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Conserved domains on  [gi|24233519|ref|NP_694799|]
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endoribonuclease ZC3H12A [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PIN_Zc3h12-like cd18729
PRORP-like PIN domain of ribonuclease Zc3h12a and related proteins; Zc3h12a (zinc finger ...
138-268 1.09e-102

PRORP-like PIN domain of ribonuclease Zc3h12a and related proteins; Zc3h12a (zinc finger CCCH-type containing 12A, also known as MCPIP1/MCP induced protein 1 and Regnase-1) is a critical regulator of inflammatory response, with additional roles in defense against viruses and various stresses, cellular differentiation, and apoptosis. This subfamily also includes three less-studied mammalian homologs: Zc3h12b-d/Regnase-2-4. It belongs to the Zc3h12a-N4BP1-like PIN subfamily of the PRORP-Zc3h12a-like PIN family, the latter of which additionally includes human PRORP, also known as proteinaceous RNase P and mitochondrial RNase P protein subunit 3 (MRPP3), and Arabidopsis thaliana PRORP1-3. The PIN (PilT N terminus) 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: 350296  Cd Length: 131  Bit Score: 306.22  E-value: 1.09e-102
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519 138 VVIDGSNVAMSHGNKEVFSCRGILLAVNWFLERGHTDITVFVPSWRKEQPRPDVPITDQHILRELEKKKILVFTPSRRVG 217
Cdd:cd18729   1 IVIDGSNVAMSHGNKEVFSCRGIQLAVDWFRERGHRDITVFVPSWRKEQPRPDAPITDQEILRELEKEKILVFTPSRRVG 80
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 24233519 218 GKRVVCYDDRFIVKLAFESDGVVVSNDTYRDLQGERQEWKRFIEERLLMYS 268
Cdd:cd18729  81 GKRVVCYDDRFILKLAYESDGIVVSNDNYRDLQNEKPEWKKFIEERLLMYS 131
Regnase_1_C pfam18561
Endoribonuclease Regnase 1/ ZC3H12 C-terminal domain; This is the C-terminal domain found in ...
547-590 1.34e-22

Endoribonuclease Regnase 1/ ZC3H12 C-terminal domain; This is the C-terminal domain found in regnase-1, an RNase that directly cleaves mRNAs of inflammatory genes such as IL-6 and IL-12p40, and negatively regulates cellular inflammatory responses. The C-terminal domain is composed of three alpha helices and resembles ubiquitin associated protein 1 in structure.


:

Pssm-ID: 465803  Cd Length: 44  Bit Score: 90.55  E-value: 1.34e-22
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 24233519   547 AKERAGVYTKLCGVFPPHLVEAVMRRFPQLLDPQQLAAEILSYK 590
Cdd:pfam18561   1 QDEREKVYINLCGIFPPHLVRAVMARNPHLLDPQQLAAEILAEK 44
UBA_6 pfam18039
UBA-like domain; This entry represents a UBA-like domain found at the N-terminus of ...
49-89 1.11e-14

UBA-like domain; This entry represents a UBA-like domain found at the N-terminus of ribonuclease ZC3 proteins.


:

Pssm-ID: 407876  Cd Length: 42  Bit Score: 68.21  E-value: 1.11e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 24233519    49 QMKVDFFRKLGYSSSEIHSVLQKLGVQADTNTVLGELVKHG 89
Cdd:pfam18039   2 KERVDFALKLGYSEEQVQAVLQKLGPEADTDKVLGELIKLG 42
zf-CCCH_2 pfam14608
RNA-binding, Nab2-type zinc finger; This is an unusual zinc-finger family, and is represented ...
305-323 4.71e-04

RNA-binding, Nab2-type zinc finger; This is an unusual zinc-finger family, and is represented by fingers 5-7 of Nab2. Nab2 ZnF5-7 are zinc-fingers of the type C-x8-C-x5-C-x3-H. Nab2 ZnFs function in the generation of export-competent mRNPs. Mab2 is a conserved polyadenosine-RNA-binding Zn finger protein required for both mRNA export and polyadenylation regulation and becomes attached to the mRNP after splicing and during or immediately after polyadenylation. The three ZnFs, 5-7, have almost identical folds and, most unusually, associate with one another to form a single coherent structural unit. ZnF5-7 bind to eight consecutive adenines, and chemical shift perturbations identify residues on each finger that interact with RNA.


:

Pssm-ID: 464217  Cd Length: 19  Bit Score: 37.49  E-value: 4.71e-04
                          10
                  ....*....|....*....
gi 24233519   305 PCPYGKKCTYGIKCRFFHP 323
Cdd:pfam14608   1 PCRFGGNCTFGPKCPFSHP 19
PHA03247 super family cl33720
large tegument protein UL36; Provisional
346-584 4.58e-03

large tegument protein UL36; Provisional


The actual alignment was detected with superfamily member PHA03247:

Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 40.31  E-value: 4.58e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   346 PRTPVKDKSSQRPSPASQSSSVSLEAEPGSLDGKKL--GARSSPGPHREGSPQTCAPAGRSLPVSGGSFGPTEWLAHTQD 423
Cdd:PHA03247 2748 PATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLtrPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGP 2827
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   424 SLPYTSQECLDSGIGSLESQMSEL---WGVRGGSPGESGPTRGPYAgyhsygskVPAAPSFSPFR------PAMGAGHFS 494
Cdd:PHA03247 2828 LPPPTSAQPTAPPPPPGPPPPSLPlggSVAPGGDVRRRPPSRSPAA--------KPAAPARPPVRrlarpaVSRSTESFA 2899
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   495 VPTDYVPPPPTYPSREY-WSEPYPLPPPTPVLQEPQRPSPGAGGGPWGRVGDLAKERAGVYTKLCGVFPPHLVEAVMRRF 573
Cdd:PHA03247 2900 LPPDQPERPPQPQAPPPpQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRV 2979
                         250
                  ....*....|.
gi 24233519   574 PQLLDPQQLAA 584
Cdd:PHA03247 2980 PQPAPSREAPA 2990
 
Name Accession Description Interval E-value
PIN_Zc3h12-like cd18729
PRORP-like PIN domain of ribonuclease Zc3h12a and related proteins; Zc3h12a (zinc finger ...
138-268 1.09e-102

PRORP-like PIN domain of ribonuclease Zc3h12a and related proteins; Zc3h12a (zinc finger CCCH-type containing 12A, also known as MCPIP1/MCP induced protein 1 and Regnase-1) is a critical regulator of inflammatory response, with additional roles in defense against viruses and various stresses, cellular differentiation, and apoptosis. This subfamily also includes three less-studied mammalian homologs: Zc3h12b-d/Regnase-2-4. It belongs to the Zc3h12a-N4BP1-like PIN subfamily of the PRORP-Zc3h12a-like PIN family, the latter of which additionally includes human PRORP, also known as proteinaceous RNase P and mitochondrial RNase P protein subunit 3 (MRPP3), and Arabidopsis thaliana PRORP1-3. The PIN (PilT N terminus) 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: 350296  Cd Length: 131  Bit Score: 306.22  E-value: 1.09e-102
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519 138 VVIDGSNVAMSHGNKEVFSCRGILLAVNWFLERGHTDITVFVPSWRKEQPRPDVPITDQHILRELEKKKILVFTPSRRVG 217
Cdd:cd18729   1 IVIDGSNVAMSHGNKEVFSCRGIQLAVDWFRERGHRDITVFVPSWRKEQPRPDAPITDQEILRELEKEKILVFTPSRRVG 80
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 24233519 218 GKRVVCYDDRFIVKLAFESDGVVVSNDTYRDLQGERQEWKRFIEERLLMYS 268
Cdd:cd18729  81 GKRVVCYDDRFILKLAYESDGIVVSNDNYRDLQNEKPEWKKFIEERLLMYS 131
RNase_Zc3h12a pfam11977
Zc3h12a-like Ribonuclease NYN domain; This domain is found in the Zc3h12a protein which has ...
134-290 6.77e-86

Zc3h12a-like Ribonuclease NYN domain; This domain is found in the Zc3h12a protein which has shown to be a ribonuclease that controls the stability of a set of inflammatory genes. It has been suggested that this domain belongs to the PIN domain superfamily. This domain has also been identified as part of the NYN domain family.


Pssm-ID: 403256  Cd Length: 154  Bit Score: 264.19  E-value: 6.77e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   134 DLRPVVIDGSNVAMSHGNKEVFSCRGILLAVNWFLERGHTDITVFVPSWRKEQPRPdvpITDQHILRELEKKKILVFTPS 213
Cdd:pfam11977   1 GLRPIVIDGSNVAMSHGRQKKFSVRGLAIAVDYFVKRGHEEITVFVPQWRKEADEK---ITDQHELLELERLGLIVFTPS 77
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24233519   214 RRVGGKRVVCYDDRFIVKLAFESDGVVVSNDTYRDLQGERQEWKRFIEERLLMYSFVNDKFMPPDDPLGRHGPSLDN 290
Cdd:pfam11977  78 RTLDGKRIVSYDDRFILKLAEETDGVIVSNDNFRDLADENPEWIDIVEERLLMYTFVGDKFMPPDDPLGRVGPSLED 154
Regnase_1_C pfam18561
Endoribonuclease Regnase 1/ ZC3H12 C-terminal domain; This is the C-terminal domain found in ...
547-590 1.34e-22

Endoribonuclease Regnase 1/ ZC3H12 C-terminal domain; This is the C-terminal domain found in regnase-1, an RNase that directly cleaves mRNAs of inflammatory genes such as IL-6 and IL-12p40, and negatively regulates cellular inflammatory responses. The C-terminal domain is composed of three alpha helices and resembles ubiquitin associated protein 1 in structure.


Pssm-ID: 465803  Cd Length: 44  Bit Score: 90.55  E-value: 1.34e-22
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 24233519   547 AKERAGVYTKLCGVFPPHLVEAVMRRFPQLLDPQQLAAEILSYK 590
Cdd:pfam18561   1 QDEREKVYINLCGIFPPHLVRAVMARNPHLLDPQQLAAEILAEK 44
UBA_6 pfam18039
UBA-like domain; This entry represents a UBA-like domain found at the N-terminus of ...
49-89 1.11e-14

UBA-like domain; This entry represents a UBA-like domain found at the N-terminus of ribonuclease ZC3 proteins.


Pssm-ID: 407876  Cd Length: 42  Bit Score: 68.21  E-value: 1.11e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 24233519    49 QMKVDFFRKLGYSSSEIHSVLQKLGVQADTNTVLGELVKHG 89
Cdd:pfam18039   2 KERVDFALKLGYSEEQVQAVLQKLGPEADTDKVLGELIKLG 42
zf-CCCH_2 pfam14608
RNA-binding, Nab2-type zinc finger; This is an unusual zinc-finger family, and is represented ...
305-323 4.71e-04

RNA-binding, Nab2-type zinc finger; This is an unusual zinc-finger family, and is represented by fingers 5-7 of Nab2. Nab2 ZnF5-7 are zinc-fingers of the type C-x8-C-x5-C-x3-H. Nab2 ZnFs function in the generation of export-competent mRNPs. Mab2 is a conserved polyadenosine-RNA-binding Zn finger protein required for both mRNA export and polyadenylation regulation and becomes attached to the mRNP after splicing and during or immediately after polyadenylation. The three ZnFs, 5-7, have almost identical folds and, most unusually, associate with one another to form a single coherent structural unit. ZnF5-7 bind to eight consecutive adenines, and chemical shift perturbations identify residues on each finger that interact with RNA.


Pssm-ID: 464217  Cd Length: 19  Bit Score: 37.49  E-value: 4.71e-04
                          10
                  ....*....|....*....
gi 24233519   305 PCPYGKKCTYGIKCRFFHP 323
Cdd:pfam14608   1 PCRFGGNCTFGPKCPFSHP 19
PHA03247 PHA03247
large tegument protein UL36; Provisional
346-584 4.58e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 40.31  E-value: 4.58e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   346 PRTPVKDKSSQRPSPASQSSSVSLEAEPGSLDGKKL--GARSSPGPHREGSPQTCAPAGRSLPVSGGSFGPTEWLAHTQD 423
Cdd:PHA03247 2748 PATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLtrPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGP 2827
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   424 SLPYTSQECLDSGIGSLESQMSEL---WGVRGGSPGESGPTRGPYAgyhsygskVPAAPSFSPFR------PAMGAGHFS 494
Cdd:PHA03247 2828 LPPPTSAQPTAPPPPPGPPPPSLPlggSVAPGGDVRRRPPSRSPAA--------KPAAPARPPVRrlarpaVSRSTESFA 2899
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   495 VPTDYVPPPPTYPSREY-WSEPYPLPPPTPVLQEPQRPSPGAGGGPWGRVGDLAKERAGVYTKLCGVFPPHLVEAVMRRF 573
Cdd:PHA03247 2900 LPPDQPERPPQPQAPPPpQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRV 2979
                         250
                  ....*....|.
gi 24233519   574 PQLLDPQQLAA 584
Cdd:PHA03247 2980 PQPAPSREAPA 2990
 
Name Accession Description Interval E-value
PIN_Zc3h12-like cd18729
PRORP-like PIN domain of ribonuclease Zc3h12a and related proteins; Zc3h12a (zinc finger ...
138-268 1.09e-102

PRORP-like PIN domain of ribonuclease Zc3h12a and related proteins; Zc3h12a (zinc finger CCCH-type containing 12A, also known as MCPIP1/MCP induced protein 1 and Regnase-1) is a critical regulator of inflammatory response, with additional roles in defense against viruses and various stresses, cellular differentiation, and apoptosis. This subfamily also includes three less-studied mammalian homologs: Zc3h12b-d/Regnase-2-4. It belongs to the Zc3h12a-N4BP1-like PIN subfamily of the PRORP-Zc3h12a-like PIN family, the latter of which additionally includes human PRORP, also known as proteinaceous RNase P and mitochondrial RNase P protein subunit 3 (MRPP3), and Arabidopsis thaliana PRORP1-3. The PIN (PilT N terminus) 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: 350296  Cd Length: 131  Bit Score: 306.22  E-value: 1.09e-102
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519 138 VVIDGSNVAMSHGNKEVFSCRGILLAVNWFLERGHTDITVFVPSWRKEQPRPDVPITDQHILRELEKKKILVFTPSRRVG 217
Cdd:cd18729   1 IVIDGSNVAMSHGNKEVFSCRGIQLAVDWFRERGHRDITVFVPSWRKEQPRPDAPITDQEILRELEKEKILVFTPSRRVG 80
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|.
gi 24233519 218 GKRVVCYDDRFIVKLAFESDGVVVSNDTYRDLQGERQEWKRFIEERLLMYS 268
Cdd:cd18729  81 GKRVVCYDDRFILKLAYESDGIVVSNDNYRDLQNEKPEWKKFIEERLLMYS 131
RNase_Zc3h12a pfam11977
Zc3h12a-like Ribonuclease NYN domain; This domain is found in the Zc3h12a protein which has ...
134-290 6.77e-86

Zc3h12a-like Ribonuclease NYN domain; This domain is found in the Zc3h12a protein which has shown to be a ribonuclease that controls the stability of a set of inflammatory genes. It has been suggested that this domain belongs to the PIN domain superfamily. This domain has also been identified as part of the NYN domain family.


Pssm-ID: 403256  Cd Length: 154  Bit Score: 264.19  E-value: 6.77e-86
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   134 DLRPVVIDGSNVAMSHGNKEVFSCRGILLAVNWFLERGHTDITVFVPSWRKEQPRPdvpITDQHILRELEKKKILVFTPS 213
Cdd:pfam11977   1 GLRPIVIDGSNVAMSHGRQKKFSVRGLAIAVDYFVKRGHEEITVFVPQWRKEADEK---ITDQHELLELERLGLIVFTPS 77
                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24233519   214 RRVGGKRVVCYDDRFIVKLAFESDGVVVSNDTYRDLQGERQEWKRFIEERLLMYSFVNDKFMPPDDPLGRHGPSLDN 290
Cdd:pfam11977  78 RTLDGKRIVSYDDRFILKLAEETDGVIVSNDNFRDLADENPEWIDIVEERLLMYTFVGDKFMPPDDPLGRVGPSLED 154
PIN_Zc3h12a-N4BP1-like cd18719
PRORP-like PIN domain of ribonuclease Zc3h12a, NEDD4-binding partner-1, and related proteins; ...
138-267 3.25e-76

PRORP-like PIN domain of ribonuclease Zc3h12a, NEDD4-binding partner-1, and related proteins; Zc3h12a (zinc finger CCCH-type containing 12A, also known as MCPIP1/MCP induced protein 1 and Regnase-1) is a critical regulator of inflammatory response, with additional roles in defense against viruses and various stresses, cellular differentiation, and apoptosis. This subfamily also includes Caenorhabditis elegans REGE-1 (REGnasE-1), which also functions as a cytoplasmic endonuclease. Additionally, it includes three less-studied mammalian homologs: Zc3h12b-d/Regnase-2-4, as well as N4BP1 (NEDD4-binding partner-1), NYNRIN (NYN domain and retroviral integrase containing, also known as CGIN1/Cousin of GIN1), and KHNYN (KH and NYN domain containing) protein. N4BP1, CGIN1, and KHNYN proteins are probably of retroviral origin. This subfamily belongs to the PRORP-Zc3h12a-like PIN family which in addition includes human PRORP, also known as proteinaceous RNase P and mitochondrial RNase P protein subunit 3 (MRPP3), and Arabidopsis thaliana PRORP1-3. The PIN (PilT N terminus) 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: 350286  Cd Length: 127  Bit Score: 237.87  E-value: 3.25e-76
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519 138 VVIDGSNVAMSHGNKEVFSCRGILLAVNWFLERGHtDITVFVPSWRKEQPRPdvPITDQHILRELEKKKILVFTPSRRVG 217
Cdd:cd18719   1 VVIDGSNVAMSHGNGKVFSCKGIQICVRYFLERGH-EVTAFVPQFRLESPNP--NSTDQDILEELERLGILVFTPSRRVP 77
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
gi 24233519 218 GKRVVCYDDRFIVKLAFESDGVVVSNDTYRDLQGERQEWKRFIEERLLMY 267
Cdd:cd18719  78 GKRISSYDDRFILQLAEETDGVIVSNDNFRDLLNENPDWREIIEERLLPF 127
PIN_PRORP-Zc3h12a-like cd18671
PIN domain of protein-only RNase P (PRORP), ribonuclease Zc3h12a, and related proteins; PRORPs ...
138-267 1.11e-59

PIN domain of protein-only RNase P (PRORP), ribonuclease Zc3h12a, and related proteins; PRORPs catalyze the maturation of the 5' end of precursor tRNAs in eukaryotes. This family includes human PRORP, also known as proteinaceous RNase P and mitochondrial RNase P protein subunit 3 (MRPP3), and Arabidopsis thaliana PRORP1-3, PRORP1 localizes to the chloroplast and the mitochondria, and PRORP2 and PRORP3 localize to the nucleus. Zc3h12a (zinc finger CCCH-type containing 12A, also known as MCPIP1/MCP induced protein 1 and Regnase-1) is a critical regulator of inflammatory response, with additional roles in defense against viruses and various stresses, cellular differentiation, and apoptosis. This PIN_PRORP-Zc3h12a-like family also includes Caenorhabditis elegans REGE-1 (REGnasE-1), which also functions as a cytoplasmic endonuclease. Additionally, it includes three less-studied mammalian homologs: Zc3h12b-d/Regnase-2-4, as well as N4BP1 (NEDD4-binding partner-1), NYNRIN (NYN domain and retroviral integrase containing, also known as CGIN1/Cousin of GIN1), and KHNYN (KH and NYN domain containing) protein. N4BP1, CGIN1, and KHNYN proteins are probably of retroviral origin. The PIN (PilT N terminus) 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: 350238  Cd Length: 126  Bit Score: 194.78  E-value: 1.11e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519 138 VVIDGSNVAMSHGNKEVFSCRGILLAVNWFLERGH--TDITVFVPSWRKEQPRPdVPITDQHILRELEKKKILVFTPSrr 215
Cdd:cd18671   1 AVIDGANVGLSHQNKESFSCRQLLLAVNWFLERSHnnTDPLVFLHKWRVEQPRP-VPPTDRHLLEEWEKKGILYATPP-- 77
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*
gi 24233519 216 vggkrvVCYDDRFIVKLAFESDGVVVSNDTYRDLQGE---RQEWKRFIEERLLMY 267
Cdd:cd18671  78 ------GSNDDWYWLYAAYESKCLLVTNDEMRDHQFEllgRQFFKRWKEEHQVRY 126
PIN_N4BP1-like cd18728
PRORP-like PIN domain of NEDD4 binding protein 1 and related proteins; NEDD4-binding partner-1 ...
138-267 2.34e-51

PRORP-like PIN domain of NEDD4 binding protein 1 and related proteins; NEDD4-binding partner-1 (N4BP1) interacts with and is a substrate of NEDD4 ubiquitin ligase (neural precursor cell expressed, developmentally down-regulated 4, E3 ubiquitin protein ligase). It is also an inhibitor of the E3 ubiquitin-protein ligase ITCH, a NEDD4 structurally related E3. This subfamily additionally includes NYNRIN (NYN domain and retroviral integrase containing, also known as CGIN1/Cousin of GIN1), and KHNYN (KH and NYN domain containing) protein. N4BP1, CGIN1, and KHNYN proteins are probably of retroviral origin. This subfamily belongs to the Zc3h12a-N4BP1-like PIN subfamily of the PRORP-Zc3h12a-like PIN family, the latter of which additionally includes human PRORP, also known as proteinaceous RNase P and mitochondrial RNase P protein subunit 3 (MRPP3), and Arabidopsis thaliana PRORP1-3. The PIN (PilT N terminus) 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: 350295  Cd Length: 127  Bit Score: 172.68  E-value: 2.34e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519 138 VVIDGSNVAMSHGNKEVFSCRGILLAVNWFLERGHTDITVFVPSWRKeqpRPDVPITDQHILRELEKKKILVFTPSRRVG 217
Cdd:cd18728   1 IVIDGSNVAMVHGLQHFFSCRGIAIAVEYFWKRGHRNITVFVPQWRT---KRDPNVTEQHFLTQLQELGILSLTPSRMVL 77
                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|
gi 24233519 218 GKRVVCYDDRFIVKLAFESDGVVVSNDTYRDLQGERQEWKRFIEERLLMY 267
Cdd:cd18728  78 GKRIASHDDRFLLHLAEKTGGIIVTNDNFREFVNESPSWREIIKERLLQY 127
Regnase_1_C pfam18561
Endoribonuclease Regnase 1/ ZC3H12 C-terminal domain; This is the C-terminal domain found in ...
547-590 1.34e-22

Endoribonuclease Regnase 1/ ZC3H12 C-terminal domain; This is the C-terminal domain found in regnase-1, an RNase that directly cleaves mRNAs of inflammatory genes such as IL-6 and IL-12p40, and negatively regulates cellular inflammatory responses. The C-terminal domain is composed of three alpha helices and resembles ubiquitin associated protein 1 in structure.


Pssm-ID: 465803  Cd Length: 44  Bit Score: 90.55  E-value: 1.34e-22
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 24233519   547 AKERAGVYTKLCGVFPPHLVEAVMRRFPQLLDPQQLAAEILSYK 590
Cdd:pfam18561   1 QDEREKVYINLCGIFPPHLVRAVMARNPHLLDPQQLAAEILAEK 44
UBA_6 pfam18039
UBA-like domain; This entry represents a UBA-like domain found at the N-terminus of ...
49-89 1.11e-14

UBA-like domain; This entry represents a UBA-like domain found at the N-terminus of ribonuclease ZC3 proteins.


Pssm-ID: 407876  Cd Length: 42  Bit Score: 68.21  E-value: 1.11e-14
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|.
gi 24233519    49 QMKVDFFRKLGYSSSEIHSVLQKLGVQADTNTVLGELVKHG 89
Cdd:pfam18039   2 KERVDFALKLGYSEEQVQAVLQKLGPEADTDKVLGELIKLG 42
zf-CCCH_2 pfam14608
RNA-binding, Nab2-type zinc finger; This is an unusual zinc-finger family, and is represented ...
305-323 4.71e-04

RNA-binding, Nab2-type zinc finger; This is an unusual zinc-finger family, and is represented by fingers 5-7 of Nab2. Nab2 ZnF5-7 are zinc-fingers of the type C-x8-C-x5-C-x3-H. Nab2 ZnFs function in the generation of export-competent mRNPs. Mab2 is a conserved polyadenosine-RNA-binding Zn finger protein required for both mRNA export and polyadenylation regulation and becomes attached to the mRNP after splicing and during or immediately after polyadenylation. The three ZnFs, 5-7, have almost identical folds and, most unusually, associate with one another to form a single coherent structural unit. ZnF5-7 bind to eight consecutive adenines, and chemical shift perturbations identify residues on each finger that interact with RNA.


Pssm-ID: 464217  Cd Length: 19  Bit Score: 37.49  E-value: 4.71e-04
                          10
                  ....*....|....*....
gi 24233519   305 PCPYGKKCTYGIKCRFFHP 323
Cdd:pfam14608   1 PCRFGGNCTFGPKCPFSHP 19
PIN_PRORP cd18718
PIN domain of protein-only RNase P (PRORP) and related proteins; PRORPs catalyze the ...
138-258 1.41e-03

PIN domain of protein-only RNase P (PRORP) and related proteins; PRORPs catalyze the maturation of the 5' end of precursor tRNAs in eukaryotes. This family includes human PRORP, also known as proteinaceous RNase P and mitochondrial RNase P protein subunit 3 (MRPP3), and Arabidopsis thaliana PRORP1-3, PRORP1 localizes to the chloroplast and the mitochondria, and PRORP2 and PRORP3 localize to the nucleus. This subfamily belongs to the PRORP-Zc3h12a-like PIN family which in addition includes Zc3h12a (also known as MCPIP1/MCP induced protein 1 and Regnase-1), Caenorhabditis elegans REGE-1 (REGnasE-1), Zc3h12b-d (also known as Regnase-2-4), N4BP1, and NYNRIN (also known as CGIN1). The PIN (PilT N terminus) 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: 350285  Cd Length: 124  Bit Score: 39.09  E-value: 1.41e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519 138 VVIDGSNVAMSHGNK-EVFSCRGILLAVNWFLERGHtditvfvpswrkeqpRPDVpITDQHILRE----------LEKKK 206
Cdd:cd18718   1 VVIDGLNVAYYGQNFpGGFNAQQLLAVVEHLQKQNK---------------KVLV-LGRKHMLKWsrwspsamklIEKNA 64
                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24233519 207 ILVFTPSRrvggkrvvCYDDRFIVKLAFES--DGVVVSNDTYRD----LQGERQE----WKR 258
Cdd:cd18718  65 SLFFTPNG--------SNDDPFWLYAALKSgpKTLFVSNDLMRDhkfqLLDELQRlfkkWQE 118
PHA03247 PHA03247
large tegument protein UL36; Provisional
346-584 4.58e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 40.31  E-value: 4.58e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   346 PRTPVKDKSSQRPSPASQSSSVSLEAEPGSLDGKKL--GARSSPGPHREGSPQTCAPAGRSLPVSGGSFGPTEWLAHTQD 423
Cdd:PHA03247 2748 PATPGGPARPARPPTTAGPPAPAPPAAPAAGPPRRLtrPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAASPAGP 2827
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   424 SLPYTSQECLDSGIGSLESQMSEL---WGVRGGSPGESGPTRGPYAgyhsygskVPAAPSFSPFR------PAMGAGHFS 494
Cdd:PHA03247 2828 LPPPTSAQPTAPPPPPGPPPPSLPlggSVAPGGDVRRRPPSRSPAA--------KPAAPARPPVRrlarpaVSRSTESFA 2899
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233519   495 VPTDYVPPPPTYPSREY-WSEPYPLPPPTPVLQEPQRPSPGAGGGPWGRVGDLAKERAGVYTKLCGVFPPHLVEAVMRRF 573
Cdd:PHA03247 2900 LPPDQPERPPQPQAPPPpQPQPQPPPPPQPQPPPPPPPRPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAVPRFRV 2979
                         250
                  ....*....|.
gi 24233519   574 PQLLDPQQLAA 584
Cdd:PHA03247 2980 PQPAPSREAPA 2990
 
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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