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Protein

Coatomer subunit beta'

Gene

COPB2

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

Functioni

The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors (By similarity).By similarity
This coatomer complex protein, essential for Golgi budding and vesicular trafficking, is a selective binding protein (RACK) for protein kinase C, epsilon type. It binds to Golgi membranes in a GTP-dependent manner (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

  • ER to Golgi vesicle-mediated transport Source: GO_Central
  • intracellular protein transport Source: GO_Central
  • intra-Golgi vesicle-mediated transport Source: UniProtKB
  • retrograde vesicle-mediated transport, Golgi to ER Source: GO_Central
  • toxin transport Source: Ensembl

Keywordsi

Biological processER-Golgi transport, Protein transport, Transport

Enzyme and pathway databases

ReactomeiR-HSA-6807878 COPI-mediated anterograde transport
R-HSA-6811434 COPI-dependent Golgi-to-ER retrograde traffic
SignaLinkiP35606

Names & Taxonomyi

Protein namesi
Recommended name:
Coatomer subunit beta'
Alternative name(s):
Beta'-coat protein
Short name:
Beta'-COP
p102
Gene namesi
Name:COPB2
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 3

Organism-specific databases

EuPathDBiHostDB:ENSG00000184432.9
HGNCiHGNC:2232 COPB2
MIMi606990 gene
neXtProtiNX_P35606

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

Cytoplasm, Cytoplasmic vesicle, Golgi apparatus, Membrane

Pathology & Biotechi

Involvement in diseasei

Microcephaly 19, primary, autosomal recessive (MCPH19)1 Publication
The disease may be caused by mutations affecting the gene represented in this entry.
Disease descriptionA form of microcephaly, a disease defined as a head circumference more than 3 standard deviations below the age, sex and ethnically matched mean. Brain weight is markedly reduced and the cerebral cortex is disproportionately small. MCPH19 affected individuals manifest severe developmental delay, failure to thrive, cortical blindness, and spasticity. Brain imaging show a simplified gyral pattern, thin corpus callosum, slight ventricular dilation, and delayed myelination.
See also OMIM:617800
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_080601254R → C in MCPH19; unknown pathological significance. 1 PublicationCorresponds to variant dbSNP:rs1229568621Ensembl.1

Keywords - Diseasei

Disease mutation, Primary microcephaly

Organism-specific databases

DisGeNETi9276
MalaCardsiCOPB2
MIMi617800 phenotype
OpenTargetsiENSG00000184432
Orphaneti2512 Autosomal recessive primary microcephaly
PharmGKBiPA26748

Polymorphism and mutation databases

BioMutaiCOPB2
DMDMi544076

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00000509122 – 906Coatomer subunit beta'Add BLAST905

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei627N6-acetyllysineCombined sources1
Modified residuei859PhosphoserineCombined sources1
Modified residuei861PhosphothreonineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiP35606
MaxQBiP35606
PaxDbiP35606
PeptideAtlasiP35606
PRIDEiP35606
ProteomicsDBi55099

PTM databases

iPTMnetiP35606
PhosphoSitePlusiP35606
SwissPalmiP35606

Expressioni

Gene expression databases

BgeeiENSG00000184432 Expressed in 234 organ(s), highest expression level in parotid gland
CleanExiHS_COPB2
ExpressionAtlasiP35606 baseline and differential
GenevisibleiP35606 HS

Organism-specific databases

HPAiHPA036867
HPA058180

Interactioni

Subunit structurei

Oligomeric complex that consists of at least the alpha, beta, beta', gamma, delta, epsilon and zeta subunits. Probably interacts with PEX11A. Interacts with SCYL1 (By similarity). Interacts with JAGN1 (PubMed:25129144).By similarity1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
NFKB1P198383EBI-1056534,EBI-300010

Protein-protein interaction databases

BioGridi114693, 59 interactors
CORUMiP35606
DIPiDIP-27603N
IntActiP35606, 35 interactors
MINTiP35606
STRINGi9606.ENSP00000329419

Structurei

3D structure databases

ProteinModelPortaliP35606
SMRiP35606
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati13 – 52WD 1Add BLAST40
Repeati55 – 94WD 2Add BLAST40
Repeati97 – 136WD 3Add BLAST40
Repeati140 – 180WD 4Add BLAST41
Repeati183 – 224WD 5Add BLAST42
Repeati227 – 266WD 6Add BLAST40

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili866 – 891Sequence analysisAdd BLAST26

Sequence similaritiesi

Belongs to the WD repeat COPB2 family.Curated

Keywords - Domaini

Coiled coil, Repeat, WD repeat

Phylogenomic databases

eggNOGiKOG0276 Eukaryota
ENOG410XNNY LUCA
GeneTreeiENSGT00900000141083
HOGENOMiHOG000163444
HOVERGENiHBG051076
KOiK17302
OMAiFYDWENT
OrthoDBiEOG091G0284
PhylomeDBiP35606
TreeFamiTF300688

Family and domain databases

Gene3Di2.130.10.10, 1 hit
InterProiView protein in InterPro
IPR006692 Coatomer_WD-assoc_reg
IPR016453 COPB2
IPR020472 G-protein_beta_WD-40_rep
IPR015943 WD40/YVTN_repeat-like_dom_sf
IPR001680 WD40_repeat
IPR017986 WD40_repeat_dom
IPR036322 WD40_repeat_dom_sf
PfamiView protein in Pfam
PF04053 Coatomer_WDAD, 1 hit
PF00400 WD40, 4 hits
PIRSFiPIRSF005567 Coatomer_beta'_subunit, 1 hit
PRINTSiPR00320 GPROTEINBRPT
SMARTiView protein in SMART
SM00320 WD40, 6 hits
SUPFAMiSSF50978 SSF50978, 2 hits
PROSITEiView protein in PROSITE
PS50082 WD_REPEATS_2, 5 hits
PS50294 WD_REPEATS_REGION, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

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

This entry has 2 described isoforms and 7 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: P35606-1) [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
MPLRLDIKRK LTARSDRVKS VDLHPTEPWM LASLYNGSVC VWNHETQTLV
60 70 80 90 100
KTFEVCDLPV RAAKFVARKN WVVTGADDMQ IRVFNYNTLE RVHMFEAHSD
110 120 130 140 150
YIRCIAVHPT QPFILTSSDD MLIKLWDWDK KWSCSQVFEG HTHYVMQIVI
160 170 180 190 200
NPKDNNQFAS ASLDRTIKVW QLGSSSPNFT LEGHEKGVNC IDYYSGGDKP
210 220 230 240 250
YLISGADDRL VKIWDYQNKT CVQTLEGHAQ NVSCASFHPE LPIIITGSED
260 270 280 290 300
GTVRIWHSST YRLESTLNYG MERVWCVASL RGSNNVALGY DEGSIIVKLG
310 320 330 340 350
REEPAMSMDA NGKIIWAKHS EVQQANLKAM GDAEIKDGER LPLAVKDMGS
360 370 380 390 400
CEIYPQTIQH NPNGRFVVVC GDGEYIIYTA MALRNKSFGS AQEFAWAHDS
410 420 430 440 450
SEYAIRESNS IVKIFKNFKE KKSFKPDFGA ESIYGGFLLG VRSVNGLAFY
460 470 480 490 500
DWDNTELIRR IEIQPKHIFW SDSGELVCIA TEESFFILKY LSEKVLAAQE
510 520 530 540 550
THEGVTEDGI EDAFEVLGEI QEIVKTGLWV GDCFIYTSSV NRLNYYVGGE
560 570 580 590 600
IVTIAHLDRT MYLLGYIPKD NRLYLGDKEL NIISYSLLVS VLEYQTAVMR
610 620 630 640 650
RDFSMADKVL PTIPKEQRTR VAHFLEKQGF KQQALTVSTD PEHRFELALQ
660 670 680 690 700
LGELKIAYQL AVEAESEQKW KQLAELAISK CQFGLAQECL HHAQDYGGLL
710 720 730 740 750
LLATASGNAN MVNKLAEGAE RDGKNNVAFM SYFLQGKVDA CLELLIRTGR
760 770 780 790 800
LPEAAFLART YLPSQVSRVV KLWRENLSKV NQKAAESLAD PTEYENLFPG
810 820 830 840 850
LKEAFVVEEW VKETHADLWP AKQYPLVTPN EERNVMEEGK DFQPSRSTAQ
860 870 880 890 900
QELDGKPASP TPVIVASHTA NKEEKSLLEL EVDLDNLELE DIDTTDINLD

EDILDD
Length:906
Mass (Da):102,487
Last modified:January 23, 2007 - v2
Checksum:i824BB63BEFAA53F6
GO
Isoform 2 (identifier: P35606-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-29: Missing.

Note: No experimental confirmation available.
Show »
Length:877
Mass (Da):99,046
Checksum:i9E91476A4379BB1C
GO

Computationally mapped potential isoform sequencesi

There are 7 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
H0Y938H0Y938_HUMAN
Coatomer subunit beta'
COPB2
177Annotation score:
D6RBT6D6RBT6_HUMAN
Coatomer subunit beta'
COPB2
111Annotation score:
D6R997D6R997_HUMAN
Coatomer subunit beta'
COPB2
152Annotation score:
D6RBG7D6RBG7_HUMAN
Coatomer subunit beta'
COPB2
89Annotation score:
D6RCL6D6RCL6_HUMAN
Coatomer subunit beta'
COPB2
86Annotation score:
D6RBZ7D6RBZ7_HUMAN
Coatomer subunit beta'
COPB2
77Annotation score:
H0YAC7H0YAC7_HUMAN
Coatomer subunit beta'
COPB2
118Annotation score:

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_080601254R → C in MCPH19; unknown pathological significance. 1 PublicationCorresponds to variant dbSNP:rs1229568621Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0561651 – 29Missing in isoform 2. 1 PublicationAdd BLAST29

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X70476 mRNA Translation: CAA49900.1
AK302943 mRNA Translation: BAG64100.1
AC024933 Genomic DNA No translation available.
CH471052 Genomic DNA Translation: EAW79040.1
BC000326 mRNA Translation: AAH00326.1
CCDSiCCDS3108.1 [P35606-1]
PIRiS35342
RefSeqiNP_004757.1, NM_004766.2 [P35606-1]
XP_016863001.1, XM_017007512.1
UniGeneiHs.681616

Genome annotation databases

EnsembliENST00000333188; ENSP00000329419; ENSG00000184432 [P35606-1]
ENST00000507777; ENSP00000422295; ENSG00000184432 [P35606-2]
GeneIDi9276
KEGGihsa:9276
UCSCiuc003etf.5 human [P35606-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X70476 mRNA Translation: CAA49900.1
AK302943 mRNA Translation: BAG64100.1
AC024933 Genomic DNA No translation available.
CH471052 Genomic DNA Translation: EAW79040.1
BC000326 mRNA Translation: AAH00326.1
CCDSiCCDS3108.1 [P35606-1]
PIRiS35342
RefSeqiNP_004757.1, NM_004766.2 [P35606-1]
XP_016863001.1, XM_017007512.1
UniGeneiHs.681616

3D structure databases

ProteinModelPortaliP35606
SMRiP35606
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi114693, 59 interactors
CORUMiP35606
DIPiDIP-27603N
IntActiP35606, 35 interactors
MINTiP35606
STRINGi9606.ENSP00000329419

PTM databases

iPTMnetiP35606
PhosphoSitePlusiP35606
SwissPalmiP35606

Polymorphism and mutation databases

BioMutaiCOPB2
DMDMi544076

Proteomic databases

EPDiP35606
MaxQBiP35606
PaxDbiP35606
PeptideAtlasiP35606
PRIDEiP35606
ProteomicsDBi55099

Protocols and materials databases

DNASUi9276
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000333188; ENSP00000329419; ENSG00000184432 [P35606-1]
ENST00000507777; ENSP00000422295; ENSG00000184432 [P35606-2]
GeneIDi9276
KEGGihsa:9276
UCSCiuc003etf.5 human [P35606-1]

Organism-specific databases

CTDi9276
DisGeNETi9276
EuPathDBiHostDB:ENSG00000184432.9
GeneCardsiCOPB2
HGNCiHGNC:2232 COPB2
HPAiHPA036867
HPA058180
MalaCardsiCOPB2
MIMi606990 gene
617800 phenotype
neXtProtiNX_P35606
OpenTargetsiENSG00000184432
Orphaneti2512 Autosomal recessive primary microcephaly
PharmGKBiPA26748
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0276 Eukaryota
ENOG410XNNY LUCA
GeneTreeiENSGT00900000141083
HOGENOMiHOG000163444
HOVERGENiHBG051076
KOiK17302
OMAiFYDWENT
OrthoDBiEOG091G0284
PhylomeDBiP35606
TreeFamiTF300688

Enzyme and pathway databases

ReactomeiR-HSA-6807878 COPI-mediated anterograde transport
R-HSA-6811434 COPI-dependent Golgi-to-ER retrograde traffic
SignaLinkiP35606

Miscellaneous databases

ChiTaRSiCOPB2 human
GeneWikiiCOPB2
GenomeRNAii9276
PROiPR:P35606
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000184432 Expressed in 234 organ(s), highest expression level in parotid gland
CleanExiHS_COPB2
ExpressionAtlasiP35606 baseline and differential
GenevisibleiP35606 HS

Family and domain databases

Gene3Di2.130.10.10, 1 hit
InterProiView protein in InterPro
IPR006692 Coatomer_WD-assoc_reg
IPR016453 COPB2
IPR020472 G-protein_beta_WD-40_rep
IPR015943 WD40/YVTN_repeat-like_dom_sf
IPR001680 WD40_repeat
IPR017986 WD40_repeat_dom
IPR036322 WD40_repeat_dom_sf
PfamiView protein in Pfam
PF04053 Coatomer_WDAD, 1 hit
PF00400 WD40, 4 hits
PIRSFiPIRSF005567 Coatomer_beta'_subunit, 1 hit
PRINTSiPR00320 GPROTEINBRPT
SMARTiView protein in SMART
SM00320 WD40, 6 hits
SUPFAMiSSF50978 SSF50978, 2 hits
PROSITEiView protein in PROSITE
PS50082 WD_REPEATS_2, 5 hits
PS50294 WD_REPEATS_REGION, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiCOPB2_HUMAN
AccessioniPrimary (citable) accession number: P35606
Secondary accession number(s): B4DZI8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: January 23, 2007
Last modified: November 7, 2018
This is version 190 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

Complete proteome, Direct protein sequencing, Reference proteome

Documents

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