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Protein

DENN domain-containing protein 4B

Gene

DENND4B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Guanine nucleotide exchange factor (GEF) which may activate RAB10. Promotes the exchange of GDP to GTP, converting inactive GDP-bound Rab proteins into their active GTP-bound form.1 Publication

GO - Molecular functioni

  • Rab guanyl-nucleotide exchange factor activity Source: UniProtKB

GO - Biological processi

  • regulation of Rab protein signal transduction Source: FlyBase
Complete GO annotation...

Keywords - Molecular functioni

Guanine-nucleotide releasing factor

Names & Taxonomyi

Protein namesi
Recommended name:
DENN domain-containing protein 4B
Gene namesi
Name:DENND4B
Synonyms:KIAA0476
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:29044. DENND4B.

Subcellular locationi

GO - Cellular componenti

  • Golgi apparatus Source: UniProtKB
  • nucleus Source: HPA
Complete GO annotation...

Keywords - Cellular componenti

Golgi apparatus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA142671629.

Polymorphism and mutation databases

BioMutaiDENND4B.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 14961496DENN domain-containing protein 4BPRO_0000304678Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei953 – 9531PhosphoserineCombined sources
Modified residuei1092 – 10921PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiO75064.
MaxQBiO75064.
PaxDbiO75064.
PeptideAtlasiO75064.
PRIDEiO75064.

PTM databases

iPTMnetiO75064.
PhosphoSiteiO75064.

Expressioni

Gene expression databases

BgeeiO75064.
CleanExiHS_DENND4B.
ExpressionAtlasiO75064. baseline and differential.
GenevisibleiO75064. HS.

Organism-specific databases

HPAiHPA040188.

Interactioni

Protein-protein interaction databases

BioGridi115238. 1 interaction.
IntActiO75064. 4 interactions.
STRINGi9606.ENSP00000354597.

Structurei

3D structure databases

ProteinModelPortaliO75064.
SMRiO75064. Positions 411-634.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini44 – 203160MABPPROSITE-ProRule annotationAdd
BLAST
Domaini206 – 27974UDENNAdd
BLAST
Domaini313 – 497185DENNPROSITE-ProRule annotationAdd
BLAST
Domaini562 – 63675dDENNPROSITE-ProRule annotationAdd
BLAST
Repeati775 – 81137PPR 1Add
BLAST
Repeati812 – 84635PPR 2Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi886 – 92338Gln-richAdd
BLAST
Compositional biasi1106 – 115853Ser-richAdd
BLAST

Sequence similaritiesi

Contains 1 dDENN domain.PROSITE-ProRule annotation
Contains 1 DENN domain.PROSITE-ProRule annotation
Contains 1 MABP domain.PROSITE-ProRule annotation
Contains 2 PPR (pentatricopeptide) repeats.PROSITE-ProRule annotation
Contains 1 uDENN domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiENOG410IQM7. Eukaryota.
ENOG410XRZT. LUCA.
GeneTreeiENSGT00760000118819.
HOGENOMiHOG000231590.
HOVERGENiHBG058313.
InParanoidiO75064.
KOiK20163.
OMAiWPRERPG.
OrthoDBiEOG790FZV.
PhylomeDBiO75064.
TreeFamiTF313237.

Family and domain databases

InterProiIPR005112. dDENN_dom.
IPR001194. DENN_dom.
IPR023341. MABP.
IPR002885. Pentatricopeptide_repeat.
IPR005113. uDENN_dom.
[Graphical view]
PfamiPF03455. dDENN. 1 hit.
PF02141. DENN. 1 hit.
PF03456. uDENN. 1 hit.
[Graphical view]
SMARTiSM00801. dDENN. 1 hit.
SM00799. DENN. 1 hit.
SM00800. uDENN. 1 hit.
[Graphical view]
PROSITEiPS50947. DDENN. 1 hit.
PS50211. DENN. 1 hit.
PS51498. MABP. 1 hit.
PS51375. PPR. 1 hit.
PS50946. UDENN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O75064-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAEERPPRLV DYFVVAGLAG NGAPIPEETW VPEPSGPLRP PRPAEPITDV
60 70 80 90 100
AVIARALGEE VPQGYTCIQA SAGGHPLELS AGLLGGTQPV ICYRRGRDKP
110 120 130 140 150
PLVELGVLYE GKERPKPGFQ VLDTTPYSHS ANLAPPGPGH PRTYLTYRRA
160 170 180 190 200
AEGAGLHALG ITDLCLVLPS KGEGTPHTYC RLPRNLNPGM WGPAVYLCYK
210 220 230 240 250
VGLAKANTLV YEAELLGRYP EEDNEAFPLP ESVPVFCLPM GATIECWPAQ
260 270 280 290 300
TKYPVPVFST FVLTGAAGDK VYGAALQFYE AFPRARLSER QARALGLLSA
310 320 330 340 350
VERGRALGGR AVRSRRAIAV LSRWPAFPAF RAFLTFLYRY SVSGPHRLPL
360 370 380 390 400
EAHISHFIHN VPFPSPQRPR ILVQMSPYDN LLLCQPVSSP LPLSGASFLQ
410 420 430 440 450
LLQSLGPELA ITLLLAVLTE HKLLVHSLRP DLLTSVCEAL VSMIFPLHWQ
460 470 480 490 500
CPYIPLCPLV LADVLSAPVP FIVGIHSSYF DLHDPPADVI CVDLDTNTLF
510 520 530 540 550
QTEEKKLLSP RTLPRRPYKV LLATLTNLYQ QLDQTYTGPE EEASLEFLLT
560 570 580 590 600
DYEAVCGRRA RLEREVQGAF LRFMACLLKG YRVFLRPLTQ APSEGARDVD
610 620 630 640 650
NLFFLQGFLK SRERSSHKLY SQLLHTQMFS QFIEECSFGS ARHAALEFFD
660 670 680 690 700
SCVEKVHPEQ EKPEPTPLVE LEELSGSELT VFITPPEEPA LPEGSESTPQ
710 720 730 740 750
YCYDGFPELR AELFESLQEQ PGALPVPGPS RSAPSSPAPR RTKQEMKVAQ
760 770 780 790 800
RMAQKSAAVP ELWARCLLGH CYGLWFLCLP AYVRSAPSRV QALHTAYHVL
810 820 830 840 850
RQMESGKVVL PDEVCYRVLM QLCSHYGQPV LSVRVMLEMR QAGIVPNTIT
860 870 880 890 900
YGYYNKAVLE SKWPSGTPGG RLRWAKLRNV VLGAAQFRQP LRERQQQQQQ
910 920 930 940 950
QQQQQQQQQQ EQVSAHQEAG SSQAEPYLER PSPTRPLQRQ TTWAGRSLRD
960 970 980 990 1000
PASPPGRLVK SGSLGSARGA QPTVEAGVAH MIEALGVLEP RGSPVPWHDG
1010 1020 1030 1040 1050
SLSDLSLTGE EPLPGGSPGG SGSALSAQST EALEGLSGRG PKAGGRQDEA
1060 1070 1080 1090 1100
GTPRRGLGAR LQQLLTPSRH SPASRIPPPE LPPDLPPPAR RSPMDSLLHP
1110 1120 1130 1140 1150
RERPGSTASE SSASLGSEWD LSESSLSNLS LRRSSERLSD TPGSFQSPSL
1160 1170 1180 1190 1200
EILLSSCSLC RACDSLVYDE EIMAGWAPDD SNLNTTCPFC ACPFVPLLSV
1210 1220 1230 1240 1250
QTLDSRPSVP SPKSAGASGS KDAPVPGGPG PVLSDRRLCL ALDEPQLCNG
1260 1270 1280 1290 1300
HMGGASRRVE SGAWAYLSPL VLRKELESLV ENEGSEVLAL PELPSAHPII
1310 1320 1330 1340 1350
FWNLLWYFQR LRLPSILPGL VLASCDGPSH SQAPSPWLTP DPASVQVRLL
1360 1370 1380 1390 1400
WDVLTPDPNS CPPLYVLWRV HSQIPQRVVW PGPVPASLSL ALLESVLRHV
1410 1420 1430 1440 1450
GLNEVHKAVG LLLETLGPPP TGLHLQRGIY REILFLTMAA LGKDHVDIVA
1460 1470 1480 1490
FDKKYKSAFN KLASSMGKEE LRHRRAQMPT PKAIDCRKCF GAPPEC
Length:1,496
Mass (Da):163,847
Last modified:September 11, 2007 - v4
Checksum:iA852570682E7C62A
GO

Sequence cautioni

The sequence BAA32321.3 differs from that shown. Reason: Erroneous initiation. Curated
The sequence CAI14016.1 differs from that shown. Reason: Erroneous gene model prediction. Curated
The sequence EAW53268.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB007945 mRNA. Translation: BAA32321.3. Different initiation.
AL358472 Genomic DNA. Translation: CAI14016.1. Sequence problems.
CH471121 Genomic DNA. Translation: EAW53268.1. Sequence problems.
CCDSiCCDS44228.1.
PIRiT00257.
RefSeqiNP_055671.2. NM_014856.2.
XP_005245736.1. XM_005245679.2.
UniGeneiHs.744878.

Genome annotation databases

EnsembliENST00000361217; ENSP00000354597; ENSG00000198837.
GeneIDi9909.
KEGGihsa:9909.
UCSCiuc001fdd.2. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB007945 mRNA. Translation: BAA32321.3. Different initiation.
AL358472 Genomic DNA. Translation: CAI14016.1. Sequence problems.
CH471121 Genomic DNA. Translation: EAW53268.1. Sequence problems.
CCDSiCCDS44228.1.
PIRiT00257.
RefSeqiNP_055671.2. NM_014856.2.
XP_005245736.1. XM_005245679.2.
UniGeneiHs.744878.

3D structure databases

ProteinModelPortaliO75064.
SMRiO75064. Positions 411-634.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi115238. 1 interaction.
IntActiO75064. 4 interactions.
STRINGi9606.ENSP00000354597.

PTM databases

iPTMnetiO75064.
PhosphoSiteiO75064.

Polymorphism and mutation databases

BioMutaiDENND4B.

Proteomic databases

EPDiO75064.
MaxQBiO75064.
PaxDbiO75064.
PeptideAtlasiO75064.
PRIDEiO75064.

Protocols and materials databases

DNASUi9909.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000361217; ENSP00000354597; ENSG00000198837.
GeneIDi9909.
KEGGihsa:9909.
UCSCiuc001fdd.2. human.

Organism-specific databases

CTDi9909.
GeneCardsiDENND4B.
H-InvDBHIX0029487.
HGNCiHGNC:29044. DENND4B.
HPAiHPA040188.
neXtProtiNX_O75064.
PharmGKBiPA142671629.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IQM7. Eukaryota.
ENOG410XRZT. LUCA.
GeneTreeiENSGT00760000118819.
HOGENOMiHOG000231590.
HOVERGENiHBG058313.
InParanoidiO75064.
KOiK20163.
OMAiWPRERPG.
OrthoDBiEOG790FZV.
PhylomeDBiO75064.
TreeFamiTF313237.

Miscellaneous databases

ChiTaRSiDENND4B. human.
GenomeRNAii9909.
PROiO75064.

Gene expression databases

BgeeiO75064.
CleanExiHS_DENND4B.
ExpressionAtlasiO75064. baseline and differential.
GenevisibleiO75064. HS.

Family and domain databases

InterProiIPR005112. dDENN_dom.
IPR001194. DENN_dom.
IPR023341. MABP.
IPR002885. Pentatricopeptide_repeat.
IPR005113. uDENN_dom.
[Graphical view]
PfamiPF03455. dDENN. 1 hit.
PF02141. DENN. 1 hit.
PF03456. uDENN. 1 hit.
[Graphical view]
SMARTiSM00801. dDENN. 1 hit.
SM00799. DENN. 1 hit.
SM00800. uDENN. 1 hit.
[Graphical view]
PROSITEiPS50947. DDENN. 1 hit.
PS50211. DENN. 1 hit.
PS51498. MABP. 1 hit.
PS51375. PPR. 1 hit.
PS50946. UDENN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of cDNA clones in size-fractionated cDNA libraries from human brain."
    Seki N., Ohira M., Nagase T., Ishikawa K., Miyajima N., Nakajima D., Nomura N., Ohara O.
    DNA Res. 4:345-349(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Brain.
  2. "The DNA sequence and biological annotation of human chromosome 1."
    Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K.
    , Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.
    Nature 441:315-321(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "Molecular cloning, structural analysis, and expression of a human IRLB, MYC promoter-binding protein: new DENN domain-containing protein family emerges."
    Semova N., Kapanadze B., Corcoran M., Kutsenko A., Baranova A., Semov A.
    Genomics 82:343-354(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION.
  5. "Family-wide characterization of the DENN domain Rab GDP-GTP exchange factors."
    Yoshimura S., Gerondopoulos A., Linford A., Rigden D.J., Barr F.A.
    J. Cell Biol. 191:367-381(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION AS GUANYL-NUCLEOTIDE EXCHANGE FACTOR, SUBCELLULAR LOCATION.
  6. "Toward a comprehensive characterization of a human cancer cell phosphoproteome."
    Zhou H., Di Palma S., Preisinger C., Peng M., Polat A.N., Heck A.J., Mohammed S.
    J. Proteome Res. 12:260-271(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-953 AND SER-1092, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma and Erythroleukemia.
  7. "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome."
    Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., Ye M., Zou H.
    J. Proteomics 96:253-262(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.

Entry informationi

Entry nameiDEN4B_HUMAN
AccessioniPrimary (citable) accession number: O75064
Secondary accession number(s): Q5T4K0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: September 11, 2007
Last modified: July 6, 2016
This is version 111 of the entry and version 4 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 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. SIMILARITY comments
    Index of protein domains and families

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 one 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.