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Protein

Tumor necrosis factor receptor superfamily member 5

Gene

CD40

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Receptor for TNFSF5/CD40LG. Transduces TRAF6- and MAP3K8-mediated signals that activate ERK in macrophages and B cells, leading to induction of immunoglobulin secretion.

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

  • antigen binding Source: Ensembl
  • enzyme binding Source: UniProtKB
  • protein domain specific binding Source: Ensembl
  • signaling receptor activity Source: ProtInc
  • ubiquitin protein ligase binding Source: UniProtKB

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionReceptor
Biological processImmunity

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-HSA-198933 Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
R-HSA-5668541 TNFR2 non-canonical NF-kB pathway
R-HSA-5676594 TNF receptor superfamily (TNFSF) members mediating non-canonical NF-kB pathway

SIGNOR Signaling Network Open Resource

More...
SIGNORi
P25942

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Tumor necrosis factor receptor superfamily member 5
Alternative name(s):
B-cell surface antigen CD40
Bp50
CD40L receptor
CDw40
CD_antigen: CD40
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:CD40
Synonyms:TNFRSF5
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiHomo sapiens (Human)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri9606 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000005640 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 20

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
HostDB:ENSG00000101017.13

Human Gene Nomenclature Database

More...
HGNCi
HGNC:11919 CD40

Online Mendelian Inheritance in Man (OMIM)

More...
MIMi
109535 gene

neXtProt; the human protein knowledge platform

More...
neXtProti
NX_P25942

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the subcellular compartment where each non-membrane region of a membrane-spanning protein is found.<p><a href='/help/topo_dom' target='_top'>More...</a></p>Topological domaini21 – 193ExtracellularSequence analysisAdd BLAST173
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei194 – 215HelicalSequence analysisAdd BLAST22
Topological domaini216 – 277CytoplasmicSequence analysisAdd BLAST62

Keywords - Cellular componenti

Cell membrane, Membrane, Secreted

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the ‘Pathology and Biotech’ section provides information on the disease(s) associated with genetic variations in a given protein. The information is extracted from the scientific literature and diseases that are also described in the <a href="http://www.ncbi.nlm.nih.gov/sites/entrez?db=omim">OMIM</a> database are represented with a <a href="http://www.uniprot.org/diseases">controlled vocabulary</a> in the following way:<p><a href='/help/involvement_in_disease' target='_top'>More...</a></p>Involvement in diseasei

Immunodeficiency with hyper-IgM 3 (HIGM3)2 Publications
The disease is caused by mutations affecting the gene represented in this entry.
Disease descriptionA rare immunodeficiency syndrome characterized by normal or elevated serum IgM levels with absence of IgG, IgA, and IgE. It results in a profound susceptibility to bacterial infections.
See also OMIM:606843
Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section describes natural variant(s) of the protein sequence.<p><a href='/help/variant' target='_top'>More...</a></p>Natural variantiVAR_07756937C → G in HIGM3. 1 Publication1
Natural variantiVAR_01362883C → R in HIGM3. 1 PublicationCorresponds to variant dbSNP:rs28931586EnsemblClinVar.1

Keywords - Diseasei

Disease mutation

Organism-specific databases

DisGeNET

More...
DisGeNETi
958

MalaCards human disease database

More...
MalaCardsi
CD40
MIMi606843 phenotype

Open Targets

More...
OpenTargetsi
ENSG00000101017

Orphanet; a database dedicated to information on rare diseases and orphan drugs

More...
Orphaneti
101090 Hyper-IgM syndrome type 3

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...
PharmGKBi
PA36612

Chemistry databases

ChEMBL database of bioactive drug-like small molecules

More...
ChEMBLi
CHEMBL1250358

IUPHAR/BPS Guide to PHARMACOLOGY

More...
GuidetoPHARMACOLOGYi
1874

Polymorphism and mutation databases

BioMuta curated single-nucleotide variation and disease association database

More...
BioMutai
CD40

Domain mapping of disease mutations (DMDM)

More...
DMDMi
116000

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section denotes the presence of an N-terminal signal peptide.<p><a href='/help/signal' target='_top'>More...</a></p>Signal peptidei1 – 203 PublicationsAdd BLAST20
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_000003455921 – 277Tumor necrosis factor receptor superfamily member 5Add BLAST257

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the PTM / Processing":/help/ptm_processing_section section describes the positions of cysteine residues participating in disulfide bonds.<p><a href='/help/disulfid' target='_top'>More...</a></p>Disulfide bondi26 ↔ 37
Disulfide bondi38 ↔ 51
Disulfide bondi41 ↔ 59
Disulfide bondi62 ↔ 77
Disulfide bondi83 ↔ 103
Disulfide bondi105 ↔ 119
Disulfide bondi111 ↔ 116
Disulfide bondi125 ↔ 143
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">PTM / Processing</a> section specifies the position and type of each covalently attached glycan group (mono-, di-, or polysaccharide).<p><a href='/help/carbohyd' target='_top'>More...</a></p>Glycosylationi153N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi180N-linked (GlcNAc...) asparagineSequence analysis1

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
P25942

MaxQB - The MaxQuant DataBase

More...
MaxQBi
P25942

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P25942

PeptideAtlas

More...
PeptideAtlasi
P25942

PRoteomics IDEntifications database

More...
PRIDEi
P25942

ProteomicsDB human proteome resource

More...
ProteomicsDBi
54302
54303 [P25942-2]

PTM databases

GlyConnect protein glycosylation platform

More...
GlyConnecti
1866

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
P25942

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...
PhosphoSitePlusi
P25942

Miscellaneous databases

CutDB - Proteolytic event database

More...
PMAP-CutDBi
P25942

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the ‘Expression’ section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified ‘at protein level’. <br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

B-cells and in primary carcinomas.

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSG00000101017 Expressed in 203 organ(s), highest expression level in left coronary artery

CleanEx database of gene expression profiles

More...
CleanExi
HS_CD40

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
P25942 baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

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Genevisiblei
P25942 HS

Organism-specific databases

Human Protein Atlas

More...
HPAi
CAB002495
CAB072868
HPA031567
HPA031568

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Monomer and homodimer. The variant form found in the bladder carcinoma cell line Hu549 does not form homodimers. Interacts with TRAF1, TRAF2, TRAF3, TRAF5 and TRAF6. Interacts with TRAF6 and MAP3K8; the interaction is required for ERK activation.8 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction_section%27">Interaction</a> section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="http://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated on a monthly basis. Each binary interaction is displayed on a separate line.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
107396, 48 interactors

Database of interacting proteins

More...
DIPi
DIP-3014N

The Eukaryotic Linear Motif resource for Functional Sites in Proteins

More...
ELMi
P25942

Protein interaction database and analysis system

More...
IntActi
P25942, 24 interactors

STRING: functional protein association networks

More...
STRINGi
9606.ENSP00000361359

Chemistry databases

BindingDB database of measured binding affinities

More...
BindingDBi
P25942

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

1277
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase

More...
ProteinModelPortali
P25942

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P25942

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
P25942

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section indicates the positions and types of repeated sequence motifs or repeated domains within the protein.<p><a href='/help/repeat' target='_top'>More...</a></p>Repeati25 – 60TNFR-Cys 1Add BLAST36
Repeati61 – 103TNFR-Cys 2Add BLAST43
Repeati104 – 144TNFR-Cys 3Add BLAST41
Repeati145 – 187TNFR-Cys 4Add BLAST43

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG410IY0H Eukaryota
ENOG4112DB5 LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00940000161464

The HOVERGEN Database of Homologous Vertebrate Genes

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HOVERGENi
HBG005117

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P25942

KEGG Orthology (KO)

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KOi
K03160

Identification of Orthologs from Complete Genome Data

More...
OMAi
PGLGVKQ

Database of Orthologous Groups

More...
OrthoDBi
EOG091G03XW

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P25942

TreeFam database of animal gene trees

More...
TreeFami
TF331157

Family and domain databases

Conserved Domains Database

More...
CDDi
cd13407 TNFRSF5, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR001368 TNFR/NGFR_Cys_rich_reg
IPR020435 TNFR_5
IPR034021 TNFRSF5_N

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00020 TNFR_c6, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR01922 TNFACTORR5

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00208 TNFR, 4 hits

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00652 TNFR_NGFR_1, 1 hit
PS50050 TNFR_NGFR_2, 4 hits

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (2+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 2 <p>This subsection of the ‘Sequence’ section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket
Note: Additional isoforms seem to exist.

This entry has 2 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All

Isoform I (identifier: P25942-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MVRLPLQCVL WGCLLTAVHP EPPTACREKQ YLINSQCCSL CQPGQKLVSD
60 70 80 90 100
CTEFTETECL PCGESEFLDT WNRETHCHQH KYCDPNLGLR VQQKGTSETD
110 120 130 140 150
TICTCEEGWH CTSEACESCV LHRSCSPGFG VKQIATGVSD TICEPCPVGF
160 170 180 190 200
FSNVSSAFEK CHPWTSCETK DLVVQQAGTN KTDVVCGPQD RLRALVVIPI
210 220 230 240 250
IFGILFAILL VLVFIKKVAK KPTNKAPHPK QEPQEINFPD DLPGSNTAAP
260 270
VQETLHGCQP VTQEDGKESR ISVQERQ
Length:277
Mass (Da):30,619
Last modified:May 1, 1992 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iBC8776EC2C4A5680
GO
Isoform II (identifier: P25942-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     166-203: SCETKDLVVQ...ALVVIPIIFG → RSPGSAESPG...YQKGGQEANQ
     204-277: Missing.

Show »
Length:203
Mass (Da):22,259
Checksum:i07399D5F79D59A4F
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
H0YE23H0YE23_HUMAN
Tumor necrosis factor receptor supe...
CD40
159Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
A0A087X1D0A0A087X1D0_HUMAN
CD40 antigen (TNF receptor superfam...
CD40 hCG_40016
151Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti112T → A in BAD96616 (Ref. 4) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_03930126C → Q in bladder carcinoma cell line Hu549; requires 2 nucleotide substitutions. 1 Publication1
Natural variantiVAR_03930235S → G in bladder carcinoma cell line Hu549. 1 PublicationCorresponds to variant dbSNP:rs750234130Ensembl.1
Natural variantiVAR_07756937C → G in HIGM3. 1 Publication1
Natural variantiVAR_03930339S → T in bladder carcinoma cell line Hu549. 1 Publication1
Natural variantiVAR_01362883C → R in HIGM3. 1 PublicationCorresponds to variant dbSNP:rs28931586EnsemblClinVar.1
Natural variantiVAR_018751124S → L1 PublicationCorresponds to variant dbSNP:rs11569321EnsemblClinVar.1
Natural variantiVAR_018752227P → A1 PublicationCorresponds to variant dbSNP:rs11086998EnsemblClinVar.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting. The information stored in this subsection is used to automatically construct alternative protein sequence(s) for display.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_006472166 – 203SCETK…PIIFG → RSPGSAESPGGDPHHLRDPV CHPLGAGLYQKGGQEANQ in isoform II. 1 PublicationAdd BLAST38
Alternative sequenceiVSP_006473204 – 277Missing in isoform II. 1 PublicationAdd BLAST74

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
X60592 mRNA Translation: CAA43045.1
AJ300189 mRNA Translation: CAC29424.1
BT019901 mRNA Translation: AAV38704.1
AK222896 mRNA Translation: BAD96616.1
AY504960 Genomic DNA Translation: AAR84238.1
EF064754 Genomic DNA Translation: ABK41937.1
AL035662 Genomic DNA No translation available.
CH471077 Genomic DNA Translation: EAW75758.1
CH471077 Genomic DNA Translation: EAW75760.1
CH471077 Genomic DNA Translation: EAW75762.1
BC012419 mRNA Translation: AAH12419.1
AY225405 mRNA Translation: AAO43990.1

The Consensus CDS (CCDS) project

More...
CCDSi
CCDS13393.1 [P25942-1]
CCDS13394.1 [P25942-2]

Protein sequence database of the Protein Information Resource

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PIRi
B60771
S04460 A60771

NCBI Reference Sequences

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RefSeqi
NP_001241.1, NM_001250.5 [P25942-1]
NP_001289682.1, NM_001302753.1
NP_001309351.1, NM_001322422.1
NP_690593.1, NM_152854.3 [P25942-2]

UniGene gene-oriented nucleotide sequence clusters

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UniGenei
Hs.472860

Genome annotation databases

Ensembl eukaryotic genome annotation project

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Ensembli
ENST00000372276; ENSP00000361350; ENSG00000101017 [P25942-2]
ENST00000372285; ENSP00000361359; ENSG00000101017 [P25942-1]

Database of genes from NCBI RefSeq genomes

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GeneIDi
958

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
hsa:958

UCSC genome browser

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UCSCi
uc002xrg.2 human [P25942-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

<p>This subsection of the <a href="http://www.uniprot.org/manual/cross_references_section">Cross-references</a> section provides links to various web resources that are relevant for a specific protein.<p><a href='/help/web_resource' target='_top'>More...</a></p>Web resourcesi

CD40base

CD40 mutation db

NIEHS-SNPs
Wikipedia

CD40 entry

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X60592 mRNA Translation: CAA43045.1
AJ300189 mRNA Translation: CAC29424.1
BT019901 mRNA Translation: AAV38704.1
AK222896 mRNA Translation: BAD96616.1
AY504960 Genomic DNA Translation: AAR84238.1
EF064754 Genomic DNA Translation: ABK41937.1
AL035662 Genomic DNA No translation available.
CH471077 Genomic DNA Translation: EAW75758.1
CH471077 Genomic DNA Translation: EAW75760.1
CH471077 Genomic DNA Translation: EAW75762.1
BC012419 mRNA Translation: AAH12419.1
AY225405 mRNA Translation: AAO43990.1
CCDSiCCDS13393.1 [P25942-1]
CCDS13394.1 [P25942-2]
PIRiB60771
S04460 A60771
RefSeqiNP_001241.1, NM_001250.5 [P25942-1]
NP_001289682.1, NM_001302753.1
NP_001309351.1, NM_001322422.1
NP_690593.1, NM_152854.3 [P25942-2]
UniGeneiHs.472860

3D structure databases

Select the link destinations:

Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

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PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1CDFmodel-A24-144[»]
1CZZX-ray2.70D/E250-258[»]
1D00X-ray2.00I/J/K/L/M/N/O/P250-254[»]
1FLLX-ray3.50X/Y246-266[»]
1LB6X-ray1.80B230-236[»]
3QD6X-ray3.50R/S/T/U21-190[»]
5DMIX-ray3.69A23-193[»]
5DMJX-ray2.79A/D/F23-193[»]
5IHLX-ray3.30A/D/F/H23-193[»]
6FAXX-ray2.99R21-193[»]
ProteinModelPortaliP25942
SMRiP25942
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi107396, 48 interactors
DIPiDIP-3014N
ELMiP25942
IntActiP25942, 24 interactors
STRINGi9606.ENSP00000361359

Chemistry databases

BindingDBiP25942
ChEMBLiCHEMBL1250358
GuidetoPHARMACOLOGYi1874

PTM databases

GlyConnecti1866
iPTMnetiP25942
PhosphoSitePlusiP25942

Polymorphism and mutation databases

BioMutaiCD40
DMDMi116000

Proteomic databases

EPDiP25942
MaxQBiP25942
PaxDbiP25942
PeptideAtlasiP25942
PRIDEiP25942
ProteomicsDBi54302
54303 [P25942-2]

Protocols and materials databases

The DNASU plasmid repository

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DNASUi
958
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000372276; ENSP00000361350; ENSG00000101017 [P25942-2]
ENST00000372285; ENSP00000361359; ENSG00000101017 [P25942-1]
GeneIDi958
KEGGihsa:958
UCSCiuc002xrg.2 human [P25942-1]

Organism-specific databases

Comparative Toxicogenomics Database

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CTDi
958
DisGeNETi958
EuPathDBiHostDB:ENSG00000101017.13

GeneCards: human genes, protein and diseases

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GeneCardsi
CD40
HGNCiHGNC:11919 CD40
HPAiCAB002495
CAB072868
HPA031567
HPA031568
MalaCardsiCD40
MIMi109535 gene
606843 phenotype
neXtProtiNX_P25942
OpenTargetsiENSG00000101017
Orphaneti101090 Hyper-IgM syndrome type 3
PharmGKBiPA36612

GenAtlas: human gene database

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GenAtlasi
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Phylogenomic databases

eggNOGiENOG410IY0H Eukaryota
ENOG4112DB5 LUCA
GeneTreeiENSGT00940000161464
HOVERGENiHBG005117
InParanoidiP25942
KOiK03160
OMAiPGLGVKQ
OrthoDBiEOG091G03XW
PhylomeDBiP25942
TreeFamiTF331157

Enzyme and pathway databases

ReactomeiR-HSA-198933 Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
R-HSA-5668541 TNFR2 non-canonical NF-kB pathway
R-HSA-5676594 TNF receptor superfamily (TNFSF) members mediating non-canonical NF-kB pathway
SIGNORiP25942

Miscellaneous databases

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

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ChiTaRSi
CD40 human
EvolutionaryTraceiP25942

The Gene Wiki collection of pages on human genes and proteins

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GeneWikii
CD40_(protein)

Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens

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GenomeRNAii
958
PMAP-CutDBiP25942

Protein Ontology

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PROi
PR:P25942

The Stanford Online Universal Resource for Clones and ESTs

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SOURCEi
Search...

Gene expression databases

BgeeiENSG00000101017 Expressed in 203 organ(s), highest expression level in left coronary artery
CleanExiHS_CD40
ExpressionAtlasiP25942 baseline and differential
GenevisibleiP25942 HS

Family and domain databases

CDDicd13407 TNFRSF5, 1 hit
InterProiView protein in InterPro
IPR001368 TNFR/NGFR_Cys_rich_reg
IPR020435 TNFR_5
IPR034021 TNFRSF5_N
PfamiView protein in Pfam
PF00020 TNFR_c6, 1 hit
PRINTSiPR01922 TNFACTORR5
SMARTiView protein in SMART
SM00208 TNFR, 4 hits
PROSITEiView protein in PROSITE
PS00652 TNFR_NGFR_1, 1 hit
PS50050 TNFR_NGFR_2, 4 hits

ProtoNet; Automatic hierarchical classification of proteins

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ProtoNeti
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<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiTNR5_HUMAN
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P25942
Secondary accession number(s): E1P5S9
, Q53GN5, Q5JY15, Q5U007, Q7M4Q8, Q86YK5, Q9BYU0
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: May 1, 1992
Last modified: December 5, 2018
This is version 219 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Human chromosome 20
    Human chromosome 20: entries, gene names and cross-references to MIM
  3. Human cell differentiation molecules
    CD nomenclature of surface proteins of human leucocytes and list of entries
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  6. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
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