Q02535 (ID3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
DNA-binding protein inhibitor ID-3

Alternative name(s):
Class B basic helix-loop-helix protein 25
Short name=bHLHb25
Helix-loop-helix protein HEIR-1
ID-like protein inhibitor HLH 1R21
Inhibitor of DNA binding 3

Gene names

Name:	ID3
Synonyms:	1R21, BHLHB25, HEIR1

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	119 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	ID (inhibitor of DNA binding) HLH proteins lack a basic DNA-binding domain but are able to form heterodimers with other HLH proteins, thereby inhibiting DNA binding. Involved in myogenesis by inhibiting skeletal muscle and cardiac myocyte differentiation and promoting muscle precursor cells proliferation. Inhibits the binding of E2A-containing protein complexes to muscle creatine kinase E-box enhancer. May inhibit other transcription factors. Ref.2
Subunit structure	Interacts with COPS5 and COPS7A By similarity. Homodimer, and heterodimer with other HLH proteins.
Subcellular location	Nucleus.
Tissue specificity	Expressed abundantly in lung, kidney and adrenal gland, but not in adult brain.
Induction	By phorbol 12-myristate 13-acetate (PMA).
Sequence similarities	Contains 1 bHLH (basic helix-loop-helix) domain.
Sequence caution	The sequence CAA47360.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

Ontologies

Keywords
Biological process	Myogenesis
Cellular component	Nucleus
Coding sequence diversity	Polymorphism
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	central nervous system development Inferred from electronic annotation. Source: Compara epithelial cell differentiation Inferred from electronic annotation. Source: Compara heart development Inferred from electronic annotation. Source: Compara metanephros development Inferred from electronic annotation. Source: Compara multicellular organismal development Traceable author statement Ref.1. Source: ProtInc negative regulation of osteoblast differentiation Inferred from electronic annotation. Source: Compara negative regulation of sequence-specific DNA binding transcription factor activity Inferred from direct assay PubMed 14627819. Source: GDB negative regulation of transcription from RNA polymerase II promoter Inferred from electronic annotation. Source: Compara negative regulation of transcription, DNA-dependent Inferred from direct assay PubMed 14627819. Source: GDB neuron differentiation Inferred from electronic annotation. Source: Compara notochord development Inferred from electronic annotation. Source: Compara odontogenesis Inferred from electronic annotation. Source: Compara positive regulation of apoptotic process Inferred from electronic annotation. Source: Compara regulation of DNA replication Inferred from electronic annotation. Source: Compara regulation of cell cycle Inferred from electronic annotation. Source: Compara response to wounding Inferred from electronic annotation. Source: Compara transcription, DNA-dependent Inferred from electronic annotation. Source: Compara
Cellular_component	cytoplasm Inferred from electronic annotation. Source: Compara nucleus Inferred by curator PubMed 14627819. Source: GDB
Molecular_function	sequence-specific DNA binding transcription factor activity Inferred from electronic annotation. Source: Compara transcription corepressor activity Traceable author statement Ref.2. Source: ProtInc
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 119

119

DNA-binding protein inhibitor ID-3

PRO_0000127247

Regions

Domain

28 – 80

53

bHLH

Natural variations

Natural variant

105

1

T → A. Ref.1 Ref.2 Ref.3 Ref.4 Ref.5 Ref.7 Ref.8
Corresponds to variant rs11574 [ dbSNP | Ensembl ].

VAR_016122

Natural variant

111

1

S → A.
Corresponds to variant rs11542317 [ dbSNP | Ensembl ].

VAR_030739

Secondary structure

1

.

.

.

.

.

.

119

Helix Strand Turn

Details...

Beta strand

40 – 42

3

Helix

43 – 54

12

Helix

66 – 81

16

Sequences

	Sequence		Length	Mass (Da)
	Q02535 [UniParc]. Last modified February 8, 2011. Version 2. Checksum: 7FC38B56B4DCEFBC	FASTA	119	12,999
	10 20 30 40 50 60 MKALSPVRGC YEAVCCLSER SLAIARGRGK GPAAEEPLSL LDDMNHCYSR LRELVPGVPR 70 80 90 100 110 GTQLSQVEIL QRVIDYILDL QVVLAEPAPG PPDGPHLPIQ TAELTPELVI SNDKRSFCH

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Mutually exclusive expression of a helix-loop-helix gene and N-myc in human neuroblastomas and in normal development." Ellmeier W., Aguzzi A., Kleiner E., Kurzbauer R., Weith A. EMBO J. 11:2563-2571(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], VARIANT ALA-105.
[2]	"An immediate early human gene encodes an Id-like helix-loop-helix protein and is regulated by protein kinase C activation in diverse cell types." Deed R.W., Bianchi S.M., Atherton G.T., Johnston D., Santibanez-Koref M., Murphy J.J., Norton J.D. Oncogene 8:599-607(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, VARIANT ALA-105.
[3]	"Structural organisation and chromosomal mapping of the human Id-3 gene." Deed R.W., Hirose T., Mitchell E.L.D., Santibanez-Koref M.F., Norton J.D. Gene 151:309-314(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], VARIANT ALA-105. Tissue: Blood.
[4]	"Cloning of human full-length CDSs in BD Creator(TM) system donor vector." Kalnine N., Chen X., Rolfs A., Halleck A., Hines L., Eisenstein S., Koundinya M., Raphael J., Moreira D., Kelley T., LaBaer J., Lin Y., Phelan M., Farmer A. Submitted (OCT-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT ALA-105.
[5]	"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], VARIANT ALA-105. Tissue: Hippocampus.
[6]	"The DNA sequence and biological annotation of human chromosome 1." Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K. , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R. Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[7]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT ALA-105.
[8]	"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], VARIANT ALA-105. Tissue: Skin.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X66924 mRNA. Translation: CAA47360.1. Different initiation.
X69111 mRNA. Translation: CAA48862.1.
X73428 Genomic DNA. Translation: CAA51827.1.
BT006791 mRNA. Translation: AAP35437.1.
AK290003 mRNA. Translation: BAF82692.1.
AL021154 Genomic DNA. Translation: CAA15950.1.
CH471134 Genomic DNA. Translation: EAW95060.1.
BC003107 mRNA. Translation: AAH03107.1.

IPI

IPI00219112.

PIR

S28529. I37092.

RefSeq

NP_002158.3. NM_002167.4.

UniGene

Hs.76884.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2LFH	NMR	-	A/B	29-83	[»]

ProteinModelPortal

Q02535.

SMR

Q02535. Positions 32-83.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-713N.

IntAct

Q02535. 14 interactions.

STRING

9606.ENSP00000363689.

PTM databases

PhosphoSite

Q02535.

Polymorphism databases

DMDM

729809.

Proteomic databases

PaxDb

Q02535.

PRIDE

Q02535.

Protocols and materials databases

DNASU

3399.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000374561; ENSP00000363689; ENSG00000117318.

GeneID

3399.

KEGG

hsa:3399.

UCSC

uc001bhh.4. human.

Organism-specific databases

CTD

3399.

GeneCards

GC01M023884.

HGNC

HGNC:5362. ID3.

HPA

CAB021353.
HPA024677.

MIM

600277. gene.

neXtProt

NX_Q02535.

PharmGKB

PA29610.

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG83634.

HOGENOM

HOG000234788.

HOVERGEN

HBG009009.

InParanoid

Q02535.

KO

K04680.

OMA

GPHLAIQ.

OrthoDB

EOG40P48F.

PhylomeDB

Q02535.

Gene expression databases

Bgee

Q02535.

CleanEx

HS_ID3.

Genevestigator

Q02535.

GermOnline

ENSG00000117318. Homo sapiens.

Family and domain databases

Gene3D

4.10.280.10. 1 hit.

InterPro

IPR011598. bHLH_dom.
IPR026052. DNA-bd_prot-inh.
[Graphical view]

PANTHER

PTHR11723. PTHR11723. 1 hit.

Pfam

PF00010. HLH. 1 hit.
[Graphical view]

SMART

SM00353. HLH. 1 hit.
[Graphical view]

SUPFAM

SSF47459. HLH_basic. 1 hit.

PROSITE

PS50888. BHLH. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

ChiTaRS

ID3. human.

GenomeRNAi

3399.

NextBio

13432.

SOURCE

Search...

Entry information

Entry name

ID3_HUMAN

Accession

Primary (citable) accession number: Q02535
Secondary accession number(s): A8K1T8, O75641

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 8, 2011
Last modified:	May 1, 2013
This is version 130 of the entry and version 2 of the sequence. [Complete history]

Entry status

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.