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Q9NQX0 (PRDM6_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 112. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Putative histone-lysine N-methyltransferase PRDM6

EC=2.1.1.43
Alternative name(s):
PR domain zinc finger protein 6
PR domain-containing protein 6
Gene names
Name:PRDM6
Synonyms:PFM3
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length595 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Putative histone methyltransferase that acts as a transcriptional repressor of smooth muscle gene expression. Promotes the transition from differentiated to proliferative smooth muscle by suppressing differentiation and maintaining the proliferative potential of vascular smooth muscle cells. Also plays a role in endothelial cells by inhibiting endothelial cell proliferation, survival and differentiation. It is unclear whether it has histone methyltransferase activity in vivo. According to some authors, it does not act as a histone methyltransferase by itself and represses transcription by recruiting EHMT2/G9a. According to others, it possesses histone methyltransferase activity when associated with other proteins and specifically methylates 'Lys-20' of histone H4 in vitro. 'Lys-20' methylation represents a specific tag for epigenetic transcriptional repression By similarity.

Catalytic activity

S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].

Subunit structure

Interacts with HDAC1, HDAC2, HDAC3, CBX1 and EP300 By similarity.

Subcellular location

Nucleus By similarity.

Sequence similarities

Belongs to the class V-like SAM-binding methyltransferase superfamily.

Contains 4 C2H2-type zinc fingers.

Contains 1 SET domain.

Sequence caution

The sequence AAF78078.1 differs from that shown. Reason: Erroneous initiation.

The sequence AAF78079.1 differs from that shown. Reason: Erroneous initiation.

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q9NQX0-3)

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.
Isoform 2 (identifier: Q9NQX0-2)

Also known as: B;

The sequence of this isoform differs from the canonical sequence as follows:
     1-182: Missing.
     314-595: Missing.
Isoform 3 (identifier: Q9NQX0-1)

Also known as: A;

The sequence of this isoform differs from the canonical sequence as follows:
     1-182: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 595595Putative histone-lysine N-methyltransferase PRDM6
PRO_0000047762

Regions

Domain246 – 365120SET
Zinc finger473 – 49523C2H2-type 1; degenerate
Zinc finger501 – 52323C2H2-type 2
Zinc finger529 – 55123C2H2-type 3
Zinc finger557 – 57923C2H2-type 4; degenerate
Compositional bias47 – 7327Pro-rich
Compositional bias97 – 10610Poly-Ala
Compositional bias123 – 1297Poly-Ala
Compositional bias151 – 16212Poly-Gly
Compositional bias228 – 2325Poly-Ala

Natural variations

Alternative sequence1 – 182182Missing in isoform 2 and isoform 3.
VSP_036348
Alternative sequence314 – 595282Missing in isoform 2.
VSP_006929

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified February 10, 2009. Version 2.
Checksum: DB8D815E7C107451

FASTA59564,452
        10         20         30         40         50         60 
MLKPGDPGGS AFLKVDPAYL QHWQQLFPHG GAGPLKGSGA AGLLSAPQPL QPPPPPPPPE 

        70         80         90        100        110        120 
RAEPPPDSLR PRPASLSSAS STPASSSTSA SSASSCAAAA AAAALAGLSA LPVSQLPVFA 

       130        140        150        160        170        180 
PLAAAAVAAE PLPPKELCLG ATSGPGPVKC GGGGGGGGEG RGAPRFRCSA EELDYYLYGQ 

       190        200        210        220        230        240 
QRMEIIPLNQ HTSDPNNRCD MCADNRNGEC PMHGPLHSLR RLVGTSSAAA AAPPPELPEW 

       250        260        270        280        290        300 
LRDLPREVCL CTSTVPGLAY GICAAQRIQQ GTWIGPFQGV LLPPEKVQAG AVRNTQHLWE 

       310        320        330        340        350        360 
IYDQDGTLQH FIDGGEPSKS SWMRYIRCAR HCGEQNLTVV QYRSNIFYRA CIDIPRGTEL 

       370        380        390        400        410        420 
LVWYNDSYTS FFGIPLQCIA QDENLNVPST VMEAMCRQDA LQPFNKSSKL APTTQQRSVV 

       430        440        450        460        470        480 
FPQTPCSRNF SLLDKSGPIE SGFNQINVKN QRVLASPTST SQLHSEFSDW HLWKCGQCFK 

       490        500        510        520        530        540 
TFTQRILLQM HVCTQNPDRP YQCGHCSQSF SQPSELRNHV VTHSSDRPFK CGYCGRAFAG 

       550        560        570        580        590 
ATTLNNHIRT HTGEKPFKCE RCERSFTQAT QLSRHQRMPN ECKPITESPE SIEVD 

« Hide

Isoform 2 (B) [UniParc].

Checksum: 1C608683110D5DC2
Show »

FASTA13114,436
Isoform 3 (A) [UniParc].

Checksum: 9D5FCB5B9F885666
Show »

FASTA41346,635

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF272898 mRNA. Translation: AAF78078.1. Different initiation.
AF272899 mRNA. Translation: AAF78079.1. Different initiation.
AC008548 Genomic DNA. No translation available.
AC106786 Genomic DNA. No translation available.
RefSeqNP_001129711.1. NM_001136239.1.
XP_005272185.1. XM_005272128.2.
UniGeneHs.135118.

3D structure databases

ProteinModelPortalQ9NQX0.
SMRQ9NQX0. Positions 225-366, 473-577.
ModBaseSearch...
MobiDBSearch...

PTM databases

PhosphoSiteQ9NQX0.

Polymorphism databases

DMDM223590133.

Proteomic databases

PaxDbQ9NQX0.
PRIDEQ9NQX0.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000407847; ENSP00000384725; ENSG00000061455. [Q9NQX0-3]
GeneID93166.
KEGGhsa:93166.
UCSCuc003kti.3. human. [Q9NQX0-3]

Organism-specific databases

CTD93166.
GeneCardsGC05P122424.
HGNCHGNC:9350. PRDM6.
HPAHPA030322.
HPA030324.
neXtProtNX_Q9NQX0.
PharmGKBPA33718.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG325470.
HOGENOMHOG000090218.
HOVERGENHBG108289.
InParanoidQ9NQX0.
OMAIVFPQTP.
OrthoDBEOG776SPN.
PhylomeDBQ9NQX0.
TreeFamTF106403.

Gene expression databases

BgeeQ9NQX0.
CleanExHS_PRDM6.
GenevestigatorQ9NQX0.

Family and domain databases

Gene3D3.30.160.60. 3 hits.
InterProIPR001214. SET_dom.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamPF00856. SET. 1 hit.
PF00096. zf-C2H2. 1 hit.
[Graphical view]
SMARTSM00317. SET. 1 hit.
SM00355. ZnF_C2H2. 4 hits.
[Graphical view]
PROSITEPS50280. SET. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 2 hits.
PS50157. ZINC_FINGER_C2H2_2. 4 hits.
[Graphical view]
ProtoNetSearch...

Other

GenomeRNAi93166.
NextBio78013.
PROQ9NQX0.

Entry information

Entry namePRDM6_HUMAN
AccessionPrimary (citable) accession number: Q9NQX0
Secondary accession number(s): B5MCJ4, Q9NQW9
Entry history
Integrated into UniProtKB/Swiss-Prot: November 8, 2002
Last sequence update: February 10, 2009
Last modified: April 16, 2014
This is version 112 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

Human chromosome 5

Human chromosome 5: entries, gene names and cross-references to MIM