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Protein

Protein SCAF8

Gene

Scaf8

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

May play a role in mRNA processing.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Protein SCAF8
Alternative name(s):
RNA-binding motif protein 16
SR-related and CTD-associated factor 8
Gene namesi
Name:Scaf8
Synonyms:Kiaa1116, Rbm16
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 17

Organism-specific databases

MGIiMGI:1925212. Scaf8.

Subcellular locationi

  • Nucleus 1 Publication
  • Nucleus matrix 1 Publication

  • Note: Detected in granular nuclear foci which correspond to sites of active transcription.

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12681268Protein SCAF8PRO_0000394194Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei6 – 61PhosphothreonineBy similarity
Cross-linki18 – 18Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO1)By similarity
Modified residuei617 – 6171PhosphoserineCombined sources

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ6DID3.
MaxQBiQ6DID3.
PaxDbiQ6DID3.
PRIDEiQ6DID3.

PTM databases

iPTMnetiQ6DID3.
PhosphoSiteiQ6DID3.

Expressioni

Gene expression databases

BgeeiQ6DID3.
GenevisibleiQ6DID3. MM.

Interactioni

Subunit structurei

Interacts with phosphorylated POLR2A (via C-terminus). Identified in a complex with CDC5L and other spliceosomal proteins. May associate with the spliceosome (By similarity).By similarity

GO - Molecular functioni

Protein-protein interaction databases

BioGridi223085. 1 interaction.
STRINGi10090.ENSMUSP00000076024.

Structurei

3D structure databases

ProteinModelPortaliQ6DID3.
SMRiQ6DID3. Positions 1-138.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 139139CIDPROSITE-ProRule annotationAdd
BLAST
Domaini477 – 55175RRMPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi193 – 371179Gln-richAdd
BLAST
Compositional biasi397 – 45963Arg-richAdd
BLAST
Compositional biasi635 – 1000366Pro-richAdd
BLAST
Compositional biasi1012 – 1179168Arg-richAdd
BLAST

Sequence similaritiesi

Contains 1 CID domain.PROSITE-ProRule annotation
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0132. Eukaryota.
ENOG410XT48. LUCA.
GeneTreeiENSGT00530000063946.
HOVERGENiHBG055796.
InParanoidiQ6DID3.
KOiK13191.
OMAiYRFPPIE.
OrthoDBiEOG7QK0D9.
PhylomeDBiQ6DID3.
TreeFamiTF324527.

Family and domain databases

Gene3Di1.25.40.90. 1 hit.
3.30.70.330. 1 hit.
InterProiIPR006569. CID_dom.
IPR008942. ENTH_VHS.
IPR012677. Nucleotide-bd_a/b_plait.
IPR006903. RNA_pol_II-bd.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF04818. CTD_bind. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00582. RPR. 1 hit.
SM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF48464. SSF48464. 1 hit.
SSF54928. SSF54928. 1 hit.
PROSITEiPS51391. CID. 1 hit.
PS50102. RRM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q6DID3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEAVKTFNSE LYSLNDYKPP ISKAKMTQIT KAAIKAIKFY KHVVQSVEKF
60 70 80 90 100
IQKCKPEYKV PGLYVIDSIV RQSRHQFGQE KDVFAPRFSN NIISTFQNLY
110 120 130 140 150
RCPGDDKSKI VRVLNLWQKN NVFKSEIIQP LLDMAAGIPP PVVTPVLAST
160 170 180 190 200
TAAMSNTPGT PVTPVTPANV VQGLPDPWVS QIANTDTLAA VAQILQSPQG
210 220 230 240 250
QQLQQLIQTL QIQQQKPQPS ILQALDAGLV VQLQALTAQL TAAAAAANTL
260 270 280 290 300
TPLDQGVSFN KKLMDRFDFG EDSEHSEESK KEMPTPQLSH VSESVNNSIF
310 320 330 340 350
HQIAEQLQQQ NLEQLRQQLL EQQQPQKVTP QDSQEGTFGS EHSASPSQGS
360 370 380 390 400
SQQHFLEPEA NLDDSIDIQQ QDMDIDEGQD VVEEEIFEPE AKKVAVRSRS
410 420 430 440 450
RTHSRSRSRS PRKRRSRSRS GSRKRKHRKR SRSHSREKKR KASRSYSSER
460 470 480 490 500
RAREREKERQ KKGLPPVRSK TLSVCSTTLW VGQVDKKATQ QDLTNLFEEF
510 520 530 540 550
GQIESINMIP PRGCAYVCMV HRQDSFRALQ KLSSGSYKIG SKVIKIAWAL
560 570 580 590 600
NKGVKTEYKQ FWDVDLGVTY IPWEKVKVDD LDGFAEGGMI DQETVNAEWE
610 620 630 640 650
TVKASEPVKE PVQTAQSPAP VEKESVVTTQ AEVFPPPVAM LQIPVAPAVP
660 670 680 690 700
AVSLVPPAFP VSMPVPPPGF NPIPPPPFLR ASFNPSQPPP GFMPPPVPPP
710 720 730 740 750
VVPPPAIPPV VPTSLVQPPL SMTPEAVKDV GFGSLVLPSG SVAGSLAPST
760 770 780 790 800
LPAGNVFNPP SKAEPEEKVP HLIEHQIPSG ENTRPVIPSD IPSSAAMLAQ
810 820 830 840 850
PPGASSTSGI LCVQRPNVSS NSEILGVRPA NVSNSAAIMG AQPPNILNNS
860 870 880 890 900
GILAIQPPNV SSGSGLLGVL PPNLPNNSGL VGLQPPNVTS PAGLLGTQPP
910 920 930 940 950
IGPQNLPPLA IPAQRMPALP MLDIRPGLIA QAPGPRFPLL QPGIPPQRGI
960 970 980 990 1000
PPPSVLDAAL HPPPRGPFPP GDLFSQPERP FLAPGRPSID NVPNPDKRIP
1010 1020 1030 1040 1050
LGNDNIQQEG DRDYRFPPIE TREGITRPPQ VDVRDVVGRR LDPREGPGRP
1060 1070 1080 1090 1100
PLDARDHFGR PPVDMRENLV RPSLDHLGRR DHFGFPPEKP WGPRDFDERE
1110 1120 1130 1140 1150
HRVLPVFGGP KGLHEERGRF RAGNYRFDPR SGPWNRGFGQ EVHRDFDDRR
1160 1170 1180 1190 1200
RPWERQRDRD DRDFDFCREI NGNRLGRDRI QNTWVPPPHA RVFDYFEGAT
1210 1220 1230 1240 1250
SQRKGDNVPQ VNGENTERHA QPPPLPVQKD PELYEKLASS GDVDKEESGT
1260
VAGVESEAVV ESTETEGT
Length:1,268
Mass (Da):139,572
Last modified:August 16, 2004 - v1
Checksum:i8FDFB70FCB2791FC
GO

Sequence cautioni

The sequence BAC65733.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti938 – 9381P → T in BAC27860 (PubMed:16141072).Curated
Sequence conflicti1171 – 11711N → I in AAH38363 (PubMed:15489334).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK122451 mRNA. Translation: BAC65733.1. Different initiation.
BC038363 mRNA. Translation: AAH38363.1.
BC075621 mRNA. Translation: AAH75621.1.
AK032418 mRNA. Translation: BAC27860.1.
AK161113 mRNA. Translation: BAE36197.1.
CCDSiCCDS49927.1.
RefSeqiNP_598884.2. NM_134123.3.
UniGeneiMm.124373.
Mm.486401.

Genome annotation databases

EnsembliENSMUST00000076734; ENSMUSP00000076024; ENSMUSG00000046201.
GeneIDi106583.
KEGGimmu:106583.
UCSCiuc008aei.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK122451 mRNA. Translation: BAC65733.1. Different initiation.
BC038363 mRNA. Translation: AAH38363.1.
BC075621 mRNA. Translation: AAH75621.1.
AK032418 mRNA. Translation: BAC27860.1.
AK161113 mRNA. Translation: BAE36197.1.
CCDSiCCDS49927.1.
RefSeqiNP_598884.2. NM_134123.3.
UniGeneiMm.124373.
Mm.486401.

3D structure databases

ProteinModelPortaliQ6DID3.
SMRiQ6DID3. Positions 1-138.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi223085. 1 interaction.
STRINGi10090.ENSMUSP00000076024.

PTM databases

iPTMnetiQ6DID3.
PhosphoSiteiQ6DID3.

Proteomic databases

EPDiQ6DID3.
MaxQBiQ6DID3.
PaxDbiQ6DID3.
PRIDEiQ6DID3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000076734; ENSMUSP00000076024; ENSMUSG00000046201.
GeneIDi106583.
KEGGimmu:106583.
UCSCiuc008aei.2. mouse.

Organism-specific databases

CTDi22828.
MGIiMGI:1925212. Scaf8.
RougeiSearch...

Phylogenomic databases

eggNOGiKOG0132. Eukaryota.
ENOG410XT48. LUCA.
GeneTreeiENSGT00530000063946.
HOVERGENiHBG055796.
InParanoidiQ6DID3.
KOiK13191.
OMAiYRFPPIE.
OrthoDBiEOG7QK0D9.
PhylomeDBiQ6DID3.
TreeFamiTF324527.

Miscellaneous databases

ChiTaRSiScaf8. mouse.
NextBioi358280.
PROiQ6DID3.
SOURCEiSearch...

Gene expression databases

BgeeiQ6DID3.
GenevisibleiQ6DID3. MM.

Family and domain databases

Gene3Di1.25.40.90. 1 hit.
3.30.70.330. 1 hit.
InterProiIPR006569. CID_dom.
IPR008942. ENTH_VHS.
IPR012677. Nucleotide-bd_a/b_plait.
IPR006903. RNA_pol_II-bd.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF04818. CTD_bind. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM00582. RPR. 1 hit.
SM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF48464. SSF48464. 1 hit.
SSF54928. SSF54928. 1 hit.
PROSITEiPS51391. CID. 1 hit.
PS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
    Okazaki N., Kikuno R., Ohara R., Inamoto S., Aizawa H., Yuasa S., Nakajima D., Nagase T., Ohara O., Koga H.
    DNA Res. 10:35-48(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Brain.
  2. "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].
    Strain: C57BL/6J and FVB/N-3.
    Tissue: Brain and Mammary tumor.
  3. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 462-1268.
    Strain: C57BL/6J.
    Tissue: Olfactory bulb and Skin.
  4. "The C-terminal domain of the largest subunit of RNA polymerase II interacts with a novel set of serine/arginine-rich proteins."
    Yuryev A., Patturajan M., Litingtung Y., Joshi R.V., Gentile C., Gebara M., Corden J.L.
    Proc. Natl. Acad. Sci. U.S.A. 93:6975-6980(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH POLR2A.
  5. "A nuclear matrix protein interacts with the phosphorylated C-terminal domain of RNA polymerase II."
    Patturajan M., Wei X., Berezney R., Corden J.L.
    Mol. Cell. Biol. 18:2406-2415(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH POLR2A, SUBCELLULAR LOCATION.
  6. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-617, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Kidney, Lung, Pancreas, Spleen and Testis.

Entry informationi

Entry nameiSCAF8_MOUSE
AccessioniPrimary (citable) accession number: Q6DID3
Secondary accession number(s): Q3TTX6
, Q5U5V8, Q80TJ3, Q8C037
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 18, 2010
Last sequence update: August 16, 2004
Last modified: March 16, 2016
This is version 96 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.