Q9JKS4 (LDB3_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
LIM domain-binding protein 3

Alternative name(s):
Protein cypher
Protein oracle
Z-band alternatively spliced PDZ-motif protein

Gene names

Name:	Ldb3
Synonyms:	Kiaa0613

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

General annotation (Comments)

Function	May function as an adapter in striated muscle to couple protein kinase C-mediated signaling via its LIM domains to the cytoskeleton. Ref.1
Subunit structure	Interacts via its LIM domains with various PKC isoforms. Interacts via its PDZ domain with the ACTN2 C-terminal region. Interacts with MYOZ1, MYOZ2 and MYOZ3. Ref.1 UniProtKB O75112
Subcellular location	Cytoplasm › perinuclear region. Cell projection › pseudopodium. Cytoplasm › cytoskeleton. Cytoplasm › myofibril › sarcomere › Z line. Note: Localized to the cytoplasm around nuclei and pseudopodia of undifferentiated cells and detected throughout the myotubes of differentiated cells. Colocalizes with ACTN2 at the Z-lines. Ref.1
Tissue specificity	Expressed primarily in adult heart and skeletal muscle, and detected at lower levels in lung. Isoforms are expressed in a tissue-specific manner. Isoform 1, isoform 3 and isoform 5 are expressed in heart, whereas isoform 2, isoform 4 and isoform 6 are expressed in skeletal muscle. Ref.1 Ref.2 Ref.3 Ref.4
Developmental stage	Initially expressed in a myocardium-specific manner at 8.5-9 dpc and remains cardiac-restricted until day 12. Strongly expressed throughout heart in all stages examined. At 12.5 dpc expressed at low levels in non-cardiac striated muscles. By day E14.5 expressed at high levels in both cardiac and skeletal muscle, and also strongly expressed in striated muscles of tongue, thoracic and abdominal muscles, leg and diaphragm. The various isoforms are developmentally regulated in both skeletal and cardiac muscle. Isoform 5 and isoform 6, which are barely detectable during embryogenesis are up-regulated postnatally. In heart, isoform 3 is up-regulated developmentally, whereas the predominant isoform 1 is expressed throughout development and into adulthood. In skeletal muscle, the predominant isoform 2 is gradually replaced by isoform 4 postnatally. Ref.1 Ref.4
Sequence similarities	Contains 3 LIM zinc-binding domains. Contains 1 PDZ (DHR) domain.
Sequence caution	The sequence BAB23128.1 differs from that shown. Reason: Sequencing errors. The sequence BAD32258.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Cellular component	Cell projection Cytoplasm Cytoskeleton
Coding sequence diversity	Alternative splicing
Domain	LIM domain Repeat
Ligand	Metal-binding Zinc
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	sarcomere organization Inferred from mutant phenotype PubMed 11696561. Source: MGI
Cellular_component	Z disc Inferred from direct assay PubMed 16481394PubMed 19047374. Source: MGI cytoskeleton Inferred from sequence or structural similarity. Source: UniProtKB perinuclear region of cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell pseudopodium Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	muscle alpha-actinin binding Inferred from direct assay PubMed 11696561. Source: MGI protein kinase C binding Inferred from direct assay Ref.1. Source: UniProtKB zinc ion binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 6 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 Ref.1 (identifier: Q9JKS4-1)

Also known as: Cypher1c; Oracle 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 Ref.4 (identifier: Q9JKS4-2)

Also known as: Cypher1s;

The sequence of this isoform differs from the canonical sequence as follows:
     108-227: DPALDTNGSL...KASGAGLLGG → VVANSPANAD...SDFSGASPLA

Isoform 3 Ref.2 Ref.4 (identifier: Q9JKS4-3)

Also known as: Cypher3c; Oracle 2;

The sequence of this isoform differs from the canonical sequence as follows:
     296-357: Missing.

Isoform 4 Ref.4 (identifier: Q9JKS4-4)

Also known as: Cypher3s;

The sequence of this isoform differs from the canonical sequence as follows:
     108-227: DPALDTNGSL...KASGAGLLGG → VVANSPANAD...SDFSGASPLA
     296-357: Missing.

Isoform 5 Ref.4 (identifier: Q9JKS4-5)

Also known as: Cypher2c;

The sequence of this isoform differs from the canonical sequence as follows:
     296-327: STPIEHAPVCTSQATSPLLPASAQSPAAASPI → RERFETERNSPRFAKLRNWHHGLSAQILNVKS
     328-723: Missing.

Isoform 6 Ref.1 Ref.2 (identifier: Q9JKS4-6)

Also known as: Cypher2s;

The sequence of this isoform differs from the canonical sequence as follows:
     108-227: DPALDTNGSL...KASGAGLLGG → VVANSPANAD...SDFSGASPLA
     296-327: STPIEHAPVCTSQATSPLLPASAQSPAAASPI → RERFETERNSPRFAKLRNWHHGLSAQILNVKS
     328-723: Missing.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 723

723

LIM domain-binding protein 3

PRO_0000075768

Regions

Domain

1 – 84

84

PDZ

Domain

545 – 603

59

LIM zinc-binding 1

Domain

604 – 663

60

LIM zinc-binding 2

Domain

664 – 723

60

LIM zinc-binding 3

Natural variations

Alternative sequence

108 – 227

120

DPALD…GLLGG → VVANSPANADYQERFNPSVL KDSALSTHKPIEVKGLGGKA TIIHAQYNTPISMYSQDAIM DAIAGQAQAQGSDFSGASPL A in isoform 2, isoform 4 and isoform 6. Ref.1 Ref.2 Ref.4

VSP_051903

Alternative sequence

296 – 357

62

Missing in isoform 3 and isoform 4. Ref.3 Ref.4

VSP_051904

Alternative sequence

296 – 327

32

STPIE…AASPI → RERFETERNSPRFAKLRNWH HGLSAQILNVKS in isoform 5 and isoform 6. Ref.1 Ref.2 Ref.4

VSP_051905

Alternative sequence

328 – 723

396

Missing in isoform 5 and isoform 6. Ref.1 Ref.2 Ref.4

VSP_051906

Experimental info

Sequence conflict

108 – 145

38

DPALD…SSFSQ → VVANSPANADYQERFNPSVL KGLSSVLKGLSSVHPQAH in BAB23128. Ref.6

Sequence conflict

450

1

S → T in AAD42950. Ref.1

Sequence conflict

450

1

S → T in AAO26188. Ref.4

Sequence conflict

450

1

S → T in AAO26189. Ref.4

Sequence conflict

512

1

R → W in BAD32258. Ref.5

Isoform 2:

Sequence conflict

176 – 188

13

AQGSD…ASPLA → AQGSDFSG in AAO26189. Ref.4

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

723

Helix Strand Turn

Details...

Beta strand

2 – 10

9

Beta strand

15 – 17

3

Turn

21 – 24

4

Beta strand

28 – 32

5

Helix

37 – 40

4

Beta strand

48 – 54

7

Beta strand

56 – 60

5

Helix

62 – 71

10

Beta strand

74 – 81

8

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 (Cypher1c) (Oracle 1) [UniParc]. Last modified October 1, 2000. Version 1. Checksum: CC67D38AC2FFA6B6	FASTA	723	76,432
	10 20 30 40 50 60 MSYSVTLTGP GPWGFRLQGG KDFNMPLTIS RITPGSKAAQ SQLSQGDLVV AIDGVNTDTM 70 80 90 100 110 120 THLEAQNKIK SASYNLSLTL QKSKRPIPIS TTAPPIQSPL PVIPHQKDPA LDTNGSLATP 130 140 150 160 170 180 SPSPEARASP GALEFGDTFS SSFSQTSVCS PLMEASGPVL PLGSPVAKAS SEGAQGSVSP 190 200 210 220 230 240 KVLPGPSQPR QYNNPIGLYS AETLREMAQM YQMSLRGKAS GAGLLGGSLP VKDLAVDSAS 250 260 270 280 290 300 PVYQAVIKTQ SKPEDEADEW ARRSSNLQSR SFRILAQMTG TEYMQDPDEE ALRRSSTPIE 310 320 330 340 350 360 HAPVCTSQAT SPLLPASAQS PAAASPIAAS PTLATAAATH AAAASAAGPA ASPVENPRPQ 370 380 390 400 410 420 ASAYSPAAAA SPAPSAHTSY SEGPAAPAPK PRVVTTASIR PSVYQPVPAS SYSPSPGANY 430 440 450 460 470 480 SPTPYTPSPA PAYTPSPAPT YTPSPAPTYS PSPAPAYTPS PAPNYTPTPS AAYSGGPSES 490 500 510 520 530 540 ASRPPWVTDD SFSQKFAPGK STTTVSKQTL PRGAPAYNPT GPQVTPLARG TFQRAERFPA 550 560 570 580 590 600 SSRTPLCGHC NNVIRGPFLV AMGRSWHPEE FNCAYCKTSL ADVCFVEEQN NVYCERCYEQ 610 620 630 640 650 660 FFAPICAKCN TKIMGEVMHA LRQTWHTTCF VCAACKKPFG NSLFHMEDGE PYCEKDYINL 670 680 690 700 710 720 FSTKCHGCDF PVEAGDKFIE ALGHTWHDTC FICAVCHVNL EGQPFYSKKD KPLCKKHAHA INV
	Isoform 2 (Cypher1s) [UniParc]. Checksum: B8969D96ECC7C7C5	FASTA	684	72,752
	10 20 30 40 50 60 MSYSVTLTGP GPWGFRLQGG KDFNMPLTIS RITPGSKAAQ SQLSQGDLVV AIDGVNTDTM 70 80 90 100 110 120 THLEAQNKIK SASYNLSLTL QKSKRPIPIS TTAPPIQSPL PVIPHQKVVA NSPANADYQE 130 140 150 160 170 180 RFNPSVLKDS ALSTHKPIEV KGLGGKATII HAQYNTPISM YSQDAIMDAI AGQAQAQGSD 190 200 210 220 230 240 FSGASPLASL PVKDLAVDSA SPVYQAVIKT QSKPEDEADE WARRSSNLQS RSFRILAQMT 250 260 270 280 290 300 GTEYMQDPDE EALRRSSTPI EHAPVCTSQA TSPLLPASAQ SPAAASPIAA SPTLATAAAT 310 320 330 340 350 360 HAAAASAAGP AASPVENPRP QASAYSPAAA ASPAPSAHTS YSEGPAAPAP KPRVVTTASI 370 380 390 400 410 420 RPSVYQPVPA SSYSPSPGAN YSPTPYTPSP APAYTPSPAP TYTPSPAPTY SPSPAPAYTP 430 440 450 460 470 480 SPAPNYTPTP SAAYSGGPSE SASRPPWVTD DSFSQKFAPG KSTTTVSKQT LPRGAPAYNP 490 500 510 520 530 540 TGPQVTPLAR GTFQRAERFP ASSRTPLCGH CNNVIRGPFL VAMGRSWHPE EFNCAYCKTS 550 560 570 580 590 600 LADVCFVEEQ NNVYCERCYE QFFAPICAKC NTKIMGEVMH ALRQTWHTTC FVCAACKKPF 610 620 630 640 650 660 GNSLFHMEDG EPYCEKDYIN LFSTKCHGCD FPVEAGDKFI EALGHTWHDT CFICAVCHVN 670 680 LEGQPFYSKK DKPLCKKHAH AINV
	Isoform 3 (Cypher3c) (Oracle 2) [UniParc]. Checksum: 5DEFEEE78D45532F	FASTA	661	70,751
	10 20 30 40 50 60 MSYSVTLTGP GPWGFRLQGG KDFNMPLTIS RITPGSKAAQ SQLSQGDLVV AIDGVNTDTM 70 80 90 100 110 120 THLEAQNKIK SASYNLSLTL QKSKRPIPIS TTAPPIQSPL PVIPHQKDPA LDTNGSLATP 130 140 150 160 170 180 SPSPEARASP GALEFGDTFS SSFSQTSVCS PLMEASGPVL PLGSPVAKAS SEGAQGSVSP 190 200 210 220 230 240 KVLPGPSQPR QYNNPIGLYS AETLREMAQM YQMSLRGKAS GAGLLGGSLP VKDLAVDSAS 250 260 270 280 290 300 PVYQAVIKTQ SKPEDEADEW ARRSSNLQSR SFRILAQMTG TEYMQDPDEE ALRRSRPQAS 310 320 330 340 350 360 AYSPAAAASP APSAHTSYSE GPAAPAPKPR VVTTASIRPS VYQPVPASSY SPSPGANYSP 370 380 390 400 410 420 TPYTPSPAPA YTPSPAPTYT PSPAPTYSPS PAPAYTPSPA PNYTPTPSAA YSGGPSESAS 430 440 450 460 470 480 RPPWVTDDSF SQKFAPGKST TTVSKQTLPR GAPAYNPTGP QVTPLARGTF QRAERFPASS 490 500 510 520 530 540 RTPLCGHCNN VIRGPFLVAM GRSWHPEEFN CAYCKTSLAD VCFVEEQNNV YCERCYEQFF 550 560 570 580 590 600 APICAKCNTK IMGEVMHALR QTWHTTCFVC AACKKPFGNS LFHMEDGEPY CEKDYINLFS 610 620 630 640 650 660 TKCHGCDFPV EAGDKFIEAL GHTWHDTCFI CAVCHVNLEG QPFYSKKDKP LCKKHAHAIN V
	Isoform 4 (Cypher3s) [UniParc]. Checksum: ABC92BB80C3B9903	FASTA	622	67,071
	10 20 30 40 50 60 MSYSVTLTGP GPWGFRLQGG KDFNMPLTIS RITPGSKAAQ SQLSQGDLVV AIDGVNTDTM 70 80 90 100 110 120 THLEAQNKIK SASYNLSLTL QKSKRPIPIS TTAPPIQSPL PVIPHQKVVA NSPANADYQE 130 140 150 160 170 180 RFNPSVLKDS ALSTHKPIEV KGLGGKATII HAQYNTPISM YSQDAIMDAI AGQAQAQGSD 190 200 210 220 230 240 FSGASPLASL PVKDLAVDSA SPVYQAVIKT QSKPEDEADE WARRSSNLQS RSFRILAQMT 250 260 270 280 290 300 GTEYMQDPDE EALRRSRPQA SAYSPAAAAS PAPSAHTSYS EGPAAPAPKP RVVTTASIRP 310 320 330 340 350 360 SVYQPVPASS YSPSPGANYS PTPYTPSPAP AYTPSPAPTY TPSPAPTYSP SPAPAYTPSP 370 380 390 400 410 420 APNYTPTPSA AYSGGPSESA SRPPWVTDDS FSQKFAPGKS TTTVSKQTLP RGAPAYNPTG 430 440 450 460 470 480 PQVTPLARGT FQRAERFPAS SRTPLCGHCN NVIRGPFLVA MGRSWHPEEF NCAYCKTSLA 490 500 510 520 530 540 DVCFVEEQNN VYCERCYEQF FAPICAKCNT KIMGEVMHAL RQTWHTTCFV CAACKKPFGN 550 560 570 580 590 600 SLFHMEDGEP YCEKDYINLF STKCHGCDFP VEAGDKFIEA LGHTWHDTCF ICAVCHVNLE 610 620 GQPFYSKKDK PLCKKHAHAI NV
	Isoform 5 (Cypher2c) [UniParc]. Checksum: 603BEF5D6152B848	FASTA	327	35,108
	10 20 30 40 50 60 MSYSVTLTGP GPWGFRLQGG KDFNMPLTIS RITPGSKAAQ SQLSQGDLVV AIDGVNTDTM 70 80 90 100 110 120 THLEAQNKIK SASYNLSLTL QKSKRPIPIS TTAPPIQSPL PVIPHQKDPA LDTNGSLATP 130 140 150 160 170 180 SPSPEARASP GALEFGDTFS SSFSQTSVCS PLMEASGPVL PLGSPVAKAS SEGAQGSVSP 190 200 210 220 230 240 KVLPGPSQPR QYNNPIGLYS AETLREMAQM YQMSLRGKAS GAGLLGGSLP VKDLAVDSAS 250 260 270 280 290 300 PVYQAVIKTQ SKPEDEADEW ARRSSNLQSR SFRILAQMTG TEYMQDPDEE ALRRSRERFE 310 320 TERNSPRFAK LRNWHHGLSA QILNVKS
	Isoform 6 (Cypher2s) [UniParc]. Checksum: 65B11275409291B6	FASTA	288	31,427
	10 20 30 40 50 60 MSYSVTLTGP GPWGFRLQGG KDFNMPLTIS RITPGSKAAQ SQLSQGDLVV AIDGVNTDTM 70 80 90 100 110 120 THLEAQNKIK SASYNLSLTL QKSKRPIPIS TTAPPIQSPL PVIPHQKVVA NSPANADYQE 130 140 150 160 170 180 RFNPSVLKDS ALSTHKPIEV KGLGGKATII HAQYNTPISM YSQDAIMDAI AGQAQAQGSD 190 200 210 220 230 240 FSGASPLASL PVKDLAVDSA SPVYQAVIKT QSKPEDEADE WARRSSNLQS RSFRILAQMT 250 260 270 280 GTEYMQDPDE EALRRSRERF ETERNSPRFA KLRNWHHGLS AQILNVKS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Cypher, a striated muscle-restricted PDZ and LIM domain-containing protein, binds to alpha-actinin-2 and protein kinase C." Zhou Q., Ruiz-Lozano P., Martone M.E., Chen J. J. Biol. Chem. 274:19807-19813(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 6), INTERACTION WITH ACTN2 AND PKC, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE. Strain: NIH Swiss. Tissue: Heart and Skeletal muscle.
[2]	"ZASP: a new Z-band alternatively spliced PDZ-motif protein." Faulkner G., Pallavicini A., Formentin E., Comelli A., Ievolella C., Trevisan S., Bortoletto G., Scannapieco P., Salamon M., Mouly V., Valle G., Lanfranchi G. J. Cell Biol. 146:465-475(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 6), TISSUE SPECIFICITY. Tissue: Diaphragm.
[3]	"Oracle, a novel PDZ-LIM domain protein expressed in heart and skeletal muscle." Passier R., Richardson J.A., Olson E.N. Mech. Dev. 92:277-284(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 3), TISSUE SPECIFICITY. Tissue: Heart.
[4]	"Characterization and in vivo functional analysis of splice variants of cypher." Huang C., Zhou Q., Liang P., Hollander M.S., Sheikh F., Li X., Greaser M., Shelton G.D., Evans S., Chen J. J. Biol. Chem. 278:7360-7365(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2; 3; 4 AND 5), TISSUE SPECIFICITY, DEVELOPMENTAL STAGE. Strain: NIH Swiss. Tissue: Heart and Skeletal muscle.
[5]	"Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries." Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S., Saga Y., Seino S., Nishimura M., Kaisho T., Hoshino K., Kitamura H., Nagase T., Ohara O., Koga H. DNA Res. 11:205-218(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Tissue: Fetal brain.
[6]	"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 AND 5), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-145. Strain: C57BL/6J. Tissue: Embryo, Heart and Urinary bladder.
[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 1; 3 AND 6). Strain: C57BL/6J. Tissue: Lung and Mammary gland.
[8]	"Solution structure of PDZ domain of mouse cypher protein." RIKEN structural genomics initiative (RSGI) Submitted (MAY-2004) to the PDB data bank Cited for: STRUCTURE BY NMR OF 1-83.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AF114378 mRNA. Translation: AAD42950.2.
AF114379 mRNA. Translation: AAD42951.2.
AJ005621 mRNA. Translation: CAB46747.1.
AF228057 mRNA. Translation: AAF33847.1.
AF228058 mRNA. Translation: AAF33848.1.
AY206011 mRNA. Translation: AAO26187.1.
AY206012 mRNA. Translation: AAO26188.1.
AY206013 mRNA. Translation: AAO26189.1.
AY206015 mRNA. Translation: AAO26190.1.
AK172980 mRNA. Translation: BAD32258.1. Different initiation.
AK004020 mRNA. Translation: BAB23128.1. Sequence problems.
AK137181 mRNA. Translation: BAE23262.1.
AK142292 mRNA. Translation: BAE25016.1.
BC099596 mRNA. Translation: AAH99596.1.
BC138793 mRNA. Translation: AAI38794.1.
BC145420 mRNA. Translation: AAI45421.1.

IPI

IPI00123369.
IPI00323030.
IPI00403041.
IPI00621572.
IPI00625287.
IPI00656173.

RefSeq

NP_001034160.1. NM_001039071.2.
NP_001034161.1. NM_001039072.2.
NP_001034162.1. NM_001039073.2.
NP_001034163.1. NM_001039074.2.
NP_001034164.1. NM_001039075.2.
NP_001034165.1. NM_001039076.2.
NP_036048.3. NM_011918.4.

UniGene

Mm.29733.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1WJL	NMR	-	A	1-83	[»]

ProteinModelPortal

Q9JKS4.

SMR

Q9JKS4. Positions 5-83, 533-691.

ModBase

Search...

Protein-protein interaction databases

IntAct

Q9JKS4. 1 interaction.

MINT

MINT-97840.

PTM databases

PhosphoSite

Q9JKS4.

Proteomic databases

PaxDb

Q9JKS4.

PRIDE

Q9JKS4.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENSMUST00000022327; ENSMUSP00000022327; ENSMUSG00000021798.
ENSMUST00000022328; ENSMUSP00000022328; ENSMUSG00000021798.
ENSMUST00000022330; ENSMUSP00000022330; ENSMUSG00000021798.
ENSMUST00000090040; ENSMUSP00000087494; ENSMUSG00000021798.

GeneID

24131.

KEGG

mmu:24131.

UCSC

uc007taz.1. mouse.
uc007tba.1. mouse.
uc007tbc.1. mouse.
uc007tbd.1. mouse.
uc007tbe.1. mouse.
uc007tbf.1. mouse.

Organism-specific databases

CTD

11155.

MGI

MGI:1344412. Ldb3.

Rouge

Search...

Phylogenomic databases

eggNOG

NOG286537.

GeneTree

ENSGT00700000104411.

HOVERGEN

HBG051478.

InParanoid

B2RSB0.

OMA

CTSQATT.

OrthoDB

EOG4GTKDQ.

Gene expression databases

ArrayExpress

Q9JKS4.

Bgee

Q9JKS4.

CleanEx

MM_LDB3.

Genevestigator

Q9JKS4.

GermOnline

ENSMUSG00000021798. Mus musculus.

Family and domain databases

Gene3D

2.10.110.10. 3 hits.

InterPro

IPR001478. PDZ.
IPR006643. ZASP.
IPR001781. Znf_LIM.
[Graphical view]

Pfam

PF00412. LIM. 3 hits.
PF00595. PDZ. 1 hit.
[Graphical view]

SMART

SM00132. LIM. 3 hits.
SM00228. PDZ. 1 hit.
SM00735. ZM. 1 hit.
[Graphical view]

SUPFAM

SSF50156. PDZ. 1 hit.

PROSITE

PS00478. LIM_DOMAIN_1. 2 hits.
PS50023. LIM_DOMAIN_2. 3 hits.
PS50106. PDZ. 1 hit.
[Graphical view]

ProtoNet

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Other

EvolutionaryTrace

Q9JKS4.

NextBio

304169.

SOURCE

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Entry information

Entry name

LDB3_MOUSE

Accession

Primary (citable) accession number: Q9JKS4
Secondary accession number(s): B2RSB0 , B7ZNT6, Q6A038, Q811P2, Q811P3, Q811P4, Q811P5, Q9D130, Q9JKS3, Q9R0Z1, Q9WVH1, Q9WVH2

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 6, 2005
Last sequence update:	October 1, 2000
Last modified:	May 1, 2013
This is version 102 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program