVAEKIeEVGLENCFISEITIAELLYGAENSARPEKNRKLVDDFLSLFTVLPISDALEEY-AKEK 79

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446834062  85 AELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:cd18743   80 ARLRRQGKLIDDFDLLIGATAIANNLTLVTENVKHFARIPGIKLENW 126
PIN_VapC4-5_FitB-like cd18747
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 6-131 2.99e-31

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350314  Cd Length: 132  Bit Score: 108.01  E-value: 2.99e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKP-ASVRERFNLNQGRMCISSVTLMELIYGAEKsqMPE----RNLA-VIEGFVSRIDVLDYDAAAATH 79
Cdd:cd18747    2 LDTNILSEPLKPEPnANVLARLERHEGEIAIAAVVWHELLYGCYR--LPEgkrkRILEyYLEDVVSGLPILPYDEAAAEW 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446834062  80 TGQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:cd18747   80 HAEERARLTAIGKTPPFADGQIAAIAVANNLILVTRNTKDFQGFEGLRLENW 131
PIN_VapC4-5_FitB-like cd18744
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 5-131 2.27e-26

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350311  Cd Length: 128  Bit Score: 95.25  E-value: 2.27e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPAsVRERFN---LNQGRMCISSVTLMELIYG--AEKSQmpeRNLAVIEGFVSRIDVLDYDAAAATH 79
Cdd:cd18744    1 LLDTDILSALLKGNPK-VVEKFReylKEYGKITISIITYYEILRGllAKNAT---KQLEVFEEFCSNNEVLPLDDESADI 76

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446834062  80 TGQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:cd18744   77 AAEIYADLRKKGTLIDDADILIAATAIANNLVLVTNNTKHFQRIEGLKLENW 128
PIN_VapC4-5_FitB-like cd18752
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 5-131 1.29e-24

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350319  Cd Length: 130  Bit Score: 91.15  E-value: 1.29e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASV-RERFN-LNQGRMCISSVTLMELIYGAEKSQMPERNL-AVIEGFVSRIDVLDYDAAAATHTG 81
Cdd:cd18752    1 LFDTDAISELLKKRPSPPlLERLNsIPREDQFTSAITVGELYYGAYRSDRRLRLLeELLEPVISRVTILPFDRESARVYG 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 446834062  82 QIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTEDW 131
Cdd:cd18752   81 RLRAELEKKGTPLGEADLQIAAIALAHNLTLVTGNIRHFERIPGLRVENW 130
PIN_VapC4-5_FitB-like cd18754
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 6-130 1.34e-24

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350321  Cd Length: 128  Bit Score: 90.74  E-value: 1.34e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKPASVRERFNLNQGR--MCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQI 83
Cdd:cd18754    2 LDTSFLIDLMRGDEAAIEKARELESESvpQRVSSPTVFELYVGVGLSAAPEEERERIESVLESKPILPLDGESARKAGRI 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446834062  84 RAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTED 130
Cdd:cd18754   82 DGQLRREGEPIDPGDAMIAATALVHDEPVLTRNVKHFERIDGLEVES 128
PIN_NgFitB-like cd18731
VapC-like PIN domain of Neisseria gonorrhoeae FitB and related proteins; This subfamily ...
 6-124 1.37e-23

VapC-like PIN domain of Neisseria gonorrhoeae FitB and related proteins; This subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Neisseria gonorrhoeae FitB toxin of the FitAB toxin/antitoxin (TA) system. This subfamily belongs to the VapC-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. In N. gonorrhoeae, FitA and FitB form a heterodimer: FitA is the DNA binding subunit and FitB contains a ribonuclease activity that is blocked by the presence of FitA. A tetramer of FitAB heterodimers binds DNA from the fitAB upstream promoter region with high affinity. This results in both sequestration of FitAB and repression of fitAB transcription. It is thought that FitAB release from the DNA and subsequent dissociation both slows N. gonorrhoeae replication and transcytosis by an as yet undefined mechanism. The toxin M. tuberculosis VapC is a structural homolog of N. gonorrhoeae FitB, but their antitoxin partners, VapB and FitA, respectively, differ structurally. 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: 350298  Cd Length: 136  Bit Score: 88.63  E-value: 1.37e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKP-ASVRERFN-LNQGRMCISSVTLMELIYGAEksQMPE---RN--LAVIEGFVSRI---DVLDYDAA 75
Cdd:cd18731    3 LDTNVVSELMRPAPdPAVLAWLDaQPAEDLYLTAITVAELLYGIA--LLPDgrrRDalEAAAEALLAEDfagRILPFDAA 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 446834062  76 AATHTGQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVG 124
Cdd:cd18731   81 AAEAYAEIVAARRRAGRPISVADAQIAAIARAHGATLATRNVKDFEGLG 129
PIN_VapC4-5_FitB-like cd18751
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 5-131 2.01e-23

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350318  Cd Length: 133  Bit Score: 88.18  E-value: 2.01e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERFN--LNQ-GRMCISSVTLMELIYGAEKSQMPERNLAVIEGfVSRIDVLDYDAAAATHTG 81
Cdd:cd18751    1 LLDTDILSEILKGKNPQVVARARayLAAfGRYTISVITVMEVVRGLQKVQRAERLQQFLEM-IESAEVLPLDRTAAELAG 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 446834062  82 QIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGG----LRTEDW 131
Cdd:cd18751   80 RIYADLERTGQPIGRADPMIAAIALRHGLVLVTGNTAHYQRIQElgypLVLENW 133
PIN_VapC4-5_FitB-like cd18739
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 35-129 1.85e-21

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350306  Cd Length: 124  Bit Score: 82.77  E-value: 1.85e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062  35 ISSVTLMELIYGAEKSQmPERNLAVIEGFVSRIDVLDYDAAAATHTGQIRAELARQGRPVGPFDQMIAGHARSRGLIIVT 114
Cdd:cd18739   31 TPTIALYEVYVGAVRSA-GETDLDGVREDLDWVEPLDFDEEVAREAAQIQAELLEAGEPINPPDLMIAATARSLGATLVT 109

                         90
                 ....*....|....*
gi 446834062 115 NNTrEFERVGGLRTE 129
Cdd:cd18739  110 RDG-DFERIDGLEVE 123
PIN_VapC4-5_FitB-like cd18753
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 5-128 6.22e-21

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350320  Cd Length: 123  Bit Score: 81.37  E-value: 6.22e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVR--ERFNlnqgRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVS--RIDVLDYDAAAATHT 80
Cdd:cd18753    1 LLDTNAYSALLRGDPAVLEalARAD----EIYLPVIVLGELLFGFRKGSREEENRERLEEFLSspRVEVLPIDEETAEIY 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*...
gi 446834062  81 GQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNtREFERVGGLRT 128
Cdd:cd18753   77 AEIKSALKKKGTPIPENDIWIAALALEHGLPLVTRD-AHFDKIPGLKL 123
PIN_VapC4-5_FitB-like cd18749
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 6-127 1.29e-20

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350316  Cd Length: 126  Bit Score: 80.75  E-value: 1.29e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQIRA 85
Cdd:cd18749    2 LDTDVASYLFKGRLLAALYAPRLVGKILVISFVTVAELYFWAEKRGWGEKRLQQLEAWLSRYVVLPYDEEIARTWGRLRA 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 446834062  86 ELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLR 127
Cdd:cd18749   82 EAQRRGRPRPTNDAWIAATALTHGLPLATHNVKDFEDFPGLQ 123
PIN_VapC4-5_FitB-like cd18741
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 6-127 3.10e-20

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350308  Cd Length: 120  Bit Score: 79.46  E-value: 3.10e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIYGAEksqmPERNLAVIEGFVSRIDVLDYDAAAATHTGQIRA 85
Cdd:cd18741    2 LDTDILIDFLRGNPSAAEKLLELLGGNLAISVITVAELYAGAR----NKKELEKLEKLLSLFEVIPVDEEIAELAGELRR 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 446834062  86 ELARQgRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLR 127
Cdd:cd18741   78 KYRKS-HGLGLPDALIAATALEHGLTLVTLNVKHFPMIEGLK 118
PIN_RfVapC1-like cd18733
VapC-like PIN domain of Rickettsia felis VapC1 and related proteins; This subfamily includes ...
 5-130 1.27e-19

VapC-like PIN domain of Rickettsia felis VapC1 and related proteins; This subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Rickettsia felis VapC1, a ribonuclease toxin of the VapBC toxin/antitoxin (TA) system. This subfamily belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is the PIN-domain ribonuclease toxin from prokaryotic VapBC TA systems. VapB is a transcription factor-like protein antitoxin acting as an inhibitor. Other members of the VapC-like nuclease family include eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350300  Cd Length: 131  Bit Score: 78.41  E-value: 1.27e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNK---PASVRERFNlnqGRMCISSVTLMELIYGAEKSQMPERNL---AVIEGFVSRIDVLDYDAAAAT 78
Cdd:cd18733    3 IIDTSVFIAAERGRldlEALQQERPD---EDVYISAITASELLHGVHRAKTPERRArreAFVEAILEAFPVLDFDLEVAR 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|..
gi 446834062  79 HTGQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVGGLRTED 130
Cdd:cd18733   80 THARLWAELAKRGITIGAHDLLIAATALAHGYSVLTANVRDFKRIPGLEVEE 131
PIN pfam01850
PIN domain;
5-126 3.40e-18

PIN domain;


Pssm-ID: 426475  Cd Length: 121  Bit Score: 74.37  E-value: 3.40e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062    5 MLDTNICIFTIKNKPASVRERFNLN-QGRMCISSVTLMELIYGAEK--SQMPERNLAVIEGFVSRIDVLDYDAAAATHTG 81
Cdd:pfam01850   2 VLDTSVLIALLRGEPLHEAARELLEaAGELVTSAIVLAELLYGLNRrlGLGKAAELVELLLLLSALEVLPIDAELAEEAA 81

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 446834062   82 QIRAELarqgRPVGPFDQMIAGHARSRGLIIVTNNTReFERVGGL 126
Cdd:pfam01850  82 ELRLKY----GKLGPNDALIAATAKEHGAKLITFDED-FARVAKL 121
PIN_VapC4-5_FitB-like cd18746
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 6-124 3.75e-15

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350313 [Multi-domain]  Cd Length: 133  Bit Score: 66.69  E-value: 3.75e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKPASVRERF--NLNQGRMCISSVTLMELIYGAEKSQMPE----RNLA-----VIEGFVSRIdvLDYDA 74
Cdd:cd18746    2 LDTNVISELRKPRPDPGVVAWlaAVDEDDLFLSVITIGEIRKGIERLRRRDparaARLEawldgLLLRFAGRI--LPVDA 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|
gi 446834062  75 AAATHTGQIRAelaRQGRPVGPFDQMIAGHARSRGLIIVTNNTREFERVG 124
Cdd:cd18746   80 EVARRWGRLHA---PAPAPLPVADALIAATALVHGLTLVTRNVRDFEGTG 126
PIN_VapC4-5_FitB-like cd18738
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 6-130 1.47e-14

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350305  Cd Length: 118  Bit Score: 64.86  E-value: 1.47e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKPASVRERFNLNQGRMCISSVTLMELIygaEKSQMPERNLAVIEGFVSRIDVLDYDAAAATHTGQIRa 85
Cdd:cd18738    2 LDTNIIIYYLKGELPESLEELLEELNEPAISVITKIELL---GWPKLTPEEEEEIEDFLSLAEVIPLDDEIARKTIELR- 77

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 446834062  86 elaRQGRPVGPfDQMIAGHARSRGLIIVTNNTREFERVGGLRTED 130
Cdd:cd18738   78 ---KQYKIKLP-DAIIAATALVHGLTLVTRNVKDFKKIPGLKLLN 118
PIN_MtVapC4-C5_like cd18732
VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins; This ...
 6-126 2.20e-12

VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins; This subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 toxin of the VapBC toxin/antitoxin (TA) system. This family belongs to the PIN_VapC4-5_FitB-like 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. M. tuberculosis VapC4 interacts with, and cleaves tRNA44Cys-GCA. M. tuberculosis VapC5 has endonucleolytic activity with RNA, this activity is low with dsRNA, and no activity has been demonstrated on dsDNA. 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: 350299  Cd Length: 124  Bit Score: 59.59  E-value: 2.20e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKPASVrerfnlnQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGF--VSRIDVLDYDAAAATHTGQI 83
Cdd:cd18732    2 LDTSVVIDLERGDPADL-------PDEVAISAITLAELAFGVLAADTRAERAQRLQRLlqAEDFDPLPFDAEAARAYGRL 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 446834062  84 RAELARQGRPVGP--FDQMIAGHARSRGLIIVTNNTREFERVGGL 126
Cdd:cd18732   75 AAAVRAAGRKPRPraNDLLIAATAIAHGLPLLTRNPDDFAGLDGL 119
VapC COG1848
VapC family ribonuclease, toxin component of the VapBC toxin-antitoxin module, contains PIN ...
 3-127 2.12e-09

VapC family ribonuclease, toxin component of the VapBC toxin-antitoxin module, contains PIN domain [Defense mechanisms];


Pssm-ID: 441453  Cd Length: 134  Bit Score: 51.91  E-value: 2.12e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   3 KFMLDTNICI-FTIKNKPASVR-----ERFNLNQGRMCISSVTLMELIYGA--EKSQMPERNLAVIEGFVSRIDVLDYDA 74
Cdd:COG1848    1 MILLDTNVLIyALEGDSPFHERarellERAEEGEEELYTSPLVLAEVLYVLtrPGGLSLEEARELLEALLSNIEVVPVDE 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....
gi 446834062  75 AAATHTGQIRAELarqgrPVGPFDQMIAGHARSRGL-IIVTNNtREFERVGGLR 127
Cdd:COG1848   81 EILEEAAELLAKY-----GLRLNDALHLATALEHGAdALVTFD-RDFARVPGLE 128
PIN_VapC4-5_FitB-like cd18737
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 6-120 8.74e-08

uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; The PIN_VapC4-5_FitB-like subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 ribonuclease toxins of the VapBC toxin/antitoxin (TA) system, and Neisseria gonorrhoeae FitB toxin of the FitAB TA system. This subfamily belongs to the VapC-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 eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1. 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: 350304  Cd Length: 115  Bit Score: 47.14  E-value: 8.74e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTIKNKPASVRErfnL-NQGRMCISSVTLMELIYGAeksqmPERNLAVIEGFVSRIDVLDYDAAAAThtgqiR 84
Cdd:cd18737    2 FDTNILIDYLNGVPQARAE---LeRYEQPAISVITWMEVLVGA-----PPEEEEATRAFLSSFEIIPLDQAIAE-----R 68

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 446834062  85 AELARQGRPVGPFDQMIAGHARSRGLIIVTNNTREF 120
Cdd:cd18737   69 AVALRRQSRLKLPDAIILATAQVHGLILVTRNTKDF 104
PIN_MtVapC4-C5-like cd18768
VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins; This ...
 5-127 2.06e-07

VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins; This subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC4 and VapC5 toxin of the VapBC toxin/antitoxin (TA) system. This family belongs to the PIN_VapC4-5_FitB-like 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. M. tuberculosis VapC4 interacts with, and cleaves tRNA44Cys-GCA. M. tuberculosis VapC5 has endonucleolytic activity with RNA, this activity is low with dsRNA, and no activity has been demonstrated on dsDNA. 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: 350335  Cd Length: 123  Bit Score: 46.25  E-value: 2.06e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRerfnLNQGRMCISSVTLMELIYGAEKSQMPE---RNLAVIEgFVSRIDVLDYDAAAATHTG 81
Cdd:cd18768    1 LADTSVFIAQESGRALDGD----LLPDEIAVSVVTLAELRAGVLAARDLAtraRRLATLQ-LAADLEPLPIDDAVAAAWA 75

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*.
gi 446834062  82 QIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNTrEFERVGGLR 127
Cdd:cd18768   76 RLRLELRESGRRMRVNDSWIAATALAHDLPVVTQDA-DFDALPDLE 120
PIN_MtVapC3-like cd18761
uncharacterized subgroup of the VapC3-like nuclease subfamily of the PIN domain superfamily; ...
 5-128 2.64e-07

uncharacterized subgroup of the VapC3-like nuclease subfamily of the PIN domain superfamily; The VapC3-like nuclease subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of various Mycobacterium tuberculosis VapC toxins including VapC3, VapC11, VapC15, VapC21, VapC25, VapC28, VapC29, VapC30, VapC32, VapC33, VapC37, and VapC39. It belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is a 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 structural properties of the PIN 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 while some others 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: 350328  Cd Length: 127  Bit Score: 46.20  E-value: 2.64e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERF-NLNQGRMCI-SSVTLMELIYGAEKsqmpERNLAVIEGFVSRIDVLDYDAAAATHTGQ 82
Cdd:cd18761    1 LIDTSVWISVLRDKTGRVRQQLeTLIGGRDVVlTRFTQLELLQGARD----EREWQLLSDYLETQDYLEATPSTWSAAAR 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*..
gi 446834062  83 IRAELARQGRPV-GPFDQMIAGHARSRGLIIVTNNtREFERVGGLRT 128
Cdd:cd18761   77 IYFDLRRQGLTVrSPIDCCIAQLALENDLTLLHDD-RDFETIAQVRP 122
PIN_VapC-FitB-like cd09875
VapC-like PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin ...
 5-129 5.97e-07

VapC-like PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; PIN (PilT N terminus) domain-containing proteins of prokaryotic toxin/antitoxin (TA) operons, such as, Mycobacterium tuberculosis VapC of the VapBC (virulence associated proteins) TA operon, and Neisseria gonorrhoeae FitB of the FitAB (fast intracellular trafficking) TA operon, as well as, the archaeal Pyrococcus horikoshii protein PH0500 are included in this family. Toxins of TA operons are believed to be involved in growth inhibition by regulating translation and are nearly always co-expressed with an antitoxin, a cognate protein inhibitor, forming an inert protein complex. Disassociation of the complex activates the ribonuclease activity of the toxin. In N. gonorrhoeae, FitA and FitB form a heterodimer: FitA is the DNA binding subunit and FitB contains a ribonuclease activity that is blocked by the presence of FitA. A tetramer of FitAB heterodimers binds DNA from the fitAB upstream promoter region with high affinity. This results in both sequestration of FitAB and repression of fitAB transcription. It is thought that FitAB release from the DNA and subsequent dissociation both slows N. gonorrhoeae replication and transcytosis by an as yet undefined mechanism. The toxin M. tuberculosis VapC is a structural homolog of N. gonorrhoeae FitB, but their antitoxin partners, VapB and FitA, respectively, differ structurally. The M. tuberculosis VapC-5 is proposed to be both an endoribonuclease and an exoribonuclease that can act on free RNA in a similar manner to the endo and exonuclease Flap endonuclease-1 (FEN1). VapC-like toxins are structural homologs of FEN1-like PIN domains, but lack the extensive arch/clamp region and the H3TH (helix-3-turn-helix) domain, an atypical helix-hairpin-helix-2-like region, seen in FEN1-like PIN domains. PIN domains within this group typically contain three or four conserved acidic residues that cluster at the C-terminal end of the beta-sheet and form a negatively charged pocket near the center of the molecule. These putative active site residues are thought to bind Mg2+ and/or Mn2+ ions and be essential for single-stranded ribonuclease activity. VapC-like PIN domains are single domain proteins that form dimers and dimerization configures the active sites in a groove along the long-axis of the structure.


Pssm-ID: 350223  Cd Length: 130  Bit Score: 45.25  E-value: 5.97e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPaSVRERF---NLNQGRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVS---RIDVLDYDAAAAT 78
Cdd:cd09875    1 LLDTSVLIWLLDNDP-KSHLRSladRIERGKVYVSIVSRWELAIGVNINKLRLNYAFADLENLLadlAIPVLPLTPRIAD 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 446834062  79 HTGQIRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNtREFERVGGLRTE 129
Cdd:cd09875   80 EYLEACRNLPLRGRHRSPFDRMIAAQALQHGFTVAHRD-EDFKAINAVNLE 129
PIN_MtVapC3-like cd18759
uncharacterized subgroup of the VapC3-like nuclease subfamily of the PIN domain superfamily; ...
 5-124 1.30e-06

uncharacterized subgroup of the VapC3-like nuclease subfamily of the PIN domain superfamily; The VapC3-like nuclease subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of various Mycobacterium tuberculosis VapC toxins including VapC3, VapC11, VapC15, VapC21, VapC25, VapC28, VapC29, VapC30, VapC32, VapC33, VapC37, and VapC39. It belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is a 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 structural properties of the PIN 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 while some others 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: 350326  Cd Length: 126  Bit Score: 44.12  E-value: 1.30e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   5 MLDTNICIFTIKNKPASVRERFN--LNQGRMCISSVTLMELIYGAeKSqmpERNLAVIEGFVSRIDVLDYDAAAATHTGQ 82
Cdd:cd18759    1 LVDTSVWIEFFRGKSSPVSEVVDelLDEDEVCTCGIVLAELLQGA-KS---EKELSLLEDFLSALPYLPITDELWIKAGE 76

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 446834062  83 IRAELARQGRPVGPFDQMIAGHARSRGLIIVTNNtREFERVG 124
Cdd:cd18759   77 LSFSLRKKGITIPLSDLYIAALAIENNLELFTLD-KHFEIIP 117
COG3744 COG3744
PIN domain nuclease, a component of toxin-antitoxin system (PIN domain) [Defense mechanisms];
3-114 1.24e-05

PIN domain nuclease, a component of toxin-antitoxin system (PIN domain) [Defense mechanisms];


Pssm-ID: 442958  Cd Length: 128  Bit Score: 41.74  E-value: 1.24e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   3 KFMLDTNICIFTIKNKP---ASVRERFNLNQGRMCISSVTLMELIYGAE--KSQMPERNLAVIEGFV--SRIDVLDYDAA 75
Cdd:COG3744    2 KLLLDTHALLWWLLGDErlsPAARELIEDPANELYVSAASLWEIAIKVRlgKLDLPEDLDEWLEELLeeLGFELLPITPE 81

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 446834062  76 AATHTGQIraelarqgrPVG---PFDQMIAGHARSRGLIIVT 114
Cdd:COG3744   82 HALAAAQL---------PLHhrdPFDRLLIAQALVEGLPLVT 114
PIN_Sll0205-like cd09872
VapC-like PIN domain of Sll0205 protein and homologs; Virulence associated protein C (VapC) ...
 6-114 7.78e-04

VapC-like PIN domain of Sll0205 protein and homologs; Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of the Synechocystis sp. (strain PCC 6803) Sll0205 protein and other uncharacterized homologs are included in this subfamily. They are similar to the PIN domains of the Mycobacterium tuberculosis VapC and Neisseria gonorrhoeae FitB toxins of the prokaryotic toxin/antitoxin operons, VapBC and FitAB, respectively, which are believed to be involved in growth inhibition by regulating translation. These toxins are nearly always co-expressed with an antitoxin, a cognate protein inhibitor, forming an inert protein complex. Disassociation of the protein complex activates the ribonuclease activity of the toxin by an, as yet undefined mechanism. 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: 350220  Cd Length: 125  Bit Score: 36.68  E-value: 7.78e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062   6 LDTNICIFTI---KNKPASVRERFNLNQGRMCISSVTLMELiygAEKSQ-------MPERNLAVIEGFVSRIDVLDYDAA 75
Cdd:cd09872    2 LDTHALLWWLtdpPRLSPKARALIEDPANEVFVSAASLWEI---AIKVSlgkldlpGPLEEWLEELLAANGFEILPITPE 78

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 446834062  76 AATHTGQIraelarqgrPVG---PFDQMIAGHARSRGLIIVT 114
Cdd:cd09872   79 HALAAASL---------PLHhrdPFDRLLIAQAIVEGLTLVT 111
PIN_MtVapC15-VapC11-like cd18756
VapC-like PIN domain of Mycobacterium tuberculosis VapC11, VapC15, and related proteins; This ...
 31-130 1.44e-03

VapC-like PIN domain of Mycobacterium tuberculosis VapC11, VapC15, and related proteins; This subfamily includes the Virulence associated protein C (VapC)-like PIN (PilT N terminus) domain of Mycobacterium tuberculosis VapC11 and VapC15 toxins. M. tuberculosis VapC11 and VapC15 cleave tRNA3 Leu-CAG, VapC11 may additionally cleave tRNA13Leu-GAG and tRNA10Gln-CTG. This subgroup belongs to the VapC-like family of the PIN domain nuclease superfamily. VapC is a 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 structural properties of the PIN 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 while some others 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: 350323  Cd Length: 129  Bit Score: 36.05  E-value: 1.44e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446834062  31 GRMCISSVTLMELIYGAEKSQMPERNLAVIEGFVS-RID-VLDYDAAAATHtgqiRAeLARQGRPV-GPFDQMIAGHARS 107
Cdd:cd18756   30 GPVATTEPVAMELLAGARDEAHLARLRRLLNGLRLlPLDpALDFEAAAAIY----RA-CRRGGHTVrSLIDCLIAAVAIR 104

                         90       100
                 ....*....|....*....|....*.
gi 446834062 108 RGLIIVTNNtREFE---RVGGLRTED 130
Cdd:cd18756  105 HGATLLHRD-RDFDviaRVTPLRLVS 129
 
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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