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Protein

Transmembrane protein 39B

Gene

TMEM39B

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

Functioni

GO - Biological processi

  • mitophagy in response to mitochondrial depolarization Source: ParkinsonsUK-UCL
  • positive regulation of defense response to virus by host Source: ParkinsonsUK-UCL
  • xenophagy Source: ParkinsonsUK-UCL
Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Transmembrane protein 39B
Gene namesi
Name:TMEM39B
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:25510. TMEM39B.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei77 – 9721HelicalSequence analysisAdd
BLAST
Transmembranei115 – 13521HelicalSequence analysisAdd
BLAST
Transmembranei153 – 17523HelicalSequence analysisAdd
BLAST
Transmembranei185 – 20521HelicalSequence analysisAdd
BLAST
Transmembranei288 – 30821HelicalSequence analysisAdd
BLAST
Transmembranei322 – 34221HelicalSequence analysisAdd
BLAST
Transmembranei421 – 44121HelicalSequence analysisAdd
BLAST
Transmembranei447 – 46721HelicalSequence analysisAdd
BLAST

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134933688.

Polymorphism and mutation databases

BioMutaiTMEM39B.
DMDMi74752540.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 492492Transmembrane protein 39BPRO_0000279232Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi8 – 81N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

EPDiQ9GZU3.
MaxQBiQ9GZU3.
PaxDbiQ9GZU3.
PRIDEiQ9GZU3.

PTM databases

iPTMnetiQ9GZU3.
PhosphoSiteiQ9GZU3.

Expressioni

Gene expression databases

BgeeiQ9GZU3.
CleanExiHS_TMEM39B.
ExpressionAtlasiQ9GZU3. baseline and differential.
GenevisibleiQ9GZU3. HS.

Organism-specific databases

HPAiHPA040191.
HPA040224.

Interactioni

Protein-protein interaction databases

BioGridi120425. 12 interactions.
IntActiQ9GZU3. 2 interactions.
MINTiMINT-1431842.
STRINGi9606.ENSP00000338165.

Structurei

3D structure databases

ProteinModelPortaliQ9GZU3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi22 – 5332Ser-richAdd
BLAST

Sequence similaritiesi

Belongs to the TMEM39 family.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3828. Eukaryota.
ENOG410XQMI. LUCA.
GeneTreeiENSGT00390000018895.
HOGENOMiHOG000230708.
HOVERGENiHBG059894.
InParanoidiQ9GZU3.
OMAiCHLIALF.
OrthoDBiEOG7ZWD2C.
PhylomeDBiQ9GZU3.
TreeFamiTF321110.

Family and domain databases

InterProiIPR019397. Uncharacterised_TMEM39.
[Graphical view]
PANTHERiPTHR12995. PTHR12995. 1 hit.
PfamiPF10271. Tmp39. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9GZU3-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MGGRRGPNRT SYCRNPLCEP GSSGGSSGSH TSSASVTSVR SRTRSSSGTG
60 70 80 90 100
LSSPPLATQT VVPLQHCKIP ELPVQASILF ELQLFFCQLI ALFVHYINIY
110 120 130 140 150
KTVWWYPPSH PPSHTSLNFH LIDFNLLMVT TIVLGRRFIG SIVKEASQRG
160 170 180 190 200
KVSLFRSILL FLTRFTVLTA TGWSLCRSLI HLFRTYSFLN LLFLCYPFGM
210 220 230 240 250
YIPFLQLNCD LRKTSLFNHM ASMGPREAVS GLAKSRDYLL TLRETWKQHT
260 270 280 290 300
RQLYGPDAMP THACCLSPSL IRSEVEFLKM DFNWRMKEVL VSSMLSAYYV
310 320 330 340 350
AFVPVWFVKN THYYDKRWSC ELFLLVSIST SVILMQHLLP ASYCDLLHKA
360 370 380 390 400
AAHLGCWQKV DPALCSNVLQ HPWTEECMWP QGVLVKHSKN VYKAVGHYNV
410 420 430 440 450
AIPSDVSHFR FHFFFSKPLR ILNILLLLEG AVIVYQLYSL MSSEKWHQTI
460 470 480 490
SLALILFSNY YAFFKLLRDR LVLGKAYSYS ASPQRDLDHR FS
Length:492
Mass (Da):56,274
Last modified:March 1, 2001 - v1
Checksum:i7DB7A225AA8BC9A8
GO
Isoform 2 (identifier: Q9GZU3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     146-221: ASQRGKVSLF...RKTSLFNHMA → VWDVHSVPAA...LLPVTQPHPQ
     222-492: Missing.

Note: No experimental confirmation available.
Show »
Length:221
Mass (Da):23,939
Checksum:i3F44CE0B3A9B5736
GO
Isoform 3 (identifier: Q9GZU3-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-117: MGGRRGPNRT...PSHPPSHTSL → MK
     413-457: FFFSKPLRIL...QTISLALILF → VSLLPGEGGL...PNPKEDSAHM
     458-492: Missing.

Note: No experimental confirmation available.
Show »
Length:342
Mass (Da):39,209
Checksum:i65A29D27632168A5
GO
Isoform 4 (identifier: Q9GZU3-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-199: Missing.

Note: No experimental confirmation available.
Show »
Length:293
Mass (Da):34,104
Checksum:i53F489A037FD9362
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti72 – 721L → P in CAG33592 (Ref. 3) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 199199Missing in isoform 4. 1 PublicationVSP_056123Add
BLAST
Alternative sequencei1 – 117117MGGRR…SHTSL → MK in isoform 3. 1 PublicationVSP_056124Add
BLAST
Alternative sequencei146 – 22176ASQRG…FNHMA → VWDVHSVPAAELRPPQDKPL QPHGLHGAPGGGQWPGKEPG LPPDTAGDVEAAHKTAVWPG RHAHPCLLPVTQPHPQ in isoform 2. 1 PublicationVSP_056125Add
BLAST
Alternative sequencei222 – 492271Missing in isoform 2. 1 PublicationVSP_056126Add
BLAST
Alternative sequencei413 – 45745FFFSK…ALILF → VSLLPGEGGLGPERVGGSAG QECDVIARESYFQYFPNPKE DSAHM in isoform 3. 1 PublicationVSP_056127Add
BLAST
Alternative sequencei458 – 49235Missing in isoform 3. 1 PublicationVSP_056128Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK023331 mRNA. Translation: BAB14530.1.
AK296653 mRNA. Translation: BAG59250.1.
AK298766 mRNA. Translation: BAG60908.1.
AK300293 mRNA. Translation: BAG62050.1.
AL136695 mRNA. Translation: CAB66630.1.
CR457311 mRNA. Translation: CAG33592.1.
CR533536 mRNA. Translation: CAG38567.1.
AL445248 Genomic DNA. Translation: CAH71947.1.
CH471059 Genomic DNA. Translation: EAX07570.1.
CH471059 Genomic DNA. Translation: EAX07571.1.
CH471059 Genomic DNA. Translation: EAX07573.1.
CCDSiCCDS351.2. [Q9GZU3-1]
RefSeqiNP_001306606.1. NM_001319677.1.
NP_001306607.1. NM_001319678.1. [Q9GZU3-4]
NP_001306608.1. NM_001319679.1. [Q9GZU3-4]
NP_060526.2. NM_018056.3. [Q9GZU3-1]
XP_011539986.1. XM_011541684.1. [Q9GZU3-4]
UniGeneiHs.25544.

Genome annotation databases

EnsembliENST00000336294; ENSP00000338165; ENSG00000121775. [Q9GZU3-1]
GeneIDi55116.
KEGGihsa:55116.
UCSCiuc010ogv.3. human. [Q9GZU3-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK023331 mRNA. Translation: BAB14530.1.
AK296653 mRNA. Translation: BAG59250.1.
AK298766 mRNA. Translation: BAG60908.1.
AK300293 mRNA. Translation: BAG62050.1.
AL136695 mRNA. Translation: CAB66630.1.
CR457311 mRNA. Translation: CAG33592.1.
CR533536 mRNA. Translation: CAG38567.1.
AL445248 Genomic DNA. Translation: CAH71947.1.
CH471059 Genomic DNA. Translation: EAX07570.1.
CH471059 Genomic DNA. Translation: EAX07571.1.
CH471059 Genomic DNA. Translation: EAX07573.1.
CCDSiCCDS351.2. [Q9GZU3-1]
RefSeqiNP_001306606.1. NM_001319677.1.
NP_001306607.1. NM_001319678.1. [Q9GZU3-4]
NP_001306608.1. NM_001319679.1. [Q9GZU3-4]
NP_060526.2. NM_018056.3. [Q9GZU3-1]
XP_011539986.1. XM_011541684.1. [Q9GZU3-4]
UniGeneiHs.25544.

3D structure databases

ProteinModelPortaliQ9GZU3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi120425. 12 interactions.
IntActiQ9GZU3. 2 interactions.
MINTiMINT-1431842.
STRINGi9606.ENSP00000338165.

PTM databases

iPTMnetiQ9GZU3.
PhosphoSiteiQ9GZU3.

Polymorphism and mutation databases

BioMutaiTMEM39B.
DMDMi74752540.

Proteomic databases

EPDiQ9GZU3.
MaxQBiQ9GZU3.
PaxDbiQ9GZU3.
PRIDEiQ9GZU3.

Protocols and materials databases

DNASUi55116.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000336294; ENSP00000338165; ENSG00000121775. [Q9GZU3-1]
GeneIDi55116.
KEGGihsa:55116.
UCSCiuc010ogv.3. human. [Q9GZU3-1]

Organism-specific databases

CTDi55116.
GeneCardsiTMEM39B.
HGNCiHGNC:25510. TMEM39B.
HPAiHPA040191.
HPA040224.
neXtProtiNX_Q9GZU3.
PharmGKBiPA134933688.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG3828. Eukaryota.
ENOG410XQMI. LUCA.
GeneTreeiENSGT00390000018895.
HOGENOMiHOG000230708.
HOVERGENiHBG059894.
InParanoidiQ9GZU3.
OMAiCHLIALF.
OrthoDBiEOG7ZWD2C.
PhylomeDBiQ9GZU3.
TreeFamiTF321110.

Miscellaneous databases

ChiTaRSiTMEM39B. human.
GenomeRNAii55116.
NextBioi35472833.
PROiQ9GZU3.

Gene expression databases

BgeeiQ9GZU3.
CleanExiHS_TMEM39B.
ExpressionAtlasiQ9GZU3. baseline and differential.
GenevisibleiQ9GZU3. HS.

Family and domain databases

InterProiIPR019397. Uncharacterised_TMEM39.
[Graphical view]
PANTHERiPTHR12995. PTHR12995. 1 hit.
PfamiPF10271. Tmp39. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "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] (ISOFORMS 1; 2; 3 AND 4).
    Tissue: Colon, Ovary and Placenta.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Tissue: Brain.
  3. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
    Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
    Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
  4. "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].
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

Entry informationi

Entry nameiTM39B_HUMAN
AccessioniPrimary (citable) accession number: Q9GZU3
Secondary accession number(s): B4DKN8
, B4DQE6, B4DTN8, D3DPP4, Q6IA44
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 6, 2007
Last sequence update: March 1, 2001
Last modified: May 11, 2016
This is version 101 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 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.