Q13123 (RED_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Protein Red

Alternative name(s):
Cytokine IK
IK factor
Protein RER

Gene names

Name:	IK
Synonyms:	RED, RER

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	557 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	May bind to chromatin.
Subcellular location	Nucleus.
Tissue specificity	Ubiquitous.
Developmental stage	Expressed at similar levels in fetal and adult tissues.
Sequence similarities	Belongs to the RED family.
Caution	Was originally (Ref.4) thought to be the IK factor, a cytokine involved in the negative regulatory pathway of constitutive MHC class II antigens expression.

Ontologies

Keywords
Cellular component	Nucleus
Domain	Repeat
PTM	Acetylation Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	cell-cell signaling Traceable author statement Ref.4. Source: ProtInc immune response Traceable author statement Ref.4. Source: ProtInc
Cellular_component	extracellular space Traceable author statement Ref.4. Source: ProtInc nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
rev	P04618	3	EBI-713456,EBI-6164309	From a different organism.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 557	557	Protein Red		PRO_0000097235
Regions
	Repeat	342 – 343	2	1
	Repeat	344 – 345	2	2
	Repeat	346 – 347	2	3
	Repeat	348 – 349	2	4
	Repeat	350 – 351	2	5
	Repeat	352 – 353	2	6
	Repeat	354 – 355	2	7
	Repeat	356 – 357	2	8
	Repeat	358 – 359	2	9
	Repeat	360 – 361	2	10
	Repeat	362 – 363	2	11
	Repeat	364 – 365	2	12
	Repeat	366 – 367	2	13
	Repeat	368 – 369	2	14
	Repeat	370 – 371	2	15
	Repeat	372 – 373	2	16
	Repeat	374 – 375	2	17
	Region	342 – 375	34	17 X 2 AA tandem repeats of R-[ED]
	Compositional bias	184 – 187	4	Poly-Glu
Amino acid modifications
	Modified residue	98	1	N6-acetyllysine Ref.7
	Modified residue	460	1	Phosphoserine Ref.6
	Modified residue	485	1	Phosphothreonine Ref.5
Experimental info
	Sequence conflict	176	1	A → L in CAA06607. Ref.1
	Sequence conflict	182	1	E → D in CAA06607. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Q13123 [UniParc]. Last modified May 18, 2010. Version 3. Checksum: BE7B332985D5F4CA	FASTA	557	65,602
	10 20 30 40 50 60 MPERDSEPFS NPLAPDGHDV DDPHSFHQSK LTNEDFRKLL MTPRAAPTSA PPSKSRHHEM 70 80 90 100 110 120 PREYNEDEDP AARRRKKKSY YAKLRQQEIE RERELAEKYR DRAKERRDGV NKDYEETELI 130 140 150 160 170 180 STTANYRAVG PTAEADKSAA EKRRQLIQES KFLGGDMEHT HLVKGLDFAL LQKVRAEIAS 190 200 210 220 230 240 KEKEEEELME KPQKETKKDE DPENKIEFKT RLGRNVYRML FKSKAYERNE LFLPGRMAYV 250 260 270 280 290 300 VDLDDEYADT DIPTTLIRSK ADCPTMEAQT TLTTNDIVIS KLTQILSYLR QGTRNKKLKK 310 320 330 340 350 360 KDKGKLEEKK PPEADMNIFE DIGDYVPSTT KTPRDKERER YRERERDRER DRDRDRERER 370 380 390 400 410 420 ERDRERERER DREREEEKKR HSYFEKPKVD DEPMDVDKGP GSTKELIKSI NEKFAGSAGW 430 440 450 460 470 480 EGTESLKKPE DKKQLGDFFG MSNSYAECYP ATMDDMAVDS DEEVDYSKMD QGNKKGPLGR 490 500 510 520 530 540 WDFDTQEEYS EYMNNKEALP KAAFQYGIKM SEGRKTRRFK ETNDKAELDR QWKKISAIIE 550 KRKKMEADGV EVKRPKY

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Isolation, sequencing and expression of RED, a novel human gene encoding an acidic-basic dipeptide repeat." Assier E., Bouzinba-Segard H., Stolzenberg M.-C., Stephens R., Bardos J., Freemont P., Charron D., Trowsdale J., Rich T. Gene 230:145-154(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Leukemia.
[2]	"The DNA sequence and comparative analysis of human chromosome 5." Schmutz J., Martin J., Terry A., Couronne O., Grimwood J., Lowry S., Gordon L.A., Scott D., Xie G., Huang W., Hellsten U., Tran-Gyamfi M., She X., Prabhakar S., Aerts A., Altherr M., Bajorek E., Black S. , Branscomb E., Caoile C., Challacombe J.F., Chan Y.M., Denys M., Detter J.C., Escobar J., Flowers D., Fotopulos D., Glavina T., Gomez M., Gonzales E., Goodstein D., Grigoriev I., Groza M., Hammon N., Hawkins T., Haydu L., Israni S., Jett J., Kadner K., Kimball H., Kobayashi A., Lopez F., Lou Y., Martinez D., Medina C., Morgan J., Nandkeshwar R., Noonan J.P., Pitluck S., Pollard M., Predki P., Priest J., Ramirez L., Retterer J., Rodriguez A., Rogers S., Salamov A., Salazar A., Thayer N., Tice H., Tsai M., Ustaszewska A., Vo N., Wheeler J., Wu K., Yang J., Dickson M., Cheng J.-F., Eichler E.E., Olsen A., Pennacchio L.A., Rokhsar D.S., Richardson P., Lucas S.M., Myers R.M., Rubin E.M. Nature 431:268-274(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[3]	"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]. Tissue: Lung.
[4]	"A new cytokine (IK) down-regulating HLA class II: monoclonal antibodies, cloning and chromosome localization." Krief P., Augery-Bourget Y., Plaisance S., Merck M.F., Assier E., Tanchou V., Billard M., Boucheix C., Jasmin C., Azzarone B. Oncogene 9:3449-3456(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 316-477. Tissue: Leukemia.
[5]	"ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage." Matsuoka S., Ballif B.A., Smogorzewska A., McDonald E.R. III, Hurov K.E., Luo J., Bakalarski C.E., Zhao Z., Solimini N., Lerenthal Y., Shiloh Y., Gygi S.P., Elledge S.J. Science 316:1160-1166(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-485, MASS SPECTROMETRY. Tissue: Embryonic kidney.
[6]	"A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-460, MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[7]	"Lysine acetylation targets protein complexes and co-regulates major cellular functions." Choudhary C., Kumar C., Gnad F., Nielsen M.L., Rehman M., Walther T.C., Olsen J.V., Mann M. Science 325:834-840(2009) [PubMed] [Europe PMC] [Abstract] Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-98, MASS SPECTROMETRY.
[8]	"Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AJ005579 mRNA. Translation: CAA06607.1. AC116353 Genomic DNA. No translation available. BC071964 mRNA. Translation: AAH71964.1. S74221 mRNA. Translation: AAB32531.1.
IPI	IPI00011875.
PIR	I58408.
RefSeq	NP_006074.2. NM_006083.3.
UniGene	Hs.421245.
3D structure databases
ProteinModelPortal	Q13123.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q13123. 11 interactions.
MINT	MINT-1371308.
STRING	9606.ENSP00000396301.
PTM databases
PhosphoSite	Q13123.
Polymorphism databases
DMDM	296452987.
Proteomic databases
PaxDb	Q13123.
PeptideAtlas	Q13123.
PRIDE	Q13123.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000417647; ENSP00000396301; ENSG00000113141.
GeneID	3550.
KEGG	hsa:3550.
UCSC	uc003lgq.3. human.
Organism-specific databases
CTD	3550.
GeneCards	GC05P140028.
HGNC	HGNC:5958. IK.
HPA	HPA019754.
MIM	600549. gene.
neXtProt	NX_Q13123.
PharmGKB	PA29774.
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG85622.
HOGENOM	HOG000007717.
HOVERGEN	HBG017223.
InParanoid	Q13123.
KO	K13109.
OMA	GPIGRWD.
OrthoDB	EOG4HQDJD.
Gene expression databases
ArrayExpress	Q13123.
Bgee	Q13123.
CleanEx	HS_IK.
Genevestigator	Q13123.
Family and domain databases
InterPro	IPR012492. RED_C. IPR012916. RED_N. [Graphical view]
Pfam	PF07807. RED_C. 1 hit. PF07808. RED_N. 1 hit. [Graphical view]
ProDom	PD311621. RED_C. 1 hit. [Graphical view] [Entries sharing at least one domain]
ProtoNet	Search...
Other
ChiTaRS	IK. human.
GenomeRNAi	3550.
NextBio	13860.
PMAP-CutDB	Q13123.
SOURCE	Search...

Entry information

Entry name

RED_HUMAN

Accession

Primary (citable) accession number: Q13123
Secondary accession number(s): Q6IPD8

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 15, 1999
Last sequence update:	May 18, 2010
Last modified:	April 3, 2013
This is version 95 of the entry and version 3 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.