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Conserved domains on  [gi|21389511|ref|NP_653324|]
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zinc finger matrin-type protein 2 [Homo sapiens]

Protein Classification

C2H2-type zinc finger protein( domain architecture ID 13915226)

Cys2His2 (C2H2)-type zinc finger protein may be involved in transcriptional regulation; similar to mammalian zinc finger matrin-type protein 2 that is involved in pre-mRNA splicing as a component of the spliceosome

CATH:  3.30.160.60
Gene Ontology:  GO:0008270|GO:0003676
PubMed:  11179890|12665246|11361095|10940247|22803940
SCOP:  4003583

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 ...
 77-108 6.74e-09

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: 49.56  E-value: 6.74e-09
                           10        20        30
                   ....*....|....*....|....*....|..
gi 21389511     77 MGGYYCNVCDCVVKDSINFLDHINGKKHQRNL 108
Cdd:smart00451   1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNV 32
SNRNP27 super family cl37785
U4/U6.U5 small nuclear ribonucleoproteins; This is a family of eukaryotic proteins including ...
 178-196 4.24e-04

U4/U6.U5 small nuclear ribonucleoproteins; This is a family of eukaryotic proteins including U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein may play a role in mRNA splicing.


The actual alignment was detected with superfamily member pfam08648:

Pssm-ID: 462548  Cd Length: 56  Bit Score: 37.12  E-value: 4.24e-04
                          10
                  ....*....|....*....
gi 21389511   178 EEDDEMAAVMGFSGFGSTK 196
Cdd:pfam08648   1 DEEEEMMKMMGFGGFDTTK 19
 
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 ...
 77-108 6.74e-09

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: 49.56  E-value: 6.74e-09
                           10        20        30
                   ....*....|....*....|....*....|..
gi 21389511     77 MGGYYCNVCDCVVKDSINFLDHINGKKHQRNL 108
Cdd:smart00451   1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNV 32
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 80-104 1.82e-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: 40.17  E-value: 1.82e-05
                          10        20
                  ....*....|....*....|....*
gi 21389511    80 YYCNVCDCVVKDSINFLDHINGKKH 104
Cdd:pfam12874   1 FYCELCNVTFNSESQLKSHLQGKKH 25
SNRNP27 pfam08648
U4/U6.U5 small nuclear ribonucleoproteins; This is a family of eukaryotic proteins including ...
 178-196 4.24e-04

U4/U6.U5 small nuclear ribonucleoproteins; This is a family of eukaryotic proteins including U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein may play a role in mRNA splicing.


Pssm-ID: 462548  Cd Length: 56  Bit Score: 37.12  E-value: 4.24e-04
                          10
                  ....*....|....*....
gi 21389511   178 EEDDEMAAVMGFSGFGSTK 196
Cdd:pfam08648   1 DEEEEMMKMMGFGGFDTTK 19
 
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 ...
 77-108 6.74e-09

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: 49.56  E-value: 6.74e-09
                           10        20        30
                   ....*....|....*....|....*....|..
gi 21389511     77 MGGYYCNVCDCVVKDSINFLDHINGKKHQRNL 108
Cdd:smart00451   1 TGGFYCKLCNVTFTDEISVEAHLKGKKHKKNV 32
zf-met pfam12874
Zinc-finger of C2H2 type; This is a zinc-finger domain with the CxxCx(12)Hx(6)H motif, found ...
 80-104 1.82e-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: 40.17  E-value: 1.82e-05
                          10        20
                  ....*....|....*....|....*
gi 21389511    80 YYCNVCDCVVKDSINFLDHINGKKH 104
Cdd:pfam12874   1 FYCELCNVTFNSESQLKSHLQGKKH 25
zf-C2H2_jaz pfam12171
Zinc-finger double-stranded RNA-binding; This domain family is found in archaea and eukaryotes, ...
 80-105 2.66e-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: 36.76  E-value: 2.66e-04
                          10        20
                  ....*....|....*....|....*.
gi 21389511    80 YYCNVCDCVVKDSINFLDHINGKKHQ 105
Cdd:pfam12171   2 FYCVLCDKYFKSENALQNHLKSKKHK 27
SNRNP27 pfam08648
U4/U6.U5 small nuclear ribonucleoproteins; This is a family of eukaryotic proteins including ...
 178-196 4.24e-04

U4/U6.U5 small nuclear ribonucleoproteins; This is a family of eukaryotic proteins including U4/U6.U5 small nuclear ribonucleoprotein 27 kDa protein may play a role in mRNA splicing.


Pssm-ID: 462548  Cd Length: 56  Bit Score: 37.12  E-value: 4.24e-04
                          10
                  ....*....|....*....
gi 21389511   178 EEDDEMAAVMGFSGFGSTK 196
Cdd:pfam08648   1 DEEEEMMKMMGFGGFDTTK 19
 
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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