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Conserved domains on  [gi|16758320|ref|NP_446004|]
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tumor necrosis factor ligand superfamily member 4 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
TNF super family cl00147
Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT ...
 75-187 5.77e-23

Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal domain, a short transmembrane segment, an extracellular stalk, and a globular TNF-like extracellular domain of about 150 residues. They initiate apoptosis by binding to related receptors, some of which have intracellular death domains. They generally form homo- or hetero- trimeric complexes.TNF cytokines bind one elongated receptor molecule along each of three clefts formed by neighboring monomers of the trimer with ligand trimerization a requiste for receptor binding.


The actual alignment was detected with superfamily member smart00207:

Pssm-ID: 444713  Cd Length: 125  Bit Score: 88.94  E-value: 5.77e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16758320     75 LFIGTSKNEY--ETMEVQNNSVIINCDGLYLIHLKGSFF--------QEVKINLHFRKDRSPIFVPMLNNGQRVvfTVVT 144
Cdd:smart00207   2 SWESDRGLASllSGMELQNGELVVPRDGLYYIYSQVYFRgqgcngksVELSLSLHLRKPSYPLPLLLLEAARSS--CWSA 79

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*
gi 16758320    145 SLAFKDEVYLTVNASDTLCEHLQINDGELIIVQLTP--NGYCAPE 187
Cdd:smart00207  80 SSAWKDSVYLGGLFPLTAGDRLSVNVTEPSLVDLAPgaTFFGAFL 124
 
Name Accession Description Interval E-value
TNF smart00207
Tumour necrosis factor family; Family of cytokines that form homotrimeric or heterotrimeric ...
 75-187 5.77e-23

Tumour necrosis factor family; Family of cytokines that form homotrimeric or heterotrimeric complexes. TNF mediates mature T-cell receptor-induced apoptosis through the p75 TNF receptor.


Pssm-ID: 214557  Cd Length: 125  Bit Score: 88.94  E-value: 5.77e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16758320     75 LFIGTSKNEY--ETMEVQNNSVIINCDGLYLIHLKGSFF--------QEVKINLHFRKDRSPIFVPMLNNGQRVvfTVVT 144
Cdd:smart00207   2 SWESDRGLASllSGMELQNGELVVPRDGLYYIYSQVYFRgqgcngksVELSLSLHLRKPSYPLPLLLLEAARSS--CWSA 79

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*
gi 16758320    145 SLAFKDEVYLTVNASDTLCEHLQINDGELIIVQLTP--NGYCAPE 187
Cdd:smart00207  80 SSAWKDSVYLGGLFPLTAGDRLSVNVTEPSLVDLAPgaTFFGAFL 124
TNF cd00184
Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT ...
 60-186 1.97e-18

Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal domain, a short transmembrane segment, an extracellular stalk, and a globular TNF-like extracellular domain of about 150 residues. They initiate apoptosis by binding to related receptors, some of which have intracellular death domains. They generally form homo- or hetero- trimeric complexes.TNF cytokines bind one elongated receptor molecule along each of three clefts formed by neighboring monomers of the trimer with ligand trimerization a requiste for receptor binding.


Pssm-ID: 238108  Cd Length: 137  Bit Score: 77.39  E-value: 1.97e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16758320  60 IQRLRAPVTGCEGGRLFIGTSKNEY--ETMEVQNNSVIINCDGLYLIHLKGSFFQ------EVKINLHFRKDRSPIFVPM 131
Cdd:cd00184   3 AHLIGTNSSSGGTGLSWESDDGRAFlsGGLELQNGELVVPQDGLYYIYSQVYFRGqccstlSVSHVLQLRTDSYPEPILL 82

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 16758320 132 LNNGQRVVFTVvtSLAFKDEVYLTVNASDTLCEHLQINDGELIIVQLTPN--GYCAP 186
Cdd:cd00184  83 LKGIRSVCSSV--SEGWYNSVYLGGLFQLRAGDRLSVNVSAPALLDLSQGttFFGAF 137
 
Name Accession Description Interval E-value
TNF smart00207
Tumour necrosis factor family; Family of cytokines that form homotrimeric or heterotrimeric ...
 75-187 5.77e-23

Tumour necrosis factor family; Family of cytokines that form homotrimeric or heterotrimeric complexes. TNF mediates mature T-cell receptor-induced apoptosis through the p75 TNF receptor.


Pssm-ID: 214557  Cd Length: 125  Bit Score: 88.94  E-value: 5.77e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16758320     75 LFIGTSKNEY--ETMEVQNNSVIINCDGLYLIHLKGSFF--------QEVKINLHFRKDRSPIFVPMLNNGQRVvfTVVT 144
Cdd:smart00207   2 SWESDRGLASllSGMELQNGELVVPRDGLYYIYSQVYFRgqgcngksVELSLSLHLRKPSYPLPLLLLEAARSS--CWSA 79

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|....*
gi 16758320    145 SLAFKDEVYLTVNASDTLCEHLQINDGELIIVQLTP--NGYCAPE 187
Cdd:smart00207  80 SSAWKDSVYLGGLFPLTAGDRLSVNVTEPSLVDLAPgaTFFGAFL 124
TNF cd00184
Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT ...
 60-186 1.97e-18

Tumor Necrosis Factor; TNF superfamily members include the cytokines: TNF (TNF-alpha), LT (lymphotoxin-alpha, TNF-beta), CD40 ligand, Apo2L (TRAIL), Fas ligand, and osteoprotegerin (OPG) ligand. These proteins generally have an intracellular N-terminal domain, a short transmembrane segment, an extracellular stalk, and a globular TNF-like extracellular domain of about 150 residues. They initiate apoptosis by binding to related receptors, some of which have intracellular death domains. They generally form homo- or hetero- trimeric complexes.TNF cytokines bind one elongated receptor molecule along each of three clefts formed by neighboring monomers of the trimer with ligand trimerization a requiste for receptor binding.


Pssm-ID: 238108  Cd Length: 137  Bit Score: 77.39  E-value: 1.97e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16758320  60 IQRLRAPVTGCEGGRLFIGTSKNEY--ETMEVQNNSVIINCDGLYLIHLKGSFFQ------EVKINLHFRKDRSPIFVPM 131
Cdd:cd00184   3 AHLIGTNSSSGGTGLSWESDDGRAFlsGGLELQNGELVVPQDGLYYIYSQVYFRGqccstlSVSHVLQLRTDSYPEPILL 82

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 16758320 132 LNNGQRVVFTVvtSLAFKDEVYLTVNASDTLCEHLQINDGELIIVQLTPN--GYCAP 186
Cdd:cd00184  83 LKGIRSVCSSV--SEGWYNSVYLGGLFQLRAGDRLSVNVSAPALLDLSQGttFFGAF 137
 
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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