P31368 (PDM1_DROME) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Protein nubbin

Alternative name(s):
POU domain protein 1
Short name=PDM-1
Protein twain
dOCT1
dPOU-19

Gene names

Name:	nub
Synonyms:	OCT1, pdm-1, POU-19, TWN
ORF Names:	CG34395

Organism

Drosophila melanogaster (Fruit fly) [Reference proteome]

Taxonomic identifier

7227 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Protostomia › Ecdysozoa › Panarthropoda › Arthropoda › Mandibulata › Pancrustacea › Hexapoda › Insecta › Dicondylia › Pterygota › Neoptera › Endopterygota › Diptera › Brachycera › Muscomorpha › Eremoneura › Cyclorrhapha › Schizophora › Acalyptratae › Ephydroidea › Drosophilidae › Drosophilinae › Drosophilini › Drosophilina › Drosophiliti › Drosophila › Sophophora › melanogaster group › melanogaster subgroup

Protein attributes

Sequence length	601 AA.
Sequence status	Complete.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	DNA-binding regulatory protein implicated in early development. Involved in neuronal cell fate decision. Repressed directly or indirectly by the BX-C homeotic proteins. Ref.1 Ref.2 Ref.3
Subcellular location	Nucleus Ref.3.
Tissue specificity	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. Ref.2 Ref.3
Developmental stage	Expressed both maternally and zygotically. Ref.1 Ref.2 Ref.3
Sequence similarities	Belongs to the POU transcription factor family. Class-2 subfamily. Contains 1 homeobox DNA-binding domain. Contains 1 POU-specific domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Domain	Homeobox
Ligand	DNA-binding
Molecular function	Developmental protein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	ganglion mother cell fate determination Traceable author statement PubMed 12593977. Source: FlyBase pattern specification process Non-traceable author statement PubMed 12508275. Source: FlyBase ventral cord development Non-traceable author statement PubMed 12593977. Source: FlyBase wing disc development Inferred from genetic interaction PubMed 20730086. Source: FlyBase
Cellular_component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription Inferred from direct assay PubMed 17296495. Source: FlyBase sequence-specific DNA binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 601	601	Protein nubbin		PRO_0000100777
Regions
	Domain	421 – 495	75	POU-specific
	DNA binding	523 – 582	60	Homeobox
	Compositional bias	104 – 107	4	Poly-His
	Compositional bias	191 – 201	11	Poly-Ala
	Compositional bias	359 – 364	6	Poly-His
	Compositional bias	407 – 415	9	Poly-Ala
Experimental info
	Sequence conflict	420	1	P → R in AAB21409. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	P31368 [UniParc]. Last modified July 1, 1993. Version 1. Checksum: 8FFCD7B3C162D2B2	FASTA	601	65,202
	10 20 30 40 50 60 MVMSELRWHT ASPEDNKNSL KRDLLKSTPT SAREAAVHIM QNRYISRLSR SPSPLQSNAS 70 80 90 100 110 120 DCDDNNSSVG TSSDRCRSPL SPALSLSHQQ AKRQLMSLQP HPAHHHHNPH HLNHLNHHQY 130 140 150 160 170 180 KQEEDYDDAN GGALNLTSDN SRHSTQSPSN SVKSATASPV PVISVPSPVP PMISPVLAPS 190 200 210 220 230 240 GCGSTTPNSM AAAAAAAAAV ASTMGSGISP LLALPGMSSP QAQLAAAGLG MNNPLLTGSL 250 260 270 280 290 300 SPQDFAQFHQ LLQQRQVALT QQFNSYMELL RSGSLGLAQD DPALTAQVAA AQFLMQSQLQ 310 320 330 340 350 360 ALSQASQQLQ ALQKQQQRQV DEPLQLNHKM TQQPRSSTPH SIRSPIAIRS PASSPQQLHH 370 380 390 400 410 420 HHHHPLQITP PSSAASLKLS GMLTPSTPTS GTQMSQGTTT PQPKTVASAA AARAAGEPSP 430 440 450 460 470 480 EETTDLEELE QFAKTFKQRR IKLGFTQGDV GLAMGKLYGN DFSQTTISRF EALNLSFKNM 490 500 510 520 530 540 CKLKPLLQKW LDDADRTIQA TGGVFDPAAL QATVSTPEII GRRRKKRTSI ETTIRGALEK 550 560 570 580 590 600 AFLANQKPTS EEITQLADRL SMEKEVVRVW FCNRRQKEKR INPSLDSPTG ADDDESSYMM H

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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(1991) [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(1991) [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(1991) [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(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Berkeley.
[5]	"Annotation of the Drosophila melanogaster euchromatic genome: a systematic review." Misra S., Crosby M.A., Mungall C.J., Matthews B.B., Campbell K.S., Hradecky P., Huang Y., Kaminker J.S., Millburn G.H., Prochnik S.E., Smith C.D., Tupy J.L., Whitfield E.J., Bayraktaroglu L., Berman B.P., Bettencourt B.R., Celniker S.E., de Grey A.D.N.J. , Drysdale R.A., Harris N.L., Richter J., Russo S., Schroeder A.J., Shu S.Q., Stapleton M., Yamada C., Ashburner M., Gelbart W.M., Rubin G.M., Lewis S.E. Genome Biol. 3:RESEARCH0083.1-RESEARCH0083.22(2002) [PubMed] [Europe PMC] [Abstract] Cited for: GENOME REANNOTATION. Strain: Berkeley.
[6]	"A Drosophila full-length cDNA resource." Stapleton M., Carlson J.W., Brokstein P., Yu C., Champe M., George R.A., Guarin H., Kronmiller B., Pacleb J.M., Park S., Wan K.H., Rubin G.M., Celniker S.E. Genome Biol. 3:RESEARCH0080.1-RESEARCH0080.8(2002) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: Berkeley. Tissue: Embryo.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	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.
PIR	B56564.
RefSeq	NP_476659.1. NM_057311.4.
UniGene	Dm.4744.
3D structure databases
ProteinModelPortal	P31368.
SMR	P31368. Positions 425-583.
ModBase	Search...
Proteomic databases
PaxDb	P31368.
PRIDE	P31368.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblMetazoa	FBtr0112643; FBpp0111555; FBgn0085424.
GeneID	34669.
KEGG	dme:Dmel_CG34395.
Organism-specific databases
CTD	34669.
FlyBase	FBgn0085424. nub.
Phylogenomic databases
eggNOG	NOG267922.
GeneTree	ENSGT00700000104117.
InParanoid	P31368.
KO	K09364.
OrthoDB	EOG4PG4H3.
Gene expression databases
Bgee	P31368.
GermOnline	CG6246. Drosophila melanogaster.
Family and domain databases
Gene3D	1.10.10.60. 1 hit. 1.10.260.40. 1 hit.
InterPro	IPR017970. Homeobox_CS. IPR001356. Homeodomain. IPR009057. Homeodomain-like. IPR010982. Lambda_DNA-bd_dom. IPR013847. POU. IPR000327. POU_specific. [Graphical view]
Pfam	PF00046. Homeobox. 1 hit. PF00157. Pou. 1 hit. [Graphical view]
PRINTS	PR00028. POUDOMAIN.
SMART	SM00389. HOX. 1 hit. SM00352. POU. 1 hit. [Graphical view]
SUPFAM	SSF46689. Homeodomain_like. 1 hit. SSF47413. Lambda_like_DNA. 1 hit.
PROSITE	PS00027. 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]
ProtoNet	Search...
Other
GenomeRNAi	34669.
NextBio	789610.

Entry information

Entry name

PDM1_DROME

Accession

Primary (citable) accession number: P31368
Secondary accession number(s): Q9VK74

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 1, 1993
Last sequence update:	July 1, 1993
Last modified:	April 3, 2013
This is version 113 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Drosophila annotation project