P32591 (SWI3_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
SWI/SNF complex subunit SWI3

Alternative name(s):
Transcription factor TYE2
Transcription regulatory protein SWI3

Gene names

Name:	SWI3
Synonyms:	TYE2
Ordered Locus Names:	YJL176C
ORF Names:	J0495

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	825 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Involved in transcriptional activation. Component of the SWI/SNF complex, an ATP-dependent chromatin-remodeling complex, which is required for the positive and negative regulation of gene expression of a large number of genes. It changes chromatin structure by altering DNA-histone contacts within a nucleosome, leading eventually to a change in nucleosome position, thus facilitating or repressing binding of gene-specific transcription factors.
Subunit structure	Interacts with RTT102, SWP82 and the N-terminus of SNF2. Component of the SWI/SNF global transcription activator complex. The 1.14 MDa SWI/SNF complex is composed of 11 different subunits: one copy each of SWI1, SNF2/SWI2, SNF5, SNF12/SWP73, ARP7/SWP61, ARP9/SWP59; two copies each of SWI3, SNF6, SNF11, SWP82; and three copies of TAF14/SWP29. Ref.9 Ref.10
Subcellular location	Nucleus.
Miscellaneous	Present with 3150 molecules/cell in log phase SD medium. Ref.5
Sequence similarities	Contains 1 SANT domain. Contains 1 SWIRM domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Ligand	DNA-binding
Molecular function	Activator
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	ATP-dependent chromatin remodeling Inferred from direct assay. Source: SGD nucleosome mobilization Inferred from direct assay. Source: SGD positive regulation of transcription, DNA-dependent Inferred from direct assay. Source: SGD transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	SWI/SNF complex Inferred from direct assay. Source: SGD
Molecular function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from physical interaction Ref.10. Source: UniProtKB
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
RTT102	P53330	2	EBI-18622,EBI-23637
SNF2	P22082	6	EBI-18622,EBI-17526
SNF6	P18888	5	EBI-18622,EBI-17550

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 825

825

SWI/SNF complex subunit SWI3

PRO_0000197123

Regions

Domain

305 – 402

98

SWIRM

Domain

522 – 573

52

SANT

Domain

694 – 722

29

Leucine-zipper

Compositional bias

1 – 304

304

Asp/Glu-rich (acidic)

Amino acid modifications

Modified residue

88

1

Phosphoserine Ref.6 Ref.7

Modified residue

91

1

Phosphothreonine Ref.7

Modified residue

185

1

Phosphoserine Ref.7

Modified residue

231

1

Phosphoserine Ref.6 Ref.7

Modified residue

235

1

Phosphothreonine Ref.6

Modified residue

657

1

Phosphoserine Ref.7

Experimental info

Mutagenesis

374

1

D → A: Loss of DNA-binding. Ref.11

Mutagenesis

383

1

K → D: Loss of DNA-binding; when associated with D-387. Ref.11

Mutagenesis

387

1

K → D: Loss of DNA-binding; when associated with D-383. Ref.11

Mutagenesis

392

1

N → A: Loss of DNA-binding. Ref.11

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

825

Helix Strand Turn

Details...

Helix

321 – 326

6

Helix

328 – 330

3

Helix

340 – 356

17

Helix

364 – 370

7

Helix

375 – 387

13

Beta strand

390 – 393

4

Sequences

	Sequence		Length	Mass (Da)
	P32591 [UniParc]. Last modified October 1, 1993. Version 1. Checksum: DBA2E2022F15F9A6	FASTA	825	92,926
	10 20 30 40 50 60 MENTLGEGST VNASVDVDQH GNDNNSDSNA NAAVAGVANT DTAGEESQQQ DESLKDEATV 70 80 90 100 110 120 PNTRDAESEA ITVTAKQQPT MQANKLDSQE TPSTEESRAQ NVFGQDNEDS DNLFGETESS 130 140 150 160 170 180 VSNNEANTPS IPTNPVDNEN NKPAIKEDST IQDSNGDVKN MEDVKIQKEE EPENNTVIEG 190 200 210 220 230 240 VKEESQPDEN TKEMDEVEED DEDDDQPMIS PDNSIFGDTK SESKQLGNTS SVANTPSEIP 250 260 270 280 290 300 DAHKAEQEDI IEKTESVDKK VDSGEERNEQ EREIMNDHSK SANPKKTTIT RVEPETFEIP 310 320 330 340 350 360 QAHEIVIPSY SKWFNLEKIH SIEVQSLPEF FTNRIPSKTP EVYMRYRNFM VNSYRLNPNE 370 380 390 400 410 420 YFSVTTARRN VSGDAAALFR LHKFLTKWGL INYQVDSKLL PKNIEPPLTS QYSTRHDAPR 430 440 450 460 470 480 GLFPFESYKP SVQLPDMAKL KKMMNTSDSE STLYKYLKES KRKYDEITHP PSTTDDENGD 490 500 510 520 530 540 KNDNGGKMNN EVSTSTSMTG DANLLEEGET SRPLKKVKIL EQIDENWSKE DLQKLLKGIQ 550 560 570 580 590 600 EFGADWYKVA KNVGNKSPEQ CILRFLQLPI EDKFLYGDGN GKGDNDNGLG PLKYAPHLPF 610 620 630 640 650 660 SKSENPVLST IAFLVGLVNP KTVQSMTQRA IQSAESIKSQ KEEISDQKPI EHIKEGSEIA 670 680 690 700 710 720 ISSLGYRSHI FATNEERQMN FLTNELIRLQ MEKLDAKLNH LKKLEKFMEL ERKTLERQQE 730 740 750 760 770 780 NLLIQRLNFN QNSSKIVNVL SKCLNLISDS NINNSSVAEK EEIRSQIDHF KSMLSKPETL 790 800 810 820 SIGKNPFNKP NIETGENHNG QSISNENDVK PISIEAPQFY RYWSA

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Characterization of the yeast SWI1, SWI2, and SWI3 genes, which encode a global activator of transcription." Peterson C.L., Herskowitz I. Cell 68:573-583(1992) [PubMed: 1339306] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Isolation of the TYE2 gene reveals its identity to SWI3 encoding a general transcription factor in Saccharomyces cerevisiae." Loehning C., Rosenbaum C., Ciriacy M. Curr. Genet. 24:193-199(1993) [PubMed: 8221926] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[3]	"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X." Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K. , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L. EMBO J. 15:2031-2049(1996) [PubMed: 8641269] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[4]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[5]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[6]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed: 17563356] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-88; SER-231 AND THR-235, MASS SPECTROMETRY.
[7]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-88; THR-91; SER-185; SER-231 AND SER-657, MASS SPECTROMETRY.
[8]	"Structural analysis of the yeast SWI/SNF chromatin remodeling complex." Smith C.L., Horowitz-Scherer R., Flanagan J.F., Woodcock C.L., Peterson C.L. Nat. Struct. Biol. 10:141-145(2003) [PubMed: 12524530] [Abstract] Cited for: 3D-STRUCTURE MODELING OF THE SWI/SNF COMPLEX, ELECTRON MICROSCOPY OF THE SWI/SNF COMPLEX.
[9]	"Proteomic analysis of chromatin-modifying complexes in Saccharomyces cerevisiae identifies novel subunits." Lee K.K., Prochasson P., Florens L., Swanson S.K., Washburn M.P., Workman J.L. Biochem. Soc. Trans. 32:899-903(2004) [PubMed: 15506919] [Abstract] Cited for: INTERACTION WITH RTT102.
[10]	"The RSC chromatin remodeling complex bears an essential fungal-specific protein module with broad functional roles." Wilson B., Erdjument-Bromage H., Tempst P., Cairns B.R. Genetics 172:795-809(2006) [PubMed: 16204215] [Abstract] Cited for: INTERACTION WITH SWP82.
[11]	"Structure and function of the SWIRM domain, a conserved protein module found in chromatin regulatory complexes." Da G., Lenkart J., Zhao K., Shiekhattar R., Cairns B.R., Marmorstein R. Proc. Natl. Acad. Sci. U.S.A. 103:2057-2062(2006) [PubMed: 16461455] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.4 ANGSTROMS) OF 311-395, MUTAGENESIS OF ASP-374; LYS-383; LYS-387 AND ASN-392.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

M84390 Genomic DNA. Translation: AAA35136.1.
X56792 Genomic DNA. Translation: CAA40112.1.
Z49451 Genomic DNA. Translation: CAA89470.1.
BK006943 Genomic DNA. Translation: DAA08629.1.

PIR

S26706.

RefSeq

NP_012359.1. NM_001181609.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2FQ3	X-ray	1.40	A	309-398	[»]

ProteinModelPortal

P32591.

SMR

P32591. Positions 311-395, 522-578.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-2471N.

IntAct

P32591. 45 interactions.

MINT

MINT-563159.

STRING

P32591.

Proteomic databases

PeptideAtlas

P32591.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YJL176C; YJL176C; YJL176C.

GeneID

853264.

KEGG

sce:YJL176C.

NMPDR

fig|4932.3.peg.3323.

Organism-specific databases

CYGD

YJL176c.

SGD

S000003712. SWI3.

Phylogenomic databases

eggNOG

fuNOG05762.

GeneTree

EFGT00050000001390.

HOGENOM

HBG202280.

OrthoDB

EOG4PZNGG.

Gene expression databases

ArrayExpress

P32591.

Genevestigator

P32591.

GermOnline

YJL176C. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR009057. Homeodomain-like.
IPR012287. Homeodomain-rel.
IPR014778. Myb_DNA-bd.
IPR001005. SANT_DNA-bd.
IPR017884. SANT_eukarya.
IPR007526. SWIRM.
IPR011991. WHTH_trsnscrt_rep_DNA-bd.
[Graphical view]

Gene3D

G3DSA:1.10.10.60. Homeodomain-rel. 1 hit.
G3DSA:1.10.10.10. Wing_hlx_DNA_bd. 1 hit.

KO

K11772.

Pfam

PF00249. Myb_DNA-binding. 1 hit.
PF04433. SWIRM. 1 hit.
[Graphical view]

SMART

SM00717. SANT. 1 hit.
[Graphical view]

SUPFAM

SSF46689. Homeodomain_like. 2 hits.

PROSITE

PS51293. SANT. 1 hit.
PS50934. SWIRM. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

NextBio

973526.

Entry information

Entry name

SWI3_YEAST

Accession

Primary (citable) accession number: P32591
Secondary accession number(s): D6VW13

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1993
Last sequence update:	October 1, 1993
Last modified:	December 14, 2011
This is version 110 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program