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Protein

Transcription factor Sox-9-A

Gene

sox9-a

Organism
Xenopus laevis (African clawed frog)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

May be involved in chondrogenesis (cartilage development) during bone formation. Unlikely to play a role in sex determination but may function during testicular and ovarian differentiation (By similarity). Transcriptional activator. Acts early in neural crest formation, functioning redundantly with the other group E Sox factors sox8 and sox10 to induce neural crest progenitors. Induces sox10 expression downstream of wnt-signaling. Principally involved in development of the cranial neural crest, which is fated to form skeletal elements. Also required for otic placode specification during inner ear development.By similarity6 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi105 – 173HMG boxPROSITE-ProRule annotationAdd BLAST69

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionActivator, Developmental protein, DNA-binding
Biological processChondrogenesis, Differentiation, Gonadal differentiation, Transcription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription factor Sox-9-A
Gene namesi
Name:sox9-a
Synonyms:sox9Imported
OrganismiXenopus laevis (African clawed frog)
Taxonomic identifieri8355 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusXenopus

Organism-specific databases

XenbaseiXB-GENE-6253910 sox9

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

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Disruption phenotypei

Loss of neural crest progenitors and an expansion of the neural plate, leading to loss or reduction of neural crest-derived skeletal elements later during development.1 Publication

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi61K → R: Abolishes interaction with sumoylation factors. Alters neural crest formation and inner ear development; when associated with R-365. 1 Publication1
Mutagenesisi365K → R: Eliminates the major sumoylated product. Alters neural crest formation and inner ear development; when associated with R-61. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003774151 – 477Transcription factor Sox-9-AAdd BLAST477

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki61Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO)1 Publication
Cross-linki365Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO)1 Publication

Post-translational modificationi

Sumoylated. Lys-365 is the major site of sumoylation, although sumoylation at Lys-61 also occurs. Sumoylation plays a key role in regulating formation of the neural crest and otic placode.1 Publication

Keywords - PTMi

Isopeptide bond, Ubl conjugation

Expressioni

Tissue specificityi

From mid-gastrula (stage 10.5-11), expressed in a ring around the blastopore, with expression decreasing toward the dorsal side. At stage 12, expression around the blastopore decreases and begins to increase lateral to the neural plate in the presumptive neural crest, where expression dramatically increases around stage 14. Also expressed in the otic placode as early as stage 13/14. By the tailbud stage expression is restricted to the otic cup and then throughout the otic vesicle, with more intense staining at the dorsal-most region, the prospective region of the semicircular canals and endolymphatic duct. At the early tailbud stage (stage 23), expressed in migrating cranial neural crest cells and in the trunk neural crest. Also expressed in the genital ridges, developing eye, nasal placode and prospective pineal gland. Around stage 25, expression is down-regulated in the trunk neural crest but persists in the migrating cranial crest cells as they populate the pharyngeal arches, otic placode, developing eye, genital ridges and notochord. By stage 31, expression remains strong in the pharyngeal arches. Also expressed in the pancreas; first expressed at stage 25 in the pancreatic anlagen, dorsally in diverticulum. As development proceeds, expression continues in pancreatic tissue, being restricted to ventral and dorsal pancreatic buds.6 Publications

Developmental stagei

Expressed both maternally and zygotically. Expressed from mid-gastrula (around stage 10.5) and persists at least through to tadpoles (stage 41).1 Publication

Interactioni

Subunit structurei

Interacts with the sumoylation factors ube2i/ubc9 and sumo1.1 Publication

GO - Molecular functioni

Structurei

3D structure databases

SMRiB7ZR65
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi338 – 385Gln-richSequence analysisAdd BLAST48

Phylogenomic databases

KOiK18435

Family and domain databases

Gene3Di1.10.30.10, 1 hit
InterProiView protein in InterPro
IPR009071 HMG_box_dom
IPR036910 HMG_box_dom_sf
IPR029548 SOX-9
IPR022151 Sox_N
PANTHERiPTHR10270:SF212 PTHR10270:SF212, 1 hit
PfamiView protein in Pfam
PF00505 HMG_box, 1 hit
PF12444 Sox_N, 1 hit
SMARTiView protein in SMART
SM00398 HMG, 1 hit
SUPFAMiSSF47095 SSF47095, 1 hit
PROSITEiView protein in PROSITE
PS50118 HMG_BOX_2, 1 hit

Sequencei

Sequence statusi: Complete.

B7ZR65-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MNLLDPFMKM TEEQDKCMSG APSPTMSDDS AGSPCPSGSG SDTENTRPQE
60 70 80 90 100
NTFPKGDQEL KKETEDEKFP VCIREAVSQV LKGYDWTLVP MPVRVNGSSK
110 120 130 140 150
NKPHVKRPMN AFMVWAQAAR RKLADQYPHL HNAELSKTLG KLWRLLNEGE
160 170 180 190 200
KRPFVEEAER LRVQHKKDHP DYKYQPRRRK SVKNGQTEQE DGAEQTHISP
210 220 230 240 250
NAIFKALQAD SPHSSSSMSE VHSPGEHSGQ SQGPPTPPTT PKTDIQPGKP
260 270 280 290 300
DLKREGRPLQ ENGRQPPHID FRDVDIGELS SEVISTIETF DVNEFDQYLP
310 320 330 340 350
PNGHPGVGST QASYTGSYGI SSTPSATTGA GPAWMSKQQQ QQPQQHSLST
360 370 380 390 400
LNSEQSQSQQ RTHIKTEQLS PSHYSDQQQQ HSPQQLNYSS FNLQHYSSSY
410 420 430 440 450
PTITRAQYDY TEHQGSSTYY SHASGQNSGL YSTFSYMNPS QRPLYTPIAD
460 470
TTGVPSIPQT HSPQHWEQPV YTQLTRP
Length:477
Mass (Da):53,431
Last modified:March 3, 2009 - v1
Checksum:iE544E09D9CF8FEDD
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti184N → Y in AAI70060 (Ref. 2) Curated1
Sequence conflicti268H → R in AAK61366 (PubMed:11807034).Curated1
Sequence conflicti289T → I in AAK61366 (PubMed:11807034).Curated1
Sequence conflicti334W → C in AAK61366 (PubMed:11807034).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY035397 mRNA Translation: AAK61366.1
BC170058 mRNA Translation: AAI70058.1
BC170060 mRNA Translation: AAI70060.1
RefSeqiNP_001084276.1, NM_001090807.1
UniGeneiXl.1690

Genome annotation databases

GeneIDi399405
KEGGixla:399405

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY035397 mRNA Translation: AAK61366.1
BC170058 mRNA Translation: AAI70058.1
BC170060 mRNA Translation: AAI70060.1
RefSeqiNP_001084276.1, NM_001090807.1
UniGeneiXl.1690

3D structure databases

SMRiB7ZR65
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi399405
KEGGixla:399405

Organism-specific databases

CTDi399405
XenbaseiXB-GENE-6253910 sox9

Phylogenomic databases

KOiK18435

Family and domain databases

Gene3Di1.10.30.10, 1 hit
InterProiView protein in InterPro
IPR009071 HMG_box_dom
IPR036910 HMG_box_dom_sf
IPR029548 SOX-9
IPR022151 Sox_N
PANTHERiPTHR10270:SF212 PTHR10270:SF212, 1 hit
PfamiView protein in Pfam
PF00505 HMG_box, 1 hit
PF12444 Sox_N, 1 hit
SMARTiView protein in SMART
SM00398 HMG, 1 hit
SUPFAMiSSF47095 SSF47095, 1 hit
PROSITEiView protein in PROSITE
PS50118 HMG_BOX_2, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSOX9A_XENLA
AccessioniPrimary (citable) accession number: B7ZR65
Secondary accession number(s): B7ZR67, Q90YL1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 16, 2009
Last sequence update: March 3, 2009
Last modified: March 28, 2018
This is version 37 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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