Tbio RNPC3 RNA-binding region-containing protein 3

Protein Summary

Description

Participates in pre-mRNA U12-dependent splicing, performed by the minor spliceosome which removes U12-type introns. U12-type introns comprises less than 1% of all non-coding sequences. Binds to the 3'-stem-loop of m(7)G-capped U12 snRNA. Two types of spliceosomes catalyze splicing of pre-mRNAs. The major U2-type spliceosome is found in all eukaryotes and removes U2-type introns, which represent more than 99% of pre-mRNA introns. The minor U12-type spliceosome is found in some eukaryotes and removes U12-type introns, which are rare and have distinct splice consensus signals. The U12-type spliceosome consists of several small nuclear RNAs and associated proteins. This gene encodes a 65K protein that is a component of the U12-type spliceosome. This protein contains two RNA recognition motifs (RRMs), suggesting that it may contact one of the small nuclear RNAs of the minor spliceosome. [provided by RefSeq, Jul 2008]

Uniprot Accession IDs

• Q96LT9
• A8K1C9
• D3DT74
• Q5TZ87
• Q96FK7
• Q96JI8
• Q9NSU7
• Q9NXX2

Gene Name

• RNPC3

Ensembl ID

• ENST00000423855
• ENSP00000391432
• ENSG00000185946
• ENST00000524631
• ENSP00000437278
• ENST00000533099
• ENSP00000432886

Symbol

• KIAA1839
• RBM40
• RNP
• SNRNP65
• RNP
• IGHD5
• RBM40
• SNRNP65

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
transcription factor perturbation	0.91
histone modification site profile	0.76
cell type or tissue	0.59
interacting protein	0.55
tissue sample	0.55

Related Tools

GENEVA

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IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 17.59   (req: < 5)

Gene RIFs: 4   (req: <= 3)

Antibodies: 79   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 17.59   (req: >= 5)

Gene RIFs: 4   (req: > 3)

Antibodies: 79   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 4

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

Orthologs (12)

1 – 5 of 12

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	RNA binding region (RNP1, RRM) containing 3		469395
Macaque	RNA binding region (RNP1, RRM) containing 3		717115
Mouse	RNA-binding region (RNP1, RRM) containing 3	MGI:1914475	67225
Rat	RNA-binding region (RNP1, RRM) containing 3	RGD:1582776	691538
Dog	RNA binding region (RNP1, RRM) containing 3		490136

Species	Name	OMA	EggNOG	Inparanoid
Chimp	RNA binding region (RNP1, RRM) containing 3
Macaque	RNA binding region (RNP1, RRM) containing 3
Mouse	RNA-binding region (RNP1, RRM) containing 3
Rat	RNA-binding region (RNP1, RRM) containing 3
Dog	RNA binding region (RNP1, RRM) containing 3

Protein Structure (2 Structures, 1 AlphaFold Model)

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Representation

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Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-Q96LT9-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 2 of 2

PDB Structure Id	Ligand	Method	Resolution (Å)	Residues	Fraction of Total Protein	Pub Year	Title

PDB Structure Id	Fraction of Total Protein	Resolution	Pub Year

Pathways (4)

Reactome (4)

Metabolism of RNA (R-HSA-8953854)

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Find Similar Targets

Items per page:

5

1 – 4 of 4

Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Metabolism of RNA	686 targets	R-HSA-8953854
Reactome	Processing of Capped Intron-Containing Pre-mRNA	241 targets	R-HSA-72203
Reactome	mRNA Splicing	188 targets	R-HSA-72172
Reactome	mRNA Splicing - Minor Pathway	52 targets	R-HSA-72165

Name	Explore in Pharos	Explore in Source
Metabolism of RNA	686 targets	R-HSA-8953854
Processing of Capped Intron-Containing Pre-mRNA	241 targets	R-HSA-72203
mRNA Splicing	188 targets	R-HSA-72172
mRNA Splicing - Minor Pathway	52 targets	R-HSA-72165

Gene Ontology Terms (7)

Functions (2)

Components (3)

Processes (2)

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Items per page:

10

1 – 2 of 2

GO Term	Evidence	Assigned by
pre-mRNA intronic binding	Inferred from Biological aspect of Ancestor (IBA)	GO_Central
U12 snRNA binding	Inferred from Biological aspect of Ancestor (IBA)	GO_Central

Protein-Protein Interactions (150)

Explore Interacting Targets

1 – 10 of 150

• See Interactions on String-DB

SNRPN

Tbio

Novelty:  0.002157

p_int:  0.999999692

p_ni:  3.08e-7

Score:  0.891

Data Source:  BioPlex,STRINGDB

PHF5A

Tbio

Family:  Epigenetic

Novelty:  0.02989472

p_int:  0.999999161

p_ni:  8.31e-7

p_wrong:  8e-9

Score:  0.973

Data Source:  BioPlex,STRINGDB

SNRPGP15

Tdark

p_int:  0.999998421

p_ni:  0.000001579

Data Source:  BioPlex

ZRSR2

Tbio

Novelty:  0.03449891

p_int:  0.999997498

p_ni:  0.000002501

Score:  0.993

Data Source:  BioPlex,STRINGDB

SNRPB

Tbio

Novelty:  0.01503535

p_int:  0.999995605

p_ni:  0.000004394

Score:  0.967

Data Source:  BioPlex,STRINGDB

ZCRB1

Tdark

Novelty:  0.37592387

p_int:  0.999992285

p_ni:  0.000007715

Score:  0.975

Data Source:  BioPlex,STRINGDB

P4HA1

Tchem

Family:  Enzyme

Novelty:  0.01624726

p_int:  0.999983219

p_ni:  0.000016781

Data Source:  BioPlex

SNRPE

Tbio

Novelty:  0.02033423

p_int:  0.999957643

p_ni:  0.000042356

p_wrong:  1e-9

Score:  0.99

Data Source:  BioPlex,STRINGDB

SNRPF

Tdark

Novelty:  0.17624854

p_int:  0.999955862

p_ni:  0.000044138

Score:  0.989

Data Source:  BioPlex,STRINGDB

ZMAT5

Tdark

Novelty:  0.97115324

p_int:  0.999924881

p_ni:  0.000075044

p_wrong:  7.6e-8

Score:  0.992

Data Source:  BioPlex,STRINGDB

Publication Statistics

PubMed Score  17.59

PubMed score by year

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PubTator Score  391.18

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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3D-structure
Alternative splicing
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RNA-binding

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