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Protein

Histone deacetylase 9-B

Gene

hdac9b

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Devoided of intrinsic deacetylase activity, promotes the deacetylation of lysine residues on the N-terminal part of the core histones (H2A, H2B, H3 and H4) by recruiting other histone deacetylases. Histone deacetylation gives a tag for epigenetic repression and plays an important role in transcriptional regulation, cell cycle progression and developmental events. Represses MEF2-dependent transcription (By similarity).By similarity

Catalytic activityi

Hydrolysis of an N(6)-acetyl-lysine residue of a histone to yield a deacetylated histone.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Hydrolase, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Names & Taxonomyi

Protein namesi
Recommended name:
Histone deacetylase 9-B (EC:3.5.1.98)
Gene namesi
Name:hdac9b
Synonyms:hdac9
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
ProteomesiUP000000437 Componenti: Unplaced

Organism-specific databases

ZFINiZDB-GENE-040109-7. hdac9b.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 582582Histone deacetylase 9-BPRO_0000280537Add
BLAST

Proteomic databases

PRIDEiQ6PBI4.

Interactioni

Subunit structurei

Homodimer. Interacts with mef2 (By similarity).By similarity

Protein-protein interaction databases

STRINGi7955.ENSDARP00000094362.

Structurei

3D structure databases

ProteinModelPortaliQ6PBI4.
SMRiQ6PBI4. Positions 37-104.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni146 – 19550Interaction with mef2By similarityAdd
BLAST

Sequence similaritiesi

Phylogenomic databases

eggNOGiNOG302232.
HOGENOMiHOG000232065.
HOVERGENiHBG057100.
InParanoidiQ6PBI4.
KOiK11409.
PhylomeDBiQ6PBI4.

Family and domain databases

InterProiIPR000286. His_deacetylse.
IPR024643. Hist_deacetylase_Gln_rich_N.
[Graphical view]
PANTHERiPTHR10625. PTHR10625. 1 hit.
PfamiPF12203. HDAC4_Gln. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q6PBI4-1) [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
MHNVNNSVDI KPEVPLALDP GSPLDLRTDI RMQGSASEVT VWERQLQQEL
60 70 80 90 100
LLIQKQQQIQ KQLLITEFQK QHENLVRQHQ AQIQEHLKLQ QELHVMKQQQ
110 120 130 140 150
EQLEKERKLE LQSQERELER HRREQQVLVL RNRERTRESL TGAVASNEVK
160 170 180 190 200
QKLQEFLLSK STKDITLNGI PQKITQSSKL WYTASHHTSL EQSSPPLGGA
210 220 230 240 250
SSSCKISLPS PQDYRDDFPL RKTVSEPNLK VRSRLKQKVA ERRSSPLLRR
260 270 280 290 300
KEGNIMTPFK KRALELLEST ASSSAPGSGP SSPNGACSAL GAENGPSSLP
310 320 330 340 350
VTTRTERWPS QSRLLGPESS VSMLNLYTSP SLPNISLGFS AASSPISAAL
360 370 380 390 400
GLQEKHVDNG AVSAVIQGLP TQLLGPVPLS VMETKVSSSH QALLQHLLQK
410 420 430 440 450
EQLRHQKILS SGQSPVHPPS PLAMMENSPS STRPKLPRHR PLNRTQSAPL
460 470 480 490 500
PQSTLAQLVI QQQHQNFLEK QKQYQQQVHI NKMLSKSIEQ LRQPNVHLQE
510 520 530 540 550
SEEEEGEDCQ EHAMQEESSP SGGVIRKHSP QNTSRSPTIP LDSHPGVIRV
560 570 580
KEEPGASDDE TMANQSSYIH QVKGRMVIQA MI

Note: No experimental confirmation available.

Length:582
Mass (Da):65,117
Last modified:July 5, 2004 - v1
Checksum:iBD2CEF4E205C5EDD
GO
Isoform 2 (identifier: Q6PBI4-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     140-142: Missing.
     182-183: Missing.

Show »
Length:577
Mass (Da):64,581
Checksum:iE1F30E2C776D83D8
GO

Sequence cautioni

The sequence AAQ97977.1 differs from that shown.Intron retention.Curated
The sequence AAQ97977.1 differs from that shown. Reason: Frameshift at positions 348 and 532. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti306 – 3061E → K in AAQ97977 (PubMed:15520368).Curated
Sequence conflicti364 – 3652AV → PD in AAQ97977 (PubMed:15520368).Curated
Sequence conflicti389 – 3891S → I in AAQ97977 (PubMed:15520368).Curated
Sequence conflicti449 – 4491P → T in AAQ97977 (PubMed:15520368).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei140 – 1423Missing in isoform 2. 1 PublicationVSP_029171
Alternative sequencei182 – 1832Missing in isoform 2. 1 PublicationVSP_029172

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY423001 mRNA. Translation: AAQ97977.1. Sequence problems.
BC059696 mRNA. Translation: AAH59696.1.
RefSeqiNP_957110.2. NM_200816.2. [Q6PBI4-1]
UniGeneiDr.25756.

Genome annotation databases

GeneIDi393789.
KEGGidre:393789.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY423001 mRNA. Translation: AAQ97977.1. Sequence problems.
BC059696 mRNA. Translation: AAH59696.1.
RefSeqiNP_957110.2. NM_200816.2. [Q6PBI4-1]
UniGeneiDr.25756.

3D structure databases

ProteinModelPortaliQ6PBI4.
SMRiQ6PBI4. Positions 37-104.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000094362.

Proteomic databases

PRIDEiQ6PBI4.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi393789.
KEGGidre:393789.

Organism-specific databases

CTDi393789.
ZFINiZDB-GENE-040109-7. hdac9b.

Phylogenomic databases

eggNOGiNOG302232.
HOGENOMiHOG000232065.
HOVERGENiHBG057100.
InParanoidiQ6PBI4.
KOiK11409.
PhylomeDBiQ6PBI4.

Miscellaneous databases

NextBioi20814785.
PROiQ6PBI4.

Family and domain databases

InterProiIPR000286. His_deacetylse.
IPR024643. Hist_deacetylase_Gln_rich_N.
[Graphical view]
PANTHERiPTHR10625. PTHR10625. 1 hit.
PfamiPF12203. HDAC4_Gln. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Kidney marrow.
  2. NIH - Zebrafish Gene Collection (ZGC) project
    Submitted (OCT-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Retina.

Entry informationi

Entry nameiHDA9B_DANRE
AccessioniPrimary (citable) accession number: Q6PBI4
Secondary accession number(s): Q6TEP8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 20, 2007
Last sequence update: July 5, 2004
Last modified: April 29, 2015
This is version 67 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.