Reviewed, UniProtKB/Swiss-Prot O94929 (ABLM3_HUMAN)

Names and origin

Protein names

Recommended name:
    Actin-binding LIM protein 3
Alternative name(s):
    Actin-binding LIM protein family member 3
      Short name=abLIM-3

Gene names

Name:	ABLIM3
Synonyms:	KIAA0843
ORF Names:	HMFN1661

Organism

Homo sapiens (Human)

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

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

Protein attributes

Sequence length	683 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	May act as scaffold protein. May stimulate ABRA activity and ABRA-dependent SRF transcriptional activity.
Subunit structure	Directly interacts with F-actin and ABRA.
Subcellular location	CytoplasmBy similarity.
Tissue specificity	Expressed predominantly in heart and brain.
Sequence similarities	Contains 1 HP (headpiece) domain. Contains 4 LIM zinc-binding domains.

Ontologies

Keywords
Cellular component	Cytoplasm
Coding sequence diversity	Alternative splicing
Domain	LIM domain Repeat
Ligand	Metal-binding Zinc
PTM	Phosphoprotein
Technical term	3D-structure
Gene Ontology (GO)
Biological process	cytoskeleton organization Inferred from electronic annotation. Source: InterPro
Cellular component	cytoplasm Non-traceable author statement. Source: UniProtKB
Molecular function	actin binding Inferred from electronic annotation. Source: InterPro zinc ion binding Non-traceable author statement. Source: UniProtKB
Complete GO annotation...

Alternative products

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

Isoform 1 (identifier: O94929-1)

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 (identifier: O94929-2)

The sequence of this isoform differs from the canonical sequence as follows:
     297-358: Missing.
     402-450: Missing.
     647-683: RHLSQEEFYQVFGMTISEFDRLALWKRNELKKQARLF → GNFWKSGCL

Notes: No experimental confirmation available.

Isoform 3 (identifier: O94929-3)

The sequence of this isoform differs from the canonical sequence as follows:
     297-358: Missing.
     402-434: Missing.

Notes: No experimental confirmation available.

Isoform 4 (identifier: O94929-4)

The sequence of this isoform differs from the canonical sequence as follows:
     1-514: Missing.

Notes: No experimental confirmation available.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 683

683

Actin-binding LIM protein 3

PRO_0000075702

Regions

Domain

21 – 80

60

LIM zinc-binding 1

Domain

80 – 140

61

LIM zinc-binding 2

Domain

149 – 208

60

LIM zinc-binding 3

Domain

208 – 268

61

LIM zinc-binding 4

Domain

615 – 683

69

HP

Amino acid modifications

Modified residue

277

1

Phosphoserine By similarity

Modified residue

280

1

Phosphoserine By similarity

Modified residue

282

1

Phosphoserine By similarity

Modified residue

372

1

Phosphoserine

Modified residue

373

1

Phosphoserine

Modified residue

388

1

Phosphoserine

Modified residue

394

1

Phosphoserine

Modified residue

503

1

Phosphoserine

Modified residue

504

1

Phosphoserine

Natural variations

Alternative sequence

1 – 514

514

Missing in isoform 4.

VSP_012126

Alternative sequence

297 – 358

62

Missing in isoform 2 and isoform 3.

VSP_012127

Alternative sequence

402 – 450

49

Missing in isoform 2.

VSP_012128

Alternative sequence

402 – 434

33

Missing in isoform 3.

VSP_012129

Alternative sequence

647 – 683

37

RHLSQ…QARLF → GNFWKSGCL in isoform 2.

VSP_012130

Experimental info

Sequence conflict

227

1

K → R in BAF82425. Ref.3

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

683

Helix Strand Turn

Details...

Turn

623 – 626

4

Turn

630 – 633

4

Turn

642 – 644

3

Helix

645 – 648

4

Helix

653 – 658

6

Helix

662 – 665

4

Helix

670 – 679

10

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified December 7, 2004. Version 3. Checksum: 0392DBD9065EE08A	FASTA	683	77,802
	10 20 30 40 50 60 MNTSIPYQQN PYNPRGSSNV IQCYRCGDTC KGEVVRVHNN HFHIRCFTCQ VCGCGLAQSG 70 80 90 100 110 120 FFFKNQEYIC TQDYQQLYGT RCDSCRDFIT GEVISALGRT YHPKCFVCSL CRKPFPIGDK 130 140 150 160 170 180 VTFSGKECVC QTCSQSMASS KPIKIRGPSH CAGCKEEIKH GQSLLALDKQ WHVSCFKCQT 190 200 210 220 230 240 CSVILTGEYI SKDGVPYCES DYHAQFGIKC ETCDRYISGR VLEAGGKHYH PTCARCVRCH 250 260 270 280 290 300 QMFTEGEEMY LTGSEVWHPI CKQAARAEKK LKHRRTSETS ISPPGSSIGS PNRVICAKVD 310 320 330 340 350 360 NEILNYKDLA ALPKVKSIYE VQRPDLISYE PHSRYMSDEM LERCGYGESL GTLSPYSQDI 370 380 390 400 410 420 YENLDLRQRR ASSPGYIDSP TYSRQGMSPT FSRSPHHYYR SGPESGRSSP YHSQLDVRSS 430 440 450 460 470 480 TPTSYQAPKH FHIPAGDSNI YRKPPIYKRH GDLSTATKSK TSEDISQTSK YSPIYSPDPY 490 500 510 520 530 540 YASESEYWTY HGSPKVPRAR RFSSGGEEDD FDRSMHKLQS GIGRLILKEE MKARSSSYAD 550 560 570 580 590 600 PWTPPRSSTS SREALHTAGY EMSLNGSPRS HYLADSDPLI SKSASLPAYR RNGLHRTPSA 610 620 630 640 650 660 DLFHYDSMNA VNWGMREYKI YPYELLLVTT RGRNRLPKDV DRTRLERHLS QEEFYQVFGM 670 680 TISEFDRLAL WKRNELKKQA RLF
	Isoform 2 [UniParc]. Checksum: E6A19F001BF02176		544	61,570
	10 20 30 40 50 60 MNTSIPYQQN PYNPRGSSNV IQCYRCGDTC KGEVVRVHNN HFHIRCFTCQ VCGCGLAQSG 70 80 90 100 110 120 FFFKNQEYIC TQDYQQLYGT RCDSCRDFIT GEVISALGRT YHPKCFVCSL CRKPFPIGDK 130 140 150 160 170 180 VTFSGKECVC QTCSQSMASS KPIKIRGPSH CAGCKEEIKH GQSLLALDKQ WHVSCFKCQT 190 200 210 220 230 240 CSVILTGEYI SKDGVPYCES DYHAQFGIKC ETCDRYISGR VLEAGGKHYH PTCARCVRCH 250 260 270 280 290 300 QMFTEGEEMY LTGSEVWHPI CKQAARAEKK LKHRRTSETS ISPPGSSIGS PNRVICDIYE 310 320 330 340 350 360 NLDLRQRRAS SPGYIDSPTY SRQGMSPTFS RSPHHYYRSG DLSTATKSKT SEDISQTSKY 370 380 390 400 410 420 SPIYSPDPYY ASESEYWTYH GSPKVPRARR FSSGGEEDDF DRSMHKLQSG IGRLILKEEM 430 440 450 460 470 480 KARSSSYADP WTPPRSSTSS REALHTAGYE MSLNGSPRSH YLADSDPLIS KSASLPAYRR 490 500 510 520 530 540 NGLHRTPSAD LFHYDSMNAV NWGMREYKIY PYELLLVTTR GRNRLPKDVD RTRLEGNFWK SGCL
	Isoform 3 [UniParc]. Checksum: 858F0D8EA50B1A57		588	67,073
	10 20 30 40 50 60 MNTSIPYQQN PYNPRGSSNV IQCYRCGDTC KGEVVRVHNN HFHIRCFTCQ VCGCGLAQSG 70 80 90 100 110 120 FFFKNQEYIC TQDYQQLYGT RCDSCRDFIT GEVISALGRT YHPKCFVCSL CRKPFPIGDK 130 140 150 160 170 180 VTFSGKECVC QTCSQSMASS KPIKIRGPSH CAGCKEEIKH GQSLLALDKQ WHVSCFKCQT 190 200 210 220 230 240 CSVILTGEYI SKDGVPYCES DYHAQFGIKC ETCDRYISGR VLEAGGKHYH PTCARCVRCH 250 260 270 280 290 300 QMFTEGEEMY LTGSEVWHPI CKQAARAEKK LKHRRTSETS ISPPGSSIGS PNRVICDIYE 310 320 330 340 350 360 NLDLRQRRAS SPGYIDSPTY SRQGMSPTFS RSPHHYYRSA GDSNIYRKPP IYKRHGDLST 370 380 390 400 410 420 ATKSKTSEDI SQTSKYSPIY SPDPYYASES EYWTYHGSPK VPRARRFSSG GEEDDFDRSM 430 440 450 460 470 480 HKLQSGIGRL ILKEEMKARS SSYADPWTPP RSSTSSREAL HTAGYEMSLN GSPRSHYLAD 490 500 510 520 530 540 SDPLISKSAS LPAYRRNGLH RTPSADLFHY DSMNAVNWGM REYKIYPYEL LLVTTRGRNR 550 560 570 580 LPKDVDRTRL ERHLSQEEFY QVFGMTISEF DRLALWKRNE LKKQARLF
	Isoform 4 [UniParc]. Checksum: 18F1F045422E1552		169	19,695
	10 20 30 40 50 60 MHKLQSGIGR LILKEEMKAR SSSYADPWTP PRSSTSSREA LHTAGYEMSL NGSPRSHYLA 70 80 90 100 110 120 DSDPLISKSA SLPAYRRNGL HRTPSADLFH YDSMNAVNWG MREYKIYPYE LLLVTTRGRN 130 140 150 160 RLPKDVDRTR LERHLSQEEF YQVFGMTISE FDRLALWKRN ELKKQARLF

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Two novel members of the ABLIM protein family, ABLIM-2 and -3, associate with STARS and directly bind F-actin." Barrientos T., Frank D., Kuwahara K., Bezprozvannaya S., Pipes G.C.T., Bassel-Duby R., Richardson J.A., Katus H.A., Olson E.N., Frey N. J. Biol. Chem. 282:8393-8403(2007) [PubMed: 17194709] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3), FUNCTION, TISSUE SPECIFICITY, INTERACTION WITH F-ACTIN AND ABRA. Tissue: Heart.
[2]	"Prediction of the coding sequences of unidentified human genes. XII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro." Nagase T., Ishikawa K., Suyama M., Kikuno R., Hirosawa M., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O. DNA Res. 5:355-364(1998) [PubMed: 10048485] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). 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: 14702039] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
[4]	"Expression profiling and differential screening between hepatoblastomas and the corresponding normal livers: identification of high expression of the PLK1 oncogene as a poor-prognostic indicator of hepatoblastomas." Yamada S., Ohira M., Horie H., Ando K., Takayasu H., Suzuki Y., Sugano S., Hirata T., Goto T., Matsunaga T., Hiyama E., Hayashi Y., Ando H., Suita S., Kaneko M., Sasaki F., Hashizume K., Ohnuma N., Nakagawara A. Oncogene 23:5901-5911(2004) [PubMed: 15221005] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 4). Tissue: Hepatoblastoma.
[5]	"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 2). Tissue: Colon.
[6]	The German cDNA consortium Submitted (SEP-2004) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 117-683 (ISOFORM 3). Tissue: Stomach.
[7]	"Global, in vivo, and site-specific phosphorylation dynamics in signaling networks." Olsen J.V., Blagoev B., Gnad F., Macek B., Kumar C., Mortensen P., Mann M. Cell 127:635-648(2006) [PubMed: 17081983] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-394; SER-503 AND SER-504, MASS SPECTROMETRY. Tissue: Epithelium.
[8]	"Phosphoproteome of resting human platelets." Zahedi R.P., Lewandrowski U., Wiesner J., Wortelkamp S., Moebius J., Schuetz C., Walter U., Gambaryan S., Sickmann A. J. Proteome Res. 7:526-534(2008) [PubMed: 18088087] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-372; SER-373 AND SER-388, MASS SPECTROMETRY. Tissue: Platelet.
[9]	"Large-scale phosphoproteome analysis of human liver tissue by enrichment and fractionation of phosphopeptides with strong anion exchange chromatography." Han G., Ye M., Zhou H., Jiang X., Feng S., Jiang X., Tian R., Wan D., Zou H., Gu J. Proteomics 8:1346-1361(2008) [PubMed: 18318008] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-503 AND SER-504, MASS SPECTROMETRY. Tissue: Liver.
[10]	"Solution structure of the villin headpiece domain of human actin-binding LIM protein homologue (KIAA0843 protein)." RIKEN structural genomics initiative (RSGI) Submitted (FEB-2004) to the PDB data bank Cited for: STRUCTURE BY NMR OF 610-683.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

DQ413174 mRNA. Translation: ABD83327.1.
AB020650 mRNA. Translation: BAA74866.2. Different initiation.
AK289736 mRNA. Translation: BAF82425.1.
AB075881 mRNA. Translation: BAD38663.1.
BC001665 mRNA. Translation: AAH01665.1.
AL833021 mRNA. Translation: CAH56270.1.

RefSeq

NP_055760.1.

UniGene

Hs.49688

3D structure databases

PDBMSD

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1UJS	NMR	-	A	607-683	[»]
2DJ7	NMR	-	A	136-207	[»]

SMR

O94929. Positions 136-207, 210-268.

ModBase

Search...

PTM databases

PhosphoSite

O94929.

Genome annotation databases

Ensembl

ENSG00000173210. Homo sapiens. [Contig view]

GeneID

22885.

KEGG

hsa:22885.

Organism-specific databases

H-InvDB

HIX0005296.

HGNC

HGNC:29132. ABLIM3.

HPA

HPA003245.

MIM

611305. gene.

PharmGKB

PA134962761.

HUGE

Search...

GenAtlas

Search...

GeneCards

Search...

Phylogenomic databases

HOGENOM

O94929.

HOVERGEN

O94929.

Gene expression databases

ArrayExpress

O94929.

CleanEx

HS_ABLIM3.

GermOnline

ENSG00000173210. Homo sapiens.

Family and domain databases

InterPro

IPR003128. Villin_headpiece.
IPR001781. Znf_LIM.
[Graphical view]

Gene3D

G3DSA:1.10.950.10. VHP. 1 hit.
G3DSA:2.10.110.10. Znf_LIM. 2 hits.

Pfam

PF00412. LIM. 4 hits.
PF02209. VHP. 1 hit.
[Graphical view]

ProDom

PD000094. LIM. 4 hits.
[Graphical view] [Entries sharing at least one domain]

SMART

SM00132. LIM. 4 hits.
SM00153. VHP. 1 hit.
[Graphical view]

PROSITE

PS51089. HP. 1 hit.
PS00478. LIM_DOMAIN_1. 4 hits.
PS50023. LIM_DOMAIN_2. 4 hits.
[Graphical view]

ProtoNet

Search...

Other Resources

NextBio

43475.

SOURCE

Search...

Entry information

Entry name	ABLM3_HUMAN
Accession	Primary (citable) accession number: O94929 Secondary accession number(s): A8K121 , Q19VH3, Q658S1, Q68CI5, Q9BV32