PDLIM7 (PDZ and LIM domain 7)

Gene

• Entrez ID: 9260
• Gene name: PDZ and LIM domain 7
• Gene symbol: PDLIM7
• Synonyms: LMP1, LMP3
• Chromosome: 5
• Chromosome location: 5q35.3
• Summary: The protein encoded by this gene is representative of a family of proteins composed of conserved PDZ and LIM domains. LIM domains are proposed to function in protein-protein recognition in a variety of contexts including gene transcription and development

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT001351	hsa-miR-1-3p	pSILAC	18668040
MIRT006185	ebv-miR-BHRF1-2-3p	Immunoprecipitaion, qRT-PCR, Western blot	21379335
MIRT006185	ebv-miR-BHRF1-2-3p	Immunoprecipitaion, qRT-PCR, Western blot	21379335
MIRT006185	ebv-miR-BHRF1-2-3p	Immunoprecipitaion, qRT-PCR, Western blot	21379335
MIRT002914	hsa-miR-124-3p	Proteomics;Microarray	18668037
MIRT001351	hsa-miR-1-3p	Proteomics;Microarray	18668037
MIRT001351	hsa-miR-1-3p	Proteomics	18668040
MIRT028432	hsa-miR-30a-5p	Proteomics	18668040
MIRT030427	hsa-miR-24-3p	Microarray	19748357
MIRT045848	hsa-miR-132-3p	CLASH	23622248
MIRT054644	hsa-miR-17-5p	Luciferase reporter assay, qRT-PCR, Western blot	24257599
MIRT440011	hsa-miR-218-5p	HITS-CLIP	23212916
MIRT440011	hsa-miR-218-5p	HITS-CLIP	23212916
MIRT1222313	hsa-miR-1225-3p	CLIP-seq
MIRT1222314	hsa-miR-1915	CLIP-seq
MIRT1222315	hsa-miR-3065-3p	CLIP-seq
MIRT1222316	hsa-miR-3155	CLIP-seq
MIRT1222317	hsa-miR-3155b	CLIP-seq
MIRT1222318	hsa-miR-3165	CLIP-seq
MIRT1222319	hsa-miR-3181	CLIP-seq
MIRT1222320	hsa-miR-323-5p	CLIP-seq
MIRT1222321	hsa-miR-4270	CLIP-seq
MIRT1222322	hsa-miR-4323	CLIP-seq
MIRT1222323	hsa-miR-4441	CLIP-seq
MIRT1222324	hsa-miR-4640-5p	CLIP-seq
MIRT1222325	hsa-miR-4726-5p	CLIP-seq
MIRT1222326	hsa-miR-484	CLIP-seq
MIRT1222327	hsa-miR-876-3p	CLIP-seq
MIRT1222328	hsa-let-7a	CLIP-seq
MIRT1222329	hsa-let-7b	CLIP-seq
MIRT1222330	hsa-let-7c	CLIP-seq
MIRT1222331	hsa-let-7d	CLIP-seq
MIRT1222332	hsa-let-7e	CLIP-seq
MIRT1222333	hsa-let-7f	CLIP-seq
MIRT1222334	hsa-let-7g	CLIP-seq
MIRT1222335	hsa-let-7i	CLIP-seq
MIRT1222336	hsa-miR-1294	CLIP-seq
MIRT1222337	hsa-miR-202	CLIP-seq
MIRT1222338	hsa-miR-2682	CLIP-seq
MIRT1222339	hsa-miR-298	CLIP-seq
MIRT1222340	hsa-miR-4458	CLIP-seq
MIRT1222341	hsa-miR-449c	CLIP-seq
MIRT1222342	hsa-miR-4500	CLIP-seq
MIRT1222343	hsa-miR-4710	CLIP-seq
MIRT1222344	hsa-miR-940	CLIP-seq
MIRT1222345	hsa-miR-98	CLIP-seq
MIRT2064421	hsa-miR-124	CLIP-seq
MIRT1222319	hsa-miR-3181	CLIP-seq
MIRT2064422	hsa-miR-3714	CLIP-seq
MIRT2064423	hsa-miR-3910	CLIP-seq
MIRT1222324	hsa-miR-4640-5p	CLIP-seq
MIRT1222325	hsa-miR-4726-5p	CLIP-seq
MIRT2064424	hsa-miR-506	CLIP-seq
MIRT2064425	hsa-miR-665	CLIP-seq
MIRT2292754	hsa-miR-583	CLIP-seq
MIRT2392335	hsa-miR-138	CLIP-seq
MIRT1222315	hsa-miR-3065-3p	CLIP-seq
MIRT1222318	hsa-miR-3165	CLIP-seq
MIRT1222320	hsa-miR-323-5p	CLIP-seq
MIRT2392336	hsa-miR-3650	CLIP-seq
MIRT2392337	hsa-miR-3689d	CLIP-seq
MIRT2392338	hsa-miR-4435	CLIP-seq
MIRT2392339	hsa-miR-4492	CLIP-seq
MIRT2392340	hsa-miR-4498	CLIP-seq
MIRT2392341	hsa-miR-488	CLIP-seq
MIRT2392342	hsa-miR-644	CLIP-seq
MIRT2392343	hsa-miR-663b	CLIP-seq
MIRT2392344	hsa-miR-762	CLIP-seq
MIRT1222327	hsa-miR-876-3p	CLIP-seq
MIRT2590757	hsa-miR-3688-5p	CLIP-seq
MIRT2392337	hsa-miR-3689d	CLIP-seq
MIRT2590758	hsa-miR-4474-3p	CLIP-seq
MIRT2590757	hsa-miR-3688-5p	CLIP-seq
MIRT2392337	hsa-miR-3689d	CLIP-seq
MIRT2590758	hsa-miR-4474-3p	CLIP-seq

Transcription factors

Transcription factor	Regulation	Reference
IRF5	Repression	16140744

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0001503	Process	Ossification	IEA
GO:0001725	Component	Stress fiber	IBA	21873635
GO:0001726	Component	Ruffle	IEA
GO:0003779	Function	Actin binding	IBA	21873635
GO:0005515	Function	Protein binding	IPI	16189514, 16713569, 23088713, 25036637, 25416956, 28514442, 29892012, 31515488, 32296183
GO:0005654	Component	Nucleoplasm	IDA
GO:0005829	Component	Cytosol	TAS
GO:0005912	Component	Adherens junction	IBA	21873635
GO:0005912	Component	Adherens junction	IDA	25468996
GO:0005925	Component	Focal adhesion	IDA
GO:0006898	Process	Receptor-mediated endocytosis	TAS	7929196
GO:0007411	Process	Axon guidance	TAS
GO:0007507	Process	Heart development	IBA	21873635
GO:0015629	Component	Actin cytoskeleton	IDA
GO:0030018	Component	Z disc	IBA	21873635
GO:0030036	Process	Actin cytoskeleton organization	IBA	21873635
GO:0031941	Component	Filamentous actin	IBA	21873635
GO:0045669	Process	Positive regulation of osteoblast differentiation	IEA
GO:0046872	Function	Metal ion binding	IEA
GO:0051371	Function	Muscle alpha-actinin binding	IBA	21873635
GO:0061061	Process	Muscle structure development	IBA	21873635

Other IDs

• MIM: 605903
• HGNC: 22958
• e!Ensembl: ENSG00000196923

Protein

• UniProt ID: Q9NR12
• Protein name: PDZ and LIM domain protein 7 (LIM mineralization protein) (LMP) (Protein enigma)
• Protein function: May function as a scaffold on which the coordinated assembly of proteins can occur. May play a role as an adapter that, via its PDZ domain, localizes LIM-binding proteins to actin filaments of both skeletal muscle and nonmuscle tissues. Involved
• PDB: 2Q3G, 7RM8
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF00595	PDZ	3 → 82	PDZ domain	Domain
  PF00412	LIM	282 → 337	LIM domain	Domain
  PF00412	LIM	341 → 396	LIM domain	Domain
  PF00412	LIM	400 → 457	LIM domain	Domain

• Sequence:

  MDSFKVVLEGPAPWGFRLQGGKDFNVPLSISRLTPGGKAAQAGVAVGDWVLSIDGENAGS
  LTHIEAQNKIRACGERLSLGLSRAQPVQSKPQKASAPAADPPRYTFAPSVSLNKTARPFG
  APPPADSAPQQNGQPLRPLVPDASKQRLMENTEDWRPRPGTGQSRSFRILAHLTGTEFMQ
  DPDEEHLKKSSQVPRTEAPAPASSTPQEPWPGPTAPSPTSRPPWAVDPAFAERYAPDKTS
  TVLTRHSQPATPTPLQSRTSIVQAAAGGVPGGGSNNGKTPVCHQCHKVIRGRYLVALGHA
  YHPEEFVCSQCGKVLEEGGFFEEKGAIFCPPCYDVRYAPSCAKCKKKITGEIMHALKMTW
  HVHCFTCAACKTPIRNRAFYMEEGVPYCERDYEKMFGTKCHGCDFKIDAGDRFLEALGFS
  WHDTCFVCAICQINLEGKTFYSKKDRPLCKSHAFSHV

• Sequence length: 457

Pathways

KEGG:

Cytoskeleton in muscle cells

Reactome:

RET signaling

Associated diseases

Causal
Disease name	Disease term	dbSNP ID	References
Breast cancer	Malignant neoplasm of breast	rs587776547, rs1137887, rs137853007, rs587776650, rs80359351, rs80359714, rs121917783, rs104886456, rs121964878, rs80359874, rs80357868, rs80357508, rs387906843, rs80357569, rs80358158, rs80357524, rs80357115, rs80357945, rs80357729, rs80357609, rs80357259, rs80357981, rs80358063, rs80357389, rs80356862, rs80359876, rs80357580, rs80358053, rs80358089, rs80187739, rs397507241, rs80358069, rs80357590, rs80357284, rs80357941, rs80359261, rs80359272, rs80359276, rs276174813, rs80358474, rs80359316, rs1555282969, rs80359388, rs80359499, rs80359505, rs80359520, rs80359526, rs80359533, rs56253082, rs80358824, rs80359554, rs80359636, rs80359651, rs80359659, rs80359011, rs80359012, rs80359013, rs80359718, rs397507410, rs81002812, rs80359730, rs80359152, rs80359159, rs397507419, rs28897759, rs80359211, rs80359775, rs397514577, rs397507584, rs80358435, rs80358456, rs80359340, rs80359343, rs80359365, rs80358579, rs397507670, rs80358593, rs80359406, rs80359444, rs80359454, rs276174853, rs276174854, rs80359483, rs80359537, rs80358815, rs80358843, rs80359558, rs80359560, rs80359594, rs80358893, rs28897743, rs397507900, rs397507906, rs397507918, rs80358971, rs80358981, rs397507941, rs80359030, rs80359035, rs41293511, rs397507396, rs81002806, rs80359112, rs397508006, rs81002893, rs45580035, rs80359760, rs397508051, rs80359772, rs4987049, rs80359777, rs80357770, rs397508867, rs62625303, rs397508874, rs80357506, rs80357287, rs273898674, rs80358042, rs80358083, rs80357058, rs41286296, rs80357960, rs80356945, rs80357223, rs386134270, rs80358116, rs80357856, rs80357424, rs397509050, rs80357485, rs80357966, rs397509067, rs80357310, rs80356866, rs80357260, rs80357437, rs80358023, rs80358086, rs80357133, rs80356993, rs80357997, rs80357239, rs80357227, rs397509243, rs80356969, rs80356959, rs63750617, rs63751319, rs587779315, rs200640585, rs398122546, rs80357543, rs398122687, rs80359328, rs398122779, rs398122783, rs62517194, rs80358029, rs515726060, rs180177103, rs180177111, rs180177133, rs587776527, rs180177135, rs180177136, rs515726117, rs587779813, rs587779909, rs587780024, rs587780100, rs28909982, rs121908698, rs180177100, rs587780210, rs587780240, rs587780639, rs587781269, rs587781353, rs587781471, rs587781658, rs587781697, rs587781730, rs587781894, rs587781948, rs587782005, rs587782011, rs200928781, rs587781558, rs370228071, rs587782245, rs587782401, rs180177110, rs587782504, rs72552322, rs587782531, rs587782620, rs587782680, rs587782774, rs587782818, rs730881411, rs730881389, rs564652222, rs397507768, rs587776419, rs730881868, rs730881940, rs56383036, rs758972589, rs201089102, rs730881348, rs786202608, rs786201886, rs786203318, rs786203775, rs786203714, rs786202033, rs750621215, rs786203884, rs786203650, rs772821016, rs863224521, rs864622223, rs864622655, rs375699023, rs876659572, rs768362387, rs876659535, rs876658957, rs483353072, rs876659435, rs267608041, rs876661113, rs730881369, rs878853535, rs772228129, rs878855122, rs760551339, rs80359596, rs397509222, rs886039630, rs886039683, rs886040828, rs587781799, rs886040374, rs886040649, rs397507967, rs878854957, rs886040043, rs1057517589, rs1060502769, rs866380588, rs863224765, rs1064793243, rs747563556, rs1555074976, rs1064795885, rs753961188, rs1064794708, rs869312772, rs1064793887, rs1131690820, rs1135401928, rs1135401868, rs1135401859, rs1553370324, rs397507630, rs1555283160, rs1555283251, rs1555283262, rs1555283361, rs1555286298, rs1555288462, rs886040950, rs1555289566, rs776323117, rs80357123, rs1555579627, rs1555580697, rs80358054, rs1555593302, rs1328985852, rs763470424, rs1555139694, rs878854697, rs1555461217, rs1555461765, rs774684620, rs766416564, rs1554558613, rs1305740166, rs1555461460, rs1555461407, rs1555461586, rs1555567202, rs1555607022, rs1555069815, rs1442299125, rs1474786480, rs1555084947, rs1555457867, rs141087784, rs1482641121, rs1564830522, rs1565469955, rs1565503137, rs864622613, rs755263466, rs757679199, rs1593903166, rs1597801649, rs1603293306, rs879253880, rs80358754, rs1597062038, rs45494092, rs1603275367, rs887358871, rs1597091518, rs1966967065, rs1064793049, rs2082872908, rs2085078278, rs2072475243