DEN4B_MOUSE
ID DEN4B_MOUSE Reviewed; 1499 AA.
AC Q3U1Y4; Q6NZJ7; Q6R5M4; Q80TZ2; Q80VU7; Q8CGE6; Q8R0E9;
DT 11-SEP-2007, integrated into UniProtKB/Swiss-Prot.
DT 11-SEP-2007, sequence version 2.
DT 03-AUG-2022, entry version 113.
DE RecName: Full=DENN domain-containing protein 4B;
DE AltName: Full=Brain-specific gene 4 protein;
DE Short=Brain specific protein 4;
GN Name=Dennd4b; Synonyms=Bsg4, Bsp4, Kiaa0476;
OS Mus musculus (Mouse).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC Murinae; Mus; Mus.
OX NCBI_TaxID=10090;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
RC STRAIN=C57BL/6J;
RA Chen W., Zhang J., Chen R., Ci H.L., Li Y.P.;
RT "Cloning and characterization of a novel mouse gene Bsg4 cDNA specifically
RT expressed in brain.";
RL Submitted (DEC-2003) to the EMBL/GenBank/DDBJ databases.
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
RC STRAIN=C57BL/6J;
RX PubMed=16141072; DOI=10.1126/science.1112014;
RA Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N.,
RA Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K.,
RA Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.,
RA Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R.,
RA Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T.,
RA Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A.,
RA Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B.,
RA Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M.,
RA Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S.,
RA Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E.,
RA Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D.,
RA Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M.,
RA Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H.,
RA Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V.,
RA Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S.,
RA Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H.,
RA Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N.,
RA Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F.,
RA Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G.,
RA Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z.,
RA Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C.,
RA Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y.,
RA Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S.,
RA Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K.,
RA Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R.,
RA van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H.,
RA Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M.,
RA Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C.,
RA Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S.,
RA Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K.,
RA Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M.,
RA Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C.,
RA Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A.,
RA Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.;
RT "The transcriptional landscape of the mammalian genome.";
RL Science 309:1559-1563(2005).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 16-1499 (ISOFORM 3).
RC STRAIN=FVB/N; TISSUE=Brain, Colon, Eye, and Salivary gland;
RX PubMed=15489334; DOI=10.1101/gr.2596504;
RG The MGC Project Team;
RT "The status, quality, and expansion of the NIH full-length cDNA project:
RT the Mammalian Gene Collection (MGC).";
RL Genome Res. 14:2121-2127(2004).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 594-1499.
RX PubMed=12693553; DOI=10.1093/dnares/10.1.35;
RA Okazaki N., Kikuno R., Ohara R., Inamoto S., Aizawa H., Yuasa S.,
RA Nakajima D., Nagase T., Ohara O., Koga H.;
RT "Prediction of the coding sequences of mouse homologues of KIAA gene: II.
RT The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs
RT identified by screening of terminal sequences of cDNA clones randomly
RT sampled from size-fractionated libraries.";
RL DNA Res. 10:35-48(2003).
RN [5]
RP IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC TISSUE=Brain, Spleen, and Testis;
RX PubMed=21183079; DOI=10.1016/j.cell.2010.12.001;
RA Huttlin E.L., Jedrychowski M.P., Elias J.E., Goswami T., Rad R.,
RA Beausoleil S.A., Villen J., Haas W., Sowa M.E., Gygi S.P.;
RT "A tissue-specific atlas of mouse protein phosphorylation and expression.";
RL Cell 143:1174-1189(2010).
CC -!- FUNCTION: Guanine nucleotide exchange factor (GEF) which may activate
CC RAB10. Promotes the exchange of GDP to GTP, converting inactive GDP-
CC bound Rab proteins into their active GTP-bound form (By similarity).
CC {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Golgi apparatus.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=3;
CC Name=1;
CC IsoId=Q3U1Y4-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q3U1Y4-2; Sequence=VSP_028093, VSP_028094, VSP_028095,
CC VSP_028097;
CC Name=3;
CC IsoId=Q3U1Y4-3; Sequence=VSP_028096;
CC -!- SEQUENCE CAUTION:
CC Sequence=AAH66102.2; Type=Erroneous initiation; Evidence={ECO:0000305};
CC Sequence=BAC65576.3; Type=Miscellaneous discrepancy; Note=Wrong gene model based on unspliced pre-RNA.; Evidence={ECO:0000305};
CC Sequence=BAE33359.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR EMBL; AY512564; AAR97575.1; -; mRNA.
DR EMBL; AK155638; BAE33359.1; ALT_INIT; mRNA.
DR EMBL; BC026996; AAH26996.1; -; mRNA.
DR EMBL; BC040460; AAH40460.1; -; mRNA.
DR EMBL; BC049972; AAH49972.1; -; mRNA.
DR EMBL; BC066102; AAH66102.2; ALT_INIT; mRNA.
DR EMBL; AK122294; BAC65576.3; ALT_SEQ; Transcribed_RNA.
DR CCDS; CCDS89660.1; -. [Q3U1Y4-1]
DR RefSeq; NP_958809.3; NM_201407.4.
DR RefSeq; XP_006501418.1; XM_006501355.3. [Q3U1Y4-1]
DR RefSeq; XP_006501419.1; XM_006501356.3.
DR AlphaFoldDB; Q3U1Y4; -.
DR SMR; Q3U1Y4; -.
DR STRING; 10090.ENSMUSP00000096514; -.
DR iPTMnet; Q3U1Y4; -.
DR PhosphoSitePlus; Q3U1Y4; -.
DR EPD; Q3U1Y4; -.
DR MaxQB; Q3U1Y4; -.
DR PaxDb; Q3U1Y4; -.
DR PeptideAtlas; Q3U1Y4; -.
DR PRIDE; Q3U1Y4; -.
DR ProteomicsDB; 279370; -. [Q3U1Y4-1]
DR ProteomicsDB; 279371; -. [Q3U1Y4-2]
DR ProteomicsDB; 279372; -. [Q3U1Y4-3]
DR Antibodypedia; 50670; 28 antibodies from 8 providers.
DR DNASU; 229541; -.
DR Ensembl; ENSMUST00000129564; ENSMUSP00000117354; ENSMUSG00000042404. [Q3U1Y4-1]
DR GeneID; 229541; -.
DR KEGG; mmu:229541; -.
DR UCSC; uc008qbx.3; mouse. [Q3U1Y4-1]
DR UCSC; uc008qbz.1; mouse. [Q3U1Y4-3]
DR CTD; 9909; -.
DR MGI; MGI:2446201; Dennd4b.
DR VEuPathDB; HostDB:ENSMUSG00000042404; -.
DR eggNOG; KOG2127; Eukaryota.
DR GeneTree; ENSGT00940000160472; -.
DR HOGENOM; CLU_003074_0_0_1; -.
DR InParanoid; Q3U1Y4; -.
DR OMA; VVWPGPI; -.
DR OrthoDB; 75304at2759; -.
DR PhylomeDB; Q3U1Y4; -.
DR TreeFam; TF313237; -.
DR Reactome; R-MMU-8876198; RAB GEFs exchange GTP for GDP on RABs.
DR BioGRID-ORCS; 229541; 0 hits in 72 CRISPR screens.
DR ChiTaRS; Dennd4b; mouse.
DR PRO; PR:Q3U1Y4; -.
DR Proteomes; UP000000589; Chromosome 3.
DR RNAct; Q3U1Y4; protein.
DR Bgee; ENSMUSG00000042404; Expressed in triceps brachii and 222 other tissues.
DR ExpressionAtlas; Q3U1Y4; baseline and differential.
DR Genevisible; Q3U1Y4; MM.
DR GO; GO:0031410; C:cytoplasmic vesicle; IBA:GO_Central.
DR GO; GO:0005794; C:Golgi apparatus; ISS:UniProtKB.
DR GO; GO:0005654; C:nucleoplasm; ISO:MGI.
DR GO; GO:0005085; F:guanyl-nucleotide exchange factor activity; ISS:UniProtKB.
DR GO; GO:0032483; P:regulation of Rab protein signal transduction; ISO:MGI.
DR Gene3D; 1.25.40.10; -; 1.
DR Gene3D; 3.40.50.11500; -; 1.
DR InterPro; IPR001194; cDENN_dom.
DR InterPro; IPR005112; dDENN_dom.
DR InterPro; IPR043153; DENN_C.
DR InterPro; IPR023341; MABP.
DR InterPro; IPR002885; Pentatricopeptide_repeat.
DR InterPro; IPR011990; TPR-like_helical_dom_sf.
DR InterPro; IPR037516; Tripartite_DENN.
DR InterPro; IPR005113; uDENN_dom.
DR Pfam; PF03455; dDENN; 1.
DR Pfam; PF02141; DENN; 1.
DR Pfam; PF03456; uDENN; 1.
DR SMART; SM00801; dDENN; 1.
DR SMART; SM00799; DENN; 1.
DR SMART; SM00800; uDENN; 1.
DR TIGRFAMs; TIGR00756; PPR; 1.
DR PROSITE; PS50211; DENN; 1.
DR PROSITE; PS51498; MABP; 1.
DR PROSITE; PS51375; PPR; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; Golgi apparatus; Guanine-nucleotide releasing factor;
KW Phosphoprotein; Reference proteome; Repeat.
FT CHAIN 1..1499
FT /note="DENN domain-containing protein 4B"
FT /id="PRO_0000304679"
FT DOMAIN 44..203
FT /note="MABP"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00831"
FT DOMAIN 195..369
FT /note="uDENN"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00304"
FT DOMAIN 390..526
FT /note="cDENN"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00304"
FT DOMAIN 528..644
FT /note="dDENN"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00304"
FT REPEAT 775..811
FT /note="PPR 1"
FT REPEAT 812..846
FT /note="PPR 2"
FT REGION 26..45
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 717..744
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 890..968
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 988..1115
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 1204..1226
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 30..44
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 891..946
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1019..1046
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT MOD_RES 951
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:O75064"
FT MOD_RES 1090
FT /note="Phosphoserine"
FT /evidence="ECO:0000250|UniProtKB:O75064"
FT VAR_SEQ 1..274
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|Ref.1"
FT /id="VSP_028093"
FT VAR_SEQ 275..276
FT /note="AL -> MR (in isoform 2)"
FT /evidence="ECO:0000303|Ref.1"
FT /id="VSP_028094"
FT VAR_SEQ 502
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|Ref.1"
FT /id="VSP_028095"
FT VAR_SEQ 728..842
FT /note="Missing (in isoform 3)"
FT /evidence="ECO:0000303|PubMed:15489334"
FT /id="VSP_028096"
FT VAR_SEQ 910..920
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|Ref.1"
FT /id="VSP_028097"
FT CONFLICT 979
FT /note="M -> V (in Ref. 4; BAC65576)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 1499 AA; 164740 MW; 97E6D1AAF34990F0 CRC64;
MAEERPPRLV DYFVVAGLAG NGAPIPEEKW VPEPTGPLRP PRPAEPITDV AVIARALGEE
VPQGYTCIQT SAGGHPLELS AGLLGGTQPV ICYRRGRDKP PLVELGVLYE GKERPKLGFQ
VLDTTPYSHS ANLAPPGPGH PRTYLMYRRA AEGAGLHALG ITDLCLVLPS KGEGTPHTYC
RLPRNLNPGM WGPAVYLCYK VGLAKANTLV YEAELLGRYP EEDNEAFPLP ESVPVFCLPM
GATIECWPAQ TKYPVPVFST FVLTGAAGDK VYGAALQFYE AFPRARLSER QARALGLMSA
VERGRALGGR AVRSRRAIAV LSRWPAFPAF RAFLTFLYRY SVSGPHRLPL EAHISHFIHN
VPFPSPQRPR ILVQMSPYDN LLLCQPVSSP LPLSGASFLQ LLQNLGPELA ITLLLAVLTE
HKLLVHSLRP DLLTSVCEAL VSMIFPLHWQ CPYIPLCPLV LADVLSAPVP FIVGIHSSYF
DLHDPPADVI CVDLDTNTLF QKEEKKPLSA RTLPRRPYKL LLATLTSLYQ QLDQTYTGPE
EEASLEFLLT DYEAVCGRRT RLEREVQGAF LRFMACLLKG YRNFLRPLTQ APSEGSRDVD
NLFYLQGFLK SRERSSHKLY SQLLHTQMFS QFIEECSFGS ARHAALEFFD SCVDKVHPEQ
EKPEPTPLVE LEELSGSELT VFITPPEEPP VLEGSESTPQ YCYDGFPELK AELFESPQEQ
QGALPVPGPS RSAPSSPAPR RTKQEMKVAQ RMAQKSATVP ELWARCLLGH CYGLWFLCLP
AYVRSVPSRV RALHTAYHVL REMENRKVVL PDEVCYRVLM QLCSHYGQPV LSVRVMLEMR
RAGIVPNTIT YGYYNKAVLE SKWPSGTPGG RLRWAKLRNV VLGAAQFRQP LKDRRQQQQQ
QQQQQQQKQQ VAEQQKSGSS QTEPYLERPS PTRPLQRQTT WAGRSLREPS SPMGRLVKSG
SLGSARGTQP TVEAGVAHMI EALGVLEPRG SPVPWQDGSL SDLSLTGEEM APGGSPGGSG
SALSAQSTEA LEGISGRGSK TSGCQEEVGT PRKGLGARLQ QLLTPSRRAS ASRIPPPELP
SDLPPAARRS PMDSLLWPRE RPGSTASESS ASLGSEWDIS ESSLSSLSLR RSSERLSDTP
GAFQPPSLEI LMSSCSLCHA CDSLVYDEEI MAGWAPDDSN LNTTCPFCAC HFVPLLSVQT
LDSRPSAPSP KSSLAGASGC KDAPAPGGPG PVLSDRRFCL ALDQPQLCNG HMGSASRRVE
NGAWAYLSPL VLRKELESLV ENEGSEVLAL PELPAAHPII FWNLLWYFQR LRLPSVLPGL
VLASCNGPPP SQLSQGPSPW LTPDPASVHV HLLWDVLTPD PNSCPPLYVL WRVHSQIPQR
VVWPGPVPSC LSLALLESVL RHVGLNEVHK AVGLLLETLG PPPTGLHLQR GIYREILFLT
MAALGKDHVD IVAFDKKYKS AFNKLASSMG KEELRQRRAQ MPTPKAIDCR KCFGAPLEC
