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Protein

PR domain zinc finger protein 2

Gene

PRDM2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

S-adenosyl-L-methionine-dependent histone methyltransferase that specifically methylates 'Lys-9' of histone H3. May function as a DNA-binding transcription factor. Binds to the macrophage-specific TPA-responsive element (MTE) of the HMOX1 (heme oxygenase 1) gene and may act as a transcriptional activator of this gene.1 Publication

Catalytic activityi

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

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri360 – 382C2H2-type 1PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri390 – 412C2H2-type 2PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri483 – 506C2H2-type 3PROSITE-ProRule annotationAdd BLAST24
Zinc fingeri1134 – 1156C2H2-type 4PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri1162 – 1185C2H2-type 5PROSITE-ProRule annotationAdd BLAST24
Zinc fingeri1191 – 1214C2H2-type 6PROSITE-ProRule annotationAdd BLAST24
Zinc fingeri1333 – 1355C2H2-type 7; atypicalPROSITE-ProRule annotationAdd BLAST23
Zinc fingeri1455 – 1478C2H2-type 8; atypicalPROSITE-ProRule annotationAdd BLAST24

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • histone-lysine N-methyltransferase activity Source: UniProtKB-EC
  • transcription factor activity, sequence-specific DNA binding Source: UniProtKB
  • zinc ion binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator, Methyltransferase, Transferase

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

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

Enzyme and pathway databases

BioCyciZFISH:HS04042-MONOMER.
SIGNORiQ13029.

Names & Taxonomyi

Protein namesi
Recommended name:
PR domain zinc finger protein 2 (EC:2.1.1.43)
Alternative name(s):
GATA-3-binding protein G3B
Lysine N-methyltransferase 8
MTB-ZF
MTE-binding protein
PR domain-containing protein 2
Retinoblastoma protein-interacting zinc finger protein
Zinc finger protein RIZ
Gene namesi
Name:PRDM2
Synonyms:KMT8, RIZ
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:9347. PRDM2.

Subcellular locationi

GO - Cellular componenti

  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi106C → Y: Reduced histone methyltransferase activity. 1 Publication1
Mutagenesisi159A → V: Reduced histone methyltransferase activity. 1 Publication1
Mutagenesisi188I → V: Loss of histone methyltransferase activity. 1 Publication1

Organism-specific databases

DisGeNETi7799.
OpenTargetsiENSG00000116731.
PharmGKBiPA33715.

Polymorphism and mutation databases

BioMutaiPRDM2.
DMDMi56757653.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000416341 – 1718PR domain zinc finger protein 2Add BLAST1718

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei421PhosphoserineCombined sources1
Modified residuei643PhosphoserineCombined sources1
Cross-linki651Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei743PhosphoserineCombined sources1
Cross-linki774Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei781PhosphoserineBy similarity1
Modified residuei785PhosphoserineBy similarity1
Modified residuei796PhosphoserineCombined sources1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ13029.
MaxQBiQ13029.
PaxDbiQ13029.
PeptideAtlasiQ13029.
PRIDEiQ13029.

PTM databases

iPTMnetiQ13029.
PhosphoSitePlusiQ13029.

Expressioni

Tissue specificityi

Highly expressed in retinoblastoma cell lines and in brain tumors. Also expressed in a number of other cell lines and in brain, heart, skeletal muscle, liver and spleen. Isoform 1 is expressed in testis at much higher level than isoform 3.2 Publications

Gene expression databases

BgeeiENSG00000116731.
CleanExiHS_PRDM2.
ExpressionAtlasiQ13029. baseline and differential.
GenevisibleiQ13029. HS.

Organism-specific databases

HPAiHPA005809.

Interactioni

Subunit structurei

Binds to the retinoblastoma protein (RB). Interacts with GATA3.2 Publications

Protein-protein interaction databases

BioGridi113575. 12 interactors.
DIPiDIP-428N.
IntActiQ13029. 3 interactors.
STRINGi9606.ENSP00000235372.

Structurei

Secondary structure

11718
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi5 – 7Combined sources3
Helixi15 – 17Combined sources3
Helixi20 – 24Combined sources5
Beta strandi27 – 29Combined sources3
Beta strandi30 – 34Combined sources5
Turni36 – 39Combined sources4
Beta strandi41 – 48Combined sources8
Beta strandi54 – 59Combined sources6
Beta strandi62 – 64Combined sources3
Helixi66 – 68Combined sources3
Beta strandi72 – 80Combined sources9
Turni81 – 83Combined sources3
Beta strandi84 – 89Combined sources6
Helixi93 – 95Combined sources3
Helixi98 – 101Combined sources4
Beta strandi106 – 110Combined sources5
Beta strandi113 – 118Combined sources6
Beta strandi121 – 128Combined sources8
Helixi146 – 158Combined sources13

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2JV0NMR-A1-161[»]
2QPWX-ray1.79A2-148[»]
ProteinModelPortaliQ13029.
SMRiQ13029.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ13029.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini28 – 141SETPROSITE-ProRule annotationAdd BLAST114

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni294 – 316Retinoblastoma protein bindingAdd BLAST23

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi970 – 979SH3-bindingSequence analysis10
Motifi985 – 998SH3-bindingSequence analysisAdd BLAST14
Motifi1028 – 1052SH3-bindingSequence analysisAdd BLAST25

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi268 – 296Asp/Glu-rich (acidic)Add BLAST29
Compositional biasi933 – 1049Pro-richAdd BLAST117
Compositional biasi1052 – 1074Poly-SerAdd BLAST23
Compositional biasi1361 – 1447Arg/Lys-rich (basic)Add BLAST87

Sequence similaritiesi

Belongs to the class V-like SAM-binding methyltransferase superfamily.PROSITE-ProRule annotation
Contains 8 C2H2-type zinc fingers.PROSITE-ProRule annotation
Contains 1 SET domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri360 – 382C2H2-type 1PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri390 – 412C2H2-type 2PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri483 – 506C2H2-type 3PROSITE-ProRule annotationAdd BLAST24
Zinc fingeri1134 – 1156C2H2-type 4PROSITE-ProRule annotationAdd BLAST23
Zinc fingeri1162 – 1185C2H2-type 5PROSITE-ProRule annotationAdd BLAST24
Zinc fingeri1191 – 1214C2H2-type 6PROSITE-ProRule annotationAdd BLAST24
Zinc fingeri1333 – 1355C2H2-type 7; atypicalPROSITE-ProRule annotationAdd BLAST23
Zinc fingeri1455 – 1478C2H2-type 8; atypicalPROSITE-ProRule annotationAdd BLAST24

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG2461. Eukaryota.
ENOG410ZFVU. LUCA.
GeneTreeiENSGT00730000111050.
HOGENOMiHOG000049035.
HOVERGENiHBG053671.
InParanoidiQ13029.
KOiK11432.
OMAiLERHMHI.
OrthoDBiEOG091G00IG.
PhylomeDBiQ13029.
TreeFamiTF332173.

Family and domain databases

Gene3Di3.30.160.60. 3 hits.
InterProiIPR009170. RIZ_retinblastoma-bd_prot.
IPR001214. SET_dom.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamiPF00856. SET. 1 hit.
PF13912. zf-C2H2_6. 2 hits.
[Graphical view]
PIRSFiPIRSF002395. RIZ_SET. 1 hit.
SMARTiSM00317. SET. 1 hit.
SM00355. ZnF_C2H2. 8 hits.
[Graphical view]
PROSITEiPS50280. SET. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 6 hits.
PS50157. ZINC_FINGER_C2H2_2. 7 hits.
[Graphical view]

Sequences (5)i

Sequence statusi: Complete.

This entry describes 5 isoformsi produced by alternative splicing and alternative initiation. AlignAdd to basket

Isoform 1 (identifier: Q13029-1) [UniParc]FASTAAdd to basket
Also known as: RIZ1

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
MNQNTTEPVA ATETLAEVPE HVLRGLPEEV RLFPSAVDKT RIGVWATKPI
60 70 80 90 100
LKGKKFGPFV GDKKKRSQVK NNVYMWEVYY PNLGWMCIDA TDPEKGNWLR
110 120 130 140 150
YVNWACSGEE QNLFPLEINR AIYYKTLKPI APGEELLVWY NGEDNPEIAA
160 170 180 190 200
AIEEERASAR SKRSSPKSRK GKKKSQENKN KGNKIQDIQL KTSEPDFTSA
210 220 230 240 250
NMRDSAEGPK EDEEKPSASA LEQPATLQEV ASQEVPPELA TPAPAWEPQP
260 270 280 290 300
EPDERLEAAA CEVNDLGEEE EEEEEEDEEE EEDDDDDELE DEGEEEASMP
310 320 330 340 350
NENSVKEPEI RCDEKPEDLL EEPKTTSEET LEDCSEVTPA MQIPRTKEEA
360 370 380 390 400
NGDVFETFMF PCQHCERKFT TKQGLERHMH IHISTVNHAF KCKYCGKAFG
410 420 430 440 450
TQINRRRHER RHEAGLKRKP SQTLQPSEDL ADGKASGENV ASKDDSSPPS
460 470 480 490 500
LGPDCLIMNS EKASQDTINS SVVEENGEVK ELHPCKYCKK VFGTHTNMRR
510 520 530 540 550
HQRRVHERHL IPKGVRRKGG LEEPQPPAEQ AQATQNVYVP STEPEEEGEA
560 570 580 590 600
DDVYIMDISS NISENLNYYI DGKIQTNNNT SNCDVIEMES ASADLYGINC
610 620 630 640 650
LLTPVTVEIT QNIKTTQVPV TEDLPKEPLG STNSEAKKRR TASPPALPKI
660 670 680 690 700
KAETDSDPMV PSCSLSLPLS ISTTEAVSFH KEKSVYLSSK LKQLLQTQDK
710 720 730 740 750
LTPAGISATE IAKLGPVCVS APASMLPVTS SRFKRRTSSP PSSPQHSPAL
760 770 780 790 800
RDFGKPSDGK AAWTDAGLTS KKSKLESHSD SPAWSLSGRD ERETVSPPCF
810 820 830 840 850
DEYKMSKEWT ASSAFSSVCN QQPLDLSSGV KQKAEGTGKT PVQWESVLDL
860 870 880 890 900
SVHKKHCSDS EGKEFKESHS VQPTCSAVKK RKPTTCMLQK VLLNEYNGID
910 920 930 940 950
LPVENPADGT RSPSPCKSLE AQPDPDLGPG SGFPAPTVES TPDVCPSSPA
960 970 980 990 1000
LQTPSLSSGQ LPPLLIPTDP SSPPPCPPVL TVATPPPPLL PTVPLPAPSS
1010 1020 1030 1040 1050
SASPHPCPSP LSNATAQSPL PILSPTVSPS PSPIPPVEPL MSAASPGPPT
1060 1070 1080 1090 1100
LSSSSSSSSS SSSFSSSSSS SSPSPPPLSA ISSVVSSGDN LEASLPMISF
1110 1120 1130 1140 1150
KQEELENEGL KPREEPQSAA EQDVVVQETF NKNFVCNVCE SPFLSIKDLT
1160 1170 1180 1190 1200
KHLSIHAEEW PFKCEFCVQL FKDKTDLSEH RFLLHGVGNI FVCSVCKKEF
1210 1220 1230 1240 1250
AFLCNLQQHQ RDLHPDKVCT HHEFESGTLR PQNFTDPSKA HVEHMQSLPE
1260 1270 1280 1290 1300
DPLETSKEEE ELNDSSEELY TTIKIMASGI KTKDPDVRLG LNQHYPSFKP
1310 1320 1330 1340 1350
PPFQYHHRNP MGIGVTATNF TTHNIPQTFT TAIRCTKCGK GVDNMPELHK
1360 1370 1380 1390 1400
HILACASASD KKRYTPKKNP VPLKQTVQPK NGVVVLDNSG KNAFRRMGQP
1410 1420 1430 1440 1450
KRLNFSVELS KMSSNKLKLN ALKKKNQLVQ KAILQKNKSA KQKADLKNAC
1460 1470 1480 1490 1500
ESSSHICPYC NREFTYIGSL NKHAAFSCPK KPLSPPKKKV SHSSKKGGHS
1510 1520 1530 1540 1550
SPASSDKNSN SNHRRRTADA EIKMQSMQTP LGKTRARSSG PTQVPLPSSS
1560 1570 1580 1590 1600
FRSKQNVKFA ASVKSKKPSS SSLRNSSPIR MAKITHVEGK KPKAVAKNHS
1610 1620 1630 1640 1650
AQLSSKTSRS LHVRVQKSKA VLQSKSTLAS KKRTDRFNIK SRERSGGPVT
1660 1670 1680 1690 1700
RSLQLAAAAD LSENKREDGS AKQELKDFSY SLRLASRCSP PAAPYITRQY
1710
RKVKAPAAAQ FQGPFFKE
Length:1,718
Mass (Da):188,915
Last modified:December 21, 2004 - v3
Checksum:i536BD68667AFE433
GO
Isoform 2 (identifier: Q13029-2) [UniParc]FASTAAdd to basket
Also known as: MTB-Zf

The sequence of this isoform differs from the canonical sequence as follows:
     1679-1682: SYSL → RNFL
     1683-1718: Missing.

Note: No experimental confirmation available.
Show »
Length:1,682
Mass (Da):184,961
Checksum:iF353A6402F93712D
GO
Isoform 3 (identifier: Q13029-3) [UniParc]FASTAAdd to basket
Also known as: RIZ2

The sequence of this isoform differs from the canonical sequence as follows:
     1-201: Missing.

Note: Produced by alternative initiation at Met-202 of isoform 1.
Show »
Length:1,517
Mass (Da):166,061
Checksum:i2AB9A94179532CE7
GO
Isoform 4 (identifier: Q13029-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     171-226: GKKKSQENKN...SASALEQPAT → ATASAWRPDA...LTAPEVTWNQ
     227-1718: Missing.

Note: No experimental confirmation available.Curated
Show »
Length:226
Mass (Da):25,519
Checksum:iD7CE11A6D48E16D7
GO
Isoform 5 (identifier: Q13029-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-201: Missing.
     1679-1682: SYSL → RNFL
     1683-1718: Missing.

Note: No experimental confirmation available.
Show »
Length:1,481
Mass (Da):162,107
Checksum:i87F7398540D3A5F3
GO

Sequence cautioni

The sequence BAA08110 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti164S → T in AAA87023 (PubMed:7590293).Curated1
Sequence conflicti196D → S in AAA87023 (PubMed:7590293).Curated1
Sequence conflicti200A → G in AAA87023 (PubMed:7590293).Curated1
Sequence conflicti276 – 293EDEEE…LEDEG → VGGGGGVVVVVSWKARGE in AAA87023 (PubMed:7590293).CuratedAdd BLAST18
Sequence conflicti307 – 318EPEIR…EKPED → SQKYGVMRSQKI in AAA87023 (PubMed:7590293).CuratedAdd BLAST12
Sequence conflicti336 – 337EV → DL in AAA87023 (PubMed:7590293).Curated2
Sequence conflicti371T → I in AAA87023 (PubMed:7590293).Curated1
Sequence conflicti466 – 467DT → VS in AAA87023 (PubMed:7590293).Curated2
Sequence conflicti530Q → L in BX647310 (PubMed:17974005).Curated1
Sequence conflicti534 – 550TQNVY…EEGEA → PRTCMYQAQSRRGRGSR in AAA87023 (PubMed:7590293).CuratedAdd BLAST17
Sequence conflicti703P → PP (PubMed:7538672).Curated1
Sequence conflicti703P → PP (PubMed:8654390).Curated1
Sequence conflicti856H → R in BX647310 (PubMed:17974005).Curated1
Sequence conflicti1456I → T in BX647310 (PubMed:17974005).Curated1
Isoform 4 (identifier: Q13029-4)
Sequence conflicti198Q → R in BC014468 (PubMed:15489334).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_052929283D → E.Corresponds to variant rs2076324dbSNPEnsembl.1
Natural variantiVAR_052930450S → N.Corresponds to variant rs17350795dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0189741 – 201Missing in isoform 3 and isoform 5. 1 PublicationAdd BLAST201
Alternative sequenceiVSP_046421171 – 226GKKKS…EQPAT → ATASAWRPDALHQRPRTSPG SIGRSKLQLQPSSRDHSSKS RHSGCSLTAPEVTWNQ in isoform 4. 1 PublicationAdd BLAST56
Alternative sequenceiVSP_046422227 – 1718Missing in isoform 4. 1 PublicationAdd BLAST1492
Alternative sequenceiVSP_0069271679 – 1682SYSL → RNFL in isoform 2 and isoform 5. 2 Publications4
Alternative sequenceiVSP_0069281683 – 1718Missing in isoform 2 and isoform 5. 2 PublicationsAdd BLAST36

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U17838 mRNA. Translation: AAC50820.2.
BX647310 mRNA. No translation available.
AL031277, AL583942 Genomic DNA. Translation: CAI19343.1.
AL583942, AL031277 Genomic DNA. Translation: CAH70943.1.
AL359771 Genomic DNA. No translation available.
BC014468 mRNA. No translation available.
U23736 mRNA. Translation: AAA87023.1.
D45132 mRNA. Translation: BAA08110.1. Different initiation.
CCDSiCCDS150.1. [Q13029-1]
CCDS151.1. [Q13029-2]
CCDS30603.1. [Q13029-5]
CCDS44061.1. [Q13029-4]
PIRiI38902.
RefSeqiNP_001007258.1. NM_001007257.2. [Q13029-5]
NP_001129082.1. NM_001135610.1. [Q13029-4]
NP_036363.2. NM_012231.4. [Q13029-1]
NP_056950.2. NM_015866.4. [Q13029-2]
XP_016857744.1. XM_017002255.1. [Q13029-1]
XP_016857745.1. XM_017002256.1. [Q13029-1]
XP_016857746.1. XM_017002257.1. [Q13029-2]
XP_016857748.1. XM_017002259.1. [Q13029-3]
XP_016857749.1. XM_017002260.1. [Q13029-3]
XP_016857750.1. XM_017002261.1. [Q13029-3]
XP_016857751.1. XM_017002262.1. [Q13029-5]
XP_016857752.1. XM_017002263.1. [Q13029-3]
UniGeneiHs.371823.

Genome annotation databases

EnsembliENST00000235372; ENSP00000235372; ENSG00000116731. [Q13029-1]
ENST00000311066; ENSP00000312352; ENSG00000116731. [Q13029-2]
ENST00000343137; ENSP00000341621; ENSG00000116731. [Q13029-5]
ENST00000376048; ENSP00000365216; ENSG00000116731. [Q13029-4]
ENST00000413440; ENSP00000411103; ENSG00000116731. [Q13029-5]
GeneIDi7799.
KEGGihsa:7799.
UCSCiuc001avg.4. human. [Q13029-1]

Keywords - Coding sequence diversityi

Alternative initiation, Alternative splicing, Polymorphism

Cross-referencesi

Web resourcesi

Atlas of Genetics and Cytogenetics in Oncology and Haematology

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U17838 mRNA. Translation: AAC50820.2.
BX647310 mRNA. No translation available.
AL031277, AL583942 Genomic DNA. Translation: CAI19343.1.
AL583942, AL031277 Genomic DNA. Translation: CAH70943.1.
AL359771 Genomic DNA. No translation available.
BC014468 mRNA. No translation available.
U23736 mRNA. Translation: AAA87023.1.
D45132 mRNA. Translation: BAA08110.1. Different initiation.
CCDSiCCDS150.1. [Q13029-1]
CCDS151.1. [Q13029-2]
CCDS30603.1. [Q13029-5]
CCDS44061.1. [Q13029-4]
PIRiI38902.
RefSeqiNP_001007258.1. NM_001007257.2. [Q13029-5]
NP_001129082.1. NM_001135610.1. [Q13029-4]
NP_036363.2. NM_012231.4. [Q13029-1]
NP_056950.2. NM_015866.4. [Q13029-2]
XP_016857744.1. XM_017002255.1. [Q13029-1]
XP_016857745.1. XM_017002256.1. [Q13029-1]
XP_016857746.1. XM_017002257.1. [Q13029-2]
XP_016857748.1. XM_017002259.1. [Q13029-3]
XP_016857749.1. XM_017002260.1. [Q13029-3]
XP_016857750.1. XM_017002261.1. [Q13029-3]
XP_016857751.1. XM_017002262.1. [Q13029-5]
XP_016857752.1. XM_017002263.1. [Q13029-3]
UniGeneiHs.371823.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2JV0NMR-A1-161[»]
2QPWX-ray1.79A2-148[»]
ProteinModelPortaliQ13029.
SMRiQ13029.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi113575. 12 interactors.
DIPiDIP-428N.
IntActiQ13029. 3 interactors.
STRINGi9606.ENSP00000235372.

PTM databases

iPTMnetiQ13029.
PhosphoSitePlusiQ13029.

Polymorphism and mutation databases

BioMutaiPRDM2.
DMDMi56757653.

Proteomic databases

EPDiQ13029.
MaxQBiQ13029.
PaxDbiQ13029.
PeptideAtlasiQ13029.
PRIDEiQ13029.

Protocols and materials databases

DNASUi7799.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000235372; ENSP00000235372; ENSG00000116731. [Q13029-1]
ENST00000311066; ENSP00000312352; ENSG00000116731. [Q13029-2]
ENST00000343137; ENSP00000341621; ENSG00000116731. [Q13029-5]
ENST00000376048; ENSP00000365216; ENSG00000116731. [Q13029-4]
ENST00000413440; ENSP00000411103; ENSG00000116731. [Q13029-5]
GeneIDi7799.
KEGGihsa:7799.
UCSCiuc001avg.4. human. [Q13029-1]

Organism-specific databases

CTDi7799.
DisGeNETi7799.
GeneCardsiPRDM2.
HGNCiHGNC:9347. PRDM2.
HPAiHPA005809.
MIMi601196. gene.
neXtProtiNX_Q13029.
OpenTargetsiENSG00000116731.
PharmGKBiPA33715.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2461. Eukaryota.
ENOG410ZFVU. LUCA.
GeneTreeiENSGT00730000111050.
HOGENOMiHOG000049035.
HOVERGENiHBG053671.
InParanoidiQ13029.
KOiK11432.
OMAiLERHMHI.
OrthoDBiEOG091G00IG.
PhylomeDBiQ13029.
TreeFamiTF332173.

Enzyme and pathway databases

BioCyciZFISH:HS04042-MONOMER.
SIGNORiQ13029.

Miscellaneous databases

ChiTaRSiPRDM2. human.
EvolutionaryTraceiQ13029.
GeneWikiiPRDM2.
GenomeRNAii7799.
PROiQ13029.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000116731.
CleanExiHS_PRDM2.
ExpressionAtlasiQ13029. baseline and differential.
GenevisibleiQ13029. HS.

Family and domain databases

Gene3Di3.30.160.60. 3 hits.
InterProiIPR009170. RIZ_retinblastoma-bd_prot.
IPR001214. SET_dom.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR013087. Znf_C2H2/integrase_DNA-bd.
[Graphical view]
PfamiPF00856. SET. 1 hit.
PF13912. zf-C2H2_6. 2 hits.
[Graphical view]
PIRSFiPIRSF002395. RIZ_SET. 1 hit.
SMARTiSM00317. SET. 1 hit.
SM00355. ZnF_C2H2. 8 hits.
[Graphical view]
PROSITEiPS50280. SET. 1 hit.
PS00028. ZINC_FINGER_C2H2_1. 6 hits.
PS50157. ZINC_FINGER_C2H2_2. 7 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPRDM2_HUMAN
AccessioniPrimary (citable) accession number: Q13029
Secondary accession number(s): B1AJZ4
, B5MC68, Q13149, Q14550, Q5THJ1, Q5VUL9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 8, 2002
Last sequence update: December 21, 2004
Last modified: November 30, 2016
This is version 178 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (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.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. 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.