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Protein

Transmembrane emp24 domain-containing protein 5

Gene

TMED5

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Potential role in vesicular protein trafficking, mainly in the early secretory pathway. Required for the maintenance of the Golgi apparatus; involved in protein exchange between Golgi stacks during assembly. Probably not required for COPI-vesicle-mediated retrograde transport.1 Publication

GO - Biological processi

  • Golgi ribbon formation Source: UniProtKB
  • protein transport Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Enzyme and pathway databases

ReactomeiR-HSA-3238698. WNT ligand biogenesis and trafficking.

Names & Taxonomyi

Protein namesi
Recommended name:
Transmembrane emp24 domain-containing protein 5
Alternative name(s):
p24 family protein gamma-2
Short name:
p24gamma2
p28
Gene namesi
Name:TMED5
ORF Names:CGI-100, UNQ397/PRO733
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:24251. TMED5.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini28 – 196169LumenalSequence analysisAdd
BLAST
Transmembranei197 – 21721HelicalSequence analysisAdd
BLAST
Topological domaini218 – 22912CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Endoplasmic reticulum, Golgi apparatus, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134942067.

Polymorphism and mutation databases

BioMutaiTMED5.
DMDMi12585534.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2727Sequence analysisCombined sourcesAdd
BLAST
Chaini28 – 229202Transmembrane emp24 domain-containing protein 5PRO_0000010389Add
BLAST

Proteomic databases

EPDiQ9Y3A6.
MaxQBiQ9Y3A6.
PaxDbiQ9Y3A6.
PeptideAtlasiQ9Y3A6.
PRIDEiQ9Y3A6.
TopDownProteomicsiQ9Y3A6-1. [Q9Y3A6-1]

PTM databases

iPTMnetiQ9Y3A6.
PhosphoSiteiQ9Y3A6.

Expressioni

Gene expression databases

BgeeiQ9Y3A6.
CleanExiHS_TMED5.
ExpressionAtlasiQ9Y3A6. baseline and differential.
GenevisibleiQ9Y3A6. HS.

Organism-specific databases

HPAiHPA050289.

Interactioni

Subunit structurei

Interacts with TMED9 and TMED10.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
PRMT6Q96LA82EBI-7560959,EBI-912440

Protein-protein interaction databases

BioGridi119207. 6 interactions.
IntActiQ9Y3A6. 4 interactions.
MINTiMINT-3085589.
STRINGi9606.ENSP00000359305.

Structurei

3D structure databases

ProteinModelPortaliQ9Y3A6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini45 – 12682GOLDPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the EMP24/GP25L family.Curated
Contains 1 GOLD domain.PROSITE-ProRule annotation

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3287. Eukaryota.
ENOG410Z18S. LUCA.
GeneTreeiENSGT00670000097656.
HOGENOMiHOG000039809.
HOVERGENiHBG000271.
InParanoidiQ9Y3A6.
KOiK14825.
OMAiVQDIMDF.
OrthoDBiEOG7CG716.
PhylomeDBiQ9Y3A6.
TreeFamiTF313000.

Family and domain databases

InterProiIPR009038. GOLD_dom.
IPR015717. TMED5.
IPR015720. TMP21-related.
[Graphical view]
PANTHERiPTHR22811. PTHR22811. 1 hit.
PTHR22811:SF41. PTHR22811:SF41. 1 hit.
PfamiPF01105. EMP24_GP25L. 1 hit.
[Graphical view]
SMARTiSM01190. EMP24_GP25L. 1 hit.
[Graphical view]
SUPFAMiSSF101576. SSF101576. 1 hit.
PROSITEiPS50866. GOLD. 1 hit.
[Graphical view]

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

Isoform 1 (identifier: Q9Y3A6-1) [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
MGDKIWLPFP VLLLAALPPV LLPGAAGFTP SLDSDFTFTL PAGQKECFYQ
60 70 80 90 100
PMPLKASLEI EYQVLDGAGL DIDFHLASPE GKTLVFEQRK SDGVHTVETE
110 120 130 140 150
VGDYMFCFDN TFSTISEKVI FFELILDNMG EQAQEQEDWK KYITGTDILD
160 170 180 190 200
MKLEDILESI NSIKSRLSKS GHIQTLLRAF EARDRNIQES NFDRVNFWSM
210 220
VNLVVMVVVS AIQVYMLKSL FEDKRKSRT
Length:229
Mass (Da):26,005
Last modified:November 1, 1999 - v1
Checksum:i6973E0DACBF15B19
GO
Isoform 2 (identifier: Q9Y3A6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     158-229: ESINSIKSRL...LFEDKRKSRT → DPIIKIASDV...KQKWAHTNSA

Note: No experimental confirmation available.
Show »
Length:193
Mass (Da):21,727
Checksum:i5A2B00CBE9704452
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti175 – 1751T → I.3 Publications
Corresponds to variant rs1060622 [ dbSNP | Ensembl ].
VAR_017150

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei158 – 22972ESINS…RKSRT → DPIIKIASDVQIRLHLGIHQ QHQVQTKQKWAHTNSA in isoform 2. 1 PublicationVSP_046365Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF151858 mRNA. Translation: AAD34095.1.
AY359039 mRNA. Translation: AAQ89398.1.
BX379269 mRNA. No translation available.
AK312787 mRNA. Translation: BAG35650.1.
AL117354, AC126124 Genomic DNA. Translation: CAI23500.1.
AL117354, AC126124 Genomic DNA. Translation: CAI23501.1.
CH471097 Genomic DNA. Translation: EAW73081.1.
CH471097 Genomic DNA. Translation: EAW73082.1.
BC016365 mRNA. Translation: AAH16365.1.
BC016556 mRNA. Translation: AAH16556.1.
BC070051 mRNA. Translation: AAH70051.1.
CCDSiCCDS53342.1. [Q9Y3A6-2]
CCDS743.1. [Q9Y3A6-1]
RefSeqiNP_001161302.1. NM_001167830.1. [Q9Y3A6-2]
NP_057124.3. NM_016040.4. [Q9Y3A6-1]
UniGeneiHs.482873.

Genome annotation databases

EnsembliENST00000370282; ENSP00000359305; ENSG00000117500. [Q9Y3A6-1]
ENST00000479918; ENSP00000418992; ENSG00000117500. [Q9Y3A6-2]
GeneIDi50999.
KEGGihsa:50999.
UCSCiuc001dpn.4. human. [Q9Y3A6-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF151858 mRNA. Translation: AAD34095.1.
AY359039 mRNA. Translation: AAQ89398.1.
BX379269 mRNA. No translation available.
AK312787 mRNA. Translation: BAG35650.1.
AL117354, AC126124 Genomic DNA. Translation: CAI23500.1.
AL117354, AC126124 Genomic DNA. Translation: CAI23501.1.
CH471097 Genomic DNA. Translation: EAW73081.1.
CH471097 Genomic DNA. Translation: EAW73082.1.
BC016365 mRNA. Translation: AAH16365.1.
BC016556 mRNA. Translation: AAH16556.1.
BC070051 mRNA. Translation: AAH70051.1.
CCDSiCCDS53342.1. [Q9Y3A6-2]
CCDS743.1. [Q9Y3A6-1]
RefSeqiNP_001161302.1. NM_001167830.1. [Q9Y3A6-2]
NP_057124.3. NM_016040.4. [Q9Y3A6-1]
UniGeneiHs.482873.

3D structure databases

ProteinModelPortaliQ9Y3A6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119207. 6 interactions.
IntActiQ9Y3A6. 4 interactions.
MINTiMINT-3085589.
STRINGi9606.ENSP00000359305.

PTM databases

iPTMnetiQ9Y3A6.
PhosphoSiteiQ9Y3A6.

Polymorphism and mutation databases

BioMutaiTMED5.
DMDMi12585534.

Proteomic databases

EPDiQ9Y3A6.
MaxQBiQ9Y3A6.
PaxDbiQ9Y3A6.
PeptideAtlasiQ9Y3A6.
PRIDEiQ9Y3A6.
TopDownProteomicsiQ9Y3A6-1. [Q9Y3A6-1]

Protocols and materials databases

DNASUi50999.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000370282; ENSP00000359305; ENSG00000117500. [Q9Y3A6-1]
ENST00000479918; ENSP00000418992; ENSG00000117500. [Q9Y3A6-2]
GeneIDi50999.
KEGGihsa:50999.
UCSCiuc001dpn.4. human. [Q9Y3A6-1]

Organism-specific databases

CTDi50999.
GeneCardsiTMED5.
HGNCiHGNC:24251. TMED5.
HPAiHPA050289.
MIMi616876. gene.
neXtProtiNX_Q9Y3A6.
PharmGKBiPA134942067.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3287. Eukaryota.
ENOG410Z18S. LUCA.
GeneTreeiENSGT00670000097656.
HOGENOMiHOG000039809.
HOVERGENiHBG000271.
InParanoidiQ9Y3A6.
KOiK14825.
OMAiVQDIMDF.
OrthoDBiEOG7CG716.
PhylomeDBiQ9Y3A6.
TreeFamiTF313000.

Enzyme and pathway databases

ReactomeiR-HSA-3238698. WNT ligand biogenesis and trafficking.

Miscellaneous databases

ChiTaRSiTMED5. human.
GenomeRNAii50999.
PROiQ9Y3A6.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Y3A6.
CleanExiHS_TMED5.
ExpressionAtlasiQ9Y3A6. baseline and differential.
GenevisibleiQ9Y3A6. HS.

Family and domain databases

InterProiIPR009038. GOLD_dom.
IPR015717. TMED5.
IPR015720. TMP21-related.
[Graphical view]
PANTHERiPTHR22811. PTHR22811. 1 hit.
PTHR22811:SF41. PTHR22811:SF41. 1 hit.
PfamiPF01105. EMP24_GP25L. 1 hit.
[Graphical view]
SMARTiSM01190. EMP24_GP25L. 1 hit.
[Graphical view]
SUPFAMiSSF101576. SSF101576. 1 hit.
PROSITEiPS50866. GOLD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics."
    Lai C.-H., Chou C.-Y., Ch'ang L.-Y., Liu C.-S., Lin W.-C.
    Genome Res. 10:703-713(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1), VARIANT ILE-175.
  3. "Full-length cDNA libraries and normalization."
    Li W.B., Gruber C., Jessee J., Polayes D.
    Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Placenta.
  4. "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.
    , 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] (ISOFORM 1), VARIANT ILE-175.
    Tissue: Testis.
  5. "The DNA sequence and biological annotation of human chromosome 1."
    Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
    , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
    Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  7. "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 1), VARIANT ILE-175.
    Tissue: Bone marrow, Brain and Placenta.
  8. "p28, a novel ERGIC/cis Golgi protein, required for Golgi ribbon formation."
    Koegler E., Bonnon C., Waldmeier L., Mitrovic S., Halbeisen R., Hauri H.P.
    Traffic 11:70-89(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH TMED9 AND TMED10.
  9. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  10. "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome."
    Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., Ye M., Zou H.
    J. Proteomics 96:253-262(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.
  11. Cited for: CLEAVAGE OF SIGNAL PEPTIDE [LARGE SCALE ANALYSIS] AFTER GLY-27, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiTMED5_HUMAN
AccessioniPrimary (citable) accession number: Q9Y3A6
Secondary accession number(s): B1AKT4
, B2R703, D3DT38, Q96AX8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 24, 2001
Last sequence update: November 1, 1999
Last modified: July 6, 2016
This is version 142 of the entry and version 1 of the sequence. [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, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: 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. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.