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Conserved domains on  [gi|564358377|ref|XP_006241095|]
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zinc finger RNA-binding protein 2 isoform X1 [Rattus norvegicus]

Protein Classification

zinc finger RNA-binding protein( domain architecture ID 10648489)

zinc finger RNA-binding protein is involved in postimplantation and gastrulation stages of development; binds to DNA and RNA

Gene Ontology:  GO:0008270|GO:0003723|GO:0003677
PubMed:  12665246|22803940

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
DZF super family cl02675
DZF domain; The function of this domain is unknown. It is often found associated with ...
 537-788 4.89e-108

DZF domain; The function of this domain is unknown. It is often found associated with pfam00098 or pfam00035. This domain has been predicted to belong to the nucleotidyltransferase superfamily.


The actual alignment was detected with superfamily member smart00572:

Pssm-ID: 295427  Cd Length: 246  Bit Score: 330.88  E-value: 4.89e-108
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377   537 LKGVVRVGILAKGLVLRGDHSVQLTLLCSKKPTHSLLQRIKQELPRELSIVAEDkyevssdhDANIVISACVEPGVKVTV 616
Cdd:smart00572   2 LKGVMRVGSFAKGTLLKGDNVAELVLLCKEKPTSELVARLARKLPEQLKAVTED--------EALIIVTSTKEPTMEVGI 73

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377   617 SATSPLMREDPSVKQELQDSLS-DPEDILDRERCLETLAALRHAKWFQARASGLQPCVIVIRVLRDLCRCLPPWGALPAW 695
Cdd:smart00572  74 LITSPLARVELLITTVPENLRKlDPEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQPLSGW 153

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377   696 AMELLVEKVLSSAPRPLSPGDAMRRVLEYVATGALLTDGPGLQDPCEKGPQDALEPMTPQQREDLTASAQHALRLVAFRQ 775
Cdd:smart00572 154 PLELLVEKAIGSARQPLGLGDAFRRVFECLASGILLPGSPGLTDPCEKDNTDALTALTLQQREDVTASAQTALRLLAFGQ 233

                          250
                   ....*....|...
gi 564358377   776 IHKVLHMEHLPPR 788
Cdd:smart00572 234 IHKILGMDPLPSM 246
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 154-181 1.76e-07

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


:

Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 48.02  E-value: 1.76e-07
                           10        20
                   ....*....|....*....|....*...
gi 564358377   154 HYCEVCRVSCAGPQTYRDHLEGQKHRKK 181
Cdd:smart00451   4 FYCKLCNVTFTDEISVEAHLKGKKHKKN 31
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 350-381 1.60e-04

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


:

Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 39.54  E-value: 1.60e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564358377   350 RFRCKLCECSFNDRNARDMHLTGRRHRLQYRK 381
Cdd:smart00451   3 GFYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 201-232 1.35e-03

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


:

Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 36.85  E-value: 1.35e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564358377   201 LHCGLCAVSCTGADAYAAHMRGARHQKVFKLH 232
Cdd:smart00451   4 FYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
 
Name Accession Description Interval E-value
DZF smart00572
domain in DSRM or ZnF_C2H2 domain containing proteins;
537-788 4.89e-108

domain in DSRM or ZnF_C2H2 domain containing proteins;


Pssm-ID: 128842  Cd Length: 246  Bit Score: 330.88  E-value: 4.89e-108
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377   537 LKGVVRVGILAKGLVLRGDHSVQLTLLCSKKPTHSLLQRIKQELPRELSIVAEDkyevssdhDANIVISACVEPGVKVTV 616
Cdd:smart00572   2 LKGVMRVGSFAKGTLLKGDNVAELVLLCKEKPTSELVARLARKLPEQLKAVTED--------EALIIVTSTKEPTMEVGI 73

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377   617 SATSPLMREDPSVKQELQDSLS-DPEDILDRERCLETLAALRHAKWFQARASGLQPCVIVIRVLRDLCRCLPPWGALPAW 695
Cdd:smart00572  74 LITSPLARVELLITTVPENLRKlDPEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQPLSGW 153

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377   696 AMELLVEKVLSSAPRPLSPGDAMRRVLEYVATGALLTDGPGLQDPCEKGPQDALEPMTPQQREDLTASAQHALRLVAFRQ 775
Cdd:smart00572 154 PLELLVEKAIGSARQPLGLGDAFRRVFECLASGILLPGSPGLTDPCEKDNTDALTALTLQQREDVTASAQTALRLLAFGQ 233

                          250
                   ....*....|...
gi 564358377   776 IHKVLHMEHLPPR 788
Cdd:smart00572 234 IHKILGMDPLPSM 246
DZF pfam07528
DZF domain; The function of this domain is unknown. It is often found associated with ...
 542-786 2.94e-59

DZF domain; The function of this domain is unknown. It is often found associated with pfam00098 or pfam00035. This domain has been predicted to belong to the nucleotidyltransferase superfamily.


Pssm-ID: 284860  Cd Length: 248  Bit Score: 201.65  E-value: 2.94e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377  542 RVGILAKGLVLRGDHSVQLTLLCSKKPTHSLLQRIKQELPRELSIVAEDkyEVSSDHDANIVISACVEPGVKVTVSATSP 621
Cdd:pfam07528   1 QVGSFKKGTLLKGSNVADVVVILKTLPTTELVDALAKKVEEDLKTSMKT--EILQSVEALIVIKNTKEPPLELGFHITSP 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377  622 LMRED---PSVKQELqdSLSDPEDILDRERCLETLAALRHAKWFQARASGLQPCVIVIRVLRDLCRCLPPWGALPAWAME 698
Cdd:pfam07528  79 VAKVRmliATLPENL--RKLEPEDHLDRKKMQSHLASIRHTRWFEENAHHLKSIKVLIRVLKDLCRRFDTFGPLSGWPLD 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377  699 LLVEKVLSSAP--RPLSPGDAMRRVLEYVATGALLTDGPGLQDPCEKGPQDALEPMTPQQREDLTASAQHALRLVAFRQI 776
Cdd:pfam07528 157 LLAHKAIMNNPsrQALPAGEAFRRVFELLASGIFLPGSAGITDPCEKGHTRVHTHLTLQQQDDCCMTAQTLLRVLAHGGY 236

                         250
                  ....*....|
gi 564358377  777 HKVLHMEHLP 786
Cdd:pfam07528 237 KHILGMDGNT 246
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 154-181 1.76e-07

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 48.02  E-value: 1.76e-07
                           10        20
                   ....*....|....*....|....*...
gi 564358377   154 HYCEVCRVSCAGPQTYRDHLEGQKHRKK 181
Cdd:smart00451   4 FYCKLCNVTFTDEISVEAHLKGKKHKKN 31
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 155-178 2.32e-05

Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found in multiple copies in a wide range of proteins from plants to metazoans. Some member proteins, particularly those from plants, are annotated as being RNA-binding.


Pssm-ID: 463736 [Multi-domain]  Cd Length: 25  Bit Score: 41.71  E-value: 2.32e-05
                          10        20
                  ....*....|....*....|....
gi 564358377  155 YCEVCRVSCAGPQTYRDHLEGQKH 178
Cdd:pfam12874   2 YCELCNVTFNSESQLKSHLQGKKH 25
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 350-381 1.60e-04

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 39.54  E-value: 1.60e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564358377   350 RFRCKLCECSFNDRNARDMHLTGRRHRLQYRK 381
Cdd:smart00451   3 GFYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 351-375 1.72e-04

Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found in multiple copies in a wide range of proteins from plants to metazoans. Some member proteins, particularly those from plants, are annotated as being RNA-binding.


Pssm-ID: 463736 [Multi-domain]  Cd Length: 25  Bit Score: 39.40  E-value: 1.72e-04
                          10        20
                  ....*....|....*....|....*
gi 564358377  351 FRCKLCECSFNDRNARDMHLTGRRH 375
Cdd:pfam12874   1 FYCELCNVTFNSESQLKSHLQGKKH 25
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 201-232 1.35e-03

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 36.85  E-value: 1.35e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564358377   201 LHCGLCAVSCTGADAYAAHMRGARHQKVFKLH 232
Cdd:smart00451   4 FYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
 
Name Accession Description Interval E-value
DZF smart00572
domain in DSRM or ZnF_C2H2 domain containing proteins;
537-788 4.89e-108

domain in DSRM or ZnF_C2H2 domain containing proteins;


Pssm-ID: 128842  Cd Length: 246  Bit Score: 330.88  E-value: 4.89e-108
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377   537 LKGVVRVGILAKGLVLRGDHSVQLTLLCSKKPTHSLLQRIKQELPRELSIVAEDkyevssdhDANIVISACVEPGVKVTV 616
Cdd:smart00572   2 LKGVMRVGSFAKGTLLKGDNVAELVLLCKEKPTSELVARLARKLPEQLKAVTED--------EALIIVTSTKEPTMEVGI 73

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377   617 SATSPLMREDPSVKQELQDSLS-DPEDILDRERCLETLAALRHAKWFQARASGLQPCVIVIRVLRDLCRCLPPWGALPAW 695
Cdd:smart00572  74 LITSPLARVELLITTVPENLRKlDPEDHLDRKKCLSALASLRHAKWFQARASGLQSCVIVIRVLRDLCNRVPTWQPLSGW 153

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377   696 AMELLVEKVLSSAPRPLSPGDAMRRVLEYVATGALLTDGPGLQDPCEKGPQDALEPMTPQQREDLTASAQHALRLVAFRQ 775
Cdd:smart00572 154 PLELLVEKAIGSARQPLGLGDAFRRVFECLASGILLPGSPGLTDPCEKDNTDALTALTLQQREDVTASAQTALRLLAFGQ 233

                          250
                   ....*....|...
gi 564358377   776 IHKVLHMEHLPPR 788
Cdd:smart00572 234 IHKILGMDPLPSM 246
DZF pfam07528
DZF domain; The function of this domain is unknown. It is often found associated with ...
 542-786 2.94e-59

DZF domain; The function of this domain is unknown. It is often found associated with pfam00098 or pfam00035. This domain has been predicted to belong to the nucleotidyltransferase superfamily.


Pssm-ID: 284860  Cd Length: 248  Bit Score: 201.65  E-value: 2.94e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377  542 RVGILAKGLVLRGDHSVQLTLLCSKKPTHSLLQRIKQELPRELSIVAEDkyEVSSDHDANIVISACVEPGVKVTVSATSP 621
Cdd:pfam07528   1 QVGSFKKGTLLKGSNVADVVVILKTLPTTELVDALAKKVEEDLKTSMKT--EILQSVEALIVIKNTKEPPLELGFHITSP 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377  622 LMRED---PSVKQELqdSLSDPEDILDRERCLETLAALRHAKWFQARASGLQPCVIVIRVLRDLCRCLPPWGALPAWAME 698
Cdd:pfam07528  79 VAKVRmliATLPENL--RKLEPEDHLDRKKMQSHLASIRHTRWFEENAHHLKSIKVLIRVLKDLCRRFDTFGPLSGWPLD 156

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 564358377  699 LLVEKVLSSAP--RPLSPGDAMRRVLEYVATGALLTDGPGLQDPCEKGPQDALEPMTPQQREDLTASAQHALRLVAFRQI 776
Cdd:pfam07528 157 LLAHKAIMNNPsrQALPAGEAFRRVFELLASGIFLPGSAGITDPCEKGHTRVHTHLTLQQQDDCCMTAQTLLRVLAHGGY 236

                         250
                  ....*....|
gi 564358377  777 HKVLHMEHLP 786
Cdd:pfam07528 237 KHILGMDGNT 246
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 154-181 1.76e-07

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 48.02  E-value: 1.76e-07
                           10        20
                   ....*....|....*....|....*...
gi 564358377   154 HYCEVCRVSCAGPQTYRDHLEGQKHRKK 181
Cdd:smart00451   4 FYCKLCNVTFTDEISVEAHLKGKKHKKN 31
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 155-178 2.32e-05

Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found in multiple copies in a wide range of proteins from plants to metazoans. Some member proteins, particularly those from plants, are annotated as being RNA-binding.


Pssm-ID: 463736 [Multi-domain]  Cd Length: 25  Bit Score: 41.71  E-value: 2.32e-05
                          10        20
                  ....*....|....*....|....
gi 564358377  155 YCEVCRVSCAGPQTYRDHLEGQKH 178
Cdd:pfam12874   2 YCELCNVTFNSESQLKSHLQGKKH 25
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 350-381 1.60e-04

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 39.54  E-value: 1.60e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564358377   350 RFRCKLCECSFNDRNARDMHLTGRRHRLQYRK 381
Cdd:smart00451   3 GFYCKLCNVTFTDEISVEAHLKGKKHKKNVKK 34
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 351-375 1.72e-04

Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found in multiple copies in a wide range of proteins from plants to metazoans. Some member proteins, particularly those from plants, are annotated as being RNA-binding.


Pssm-ID: 463736 [Multi-domain]  Cd Length: 25  Bit Score: 39.40  E-value: 1.72e-04
                          10        20
                  ....*....|....*....|....*
gi 564358377  351 FRCKLCECSFNDRNARDMHLTGRRH 375
Cdd:pfam12874   1 FYCELCNVTFNSESQLKSHLQGKKH 25
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 201-232 1.35e-03

U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ribonucleoprotein C and other RNA-binding proteins.


Pssm-ID: 197732 [Multi-domain]  Cd Length: 35  Bit Score: 36.85  E-value: 1.35e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 564358377   201 LHCGLCAVSCTGADAYAAHMRGARHQKVFKLH 232
Cdd:smart00451   4 FYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
zf-C2H2_jaz pfam12171
Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, ...
 350-376 1.46e-03

Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localize in the nucleus, particularly the nucleolus. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localization.


Pssm-ID: 432381 [Multi-domain]  Cd Length: 27  Bit Score: 36.76  E-value: 1.46e-03
                          10        20
                  ....*....|....*....|....*..
gi 564358377  350 RFRCKLCECSFNDRNARDMHLTGRRHR 376
Cdd:pfam12171   1 QFYCVLCDKYFKSENALQNHLKSKKHK 27
zf-C2H2_jaz pfam12171
Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, ...
 154-179 1.78e-03

Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, and is approximately 30 amino acids in length. The mammalian members of this group occur multiple times along the protein, joined by flexible linkers, and are referred to as JAZ - dsRNA-binding ZF protein - zinc-fingers. The JAZ proteins are expressed in all tissues tested and localize in the nucleus, particularly the nucleolus. JAZ preferentially binds to double-stranded (ds) RNA or RNA/DNA hybrids rather than DNA. In addition to binding double-stranded RNA, these zinc-fingers are required for nucleolar localization.


Pssm-ID: 432381 [Multi-domain]  Cd Length: 27  Bit Score: 36.38  E-value: 1.78e-03
                          10        20
                  ....*....|....*....|....*.
gi 564358377  154 HYCEVCRVSCAGPQTYRDHLEGQKHR 179
Cdd:pfam12171   2 FYCVLCDKYFKSENALQNHLKSKKHK 27
 
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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