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O96006 (ZBED1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 112. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended 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
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length694 AA.
Sequence statusComplete.
Protein existenceEvidence 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 coding 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 componentNucleus
   DomainZinc-finger
   LigandDNA-binding
Metal-binding
Zinc
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processmetabolic process

Traceable author statement Ref.1. Source: GOC

   Cellular_componentnuclear chromosome

Traceable author statement Ref.1. Source: ProtInc

   Molecular_functionDNA 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 keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 694694Zinc finger BED domain-containing protein 1
PRO_0000066560

Regions

Zinc finger20 – 7859BED-type

Experimental info

Sequence conflict2951F → L in AAH15030. Ref.4

Secondary structure

............. 694
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
O96006 [UniParc].

Last modified May 1, 1999. Version 1.
Checksum: 40404497B17283AF

FASTA69478,156
        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 

« Hide

References

« Hide '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. expand/collapse author list , 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.
RefSeqNP_001164606.1. NM_001171135.1.
NP_001164607.1. NM_001171136.1.
NP_004720.1. NM_004729.3.
UniGeneHs.131452.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
2CT5NMR-A23-82[»]
ProteinModelPortalO96006.
SMRO96006. Positions 24-83, 164-647.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid114626. 22 interactions.
IntActO96006. 18 interactions.
MINTMINT-1436617.
STRING9606.ENSP00000370616.

PTM databases

PhosphoSiteO96006.

Proteomic databases

PaxDbO96006.
PRIDEO96006.

Protocols and materials databases

DNASU9189.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000381218; ENSP00000370616; ENSG00000214717.
ENST00000381222; ENSP00000370620; ENSG00000214717.
ENST00000381223; ENSP00000370621; ENSG00000214717.
GeneID9189.
KEGGhsa:9189.
UCSCuc004cqg.2. human.

Organism-specific databases

CTD9189.
GeneCardsGC0XM002320.
HGNCHGNC:447. ZBED1.
HPAHPA038249.
MIM300178. gene.
neXtProtNX_O96006.
PharmGKBPA24753.
HUGESearch...
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG317219.
HOGENOMHOG000155760.
HOVERGENHBG079365.
InParanoidO96006.
OMAGGFFGIR.
OrthoDBEOG7KM5S5.
PhylomeDBO96006.
TreeFamTF322818.

Gene expression databases

ArrayExpressO96006.
BgeeO96006.
GenevestigatorO96006.

Family and domain databases

InterProIPR008906. HATC_dom_C.
IPR012337. RNaseH-like_dom.
IPR003656. Znf_BED_prd.
[Graphical view]
PfamPF05699. Dimer_Tnp_hAT. 1 hit.
PF02892. zf-BED. 1 hit.
[Graphical view]
SMARTSM00614. ZnF_BED. 1 hit.
[Graphical view]
SUPFAMSSF53098. SSF53098. 1 hit.
PROSITEPS50808. ZF_BED. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceO96006.
GeneWikiZBED1.
GenomeRNAi9189.
NextBio34457.
PROO96006.
SOURCESearch...

Entry information

Entry nameZBED1_HUMAN
AccessionPrimary (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: April 16, 2014
This is version 112 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome X

Human chromosome X: entries, gene names and cross-references to MIM