Q8BJL0 (SMAL1_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

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 names

Name:	Smarcal1
Synonyms:	Harp

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	910 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	ATP-dependent annealing helicase that 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 By similarity.
Subcellular location	Nucleus By similarity.
Tissue specificity	Ubiquitously expressed, with high levels in brain, heart, kidney, liver and testis. Ref.1
Sequence similarities	Belongs to the SNF2/RAD54 helicase family. SMARCAL1 subfamily. Contains 2 HARP domains. Contains 1 helicase ATP-binding domain. Contains 1 helicase C-terminal domain.

Ontologies

Keywords
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Coiled coil Repeat
Ligand	ATP-binding Nucleotide-binding
Molecular function	Helicase Hydrolase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	chromatin modification Inferred from electronic annotation. Source: InterPro regulation of transcription from RNA polymerase II promoter Inferred from sequence or structural similarity. Source: UniProtKB
Cellular_component	nucleus Inferred from sequence or structural similarity. Source: UniProtKB
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW DNA binding Inferred from electronic annotation. Source: InterPro DNA-dependent ATPase activity Inferred from sequence or structural similarity. Source: UniProtKB annealing helicase activity Inferred from sequence or structural similarity. Source: UniProtKB helicase activity Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Alternative products

This entry describes 4 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q8BJL0-1)

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.

Isoform 2 (identifier: Q8BJL0-2)

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.

Isoform 3 (identifier: Q8BJL0-3)

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.

Isoform 4 (identifier: Q8BJL0-4)

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

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 910	910	SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1		PRO_0000074349
Regions
	Domain	199 – 269	71	HARP 1
	Domain	286 – 357	72	HARP 2
	Domain	404 – 559	156	Helicase ATP-binding
	Domain	674 – 827	154	Helicase C-terminal
	Nucleotide binding	417 – 424	8	ATP By similarity
	Coiled coil	3 – 34	32	Potential
	Motif	508 – 511	4	DESH box
Natural variations
	Alternative sequence	404	1	S → R in isoform 4.		VSP_036216
	Alternative sequence	405 – 910	506	Missing in isoform 4.		VSP_036217
	Alternative sequence	508 – 574	67	DESHF…RYCDA → VSNGIALKYFVCLDTRKGST DLGICVLLGPLWALRREGNR NRCLSFIENDFFIPFLKQPL SLCARLS in isoform 3.		VSP_036218
	Alternative sequence	575 – 910	336	Missing in isoform 3.		VSP_036219
	Alternative sequence	769 – 788	20	LIQAE…SVSIH → GNVARVPLGMPRAEKYKIRK in isoform 2.		VSP_012919
	Alternative sequence	789 – 910	122	Missing in isoform 2.		VSP_012920
Experimental info
	Sequence conflict	35	1	A → T in AAH29078. Ref.3
	Sequence conflict	78	1	F → L in AAH29078. Ref.3
	Sequence conflict	529	1	K → N in BAE32320. Ref.2
	Sequence conflict	685	1	K → R in BAC31469. Ref.2
	Sequence conflict	717 – 725	9	Missing in AAG47648. Ref.1
	Sequence conflict	717	1	T → R in AAF24985. Ref.1
	Sequence conflict	719 – 721	3	SAD → TRA in AAF24985. Ref.1
	Sequence conflict	724 – 725	2	AQ → LK in AAF24985. Ref.1
	Sequence conflict	743	1	T → P in AAF24985. Ref.1
	Sequence conflict	834	1	D → A in AAF24985. Ref.1
	Sequence conflict	834	1	Missing in AAG47648. Ref.1
	Sequence conflict	866 – 868	3	LGS → IKN in AAF24985. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified March 1, 2003. Version 1. Checksum: F6B28F847BD6FC18	FASTA	910	100,840
	10 20 30 40 50 60 MSLPLTEEQR KKIEENRQKA LARRAEKLSE QPQSAASGSS AAGPSQSKQG SLLNLLAEPS 70 80 90 100 110 120 KPVGHASIFK QQNLSNSFPT DQRPHSSRCS QPSPAEETTG LWKTQGEMST ACPKPNPSPP 130 140 150 160 170 180 GASNQPLLGY KSSEGQPQAT WDTGASSSGP FPRDPELEAK AARPSTSRQS ISDSFYVLGG 190 200 210 220 230 240 KTPRTEGRPP NILQTTPQNT GFLRGACIKT GDRFRVKIGY NQELIAVFKS LPSRHYDSFT 250 260 270 280 290 300 KTWDFSMSDY RALMKAVERL STVSLKPLDE AGGSVGGQTS LPSAPSLTFV TGKCMLISRV 310 320 330 340 350 360 RFEVDIGYSE AVIGLFKQME SRSYDIKTRK WSFLLEEHNK LIARSRELKQ VQLDPLPKTV 370 380 390 400 410 420 TLAFASQLEK TSPKLKADVP EADLSGVDAK LVSSLMPFQR EGVSFAISKR GRLLLADDMG 430 440 450 460 470 480 LGKTVQAICI AAFYRKEWPL LVVVPSSVRF TWEQAFLRWL PSLSPENINV VVTGKGRLTA 490 500 510 520 530 540 GLVNIVSFDL LCKLERQLKT PFKVVIIDES HFLKNIKTAR CRAAVPILKV AKRVILLSGT 550 560 570 580 590 600 PAMSRPAELY TQIIAVKPTF FPQFHAFGLR YCDAKRLPWG WDYSGSSNLG ELKLLLEEAI 610 620 630 640 650 660 MLRRLKSDVL SQLPAKQRKM VVVNPGRISS RAKAALDAAA KEMTKDKTKQ QQKEALLVFF 670 680 690 700 710 720 NRTAEAKIPC VVEYILDLLD SGREKFLVFA HHKVILDAVA KELERKNVQH IRIDGSTPSA 730 740 750 760 770 780 DREAQCQRFQ LSKGHTVALL SITAANMGLT FSTADLVVFA ELFWNPGVLI QAEDRVHRIG 790 800 810 820 830 840 QTNSVSIHYL VAKGTADDYL WPLIQEKIKV LGEAGLSETN FSEMTEATDY VHKDPKQKTI 850 860 870 880 890 900 YDLFQQSFED DGNDMEFLEA AESFELGSTS GTSGNISQDL GDLLDEDEGS PPKKSRFEFF 910 DNWDSFSSPF
	Isoform 2 [UniParc]. Checksum: AE70BAB0A799A3F8	FASTA	788	87,126
	10 20 30 40 50 60 MSLPLTEEQR KKIEENRQKA LARRAEKLSE QPQSAASGSS AAGPSQSKQG SLLNLLAEPS 70 80 90 100 110 120 KPVGHASIFK QQNLSNSFPT DQRPHSSRCS QPSPAEETTG LWKTQGEMST ACPKPNPSPP 130 140 150 160 170 180 GASNQPLLGY KSSEGQPQAT WDTGASSSGP FPRDPELEAK AARPSTSRQS ISDSFYVLGG 190 200 210 220 230 240 KTPRTEGRPP NILQTTPQNT GFLRGACIKT GDRFRVKIGY NQELIAVFKS LPSRHYDSFT 250 260 270 280 290 300 KTWDFSMSDY RALMKAVERL STVSLKPLDE AGGSVGGQTS LPSAPSLTFV TGKCMLISRV 310 320 330 340 350 360 RFEVDIGYSE AVIGLFKQME SRSYDIKTRK WSFLLEEHNK LIARSRELKQ VQLDPLPKTV 370 380 390 400 410 420 TLAFASQLEK TSPKLKADVP EADLSGVDAK LVSSLMPFQR EGVSFAISKR GRLLLADDMG 430 440 450 460 470 480 LGKTVQAICI AAFYRKEWPL LVVVPSSVRF TWEQAFLRWL PSLSPENINV VVTGKGRLTA 490 500 510 520 530 540 GLVNIVSFDL LCKLERQLKT PFKVVIIDES HFLKNIKTAR CRAAVPILKV AKRVILLSGT 550 560 570 580 590 600 PAMSRPAELY TQIIAVKPTF FPQFHAFGLR YCDAKRLPWG WDYSGSSNLG ELKLLLEEAI 610 620 630 640 650 660 MLRRLKSDVL SQLPAKQRKM VVVNPGRISS RAKAALDAAA KEMTKDKTKQ QQKEALLVFF 670 680 690 700 710 720 NRTAEAKIPC VVEYILDLLD SGREKFLVFA HHKVILDAVA KELERKNVQH IRIDGSTPSA 730 740 750 760 770 780 DREAQCQRFQ LSKGHTVALL SITAANMGLT FSTADLVVFA ELFWNPGVGN VARVPLGMPR AEKYKIRK
	Isoform 3 [UniParc]. Checksum: 0E8930A229E115E8	FASTA	574	63,218
	10 20 30 40 50 60 MSLPLTEEQR KKIEENRQKA LARRAEKLSE QPQSAASGSS AAGPSQSKQG SLLNLLAEPS 70 80 90 100 110 120 KPVGHASIFK QQNLSNSFPT DQRPHSSRCS QPSPAEETTG LWKTQGEMST ACPKPNPSPP 130 140 150 160 170 180 GASNQPLLGY KSSEGQPQAT WDTGASSSGP FPRDPELEAK AARPSTSRQS ISDSFYVLGG 190 200 210 220 230 240 KTPRTEGRPP NILQTTPQNT GFLRGACIKT GDRFRVKIGY NQELIAVFKS LPSRHYDSFT 250 260 270 280 290 300 KTWDFSMSDY RALMKAVERL STVSLKPLDE AGGSVGGQTS LPSAPSLTFV TGKCMLISRV 310 320 330 340 350 360 RFEVDIGYSE AVIGLFKQME SRSYDIKTRK WSFLLEEHNK LIARSRELKQ VQLDPLPKTV 370 380 390 400 410 420 TLAFASQLEK TSPKLKADVP EADLSGVDAK LVSSLMPFQR EGVSFAISKR GRLLLADDMG 430 440 450 460 470 480 LGKTVQAICI AAFYRKEWPL LVVVPSSVRF TWEQAFLRWL PSLSPENINV VVTGKGRLTA 490 500 510 520 530 540 GLVNIVSFDL LCKLERQLKT PFKVVIIVSN GIALKYFVCL DTRKGSTDLG ICVLLGPLWA 550 560 570 LRREGNRNRC LSFIENDFFI PFLKQPLSLC ARLS
	Isoform 4 [UniParc]. Checksum: 92E5249A242D75A6	FASTA	404	44,190
	10 20 30 40 50 60 MSLPLTEEQR KKIEENRQKA LARRAEKLSE QPQSAASGSS AAGPSQSKQG SLLNLLAEPS 70 80 90 100 110 120 KPVGHASIFK QQNLSNSFPT DQRPHSSRCS QPSPAEETTG LWKTQGEMST ACPKPNPSPP 130 140 150 160 170 180 GASNQPLLGY KSSEGQPQAT WDTGASSSGP FPRDPELEAK AARPSTSRQS ISDSFYVLGG 190 200 210 220 230 240 KTPRTEGRPP NILQTTPQNT GFLRGACIKT GDRFRVKIGY NQELIAVFKS LPSRHYDSFT 250 260 270 280 290 300 KTWDFSMSDY RALMKAVERL STVSLKPLDE AGGSVGGQTS LPSAPSLTFV TGKCMLISRV 310 320 330 340 350 360 RFEVDIGYSE AVIGLFKQME SRSYDIKTRK WSFLLEEHNK LIARSRELKQ VQLDPLPKTV 370 380 390 400 TLAFASQLEK TSPKLKADVP EADLSGVDAK LVSSLMPFQR EGVR

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Cloning and characterization of HARP/SMARCAL1: a prokaryotic HepA-related SNF2 helicase protein from human and mouse." Coleman M.A., Eisen J.A., Mohrenweiser H.W. Genomics 65:274-282(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORM 1), TISSUE SPECIFICITY.
[2]	"The transcriptional landscape of the mammalian genome." Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y. Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1; 2; 3 AND 4). Strain: C57BL/6J and NOD. Tissue: Cerebellum, Embryo, Testis and Thymus.
[3]	"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] (ISOFORM 1). Strain: Czech II. Tissue: Mammary gland.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	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.
IPI	IPI00403353. IPI00553252. IPI00830468. IPI00918417.
RefSeq	NP_061287.2. NM_018817.2.
UniGene	Mm.274232.
3D structure databases
ProteinModelPortal	Q8BJL0.
SMR	Q8BJL0. Positions 393-807.
ModBase	Search...
Protein-protein interaction databases
STRING	10090.ENSMUSP00000047589.
PTM databases
PhosphoSite	Q8BJL0.
Proteomic databases
PaxDb	Q8BJL0.
PRIDE	Q8BJL0.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000047615; ENSMUSP00000047589; ENSMUSG00000039354. ENSMUST00000152225; ENSMUSP00000137833; ENSMUSG00000039354.
GeneID	54380.
KEGG	mmu:54380.
UCSC	uc007bko.2. mouse. uc007bkq.2. mouse. uc007bkr.2. mouse. uc007bks.2. mouse.
Organism-specific databases
CTD	50485.
MGI	MGI:1859183. Smarcal1.
Phylogenomic databases
eggNOG	COG0553.
GeneTree	ENSGT00630000089754.
HOVERGEN	HBG054110.
InParanoid	Q3TEQ9.
KO	K14440.
OMA	FKQQNLS.
OrthoDB	EOG4RFKRT.
Gene expression databases
ArrayExpress	Q8BJL0.
Bgee	Q8BJL0.
Genevestigator	Q8BJL0.
GermOnline	ENSMUSG00000039354. Mus musculus.
Family and domain databases
InterPro	IPR010003. HARP_dom. IPR014001. Helicase_ATP-bd. IPR001650. Helicase_C. IPR000330. SNF2_N. [Graphical view]
Pfam	PF07443. HARP. 2 hits. PF00271. Helicase_C. 1 hit. PF00176. SNF2_N. 1 hit. [Graphical view]
SMART	SM00487. DEXDc. 1 hit. SM00490. HELICc. 1 hit. [Graphical view]
PROSITE	PS51467. HARP. 2 hits. PS51192. HELICASE_ATP_BIND_1. 1 hit. PS51194. HELICASE_CTER. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	311200.
SOURCE	Search...

Entry information

Entry name

SMAL1_MOUSE

Accession

Primary (citable) accession number: Q8BJL0
Secondary accession number(s): Q3TEQ9 , Q3U4W0, Q3V3A8, Q8BVK7, Q8BXW4, Q8K309, Q9EQK8, Q9QYC4

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 1, 2005
Last sequence update:	March 1, 2003
Last modified:	May 1, 2013
This is version 88 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program