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Protein

Protein S100-B

Gene

S100b

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Weakly binds calcium but binds zinc very tightly-distinct binding sites with different affinities exist for both ions on each monomer. Physiological concentrations of potassium ion antagonize the binding of both divalent cations, especially affecting high-affinity calcium-binding sites. Binds to and initiates the activation of STK38 by releasing autoinhibitory intramolecular interactions within the kinase. Interaction with AGER after myocardial infarction may play a role in myocyte apoptosis by activating ERK1/2 and p53/TP53 signaling. Could assist ATAD3A cytoplasmic processing, preventing aggregation and favoring mitochondrial localization. May mediate calcium-dependent regulation on many physiological processes by interacting with other proteins, such as TPR-containing proteins, and modulating their activity.2 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Calcium bindingi19 – 32141; low affinityAdd
BLAST
Calcium bindingi62 – 73122; high affinityAdd
BLAST

GO - Molecular functioni

  1. calcium ion binding Source: RGD
  2. protein homodimerization activity Source: RGD
  3. RAGE receptor binding Source: RGD
  4. receptor binding Source: RGD
  5. tau protein binding Source: UniProtKB
  6. zinc ion binding Source: UniProtKB

GO - Biological processi

  1. astrocyte differentiation Source: RGD
  2. cellular response to hypoxia Source: RGD
  3. learning or memory Source: UniProtKB
  4. long-term synaptic potentiation Source: RGD
  5. memory Source: Ensembl
  6. negative regulation of skeletal muscle cell differentiation Source: RGD
  7. positive regulation of apoptotic process Source: RGD
  8. positive regulation of cell proliferation Source: RGD
  9. positive regulation of I-kappaB kinase/NF-kappaB signaling Source: Ensembl
  10. positive regulation of synaptic transmission Source: RGD
  11. regulation of cell shape Source: RGD
  12. regulation of neuronal synaptic plasticity Source: Ensembl
  13. response to glucocorticoid Source: RGD
  14. response to methylmercury Source: RGD
Complete GO annotation...

Keywords - Ligandi

Calcium, Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiREACT_283565. Advanced glycosylation endproduct receptor signaling.
REACT_309187. DEx/H-box helicases activate type I IFN and inflammatory cytokines production.
REACT_329727. Nuclear signaling by ERBB4.
REACT_332189. RIP-mediated NFkB activation via ZBP1.
REACT_332863. TAK1 activates NFkB by phosphorylation and activation of IKKs complex.
REACT_336922. TRAF6 mediated NF-kB activation.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein S100-B
Alternative name(s):
S-100 protein beta chain
S-100 protein subunit beta
S100 calcium-binding protein B
Gene namesi
Name:S100b
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494 Componenti: Chromosome 20

Organism-specific databases

RGDi3615. S100b.

Subcellular locationi

  1. Cytoplasm By similarity
  2. Nucleus By similarity

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB
  2. extracellular space Source: RGD
  3. neuronal cell body Source: Ensembl
  4. nucleus Source: UniProtKB-SubCell
  5. perinuclear region of cytoplasm Source: Ensembl
  6. ruffle Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 9291Protein S100-BPRO_0000143969Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylserineBy similarity

Keywords - PTMi

Acetylation

Proteomic databases

PaxDbiP04631.
PRIDEiP04631.

PTM databases

PhosphoSiteiP04631.

Expressioni

Tissue specificityi

Although predominant among the water-soluble brain proteins, S100 is also found in a variety of other tissues.1 Publication

Inductioni

Up-regulated in periinfarct ventricular myocardium.1 Publication

Gene expression databases

GenevestigatoriP04631.

Interactioni

Subunit structurei

Dimer of either two alpha chains, or two beta chains, or one alpha and one beta chain. The S100B dimer binds two molecules of STK38. Interacts with CACYBP in a calcium-dependent manner. Interacts with ATAD3A; this interaction probably occurs in the cytosol prior to ATAD3A mitochondrial targeting. Interacts with S100A6. The S100B dimer interacts with two molecules of CAPZA1. Interacts with AGER. Interacts with PPP5C (via TPR repeats); the interaction is calcium-dependent and modulates PPP5C activity.4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
AgerQ634953EBI-2696631,EBI-6479195

Protein-protein interaction databases

BioGridi247770. 1 interaction.
IntActiP04631. 2 interactions.
STRINGi10116.ENSRNOP00000001743.

Structurei

Secondary structure

1
92
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 1816Combined sources
Beta strandi21 – 233Combined sources
Beta strandi25 – 295Combined sources
Helixi30 – 4011Combined sources
Helixi41 – 433Combined sources
Helixi44 – 474Combined sources
Helixi51 – 6212Combined sources
Beta strandi66 – 694Combined sources
Helixi71 – 8414Combined sources
Beta strandi85 – 873Combined sources
Turni88 – 903Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1B4CNMR-A/B1-92[»]
1DT7NMR-A/B1-92[»]
1MWNNMR-A/B1-92[»]
1QLKNMR-A/B1-92[»]
1SYMNMR-A/B1-92[»]
1XYDNMR-A/B1-92[»]
2K7ONMR-A/B2-92[»]
SMRiP04631. Positions 1-91.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP04631.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini13 – 4836EF-hand 1PROSITE-ProRule annotationAdd
BLAST
Domaini49 – 8436EF-hand 2PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the S-100 family.Curated
Contains 2 EF-hand domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiNOG41158.
GeneTreeiENSGT00760000119034.
HOGENOMiHOG000246968.
HOVERGENiHBG001479.
InParanoidiP04631.
OMAiGDAECDF.
OrthoDBiEOG7R833W.
PhylomeDBiP04631.
TreeFamiTF332727.

Family and domain databases

Gene3Di1.10.238.10. 1 hit.
InterProiIPR011992. EF-hand-dom_pair.
IPR018247. EF_Hand_1_Ca_BS.
IPR002048. EF_hand_dom.
IPR028481. S100-B.
IPR001751. S100/CaBP-9k_CS.
IPR013787. S100_Ca-bd_sub.
[Graphical view]
PANTHERiPTHR11639:SF17. PTHR11639:SF17. 1 hit.
PfamiPF01023. S_100. 1 hit.
[Graphical view]
PROSITEiPS00018. EF_HAND_1. 1 hit.
PS50222. EF_HAND_2. 1 hit.
PS00303. S100_CABP. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P04631-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSELEKAMVA LIDVFHQYSG REGDKHKLKK SELKELINNE LSHFLEEIKE
60 70 80 90
QEVVDKVMET LDEDGDGECD FQEFMAFVSM VTTACHEFFE HE
Length:92
Mass (Da):10,744
Last modified:January 23, 2007 - v2
Checksum:i43815AC212BEC7D0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X01090 mRNA. Translation: CAA25567.1.
M54919 mRNA. Translation: AAA42096.1.
S53527 Genomic DNA. No translation available.
S53522 Genomic DNA. No translation available.
BC087026 mRNA. Translation: AAH87026.1.
M15705 mRNA. No translation available.
PIRiA60046. A26557.
RefSeqiNP_037323.1. NM_013191.1.
XP_008771090.1. XM_008772868.1.
UniGeneiRn.8937.

Genome annotation databases

EnsembliENSRNOT00000001743; ENSRNOP00000001743; ENSRNOG00000001295.
GeneIDi25742.
KEGGirno:25742.
UCSCiRGD:3615. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X01090 mRNA. Translation: CAA25567.1.
M54919 mRNA. Translation: AAA42096.1.
S53527 Genomic DNA. No translation available.
S53522 Genomic DNA. No translation available.
BC087026 mRNA. Translation: AAH87026.1.
M15705 mRNA. No translation available.
PIRiA60046. A26557.
RefSeqiNP_037323.1. NM_013191.1.
XP_008771090.1. XM_008772868.1.
UniGeneiRn.8937.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1B4CNMR-A/B1-92[»]
1DT7NMR-A/B1-92[»]
1MWNNMR-A/B1-92[»]
1QLKNMR-A/B1-92[»]
1SYMNMR-A/B1-92[»]
1XYDNMR-A/B1-92[»]
2K7ONMR-A/B2-92[»]
SMRiP04631. Positions 1-91.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi247770. 1 interaction.
IntActiP04631. 2 interactions.
STRINGi10116.ENSRNOP00000001743.

PTM databases

PhosphoSiteiP04631.

Proteomic databases

PaxDbiP04631.
PRIDEiP04631.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000001743; ENSRNOP00000001743; ENSRNOG00000001295.
GeneIDi25742.
KEGGirno:25742.
UCSCiRGD:3615. rat.

Organism-specific databases

CTDi6285.
RGDi3615. S100b.

Phylogenomic databases

eggNOGiNOG41158.
GeneTreeiENSGT00760000119034.
HOGENOMiHOG000246968.
HOVERGENiHBG001479.
InParanoidiP04631.
OMAiGDAECDF.
OrthoDBiEOG7R833W.
PhylomeDBiP04631.
TreeFamiTF332727.

Enzyme and pathway databases

ReactomeiREACT_283565. Advanced glycosylation endproduct receptor signaling.
REACT_309187. DEx/H-box helicases activate type I IFN and inflammatory cytokines production.
REACT_329727. Nuclear signaling by ERBB4.
REACT_332189. RIP-mediated NFkB activation via ZBP1.
REACT_332863. TAK1 activates NFkB by phosphorylation and activation of IKKs complex.
REACT_336922. TRAF6 mediated NF-kB activation.

Miscellaneous databases

EvolutionaryTraceiP04631.
NextBioi607903.
PROiP04631.

Gene expression databases

GenevestigatoriP04631.

Family and domain databases

Gene3Di1.10.238.10. 1 hit.
InterProiIPR011992. EF-hand-dom_pair.
IPR018247. EF_Hand_1_Ca_BS.
IPR002048. EF_hand_dom.
IPR028481. S100-B.
IPR001751. S100/CaBP-9k_CS.
IPR013787. S100_Ca-bd_sub.
[Graphical view]
PANTHERiPTHR11639:SF17. PTHR11639:SF17. 1 hit.
PfamiPF01023. S_100. 1 hit.
[Graphical view]
PROSITEiPS00018. EF_HAND_1. 1 hit.
PS50222. EF_HAND_2. 1 hit.
PS00303. S100_CABP. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Molecular cloning and the complete nucleotide sequence of cDNA to mRNA for S-100 protein of rat brain."
    Kuwano R., Usui H., Maeda T., Fukui T., Yamanari N., Ohtsuka E., Ikehara M., Takahashi Y.
    Nucleic Acids Res. 12:7455-7465(1984) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "Molecular cloning and nucleotide sequences of cDNA and genomic DNA for alpha and beta subunits of S100 protein."
    Kuwano R., Usui H., Maeda T., Araki K., Kurihara T., Yamakuni T., Ohtsuka E., Ikehara M., Takahashi Y.
    Taniguchi Symp. Brain Sci. 19:243-255(1987)
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  3. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], TISSUE SPECIFICITY.
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Heart.
  5. "Reduction in S100 protein beta subunit mRNA in C6 rat glioma cells following treatment with anti-microtubular drugs."
    Dunn R., Landry C., O'Hanlon D., Dunn J., Allore R., Brown I., Marks A.
    J. Biol. Chem. 262:3562-3566(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 6-92.
  6. Lubec G., Afjehi-Sadat L., Kang S.U.
    Submitted (JUL-2007) to UniProtKB
    Cited for: PROTEIN SEQUENCE OF 7-21 AND 35-56, IDENTIFICATION BY MASS SPECTROMETRY.
    Strain: Sprague-Dawley.
    Tissue: Brain and Spinal cord.
  7. "CacyBP/SIP, a calcyclin and Siah-1-interacting protein, binds EF-hand proteins of the S100 family."
    Filipek A., Jastrzebska B., Nowotny M., Kuznicki J.
    J. Biol. Chem. 277:28848-28852(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH CACYBP.
  8. "S100B interaction with the receptor for advanced glycation end products (RAGE): a novel receptor-mediated mechanism for myocyte apoptosis postinfarction."
    Tsoporis J.N., Izhar S., Leong-Poi H., Desjardins J.F., Huttunen H.J., Parker T.G.
    Circ. Res. 106:93-101(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH AGER, INDUCTION.
  9. "The calcium-dependent interaction between S100B and the mitochondrial AAA ATPase ATAD3A and the role of this complex in the cytoplasmic processing of ATAD3A."
    Gilquin B., Cannon B.R., Hubstenberger A., Moulouel B., Falk E., Merle N., Assard N., Kieffer S., Rousseau D., Wilder P.T., Weber D.J., Baudier J.
    Mol. Cell. Biol. 30:2724-2736(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH ATAD3A.
  10. "Solution structure of rat apo-S100B(beta beta) as determined by NMR spectroscopy."
    Drohat A.C., Amburgey J.C., Abildgaard F., Starich M.R., Baldisseri D.M., Weber D.J.
    Biochemistry 35:11577-11588(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR.
  11. "Solution structure of calcium-bound rat S100B(betabeta) as determined by nuclear magnetic resonance spectroscopy."
    Drohat A.C., Baldisseri D.M., Rustandi R.R., Weber D.J.
    Biochemistry 37:2729-2740(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR.
  12. "The use of dipolar couplings for determining the solution structure of rat apo-S100B."
    Drohat A.C., Tjandra N., Baldisseri D.M., Weber D.J.
    Protein Sci. 8:800-809(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR.
  13. "Solution NMR structure of S100B bound to the high-affinity target peptide TRTK-12."
    Inman K.G., Yang R., Rustandi R.R., Miller K.E., Baldisseri D.M., Weber D.J.
    J. Mol. Biol. 324:1003-1014(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR IN COMPLEX WITH CAPZA1 AND CALCIUM.

Entry informationi

Entry nameiS100B_RAT
AccessioniPrimary (citable) accession number: P04631
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: January 23, 2007
Last modified: April 1, 2015
This is version 149 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

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. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.