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Conserved domains on  [gi|2226479182|ref|WP_246225973|]
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type II toxin-antitoxin system VapC family toxin [Pelistega suis]

Protein Classification

type II toxin-antitoxin system VapC family toxin( domain architecture ID 13036945)

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

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PIN_VapC4-5_FitB-like cd18745
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-124 4.18e-56

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: 170.75  E-value: 4.18e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK-RNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLE--LLPFEKLPFTAEDARIAGTIKA 78
Cdd:cd18745     4 DTNTVIALFRgRGPVLRARLRAAAPSDLALSSIVLYELEYGAAKSARPERNRARLEelLSLIEVLPFDEEDARAAAEIRA 83
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  79 FLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18745    84 DLERAGTPIGPYDTLIAGQALARGATLVTHNVREFSRVPGLKVEDW 129
 
Name Accession Description Interval E-value
PIN_VapC4-5_FitB-like cd18745
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-124 4.18e-56

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: 170.75  E-value: 4.18e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK-RNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLE--LLPFEKLPFTAEDARIAGTIKA 78
Cdd:cd18745     4 DTNTVIALFRgRGPVLRARLRAAAPSDLALSSIVLYELEYGAAKSARPERNRARLEelLSLIEVLPFDEEDARAAAEIRA 83
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  79 FLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18745    84 DLERAGTPIGPYDTLIAGQALARGATLVTHNVREFSRVPGLKVEDW 129
VapC COG1487
Ribonuclease/mRNA interferase VapC, contains PIN domain [Defense mechanisms];
2-124 5.86e-37

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


Pssm-ID: 441096  Cd Length: 128  Bit Score: 122.28  E-value: 5.86e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK-RNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRkEENLAKLE--LLPFEKLPFTAEDARIAGTIKA 78
Cdd:COG1487     4 DTNVLIDLLRgRPPAVLAWLAELEAGELAISAITLAELLYGARRSPD-AKRRAALEafLEAFPVLPFDAEAARRAGELRA 82
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  79 FLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:COG1487    83 ALRRAGRPIGLADLLIAATALAHGLTLVTRNTKDFERIPGLKVEPW 128
PRK13725 PRK13725
tRNA(fMet)-specific endonuclease VapC;
1-124 4.55e-25

tRNA(fMet)-specific endonuclease VapC;


Pssm-ID: 184277  Cd Length: 132  Bit Score: 92.01  E-value: 4.55e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   1 MDTNVLIALMKRNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLE--LLPFEKLPFTAEDARIAGTIKA 78
Cdd:PRK13725    6 LDTNICIFTIKNKPEHVRERFNLNTGRMCISSVTLMELIYGAEKSQMPERNLAVIEgfVSRLEVLDYDTAAATHTGQIRA 85
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  79 FLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:PRK13725   86 ELARQGRPVGPFDQMIAGHARSRGLIVVTNNTREFERVPGIRIEDW 131
PIN pfam01850
PIN domain;
2-119 1.73e-10

PIN domain;


Pssm-ID: 426475  Cd Length: 121  Bit Score: 54.34  E-value: 1.73e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK-RNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEEN----LAKLELLPFEKLPFTAEDARIAGTI 76
Cdd:pfam01850   4 DTSVLIALLRgEPLHEAARELLEAAGELVTSAIVLAELLYGLNRRLGLGKAaelvELLLLLSALEVLPIDAELAEEAAEL 83
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2226479182  77 KAflynQGTPIGAYDIQIAAQALSRRLILLTHNtKEFLRVPNL 119
Cdd:pfam01850  84 RL----KYGKLGPNDALIAATAKEHGAKLITFD-EDFARVAKL 121
 
Name Accession Description Interval E-value
PIN_VapC4-5_FitB-like cd18745
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-124 4.18e-56

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: 170.75  E-value: 4.18e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK-RNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLE--LLPFEKLPFTAEDARIAGTIKA 78
Cdd:cd18745     4 DTNTVIALFRgRGPVLRARLRAAAPSDLALSSIVLYELEYGAAKSARPERNRARLEelLSLIEVLPFDEEDARAAAEIRA 83
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  79 FLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18745    84 DLERAGTPIGPYDTLIAGQALARGATLVTHNVREFSRVPGLKVEDW 129
PIN_VapC4-5_FitB-like cd09881
VapC-like PIN domain of Mycobacterium tuberculosis VapC4 and VapC5, and Neisseria gonorrhoeae ...
2-123 3.93e-47

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: 148.01  E-value: 3.93e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRN-TSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLE--LLPFEKLPFTAEDARIAGTIKA 78
Cdd:cd09881     3 DTNICIDLLRGRpPSVLERLEELLPEDLAISSITLAELLYGAEKSQRPEKNLAALEafLSRLEVLPFDEEAAEIYGEIRA 82
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2226479182  79 FLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVAD 123
Cdd:cd09881    83 ELEKKGKPIGDNDLLIAATALAHGLTLVTNNTKHFERIPGLKVEN 127
VapC COG1487
Ribonuclease/mRNA interferase VapC, contains PIN domain [Defense mechanisms];
2-124 5.86e-37

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


Pssm-ID: 441096  Cd Length: 128  Bit Score: 122.28  E-value: 5.86e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK-RNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRkEENLAKLE--LLPFEKLPFTAEDARIAGTIKA 78
Cdd:COG1487     4 DTNVLIDLLRgRPPAVLAWLAELEAGELAISAITLAELLYGARRSPD-AKRRAALEafLEAFPVLPFDAEAARRAGELRA 82
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  79 FLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:COG1487    83 ALRRAGRPIGLADLLIAATALAHGLTLVTRNTKDFERIPGLKVEPW 128
PIN_VapC4-5_FitB-like cd18750
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
1-123 3.33e-35

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: 117.73  E-value: 3.33e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   1 MDTNVLIALMKRNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLELLPFEK---LPFTAEDARIAGTIK 77
Cdd:cd18750     2 LDTCTISDFVRGNPNTLERLKSTSPSLIAISSITVMEIEYGLRLNPQRAKKLRPILEAFLSSitiLPFDEEDAIAAAAIR 81
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  78 AFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVAD 123
Cdd:cd18750    82 AALKKQGTPIGAYDVLIAGTALAHGLILVTSNTKEFQRVDGLVIEN 127
PIN_HiVapC1-like cd18735
VapC-like PIN domain of Haemophilus influenzae VapC1 and related proteins; Haemophilus ...
2-124 3.89e-35

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: 117.70  E-value: 3.89e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK-RNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKL----ELLPFekLPFTAEDARIAGTI 76
Cdd:cd18735     3 DTNICIYIRKqRPPSVLERFAQLQPGEVAMSVITYGELLYGAEKSQRRAKALEALerlaELIPV--LPLPEEVAEHYGEI 80
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2226479182  77 KAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18735    81 RADLEKKGTPIGNNDLWIAAHALALGLTLVTNNTREFQRVPGLKVENW 128
PIN_RfVapC2-like cd18734
VapC-like PIN domain of Rickettsia felis VapC2 and related proteins; This subfamily includes ...
1-124 7.89e-33

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: 111.82  E-value: 7.89e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   1 MDTNVLIALMKRNT-SLLAKMRMYTPS-DFGLSTIVLFEMQYGAERSQRKEENLAKLELL--PFEKLPFTAEDARIAGTI 76
Cdd:cd18734     2 LDTNICVYLIKKKPdSYYARLEKLQKNnDIAISSIVLAELQYGVSKSQYKEQNQAALNMFlmKLEVLPFEEKATFYYGEI 81
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2226479182  77 KAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18734    82 RAELEKSGQVIGGNDLLIAAHALAENATLVTNNIKEFARVPNLILENW 129
PIN_VapC4-5_FitB-like cd18742
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-124 6.03e-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: 350309  Cd Length: 127  Bit Score: 106.85  E-value: 6.03e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLELLP--FEKLPFTAEDARIAGTIKAF 79
Cdd:cd18742     3 DTDICIYWLKGNESVKEKFLEVGNEPLSISVITYAELYYGAYNSQRVEKNLARVERFKelLPVLPLSEAIAETFGKIKAD 82
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2226479182  80 LYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18742    83 LRKKGNPIDDFDLLIASTALANNLILVTNNTKHFKRIPGLKIENW 127
PIN_VapC4-5_FitB-like cd18752
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-124 9.79e-30

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: 103.87  E-value: 9.79e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKR--NTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLELLPFEK---LPFTAEDARIAGTI 76
Cdd:cd18752     3 DTDAISELLKKrpSPPLLERLNSIPREDQFTSAITVGELYYGAYRSDRRLRLLEELLEPVISRvtiLPFDRESARVYGRL 82
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2226479182  77 KAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18752    83 RAELEKKGTPLGEADLQIAAIALAHNLTLVTGNIRHFERIPGLRVENW 130
PIN_VapC4-5_FitB-like cd18743
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-125 8.10e-28

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: 98.75  E-value: 8.10e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLELL--PFEKLPFtAEDARIAGTIKAF 79
Cdd:cd18743     3 DTNICIFLLRGKYGVAEKIEEVGLENCFISEITIAELLYGAENSARPEKNRKLVDDFlsLFTVLPI-SDALEEYAKEKAR 81
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  80 LYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADWI 125
Cdd:cd18743    82 LRRQGKLIDDFDLLIGATAIANNLTLVTENVKHFARIPGIKLENWI 127
PRK13725 PRK13725
tRNA(fMet)-specific endonuclease VapC;
1-124 4.55e-25

tRNA(fMet)-specific endonuclease VapC;


Pssm-ID: 184277  Cd Length: 132  Bit Score: 92.01  E-value: 4.55e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   1 MDTNVLIALMKRNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLE--LLPFEKLPFTAEDARIAGTIKA 78
Cdd:PRK13725    6 LDTNICIFTIKNKPEHVRERFNLNTGRMCISSVTLMELIYGAEKSQMPERNLAVIEgfVSRLEVLDYDTAAATHTGQIRA 85
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  79 FLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:PRK13725   86 ELARQGRPVGPFDQMIAGHARSRGLIVVTNNTREFERVPGIRIEDW 131
PIN_VapC4-5_FitB-like cd18744
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-124 6.39e-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: 350311  Cd Length: 128  Bit Score: 91.40  E-value: 6.39e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMRMY--TPSDFGLSTIVLFEMQYG--AERSQRKEENLAKLeLLPFEKLPFTAEDARIAGTIK 77
Cdd:cd18744     3 DTDILSALLKGNPKVVEKFREYlkEYGKITISIITYYEILRGllAKNATKQLEVFEEF-CSNNEVLPLDDESADIAAEIY 81
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 2226479182  78 AFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18744    82 ADLRKKGTLIDDADILIAATAIANNLVLVTNNTKHFQRIEGLKLENW 128
PIN_VapC4-5_FitB-like cd18748
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-124 7.54e-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: 350315  Cd Length: 128  Bit Score: 91.44  E-value: 7.54e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLA-KMRMYTPSDFGLSTIVLFEMQYGAERS------QRKEENLAKLELLPFEklpftAEDARIAG 74
Cdd:cd18748     3 DTNIISDLIRNPRGKVArRIREVGEDAVCTSIIVASELRFGAAKKgserlaRRVEAVLSRIPVLPLE-----PPADEHYA 77
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|
gi 2226479182  75 TIKAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18748    78 RIRADLERQGTPIGPNDLLIAAHALALDLTLVTDNTREFSRVPGLKVENW 127
PIN_VapC4-5_FitB-like cd18753
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-121 8.72e-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: 350320  Cd Length: 123  Bit Score: 88.30  E-value: 8.72e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMRmyTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLELL----PFEKLPFTAEDARIAGTIK 77
Cdd:cd18753     3 DTNAYSALLRGDPAVLEALA--RADEIYLPVIVLGELLFGFRKGSREEENRERLEEFlsspRVEVLPIDEETAEIYAEIK 80
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2226479182  78 AFLYNQGTPIGAYDIQIAAQALSRRLILLTHNtKEFLRVPNLEV 121
Cdd:cd18753    81 SALKKKGTPIPENDIWIAALALEHGLPLVTRD-AHFDKIPGLKL 123
PIN_VapC4-5_FitB-like cd18747
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-124 1.37e-22

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: 85.67  E-value: 1.37e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK--RNTSLLAKMRMYTpSDFGLSTIVLFEMQYGAER---SQRKEeNLAKL--ELLP-FEKLPFTAEDARIA 73
Cdd:cd18747     3 DTNILSEPLKpePNANVLARLERHE-GEIAIAAVVWHELLYGCYRlpeGKRKR-ILEYYleDVVSgLPILPYDEAAAEWH 80
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2226479182  74 GTIKAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18747    81 AEERARLTAIGKTPPFADGQIAAIAVANNLILVTRNTKDFQGFEGLRLENW 131
PIN_VapC4-5_FitB-like cd18754
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-121 4.79e-22

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: 84.19  E-value: 4.79e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMRMY--TPSDFGLSTIVLFEMQYGAERSQRKEENLAKLE--LLPFEKLPFTAEDARIAGTIK 77
Cdd:cd18754     3 DTSFLIDLMRGDEAAIEKARELesESVPQRVSSPTVFELYVGVGLSAAPEEERERIEsvLESKPILPLDGESARKAGRID 82
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2226479182  78 AFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEV 121
Cdd:cd18754    83 GQLRREGEPIDPGDAMIAATALVHDEPVLTRNVKHFERIDGLEV 126
PIN_CcVapC1-like cd18736
VapC-like PIN domain of Caulobacter Crescentus VapC1-like and related proteins; This subfamily ...
2-124 1.39e-21

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: 83.00  E-value: 1.39e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRN-TSLLAKMRMYTPSDFGLSTIVLFEMQYGAERS-QRKEENLAKL-ELLPFekLPFTAEDARIAGTIKA 78
Cdd:cd18736     3 DTNICIYLLKGQpPALARRVAACEPGEVVISAITLAELAYGVRRSaPPRRAALDALlEVIPV--LPFDEAAAAAYARIRA 80
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  79 FLYNQGtpiGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVADW 124
Cdd:cd18736    81 AFPFRR---ASFDRLIAAHALALGLTLVTNNEADFADIPGLRVENW 123
PIN_RfVapC1-like cd18733
VapC-like PIN domain of Rickettsia felis VapC1 and related proteins; This subfamily includes ...
2-121 6.97e-21

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: 81.49  E-value: 6.97e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALmKRNTSLLAKMRMYTPS-DFGLSTIVLFEMQYGAERS---QRKEENLAKLE--LLPFEKLPFTAEDARIAGT 75
Cdd:cd18733     5 DTSVFIAA-ERGRLDLEALQQERPDeDVYISAITASELLHGVHRAktpERRARREAFVEaiLEAFPVLDFDLEVARTHAR 83
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 2226479182  76 IKAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEV 121
Cdd:cd18733    84 LWAELAKRGITIGAHDLLIAATALAHGYSVLTANVRDFKRIPGLEV 129
PIN_NgFitB-like cd18731
VapC-like PIN domain of Neisseria gonorrhoeae FitB and related proteins; This subfamily ...
2-113 6.64e-20

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: 79.00  E-value: 6.64e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKR--NTSLLAKMRMYTPSDFGLSTIVLFEMQYGAER---SQRK---EENLAKLELLPFEK--LPFTAEDAR 71
Cdd:cd18731     4 DTNVVSELMRPapDPAVLAWLDAQPAEDLYLTAITVAELLYGIALlpdGRRRdalEAAAEALLAEDFAGriLPFDAAAAE 83
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|..
gi 2226479182  72 IAGTIKAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEF 113
Cdd:cd18731    84 AYAEIVAARRRAGRPISVADAQIAAIARAHGATLATRNVKDF 125
PIN_VapC4-5_FitB-like cd18751
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
1-124 4.72e-18

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: 74.31  E-value: 4.72e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   1 MDTNVLIALMK-RNTSLLAKMRMYTpSDFG---LSTIVLFEMQYGAERSQRKEENLAKLELLP-FEKLPFTAEDARIAGT 75
Cdd:cd18751     2 LDTDILSEILKgKNPQVVARARAYL-AAFGrytISVITVMEVVRGLQKVQRAERLQQFLEMIEsAEVLPLDRTAAELAGR 80
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2226479182  76 IKAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPN----LEVADW 124
Cdd:cd18751    81 IYADLERTGQPIGRADPMIAAIALRHGLVLVTGNTAHYQRIQElgypLVLENW 133
PIN_VapC4-5_FitB-like cd18740
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-123 7.15e-18

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: 73.36  E-value: 7.15e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRN-TSLLAKMRMYTPSDFGLSTIVLFEMQYG-AERSQRKE-ENLAKLELLPFEKLPFTAEDARIAGTIKA 78
Cdd:cd18740     3 DTNTVSHIIKGRpPAVRERLRAVPMASICISSITEAELLYGlAKRPEAKRlHAAVREFLLRVDVLPWDSSVARTYGDLRA 82
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2226479182  79 FLYNQGTPIGAYDIQIAAQALSRRLILLThNTKEFLRVPNLEVAD 123
Cdd:cd18740    83 ALEAQGKTLGPLDMMIAAHALALGATLVT-NDRAFRRVPGLAVED 126
PIN_VapC4-5_FitB-like cd18741
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-121 3.46e-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: 350308  Cd Length: 120  Bit Score: 66.37  E-value: 3.46e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAeRSQRKEENLAKLeLLPFEKLPFTAEDARIAGTIKAfLY 81
Cdd:cd18741     3 DTDILIDFLRGNPSAAEKLLELLGGNLAISVITVAELYAGA-RNKKELEKLEKL-LSLFEVIPVDEEIAELAGELRR-KY 79
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 2226479182  82 NQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEV 121
Cdd:cd18741    80 RKSHGLGLPDALIAATALEHGLTLVTLNVKHFPMIEGLKL 119
PIN_VapC4-5_FitB-like cd18746
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-113 1.66e-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: 350313 [Multi-domain]  Cd Length: 133  Bit Score: 64.76  E-value: 1.66e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK--RNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLA-KLE------LLPFEK--LPFTAEDA 70
Cdd:cd18746     3 DTNVISELRKprPDPGVVAWLAAVDEDDLFLSVITIGEIRKGIERLRRRDPARAaRLEawldglLLRFAGriLPVDAEVA 82
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2226479182  71 RIAGTIKAflyNQGTPIGAYDIQIAAQALSRRLILLTHNTKEF 113
Cdd:cd18746    83 RRWGRLHA---PAPAPLPVADALIAATALVHGLTLVTRNVRDF 122
PIN_VapC4-5_FitB-like cd18749
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
1-119 2.83e-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: 350316  Cd Length: 126  Bit Score: 64.19  E-value: 2.83e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   1 MDTNVLIALMKRNTsllaKMRMYTPSDFG----LSTIVLFEMQYGAERSQRKEENLAKLE--LLPFEKLPFTAEDARIAG 74
Cdd:cd18749     2 LDTDVASYLFKGRL----LAALYAPRLVGkilvISFVTVAELYFWAEKRGWGEKRLQQLEawLSRYVVLPYDEEIARTWG 77
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2226479182  75 TIKAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNL 119
Cdd:cd18749    78 RLRAEAQRRGRPRPTNDAWIAATALTHGLPLATHNVKDFEDFPGL 122
PIN_MtVapC4-C5_like cd18732
VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins; This ...
2-119 5.00e-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: 60.75  E-value: 5.00e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLakmrmytPSDFGLSTIVLFEMQYG----AERSQRKEENLAKLELLPFEKLPFTAEDARIAGTIK 77
Cdd:cd18732     3 DTSVVIDLERGDPADL-------PDEVAISAITLAELAFGvlaaDTRAERAQRLQRLLQAEDFDPLPFDAEAARAYGRLA 75
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2226479182  78 AFLYNQGTPIGA--YDIQIAAQALSRRLILLTHNTKEFLRVPNL 119
Cdd:cd18732    76 AAVRAAGRKPRPraNDLLIAATAIAHGLPLLTRNPDDFAGLDGL 119
PIN pfam01850
PIN domain;
2-119 1.73e-10

PIN domain;


Pssm-ID: 426475  Cd Length: 121  Bit Score: 54.34  E-value: 1.73e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMK-RNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEEN----LAKLELLPFEKLPFTAEDARIAGTI 76
Cdd:pfam01850   4 DTSVLIALLRgEPLHEAARELLEAAGELVTSAIVLAELLYGLNRRLGLGKAaelvELLLLLSALEVLPIDAELAEEAAEL 83
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2226479182  77 KAflynQGTPIGAYDIQIAAQALSRRLILLTHNtKEFLRVPNL 119
Cdd:pfam01850  84 RL----KYGKLGPNDALIAATAKEHGAKLITFD-EDFARVAKL 121
PIN_VapC4-5_FitB-like cd18739
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
28-121 3.63e-10

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: 53.49  E-value: 3.63e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182  28 FGLSTIVLFEMQYGAERSQRKEENLAKLELLPF-EKLPFTAEDARIAGTIKAFLYNQGTPIGAYDIQIAAQALSRRLILL 106
Cdd:cd18739    29 LVTPTIALYEVYVGAVRSAGETDLDGVREDLDWvEPLDFDEEVAREAAQIQAELLEAGEPINPPDLMIAATARSLGATLV 108
                          90
                  ....*....|....*
gi 2226479182 107 THNTkEFLRVPNLEV 121
Cdd:cd18739   109 TRDG-DFERIDGLEV 122
VapC COG1848
VapC family ribonuclease, toxin component of the VapBC toxin-antitoxin module, contains PIN ...
2-121 1.56e-06

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


Pssm-ID: 441453  Cd Length: 134  Bit Score: 44.20  E-value: 1.56e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMR------MYTPSDFGLSTIVLFEMQYGAERSQR--KEENLAKLELL--PFEKLPFTAEDAR 71
Cdd:COG1848     5 DTNVLIYALEGDSPFHERARelleraEEGEEELYTSPLVLAEVLYVLTRPGGlsLEEARELLEALlsNIEVVPVDEEILE 84
                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 2226479182  72 IAGTIKAflynqGTPIGAYDIQIAAQALSRRL-ILLTHNtKEFLRVPNLEV 121
Cdd:COG1848    85 EAAELLA-----KYGLRLNDALHLATALEHGAdALVTFD-RDFARVPGLEV 129
PIN_MtVapC3-like cd18759
uncharacterized subgroup of the VapC3-like nuclease subfamily of the PIN domain superfamily; ...
2-107 2.63e-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: 43.35  E-value: 2.63e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTS--------LLAKMRMYTPSdfglstIVLFEMQYGAeRSQRKEENLAKLeLLPFEKLPFTAEDARIA 73
Cdd:cd18759     3 DTSVWIEFFRGKSSpvsevvdeLLDEDEVCTCG------IVLAELLQGA-KSEKELSLLEDF-LSALPYLPITDELWIKA 74
                          90       100       110
                  ....*....|....*....|....*....|....
gi 2226479182  74 GTIKAFLYNQGTPIGAYDIQIAAQALSRRLILLT 107
Cdd:cd18759    75 GELSFSLRKKGITIPLSDLYIAALAIENNLELFT 108
PIN_VapC-FitB-like cd09875
VapC-like PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin ...
1-110 3.44e-06

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: 43.33  E-value: 3.44e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   1 MDTNVLIALmkRNTSLLAKMRMY----TPSDFGLSTIVLFEMQYGAER-SQRKEENLAKLE----LLPFEKLPFTAEDAR 71
Cdd:cd09875     2 LDTSVLIWL--LDNDPKSHLRSLadriERGKVYVSIVSRWELAIGVNInKLRLNYAFADLEnllaDLAIPVLPLTPRIAD 79
                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2226479182  72 IAGTIKAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNT 110
Cdd:cd09875    80 EYLEACRNLPLRGRHRSPFDRMIAAQALQHGFTVAHRDE 118
PIN_VapC4-5_FitB-like cd18738
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-123 1.69e-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: 40.98  E-value: 1.69e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMRMYTPSDFGLSTIVlfEMQY-GAERSQRKEENLAKLELLPFEKLPFTAEDARiagtiKAFL 80
Cdd:cd18738     3 DTNIIIYYLKGELPESLEELLEELNEPAISVIT--KIELlGWPKLTPEEEEEIEDFLSLAEVIPLDDEIAR-----KTIE 75
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 2226479182  81 YNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEVAD 123
Cdd:cd18738    76 LRKQYKIKLPDAIIAATALVHGLTLVTRNVKDFKKIPGLKLLN 118
PIN_MtVapC4-C5-like cd18768
VapC-like PIN domain of Mycobacterium tuberculosis VapC4, VapC5, and related proteins; This ...
2-121 1.91e-03

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: 35.47  E-value: 1.91e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMrmytPSDFGLSTIVLFEMQYG-------AERSQRkeenLAKLEL-LPFEKLPFTAEDARIA 73
Cdd:cd18768     3 DTSVFIAQESGRALDGDLL----PDEIAVSVVTLAELRAGvlaardlATRARR----LATLQLaADLEPLPIDDAVAAAW 74
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*...
gi 2226479182  74 GTIKAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTkEFLRVPNLEV 121
Cdd:cd18768    75 ARLRLELRESGRRMRVNDSWIAATALAHDLPVVTQDA-DFDALPDLEV 121
PIN_MtVapC3-like_start cd09882
VapC-like PIN domain of Mycobacterium tuberculosis VapC3 toxin and related proteins; The ...
2-108 6.97e-03

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: 34.10  E-value: 6.97e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMRMYT---PSDFGLSTIVLFEMQYGAeRSQrKEENLAKLELLPFEKLPFTAEDARIAGTIKA 78
Cdd:cd09882     3 DTSVWIDFFRGRDTPQVERLKELieeGEDVALTGIILTEVLQGI-RDE-KEFQRVKEYLLALPILPLTGETYIAAARLYR 80
                          90       100       110
                  ....*....|....*....|....*....|.
gi 2226479182  79 FLYNQG-TPIGAYDIQIAAQALSRRLILLTH 108
Cdd:cd09882    81 RLRRKGvTVRSTIDCLIAATAIENGLTLLHN 111
PIN_VapC4-5_FitB-like cd18737
uncharacterized subgroup of the PIN_VapC4-5_FitB-like subfamily of the PIN domain superfamily; ...
2-117 8.08e-03

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: 33.66  E-value: 8.08e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   2 DTNVLIALMKRNTSLLAKMRMYtpSDFGLSTIVLFEMQYGAersqrKEENLAKLELL--PFEKLPFTAEDARIAGTIKaf 79
Cdd:cd18737     3 DTNILIDYLNGVPQARAELERY--EQPAISVITWMEVLVGA-----PPEEEEATRAFlsSFEIIPLDQAIAERAVALR-- 73
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 2226479182  80 lynQGTPIGAYDIQIAAQALSRRLILLTHNTKEF------LRVP 117
Cdd:cd18737    74 ---RQSRLKLPDAIILATAQVHGLILVTRNTKDFpasmpgVRVP 114
PIN_VapC-like cd09854
VapC-like PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, ...
1-121 8.58e-03

VapC-like PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, rRNA-processing protein Fcf1, Archaeoglobus fulgidus AF0591 protein, and homologs; PIN (PilT N terminus) domains of such ribonucleases as the toxins of prokaryotic toxin/antitoxin operons FitAB and VapBC, as well as, eukaryotic ribonucleases such as Smg6, ribosome assembly factor NOB1, exosome subunit Rrp44 endoribonuclease and rRNA-processing protein Fcf1, are included in VapC-like this family. Also included are the PIN domains of the Pyrobaculum aerophilum Pea0151 and Archaeoglobus fulgidus AF0591 proteins and other similar archaeal homologs. The PIN domain belongs to a large nuclease superfamily. 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: 350205  Cd Length: 129  Bit Score: 33.79  E-value: 8.58e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2226479182   1 MDTNVLIALM----KRNTSLLAKMRMYTPSDFGLSTIVLFEMQYGAERSQRKEENLAKLELLPFEKLpFTAEDARIAGTI 76
Cdd:cd09854     2 LDTNVLIALLssepESEAAKELLALLLGDSELVIPPLVLAELLRLLARERGARRALEILELLRALEV-VEEEPALAEIAL 80
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 2226479182  77 KAFLYNQGTPIGAYDIQIAAQALSRRLILLTHNTKEFLRVPNLEV 121
Cdd:cd09854    81 EVLALGLERGLDFGDALILALAKELGGAVLVTNDRDFRRLAKLGL 125
 
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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