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Protein

26S proteasome non-ATPase regulatory subunit 13

Gene

PSMD13

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Component of the 26S proteasome, a multiprotein complex involved in the ATP-dependent degradation of ubiquitinated proteins. This complex plays a key role in the maintenance of protein homeostasis by removing misfolded or damaged proteins, which could impair cellular functions, and by removing proteins whose functions are no longer required. Therefore, the proteasome participates in numerous cellular processes, including cell cycle progression, apoptosis, or DNA damage repair.1 Publication

GO - Molecular functioni

GO - Biological processi

Enzyme and pathway databases

ReactomeiR-HSA-1169091 Activation of NF-kappaB in B cells
R-HSA-1234176 Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha
R-HSA-1236974 ER-Phagosome pathway
R-HSA-1236978 Cross-presentation of soluble exogenous antigens (endosomes)
R-HSA-174084 Autodegradation of Cdh1 by Cdh1:APC/C
R-HSA-174113 SCF-beta-TrCP mediated degradation of Emi1
R-HSA-174154 APC/C:Cdc20 mediated degradation of Securin
R-HSA-174178 APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1
R-HSA-174184 Cdc20:Phospho-APC/C mediated degradation of Cyclin A
R-HSA-180534 Vpu mediated degradation of CD4
R-HSA-180585 Vif-mediated degradation of APOBEC3G
R-HSA-187577 SCF(Skp2)-mediated degradation of p27/p21
R-HSA-195253 Degradation of beta-catenin by the destruction complex
R-HSA-202424 Downstream TCR signaling
R-HSA-211733 Regulation of activated PAK-2p34 by proteasome mediated degradation
R-HSA-2467813 Separation of Sister Chromatids
R-HSA-2871837 FCERI mediated NF-kB activation
R-HSA-349425 Autodegradation of the E3 ubiquitin ligase COP1
R-HSA-350562 Regulation of ornithine decarboxylase (ODC)
R-HSA-382556 ABC-family proteins mediated transport
R-HSA-450408 AUF1 (hnRNP D0) binds and destabilizes mRNA
R-HSA-4608870 Asymmetric localization of PCP proteins
R-HSA-4641257 Degradation of AXIN
R-HSA-4641258 Degradation of DVL
R-HSA-5358346 Hedgehog ligand biogenesis
R-HSA-5362768 Hh mutants that don't undergo autocatalytic processing are degraded by ERAD
R-HSA-5607761 Dectin-1 mediated noncanonical NF-kB signaling
R-HSA-5607764 CLEC7A (Dectin-1) signaling
R-HSA-5610780 Degradation of GLI1 by the proteasome
R-HSA-5610783 Degradation of GLI2 by the proteasome
R-HSA-5610785 GLI3 is processed to GLI3R by the proteasome
R-HSA-5632684 Hedgehog 'on' state
R-HSA-5658442 Regulation of RAS by GAPs
R-HSA-5668541 TNFR2 non-canonical NF-kB pathway
R-HSA-5676590 NIK-->noncanonical NF-kB signaling
R-HSA-5678895 Defective CFTR causes cystic fibrosis
R-HSA-5687128 MAPK6/MAPK4 signaling
R-HSA-5689603 UCH proteinases
R-HSA-5689880 Ub-specific processing proteases
R-HSA-6798695 Neutrophil degranulation
R-HSA-68827 CDT1 association with the CDC6:ORC:origin complex
R-HSA-68949 Orc1 removal from chromatin
R-HSA-69017 CDK-mediated phosphorylation and removal of Cdc6
R-HSA-69229 Ubiquitin-dependent degradation of Cyclin D1
R-HSA-69481 G2/M Checkpoints
R-HSA-69601 Ubiquitin Mediated Degradation of Phosphorylated Cdc25A
R-HSA-8852276 The role of GTSE1 in G2/M progression after G2 checkpoint
R-HSA-8854050 FBXL7 down-regulates AURKA during mitotic entry and in early mitosis
R-HSA-8939236 RUNX1 regulates transcription of genes involved in differentiation of HSCs
R-HSA-8939902 Regulation of RUNX2 expression and activity
R-HSA-8941858 Regulation of RUNX3 expression and activity
R-HSA-8948751 Regulation of PTEN stability and activity
R-HSA-8951664 Neddylation
R-HSA-9010553 Regulation of expression of SLITs and ROBOs
R-HSA-9020702 Interleukin-1 signaling
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation

Names & Taxonomyi

Protein namesi
Recommended name:
26S proteasome non-ATPase regulatory subunit 13
Alternative name(s):
26S proteasome regulatory subunit RPN9
26S proteasome regulatory subunit S11
26S proteasome regulatory subunit p40.5
Gene namesi
Name:PSMD13
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 11

Organism-specific databases

EuPathDBiHostDB:ENSG00000185627.17
HGNCiHGNC:9558 PSMD13
MIMi603481 gene
neXtProtiNX_Q9UNM6

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Proteasome

Pathology & Biotechi

Organism-specific databases

DisGeNETi5719
OpenTargetsiENSG00000185627
PharmGKBiPA33904

Chemistry databases

ChEMBLiCHEMBL2364701

Polymorphism and mutation databases

BioMutaiPSMD13
DMDMi317373273

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001738671 – 37626S proteasome non-ATPase regulatory subunit 13Add BLAST376

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei298N6-acetyllysineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

EPDiQ9UNM6
PeptideAtlasiQ9UNM6
PRIDEiQ9UNM6
ProteomicsDBi85311
85312 [Q9UNM6-2]

PTM databases

iPTMnetiQ9UNM6
PhosphoSitePlusiQ9UNM6
SwissPalmiQ9UNM6

Expressioni

Gene expression databases

BgeeiENSG00000185627
CleanExiHS_PSMD13
ExpressionAtlasiQ9UNM6 baseline and differential
GenevisibleiQ9UNM6 HS

Organism-specific databases

HPAiHPA038691
HPA038692

Interactioni

Subunit structurei

Component of the 19S proteasome regulatory particle complex. The 26S proteasome consists of a 20S core particle (CP) and two 19S regulatory subunits (RP). The regulatory particle is made of a lid composed of 9 subunits including PSMD13, a base containing 6 ATPases and few additional components.2 Publications

Protein-protein interaction databases

BioGridi111691, 105 interactors
CORUMiQ9UNM6
DIPiDIP-27576N
IntActiQ9UNM6, 31 interactors
MINTiQ9UNM6

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5GJQelectron microscopy4.50O1-376[»]
5GJRelectron microscopy3.502/O1-376[»]
5L4Kelectron microscopy4.50O1-376[»]
5LN3electron microscopy6.80O1-376[»]
5M32electron microscopy3.80o1-376[»]
5T0Celectron microscopy3.80Aa/Ba1-376[»]
5T0Gelectron microscopy4.40a1-376[»]
5T0Helectron microscopy6.80a1-376[»]
5T0Ielectron microscopy8.00a1-376[»]
5T0Jelectron microscopy8.00a1-376[»]
5VGZelectron microscopy3.70a3-376[»]
5VHFelectron microscopy5.70a3-376[»]
5VHHelectron microscopy6.10a3-376[»]
5VHIelectron microscopy6.80a3-376[»]
5VHSelectron microscopy8.80a3-376[»]
ProteinModelPortaliQ9UNM6
SMRiQ9UNM6
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini171 – 338PCIPROSITE-ProRule annotationAdd BLAST168

Sequence similaritiesi

Belongs to the proteasome subunit S11 family.Curated

Phylogenomic databases

GeneTreeiENSGT00390000001802
HOGENOMiHOG000216633
HOVERGENiHBG053740
InParanoidiQ9UNM6
KOiK03039
OMAiKFADKIN
OrthoDBiEOG091G0977
PhylomeDBiQ9UNM6
TreeFamiTF105612

Family and domain databases

InterProiView protein in InterPro
IPR000717 PCI_dom
IPR035298 PSMD13
IPR036390 WH_DNA-bd_sf
PANTHERiPTHR10539 PTHR10539, 1 hit
PfamiView protein in Pfam
PF01399 PCI, 1 hit
SMARTiView protein in SMART
SM00088 PINT, 1 hit
SUPFAMiSSF46785 SSF46785, 1 hit
PROSITEiView protein in PROSITE
PS50250 PCI, 1 hit

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9UNM6-1) [UniParc]FASTAAdd to basket

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.

« Hide

        10         20         30         40         50
MKDVPGFLQQ SQNSGPGQPA VWHRLEELYT KKLWHQLTLQ VLDFVQDPCF
60 70 80 90 100
AQGDGLIKLY ENFISEFEHR VNPLSLVEII LHVVRQMTDP NVALTFLEKT
110 120 130 140 150
REKVKSSDEA VILCKTAIGA LKLNIGDLQV TKETIEDVEE MLNNLPGVTS
160 170 180 190 200
VHSRFYDLSS KYYQTIGNHA SYYKDALRFL GCVDIKDLPV SEQQERAFTL
210 220 230 240 250
GLAGLLGEGV FNFGELLMHP VLESLRNTDR QWLIDTLYAF NSGNVERFQT
260 270 280 290 300
LKTAWGQQPD LAANEAQLLR KIQLLCLMEM TFTRPANHRQ LTFEEIAKSA
310 320 330 340 350
KITVNEVELL VMKALSVGLV KGSIDEVDKR VHMTWVQPRV LDLQQIKGMK
360 370
DRLEFWCTDV KSMEMLVEHQ AHDILT
Length:376
Mass (Da):42,945
Last modified:January 11, 2011 - v2
Checksum:iE96C99A49CAC5ED3
GO
Isoform 2 (identifier: Q9UNM6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     32-69: KLWHQLTLQV...YENFISEFEH → NFMKTLSVNL...RCSKAGGFYF

Show »
Length:378
Mass (Da):42,942
Checksum:i1826DB496A31D7BB
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti253T → I in AAC64104 (PubMed:10225435).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_02459113N → SCombined sources5 PublicationsCorresponds to variant dbSNP:rs1045288Ensembl.1
Natural variantiVAR_057050150S → L. Corresponds to variant dbSNP:rs28927679Ensembl.1
Natural variantiVAR_031094204G → E. Corresponds to variant dbSNP:rs1794108Ensembl.1
Natural variantiVAR_031095205L → F. Corresponds to variant dbSNP:rs1794109Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_04106732 – 69KLWHQ…SEFEH → NFMKTLSVNLNTGKSLSSVF HFENECIDARRCSKAGGFYF in isoform 2. 1 PublicationAdd BLAST38

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB009398 mRNA Translation: BAA33214.1
AF107837 mRNA Translation: AAD43442.1
AF086708 mRNA Translation: AAC64104.1
BT007307 mRNA Translation: AAP35971.1
AK094775 mRNA Translation: BAG52927.1
AC136475 Genomic DNA No translation available.
CH471278 Genomic DNA Translation: EAW61234.1
BC001100 mRNA Translation: AAH01100.1
BC001747 mRNA Translation: AAH01747.1
CCDSiCCDS44504.1 [Q9UNM6-2]
CCDS7692.1 [Q9UNM6-1]
RefSeqiNP_002808.3, NM_002817.3 [Q9UNM6-1]
NP_787128.2, NM_175932.2 [Q9UNM6-2]
UniGeneiHs.134688

Genome annotation databases

EnsembliENST00000431206; ENSP00000396937; ENSG00000185627 [Q9UNM6-2]
ENST00000532097; ENSP00000436186; ENSG00000185627 [Q9UNM6-1]
GeneIDi5719
KEGGihsa:5719
UCSCiuc001lol.3 human [Q9UNM6-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiPSD13_HUMAN
AccessioniPrimary (citable) accession number: Q9UNM6
Secondary accession number(s): B3KT15
, O75831, Q53XU2, Q9UNV3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 15, 2002
Last sequence update: January 11, 2011
Last modified: June 20, 2018
This is version 164 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (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.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 11
    Human chromosome 11: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families

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