Q9H930 (LY10L_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Nuclear body protein SP140-like protein

Gene names

Name:

SP140L

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	580 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Sequence similarities	Contains 1 bromo domain. Contains 1 HSR domain. Contains 1 PHD-type zinc finger. Contains 1 SAND domain.
Sequence caution	The sequence AAX88869.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence BAB14413.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

Ontologies

Keywords
Coding sequence diversity	Alternative splicing Polymorphism
Domain	Zinc-finger
Ligand	DNA-binding Metal-binding Zinc
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Cellular_component	nucleus Inferred from electronic annotation. Source: InterPro
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

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

Isoform 4 (identifier: Q9H930-4)

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 1 (identifier: Q9H930-1)

The sequence of this isoform differs from the canonical sequence as follows:
     430-580: HIPPVESEKT...FAIQETNGNS → HIPPVESEK

Isoform 2 (identifier: Q9H930-2)

The sequence of this isoform differs from the canonical sequence as follows:
     287-321: Missing.

Note: No experimental confirmation available.

Isoform 3 (identifier: Q9H930-3)

The sequence of this isoform differs from the canonical sequence as follows:
     1-87: Missing.
     213-216: RKKK → SKNK
     217-580: Missing.

Note: No experimental confirmation available.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 580	580	Nuclear body protein SP140-like protein		PRO_0000321936
Regions
	Domain	33 – 149	117	HSR
	Domain	293 – 374	82	SAND
	Domain	484 – 554	71	Bromo
	Zinc finger	403 – 449	47	PHD-type
Natural variations
	Alternative sequence	1 – 87	87	Missing in isoform 3.		VSP_031830
	Alternative sequence	213 – 216	4	RKKK → SKNK in isoform 3.		VSP_031831
	Alternative sequence	217 – 580	364	Missing in isoform 3.		VSP_031832
	Alternative sequence	287 – 321	35	Missing in isoform 2.		VSP_031833
	Alternative sequence	430 – 580	151	HIPPV…TNGNS → HIPPVESEK in isoform 1.		VSP_040889
	Natural variant	88	1	M → T. Corresponds to variant rs4973318 [ dbSNP | Ensembl ].		VAR_059144
	Natural variant	225	1	T → M. Corresponds to variant rs28497362 [ dbSNP | Ensembl ].		VAR_059145
	Natural variant	377	1	P → S. Corresponds to variant rs7590429 [ dbSNP | Ensembl ].		VAR_059146
Experimental info
	Sequence conflict	223	1	M → T in BAB14413. Ref.3

Sequences

	Sequence		Length	Mass (Da)
	Isoform 4 [UniParc]. Last modified February 22, 2012. Version 3. Checksum: C79CABFD2E1D6FB0	FASTA	580	67,005
	10 20 30 40 50 60 MAGGGSDLST RGLNGGVSQV ANEMNHLPAH SQSLQRLFTE DQDVDEGLVY DTVFKHFKRH 70 80 90 100 110 120 KLEISNAIKK TFPFLEGLRD RELITNKMFE DSEDSCRNLV PVQRVVYNVL SELEKTFNLS 130 140 150 160 170 180 VLEALFSEVN MQEYPDLIHI YKSFKNAIQD KLSFQESDRK EREERPDIKL SLKQGEVPES 190 200 210 220 230 240 PEARKESDQA CGKMDTVDIA NNSTLGKPKR KRRKKKGHGW SRMGTRTQKN NQQNDNSKAD 250 260 270 280 290 300 GQLVSSEKKA NMNLKDLSKI RGRKRGKPGT HFTQSDRAPQ KRVRSRASRK HKDETVDFQA 310 320 330 340 350 360 PLLPVTCGGV KGILHKEKLE QGTLAKCIQT EDGKWFTPME FEIKGGYARS KNWRLSVRCG 370 380 390 400 410 420 GWPLRRLMEE GSLPNPPRIY YRNKKRILKS QNNSSVDPCM RNLDECEVCR DGGELFCCDT 430 440 450 460 470 480 CSRVFHEDCH IPPVESEKTP WNCIFCRMKE SPGSQQCCQE SEVLERQMCP EEQLKCEFLL 490 500 510 520 530 540 LKVYCCSESS FFAKIPYYYY IREACQGLKE PMWLDKIKKR LNEHGYPQVE GFVQDMRLIF 550 560 570 580 QNHRASYKYK DFGQMGLRLE AEFEKDFKEV FAIQETNGNS
	Isoform 1 [UniParc]. Checksum: 5E35B3DED0DD61D7	FASTA	438	50,075
	10 20 30 40 50 60 MAGGGSDLST RGLNGGVSQV ANEMNHLPAH SQSLQRLFTE DQDVDEGLVY DTVFKHFKRH 70 80 90 100 110 120 KLEISNAIKK TFPFLEGLRD RELITNKMFE DSEDSCRNLV PVQRVVYNVL SELEKTFNLS 130 140 150 160 170 180 VLEALFSEVN MQEYPDLIHI YKSFKNAIQD KLSFQESDRK EREERPDIKL SLKQGEVPES 190 200 210 220 230 240 PEARKESDQA CGKMDTVDIA NNSTLGKPKR KRRKKKGHGW SRMGTRTQKN NQQNDNSKAD 250 260 270 280 290 300 GQLVSSEKKA NMNLKDLSKI RGRKRGKPGT HFTQSDRAPQ KRVRSRASRK HKDETVDFQA 310 320 330 340 350 360 PLLPVTCGGV KGILHKEKLE QGTLAKCIQT EDGKWFTPME FEIKGGYARS KNWRLSVRCG 370 380 390 400 410 420 GWPLRRLMEE GSLPNPPRIY YRNKKRILKS QNNSSVDPCM RNLDECEVCR DGGELFCCDT 430 CSRVFHEDCH IPPVESEK
	Isoform 2 [UniParc]. Checksum: 3918E36F255E536F	FASTA	545	63,150
	10 20 30 40 50 60 MAGGGSDLST RGLNGGVSQV ANEMNHLPAH SQSLQRLFTE DQDVDEGLVY DTVFKHFKRH 70 80 90 100 110 120 KLEISNAIKK TFPFLEGLRD RELITNKMFE DSEDSCRNLV PVQRVVYNVL SELEKTFNLS 130 140 150 160 170 180 VLEALFSEVN MQEYPDLIHI YKSFKNAIQD KLSFQESDRK EREERPDIKL SLKQGEVPES 190 200 210 220 230 240 PEARKESDQA CGKMDTVDIA NNSTLGKPKR KRRKKKGHGW SRMGTRTQKN NQQNDNSKAD 250 260 270 280 290 300 GQLVSSEKKA NMNLKDLSKI RGRKRGKPGT HFTQSDRAPQ KRVRSRGTLA KCIQTEDGKW 310 320 330 340 350 360 FTPMEFEIKG GYARSKNWRL SVRCGGWPLR RLMEEGSLPN PPRIYYRNKK RILKSQNNSS 370 380 390 400 410 420 VDPCMRNLDE CEVCRDGGEL FCCDTCSRVF HEDCHIPPVE SEKTPWNCIF CRMKESPGSQ 430 440 450 460 470 480 QCCQESEVLE RQMCPEEQLK CEFLLLKVYC CSESSFFAKI PYYYYIREAC QGLKEPMWLD 490 500 510 520 530 540 KIKKRLNEHG YPQVEGFVQD MRLIFQNHRA SYKYKDFGQM GLRLEAEFEK DFKEVFAIQE TNGNS
	Isoform 3 [UniParc]. Checksum: 9FABEBF35962DD64	FASTA	129	14,926
	10 20 30 40 50 60 MFEDSEDSCR NLVPVQRVVY NVLSELEKTF NLSVLEALFS EVNMQEYPDL IHIYKSFKNA 70 80 90 100 110 120 IQDKLSFQES DRKEREERPD IKLSLKQGEV PESPEARKES DQACGKMDTV DIANNSTLGK PKRKRSKNK

References

[1]	"Generation and annotation of the DNA sequences of human chromosomes 2 and 4." Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., Du H. , Sun H., Bradshaw-Cordum H., Ali J., Carter J., Cordes M., Harris A., Isak A., van Brunt A., Nguyen C., Du F., Courtney L., Kalicki J., Ozersky P., Abbott S., Armstrong J., Belter E.A., Caruso L., Cedroni M., Cotton M., Davidson T., Desai A., Elliott G., Erb T., Fronick C., Gaige T., Haakenson W., Haglund K., Holmes A., Harkins R., Kim K., Kruchowski S.S., Strong C.M., Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K., McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N., Swearengen-Shahid S., Snider J., Strong J.T., Thompson J., Yoakum M., Leonard S., Pearman C., Trani L., Radionenko M., Waligorski J.E., Wang C., Rock S.M., Tin-Wollam A.-M., Maupin R., Latreille P., Wendl M.C., Yang S.-P., Pohl C., Wallis J.W., Spieth J., Bieri T.A., Berkowicz N., Nelson J.O., Osborne J., Ding L., Meyer R., Sabo A., Shotland Y., Sinha P., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Jones T.A., She X., Ciccarelli F.D., Izaurralde E., Taylor J., Schmutz J., Myers R.M., Cox D.R., Huang X., McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C., Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S., Miller W., Eichler E.E., Bork P., Suyama M., Torrents D., Waterston R.H., Wilson R.K. Nature 434:724-731(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[2]	"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 3), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 181-580 (ISOFORM 2), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 430-580 (ISOFORM 4). Tissue: Brain.
[3]	"Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S. Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 172-580 (ISOFORM 1). Tissue: Teratocarcinoma.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AC009949 Genomic DNA. Translation: AAX88869.1. Sequence problems. BC004921 mRNA. Translation: AAH04921.1. BC105007 mRNA. No translation available. BQ690359 mRNA. No translation available. AK023116 mRNA. Translation: BAB14413.1. Different initiation.
IPI	IPI00027693. IPI00719187. IPI00884908. IPI01009049.
RefSeq	NP_612411.4. NM_138402.4.
UniGene	Hs.589661.
3D structure databases
HSSP	HSSP built from PDB template 1XWH based on UniProtKB O43918.
ProteinModelPortal	Q9H930.
SMR	Q9H930. Positions 293-377, 401-571.
ModBase	Search...
PTM databases
PhosphoSite	Q9H930.
Polymorphism databases
DMDM	182705269.
Proteomic databases
PaxDb	Q9H930.
PRIDE	Q9H930.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000243810; ENSP00000243810; ENSG00000185404. ENST00000415673; ENSP00000397911; ENSG00000185404. ENST00000444636; ENSP00000395195; ENSG00000185404. ENST00000458341; ENSP00000395223; ENSG00000185404.
GeneID	93349.
KEGG	hsa:93349.
UCSC	uc010fxm.1. human. uc010fxn.2. human. uc010fxo.1. human.
Organism-specific databases
CTD	93349.
GeneCards	GC02P231191.
HGNC	HGNC:25105. SP140L.
HPA	HPA055864.
neXtProt	NX_Q9H930.
PharmGKB	PA164726206.
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG300534.
HOGENOM	HOG000089984.
OMA	QETNGNS.
OrthoDB	EOG44QT09.
Gene expression databases
ArrayExpress	Q9H930.
Bgee	Q9H930.
CleanEx	HS_SP140L.
Genevestigator	Q9H930.
Family and domain databases
Gene3D	1.20.920.10. 1 hit. 3.10.390.10. 1 hit. 3.30.40.10. 1 hit.
InterPro	IPR001487. Bromodomain. IPR000770. SAND_dom. IPR010919. SAND_dom-like. IPR004865. Sp100. IPR019786. Zinc_finger_PHD-type_CS. IPR011011. Znf_FYVE_PHD. IPR001965. Znf_PHD. IPR019787. Znf_PHD-finger. IPR013083. Znf_RING/FYVE/PHD. [Graphical view]
Pfam	PF00439. Bromodomain. 1 hit. PF00628. PHD. 1 hit. PF01342. SAND. 1 hit. PF03172. Sp100. 1 hit. [Graphical view]
SMART	SM00297. BROMO. 1 hit. SM00249. PHD. 1 hit. SM00258. SAND. 1 hit. [Graphical view]
SUPFAM	SSF47370. Bromodomain. 1 hit. SSF57903. FYVE_PHD_ZnF. 1 hit. SSF63763. SAND_like. 1 hit.
PROSITE	PS00633. BROMODOMAIN_1. False negative. PS50014. BROMODOMAIN_2. 1 hit. PS51414. HSR. 1 hit. PS50864. SAND. 1 hit. PS01359. ZF_PHD_1. 1 hit. PS50016. ZF_PHD_2. 1 hit. [Graphical view]
ProtoNet	Search...
Other
GenomeRNAi	93349.
NextBio	78053.

Entry information

Entry name

LY10L_HUMAN

Accession

Primary (citable) accession number: Q9H930
Secondary accession number(s): Q2M375, Q4ZG65, Q9BSP3

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 26, 2008
Last sequence update:	February 22, 2012
Last modified:	May 1, 2013
This is version 88 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any 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.