Q53GG5 (PDLI3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
PDZ and LIM domain protein 3

Alternative name(s):
Actinin-associated LIM protein
Alpha-actinin-2-associated LIM protein

Gene names

Name:	PDLIM3
Synonyms:	ALP

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	364 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	May play a role in the organization of actin filament arrays within muscle cells By similarity.
Subunit structure	Interacts with ACTN2 By similarity.
Subcellular location	Cytoplasm › myofibril › sarcomere › Z line. Note: Localizes to myofiber Z-lines. Ref.2
Tissue specificity	Isoform 1 is highly expressed in differentiated skeletal muscle. Isoform 2 is heart-specific. Ref.1
Sequence similarities	Contains 1 LIM zinc-binding domain. Contains 1 PDZ (DHR) domain.

Ontologies

Keywords
Cellular component	Cytoplasm
Coding sequence diversity	Alternative splicing Polymorphism
Domain	LIM domain
Ligand	Metal-binding Zinc
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	actin filament organization Inferred from electronic annotation. Source: Compara heart development Inferred from electronic annotation. Source: Compara
Cellular_component	Z disc Inferred from electronic annotation. Source: UniProtKB-SubCell actin cytoskeleton Inferred from electronic annotation. Source: Compara
Molecular_function	structural constituent of muscle Inferred from electronic annotation. Source: Compara zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
RANBP2	P49792	3	EBI-5658852,EBI-973138

Alternative products

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

Isoform 1 (identifier: Q53GG5-1)

Also known as: ALP-SK;

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: Q53GG5-2)

Also known as: ALP-H;

The sequence of this isoform differs from the canonical sequence as follows:
     111-224: DGNYFEHKHN...GETPLMSEPT → EFKPIGTAHN...IPSSPQNEPT

Isoform 3 (identifier: Q53GG5-3)

The sequence of this isoform differs from the canonical sequence as follows:
     111-233: DGNYFEHKHN...TASVPPESDV → EFKPIGTAHN...TSIIFGPNLS
     234-364: Missing.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 364	364	PDZ and LIM domain protein 3		PRO_0000075867
Regions
	Domain	1 – 84	84	PDZ
	Domain	292 – 351	60	LIM zinc-binding
Natural variations
	Alternative sequence	111 – 233	123	DGNYF…PESDV → EFKPIGTAHNRRAQPFVAAA NIDDKRQVVSASYNSPIGLY STSNIQDALHGQLRGLIPSS PQKTGTTLNTSIIFGPNLS in isoform 3.		VSP_016500
	Alternative sequence	111 – 224	114	DGNYF…MSEPT → EFKPIGTAHNRRAQPFVAAA NIDDKRQVVSASYNSPIGLY STSNIQDALHGQLRGLIPSS PQNEPT in isoform 2.		VSP_016501
	Alternative sequence	234 – 364	131	Missing in isoform 3.		VSP_016502
	Natural variant	127	1	V → M. Corresponds to variant rs11944325 [ dbSNP | Ensembl ].		VAR_050166
Experimental info
	Sequence conflict	12	1	P → A in AAC16670. Ref.1
	Sequence conflict	12	1	P → A in AAC16672. Ref.1
	Sequence conflict	40	1	A → G in AAC16670. Ref.1
	Sequence conflict	40	1	A → G in AAC16672. Ref.1
	Sequence conflict	217	1	T → I in AAC16670. Ref.1
	Sequence conflict	221	1	S → N in AAB96665. Ref.2
	Sequence conflict	353	1	E → R in AAC16670. Ref.1
	Sequence conflict	353	1	E → R in AAC16672. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 (ALP-SK) [UniParc]. Last modified May 24, 2005. Version 1. Checksum: 083802DF22D7A237	FASTA	364	39,232
	10 20 30 40 50 60 MPQTVILPGP APWGFRLSGG IDFNQPLVIT RITPGSKAAA ANLCPGDVIL AIDGFGTESM 70 80 90 100 110 120 THADAQDRIK AAAHQLCLKI DRGETHLWSP QVSEDGKAHP FKINLESEPQ DGNYFEHKHN 130 140 150 160 170 180 IRPKPFVIPG RSSGCSTPSG IDCGSGRSTP SSVSTVSTIC PGDLKVAAKL APNIPLEMEL 190 200 210 220 230 240 PGVKIVHAQF NTPMQLYSDD NIMETLQGQV STALGETPLM SEPTASVPPE SDVYRMLHDN 250 260 270 280 290 300 RNEPTQPRQS GSFRVLQGMV DDGSDDRPAG TRSVRAPVTK VHGGSGGAQR MPLCDKCGSG 310 320 330 340 350 360 IVGAVVKARD KYRHPECFVC ADCNLNLKQK GYFFIEGELY CETHARARTK PPEGYDTVTL YPKA
	Isoform 2 (ALP-H) [UniParc]. Checksum: 99FB41E90188ED8A	FASTA	316	34,280
	10 20 30 40 50 60 MPQTVILPGP APWGFRLSGG IDFNQPLVIT RITPGSKAAA ANLCPGDVIL AIDGFGTESM 70 80 90 100 110 120 THADAQDRIK AAAHQLCLKI DRGETHLWSP QVSEDGKAHP FKINLESEPQ EFKPIGTAHN 130 140 150 160 170 180 RRAQPFVAAA NIDDKRQVVS ASYNSPIGLY STSNIQDALH GQLRGLIPSS PQNEPTASVP 190 200 210 220 230 240 PESDVYRMLH DNRNEPTQPR QSGSFRVLQG MVDDGSDDRP AGTRSVRAPV TKVHGGSGGA 250 260 270 280 290 300 QRMPLCDKCG SGIVGAVVKA RDKYRHPECF VCADCNLNLK QKGYFFIEGE LYCETHARAR 310 TKPPEGYDTV TLYPKA
	Isoform 3 [UniParc]. Checksum: 4DB3477EA08C336E	FASTA	189	20,214
	10 20 30 40 50 60 MPQTVILPGP APWGFRLSGG IDFNQPLVIT RITPGSKAAA ANLCPGDVIL AIDGFGTESM 70 80 90 100 110 120 THADAQDRIK AAAHQLCLKI DRGETHLWSP QVSEDGKAHP FKINLESEPQ EFKPIGTAHN 130 140 150 160 170 180 RRAQPFVAAA NIDDKRQVVS ASYNSPIGLY STSNIQDALH GQLRGLIPSS PQKTGTTLNT SIIFGPNLS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Actinin-associated LIM protein: identification of a domain interaction between PDZ and spectrin-like repeat motifs." Xia H., Winokur S.T., Kuo W.-L., Altherr M.R., Bredt D.S. J. Cell Biol. 139:507-515(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2), ALTERNATIVE SPLICING, TISSUE SPECIFICITY. Tissue: Skeletal muscle.
[2]	"Exclusion of muscle specific actinin-associated LIM protein (ALP) gene from 4q35 facioscapulohumeral muscular dystrophy (FSHD) candidate genes." Bouju S., Pietu G., Le Cunff M., Cros N., Malzac P., Pellissier J.-F., Pons F., Leger J.-J., Auffray C., Dechesne C.A. Neuromuscul. Disord. 9:3-10(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), SUBCELLULAR LOCATION.
[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].
[4]	"Cloning of human full-length CDSs in BD Creator(TM) system donor vector." Kalnine N., Chen X., Rolfs A., Halleck A., Hines L., Eisenstein S., Koundinya M., Raphael J., Moreira D., Kelley T., LaBaer J., Lin Y., Phelan M., Farmer A. Submitted (MAY-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3).
[5]	Suzuki Y., Sugano S., Totoki Y., Toyoda A., Takeda T., Sakaki Y., Tanaka A., Yokoyama S. Submitted (APR-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Heart.
[6]	Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (SEP-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[7]	"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] (ISOFORMS 2 AND 3). Tissue: Lung and Skin.
[8]	"Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF002280 mRNA. Translation: AAC16670.1. AF002282 mRNA. Translation: AAC16672.1. AF039018 mRNA. Translation: AAB96665.1. AK313253 mRNA. Translation: BAG36063.1. BT007341 mRNA. Translation: AAP36005.1. AK222966 mRNA. Translation: BAD96686.1. CH471056 Genomic DNA. Translation: EAX04641.1. BC001017 mRNA. No translation available. BC027870 mRNA. Translation: AAH27870.1.
IPI	IPI00004471. IPI00015745. IPI00167134.
RefSeq	NP_001107579.1. NM_001114107.4. NP_055291.2. NM_014476.5.
UniGene	Hs.731826.
3D structure databases
ProteinModelPortal	Q53GG5.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q53GG5. 9 interactions.
STRING	9606.ENSP00000284770.
PTM databases
PhosphoSite	Q53GG5.
Polymorphism databases
DMDM	74740479.
Proteomic databases
PaxDb	Q53GG5.
PRIDE	Q53GG5.
Protocols and materials databases
DNASU	27295.
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000284767; ENSP00000284767; ENSG00000154553. ENST00000284770; ENSP00000284770; ENSG00000154553. ENST00000284771; ENSP00000284771; ENSG00000154553.
GeneID	27295.
KEGG	hsa:27295.
UCSC	uc003ixw.4. human. uc003ixx.4. human. uc003ixy.3. human.
Organism-specific databases
CTD	27295.
GeneCards	GC04M186422.
HGNC	HGNC:20767. PDLIM3.
HPA	HPA004749.
MIM	605889. gene.
neXtProt	NX_Q53GG5.
PharmGKB	PA134970631.
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG258467.
HOVERGEN	HBG061371.
InParanoid	Q53GG5.
OMA	SMSEPTA.
OrthoDB	EOG4DR9CT.
PhylomeDB	Q53GG5.
Gene expression databases
ArrayExpress	Q53GG5.
Bgee	Q53GG5.
CleanEx	HS_PDLIM3.
Genevestigator	Q53GG5.
GermOnline	ENSG00000154553. Homo sapiens.
Family and domain databases
Gene3D	2.10.110.10. 1 hit.
InterPro	IPR001478. PDZ. IPR006643. ZASP. IPR001781. Znf_LIM. [Graphical view]
Pfam	PF00412. LIM. 1 hit. PF00595. PDZ. 1 hit. [Graphical view]
SMART	SM00132. LIM. 1 hit. SM00228. PDZ. 1 hit. SM00735. ZM. 1 hit. [Graphical view]
SUPFAM	SSF50156. PDZ. 1 hit.
PROSITE	PS00478. LIM_DOMAIN_1. 1 hit. PS50023. LIM_DOMAIN_2. 1 hit. PS50106. PDZ. 1 hit. [Graphical view]
ProtoNet	Search...
Other
ChiTaRS	PDLIM3. human.
GenomeRNAi	27295.
NextBio	50262.
SOURCE	Search...

Entry information

Entry name

PDLI3_HUMAN

Accession

Primary (citable) accession number: Q53GG5
Secondary accession number(s): B2R866 , O43590, O60439, O60440, Q8N6Y6, Q9BVP4

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 6, 2005
Last sequence update:	May 24, 2005
Last modified:	May 1, 2013
This is version 87 of the entry and version 1 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.