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Protein

Protein nubbin

Gene

nub

Organism
Drosophila melanogaster (Fruit fly)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

DNA-binding regulatory protein implicated in early development. Involved in neuronal cell fate decision. Repressed directly or indirectly by the BX-C homeotic proteins.3 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi523 – 58260HomeoboxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Source: FlyBase
  2. sequence-specific DNA binding Source: InterPro

GO - Biological processi

  1. dendrite morphogenesis Source: FlyBase
  2. ganglion mother cell fate determination Source: FlyBase
  3. limb joint morphogenesis Source: FlyBase
  4. pattern specification process Source: FlyBase
  5. positive regulation of transcription from RNA polymerase II promoter Source: GOC
  6. ventral cord development Source: FlyBase
  7. wing disc development Source: FlyBase
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiREACT_280300. RNA Polymerase III Abortive And Retractive Initiation.
REACT_344069. RNA Polymerase III Transcription Initiation From Type 3 Promoter.
SignaLinkiP31368.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein nubbin
Alternative name(s):
POU domain protein 1
Short name:
PDM-1
Protein twain
dOCT1
dPOU-19
Gene namesi
Name:nub
Synonyms:OCT1, pdm-1, POU-19, TWN
ORF Names:CG34395
OrganismiDrosophila melanogaster (Fruit fly)
Taxonomic identifieri7227 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaArthropodaHexapodaInsectaPterygotaNeopteraEndopterygotaDipteraBrachyceraMuscomorphaEphydroideaDrosophilidaeDrosophilaSophophora
ProteomesiUP000000803 Componenti: Chromosome 2L

Organism-specific databases

FlyBaseiFBgn0085424. nub.

Subcellular locationi

Nucleus PROSITE-ProRule annotation1 Publication

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 601601Protein nubbinPRO_0000100777Add
BLAST

Proteomic databases

PaxDbiP31368.
PRIDEiP31368.

Expressioni

Tissue specificityi

Initial expression in cellular blastoderm stage, then in ectodermal stripes during germband extension. Broad expression in the neuroectoderm followed by limitation to discrete subsets of CNS cells, and expression in specific PNS neurons and support cells.2 Publications

Developmental stagei

Expressed both maternally and zygotically.3 Publications

Gene expression databases

BgeeiP31368.
ExpressionAtlasiP31368. differential.

Interactioni

Protein-protein interaction databases

BioGridi60715. 27 interactions.
IntActiP31368. 4 interactions.

Structurei

3D structure databases

ProteinModelPortaliP31368.
SMRiP31368. Positions 425-583.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini421 – 49575POU-specificPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi104 – 1074Poly-His
Compositional biasi191 – 20111Poly-AlaAdd
BLAST
Compositional biasi359 – 3646Poly-His
Compositional biasi407 – 4159Poly-Ala

Sequence similaritiesi

Contains 1 homeobox DNA-binding domain.PROSITE-ProRule annotation
Contains 1 POU-specific domain.PROSITE-ProRule annotation

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiNOG267922.
InParanoidiP31368.
KOiK09364.
OrthoDBiEOG7DJSMG.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
1.10.260.40. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
IPR010982. Lambda_DNA-bd_dom.
IPR013847. POU.
IPR000327. POU_specific.
[Graphical view]
PfamiPF00046. Homeobox. 1 hit.
PF00157. Pou. 1 hit.
[Graphical view]
PRINTSiPR00028. POUDOMAIN.
SMARTiSM00389. HOX. 1 hit.
SM00352. POU. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF47413. SSF47413. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
PS00035. POU_1. 1 hit.
PS00465. POU_2. 1 hit.
PS51179. POU_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P31368-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVMSELRWHT ASPEDNKNSL KRDLLKSTPT SAREAAVHIM QNRYISRLSR
60 70 80 90 100
SPSPLQSNAS DCDDNNSSVG TSSDRCRSPL SPALSLSHQQ AKRQLMSLQP
110 120 130 140 150
HPAHHHHNPH HLNHLNHHQY KQEEDYDDAN GGALNLTSDN SRHSTQSPSN
160 170 180 190 200
SVKSATASPV PVISVPSPVP PMISPVLAPS GCGSTTPNSM AAAAAAAAAV
210 220 230 240 250
ASTMGSGISP LLALPGMSSP QAQLAAAGLG MNNPLLTGSL SPQDFAQFHQ
260 270 280 290 300
LLQQRQVALT QQFNSYMELL RSGSLGLAQD DPALTAQVAA AQFLMQSQLQ
310 320 330 340 350
ALSQASQQLQ ALQKQQQRQV DEPLQLNHKM TQQPRSSTPH SIRSPIAIRS
360 370 380 390 400
PASSPQQLHH HHHHPLQITP PSSAASLKLS GMLTPSTPTS GTQMSQGTTT
410 420 430 440 450
PQPKTVASAA AARAAGEPSP EETTDLEELE QFAKTFKQRR IKLGFTQGDV
460 470 480 490 500
GLAMGKLYGN DFSQTTISRF EALNLSFKNM CKLKPLLQKW LDDADRTIQA
510 520 530 540 550
TGGVFDPAAL QATVSTPEII GRRRKKRTSI ETTIRGALEK AFLANQKPTS
560 570 580 590 600
EEITQLADRL SMEKEVVRVW FCNRRQKEKR INPSLDSPTG ADDDESSYMM

H
Length:601
Mass (Da):65,202
Last modified:July 1, 1993 - v1
Checksum:i8FFCD7B3C162D2B2
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti420 – 4201P → R in AAB21409 (PubMed:1685891).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M81957 mRNA. Translation: AAA28829.1.
S80561 mRNA. Translation: AAB21409.1.
M65015 mRNA. Translation: AAA28480.1.
AE014134 Genomic DNA. Translation: AAF53205.2.
AY118387 mRNA. Translation: AAM48416.1.
PIRiB56564.
RefSeqiNP_001285876.1. NM_001298947.1.
NP_476659.1. NM_057311.5.
UniGeneiDm.4744.

Genome annotation databases

EnsemblMetazoaiFBtr0112643; FBpp0111555; FBgn0085424.
FBtr0342628; FBpp0309559; FBgn0085424.
GeneIDi34669.
KEGGidme:Dmel_CG34395.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M81957 mRNA. Translation: AAA28829.1.
S80561 mRNA. Translation: AAB21409.1.
M65015 mRNA. Translation: AAA28480.1.
AE014134 Genomic DNA. Translation: AAF53205.2.
AY118387 mRNA. Translation: AAM48416.1.
PIRiB56564.
RefSeqiNP_001285876.1. NM_001298947.1.
NP_476659.1. NM_057311.5.
UniGeneiDm.4744.

3D structure databases

ProteinModelPortaliP31368.
SMRiP31368. Positions 425-583.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi60715. 27 interactions.
IntActiP31368. 4 interactions.

Proteomic databases

PaxDbiP31368.
PRIDEiP31368.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblMetazoaiFBtr0112643; FBpp0111555; FBgn0085424.
FBtr0342628; FBpp0309559; FBgn0085424.
GeneIDi34669.
KEGGidme:Dmel_CG34395.

Organism-specific databases

CTDi34669.
FlyBaseiFBgn0085424. nub.

Phylogenomic databases

eggNOGiNOG267922.
InParanoidiP31368.
KOiK09364.
OrthoDBiEOG7DJSMG.

Enzyme and pathway databases

ReactomeiREACT_280300. RNA Polymerase III Abortive And Retractive Initiation.
REACT_344069. RNA Polymerase III Transcription Initiation From Type 3 Promoter.
SignaLinkiP31368.

Miscellaneous databases

GenomeRNAii34669.
NextBioi789610.

Gene expression databases

BgeeiP31368.
ExpressionAtlasiP31368. differential.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
1.10.260.40. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
IPR010982. Lambda_DNA-bd_dom.
IPR013847. POU.
IPR000327. POU_specific.
[Graphical view]
PfamiPF00046. Homeobox. 1 hit.
PF00157. Pou. 1 hit.
[Graphical view]
PRINTSiPR00028. POUDOMAIN.
SMARTiSM00389. HOX. 1 hit.
SM00352. POU. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF47413. SSF47413. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
PS00035. POU_1. 1 hit.
PS00465. POU_2. 1 hit.
PS51179. POU_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Isolation of a family of Drosophila POU domain genes expressed in early development."
    Billin A.N., Cockerill K.A., Poole S.J.
    Mech. Dev. 34:75-84(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, DEVELOPMENTAL STAGE.
    Strain: Oregon-R.
    Tissue: Embryo.
  2. "Characterization of two Drosophila POU domain genes, related to oct-1 and oct-2, and the regulation of their expression patterns."
    Lloyd A., Sakonju S.
    Mech. Dev. 36:87-102(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
  3. "Two closely linked Drosophila POU domain genes are expressed in neuroblasts and sensory elements."
    Dick T., Yang X., Yeo S., Chia W.
    Proc. Natl. Acad. Sci. U.S.A. 88:7645-7649(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
    Tissue: Embryo.
  4. "The genome sequence of Drosophila melanogaster."
    Adams M.D., Celniker S.E., Holt R.A., Evans C.A., Gocayne J.D., Amanatides P.G., Scherer S.E., Li P.W., Hoskins R.A., Galle R.F., George R.A., Lewis S.E., Richards S., Ashburner M., Henderson S.N., Sutton G.G., Wortman J.R., Yandell M.D.
    , Zhang Q., Chen L.X., Brandon R.C., Rogers Y.-H.C., Blazej R.G., Champe M., Pfeiffer B.D., Wan K.H., Doyle C., Baxter E.G., Helt G., Nelson C.R., Miklos G.L.G., Abril J.F., Agbayani A., An H.-J., Andrews-Pfannkoch C., Baldwin D., Ballew R.M., Basu A., Baxendale J., Bayraktaroglu L., Beasley E.M., Beeson K.Y., Benos P.V., Berman B.P., Bhandari D., Bolshakov S., Borkova D., Botchan M.R., Bouck J., Brokstein P., Brottier P., Burtis K.C., Busam D.A., Butler H., Cadieu E., Center A., Chandra I., Cherry J.M., Cawley S., Dahlke C., Davenport L.B., Davies P., de Pablos B., Delcher A., Deng Z., Mays A.D., Dew I., Dietz S.M., Dodson K., Doup L.E., Downes M., Dugan-Rocha S., Dunkov B.C., Dunn P., Durbin K.J., Evangelista C.C., Ferraz C., Ferriera S., Fleischmann W., Fosler C., Gabrielian A.E., Garg N.S., Gelbart W.M., Glasser K., Glodek A., Gong F., Gorrell J.H., Gu Z., Guan P., Harris M., Harris N.L., Harvey D.A., Heiman T.J., Hernandez J.R., Houck J., Hostin D., Houston K.A., Howland T.J., Wei M.-H., Ibegwam C., Jalali M., Kalush F., Karpen G.H., Ke Z., Kennison J.A., Ketchum K.A., Kimmel B.E., Kodira C.D., Kraft C.L., Kravitz S., Kulp D., Lai Z., Lasko P., Lei Y., Levitsky A.A., Li J.H., Li Z., Liang Y., Lin X., Liu X., Mattei B., McIntosh T.C., McLeod M.P., McPherson D., Merkulov G., Milshina N.V., Mobarry C., Morris J., Moshrefi A., Mount S.M., Moy M., Murphy B., Murphy L., Muzny D.M., Nelson D.L., Nelson D.R., Nelson K.A., Nixon K., Nusskern D.R., Pacleb J.M., Palazzolo M., Pittman G.S., Pan S., Pollard J., Puri V., Reese M.G., Reinert K., Remington K., Saunders R.D.C., Scheeler F., Shen H., Shue B.C., Siden-Kiamos I., Simpson M., Skupski M.P., Smith T.J., Spier E., Spradling A.C., Stapleton M., Strong R., Sun E., Svirskas R., Tector C., Turner R., Venter E., Wang A.H., Wang X., Wang Z.-Y., Wassarman D.A., Weinstock G.M., Weissenbach J., Williams S.M., Woodage T., Worley K.C., Wu D., Yang S., Yao Q.A., Ye J., Yeh R.-F., Zaveri J.S., Zhan M., Zhang G., Zhao Q., Zheng L., Zheng X.H., Zhong F.N., Zhong W., Zhou X., Zhu S.C., Zhu X., Smith H.O., Gibbs R.A., Myers E.W., Rubin G.M., Venter J.C.
    Science 287:2185-2195(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Berkeley.
  5. Cited for: GENOME REANNOTATION.
    Strain: Berkeley.
  6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: Berkeley.
    Tissue: Embryo.

Entry informationi

Entry nameiPDM1_DROME
AccessioniPrimary (citable) accession number: P31368
Secondary accession number(s): Q9VK74
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 1993
Last sequence update: July 1, 1993
Last modified: April 1, 2015
This is version 130 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programDrosophila annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Drosophila
    Drosophila: entries, gene names and cross-references to FlyBase
  2. 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.