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Protein

Vacuolar protein sorting-associated protein 72 homolog

Gene

VPS72

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

Functioni

Deposition-and-exchange histone chaperone specific for H2AFZ, specifically chaperones H2AFZ and deposits it into nucleosomes. As component of the SRCAP complex, mediates the ATP-dependent exchange of histone H2AFZ/H2B dimers for nucleosomal H2A/H2B, leading to transcriptional regulation of selected genes by chromatin remodeling.1 Publication

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi156 – 206Sequence analysisAdd BLAST51

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • histone binding Source: UniProtKB

GO - Biological processi

  • histone exchange Source: UniProtKB
  • negative regulation of transcription by RNA polymerase II Source: ProtInc
  • somatic stem cell population maintenance Source: Ensembl
  • transcription, DNA-templated Source: UniProtKB-KW

Keywordsi

Molecular functionChromatin regulator, DNA-binding
Biological processTranscription, Transcription regulation

Enzyme and pathway databases

ReactomeiR-HSA-3214847 HATs acetylate histones

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar protein sorting-associated protein 72 homolog
Alternative name(s):
Protein YL-1
Transcription factor-like 1
Gene namesi
Name:VPS72
Synonyms:TCFL1, YL1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000163159.11
HGNCiHGNC:11644 VPS72
MIMi600607 gene
neXtProtiNX_Q15906

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi29 – 37FYQTTYGGF → AAQTTAGGA: Highly decreases interaction with H2AFZ and HIST1H2BJ. Abolishes interaction with H2AFZ and HIST1H2BJ and exchange of H2A for H2AFZ in nucleosomes; when associated with A-43--46-A. 1 Publication9
Mutagenesisi43 – 46DDEY → ADAA: Almost abolishes interation with H2AFZ and HIST1H2BJ. Abolishes interaction with H2AFZ and HIST1H2BJ and exchange of H2A for H2AFZ in nucleosomes; when associated with A-29--37-A. 1 Publication4

Organism-specific databases

DisGeNETi6944
OpenTargetsiENSG00000163159
PharmGKBiPA36396

Polymorphism and mutation databases

DMDMi2499159

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000662831 – 364Vacuolar protein sorting-associated protein 72 homologAdd BLAST364

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki115Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei127PhosphoserineCombined sources1
Modified residuei129PhosphoserineCombined sources1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ15906
MaxQBiQ15906
PaxDbiQ15906
PeptideAtlasiQ15906
PRIDEiQ15906

PTM databases

iPTMnetiQ15906
PhosphoSitePlusiQ15906

Expressioni

Gene expression databases

BgeeiENSG00000163159
CleanExiHS_VPS72
ExpressionAtlasiQ15906 baseline and differential
GenevisibleiQ15906 HS

Organism-specific databases

HPAiHPA065709

Interactioni

Subunit structurei

Component of the NuA4 histone acetyltransferase complex which contains the catalytic subunit KAT5/TIP60 and the subunits EP400, TRRAP/PAF400, BRD8/SMAP, EPC1, DMAP1/DNMAP1, RUVBL1/TIP49, RUVBL2, ING3, actin, ACTL6A/BAF53A, MORF4L1/MRG15, MORF4L2/MRGX, MRGBP, YEATS4/GAS41 and VPS72/YL1. Component of a NuA4-related complex which contains EP400, TRRAP/PAF400, SRCAP, BRD8/SMAP, EPC1, DMAP1/DNMAP1, RUVBL1/TIP49, RUVBL2, actin, ACTL6A/BAF53A, VPS72 and YEATS4/GAS41. Also part of a multiprotein complex which contains SRCAP and which binds to H2AFZ/H2AZ. Interacts (via N-terminal domain) with heterodimer HIST1H2BJ and H2AFZ (PubMed:26974126).3 Publications

Binary interactionsi

Show more details

GO - Molecular functioni

  • histone binding Source: UniProtKB

Protein-protein interaction databases

BioGridi112804, 48 interactors
CORUMiQ15906
DIPiDIP-31767N
IntActiQ15906, 33 interactors
MINTiQ15906
STRINGi9606.ENSP00000357887

Structurei

Secondary structure

1364
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Turni11 – 16Combined sources6
Helixi17 – 22Combined sources6
Helixi29 – 32Combined sources4
Helixi33 – 35Combined sources3
Beta strandi54 – 57Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5FUGX-ray2.70C/F/I/L6-69[»]
ProteinModelPortaliQ15906
SMRiQ15906
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi22 – 77Asp/Glu-rich (acidic)Add BLAST56
Compositional biasi333 – 354Pro-richAdd BLAST22
Compositional biasi341 – 350Poly-Pro10

Sequence similaritiesi

Belongs to the VPS72/YL1 family.Curated

Phylogenomic databases

eggNOGiKOG2897 Eukaryota
ENOG41119RU LUCA
GeneTreeiENSGT00390000017503
HOGENOMiHOG000033695
HOVERGENiHBG083244
InParanoidiQ15906
KOiK11664
OMAiCERTFVT
OrthoDBiEOG091G0BQW
PhylomeDBiQ15906
TreeFamiTF314532

Family and domain databases

InterProiView protein in InterPro
IPR008895 Vps72/YL1
IPR013272 Vps72/YL1_C
PANTHERiPTHR13275 PTHR13275, 1 hit
PfamiView protein in Pfam
PF05764 YL1, 1 hit
PF08265 YL1_C, 1 hit
SMARTiView protein in SMART
SM00993 YL1_C, 1 hit

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q15906-1) [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
MSLAGGRAPR KTAGNRLSGL LEAEEEDEFY QTTYGGFTEE SGDDEYQGDQ
60 70 80 90 100
SDTEDEVDSD FDIDEGDEPS SDGEAEEPRR KRRVVTKAYK EPLKSLRPRK
110 120 130 140 150
VNTPAGSSQK AREEKALLPL ELQDDGSDSR KSMRQSTAEH TRQTFLRVQE
160 170 180 190 200
RQGQSRRRKG PHCERPLTQE ELLREAKITE ELNLRSLETY ERLEADKKKQ
210 220 230 240 250
VHKKRKCPGP IITYHSVTVP LVGEPGPKEE NVDIEGLDPA PSVSALTPHA
260 270 280 290 300
GTGPVNPPAR CSRTFITFSD DATFEEWFPQ GRPPKVPVRE VCPVTHRPAL
310 320 330 340 350
YRDPVTDIPY ATARAFKIIR EAYKKYITAH GLPPTASALG PGPPPPEPLP
360
GSGPRALRQK IVIK
Length:364
Mass (Da):40,594
Last modified:November 1, 1996 - v1
Checksum:i0AEB90B62B2BCA4A
GO
Isoform 2 (identifier: Q15906-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     236-236: G → GSLCFSLSFVLR

Note: No experimental confirmation available.
Show »
Length:375
Mass (Da):41,848
Checksum:iDB81322C6CAECD8D
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti30Y → H in BAD96655 (Ref. 3) Curated1
Sequence conflicti30Y → H in BAD96659 (Ref. 3) Curated1
Sequence conflicti53T → I in BAD96655 (Ref. 3) Curated1
Sequence conflicti53T → I in BAD96659 (Ref. 3) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_035803318I → V in a breast cancer sample; somatic mutation. 1 Publication1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_047566236G → GSLCFSLSFVLR in isoform 2. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D43642 mRNA Translation: BAA07757.1
BT019356 mRNA Translation: AAV38163.1
BT019357 mRNA Translation: AAV38164.1
AK222935 mRNA Translation: BAD96655.1
AK222939 mRNA Translation: BAD96659.1
AL592424 Genomic DNA No translation available.
CH471121 Genomic DNA Translation: EAW53462.1
BC003151 mRNA Translation: AAH03151.1
CX163016 mRNA No translation available.
CCDSiCCDS59201.1 [Q15906-2]
CCDS989.1 [Q15906-1]
PIRiJC4140
RefSeqiNP_001258016.1, NM_001271087.1 [Q15906-2]
NP_005988.1, NM_005997.2 [Q15906-1]
UniGeneiHs.2430

Genome annotation databases

EnsembliENST00000354473; ENSP00000346464; ENSG00000163159 [Q15906-2]
ENST00000368892; ENSP00000357887; ENSG00000163159 [Q15906-1]
GeneIDi6944
KEGGihsa:6944
UCSCiuc001exe.3 human [Q15906-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiVPS72_HUMAN
AccessioniPrimary (citable) accession number: Q15906
Secondary accession number(s): A6NLK9
, A6PW55, Q53GJ2, Q5U0R4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: April 25, 2018
This is version 161 of the entry and version 1 of the sequence. See 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 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families

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