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Protein

Trafficking protein particle complex subunit 4

Gene

TRAPPC4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

May play a role in vesicular transport from endoplasmic reticulum to Golgi.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

ER-Golgi transport, Transport

Enzyme and pathway databases

ReactomeiREACT_163942. Syndecan interactions.

Names & Taxonomyi

Protein namesi
Recommended name:
Trafficking protein particle complex subunit 4
Alternative name(s):
Hematopoietic stem/progenitor cell protein 172
Synbindin
TRS23 homolog
Gene namesi
Name:TRAPPC4
Synonyms:SBDN
ORF Names:CGI-104, HSPC172, PTD009
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 11

Organism-specific databases

HGNCiHGNC:19943. TRAPPC4.

Subcellular locationi

GO - Cellular componenti

  • cis-Golgi network Source: InterPro
  • dendrite Source: UniProtKB
  • endoplasmic reticulum Source: UniProtKB-SubCell
  • Golgi stack Source: UniProtKB
  • synapse Source: UniProtKB
  • synaptic vesicle Source: UniProtKB
  • TRAPP complex Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Endoplasmic reticulum, Golgi apparatus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134906910.

Polymorphism and mutation databases

BioMutaiTRAPPC4.
DMDMi20178121.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 219219Trafficking protein particle complex subunit 4PRO_0000211569Add
BLAST

Proteomic databases

MaxQBiQ9Y296.
PaxDbiQ9Y296.
PRIDEiQ9Y296.

PTM databases

PhosphoSiteiQ9Y296.

Expressioni

Gene expression databases

BgeeiQ9Y296.
CleanExiHS_TRAPPC4.
ExpressionAtlasiQ9Y296. baseline and differential.
GenevisibleiQ9Y296. HS.

Organism-specific databases

HPAiHPA039752.
HPA041371.

Interactioni

Subunit structurei

Component of the multisubunit TRAPP (transport protein particle) complex, which includes at least TRAPPC2, TRAPPC2L, TRAPPC3, TRAPPC3L, TRAPPC4, TRAPPC5, TRAPPC8, TRAPPC9, TRAPPC10, TRAPPC11 and TRAPPC12. Interacts with SDC2 (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
Trappc5Q9CQA12EBI-722888,EBI-1172213From a different organism.

Protein-protein interaction databases

BioGridi119523. 19 interactions.
DIPiDIP-37871N.
IntActiQ9Y296. 6 interactions.
MINTiMINT-1424006.
STRINGi9606.ENSP00000436005.

Structurei

Secondary structure

1
219
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 97Combined sources
Beta strandi15 – 206Combined sources
Beta strandi28 – 325Combined sources
Beta strandi37 – 426Combined sources
Beta strandi44 – 518Combined sources
Beta strandi54 – 563Combined sources
Turni57 – 604Combined sources
Beta strandi62 – 665Combined sources
Beta strandi79 – 813Combined sources
Helixi82 – 854Combined sources
Helixi89 – 913Combined sources
Beta strandi93 – 997Combined sources
Helixi105 – 12420Combined sources
Beta strandi127 – 1304Combined sources
Beta strandi135 – 1417Combined sources
Beta strandi143 – 1486Combined sources
Beta strandi154 – 1596Combined sources
Helixi166 – 18116Combined sources
Helixi196 – 20914Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2J3TX-ray2.40D1-219[»]
2JSNNMR-A19-106[»]
2ZMVX-ray2.80A/B1-219[»]
DisProtiDP00562.
ProteinModelPortaliQ9Y296.
SMRiQ9Y296. Positions 2-215.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Y296.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG5122.
GeneTreeiENSGT00510000047061.
HOGENOMiHOG000165618.
HOVERGENiHBG054226.
InParanoidiQ9Y296.
OMAiDPRQSGI.
OrthoDBiEOG7FJH1J.
PhylomeDBiQ9Y296.
TreeFamiTF314561.

Family and domain databases

InterProiIPR011012. Longin-like_dom.
IPR007233. Sybindin.
[Graphical view]
PANTHERiPTHR23249. PTHR23249. 1 hit.
PfamiPF04099. Sybindin. 1 hit.
[Graphical view]
SUPFAMiSSF64356. SSF64356. 2 hits.

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q9Y296-1) [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
MAIFSVYVVN KAGGLIYQLD SYAPRAEAEK TFSYPLDLLL KLHDERVLVA
60 70 80 90 100
FGQRDGIRVG HAVLAINGMD VNGRYTADGK EVLEYLGNPA NYPVSIRFGR
110 120 130 140 150
PRLTSNEKLM LASMFHSLFA IGSQLSPEQG SSGIEMLETD TFKLHCYQTL
160 170 180 190 200
TGIKFVVLAD PRQAGIDSLL RKIYEIYSDF ALKNPFYSLE MPIRCELFDQ
210
NLKLALEVAE KAGTFGPGS
Length:219
Mass (Da):24,340
Last modified:November 1, 1999 - v1
Checksum:iC6ADE525B7CFB731
GO
Isoform 2 (identifier: Q9Y296-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     81-134: Missing.

Note: No experimental confirmation available.
Show »
Length:165
Mass (Da):18,446
Checksum:i9ED57477C1259464
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti78 – 781D → A.
Corresponds to variant rs11640 [ dbSNP | Ensembl ].
VAR_052397

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei81 – 13454Missing in isoform 2. 1 PublicationVSP_056348Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF105025 mRNA. Translation: AAF21897.1.
AF078862 mRNA. Translation: AAD44494.1.
AF161520 mRNA. Translation: AAF29135.1.
AF151862 mRNA. Translation: AAD34099.1.
AK290520 mRNA. Translation: BAF83209.1.
AK297422 mRNA. Translation: BAG59853.1.
AP003392 Genomic DNA. No translation available.
CH471065 Genomic DNA. Translation: EAW67430.1.
BC010866 mRNA. Translation: AAH10866.1.
CCDSiCCDS8407.1. [Q9Y296-1]
RefSeqiNP_057230.1. NM_016146.4. [Q9Y296-1]
UniGeneiHs.132760.

Genome annotation databases

EnsembliENST00000434101; ENSP00000405033; ENSG00000196655. [Q9Y296-2]
ENST00000533632; ENSP00000436005; ENSG00000196655. [Q9Y296-1]
ENST00000629243; ENSP00000487467; ENSG00000280495. [Q9Y296-1]
ENST00000629713; ENSP00000486496; ENSG00000280495. [Q9Y296-2]
GeneIDi51399.
KEGGihsa:51399.
UCSCiuc010ryn.2. human. [Q9Y296-1]
uc010ryp.2. human.

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF105025 mRNA. Translation: AAF21897.1.
AF078862 mRNA. Translation: AAD44494.1.
AF161520 mRNA. Translation: AAF29135.1.
AF151862 mRNA. Translation: AAD34099.1.
AK290520 mRNA. Translation: BAF83209.1.
AK297422 mRNA. Translation: BAG59853.1.
AP003392 Genomic DNA. No translation available.
CH471065 Genomic DNA. Translation: EAW67430.1.
BC010866 mRNA. Translation: AAH10866.1.
CCDSiCCDS8407.1. [Q9Y296-1]
RefSeqiNP_057230.1. NM_016146.4. [Q9Y296-1]
UniGeneiHs.132760.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2J3TX-ray2.40D1-219[»]
2JSNNMR-A19-106[»]
2ZMVX-ray2.80A/B1-219[»]
DisProtiDP00562.
ProteinModelPortaliQ9Y296.
SMRiQ9Y296. Positions 2-215.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119523. 19 interactions.
DIPiDIP-37871N.
IntActiQ9Y296. 6 interactions.
MINTiMINT-1424006.
STRINGi9606.ENSP00000436005.

PTM databases

PhosphoSiteiQ9Y296.

Polymorphism and mutation databases

BioMutaiTRAPPC4.
DMDMi20178121.

Proteomic databases

MaxQBiQ9Y296.
PaxDbiQ9Y296.
PRIDEiQ9Y296.

Protocols and materials databases

DNASUi51399.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000434101; ENSP00000405033; ENSG00000196655. [Q9Y296-2]
ENST00000533632; ENSP00000436005; ENSG00000196655. [Q9Y296-1]
ENST00000629243; ENSP00000487467; ENSG00000280495. [Q9Y296-1]
ENST00000629713; ENSP00000486496; ENSG00000280495. [Q9Y296-2]
GeneIDi51399.
KEGGihsa:51399.
UCSCiuc010ryn.2. human. [Q9Y296-1]
uc010ryp.2. human.

Organism-specific databases

CTDi51399.
GeneCardsiGC11P118889.
HGNCiHGNC:19943. TRAPPC4.
HPAiHPA039752.
HPA041371.
MIMi610971. gene.
neXtProtiNX_Q9Y296.
PharmGKBiPA134906910.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiCOG5122.
GeneTreeiENSGT00510000047061.
HOGENOMiHOG000165618.
HOVERGENiHBG054226.
InParanoidiQ9Y296.
OMAiDPRQSGI.
OrthoDBiEOG7FJH1J.
PhylomeDBiQ9Y296.
TreeFamiTF314561.

Enzyme and pathway databases

ReactomeiREACT_163942. Syndecan interactions.

Miscellaneous databases

ChiTaRSiTRAPPC4. human.
EvolutionaryTraceiQ9Y296.
GeneWikiiTRAPPC4.
GenomeRNAii51399.
NextBioi35473298.
PROiQ9Y296.
SOURCEiSearch...

Gene expression databases

BgeeiQ9Y296.
CleanExiHS_TRAPPC4.
ExpressionAtlasiQ9Y296. baseline and differential.
GenevisibleiQ9Y296. HS.

Family and domain databases

InterProiIPR011012. Longin-like_dom.
IPR007233. Sybindin.
[Graphical view]
PANTHERiPTHR23249. PTHR23249. 1 hit.
PfamiPF04099. Sybindin. 1 hit.
[Graphical view]
SUPFAMiSSF64356. SSF64356. 2 hits.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Human unknown mRNA highly conserved among eukaryotes."
    Zhu X., Zhao X.
    Submitted (NOV-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    Tissue: Brain.
  2. Peng Y., Song H., Dai M., Huang Q., Mao Y., Zhang Q., Mao M., Fu G., Luo M., Chen J., Hu R.
    Submitted (JUL-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Pituitary tumor.
  3. "Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells."
    Zhang Q.-H., Ye M., Wu X.-Y., Ren S.-X., Zhao M., Zhao C.-J., Fu G., Shen Y., Fan H.-Y., Lu G., Zhong M., Xu X.-R., Han Z.-G., Zhang J.-W., Tao J., Huang Q.-H., Zhou J., Hu G.-X.
    , Gu J., Chen S.-J., Chen Z.
    Genome Res. 10:1546-1560(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Umbilical cord blood.
  4. "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).
  5. "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] (ISOFORMS 1 AND 2).
    Tissue: Brain.
  6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  7. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  8. "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).
    Tissue: Lung.
  9. Cited for: IDENTIFICATION IN TRAPP COMPLEX.
  10. "TRAPPC2L is a novel, highly conserved TRAPP-interacting protein."
    Scrivens P.J., Shahrzad N., Moores A., Morin A., Brunet S., Sacher M.
    Traffic 10:724-736(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION IN TRAPP COMPLEX, INTERACTION WITH TRAPPC2L.
  11. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  12. "C4orf41 and TTC-15 are mammalian TRAPP components with a role at an early stage in ER-to-Golgi trafficking."
    Scrivens P.J., Noueihed B., Shahrzad N., Hul S., Brunet S., Sacher M.
    Mol. Biol. Cell 22:2083-2093(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION IN TRAPP COMPLEX.

Entry informationi

Entry nameiTPPC4_HUMAN
AccessioniPrimary (citable) accession number: Q9Y296
Secondary accession number(s): A8K3A5, B4DME1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 16, 2002
Last sequence update: November 1, 1999
Last modified: June 24, 2015
This is version 129 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

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

External Data

Dasty 3

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 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.