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Conserved domains on  [gi|1207112119|ref|XP_021335791|]
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wu:fb39e12 isoform X1 [Danio rerio]

Protein Classification

Rho termination factor N-terminal domain-containing protein; transcription termination factor Rho; SAP domain-containing protein( domain architecture ID 10653806)

Rho termination factor N-terminal domain-containing protein which may bind nucleic acid; similar to Arabidopsis thaliana RHON1 which is involved in processing of plastid ribonucleic acids, and to rice OsBP-73 which interacts in vitro with the promoter of the nuclear waxy gene in rice; contains the N-terminal domain of transcription termination factor Rho; transcription termination factor Rho is an ATP-dependent RNA/DNA helicase that facilitates transcription termination; SAP domain-containing protein may bind DNA or RNA, similar to Homo sapiens MEF2-activating motif and SAP domain-containing transcriptional regulator (MAMSTR), a transcriptional coactivator that stimulates the transcriptional activity of MEF2C; SAP domain-containing protein may bind DNA or RNA, similar to Mus musculus SAP domain-containing ribonucleoprotein that binds both single-stranded and double-stranded DNA with higher affinity for the single-stranded form; SAP domain-containing protein similar to Rattus norvegicus SAP domain-containing ribonucleoprotein that specifically binds to scaffold/matrix attachment region DNA and also binds single-stranded RNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SAP pfam02037
SAP domain; The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA/RNA binding ...
 402-435 8.41e-10

SAP domain; The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA/RNA binding domain found in diverse nuclear and cytoplasmic proteins.


:

Pssm-ID: 460424 [Multi-domain]  Cd Length: 35  Bit Score: 54.71  E-value: 8.41e-10
                           10        20        30
                   ....*....|....*....|....*....|....
gi 1207112119  402 LDEFKVAELKHELKLRGLTVSGTKNDLIERLKNY 435
Cdd:pfam02037    1 LSKLTVAELKEELRKRGLPTSGKKAELIERLQEY 34
RPEL pfam02755
RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL ...
 147-168 1.01e-04

RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL motif binds to actin.


:

Pssm-ID: 460677  Cd Length: 24  Bit Score: 40.33  E-value: 1.01e-04
                           10        20
                   ....*....|....*....|..
gi 1207112119  147 DLNDKISHRPGPIELIHKNILP 168
Cdd:pfam02755    1 SLERKLSHRPTREELVERNILP 22
RPEL smart00707
Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;
87-111 1.23e-04

Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;


:

Pssm-ID: 128947  Cd Length: 26  Bit Score: 40.15  E-value: 1.23e-04
                            10        20
                    ....*....|....*....|....*
gi 1207112119    87 DYLKRKIRSRPERSELVRMHILEVT 111
Cdd:smart00707    1 DVLNRKLSQRPTREELEERNILKEL 25
RPEL smart00707
Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;
43-68 1.43e-04

Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;


:

Pssm-ID: 128947  Cd Length: 26  Bit Score: 39.77  E-value: 1.43e-04
                            10        20
                    ....*....|....*....|....*.
gi 1207112119    43 EVLQLKLQQRRTREELVSQGIMPPLK 68
Cdd:smart00707    1 DVLNRKLSQRPTREELEERNILKELS 26
ParD COG3609
Transcriptional regulator, contains Arc/MetJ-type RHH (ribbon-helix-helix) DNA-binding domain ...
 592-638 8.47e-03

Transcriptional regulator, contains Arc/MetJ-type RHH (ribbon-helix-helix) DNA-binding domain [Transcription];


:

Pssm-ID: 442827  Cd Length: 77  Bit Score: 36.33  E-value: 8.47e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1207112119  592 DQMLQEKDKQIE------------ELTRMLRQKQRQVEALRSQLEQGKRAAPTEPAVDT 638
Cdd:COG3609      9 DELEDFIDEQVEsgryasasevirEALRLLEEREAKLEALRAALDEGLASGEAEPFADD 67
 
Name Accession Description Interval E-value
SAP pfam02037
SAP domain; The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA/RNA binding ...
 402-435 8.41e-10

SAP domain; The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA/RNA binding domain found in diverse nuclear and cytoplasmic proteins.


Pssm-ID: 460424 [Multi-domain]  Cd Length: 35  Bit Score: 54.71  E-value: 8.41e-10
                           10        20        30
                   ....*....|....*....|....*....|....
gi 1207112119  402 LDEFKVAELKHELKLRGLTVSGTKNDLIERLKNY 435
Cdd:pfam02037    1 LSKLTVAELKEELRKRGLPTSGKKAELIERLQEY 34
SAP smart00513
Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation;
402-435 5.66e-09

Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation;


Pssm-ID: 128789 [Multi-domain]  Cd Length: 35  Bit Score: 52.49  E-value: 5.66e-09
                            10        20        30
                    ....*....|....*....|....*....|....
gi 1207112119   402 LDEFKVAELKHELKLRGLTVSGTKNDLIERLKNY 435
Cdd:smart00513    1 LAKLKVSELKDELKKRGLSTSGTKAELVDRLLEA 34
RPEL pfam02755
RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL ...
 147-168 1.01e-04

RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL motif binds to actin.


Pssm-ID: 460677  Cd Length: 24  Bit Score: 40.33  E-value: 1.01e-04
                           10        20
                   ....*....|....*....|..
gi 1207112119  147 DLNDKISHRPGPIELIHKNILP 168
Cdd:pfam02755    1 SLERKLSHRPTREELVERNILP 22
RPEL smart00707
Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;
87-111 1.23e-04

Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;


Pssm-ID: 128947  Cd Length: 26  Bit Score: 40.15  E-value: 1.23e-04
                            10        20
                    ....*....|....*....|....*
gi 1207112119    87 DYLKRKIRSRPERSELVRMHILEVT 111
Cdd:smart00707    1 DVLNRKLSQRPTREELEERNILKEL 25
RPEL smart00707
Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;
43-68 1.43e-04

Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;


Pssm-ID: 128947  Cd Length: 26  Bit Score: 39.77  E-value: 1.43e-04
                            10        20
                    ....*....|....*....|....*.
gi 1207112119    43 EVLQLKLQQRRTREELVSQGIMPPLK 68
Cdd:smart00707    1 DVLNRKLSQRPTREELEERNILKELS 26
RPEL pfam02755
RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL ...
 45-66 1.36e-03

RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL motif binds to actin.


Pssm-ID: 460677  Cd Length: 24  Bit Score: 37.25  E-value: 1.36e-03
                           10        20
                   ....*....|....*....|..
gi 1207112119   45 LQLKLQQRRTREELVSQGIMPP 66
Cdd:pfam02755    2 LERKLSHRPTREELVERNILPE 23
RPEL pfam02755
RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL ...
 89-109 4.64e-03

RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL motif binds to actin.


Pssm-ID: 460677  Cd Length: 24  Bit Score: 35.71  E-value: 4.64e-03
                           10        20
                   ....*....|....*....|.
gi 1207112119   89 LKRKIRSRPERSELVRMHILE 109
Cdd:pfam02755    2 LERKLSHRPTREELVERNILP 22
RPEL smart00707
Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;
146-168 6.83e-03

Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;


Pssm-ID: 128947  Cd Length: 26  Bit Score: 35.15  E-value: 6.83e-03
                            10        20
                    ....*....|....*....|...
gi 1207112119   146 DDLNDKISHRPGPIELIHKNILP 168
Cdd:smart00707    1 DVLNRKLSQRPTREELEERNILK 23
ParD COG3609
Transcriptional regulator, contains Arc/MetJ-type RHH (ribbon-helix-helix) DNA-binding domain ...
 592-638 8.47e-03

Transcriptional regulator, contains Arc/MetJ-type RHH (ribbon-helix-helix) DNA-binding domain [Transcription];


Pssm-ID: 442827  Cd Length: 77  Bit Score: 36.33  E-value: 8.47e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1207112119  592 DQMLQEKDKQIE------------ELTRMLRQKQRQVEALRSQLEQGKRAAPTEPAVDT 638
Cdd:COG3609      9 DELEDFIDEQVEsgryasasevirEALRLLEEREAKLEALRAALDEGLASGEAEPFADD 67
 
Name Accession Description Interval E-value
SAP pfam02037
SAP domain; The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA/RNA binding ...
 402-435 8.41e-10

SAP domain; The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA/RNA binding domain found in diverse nuclear and cytoplasmic proteins.


Pssm-ID: 460424 [Multi-domain]  Cd Length: 35  Bit Score: 54.71  E-value: 8.41e-10
                           10        20        30
                   ....*....|....*....|....*....|....
gi 1207112119  402 LDEFKVAELKHELKLRGLTVSGTKNDLIERLKNY 435
Cdd:pfam02037    1 LSKLTVAELKEELRKRGLPTSGKKAELIERLQEY 34
SAP smart00513
Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation;
402-435 5.66e-09

Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation;


Pssm-ID: 128789 [Multi-domain]  Cd Length: 35  Bit Score: 52.49  E-value: 5.66e-09
                            10        20        30
                    ....*....|....*....|....*....|....
gi 1207112119   402 LDEFKVAELKHELKLRGLTVSGTKNDLIERLKNY 435
Cdd:smart00513    1 LAKLKVSELKDELKKRGLSTSGTKAELVDRLLEA 34
RPEL pfam02755
RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL ...
 147-168 1.01e-04

RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL motif binds to actin.


Pssm-ID: 460677  Cd Length: 24  Bit Score: 40.33  E-value: 1.01e-04
                           10        20
                   ....*....|....*....|..
gi 1207112119  147 DLNDKISHRPGPIELIHKNILP 168
Cdd:pfam02755    1 SLERKLSHRPTREELVERNILP 22
RPEL smart00707
Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;
87-111 1.23e-04

Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;


Pssm-ID: 128947  Cd Length: 26  Bit Score: 40.15  E-value: 1.23e-04
                            10        20
                    ....*....|....*....|....*
gi 1207112119    87 DYLKRKIRSRPERSELVRMHILEVT 111
Cdd:smart00707    1 DVLNRKLSQRPTREELEERNILKEL 25
RPEL smart00707
Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;
43-68 1.43e-04

Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;


Pssm-ID: 128947  Cd Length: 26  Bit Score: 39.77  E-value: 1.43e-04
                            10        20
                    ....*....|....*....|....*.
gi 1207112119    43 EVLQLKLQQRRTREELVSQGIMPPLK 68
Cdd:smart00707    1 DVLNRKLSQRPTREELEERNILKELS 26
RPEL pfam02755
RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL ...
 45-66 1.36e-03

RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL motif binds to actin.


Pssm-ID: 460677  Cd Length: 24  Bit Score: 37.25  E-value: 1.36e-03
                           10        20
                   ....*....|....*....|..
gi 1207112119   45 LQLKLQQRRTREELVSQGIMPP 66
Cdd:pfam02755    2 LERKLSHRPTREELVERNILPE 23
RPEL pfam02755
RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL ...
 89-109 4.64e-03

RPEL repeat; The RPEL repeat is named after four conserved amino acids it contains. The RPEL motif binds to actin.


Pssm-ID: 460677  Cd Length: 24  Bit Score: 35.71  E-value: 4.64e-03
                           10        20
                   ....*....|....*....|.
gi 1207112119   89 LKRKIRSRPERSELVRMHILE 109
Cdd:pfam02755    2 LERKLSHRPTREELVERNILP 22
RPEL smart00707
Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;
146-168 6.83e-03

Repeat in Drosophila CG10860, human KIAA0680 and C. elegans F26H9.2;


Pssm-ID: 128947  Cd Length: 26  Bit Score: 35.15  E-value: 6.83e-03
                            10        20
                    ....*....|....*....|...
gi 1207112119   146 DDLNDKISHRPGPIELIHKNILP 168
Cdd:smart00707    1 DVLNRKLSQRPTREELEERNILK 23
ParD COG3609
Transcriptional regulator, contains Arc/MetJ-type RHH (ribbon-helix-helix) DNA-binding domain ...
 592-638 8.47e-03

Transcriptional regulator, contains Arc/MetJ-type RHH (ribbon-helix-helix) DNA-binding domain [Transcription];


Pssm-ID: 442827  Cd Length: 77  Bit Score: 36.33  E-value: 8.47e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1207112119  592 DQMLQEKDKQIE------------ELTRMLRQKQRQVEALRSQLEQGKRAAPTEPAVDT 638
Cdd:COG3609      9 DELEDFIDEQVEsgryasasevirEALRLLEEREAKLEALRAALDEGLASGEAEPFADD 67
 
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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