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Q8NG50 (RDM1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 88. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (5) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
RAD52 motif-containing protein 1
Alternative name(s):
RAD52 homolog B
Gene names
Name:RDM1
Synonyms:RAD52B
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length284 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

May confer resistance to the antitumor agent cisplatin. Binds to DNA and RNA. Ref.1

Subunit structure

Homodimer By similarity.

Subcellular location

Nucleus. Cytoplasm. Nucleusnucleolus. Note: Isoform 3 and isoform 10 are predominantly nuclear and nucleolar. After treatment with proteasomal inhibitors and mild heat-shock stress, isoform 1, isoform 3, isoform 5, isoform 7, isoform 8 and isoform 10 are relocalized to the nucleolus as dot-like or irregular subnuclear structures. Isoform 1 colocalized with nuclear promyelocytic leukemia (PML) and Cajal bodies (CB); this association with nuclear bodies is enhanced in response to proteotoxic stress. Isoform 3, but not isoform 1 and isoform 5, is relocalized in nucleolar caps during transcriptional arrest. Ref.2

Isoform 1: Cytoplasm. NucleusPML body. NucleusCajal body. Note: Isoform 1 is predominantly cytoplasmic. Isoform 1 colocalized with nuclear promyelocytic leukemia (PML) and Cajal bodies (CB); this association with nuclear bodies is enhanced in response to proteotoxic stress. Ref.2

Tissue specificity

Expressed in testis. Ref.1

Induction

Heat-shock stress up-regulated mRNA expression of isoform 10 and isoform 11. Heat-shock stress down-regulated short N-terminal mRNA expression of isoform 2, isoform 4, isoform 6 and isoform 9. Ref.2

Domain

C-terminal half (amino acids 134-284) contains cytoplasmic retention domains as well as determinants involved in its stress-induced nucleolar accumulation.

Sequence similarities

Contains 1 RRM (RNA recognition motif) domain.

Ontologies

Alternative products

This entry describes 12 isoforms produced by alternative promoter usage and alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q8NG50-1)

Also known as: RDM1alpha; Long N-terminal form;

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.
Note: Produced by alternative promoter usage.
Isoform 2 (identifier: Q8NG50-2)

Also known as: DeltaN-RDM1alpha; Short N-terminal form;

The sequence of this isoform differs from the canonical sequence as follows:
     1-32: MAELVPFAVPIESDKTLLVWELSSGPTAEALH → MHLLVPPPQ
Note: Produced by alternative promoter usage.
Isoform 3 (identifier: Q8NG50-3)

Also known as: RDM1beta;

The sequence of this isoform differs from the canonical sequence as follows:
     134-139: LQELSD → DHYHSL
     140-284: Missing.
Note: Produced by alternative splicing of isoform 1.
Isoform 4 (identifier: Q8NG50-4)

Also known as: DeltaN-RDM1beta;

The sequence of this isoform differs from the canonical sequence as follows:
     1-32: MAELVPFAVPIESDKTLLVWELSSGPTAEALH → MHLLVPPPQ
     134-139: LQELSD → DHYHSL
     140-284: Missing.
Note: Produced by alternative splicing of isoform 2.
Isoform 5 (identifier: Q8NG50-5)

Also known as: RDM1gamma;

The sequence of this isoform differs from the canonical sequence as follows:
     190-222: Missing.
Note: Produced by alternative splicing of isoform 1.
Isoform 6 (identifier: Q8NG50-6)

Also known as: DeltaN-RDM1gamma;

The sequence of this isoform differs from the canonical sequence as follows:
     1-32: MAELVPFAVPIESDKTLLVWELSSGPTAEALH → MHLLVPPPQ
     190-222: Missing.
Note: Produced by alternative splicing of isoform 2.
Isoform 7 (identifier: Q8NG50-7)

Also known as: RDM1delta;

The sequence of this isoform differs from the canonical sequence as follows:
     33-92: Missing.
     134-139: LQELSD → DHYHSL
     140-284: Missing.
Note: Produced by alternative splicing of isoform 1.
Isoform 8 (identifier: Q8NG50-8)

Also known as: RDM1epsilon;

The sequence of this isoform differs from the canonical sequence as follows:
     134-139: LQELSD → KVVK
     140-284: Missing.
Note: Produced by alternative splicing of isoform 1.
Isoform 9 (identifier: Q8NG50-9)

Also known as: DeltaN-RDM1epsilon;

The sequence of this isoform differs from the canonical sequence as follows:
     1-32: MAELVPFAVPIESDKTLLVWELSSGPTAEALH → MHLLVPPPQ
     134-139: LQELSD → KVVK
     140-284: Missing.
Note: Produced by alternative splicing of isoform 2.
Isoform 10 (identifier: Q8NG50-10)

Also known as: RDM1zeta;

The sequence of this isoform differs from the canonical sequence as follows:
     134-251: Missing.
Note: Produced by alternative splicing of isoform 1. In cells exposed to a mild heat schock.
Isoform 11 (identifier: Q8NG50-11)

Also known as: DeltaN-RDM1zeta;

The sequence of this isoform differs from the canonical sequence as follows:
     1-32: MAELVPFAVPIESDKTLLVWELSSGPTAEALH → MHLLVPPPQ
     134-251: Missing.
Note: Produced by alternative splicing of isoform 2. In cells exposed to a mild heat schock.
Isoform 12 (identifier: Q8NG50-12)

The sequence of this isoform differs from the canonical sequence as follows:
     223-284: ESGKIAVEYR...EEEFRLPELD → GKTVLIILEVLQFQ
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 284284RAD52 motif-containing protein 1
PRO_0000299528

Regions

Domain15 – 9884RRM
Region1 – 9292Necessary for nuclear localization and for nucleolar accumulation in response to heat shock
Region90 – 13344Necessary for nuclear and nucleolar localization

Natural variations

Alternative sequence1 – 3232MAELV…AEALH → MHLLVPPPQ in isoform 2, isoform 4, isoform 6, isoform 9 and isoform 11.
VSP_029648
Alternative sequence33 – 9260Missing in isoform 7.
VSP_029649
Alternative sequence134 – 251118Missing in isoform 10 and isoform 11.
VSP_029650
Alternative sequence134 – 1396LQELSD → DHYHSL in isoform 3, isoform 4 and isoform 7.
VSP_029653
Alternative sequence134 – 1396LQELSD → KVVK in isoform 8 and isoform 9.
VSP_037151
Alternative sequence140 – 284145Missing in isoform 3, isoform 4, isoform 7, isoform 8 and isoform 9.
VSP_029654
Alternative sequence190 – 22233Missing in isoform 5 and isoform 6.
VSP_029655
Alternative sequence223 – 28462ESGKI…LPELD → GKTVLIILEVLQFQ in isoform 12.
VSP_044856
Natural variant321H → R. Ref.4
Corresponds to variant rs2280786 [ dbSNP | Ensembl ].
VAR_034835
Natural variant1271C → W. Ref.4
Corresponds to variant rs2251660 [ dbSNP | Ensembl ].
VAR_034836

Experimental info

Mutagenesis98 – 1003RHK → AAA: Reduces its nuclear and nucleolar accumulation. Increases its cytoplasmic accumulation. Ref.2
Mutagenesis120 – 1223YYF → AAA: Does not affect its subcellular distribution. Ref.2
Sequence conflict1211Y → C in BC038301. Ref.2

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 (RDM1alpha) (Long N-terminal form) [UniParc].

Last modified October 1, 2002. Version 1.
Checksum: F0C241F094C447E9

FASTA28431,970
        10         20         30         40         50         60 
MAELVPFAVP IESDKTLLVW ELSSGPTAEA LHHSLFTAFS QFGLLYSVRV FPNAAVAHPG 

        70         80         90        100        110        120 
FYAVIKFYSA RAAHRAQKAC DRKQLFQKSP VKVRLGTRHK AVQHQALALN SSKCQELANY 

       130        140        150        160        170        180 
YFGFNGCSKR IIKLQELSDL EERENEDSMV PLPKQSLKFF CALEVVLPSC DCRSPGIGLV 

       190        200        210        220        230        240 
EEPMDKVEEG PLSFLMKRKT AQKLAIQKAL SDAFQKLLIV VLESGKIAVE YRPSEDIVGV 

       250        260        270        280 
RCEEELHGLI QVPCSPWKQY GQEEEGYLSD FSLEEEEFRL PELD 

« Hide

Isoform 2 (DeltaN-RDM1alpha) (Short N-terminal form) [UniParc].

Checksum: 96B9D4EE7F67565A
Show »

FASTA26129,549
Isoform 3 (RDM1beta) [UniParc].

Checksum: FD344AD9A3F17E81
Show »

FASTA13915,594
Isoform 4 (DeltaN-RDM1beta) [UniParc].

Checksum: 5E58FFC59167606A
Show »

FASTA11613,173
Isoform 5 (RDM1gamma) [UniParc].

Checksum: 08458791A5D07A7D
Show »

FASTA25128,317
Isoform 6 (DeltaN-RDM1gamma) [UniParc].

Checksum: C54EE2975C36C54E
Show »

FASTA22825,897
Isoform 7 (RDM1delta) [UniParc].

Checksum: 09C820E80D642482
Show »

FASTA798,838
Isoform 8 (RDM1epsilon) [UniParc].

Checksum: 180020D8EE81F248
Show »

FASTA13715,296
Isoform 9 (DeltaN-RDM1epsilon) [UniParc].

Checksum: 6D1C124EF06A2B2C
Show »

FASTA11412,875
Isoform 10 (RDM1zeta) [UniParc].

Checksum: B80735A83E6952DE
Show »

FASTA16618,773
Isoform 11 (DeltaN-RDM1zeta) [UniParc].

Checksum: 1863C73C9A30D14A
Show »

FASTA14316,353
Isoform 12 [UniParc].

Checksum: 773631D84CD423AA
Show »

FASTA23626,382

References

« Hide 'large scale' references
[1]"RDM1, a novel RNA recognition motif (RRM)-containing protein involved in the cell response to cisplatin in vertebrates."
Hamimes S., Arakawa H., Stasiak A.Z., Kierzek A.M., Hirano S., Yang Y.-G., Takata M., Stasiak A., Buerstedde J.M., Van Dyck E.
J. Biol. Chem. 280:9225-9235(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, TISSUE SPECIFICITY.
[2]"Subcellular distribution of human RDM1 protein isoforms and their nucleolar accumulation in response to heat shock and proteotoxic stress."
Messaoudi L., Yang Y.-G., Kinomura A., Stavreva D.A., Yan G., Bortolin-Cavaille M.-L., Arakawa H., Buerstedde J.-M., Hainaut P., Cavaille J., Takata M., Van Dyck E.
Nucleic Acids Res. 35:6571-6587(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2; 3; 4; 5; 6; 7; 8; 9; 10 AND 11), SUBCELLULAR LOCATION, INDUCTION, MUTAGENESIS OF 98-ARG--LYS-100 AND 120-TYR--PHE-122, ALTERNATIVE PROMOTER USAGE, ALTERNATIVE SPLICING (ISOFORMS 1; 2; 3; 4; 5; 6; 7; 8; 9; 10 AND 11).
[3]"DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage."
Zody M.C., Garber M., Adams D.J., Sharpe T., Harrow J., Lupski J.R., Nicholson C., Searle S.M., Wilming L., Young S.K., Abouelleil A., Allen N.R., Bi W., Bloom T., Borowsky M.L., Bugalter B.E., Butler J., Chang J.L. expand/collapse author list , Chen C.-K., Cook A., Corum B., Cuomo C.A., de Jong P.J., DeCaprio D., Dewar K., FitzGerald M., Gilbert J., Gibson R., Gnerre S., Goldstein S., Grafham D.V., Grocock R., Hafez N., Hagopian D.S., Hart E., Norman C.H., Humphray S., Jaffe D.B., Jones M., Kamal M., Khodiyar V.K., LaButti K., Laird G., Lehoczky J., Liu X., Lokyitsang T., Loveland J., Lui A., Macdonald P., Major J.E., Matthews L., Mauceli E., McCarroll S.A., Mihalev A.H., Mudge J., Nguyen C., Nicol R., O'Leary S.B., Osoegawa K., Schwartz D.C., Shaw-Smith C., Stankiewicz P., Steward C., Swarbreck D., Venkataraman V., Whittaker C.A., Yang X., Zimmer A.R., Bradley A., Hubbard T., Birren B.W., Rogers J., Lander E.S., Nusbaum C.
Nature 440:1045-1049(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]"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] (ISOFORMS 1 AND 12), VARIANTS ARG-32 AND TRP-127.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AB080728 mRNA. Translation: BAC02562.1.
EF488473 mRNA. Translation: ABS86950.1.
EF488474 mRNA. Translation: ABS86951.1.
EF488475 mRNA. Translation: ABS86952.1.
EF488476 mRNA. Translation: ABS86953.1.
EF488477 mRNA. Translation: ABS86954.1.
EF488478 mRNA. Translation: ABS86955.1.
EF488479 mRNA. Translation: ABS86956.1.
EF488480 mRNA. Translation: ABS86957.1.
EF488481 mRNA. Translation: ABS86958.1.
EF488482 mRNA. Translation: ABS86959.1.
AC004675 Genomic DNA. No translation available.
AC015849 Genomic DNA. No translation available.
BC038301 mRNA. No translation available.
BC127190 mRNA. Translation: AAI27191.1.
BM559857 mRNA. No translation available.
IPIIPI00168915.
IPI00654678.
IPI00788746.
IPI00789247.
IPI00793000.
IPI00876903.
IPI00876942.
IPI00877094.
IPI00877137.
IPI00877163.
IPI01017997.
RefSeqNP_001030008.1. NM_001034836.1.
NP_001156592.1. NM_001163120.1.
NP_001156593.1. NM_001163121.1.
NP_001156594.1. NM_001163122.1.
NP_001156596.1. NM_001163124.1.
NP_001156597.1. NM_001163125.1.
NP_001156602.1. NM_001163130.1.
NP_663629.1. NM_145654.3.
UniGeneHs.194411.

3D structure databases

ProteinModelPortalQ8NG50.
ModBaseSearch...

PTM databases

PhosphoSiteQ8NG50.

Polymorphism databases

DMDM74762574.

Proteomic databases

PaxDbQ8NG50.
PRIDEQ8NG50.

Protocols and materials databases

DNASU201299.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000293273; ENSP00000293273; ENSG00000187456.
ENST00000394527; ENSP00000378035; ENSG00000187456.
ENST00000394528; ENSP00000378036; ENSG00000187456.
ENST00000394529; ENSP00000378037; ENSG00000187456.
ENST00000419453; ENSP00000409875; ENSG00000187456.
ENST00000425909; ENSP00000393620; ENSG00000187456.
ENST00000431884; ENSP00000391290; ENSG00000187456.
ENST00000436836; ENSP00000397431; ENSG00000187456.
ENST00000585884; ENSP00000467455; ENSG00000187456.
ENST00000585939; ENSP00000466065; ENSG00000187456.
ENST00000591402; ENSP00000465749; ENSG00000187456.
ENST00000591420; ENSP00000466108; ENSG00000187456.
ENST00000592489; ENSP00000465603; ENSG00000187456.
GeneID201299.
KEGGhsa:201299.
UCSCuc002hkg.4. human.
uc002hkh.3. human.
uc010ctz.3. human.
uc010cua.3. human.
uc010cuc.3. human.
uc010cud.3. human.
uc010wco.2. human.

Organism-specific databases

CTD201299.
GeneCardsGC17M034274.
HGNCHGNC:19950. RDM1.
HPAHPA024708.
HPA024794.
MIM612896. gene.
neXtProtNX_Q8NG50.
PharmGKBPA134932526.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG42707.
HOVERGENHBG105575.
InParanoidQ8NG50.
KOK10874.
OMAYDCRSPG.
OrthoDBEOG4FJ89B.
PhylomeDBQ8NG50.

Gene expression databases

ArrayExpressQ8NG50.
BgeeQ8NG50.
CleanExHS_RDM1.
GenevestigatorQ8NG50.

Family and domain databases

Gene3D3.30.70.330. 1 hit.
InterProIPR012677. Nucleotide-bd_a/b_plait.
IPR007232. Rad52_Rad22.
IPR000504. RRM_dom.
[Graphical view]
PfamPF04098. Rad52_Rad22. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
PROSITEPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

GenomeRNAi201299.
NextBio90133.
SOURCESearch...

Entry information

Entry nameRDM1_HUMAN
AccessionPrimary (citable) accession number: Q8NG50
Secondary accession number(s): A0JP55 expand/collapse secondary AC list , A8MV46, A8MY68, A8MZ92, A8RCS5, A8RCT0, A8RCT5, A8RCT8, A8RCU3, A8RCU8, A8RCW0, A8RCW5
Entry history
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: October 1, 2002
Last modified: May 1, 2013
This is version 88 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

Human chromosome 17

Human chromosome 17: entries, gene names and cross-references to MIM

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

SIMILARITY comments

Index of protein domains and families