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O96006

- ZBED1_HUMAN

UniProt

O96006 - ZBED1_HUMAN

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Protein
Zinc finger BED domain-containing protein 1
Gene
ZBED1, ALTE, DREF, KIAA0785, TRAMP
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5 - Experimental evidence at protein leveli

Functioni

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.1 Publication

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri20 – 7859BED-type
Add
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. metal ion binding Source: UniProtKB-KW
  3. transposase activity Source: ProtInc

GO - Biological processi

  1. metabolic process Source: GOC
Complete GO annotation...

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Zinc finger BED domain-containing protein 1
Alternative name(s):
Putative Ac-like transposable element
dREF homolog
Gene namesi
Name:ZBED1
Synonyms:ALTE, DREF, KIAA0785, TRAMP
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome X

Organism-specific databases

HGNCiHGNC:447. ZBED1.

Subcellular locationi

Nucleus
Note: In granular structures.1 Publication

GO - Cellular componenti

  1. nuclear chromosome Source: ProtInc
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA24753.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 694694Zinc finger BED domain-containing protein 1
PRO_0000066560Add
BLAST

Proteomic databases

MaxQBiO96006.
PaxDbiO96006.
PRIDEiO96006.

PTM databases

PhosphoSiteiO96006.

Expressioni

Tissue specificityi

Ubiquitously expressed at low levels. Expression is highest in skeletal muscle, heart, spleen and placenta.

Inductioni

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.1 Publication

Gene expression databases

ArrayExpressiO96006.
BgeeiO96006.
GenevestigatoriO96006.

Organism-specific databases

HPAiHPA038249.

Interactioni

Subunit structurei

Homodimer Reviewed prediction.

Protein-protein interaction databases

BioGridi114626. 22 interactions.
IntActiO96006. 18 interactions.
MINTiMINT-1436617.
STRINGi9606.ENSP00000370616.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi27 – 293
Beta strandi35 – 373
Helixi39 – 413
Turni48 – 514
Helixi61 – 699
Helixi72 – 787

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2CT5NMR-A23-82[»]
ProteinModelPortaliO96006.
SMRiO96006. Positions 24-83, 164-647.

Miscellaneous databases

EvolutionaryTraceiO96006.

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiNOG317219.
HOGENOMiHOG000155760.
HOVERGENiHBG079365.
InParanoidiO96006.
OMAiLAEATWC.
OrthoDBiEOG7KM5S5.
PhylomeDBiO96006.
TreeFamiTF322818.

Family and domain databases

InterProiIPR008906. HATC_dom_C.
IPR012337. RNaseH-like_dom.
IPR003656. Znf_BED_prd.
[Graphical view]
PfamiPF05699. Dimer_Tnp_hAT. 1 hit.
PF02892. zf-BED. 1 hit.
[Graphical view]
SMARTiSM00614. ZnF_BED. 1 hit.
[Graphical view]
SUPFAMiSSF53098. SSF53098. 1 hit.
PROSITEiPS50808. ZF_BED. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O96006-1 [UniParc]FASTAAdd to Basket

« Hide

MENKSLESSQ TDLKLVAHPR AKSKVWKYFG FDTNAEGCIL QWKKIYCRIC    50
MAQIAYSGNT SNLSYHLEKN HPEEFCEFVK SNTEQMREAF ATAFSKLKPE 100
SSQQPGQDAL AVKAGHGYDS KKQQELTAAV LGLICEGLYP ASIVDEPTFK 150
VLLKTADPRY ELPSRKYIST KAIPEKYGAV REVILKELAE ATWCGISTDM 200
WRSENQNRAY VTLAAHFLGL GAPNCLSMGS RCLKTFEVPE ENTAETITRV 250
LYEVFIEWGI SAKVFGATTN YGKDIVKACS LLDVAVHMPC LGHTFNAGIQ 300
QAFQLPKLGA LLSRCRKLVE YFQQSAVAMY MLYEKQKQQN VAHCMLVSNR 350
VSWWGSTLAM LQRLKEQQFV IAGVLVEDSN NHHLMLEASE WATIEGLVEL 400
LQPFKQVAEM LSASRYPTIS MVKPLLHMLL NTTLNIKETD SKELSMAKEV 450
IAKELSKTYQ ETPEIDMFLN VATFLDPRYK RLPFLSAFER QQVENRVVEE 500
AKGLLDKVKD GGYRPAEDKI FPVPEEPPVK KLMRTSTPPP ASVINNMLAE 550
IFCQTGGVED QEEWHAQVVE ELSNFKSQKV LGLNEDPLKW WSDRLALFPL 600
LPKVLQKYWC VTATRVAPER LFGSAANVVS AKRNRLAPAH VDEQVFLYEN 650
ARSGAEAEPE DQDEGEWGLD QEQVFSLGDG VSGGFFGIRD SSFL 694
Length:694
Mass (Da):78,156
Last modified:May 1, 1999 - v1
Checksum:i40404497B17283AF
GO

Sequence cautioni

The sequence BAA34505.2 differs from that shown. Reason: Erroneous initiation.

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti295 – 2951F → L in AAH15030. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
CCDSiCCDS14118.1.
RefSeqiNP_001164606.1. NM_001171135.1.
NP_001164607.1. NM_001171136.1.
NP_004720.1. NM_004729.3.
UniGeneiHs.131452.

Genome annotation databases

EnsembliENST00000381218; ENSP00000370616; ENSG00000214717.
ENST00000381222; ENSP00000370620; ENSG00000214717.
ENST00000381223; ENSP00000370621; ENSG00000214717.
GeneIDi9189.
KEGGihsa:9189.
UCSCiuc004cqg.2. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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 .
CCDSi CCDS14118.1.
RefSeqi NP_001164606.1. NM_001171135.1.
NP_001164607.1. NM_001171136.1.
NP_004720.1. NM_004729.3.
UniGenei Hs.131452.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
2CT5 NMR - A 23-82 [» ]
ProteinModelPortali O96006.
SMRi O96006. Positions 24-83, 164-647.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 114626. 22 interactions.
IntActi O96006. 18 interactions.
MINTi MINT-1436617.
STRINGi 9606.ENSP00000370616.

PTM databases

PhosphoSitei O96006.

Proteomic databases

MaxQBi O96006.
PaxDbi O96006.
PRIDEi O96006.

Protocols and materials databases

DNASUi 9189.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000381218 ; ENSP00000370616 ; ENSG00000214717 .
ENST00000381222 ; ENSP00000370620 ; ENSG00000214717 .
ENST00000381223 ; ENSP00000370621 ; ENSG00000214717 .
GeneIDi 9189.
KEGGi hsa:9189.
UCSCi uc004cqg.2. human.

Organism-specific databases

CTDi 9189.
GeneCardsi GC0XM002320.
HGNCi HGNC:447. ZBED1.
HPAi HPA038249.
MIMi 300178. gene.
neXtProti NX_O96006.
PharmGKBi PA24753.
HUGEi Search...
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG317219.
HOGENOMi HOG000155760.
HOVERGENi HBG079365.
InParanoidi O96006.
OMAi LAEATWC.
OrthoDBi EOG7KM5S5.
PhylomeDBi O96006.
TreeFami TF322818.

Miscellaneous databases

EvolutionaryTracei O96006.
GeneWikii ZBED1.
GenomeRNAii 9189.
NextBioi 34457.
PROi O96006.
SOURCEi Search...

Gene expression databases

ArrayExpressi O96006.
Bgeei O96006.
Genevestigatori O96006.

Family and domain databases

InterProi IPR008906. HATC_dom_C.
IPR012337. RNaseH-like_dom.
IPR003656. Znf_BED_prd.
[Graphical view ]
Pfami PF05699. Dimer_Tnp_hAT. 1 hit.
PF02892. zf-BED. 1 hit.
[Graphical view ]
SMARTi SM00614. ZnF_BED. 1 hit.
[Graphical view ]
SUPFAMi SSF53098. SSF53098. 1 hit.
PROSITEi PS50808. ZF_BED. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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. 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.

Entry informationi

Entry nameiZBED1_HUMAN
AccessioniPrimary (citable) accession number: O96006
Secondary accession number(s): Q96BY4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 16, 2004
Last sequence update: May 1, 1999
Last modified: July 9, 2014
This is version 114 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (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.

Miscellaneousi

Miscellaneous

The gene coding for this protein is located in the pseudoautosomal region 1 (PAR1) of X and Y chromosomes.

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome X
    Human chromosome X: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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