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Q9UKN5 (PRDM4_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 127. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
PR domain zinc finger protein 4

EC=2.1.1.-
Alternative name(s):
PR domain-containing protein 4
Gene names
Name:PRDM4
Synonyms:PFM1
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length801 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

May function as a transcription factor involved in cell differentiation.

Subcellular location

Nucleus Potential.

Tissue specificity

Expressed in many tissues. Highly expressed in ovary, testis, pancreas, brain, heart and prostate.

Sequence similarities

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

Contains 6 C2H2-type zinc fingers.

Contains 1 SET domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 801801PR domain zinc finger protein 4
PRO_0000047760

Regions

Domain412 – 529118SET
Zinc finger545 – 56622C2H2-type 1; atypical
Zinc finger618 – 64023C2H2-type 2
Zinc finger646 – 66823C2H2-type 3
Zinc finger674 – 69623C2H2-type 4
Zinc finger702 – 72423C2H2-type 5
Zinc finger730 – 75223C2H2-type 6; atypical

Experimental info

Sequence conflict161E → A in AAD55249. Ref.1
Sequence conflict5801H → I in AAD55249. Ref.1
Sequence conflict6081H → Y in AAD55249. Ref.1
Sequence conflict662 – 6632ES → GV in AAD55249. Ref.1

Secondary structure

............................... 801
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q9UKN5 [UniParc].

Last modified November 8, 2002. Version 3.
Checksum: 13B9B94F0825D113

FASTA80187,920
        10         20         30         40         50         60 
MHHRMNEMNL SPVGMEQLTS SSVSNALPVS GSHLGLAASP THSAIPAPGL PVAIPNLGPS 

        70         80         90        100        110        120 
LSSLPSALSL MLPMGIGDRG VMCGLPERNY TLPPPPYPHL ESSYFRTILP GILSYLADRP 

       130        140        150        160        170        180 
PPQYIHPNSI NVDGNTALSI TNNPSALDPY QSNGNVGLEP GIVSIDSRSV NTHGAQSLHP 

       190        200        210        220        230        240 
SDGHEVALDT AITMENVSRV TSPISTDGMA EELTMDGVAG EHSQIPNGSR SHEPLSVDSV 

       250        260        270        280        290        300 
SNNLAADAVG HGGVIPMHGN GLELPVVMET DHIASRVNGM SDSALSDSIH TVAMSTNSVS 

       310        320        330        340        350        360 
VALSTSHNLA SLESVSLHEV GLSLEPVAVS SITQEVAMGT GHVDVSSDSL SFVSPSLQME 

       370        380        390        400        410        420 
DSNSNKENMA TLFTIWCTLC DRAYPSDCPE HGPVTFVPDT PIESRARLSL PKQLVLRQSI 

       430        440        450        460        470        480 
VGAEVGVWTG ETIPVRTCFG PLIGQQSHSM EVAEWTDKAV NHIWKIYHNG VLEFCIITTD 

       490        500        510        520        530        540 
ENECNWMMFV RKARNREEQN LVAYPHDGKI FFCTSQDIPP ENELLFYYSR DYAQQIGVPE 

       550        560        570        580        590        600 
HPDVHLCNCG KECNSYTEFK AHLTSHIHNH LPTQGHSGSH GPSHSKERKW KCSMCPQAFI 

       610        620        630        640        650        660 
SPSKLHVHFM GHMGMKPHKC DFCSKAFSDP SNLRTHLKIH TGQKNYRCTL CDKSFTQKAH 

       670        680        690        700        710        720 
LESHMVIHTG EKNLKCDYCD KLFMRRQDLK QHVLIHTQER QIKCPKCDKL FLRTNHLKKH 

       730        740        750        760        770        780 
LNSHEGKRDY VCEKCTKAYL TKYHLTRHLK TCKGPTSSSS APEEEEEDDS EEEDLADSVG 

       790        800 
TEDCRINSAV YSADESLSAH K 

« Hide

References

« Hide 'large scale' references
[1]"PFM1 (PRDM4), a new member of the PR-domain family, maps to a tumor suppressor locus on human chromosome 12q23-q24.1."
Yang X.-H., Huang S.
Genomics 61:319-325(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]"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: Testis.
[3]"The full-ORF clone resource of the German cDNA consortium."
Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U., Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D., Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A., Wiemann S., Schupp I.
BMC Genomics 8:399-399(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 77-801.
Tissue: Testis.
[4]"The crystal structure of methyltransferase domain of human PR domain-containing protein 4."
Structural genomics consortium (SGC)
Submitted (AUG-2008) to the PDB data bank
Cited for: X-RAY CRYSTALLOGRAPHY (2.15 ANGSTROMS) OF 390-540.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF144757 mRNA. Translation: AAD55249.2.
BC035581 mRNA. Translation: AAH35581.1.
AL133083 mRNA. Translation: CAB61401.1.
PIRT42688.
RefSeqNP_036538.3. NM_012406.3.
UniGeneHs.506655.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2L9ZNMR-A366-402[»]
3DB5X-ray2.15A/B390-540[»]
ProteinModelPortalQ9UKN5.
SMRQ9UKN5. Positions 365-801.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid116288. 10 interactions.
IntActQ9UKN5. 3 interactions.
MINTMINT-1183894.
STRING9606.ENSP00000228437.

PTM databases

PhosphoSiteQ9UKN5.

Polymorphism databases

DMDM25008960.

Proteomic databases

PaxDbQ9UKN5.
PRIDEQ9UKN5.

Protocols and materials databases

DNASU11108.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000228437; ENSP00000228437; ENSG00000110851.
GeneID11108.
KEGGhsa:11108.
UCSCuc001tmp.3. human.

Organism-specific databases

CTD11108.
GeneCardsGC12M108126.
HGNCHGNC:9348. PRDM4.
HPAHPA024322.
MIM605780. gene.
neXtProtNX_Q9UKN5.
PharmGKBPA33716.
GenAtlasSearch...

Phylogenomic databases

eggNOGCOG5048.
HOGENOMHOG000060213.
HOVERGENHBG053672.
InParanoidQ9UKN5.
KOK12463.
OMAVLEFCII.
OrthoDBEOG7R830T.
PhylomeDBQ9UKN5.
TreeFamTF332513.

Enzyme and pathway databases

ReactomeREACT_111102. Signal Transduction.

Gene expression databases

ArrayExpressQ9UKN5.
BgeeQ9UKN5.
CleanExHS_PRDM4.
GenevestigatorQ9UKN5.

Family and domain databases

Gene3D3.30.160.60. 6 hits.
InterProIPR001214. SET_dom.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
IPR017124. Znf_PRDM4.
[Graphical view]
PfamPF00096. zf-C2H2. 1 hit.
[Graphical view]
PIRSFPIRSF037161. PRDM4. 1 hit.
SMARTSM00317. SET. 1 hit.
SM00355. ZnF_C2H2. 7 hits.
[Graphical view]
PROSITEPS50280. SET. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 5 hits.
PS50157. ZINC_FINGER_C2H2_2. 6 hits.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceQ9UKN5.
GenomeRNAi11108.
NextBio42234.
PROQ9UKN5.
SOURCESearch...

Entry information

Entry namePRDM4_HUMAN
AccessionPrimary (citable) accession number: Q9UKN5
Secondary accession number(s): Q9UFA6
Entry history
Integrated into UniProtKB/Swiss-Prot: November 16, 2001
Last sequence update: November 8, 2002
Last modified: April 16, 2014
This is version 127 of the entry and version 3 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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome 12

Human chromosome 12: entries, gene names and cross-references to MIM