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Protein

Transcription factor BYE1

Gene

BYE1

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

Negative regulator of transcription elongation.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri72 – 13463PHD-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • chromatin binding Source: SGD
  • methylated histone binding Source: SGD
  • zinc ion binding Source: InterPro

GO - Biological processi

  • negative regulation of transcription from RNA polymerase II promoter Source: SGD
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-31815-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Transcription factor BYE1
Alternative name(s):
Bypass of ESS1 protein 1
Gene namesi
Name:BYE1
Ordered Locus Names:YKL005C
ORF Names:YKL150
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome XI

Organism-specific databases

CYGDiYKL005c.
EuPathDBiFungiDB:YKL005C.
SGDiS000001488. BYE1.

Subcellular locationi

  • Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

  • nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 594594Transcription factor BYE1PRO_0000203191Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei177 – 1771Phosphoserine1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP36106.
PaxDbiP36106.

Expressioni

Gene expression databases

GenevestigatoriP36106.

Interactioni

Subunit structurei

Interacts with the RNA polymerase RPB1 subunit and specifically with the trimethylated H3 histone H3K4me3.2 Publications

Protein-protein interaction databases

BioGridi34128. 18 interactions.
MINTiMINT-2493828.
STRINGi4932.YKL005C.

Structurei

Secondary structure

1
594
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi234 – 25118Combined sources
Helixi254 – 2585Combined sources
Helixi272 – 28312Combined sources
Helixi285 – 2895Combined sources
Helixi302 – 31413Combined sources
Beta strandi317 – 3193Combined sources
Helixi320 – 3278Combined sources
Helixi332 – 3365Combined sources
Helixi346 – 35914Combined sources
Turni360 – 3623Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4BXXX-ray3.28X225-370[»]
4BXZX-ray4.80X1-594[»]
4BY1X-ray3.60X225-370[»]
4BY7X-ray3.15X225-370[»]
ProteinModelPortaliP36106.
SMRiP36106. Positions 73-134, 232-365.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini254 – 365112TFIIS centralPROSITE-ProRule annotationAdd
BLAST

Domaini

The PHD domain is involved in the binding to H3K4me3.2 Publications

Sequence similaritiesi

Belongs to the BYE1 family.Curated
Contains 1 PHD-type zinc finger.PROSITE-ProRule annotation
Contains 1 TFIIS central domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri72 – 13463PHD-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiNOG241623.
HOGENOMiHOG000095286.
InParanoidiP36106.
OMAiGSHNDER.
OrthoDBiEOG754HZ0.

Family and domain databases

Gene3Di1.10.472.30. 1 hit.
3.30.40.10. 1 hit.
InterProiIPR012921. SPOC_C.
IPR003618. TFIIS_cen_dom.
IPR017890. TFS2M.
IPR019786. Zinc_finger_PHD-type_CS.
IPR011011. Znf_FYVE_PHD.
IPR001965. Znf_PHD.
IPR019787. Znf_PHD-finger.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamiPF00628. PHD. 1 hit.
PF07744. SPOC. 1 hit.
PF07500. TFIIS_M. 1 hit.
[Graphical view]
SMARTiSM00249. PHD. 1 hit.
SM00510. TFS2M. 1 hit.
[Graphical view]
SUPFAMiSSF46942. SSF46942. 1 hit.
SSF57903. SSF57903. 1 hit.
PROSITEiPS51321. TFIIS_CENTRAL. 1 hit.
PS01359. ZF_PHD_1. 1 hit.
PS50016. ZF_PHD_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P36106-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSVRTSSRSN KGQNKYIEYL LQEETEAPKK KRTKKKVDSA IEKNKKSDSS
60 70 80 90 100
QEPRKDTENV RTDEVDEADE GYVRCLCGAN NENYDAAEYS HGDMVQCDGC
110 120 130 140 150
DTWQHIKCMT DGKDTIDGLM SEDSKYYCEL CDPSLYAHLE TSKEAEVSED
160 170 180 190 200
EDYHDDVYKP VNDHDDNDAD VFLDEESPRK RKRSPDSAKG IHIKSKQVKK
210 220 230 240 250
SNGSKKRNKS IDAAKSDTAE NEMPTRKDFE SEKEHKLRYN AEKMFSTLFS
260 270 280 290 300
KFIVPETIEA KLYELPDGKD VISISQEFAH NLEEELYKAC LNVEFGTLDK
310 320 330 340 350
IYTEKVRSLY SNLKDKKNLE LKAHVVEGKL PLNKLVNMNA SELANPDLQE
360 370 380 390 400
FKEKRDKIIL ENFIVEVPDK PMYVKTHKGD ELIEDIAEPQ EDILYSKDSI
410 420 430 440 450
RLHNIDSIDS DKSKIEQTHA ISKEPSPSTI INEESLNCAF LYPGLGLEFT
460 470 480 490 500
GYLNYIGASQ KLRRDIFKEA IGDGKLYVEG RLPTTTAAPY LKEISCSRAI
510 520 530 540 550
LVYQLFPSND SESKTTFADV VDSLENKGRI AGIKPKTRYE KDFYIVPSKG
560 570 580 590
GEIPEILKDI LGSHNDERSE RFSRMKSDER TLFAFVVVKQ EFIH
Length:594
Mass (Da):67,901
Last modified:June 1, 1994 - v1
Checksum:i1AE16A20E33F21C9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z28005 Genomic DNA. Translation: CAA81837.1.
X61398 Genomic DNA. No translation available.
S59773 Genomic DNA. Translation: AAC60551.1.
BK006944 Genomic DNA. Translation: DAA09152.1.
PIRiS37816.
RefSeqiNP_012921.3. NM_001179571.3.

Genome annotation databases

EnsemblFungiiYKL005C; YKL005C; YKL005C.
GeneIDi853865.
KEGGisce:YKL005C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z28005 Genomic DNA. Translation: CAA81837.1.
X61398 Genomic DNA. No translation available.
S59773 Genomic DNA. Translation: AAC60551.1.
BK006944 Genomic DNA. Translation: DAA09152.1.
PIRiS37816.
RefSeqiNP_012921.3. NM_001179571.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4BXXX-ray3.28X225-370[»]
4BXZX-ray4.80X1-594[»]
4BY1X-ray3.60X225-370[»]
4BY7X-ray3.15X225-370[»]
ProteinModelPortaliP36106.
SMRiP36106. Positions 73-134, 232-365.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi34128. 18 interactions.
MINTiMINT-2493828.
STRINGi4932.YKL005C.

Proteomic databases

MaxQBiP36106.
PaxDbiP36106.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYKL005C; YKL005C; YKL005C.
GeneIDi853865.
KEGGisce:YKL005C.

Organism-specific databases

CYGDiYKL005c.
EuPathDBiFungiDB:YKL005C.
SGDiS000001488. BYE1.

Phylogenomic databases

eggNOGiNOG241623.
HOGENOMiHOG000095286.
InParanoidiP36106.
OMAiGSHNDER.
OrthoDBiEOG754HZ0.

Enzyme and pathway databases

BioCyciYEAST:G3O-31815-MONOMER.

Miscellaneous databases

NextBioi975124.
PROiP36106.

Gene expression databases

GenevestigatoriP36106.

Family and domain databases

Gene3Di1.10.472.30. 1 hit.
3.30.40.10. 1 hit.
InterProiIPR012921. SPOC_C.
IPR003618. TFIIS_cen_dom.
IPR017890. TFS2M.
IPR019786. Zinc_finger_PHD-type_CS.
IPR011011. Znf_FYVE_PHD.
IPR001965. Znf_PHD.
IPR019787. Znf_PHD-finger.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamiPF00628. PHD. 1 hit.
PF07744. SPOC. 1 hit.
PF07500. TFIIS_M. 1 hit.
[Graphical view]
SMARTiSM00249. PHD. 1 hit.
SM00510. TFS2M. 1 hit.
[Graphical view]
SUPFAMiSSF46942. SSF46942. 1 hit.
SSF57903. SSF57903. 1 hit.
PROSITEiPS51321. TFIIS_CENTRAL. 1 hit.
PS01359. ZF_PHD_1. 1 hit.
PS50016. ZF_PHD_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Complete DNA sequence of yeast chromosome XI."
    Dujon B., Alexandraki D., Andre B., Ansorge W., Baladron V., Ballesta J.P.G., Banrevi A., Bolle P.-A., Bolotin-Fukuhara M., Bossier P., Bou G., Boyer J., Buitrago M.J., Cheret G., Colleaux L., Daignan-Fornier B., del Rey F., Dion C.
    , Domdey H., Duesterhoeft A., Duesterhus S., Entian K.-D., Erfle H., Esteban P.F., Feldmann H., Fernandes L., Fobo G.M., Fritz C., Fukuhara H., Gabel C., Gaillon L., Garcia-Cantalejo J.M., Garcia-Ramirez J.J., Gent M.E., Ghazvini M., Goffeau A., Gonzalez A., Grothues D., Guerreiro P., Hegemann J.H., Hewitt N., Hilger F., Hollenberg C.P., Horaitis O., Indge K.J., Jacquier A., James C.M., Jauniaux J.-C., Jimenez A., Keuchel H., Kirchrath L., Kleine K., Koetter P., Legrain P., Liebl S., Louis E.J., Maia e Silva A., Marck C., Monnier A.-L., Moestl D., Mueller S., Obermaier B., Oliver S.G., Pallier C., Pascolo S., Pfeiffer F., Philippsen P., Planta R.J., Pohl F.M., Pohl T.M., Poehlmann R., Portetelle D., Purnelle B., Puzos V., Ramezani Rad M., Rasmussen S.W., Remacha M.A., Revuelta J.L., Richard G.-F., Rieger M., Rodrigues-Pousada C., Rose M., Rupp T., Santos M.A., Schwager C., Sensen C., Skala J., Soares H., Sor F., Stegemann J., Tettelin H., Thierry A., Tzermia M., Urrestarazu L.A., van Dyck L., van Vliet-Reedijk J.C., Valens M., Vandenbol M., Vilela C., Vissers S., von Wettstein D., Voss H., Wiemann S., Xu G., Zimmermann J., Haasemann M., Becker I., Mewes H.-W.
    Nature 369:371-378(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. "Sequence of a 7.8 kb segment on the left arm of yeast chromosome XI reveals four open reading frames, including the CAP1 gene, an intron-containing gene and a gene encoding a homolog to the mammalian UOG-1 gene."
    Boyer J., Pascolo S., Richard G.-F., Dujon B.
    Yeast 9:279-287(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 90-594.
  4. "The ESS1 prolyl isomerase and its suppressor BYE1 interact with RNA pol II to inhibit transcription elongation in Saccharomyces cerevisiae."
    Wu X., Rossettini A., Hanes S.D.
    Genetics 165:1687-1702(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DOMAINS, INTERACTION WITH RPB1.
  5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  6. "Proteome-wide analysis in Saccharomyces cerevisiae identifies several PHD fingers as novel direct and selective binding modules of histone H3 methylated at either lysine 4 or lysine 36."
    Shi X., Kachirskaia I., Walter K.L., Kuo J.-H.A., Lake A., Davrazou F., Chan S.M., Martin D.G.E., Fingerman I.M., Briggs S.D., Howe L., Utz P.J., Kutateladze T.G., Lugovskoy A.A., Bedford M.T., Gozani O.
    J. Biol. Chem. 282:2450-2455(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: DOMAIN, INTERACTION WITH H3K4ME3.
  7. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
    Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
    Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-177, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiBYE1_YEAST
AccessioniPrimary (citable) accession number: P36106
Secondary accession number(s): D6VXT2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: June 1, 1994
Last modified: May 27, 2015
This is version 115 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 892 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, 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 XI
    Yeast (Saccharomyces cerevisiae) chromosome XI: entries and gene names

External Data

Dasty 3

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 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.