Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

Q9H0F5 (RNF38_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 107. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (7) | 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:
E3 ubiquitin-protein ligase RNF38

EC=6.3.2.-
Alternative name(s):
RING finger protein 38
Gene names
Name:RNF38
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length515 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Acts as an E3 ubiquitin-protein ligase able to ubiquitinate p53/TP53 which promotes its relocalization to discrete foci associated with PML nuclear bodies. Exhibits preference for UBE2D2 as a E2 enzyme. Ref.7

Pathway

Protein modification; protein ubiquitination.

Subcellular location

Nucleus Ref.7.

Tissue specificity

Widely expressed with highest levels in testis. Ref.1

Sequence similarities

Contains 1 RING-type zinc finger.

Ontologies

Keywords
   Biological processUbl conjugation pathway
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
Polymorphism
   DomainZinc-finger
   LigandMetal-binding
Zinc
   Molecular functionLigase
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processmale gonad development

Inferred from electronic annotation. Source: Ensembl

protein ubiquitination

Inferred from direct assay Ref.7. Source: FlyBase

   Cellular_componentnucleus

Inferred from direct assay Ref.7. Source: FlyBase

sperm flagellum

Inferred from electronic annotation. Source: Ensembl

   Molecular_functionubiquitin-protein transferase activity

Inferred from direct assay Ref.7. Source: FlyBase

zinc ion binding

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Alternative products

This entry describes 5 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q9H0F5-1)

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: Q9H0F5-2)

The sequence of this isoform differs from the canonical sequence as follows:
     5-54: Missing.
Note: No experimental confirmation available.
Isoform 3 (identifier: Q9H0F5-3)

The sequence of this isoform differs from the canonical sequence as follows:
     1-83: Missing.
Isoform 4 (identifier: Q9H0F5-4)

The sequence of this isoform differs from the canonical sequence as follows:
     1-44: MACKISPGAN...LPSDQNTTVQ → MQHTCTQQKK...NLAGFQLQSP
     45-120: Missing.
Note: No experimental confirmation available.
Isoform 5 (identifier: Q9H0F5-5)

The sequence of this isoform differs from the canonical sequence as follows:
     1-183: Missing.
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 515515E3 ubiquitin-protein ligase RNF38
PRO_0000056078

Regions

Zinc finger463 – 50442RING-type
Motif57 – 7115Bipartite nuclear localization signal 1
Motif115 – 13117Bipartite nuclear localization signal 2
Compositional bias239 – 404166Pro-rich

Natural variations

Alternative sequence1 – 183183Missing in isoform 5.
VSP_053845
Alternative sequence1 – 8383Missing in isoform 3.
VSP_037337
Alternative sequence1 – 4444MACKI…NTTVQ → MQHTCTQQKKVTYKHIARFS PRNRLCQADAVFNNNLAGFQ LQSP in isoform 4.
VSP_053846
Alternative sequence5 – 5450Missing in isoform 2.
VSP_012243
Alternative sequence45 – 12076Missing in isoform 4.
VSP_053847
Natural variant2061A → T. Ref.1
Corresponds to variant rs183475137 [ dbSNP | Ensembl ].
VAR_055400

Experimental info

Sequence conflict3081I → K in CAB66751. Ref.2
Sequence conflict4211E → G in BAG52726. Ref.3

Secondary structure

................. 515
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified December 21, 2004. Version 4.
Checksum: ABFE9486CA732AFA

FASTA51557,595
        10         20         30         40         50         60 
MACKISPGAN SASLPGHPNK VICERVRLQS LFPLLPSDQN TTVQEDAHFK AFFQSEDSPS 

        70         80         90        100        110        120 
PKRQRLSHSV FDYTSASPAP SPPMRPWEMT SNRQPPSVRP SQHHFSGERC NTPARNRRSP 

       130        140        150        160        170        180 
PVRRQRGRRD RLSRHNSISQ DENYHHLPYA QQQAIEEPRA FHPPNVSPRL LHPAAHPPQQ 

       190        200        210        220        230        240 
NAVMVDIHDQ LHQGTVPVSY TVTTVAPHGI PLCTGQHIPA CSTQQVPGCS VVFSGQHLPV 

       250        260        270        280        290        300 
CSVPPPMLQA CSVQHLPVPY AAFPPLISSD PFLIHPPHLS PHHPPHLPPP GQFVPFQTQQ 

       310        320        330        340        350        360 
SRSPLQRIEN EVELLGEHLP VGGFTYPPSA HPPTLPPSAP LQFLTHDPLH QEVSFGVPYP 

       370        380        390        400        410        420 
PFMPRRLTGR SRYRSQQPIP PPPYHPSLLP YVLSMLPVPP AVGPTFSFEL DVEDGEVENY 

       430        440        450        460        470        480 
EALLNLAERL GEAKPRGLTK ADIEQLPSYR FNPNNHQSEQ TLCVVCMCDF ESRQLLRVLP 

       490        500        510 
CNHEFHAKCV DKWLKANRTC PICRADASEV HRDSE 

« Hide

Isoform 2 [UniParc].

Checksum: 18A919182C967BA6
Show »

FASTA46552,106
Isoform 3 [UniParc].

Checksum: CCC2D1396DB31D2C
Show »

FASTA43248,562
Isoform 4 [UniParc].

Checksum: 76E2EFFA9FDFA02D
Show »

FASTA43949,265
Isoform 5 [UniParc].

Checksum: 4A2E365DA4A094A0
Show »

FASTA33236,836

References

« Hide 'large scale' references
[1]"Cloning and characterization of a novel human gene RNF38 encoding a conserved putative protein with a RING finger domain."
Eisenberg I., Hochner H., Levi T., Yelin R., Kahan T., Mitrani-Rosenbaum S.
Biochem. Biophys. Res. Commun. 294:1169-1176(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3), TISSUE SPECIFICITY, VARIANT THR-206.
[2]"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. expand/collapse author list , Tampe J., Heubner D., Wambutt R., Korn B., Klein M., Poustka A.
Genome Res. 11:422-435(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
Tissue: Testis.
[3]"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. expand/collapse author list , 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] (ISOFORMS 4 AND 5).
Tissue: Colon and Testis.
[4]"DNA sequence and analysis of human chromosome 9."
Humphray S.J., Oliver K., Hunt A.R., Plumb R.W., Loveland J.E., Howe K.L., Andrews T.D., Searle S., Hunt S.E., Scott C.E., Jones M.C., Ainscough R., Almeida J.P., Ambrose K.D., Ashwell R.I.S., Babbage A.K., Babbage S., Bagguley C.L. expand/collapse author list , Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beasley H., Beasley O., Bird C.P., Bray-Allen S., Brown A.J., Brown J.Y., Burford D., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Chen Y., Clarke G., Clark S.Y., Clee C.M., Clegg S., Collier R.E., Corby N., Crosier M., Cummings A.T., Davies J., Dhami P., Dunn M., Dutta I., Dyer L.W., Earthrowl M.E., Faulkner L., Fleming C.J., Frankish A., Frankland J.A., French L., Fricker D.G., Garner P., Garnett J., Ghori J., Gilbert J.G.R., Glison C., Grafham D.V., Gribble S., Griffiths C., Griffiths-Jones S., Grocock R., Guy J., Hall R.E., Hammond S., Harley J.L., Harrison E.S.I., Hart E.A., Heath P.D., Henderson C.D., Hopkins B.L., Howard P.J., Howden P.J., Huckle E., Johnson C., Johnson D., Joy A.A., Kay M., Keenan S., Kershaw J.K., Kimberley A.M., King A., Knights A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C., Lloyd D.M., Lovell J., Martin S., Mashreghi-Mohammadi M., Matthews L., McLaren S., McLay K.E., McMurray A., Milne S., Nickerson T., Nisbett J., Nordsiek G., Pearce A.V., Peck A.I., Porter K.M., Pandian R., Pelan S., Phillimore B., Povey S., Ramsey Y., Rand V., Scharfe M., Sehra H.K., Shownkeen R., Sims S.K., Skuce C.D., Smith M., Steward C.A., Swarbreck D., Sycamore N., Tester J., Thorpe A., Tracey A., Tromans A., Thomas D.W., Wall M., Wallis J.M., West A.P., Whitehead S.L., Willey D.L., Williams S.A., Wilming L., Wray P.W., Young L., Ashurst J.L., Coulson A., Blocker H., Durbin R.M., Sulston J.E., Hubbard T., Jackson M.J., Bentley D.R., Beck S., Rogers J., Dunham I.
Nature 429:369-374(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]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. expand/collapse author list , 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 (SEP-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]"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] (ISOFORM 2).
Tissue: Brain.
[7]"RNF38 encodes a nuclear ubiquitin protein ligase that modifies p53."
Sheren J.E., Kassenbrock C.K.
Biochem. Biophys. Res. Commun. 440:473-478(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, NUCLEAR LOCALIZATION SIGNAL, SUBCELLULAR LOCATION.
[8]"Solution structure of RING finger in RING finger protein 38."
RIKEN structural genomics initiative (RSGI)
Submitted (NOV-2005) to the PDB data bank
Cited for: STRUCTURE BY NMR OF 445-506.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF394047 mRNA. Translation: AAM73697.1.
AL136817 mRNA. Translation: CAB66751.3.
AK024996 mRNA. Translation: BAB15050.1.
AK093480 mRNA. Translation: BAG52726.1.
AL161792, AL354935 Genomic DNA. Translation: CAO03553.1.
AL354935, AL161792 Genomic DNA. Translation: CAO03540.1.
AL354935, AL161792 Genomic DNA. Translation: CAO03541.1.
AL161792, AL354935 Genomic DNA. Translation: CAO03554.1.
CH471071 Genomic DNA. Translation: EAW58305.1.
BC033786 mRNA. Translation: AAH33786.2.
CCDSCCDS6603.1. [Q9H0F5-1]
CCDS6604.1. [Q9H0F5-2]
RefSeqNP_073618.3. NM_022781.4. [Q9H0F5-1]
NP_919309.1. NM_194328.2. [Q9H0F5-3]
NP_919310.1. NM_194329.2. [Q9H0F5-2]
NP_919311.1. NM_194330.2. [Q9H0F5-3]
NP_919313.1. NM_194332.2. [Q9H0F5-3]
XP_005251423.1. XM_005251366.1. [Q9H0F5-3]
XP_005251424.1. XM_005251367.1. [Q9H0F5-3]
XP_005251425.1. XM_005251368.1. [Q9H0F5-3]
XP_006716784.1. XM_006716721.1. [Q9H0F5-3]
UniGeneHs.333503.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1X4JNMR-A445-506[»]
ProteinModelPortalQ9H0F5.
SMRQ9H0F5. Positions 445-507.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid127416. 16 interactions.
IntActQ9H0F5. 9 interactions.
MINTMINT-4720518.
STRING9606.ENSP00000259605.

PTM databases

PhosphoSiteQ9H0F5.

Polymorphism databases

DMDM56749664.

Proteomic databases

PaxDbQ9H0F5.
PRIDEQ9H0F5.

Protocols and materials databases

DNASU152006.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000259605; ENSP00000259605; ENSG00000137075. [Q9H0F5-1]
ENST00000350199; ENSP00000343947; ENSG00000137075. [Q9H0F5-3]
ENST00000353739; ENSP00000335239; ENSG00000137075. [Q9H0F5-2]
ENST00000357058; ENSP00000349566; ENSG00000137075. [Q9H0F5-3]
ENST00000377877; ENSP00000367109; ENSG00000137075.
ENST00000377885; ENSP00000367117; ENSG00000137075. [Q9H0F5-3]
GeneID152006.
KEGGhsa:152006.
UCSCuc003zzh.3. human. [Q9H0F5-1]
uc003zzi.3. human. [Q9H0F5-2]

Organism-specific databases

CTD152006.
GeneCardsGC09M036336.
HGNCHGNC:18052. RNF38.
HPAHPA015853.
MIM612488. gene.
neXtProtNX_Q9H0F5.
PharmGKBPA34438.
GenAtlasSearch...

Phylogenomic databases

eggNOGCOG5540.
HOGENOMHOG000231638.
HOVERGENHBG059283.
InParanoidQ9H0F5.
OMANQHHFSG.
OrthoDBEOG74TWZV.
PhylomeDBQ9H0F5.
TreeFamTF325756.

Enzyme and pathway databases

UniPathwayUPA00143.

Gene expression databases

ArrayExpressQ9H0F5.
BgeeQ9H0F5.
CleanExHS_RNF38.
GenevestigatorQ9H0F5.

Family and domain databases

Gene3D3.30.40.10. 1 hit.
InterProIPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamPF13639. zf-RING_2. 1 hit.
[Graphical view]
SMARTSM00184. RING. 1 hit.
[Graphical view]
PROSITEPS50089. ZF_RING_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSRNF38. human.
EvolutionaryTraceQ9H0F5.
GeneWikiRNF38.
GenomeRNAi152006.
NextBio35466719.
PROQ9H0F5.
SOURCESearch...

Entry information

Entry nameRNF38_HUMAN
AccessionPrimary (citable) accession number: Q9H0F5
Secondary accession number(s): A6PVP9 expand/collapse secondary AC list , B1AM81, B1AM82, B3KSG4, E7EVL3, Q7LB33, Q8N0Y0, Q9H748
Entry history
Integrated into UniProtKB/Swiss-Prot: December 21, 2004
Last sequence update: December 21, 2004
Last modified: July 9, 2014
This is version 107 of the entry and version 4 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

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

PATHWAY comments

Index of metabolic and biosynthesis pathways

MIM cross-references

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

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human chromosome 9

Human chromosome 9: entries, gene names and cross-references to MIM