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Protein

Structure-specific endonuclease subunit SLX1

Gene

Slx1b

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

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 5'-flap structures, and promotes symmetrical cleavage of static and migrating Holliday junctions (HJs). Resolves HJs by generating two pairs of ligatable, nicked duplex products.UniRule annotation

Cofactori

a divalent metal cationUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri182 – 23453SLX1-typeUniRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Endonuclease, Hydrolase, Nuclease

Keywords - Biological processi

DNA damage, DNA recombination, DNA repair

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-RNO-5693568. Resolution of D-loop Structures through Holliday Junction Intermediates.
R-RNO-6783310. Fanconi Anemia Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Structure-specific endonuclease subunit SLX1UniRule annotation (EC:3.1.-.-UniRule annotation)
Alternative name(s):
GIY-YIG domain-containing protein 1UniRule annotation
Gene namesi
Name:Slx1b
Synonyms:Giyd1, Giyd2, Slx1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 1

Organism-specific databases

RGDi1311568. Slx1b.

Subcellular locationi

  • Nucleus UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 271271Structure-specific endonuclease subunit SLX1PRO_0000332122Add
BLAST

Proteomic databases

PaxDbiQ5PQP5.

Expressioni

Gene expression databases

ExpressionAtlasiQ5PQP5. baseline and differential.
GenevisibleiQ5PQP5. RN.

Interactioni

Subunit structurei

Forms a heterodimer with SLX4.UniRule annotation

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000026231.

Structurei

3D structure databases

ProteinModelPortaliQ5PQP5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini9 – 9486GIY-YIGUniRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the SLX1 family.UniRule annotation
Contains 1 GIY-YIG domain.UniRule annotation
Contains 1 SLX1-type zinc finger.UniRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri182 – 23453SLX1-typeUniRule annotationAdd
BLAST

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG3005. Eukaryota.
ENOG411266C. LUCA.
GeneTreeiENSGT00390000013368.
HOGENOMiHOG000008012.
InParanoidiQ5PQP5.
KOiK15078.
OMAiGRIYIGF.
OrthoDBiEOG7KM5T6.
PhylomeDBiQ5PQP5.
TreeFamiTF352344.

Family and domain databases

HAMAPiMF_03100. Endonuc_su_Slx1.
InterProiIPR000305. GIY-YIG_SF.
IPR027520. Slx1.
[Graphical view]
PfamiPF01541. GIY-YIG. 1 hit.
[Graphical view]
SMARTiSM00465. GIYc. 1 hit.
[Graphical view]
SUPFAMiSSF82771. SSF82771. 1 hit.
PROSITEiPS50164. GIY_YIG. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5PQP5-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGHAARPGRF FGVYLLYCQN PRHRGRVYVG FTVNPARRVR QHNAGRKKGG
60 70 80 90 100
AWRTSGRGPW DMVLILHGFP SAVAALRFEW AWQHPQASRR LTHVGPRLRS
110 120 130 140 150
EASFTFHLRV LAHMLRVPPW VRLPLTVRWL RPDFRHELCP APPPHMPIAF
160 170 180 190 200
GPPPPQPLVP KRPAASEADS ERRLDLGAKA SCTLCARMLQ DEEGPLCCPH
210 220 230 240 250
PGCPLRAHII CLAEEFLQEE PGQLLPLEGH CPSCKKSLLW GNLVGQCHED
260 270
TEEEEVDLEL EEEHWTDLLE T
Length:271
Mass (Da):30,746
Last modified:January 4, 2005 - v1
Checksum:iA6B6F5BB87969433
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC087090 mRNA. Translation: AAH87090.1.
RefSeqiNP_001009292.1. NM_001009292.1.
UniGeneiRn.30339.

Genome annotation databases

EnsembliENSRNOT00000026231; ENSRNOP00000026231; ENSRNOG00000019369.
GeneIDi293489.
KEGGirno:293489.
UCSCiRGD:1311568. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC087090 mRNA. Translation: AAH87090.1.
RefSeqiNP_001009292.1. NM_001009292.1.
UniGeneiRn.30339.

3D structure databases

ProteinModelPortaliQ5PQP5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000026231.

Proteomic databases

PaxDbiQ5PQP5.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000026231; ENSRNOP00000026231; ENSRNOG00000019369.
GeneIDi293489.
KEGGirno:293489.
UCSCiRGD:1311568. rat.

Organism-specific databases

CTDi79008.
RGDi1311568. Slx1b.

Phylogenomic databases

eggNOGiKOG3005. Eukaryota.
ENOG411266C. LUCA.
GeneTreeiENSGT00390000013368.
HOGENOMiHOG000008012.
InParanoidiQ5PQP5.
KOiK15078.
OMAiGRIYIGF.
OrthoDBiEOG7KM5T6.
PhylomeDBiQ5PQP5.
TreeFamiTF352344.

Enzyme and pathway databases

ReactomeiR-RNO-5693568. Resolution of D-loop Structures through Holliday Junction Intermediates.
R-RNO-6783310. Fanconi Anemia Pathway.

Miscellaneous databases

NextBioi636218.
PROiQ5PQP5.

Gene expression databases

ExpressionAtlasiQ5PQP5. baseline and differential.
GenevisibleiQ5PQP5. RN.

Family and domain databases

HAMAPiMF_03100. Endonuc_su_Slx1.
InterProiIPR000305. GIY-YIG_SF.
IPR027520. Slx1.
[Graphical view]
PfamiPF01541. GIY-YIG. 1 hit.
[Graphical view]
SMARTiSM00465. GIYc. 1 hit.
[Graphical view]
SUPFAMiSSF82771. SSF82771. 1 hit.
PROSITEiPS50164. GIY_YIG. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Heart.

Entry informationi

Entry nameiSLX1_RAT
AccessioniPrimary (citable) accession number: Q5PQP5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 29, 2008
Last sequence update: January 4, 2005
Last modified: May 11, 2016
This is version 75 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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.