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O94855

- SC24D_HUMAN

UniProt

O94855 - SC24D_HUMAN

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Protein

Protein transport protein Sec24D

Gene

SEC24D

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

Functioni

Component of the COPII coat, that covers ER-derived vesicles involved in transport from the endoplasmic reticulum to the Golgi apparatus. COPII acts in the cytoplasm to promote the transport of secretory, plasma membrane, and vacuolar proteins from the endoplasmic reticulum to the Golgi complex.

GO - Molecular functioni

  1. zinc ion binding Source: InterPro

GO - Biological processi

  1. antigen processing and presentation of exogenous peptide antigen via MHC class II Source: Reactome
  2. antigen processing and presentation of peptide antigen via MHC class I Source: Reactome
  3. cellular protein metabolic process Source: Reactome
  4. COPII vesicle coating Source: Reactome
  5. ER to Golgi vesicle-mediated transport Source: UniProtKB
  6. intracellular protein transport Source: InterPro
  7. in utero embryonic development Source: Ensembl
  8. membrane organization Source: Reactome
  9. post-translational protein modification Source: Reactome
  10. protein N-linked glycosylation via asparagine Source: Reactome
  11. small molecule metabolic process Source: Reactome
Complete GO annotation...

Keywords - Biological processi

ER-Golgi transport, Protein transport, Transport

Enzyme and pathway databases

ReactomeiREACT_121399. MHC class II antigen presentation.
REACT_12507. COPII (Coat Protein 2) Mediated Vesicle Transport.
REACT_147797. Regulation of cholesterol biosynthesis by SREBP (SREBF).
REACT_75795. Antigen Presentation: Folding, assembly and peptide loading of class I MHC.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein transport protein Sec24D
Alternative name(s):
SEC24-related protein D
Gene namesi
Name:SEC24D
Synonyms:KIAA0755
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 4

Organism-specific databases

HGNCiHGNC:10706. SEC24D.

Subcellular locationi

Cytoplasm By similarity. Cytoplasmperinuclear region By similarity. Endoplasmic reticulum membrane By similarity. Golgi apparatus membrane By similarity

GO - Cellular componenti

  1. COPII vesicle coat Source: UniProtKB
  2. cytosol Source: Reactome
  3. endoplasmic reticulum membrane Source: Reactome
  4. ER to Golgi transport vesicle membrane Source: Reactome
  5. Golgi membrane Source: GOC
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endoplasmic reticulum, Golgi apparatus, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA35629.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10321032Protein transport protein Sec24DPRO_0000205157Add
BLAST

Proteomic databases

MaxQBiO94855.
PaxDbiO94855.
PRIDEiO94855.

PTM databases

PhosphoSiteiO94855.

Expressioni

Tissue specificityi

Ubiquitously expressed, with higher amounts in placenta, pancreas, heart and liver.

Gene expression databases

BgeeiO94855.
CleanExiHS_SEC24D.
ExpressionAtlasiO94855. baseline and differential.
GenevestigatoriO94855.

Organism-specific databases

HPAiHPA041626.

Interactioni

Subunit structurei

COPII is composed of at least five proteins: the Sec23/24 complex, the Sec13/31 complex and Sar1. Interacts with TMED2 and TMED10.1 Publication

Protein-protein interaction databases

BioGridi115204. 19 interactions.
IntActiO94855. 9 interactions.
MINTiMINT-1184580.
STRINGi9606.ENSP00000280551.

Structurei

Secondary structure

1
1032
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi267 – 27812Combined sources
Beta strandi281 – 2844Combined sources
Beta strandi287 – 2893Combined sources
Beta strandi300 – 3023Combined sources
Beta strandi304 – 3063Combined sources
Turni309 – 3113Combined sources
Beta strandi312 – 32211Combined sources
Helixi323 – 3297Combined sources
Beta strandi334 – 3374Combined sources
Turni356 – 3583Combined sources
Turni364 – 3663Combined sources
Beta strandi375 – 3773Combined sources
Helixi378 – 3803Combined sources
Beta strandi382 – 3843Combined sources
Turni386 – 3883Combined sources
Beta strandi391 – 3933Combined sources
Helixi396 – 3983Combined sources
Beta strandi404 – 4063Combined sources
Turni408 – 4103Combined sources
Helixi411 – 4133Combined sources
Helixi415 – 4184Combined sources
Beta strandi420 – 4256Combined sources
Helixi428 – 4303Combined sources
Helixi432 – 4343Combined sources
Beta strandi441 – 4477Combined sources
Helixi450 – 4545Combined sources
Helixi457 – 46812Combined sources
Helixi469 – 4713Combined sources
Beta strandi478 – 4803Combined sources
Beta strandi484 – 49815Combined sources
Beta strandi507 – 5115Combined sources
Beta strandi522 – 5276Combined sources
Turni529 – 5324Combined sources
Helixi533 – 54816Combined sources
Helixi558 – 57114Combined sources
Beta strandi575 – 5817Combined sources
Beta strandi587 – 5893Combined sources
Helixi607 – 6115Combined sources
Beta strandi614 – 6163Combined sources
Helixi617 – 62711Combined sources
Beta strandi630 – 6367Combined sources
Helixi644 – 6474Combined sources
Helixi649 – 6535Combined sources
Beta strandi658 – 6603Combined sources
Helixi666 – 68217Combined sources
Beta strandi685 – 69511Combined sources
Beta strandi699 – 7079Combined sources
Beta strandi711 – 7144Combined sources
Beta strandi716 – 7249Combined sources
Beta strandi727 – 7359Combined sources
Turni739 – 7413Combined sources
Beta strandi742 – 75211Combined sources
Beta strandi758 – 77114Combined sources
Helixi773 – 7786Combined sources
Helixi782 – 79615Combined sources
Turni797 – 7993Combined sources
Helixi802 – 82322Combined sources
Beta strandi832 – 8354Combined sources
Helixi837 – 8393Combined sources
Helixi842 – 85110Combined sources
Helixi853 – 8553Combined sources
Beta strandi858 – 8614Combined sources
Helixi863 – 87513Combined sources
Helixi878 – 8858Combined sources
Beta strandi888 – 8914Combined sources
Beta strandi897 – 8993Combined sources
Helixi910 – 9123Combined sources
Beta strandi918 – 9225Combined sources
Beta strandi924 – 9318Combined sources
Helixi937 – 9448Combined sources
Beta strandi945 – 9484Combined sources
Helixi949 – 9513Combined sources
Helixi966 – 97813Combined sources
Beta strandi986 – 9927Combined sources
Helixi998 – 10014Combined sources
Helixi1016 – 102914Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3EFOX-ray2.70B266-1032[»]
3EG9X-ray3.00B266-1032[»]
ProteinModelPortaliO94855.
SMRiO94855. Positions 263-1032.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO94855.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni363 – 38826Zinc finger-likeAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi10 – 293284Pro-richAdd
BLAST

Sequence similaritiesi

Belongs to the SEC23/SEC24 family. SEC24 subfamily.Curated

Phylogenomic databases

eggNOGiCOG5028.
GeneTreeiENSGT00590000082962.
HOGENOMiHOG000196365.
HOVERGENiHBG062229.
InParanoidiO94855.
KOiK14007.
OMAiPMGGQSM.
OrthoDBiEOG700877.
PhylomeDBiO94855.
TreeFamiTF300464.

Family and domain databases

Gene3Di3.40.20.10. 1 hit.
3.40.50.410. 1 hit.
InterProiIPR029006. ADF-H/Gelsolin-like_dom.
IPR007123. Gelsolin-like_dom.
IPR006900. Sec23/24_helical_dom.
IPR006896. Sec23/24_trunk_dom.
IPR012990. Sec23_24_beta_S.
IPR002035. VWF_A.
IPR006895. Znf_Sec23_Sec24.
[Graphical view]
PfamiPF00626. Gelsolin. 1 hit.
PF08033. Sec23_BS. 1 hit.
PF04815. Sec23_helical. 1 hit.
PF04811. Sec23_trunk. 1 hit.
PF04810. zf-Sec23_Sec24. 1 hit.
[Graphical view]
SUPFAMiSSF53300. SSF53300. 1 hit.
SSF81811. SSF81811. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: O94855-1) [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
MSQQGYVATP PYSQPQPGIG LSPPHYGHYG DPSHTASPTG MMKPAGPLGA
60 70 80 90 100
TATRGMLPPG PPPPGPHQFG QNGAHATGHP PQRFPGPPPV NNVASSHAPY
110 120 130 140 150
QPSAQSSYPG PISTSSVTQL GSQLSAMQIN SYGSGMAPPS QGPPGPLSAT
160 170 180 190 200
SLQTPPRPPQ PSILQPGSQV LPPPPTTLNG PGASPLPLPM YRPDGLSGPP
210 220 230 240 250
PPNAQYQPPP LPGQTLGAGY PPQQANSGPQ MAGAQLSYPG GFPGGPAQMA
260 270 280 290 300
GPPQPQKKLD PDSIPSPIQV IENDRASRGG QVYATNTRGQ IPPLVTTDCM
310 320 330 340 350
IQDQGNASPR FIRCTTYCFP CTSDMAKQAQ IPLAAVIKPF ATIPSNESPL
360 370 380 390 400
YLVNHGESGP VRCNRCKAYM CPFMQFIEGG RRYQCGFCNC VNDVPPFYFQ
410 420 430 440 450
HLDHIGRRLD HYEKPELSLG SYEYVATLDY CRKSKPPNPP AFIFMIDVSY
460 470 480 490 500
SNIKNGLVKL ICEELKTMLE KIPKEEQEET SAIRVGFITY NKVLHFFNVK
510 520 530 540 550
SNLAQPQMMV VTDVGEVFVP LLDGFLVNYQ ESQSVIHNLL DQIPDMFADS
560 570 580 590 600
NENETVFAPV IQAGMEALKA ADCPGKLFIF HSSLPTAEAP GKLKNRDDKK
610 620 630 640 650
LVNTDKEKIL FQPQTNVYDS LAKDCVAHGC SVTLFLFPSQ YVDVASLGLV
660 670 680 690 700
PQLTGGTLYK YNNFQMHLDR QQFLNDLRND IEKKIGFDAI MRVRTSTGFR
710 720 730 740 750
ATDFFGGILM NNTTDVEMAA IDCDKAVTVE FKHDDKLSED SGALIQCAVL
760 770 780 790 800
YTTISGQRRL RIHNLGLNCS SQLADLYKSC ETDALINFFA KSAFKAVLHQ
810 820 830 840 850
PLKVIREILV NQTAHMLACY RKNCASPSAA SQLILPDSMK VLPVYMNCLL
860 870 880 890 900
KNCVLLSRPE ISTDERAYQR QLVMTMGVAD SQLFFYPQLL PIHTLDVKST
910 920 930 940 950
MLPAAVRCSE SRLSEEGIFL LANGLHMFLW LGVSSPPELI QGIFNVPSFA
960 970 980 990 1000
HINTDMTLLP EVGNPYSQQL RMIMGIIQQK RPYSMKLTIV KQREQPEMVF
1010 1020 1030
RQFLVEDKGL YGGSSYVDFL CCVHKEICQL LN
Length:1,032
Mass (Da):113,010
Last modified:November 25, 2008 - v2
Checksum:iB46E566F096F37F0
GO
Isoform 2 (identifier: O94855-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     224-224: Q → QA

Note: No experimental confirmation available.

Show »
Length:1,033
Mass (Da):113,081
Checksum:i4DBA3D9F630F0043
GO

Sequence cautioni

The sequence BAA34475.2 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti559 – 5591P → S in AAD28756. (PubMed:10329445)Curated
Sequence conflicti559 – 5591P → S in BAA34475. (PubMed:9872452)Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti42 – 421M → T.
Corresponds to variant rs10029206 [ dbSNP | Ensembl ].
VAR_047472
Natural varianti193 – 1931P → L.
Corresponds to variant rs6844109 [ dbSNP | Ensembl ].
VAR_047473
Natural varianti496 – 4961F → I.
Corresponds to variant rs11723368 [ dbSNP | Ensembl ].
VAR_047474

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei224 – 2241Q → QA in isoform 2. 1 PublicationVSP_035761

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF130464 mRNA. Translation: AAD28756.2.
AB018298 mRNA. Translation: BAA34475.2. Different initiation.
CH471229 Genomic DNA. Translation: EAW73656.1.
BC035761 mRNA. Translation: AAH35761.1.
CCDSiCCDS3710.1. [O94855-1]
RefSeqiNP_055637.2. NM_014822.2. [O94855-1]
XP_005263435.1. XM_005263378.1. [O94855-2]
XP_005263436.1. XM_005263379.1. [O94855-2]
UniGeneiHs.189641.

Genome annotation databases

EnsembliENST00000280551; ENSP00000280551; ENSG00000150961. [O94855-1]
GeneIDi9871.
KEGGihsa:9871.
UCSCiuc003ici.4. human. [O94855-1]
uc003icj.4. human. [O94855-2]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF130464 mRNA. Translation: AAD28756.2 .
AB018298 mRNA. Translation: BAA34475.2 . Different initiation.
CH471229 Genomic DNA. Translation: EAW73656.1 .
BC035761 mRNA. Translation: AAH35761.1 .
CCDSi CCDS3710.1. [O94855-1 ]
RefSeqi NP_055637.2. NM_014822.2. [O94855-1 ]
XP_005263435.1. XM_005263378.1. [O94855-2 ]
XP_005263436.1. XM_005263379.1. [O94855-2 ]
UniGenei Hs.189641.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
3EFO X-ray 2.70 B 266-1032 [» ]
3EG9 X-ray 3.00 B 266-1032 [» ]
ProteinModelPortali O94855.
SMRi O94855. Positions 263-1032.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 115204. 19 interactions.
IntActi O94855. 9 interactions.
MINTi MINT-1184580.
STRINGi 9606.ENSP00000280551.

PTM databases

PhosphoSitei O94855.

Proteomic databases

MaxQBi O94855.
PaxDbi O94855.
PRIDEi O94855.

Protocols and materials databases

DNASUi 9871.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000280551 ; ENSP00000280551 ; ENSG00000150961 . [O94855-1 ]
GeneIDi 9871.
KEGGi hsa:9871.
UCSCi uc003ici.4. human. [O94855-1 ]
uc003icj.4. human. [O94855-2 ]

Organism-specific databases

CTDi 9871.
GeneCardsi GC04M119643.
H-InvDB HIX0004459.
HGNCi HGNC:10706. SEC24D.
HPAi HPA041626.
MIMi 607186. gene.
neXtProti NX_O94855.
PharmGKBi PA35629.
HUGEi Search...
GenAtlasi Search...

Phylogenomic databases

eggNOGi COG5028.
GeneTreei ENSGT00590000082962.
HOGENOMi HOG000196365.
HOVERGENi HBG062229.
InParanoidi O94855.
KOi K14007.
OMAi PMGGQSM.
OrthoDBi EOG700877.
PhylomeDBi O94855.
TreeFami TF300464.

Enzyme and pathway databases

Reactomei REACT_121399. MHC class II antigen presentation.
REACT_12507. COPII (Coat Protein 2) Mediated Vesicle Transport.
REACT_147797. Regulation of cholesterol biosynthesis by SREBP (SREBF).
REACT_75795. Antigen Presentation: Folding, assembly and peptide loading of class I MHC.

Miscellaneous databases

ChiTaRSi SEC24D. human.
EvolutionaryTracei O94855.
GeneWikii SEC24D.
GenomeRNAii 9871.
NextBioi 37211.
PROi O94855.
SOURCEi Search...

Gene expression databases

Bgeei O94855.
CleanExi HS_SEC24D.
ExpressionAtlasi O94855. baseline and differential.
Genevestigatori O94855.

Family and domain databases

Gene3Di 3.40.20.10. 1 hit.
3.40.50.410. 1 hit.
InterProi IPR029006. ADF-H/Gelsolin-like_dom.
IPR007123. Gelsolin-like_dom.
IPR006900. Sec23/24_helical_dom.
IPR006896. Sec23/24_trunk_dom.
IPR012990. Sec23_24_beta_S.
IPR002035. VWF_A.
IPR006895. Znf_Sec23_Sec24.
[Graphical view ]
Pfami PF00626. Gelsolin. 1 hit.
PF08033. Sec23_BS. 1 hit.
PF04815. Sec23_helical. 1 hit.
PF04811. Sec23_trunk. 1 hit.
PF04810. zf-Sec23_Sec24. 1 hit.
[Graphical view ]
SUPFAMi SSF53300. SSF53300. 1 hit.
SSF81811. SSF81811. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    Tissue: Pancreas.
  2. "Prediction of the coding sequences of unidentified human genes. XI. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro."
    Nagase T., Ishikawa K., Suyama M., Kikuno R., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O.
    DNA Res. 5:277-286(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Brain.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "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 2).
    Tissue: Lymph.
  5. "Selective export of human GPI-anchored proteins from the endoplasmic reticulum."
    Bonnon C., Wendeler M.W., Paccaud J.P., Hauri H.P.
    J. Cell Sci. 123:1705-1715(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH TMED2 AND TMED10.
  6. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiSC24D_HUMAN
AccessioniPrimary (citable) accession number: O94855
Secondary accession number(s): Q8IYI7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 21, 2001
Last sequence update: November 25, 2008
Last modified: November 26, 2014
This is version 125 of the entry and version 2 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 4
    Human chromosome 4: 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