O94929 (ABLM3_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Actin-binding LIM protein 3
Short name=abLIM-3

Alternative name(s):
Actin-binding LIM protein family member 3

Gene names

Name:	ABLIM3
Synonyms:	KIAA0843
ORF Names:	HMFN1661

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	683 AA.
Sequence status	Complete.
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. Ref.1
Subunit structure	Directly interacts with F-actin and ABRA. Ref.1
Subcellular location	Cytoplasm By similarity.
Tissue specificity	Expressed predominantly in heart and brain. Ref.1
Sequence similarities	Contains 1 HP (headpiece) domain. Contains 4 LIM zinc-binding domains.
Sequence caution	The sequence BAA74866.2 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Cellular component	Cytoplasm
Coding sequence diversity	Alternative splicing Polymorphism
Domain	LIM domain Repeat
Ligand	Metal-binding Zinc
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	axon guidance Traceable author statement. Source: Reactome cytoskeleton organization Inferred from electronic annotation. Source: InterPro positive regulation of transcription from RNA polymerase II promoter Inferred from electronic annotation. Source: Compara
Cellular_component	cytoplasm Non-traceable author statement. Source: UniProtKB
Molecular_function	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

Note: 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.

Note: No experimental confirmation available.

Isoform 4 (identifier: O94929-4)

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

Note: 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

373

1

Phosphoserine By similarity

Modified residue

503

1

Phosphoserine Ref.7 Ref.9

Modified residue

504

1

Phosphoserine Ref.7 Ref.9

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

Natural variant

125

1

G → D.
Corresponds to variant rs35907283 [ dbSNP | Ensembl ].

VAR_050143

Experimental info

Sequence conflict

227

1

K → R in BAF82425. Ref.3

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

.

683

Helix Strand Turn

Details...

Turn

152 – 154

3

Beta strand

159 – 161

3

Beta strand

164 – 166

3

Beta strand

169 – 171

3

Turn

173 – 175

3

Beta strand

179 – 181

3

Beta strand

190 – 192

3

Beta strand

195 – 197

3

Helix

201 – 205

5

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	FASTA	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	FASTA	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	FASTA	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] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2). Tissue: Colon.
[6]	"The full-ORF clone resource of the German cDNA consortium." Bechtel S., Rosenfelder H., Duda A., Schmidt C.P., Ernst U., Wellenreuther R., Mehrle A., Schuster C., Bahr A., Bloecker H., Heubner D., Hoerlein A., Michel G., Wedler H., Koehrer K., Ottenwaelder B., Poustka A., Wiemann S., Schupp I. BMC Genomics 8:399-399(2007) [PubMed] [Europe PMC] [Abstract] 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] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-503 AND SER-504, MASS SPECTROMETRY. Tissue: Cervix carcinoma.
[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] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. 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] [Europe PMC] [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

EMBL
GenBank
DDBJ

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.

IPI

IPI00185892.
IPI00477229.
IPI00478204.
IPI00478567.

RefSeq

NP_055760.1. NM_014945.2.

UniGene

Hs.49688.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1UJS	NMR	-	A	609-683	[»]
2DJ7	NMR	-	A	141-207	[»]

ProteinModelPortal

O94929.

SMR

O94929. Positions 34-268, 607-683.

ModBase

Search...

Protein-protein interaction databases

IntAct

O94929. 3 interactions.

STRING

9606.ENSP00000310309.

PTM databases

PhosphoSite

O94929.

Proteomic databases

PaxDb

O94929.

PRIDE

O94929.

Protocols and materials databases

DNASU

22885.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000309868; ENSP00000310309; ENSG00000173210.
ENST00000326685; ENSP00000315841; ENSG00000173210.
ENST00000356541; ENSP00000348938; ENSG00000173210.
ENST00000504238; ENSP00000421183; ENSG00000173210.
ENST00000506113; ENSP00000425394; ENSG00000173210.
ENST00000508983; ENSP00000420855; ENSG00000173210.
ENST00000517451; ENSP00000430150; ENSG00000173210.

GeneID

22885.

KEGG

hsa:22885.

UCSC

uc003lpy.2. human.
uc003lqa.1. human.
uc003lqd.1. human.

Organism-specific databases

CTD

22885.

GeneCards

GC05P148501.

HGNC

HGNC:29132. ABLIM3.

HPA

HPA003245.

MIM

611305. gene.

neXtProt

NX_O94929.

PharmGKB

PA134962761.

HUGE

Search...

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG302299.

HOGENOM

HOG000285997.

HOVERGEN

HBG031499.

InParanoid

O94929.

KO

K07520.

OMA

DPYYASE.

Enzyme and pathway databases

Reactome

REACT_111045. Developmental Biology.

Gene expression databases

ArrayExpress

O94929.

Bgee

O94929.

CleanEx

HS_ABLIM3.

Genevestigator

O94929.

GermOnline

ENSG00000173210. Homo sapiens.

Family and domain databases

Gene3D

1.10.950.10. 1 hit.
2.10.110.10. 4 hits.

InterPro

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

Pfam

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

SMART

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

SUPFAM

SSF47050. VHP. 1 hit.

PROSITE

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

ProtoNet

Search...

Other

EvolutionaryTrace

O94929.

GenomeRNAi

22885.

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

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 7, 2004
Last sequence update:	December 7, 2004
Last modified:	May 1, 2013
This is version 112 of the entry and version 3 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.