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Conserved domains on  [gi|2525048692|ref|WP_286951607|]
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MULTISPECIES: Mut7-C RNAse domain-containing protein [Aminobacterium]

Protein Classification

Ubiquitin_like_fold and PIN_Mut7-C-like domain-containing protein( domain architecture ID 13218941)

Ubiquitin_like_fold and PIN_Mut7-C-like domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Mut7-C COG1656
Uncharacterized conserved protein, contains PIN-related Mut7-C RNAse domain [General function ...
 96-240 2.37e-63

Uncharacterized conserved protein, contains PIN-related Mut7-C RNAse domain [General function prediction only];


:

Pssm-ID: 441262  Cd Length: 155  Bit Score: 195.47  E-value: 2.37e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2525048692  96 PSFVVDINVARLGSLLRLMGLDTIYNHAWHDKDIAAISKDEGRIVITRDRSLLKRKIITYGRLIREERPWFQLFEVIKFY 175
Cdd:COG1656     1 PRFLLDVMLGKLARWLRMLGFDTLYANDIDDDELLAIAREEGRILLTRDRGLLKRAEVTRGVLLRSTDPEEQLAEVLRRF 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2525048692 176 NLKL-WLLPFSRCSFCNETLRSVQKEDVHDRLEPLTRLFYNEFTECPKCGKVYWSGSHKQRIKERI 240
Cdd:COG1656    81 GLDLeLDRPFTRCLRCNGPLEPVDKEEVADRVPPYVRERYDEFWRCPKCGKVYWRGSHWRRMRERL 146
Ubl1_cv_Nsp3_N-like super family cl28922
first ubiquitin-like (Ubl) domain located at the N-terminus of coronavirus SARS-CoV ...
 34-81 4.82e-13

first ubiquitin-like (Ubl) domain located at the N-terminus of coronavirus SARS-CoV non-structural protein 3 (Nsp3) and related proteins; This ubiquitin-like (Ubl) domain (Ubl1) is found at the N-terminus of coronavirus Nsp3, a large multi-functional multi-domain protein which is an essential component of the replication/transcription complex (RTC). The functions of Ubl1 in CoVs are related to single-stranded RNA (ssRNA) binding and to interacting with the nucleocapsid (N) protein. SARS-CoV Ubl1 has been shown to bind ssRNA having AUA patterns, and since the 5'-UTR of the SARS-CoV genome has a number of AUA repeats, it may bind there. In mouse hepatitis virus (MHV), this Ubl1 domain binds the cognate N protein. Adjacent to Ubl1 is a Glu-rich acidic region (also referred to as hypervariable region, HVR); Ubl1 together with HVR has been called Nsp3a. Currently, the function of HVR in CoVs is unknown. This model corresponds to one of two Ubl domains in Nsp3; the other is located N-terminal to the papain-like protease (PLpro) and is not represented by this model.


The actual alignment was detected with superfamily member pfam14451:

Pssm-ID: 475130  Cd Length: 81  Bit Score: 63.13  E-value: 4.82e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2525048692  34 SVKDGVEALGVPHTEVGEILVNGISVDFNYLLKDRDKACILPFSPPVD 81
Cdd:pfam14451  34 TVKHMIEALGVPHTEVGLILVNGESVPFSHIPADGDRVAVYPVFEALD 81
 
Name Accession Description Interval E-value
Mut7-C COG1656
Uncharacterized conserved protein, contains PIN-related Mut7-C RNAse domain [General function ...
 96-240 2.37e-63

Uncharacterized conserved protein, contains PIN-related Mut7-C RNAse domain [General function prediction only];


Pssm-ID: 441262  Cd Length: 155  Bit Score: 195.47  E-value: 2.37e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2525048692  96 PSFVVDINVARLGSLLRLMGLDTIYNHAWHDKDIAAISKDEGRIVITRDRSLLKRKIITYGRLIREERPWFQLFEVIKFY 175
Cdd:COG1656     1 PRFLLDVMLGKLARWLRMLGFDTLYANDIDDDELLAIAREEGRILLTRDRGLLKRAEVTRGVLLRSTDPEEQLAEVLRRF 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2525048692 176 NLKL-WLLPFSRCSFCNETLRSVQKEDVHDRLEPLTRLFYNEFTECPKCGKVYWSGSHKQRIKERI 240
Cdd:COG1656    81 GLDLeLDRPFTRCLRCNGPLEPVDKEEVADRVPPYVRERYDEFWRCPKCGKVYWRGSHWRRMRERL 146
Mut7-C pfam01927
Mut7-C RNAse domain; RNAse domain of the PIN fold with an inserted Zinc Ribbon at the C ...
 96-240 1.40e-52

Mut7-C RNAse domain; RNAse domain of the PIN fold with an inserted Zinc Ribbon at the C terminus.


Pssm-ID: 426515  Cd Length: 146  Bit Score: 167.82  E-value: 1.40e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2525048692  96 PSFVVDINVARLGSLLRLMGLDTIYNHAWHDKDIAAISKDEGRIVITRDRSLLKRKIITYGRLIREERPWFQLFEVIKFY 175
Cdd:pfam01927   1 PRFLLDAMLGKLARYLRMLGYDTLYDNDYEDDELLRIAAKEGRILLTRDRGLLKRRELTHGVYVRSLDPEEQLREVIARL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2525048692 176 NLKLWLLP-FSRCSFCNETLRSVQKEDVHDRLEPLTRLFYNEFTECPKCGKVYWSGSHKQRIKERI 240
Cdd:pfam01927  81 GLALSLKPeFSRCLLCNGPLRPVEKEEVAGRVPPKVYERYDEFWRCPGCGRVYWEGSHWRRMRELL 146
PIN_Mut7-C-like cd18771
uncharacterized subgroup of the Mut7-C-like family of the PIN domain superfamily; The ...
 98-159 4.05e-15

uncharacterized subgroup of the Mut7-C-like family of the PIN domain superfamily; The Mut7-C-like family of the PIN domain superfamily includes the C-terminal domain of Caenorhabditis elegans Mut-7 (also known as exonuclease 3'-5' domain-containing protein 3 homolog). Mut-7 is involved in RNA interference (RNAi) and transposon silencing in C. elegans. The Mut7-C PIN domain family is recognized as a genuine PIN domain, however it is not included it in the CDD PIN domain superfamily hierarchical model as it is lacks a core strand and helix (H3 and S3). The PIN (PilT N terminus) domain belongs to a large nuclease superfamily, and were originally named for their sequence similarity to the N-terminal domain of an annotated pili biogenesis protein, PilT, a domain fusion between a PIN-domain and a PilT ATPase domain. 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. Other PIN domain families are: the FEN-like PIN domain family which includes the PIN domains of Flap endonuclease-1 (FEN1), Exonuclease-1 (EXO1), Mkt1, Gap endonuclease 1 (GEN1), and Xeroderma pigmentosum complementation group G (XPG) nuclease, 5'-3' exonucleases of DNA polymerase I and bacteriophage T4- and T5-5' nucleases; the VapC-like PIN domain family which includes 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; the LabA-like PIN domain family which includes the PIN domains of Synechococcus elongatus LabA (low-amplitude and bright); the PRORP-Zc3h12a-like PIN domain family which includes the PIN domains of of RNase P (PRORP), ribonuclease Zc3h12a; and Bacillus subtilis YacP/Rae1-like PIN domains.


Pssm-ID: 350853  Cd Length: 62  Bit Score: 68.28  E-value: 4.05e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2525048692  98 FVVDINVARLGSLLRLMGLDTIYNHAWHDKDIAAISKDEGRIVITRDRSLLKRKIITYGRLI 159
Cdd:cd18771     1 FLLDVHLGTLARLLRLLGFDTAYDNTYADATLAALADAEDRILLSRDRGLLKRRGIRRGAFV 62
Ub-Mut7C pfam14451
Mut7-C ubiquitin; This member of the ubiquitin superfamily is found at the N-terminus of ...
 34-81 4.82e-13

Mut7-C ubiquitin; This member of the ubiquitin superfamily is found at the N-terminus of Mut7-C like RNAses, suggestive of an RNA-binding role.


Pssm-ID: 433962  Cd Length: 81  Bit Score: 63.13  E-value: 4.82e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2525048692  34 SVKDGVEALGVPHTEVGEILVNGISVDFNYLLKDRDKACILPFSPPVD 81
Cdd:pfam14451  34 TVKHMIEALGVPHTEVGLILVNGESVPFSHIPADGDRVAVYPVFEALD 81
 
Name Accession Description Interval E-value
Mut7-C COG1656
Uncharacterized conserved protein, contains PIN-related Mut7-C RNAse domain [General function ...
 96-240 2.37e-63

Uncharacterized conserved protein, contains PIN-related Mut7-C RNAse domain [General function prediction only];


Pssm-ID: 441262  Cd Length: 155  Bit Score: 195.47  E-value: 2.37e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2525048692  96 PSFVVDINVARLGSLLRLMGLDTIYNHAWHDKDIAAISKDEGRIVITRDRSLLKRKIITYGRLIREERPWFQLFEVIKFY 175
Cdd:COG1656     1 PRFLLDVMLGKLARWLRMLGFDTLYANDIDDDELLAIAREEGRILLTRDRGLLKRAEVTRGVLLRSTDPEEQLAEVLRRF 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2525048692 176 NLKL-WLLPFSRCSFCNETLRSVQKEDVHDRLEPLTRLFYNEFTECPKCGKVYWSGSHKQRIKERI 240
Cdd:COG1656    81 GLDLeLDRPFTRCLRCNGPLEPVDKEEVADRVPPYVRERYDEFWRCPKCGKVYWRGSHWRRMRERL 146
Mut7-C pfam01927
Mut7-C RNAse domain; RNAse domain of the PIN fold with an inserted Zinc Ribbon at the C ...
 96-240 1.40e-52

Mut7-C RNAse domain; RNAse domain of the PIN fold with an inserted Zinc Ribbon at the C terminus.


Pssm-ID: 426515  Cd Length: 146  Bit Score: 167.82  E-value: 1.40e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2525048692  96 PSFVVDINVARLGSLLRLMGLDTIYNHAWHDKDIAAISKDEGRIVITRDRSLLKRKIITYGRLIREERPWFQLFEVIKFY 175
Cdd:pfam01927   1 PRFLLDAMLGKLARYLRMLGYDTLYDNDYEDDELLRIAAKEGRILLTRDRGLLKRRELTHGVYVRSLDPEEQLREVIARL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2525048692 176 NLKLWLLP-FSRCSFCNETLRSVQKEDVHDRLEPLTRLFYNEFTECPKCGKVYWSGSHKQRIKERI 240
Cdd:pfam01927  81 GLALSLKPeFSRCLLCNGPLRPVEKEEVAGRVPPKVYERYDEFWRCPGCGRVYWEGSHWRRMRELL 146
PIN_Mut7-C-like cd18771
uncharacterized subgroup of the Mut7-C-like family of the PIN domain superfamily; The ...
 98-159 4.05e-15

uncharacterized subgroup of the Mut7-C-like family of the PIN domain superfamily; The Mut7-C-like family of the PIN domain superfamily includes the C-terminal domain of Caenorhabditis elegans Mut-7 (also known as exonuclease 3'-5' domain-containing protein 3 homolog). Mut-7 is involved in RNA interference (RNAi) and transposon silencing in C. elegans. The Mut7-C PIN domain family is recognized as a genuine PIN domain, however it is not included it in the CDD PIN domain superfamily hierarchical model as it is lacks a core strand and helix (H3 and S3). The PIN (PilT N terminus) domain belongs to a large nuclease superfamily, and were originally named for their sequence similarity to the N-terminal domain of an annotated pili biogenesis protein, PilT, a domain fusion between a PIN-domain and a PilT ATPase domain. 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. Other PIN domain families are: the FEN-like PIN domain family which includes the PIN domains of Flap endonuclease-1 (FEN1), Exonuclease-1 (EXO1), Mkt1, Gap endonuclease 1 (GEN1), and Xeroderma pigmentosum complementation group G (XPG) nuclease, 5'-3' exonucleases of DNA polymerase I and bacteriophage T4- and T5-5' nucleases; the VapC-like PIN domain family which includes 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; the LabA-like PIN domain family which includes the PIN domains of Synechococcus elongatus LabA (low-amplitude and bright); the PRORP-Zc3h12a-like PIN domain family which includes the PIN domains of of RNase P (PRORP), ribonuclease Zc3h12a; and Bacillus subtilis YacP/Rae1-like PIN domains.


Pssm-ID: 350853  Cd Length: 62  Bit Score: 68.28  E-value: 4.05e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2525048692  98 FVVDINVARLGSLLRLMGLDTIYNHAWHDKDIAAISKDEGRIVITRDRSLLKRKIITYGRLI 159
Cdd:cd18771     1 FLLDVHLGTLARLLRLLGFDTAYDNTYADATLAALADAEDRILLSRDRGLLKRRGIRRGAFV 62
Ub-Mut7C pfam14451
Mut7-C ubiquitin; This member of the ubiquitin superfamily is found at the N-terminus of ...
 34-81 4.82e-13

Mut7-C ubiquitin; This member of the ubiquitin superfamily is found at the N-terminus of Mut7-C like RNAses, suggestive of an RNA-binding role.


Pssm-ID: 433962  Cd Length: 81  Bit Score: 63.13  E-value: 4.82e-13
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 2525048692  34 SVKDGVEALGVPHTEVGEILVNGISVDFNYLLKDRDKACILPFSPPVD 81
Cdd:pfam14451  34 TVKHMIEALGVPHTEVGLILVNGESVPFSHIPADGDRVAVYPVFEALD 81
DUF5615 pfam18480
Domain of unknown function (DUF5615); This is a domain of unknown function found in potential ...
 98-145 1.39e-03

Domain of unknown function (DUF5615); This is a domain of unknown function found in potential toxin-antitoxin system component.


Pssm-ID: 465782  Cd Length: 77  Bit Score: 36.73  E-value: 1.39e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2525048692  98 FVVDINV-ARLGSLLRLMGLDTIY-----NHAWHDKDIAAISKDEGRIVITRDR 145
Cdd:pfam18480   3 LLADENLsPRLVELLRDLGHDVLHvrelgLPGASDEEILEYAKEEGRIIVTKDK 56
COG4634 COG4634
Predicted nuclease, contains PIN domain, potential toxin-antitoxin system component [General ...
 98-145 8.97e-03

Predicted nuclease, contains PIN domain, potential toxin-antitoxin system component [General function prediction only];


Pssm-ID: 443672  Cd Length: 113  Bit Score: 35.23  E-value: 8.97e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 2525048692  98 FVVDINV-ARLGSLLRLMGLDTIY-----NHAWHDKDIAAISKDEGRIVITRDR 145
Cdd:COG4634     3 FLLDENLsPRLVEWLREAGHDVLHvrdlgLPGASDEEILEYARREGRIIVTKDK 56
 
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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