NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1028513478|gb|OAI91816|]
View 

plasmid stability protein StbB [Rhizobium sp. GHKF11]

Protein Classification

type II toxin-antitoxin system VapC family toxin( domain architecture ID 13036930)

type II toxin-antitoxin (TA) system VapC family toxin functions as a ribonuclease that is neutralized by its cognate antitoxin VapB

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PIN_NgFitB-like cd18731
VapC-like PIN domain of Neisseria gonorrhoeae FitB and related proteins; This subfamily ...
 2-136 7.70e-63

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: 188.40  E-value: 7.70e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   2 ILLDTNVVSETMKPFPSQMVQRWLDEQAAETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALDVWIG-LFEGRILPFDLD 80
Cdd:cd18731     1 IVLDTNVVSELMRPAPDPAVLAWLDAQPAEDLYLTAITVAELLYGIALLPDGRRRDALEAAAEALLAeDFAGRILPFDAA 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1028513478  81 AAKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGLEVIDPW 136
Cdd:cd18731    81 AAEAYAEIVAARRRAGRPISVADAQIAAIARAHGATLATRNVKDFEGLGLELINPW 136
 
Name Accession Description Interval E-value
PIN_NgFitB-like cd18731
VapC-like PIN domain of Neisseria gonorrhoeae FitB and related proteins; This subfamily ...
 2-136 7.70e-63

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: 188.40  E-value: 7.70e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   2 ILLDTNVVSETMKPFPSQMVQRWLDEQAAETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALDVWIG-LFEGRILPFDLD 80
Cdd:cd18731     1 IVLDTNVVSELMRPAPDPAVLAWLDAQPAEDLYLTAITVAELLYGIALLPDGRRRDALEAAAEALLAeDFAGRILPFDAA 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1028513478  81 AAKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGLEVIDPW 136
Cdd:cd18731    81 AAEAYAEIVAARRRAGRPISVADAQIAAIARAHGATLATRNVKDFEGLGLELINPW 136
VapC COG1487
Ribonuclease/mRNA interferase VapC, contains PIN domain [Defense mechanisms];
2-136 1.12e-36

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


Pssm-ID: 441096  Cd Length: 128  Bit Score: 121.89  E-value: 1.12e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   2 ILLDTNVVSETMKPFPSQmVQRWLDEQAAETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALDVWiglfegRILPFDLDA 81
Cdd:COG1487     1 YLLDTNVLIDLLRGRPPA-VLAWLAELEAGELAISAITLAELLYGARRSPDAKRRAALEAFLEAF------PVLPFDAEA 73

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1028513478  82 AKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAF-HAAGLEVIdPW 136
Cdd:COG1487    74 ARRAGELRAALRRAGRPIGLADLLIAATALAHGLTLVTRNTKDFeRIPGLKVE-PW 128
PIN pfam01850
PIN domain;
2-130 8.37e-13

PIN domain;


Pssm-ID: 426475  Cd Length: 121  Bit Score: 60.89  E-value: 8.37e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   2 ILLDTNVVSETMKPFPSQMVQRWLDEqAAETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALDVwigLFEGRILPFDLDA 81
Cdd:pfam01850   1 IVLDTSVLIALLRGEPLHEAARELLE-AAGELVTSAIVLAELLYGLNRRLGLGKAAELVELLLL---LSALEVLPIDAEL 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1028513478  82 AKHYANLgssaRASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGL 130
Cdd:pfam01850  77 AEEAAEL----RLKYGKLGPNDALIAATAKEHGAKLITFDEDFARVAKL 121
PRK13725 PRK13725
tRNA(fMet)-specific endonuclease VapC;
3-137 1.49e-05

tRNA(fMet)-specific endonuclease VapC;


Pssm-ID: 184277  Cd Length: 132  Bit Score: 41.94  E-value: 1.49e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLDEQAaeTLHLSSITIAEAMFGIRTmpdGQRKQRLAEALDVWIGLFEgrILPFDLDAA 82
Cdd:PRK13725    5 MLDTNICIFTIKNKPEHVRERFNLNTG--RMCISSVTLMELIYGAEK---SQMPERNLAVIEGFVSRLE--VLDYDTAAA 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGLEVIDPWT 137
Cdd:PRK13725   78 THTGQIRAELARQGRPVGPFDQMIAGHARSRGLIVVTNNTREFERVPGIRIEDWS 132
 
Name Accession Description Interval E-value
PIN_NgFitB-like cd18731
VapC-like PIN domain of Neisseria gonorrhoeae FitB and related proteins; This subfamily ...
 2-136 7.70e-63

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: 188.40  E-value: 7.70e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   2 ILLDTNVVSETMKPFPSQMVQRWLDEQAAETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALDVWIG-LFEGRILPFDLD 80
Cdd:cd18731     1 IVLDTNVVSELMRPAPDPAVLAWLDAQPAEDLYLTAITVAELLYGIALLPDGRRRDALEAAAEALLAeDFAGRILPFDAA 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1028513478  81 AAKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGLEVIDPW 136
Cdd:cd18731    81 AAEAYAEIVAARRRAGRPISVADAQIAAIARAHGATLATRNVKDFEGLGLELINPW 136
PIN_VapC4-5_FitB-like cd18746
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-136 1.89e-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: 350313 [Multi-domain]  Cd Length: 133  Bit Score: 136.80  E-value: 1.89e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLDEQAAETLHLSSITIAEAMFGIR--TMPDGQRKQRLAEALDVWIGLFEGRILPFDLD 80
Cdd:cd18746     1 LLDTNVISELRKPRPDPGVVAWLAAVDEDDLFLSVITIGEIRKGIErlRRRDPARAARLEAWLDGLLLRFAGRILPVDAE 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1028513478  81 AAKHYANLGSSARASgkgFPTPDGYIAAIAASKGFAVATRDASAFHAAGLEVIDPW 136
Cdd:cd18746    81 VARRWGRLHAPAPAP---LPVADALIAATALVHGLTLVTRNVRDFEGTGVPLLNPW 133
VapC COG1487
Ribonuclease/mRNA interferase VapC, contains PIN domain [Defense mechanisms];
2-136 1.12e-36

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


Pssm-ID: 441096  Cd Length: 128  Bit Score: 121.89  E-value: 1.12e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   2 ILLDTNVVSETMKPFPSQmVQRWLDEQAAETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALDVWiglfegRILPFDLDA 81
Cdd:COG1487     1 YLLDTNVLIDLLRGRPPA-VLAWLAELEAGELAISAITLAELLYGARRSPDAKRRAALEAFLEAF------PVLPFDAEA 73

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1028513478  82 AKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAF-HAAGLEVIdPW 136
Cdd:COG1487    74 ARRAGELRAALRRAGRPIGLADLLIAATALAHGLTLVTRNTKDFeRIPGLKVE-PW 128
PIN_VapC4-5_FitB-like cd18747
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-136 7.84e-25

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: 91.83  E-value: 7.84e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLDEQAAEtLHLSSITIAEAMFGIRTMPDGQRKQRLAEALDVWIGLFEgrILPFDLDAA 82
Cdd:cd18747     1 LLDTNILSEPLKPEPNANVLARLERHEGE-IAIAAVVWHELLYGCYRLPEGKRKRILEYYLEDVVSGLP--ILPYDEAAA 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1028513478  83 KHYANLgsSARASGKGFPTP--DGYIAAIAASKGFAVATRDASAFHA-AGLEVIDpW 136
Cdd:cd18747    78 EWHAEE--RARLTAIGKTPPfaDGQIAAIAVANNLILVTRNTKDFQGfEGLRLEN-W 131
PIN_VapC4-5_FitB-like cd09881
VapC-like PIN domain of Mycobacterium tuberculosis VapC4 and VapC5, and Neisseria gonorrhoeae ...
 3-134 1.77e-23

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: 88.31  E-value: 1.77e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRwLDEQAAETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALdvwigLFEGRILPFDLDAA 82
Cdd:cd09881     1 LLDTNICIDLLRGRPPSVLER-LEELLPEDLAISSITLAELLYGAEKSQRPEKNLAALEAF-----LSRLEVLPFDEEAA 74

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHA-AGLEVID 134
Cdd:cd09881    75 EIYGEIRAELEKKGKPIGDNDLLIAATALAHGLTLVTNNTKHFERiPGLKVEN 127
PIN_VapC-FitB-like cd09875
VapC-like PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin ...
 3-133 2.00e-17

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: 72.99  E-value: 2.00e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLDEQAAETLHLSSITIAEAMFGIrTMPDGQRKQRLAEALDVWIGLfEGRILPFDLDAA 82
Cdd:cd09875     1 LLDTSVLIWLLDNDPKSHLRSLADRIERGKVYVSIVSRWELAIGV-NINKLRLNYAFADLENLLADL-AIPVLPLTPRIA 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGLEVI 133
Cdd:cd09875    79 DEYLEACRNLPLRGRHRSPFDRMIAAQALQHGFTVAHRDEDFKAINAVNLE 129
PIN_VapC4-5_FitB-like cd18740
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-134 3.93e-17

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: 71.82  E-value: 3.93e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLdEQAAETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALdvwigLFEGRILPFDLDAA 82
Cdd:cd18740     1 MLDTNTVSHIIKGRPPAVRERLR-AVPMASICISSITEAELLYGLAKRPEAKRLHAAVREF-----LLRVDVLPWDSSVA 74

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGLEVID 134
Cdd:cd18740    75 RTYGDLRAALEAQGKTLGPLDMMIAAHALALGATLVTNDRAFRRVPGLAVED 126
PIN_VapC4-5_FitB-like cd18745
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 2-137 8.65e-16

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: 68.68  E-value: 8.65e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   2 ILLDTNVVSETMKPFPSQMVQRwLDEQAAETLHLSSITIAEAMFGIRTmpdGQRKQRLAEALDVWIGLFEgrILPFDLDA 81
Cdd:cd18745     1 YLLDTNTVIALFRGRGPVLRAR-LRAAAPSDLALSSIVLYELEYGAAK---SARPERNRARLEELLSLIE--VLPFDEED 74

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1028513478  82 AKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAF-HAAGLEVIDpWT 137
Cdd:cd18745    75 ARAAAEIRADLERAGTPIGPYDTLIAGQALARGATLVTHNVREFsRVPGLKVED-WY 130
PIN_VapC4-5_FitB-like cd18753
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-122 5.60e-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: 350320  Cd Length: 123  Bit Score: 63.65  E-value: 5.60e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSqmVQRWLdeQAAETLHLSSITIAEAMFGIRtmpDGQRKQRLAEALDVWIGLFEGRILPFDLDAA 82
Cdd:cd18753     1 LLDTNAYSALLRGDPA--VLEAL--ARADEIYLPVIVLGELLFGFR---KGSREEENRERLEEFLSSPRVEVLPIDEETA 73

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDA 122
Cdd:cd18753    74 EIYAEIKSALKKKGTPIPENDIWIAALALEHGLPLVTRDA 113
PIN_VapC4-5_FitB-like cd18748
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-125 1.89e-13

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: 62.55  E-value: 1.89e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKpFPSQMVQRWLDEQAAETLHLSSITIAEAMFGIRTMPdGQRKQRLAEALdvwigLFEGRILPFDLDAA 82
Cdd:cd18748     1 LLDTNIISDLIR-NPRGKVARRIREVGEDAVCTSIIVASELRFGAAKKG-SERLARRVEAV-----LSRIPVLPLEPPAD 73

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAF 125
Cdd:cd18748    74 EHYARIRADLERQGTPIGPNDLLIAAHALALDLTLVTDNTREF 116
PIN_MtVapC4-C5_like cd18732
VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins; This ...
 3-131 4.38e-13

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: 61.52  E-value: 4.38e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMvqrwldeqaAETLHLSSITIAEAMFGIRTMPD-GQRKQRLAEALdvWIGLFEgrILPFDLDA 81
Cdd:cd18732     1 LLDTSVVIDLERGDPADL---------PDEVAISAITLAELAFGVLAADTrAERAQRLQRLL--QAEDFD--PLPFDAEA 67

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1028513478  82 AKHYANLGSSARASGKGfPTP---DGYIAAIAASKGFAVATRDASAFhaAGLE 131
Cdd:cd18732    68 ARAYGRLAAAVRAAGRK-PRPranDLLIAATAIAHGLPLLTRNPDDF--AGLD 117
PIN_VapC4-5_FitB-like cd18752
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-121 4.52e-13

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: 61.49  E-value: 4.52e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLDEQAAETLHLSSITIAEAMFGirtmpdGQRKQRLAEALDVWI--GLFEGRILPFDLD 80
Cdd:cd18752     1 LFDTDAISELLKKRPSPPLLERLNSIPREDQFTSAITVGELYYG------AYRSDRRLRLLEELLepVISRVTILPFDRE 74

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1028513478  81 AAKHYANLgssaRAS--GKGFP--TPDGYIAAIAASKGFAVATRD 121
Cdd:cd18752    75 SARVYGRL----RAEleKKGTPlgEADLQIAAIALAHNLTLVTGN 115
PIN pfam01850
PIN domain;
2-130 8.37e-13

PIN domain;


Pssm-ID: 426475  Cd Length: 121  Bit Score: 60.89  E-value: 8.37e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   2 ILLDTNVVSETMKPFPSQMVQRWLDEqAAETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALDVwigLFEGRILPFDLDA 81
Cdd:pfam01850   1 IVLDTSVLIALLRGEPLHEAARELLE-AAGELVTSAIVLAELLYGLNRRLGLGKAAELVELLLL---LSALEVLPIDAEL 76

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 1028513478  82 AKHYANLgssaRASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGL 130
Cdd:pfam01850  77 AEEAAEL----RLKYGKLGPNDALIAATAKEHGAKLITFDEDFARVAKL 121
PIN_MtVapC4-C5-like cd18768
VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins; This ...
 3-133 8.90e-11

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: 55.50  E-value: 8.90e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVvsetmkpFPSQMVQRWLDEQAA-ETLHLSSITIAEAMFGIRTMPD----GQRKQRLAEALDvwiglFEgrILPF 77
Cdd:cd18768     1 LADTSV-------FIAQESGRALDGDLLpDEIAVSVVTLAELRAGVLAARDlatrARRLATLQLAAD-----LE--PLPI 66

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1028513478  78 DLDAAKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGLEVI 133
Cdd:cd18768    67 DDAVAAAWARLRLELRESGRRMRVNDSWIAATALAHDLPVVTQDADFDALPDLEVI 122
PIN_RfVapC2-like cd18734
VapC-like PIN domain of Rickettsia felis VapC2 and related proteins; This subfamily includes ...
 3-125 1.85e-10

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: 54.81  E-value: 1.85e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLDEQAAETLHLSSITIAEAMFGIrtmPDGQRKQRLAEALDVWIGLFEgrILPFDLDAA 82
Cdd:cd18734     1 MLDTNICVYLIKKKPDSYYARLEKLQKNNDIAISSIVLAELQYGV---SKSQYKEQNQAALNMFLMKLE--VLPFEEKAT 75

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAF 125
Cdd:cd18734    76 FYYGEIRAELEKSGQVIGGNDLLIAAHALAENATLVTNNIKEF 118
PIN_RfVapC1-like cd18733
VapC-like PIN domain of Rickettsia felis VapC1 and related proteins; This subfamily includes ...
 2-134 6.70e-10

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: 53.38  E-value: 6.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   2 ILLDTNVVSETMKPfpSQMVQRWLDEQAAETLHLSSITIAEAMFGI-RTMPDGQRKQRLA--EALdvwIGLFEgrILPFD 78
Cdd:cd18733     2 LIIDTSVFIAAERG--RLDLEALQQERPDEDVYISAITASELLHGVhRAKTPERRARREAfvEAI---LEAFP--VLDFD 74

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1028513478  79 LDAAKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAF-HAAGLEVID 134
Cdd:cd18733    75 LEVARTHARLWAELAKRGITIGAHDLLIAATALAHGYSVLTANVRDFkRIPGLEVEE 131
PIN_VapC4-5_FitB-like cd18749
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-133 1.07e-09

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: 52.63  E-value: 1.07e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPsqMVQRWLDEQAAETLHLSSITIAEAMFGIRTMPDGQRK-QRLAEALDVWIglfegrILPFDLDA 81
Cdd:cd18749     1 VLDTDVASYLFKGRL--LAALYAPRLVGKILVISFVTVAELYFWAEKRGWGEKRlQQLEAWLSRYV------VLPYDEEI 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1028513478  82 AKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHA-AGLEVI 133
Cdd:cd18749    73 ARTWGRLRAEAQRRGRPRPTNDAWIAATALTHGLPLATHNVKDFEDfPGLQLI 125
PIN_HiVapC1-like cd18735
VapC-like PIN domain of Haemophilus influenzae VapC1 and related proteins; Haemophilus ...
 3-125 1.70e-09

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: 52.22  E-value: 1.70e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRwLDEQAAETLHLSSITIAEAMFGIrtmpdgQRKQRLAEALDVwIGLFEGRI--LPFDLD 80
Cdd:cd18735     1 LLDTNICIYIRKQRPPSVLER-FAQLQPGEVAMSVITYGELLYGA------EKSQRRAKALEA-LERLAELIpvLPLPEE 72

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1028513478  81 AAKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAF 125
Cdd:cd18735    73 VAEHYGEIRADLEKKGTPIGNNDLWIAAHALALGLTLVTNNTREF 117
PIN_VapC4-5_FitB-like cd18739
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 21-133 7.74e-09

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: 50.41  E-value: 7.74e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478  21 VQRWLDEQAAETLHLSSITIAEAMFG-IRTMPDGQrKQRLAEALDvWIglfegRILPFDLDAAKHYANLGSSARASGKGF 99
Cdd:cd18739    17 AQAFLESQEDEPLVTPTIALYEVYVGaVRSAGETD-LDGVREDLD-WV-----EPLDFDEEVAREAAQIQAELLEAGEPI 89

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1028513478 100 PTPDGYIAAIAASKGFAVATRDASAFHAAGLEVI 133
Cdd:cd18739    90 NPPDLMIAATARSLGATLVTRDGDFERIDGLEVE 123
PIN_CcVapC1-like cd18736
VapC-like PIN domain of Caulobacter Crescentus VapC1-like and related proteins; This subfamily ...
 3-125 9.09e-09

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: 50.26  E-value: 9.09e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRwLDEQAAETLHLSSITIAEAMFGIR--TMPDGQRKQRLAEALDVwiglfegriLPFDLD 80
Cdd:cd18736     1 LLDTNICIYLLKGQPPALARR-VAACEPGEVVISAITLAELAYGVRrsAPPRRAALDALLEVIPV---------LPFDEA 70

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1028513478  81 AAKHYANLGSSARASGKGFptpDGYIAAIAASKGFAVATRDASAF 125
Cdd:cd18736    71 AAAAYARIRAAFPFRRASF---DRLIAAHALALGLTLVTNNEADF 112
VapC COG1848
VapC family ribonuclease, toxin component of the VapBC toxin-antitoxin module, contains PIN ...
 1-135 1.71e-08

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


Pssm-ID: 441453  Cd Length: 134  Bit Score: 49.59  E-value: 1.71e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   1 MILLDTNVVSETMKPFP--SQMVQRWLD--EQAAETLHLSSITIAEAMFgIRTMPDGQRKQRLAEALDVWIGLFEgrILP 76
Cdd:COG1848     1 MILLDTNVLIYALEGDSpfHERARELLEraEEGEEELYTSPLVLAEVLY-VLTRPGGLSLEEARELLEALLSNIE--VVP 77

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1028513478  77 FDLDAAKHYANLgssarASGKGFPTPDGYIAAIAASKGF-AVATRDaSAF-HAAGLEVIDP 135
Cdd:COG1848    78 VDEEILEEAAEL-----LAKYGLRLNDALHLATALEHGAdALVTFD-RDFaRVPGLEVVDP 132
PIN_VapC4-5_FitB-like cd18751
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-119 2.00e-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: 350318  Cd Length: 133  Bit Score: 49.66  E-value: 2.00e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLDEQAA-ETLHLSSITIAEAMFGIrtmpdgQRKQRlAEALDVWIGLFEG-RILPFDLD 80
Cdd:cd18751     1 LLDTDILSEILKGKNPQVVARARAYLAAfGRYTISVITVMEVVRGL------QKVQR-AERLQQFLEMIESaEVLPLDRT 73

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 1028513478  81 AA----KHYANLgssaRASGKGFPTPDGYIAAIAASKGFAVAT 119
Cdd:cd18751    74 AAelagRIYADL----ERTGQPIGRADPMIAAIALRHGLVLVT 112
PIN_VapC4-5_FitB-like cd18741
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-120 3.75e-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: 350308  Cd Length: 120  Bit Score: 48.26  E-value: 3.75e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSqmVQRWLDEQAAETLHLSSITIAEAMFGIRTmpdGQRKQRLAEALDVWiglfegRILPFDLDAA 82
Cdd:cd18741     1 LLDTDILIDFLRGNPS--AAEKLLELLGGNLAISVITVAELYAGARN---KKELEKLEKLLSLF------EVIPVDEEIA 69

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1028513478  83 KHYANLGSSARASgKGFPTPDGYIAAIAASKGFAVATR 120
Cdd:cd18741    70 ELAGELRRKYRKS-HGLGLPDALIAATALEHGLTLVTL 106
PIN_VapC4-5_FitB-like cd18750
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-134 4.22e-07

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: 45.69  E-value: 4.22e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSqmVQRWLDEQAAETLHLSSITIAEAMFGIRTMPdgQRKQRLAEALDVWIGLFEgrILPFDLDAA 82
Cdd:cd18750     1 LLDTCTISDFVRGNPN--TLERLKSTSPSLIAISSITVMEIEYGLRLNP--QRAKKLRPILEAFLSSIT--ILPFDEEDA 74

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFH-AAGLEVID 134
Cdd:cd18750    75 IAAAAIRAALKKQGTPIGAYDVLIAGTALAHGLILVTSNTKEFQrVDGLVIEN 127
PIN_VapC4-5_FitB-like cd18754
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 27-125 4.84e-07

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: 45.67  E-value: 4.84e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478  27 EQAAETLHLSSITIAEAMFGI-RTMPDGQRKQRLaealdvwIGLFEGR-ILPFDLDAAKHYANLGSSARASGKGFPTPDG 104
Cdd:cd18754    25 ESESVPQRVSSPTVFELYVGVgLSAAPEEERERI-------ESVLESKpILPLDGESARKAGRIDGQLRREGEPIDPGDA 97

                          90       100
                  ....*....|....*....|.
gi 1028513478 105 YIAAIAASKGFAVATRDASAF 125
Cdd:cd18754    98 MIAATALVHDEPVLTRNVKHF 118
PIN_VapC4-5_FitB-like cd18744
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-125 1.15e-06

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: 44.79  E-value: 1.15e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPsQMVQRWLD-EQAAETLHLSSITIAEAMFGIRtMPDGQRKQRLAEALdvwigLFEGRILPFDLD- 80
Cdd:cd18744     1 LLDTDILSALLKGNP-KVVEKFREyLKEYGKITISIITYYEILRGLL-AKNATKQLEVFEEF-----CSNNEVLPLDDEs 73

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 1028513478  81 ---AAKHYANLgssaRASGKGFPTPDGYIAAIAASKGFAVATRDASAF 125
Cdd:cd18744    74 adiAAEIYADL----RKKGTLIDDADILIAATAIANNLVLVTNNTKHF 117
PIN_VapC4-5_FitB-like cd18743
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-137 5.81e-06

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: 42.89  E-value: 5.81e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKpfpsQM--VQRWLDEQAAETLHLSSITIAEAMFGIRTmpdGQRKQRLAEALDVWIGLFegRILPFdLD 80
Cdd:cd18743     1 LLDTNICIFLLR----GKygVAEKIEEVGLENCFISEITIAELLYGAEN---SARPEKNRKLVDDFLSLF--TVLPI-SD 70

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1028513478  81 AAKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAF-HAAGLEVIDpWT 137
Cdd:cd18743    71 ALEEYAKEKARLRRQGKLIDDFDLLIGATAIANNLTLVTENVKHFaRIPGIKLEN-WI 127
PRK13725 PRK13725
tRNA(fMet)-specific endonuclease VapC;
3-137 1.49e-05

tRNA(fMet)-specific endonuclease VapC;


Pssm-ID: 184277  Cd Length: 132  Bit Score: 41.94  E-value: 1.49e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLDEQAaeTLHLSSITIAEAMFGIRTmpdGQRKQRLAEALDVWIGLFEgrILPFDLDAA 82
Cdd:PRK13725    5 MLDTNICIFTIKNKPEHVRERFNLNTG--RMCISSVTLMELIYGAEK---SQMPERNLAVIEGFVSRLE--VLDYDTAAA 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRDASAFHAAGLEVIDPWT 137
Cdd:PRK13725   78 THTGQIRAELARQGRPVGPFDQMIAGHARSRGLIVVTNNTREFERVPGIRIEDWS 132
PIN_MtVapC3-like_start cd09882
VapC-like PIN domain of Mycobacterium tuberculosis VapC3 toxin and related proteins; The ...
 3-122 1.76e-05

VapC-like PIN domain of Mycobacterium tuberculosis VapC3 toxin and related proteins; 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, and VapC21. 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 (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: 350230  Cd Length: 128  Bit Score: 41.42  E-value: 1.76e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSE---TMKPFPSQMVQRWLDEQaaETLHLSSITIAEAMFGIRTMPDGQRKQRLAEALdvwiglfegRILPFDL 79
Cdd:cd09882     1 LVDTSVWIDffrGRDTPQVERLKELIEEG--EDVALTGIILTEVLQGIRDEKEFQRVKEYLLAL---------PILPLTG 69

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1028513478  80 DAAKHYANLGSSARASGK-GFPTPDGYIAAIAASKGFAVATRDA 122
Cdd:cd09882    70 ETYIAAARLYRRLRRKGVtVRSTIDCLIAATAIENGLTLLHNDR 113
PIN_VapC4-5_FitB-like cd18738
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-134 8.82e-05

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: 39.44  E-value: 8.82e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWLDEqaAETLHLSSITIAEaMFGIRTMPDGQRKqrLAEALdvwigLFEGRILPFDLDAA 82
Cdd:cd18738     1 LLDTNIIIYYLKGELPESLEELLEE--LNEPAISVITKIE-LLGWPKLTPEEEE--EIEDF-----LSLAEVIPLDDEIA 70

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1028513478  83 KHYANLgssaRaSGKGFPTPDGYIAAIAASKGFAVATRDASAF-HAAGLEVID 134
Cdd:cd18738    71 RKTIEL----R-KQYKIKLPDAIIAATALVHGLTLVTRNVKDFkKIPGLKLLN 118
PIN_MtVapC3-like cd18758
uncharacterized subgroup of the VapC3-like nuclease subfamily of the PIN domain superfamily; ...
 3-121 9.22e-05

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: 350325 [Multi-domain]  Cd Length: 127  Bit Score: 39.49  E-value: 9.22e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSQMVQRWL-----DEQAAetlhLSSITIAEAMFGIRTMPDGQRKQRLAEALdvwiglfegRILPF 77
Cdd:cd18758     1 LIDTSVWIEALRPRGSPKVKEKVrealsEDRVA----TTGIIILELLRGAKTEKEYEELKEDLEAL---------PYLPI 67

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1028513478  78 DLDAAKHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVATRD 121
Cdd:cd18758    68 EEEVWERAAKLGFDLRRKGLRVPLTDLLIAAVALKHNCELLHAD 111
PIN_VapC4-5_FitB-like cd18742
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
 3-119 1.62e-04

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: 38.67  E-value: 1.62e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478   3 LLDTNVVSETMKPFPSqmVQRWLDEQAAETLHLSSITIAEAMFGIRtmpDGQRKQRLAEALDVWIGLFEgrILPFDLDAA 82
Cdd:cd18742     1 LLDTDICIYWLKGNES--VKEKFLEVGNEPLSISVITYAELYYGAY---NSQRVEKNLARVERFKELLP--VLPLSEAIA 73

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1028513478  83 KHYANLGSSARASGKGFPTPDGYIAAIAASKGFAVAT 119
Cdd:cd18742    74 ETFGKIKADLRKKGNPIDDFDLLIASTALANNLILVT 110
PIN_MtVapC3-like cd18759
uncharacterized subgroup of the VapC3-like nuclease subfamily of the PIN domain superfamily; ...
 18-121 2.91e-03

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: 35.26  E-value: 2.91e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1028513478  18 SQMVQRWLDEQAAETlhlSSITIAEAMFGIRTMPDGQRKQRLAEALDvwiglfegrILPFDLDAAKHYANLGSSARASGK 97
Cdd:cd18759    19 SEVVDELLDEDEVCT---CGIVLAELLQGAKSEKELSLLEDFLSALP---------YLPITDELWIKAGELSFSLRKKGI 86

                          90       100
                  ....*....|....*....|....
gi 1028513478  98 GFPTPDGYIAAIAASKGFAVATRD 121
Cdd:cd18759    87 TIPLSDLYIAALAIENNLELFTLD 110
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH