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Protein

Protein YIPF3

Gene

YIPF3

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

Functioni

Involved in the maintenance of the Golgi structure. May play a role in hematopoiesis.2 Publications

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Differentiation

Enzyme and pathway databases

BioCyciZFISH:ENSG00000137207-MONOMER.

Protein family/group databases

TCDBi9.B.135.2.1. the membrane trafficking yip (yip) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein YIPF3
Alternative name(s):
Killer lineage protein 1
Natural killer cell-specific antigen KLIP1
YIP1 family member 3
Cleaved into the following chain:
Gene namesi
Name:YIPF3
Synonyms:C6orf109, KLIP1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 6

Organism-specific databases

HGNCiHGNC:21023. YIPF3.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini2 – 148CytoplasmicSequence analysisAdd BLAST147
Transmembranei149 – 169HelicalSequence analysisAdd BLAST21
Topological domaini170 – 187LumenalSequence analysisAdd BLAST18
Transmembranei188 – 208HelicalSequence analysisAdd BLAST21
Topological domaini209 – 214CytoplasmicSequence analysis6
Transmembranei215 – 237HelicalSequence analysisAdd BLAST23
Topological domaini238 – 240LumenalSequence analysis3
Transmembranei241 – 263HelicalSequence analysisAdd BLAST23
Topological domaini264 – 274CytoplasmicSequence analysisAdd BLAST11
Transmembranei275 – 295HelicalSequence analysisAdd BLAST21
Topological domaini296 – 350LumenalSequence analysisAdd BLAST55

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Cytoplasm, Golgi apparatus, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi25844.
OpenTargetsiENSG00000137207.
PharmGKBiPA134946615.

Polymorphism and mutation databases

BioMutaiYIPF3.
DMDMi74752534.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00002444462 – 350Protein YIPF3Add BLAST349
ChainiPRO_00004182162 – ?Protein YIPF3, 36 kDa form III

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineCombined sources1
Glycosylationi333O-linked (GalNAc...)1 Publication1
Glycosylationi334O-linked (GalNAc...)1 Publication1
Glycosylationi337N-linked (GlcNAc...)1 Publication1
Glycosylationi339O-linked (GalNAc...)1 Publication1
Glycosylationi346O-linked (GalNAc...)3 Publications1

Post-translational modificationi

N-glycosylated in the ER (40 kDa form I), then O-glycosylated in the Golgi apparatus (46 kDa form II), the C-terminal lumenal region is later removed in the Golgi apparatus to produce a 36 kDa form III. O-glycosylated with core 1-like and core 2-like glycans. O-glycan heterogeneity at Thr-346: HexNAc (minor), HexHexNAc (major), Hex1HexNAc2 (minor), Hex2HexNAc2 (minor) and dHex1Hex2HexNAc2 (minor).4 Publications

Keywords - PTMi

Acetylation, Glycoprotein

Proteomic databases

EPDiQ9GZM5.
MaxQBiQ9GZM5.
PaxDbiQ9GZM5.
PeptideAtlasiQ9GZM5.
PRIDEiQ9GZM5.

PTM databases

iPTMnetiQ9GZM5.
PhosphoSitePlusiQ9GZM5.
SwissPalmiQ9GZM5.
UniCarbKBiQ9GZM5.

Expressioni

Tissue specificityi

Expressed by nucleated hematopoietic cells (at protein level).1 Publication

Developmental stagei

Expressed in fetal liver (at protein level). Expressed in embryonic hematopoiesis sites.1 Publication

Gene expression databases

BgeeiENSG00000137207.
CleanExiHS_YIPF3.
ExpressionAtlasiQ9GZM5. baseline and differential.
GenevisibleiQ9GZM5. HS.

Organism-specific databases

HPAiHPA014859.
HPA063699.

Interactioni

Subunit structurei

Interacts with YIPF4.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
KRTAP10-8P604103EBI-743787,EBI-10171774
KRTAP3-2Q9BYR75EBI-743787,EBI-751260
KRTAP5-9P263713EBI-743787,EBI-3958099
KRTAP9-4Q9BYQ23EBI-743787,EBI-10185730
NOTCH2NLQ7Z3S93EBI-743787,EBI-945833
YIPF4Q9BSR86EBI-743787,EBI-751253

Protein-protein interaction databases

BioGridi117370. 101 interactors.
IntActiQ9GZM5. 12 interactors.
MINTiMINT-1454282.
STRINGi9606.ENSP00000361499.

Structurei

3D structure databases

ProteinModelPortaliQ9GZM5.
SMRiQ9GZM5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the YIP1 family.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IPBK. Eukaryota.
ENOG4111EUH. LUCA.
GeneTreeiENSGT00510000047963.
HOVERGENiHBG055544.
InParanoidiQ9GZM5.
PhylomeDBiQ9GZM5.
TreeFamiTF314073.

Family and domain databases

InterProiIPR026637. YIPF3.
[Graphical view]
PANTHERiPTHR15627:SF14. PTHR15627:SF14. 1 hit.

Sequencei

Sequence statusi: Complete.

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

Q9GZM5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATTAAPAGG ARNGAGPEWG GFEENIQGGG SAVIDMENMD DTSGSSFEDM
60 70 80 90 100
GELHQRLREE EVDADAADAA AAEEEDGEFL GMKGFKGQLS RQVADQMWQA
110 120 130 140 150
GKRQASRAFS LYANIDILRP YFDVEPAQVR SRLLESMIPI KMVNFPQKIA
160 170 180 190 200
GELYGPLMLV FTLVAILLHG MKTSDTIIRE GTLMGTAIGT CFGYWLGVSS
210 220 230 240 250
FIYFLAYLCN AQITMLQMLA LLGYGLFGHC IVLFITYNIH LHALFYLFWL
260 270 280 290 300
LVGGLSTLRM VAVLVSRTVG PTQRLLLCGT LAALHMLFLL YLHFAYHKVV
310 320 330 340 350
EGILDTLEGP NIPPIQRVPR DIPAMLPAAR LPTTVLNATA KAVAVTLQSH
Length:350
Mass (Da):38,248
Last modified:March 1, 2001 - v1
Checksum:iED7A566716A6B364
GO

Sequence cautioni

The sequence CAI42626 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti103R → G in CAG38572 (Ref. 6) Curated1
Sequence conflicti142M → V in BAA91439 (PubMed:14702039).Curated1
Sequence conflicti161F → L in AAM21161 (PubMed:12490290).Curated1
Sequence conflicti305D → V in CAB43375 (PubMed:11230166).Curated1
Sequence conflicti305D → V in CAG38572 (Ref. 6) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_0269065A → V.Corresponds to variant rs2231763dbSNPEnsembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF162672 mRNA. Translation: AAM21161.1.
AK000946 mRNA. Translation: BAA91439.1.
AK021655 mRNA. Translation: BAB13866.1.
AK022757 mRNA. Translation: BAB14231.1.
AL355802 Genomic DNA. Translation: CAI42626.1. Sequence problems.
BC019297 mRNA. Translation: AAH19297.1.
AL050274 mRNA. Translation: CAB43375.2.
CR533541 mRNA. Translation: CAG38572.1.
CCDSiCCDS4899.1.
PIRiT08721.
RefSeqiNP_056203.2. NM_015388.3.
UniGeneiHs.440950.

Genome annotation databases

EnsembliENST00000372422; ENSP00000361499; ENSG00000137207.
GeneIDi25844.
KEGGihsa:25844.
UCSCiuc003ovl.2. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF162672 mRNA. Translation: AAM21161.1.
AK000946 mRNA. Translation: BAA91439.1.
AK021655 mRNA. Translation: BAB13866.1.
AK022757 mRNA. Translation: BAB14231.1.
AL355802 Genomic DNA. Translation: CAI42626.1. Sequence problems.
BC019297 mRNA. Translation: AAH19297.1.
AL050274 mRNA. Translation: CAB43375.2.
CR533541 mRNA. Translation: CAG38572.1.
CCDSiCCDS4899.1.
PIRiT08721.
RefSeqiNP_056203.2. NM_015388.3.
UniGeneiHs.440950.

3D structure databases

ProteinModelPortaliQ9GZM5.
SMRiQ9GZM5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi117370. 101 interactors.
IntActiQ9GZM5. 12 interactors.
MINTiMINT-1454282.
STRINGi9606.ENSP00000361499.

Protein family/group databases

TCDBi9.B.135.2.1. the membrane trafficking yip (yip) family.

PTM databases

iPTMnetiQ9GZM5.
PhosphoSitePlusiQ9GZM5.
SwissPalmiQ9GZM5.
UniCarbKBiQ9GZM5.

Polymorphism and mutation databases

BioMutaiYIPF3.
DMDMi74752534.

Proteomic databases

EPDiQ9GZM5.
MaxQBiQ9GZM5.
PaxDbiQ9GZM5.
PeptideAtlasiQ9GZM5.
PRIDEiQ9GZM5.

Protocols and materials databases

DNASUi25844.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000372422; ENSP00000361499; ENSG00000137207.
GeneIDi25844.
KEGGihsa:25844.
UCSCiuc003ovl.2. human.

Organism-specific databases

CTDi25844.
DisGeNETi25844.
GeneCardsiYIPF3.
HGNCiHGNC:21023. YIPF3.
HPAiHPA014859.
HPA063699.
MIMi609775. gene.
neXtProtiNX_Q9GZM5.
OpenTargetsiENSG00000137207.
PharmGKBiPA134946615.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IPBK. Eukaryota.
ENOG4111EUH. LUCA.
GeneTreeiENSGT00510000047963.
HOVERGENiHBG055544.
InParanoidiQ9GZM5.
PhylomeDBiQ9GZM5.
TreeFamiTF314073.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000137207-MONOMER.

Miscellaneous databases

ChiTaRSiYIPF3. human.
GeneWikiiYIPF3.
GenomeRNAii25844.
PROiQ9GZM5.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000137207.
CleanExiHS_YIPF3.
ExpressionAtlasiQ9GZM5. baseline and differential.
GenevisibleiQ9GZM5. HS.

Family and domain databases

InterProiIPR026637. YIPF3.
[Graphical view]
PANTHERiPTHR15627:SF14. PTHR15627:SF14. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiYIPF3_HUMAN
AccessioniPrimary (citable) accession number: Q9GZM5
Secondary accession number(s): Q5JTD2
, Q6FI85, Q8NI57, Q9NWE3, Q9Y3U9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 27, 2006
Last sequence update: March 1, 2001
Last modified: November 30, 2016
This is version 122 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 6
    Human chromosome 6: 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.