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Conserved domains on  [gi|18395319|ref|NP_027420|]
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CCCH-type zinc finger family protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
zf-CCCH_3 super family cl25863
Zinc-finger containing family; zf-CCCH_3 family is found in eukaryotes, and is typically ...
 32-83 1.07e-10

Zinc-finger containing family; zf-CCCH_3 family is found in eukaryotes, and is typically between 155 and 169 amino acids in length.


The actual alignment was detected with superfamily member pfam15663:

Pssm-ID: 464787 [Multi-domain]  Cd Length: 110  Bit Score: 59.01  E-value: 1.07e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 18395319    32 NTDCVYFLASplTCKKGPECEYRHSEYARMNPRDCYYWLNGNCLNPKCGFRH 83
Cdd:pfam15663   5 GDDCYFFYYS--TCTKGDSCPFRHCEAALGNETVCTLWQEGRCFRPVCRFRH 54
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 120-138 2.57e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


:

Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 38.55  E-value: 2.57e-04
                          10
                  ....*....|....*....
gi 18395319   120 CLFFQKGMCMKGDMCSFLH 138
Cdd:pfam18345   1 CKFFLKGRCRYGDKCRFAH 19
SF-CC1 super family cl36939
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 398-500 2.06e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


The actual alignment was detected with superfamily member TIGR01622:

Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 41.06  E-value: 2.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395319   398 RESRRDTPRENSISSSRLQGRIKLRERSNGEeghhfDRRSERGRDRSElPSQGRLRDRIKGRLEENHSGNQERGFGAPWA 477
Cdd:TIGR01622  11 RDSSSAGDRDRRRDKGRERSRDRSRDRERSR-----SRRRDRHRDRDY-YRGRERRSRSRRPNRRYRPREKRRRRGDSYR 84

                          90       100
                  ....*....|....*....|...
gi 18395319   478 RRREMEDERKSAPKSSREESKPE 500
Cdd:TIGR01622  85 RRRDDRRSRREKPRARDGTPEPL 107
 
Name Accession Description Interval E-value
zf-CCCH_3 pfam15663
Zinc-finger containing family; zf-CCCH_3 family is found in eukaryotes, and is typically ...
 32-83 1.07e-10

Zinc-finger containing family; zf-CCCH_3 family is found in eukaryotes, and is typically between 155 and 169 amino acids in length.


Pssm-ID: 464787 [Multi-domain]  Cd Length: 110  Bit Score: 59.01  E-value: 1.07e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 18395319    32 NTDCVYFLASplTCKKGPECEYRHSEYARMNPRDCYYWLNGNCLNPKCGFRH 83
Cdd:pfam15663   5 GDDCYFFYYS--TCTKGDSCPFRHCEAALGNETVCTLWQEGRCFRPVCRFRH 54
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 120-138 2.57e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 38.55  E-value: 2.57e-04
                          10
                  ....*....|....*....
gi 18395319   120 CLFFQKGMCMKGDMCSFLH 138
Cdd:pfam18345   1 CKFFLKGRCRYGDKCRFAH 19
ZnF_C3H1 smart00356
zinc finger;
116-140 3.86e-04

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 37.99  E-value: 3.86e-04
                           10        20
                   ....*....|....*....|....*
gi 18395319    116 QPVPCLFFQKGMCMKGDMCSFLHTP 140
Cdd:smart00356   3 KTELCKFFKRGYCPRGDRCKFAHPL 27
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 398-500 2.06e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 41.06  E-value: 2.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395319   398 RESRRDTPRENSISSSRLQGRIKLRERSNGEeghhfDRRSERGRDRSElPSQGRLRDRIKGRLEENHSGNQERGFGAPWA 477
Cdd:TIGR01622  11 RDSSSAGDRDRRRDKGRERSRDRSRDRERSR-----SRRRDRHRDRDY-YRGRERRSRSRRPNRRYRPREKRRRRGDSYR 84

                          90       100
                  ....*....|....*....|...
gi 18395319   478 RRREMEDERKSAPKSSREESKPE 500
Cdd:TIGR01622  85 RRRDDRRSRREKPRARDGTPEPL 107
 
Name Accession Description Interval E-value
zf-CCCH_3 pfam15663
Zinc-finger containing family; zf-CCCH_3 family is found in eukaryotes, and is typically ...
 32-83 1.07e-10

Zinc-finger containing family; zf-CCCH_3 family is found in eukaryotes, and is typically between 155 and 169 amino acids in length.


Pssm-ID: 464787 [Multi-domain]  Cd Length: 110  Bit Score: 59.01  E-value: 1.07e-10
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|..
gi 18395319    32 NTDCVYFLASplTCKKGPECEYRHSEYARMNPRDCYYWLNGNCLNPKCGFRH 83
Cdd:pfam15663   5 GDDCYFFYYS--TCTKGDSCPFRHCEAALGNETVCTLWQEGRCFRPVCRFRH 54
zf_CCCH_4 pfam18345
Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch ...
 120-138 2.57e-04

Zinc finger domain; This is a zinc finger domain found in Zinc finger CCCH-type with G patch domain-containing proteins such as ZIP. Functional studies indicate that ZIP specifically targets EGFR and represses its transcription, and that the zinc finger and the coiled-coil domains are central to that process.


Pssm-ID: 465719 [Multi-domain]  Cd Length: 19  Bit Score: 38.55  E-value: 2.57e-04
                          10
                  ....*....|....*....
gi 18395319   120 CLFFQKGMCMKGDMCSFLH 138
Cdd:pfam18345   1 CKFFLKGRCRYGDKCRFAH 19
ZnF_C3H1 smart00356
zinc finger;
116-140 3.86e-04

zinc finger;


Pssm-ID: 214632 [Multi-domain]  Cd Length: 27  Bit Score: 37.99  E-value: 3.86e-04
                           10        20
                   ....*....|....*....|....*
gi 18395319    116 QPVPCLFFQKGMCMKGDMCSFLHTP 140
Cdd:smart00356   3 KTELCKFFKRGYCPRGDRCKFAHPL 27
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 398-500 2.06e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 41.06  E-value: 2.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395319   398 RESRRDTPRENSISSSRLQGRIKLRERSNGEeghhfDRRSERGRDRSElPSQGRLRDRIKGRLEENHSGNQERGFGAPWA 477
Cdd:TIGR01622  11 RDSSSAGDRDRRRDKGRERSRDRSRDRERSR-----SRRRDRHRDRDY-YRGRERRSRSRRPNRRYRPREKRRRRGDSYR 84

                          90       100
                  ....*....|....*....|...
gi 18395319   478 RRREMEDERKSAPKSSREESKPE 500
Cdd:TIGR01622  85 RRRDDRRSRREKPRARDGTPEPL 107
Torus pfam16131
Torus domain; This domain is found in pre-mRNA-splicing factor CWC2. It includes a CCCH-type ...
 120-138 8.41e-03

Torus domain; This domain is found in pre-mRNA-splicing factor CWC2. It includes a CCCH-type zinc finger.


Pssm-ID: 435160  Cd Length: 109  Bit Score: 36.42  E-value: 8.41e-03
                          10
                  ....*....|....*....
gi 18395319   120 CLFFQKGMCMKGDMCSFLH 138
Cdd:pfam16131  73 CLYFARGCCPLGKKCEYLH 91
SF-CC1 TIGR01622
splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors ...
 396-519 9.71e-03

splicing factor, CC1-like family; This model represents a subfamily of RNA splicing factors including the Pad-1 protein (N. crassa), CAPER (M. musculus) and CC1.3 (H.sapiens). These proteins are characterized by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 H. sapiens paralogs, two) RNA recognition domains (rrm: pfam00706). These splicing factors are closely related to the U2AF splicing factor family (TIGR01642). A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the seed.


Pssm-ID: 273721 [Multi-domain]  Cd Length: 494  Bit Score: 39.13  E-value: 9.71e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18395319   396 GYRESRRDTPRENSISSSRLQGRIKLRERSNgeeghhfDRRSERGRDRSELPSQGRLRDRIKGRlEENHSGNQERGFGAP 475
Cdd:TIGR01622   1 RYRDRERERLRDSSSAGDRDRRRDKGRERSR-------DRSRDRERSRSRRRDRHRDRDYYRGR-ERRSRSRRPNRRYRP 72

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 18395319   476 WARRREMEDERKSAPKSSREESKPEPSLGKRKSFEEDHHSHKRS 519
Cdd:TIGR01622  73 REKRRRRGDSYRRRRDDRRSRREKPRARDGTPEPLTEDERDRRT 116
 
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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