UniProtKB - Q9NQW5 (PRDM7_HUMAN)
Histone-lysine N-methyltransferase PRDM7
PRDM7
Functioni
Histone methyltransferase that selectively methylates 'Lys-4' of dimethylated histone H3 (H3K4me2) to produce trimethylated 'Lys-4' histone H3 (H3K4me3). May play a role in epigenetic regulation of gene expression by defining an active chromatin state.
1 PublicationCatalytic activityi
- N6,N6-dimethyl-L-lysyl4-[histone H3] + S-adenosyl-L-methionine = H+ + N6,N6,N6-trimethyl-L-lysyl4-[histone H3] + S-adenosyl-L-homocysteine1 PublicationThis reaction proceeds in the forward1 Publication direction.
Kineticsi
- KM=900 µM for S-adenosyl-L-methionine1 Publication
- KM=0.8 µM for H3K4me01 Publication
- KM=0.7 µM for H3K4me11 Publication
- KM=3.5 µM for H3K4me21 Publication
GO - Molecular functioni
- histone methyltransferase activity (H3-K36 specific) Source: GO_Central
- histone methyltransferase activity (H3-K4 specific) Source: ARUK-UCL
- recombination hotspot binding Source: GO_Central
GO - Biological processi
- chromatin organization Source: UniProtKB-KW
- histone H3-K4 trimethylation Source: ARUK-UCL
- positive regulation of reciprocal meiotic recombination Source: GO_Central
- regulation of gene expression Source: GO_Central
- regulation of transcription, DNA-templated Source: InterPro
Keywordsi
Molecular function | Chromatin regulator, Methyltransferase, Transferase |
Ligand | S-adenosyl-L-methionine |
Enzyme and pathway databases
BRENDAi | 2.1.1.354, 2681 |
PathwayCommonsi | Q9NQW5 |
Reactomei | R-HSA-212436, Generic Transcription Pathway |
SignaLinki | Q9NQW5 |
Names & Taxonomyi
Protein namesi | Recommended name: Histone-lysine N-methyltransferase PRDM7 (EC:2.1.1.-1 Publication)Alternative name(s): PR domain zinc finger protein 7 PR domain-containing protein 7 [histone H3]-lysine4 N-methyltransferase PRDM7 |
Gene namesi | |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:9351, PRDM7 |
MIMi | 609759, gene |
neXtProti | NX_Q9NQW5 |
VEuPathDBi | HostDB:ENSG00000126856 |
Subcellular locationi
Nucleus
- Nucleus Curated
Other locations
- Chromosome Curated
Nucleus
- nucleus Source: GO_Central
Other locations
- chromosome Source: UniProtKB-SubCell
Keywords - Cellular componenti
Chromosome, NucleusPathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 289 | S → N: Gains the ability to sequentially mono-, di-, and tri-methylate both 'Lys-4' and 'Lys-36' of histone H3, albeit with lower efficiency when compared to PRDM9. 1 Publication | 1 | |
Mutagenesisi | 312 | S → W: Gains the ability to sequentially mono-, di-, and tri-methylate both 'Lys-4' and 'Lys-36' of histone H3, albeit with lower efficiency when compared to PRDM9. 1 Publication | 1 | |
Mutagenesisi | 357 | S → Y: Substantially increases histone-lysine N-methyltransferase activity. Gains the catalytic competency of PRDM9. Sequentially mono-, di-, and tri-methylates both 'Lys-4' and 'Lys-36' of histone H3. 1 Publication | 1 |
Organism-specific databases
DisGeNETi | 11105 |
OpenTargetsi | ENSG00000126856 |
PharmGKBi | PA33719 |
Miscellaneous databases
Pharosi | Q9NQW5, Tdark |
Genetic variation databases
BioMutai | PRDM7 |
DMDMi | 223590134 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000047763 | 1 – 492 | Histone-lysine N-methyltransferase PRDM7Add BLAST | 492 |
Proteomic databases
jPOSTi | Q9NQW5 |
MassIVEi | Q9NQW5 |
PaxDbi | Q9NQW5 |
PeptideAtlasi | Q9NQW5 |
PRIDEi | Q9NQW5 |
ProteomicsDBi | 82207 [Q9NQW5-1] 82208 [Q9NQW5-2] |
PTM databases
iPTMneti | Q9NQW5 |
PhosphoSitePlusi | Q9NQW5 |
Expressioni
Gene expression databases
Bgeei | ENSG00000126856, Expressed in amniotic fluid and 64 other tissues |
ExpressionAtlasi | Q9NQW5, baseline and differential |
Organism-specific databases
HPAi | ENSG00000126856, Tissue enriched (testis) |
Interactioni
Binary interactionsi
Q9NQW5
With | #Exp. | IntAct |
---|---|---|
TRAF1 [Q13077] | 3 | EBI-10312471,EBI-359224 |
Protein-protein interaction databases
BioGRIDi | 116286, 11 interactors |
IntActi | Q9NQW5, 9 interactors |
MINTi | Q9NQW5 |
STRINGi | 9606.ENSP00000396732 |
Miscellaneous databases
RNActi | Q9NQW5, protein |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 23 – 86 | KRAB-relatedPROSITE-ProRule annotationAdd BLAST | 64 | |
Domaini | 244 – 358 | SETPROSITE-ProRule annotationAdd BLAST | 115 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 1 – 22 | DisorderedSequence analysisAdd BLAST | 22 | |
Regioni | 111 – 179 | DisorderedSequence analysisAdd BLAST | 69 |
Compositional bias
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Compositional biasi | 118 – 165 | Polar residuesSequence analysisAdd BLAST | 48 |
Phylogenomic databases
eggNOGi | KOG2461, Eukaryota |
GeneTreei | ENSGT00940000158211 |
HOGENOMi | CLU_042879_1_0_1 |
InParanoidi | Q9NQW5 |
OMAi | EDCHELY |
OrthoDBi | 1318335at2759 |
PhylomeDBi | Q9NQW5 |
TreeFami | TF337915 |
Family and domain databases
CDDi | cd07765, KRAB_A-box, 1 hit cd19193, PR-SET_PRDM7_9, 1 hit |
Gene3Di | 2.170.270.10, 1 hit |
InterProi | View protein in InterPro IPR001909, KRAB IPR036051, KRAB_dom_sf IPR003655, Krueppel-associated_box-rel IPR044417, PRDM7_9_PR-SET IPR001214, SET_dom IPR046341, SET_dom_sf IPR019041, SSXRD_motif |
Pfami | View protein in Pfam PF01352, KRAB, 1 hit PF09514, SSXRD, 1 hit |
SMARTi | View protein in SMART SM00349, KRAB, 1 hit |
SUPFAMi | SSF109640, SSF109640, 1 hit |
PROSITEi | View protein in PROSITE PS50806, KRAB_RELATED, 1 hit PS50280, SET, 1 hit |
s (3+)i Sequence
Sequence statusi: Complete.
This entry describes 3 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 3 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MSPERSQEES PEGDTERTER KPMVKDAFKD ISIYFTKEEW AEMGDWEKTR
60 70 80 90 100
YRNVKMNYNA LITVGLRATR PAFMCHRRQA IKLQVDDTED SDEEWTPRQQ
110 120 130 140 150
VKPPWMAFRG EQSKHQKGMP KASFNNESSL RELSGTPNLL NTSDSEQAQK
160 170 180 190 200
PVSPPGEAST SGQHSRLKLE LRRKETEGKM YSLRERKGHA YKEISEPQDD
210 220 230 240 250
DYLYCEMCQN FFIDSCAAHG PPTFVKDSAV DKGHPNRSAL SLPPGLRIGP
260 270 280 290 300
SGIPQAGLGV WNEASDLPLG LHFGPYEGRI TEDEEAANSG YSWLITKGRN
310 320 330 340 350
CYEYVDGKDK SSANWMRYVN CARDDEEQNL VAFQYHRQIF YRTCRVIRPG
360 370 380 390 400
CELLVWSGDE YGQELGIRSS IEPAESLGQA VNCWSGMGMS MARNWASSGA
410 420 430 440 450
ASGRKSSWQG ENQSQRSIHV PHAVWPFQVK NFSVNMWNAI TPLRTSQDHL
460 470 480 490
QENFSNQRIP AQGIRIRSGN ILIHAAVMTK PKVKRSKKGP NS
The sequence of this isoform differs from the canonical sequence as follows:
1-206: Missing.
368-492: RSSIEPAESL...VKRSKKGPNS → KWGSKWKKEL...GEAPVCRKDE
Computationally mapped potential isoform sequencesi
There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketA4Q9G9 | A4Q9G9_HUMAN | Histone-lysine N-methyltransferase ... | PRDM7 PRDM7_V2 | 138 | Annotation score: | ||
H3BUJ3 | H3BUJ3_HUMAN | Histone-lysine N-methyltransferase ... | PRDM7 | 73 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 357 | S → Y in AAF78084 (PubMed:10668202).Curated | 1 |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_057461 | 90 | D → E1 PublicationCorresponds to variant dbSNP:rs12925933Ensembl. | 1 | |
Natural variantiVAR_057462 | 131 | R → K. Corresponds to variant dbSNP:rs2078478Ensembl. | 1 | |
Natural variantiVAR_057463 | 435 | N → K. Corresponds to variant dbSNP:rs7206111Ensembl. | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_036349 | 1 – 206 | Missing in isoform 2 and isoform 3. 2 PublicationsAdd BLAST | 206 | |
Alternative sequenceiVSP_006930 | 318 – 377 | YVNCA…PAESL → TKARDPSMSLMLSGLFKSKI SQSTCGTQSLLSELPRTICK KTSPTRESLPRGSESGAAIF in isoform 2. 2 PublicationsAdd BLAST | 60 | |
Alternative sequenceiVSP_036350 | 368 – 492 | RSSIE…KGPNS → KWGSKWKKELMAGREPKPEI HPCPSCCLAFSSQKFLSQHV ERNHSSQNFPGPSARKLLQP ENPCPGDQNQERQYSDPRCC NDKTKGQEIKERSKLLNKRT WQREISRAFSSPPKGQMGSS RVGERMMEEESRTGQKVNPG NTGKLFVGVGISRIAKVKYG ECGQGFSDKSDVITHQRTHT GGKPYVCRECGEGFSRKSDL LSHQRTHTGEKPYVCRECER GFSRKSVLLIHQRTHRGEAP VCRKDE in isoform 3. 1 PublicationAdd BLAST | 125 | |
Alternative sequenceiVSP_006931 | 378 – 492 | Missing in isoform 2. 2 PublicationsAdd BLAST | 115 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AM690991 mRNA Translation: CAM84449.1 AF274347 mRNA Translation: AAF78084.1 AF274348 mRNA Translation: AAF78085.1 CH471184 Genomic DNA Translation: EAW66654.1 BC107033 mRNA Translation: AAI07034.1 |
CCDSi | CCDS45557.1 [Q9NQW5-3] |
RefSeqi | NP_001091643.1, NM_001098173.1 [Q9NQW5-3] XP_005256331.1, XM_005256274.3 |
Genome annotation databases
Ensembli | ENST00000449207.8; ENSP00000396732.2; ENSG00000126856.16 |
GeneIDi | 11105 |
KEGGi | hsa:11105 |
MANE-Selecti | ENST00000449207.8; ENSP00000396732.2; NM_001098173.2; NP_001091643.1 |
UCSCi | uc010cje.4, human [Q9NQW5-3] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AM690991 mRNA Translation: CAM84449.1 AF274347 mRNA Translation: AAF78084.1 AF274348 mRNA Translation: AAF78085.1 CH471184 Genomic DNA Translation: EAW66654.1 BC107033 mRNA Translation: AAI07034.1 |
CCDSi | CCDS45557.1 [Q9NQW5-3] |
RefSeqi | NP_001091643.1, NM_001098173.1 [Q9NQW5-3] XP_005256331.1, XM_005256274.3 |
3D structure databases
AlphaFoldDBi | Q9NQW5 |
SMRi | Q9NQW5 |
ModBasei | Search... |
Protein-protein interaction databases
BioGRIDi | 116286, 11 interactors |
IntActi | Q9NQW5, 9 interactors |
MINTi | Q9NQW5 |
STRINGi | 9606.ENSP00000396732 |
PTM databases
iPTMneti | Q9NQW5 |
PhosphoSitePlusi | Q9NQW5 |
Genetic variation databases
BioMutai | PRDM7 |
DMDMi | 223590134 |
Proteomic databases
jPOSTi | Q9NQW5 |
MassIVEi | Q9NQW5 |
PaxDbi | Q9NQW5 |
PeptideAtlasi | Q9NQW5 |
PRIDEi | Q9NQW5 |
ProteomicsDBi | 82207 [Q9NQW5-1] 82208 [Q9NQW5-2] |
Protocols and materials databases
Antibodypediai | 67566, 64 antibodies from 16 providers |
DNASUi | 11105 |
Genome annotation databases
Ensembli | ENST00000449207.8; ENSP00000396732.2; ENSG00000126856.16 |
GeneIDi | 11105 |
KEGGi | hsa:11105 |
MANE-Selecti | ENST00000449207.8; ENSP00000396732.2; NM_001098173.2; NP_001091643.1 |
UCSCi | uc010cje.4, human [Q9NQW5-3] |
Organism-specific databases
CTDi | 11105 |
DisGeNETi | 11105 |
GeneCardsi | PRDM7 |
HGNCi | HGNC:9351, PRDM7 |
HPAi | ENSG00000126856, Tissue enriched (testis) |
MIMi | 609759, gene |
neXtProti | NX_Q9NQW5 |
OpenTargetsi | ENSG00000126856 |
PharmGKBi | PA33719 |
VEuPathDBi | HostDB:ENSG00000126856 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG2461, Eukaryota |
GeneTreei | ENSGT00940000158211 |
HOGENOMi | CLU_042879_1_0_1 |
InParanoidi | Q9NQW5 |
OMAi | EDCHELY |
OrthoDBi | 1318335at2759 |
PhylomeDBi | Q9NQW5 |
TreeFami | TF337915 |
Enzyme and pathway databases
BRENDAi | 2.1.1.354, 2681 |
PathwayCommonsi | Q9NQW5 |
Reactomei | R-HSA-212436, Generic Transcription Pathway |
SignaLinki | Q9NQW5 |
Miscellaneous databases
BioGRID-ORCSi | 11105, 13 hits in 1030 CRISPR screens |
GenomeRNAii | 11105 |
Pharosi | Q9NQW5, Tdark |
PROi | PR:Q9NQW5 |
RNActi | Q9NQW5, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000126856, Expressed in amniotic fluid and 64 other tissues |
ExpressionAtlasi | Q9NQW5, baseline and differential |
Family and domain databases
CDDi | cd07765, KRAB_A-box, 1 hit cd19193, PR-SET_PRDM7_9, 1 hit |
Gene3Di | 2.170.270.10, 1 hit |
InterProi | View protein in InterPro IPR001909, KRAB IPR036051, KRAB_dom_sf IPR003655, Krueppel-associated_box-rel IPR044417, PRDM7_9_PR-SET IPR001214, SET_dom IPR046341, SET_dom_sf IPR019041, SSXRD_motif |
Pfami | View protein in Pfam PF01352, KRAB, 1 hit PF09514, SSXRD, 1 hit |
SMARTi | View protein in SMART SM00349, KRAB, 1 hit |
SUPFAMi | SSF109640, SSF109640, 1 hit |
PROSITEi | View protein in PROSITE PS50806, KRAB_RELATED, 1 hit PS50280, SET, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | PRDM7_HUMAN | |
Accessioni | Q9NQW5Primary (citable) accession number: Q9NQW5 Secondary accession number(s): A4Q9G8, Q08EM4, Q9NQW4 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | November 16, 2001 |
Last sequence update: | February 10, 2009 | |
Last modified: | May 25, 2022 | |
This is version 167 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | 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. |
Miscellaneousi
Keywords - Technical termi
Reference proteomeDocuments
- Human chromosome 16
Human chromosome 16: entries, gene names and cross-references to MIM - Human entries with genetic variants
List of human entries with genetic variants - Human variants curated from literature reports
Index of human variants curated from literature reports - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot