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RPN2
HPA
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  • SUMMARY

  • TISSUE

  • BRAIN

  • SINGLE CELL

  • SUBCELL

  • CANCER

  • BLOOD

  • CELL LINE

  • STRUCTURE

  • INTERACTION

  • RPN2
INTERACTION INTERACTION METABOLIC PATHWAYS Show tissue menu
N-GLYCAN METABOLISM
Protein interactions
Protein interactions
Methods
Human metabolism
Metabolic proteins
Methods
GENERAL INFORMATIONi

General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.

Gene namei

Official gene symbol, which is typically a short form of the gene name, according to HGNC.

RPN2
Synonyms RIBIIR, RPN-II, RPNII, SWP1
Gene descriptioni

Full gene name according to HGNC.

Ribophorin II
Protein classi

Assigned HPA protein class(es) for the encoded protein(s).

Read more
Essential proteins
Metabolic proteins
Plasma proteins
Transporters
Predicted locationi

All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions.

  • Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached.
  • Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s).

The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.

Membrane, Intracellular
Protein evidence Evidence at protein level (all genes)

HUMAN PROTEIN ATLAS INFORMATIONi

Summary of RNA expression analysis and annotation data generated within the Human Protein Atlas project.

Single cell type
expression clusteri

The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

Non-specific - Secretory pathway (mainly)
Single cell type specificityi

The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.

Cell type enhanced (Extravillous trophoblasts, Oocytes, Plasma cells, Syncytiotrophoblasts)
Tissue expression
cluster (RNA)i

The RNA data was used to cluster genes according to their expression across tissues. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

Epididymis - Mixed function (mainly)
Tissue specificity (RNA)i

The RNA specificity category is based on mRNA expression levels in the consensus dataset which is calculated from the RNA expression levels in samples from HPA and GTEX. The categories include: tissue enriched, group enriched, tissue enhanced, low tissue specificity and not detected.

Low tissue specificity
Subcellular locationi

Main subcellular location based on data generated in the subcellular section of the Human Protein Atlas.

Localized to the Endoplasmic reticulum
Secretome annotationi

All genes with at least one predicted secreted isoform have been annotated and classified with the aim to determine if the corresponding protein(s) are:

  • secreted into blood
  • locally secreted
  • or actually being attached to membrane or retained in intracellular locations like mitochondria, endoplasmatic reticulum (ER), Golgi apparatus or lysosomes.
Not available
GENE INFORMATIONi

Gene information from Ensembl and Entrez, as well as links to available gene identifiers are displayed here. Information was retrieved from Ensembl if not indicated otherwise.

Chromosome 20
Cytoband q11.23
Chromosome location (bp) 37178410 - 37241619
Number of transcriptsi

Number of protein-coding transcripts from the gene as defined by Ensembl.

7
Ensembl ENSG00000118705 (version 109)
Entrez gene 6185
HGNC HGNC:10382
UniProt P04844
GeneCards RPN2
ASSAYSi

Links to data of the different assays available in the Structure & Interaction resource of the Human Protein Atlas. Click on the miniature images to directly get to the respective section.

Interaction Metabolic
INTERACTIONi

In the Interaction part of this page network plots showing the gene's first-level interaction partners according to four different datasets are displayed, including a consensus network plot showing only interactions present in at least two of the datasets. By clicking on nodes the network can be expanded. In the network plots the nodes represent genes and edge color represent the number of datasets the interaction belongs to. In-house generated AlphaFold 3 predicted 3D structures for interactions in the consensus network are displayed by clicking on the blue symbols on the edges.

The highlight bar in the top of the plot can be used to color the nodes according to subcellular location (based on data in the Subcellular section), predicted location (based on signalpeptide and transmembrane region predictions), tissue specificity (based on RNA tissue expression profiles) or proteinclass. For genes categorised as single cell type or group specific the option to highlight interaction partners expressed in the same cell type will also be available in the highlight bar.

Custom highlighting of nodes is possible using the top left Filter option in which a query of choice can be built to for example label all nodes that are tissue enriched in both human and mouse brain or those that belongs to a certain tissue expression cluster. The expression cluster for the gene is stated in the box Human Protein Atlas Information above the network plot. Click on Filter in the top left in the plot to find the query builder and some example queries.

Interactions included are direct interaction and physical associations with high and medium confidence from IntAct, physical multivalidated interactions from BioGRID, interactions with>75% probability from BioPlex and significant physical interactions from OpenCell.

Filter menu »
Fields »
e.g. Brain enriched, Localized to mitochondria, Epididymis - Mixed function

Field
Term
Gene name
Class
Subclass
Category
Keyword
Chromosome
External id
Tissue
Cell type
Expression
Antibody panel
Tissue
Main location
Patient ID
Annotation
Tissue
Category
Tau score
Cluster
Reliability
Brain region
Category
Tau score
Brain region
Category
Tau score
Brain region
Category
Tau score
Cluster
Reliability
Tissue
Cell type
Enrichment
Cell type
Category
Tau score
Cell type group
Category
Tau score
Cell type
Category
Tau score
Cell type
Category
Tau score
Cell lineage
Category
Tau score
Cluster
Cluster
Location
Searches
Location
Cell line
Class
Type
Phase
Reliability
Cancer
Prognosis
Cancer
Category
Cancer
Category
Tau score
Cluster
Variants
Interacting gene (ensg_id)
Type
Number of interactions
Pathway
ipTM
Category
Category
Category
Category
Validation
Validation
Validation
Validation
Antibodies
Data type
Column


Consensus
IntAct
BioGrid
OpenCell
BioPlex
Highlight:
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Subcell location
Predicted location
Cell type specificity
Protein class

Non-commercial use only, subject to AlphaFold3 Output Terms of Use

Interaction:
Color scheme:
Confidence
Antibodies
Interactor
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PAE plot
Number of interactions: 33
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
CANX130824238124
CCDC4715750550
CYB5A436130
CYB5R395122160
DAD15681919
DDOST266541080
EIF2AK331667
EMC2179491820
EMC4111173218
EMC811214558
EMD167294120
FAM241A316616
FKBP8213366460
HSP90B18579167
KRTCAP2304260
MAGT1111251015
MLEC455150
PGRMC1211852834
PGRMC21255202413
POMK14722118
POR8121195
RPN13310135653
SCFD1191274715
SEC61B5131721600
SSR19326260
SSR44014320
STT3A681970
STT3B15528543
TMPO9671181
TUSC330650
VAPA74401141400
VRK23813130
ZC3HAV110565776
Show allShow less
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 3 View all protein interaction data in IntAct
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
DAD15681919
MLEC455150
POMK14722118
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 99
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
ABHD1211710
ACSL3031504
AGR236422702
AUP1532620
CANX130824238124
CCDC4715750550
CLEC4D035100
CLEC4E5350043
CLGN5126228
CLN3031900
CTSB356501
CTSL124007
CTSS007500
CUL2201190015
CUL3404577120
CYB5A436130
CYB5R395122160
DAD15681919
DDOST266541080
DDR2562600
DDRGK1636717
DDX39B2415110440
DPP40613700
EIF2AK331667
EMC112130150
EMC2179491820
EMC4111173218
EMC811214558
EMD167294120
ERGIC114900
EZH2161623670
FAF1576005
FAM241A316616
FBXO641385052
FKBP8213366460
GPAT310549
GSTK103500
HSP90B18579167
HSPA538322682586
HUWE15520920
IGF1R162373115
INSR161854016
KRTCAP2304260
LAMP181193471
LNPK011670
MAD2L273214502
MAGT1111251015
MLEC455150
MMGT1135043160
MXRA700311
MYC6690126920
NCLN2412170
NNT001010
NTRK15613400
NTRK38114000
OSBPL9331050
PGRMC1211852834
PGRMC21255202413
PLD400500
POMK14722118
POR8121195
PRAF2326551
PRKN1111140500
PSMD1413910138
RAB7A3011131361
REEP5166261147
RHOA2121121916
RPN13310135653
RUFY1253200
SCFD1191274715
SEC61B5131721600
SLC15A3053600
SLC22A9002300
SMPD20121017
SOAT13514212
SPTAN19106370
SSR19326260
SSR44014320
STAU13213371390
STT3A681970
STT3B15528543
TACC15102100
TCTN29101606
TGOLN20310200
TM9SF2113410
TM9SF4324229
TMEM25804200
TMPO9671181
TMPRSS11B5057016
TMPRSS2126800
TOMM223531121
TOR1AIP1272208
TUSC330650
VAPA74401141400
VAPB453380790
VIRMA82212112
VRK23813130
WWOX476511
ZC3HAV110565776
Show allShow less
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 60
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
AAR219136921
APBB1441950
CANX130824238124
CCDC4715750550
CYB5A436130
CYB5R395122160
DAD15681919
DDOST266541080
DMXL1204110
DNAJB124012114
DSG2002171
EIF2AK331667
EMC2179491820
EMC4111173218
EMC811214558
EMD167294120
FAM241A316616
FKBP8213366460
HSP90B18579167
KAT6A2126150
KAT78929132
KRTCAP2304260
LAS1L3023250
MAGT1111251015
MLEC455150
MOGS10341
MYBL2422171
NFXL110360
OST4233910
OSTC121120
PACRGL02040
PGRMC1211852834
PGRMC21255202413
PICALM3224160
PLAGL101450
POR8121195
RAB2A221546471
RBM14181258990
RBM4B2726120
RPN13310135653
RRP11213115
SCD1362131
SCFD1191274715
SEC24B318100
SEC61B5131721600
SPTLC1237260
SSR19326260
SSR3417220
SSR44014320
STAU26215180
STT3A681970
STT3B15528543
TMEM432139926
TMPO9671181
TONSL7218526
TUSC330650
VAPA74401141400
VRK23813130
ZC3HAV110565776
ZNF687511271
Show allShow less
Highlight:
Off
Subcell location
Predicted location
Cell type specificity
Protein class

Number of interactions: 2
Interaction# Consensus# IntAct# BioGrid# OpenCell# BioPlex
GPR1821110243
SGCA061063
METABOLIC SUMMARYi

In this summary the pathway/subsystems to which the gene belongs is shown together with the associated cellular compartment for the reactions based on metabolite information. The number of proteins and metabolites in the pathway is shown as well as the number of reactions for the selected gene. By clicking on a pathway in the summary table the associated metabolic network map is shown, together with a gene-tissue heatmap that shows the expression of genes in that pathway in different tissues.

Gene RPN2 is associated with 1 reactions in 1 different subsystems, and present in the compartments: Endoplasmic reticulum. Provided by metabolicatlas.org
Pathway / Subsystem Subsystem-associated compartments # proteins # metabolites # reactions for
this protein
N-glycan metabolism Golgi apparatus, Endoplasmic reticulum, Lysosome, Extracellular, Cytosol 69 94 1
PROTEIN INFORMATIONi

The protein information section displays alternative protein-coding transcripts (splice variants) encoded by this gene according to the Ensembl database.

The Splice variant identifier links to the Ensembl website protein summary for the selected splice variant. The data in the Swissprot and TrEMBL columns links to corresponding pages in the UniProt database.

The protein classes assigned to this protein are shown if expanding the data in the protein class column. Parent protein classes are in bold font and subclasses are listed under the parent class.

The length of the protein (amino acid residues according to Ensembl), molecular mass (kDalton), predicted signal peptide and number of predicted transmembrane region(s) according to in-house majority decision methods based on sets of predictors are also reported.

Splice variant SwissProt TrEMBL Protein class Length & mass Signal peptide
(predicted)
Transmembrane regions
(predicted)
RPN2-201 P04844
Metabolic proteins
Transporters
Predicted membrane proteins
Plasma proteins
Mapped to neXtProt
Protein evidence (Kim et al 2014)
Essential proteins
Protein evidence (Ezkurdia et al 2014)
Show all
631 aa
69.3 kDa
Yes 3
RPN2-202 P04844
Metabolic proteins
Transporters
Predicted membrane proteins
Plasma proteins
Mapped to neXtProt
Protein evidence (Kim et al 2014)
Essential proteins
Protein evidence (Ezkurdia et al 2014)
Show all
615 aa
67.7 kDa
Yes 3
RPN2-203 Q5JYR7
Metabolic proteins
Predicted intracellular proteins
Essential proteins
Protein evidence (Ezkurdia et al 2014)
344 aa
37.1 kDa
Yes 0
RPN2-204 Q5JYR3
Metabolic proteins
Predicted membrane proteins
Essential proteins
Protein evidence (Ezkurdia et al 2014)
138 aa
15.5 kDa
No 2
RPN2-205 Q5JYR4
Metabolic proteins
Predicted intracellular proteins
Essential proteins
Protein evidence (Ezkurdia et al 2014)
166 aa
18.2 kDa
No 0
RPN2-206 H0Y5M1
Metabolic proteins
Predicted membrane proteins
Essential proteins
Protein evidence (Ezkurdia et al 2014)
147 aa
16.8 kDa
No 1
RPN2-209 Metabolic proteins
Predicted membrane proteins
Essential proteins
Protein evidence (Ezkurdia et al 2014)
654 aa
72.1 kDa
Yes 3
Show allShow less

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