Q9Y296 (TPPC4_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Trafficking protein particle complex subunit 4

Alternative name(s):
Hematopoietic stem/progenitor cell protein 172
Synbindin
TRS23 homolog

Gene names

Name:	TRAPPC4
Synonyms:	SBDN
ORF Names:	CGI-104, HSPC172, PTD009

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	219 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	May play a role in vesicular transport from endoplasmic reticulum to Golgi.
Subunit structure	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. Ref.8 Ref.9 Ref.11
Subcellular location	Golgi apparatus › cis-Golgi network By similarity. Endoplasmic reticulum By similarity.
Sequence similarities	Belongs to the TRAPP small subunits family. TRAPPC4 subfamily.

Ontologies

Keywords
Biological process	ER-Golgi transport Transport
Cellular component	Endoplasmic reticulum Golgi apparatus
Coding sequence diversity	Polymorphism
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	ER to Golgi vesicle-mediated transport Inferred from electronic annotation. Source: InterPro dendrite development Inferred from sequence or structural similarity PubMed 11018053. Source: UniProtKB
Cellular_component	Golgi stack Inferred from sequence or structural similarity PubMed 11018053. Source: UniProtKB TRAPP complex Inferred from electronic annotation. Source: Compara dendrite Inferred from sequence or structural similarity PubMed 11018053. Source: UniProtKB endoplasmic reticulum Inferred from electronic annotation. Source: UniProtKB-SubCell synaptic vesicle Inferred from sequence or structural similarity PubMed 11018053. Source: UniProtKB
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
Trappc5	Q9CQA1	2	EBI-722888,EBI-1172213	From a different organism.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 219

219

Trafficking protein particle complex subunit 4

PRO_0000211569

Natural variations

Natural variant

78

1

D → A.
Corresponds to variant rs11640 [ dbSNP | Ensembl ].

VAR_052397

Secondary structure

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219

Helix Strand Turn

Details...

Beta strand

3 – 9

7

Beta strand

15 – 20

6

Beta strand

28 – 32

5

Beta strand

37 – 42

6

Beta strand

44 – 51

8

Beta strand

54 – 56

3

Turn

57 – 60

4

Beta strand

62 – 66

5

Beta strand

79 – 81

3

Helix

82 – 85

4

Helix

89 – 91

3

Beta strand

93 – 99

7

Helix

105 – 124

20

Beta strand

127 – 130

4

Beta strand

135 – 141

7

Beta strand

143 – 148

6

Beta strand

154 – 159

6

Helix

166 – 181

16

Helix

196 – 209

14

Sequences

	Sequence		Length	Mass (Da)
	Q9Y296 [UniParc]. Last modified November 1, 1999. Version 1. Checksum: C6ADE525B7CFB731	FASTA	219	24,340
	10 20 30 40 50 60 MAIFSVYVVN KAGGLIYQLD SYAPRAEAEK TFSYPLDLLL KLHDERVLVA FGQRDGIRVG 70 80 90 100 110 120 HAVLAINGMD VNGRYTADGK EVLEYLGNPA NYPVSIRFGR PRLTSNEKLM LASMFHSLFA 130 140 150 160 170 180 IGSQLSPEQG SSGIEMLETD TFKLHCYQTL TGIKFVVLAD PRQAGIDSLL RKIYEIYSDF 190 200 210 ALKNPFYSLE MPIRCELFDQ NLKLALEVAE KAGTFGPGS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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]. 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]. 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]. 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].
[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]. Tissue: Brain.
[6]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases 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]. Tissue: Lung.
[8]	"Functional organization of the yeast proteome by systematic analysis of protein complexes." Gavin A.-C., Boesche M., Krause R., Grandi P., Marzioch M., Bauer A., Schultz J., Rick J.M., Michon A.-M., Cruciat C.-M., Remor M., Hoefert C., Schelder M., Brajenovic M., Ruffner H., Merino A., Klein K., Hudak M. , Dickson D., Rudi T., Gnau V., Bauch A., Bastuck S., Huhse B., Leutwein C., Heurtier M.-A., Copley R.R., Edelmann A., Querfurth E., Rybin V., Drewes G., Raida M., Bouwmeester T., Bork P., Seraphin B., Kuster B., Neubauer G., Superti-Furga G. Nature 415:141-147(2002) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN TRAPP COMPLEX.
[9]	"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.
[10]	"Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[11]	"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.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

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.
CH471065 Genomic DNA. Translation: EAW67430.1.
BC010866 mRNA. Translation: AAH10866.1.

IPI

IPI00007691.

RefSeq

NP_057230.1. NM_016146.4.

UniGene

Hs.132760.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2J3T	X-ray	2.40	D	1-219	[»]
2JSN	NMR	-	A	19-106	[»]
2ZMV	X-ray	2.80	A/B	1-219	[»]

ProteinModelPortal

Q9Y296.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-37871N.

IntAct

Q9Y296. 6 interactions.

MINT

MINT-1424006.

STRING

9606.ENSP00000351896.

PTM databases

PhosphoSite

Q9Y296.

Polymorphism databases

DMDM

20178121.

Proteomic databases

PaxDb

Q9Y296.

PRIDE

Q9Y296.

Protocols and materials databases

DNASU

51399.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000533632; ENSP00000436005; ENSG00000196655.
ENST00000589939; ENSP00000466337; ENSG00000267619.

GeneID

51399.

KEGG

hsa:51399.

UCSC

uc010ryn.2. human.

Organism-specific databases

CTD

51399.

GeneCards

GC11P118889.

HGNC

HGNC:19943. TRAPPC4.

HPA

HPA039752.
HPA041371.

MIM

610971. gene.

neXtProt

NX_Q9Y296.

PharmGKB

PA134906910.

GenAtlas

Search...

Phylogenomic databases

eggNOG

COG5122.

HOGENOM

HOG000165618.

HOVERGEN

HBG054226.

InParanoid

Q9Y296.

OMA

VYIVSKS.

OrthoDB

EOG4JT06F.

PhylomeDB

Q9Y296.

Enzyme and pathway databases

Pathway_Interaction_DB

syndecan_2_pathway. Syndecan-2-mediated signaling events.

Gene expression databases

ArrayExpress

Q9Y296.

Bgee

Q9Y296.

CleanEx

HS_TRAPPC4.

Genevestigator

Q9Y296.

GermOnline

ENSG00000196655. Homo sapiens.

Family and domain databases

InterPro

IPR011012. Longin-like_dom.
IPR007233. Sybindin.
[Graphical view]

PANTHER

PTHR23249. PTHR23249. 1 hit.

Pfam

PF04099. Sybindin. 1 hit.
[Graphical view]

SUPFAM

SSF64356. Longin_like. 1 hit.

ProtoNet

Search...

Other

ChiTaRS

TRAPPC4. human.

EvolutionaryTrace

Q9Y296.

GenomeRNAi

51399.

NextBio

54937.

SOURCE

Search...

Entry information

Entry name

TPPC4_HUMAN

Accession

Primary (citable) accession number: Q9Y296
Secondary accession number(s): A8K3A5

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 16, 2002
Last sequence update:	November 1, 1999
Last modified:	May 1, 2013
This is version 108 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.