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Protein

SCAN domain-containing protein 3

Gene

ZBED9

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
SCAN domain-containing protein 3
Alternative name(s):
Transposon-derived Buster4 transposase-like protein
Zinc finger BED domain-containing protein 9
Gene namesi
Name:ZBED9
Synonyms:Buster4, KIAA1925, SCAND3, ZNF305P2, ZNF452
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componentsi: Chromosome 6, Unplaced

Organism-specific databases

HGNCiHGNC:13851. ZBED9.

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA162402460.

Polymorphism and mutation databases

BioMutaiSCAND3.
DMDMi74710067.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 13251325SCAN domain-containing protein 3PRO_0000245846Add
BLAST

Proteomic databases

PaxDbiQ6R2W3.
PRIDEiQ6R2W3.

PTM databases

PhosphoSiteiQ6R2W3.

Expressioni

Gene expression databases

BgeeiQ6R2W3.
GenevisibleiQ6R2W3. HS.

Organism-specific databases

HPAiHPA007246.

Interactioni

Protein-protein interaction databases

BioGridi125371. 6 interactions.

Structurei

3D structure databases

ProteinModelPortaliQ6R2W3.
SMRiQ6R2W3. Positions 49-135, 317-547.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini52 – 13483SCAN boxPROSITE-ProRule annotationAdd
BLAST
Domaini366 – 526161Integrase catalyticPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili246 – 27530Sequence AnalysisAdd
BLAST
Coiled coili542 – 56827Sequence AnalysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi1265 – 12706Poly-Leu

Sequence similaritiesi

Contains 1 integrase catalytic domain.PROSITE-ProRule annotation
Contains 1 SCAN box domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiNOG45135.
GeneTreeiENSGT00760000119070.
HOGENOMiHOG000154270.
InParanoidiQ6R2W3.
OMAiHRNSLNI.
OrthoDBiEOG75J0M6.
PhylomeDBiQ6R2W3.
TreeFamiTF323092.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
InterProiIPR025398. DUF4371.
IPR008906. HATC_dom_C.
IPR001584. Integrase_cat-core.
IPR008916. Retrov_capsid_C.
IPR012337. RNaseH-like_dom.
IPR003309. Tscrpt_reg_SCAN.
[Graphical view]
PfamiPF05699. Dimer_Tnp_hAT. 1 hit.
PF14291. DUF4371. 1 hit.
PF02023. SCAN. 1 hit.
[Graphical view]
SMARTiSM00431. SCAN. 1 hit.
[Graphical view]
SUPFAMiSSF47353. SSF47353. 1 hit.
SSF53098. SSF53098. 2 hits.
PROSITEiPS50994. INTEGRASE. 1 hit.
PS50804. SCAN_BOX. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q6R2W3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEAVSRVFPA LAGQAPEEQG EIIKVKVKEE DHTWDQESAL RRNLSYTREL
60 70 80 90 100
SRQRFRQFCY QETPGPREAL SQLRELCRQW LNPEIHTKEQ ILELLVLEQF
110 120 130 140 150
LTILPEELQS WVREHNPESG EEVVTLLEDL ERELDEPRQQ VSQGTYGQEV
160 170 180 190 200
SMEEMIPLDS AKESLGTQLQ SMEDRMECES PEPHPLQDNG SFLWFSMMSQ
210 220 230 240 250
SMGGDNLSSL DTNEAEIEPE NMREKFFRSL ARLLENKSNN TKIFSKAKYC
260 270 280 290 300
QLIKEVKEAK AKAKKESVDY RRLARFDVIL VQGNEKLIEA VNGETDKIRY
310 320 330 340 350
YLHSEDLFDI LHNTHLSIGH GGRTRMEKEL QAKYKNITKE VIMLYLTLCK
360 370 380 390 400
PCQQKNSKLK KVLTSKSIKE VSSRCQVDLI DMQLNPDGEY RFILHYQDLC
410 420 430 440 450
TKLTFLRSLK SKRPTEVAHA LLDIFTIIGA PSVLQSDNGR EFSSQVVSEL
460 470 480 490 500
SNIWPELKIV HGKSQTCQSQ SSAEQTEDIR KRIFSWMQTN NSSHWTEFLW
510 520 530 540 550
FIQMSQNQPY HRSMQQTPCE SAFSSEAKLG LSHSQLTEEL VASLHTENEL
560 570 580 590 600
DQADKELENT LRAQYEENIE TGTDSSDIEE NLSVTPKVAE KSPPESRLRF
610 620 630 640 650
LSCVVCEKEC TGVNSCISCD GNIHAICGVP SQHGTEGCGR QITCSLCYET
660 670 680 690 700
STMKRKHDEI QRSLPVKPSK MLKPSGTPFS PDKVGDWMAK QASLDFFVKK
710 720 730 740 750
RHAFSEHSSS NKRNVNNRSY PEEGKTKRVH ASFTRKYDPS YIEFGFVAVI
760 770 780 790 800
DGEVLKPQCI ICGDVLANEA MKPSKLKRHL YSKHKEISSQ PKEFFERKSS
810 820 830 840 850
ELKSQPKQVF NVSHINISAL RASYKVALPV AKSKTPYTIA ETLVKDCIKE
860 870 880 890 900
VCLEMLGESA AKKVAQVPLS NDTIARRIQE LANDMEDQLI EQIKLAKYFS
910 920 930 940 950
LQLDECRDIA NMIILLVYVR FEHDDDIKEE FFFSASLPTN TTSSELYEAV
960 970 980 990 1000
KNYIVNKCGL EFKFCVGVCS DGAASMTGKH SEVVTQIKEL APECKTTHCF
1010 1020 1030 1040 1050
IHRESLAMKK ISAELNSVLN DIVKIVNYIK SNSLNSRLFS LLCDNMEADH
1060 1070 1080 1090 1100
KQLLLHAEIR WLSRGKVLSR MFEIRNELLV FLQGKKPMWS QLFKDVNWTA
1110 1120 1130 1140 1150
RLAYLSDIFS IFNDLNASMQ GKNATYFSMA DKVEGQKQKL EAWKNRISTD
1160 1170 1180 1190 1200
CYDMFHNLTT IINEVGNDLD IAHLRKVISE HLTNLLECFE FYFPSKEDPR
1210 1220 1230 1240 1250
IGNLWIQNPF LSSKDNLNLT VTLQDKLLKL ATDEGLKISF ENTASLPSFW
1260 1270 1280 1290 1300
IKAKNDYPEL AEIALKLLLL FPSTYLCETG FSTLSVIKTK HRNSLNIHYP
1310 1320
LRVALSSIQP RLDKLTSKKQ AHLSH
Length:1,325
Mass (Da):151,666
Last modified:July 5, 2004 - v1
Checksum:i637F5B2A42929A01
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti145 – 1451T → A in BX647791 (PubMed:17974005).Curated
Sequence conflicti536 – 5361L → P in BX647791 (PubMed:17974005).Curated
Sequence conflicti582 – 5821L → P in BX647791 (PubMed:17974005).Curated
Sequence conflicti913 – 9131I → V in BX647791 (PubMed:17974005).Curated
Sequence conflicti1112 – 11121F → FF in CAD28490 (PubMed:17974005).Curated
Sequence conflicti1169 – 11691L → H in BX647791 (PubMed:17974005).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti155 – 1551M → V.
Corresponds to variant rs409029 [ dbSNP | Ensembl ].
VAR_027012
Natural varianti465 – 4651Q → K.1 Publication
Corresponds to variant rs41270593 [ dbSNP | Ensembl ].
VAR_061703

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL713690 mRNA. Translation: CAD28490.2.
BX647791 mRNA. No translation available.
AY517631 mRNA. Translation: AAS01734.1.
AL671879 Genomic DNA. Translation: CAI17641.2.
BC110834 mRNA. Translation: AAI10835.1.
BC111741 mRNA. Translation: AAI11742.1.
BC111742 mRNA. Translation: AAI11743.1.
AK056369 mRNA. Translation: BAB71166.1.
AB067512 mRNA. Translation: BAB67818.1.
CCDSiCCDS34355.1.
RefSeqiNP_443155.1. NM_052923.1.
UniGeneiHs.176980.

Genome annotation databases

EnsembliENST00000452236; ENSP00000395259; ENSG00000232040.
ENST00000600483; ENSP00000473230; ENSG00000248496.
GeneIDi114821.
KEGGihsa:114821.
UCSCiuc003nlo.3. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL713690 mRNA. Translation: CAD28490.2.
BX647791 mRNA. No translation available.
AY517631 mRNA. Translation: AAS01734.1.
AL671879 Genomic DNA. Translation: CAI17641.2.
BC110834 mRNA. Translation: AAI10835.1.
BC111741 mRNA. Translation: AAI11742.1.
BC111742 mRNA. Translation: AAI11743.1.
AK056369 mRNA. Translation: BAB71166.1.
AB067512 mRNA. Translation: BAB67818.1.
CCDSiCCDS34355.1.
RefSeqiNP_443155.1. NM_052923.1.
UniGeneiHs.176980.

3D structure databases

ProteinModelPortaliQ6R2W3.
SMRiQ6R2W3. Positions 49-135, 317-547.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi125371. 6 interactions.

PTM databases

PhosphoSiteiQ6R2W3.

Polymorphism and mutation databases

BioMutaiSCAND3.
DMDMi74710067.

Proteomic databases

PaxDbiQ6R2W3.
PRIDEiQ6R2W3.

Protocols and materials databases

DNASUi114821.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000452236; ENSP00000395259; ENSG00000232040.
ENST00000600483; ENSP00000473230; ENSG00000248496.
GeneIDi114821.
KEGGihsa:114821.
UCSCiuc003nlo.3. human.

Organism-specific databases

CTDi114821.
GeneCardsiGC06M028539.
GC06Mj28541.
H-InvDBHIX0164677.
HIX0166060.
HGNCiHGNC:13851. ZBED9.
HPAiHPA007246.
MIMi615254. gene.
neXtProtiNX_Q6R2W3.
PharmGKBiPA162402460.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG45135.
GeneTreeiENSGT00760000119070.
HOGENOMiHOG000154270.
InParanoidiQ6R2W3.
OMAiHRNSLNI.
OrthoDBiEOG75J0M6.
PhylomeDBiQ6R2W3.
TreeFamiTF323092.

Miscellaneous databases

GeneWikiiZNF452.
GenomeRNAii114821.
NextBioi79298.
PROiQ6R2W3.
SOURCEiSearch...

Gene expression databases

BgeeiQ6R2W3.
GenevisibleiQ6R2W3. HS.

Family and domain databases

Gene3Di3.30.420.10. 1 hit.
InterProiIPR025398. DUF4371.
IPR008906. HATC_dom_C.
IPR001584. Integrase_cat-core.
IPR008916. Retrov_capsid_C.
IPR012337. RNaseH-like_dom.
IPR003309. Tscrpt_reg_SCAN.
[Graphical view]
PfamiPF05699. Dimer_Tnp_hAT. 1 hit.
PF14291. DUF4371. 1 hit.
PF02023. SCAN. 1 hit.
[Graphical view]
SMARTiSM00431. SCAN. 1 hit.
[Graphical view]
SUPFAMiSSF47353. SSF47353. 1 hit.
SSF53098. SSF53098. 2 hits.
PROSITEiPS50994. INTEGRASE. 1 hit.
PS50804. SCAN_BOX. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Retina and Testis.
  2. Zhou G., Liu X., Yu L.
    Submitted (JAN-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  3. "The DNA sequence and analysis of human chromosome 6."
    Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D.
    , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beare D.M., Beasley H., Beasley O., Bird C.P., Blakey S.E., Bray-Allen S., Brook J., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Clark S.Y., Clark G., Clee C.M., Clegg S., Cobley V., Collier R.E., Collins J.E., Colman L.K., Corby N.R., Coville G.J., Culley K.M., Dhami P., Davies J., Dunn M., Earthrowl M.E., Ellington A.E., Evans K.A., Faulkner L., Francis M.D., Frankish A., Frankland J., French L., Garner P., Garnett J., Ghori M.J., Gilby L.M., Gillson C.J., Glithero R.J., Grafham D.V., Grant M., Gribble S., Griffiths C., Griffiths M.N.D., Hall R., Halls K.S., Hammond S., Harley J.L., Hart E.A., Heath P.D., Heathcott R., Holmes S.J., Howden P.J., Howe K.L., Howell G.R., Huckle E., Humphray S.J., Humphries M.D., Hunt A.R., Johnson C.M., Joy A.A., Kay M., Keenan S.J., Kimberley A.M., King A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C.R., Lloyd D.M., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., Maslen G.L., Matthews L., McCann O.T., McLaren S.J., McLay K., McMurray A., Moore M.J.F., Mullikin J.C., Niblett D., Nickerson T., Novik K.L., Oliver K., Overton-Larty E.K., Parker A., Patel R., Pearce A.V., Peck A.I., Phillimore B.J.C.T., Phillips S., Plumb R.W., Porter K.M., Ramsey Y., Ranby S.A., Rice C.M., Ross M.T., Searle S.M., Sehra H.K., Sheridan E., Skuce C.D., Smith S., Smith M., Spraggon L., Squares S.L., Steward C.A., Sycamore N., Tamlyn-Hall G., Tester J., Theaker A.J., Thomas D.W., Thorpe A., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., White S.S., Whitehead S.L., Whittaker H., Wild A., Willey D.J., Wilmer T.E., Wood J.M., Wray P.W., Wyatt J.C., Young L., Younger R.M., Bentley D.R., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Dunham I., Rogers J., Beck S.
    Nature 425:805-811(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT LYS-465.
  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. "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] OF 1-782.
  6. "Prediction of the coding sequences of unidentified human genes. XXI. The complete sequences of 60 new cDNA clones from brain which code for large proteins."
    Nagase T., Kikuno R., Ohara O.
    DNA Res. 8:179-187(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 179-1325.
    Tissue: Brain.
  7. "ZBED evolution: repeated utilization of DNA transposons as regulators of diverse host functions."
    Hayward A., Ghazal A., Andersson G., Andersson L., Jern P.
    PLoS ONE 8:E59940-E59940(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHYLOGENY, GENE NOMENCLATURE.

Entry informationi

Entry nameiSCND3_HUMAN
AccessioniPrimary (citable) accession number: Q6R2W3
Secondary accession number(s): Q2NKL9
, Q5SRJ3, Q8TCN2, Q96MV9, Q96PW3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 11, 2006
Last sequence update: July 5, 2004
Last modified: June 24, 2015
This is version 88 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

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.