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Protein

SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1

Gene

Smarcal1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

ATP-dependent annealing helicase that binds selectively to fork DNA relative to ssDNA or dsDNA and catalyzes the rewinding of the stably unwound DNA. Rewinds single-stranded DNA bubbles that are stably bound by replication protein A (RPA). Acts throughout the genome to reanneal stably unwound DNA, performing the opposite reaction of many enzymes, such as helicases and polymerases, that unwind DNA. May play an important role in DNA damage response by acting at stalled replication forks (By similarity).By similarity

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi417 – 424ATPPROSITE-ProRule annotation8

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1 (EC:3.6.4.-)
Alternative name(s):
HepA-related protein
Short name:
mharp
Sucrose nonfermenting protein 2-like 1
Gene namesi
Name:Smarcal1
Synonyms:Harp
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 1

Organism-specific databases

MGIiMGI:1859183. Smarcal1.

Subcellular locationi

  • Nucleus By similarity

  • Note: Recruited to damaged DNA regions.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00000743492 – 910SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1Add BLAST909

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylserineBy similarity1
Modified residuei118PhosphoserineBy similarity1
Modified residuei165PhosphoserineBy similarity1

Post-translational modificationi

DNA damage-regulated phosphorylation by kinases that may include ATM, ATR and PRKDC.By similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ8BJL0.
PeptideAtlasiQ8BJL0.
PRIDEiQ8BJL0.

PTM databases

iPTMnetiQ8BJL0.
PhosphoSitePlusiQ8BJL0.

Expressioni

Tissue specificityi

Ubiquitously expressed, with high levels in brain, heart, kidney, liver and testis.1 Publication

Gene expression databases

BgeeiENSMUSG00000039354.
ExpressionAtlasiQ8BJL0. baseline and differential.
GenevisibleiQ8BJL0. MM.

Interactioni

Subunit structurei

Interacts with RPA2; the interaction is direct and mediates the recruitment by the RPA complex of SMARCAL1 to sites of DNA damage.By similarity

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000047589.

Structurei

Secondary structure

1910
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi203 – 210Combined sources8
Beta strandi213 – 218Combined sources6
Helixi222 – 230Combined sources9
Beta strandi235 – 237Combined sources3
Turni238 – 241Combined sources4
Beta strandi242 – 246Combined sources5
Helixi247 – 249Combined sources3
Helixi250 – 257Combined sources8
Beta strandi263 – 266Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4O66X-ray1.90A/B/C/D197-268[»]
ProteinModelPortaliQ8BJL0.
SMRiQ8BJL0.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini199 – 269HARP 1PROSITE-ProRule annotationAdd BLAST71
Domaini286 – 357HARP 2PROSITE-ProRule annotationAdd BLAST72
Domaini404 – 559Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST156
Domaini674 – 827Helicase C-terminalPROSITE-ProRule annotationAdd BLAST154

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni2 – 29Mediates interaction with RPA2By similarityAdd BLAST28

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili3 – 34Sequence analysisAdd BLAST32

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi508 – 511DESH box4

Sequence similaritiesi

Belongs to the SNF2/RAD54 helicase family. SMARCAL1 subfamily.PROSITE-ProRule annotation
Contains 2 HARP domains.PROSITE-ProRule annotation
Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil, Repeat

Phylogenomic databases

eggNOGiKOG1000. Eukaryota.
COG0553. LUCA.
GeneTreeiENSGT00860000133750.
HOVERGENiHBG054110.
InParanoidiQ8BJL0.
KOiK14440.
OMAiEREDLCQ.
OrthoDBiEOG091G0A1B.
PhylomeDBiQ8BJL0.
TreeFamiTF106474.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR010003. HARP_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000330. SNF2_N.
[Graphical view]
PfamiPF07443. HARP. 2 hits.
PF00271. Helicase_C. 1 hit.
PF00176. SNF2_N. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 3 hits.
PROSITEiPS51467. HARP. 2 hits.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8BJL0-1) [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
MSLPLTEEQR KKIEENRQKA LARRAEKLSE QPQSAASGSS AAGPSQSKQG
60 70 80 90 100
SLLNLLAEPS KPVGHASIFK QQNLSNSFPT DQRPHSSRCS QPSPAEETTG
110 120 130 140 150
LWKTQGEMST ACPKPNPSPP GASNQPLLGY KSSEGQPQAT WDTGASSSGP
160 170 180 190 200
FPRDPELEAK AARPSTSRQS ISDSFYVLGG KTPRTEGRPP NILQTTPQNT
210 220 230 240 250
GFLRGACIKT GDRFRVKIGY NQELIAVFKS LPSRHYDSFT KTWDFSMSDY
260 270 280 290 300
RALMKAVERL STVSLKPLDE AGGSVGGQTS LPSAPSLTFV TGKCMLISRV
310 320 330 340 350
RFEVDIGYSE AVIGLFKQME SRSYDIKTRK WSFLLEEHNK LIARSRELKQ
360 370 380 390 400
VQLDPLPKTV TLAFASQLEK TSPKLKADVP EADLSGVDAK LVSSLMPFQR
410 420 430 440 450
EGVSFAISKR GRLLLADDMG LGKTVQAICI AAFYRKEWPL LVVVPSSVRF
460 470 480 490 500
TWEQAFLRWL PSLSPENINV VVTGKGRLTA GLVNIVSFDL LCKLERQLKT
510 520 530 540 550
PFKVVIIDES HFLKNIKTAR CRAAVPILKV AKRVILLSGT PAMSRPAELY
560 570 580 590 600
TQIIAVKPTF FPQFHAFGLR YCDAKRLPWG WDYSGSSNLG ELKLLLEEAI
610 620 630 640 650
MLRRLKSDVL SQLPAKQRKM VVVNPGRISS RAKAALDAAA KEMTKDKTKQ
660 670 680 690 700
QQKEALLVFF NRTAEAKIPC VVEYILDLLD SGREKFLVFA HHKVILDAVA
710 720 730 740 750
KELERKNVQH IRIDGSTPSA DREAQCQRFQ LSKGHTVALL SITAANMGLT
760 770 780 790 800
FSTADLVVFA ELFWNPGVLI QAEDRVHRIG QTNSVSIHYL VAKGTADDYL
810 820 830 840 850
WPLIQEKIKV LGEAGLSETN FSEMTEATDY VHKDPKQKTI YDLFQQSFED
860 870 880 890 900
DGNDMEFLEA AESFELGSTS GTSGNISQDL GDLLDEDEGS PPKKSRFEFF
910
DNWDSFSSPF
Length:910
Mass (Da):100,840
Last modified:March 1, 2003 - v1
Checksum:iF6B28F847BD6FC18
GO
Isoform 2 (identifier: Q8BJL0-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     769-788: LIQAEDRVHRIGQTNSVSIH → GNVARVPLGMPRAEKYKIRK
     789-910: Missing.

Note: May be due to an intron retention.
Show »
Length:788
Mass (Da):87,126
Checksum:iAE70BAB0A799A3F8
GO
Isoform 3 (identifier: Q8BJL0-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     508-574: DESHFLKNIK...HAFGLRYCDA → VSNGIALKYF...QPLSLCARLS
     575-910: Missing.

Note: No experimental confirmation available.
Show »
Length:574
Mass (Da):63,218
Checksum:i0E8930A229E115E8
GO
Isoform 4 (identifier: Q8BJL0-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     404-404: S → R
     405-910: Missing.

Note: No experimental confirmation available.
Show »
Length:404
Mass (Da):44,190
Checksum:i92E5249A242D75A6
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti35A → T in AAH29078 (PubMed:15489334).Curated1
Sequence conflicti78F → L in AAH29078 (PubMed:15489334).Curated1
Sequence conflicti529K → N in BAE32320 (PubMed:16141072).Curated1
Sequence conflicti685K → R in BAC31469 (PubMed:16141072).Curated1
Sequence conflicti717 – 725Missing in AAG47648 (PubMed:10857751).Curated9
Sequence conflicti717T → R in AAF24985 (PubMed:10857751).Curated1
Sequence conflicti719 – 721SAD → TRA in AAF24985 (PubMed:10857751).Curated3
Sequence conflicti724 – 725AQ → LK in AAF24985 (PubMed:10857751).Curated2
Sequence conflicti743T → P in AAF24985 (PubMed:10857751).Curated1
Sequence conflicti834D → A in AAF24985 (PubMed:10857751).Curated1
Sequence conflicti834Missing in AAG47648 (PubMed:10857751).Curated1
Sequence conflicti866 – 868LGS → IKN in AAF24985 (PubMed:10857751).Curated3

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_036216404S → R in isoform 4. 1 Publication1
Alternative sequenceiVSP_036217405 – 910Missing in isoform 4. 1 PublicationAdd BLAST506
Alternative sequenceiVSP_036218508 – 574DESHF…RYCDA → VSNGIALKYFVCLDTRKGST DLGICVLLGPLWALRREGNR NRCLSFIENDFFIPFLKQPL SLCARLS in isoform 3. 1 PublicationAdd BLAST67
Alternative sequenceiVSP_036219575 – 910Missing in isoform 3. 1 PublicationAdd BLAST336
Alternative sequenceiVSP_012919769 – 788LIQAE…SVSIH → GNVARVPLGMPRAEKYKIRK in isoform 2. 1 PublicationAdd BLAST20
Alternative sequenceiVSP_012920789 – 910Missing in isoform 2. 1 PublicationAdd BLAST122

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF088884 mRNA. Translation: AAF24985.1.
AF209773 Genomic DNA. Translation: AAG47648.1.
AK042332 mRNA. Translation: BAE20630.1.
AK043129 mRNA. Translation: BAC31469.1.
AK077878 mRNA. Translation: BAC37047.1.
AK083488 mRNA. Translation: BAC38933.1.
AK154020 mRNA. Translation: BAE32320.1.
AK169465 mRNA. Translation: BAE41189.1.
BC029078 mRNA. Translation: AAH29078.1.
CCDSiCCDS35609.1. [Q8BJL0-1]
RefSeqiNP_061287.2. NM_018817.2. [Q8BJL0-1]
XP_006496204.1. XM_006496141.3. [Q8BJL0-1]
XP_006496205.1. XM_006496142.3. [Q8BJL0-1]
XP_006496206.1. XM_006496143.3. [Q8BJL0-1]
XP_006496207.1. XM_006496144.1. [Q8BJL0-1]
UniGeneiMm.274232.

Genome annotation databases

EnsembliENSMUST00000047615; ENSMUSP00000047589; ENSMUSG00000039354. [Q8BJL0-1]
ENSMUST00000152225; ENSMUSP00000137833; ENSMUSG00000039354. [Q8BJL0-1]
GeneIDi54380.
KEGGimmu:54380.
UCSCiuc007bko.2. mouse. [Q8BJL0-4]
uc007bkq.2. mouse. [Q8BJL0-3]
uc007bkr.2. mouse. [Q8BJL0-2]
uc007bks.2. mouse. [Q8BJL0-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF088884 mRNA. Translation: AAF24985.1.
AF209773 Genomic DNA. Translation: AAG47648.1.
AK042332 mRNA. Translation: BAE20630.1.
AK043129 mRNA. Translation: BAC31469.1.
AK077878 mRNA. Translation: BAC37047.1.
AK083488 mRNA. Translation: BAC38933.1.
AK154020 mRNA. Translation: BAE32320.1.
AK169465 mRNA. Translation: BAE41189.1.
BC029078 mRNA. Translation: AAH29078.1.
CCDSiCCDS35609.1. [Q8BJL0-1]
RefSeqiNP_061287.2. NM_018817.2. [Q8BJL0-1]
XP_006496204.1. XM_006496141.3. [Q8BJL0-1]
XP_006496205.1. XM_006496142.3. [Q8BJL0-1]
XP_006496206.1. XM_006496143.3. [Q8BJL0-1]
XP_006496207.1. XM_006496144.1. [Q8BJL0-1]
UniGeneiMm.274232.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4O66X-ray1.90A/B/C/D197-268[»]
ProteinModelPortaliQ8BJL0.
SMRiQ8BJL0.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000047589.

PTM databases

iPTMnetiQ8BJL0.
PhosphoSitePlusiQ8BJL0.

Proteomic databases

PaxDbiQ8BJL0.
PeptideAtlasiQ8BJL0.
PRIDEiQ8BJL0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000047615; ENSMUSP00000047589; ENSMUSG00000039354. [Q8BJL0-1]
ENSMUST00000152225; ENSMUSP00000137833; ENSMUSG00000039354. [Q8BJL0-1]
GeneIDi54380.
KEGGimmu:54380.
UCSCiuc007bko.2. mouse. [Q8BJL0-4]
uc007bkq.2. mouse. [Q8BJL0-3]
uc007bkr.2. mouse. [Q8BJL0-2]
uc007bks.2. mouse. [Q8BJL0-1]

Organism-specific databases

CTDi50485.
MGIiMGI:1859183. Smarcal1.

Phylogenomic databases

eggNOGiKOG1000. Eukaryota.
COG0553. LUCA.
GeneTreeiENSGT00860000133750.
HOVERGENiHBG054110.
InParanoidiQ8BJL0.
KOiK14440.
OMAiEREDLCQ.
OrthoDBiEOG091G0A1B.
PhylomeDBiQ8BJL0.
TreeFamiTF106474.

Miscellaneous databases

ChiTaRSiSmarcal1. mouse.
PROiQ8BJL0.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000039354.
ExpressionAtlasiQ8BJL0. baseline and differential.
GenevisibleiQ8BJL0. MM.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR010003. HARP_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000330. SNF2_N.
[Graphical view]
PfamiPF07443. HARP. 2 hits.
PF00271. Helicase_C. 1 hit.
PF00176. SNF2_N. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 3 hits.
PROSITEiPS51467. HARP. 2 hits.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSMAL1_MOUSE
AccessioniPrimary (citable) accession number: Q8BJL0
Secondary accession number(s): Q3TEQ9
, Q3U4W0, Q3V3A8, Q8BVK7, Q8BXW4, Q8K309, Q9EQK8, Q9QYC4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 1, 2005
Last sequence update: March 1, 2003
Last modified: November 30, 2016
This is version 118 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.