P38324 (SLX1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Structure-specific endonuclease subunit SLX1
EC=3.6.1.-

Alternative name(s):
Synthetic lethal of unknown function protein 1

Gene names

Name:	SLX1
Ordered Locus Names:	YBR228W
ORF Names:	YBR1525

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	304 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Catalytic subunit of the SLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA. Has a preference for simple Y, 5'-flap and replication fork-like structures. It cleaves the strand bearing the 5'-non-homologous arm at the branch site junction and generates ligatable, nicked products from the 5'-flap or replication fork substrates. Plays a critical role in maintaining the integrity of the ribosomal DNA (rDNA) loci, where it has a role in re-starting stalled replication forks. Has Holliday junction resolvase activity in vitro. Ref.3 Ref.4
Cofactor	Divalent cation By similarity.
Subunit structure	Forms a heterodimer with SLX4.
Subcellular location	Nucleus Ref.4.
Sequence similarities	Belongs to the SLX1 family. Contains 1 GIY-YIG domain. Contains 1 SLX1-type zinc finger.

Ontologies

Keywords
Biological process	DNA damage DNA recombination DNA repair
Cellular component	Nucleus
Domain	Zinc-finger
Ligand	Metal-binding Zinc
Molecular function	Endonuclease Hydrolase Nuclease
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	DNA recombination Inferred from electronic annotation. Source: UniProtKB-KW DNA repair Inferred from electronic annotation. Source: UniProtKB-KW DNA-dependent DNA replication Inferred from genetic interaction Ref.4. Source: SGD
Cellular component	Slx1-Slx4 complex Inferred from physical interaction Ref.4. Source: SGD
Molecular function	5'-flap endonuclease activity Inferred from direct assay Ref.4. Source: SGD metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from physical interaction Ref.3. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
SLX4	Q12098	4	EBI-21016,EBI-37788

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 304	304	Structure-specific endonuclease subunit SLX1		PRO_0000202517
Regions
	Domain	13 – 98	86	GIY-YIG
	Zinc finger	218 – 282	65	SLX1-type

Sequences

	Sequence		Length	Mass (Da)
	P38324 [UniParc]. Last modified October 1, 1994. Version 1. Checksum: 4C676E877FDF7A7A	FASTA	304	35,857
	10 20 30 40 50 60 MSQKIQQHQF PDFYCCYLLQ SINKRQSFYV GSTPNPVRRL RQHNGKLAVG GAYRTKRDGS 70 80 90 100 110 120 RPWEMIMIVR GFPSKIAALQ FEHAWQHGYQ THYIAEKDRV VKHKAGGRTL HHKVALMKLL 130 140 150 160 170 180 LKHEFFQRMN LIVEVFNIKA WEVWKQDKFF IERDRFPINI QINENALEEP KEKTVDVLMD 190 200 210 220 230 240 HSDENLKVVE AVYTKVIENE RNIFETFEKK LTTGVVRCEI CEKEIDYTSE EQNLKPFVAL 250 260 270 280 290 300 CNNKDCGCVN HLKCLHRYFL DDEQLMVGRR NLIPRGGKCP KCDMFCDWTT LVKFSTRMKL AHGK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete DNA sequence of yeast chromosome II." Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C. , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K. EMBO J. 13:5795-5809(1994) [PubMed: 7813418] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[3]	"Requirement for three novel protein complexes in the absence of the Sgs1 DNA helicase in Saccharomyces cerevisiae." Mullen J.R., Kaliraman V., Ibrahim S.S., Brill S.J. Genetics 157:103-118(2001) [PubMed: 11139495] [Abstract] Cited for: FUNCTION, INTERACTION WITH SLX4.
[4]	"Slx1-Slx4 is a second structure-specific endonuclease functionally redundant with Sgs1-Top3." Fricke W.M., Brill S.J. Genes Dev. 17:1768-1778(2003) [PubMed: 12832395] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	Z36097 Genomic DNA. Translation: CAA85191.1. BK006936 Genomic DNA. Translation: DAA07343.1.
PIR	S46104.
RefSeq	NP_009787.1. NM_001178576.1.
3D structure databases
ProteinModelPortal	P38324.
SMR	P38324. Positions 11-95.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-1770N.
IntAct	P38324. 3 interactions.
MINT	MINT-402886.
STRING	P38324.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YBR228W; YBR228W; YBR228W.
GeneID	852529.
KEGG	sce:YBR228W.
NMPDR	fig|4932.3.peg.500.
Organism-specific databases
CYGD	YBR228w.
SGD	S000000432. SLX1.
Phylogenomic databases
eggNOG	fuNOG08495.
GeneTree	EFGT00050000005746.
HOGENOM	HBG397296.
OMA	AYRTKRD.
OrthoDB	EOG46DQCD.
Gene expression databases
ArrayExpress	P38324.
Genevestigator	P38324.
GermOnline	YBR228W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR000305. UvrC_N. [Graphical view]
KO	K15078.
Pfam	PF01541. GIY-YIG. 1 hit. [Graphical view]
SMART	SM00465. GIYc. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	971577.

Entry information

Entry name

SLX1_YEAST

Accession

Primary (citable) accession number: P38324
Secondary accession number(s): D6VQM3

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1994
Last sequence update:	October 1, 1994
Last modified:	December 14, 2011
This is version 81 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program