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Protein

SMC5-SMC6 complex localization factor protein 2

Gene

SLF2

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Plays a role in the DNA damage response (DDR) pathway by regulating postreplication repair of UV-damaged DNA and genomic stability maintenance (PubMed:25931565). The SLF1-SLF2 complex acts to link RAD18 with the SMC5-SMC6 complex at replication-coupled interstrand cross-links (ICL) and DNA double-strand breaks (DSBs) sites on chromatin during DNA repair in response to stalled replication forks (PubMed:25931565). Promotes the recruitment of the SMC5-SMC6 complex to DNA lesions (PubMed:25931565).1 Publication

Miscellaneous

Localized in the locus associated with inherited infantile onset spinocerebellar ataxia (IOSCA). No mutation were found associated with IOSCA compared to control subjects. The expression level in the brain was not different between the 2 populations.

GO - Molecular functioni

  • protein-containing complex binding Source: UniProtKB
  • ubiquitin protein ligase binding Source: UniProtKB

GO - Biological processi

Keywordsi

Biological processDNA damage, DNA repair

Names & Taxonomyi

Protein namesi
Recommended name:
SMC5-SMC6 complex localization factor protein 2Imported
Alternative name(s):
Smc5/6 localization factor 11 Publication
Gene namesi
Name:SLF21 PublicationImported
Synonyms:C10orf6, FAM178A
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 10

Organism-specific databases

EuPathDBiHostDB:ENSG00000119906.11
HGNCiHGNC:17814 SLF2
MIMi610348 gene
neXtProtiNX_Q8IX21

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi142Y → A in APIMmut; does not affect subcellular location. 1 Publication1

Organism-specific databases

OpenTargetsiENSG00000119906
PharmGKBiPA162387411

Polymorphism and mutation databases

BioMutaiFAM178A
DMDMi73620064

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000897781 – 1173SMC5-SMC6 complex localization factor protein 2Add BLAST1173

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei481PhosphoserineCombined sources1
Modified residuei603PhosphoserineCombined sources1
Modified residuei607PhosphoserineCombined sources1
Modified residuei614PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ8IX21
MaxQBiQ8IX21
PaxDbiQ8IX21
PeptideAtlasiQ8IX21
PRIDEiQ8IX21
ProteomicsDBi70968

PTM databases

iPTMnetiQ8IX21
PhosphoSitePlusiQ8IX21

Expressioni

Tissue specificityi

Widely expressed (PubMed:12459258). Expressed at higher level in skeletal muscle and at slightly lower level in brain, liver and heart, than in lung, kidney, spleen and thymus (PubMed:12459258).1 Publication

Gene expression databases

BgeeiENSG00000119906 Expressed in 227 organ(s), highest expression level in adrenal tissue
CleanExiHS_FAM178A
ExpressionAtlasiQ8IX21 baseline and differential
GenevisibleiQ8IX21 HS

Organism-specific databases

HPAiHPA038499
HPA057568

Interactioni

Subunit structurei

Interacts with SLF1 (via N-terminus); this interaction links RAD18 to the SMC5-SMC6 complex (PubMed:25931565). Interacts with RAD18; this interaction is increased in a SLF1-dependent manner (PubMed:25931565). Interacts with SMC5 and SMC6 (PubMed:25931565).1 Publication

GO - Molecular functioni

Protein-protein interaction databases

BioGridi120841, 10 interactors
IntActiQ8IX21, 15 interactors
MINTiQ8IX21
STRINGi9606.ENSP00000359292

Structurei

3D structure databases

ProteinModelPortaliQ8IX21
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi137 – 149APIM motifAdd BLAST13

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi616 – 619Poly-Glu4

Sequence similaritiesi

Belongs to the FAM178 family.Curated

Phylogenomic databases

eggNOGiENOG410IGA2 Eukaryota
ENOG410YMV9 LUCA
GeneTreeiENSGT00530000064017
HOGENOMiHOG000049051
HOVERGENiHBG059392
InParanoidiQ8IX21
OrthoDBiEOG091G01IC
PhylomeDBiQ8IX21
TreeFamiTF332216

Family and domain databases

InterProiView protein in InterPro
IPR026161 FAM178
PANTHERiPTHR16046 PTHR16046, 1 hit
PfamiView protein in Pfam
PF14816 FAM178, 1 hit

Sequences (3+)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 3 described isoforms and 1 potential isoform that is computationally mapped.Show allAlign All

Isoform 1 (identifier: Q8IX21-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MTRRCMPARP GFPSSPAPGS SPPRCHLRPG STAHAAAGKR TESPGDRKQS
60 70 80 90 100
IIDFFKPASK QDRHMLDSPQ KSNIKYGGSR LSITGTEQFE RKLSSPKESK
110 120 130 140 150
PKRVPPEKSP IIEAFMKGVK EHHEDHGIHE SRRPCLSLAS KYLAKGTNIY
160 170 180 190 200
VPSSYHLPKE MKSLKKKHRS PERRKSLFIH ENNEKNDRDR GKTNADSKKQ
210 220 230 240 250
TTVAEADIFN NSSRSLSSRS SLSRHHPEES PLGAKFQLSL ASYCRERELK
260 270 280 290 300
RLRKEQMEQR INSENSFSEA SSLSLKSSIE RKYKPRQEQR KQNDIIPGKN
310 320 330 340 350
NLSNVENGHL SRKRSSSDSW EPTSAGSKQN KFPEKRKRNS VDSDLKSTRE
360 370 380 390 400
SMIPKARESF LEKRPDGPHQ KEKFIKHIAL KTPGDVLRLE DISKEPSDET
410 420 430 440 450
DGSSAGLAPS NSGNSGHHST RNSDQIQVAG TKETKMQKPH LPLSQEKSAI
460 470 480 490 500
KKASNLQKNK TASSTTKEKE TKLPLLSRVP SAGSSLVPLN AKNCALPVSK
510 520 530 540 550
KDKERSSSKE CSGHSTESTK HKEHKAKTNK ADSNVSSGKI SGGPLRSEYG
560 570 580 590 600
TPTKSPPAAL EVVPCIPSPA APSDKAPSEG ESSGNSNAGS SALKRKLRGD
610 620 630 640 650
FDSDEESLGY NLDSDEEEET LKSLEEIMAL NFNQTPAATG KPPALSKGLR
660 670 680 690 700
SQSSDYTGHV HPGTYTNTLE RLVKEMEDTQ RLDELQKQLQ EDIRQGRGIK
710 720 730 740 750
SPIRIGEEDS TDDEDGLLEE HKEFLKKFSV TIDAIPDHHP GEEIFNFLNS
760 770 780 790 800
GKIFNQYTLD LRDSGFIGQS AVEKLILKSG KTDQIFLTTQ GFLTSAYHYV
810 820 830 840 850
QCPVPVLKWL FRMMSVHTDC IVSVQILSTL MEITIRNDTF SDSPVWPWIP
860 870 880 890 900
SLSDVAAVFF NMGIDFRSLF PLENLQPDFN EDYLVSETQT TSRGKESEDS
910 920 930 940 950
SYKPIFSTLP ETNILNVVKF LGLCTSIHPE GYQDREIMLL ILMLFKMSLE
960 970 980 990 1000
KQLKQIPLVD FQSLLINLMK NIRDWNTKVP ELCLGINELS SHPHNLLWLV
1010 1020 1030 1040 1050
QLVPNWTSRG RQLRQCLSLV IISKLLDEKH EDVPNASNLQ VSVLHRYLVQ
1060 1070 1080 1090 1100
MKPSDLLKKM VLKKKAEQPD GIIDDSLHLE LEKQAYYLTY ILLHLVGEVS
1110 1120 1130 1140 1150
CSHSFSSGQR KHFVLLCGAL EKHVKCDIRE DARLFYRTKV KDLVARIHGK
1160 1170
WQEIIQNCRP TQGQLHDFWV PDS
Length:1,173
Mass (Da):131,873
Last modified:August 16, 2005 - v2
Checksum:i0A9FB5662185A633
GO
Isoform 2 (identifier: Q8IX21-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1163-1173: GQLHDFWVPDS → VSFCYTISCILNSFAEWHSSYCLK

Note: No experimental confirmation available.
Show »
Length:1,186
Mass (Da):133,375
Checksum:i0D1127DB71F14835
GO
Isoform 3 (identifier: Q8IX21-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     48-63: KQSIIDFFKPASKQDR → YRAEGLRRGRVAGARV
     64-1173: Missing.

Note: No experimental confirmation available.
Show »
Length:63
Mass (Da):6,668
Checksum:i34461A1E4201A7BF
GO

Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
B1AL16B1AL16_HUMAN
SMC5-SMC6 complex localization fact...
SLF2
758Annotation score:

Sequence cautioni

The sequence BAA91657 differs from that shown. Reason: Erroneous initiation.Curated

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_023112541S → Y1 PublicationCorresponds to variant dbSNP:rs10883563Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_05491448 – 63KQSII…SKQDR → YRAEGLRRGRVAGARV in isoform 3. 1 PublicationAdd BLAST16
Alternative sequenceiVSP_05491564 – 1173Missing in isoform 3. 1 PublicationAdd BLAST1110
Alternative sequenceiVSP_0456211163 – 1173GQLHDFWVPDS → VSFCYTISCILNSFAEWHSS YCLK in isoform 2. 1 PublicationAdd BLAST11

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF460991 mRNA Translation: AAN84475.1
AK001374 mRNA Translation: BAA91657.1 Different initiation.
AK292565 mRNA Translation: BAF85254.1
AL138762 Genomic DNA No translation available.
AL133215 Genomic DNA No translation available.
BC030565 mRNA No translation available.
BC073832 mRNA Translation: AAH73832.1
CCDSiCCDS44470.1 [Q8IX21-2]
CCDS65918.1 [Q8IX21-3]
CCDS7500.1 [Q8IX21-1]
RefSeqiNP_001129595.1, NM_001136123.1 [Q8IX21-2]
NP_001230699.1, NM_001243770.1 [Q8IX21-3]
NP_060591.3, NM_018121.3 [Q8IX21-1]
UniGeneiHs.447458
Hs.732620

Genome annotation databases

EnsembliENST00000238961; ENSP00000238961; ENSG00000119906 [Q8IX21-1]
ENST00000370269; ENSP00000359292; ENSG00000119906 [Q8IX21-2]
ENST00000609386; ENSP00000476379; ENSG00000119906 [Q8IX21-3]
GeneIDi55719
KEGGihsa:55719
UCSCiuc001krq.5 human [Q8IX21-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF460991 mRNA Translation: AAN84475.1
AK001374 mRNA Translation: BAA91657.1 Different initiation.
AK292565 mRNA Translation: BAF85254.1
AL138762 Genomic DNA No translation available.
AL133215 Genomic DNA No translation available.
BC030565 mRNA No translation available.
BC073832 mRNA Translation: AAH73832.1
CCDSiCCDS44470.1 [Q8IX21-2]
CCDS65918.1 [Q8IX21-3]
CCDS7500.1 [Q8IX21-1]
RefSeqiNP_001129595.1, NM_001136123.1 [Q8IX21-2]
NP_001230699.1, NM_001243770.1 [Q8IX21-3]
NP_060591.3, NM_018121.3 [Q8IX21-1]
UniGeneiHs.447458
Hs.732620

3D structure databases

ProteinModelPortaliQ8IX21
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi120841, 10 interactors
IntActiQ8IX21, 15 interactors
MINTiQ8IX21
STRINGi9606.ENSP00000359292

PTM databases

iPTMnetiQ8IX21
PhosphoSitePlusiQ8IX21

Polymorphism and mutation databases

BioMutaiFAM178A
DMDMi73620064

Proteomic databases

EPDiQ8IX21
MaxQBiQ8IX21
PaxDbiQ8IX21
PeptideAtlasiQ8IX21
PRIDEiQ8IX21
ProteomicsDBi70968

Protocols and materials databases

DNASUi55719
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000238961; ENSP00000238961; ENSG00000119906 [Q8IX21-1]
ENST00000370269; ENSP00000359292; ENSG00000119906 [Q8IX21-2]
ENST00000609386; ENSP00000476379; ENSG00000119906 [Q8IX21-3]
GeneIDi55719
KEGGihsa:55719
UCSCiuc001krq.5 human [Q8IX21-1]

Organism-specific databases

CTDi55719
EuPathDBiHostDB:ENSG00000119906.11
GeneCardsiSLF2
H-InvDBiHIX0009128
HIX0190519
HGNCiHGNC:17814 SLF2
HPAiHPA038499
HPA057568
MIMi610348 gene
neXtProtiNX_Q8IX21
OpenTargetsiENSG00000119906
PharmGKBiPA162387411
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IGA2 Eukaryota
ENOG410YMV9 LUCA
GeneTreeiENSGT00530000064017
HOGENOMiHOG000049051
HOVERGENiHBG059392
InParanoidiQ8IX21
OrthoDBiEOG091G01IC
PhylomeDBiQ8IX21
TreeFamiTF332216

Miscellaneous databases

ChiTaRSiSLF2 human
GenomeRNAii55719
PROiPR:Q8IX21
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000119906 Expressed in 227 organ(s), highest expression level in adrenal tissue
CleanExiHS_FAM178A
ExpressionAtlasiQ8IX21 baseline and differential
GenevisibleiQ8IX21 HS

Family and domain databases

InterProiView protein in InterPro
IPR026161 FAM178
PANTHERiPTHR16046 PTHR16046, 1 hit
PfamiView protein in Pfam
PF14816 FAM178, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSLF2_HUMAN
AccessioniPrimary (citable) accession number: Q8IX21
Secondary accession number(s): A8K950
, B1AL17, Q5W0L8, Q6GMU6, Q9NPE8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 16, 2005
Last sequence update: August 16, 2005
Last modified: September 12, 2018
This is version 115 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 10
    Human chromosome 10: entries, gene names and cross-references to MIM
  2. SIMILARITY comments
    Index of protein domains and families
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
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