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Protein

Pre-mRNA-processing factor 17

Gene

CDC40

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

Functioni

Associates with the spliceosome late in the splicing pathway and may function in the second step of pre-mRNA splicing.1 Publication

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

ReactomeiREACT_1597. Transport of Mature mRNA derived from an Intron-Containing Transcript.
REACT_1849. mRNA 3'-end processing.
REACT_387. Cleavage of Growing Transcript in the Termination Region.
REACT_467. mRNA Splicing - Major Pathway.
SignaLinkiO60508.

Names & Taxonomyi

Protein namesi
Recommended name:
Pre-mRNA-processing factor 17
Alternative name(s):
Cell division cycle 40 homolog
EH-binding protein 3
Short name:
Ehb3
PRP17 homolog
Short name:
hPRP17
Gene namesi
Name:CDC40
Synonyms:EHB3, PRP17, PRPF17
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 6

Organism-specific databases

HGNCiHGNC:17350. CDC40.

Subcellular locationi

GO - Cellular componenti

  • catalytic step 2 spliceosome Source: UniProtKB
  • nucleoplasm Source: Reactome
  • spliceosomal complex Source: ProtInc
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134891332.

Polymorphism and mutation databases

BioMutaiCDC40.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 579579Pre-mRNA-processing factor 17PRO_0000051142Add
BLAST

Proteomic databases

MaxQBiO60508.
PaxDbiO60508.
PRIDEiO60508.

PTM databases

PhosphoSiteiO60508.

Miscellaneous databases

PMAP-CutDBO60508.

Expressioni

Gene expression databases

BgeeiO60508.
CleanExiHS_CDC40.
ExpressionAtlasiO60508. baseline and differential.
GenevisibleiO60508. HS.

Interactioni

Subunit structurei

Identified in the spliceosome C complex.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
PRPF19Q9UMS42EBI-2557812,EBI-395746

Protein-protein interaction databases

BioGridi119497. 32 interactions.
IntActiO60508. 4 interactions.
MINTiMINT-3000088.
STRINGi9606.ENSP00000304370.

Structurei

3D structure databases

ProteinModelPortaliO60508.
SMRiO60508. Positions 280-578.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati286 – 32641WD 1Add
BLAST
Repeati330 – 36940WD 2Add
BLAST
Repeati371 – 41343WD 3Add
BLAST
Repeati416 – 45540WD 4Add
BLAST
Repeati459 – 49840WD 5Add
BLAST
Repeati504 – 54542WD 6Add
BLAST
Repeati548 – 57831WD 7Add
BLAST

Sequence similaritiesi

Contains 7 WD repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiCOG2319.
GeneTreeiENSGT00530000063583.
HOGENOMiHOG000214672.
HOVERGENiHBG053695.
InParanoidiO60508.
KOiK12816.
OMAiHTYRGHN.
OrthoDBiEOG7KM5S8.
PhylomeDBiO60508.
TreeFamiTF101064.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR019775. WD40_repeat_CS.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 6 hits.
[Graphical view]
SMARTiSM00320. WD40. 7 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS00678. WD_REPEATS_1. 1 hit.
PS50082. WD_REPEATS_2. 5 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O60508-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSAAIAALAA SYGSGSGSES DSDSESSRCP LPAADSLMHL TKSPSSKPSL
60 70 80 90 100
AVAVDSAPEV AVKEDLETGV HLDPAVKEVQ YNPTYETMFA PEFGPENPFR
110 120 130 140 150
TQQMAAPRNM LSGYAEPAHI NDFMFEQQRR TFATYGYALD PSLDNHQVSA
160 170 180 190 200
KYIGSVEEAE KNQGLTVFET GQKKTEKRKK FKENDASNID GFLGPWAKYV
210 220 230 240 250
DEKDVAKPSE EEQKELDEIT AKRQKKGKQE EEKPGEEKTI LHVKEMYDYQ
260 270 280 290 300
GRSYLHIPQD VGVNLRSTMP PEKCYLPKKQ IHVWSGHTKG VSAVRLFPLS
310 320 330 340 350
GHLLLSCSMD CKIKLWEVYG ERRCLRTFIG HSKAVRDICF NTAGTQFLSA
360 370 380 390 400
AYDRYLKLWD TETGQCISRF TNRKVPYCVK FNPDEDKQNL FVAGMSDKKI
410 420 430 440 450
VQWDIRSGEI VQEYDRHLGA VNTIVFVDEN RRFVSTSDDK SLRVWEWDIP
460 470 480 490 500
VDFKYIAEPS MHSMPAVTLS PNGKWLACQS MDNQILIFGA QNRFRLNKKK
510 520 530 540 550
IFKGHMVAGY ACQVDFSPDM SYVISGDGNG KLNIWDWKTT KLYSRFKAHD
560 570
KVCIGAVWHP HETSKVITCG WDGLIKLWD
Length:579
Mass (Da):65,521
Last modified:August 1, 1998 - v1
Checksum:i1DE2BAA6F03FF16D
GO

Sequence cautioni

The sequence AAC25166.1 differs from that shown. Reason: Erroneous initiation. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti7 – 71A → V in AAD01552 (PubMed:9303539).Curated
Sequence conflicti31 – 311L → P in AAC25166 (PubMed:9769104).Curated
Sequence conflicti210 – 2101E → R in AAC25166 (PubMed:9769104).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF038392 mRNA. Translation: AAC39730.1.
AL671518 Genomic DNA. Translation: CAI13322.1.
AK314601 mRNA. Translation: BAG37172.1.
BC117145 mRNA. Translation: AAI17146.1.
BC126114 mRNA. Translation: AAI26115.1.
AF061241 mRNA. Translation: AAC25166.1. Different initiation.
AF015044 mRNA. Translation: AAD01552.1.
CCDSiCCDS5081.1.
RefSeqiNP_056975.1. NM_015891.2.
UniGeneiHs.428147.

Genome annotation databases

EnsembliENST00000307731; ENSP00000304370; ENSG00000168438.
ENST00000368932; ENSP00000357928; ENSG00000168438.
GeneIDi51362.
KEGGihsa:51362.
UCSCiuc003pua.3. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF038392 mRNA. Translation: AAC39730.1.
AL671518 Genomic DNA. Translation: CAI13322.1.
AK314601 mRNA. Translation: BAG37172.1.
BC117145 mRNA. Translation: AAI17146.1.
BC126114 mRNA. Translation: AAI26115.1.
AF061241 mRNA. Translation: AAC25166.1. Different initiation.
AF015044 mRNA. Translation: AAD01552.1.
CCDSiCCDS5081.1.
RefSeqiNP_056975.1. NM_015891.2.
UniGeneiHs.428147.

3D structure databases

ProteinModelPortaliO60508.
SMRiO60508. Positions 280-578.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119497. 32 interactions.
IntActiO60508. 4 interactions.
MINTiMINT-3000088.
STRINGi9606.ENSP00000304370.

PTM databases

PhosphoSiteiO60508.

Polymorphism and mutation databases

BioMutaiCDC40.

Proteomic databases

MaxQBiO60508.
PaxDbiO60508.
PRIDEiO60508.

Protocols and materials databases

DNASUi51362.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000307731; ENSP00000304370; ENSG00000168438.
ENST00000368932; ENSP00000357928; ENSG00000168438.
GeneIDi51362.
KEGGihsa:51362.
UCSCiuc003pua.3. human.

Organism-specific databases

CTDi51362.
GeneCardsiGC06P110501.
HGNCiHGNC:17350. CDC40.
MIMi605585. gene.
neXtProtiNX_O60508.
PharmGKBiPA134891332.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiCOG2319.
GeneTreeiENSGT00530000063583.
HOGENOMiHOG000214672.
HOVERGENiHBG053695.
InParanoidiO60508.
KOiK12816.
OMAiHTYRGHN.
OrthoDBiEOG7KM5S8.
PhylomeDBiO60508.
TreeFamiTF101064.

Enzyme and pathway databases

ReactomeiREACT_1597. Transport of Mature mRNA derived from an Intron-Containing Transcript.
REACT_1849. mRNA 3'-end processing.
REACT_387. Cleavage of Growing Transcript in the Termination Region.
REACT_467. mRNA Splicing - Major Pathway.
SignaLinkiO60508.

Miscellaneous databases

GeneWikiiCDC40.
GenomeRNAii51362.
NextBioi54822.
PMAP-CutDBO60508.
PROiO60508.
SOURCEiSearch...

Gene expression databases

BgeeiO60508.
CleanExiHS_CDC40.
ExpressionAtlasiO60508. baseline and differential.
GenevisibleiO60508. HS.

Family and domain databases

Gene3Di2.130.10.10. 2 hits.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR019775. WD40_repeat_CS.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 6 hits.
[Graphical view]
SMARTiSM00320. WD40. 7 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS00678. WD_REPEATS_1. 1 hit.
PS50082. WD_REPEATS_2. 5 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Human homologs of yeast prp16 and prp17 reveal conservation of the mechanism for catalytic step II of pre-mRNA splicing."
    Zhou Z., Reed R.
    EMBO J. 17:2095-2106(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Colon epithelium.
  2. "Functional conservation of the human homolog of the yeast pre-mRNA splicing factor Prp17p."
    Lindsey L.A., Garcia-Blanco M.A.
    J. Biol. Chem. 273:32771-32775(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, SUBCELLULAR LOCATION.
    Tissue: Cervix carcinoma.
  3. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Trachea.
  4. "The DNA sequence and analysis of human chromosome 6."
    Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D.
    , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beare D.M., Beasley H., Beasley O., Bird C.P., Blakey S.E., Bray-Allen S., Brook J., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Clark S.Y., Clark G., Clee C.M., Clegg S., Cobley V., Collier R.E., Collins J.E., Colman L.K., Corby N.R., Coville G.J., Culley K.M., Dhami P., Davies J., Dunn M., Earthrowl M.E., Ellington A.E., Evans K.A., Faulkner L., Francis M.D., Frankish A., Frankland J., French L., Garner P., Garnett J., Ghori M.J., Gilby L.M., Gillson C.J., Glithero R.J., Grafham D.V., Grant M., Gribble S., Griffiths C., Griffiths M.N.D., Hall R., Halls K.S., Hammond S., Harley J.L., Hart E.A., Heath P.D., Heathcott R., Holmes S.J., Howden P.J., Howe K.L., Howell G.R., Huckle E., Humphray S.J., Humphries M.D., Hunt A.R., Johnson C.M., Joy A.A., Kay M., Keenan S.J., Kimberley A.M., King A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C.R., Lloyd D.M., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., Maslen G.L., Matthews L., McCann O.T., McLaren S.J., McLay K., McMurray A., Moore M.J.F., Mullikin J.C., Niblett D., Nickerson T., Novik K.L., Oliver K., Overton-Larty E.K., Parker A., Patel R., Pearce A.V., Peck A.I., Phillimore B.J.C.T., Phillips S., Plumb R.W., Porter K.M., Ramsey Y., Ranby S.A., Rice C.M., Ross M.T., Searle S.M., Sehra H.K., Sheridan E., Skuce C.D., Smith S., Smith M., Spraggon L., Squares S.L., Steward C.A., Sycamore N., Tamlyn-Hall G., Tester J., Theaker A.J., Thomas D.W., Thorpe A., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., White S.S., Whitehead S.L., Whittaker H., Wild A., Willey D.J., Wilmer T.E., Wood J.M., Wray P.W., Wyatt J.C., Young L., Younger R.M., Bentley D.R., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Dunham I., Rogers J., Beck S.
    Nature 425:805-811(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Brain.
  6. "Identification and functional analysis of hPRP17, the human homologue of the PRP17/CDC40 yeast gene involved in splicing and cell cycle control."
    Ben-Yehuda S., Dix I., Russell C.S., Levy S., Beggs J.D., Kupiec M.
    RNA 4:1304-1312(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 3-579.
  7. "Binding specificity and in vivo targets of the EH domain, a novel protein-protein interaction module."
    Salcini A.E., Confalonieri S., Doria M., Santolini E., Tassi E., Minenkova O., Cesareni G., Pelicci P.G., Di Fiore P.P.
    Genes Dev. 11:2239-2249(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 4-173.
  8. "Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis."
    Jurica M.S., Licklider L.J., Gygi S.P., Grigorieff N., Moore M.J.
    RNA 8:426-439(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE SPLICEOSOMAL C COMPLEX.
  9. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  10. "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions."
    Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K.
    Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Leukemic T-cell.
  11. "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis."
    Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M.
    Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  12. "System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation."
    Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B.
    Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  13. "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome."
    Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., Ye M., Zou H.
    J. Proteomics 96:253-262(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.

Entry informationi

Entry nameiPRP17_HUMAN
AccessioniPrimary (citable) accession number: O60508
Secondary accession number(s): B2RBC5
, O75471, Q5SRN0, Q9UPG1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: August 1, 1998
Last modified: July 22, 2015
This is version 137 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

Complete proteome, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.