P48436 (SOX9_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 29, 2013.
Version 137.
History...
Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Web links·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: Transcription factor SOX-9 | ||
| Gene names |
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| Organism | Homo sapiens (Human) [Reference proteome] | ||
| Taxonomic identifier | 9606 [NCBI] | ||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 509 AA. |
| Sequence status | Complete. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | Plays an important role in the normal skeletal development. May regulate the expression of other genes involved in chondrogenesis by acting as a transcription factor for these genes. |
| Subcellular location | Nucleus Potential. |
| Involvement in disease | Campomelic dysplasia (CMD1) [MIM:114290]: Rare, often lethal, dominantly inherited, congenital osteochondrodysplasia, associated with male-to-female autosomal sex reversal in two-thirds of the affected karyotypic males. A disease of the newborn characterized by congenital bowing and angulation of long bones, unusually small scapulae, deformed pelvis and spine and a missing pair of ribs. Craniofacial defects such as cleft palate, micrognatia, flat face and hypertelorism are common. Various defects of the ear are often evident, affecting the cochlea, malleus incus, stapes and tympanum. Most patients die soon after birth due to respiratory distress which has been attributed to hypoplasia of the tracheobronchial cartilage and small thoracic cage. 46,XX sex reversal 2 (SRXX2) [MIM:278850]: A condition in which male gonads develop in a genetic female (female to male sex reversal). |
| Sequence similarities | Contains 1 HMG box DNA-binding domain. |
Ontologies
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||||||
Molecule processing | |||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 509 | 509 | Transcription factor SOX-9 | PRO_0000048739 | |||||||||||
Regions | |||||||||||||||
| DNA binding | 105 – 173 | 69 | HMG box | ||||||||||||
| Compositional bias | 339 – 378 | 40 | Gln/Pro-rich | ||||||||||||
| Compositional bias | 342 – 346 | 5 | Poly-Pro | ||||||||||||
Natural variations | |||||||||||||||
| Natural variant | 76 | 1 | A → E in CMD1; dimerization and the resulting capacity to activate promoters via dimeric binding sites is lost; other features of the protein function remain unaltered. Ref.15 | VAR_063642 | |||||||||||
| Natural variant | 108 | 1 | P → L in CMD1. Ref.9 | VAR_003735 | |||||||||||
| Natural variant | 112 | 1 | F → L in CMD1; loss of DNA binding. Ref.8 Ref.11 | VAR_003736 | |||||||||||
| Natural variant | 112 | 1 | F → S in CMD1. Ref.10 | VAR_003737 | |||||||||||
| Natural variant | 113 | 1 | M → T in CMD1. Ref.16 | VAR_063643 | |||||||||||
| Natural variant | 113 | 1 | M → V in CMD1; residual DNA binding and transactivation of regulated genes. Ref.17 | VAR_063644 | |||||||||||
| Natural variant | 119 | 1 | A → V in CMD1; almost no loss of DNA binding. Ref.8 Ref.11 | VAR_003738 | |||||||||||
| Natural variant | 143 | 1 | W → R in CMD1. Ref.9 | VAR_003739 | |||||||||||
| Natural variant | 152 | 1 | R → P in CMD1. Ref.9 | VAR_003740 | |||||||||||
| Natural variant | 154 | 1 | F → L in CMD1; 5% of wild-type DNA binding activity; transcriptional activation is only reduced to 26% of wild-type activity. Ref.14 | VAR_008529 | |||||||||||
| Natural variant | 158 | 1 | A → T in CMD1; 17% of wild-type DNA binding activity; shows a 2-fold reduction in nuclear import efficiency; transcriptional activation is only reduced to 62% of wild-type activity. Ref.14 | VAR_008530 | |||||||||||
| Natural variant | 165 | 1 | H → Q in CMD1; residual DNA binding and transactivation of regulated genes. Ref.17 | VAR_063645 | |||||||||||
| Natural variant | 165 | 1 | H → Y in CMD1; loss of DNA binding. Ref.11 Ref.13 Corresponds to variant rs28940282 [ dbSNP | Ensembl ]. | VAR_008531 | |||||||||||
| Natural variant | 170 | 1 | P → L in CMD1. Ref.16 | VAR_063646 | |||||||||||
| Natural variant | 170 | 1 | P → R in CMD1. Ref.9 Ref.11 | VAR_003741 | |||||||||||
| Natural variant | 173 | 1 | K → E in CMD1. Ref.12 | VAR_063647 | |||||||||||
| Natural variant | 354 – 356 | 3 | Missing in CMD1. | VAR_003742 | |||||||||||
Secondary structure | |||||||||||||||
Helix Strand Turn | |||||||||||||||
| Helix | 111 – 126 | 16 | |||||||||||||
| Helix | 132 – 143 | 12 | |||||||||||||
| Helix | 148 – 168 | 21 | |||||||||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Campomelic dysplasia and autosomal sex reversal caused by mutations in an SRY-related gene." Foster J.W., Dominguez-Steglich M.A., Guioli S., Kowk G., Weller P.A., Stevanovic M., Weissenbach J., Mansour S., Young I.D., Goodfellow P.N., Schafer A.J. Nature 372:525-530(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Testis. |
| [2] | "Autosomal sex reversal and campomelic dysplasia are caused by mutations in and around the SRY-related gene SOX9." Wagner T., Wirth J., Meyer J., Zabel B., Held M., Zimmer J., Pasantes J., Bricarelli F.D., Keutel J., Hustert E., Wolf U., Tommerup N., Schempp W., Scherer G. Cell 79:1111-1120(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. |
| [3] | "Cloning of human full-length CDSs in BD Creator(TM) system donor vector." Kalnine N., Chen X., Rolfs A., Halleck A., Hines L., Eisenstein S., Koundinya M., Raphael J., Moreira D., Kelley T., LaBaer J., Lin Y., Phelan M., Farmer A. Submitted (MAY-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. |
| [4] | Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. Venter J.C.Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [5] | "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: Eye and PNS. |
| [6] | "A SOX9 duplication and familial 46,XX developmental testicular disorder." Cox J.J., Willatt L., Homfray T., Woods C.G. N. Engl. J. Med. 364:91-93(2011) [PubMed] [Europe PMC] [Abstract] Cited for: INVOLVEMENT IN SRXX2. |
| [7] | "Mutations in SRY and SOX9: testis-determining genes." Cameron F.J., Sinclair A.H. Hum. Mutat. 9:388-395(1997) [PubMed] [Europe PMC] [Abstract] Cited for: REVIEW ON VARIANTS. |
| [8] | "Mutations in SOX9, the gene responsible for Campomelic dysplasia and autosomal sex reversal." Kwok C., Weller P.A., Guioli S., Foster J.W., Mansour S., Zuffardi O., Punnett H.H., Dominguez-Steglich M.A., Brook J.D., Young I.D., Goodfellow P.N., Schafer A.J. Am. J. Hum. Genet. 57:1028-1036(1995) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANTS CMD1 LEU-112 AND VAL-119. |
| [9] | "Mutational analysis of the SOX9 gene in campomelic dysplasia and autosomal sex reversal: lack of genotype/phenotype correlations." Meyer J., Suedbeck P., Held M., Wagner T., Schmitz M.L., Bricarelli F.D., Eggermont E., Friedrich U., Haas O.A., Kobelt A., Leroy J.G., van Maldergem L., Michel E., Mitulla B., Pfeiffer R.A., Schinzel A., Schmidt H., Scherer G. Hum. Mol. Genet. 6:91-98(1997) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANTS CMD1 LEU-108; ARG-143; PRO-152 AND ARG-170. |
| [10] | "Novel missense mutation in the HMG box of SOX9 gene in a Japanese XY male resulted in campomelic dysplasia and severe defect in masculinization." Goji K., Nishijima E., Tsugawa C., Nishio H., Pokharel R.K., Matsuo M. Hum. Mutat. Suppl. 1:S114-S116(1998) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANT CMD1 SER-112. |
| [11] | "Functional and structural studies of wild type SOX9 and mutations causing campomelic dysplasia." McDowall S., Argentaro A., Ranganathan S., Weller P., Mertin S., Mansour S., Tolmie J., Harley V. J. Biol. Chem. 274:24023-24030(1999) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANTS CMD1 LEU-112; VAL-119; TYR-165 AND ARG-170, 3D-STRUCTURE MODELING. |
| [12] | "Acampomelic campomelic dysplasia with SOX9 mutation." Thong M.-K., Scherer G., Kozlowski K., Haan E., Morris L. Am. J. Med. Genet. 93:421-425(2000) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANT CMD1 GLU-173. |
| [13] | "Acampomelic campomelic syndrome." Moog U., Jansen N.J., Scherer G., Schrander-Stumpel C.T. Am. J. Med. Genet. 104:239-245(2001) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANT CMD1 TYR-165. |
| [14] | "Compound effects of point mutations causing campomelic dysplasia/autosomal sex reversal upon SOX9 structure, nuclear transport, DNA binding, and transcriptional activation." Preiss S., Argentaro A., Clayton A., John A., Jans D.A., Ogata T., Nagai T., Barroso I., Schafer A.J., Harley V.R. J. Biol. Chem. 276:27864-27872(2001) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANTS CMD1 LEU-154 AND THR-158, CHARACTERIZATION OF VARIANTS CMD1 LEU-154 AND THR-158. |
| [15] | "Loss of DNA-dependent dimerization of the transcription factor SOX9 as a cause for campomelic dysplasia." Sock E., Pagon R.A., Keymolen K., Lissens W., Wegner M., Scherer G. Hum. Mol. Genet. 12:1439-1447(2003) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANT CMD1 GLU-76. |
| [16] | "Mutation analysis of SOX9 and single copy number variant analysis of the upstream region in eight patients with campomelic dysplasia and acampomelic campomelic dysplasia." Wada Y., Nishimura G., Nagai T., Sawai H., Yoshikata M., Miyagawa S., Hanita T., Sato S., Hasegawa T., Ishikawa S., Ogata T. Am. J. Med. Genet. A 149:2882-2885(2009) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANTS CMD1 THR-113 AND LEU-170. |
| [17] | "Heterozygous SOX9 mutations allowing for residual DNA-binding and transcriptional activation lead to the acampomelic variant of campomelic dysplasia." Staffler A., Hammel M., Wahlbuhl M., Bidlingmaier C., Flemmer A.W., Pagel P., Nicolai T., Wegner M., Holzinger A. Hum. Mutat. 31:E1436-E1444(2010) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANTS CMD1 VAL-113 AND GLN-165, CHARACTERIZATION OF VARIANTS CMD1 VAL-113 AND GLN-165. |
| + | Additional computationally mapped references. |
Web resources
Cross-references
Sequence databases | |||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| EMBL GenBank DDBJ | Z46629 mRNA. Translation: CAA86598.1. S74506, S74504, S74505 Genomic DNA. Translation: AAB32870.1. BT006875 mRNA. Translation: AAP35521.1. CH471099 Genomic DNA. Translation: EAW89102.1. BC007951 mRNA. Translation: AAH07951.1. BC056420 mRNA. Translation: AAH56420.1. | ||||||||||||||||||||||||
| IPI | IPI00009713. | ||||||||||||||||||||||||
| PIR | A55204. | ||||||||||||||||||||||||
| RefSeq | NP_000337.1. NM_000346.3. | ||||||||||||||||||||||||
| UniGene | Hs.647409. | ||||||||||||||||||||||||
3D structure databases | |||||||||||||||||||||||||
| PDBe RCSB PDB PDBj |
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| ProteinModelPortal | P48436. | ||||||||||||||||||||||||
| ModBase | Search... | ||||||||||||||||||||||||
Protein-protein interaction databases | |||||||||||||||||||||||||
| IntAct | P48436. 1 interaction. | ||||||||||||||||||||||||
| STRING | 9606.ENSP00000245479. | ||||||||||||||||||||||||
PTM databases | |||||||||||||||||||||||||
| PhosphoSite | P48436. | ||||||||||||||||||||||||
Polymorphism databases | |||||||||||||||||||||||||
| DMDM | 1351096. | ||||||||||||||||||||||||
Proteomic databases | |||||||||||||||||||||||||
| PaxDb | P48436. | ||||||||||||||||||||||||
| PRIDE | P48436. | ||||||||||||||||||||||||
Protocols and materials databases | |||||||||||||||||||||||||
| DNASU | 6662. | ||||||||||||||||||||||||
| StructuralBiologyKnowledgebase | Search... | ||||||||||||||||||||||||
Genome annotation databases | |||||||||||||||||||||||||
| Ensembl | ENST00000245479; ENSP00000245479; ENSG00000125398. | ||||||||||||||||||||||||
| GeneID | 6662. | ||||||||||||||||||||||||
| KEGG | hsa:6662. | ||||||||||||||||||||||||
| UCSC | uc002jiw.3. human. | ||||||||||||||||||||||||
Organism-specific databases | |||||||||||||||||||||||||
| CTD | 6662. | ||||||||||||||||||||||||
| GeneCards | GC17P070117. | ||||||||||||||||||||||||
| HGNC | HGNC:11204. SOX9. | ||||||||||||||||||||||||
| HPA | CAB022456. HPA001758. | ||||||||||||||||||||||||
| MIM | 114290. phenotype. 278850. phenotype. 608160. gene. | ||||||||||||||||||||||||
| neXtProt | NX_P48436. | ||||||||||||||||||||||||
| Orphanet | 2138. 46,XX ovotesticular disorder of sex development. 140. Campomelic dysplasia. | ||||||||||||||||||||||||
| PharmGKB | PA36041. | ||||||||||||||||||||||||
| GenAtlas | Search... | ||||||||||||||||||||||||
Phylogenomic databases | |||||||||||||||||||||||||
| eggNOG | NOG295709. | ||||||||||||||||||||||||
| HOGENOM | HOG000108876. | ||||||||||||||||||||||||
| HOVERGEN | HBG002061. | ||||||||||||||||||||||||
| InParanoid | P48436. | ||||||||||||||||||||||||
| KO | K09270. | ||||||||||||||||||||||||
| OMA | GAGHVWM. | ||||||||||||||||||||||||
| OrthoDB | EOG4TXBRZ. | ||||||||||||||||||||||||
| PhylomeDB | P48436. | ||||||||||||||||||||||||
Enzyme and pathway databases | |||||||||||||||||||||||||
| SignaLink | P48436. | ||||||||||||||||||||||||
Gene expression databases | |||||||||||||||||||||||||
| Bgee | P48436. | ||||||||||||||||||||||||
| CleanEx | HS_SOX9. | ||||||||||||||||||||||||
| Genevestigator | P48436. | ||||||||||||||||||||||||
| GermOnline | ENSG00000125398. Homo sapiens. | ||||||||||||||||||||||||
Family and domain databases | |||||||||||||||||||||||||
| Gene3D | 1.10.30.10. 1 hit. | ||||||||||||||||||||||||
| InterPro | IPR009071. HMG_box_dom. IPR022151. Sox_N. [Graphical view] | ||||||||||||||||||||||||
| Pfam | PF00505. HMG_box. 1 hit. PF12444. Sox_N. 1 hit. [Graphical view] | ||||||||||||||||||||||||
| SMART | SM00398. HMG. 1 hit. [Graphical view] | ||||||||||||||||||||||||
| SUPFAM | SSF47095. HMG-box. 1 hit. | ||||||||||||||||||||||||
| PROSITE | PS50118. HMG_BOX_2. 1 hit. [Graphical view] | ||||||||||||||||||||||||
| ProtoNet | Search... | ||||||||||||||||||||||||
Other | |||||||||||||||||||||||||
| GenomeRNAi | 6662. | ||||||||||||||||||||||||
| NextBio | 25973. | ||||||||||||||||||||||||
| SOURCE | Search... | ||||||||||||||||||||||||
Entry information
| Entry name | SOX9_HUMAN | ||||||||
| Accession | Primary (citable) accession number: P48436 Secondary accession number(s): Q53Y80 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Chordata Protein Annotation Program | ||||||||
| Disclaimer | Any 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. | ||||||||
Relevant documents
| Human chromosome 17 Human chromosome 17: entries, gene names and cross-references to MIM |
| Human entries with polymorphisms or disease mutations List of human entries with polymorphisms or disease mutations |
| Human polymorphisms and disease mutations Index of human polymorphisms and disease mutations |
| MIM cross-references Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot |
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| SIMILARITY comments Index of protein domains and families |

Clusters with
