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Conserved domains on  [gi|402534527|ref|NP_001257974|]
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sodium channel subunit beta-1 isoform 1 precursor [Rattus norvegicus]

Protein Classification

immunoglobulin domain-containing protein( domain architecture ID 10542315)

immunoglobulin (Ig) domain-containing protein adopts a fold comprised of a sandwich of two beta sheets, similar to Homo sapiens T-cell antigen CD7 and voltage-gated sodium channel beta3 subunit Ig Domain

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 23-147 6.41e-14

Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.


:

Pssm-ID: 462230  Cd Length: 109  Bit Score: 65.56  E-value: 6.41e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 402534527   23 EVDSETEAVYGMTFKILCISckRRSETTAETFTEWTFRQKGTEEFVKILRYENevlqLEEDERFEGRVVWngsRGTKDLQ 102
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTY--SSSMSEASTSVYWYRQPPGKGPTFLIAYYSN----GSEEGVKKGRFSG---RGDPSNG 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 402534527  103 DLSIFITNVTYNHSGDYECHVyrllfFDNYEHNTSvvKKIHLEVV 147
Cdd:pfam07686  72 DGSLTIQNLTLSDSGTYTCAV-----IPSGEGVFG--KGTRLTVL 109
 
Name Accession Description Interval E-value
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 23-147 6.41e-14

Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.


Pssm-ID: 462230  Cd Length: 109  Bit Score: 65.56  E-value: 6.41e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 402534527   23 EVDSETEAVYGMTFKILCISckRRSETTAETFTEWTFRQKGTEEFVKILRYENevlqLEEDERFEGRVVWngsRGTKDLQ 102
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTY--SSSMSEASTSVYWYRQPPGKGPTFLIAYYSN----GSEEGVKKGRFSG---RGDPSNG 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 402534527  103 DLSIFITNVTYNHSGDYECHVyrllfFDNYEHNTSvvKKIHLEVV 147
Cdd:pfam07686  72 DGSLTIQNLTLSDSGTYTCAV-----IPSGEGVFG--KGTRLTVL 109
IgV_P0-like cd05715
Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here ...
 22-123 1.12e-07

Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here are composed of the immunoglobulin (Ig) domain of protein zero (P0), a myelin membrane adhesion molecule. P0 accounts for over 50% of the total protein in peripheral nervous system (PNS) myelin. P0 is a single-pass transmembrane glycoprotein with a highly basic intracellular domain and an extracellular Ig domain. The extracellular domain of P0 (P0-ED) is similar to the Ig variable domain, carrying one acceptor sequence for N-linked glycosylation. P0 plays a role in membrane adhesion in the spiral wraps of the myelin sheath. The intracellular domain is thought to mediate membrane apposition of the cytoplasmic faces and may, through electrostatic interactions, interact directly with lipid headgroups. It is thought that homophilic interactions of the P0 extracellular domain mediate membrane juxtaposition in the extracellular space of PNS myelin. This group also contains the Ig domain of sodium channel subunit beta-2 (SCN2B), and of epithelial V-like antigen 1 (EVA). EVA, also known as myelin protein zero-like 2, is an adhesion molecule, which may play a role in structural organization of the thymus and early lymphocyte development. SCN2B subunits play a role in determining sodium channel density and function in neurons,and in control of electrical excitability in the brain.


Pssm-ID: 409380  Cd Length: 117  Bit Score: 48.58  E-value: 1.12e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 402534527  22 VEVDSETEAVYGMTFKILCI--SCkrrsETTAETFT-EWTFRQKGTEEFVKILRYENEVLQLEEDERFEGRVVWNGSrgt 98
Cdd:cd05715    3 VYTPRELNVLNGSDVRLTCTftSC----YTVGDAFSvTWTYQPEGGNTTESMFHYSKGKPYILKVGRFKDRVSWAGN--- 75

                         90       100
                 ....*....|....*....|....*
gi 402534527  99 KDLQDLSIFITNVTYNHSGDYECHV 123
Cdd:cd05715   76 PSKKDASIVISNLQFSDNGTYTCDV 100
 
Name Accession Description Interval E-value
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 23-147 6.41e-14

Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.


Pssm-ID: 462230  Cd Length: 109  Bit Score: 65.56  E-value: 6.41e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 402534527   23 EVDSETEAVYGMTFKILCISckRRSETTAETFTEWTFRQKGTEEFVKILRYENevlqLEEDERFEGRVVWngsRGTKDLQ 102
Cdd:pfam07686   1 QTPREVTVALGGSVTLPCTY--SSSMSEASTSVYWYRQPPGKGPTFLIAYYSN----GSEEGVKKGRFSG---RGDPSNG 71

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 402534527  103 DLSIFITNVTYNHSGDYECHVyrllfFDNYEHNTSvvKKIHLEVV 147
Cdd:pfam07686  72 DGSLTIQNLTLSDSGTYTCAV-----IPSGEGVFG--KGTRLTVL 109
IgV_P0-like cd05715
Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here ...
 22-123 1.12e-07

Immunoglobulin (Ig)-like domain of protein zero (P0) and similar proteins; The members here are composed of the immunoglobulin (Ig) domain of protein zero (P0), a myelin membrane adhesion molecule. P0 accounts for over 50% of the total protein in peripheral nervous system (PNS) myelin. P0 is a single-pass transmembrane glycoprotein with a highly basic intracellular domain and an extracellular Ig domain. The extracellular domain of P0 (P0-ED) is similar to the Ig variable domain, carrying one acceptor sequence for N-linked glycosylation. P0 plays a role in membrane adhesion in the spiral wraps of the myelin sheath. The intracellular domain is thought to mediate membrane apposition of the cytoplasmic faces and may, through electrostatic interactions, interact directly with lipid headgroups. It is thought that homophilic interactions of the P0 extracellular domain mediate membrane juxtaposition in the extracellular space of PNS myelin. This group also contains the Ig domain of sodium channel subunit beta-2 (SCN2B), and of epithelial V-like antigen 1 (EVA). EVA, also known as myelin protein zero-like 2, is an adhesion molecule, which may play a role in structural organization of the thymus and early lymphocyte development. SCN2B subunits play a role in determining sodium channel density and function in neurons,and in control of electrical excitability in the brain.


Pssm-ID: 409380  Cd Length: 117  Bit Score: 48.58  E-value: 1.12e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 402534527  22 VEVDSETEAVYGMTFKILCI--SCkrrsETTAETFT-EWTFRQKGTEEFVKILRYENEVLQLEEDERFEGRVVWNGSrgt 98
Cdd:cd05715    3 VYTPRELNVLNGSDVRLTCTftSC----YTVGDAFSvTWTYQPEGGNTTESMFHYSKGKPYILKVGRFKDRVSWAGN--- 75

                         90       100
                 ....*....|....*....|....*
gi 402534527  99 KDLQDLSIFITNVTYNHSGDYECHV 123
Cdd:cd05715   76 PSKKDASIVISNLQFSDNGTYTCDV 100
IgV_EVA1 cd05880
Immunoglobulin (Ig)-like domain of epithelial V-like antigen (EVA) 1; The members here are ...
 27-123 5.55e-05

Immunoglobulin (Ig)-like domain of epithelial V-like antigen (EVA) 1; The members here are composed of the immunoglobulin (Ig) domain of epithelial V-like antigen 1 (EVA 1). EVA is also known as myelin protein zero-like 2. EVA is an adhesion molecule and may play a role in the structural organization of the thymus and early lymphocyte development.


Pssm-ID: 409464  Cd Length: 116  Bit Score: 41.35  E-value: 5.55e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 402534527  27 ETEAVYGMTFKILCISCKRRSETTAETFTeWTFR--QKGTEEFVkiLRYENEVLQlEEDERFEGRVVWNGSrgtKDLQDL 104
Cdd:cd05880    8 EVEAVNGTDVRLKCTFSSSAPIGDTLVIT-WNFRplDGGREESV--FYYHKRPYP-PPDGRFKGRVVWDGN---IMRRDA 80

                         90
                 ....*....|....*....
gi 402534527 105 SIFITNVTYNHSGDYECHV 123
Cdd:cd05880   81 SILIWQLQPTDNGTYTCQV 99
IgV_P0 cd05879
Immunoglobulin (Ig)-like domain of protein zero (P0); The members here are composed of the ...
 22-123 1.93e-03

Immunoglobulin (Ig)-like domain of protein zero (P0); The members here are composed of the immunoglobulin (Ig) domain of protein zero (P0), a myelin membrane adhesion molecule. P0 accounts for over 50% of the total protein in peripheral nervous system (PNS) myelin. P0 is a single-pass transmembrane glycoprotein with a highly basic intracellular domain and an Ig domain. The extracellular domain of P0 (P0-ED) is similar to the Ig variable domain, carrying one acceptor sequence for N-linked glycosylation. P0 plays a role in membrane adhesion in the spiral wraps of the myelin sheath. The intracellular domain is thought to mediate membrane apposition of the cytoplasmic faces and may, through electrostatic interactions, interact directly with lipid headgroups. It is thought that homophilic interactions of the P0 extracellular domain mediate membrane juxtaposition in the extracellular space of PNS myelin.


Pssm-ID: 409463  Cd Length: 117  Bit Score: 36.78  E-value: 1.93e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 402534527  22 VEVDSEteaVYGMTFKILCISCK-RRSETTAE--TFTeWTFRQKGTEEFVKILRYENEVLQLEEDERFEGRVVWNGSRGT 98
Cdd:cd05879    3 VYTDRE---VYGTVGSDVTLSCSfWSSEWISDdiSFT-WHYQPDGSRDAISIFHYGKGQPYIDNVGPFKERIEWVGNPSR 78

                         90       100
                 ....*....|....*....|....*
gi 402534527  99 KdlqDLSIFITNVTYNHSGDYECHV 123
Cdd:cd05879   79 K---DGSIVIHNLDYTDNGTFTCDV 100
 
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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