RecName: Full=Sodium channel protein type 2 subunit alpha; AltName: Full=HBSC II; AltName: Full=Sodium channel protein brain II subunit alpha; AltName: Full=Sodium channel protein type II subunit alpha; AltName: Full=Voltage-gated sodium channel subunit alpha Nav1.2
sodium channel protein subunit alpha is the ion conducting pore forming subunit of the channel that mediates the voltage-dependent sodium ion permeability of excitable membranes
Cytoplasmic domain of voltage-gated Na+ ion channel; This is a large cytoplasmic domain ...
558-709
1.54e-91
Cytoplasmic domain of voltage-gated Na+ ion channel; This is a large cytoplasmic domain towards the start of voltage-dependent sodium ion channel proteins in eukaryotes. It is found closely associated with pfam06512 and pfam00520.
:
Pssm-ID: 463401 Cd Length: 163 Bit Score: 293.95 E-value: 1.54e-91
Sodium ion transport-associated; Members of this family contain a region found exclusively in ...
997-1203
9.29e-84
Sodium ion transport-associated; Members of this family contain a region found exclusively in eukaryotic sodium channels or their subunits, many of which are voltage-gated. Members very often also contain between one and four copies of pfam00520 and, less often, one copy of pfam00612.
:
Pssm-ID: 461936 Cd Length: 195 Bit Score: 273.06 E-value: 9.29e-84
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
1207-1482
2.29e-63
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: 216.36 E-value: 2.29e-63
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
1531-1786
9.65e-59
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: 202.88 E-value: 9.65e-59
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
758-971
3.14e-55
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: 192.87 E-value: 3.14e-55
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
128-435
4.53e-48
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: 172.45 E-value: 4.53e-48
Inactivation gate of the voltage-gated sodium channel alpha subunits; This region is part of ...
1474-1526
1.06e-31
Inactivation gate of the voltage-gated sodium channel alpha subunits; This region is part of the intracellular linker between domains III and IV of the alpha subunits of voltage-gated sodium channels. It is responsible for fast inactivation of the channel and essential for proper physiological function.
:
Pssm-ID: 240441 Cd Length: 54 Bit Score: 118.44 E-value: 1.06e-31
Voltage-dependent L-type calcium channel, IQ-associated; GPHH is a sequence motif found in ...
1798-1845
1.37e-03
Voltage-dependent L-type calcium channel, IQ-associated; GPHH is a sequence motif found in this short domain on voltage-dependent L-type calcium channel proteins in eukaryotes. The domain is closely associated with the IQ-domain, pfam08763.
The actual alignment was detected with superfamily member pfam16905:
Pssm-ID: 465306 Cd Length: 54 Bit Score: 38.40 E-value: 1.37e-03
Cytoplasmic domain of voltage-gated Na+ ion channel; This is a large cytoplasmic domain ...
558-709
1.54e-91
Cytoplasmic domain of voltage-gated Na+ ion channel; This is a large cytoplasmic domain towards the start of voltage-dependent sodium ion channel proteins in eukaryotes. It is found closely associated with pfam06512 and pfam00520.
Pssm-ID: 463401 Cd Length: 163 Bit Score: 293.95 E-value: 1.54e-91
Sodium ion transport-associated; Members of this family contain a region found exclusively in ...
997-1203
9.29e-84
Sodium ion transport-associated; Members of this family contain a region found exclusively in eukaryotic sodium channels or their subunits, many of which are voltage-gated. Members very often also contain between one and four copies of pfam00520 and, less often, one copy of pfam00612.
Pssm-ID: 461936 Cd Length: 195 Bit Score: 273.06 E-value: 9.29e-84
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
1207-1482
2.29e-63
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: 216.36 E-value: 2.29e-63
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
1531-1786
9.65e-59
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: 202.88 E-value: 9.65e-59
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
758-971
3.14e-55
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: 192.87 E-value: 3.14e-55
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
128-435
4.53e-48
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: 172.45 E-value: 4.53e-48
Inactivation gate of the voltage-gated sodium channel alpha subunits; This region is part of ...
1474-1526
1.06e-31
Inactivation gate of the voltage-gated sodium channel alpha subunits; This region is part of the intracellular linker between domains III and IV of the alpha subunits of voltage-gated sodium channels. It is responsible for fast inactivation of the channel and essential for proper physiological function.
Pssm-ID: 240441 Cd Length: 54 Bit Score: 118.44 E-value: 1.06e-31
Voltage-dependent L-type calcium channel, IQ-associated; GPHH is a sequence motif found in ...
1798-1845
1.37e-03
Voltage-dependent L-type calcium channel, IQ-associated; GPHH is a sequence motif found in this short domain on voltage-dependent L-type calcium channel proteins in eukaryotes. The domain is closely associated with the IQ-domain, pfam08763.
Pssm-ID: 465306 Cd Length: 54 Bit Score: 38.40 E-value: 1.37e-03
Hevein or type 1 chitin binding domain (ChtBD1) subfamily; in some members co-occurs with ...
1713-1748
8.63e-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: 36.20 E-value: 8.63e-03
Cytoplasmic domain of voltage-gated Na+ ion channel; This is a large cytoplasmic domain ...
558-709
1.54e-91
Cytoplasmic domain of voltage-gated Na+ ion channel; This is a large cytoplasmic domain towards the start of voltage-dependent sodium ion channel proteins in eukaryotes. It is found closely associated with pfam06512 and pfam00520.
Pssm-ID: 463401 Cd Length: 163 Bit Score: 293.95 E-value: 1.54e-91
Sodium ion transport-associated; Members of this family contain a region found exclusively in ...
997-1203
9.29e-84
Sodium ion transport-associated; Members of this family contain a region found exclusively in eukaryotic sodium channels or their subunits, many of which are voltage-gated. Members very often also contain between one and four copies of pfam00520 and, less often, one copy of pfam00612.
Pssm-ID: 461936 Cd Length: 195 Bit Score: 273.06 E-value: 9.29e-84
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
1207-1482
2.29e-63
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: 216.36 E-value: 2.29e-63
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
1531-1786
9.65e-59
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: 202.88 E-value: 9.65e-59
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
758-971
3.14e-55
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: 192.87 E-value: 3.14e-55
Ion transport protein; This family contains sodium, potassium and calcium ion channels. This ...
128-435
4.53e-48
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: 172.45 E-value: 4.53e-48
Inactivation gate of the voltage-gated sodium channel alpha subunits; This region is part of ...
1474-1526
1.06e-31
Inactivation gate of the voltage-gated sodium channel alpha subunits; This region is part of the intracellular linker between domains III and IV of the alpha subunits of voltage-gated sodium channels. It is responsible for fast inactivation of the channel and essential for proper physiological function.
Pssm-ID: 240441 Cd Length: 54 Bit Score: 118.44 E-value: 1.06e-31
Polycystin cation channel; This family contains the cation channel region from group II of ...
1562-1780
3.04e-05
Polycystin cation channel; This family contains the cation channel region from group II of Transient receptor potential (TRP) channels, the TRPP subfamily, including PKD1, PKD2, PKD2L and mucolipin proteins.
Pssm-ID: 462341 [Multi-domain] Cd Length: 225 Bit Score: 47.27 E-value: 3.04e-05
Voltage-dependent L-type calcium channel, IQ-associated; GPHH is a sequence motif found in ...
1798-1845
1.37e-03
Voltage-dependent L-type calcium channel, IQ-associated; GPHH is a sequence motif found in this short domain on voltage-dependent L-type calcium channel proteins in eukaryotes. The domain is closely associated with the IQ-domain, pfam08763.
Pssm-ID: 465306 Cd Length: 54 Bit Score: 38.40 E-value: 1.37e-03
Hevein or type 1 chitin binding domain (ChtBD1) subfamily; in some members co-occurs with ...
1713-1748
8.63e-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: 36.20 E-value: 8.63e-03
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.
of the residues that compose this conserved feature have been mapped to the query sequence.
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The table lists conserved domains identified on the query sequence. Click on the plus sign (+) on the left to display full descriptions, alignments, and scores.
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(labeled illustration) Standard Display shows only the best scoring domain model from each source, in each hit category listed below for each region on the query sequence.
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