UniProtKB - P43321 (SMD3_YEAST)
Small nuclear ribonucleoprotein Sm D3
SMD3
Functioni
GO - Molecular functioni
- mRNA binding Source: SGD
- RNA binding Source: GO_Central
GO - Biological processi
- mRNA splicing, via spliceosome Source: SGD
- spliceosomal snRNP assembly Source: GO_Central
Keywordsi
Molecular function | Ribonucleoprotein, RNA-binding |
Biological process | mRNA processing, mRNA splicing |
Names & Taxonomyi
Protein namesi | Recommended name: Small nuclear ribonucleoprotein Sm D3Short name: Sm-D3 Alternative name(s): snRNP core protein D3 |
Gene namesi | Name:SMD3 Ordered Locus Names:YLR147C ORF Names:L9634.6 |
Organismi | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) |
Taxonomic identifieri | 559292 [NCBI] |
Taxonomic lineagei | Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › |
Proteomesi |
|
Organism-specific databases
EuPathDBi | FungiDB:YLR147C |
SGDi | S000004137, SMD3 |
Subcellular locationi
Nucleus
- catalytic step 2 spliceosome Source: GO_Central
- commitment complex Source: SGD
- precatalytic spliceosome Source: GO_Central
- spliceosomal tri-snRNP complex Source: GO_Central
- U1 snRNP Source: SGD
- U12-type spliceosomal complex Source: GO_Central
- U2 snRNP Source: GO_Central
- U2-type prespliceosome Source: SGD
- U4 snRNP Source: GO_Central
- U4/U6 x U5 tri-snRNP complex Source: SGD
- U5 snRNP Source: SGD
Other locations
- pICln-Sm protein complex Source: GO_Central
- SMN-Sm protein complex Source: GO_Central
Keywords - Cellular componenti
Cytoplasm, NucleusPTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000122220 | 1 – 101 | Small nuclear ribonucleoprotein Sm D3Add BLAST | 101 |
Proteomic databases
MaxQBi | P43321 |
PaxDbi | P43321 |
PRIDEi | P43321 |
TopDownProteomicsi | P43321 |
Interactioni
Subunit structurei
Component of the Sm core complex, present in spliceosomal snRNP U1, U2, U4/U6 and U5. The core complex contains SMB1, SMD1, SMD2, SMD3, SME1, SMX3 and SMX2 (Sm proteins B, D1, D2, D3, E, F and G, respectively), and is probably a heptameric ring structure. SMD3 specifically interacts with SMB1. Belongs to the CWC complex (or CEF1-associated complex), a spliceosome sub-complex reminiscent of a late-stage spliceosome composed of the U2, U5 and U6 snRNAs and at least BUD13, BUD31, BRR2, CDC40, CEF1, CLF1, CUS1, CWC2, CWC15, CWC21, CWC22, CWC23, CWC24, CWC25, CWC27, ECM2, HSH155, IST3, ISY1, LEA1, MSL1, NTC20, PRP8, PRP9, PRP11, PRP19, PRP21, PRP22, PRP45, PRP46, SLU7, SMB1, SMD1, SMD2, SMD3, SMX2, SMX3, SNT309, SNU114, SPP2, SYF1, SYF2, RSE1 and YJU2.
Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRP3, PRP4, PRP6, PRP8, PRP18, PRP31, PRP38, SNU13, SNU23, SNU66, SNU114, SPP381, SMB1, SMD1, SMD2, SMD3, SMX2, SMX3, LSM2, LSM3, LSM4, LSM5, LSM6, LSM7, LSM8, BRR2 and DIB1.
4 PublicationsBinary interactionsi
P43321
With | #Exp. | IntAct |
---|---|---|
SMB1 [P40018] | 3 | EBI-529,EBI-432 |
Protein-protein interaction databases
BioGRIDi | 31416, 69 interactors |
ComplexPortali | CPX-1651, PRP19-associated complex CPX-23, U1 snRNP CPX-25, U4/U6.U5 tri-snRNP complex CPX-26, U2 snRNP CPX-29, U5 snRNP CPX-30, AAR2-U5 snRNP CPX-31, U4 snRNP CPX-32, U4/U6 snRNP CPX-43, Sm complex |
DIPi | DIP-715N |
IntActi | P43321, 26 interactors |
MINTi | P43321 |
STRINGi | 4932.YLR147C |
Miscellaneous databases
RNActi | P43321, protein |
Structurei
Secondary structure
3D structure databases
SMRi | P43321 |
ModBasei | Search... |
PDBe-KBi | Search... |
Family & Domainsi
Sequence similaritiesi
Phylogenomic databases
eggNOGi | KOG3172, Eukaryota |
GeneTreei | ENSGT00610000086153 |
HOGENOMi | CLU_099537_1_2_1 |
InParanoidi | P43321 |
OMAi | HESLGHV |
Family and domain databases
CDDi | cd01721, Sm_D3, 1 hit |
InterProi | View protein in InterPro IPR027141, LSm4/Sm_D1/D3 IPR001163, LSM_dom_euk/arc IPR010920, LSM_dom_sf IPR034099, SmD3 |
PANTHERi | PTHR23338, PTHR23338, 1 hit |
Pfami | View protein in Pfam PF01423, LSM, 1 hit |
SMARTi | View protein in SMART SM00651, Sm, 1 hit |
SUPFAMi | SSF50182, SSF50182, 1 hit |
i Sequence
Sequence statusi: Complete.
10 20 30 40 50
MTMNGIPVKL LNEAQGHIVS LELTTGATYR GKLVESEDSM NVQLRDVIAT
60 70 80 90 100
EPQGAVTHMD QIFVRGSQIK FIVVPDLLKN APLFKKNSSR PMPPIRGPKR
R
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 88 | S → P in AAS56859 (PubMed:17322287).Curated | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | M65144 Genomic DNA No translation available. Z73319 Genomic DNA Translation: CAA97719.1 U53879 Genomic DNA Translation: AAB82381.1 AY558533 Genomic DNA Translation: AAS56859.1 BK006945 Genomic DNA Translation: DAA09458.1 |
PIRi | S29093 |
RefSeqi | NP_013248.1, NM_001182034.1 |
Genome annotation databases
EnsemblFungii | YLR147C_mRNA; YLR147C; YLR147C |
GeneIDi | 850839 |
KEGGi | sce:YLR147C |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | M65144 Genomic DNA No translation available. Z73319 Genomic DNA Translation: CAA97719.1 U53879 Genomic DNA Translation: AAB82381.1 AY558533 Genomic DNA Translation: AAS56859.1 BK006945 Genomic DNA Translation: DAA09458.1 |
PIRi | S29093 |
RefSeqi | NP_013248.1, NM_001182034.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
3JCM | electron microscopy | 3.80 | J/R | 1-101 | [»] | |
5GAM | electron microscopy | 3.70 | d | 1-101 | [»] | |
5GAN | electron microscopy | 3.60 | d/n | 1-101 | [»] | |
5GAO | electron microscopy | 3.60 | n | 1-101 | [»] | |
5GM6 | electron microscopy | 3.50 | l | 1-101 | [»] | |
5GMK | electron microscopy | 3.40 | l/y | 1-101 | [»] | |
5LJ3 | electron microscopy | 3.80 | d/n | 1-101 | [»] | |
5LJ5 | electron microscopy | 3.80 | d/n | 1-101 | [»] | |
5LQW | electron microscopy | 5.80 | d | 1-101 | [»] | |
5MPS | electron microscopy | 3.85 | d | 1-101 | [»] | |
5MQ0 | electron microscopy | 4.17 | d/n | 1-101 | [»] | |
5NRL | electron microscopy | 7.20 | d/n/v | 1-101 | [»] | |
5WSG | electron microscopy | 4.00 | U/l | 1-101 | [»] | |
5Y88 | electron microscopy | 3.70 | e/l | 1-101 | [»] | |
5YLZ | electron microscopy | 3.60 | e/l | 1-101 | [»] | |
5ZWM | electron microscopy | 3.40 | S/d/l | 1-101 | [»] | |
5ZWN | electron microscopy | 3.30 | d | 1-101 | [»] | |
5ZWO | electron microscopy | 3.90 | S/d/l | 1-101 | [»] | |
6BK8 | electron microscopy | 3.30 | g/o | 1-101 | [»] | |
6EXN | electron microscopy | 3.70 | d/n | 1-101 | [»] | |
6G90 | electron microscopy | 4.00 | d/v | 1-101 | [»] | |
6J6G | electron microscopy | 3.20 | l/y | 1-101 | [»] | |
6J6H | electron microscopy | 3.60 | l/y | 1-101 | [»] | |
6J6N | electron microscopy | 3.86 | l/y | 1-101 | [»] | |
6J6Q | electron microscopy | 3.70 | l/y | 1-101 | [»] | |
6N7P | electron microscopy | 3.60 | N | 1-101 | [»] | |
6N7R | electron microscopy | 3.20 | N | 1-101 | [»] | |
6N7X | electron microscopy | 3.60 | N | 1-101 | [»] | |
SMRi | P43321 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 31416, 69 interactors |
ComplexPortali | CPX-1651, PRP19-associated complex CPX-23, U1 snRNP CPX-25, U4/U6.U5 tri-snRNP complex CPX-26, U2 snRNP CPX-29, U5 snRNP CPX-30, AAR2-U5 snRNP CPX-31, U4 snRNP CPX-32, U4/U6 snRNP CPX-43, Sm complex |
DIPi | DIP-715N |
IntActi | P43321, 26 interactors |
MINTi | P43321 |
STRINGi | 4932.YLR147C |
Proteomic databases
MaxQBi | P43321 |
PaxDbi | P43321 |
PRIDEi | P43321 |
TopDownProteomicsi | P43321 |
Genome annotation databases
EnsemblFungii | YLR147C_mRNA; YLR147C; YLR147C |
GeneIDi | 850839 |
KEGGi | sce:YLR147C |
Organism-specific databases
EuPathDBi | FungiDB:YLR147C |
SGDi | S000004137, SMD3 |
Phylogenomic databases
eggNOGi | KOG3172, Eukaryota |
GeneTreei | ENSGT00610000086153 |
HOGENOMi | CLU_099537_1_2_1 |
InParanoidi | P43321 |
OMAi | HESLGHV |
Miscellaneous databases
PROi | PR:P43321 |
RNActi | P43321, protein |
Family and domain databases
CDDi | cd01721, Sm_D3, 1 hit |
InterProi | View protein in InterPro IPR027141, LSm4/Sm_D1/D3 IPR001163, LSM_dom_euk/arc IPR010920, LSM_dom_sf IPR034099, SmD3 |
PANTHERi | PTHR23338, PTHR23338, 1 hit |
Pfami | View protein in Pfam PF01423, LSM, 1 hit |
SMARTi | View protein in SMART SM00651, Sm, 1 hit |
SUPFAMi | SSF50182, SSF50182, 1 hit |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | SMD3_YEAST | |
Accessioni | P43321Primary (citable) accession number: P43321 Secondary accession number(s): D6VYE2, E9P8W3 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | November 1, 1995 |
Last sequence update: | November 1, 1995 | |
Last modified: | December 2, 2020 | |
This is version 169 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Fungal Protein Annotation Program |
Miscellaneousi
Keywords - Technical termi
3D-structure, Direct protein sequencing, Reference proteomeDocuments
- Yeast chromosome XII
Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families - Yeast
Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD