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Conserved domains on  [gi|565094|gb|AAA52229|]
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interleukin-12p40, partial [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
IL12p40_C pfam10420
Cytokine interleukin-12p40 C-terminus; IL12p40_C is the largely beta stranded C-terminal, D3, ...
 123-214 1.78e-19

Cytokine interleukin-12p40 C-terminus; IL12p40_C is the largely beta stranded C-terminal, D3, domain of interleukin-12p40 or interleukin-12B. This interleukin is produced on stimulation by macrophage-engulfed micro-organizms and other stimuli, when it dimerizes with interleukin-12p35 to form a heterodimer which then binds to receptors on natural killer cells to activate them to destroy the micro-organizms. This domain contains two disulfide bridges, one of which serves to bind p40 to p35 and the other to hold the beta strands within the domain together. The cupped shape of the p35 binding interface matches the elbow-like bend between D2 and D3 in p40. The domain is often associated with family fn3, pfam00041.


:

Pssm-ID: 463086  Cd Length: 80  Bit Score: 80.05  E-value: 1.78e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565094     123 KTFLKREAPNYSGRFTCSWLVHRN---TDLKFnIKSSSSsPESRAVTCGaaslsaekvtlnqRDYEKYSVACQEDVTCPT 199
Cdd:pfam10420   1 KTFLKCEAKNYSGNFTCSWRWDSRrngADVKF-IKASRG-SGQQGVTCS-------------LDGGGYGLTCQDHSFCPY 65

                          90
                  ....*....|....*
gi 565094     200 AEETLPIELVVEAQQ 214
Cdd:pfam10420  66 AEESHPIEVTLEAIS 80
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 42-90 4.30e-05

Immunoglobulin domain; This family contains immunoglobulin-like domains.


:

Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 41.01  E-value: 4.30e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 565094      42 PGETVTLTC--DSPEEDDITWT---------SDQRRGVIGSGKTLTITVREFLDAGQYTC 90
Cdd:pfam13927  15 EGETVTLTCeaTGSPPPTITWYkngepissgSTRSRSLSGSNSTLTISNVTRSDAGTYTC 74
FN3 cd00063
Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein ...
 233-268 9.87e-03

Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all animal proteins contain the FN3 repeat; including extracellular and intracellular proteins, membrane spanning cytokine receptors, growth hormone receptors, tyrosine phosphatase receptors, and adhesion molecules. FN3-like domains are also found in bacterial glycosyl hydrolases.


:

Pssm-ID: 238020 [Multi-domain]  Cd Length: 93  Bit Score: 34.78  E-value: 9.87e-03
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 565094   233 PDPPKNLQVKPLKNSQVEVSWEYPDSWSTPHSYFSL 268
Cdd:cd00063   1 PSPPTNLRVTDVTSTSVTLSWTPPEDDGGPITGYVV 36
 
Name Accession Description Interval E-value
IL12p40_C pfam10420
Cytokine interleukin-12p40 C-terminus; IL12p40_C is the largely beta stranded C-terminal, D3, ...
 123-214 1.78e-19

Cytokine interleukin-12p40 C-terminus; IL12p40_C is the largely beta stranded C-terminal, D3, domain of interleukin-12p40 or interleukin-12B. This interleukin is produced on stimulation by macrophage-engulfed micro-organizms and other stimuli, when it dimerizes with interleukin-12p35 to form a heterodimer which then binds to receptors on natural killer cells to activate them to destroy the micro-organizms. This domain contains two disulfide bridges, one of which serves to bind p40 to p35 and the other to hold the beta strands within the domain together. The cupped shape of the p35 binding interface matches the elbow-like bend between D2 and D3 in p40. The domain is often associated with family fn3, pfam00041.


Pssm-ID: 463086  Cd Length: 80  Bit Score: 80.05  E-value: 1.78e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565094     123 KTFLKREAPNYSGRFTCSWLVHRN---TDLKFnIKSSSSsPESRAVTCGaaslsaekvtlnqRDYEKYSVACQEDVTCPT 199
Cdd:pfam10420   1 KTFLKCEAKNYSGNFTCSWRWDSRrngADVKF-IKASRG-SGQQGVTCS-------------LDGGGYGLTCQDHSFCPY 65

                          90
                  ....*....|....*
gi 565094     200 AEETLPIELVVEAQQ 214
Cdd:pfam10420  66 AEESHPIEVTLEAIS 80
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 42-90 4.30e-05

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 41.01  E-value: 4.30e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 565094      42 PGETVTLTC--DSPEEDDITWT---------SDQRRGVIGSGKTLTITVREFLDAGQYTC 90
Cdd:pfam13927  15 EGETVTLTCeaTGSPPPTITWYkngepissgSTRSRSLSGSNSTLTISNVTRSDAGTYTC 74
Ig1_FcgammaR_like cd05752
First immunoglobulin (Ig)-like domain of Fcgamma-receptors (FcgammaRs), and similar domains; ...
 43-98 6.48e-05

First immunoglobulin (Ig)-like domain of Fcgamma-receptors (FcgammaRs), and similar domains; The members here are composed of the first immunoglobulin (Ig)-like domain of Fcgamma-receptors (FcgammaRs). Interactions between IgG and FcgammaR are important to the initiation of cellular and humoral response. IgG binding to FcgammaR leads to a cascade of signals and ultimately to functions such as antibody-dependent-cellular-cytotoxicity (ADCC), endocytosis, phagocytosis, release of inflammatory mediators, etc. FcgammaR has two Ig-like domains. This group also contains FcepsilonRI which binds IgE with high affinity.


Pssm-ID: 409410 [Multi-domain]  Cd Length: 79  Bit Score: 40.42  E-value: 6.48e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 565094    43 GETVTLTCD---SPEEDDITWTSDqrrGVIGSGKTLTITVRE--FLDAGQYTCHRGGETLS 98
Cdd:cd05752  15 GEKVTLTCQgfySPEQNSTQWYHN---GTLISSTSSSYRIVAatVNDSGEYRCQTQGSSLS 72
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 42-91 6.23e-04

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: 37.87  E-value: 6.23e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 565094       42 PGETVTLTC--DSPEEDDITW--------TSDQRRGVIGSGKTLTITVREFL--DAGQYTCH 91
Cdd:smart00410   8 EGESVTLSCeaSGSPPPEVTWykqggkllAESGRFSVSRSGSTSTLTISNVTpeDSGTYTCA 69
FN3 cd00063
Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein ...
 233-268 9.87e-03

Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all animal proteins contain the FN3 repeat; including extracellular and intracellular proteins, membrane spanning cytokine receptors, growth hormone receptors, tyrosine phosphatase receptors, and adhesion molecules. FN3-like domains are also found in bacterial glycosyl hydrolases.


Pssm-ID: 238020 [Multi-domain]  Cd Length: 93  Bit Score: 34.78  E-value: 9.87e-03
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 565094   233 PDPPKNLQVKPLKNSQVEVSWEYPDSWSTPHSYFSL 268
Cdd:cd00063   1 PSPPTNLRVTDVTSTSVTLSWTPPEDDGGPITGYVV 36
 
Name Accession Description Interval E-value
IL12p40_C pfam10420
Cytokine interleukin-12p40 C-terminus; IL12p40_C is the largely beta stranded C-terminal, D3, ...
 123-214 1.78e-19

Cytokine interleukin-12p40 C-terminus; IL12p40_C is the largely beta stranded C-terminal, D3, domain of interleukin-12p40 or interleukin-12B. This interleukin is produced on stimulation by macrophage-engulfed micro-organizms and other stimuli, when it dimerizes with interleukin-12p35 to form a heterodimer which then binds to receptors on natural killer cells to activate them to destroy the micro-organizms. This domain contains two disulfide bridges, one of which serves to bind p40 to p35 and the other to hold the beta strands within the domain together. The cupped shape of the p35 binding interface matches the elbow-like bend between D2 and D3 in p40. The domain is often associated with family fn3, pfam00041.


Pssm-ID: 463086  Cd Length: 80  Bit Score: 80.05  E-value: 1.78e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 565094     123 KTFLKREAPNYSGRFTCSWLVHRN---TDLKFnIKSSSSsPESRAVTCGaaslsaekvtlnqRDYEKYSVACQEDVTCPT 199
Cdd:pfam10420   1 KTFLKCEAKNYSGNFTCSWRWDSRrngADVKF-IKASRG-SGQQGVTCS-------------LDGGGYGLTCQDHSFCPY 65

                          90
                  ....*....|....*
gi 565094     200 AEETLPIELVVEAQQ 214
Cdd:pfam10420  66 AEESHPIEVTLEAIS 80
Ig_3 pfam13927
Immunoglobulin domain; This family contains immunoglobulin-like domains.
 42-90 4.30e-05

Immunoglobulin domain; This family contains immunoglobulin-like domains.


Pssm-ID: 464046 [Multi-domain]  Cd Length: 78  Bit Score: 41.01  E-value: 4.30e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 565094      42 PGETVTLTC--DSPEEDDITWT---------SDQRRGVIGSGKTLTITVREFLDAGQYTC 90
Cdd:pfam13927  15 EGETVTLTCeaTGSPPPTITWYkngepissgSTRSRSLSGSNSTLTISNVTRSDAGTYTC 74
Ig1_FcgammaR_like cd05752
First immunoglobulin (Ig)-like domain of Fcgamma-receptors (FcgammaRs), and similar domains; ...
 43-98 6.48e-05

First immunoglobulin (Ig)-like domain of Fcgamma-receptors (FcgammaRs), and similar domains; The members here are composed of the first immunoglobulin (Ig)-like domain of Fcgamma-receptors (FcgammaRs). Interactions between IgG and FcgammaR are important to the initiation of cellular and humoral response. IgG binding to FcgammaR leads to a cascade of signals and ultimately to functions such as antibody-dependent-cellular-cytotoxicity (ADCC), endocytosis, phagocytosis, release of inflammatory mediators, etc. FcgammaR has two Ig-like domains. This group also contains FcepsilonRI which binds IgE with high affinity.


Pssm-ID: 409410 [Multi-domain]  Cd Length: 79  Bit Score: 40.42  E-value: 6.48e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 565094    43 GETVTLTCD---SPEEDDITWTSDqrrGVIGSGKTLTITVRE--FLDAGQYTCHRGGETLS 98
Cdd:cd05752  15 GEKVTLTCQgfySPEQNSTQWYHN---GTLISSTSSSYRIVAatVNDSGEYRCQTQGSSLS 72
IgI_1_MuSK cd20970
agrin-responsive first immunoglobulin-like domains (Ig1) of the MuSK ectodomain; a member of ...
 43-90 1.02e-04

agrin-responsive first immunoglobulin-like domains (Ig1) of the MuSK ectodomain; a member of the I-set of IgSF domains; The members here are composed of the first immunoglobulin-like domains (Ig1) of the Muscle-specific kinase (MuSK). MuSK is a receptor tyrosine kinase specifically expressed in skeletal muscle, where it plays a central role in the formation and maintenance of the neuromuscular junction (NMJ). MuSK is activated by agrin, a neuron-derived heparan sulfate proteoglycan. The activation of MUSK in myotubes regulates the formation of NMJs through the regulation of different processes including the specific expression of genes in subsynaptic nuclei, the reorganization of the actin cytoskeleton and the clustering of the acetylcholine receptors (AChR) in the postsynaptic membrane. The Ig superfamily (IgSF) is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. 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. Unlike the V-set, one of the distinctive features of I-set domains is the lack of a C" strand. The structure of the MuSK lacks this strand and thus it belongs to the I-set of the IgSF. I-set domains are found in several cell adhesion molecules (such as VCAM, ICAM, and MADCAM), and are also present in numerous other diverse protein families, including several tyrosine-protein kinase receptors, the hemolymph protein hemolin, the muscle proteins titin, telokin, and twitchin, the neuronal adhesion molecule axonin-1, and the signaling molecule semaphorin 4D that is involved in axonal guidance, immune function and angiogenesis.


Pssm-ID: 409562 [Multi-domain]  Cd Length: 92  Bit Score: 40.18  E-value: 1.02e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 565094    43 GETVTLTC---DSPEEDdITW--------TSDQRRGVIGSGKTLTITVREFLDAGQYTC 90
Cdd:cd20970  17 GENATFMCraeGSPEPE-ISWtrngnliiEFNTRYIVRENGTTLTIRNIRRSDMGIYLC 74
IgC2_D1_IL-6RA cd20939
Immunoglobulin-like domain D1 of interleukin-6 receptor alpha-chain (IL-6RA, also known as ...
 42-104 1.72e-04

Immunoglobulin-like domain D1 of interleukin-6 receptor alpha-chain (IL-6RA, also known as CD126); member of the C2-set of IgSF domains; The members here are composed of the immunoglobulin-like domain D1 of interleukin-6 receptor alpha-chain (IL-6RA, also known as CD126). The IL-6RA ectodomain, which is highly modular, consisting of three domains (D1, D2, and D3). Interleukin-6 (IL-6) is a multifunctional cytokine that regulates the immune response, hemopoiesis, the acute phase response and inflammation. It is generated in an infectious lesion and sends out a warning signal to the entire body. IL-6 binds first to its cognate alpha-chain receptor (IL-6R), and then the IL-6/IL-6R complex which in turn induces homodimerization of gp130. As a result, a high-affinity functional receptor complex of IL-6, IL-6R and gp130 is formed, and subsequently the complex triggers a downstream signal cascade. Aberrant production of IL-6 and its receptor (IL-6R) are implicated in the pathogenesis of multiple myeloma, autoimmune diseases and prostate cancer. 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. This group belongs to the C2-set of IgSF domains. Unlike other Ig domain sets, the C2-set lacks the D strand.


Pssm-ID: 409533  Cd Length: 77  Bit Score: 39.17  E-value: 1.72e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 565094    42 PGETVTLTCDSPEEDD---ITW------TSDQRRGVIGSGKTLTITVREFLDAGQYTCHRGGETLSHSHLLL 104
Cdd:cd20939   6 PGASVTLTCPGVEPEDnatIHWvlrkpaAGSHPSRWAGMGRRLLLRSVQLSDSGNYSCYRAGRPAGTVHLLV 77
IG_like smart00410
Immunoglobulin like; IG domains that cannot be classified into one of IGv1, IGc1, IGc2, IG.
 42-91 6.23e-04

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: 37.87  E-value: 6.23e-04
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 565094       42 PGETVTLTC--DSPEEDDITW--------TSDQRRGVIGSGKTLTITVREFL--DAGQYTCH 91
Cdd:smart00410   8 EGESVTLSCeaSGSPPPEVTWykqggkllAESGRFSVSRSGSTSTLTISNVTpeDSGTYTCA 69
Ig_Semaphorin_C cd04979
Immunoglobulin (Ig)-like domain at the C-terminus of semaphorins; The members here are ...
 37-97 3.69e-03

Immunoglobulin (Ig)-like domain at the C-terminus of semaphorins; The members here are composed of the immunoglobulin (Ig)-like domain in semaphorins. Semaphorins are transmembrane protein that have important roles in a variety of tissues. Functionally, semaphorins were initially characterized for their importance in the development of the nervous system and in axonal guidance. Later they have been found to be important for the formation and functioning of the cardiovascular, endocrine, gastrointestinal, hepatic, immune, musculoskeletal, renal, reproductive, and respiratory systems. Semaphorins function through binding to their receptors and transmembrane semaphorins also serves as receptors themselves. Although molecular mechanism of semaphorins is poorly understood, the Ig-like domains may be involved in ligand binding or dimerization.


Pssm-ID: 409368  Cd Length: 88  Bit Score: 35.90  E-value: 3.69e-03
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 565094    37 WRPD--APGETVTLTCD-SPEEDDITWT--------SDQRRGVIGSGKTLTITVREFLDAGQYTCHRGGETL 97
Cdd:cd04979   3 FKQIsvKEGDTVILSCSvKSNNAPVTWIhngkkvprYRSPRLVLKTERGLLIRSAQEADAGVYECHSGERVL 74
Ig cd00096
Immunoglobulin domain; The members here are composed of the immunoglobulin (Ig) domain found ...
 46-91 3.99e-03

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.


Pssm-ID: 409353 [Multi-domain]  Cd Length: 70  Bit Score: 35.38  E-value: 3.99e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 565094    46 VTLTC--DSPEEDDITWTSD---------QRRGVIGSGKTLTITVREFLDAGQYTCH 91
Cdd:cd00096   1 VTLTCsaSGNPPPTITWYKNgkplppssrDSRRSELGNGTLTISNVTLEDSGTYTCV 57
FN3 cd00063
Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein ...
 233-268 9.87e-03

Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all animal proteins contain the FN3 repeat; including extracellular and intracellular proteins, membrane spanning cytokine receptors, growth hormone receptors, tyrosine phosphatase receptors, and adhesion molecules. FN3-like domains are also found in bacterial glycosyl hydrolases.


Pssm-ID: 238020 [Multi-domain]  Cd Length: 93  Bit Score: 34.78  E-value: 9.87e-03
                        10        20        30
                ....*....|....*....|....*....|....*.
gi 565094   233 PDPPKNLQVKPLKNSQVEVSWEYPDSWSTPHSYFSL 268
Cdd:cd00063   1 PSPPTNLRVTDVTSTSVTLSWTPPEDDGGPITGYVV 36
 
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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