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Conserved domains on  [gi|1720427706|ref|XP_030099472|]
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zinc finger matrin-type protein 4 isoform X4 [Mus musculus]

Protein Classification

ZnF_U1 and PRP11 domain-containing protein( domain architecture ID 12211279)

ZnF_U1 and PRP11 domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 73-107 1.25e-06

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: 43.01  E-value: 1.25e-06
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 1720427706   73 DSDRYCGLCAAWFNNPLMAQQHYEGKKHKKNAARV 107
Cdd:smart00451   1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 3-37 4.78e-05

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: 38.77  E-value: 4.78e-05
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 1720427706    3 DKNKCCTLCNMSFTSAVVADSHYQGKIHAKRLKLL 37
Cdd:smart00451   1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
PRP11 super family cl25587
Splicing factor 3a, subunit 2 [RNA processing and modification];
96-160 1.40e-03

Splicing factor 3a, subunit 2 [RNA processing and modification];


The actual alignment was detected with superfamily member COG5246:

Pssm-ID: 227571 [Multi-domain]  Cd Length: 222  Bit Score: 37.73  E-value: 1.40e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720427706  96 EGKKHKKNAARVALLEQLGTSL--DLGELRGLRRTYRCTTCSVSLNSIEQYHAHLQGSKHQTNLKNK 160
Cdd:COG5246    19 EIKKNKKRRSRQLLLEAYGQDLmdDPYLSKNHTGKYVCLLCKTKHLTEMSYVKHREGKKHKENSSRR 85
 
Name Accession Description Interval E-value
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 73-107 1.25e-06

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: 43.01  E-value: 1.25e-06
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 1720427706   73 DSDRYCGLCAAWFNNPLMAQQHYEGKKHKKNAARV 107
Cdd:smart00451   1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 3-37 4.78e-05

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: 38.77  E-value: 4.78e-05
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 1720427706    3 DKNKCCTLCNMSFTSAVVADSHYQGKIHAKRLKLL 37
Cdd:smart00451   1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 8-30 7.19e-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: 37.86  E-value: 7.19e-05
                          10        20
                  ....*....|....*....|...
gi 1720427706   8 CTLCNMSFTSAVVADSHYQGKIH 30
Cdd:pfam12874   3 CELCNVTFNSESQLKSHLQGKKH 25
zf-C2H2_jaz pfam12171
Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, ...
 77-101 1.18e-04

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: 37.53  E-value: 1.18e-04
                          10        20
                  ....*....|....*....|....*
gi 1720427706  77 YCGLCAAWFNNPLMAQQHYEGKKHK 101
Cdd:pfam12171   3 YCVLCDKYFKSENALQNHLKSKKHK 27
PRP11 COG5246
Splicing factor 3a, subunit 2 [RNA processing and modification];
96-160 1.40e-03

Splicing factor 3a, subunit 2 [RNA processing and modification];


Pssm-ID: 227571 [Multi-domain]  Cd Length: 222  Bit Score: 37.73  E-value: 1.40e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720427706  96 EGKKHKKNAARVALLEQLGTSL--DLGELRGLRRTYRCTTCSVSLNSIEQYHAHLQGSKHQTNLKNK 160
Cdd:COG5246    19 EIKKNKKRRSRQLLLEAYGQDLmdDPYLSKNHTGKYVCLLCKTKHLTEMSYVKHREGKKHKENSSRR 85
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 129-153 3.17e-03

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: 33.62  E-value: 3.17e-03
                          10        20
                  ....*....|....*....|....*
gi 1720427706 129 YRCTTCSVSLNSIEQYHAHLQGSKH 153
Cdd:pfam12874   1 FYCELCNVTFNSESQLKSHLQGKKH 25
 
Name Accession Description Interval E-value
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 73-107 1.25e-06

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: 43.01  E-value: 1.25e-06
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 1720427706   73 DSDRYCGLCAAWFNNPLMAQQHYEGKKHKKNAARV 107
Cdd:smart00451   1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
ZnF_U1 smart00451
U1-like zinc finger; Family of C2H2-type zinc fingers, present in matrin, U1 small nuclear ...
 3-37 4.78e-05

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: 38.77  E-value: 4.78e-05
                           10        20        30
                   ....*....|....*....|....*....|....*
gi 1720427706    3 DKNKCCTLCNMSFTSAVVADSHYQGKIHAKRLKLL 37
Cdd:smart00451   1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNVKKR 35
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 8-30 7.19e-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: 37.86  E-value: 7.19e-05
                          10        20
                  ....*....|....*....|...
gi 1720427706   8 CTLCNMSFTSAVVADSHYQGKIH 30
Cdd:pfam12874   3 CELCNVTFNSESQLKSHLQGKKH 25
zf-C2H2_jaz pfam12171
Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, ...
 77-101 1.18e-04

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: 37.53  E-value: 1.18e-04
                          10        20
                  ....*....|....*....|....*
gi 1720427706  77 YCGLCAAWFNNPLMAQQHYEGKKHK 101
Cdd:pfam12171   3 YCVLCDKYFKSENALQNHLKSKKHK 27
PRP11 COG5246
Splicing factor 3a, subunit 2 [RNA processing and modification];
96-160 1.40e-03

Splicing factor 3a, subunit 2 [RNA processing and modification];


Pssm-ID: 227571 [Multi-domain]  Cd Length: 222  Bit Score: 37.73  E-value: 1.40e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720427706  96 EGKKHKKNAARVALLEQLGTSL--DLGELRGLRRTYRCTTCSVSLNSIEQYHAHLQGSKHQTNLKNK 160
Cdd:COG5246    19 EIKKNKKRRSRQLLLEAYGQDLmdDPYLSKNHTGKYVCLLCKTKHLTEMSYVKHREGKKHKENSSRR 85
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 77-100 2.98e-03

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: 33.62  E-value: 2.98e-03
                          10        20
                  ....*....|....*....|....
gi 1720427706  77 YCGLCAAWFNNPLMAQQHYEGKKH 100
Cdd:pfam12874   2 YCELCNVTFNSESQLKSHLQGKKH 25
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 129-153 3.17e-03

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: 33.62  E-value: 3.17e-03
                          10        20
                  ....*....|....*....|....*
gi 1720427706 129 YRCTTCSVSLNSIEQYHAHLQGSKH 153
Cdd:pfam12874   1 FYCELCNVTFNSESQLKSHLQGKKH 25
 
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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