NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|12750754|gb|AAB65854|]
View 

type II sodium channel alpha-subunit, partial [Homo sapiens]

Protein Classification

ion transporter( domain architecture ID 1000054)

ion transporter such as a voltage-gated cation channel, which enables the selective translocation of cations such as sodium, calcium, or potassium, across cell membranes

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Ion_trans super family cl37996
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
 1-70 1.04e-04

Ion transport protein; This family contains sodium, potassium and calcium ion channels. This family is 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some sub-families (e.g. Na channels) the domain is repeated four times, whereas in others (e.g. K channels) the protein forms as a tetramer in the membrane.


The actual alignment was detected with superfamily member pfam00520:

Pssm-ID: 459842 [Multi-domain]  Cd Length: 238  Bit Score: 38.02  E-value: 1.04e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 12750754     1 NSMICLFQITTSAGWDGLLAPILNSGPpdcdpdkdhpgssvkgdcgnPSVGIFFFVSYIIISFLVVVNMY 70
Cdd:pfam00520 173 NAFLWLFQTMTTEGWGDIMYDTIDGKG--------------------EFWAYIYFVSFIILGGFLLLNLF 222
 
Name Accession Description Interval E-value
Ion_trans pfam00520
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
 1-70 1.04e-04

Ion transport protein; This family contains sodium, potassium and calcium ion channels. This family is 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some sub-families (e.g. Na channels) the domain is repeated four times, whereas in others (e.g. K channels) the protein forms as a tetramer in the membrane.


Pssm-ID: 459842 [Multi-domain]  Cd Length: 238  Bit Score: 38.02  E-value: 1.04e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 12750754     1 NSMICLFQITTSAGWDGLLAPILNSGPpdcdpdkdhpgssvkgdcgnPSVGIFFFVSYIIISFLVVVNMY 70
Cdd:pfam00520 173 NAFLWLFQTMTTEGWGDIMYDTIDGKG--------------------EFWAYIYFVSFIILGGFLLLNLF 222
ChtBD1_GH18_2 cd10909
Hevein or type 1 chitin binding domain (ChtBD1) subfamily; in some members co-occurs with ...
 12-47 6.34e-03

Hevein or type 1 chitin binding domain (ChtBD1) subfamily; in some members co-occurs with family 18 glycosyl hydrolases; This subfamily includes a Toxoplasma gondii ME49 protein annotated as a putative mannosyl-oligosaccharide glucosidase. ChtBD1 is a lectin domain found in proteins from plants and fungi that bind N-acetylglucosamine, plant endochitinases, wound-induced proteins such as hevein, a major IgE-binding allergen in natural rubber latex, and the alpha subunit of Kluyveromyces lactis killer toxin. This domain is involved in the recognition and/or binding of chitin subunits; it typically occurs N-terminal to glycosyl hydrolase domains in chitinases, together with other carbohydrate-binding domains, or by itself in tandem-repeat arrangements.


Pssm-ID: 211315  Cd Length: 51  Bit Score: 31.19  E-value: 6.34e-03
                       10        20        30
               ....*....|....*....|....*....|....*.
gi 12750754 12 SAGWDGLLAPILNSGPPDCDPDKDHPGSSVKGDCGN 47
Cdd:cd10909  3 SDGRCGKGFPLLDGYPPVCDPDSEHPCCSNGGYCGS 38
 
Name Accession Description Interval E-value
Ion_trans pfam00520
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
 1-70 1.04e-04

Ion transport protein; This family contains sodium, potassium and calcium ion channels. This family is 6 transmembrane helices in which the last two helices flank a loop which determines ion selectivity. In some sub-families (e.g. Na channels) the domain is repeated four times, whereas in others (e.g. K channels) the protein forms as a tetramer in the membrane.


Pssm-ID: 459842 [Multi-domain]  Cd Length: 238  Bit Score: 38.02  E-value: 1.04e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 12750754     1 NSMICLFQITTSAGWDGLLAPILNSGPpdcdpdkdhpgssvkgdcgnPSVGIFFFVSYIIISFLVVVNMY 70
Cdd:pfam00520 173 NAFLWLFQTMTTEGWGDIMYDTIDGKG--------------------EFWAYIYFVSFIILGGFLLLNLF 222
ChtBD1_GH18_2 cd10909
Hevein or type 1 chitin binding domain (ChtBD1) subfamily; in some members co-occurs with ...
 12-47 6.34e-03

Hevein or type 1 chitin binding domain (ChtBD1) subfamily; in some members co-occurs with family 18 glycosyl hydrolases; This subfamily includes a Toxoplasma gondii ME49 protein annotated as a putative mannosyl-oligosaccharide glucosidase. ChtBD1 is a lectin domain found in proteins from plants and fungi that bind N-acetylglucosamine, plant endochitinases, wound-induced proteins such as hevein, a major IgE-binding allergen in natural rubber latex, and the alpha subunit of Kluyveromyces lactis killer toxin. This domain is involved in the recognition and/or binding of chitin subunits; it typically occurs N-terminal to glycosyl hydrolase domains in chitinases, together with other carbohydrate-binding domains, or by itself in tandem-repeat arrangements.


Pssm-ID: 211315  Cd Length: 51  Bit Score: 31.19  E-value: 6.34e-03
                       10        20        30
               ....*....|....*....|....*....|....*.
gi 12750754 12 SAGWDGLLAPILNSGPPDCDPDKDHPGSSVKGDCGN 47
Cdd:cd10909  3 SDGRCGKGFPLLDGYPPVCDPDSEHPCCSNGGYCGS 38
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH