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Protein

SET and MYND domain-containing protein 4

Gene

SMYD4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei427 – 4271S-adenosyl-L-methioninePROSITE-ProRule annotation
Binding sitei573 – 5731S-adenosyl-L-methioninePROSITE-ProRule annotation
Binding sitei595 – 5951S-adenosyl-L-methioninePROSITE-ProRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri296 – 33540MYND-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

Complete GO annotation...

Keywords - Molecular functioni

Methyltransferase, Transferase

Keywords - Ligandi

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

Names & Taxonomyi

Protein namesi
Recommended name:
SET and MYND domain-containing protein 4 (EC:2.1.1.-)
Gene namesi
Name:SMYD4
Synonyms:KIAA1936
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 17

Organism-specific databases

HGNCiHGNC:21067. SMYD4.

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134925431.

Polymorphism and mutation databases

BioMutaiSMYD4.
DMDMi296452956.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 804804SET and MYND domain-containing protein 4PRO_0000227784Add
BLAST

Proteomic databases

EPDiQ8IYR2.
MaxQBiQ8IYR2.
PaxDbiQ8IYR2.
PRIDEiQ8IYR2.

PTM databases

PhosphoSiteiQ8IYR2.

Expressioni

Gene expression databases

BgeeiQ8IYR2.
CleanExiHS_SMYD4.
ExpressionAtlasiQ8IYR2. baseline and differential.
GenevisibleiQ8IYR2. HS.

Organism-specific databases

HPAiHPA030059.

Interactioni

Protein-protein interaction databases

BioGridi125376. 1 interaction.
IntActiQ8IYR2. 1 interaction.
STRINGi9606.ENSP00000304360.

Structurei

3D structure databases

ProteinModelPortaliQ8IYR2.
SMRiQ8IYR2. Positions 64-176, 490-617, 670-731.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini233 – 574342SETPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni112 – 1143S-adenosyl-L-methionine bindingBy similarity
Regioni539 – 5402S-adenosyl-L-methionine bindingBy similarity

Sequence similaritiesi

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

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri296 – 33540MYND-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG2084. Eukaryota.
COG2940. LUCA.
GeneTreeiENSGT00730000111079.
HOGENOMiHOG000118355.
HOVERGENiHBG082493.
InParanoidiQ8IYR2.
OMAiAFCCNSC.
OrthoDBiEOG7GN2M7.
PhylomeDBiQ8IYR2.
TreeFamiTF106441.

Family and domain databases

Gene3Di1.25.40.10. 1 hit.
InterProiIPR001214. SET_dom.
IPR011990. TPR-like_helical_dom.
IPR002893. Znf_MYND.
[Graphical view]
PfamiPF00856. SET. 1 hit.
PF01753. zf-MYND. 1 hit.
[Graphical view]
SUPFAMiSSF48452. SSF48452. 1 hit.
PROSITEiPS50280. SET. 1 hit.
PS01360. ZF_MYND_1. 1 hit.
PS50865. ZF_MYND_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8IYR2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDLPVDEWKS YLLQKWASLP TSVQVTISTA ETLRDIFLHS SSLLQPEDEL
60 70 80 90 100
FLKRLSKGYL VGKDSDAPLF YREEGNKKFQ EKDYTGAAVL YSKGVSHSRP
110 120 130 140 150
NTEDMSLCHA NRSAALFHLG QYETCLKDIN RAQTHGYPER LQPKIMLRKA
160 170 180 190 200
ECLVALGRLQ EASQTISDLE RNFTATPALA DVLPQTLQRN LHRLKMKMQE
210 220 230 240 250
KDSLTESFPA ALAKTLEDAA LREENEQLSN ASSSIGLCVD PLKGRCLVAT
260 270 280 290 300
KDILPGELLV QEDAFVSVLN PGELPPPHHG LDSKWDTRVT NGDLYCHRCL
310 320 330 340 350
KHTLATVPCD GCSYAKYCSQ ECLQQAWELY HRTECPLGGL LLTLGVFCHI
360 370 380 390 400
ALRLTLLVGF EDVRKIITKL CDKISNKDIC LPESNNQVKT LNYGLGESEK
410 420 430 440 450
NGNIVETPIP GCDINGKYEN NYNAVFNLLP HTENHSPEHK FLCALCVSAL
460 470 480 490 500
CRQLEAASLQ AIPTERIVNS SQLKAAVTPE LCPDVTIWGV AMLRHMLQLQ
510 520 530 540 550
CNAQAMTTIQ HTGPKGSIVT DSRQVRLATG IFPVISLLNH SCSPNTSVSF
560 570 580 590 600
ISTVATIRAS QRIRKGQEIL HCYGPHKSRM GVAERQQKLR SQYFFDCACP
610 620 630 640 650
ACQTEAHRMA AGPRWEAFCC NSCGAPMQGD DVLRCGSRSC AESAVSRDHL
660 670 680 690 700
VSRLQDLQQQ VRVAQKLLRD GELERAVQRL SGCQRDAESF LWAEHAVVGE
710 720 730 740 750
IADGLARACA ALGDWQKSAT HLQRSLYVVE VRHGPSSVEM GHELFKLAQI
760 770 780 790 800
FFNGFAVPEA LSTIQKAEEV LSLHCGPWDD EIQELQKMKS CLLDLPPTPV

GPAL
Length:804
Mass (Da):89,225
Last modified:May 18, 2010 - v3
Checksum:i982F8BFEF40A49A2
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti326 – 3261A → V in AAH35077 (PubMed:15489334).Curated
Sequence conflicti511 – 5111H → R in BAC04538 (PubMed:14702039).Curated
Sequence conflicti514 – 5141P → S in BAC04538 (PubMed:14702039).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti101 – 1011N → D.
Corresponds to variant rs9907701 [ dbSNP | Ensembl ].
VAR_057495
Natural varianti131 – 1311R → I.2 Publications
Corresponds to variant rs7224496 [ dbSNP | Ensembl ].
VAR_025626
Natural varianti236 – 2361G → S.
Corresponds to variant rs9913923 [ dbSNP | Ensembl ].
VAR_057496
Natural varianti374 – 3741I → M.
Corresponds to variant rs9890631 [ dbSNP | Ensembl ].
VAR_057497
Natural varianti382 – 3821P → R.
Corresponds to variant rs3809875 [ dbSNP | Ensembl ].
VAR_057498
Natural varianti562 – 5621R → W.1 Publication
Corresponds to variant rs11549830 [ dbSNP | Ensembl ].
VAR_025628
Natural varianti601 – 6011A → P Found in a renal cell carcinoma sample; somatic mutation. 1 Publication
VAR_064755
Natural varianti727 – 7271Y → C.3 Publications
Corresponds to variant rs9902398 [ dbSNP | Ensembl ].
VAR_025627

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK057769 mRNA. Translation: BAB71564.1.
AK095369 mRNA. Translation: BAC04538.1.
BC035077 mRNA. Translation: AAH35077.1.
AB067523 mRNA. Translation: BAB67829.1.
CCDSiCCDS11013.1.
RefSeqiNP_443160.2. NM_052928.2.
UniGeneiHs.514602.

Genome annotation databases

EnsembliENST00000305513; ENSP00000304360; ENSG00000186532.
GeneIDi114826.
KEGGihsa:114826.
UCSCiuc002ftm.5. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK057769 mRNA. Translation: BAB71564.1.
AK095369 mRNA. Translation: BAC04538.1.
BC035077 mRNA. Translation: AAH35077.1.
AB067523 mRNA. Translation: BAB67829.1.
CCDSiCCDS11013.1.
RefSeqiNP_443160.2. NM_052928.2.
UniGeneiHs.514602.

3D structure databases

ProteinModelPortaliQ8IYR2.
SMRiQ8IYR2. Positions 64-176, 490-617, 670-731.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi125376. 1 interaction.
IntActiQ8IYR2. 1 interaction.
STRINGi9606.ENSP00000304360.

PTM databases

PhosphoSiteiQ8IYR2.

Polymorphism and mutation databases

BioMutaiSMYD4.
DMDMi296452956.

Proteomic databases

EPDiQ8IYR2.
MaxQBiQ8IYR2.
PaxDbiQ8IYR2.
PRIDEiQ8IYR2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000305513; ENSP00000304360; ENSG00000186532.
GeneIDi114826.
KEGGihsa:114826.
UCSCiuc002ftm.5. human.

Organism-specific databases

CTDi114826.
GeneCardsiSMYD4.
H-InvDBHIX0017748.
HGNCiHGNC:21067. SMYD4.
HPAiHPA030059.
neXtProtiNX_Q8IYR2.
PharmGKBiPA134925431.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2084. Eukaryota.
COG2940. LUCA.
GeneTreeiENSGT00730000111079.
HOGENOMiHOG000118355.
HOVERGENiHBG082493.
InParanoidiQ8IYR2.
OMAiAFCCNSC.
OrthoDBiEOG7GN2M7.
PhylomeDBiQ8IYR2.
TreeFamiTF106441.

Miscellaneous databases

ChiTaRSiSMYD4. human.
GeneWikiiSMYD4.
GenomeRNAii114826.
NextBioi79327.
PROiQ8IYR2.

Gene expression databases

BgeeiQ8IYR2.
CleanExiHS_SMYD4.
ExpressionAtlasiQ8IYR2. baseline and differential.
GenevisibleiQ8IYR2. HS.

Family and domain databases

Gene3Di1.25.40.10. 1 hit.
InterProiIPR001214. SET_dom.
IPR011990. TPR-like_helical_dom.
IPR002893. Znf_MYND.
[Graphical view]
PfamiPF00856. SET. 1 hit.
PF01753. zf-MYND. 1 hit.
[Graphical view]
SUPFAMiSSF48452. SSF48452. 1 hit.
PROSITEiPS50280. SET. 1 hit.
PS01360. ZF_MYND_1. 1 hit.
PS50865. ZF_MYND_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANTS ILE-131 AND CYS-727.
    Tissue: Cerebellum and Tongue.
  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], VARIANTS ILE-131 AND CYS-727.
    Tissue: Brain.
  3. "Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins."
    Nagase T., Kikuno R., Ohara O.
    DNA Res. 8:179-187(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 197-754, VARIANTS TRP-562 AND CYS-727.
    Tissue: Brain.
  4. Cited for: VARIANT PRO-601.

Entry informationi

Entry nameiSMYD4_HUMAN
AccessioniPrimary (citable) accession number: Q8IYR2
Secondary accession number(s): Q8N1P2
, Q8NAT0, Q96LV4, Q96PV2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 21, 2006
Last sequence update: May 18, 2010
Last modified: May 11, 2016
This is version 110 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 17
    Human chromosome 17: 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. 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.