Reviewed, UniProtKB/Swiss-Prot Q9Y3V2 (RWDD3_HUMAN)

Names and origin

Protein names

Recommended name:
    RWD domain-containing protein 3
Alternative name(s):
    RWD-containing sumoylation enhancer

Gene names

Name:	RWDD3
Synonyms:	RSUME

Organism

Homo sapiens (Human) [Complete proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	267 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Enhances the sumoylation of a number of proteins including HIF1A, PIAS and I-kappa-B, through direct interaction with UBC9. Has no effect on ubiquitination. Ref.6
Subcellular location	Nucleus. Cytoplasm. Note: Colocalizes with UBC9/UBE2I in nuclear spots. Ref.6
Tissue specificity	Expressed in a wide number of tissues with highest expression in cerebellum, pituitary, heart, kidney, liver, stomach, pancreas, prostate and spleen. Low levels in thalamus, spinal cord, esophagus, thymus, lung and peripheral blood leukocytes. Ref.6
Induction	Induced by hypoxia. Ref.6
Domain	The RWD domain is required for the sumoylation enhancement activity By similarity.
Sequence similarities	Contains 1 RWD domain.

Ontologies

Keywords
Cellular component	Cytoplasm Nucleus
Coding sequence diversity	Alternative splicing Polymorphism
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	protein binding Ref.6 Inferred from physical interaction. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
HIF1A	Q16665	1	EBI-1549885,EBI-447269
NFKBIA	P25963	1	EBI-1549885,EBI-307386
SUMO1	P63165	1	EBI-1549885,EBI-80140
UBE2I	P63279	1	EBI-1549885,EBI-80168

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q9Y3V2-1)

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.

Isoform 2 (identifier: Q9Y3V2-2)

The sequence of this isoform differs from the canonical sequence as follows:
     192-195: EYLI → VPKS
     196-267: Missing.

Isoform 3 (identifier: Q9Y3V2-3)

The sequence of this isoform differs from the canonical sequence as follows:
     1-28: MAEPVQEELSVLAAIFCRPHEWEVLSRS → MFLSCGSLHQRGP
     177-267: KIILILLQGD...FSEFVLALVK → VLDSSENLQSRCGLKWKEMQREND

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 267

267

RWD domain-containing protein 3

PRO_0000097545

Regions

Domain

7 – 114

108

RWD

Natural variations

Alternative sequence

1 – 28

28

MAEPV…VLSRS → MFLSCGSLHQRGP in isoform 3.

VSP_035411

Alternative sequence

177 – 267

91

KIILI…LALVK → VLDSSENLQSRCGLKWKEMQ REND in isoform 3.

VSP_035412

Alternative sequence

192 – 195

4

EYLI → VPKS in isoform 2.

VSP_034176

Alternative sequence

196 – 267

72

Missing in isoform 2.

VSP_034177

Natural variant

47

1

A → V: dbSNP rs259358. Ref.4

VAR_034420

Natural variant

86

1

K → N: dbSNP rs2296308. Ref.4

VAR_024346

Experimental info

Mutagenesis

61 – 62

2

YP → AA: Abolishes enhancement of IKBA sumoylation. Ref.6

Sequence conflict

79

1

Q → R in CAG38524. Ref.3

Secondary structure

1

.

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.

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267

Helix Strand Turn

Details...

Helix

3 – 16

14

Turn

19 – 21

3

Beta strand

25 – 27

3

Beta strand

29 – 31

3

Beta strand

33 – 40

8

Turn

43 – 46

4

Beta strand

50 – 57

8

Beta strand

73 – 75

3

Helix

77 – 93

17

Turn

94 – 96

3

Helix

99 – 107

9

Helix

111 – 115

5

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified June 10, 2008. Version 3. Checksum: 5C7943F4D4CF41EA	FASTA	267	30,530
	10 20 30 40 50 60 MAEPVQEELS VLAAIFCRPH EWEVLSRSET DGTVFRIHTK AEGFMDADIP LELVFHLPVN 70 80 90 100 110 120 YPSCLPGISI NSEQLTRAQC VTVKEKLLEQ AESLLSEPMV HELVLWIQQN LRHILSQPET 130 140 150 160 170 180 GSGSEKCTFS TSTTMDDGLW ITLLHLDHMR AKTKYVKIVE KWASDLRLTG RLMFMGKIIL 190 200 210 220 230 240 ILLQGDRNNL KEYLILQKTS KVDVDSSGKK CKEKMISVLF ETKVQTEHKR FLAFEVKEYS 250 260 ALDELQKEFE TAGLKKLFSE FVLALVK
	Isoform 2. Checksum: BED3EE497BEC142B	FASTA	195	22,140
	10 20 30 40 50 60 MAEPVQEELS VLAAIFCRPH EWEVLSRSET DGTVFRIHTK AEGFMDADIP LELVFHLPVN 70 80 90 100 110 120 YPSCLPGISI NSEQLTRAQC VTVKEKLLEQ AESLLSEPMV HELVLWIQQN LRHILSQPET 130 140 150 160 170 180 GSGSEKCTFS TSTTMDDGLW ITLLHLDHMR AKTKYVKIVE KWASDLRLTG RLMFMGKIIL 190 ILLQGDRNNL KVPKS
	Isoform 3. Checksum: D5AE4A4E63917E8B	FASTA	185	21,048
	10 20 30 40 50 60 MFLSCGSLHQ RGPETDGTVF RIHTKAEGFM DADIPLELVF HLPVNYPSCL PGISINSEQL 70 80 90 100 110 120 TRAQCVTVKE KLLEQAESLL SEPMVHELVL WIQQNLRHIL SQPETGSGSE KCTFSTSTTM 130 140 150 160 170 180 DDGLWITLLH LDHMRAKTKY VKIVEKWASD LRLTGRLMFM GVLDSSENLQ SRCGLKWKEM QREND

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs." Wiemann S., Weil B., Wellenreuther R., Gassenhuber J., Glassl S., Ansorge W., Boecher M., Bloecker H., Bauersachs S., Blum H., Lauber J., Duesterhoeft A., Beyer A., Koehrer K., Strack N., Mewes H.-W., Ottenwaelder B., Obermaier B. , Tampe J., Heubner D., Wambutt R., Korn B., Klein M., Poustka A. Genome Res. 11:422-435(2001) [PubMed: 11230166] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 2 AND 3). Tissue: Kidney.
[2]	"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: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Tissue: Thymus.
[3]	"Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)." Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B. Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
[4]	"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: 16710414] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANTS VAL-47 AND ASN-86.
[5]	"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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Tissue: Brain.
[6]	"RSUME, a small RWD-containing protein, enhances SUMO conjugation and stabilizes HIF-1alpha during hypoxia." Carbia-Nagashima A., Gerez J., Perez-Castro C., Paez-Pereda M., Silberstein S., Stalla G.K., Holsboer F., Arzt E. Cell 131:309-323(2007) [PubMed: 17956732] [Abstract] Cited for: FUNCTION, INTERACTION WITH UBE2I, INDUCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, MUTAGENESIS OF 61-TYR-PRO-62.
[7]	"Solution structure of the RWD domain of human RWD domain containing protein 3." RIKEN structural genomics initiative (RSGI) Submitted (AUG-2007) to the PDB data bank Cited for: STRUCTURE BY NMR OF 1-121.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AL050062 mRNA. Translation: CAB43254.2.
AK292665 mRNA. Translation: BAF85354.1.
AK292699 mRNA. Translation: BAF85388.1.
CR533493 mRNA. Translation: CAG38524.1.
AC092802 Genomic DNA. No translation available.
BC010936 mRNA. No translation available.
BC125142 mRNA. Translation: AAI25143.1.

IPI

IPI00642965.
IPI00646504.
IPI00790337.

RefSeq

NP_001121614.1.

UniGene

Hs.709591

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2EBK	NMR	-	A	1-121	[»]

ModBase

Search...

Protein-protein interaction databases

IntAct

Q9Y3V2. 4 interactions.

STRING

Q9Y3V2.

Genome annotation databases

Ensembl

ENST00000370202; ENSP00000359221; ENSG00000122481; Homo sapiens. [Genome view]

GeneID

25950.

KEGG

hsa:25950.

UCSC

uc001drf.2. human.
uc009wdu.1. human.

Organism-specific databases

CTD

25950.

GeneCards

GC01P095411.

H-InvDB

HIX0000800.

HGNC

HGNC:21393. RWDD3.

PharmGKB

PA134974302.

GenAtlas

Search...

Phylogenomic databases

eggNOG

prNOG14218.

HOGENOM

HBG445870.

HOVERGEN

Q9Y3V2.

InParanoid

Q9Y3V2.

Gene expression databases

ArrayExpress

Q9Y3V2.

Bgee

Q9Y3V2.

CleanEx

HS_RWDD3.

Genevestigator

Q9Y3V2.

GermOnline

ENSG00000122481. Homo sapiens.

Family and domain databases

InterPro

IPR006575. RWD.
IPR016135. UBQ-conjugat/RWD-like.
[Graphical view]

Gene3D

G3DSA:3.10.110.10. UBQ-conjugat_E2. 1 hit.

Pfam

PF05773. RWD. 1 hit.
[Graphical view]

SMART

SM00591. RWD. 1 hit.
[Graphical view]

PROSITE

PS50908. RWD. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

RWDD3_HUMAN

Accession

Primary (citable) accession number: Q9Y3V2
Secondary accession number(s): A6NP44 , A8K9F0, Q08AJ7, Q6FID3, Q9BX35

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 15, 2003
Last sequence update:	June 10, 2008
Last modified:	January 19, 2010
This is version 70 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

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.