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Protein

Pre-mRNA-splicing factor 38A

Gene

PRPF38A

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

May be required for pre-mRNA splicing.Curated

GO - Molecular functioni

  • poly(A) RNA binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Enzyme and pathway databases

BioCyciZFISH:ENSG00000134748-MONOMER.
ReactomeiR-HSA-72163. mRNA Splicing - Major Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Pre-mRNA-splicing factor 38A
Gene namesi
Name:PRPF38A
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:25930. PRPF38A.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000134748.
PharmGKBiPA142671125.

Polymorphism and mutation databases

BioMutaiPRPF38A.
DMDMi74760086.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002872721 – 312Pre-mRNA-splicing factor 38AAdd BLAST312

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei11PhosphoserineCombined sources1
Modified residuei193PhosphoserineCombined sources1
Modified residuei194PhosphoserineCombined sources1
Modified residuei209PhosphoserineCombined sources1
Modified residuei226PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ8NAV1.
MaxQBiQ8NAV1.
PaxDbiQ8NAV1.
PeptideAtlasiQ8NAV1.
PRIDEiQ8NAV1.

PTM databases

iPTMnetiQ8NAV1.
PhosphoSitePlusiQ8NAV1.

Expressioni

Gene expression databases

BgeeiENSG00000134748.
CleanExiHS_PRPF38A.
GenevisibleiQ8NAV1. HS.

Organism-specific databases

HPAiHPA053099.
HPA058407.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
CLK2P497603EBI-715374,EBI-750020
JMJD6Q6NYC12EBI-715374,EBI-8464037
SDCBPO005603EBI-715374,EBI-727004
SDCBP2Q9H1905EBI-715374,EBI-742426
SRPK1Q96SB42EBI-715374,EBI-539478
SRPK2P783625EBI-715374,EBI-593303

Protein-protein interaction databases

BioGridi124382. 33 interactors.
IntActiQ8NAV1. 34 interactors.
MINTiMINT-1382708.
STRINGi9606.ENSP00000257181.

Structurei

Secondary structure

1312
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi17 – 20Combined sources4
Helixi23 – 30Combined sources8
Helixi33 – 38Combined sources6
Helixi44 – 46Combined sources3
Helixi47 – 51Combined sources5
Turni62 – 65Combined sources4
Helixi69 – 80Combined sources12
Helixi84 – 92Combined sources9
Helixi97 – 110Combined sources14
Helixi113 – 120Combined sources8
Helixi121 – 125Combined sources5
Beta strandi129 – 133Combined sources5
Beta strandi139 – 143Combined sources5
Helixi144 – 153Combined sources10
Beta strandi155 – 157Combined sources3
Helixi168 – 173Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4RZ9X-ray1.28A1-179[»]
4RZAX-ray1.90A1-205[»]
5F5SX-ray2.40A1-179[»]
ProteinModelPortaliQ8NAV1.
SMRiQ8NAV1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili170 – 204Sequence analysisAdd BLAST35

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi213 – 291Arg-richAdd BLAST79

Sequence similaritiesi

Belongs to the PRP38 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG2889. Eukaryota.
ENOG410XQ3F. LUCA.
GeneTreeiENSGT00730000111085.
HOGENOMiHOG000173665.
HOVERGENiHBG104959.
InParanoidiQ8NAV1.
KOiK12849.
OMAiCKYWKEE.
OrthoDBiEOG091G0JUY.
PhylomeDBiQ8NAV1.
TreeFamiTF105910.

Family and domain databases

InterProiIPR005037. PRP38.
IPR024767. PRP38_C.
[Graphical view]
PANTHERiPTHR23142. PTHR23142. 1 hit.
PfamiPF03371. PRP38. 1 hit.
PF12871. PRP38_assoc. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8NAV1-1) [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
MANRTVKDAH SIHGTNPQYL VEKIIRTRIY ESKYWKEECF GLTAELVVDK
60 70 80 90 100
AMELRFVGGV YGGNIKPTPF LCLTLKMLQI QPEKDIIVEF IKNEDFKYVR
110 120 130 140 150
MLGALYMRLT GTAIDCYKYL EPLYNDYRKI KSQNRNGEFE LMHVDEFIDE
160 170 180 190 200
LLHSERVCDI ILPRLQKRYV LEEAEQLEPR VSALEEDMDD VESSEEEEEE
210 220 230 240 250
DEKLERVPSP DHRRRSYRDL DKPRRSPTLR YRRSRSRSPR RRSRSPKRRS
260 270 280 290 300
PSPRRERHRS KSPRRHRSRS RDRRHRSRSK SPGHHRSHRH RSHSKSPERS
310
KKSHKKSRRG NE
Length:312
Mass (Da):37,477
Last modified:October 1, 2002 - v1
Checksum:i0AABEEC0010EBD4B
GO
Isoform 2 (identifier: Q8NAV1-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-187: Missing.

Show »
Length:125
Mass (Da):15,462
Checksum:i3935F7A9EEB62CCD
GO

Sequence cautioni

The sequence BAB55405 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti94E → G in BAB55405 (PubMed:14702039).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0254241 – 187Missing in isoform 2. 1 PublicationAdd BLAST187

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK027842 mRNA. Translation: BAB55405.1. Different initiation.
AK092038 mRNA. Translation: BAC03796.1.
AL513218 Genomic DNA. Translation: CAI12289.1.
BC000777 mRNA. Translation: AAH00777.2.
BC063655 mRNA. Translation: AAH63655.1.
BC105004 mRNA. Translation: AAI05005.1.
BC105006 mRNA. Translation: AAI05007.1.
CCDSiCCDS567.1. [Q8NAV1-1]
RefSeqiNP_116253.2. NM_032864.3. [Q8NAV1-1]
UniGeneiHs.5301.

Genome annotation databases

EnsembliENST00000257181; ENSP00000257181; ENSG00000134748. [Q8NAV1-1]
GeneIDi84950.
KEGGihsa:84950.
UCSCiuc001ctv.5. human. [Q8NAV1-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK027842 mRNA. Translation: BAB55405.1. Different initiation.
AK092038 mRNA. Translation: BAC03796.1.
AL513218 Genomic DNA. Translation: CAI12289.1.
BC000777 mRNA. Translation: AAH00777.2.
BC063655 mRNA. Translation: AAH63655.1.
BC105004 mRNA. Translation: AAI05005.1.
BC105006 mRNA. Translation: AAI05007.1.
CCDSiCCDS567.1. [Q8NAV1-1]
RefSeqiNP_116253.2. NM_032864.3. [Q8NAV1-1]
UniGeneiHs.5301.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4RZ9X-ray1.28A1-179[»]
4RZAX-ray1.90A1-205[»]
5F5SX-ray2.40A1-179[»]
ProteinModelPortaliQ8NAV1.
SMRiQ8NAV1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi124382. 33 interactors.
IntActiQ8NAV1. 34 interactors.
MINTiMINT-1382708.
STRINGi9606.ENSP00000257181.

PTM databases

iPTMnetiQ8NAV1.
PhosphoSitePlusiQ8NAV1.

Polymorphism and mutation databases

BioMutaiPRPF38A.
DMDMi74760086.

Proteomic databases

EPDiQ8NAV1.
MaxQBiQ8NAV1.
PaxDbiQ8NAV1.
PeptideAtlasiQ8NAV1.
PRIDEiQ8NAV1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000257181; ENSP00000257181; ENSG00000134748. [Q8NAV1-1]
GeneIDi84950.
KEGGihsa:84950.
UCSCiuc001ctv.5. human. [Q8NAV1-1]

Organism-specific databases

CTDi84950.
GeneCardsiPRPF38A.
HGNCiHGNC:25930. PRPF38A.
HPAiHPA053099.
HPA058407.
neXtProtiNX_Q8NAV1.
OpenTargetsiENSG00000134748.
PharmGKBiPA142671125.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2889. Eukaryota.
ENOG410XQ3F. LUCA.
GeneTreeiENSGT00730000111085.
HOGENOMiHOG000173665.
HOVERGENiHBG104959.
InParanoidiQ8NAV1.
KOiK12849.
OMAiCKYWKEE.
OrthoDBiEOG091G0JUY.
PhylomeDBiQ8NAV1.
TreeFamiTF105910.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000134748-MONOMER.
ReactomeiR-HSA-72163. mRNA Splicing - Major Pathway.

Miscellaneous databases

ChiTaRSiPRPF38A. human.
GenomeRNAii84950.
PROiQ8NAV1.

Gene expression databases

BgeeiENSG00000134748.
CleanExiHS_PRPF38A.
GenevisibleiQ8NAV1. HS.

Family and domain databases

InterProiIPR005037. PRP38.
IPR024767. PRP38_C.
[Graphical view]
PANTHERiPTHR23142. PTHR23142. 1 hit.
PfamiPF03371. PRP38. 1 hit.
PF12871. PRP38_assoc. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPR38A_HUMAN
AccessioniPrimary (citable) accession number: Q8NAV1
Secondary accession number(s): Q96JW1, Q9BVZ8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 15, 2007
Last sequence update: October 1, 2002
Last modified: November 30, 2016
This is version 121 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.