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Q6R2W3

- SCND3_HUMAN

UniProt

Q6R2W3 - SCND3_HUMAN

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Protein

SCAN domain-containing protein 3

Gene

ZBED9

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

Functioni

GO - Molecular functioni

  1. nucleic acid binding Source: InterPro
  2. sequence-specific DNA binding transcription factor activity Source: InterPro

GO - Biological processi

  1. DNA integration Source: InterPro
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: Chromosome 6

Organism-specific databases

HGNCiHGNC:13851. ZBED9.

Subcellular locationi

GO - Cellular componenti

  1. nucleus Source: InterPro
Complete GO annotation...

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA162402460.

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.
GenevestigatoriQ6R2W3.

Organism-specific databases

HPAiHPA007246.

Interactioni

Protein-protein interaction databases

BioGridi125371. 5 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:
EMBL
GenBank
DDBJ
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.

Polymorphism databases

DMDMi74710067.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
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 .
CCDSi CCDS34355.1.
RefSeqi NP_443155.1. NM_052923.1.
UniGenei Hs.176980.

3D structure databases

ProteinModelPortali Q6R2W3.
SMRi Q6R2W3. Positions 49-135, 317-547.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 125371. 5 interactions.

PTM databases

PhosphoSitei Q6R2W3.

Polymorphism databases

DMDMi 74710067.

Proteomic databases

PaxDbi Q6R2W3.
PRIDEi Q6R2W3.

Protocols and materials databases

DNASUi 114821.
Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000452236 ; ENSP00000395259 ; ENSG00000232040 .
ENST00000600483 ; ENSP00000473230 ; ENSG00000248496 .
GeneIDi 114821.
KEGGi hsa:114821.
UCSCi uc003nlo.3. human.

Organism-specific databases

CTDi 114821.
GeneCardsi GC06M028539.
GC06Mj28541.
H-InvDB HIX0164677.
HIX0166060.
HGNCi HGNC:13851. ZBED9.
HPAi HPA007246.
MIMi 615254. gene.
neXtProti NX_Q6R2W3.
PharmGKBi PA162402460.
HUGEi Search...
GenAtlasi Search...

Phylogenomic databases

eggNOGi NOG45135.
GeneTreei ENSGT00760000119070.
HOGENOMi HOG000154270.
InParanoidi Q6R2W3.
OMAi HRNSLNI.
OrthoDBi EOG75J0M6.
PhylomeDBi Q6R2W3.
TreeFami TF323092.

Miscellaneous databases

GeneWikii ZNF452.
GenomeRNAii 114821.
NextBioi 79298.
PROi Q6R2W3.
SOURCEi Search...

Gene expression databases

Bgeei Q6R2W3.
Genevestigatori Q6R2W3.

Family and domain databases

Gene3Di 3.30.420.10. 1 hit.
InterProi IPR025398. DUF4371.
IPR008906. HATC_dom_C.
IPR001584. Integrase_cat-core.
IPR008916. Retrov_capsid_C.
IPR012337. RNaseH-like_dom.
IPR003309. Tscrpt_reg_SCAN.
[Graphical view ]
Pfami PF05699. Dimer_Tnp_hAT. 1 hit.
PF14291. DUF4371. 1 hit.
PF02023. SCAN. 1 hit.
[Graphical view ]
SMARTi SM00431. SCAN. 1 hit.
[Graphical view ]
SUPFAMi SSF47353. SSF47353. 1 hit.
SSF53098. SSF53098. 2 hits.
PROSITEi PS50994. INTEGRASE. 1 hit.
PS50804. SCAN_BOX. 1 hit.
[Graphical view ]
ProtoNeti Search...

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: October 29, 2014
This is version 85 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