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Protein

Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43

Gene

PRP43

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Pre-mRNA processing factor involved in disassembly of spliceosomes after the release of mature mRNA.2 Publications

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi116 – 123ATPPROSITE-ProRule annotation8

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • ATP-dependent RNA helicase activity Source: SGD
  • nucleic acid binding Source: InterPro

GO - Biological processi

  • maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • maturation of SSU-rRNA Source: SGD
  • maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • ribosomal large subunit biogenesis Source: SGD
  • rRNA processing Source: SGD
  • spliceosomal complex disassembly Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-30617-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43 (EC:3.6.4.13)
Alternative name(s):
Helicase JA1
Gene namesi
Name:PRP43
Ordered Locus Names:YGL120C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome VII

Organism-specific databases

EuPathDBiFungiDB:YGL120C.
SGDiS000003088. PRP43.

Subcellular locationi

GO - Cellular componenti

  • post-mRNA release spliceosomal complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi194G → D in PRP43-DN1; dominant-negative phenotype. 1 Publication1
Mutagenesisi247S → L in PRP43-DN2; dominant-negative phenotype. 1 Publication1
Mutagenesisi395G → E in PRP43-1; temperature-sensitive. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000551451 – 767Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP43Add BLAST767

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei8PhosphoserineCombined sources1
Modified residuei9PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP53131.
PRIDEiP53131.

PTM databases

iPTMnetiP53131.

Interactioni

Subunit structurei

Component of the NTR complex (NTC-related complex), composed of NTR1, NTR2 and PRP43. Interacts with NTR1 and NTR2.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
EBP2P360493EBI-505,EBI-6289
LOC1P435863EBI-505,EBI-22906
NET1P470352EBI-505,EBI-25953
NOP12Q082082EBI-505,EBI-35895
NOP15P539273EBI-505,EBI-28853
NOP4P378383EBI-505,EBI-12122
NSA2P400783EBI-505,EBI-22681
PXR1P533353EBI-505,EBI-23652
RPA190P109642EBI-505,EBI-15730
SPP382Q0641112EBI-505,EBI-576
SQS1P538669EBI-505,EBI-29168

Protein-protein interaction databases

BioGridi33131. 178 interactors.
DIPiDIP-5152N.
IntActiP53131. 166 interactors.
MINTiMINT-497996.

Structurei

Secondary structure

1767
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi9 – 11Combined sources3
Turni14 – 17Combined sources4
Helixi19 – 33Combined sources15
Turni49 – 52Combined sources4
Helixi60 – 68Combined sources9
Beta strandi69 – 71Combined sources3
Turni73 – 75Combined sources3
Helixi81 – 90Combined sources10
Helixi94 – 98Combined sources5
Helixi99 – 108Combined sources10
Beta strandi110 – 115Combined sources6
Helixi122 – 134Combined sources13
Helixi136 – 139Combined sources4
Beta strandi142 – 148Combined sources7
Helixi150 – 163Combined sources14
Turni169 – 171Combined sources3
Beta strandi172 – 176Combined sources5
Beta strandi179 – 181Combined sources3
Beta strandi187 – 192Combined sources6
Helixi193 – 202Combined sources10
Beta strandi209 – 214Combined sources6
Helixi217 – 219Combined sources3
Helixi222 – 237Combined sources16
Beta strandi242 – 248Combined sources7
Helixi253 – 258Combined sources6
Beta strandi264 – 266Combined sources3
Beta strandi274 – 277Combined sources4
Helixi286 – 300Combined sources15
Beta strandi305 – 309Combined sources5
Helixi313 – 334Combined sources22
Beta strandi339 – 344Combined sources6
Helixi350 – 353Combined sources4
Helixi354 – 357Combined sources4
Beta strandi364 – 367Combined sources4
Beta strandi370 – 375Combined sources6
Helixi378 – 381Combined sources4
Beta strandi388 – 393Combined sources6
Beta strandi395 – 403Combined sources9
Turni404 – 407Combined sources4
Beta strandi408 – 415Combined sources8
Helixi418 – 426Combined sources9
Helixi427 – 429Combined sources3
Beta strandi430 – 440Combined sources11
Helixi442 – 447Combined sources6
Helixi456 – 459Combined sources4
Helixi463 – 471Combined sources9
Helixi477 – 479Combined sources3
Helixi488 – 500Combined sources13
Helixi512 – 517Combined sources6
Beta strandi520 – 522Combined sources3
Helixi524 – 532Combined sources9
Helixi533 – 536Combined sources4
Helixi539 – 549Combined sources11
Helixi562 – 570Combined sources9
Helixi578 – 589Combined sources12
Helixi592 – 597Combined sources6
Helixi599 – 605Combined sources7
Helixi610 – 629Combined sources20
Helixi644 – 656Combined sources13
Beta strandi659 – 663Combined sources5
Turni665 – 667Combined sources3
Beta strandi670 – 672Combined sources3
Turni673 – 675Combined sources3
Beta strandi678 – 681Combined sources4
Beta strandi692 – 712Combined sources21
Helixi715 – 721Combined sources7
Turni723 – 725Combined sources3
Helixi728 – 730Combined sources3
Helixi735 – 748Combined sources14

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2XAUX-ray1.90A/B1-767[»]
3KX2X-ray2.20A/B1-767[»]
ProteinModelPortaliP53131.
SMRiP53131.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP53131.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini103 – 268Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST166
Domaini293 – 473Helicase C-terminalPROSITE-ProRule annotationAdd BLAST181

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi215 – 218DEAH box4

Sequence similaritiesi

Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

Phylogenomic databases

GeneTreeiENSGT00860000133783.
HOGENOMiHOG000175261.
InParanoidiP53131.
KOiK12820.
OMAiDKYHSTQ.
OrthoDBiEOG092C2SAZ.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR002464. DNA/RNA_helicase_DEAH_CS.
IPR011709. DUF1605.
IPR007502. Helicase-assoc_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF04408. HA2. 1 hit.
PF00271. Helicase_C. 1 hit.
PF07717. OB_NTP_bind. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00847. HA2. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS00690. DEAH_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P53131-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGSKRRFSSE HPDPVETSIP EQAAEIAEEL SKQHPLPSEE PLVHHDAGEF
60 70 80 90 100
KGLQRHHTSA EEAQKLEDGK INPFTGREFT PKYVDILKIR RELPVHAQRD
110 120 130 140 150
EFLKLYQNNQ IMVFVGETGS GKTTQIPQFV LFDEMPHLEN TQVACTQPRR
160 170 180 190 200
VAAMSVAQRV AEEMDVKLGE EVGYSIRFEN KTSNKTILKY MTDGMLLREA
210 220 230 240 250
MEDHDLSRYS CIILDEAHER TLATDILMGL LKQVVKRRPD LKIIIMSATL
260 270 280 290 300
DAEKFQRYFN DAPLLAVPGR TYPVELYYTP EFQRDYLDSA IRTVLQIHAT
310 320 330 340 350
EEAGDILLFL TGEDEIEDAV RKISLEGDQL VREEGCGPLS VYPLYGSLPP
360 370 380 390 400
HQQQRIFEPA PESHNGRPGR KVVISTNIAE TSLTIDGIVY VVDPGFSKQK
410 420 430 440 450
VYNPRIRVES LLVSPISKAS AQQRAGRAGR TRPGKCFRLY TEEAFQKELI
460 470 480 490 500
EQSYPEILRS NLSSTVLELK KLGIDDLVHF DFMDPPAPET MMRALEELNY
510 520 530 540 550
LACLDDEGNL TPLGRLASQF PLDPMLAVML IGSFEFQCSQ EILTIVAMLS
560 570 580 590 600
VPNVFIRPTK DKKRADDAKN IFAHPDGDHI TLLNVYHAFK SDEAYEYGIH
610 620 630 640 650
KWCRDHYLNY RSLSAADNIR SQLERLMNRY NLELNTTDYE SPKYFDNIRK
660 670 680 690 700
ALASGFFMQV AKKRSGAKGY ITVKDNQDVL IHPSTVLGHD AEWVIYNEFV
710 720 730 740 750
LTSKNYIRTV TSVRPEWLIE IAPAYYDLSN FQKGDVKLSL ERIKEKVDRL
760
NELKQGKNKK KSKHSKK
Length:767
Mass (Da):87,562
Last modified:October 1, 1996 - v1
Checksum:iDA8A085EC50FF430
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U41851 Genomic DNA. Translation: AAB86458.1.
Z72642 Genomic DNA. Translation: CAA96828.1.
BK006941 Genomic DNA. Translation: DAA07989.1.
PIRiS64130.
RefSeqiNP_011395.1. NM_001180985.1.

Genome annotation databases

EnsemblFungiiYGL120C; YGL120C; YGL120C.
GeneIDi852757.
KEGGisce:YGL120C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U41851 Genomic DNA. Translation: AAB86458.1.
Z72642 Genomic DNA. Translation: CAA96828.1.
BK006941 Genomic DNA. Translation: DAA07989.1.
PIRiS64130.
RefSeqiNP_011395.1. NM_001180985.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2XAUX-ray1.90A/B1-767[»]
3KX2X-ray2.20A/B1-767[»]
ProteinModelPortaliP53131.
SMRiP53131.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33131. 178 interactors.
DIPiDIP-5152N.
IntActiP53131. 166 interactors.
MINTiMINT-497996.

PTM databases

iPTMnetiP53131.

Proteomic databases

MaxQBiP53131.
PRIDEiP53131.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYGL120C; YGL120C; YGL120C.
GeneIDi852757.
KEGGisce:YGL120C.

Organism-specific databases

EuPathDBiFungiDB:YGL120C.
SGDiS000003088. PRP43.

Phylogenomic databases

GeneTreeiENSGT00860000133783.
HOGENOMiHOG000175261.
InParanoidiP53131.
KOiK12820.
OMAiDKYHSTQ.
OrthoDBiEOG092C2SAZ.

Enzyme and pathway databases

BioCyciYEAST:G3O-30617-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP53131.
PROiP53131.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR002464. DNA/RNA_helicase_DEAH_CS.
IPR011709. DUF1605.
IPR007502. Helicase-assoc_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF04408. HA2. 1 hit.
PF00271. Helicase_C. 1 hit.
PF07717. OB_NTP_bind. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00847. HA2. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS00690. DEAH_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPRP43_YEAST
AccessioniPrimary (citable) accession number: P53131
Secondary accession number(s): D6VU28
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: November 30, 2016
This is version 163 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 16900 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome VII
    Yeast (Saccharomyces cerevisiae) chromosome VII: entries and gene names

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.