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Protein

Histone-lysine N-methyltransferase PRDM9

Gene

prdm9

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

Functioni

Histone methyltransferase that specifically trimethylates 'Lys-4' of histone H3 during meiotic prophase and is essential for proper meiotic progression. Does not have the ability to mono- and dimethylate 'Lys-4' of histone H3. H3 'Lys-4' methylation represents a specific tag for epigenetic transcriptional activation. Plays a central role in the transcriptional activation of genes during early meiotic prophase (By similarity).By similarity

Catalytic activityi

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

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri230 – 25324C2H2-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri337 – 36024C2H2-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri366 – 38823C2H2-type 3PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri405 – 42824C2H2-type 4PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri508 – 52821C2H2-type 5; degeneratePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri547 – 56923C2H2-type 6; degeneratePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri575 – 59824C2H2-type 7PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri604 – 62623C2H2-type 8PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri644 – 66623C2H2-type 9PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri689 – 71123C2H2-type 10; degeneratePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri717 – 73923C2H2-type 11PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri745 – 76723C2H2-type 12PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri773 – 79523C2H2-type 13PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri801 – 82323C2H2-type 14PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri829 – 85224C2H2-type 15PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator, Chromatin regulator, Methyltransferase, Transferase

Keywords - Biological processi

Meiosis, Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding, S-adenosyl-L-methionine, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Histone-lysine N-methyltransferase PRDM9 (EC:2.1.1.43)
Alternative name(s):
PR domain zinc finger protein 9
PR domain-containing protein 9
Gene namesi
Name:prdm9
ORF Names:zgc:63970
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Chromosome 12

Organism-specific databases

ZFINiZDB-GENE-040426-1319. prdm9.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 853853Histone-lysine N-methyltransferase PRDM9PRO_0000363962Add
BLAST

Proteomic databases

PaxDbiQ6P2A1.

Expressioni

Gene expression databases

BgeeiENSDARG00000005382.

Interactioni

Protein-protein interaction databases

STRINGi7955.ENSDARP00000026323.

Structurei

3D structure databases

ProteinModelPortaliQ6P2A1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini83 – 197115SETPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the class V-like SAM-binding methyltransferase superfamily.PROSITE-ProRule annotation
Contains 15 C2H2-type zinc fingers.PROSITE-ProRule annotation
Contains 1 SET domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri230 – 25324C2H2-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri337 – 36024C2H2-type 2PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri366 – 38823C2H2-type 3PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri405 – 42824C2H2-type 4PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri508 – 52821C2H2-type 5; degeneratePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri547 – 56923C2H2-type 6; degeneratePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri575 – 59824C2H2-type 7PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri604 – 62623C2H2-type 8PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri644 – 66623C2H2-type 9PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri689 – 71123C2H2-type 10; degeneratePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri717 – 73923C2H2-type 11PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri745 – 76723C2H2-type 12PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri773 – 79523C2H2-type 13PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri801 – 82323C2H2-type 14PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri829 – 85224C2H2-type 15PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG1721. Eukaryota.
COG5048. LUCA.
GeneTreeiENSGT00830000128341.
HOGENOMiHOG000205053.
InParanoidiQ6P2A1.
OMAiKSFSRPQ.
OrthoDBiEOG091G02KC.
PhylomeDBiQ6P2A1.
TreeFamiTF315885.

Family and domain databases

Gene3Di3.30.160.60. 10 hits.
InterProiIPR001214. SET_dom.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamiPF00096. zf-C2H2. 2 hits.
[Graphical view]
SMARTiSM00355. ZnF_C2H2. 13 hits.
[Graphical view]
PROSITEiPS50280. SET. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 12 hits.
PS50157. ZINC_FINGER_C2H2_2. 12 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q6P2A1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSLSPDLPPS EEQNLEIQGS ATNCYSVVII EEQDDTFNDQ PFYCEMCQQH
60 70 80 90 100
FIDQCETHGP PSFTCDSPAA LGTPQRALLT LPQGLVIGRS SISHAGLGVF
110 120 130 140 150
NQGQTVPLGM HFGPFDGEEI SEEKALDSAN SWVICRGNNQ YSYIDAEKDT
160 170 180 190 200
HSNWMKFVVC SRSETEQNLV AFQQNGRILF RCCRPISPGQ EFRVWYAEEY
210 220 230 240 250
AQGLGAIWDK IWDNKCISQG STEEQATQNC PCPFCHYSFP TLVYLHAHVK
260 270 280 290 300
RTHPNEYAQF TQTHPLESEA HTPITEVEQC LVASDEALST QTQPVTESPQ
310 320 330 340 350
EQISTQNGQP IHQTENSDEP DASDIYTAAG EISDEIHACV DCGRSFLRSC
360 370 380 390 400
HLKRHQRTIH SKEKPYCCSQ CKKCFSQATG LKRHQHTHQE QEKNIESPDR
410 420 430 440 450
PSDIYPCTKC TLSFVAKINL HQHLKRHHHG EYLRLVESGS LTAETEEDHT
460 470 480 490 500
EVCFDKQDPN YEPPSRGRKS TKNSLKGRGC PKKVAVGRPR GRPPKNKNLE
510 520 530 540 550
VEVQKISPIC TNCEQSFSDL ETLKTHQCPR RDDEGDNVEH PQEASQYICG
560 570 580 590 600
ECIRAFSNLD LLKAHECIQQ GEGSYCCPHC DLYFNRMCNL RRHERTIHSK
610 620 630 640 650
EKPYCCTVCL KSFTQSSGLK RHQQSHLRRK SHRQSSALFT AAIFPCAYCP
660 670 680 690 700
FSFTDERYLY KHIRRHHPEM SLKYLSFQEG GVLSVEKPHS CSQCCKSFST
710 720 730 740 750
IKGFKNHSCF KQGEKVYLCP DCGKAFSWFN SLKQHQRIHT GEKPYTCSQC
760 770 780 790 800
GKSFVHSGQL NVHLRTHTGE KPFLCSQCGE SFRQSGDLRR HEQKHSGVRP
810 820 830 840 850
CQCPDCGKSF SRPQSLKAHQ QLHVGTKLFP CTQCGKSFTR RYHLTRHHQK

MHS
Length:853
Mass (Da):97,136
Last modified:July 5, 2004 - v1
Checksum:i44A40327A3F0BAC4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC064665 mRNA. Translation: AAH64665.1.
DQ851831 mRNA. Translation: ABI34500.1.
RefSeqiNP_957196.1. NM_200902.1.
UniGeneiDr.80491.

Genome annotation databases

EnsembliENSDART00000027321; ENSDARP00000026323; ENSDARG00000005382.
GeneIDi393876.
KEGGidre:393876.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC064665 mRNA. Translation: AAH64665.1.
DQ851831 mRNA. Translation: ABI34500.1.
RefSeqiNP_957196.1. NM_200902.1.
UniGeneiDr.80491.

3D structure databases

ProteinModelPortaliQ6P2A1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000026323.

Proteomic databases

PaxDbiQ6P2A1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000027321; ENSDARP00000026323; ENSDARG00000005382.
GeneIDi393876.
KEGGidre:393876.

Organism-specific databases

CTDi56979.
ZFINiZDB-GENE-040426-1319. prdm9.

Phylogenomic databases

eggNOGiKOG1721. Eukaryota.
COG5048. LUCA.
GeneTreeiENSGT00830000128341.
HOGENOMiHOG000205053.
InParanoidiQ6P2A1.
OMAiKSFSRPQ.
OrthoDBiEOG091G02KC.
PhylomeDBiQ6P2A1.
TreeFamiTF315885.

Miscellaneous databases

PROiQ6P2A1.

Gene expression databases

BgeeiENSDARG00000005382.

Family and domain databases

Gene3Di3.30.160.60. 10 hits.
InterProiIPR001214. SET_dom.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamiPF00096. zf-C2H2. 2 hits.
[Graphical view]
SMARTiSM00355. ZnF_C2H2. 13 hits.
[Graphical view]
PROSITEiPS50280. SET. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 12 hits.
PS50157. ZINC_FINGER_C2H2_2. 12 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPRDM9_DANRE
AccessioniPrimary (citable) accession number: Q6P2A1
Secondary accession number(s): A5XCD9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 10, 2009
Last sequence update: July 5, 2004
Last modified: September 7, 2016
This is version 103 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

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 one 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.