O96006 (ZBED1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Zinc finger BED domain-containing protein 1

Alternative name(s):
Putative Ac-like transposable element
dREF homolog

Gene names

Name:	ZBED1
Synonyms:	ALTE, DREF, KIAA0785, TRAMP

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

General annotation (Comments)

Function	Binds to 5'-TGTCG[CT]GA[CT]A-3' DNA elements found in the promoter regions of a number of genes related to cell proliferation. Binds to the histone H1 promoter and stimulates transcription. Was first identified as gene weakly similar to Ac transposable elements, but does not code for any transposase activity. Ref.5
Subunit structure	Homodimer Potential.
Subcellular location	Nucleus. Note: In granular structures. Ref.5
Tissue specificity	Ubiquitously expressed at low levels. Expression is highest in skeletal muscle, heart, spleen and placenta.
Induction	Expression is linked to the cell cycle: low in serum-starved fibroblasts, increasing during the G1/S phase, highest during the S/G2 phase and then decreasing again. Ref.5
Miscellaneous	The gene encoding for this protein is located in the pseudoautosomal region 1 (PAR1) of X and Y chromosomes.
Sequence similarities	Contains 1 BED-type zinc finger.
Sequence caution	The sequence BAA34505.2 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Cellular component	Nucleus
Domain	Zinc-finger
Ligand	DNA-binding Metal-binding Zinc
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Cellular_component	nuclear chromosome Traceable author statement Ref.1. Source: ProtInc
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW metal ion binding Inferred from electronic annotation. Source: UniProtKB-KW transposase activity Traceable author statement Ref.1. Source: ProtInc
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 694

694

Zinc finger BED domain-containing protein 1

PRO_0000066560

Regions

Zinc finger

20 – 78

59

BED-type

Experimental info

Sequence conflict

295

1

F → L in AAH15030. Ref.4

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

.

.

.

694

Helix Strand Turn

Details...

Beta strand

27 – 29

3

Beta strand

35 – 37

3

Helix

39 – 41

3

Turn

48 – 51

4

Helix

61 – 69

9

Helix

72 – 78

7

Sequences

	Sequence		Length	Mass (Da)
	O96006 [UniParc]. Last modified May 1, 1999. Version 1. Checksum: 40404497B17283AF	FASTA	694	78,156
	10 20 30 40 50 60 MENKSLESSQ TDLKLVAHPR AKSKVWKYFG FDTNAEGCIL QWKKIYCRIC MAQIAYSGNT 70 80 90 100 110 120 SNLSYHLEKN HPEEFCEFVK SNTEQMREAF ATAFSKLKPE SSQQPGQDAL AVKAGHGYDS 130 140 150 160 170 180 KKQQELTAAV LGLICEGLYP ASIVDEPTFK VLLKTADPRY ELPSRKYIST KAIPEKYGAV 190 200 210 220 230 240 REVILKELAE ATWCGISTDM WRSENQNRAY VTLAAHFLGL GAPNCLSMGS RCLKTFEVPE 250 260 270 280 290 300 ENTAETITRV LYEVFIEWGI SAKVFGATTN YGKDIVKACS LLDVAVHMPC LGHTFNAGIQ 310 320 330 340 350 360 QAFQLPKLGA LLSRCRKLVE YFQQSAVAMY MLYEKQKQQN VAHCMLVSNR VSWWGSTLAM 370 380 390 400 410 420 LQRLKEQQFV IAGVLVEDSN NHHLMLEASE WATIEGLVEL LQPFKQVAEM LSASRYPTIS 430 440 450 460 470 480 MVKPLLHMLL NTTLNIKETD SKELSMAKEV IAKELSKTYQ ETPEIDMFLN VATFLDPRYK 490 500 510 520 530 540 RLPFLSAFER QQVENRVVEE AKGLLDKVKD GGYRPAEDKI FPVPEEPPVK KLMRTSTPPP 550 560 570 580 590 600 ASVINNMLAE IFCQTGGVED QEEWHAQVVE ELSNFKSQKV LGLNEDPLKW WSDRLALFPL 610 620 630 640 650 660 LPKVLQKYWC VTATRVAPER LFGSAANVVS AKRNRLAPAH VDEQVFLYEN ARSGAEAEPE 670 680 690 DQDEGEWGLD QEQVFSLGDG VSGGFFGIRD SSFL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A novel pseudoautosomal human gene encodes a putative protein similar to Ac-like transposases." Esposito T., Gianfrancesco F., Ciccodicola A., Montanini L., Mumm S., D'Urso M., Forabosco A. Hum. Mol. Genet. 8:61-67(1999) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA]. Tissue: Teratocarcinoma.
[2]	"Prediction of the coding sequences of unidentified human genes. XI. 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., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O. DNA Res. 5:277-286(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Brain.
[3]	"The DNA sequence of the human X chromosome." Ross M.T., Grafham D.V., Coffey A.J., Scherer S., McLay K., Muzny D., Platzer M., Howell G.R., Burrows C., Bird C.P., Frankish A., Lovell F.L., Howe K.L., Ashurst J.L., Fulton R.S., Sudbrak R., Wen G., Jones M.C. , Hurles M.E., Andrews T.D., Scott C.E., Searle S., Ramser J., Whittaker A., Deadman R., Carter N.P., Hunt S.E., Chen R., Cree A., Gunaratne P., Havlak P., Hodgson A., Metzker M.L., Richards S., Scott G., Steffen D., Sodergren E., Wheeler D.A., Worley K.C., Ainscough R., Ambrose K.D., Ansari-Lari M.A., Aradhya S., Ashwell R.I., Babbage A.K., Bagguley C.L., Ballabio A., Banerjee R., Barker G.E., Barlow K.F., Barrett I.P., Bates K.N., Beare D.M., Beasley H., Beasley O., Beck A., Bethel G., Blechschmidt K., Brady N., Bray-Allen S., Bridgeman A.M., Brown A.J., Brown M.J., Bonnin D., Bruford E.A., Buhay C., Burch P., Burford D., Burgess J., Burrill W., Burton J., Bye J.M., Carder C., Carrel L., Chako J., Chapman J.C., Chavez D., Chen E., Chen G., Chen Y., Chen Z., Chinault C., Ciccodicola A., Clark S.Y., Clarke G., Clee C.M., Clegg S., Clerc-Blankenburg K., Clifford K., Cobley V., Cole C.G., Conquer J.S., Corby N., Connor R.E., David R., Davies J., Davis C., Davis J., Delgado O., Deshazo D., Dhami P., Ding Y., Dinh H., Dodsworth S., Draper H., Dugan-Rocha S., Dunham A., Dunn M., Durbin K.J., Dutta I., Eades T., Ellwood M., Emery-Cohen A., Errington H., Evans K.L., Faulkner L., Francis F., Frankland J., Fraser A.E., Galgoczy P., Gilbert J., Gill R., Gloeckner G., Gregory S.G., Gribble S., Griffiths C., Grocock R., Gu Y., Gwilliam R., Hamilton C., Hart E.A., Hawes A., Heath P.D., Heitmann K., Hennig S., Hernandez J., Hinzmann B., Ho S., Hoffs M., Howden P.J., Huckle E.J., Hume J., Hunt P.J., Hunt A.R., Isherwood J., Jacob L., Johnson D., Jones S., de Jong P.J., Joseph S.S., Keenan S., Kelly S., Kershaw J.K., Khan Z., Kioschis P., Klages S., Knights A.J., Kosiura A., Kovar-Smith C., Laird G.K., Langford C., Lawlor S., Leversha M., Lewis L., Liu W., Lloyd C., Lloyd D.M., Loulseged H., Loveland J.E., Lovell J.D., Lozado R., Lu J., Lyne R., Ma J., Maheshwari M., Matthews L.H., McDowall J., McLaren S., McMurray A., Meidl P., Meitinger T., Milne S., Miner G., Mistry S.L., Morgan M., Morris S., Mueller I., Mullikin J.C., Nguyen N., Nordsiek G., Nyakatura G., O'dell C.N., Okwuonu G., Palmer S., Pandian R., Parker D., Parrish J., Pasternak S., Patel D., Pearce A.V., Pearson D.M., Pelan S.E., Perez L., Porter K.M., Ramsey Y., Reichwald K., Rhodes S., Ridler K.A., Schlessinger D., Schueler M.G., Sehra H.K., Shaw-Smith C., Shen H., Sheridan E.M., Shownkeen R., Skuce C.D., Smith M.L., Sotheran E.C., Steingruber H.E., Steward C.A., Storey R., Swann R.M., Swarbreck D., Tabor P.E., Taudien S., Taylor T., Teague B., Thomas K., Thorpe A., Timms K., Tracey A., Trevanion S., Tromans A.C., d'Urso M., Verduzco D., Villasana D., Waldron L., Wall M., Wang Q., Warren J., Warry G.L., Wei X., West A., Whitehead S.L., Whiteley M.N., Wilkinson J.E., Willey D.L., Williams G., Williams L., Williamson A., Williamson H., Wilming L., Woodmansey R.L., Wray P.W., Yen J., Zhang J., Zhou J., Zoghbi H., Zorilla S., Buck D., Reinhardt R., Poustka A., Rosenthal A., Lehrach H., Meindl A., Minx P.J., Hillier L.W., Willard H.F., Wilson R.K., Waterston R.H., Rice C.M., Vaudin M., Coulson A., Nelson D.L., Weinstock G., Sulston J.E., Durbin R.M., Hubbard T., Gibbs R.A., Beck S., Rogers J., Bentley D.R. Nature 434:325-337(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[4]	"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]. Tissue: Uterus.
[5]	"Identification of a human homologue of the DREF transcription factor with a potential role in regulation of the histone H1 gene." Ohshima N., Takahashi M., Hirose F. J. Biol. Chem. 278:22928-22938(2003) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INDUCTION, SUBCELLULAR LOCATION.
[6]	"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].
[7]	"Solution structure of the zinc finger BED domain of the zinc finger BED domain containing protein 1." RIKEN structural genomics initiative (RSGI) Submitted (NOV-2005) to the PDB data bank Cited for: STRUCTURE BY NMR OF 23-82.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

Y16947 mRNA. Translation: CAA76545.1.
Y17156 Genomic DNA. Translation: CAA76660.1.
AB018328 mRNA. Translation: BAA34505.2. Different initiation.
AC079176 Genomic DNA. No translation available.
BC015030 mRNA. Translation: AAH15030.1.

IPI

IPI00006203.

RefSeq

NP_001164606.1. NM_001171135.1.
NP_001164607.1. NM_001171136.1.
NP_004720.1. NM_004729.3.

UniGene

Hs.131452.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2CT5	NMR	-	A	23-82	[»]

ProteinModelPortal

O96006.

ModBase

Search...

Protein-protein interaction databases

IntAct

O96006. 13 interactions.

MINT

MINT-1436617.

STRING

9606.ENSP00000370616.

PTM databases

PhosphoSite

O96006.

Proteomic databases

PaxDb

O96006.

PRIDE

O96006.

Protocols and materials databases

DNASU

9189.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

Ensembl

ENST00000381218; ENSP00000370616; ENSG00000214717.
ENST00000381222; ENSP00000370620; ENSG00000214717.
ENST00000381223; ENSP00000370621; ENSG00000214717.

GeneID

9189.

KEGG

hsa:9189.

UCSC

uc004cqg.2. human.

Organism-specific databases

CTD

9189.

GeneCards

GC0XM002320.

HGNC

HGNC:447. ZBED1.

HPA

HPA038249.

MIM

300178. gene.

neXtProt

NX_O96006.

PharmGKB

PA24753.

HUGE

Search...

GenAtlas

Search...

Phylogenomic databases

eggNOG

NOG317219.

HOGENOM

HOG000155760.

HOVERGEN

HBG079365.

InParanoid

O96006.

OMA

EQVFLYE.

OrthoDB

EOG4QNMVM.

PhylomeDB

O96006.

Gene expression databases

ArrayExpress

O96006.

Bgee

O96006.

Genevestigator

O96006.

GermOnline

ENSG00000169084. Homo sapiens.

Family and domain databases

InterPro

IPR008906. HATC.
IPR012337. RNaseH-like_dom.
IPR003656. Znf_BED_prd.
[Graphical view]

Pfam

PF05699. Dimer_Tnp_hAT. 1 hit.
PF02892. zf-BED. 1 hit.
[Graphical view]

SMART

SM00614. ZnF_BED. 1 hit.
[Graphical view]

SUPFAM

SSF53098. RNaseH_fold. 1 hit.

PROSITE

PS50808. ZF_BED. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

O96006.

GenomeRNAi

9189.

NextBio

34457.

SOURCE

Search...

Entry information

Entry name

ZBED1_HUMAN

Accession

Primary (citable) accession number: O96006
Secondary accession number(s): Q96BY4

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 16, 2004
Last sequence update:	May 1, 1999
Last modified:	May 1, 2013
This is version 104 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.