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Protein

Chromatin modification-related protein YNG2

Gene

YNG2

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Component of the NuA4 histone acetyltransferase complex which is involved in transcriptional activation of selected genes principally by acetylation of nucleosomal histone H4 and H2A. The NuA4 complex is also involved in DNA repair. Involved in cell cycle progression and meiosis.4 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei224Histone H3K4me3By similarity1
Metal bindingi225Zinc 1By similarity1
Metal bindingi227Zinc 1By similarity1
Binding sitei235Histone H3K4me3By similarity1
Metal bindingi238Zinc 2By similarity1
Binding sitei239Histone H3K4me3By similarity1
Metal bindingi243Zinc 2By similarity1
Binding sitei247Histone H3K4me3By similarity1
Metal bindingi249Zinc 1; via pros nitrogenBy similarity1
Metal bindingi252Zinc 1By similarity1
Metal bindingi265Zinc 2By similarity1
Metal bindingi268Zinc 2By similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri222 – 271PHD-typePROSITE-ProRule annotationAdd BLAST50

GO - Molecular functioni

  • methylated histone binding Source: UniProtKB
  • zinc ion binding Source: InterPro

GO - Biological processi

  • chromatin modification Source: SGD
  • DNA repair Source: SGD
  • histone acetylation Source: SGD
  • meiotic cell cycle Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator

Keywords - Biological processi

Cell cycle, DNA damage, DNA repair, Meiosis

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-31137-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Chromatin modification-related protein YNG2
Alternative name(s):
ESA1-associated factor 4
ING1 homolog 2
Gene namesi
Name:YNG2
Synonyms:EAF4, NBN1
Ordered Locus Names:YHR090C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome VIII

Organism-specific databases

EuPathDBiFungiDB:YHR090C.
SGDiS000001132. YNG2.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: SGD
  • NuA4 histone acetyltransferase complex Source: SGD
  • nucleus Source: SGD
  • Piccolo NuA4 histone acetyltransferase complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002126791 – 282Chromatin modification-related protein YNG2Add BLAST282

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei183PhosphoserineCombined sources1
Modified residuei185PhosphothreonineCombined sources1
Modified residuei188PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP38806.
PRIDEiP38806.

PTM databases

iPTMnetiP38806.

Interactioni

Subunit structurei

Interacts with H3K4me3 and to a lesser extent with H3K4me2. Component of the NuA4 histone acetyltransferase complex composed of at least ACT1, ARP4, YAF9, VID21, SWC4, EAF3, EAF5, EAF6, EAF7, EPL1, ESA1, TRA1 and YNG2.6 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
EPL1P435728EBI-24622,EBI-22792

GO - Molecular functioni

  • methylated histone binding Source: UniProtKB

Protein-protein interaction databases

BioGridi36525. 292 interactors.
DIPiDIP-2095N.
IntActiP38806. 19 interactors.
MINTiMINT-561028.

Structurei

Secondary structure

1282
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi225 – 227Combined sources3
Turni250 – 254Combined sources5
Helixi266 – 270Combined sources5

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2MUMNMR-A222-271[»]
ProteinModelPortaliP38806.
SMRiP38806.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili35 – 86Sequence analysisAdd BLAST52

Domaini

The PHD-type zinc finger mediates the binding to H3K4me3.1 Publication

Sequence similaritiesi

Belongs to the ING family.Curated
Contains 1 PHD-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri222 – 271PHD-typePROSITE-ProRule annotationAdd BLAST50

Keywords - Domaini

Coiled coil, Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00830000129158.
HOGENOMiHOG000000883.
InParanoidiP38806.
KOiK11396.
OMAiGQWYCPE.
OrthoDBiEOG092C2K1R.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR028651. ING_fam.
IPR024610. ING_N_histone_binding.
IPR019786. Zinc_finger_PHD-type_CS.
IPR011011. Znf_FYVE_PHD.
IPR001965. Znf_PHD.
IPR019787. Znf_PHD-finger.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR10333. PTHR10333. 2 hits.
PfamiPF12998. ING. 1 hit.
[Graphical view]
SMARTiSM01408. ING. 1 hit.
SM00249. PHD. 1 hit.
[Graphical view]
SUPFAMiSSF57903. SSF57903. 1 hit.
PROSITEiPS01359. ZF_PHD_1. 1 hit.
PS50016. ZF_PHD_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P38806-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDPSLVLEQT IQDVSNLPSE FRYLLEEIGS NDLKLIEEKK KYEQKESQIH
60 70 80 90 100
KFIRQQGSIP KHPQEDGLDK EIKESLLKCQ SLQREKCVLA NTALFLIARH
110 120 130 140 150
LNKLEKNIAL LEEDGVLAPV EEDGDMDSAA EASRESSVVS NSSVKKRRAA
160 170 180 190 200
SSSGSVPPTL KKKKTSRTSK LQNEIDVSSR EKSVTPVSPS IEKKIARTKE
210 220 230 240 250
FKNSRNGKGQ NGSPENEEED KTLYCFCQRV SFGEMVACDG PNCKYEWFHY
260 270 280
DCVNLKEPPK GTWYCPECKI EMEKNKLKRK RN
Length:282
Mass (Da):32,086
Last modified:February 1, 1995 - v1
Checksum:i110E0A2536547D03
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00060 Genomic DNA. Translation: AAB68930.1.
BK006934 Genomic DNA. Translation: DAA06786.1.
PIRiS46722.
RefSeqiNP_011958.1. NM_001179220.1.

Genome annotation databases

EnsemblFungiiYHR090C; YHR090C; YHR090C.
GeneIDi856490.
KEGGisce:YHR090C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00060 Genomic DNA. Translation: AAB68930.1.
BK006934 Genomic DNA. Translation: DAA06786.1.
PIRiS46722.
RefSeqiNP_011958.1. NM_001179220.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2MUMNMR-A222-271[»]
ProteinModelPortaliP38806.
SMRiP38806.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36525. 292 interactors.
DIPiDIP-2095N.
IntActiP38806. 19 interactors.
MINTiMINT-561028.

PTM databases

iPTMnetiP38806.

Proteomic databases

MaxQBiP38806.
PRIDEiP38806.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYHR090C; YHR090C; YHR090C.
GeneIDi856490.
KEGGisce:YHR090C.

Organism-specific databases

EuPathDBiFungiDB:YHR090C.
SGDiS000001132. YNG2.

Phylogenomic databases

GeneTreeiENSGT00830000129158.
HOGENOMiHOG000000883.
InParanoidiP38806.
KOiK11396.
OMAiGQWYCPE.
OrthoDBiEOG092C2K1R.

Enzyme and pathway databases

BioCyciYEAST:G3O-31137-MONOMER.

Miscellaneous databases

PROiP38806.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR028651. ING_fam.
IPR024610. ING_N_histone_binding.
IPR019786. Zinc_finger_PHD-type_CS.
IPR011011. Znf_FYVE_PHD.
IPR001965. Znf_PHD.
IPR019787. Znf_PHD-finger.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR10333. PTHR10333. 2 hits.
PfamiPF12998. ING. 1 hit.
[Graphical view]
SMARTiSM01408. ING. 1 hit.
SM00249. PHD. 1 hit.
[Graphical view]
SUPFAMiSSF57903. SSF57903. 1 hit.
PROSITEiPS01359. ZF_PHD_1. 1 hit.
PS50016. ZF_PHD_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiYNG2_YEAST
AccessioniPrimary (citable) accession number: P38806
Secondary accession number(s): D3DL42
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: November 2, 2016
This is version 141 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome VIII
    Yeast (Saccharomyces cerevisiae) chromosome VIII: entries and gene names

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.