Reviewed, UniProtKB/Swiss-Prot P40034 (JHD1_YEAST)

Names and origin

Protein names

Recommended name:
    JmjC domain-containing histone demethylation protein 1
    EC=1.14.11.27
Alternative name(s):
    [Histone-H3]-lysine-36 demethylase 1
    ScJHDM1
    Jumonji/ARID domain-containing protein 1

Gene names

Name:	JHD1
Ordered Locus Names:	YER051W

Organism

Saccharomyces cerevisiae (Baker's yeast) [Complete proteome]

Taxonomic identifier

4932 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	492 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Histone demethylase that specifically demethylates 'Lys-36' of histone H3, thereby playing a central role in histone code. Does not demethylate H3 'Lys-4' nor 'Lys-79'.
Catalytic activity	Protein N(6),N(6)-dimethyl-L-lysine + 2-oxoglutarate + O(2) = protein N(6)-methyl-L-lysine + succinate + formaldehyde + CO(2). Protein N(6)-methyl-L-lysine + 2-oxoglutarate + O(2) = protein L-lysine + succinate + formaldehyde + CO(2).
Cofactor	Binds 1 Fe(2+) ion per subunit By similarity.
Subcellular location	NucleusBy similarity.
Domain	The JmjC domain mediates the demethylation activity By similarity.
Miscellaneous	Present with 784 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the JHDM1 histone demethylase family. Contains 1 JmjC domain. Contains 1 PHD-type zinc finger.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Domain	Zinc-finger
Ligand	Iron Metal-binding Zinc
Molecular function	Chromatin regulator Dioxygenase Oxidoreductase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	histone demethylation Ref.3 Inferred from direct assay. Source: SGD oxidation reduction Inferred from electronic annotation. Source: UniProtKB-KW regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	histone demethylase activity (H3-K36 specific) Ref.3 Inferred from electronic annotation. Source: EC iron ion binding Inferred from electronic annotation. Source: UniProtKB-KW methylated histone residue binding Inferred from direct assay. Source: SGD oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen Inferred from electronic annotation. Source: UniProtKB-KW zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 492	492	JmjC domain-containing histone demethylation protein 1		PRO_0000202630
Regions
	Domain	254 – 409	156	JmjC
	Zinc finger	4 – 72	69	PHD-type; atypical
Sites
	Metal binding	305	1	Iron; catalytic Probable
	Metal binding	307	1	Iron; catalytic By similarity
	Metal binding	377	1	Iron; catalytic By similarity
	Binding site	302	1	Substrate By similarity
	Binding site	322	1	Substrate By similarity
Experimental info
	Mutagenesis	305	1	H → A: Abolishes histone demethylase activity

Sequences

	Sequence		Length	Mass (Da)
	P40034-1 [UniParc]. Last modified February 1, 1995. Version 1. Checksum: 5CBD09352131692B	FASTA	492	56,530
	10 20 30 40 50 60 MQDPNICQHC QLKDNPGALI WVKCDSCPQW VHVKCVPLKR IHYSNLTSSE VLSYPNSAKQ 70 80 90 100 110 120 IKSYRCPNHK EGEYLTAYAL ITQKGKRQRN KENPEDSHIN KRYNFRKKKL LDYIALNEGE 130 140 150 160 170 180 SKRDKMNHPH KESFMKSFEK WKNGSNIINA ADFAEKFDNI DVPYKIIDPL NSGVYVPNVG 190 200 210 220 230 240 TDNGCLTVNY ITEMIGEDYH VDVMDVQSQM NENWNLGSWN EYFTNTEPDR RDRIRNVISL 250 260 270 280 290 300 EVSNIEGLEL ERPTAVRQND LVDKIWSFNG HLEKVNGEKA EENDPKPKVT KYILMSVKDA 310 320 330 340 350 360 YTDFHLDFAG TSVYYNVISG QKKFLLFPPT QSNIDKYIEW SLKEDQNSVF LGDILEDGIA 370 380 390 400 410 420 MELDAGDLFM IPAGYIHAVY TPVDSLVFGG NFLTIRDLET HLKIVEIEKL TKVPRRFTFP 430 440 450 460 470 480 KFDQVMGKLC EYLALDKNKI TSDVSDGDLL SRTTNCAIQS LHAYVIKPEV KYKPLNFTSK 490 KHLAKALADL IS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome V." Dietrich F.S., Mulligan J.T., Hennessy K.M., Yelton M.A., Allen E., Araujo R., Aviles E., Berno A., Brennan T., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Guzman E., Hartzell G., Hunicke-Smith S., Hyman R.W. , Kayser A., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Norgren R., Oefner P., Oh C., Petel F.X., Roberts D., Sehl P., Schramm S., Shogren T., Smith V., Taylor P., Wei Y., Botstein D., Davis R.W. Nature 387:78-81(1997) [PubMed: 9169868] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[2]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[3]	"Histone demethylation by a family of JmjC domain-containing proteins." Tsukada Y., Fang J., Erdjument-Bromage H., Warren M.E., Borchers C.H., Tempst P., Zhang Y. Nature 439:811-816(2006) [PubMed: 16362057] [Abstract] Cited for: FUNCTION, ENZYME ACTIVITY, MUTAGENESIS OF HIS-305.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	U18796 Genomic DNA. Translation: AAB64586.1.
PIR	S50554.
RefSeq	NP_010971.1.
3D structure databases
ModBase	Search...
Protein-protein interaction databases
DIP	DIP:5335N.
IntAct	P40034.
Genome annotation databases
Ensembl	YER051W. Saccharomyces cerevisiae. [Contig view]
GeneID	856777.
GenomeReviews	Gene locus YER051W in contig U00092_GR.
KEGG	sce:YER051W.
NMPDR	fig|4932.3.peg.2034.
Organism-specific databases
CYGD	YER051w.
SGD	S000000853. JHD1.
Yeast-GFP	Search...
Phylogenomic databases
HOGENOM	P40034.
Gene expression databases
ArrayExpress	P40034.
GermOnline	YER051W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR003347. TF_JmjC_AAH. IPR001965. Znf_PHD. [Graphical view]
SMART	SM00558. JmjC. 1 hit. SM00249. PHD. 1 hit. [Graphical view]
PROSITE	PS51184. JMJC. 1 hit. PS01359. ZF_PHD_1. False negative. PS50016. ZF_PHD_2. False negative. [Graphical view]
ProtoNet	Search...
Other Resources
LinkHub	P40034.
NextBio	982979.

Entry information

Entry name

JHD1_YEAST

Accession

Primary (citable) accession number: P40034

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	November 25, 2008
This is version 59 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

FPAP (Fungal Proteome Annotation Project)