NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1861100892|ref|NP_001371571|]
View 

V-set and transmembrane domain-containing protein 2B isoform 4 [Homo sapiens]

Protein Classification

immunoglobulin domain-containing family protein( domain architecture ID 34076)

immunoglobulin (Ig) domain-containing family protein is a member of a large superfamily containing cell surface antigen receptors, co-receptors and co-stimulatory molecules of the immune system, molecules involved in antigen presentation to lymphocytes, cell adhesion molecules, certain cytokine receptors and intracellular muscle proteins; immunoglobulin domains are typically divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
Ig super family cl11960
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 16-78 7.24e-06

Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found in the Ig superfamily. The Ig superfamily is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. Members of this group are components of immunoglobulin, neuroglia, cell surface glycoproteins, including T-cell receptors, CD2, CD4, CD8, and membrane glycoproteins, including butyrophilin and chondroitin sulfate proteoglycan core protein. A predominant feature of most Ig domains is a disulfide bridge connecting the two beta-sheets with a tryptophan residue packed against the disulfide bond. Ig superfamily (IgSF) domains can be divided into 4 main classes based on their structures and sequences: the Variable (V), Constant 1 (C1), Constant 2 (C2), and Intermediate (I) sets. Typically, the V-set domains have A, B, E, and D strands in one sheet and A', G, F, C, C' and C" in the other. The structures in C1-set are smaller than those in the V-set; they have one beta sheet that is formed by strands A, B, E, and D and the other by strands G, F, C, and C'. Moreover, a C1-set Ig domain contains a short C' strand (three residues) and lacks A' and C" strand. Unlike other Ig domain sets, C2-set structures do not have a D strand. Like the V-set Ig domains, members of the I-set have a discontinuous A strand, but lack a C" strand.


The actual alignment was detected with superfamily member cd20940:

Pssm-ID: 472250  Cd Length: 116  Bit Score: 43.80  E-value: 7.24e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1861100892  16 EIQWWYLKEPPRELLHELalsVPGARSKTVRVQGNDISH---RLRLSAVRLQDEGVYECRVSDYSD 78
Cdd:cd20940    31 EIQWWFEGQEPNEICSQL---WDGARLDRVHINATYHQHatsTISIDNLTEEDTGTYECRASNDPD 93
 
Name Accession Description Interval E-value
Ig0_BSG1 cd20940
Immunoglobulin-like Ig0 domain of basigin-1 (BSG1) and similar proteins; The members here are ...
 16-78 7.24e-06

Immunoglobulin-like Ig0 domain of basigin-1 (BSG1) and similar proteins; The members here are composed of the immunoglobulin (Ig) domain of the collagenase stimulatory factor, basigin-1 (BSG1; also known as Cluster of Differentiation 147 (CD147) and Extracellular Matrix Metalloproteinase Inducer (EMMPRIN)) and similar proteins. CD147 is a transmembrane glycoprotein that belongs to the immunoglobulin superfamily. It is expressed in nearly all cells including platelets and fibroblasts and is involved in inflammatory diseases, and cancer progression. CD147 is highly expressed in several cancers and used as a prognostic marker. The two primary isoforms of CD147 that are related to cancer progression have been identified: CD147 Ig1-Ig2 (also called Basigin-2) that is ubiquitously expressed in most tissues and CD147 Ig0-Ig1-Ig2 (also called Basigin-1) that is retinal specific and implicated in retinoblastoma. Studies showed that CD147 Ig0 domain is a potent stimulator of interleukin-6 and suggest that the CD147 Ig0 dimer is the functional unit required for activity.


Pssm-ID: 409534  Cd Length: 116  Bit Score: 43.80  E-value: 7.24e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1861100892  16 EIQWWYLKEPPRELLHELalsVPGARSKTVRVQGNDISH---RLRLSAVRLQDEGVYECRVSDYSD 78
Cdd:cd20940    31 EIQWWFEGQEPNEICSQL---WDGARLDRVHINATYHQHatsTISIDNLTEEDTGTYECRASNDPD 93
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 1-83 1.20e-05

Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.


Pssm-ID: 214653 [Multi-domain]  Cd Length: 85  Bit Score: 42.49  E-value: 1.20e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861100892    1 MPCafRASGATSYSLeiqWWYlKEPPRELLHelalsvpgarSKTVRVQGNDISHRLRLSAVRLQDEGVYECRVSDYSDDD 80
Cdd:smart00410  14 LSC--EASGSPPPEV---TWY-KQGGKLLAE----------SGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNSSGSA 77


                   ...
gi 1861100892   81 TQE 83
Cdd:smart00410  78 SSG 80
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 1-93 4.26e-05

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: 41.67  E-value: 4.26e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861100892   1 MPCAFRasgaTSYSLEIQW--WYLKEPPRELLHELAL----SVPGARSKTVRVQGNDISHR--LRLSAVRLQDEGVYECR 72
Cdd:pfam07686  16 LPCTYS----SSMSEASTSvyWYRQPPGKGPTFLIAYysngSEEGVKKGRFSGRGDPSNGDgsLTIQNLTLSDSGTYTCA 91

                          90       100
                  ....*....|....*....|.
gi 1861100892  73 VsDYSDDDTQEHKAQamLRVL 93
Cdd:pfam07686  92 V-IPSGEGVFGKGTR--LTVL 109
 
Name Accession Description Interval E-value
Ig0_BSG1 cd20940
Immunoglobulin-like Ig0 domain of basigin-1 (BSG1) and similar proteins; The members here are ...
 16-78 7.24e-06

Immunoglobulin-like Ig0 domain of basigin-1 (BSG1) and similar proteins; The members here are composed of the immunoglobulin (Ig) domain of the collagenase stimulatory factor, basigin-1 (BSG1; also known as Cluster of Differentiation 147 (CD147) and Extracellular Matrix Metalloproteinase Inducer (EMMPRIN)) and similar proteins. CD147 is a transmembrane glycoprotein that belongs to the immunoglobulin superfamily. It is expressed in nearly all cells including platelets and fibroblasts and is involved in inflammatory diseases, and cancer progression. CD147 is highly expressed in several cancers and used as a prognostic marker. The two primary isoforms of CD147 that are related to cancer progression have been identified: CD147 Ig1-Ig2 (also called Basigin-2) that is ubiquitously expressed in most tissues and CD147 Ig0-Ig1-Ig2 (also called Basigin-1) that is retinal specific and implicated in retinoblastoma. Studies showed that CD147 Ig0 domain is a potent stimulator of interleukin-6 and suggest that the CD147 Ig0 dimer is the functional unit required for activity.


Pssm-ID: 409534  Cd Length: 116  Bit Score: 43.80  E-value: 7.24e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1861100892  16 EIQWWYLKEPPRELLHELalsVPGARSKTVRVQGNDISH---RLRLSAVRLQDEGVYECRVSDYSD 78
Cdd:cd20940    31 EIQWWFEGQEPNEICSQL---WDGARLDRVHINATYHQHatsTISIDNLTEEDTGTYECRASNDPD 93
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 1-83 1.20e-05

Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.


Pssm-ID: 214653 [Multi-domain]  Cd Length: 85  Bit Score: 42.49  E-value: 1.20e-05
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861100892    1 MPCafRASGATSYSLeiqWWYlKEPPRELLHelalsvpgarSKTVRVQGNDISHRLRLSAVRLQDEGVYECRVSDYSDDD 80
Cdd:smart00410  14 LSC--EASGSPPPEV---TWY-KQGGKLLAE----------SGRFSVSRSGSTSTLTISNVTPEDSGTYTCAATNSSGSA 77


                   ...
gi 1861100892   81 TQE 83
Cdd:smart00410  78 SSG 80
V-set pfam07686
Immunoglobulin V-set domain; This domain is found in antibodies as well as neural protein P0 ...
 1-93 4.26e-05

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: 41.67  E-value: 4.26e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1861100892   1 MPCAFRasgaTSYSLEIQW--WYLKEPPRELLHELAL----SVPGARSKTVRVQGNDISHR--LRLSAVRLQDEGVYECR 72
Cdd:pfam07686  16 LPCTYS----SSMSEASTSvyWYRQPPGKGPTFLIAYysngSEEGVKKGRFSGRGDPSNGDgsLTIQNLTLSDSGTYTCA 91

                          90       100
                  ....*....|....*....|.
gi 1861100892  73 VsDYSDDDTQEHKAQamLRVL 93
Cdd:pfam07686  92 V-IPSGEGVFGKGTR--LTVL 109
 
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