Protein
MCA_00632_1
Length
93 amino acids
Gene name: LSM6
Description: U6 snRNA-associated Sm-like protein LSm6
Browser: contigA:1963975-1964444-
RNA-seq: read pairs 1244, FPKM 163.5, percentile rank 85.8% (100% = highest expression)
Protein function
| Annotation: | LSM6 | U6 snRNA-associated Sm-like protein LSm6 | |
|---|---|---|---|
| KEGG: | K12625 | LSM6 | U6 snRNA-associated Sm-like protein LSm6 |
| EGGNOG: | 0PS9T | LSM6 | Component of LSm protein complexes, which are involved in RNA processing and may function in a chaperone-like manner, facilitating the efficient association of RNA processing factors with their substrates. Component of the cytoplasmic LSM1-LSM7 complex, which is thought to be involved in mRNA degradation by activating the decapping step in the 5'-to-3' mRNA decay pathway. Component of the nuclear LSM2-LSM8 complex, which is involved in splicing of nuclear mRNAs. LSM2-LSM8 associates with multiple snRNP complexes containing the U6 snRNA (U4 U6 di-snRNP, spliceosomal U4 U6.U5 tri-snRNP, and free U6 snRNP). It binds directly to the 3'-terminal U-tract of U6 snRNA and plays a role in the biogenesis and stability of the U6 snRNP and U4 U6 snRNP complexes. LSM2-LSM8 probably also is involved degradation of nuclear pre-mRNA by targeting them for decapping, and in processing of pre-tRNAs, pre-rRNAs and U3 snoRNA (By similarity) |
| SGD closest match: | S000002786 | LSM6 | U6 snRNA-associated Sm-like protein LSm6 |
| CGD closest match: | CAL0000192983 | LSM6 | U4/U6-U5 snRNP complex subunit |
Protein alignments
| %id | Aln length | E-value | ||
|---|---|---|---|---|
| MIA_01389_1 | 60.67% | 89 | 5e-33 | MIA_01389_1 |
| A0A0J9X3X0_GEOCN | 65.75% | 73 | 2e-31 | Similar to Saccharomyces cerevisiae YDR378C LSM6 Lsm (Like Sm) protein OS=Geotrichum candidum GN=BN980_GECA01s06225g PE=3 SV=1 |
| UniRef50_P62312 | 62.16% | 74 | 1e-24 | U6 snRNA-associated Sm-like protein LSm6 n=79 Tax=Bilateria TaxID=33213 RepID=LSM6_HUMAN |
| A0A1D8PRP0_CANAL | 58.33% | 72 | 3e-25 | U4/U6-U5 snRNP complex subunit OS=Candida albicans (strain SC5314 / ATCC MYA-2876) GN=LSM6 PE=3 SV=1 |
| A0A1E3PSA4_9ASCO | 57.97% | 69 | 2e-24 | LSM-domain-containing protein OS=Nadsonia fulvescens var. elongata DSM 6958 GN=NADFUDRAFT_81180 PE=3 SV=1 |
| A0A1E4TM12_9ASCO | 56.34% | 71 | 6e-25 | Uncharacterized protein OS=Tortispora caseinolytica NRRL Y-17796 GN=CANCADRAFT_21509 PE=3 SV=1 |
| A0A060T0X3_BLAAD | 55.74% | 61 | 2e-19 | Uncharacterized protein OS=Blastobotrys adeninivorans GN=GNLVRS02_ARAD1C16111g PE=4 SV=1 |
| Q6CHS5_YARLI | 42.65% | 68 | 5e-15 | YALI0A05423p OS=Yarrowia lipolytica (strain CLIB 122 / E 150) GN=YALI0_A05423g PE=3 SV=1 |
| LSM6_YEAST | 44.71% | 85 | 6e-13 | U6 snRNA-associated Sm-like protein LSm6 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=LSM6 PE=1 SV=2 |
Mitochondrial localization by mitoprotII
Probability of mitochondrial location: 0.0275
Protein family membership
- Sm-like protein Lsm6/SmF (IPR016487)
Domains and repeats
-
Domain
1
10
20
30
40
50
60
70
80
93
Detailed signature matches
-
-
PIRSF006609 (snRNP_SmF)
-
-
-
SSF50182 (Sm-like r...)
-
no IPR
Unintegrated signatures
-
-
cd01726 (LSm6)
-
mobidb-lite (disord...)
Residue annotation
-
hexamer interface ...
-
Sm1 motif cd01726
-
putative RNA bindi...
-
Sm2 motif cd01726
Protein sequence
>MCA_00632_1 MSSSPDNSSVAQTENKTNSESKYDPSAFLHQIIGQEVVVKIFSGVEYRGVLQSVDGFMNLALESTREYINKKEITKYGDV FVRGHNVIYISTA
GO term prediction
Biological Process
GO:0000398 mRNA splicing, via spliceosome
Molecular Function
None predicted.
Cellular Component
GO:0005732 small nucleolar ribonucleoprotein complex