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Protein

Protein lin-28 homolog B

Gene

Lin28b

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Suppressor of microRNA (miRNA) biogenesis, including that of let-7 and possibly of miR107, miR-143 and miR-200c. Binds primary let-7 transcripts (pri-let-7), including pri-let-7g and pri-let-7a-1, and sequester them in the nucleolus, away from the microprocessor complex, hence preventing their processing into mature miRNA. Does not act on pri-miR21. The repression of let-7 expression is required for normal development and contributes to maintain the pluripotent state of embryonic stem cells by preventing let-7-mediated differentiation. When overexpressed, recruits ZCCHC11/TUT4 uridylyltransferase to pre-let-7 transcripts, leading to their terminal uridylation and degradation. This activity might not be relevant in vivo, as LIN28B-mediated inhibition of let-7 miRNA maturation appears to be ZCCHC11-independent. Interaction with target pre-miRNAs occurs via an 5'-GGAG-3' motif in the pre-miRNA terminal loop (By similarity). Mediates MYC-induced let-7 repression (PubMed:19211792). When overexpressed, may stimulate growth of carcinoma cell lines (By similarity).By similarity1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi127 – 1271Zinc 1By similarity
Metal bindingi130 – 1301Zinc 1By similarity
Metal bindingi135 – 1351Zinc 1By similarity
Metal bindingi140 – 1401Zinc 1By similarity
Metal bindingi149 – 1491Zinc 2By similarity
Metal bindingi152 – 1521Zinc 2By similarity
Metal bindingi157 – 1571Zinc 2By similarity
Metal bindingi162 – 1621Zinc 2By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri125 – 14218CCHC-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri147 – 16418CCHC-type 2PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

RNA-mediated gene silencing

Keywords - Ligandi

Metal-binding, RNA-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Protein lin-28 homolog B
Short name:
Lin-28B
Gene namesi
Name:Lin28b
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 10

Organism-specific databases

MGIiMGI:3584032. Lin28b.

Subcellular locationi

  • Nucleusnucleolus By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 247247Protein lin-28 homolog BPRO_0000253794Add
BLAST

Proteomic databases

MaxQBiQ45KJ6.
PRIDEiQ45KJ6.

PTM databases

PhosphoSiteiQ45KJ6.

Expressioni

Gene expression databases

BgeeiQ45KJ6.
CleanExiMM_LIN28B.

Interactioni

Protein-protein interaction databases

DIPiDIP-48572N.

Structurei

3D structure databases

ProteinModelPortaliQ45KJ6.
SMRiQ45KJ6. Positions 22-176.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini27 – 10074CSDAdd
BLAST

Domaini

The tandem zinc fingers, also referred as zinc knuckle domain (ZKD), mediate specific binding to the GGAG/GGUG motif while the CSD shows only limited pyrimidine-rich sequence specificity. Both domains bind single-stranded nucleic acids (By similarity).By similarity

Sequence similaritiesi

Belongs to the lin-28 family.Curated
Contains 2 CCHC-type zinc fingers.PROSITE-ProRule annotation
Contains 1 CSD (cold-shock) domain.Curated

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri125 – 14218CCHC-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri147 – 16418CCHC-type 2PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00840000129853.
HOGENOMiHOG000047091.
HOVERGENiHBG081922.
InParanoidiQ45KJ6.
KOiK18754.
OMAiSEWPGRS.
OrthoDBiEOG72JWJ8.
PhylomeDBiQ45KJ6.
TreeFamiTF316240.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
4.10.60.10. 1 hit.
InterProiIPR011129. Cold_shock_prot.
IPR002059. CSP_DNA-bd.
IPR012340. NA-bd_OB-fold.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00313. CSD. 1 hit.
PF00098. zf-CCHC. 2 hits.
[Graphical view]
PRINTSiPR00050. COLDSHOCK.
SMARTiSM00357. CSP. 1 hit.
SM00343. ZnF_C2HC. 2 hits.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF57756. SSF57756. 1 hit.
PROSITEiPS50158. ZF_CCHC. 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: Q45KJ6-1) [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
MAEGGASKGE EPEKLPGLAE DEPQVLHGTG HCKWFNVRMG FGFISMISRE
60 70 80 90 100
GNPLDIPVDV FVHQSKLFME GFRSLKEGEP VEFTFKKSPK GLESIRVTGP
110 120 130 140 150
GGSPCLGSER RPKGKTLQKR KPKGDRCYNC GGLDHHAKEC SLPPQPKKCH
160 170 180 190 200
YCQSIMHMVA NCPHKLAAQL PASSQGRQEA ESQPCSSAAP REVGGGHGCT
210 220 230 240
VLFPQEVKSE MAEHSDRSPQ EVSSTKAFAA IGEQNKKGPL IQKRKKT
Length:247
Mass (Da):26,903
Last modified:October 17, 2006 - v2
Checksum:i5ECB233AF2FA6DDF
GO
Isoform 2 (identifier: Q45KJ6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     125-125: D → DRWRRQDLLMDQMWTVREEESRMIP

Show »
Length:271
Mass (Da):30,047
Checksum:i3FA8817EE9CAEC2D
GO
Isoform 3 (identifier: Q45KJ6-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-38: Missing.
     125-125: D → DRWRRQDLLMDQMWTVREEESRMIP
     127-152: CYNCGGLDHHAKECSLPPQPKKCHYC → FVWLGQQERRRDRFPRWGKLQDGLGV
     153-247: Missing.

Note: No experimental confirmation available.
Show »
Length:138
Mass (Da):16,093
Checksum:iAEFBE8EECC5ABB15
GO
Isoform 4 (identifier: Q45KJ6-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-3: MAE → MHLVPLLANILNVLQKMMRSFNQGSSAP
     65-71: SKLFMEG → LFPPSHH
     72-247: Missing.

Note: No experimental confirmation available.
Show »
Length:96
Mass (Da):10,571
Checksum:iC9192752D6C72CBB
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 3838Missing in isoform 3. 1 PublicationVSP_021115Add
BLAST
Alternative sequencei1 – 33MAE → MHLVPLLANILNVLQKMMRS FNQGSSAP in isoform 4. 1 PublicationVSP_021116
Alternative sequencei65 – 717SKLFMEG → LFPPSHH in isoform 4. 1 PublicationVSP_021117
Alternative sequencei72 – 247176Missing in isoform 4. 1 PublicationVSP_021118Add
BLAST
Alternative sequencei125 – 1251D → DRWRRQDLLMDQMWTVREEE SRMIP in isoform 2 and isoform 3. 3 PublicationsVSP_021119
Alternative sequencei127 – 15226CYNCG…KCHYC → FVWLGQQERRRDRFPRWGKL QDGLGV in isoform 3. 1 PublicationVSP_021120Add
BLAST
Alternative sequencei153 – 24795Missing in isoform 3. 1 PublicationVSP_021121Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ127225 mRNA. Translation: AAZ38894.1.
AK133928 mRNA. Translation: BAE21931.1.
AK012973 mRNA. Translation: BAE43235.1.
AC153847 Genomic DNA. No translation available.
AC155715 Genomic DNA. No translation available.
BC089037 mRNA. Translation: AAH89037.1.
CCDSiCCDS35895.1. [Q45KJ6-2]
RefSeqiNP_001026942.1. NM_001031772.2. [Q45KJ6-2]
XP_011241490.1. XM_011243188.1. [Q45KJ6-2]
UniGeneiMm.440328.

Genome annotation databases

EnsembliENSMUST00000079390; ENSMUSP00000078361; ENSMUSG00000063804. [Q45KJ6-2]
GeneIDi380669.
KEGGimmu:380669.
UCSCiuc007faa.2. mouse. [Q45KJ6-2]
uc007fab.1. mouse. [Q45KJ6-3]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ127225 mRNA. Translation: AAZ38894.1.
AK133928 mRNA. Translation: BAE21931.1.
AK012973 mRNA. Translation: BAE43235.1.
AC153847 Genomic DNA. No translation available.
AC155715 Genomic DNA. No translation available.
BC089037 mRNA. Translation: AAH89037.1.
CCDSiCCDS35895.1. [Q45KJ6-2]
RefSeqiNP_001026942.1. NM_001031772.2. [Q45KJ6-2]
XP_011241490.1. XM_011243188.1. [Q45KJ6-2]
UniGeneiMm.440328.

3D structure databases

ProteinModelPortaliQ45KJ6.
SMRiQ45KJ6. Positions 22-176.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-48572N.

PTM databases

PhosphoSiteiQ45KJ6.

Proteomic databases

MaxQBiQ45KJ6.
PRIDEiQ45KJ6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000079390; ENSMUSP00000078361; ENSMUSG00000063804. [Q45KJ6-2]
GeneIDi380669.
KEGGimmu:380669.
UCSCiuc007faa.2. mouse. [Q45KJ6-2]
uc007fab.1. mouse. [Q45KJ6-3]

Organism-specific databases

CTDi389421.
MGIiMGI:3584032. Lin28b.

Phylogenomic databases

GeneTreeiENSGT00840000129853.
HOGENOMiHOG000047091.
HOVERGENiHBG081922.
InParanoidiQ45KJ6.
KOiK18754.
OMAiSEWPGRS.
OrthoDBiEOG72JWJ8.
PhylomeDBiQ45KJ6.
TreeFamiTF316240.

Miscellaneous databases

NextBioi401084.
PROiQ45KJ6.
SOURCEiSearch...

Gene expression databases

BgeeiQ45KJ6.
CleanExiMM_LIN28B.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
4.10.60.10. 1 hit.
InterProiIPR011129. Cold_shock_prot.
IPR002059. CSP_DNA-bd.
IPR012340. NA-bd_OB-fold.
IPR001878. Znf_CCHC.
[Graphical view]
PfamiPF00313. CSD. 1 hit.
PF00098. zf-CCHC. 2 hits.
[Graphical view]
PRINTSiPR00050. COLDSHOCK.
SMARTiSM00357. CSP. 1 hit.
SM00343. ZnF_C2HC. 2 hits.
[Graphical view]
SUPFAMiSSF50249. SSF50249. 1 hit.
SSF57756. SSF57756. 1 hit.
PROSITEiPS50158. ZF_CCHC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Expression of Lin28A and Lin28B in post-implantation mouse embryos."
    Moss E.G., Kemper K.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2).
    Strain: C57BL/6J.
  2. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 3 AND 4).
    Strain: C57BL/6J.
    Tissue: Embryo.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Strain: C57BL/6J.
    Tissue: Eye.
  5. Cited for: FUNCTION IN MYC-MEDIATED LET-7 REPRESSION.

Entry informationi

Entry nameiLN28B_MOUSE
AccessioniPrimary (citable) accession number: Q45KJ6
Secondary accession number(s): Q3UZC6, Q3V444
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 17, 2006
Last sequence update: October 17, 2006
Last modified: May 11, 2016
This is version 94 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  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.