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Conserved domains on  [gi|27883882|ref|NP_776190|]
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protein SREK1IP1 [Homo sapiens]

Protein Classification

zinc finger CCHC domain-containing protein( domain architecture ID 82036)

zinc finger CCHC (ZCCHC) domain-containing protein contains a zinc knuckle or a zinc binding motif, CX2CX4HX4C, where X can be any amino acid, and may bind single-stranded RNA; similar to human SREK1-interacting protein 1 (SREK1IP1), a possible splicing regulator involved in the control of cellular survival

Gene Ontology:  GO:0008270|GO:0003676
PubMed:  33787465|11179890|12665246

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
zf-CCHC_3 super family cl16476
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 9-30 9.99e-04

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


The actual alignment was detected with superfamily member pfam13917:

Pssm-ID: 404753  Cd Length: 41  Bit Score: 35.07  E-value: 9.99e-04
                          10        20
                  ....*....|....*....|..
gi 27883882     9 DSVRAGCKKCGYPGHLTFECRN 30
Cdd:pfam13917   1 ANASARCQKCLKKGHWTYECKN 22
 
Name Accession Description Interval E-value
zf-CCHC_3 pfam13917
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 9-30 9.99e-04

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 404753  Cd Length: 41  Bit Score: 35.07  E-value: 9.99e-04
                          10        20
                  ....*....|....*....|..
gi 27883882     9 DSVRAGCKKCGYPGHLTFECRN 30
Cdd:pfam13917   1 ANASARCQKCLKKGHWTYECKN 22
 
Name Accession Description Interval E-value
zf-CCHC_3 pfam13917
Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following ...
 9-30 9.99e-04

Zinc knuckle; The zinc knuckle is a zinc binding motif composed of the the following CX2CX4HX4C where X can be any amino acid. The motifs are mostly from retroviral gag proteins (nucleocapsid). Prototype structure is from HIV. Also contains members involved in eukaryotic gene regulation, such as C. elegans GLH-1. Structure is an 18-residue zinc finger.


Pssm-ID: 404753  Cd Length: 41  Bit Score: 35.07  E-value: 9.99e-04
                          10        20
                  ....*....|....*....|..
gi 27883882     9 DSVRAGCKKCGYPGHLTFECRN 30
Cdd:pfam13917   1 ANASARCQKCLKKGHWTYECKN 22
 
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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