Reviewed, UniProtKB/Swiss-Prot Q7Z4I7 (LIMS2_HUMAN)

Names and origin

Protein names

Recommended name:
    LIM and senescent cell antigen-like-containing domain protein 2
Alternative name(s):
    Particularly interesting new Cys-His protein 2
      Short name=PINCH-2
    LIM-like protein 2

Gene names

Name:	LIMS2
Synonyms:	PINCH2

Organism

Homo sapiens (Human) [Complete proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length	341 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Competes with LIMS1 for binding to ILK. Plays a role in modulating cell spreading and migration. Ref.1
Subunit structure	Interacts with TGFB1I1 By similarity. Interacts with integrin-linked protein kinase 1 (ILK) via the first LIM domain. Detected in a complex with ILK and PARVA. Ref.1
Subcellular location	Nucleus Potential. Cell junction › focal adhesion. Cell membrane; Peripheral membrane protein; Cytoplasmic side Ref.1.
Sequence similarities	Contains 5 LIM zinc-binding domains.
Sequence caution	The sequence AAM77350.1 differs from that shown. Reason: Frameshift at position 331.

Ontologies

Keywords
Cellular component	Cell junction Cell membrane Membrane Nucleus
Coding sequence diversity	Alternative splicing
Domain	LIM domain Repeat
Ligand	Metal-binding Zinc
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome
Gene Ontology (GO)
Cellular component	cytosol Inferred from Experiment. Source: Reactome extrinsic to membrane Inferred from electronic annotation. Source: UniProtKB-SubCell focal adhesion Inferred from electronic annotation. Source: UniProtKB-SubCell nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	zinc ion binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q7Z4I7-1)

Also known as: LIM-like protein 2B;

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: Q7Z4I7-2)

Also known as: LIM-like protein 2A;

The sequence of this isoform differs from the canonical sequence as follows:
     1-4: MTGS → MAARLGALAASGLYRRRQHRQSPPPATG

Isoform 3 (identifier: Q7Z4I7-3)

Also known as: LIM-like protein 2C;

The sequence of this isoform differs from the canonical sequence as follows:
     1-5: Missing.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 341	341	LIM and senescent cell antigen-like-containing domain protein 2		PRO_0000266011
Regions
	Domain	13 – 74	62	LIM zinc-binding 1
	Domain	76 – 133	58	LIM zinc-binding 2
	Domain	138 – 195	58	LIM zinc-binding 3
	Domain	196 – 255	60	LIM zinc-binding 4
	Domain	256 – 315	60	LIM zinc-binding 5
Amino acid modifications
	Modified residue	327	1	Phosphothreonine Ref.7
	Modified residue	328	1	Phosphoserine Ref.7
Natural variations
	Alternative sequence	1 – 5	5	Missing in isoform 3.		VSP_021916
	Alternative sequence	1 – 4	4	MTGS → MAARLGALAASGLYRRRQHR QSPPPATG in isoform 2.		VSP_021917
Experimental info
	Sequence conflict	294	1	N → D in AAM97589. Ref.1
	Sequence conflict	294	1	N → D in BAB14047. Ref.4

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 (LIM-like protein 2B) [UniParc]. Last modified October 1, 2003. Version 1. Checksum: EEA8D74C309D9C8A	FASTA	341	38,916
	10 20 30 40 50 60 MTGSNMSDAL ANAVCQRCQA RFSPAERIVN SNGELYHEHC FVCAQCFRPF PEGLFYEFEG 70 80 90 100 110 120 RKYCEHDFQM LFAPCCGSCG EFIIGRVIKA MNNNWHPGCF RCELCDVELA DLGFVKNAGR 130 140 150 160 170 180 HLCRPCHNRE KAKGLGKYIC QRCHLVIDEQ PLMFRSDAYH PDHFNCTHCG KELTAEAREL 190 200 210 220 230 240 KGELYCLPCH DKMGVPICGA CRRPIEGRVV NALGKQWHVE HFVCAKCEKP FLGHRHYEKK 250 260 270 280 290 300 GLAYCETHYN QLFGDVCYNC SHVIEGDVVS ALNKAWCVSC FSCSTCNSKL TLKNKFVEFD 310 320 330 340 MKPVCKRCYE KFPLELKKRL KKLSELTSRK AQPKATDLNS A
	Isoform 2 (LIM-like protein 2A). Checksum: 3B8E1C98AFB2B698	FASTA	365	41,512
	10 20 30 40 50 60 MAARLGALAA SGLYRRRQHR QSPPPATGNM SDALANAVCQ RCQARFSPAE RIVNSNGELY 70 80 90 100 110 120 HEHCFVCAQC FRPFPEGLFY EFEGRKYCEH DFQMLFAPCC GSCGEFIIGR VIKAMNNNWH 130 140 150 160 170 180 PGCFRCELCD VELADLGFVK NAGRHLCRPC HNREKAKGLG KYICQRCHLV IDEQPLMFRS 190 200 210 220 230 240 DAYHPDHFNC THCGKELTAE ARELKGELYC LPCHDKMGVP ICGACRRPIE GRVVNALGKQ 250 260 270 280 290 300 WHVEHFVCAK CEKPFLGHRH YEKKGLAYCE THYNQLFGDV CYNCSHVIEG DVVSALNKAW 310 320 330 340 350 360 CVSCFSCSTC NSKLTLKNKF VEFDMKPVCK RCYEKFPLEL KKRLKKLSEL TSRKAQPKAT DLNSA
	Isoform 3 (LIM-like protein 2C). Checksum: 27F7EA97B557804D	FASTA	336	38,426
	10 20 30 40 50 60 MSDALANAVC QRCQARFSPA ERIVNSNGEL YHEHCFVCAQ CFRPFPEGLF YEFEGRKYCE 70 80 90 100 110 120 HDFQMLFAPC CGSCGEFIIG RVIKAMNNNW HPGCFRCELC DVELADLGFV KNAGRHLCRP 130 140 150 160 170 180 CHNREKAKGL GKYICQRCHL VIDEQPLMFR SDAYHPDHFN CTHCGKELTA EARELKGELY 190 200 210 220 230 240 CLPCHDKMGV PICGACRRPI EGRVVNALGK QWHVEHFVCA KCEKPFLGHR HYEKKGLAYC 250 260 270 280 290 300 ETHYNQLFGD VCYNCSHVIE GDVVSALNKA WCVSCFSCST CNSKLTLKNK FVEFDMKPVC 310 320 330 KRCYEKFPLE LKKRLKKLSE LTSRKAQPKA TDLNSA

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Characterization of PINCH-2, a new focal adhesion protein that regulates the PINCH-1-ILK interaction, cell spreading, and migration." Zhang Y., Chen K., Guo L., Wu C. J. Biol. Chem. 277:38328-38338(2002) [PubMed: 12167643] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH ILK.
[2]	Ding P., Han W., Cheng Y., Qiu X., Song Q., Zhang Y., Ma D. Submitted (JUL-2002) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1; 2 AND 3). Tissue: Lung.
[3]	"Cloning and characterization a novel human gene LIMS2." Zeng W., Zhu Y., Jiao W., Yuan W., Wu X. Submitted (JUN-2002) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3).
[4]	"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: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Mammary gland.
[5]	"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: 15815621] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]	"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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: PNS.
[7]	"A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed: 18669648] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT THR-327 AND SER-328, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AF484961 mRNA. Translation: AAM97589.1.
AF527764 mRNA. Translation: AAQ09011.1.
AF527765 mRNA. Translation: AAQ09012.1.
AF527766 mRNA. Translation: AAQ09013.1.
AF520987 mRNA. Translation: AAM77350.1. Frameshift.
AK022470 mRNA. Translation: BAB14047.1.
AC010976 Genomic DNA. No translation available.
BC065816 mRNA. Translation: AAH65816.1.

IPI

IPI00398576.
IPI00815737.
IPI00867554.

RefSeq

NP_001129509.2.
NP_001154875.1.
NP_001154876.1.
NP_060450.2.

UniGene

Hs.469881

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3IXE	X-ray	1.90	B	11-73	[»]

SMR

Q7Z4I7. Positions 6-75, 13-105, 75-264, 197-314.

ModBase

Search...

Protein-protein interaction databases

STRING

Q7Z4I7.

PTM databases

PhosphoSite

Q7Z4I7.

Genome annotation databases

Ensembl

ENST00000355119; ENSP00000347240; ENSG00000072163; Homo sapiens. [Genome view]

GeneID

55679.

KEGG

hsa:55679.

UCSC

uc002tpa.1. human.

Organism-specific databases

CTD

55679.

GeneCards

GC02M128112.

HGNC

HGNC:16084. LIMS2.

MIM

607908. gene.

PharmGKB

PA30390.

GenAtlas

Search...

Phylogenomic databases

HOVERGEN

Q7Z4I7.

OMA

ECFRCEL.

Enzyme and pathway databases

Reactome

REACT_20676. Cell junction organization.

Gene expression databases

ArrayExpress

Q7Z4I7.

Bgee

Q7Z4I7.

CleanEx

HS_LIMS2.

Genevestigator

Q7Z4I7.

GermOnline

ENSG00000072163. Homo sapiens.

Family and domain databases

InterPro

IPR017351. PINCH.
IPR001781. Znf_LIM.
[Graphical view]

Gene3D

G3DSA:2.10.110.10. Znf_LIM. 4 hits.

Pfam

PF00412. LIM. 5 hits.
[Graphical view]

PIRSF

PIRSF038003. PINCH. 1 hit.

SMART

SM00132. LIM. 5 hits.
[Graphical view]

PROSITE

PS00478. LIM_DOMAIN_1. 4 hits.
PS50023. LIM_DOMAIN_2. 5 hits.
[Graphical view]

ProtoNet

Search...

Other Resources

NextBio

60464.

SOURCE

Search...

Entry information

Entry name

LIMS2_HUMAN

Accession

Primary (citable) accession number: Q7Z4I7
Secondary accession number(s): A6NLH0 , Q7Z4I6, Q7Z4I8, Q8NFE7, Q9HA13

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 12, 2006
Last sequence update:	October 1, 2003
Last modified:	February 9, 2010
This is version 52 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

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.