Human Gene RNF123 (ENST00000327697.11_4) from GENCODE V47lift37
  Description: ring finger protein 123, transcript variant 1 (from RefSeq NM_022064.5)
Gencode Transcript: ENST00000327697.11_4
Gencode Gene: ENSG00000164068.16_8
Transcript (Including UTRs)
   Position: hg19 chr3:49,726,990-49,758,962 Size: 31,973 Total Exon Count: 39 Strand: +
Coding Region
   Position: hg19 chr3:49,728,599-49,758,738 Size: 30,140 Coding Exon Count: 38 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:49,726,990-49,758,962)mRNA (may differ from genome)Protein (1314 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RN123_HUMAN
DESCRIPTION: RecName: Full=E3 ubiquitin-protein ligase RNF123; EC=6.3.2.-; AltName: Full=Kip1 ubiquitination-promoting complex protein 1; AltName: Full=RING finger protein 123;
FUNCTION: Catalytic subunit of the KPC complex that acts as E3 ubiquitin-protein ligase. Required for poly-ubiquitination and proteasome-mediated degradation of CDKN1B during G1 phase of the cell cycle.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Component of the KPC complex composed of RNF123/KPC1 and UBAC1/KPC2. Interacts with UBAC1 and CDKN1B via its N-terminal domain.
SUBCELLULAR LOCATION: Cytoplasm.
PTM: Ubiquitinated, leading to its degradation. Deubiquitinated by USP19, thereby stimulating CDKN1B ubiquitin-dependent degradation (By similarity).
SIMILARITY: Contains 1 B30.2/SPRY domain.
SIMILARITY: Contains 1 RING-type zinc finger.
SEQUENCE CAUTION: Sequence=BAB14139.1; Type=Erroneous initiation; Sequence=BAB15607.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 37.24 RPKM in Muscle - Skeletal
Total median expression: 463.03 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -34.7086-0.403 Picture PostScript Text
3' UTR -54.70224-0.244 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001870 - B30.2/SPRY
IPR008985 - ConA-like_lec_gl_sf
IPR018355 - SPla/RYanodine_receptor_subgr
IPR003877 - SPRY_rcpt
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD

Pfam Domains:
PF00622 - SPRY domain
PF13920 - Zinc finger, C3HC4 type (RING finger)

SCOP Domains:
49899 - Concanavalin A-like lectins/glucanases
144020 - FdhE-like
57850 - RING/U-box
57903 - FYVE/PHD zinc finger

ModBase Predicted Comparative 3D Structure on Q5XPI4
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0016740 transferase activity
GO:0046872 metal ion binding

Biological Process:
GO:0016567 protein ubiquitination
GO:0016579 protein deubiquitination

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0031965 nuclear membrane


-  Descriptions from all associated GenBank mRNAs
  AL832034 - Homo sapiens mRNA; cDNA DKFZp451P244 (from clone DKFZp451P244).
AK308607 - Homo sapiens cDNA, FLJ98648.
BC112900 - Homo sapiens cDNA clone IMAGE:3909203, containing frame-shift errors.
AK308130 - Homo sapiens cDNA, FLJ98078.
AK126883 - Homo sapiens cDNA FLJ44935 fis, clone BRAMY3017965.
BC130632 - Homo sapiens ring finger protein 123, mRNA (cDNA clone MGC:163504 IMAGE:40146663), complete cds.
AL832344 - Homo sapiens mRNA; cDNA DKFZp451N085 (from clone DKFZp451N085).
AL832138 - Homo sapiens mRNA; cDNA DKFZp686M2210 (from clone DKFZp686M2210).
CR627051 - Homo sapiens mRNA; cDNA DKFZp686C2222 (from clone DKFZp686C2222).
AK096353 - Homo sapiens cDNA FLJ39034 fis, clone NT2RP7008085, highly similar to Homo sapiens ring finger protein 123 (RNF123), mRNA.
AY744152 - Homo sapiens ubiquitin ligase (KPC1) mRNA, complete cds.
AB385257 - Synthetic construct DNA, clone: pF1KB9504, Homo sapiens RNF123 gene for E3 ubiquitin-protein ligase RNF123, complete cds, without stop codon, in Flexi system.
AM393062 - Synthetic construct Homo sapiens clone IMAGE:100002259 for hypothetical protein (RNF123 gene).
AF370367 - Homo sapiens FP1477 mRNA, complete cds.
AK090632 - Homo sapiens cDNA FLJ33313 fis, clone BNGH42006135.
AX746548 - Sequence 73 from Patent EP1308459.
BC057392 - Homo sapiens ring finger protein 123, mRNA (cDNA clone IMAGE:6174547), partial cds.
BC041145 - Homo sapiens ring finger protein 123, mRNA (cDNA clone IMAGE:6070768), partial cds.
BC088801 - Homo sapiens ring finger protein 123, mRNA (cDNA clone IMAGE:6376662), partial cds.
AK026968 - Homo sapiens cDNA: FLJ23315 fis, clone HEP12021.
AK022627 - Homo sapiens cDNA FLJ12565 fis, clone NT2RM4000848.
AL136729 - Homo sapiens mRNA; cDNA DKFZp434A0610 (from clone DKFZp434A0610).
JD020294 - Sequence 1318 from Patent EP1572962.
JD028793 - Sequence 9817 from Patent EP1572962.
LF208624 - JP 2014500723-A/16127: Polycomb-Associated Non-Coding RNAs.
MA444201 - JP 2018138019-A/16127: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q5XPI4 (Reactome details) participates in the following event(s):

R-HSA-6781814 USP19 deubiquitinates RNF123
R-HSA-983157 Interaction of E3 with substrate and E2-Ub complex
R-HSA-983147 Release of E3 from polyubiquitinated substrate
R-HSA-983140 Transfer of Ub from E2 to substrate and release of E2
R-HSA-5689880 Ub-specific processing proteases
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-5688426 Deubiquitination
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-597592 Post-translational protein modification
R-HSA-1280218 Adaptive Immune System
R-HSA-392499 Metabolism of proteins
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A1L4Q3, A6NLS5, ENST00000327697.1, ENST00000327697.10, ENST00000327697.2, ENST00000327697.3, ENST00000327697.4, ENST00000327697.5, ENST00000327697.6, ENST00000327697.7, ENST00000327697.8, ENST00000327697.9, FP1477, KPC1 , NM_022064, Q5I022, Q5XPI4, Q6PFW4, Q71RH0, Q8IW18, Q9H0M8, Q9H5L8, Q9H9T2, RN123_HUMAN, RNF123 , uc317sil.1, uc317sil.2
UCSC ID: ENST00000327697.11_4
RefSeq Accession: NM_022064.5
Protein: Q5XPI4 (aka RN123_HUMAN)

-  Gene Model Information
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.