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O75132 (ZBED4_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 87. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (5) | 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
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 4
Gene names
Name:ZBED4
Synonyms:KIAA0637
OrganismHomo sapiens (Human)
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo

Protein attributes

Sequence length1171 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Subunit structure

Homodimer. Ref.5 Ref.6

Subcellular location

Nucleus. Cytoplasm Ref.5 Ref.6.

Tissue specificity

Widely expressed with highest levels in testis, kidney and spinal cord and brain corpus callosum. Expressed in the retina, found in the cone photoreceptors, Mueller cells, cone pedicles and in the innermost retinal layer. Ref.6

Sequence similarities

Contains 4 BED-type zinc fingers.

Sequence caution

The sequence BAA31612.2 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

Ontologies

Keywords
   Cellular componentCytoplasm
Nucleus
   Coding sequence diversityPolymorphism
   DomainRepeat
Zinc-finger
   LigandMetal-binding
Zinc
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Cellular componentcytoplasm

Inferred from direct assay Ref.6. Source: UniProtKB

nucleus

Inferred from direct assay Ref.6. Source: UniProtKB

   Molecular functionDNA binding

Inferred from electronic annotation. Source: InterPro

metal ion binding

Inferred from electronic annotation. Source: UniProtKB-KW

protein dimerization activity

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 11711171Zinc finger BED domain-containing protein 4
PRO_0000066563

Regions

Zinc finger115 – 17258BED-type 1
Zinc finger285 – 34258BED-type 2
Zinc finger456 – 51257BED-type 3
Zinc finger558 – 61558BED-type 4
Compositional bias25 – 306Asp/Glu-rich (acidic)
Compositional bias533 – 5364Poly-Ser

Natural variations

Natural variant4201I → V. Ref.1 Ref.2 Ref.4
Corresponds to variant rs910799 [ dbSNP | Ensembl ].
VAR_027809

Experimental info

Sequence conflict5841R → Q in AAI17671. Ref.4

Sequences

Sequence LengthMass (Da)Tools
O75132 [UniParc].

Last modified January 11, 2011. Version 2.
Checksum: 485746484E87B389

FASTA1,171130,322
        10         20         30         40         50         60 
MENNLKTCPK EDGDFVSDKI KFKIEEEDDD GIPPDSLERM DFKSEQEDMK QTDSGGERAG 

        70         80         90        100        110        120 
LGGTGCSCKP PGKYLSAESE DDYGALFSQY SSTLYDVAME AVTQSLLSSR NMSSRKKSPA 

       130        140        150        160        170        180 
WKHFFISPRD STKAICMYCV KEFSRGKNEK DLSTSCLMRH VRRAHPTVLI QENGSVSAVS 

       190        200        210        220        230        240 
SFPSPSLLLP PQPADAGDLS TILSPIKLVQ KVASKIPSPD RITEESVSVV SSEEISSDMS 

       250        260        270        280        290        300 
VSEKCGREEA LVGSSPHLPA LHYDEPAENL AEKSLPLPKS TSGSRRRSAV WKHFYLSPLD 

       310        320        330        340        350        360 
NSKAVCIHCM NEFSRGKNGK DLGTSCLIRH MWRAHRAIVL QENGGTGIPP LYSTPPTLLP 

       370        380        390        400        410        420 
SLLPPEGELS SVSSSPVKPV RESPSASSSP DRLTEDLQSH LNPGDGLMED VAAFSSSDDI 

       430        440        450        460        470        480 
GEASASSPEK QQADGLSPRL FESGAIFQQN KKVMKRLKSE VWHHFSLAPM DSLKAECRYC 

       490        500        510        520        530        540 
GCAISRGKKG DVGTSCLMRH LYRRHPEVVG SQKGFLGASL ANSPYATLAS AESSSSKLTD 

       550        560        570        580        590        600 
LPTVVTKNNQ VMFPVNSKKT SKLWNHFSIC SADSTKVVCL HCGRTISRGK KPTNLGTSCL 

       610        620        630        640        650        660 
LRHLQRFHSN VLKTEVSETA RPSSPDTRVP RGTELSGASS FDDTNEKFYD SHPVAKKITS 

       670        680        690        700        710        720 
LIAEMIALDL QPYSFVDNVG FNRLLEYLKP QYSLPAPSYF SRTAIPGMYD NVKQIIMSHL 

       730        740        750        760        770        780 
KEAESGVIHF TSGIWMSNQT REYLTLTAHW VSFESPARPR CDDHHCSALL DVSQVDCDYS 

       790        800        810        820        830        840 
GNSIQKQLEC WWEAWVTSTG LQVGITVTDN ASIGKTLNEG EHSSVQCFSH TVNLIVSEAI 

       850        860        870        880        890        900 
KSQRMVQNLL SLARKICERV HRSPKAKEKL AELQREYALP QHHLIQDVPS KWSTSFHMLE 

       910        920        930        940        950        960 
RLIEQKRAIN EMSVECNFRE LISCDQWEVM QSVCRALKPF EAASREMSTQ MSTLSQVIPM 

       970        980        990       1000       1010       1020 
VHILNRKVEM LFEETMGIDT MLRSLKEAMV SRLSATLHDP RYVFATLLDP RYKASLFTEE 

      1030       1040       1050       1060       1070       1080 
EAEQYKQDLI RELELMNSTS EDVAASHRCD AGSPSKDSAA EENLWSLVAK VKKKDPREKL 

      1090       1100       1110       1120       1130       1140 
PEAMVLAYLE EEVLEHSCDP LTYWNLKKAS WPGLSALAVR FLGCPPSIVP SEKLFNTPTE 

      1150       1160       1170 
NGSLGQSRLM MEHFEKLIFL KVNLPLIYFQ Y

« Hide

References

« Hide 'large scale' references
[1]"Prediction of the coding sequences of unidentified human genes. X. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro."
Ishikawa K., Nagase T., Suyama M., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O.
DNA Res. 5:169-176(1998) [PubMed: 9734811] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT VAL-420.
Tissue: Brain.
[2]"A genome annotation-driven approach to cloning the human ORFeome."
Collins J.E., Wright C.L., Edwards C.A., Davis M.P., Grinham J.A., Cole C.G., Goward M.E., Aguado B., Mallya M., Mokrab Y., Huckle E.J., Beare D.M., Dunham I.
Genome Biol. 5:R84.1-R84.11(2004) [PubMed: 15461802] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT VAL-420.
[3]"The DNA sequence of human chromosome 22."
Dunham I., Hunt A.R., Collins J.E., Bruskiewich R., Beare D.M., Clamp M., Smink L.J., Ainscough R., Almeida J.P., Babbage A.K., Bagguley C., Bailey J., Barlow K.F., Bates K.N., Beasley O.P., Bird C.P., Blakey S.E., Bridgeman A.M. expand/collapse author list , Buck D., Burgess J., Burrill W.D., Burton J., Carder C., Carter N.P., Chen Y., Clark G., Clegg S.M., Cobley V.E., Cole C.G., Collier R.E., Connor R., Conroy D., Corby N.R., Coville G.J., Cox A.V., Davis J., Dawson E., Dhami P.D., Dockree C., Dodsworth S.J., Durbin R.M., Ellington A.G., Evans K.L., Fey J.M., Fleming K., French L., Garner A.A., Gilbert J.G.R., Goward M.E., Grafham D.V., Griffiths M.N.D., Hall C., Hall R.E., Hall-Tamlyn G., Heathcott R.W., Ho S., Holmes S., Hunt S.E., Jones M.C., Kershaw J., Kimberley A.M., King A., Laird G.K., Langford C.F., Leversha M.A., Lloyd C., Lloyd D.M., Martyn I.D., Mashreghi-Mohammadi M., Matthews L.H., Mccann O.T., Mcclay J., Mclaren S., McMurray A.A., Milne S.A., Mortimore B.J., Odell C.N., Pavitt R., Pearce A.V., Pearson D., Phillimore B.J.C.T., Phillips S.H., Plumb R.W., Ramsay H., Ramsey Y., Rogers L., Ross M.T., Scott C.E., Sehra H.K., Skuce C.D., Smalley S., Smith M.L., Soderlund C., Spragon L., Steward C.A., Sulston J.E., Swann R.M., Vaudin M., Wall M., Wallis J.M., Whiteley M.N., Willey D.L., Williams L., Williams S.A., Williamson H., Wilmer T.E., Wilming L., Wright C.L., Hubbard T., Bentley D.R., Beck S., Rogers J., Shimizu N., Minoshima S., Kawasaki K., Sasaki T., Asakawa S., Kudoh J., Shintani A., Shibuya K., Yoshizaki Y., Aoki N., Mitsuyama S., Roe B.A., Chen F., Chu L., Crabtree J., Deschamps S., Do A., Do T., Dorman A., Fang F., Fu Y., Hu P., Hua A., Kenton S., Lai H., Lao H.I., Lewis J., Lewis S., Lin S.-P., Loh P., Malaj E., Nguyen T., Pan H., Phan S., Qi S., Qian Y., Ray L., Ren Q., Shaull S., Sloan D., Song L., Wang Q., Wang Y., Wang Z., White J., Willingham D., Wu H., Yao Z., Zhan M., Zhang G., Chissoe S., Murray J., Miller N., Minx P., Fulton R., Johnson D., Bemis G., Bentley D., Bradshaw H., Bourne S., Cordes M., Du Z., Fulton L., Goela D., Graves T., Hawkins J., Hinds K., Kemp K., Latreille P., Layman D., Ozersky P., Rohlfing T., Scheet P., Walker C., Wamsley A., Wohldmann P., Pepin K., Nelson J., Korf I., Bedell J.A., Hillier L.W., Mardis E., Waterston R., Wilson R., Emanuel B.S., Shaikh T., Kurahashi H., Saitta S., Budarf M.L., McDermid H.E., Johnson A., Wong A.C.C., Morrow B.E., Edelmann L., Kim U.J., Shizuya H., Simon M.I., Dumanski J.P., Peyrard M., Kedra D., Seroussi E., Fransson I., Tapia I., Bruder C.E., O'Brien K.P., Wilkinson P., Bodenteich A., Hartman K., Hu X., Khan A.S., Lane L., Tilahun Y., Wright H.
Nature 402:489-495(1999) [PubMed: 10591208] [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: 15489334] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT VAL-420.
[5]"Human DNA replication-related element binding factor (hDREF) self-association via hATC domain is necessary for its nuclear accumulation and DNA binding."
Yamashita D., Komori H., Higuchi Y., Yamaguchi T., Osumi T., Hirose F.
J. Biol. Chem. 282:7563-7575(2007) [PubMed: 17209048] [Abstract]
Cited for: SUBUNIT, SUBCELLULAR LOCATION.
[6]"ZBED4, a BED-type zinc-finger protein in the cones of the human retina."
Saghizadeh M., Akhmedov N.B., Yamashita C.K., Gribanova Y., Theendakara V., Mendoza E., Nelson S.F., Ljubimov A.V., Farber D.B.
Invest. Ophthalmol. Vis. Sci. 50:3580-3588(2009) [PubMed: 19369242] [Abstract]
Cited for: SUBUNIT, SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		AB014537 mRNA. Translation: BAA31612.2. Different initiation.
CR456387 mRNA. Translation: CAG30273.1.
AL117328 Genomic DNA. Translation: CAB62924.1.
BC117670 mRNA. Translation: AAI17671.1.
BC167155 mRNA. Translation: AAI67155.1.
IPIIPI00006610.
PIRT00380.
RefSeqNP_055653.2. NM_014838.2.
UniGeneHs.475208.

3D structure databases

ProteinModelPortalO75132.
SMRO75132. Positions 457-508, 560-613.
ModBaseSearch...

Protein-protein interaction databases

IntActO75132. 2 interactions.

PTM databases

PhosphoSiteO75132.

Proteomic databases

PRIDEO75132.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000216268; ENSP00000216268; ENSG00000100426.
GeneID9889.
KEGGhsa:9889.

Organism-specific databases

CTD9889.
GeneCardsGC22P050247.
H-InvDBHIX0016602.
HGNCHGNC:20721. ZBED4.
MIM612552. gene.
neXtProtNX_O75132.
PharmGKBPA134948378.
HUGESearch...
GenAtlasSearch...

Phylogenomic databases

eggNOGprNOG09254.
GeneTreeENSGT00530000063354.
HOGENOMHBG755294.
HOVERGENHBG054511.
InParanoidO75132.
OMAPLDNSKA.
OrthoDBEOG4GXFM1.
PhylomeDBO75132.

Gene expression databases

ArrayExpressO75132.
BgeeO75132.
CleanExHS_ZBED4.
GenevestigatorO75132.
GermOnlineENSG00000100426. Homo sapiens.

Family and domain databases

InterProIPR008906. HATC.
IPR012337. RNaseH-like_dom.
IPR003656. Znf_BED_prd.
[Graphical view]
PfamPF05699. Dimer_Tnp_hAT. 1 hit.
PF02892. zf-BED. 4 hits.
[Graphical view]
SMARTSM00614. ZnF_BED. 4 hits.
[Graphical view]
SUPFAMSSF53098. RNaseH_fold. 1 hit.
PROSITEPS50808. ZF_BED. 4 hits.
[Graphical view]
ProtoNetSearch...

Other

SOURCESearch...

Entry information

Entry nameZBED4_HUMAN
AccessionPrimary (citable) accession number: O75132
Secondary accession number(s): B2RZH1, Q1ECU0, Q9UGG8
Entry history
Integrated into UniProtKB/Swiss-Prot: May 10, 2002
Last sequence update: January 11, 2011
Last modified: January 25, 2012
This is version 87 of the entry and version 2 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

Human chromosome 22

Human chromosome 22: entries, gene names and cross-references to MIM

Human entries with polymorphisms or disease mutations

List of human entries with polymorphisms or disease mutations

Human polymorphisms and disease mutations

Index of human polymorphisms and disease mutations

MIM cross-references

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

SIMILARITY comments

Index of protein domains and families

to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents