Protein : Qrob_P0562770.2 Q. robur
Protein Identifier  ? Qrob_P0562770.2 Organism . Name  Quercus robur
Score  100.0 Score Type  egn
Protein Description  (M=1) K12856 - pre-mRNA-processing factor 8 Gene Prediction Quality  validated
Protein length 

Sequence

Length: 2064  
Kegg Orthology  K12856
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0 Synonyms

7 GO Terms

Identifier Name Description
GO:0005515 protein binding Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
GO:0003723 RNA binding Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
GO:0003676 nucleic acid binding Interacting selectively and non-covalently with any nucleic acid.
GO:0005681 spliceosomal complex Any of a series of ribonucleoprotein complexes that contain snRNA(s) and small nuclear ribonucleoproteins (snRNPs), and are formed sequentially during the spliceosomal splicing of one or more substrate RNAs, and which also contain the RNA substrate(s) from the initial target RNAs of splicing, the splicing intermediate RNA(s), to the final RNA products. During cis-splicing, the initial target RNA is a single, contiguous RNA transcript, whether mRNA, snoRNA, etc., and the released products are a spliced RNA and an excised intron, generally as a lariat structure. During trans-splicing, there are two initial substrate RNAs, the spliced leader RNA and a pre-mRNA.
GO:0000398 mRNA splicing, via spliceosome The joining together of exons from one or more primary transcripts of messenger RNA (mRNA) and the excision of intron sequences, via a spliceosomal mechanism, so that mRNA consisting only of the joined exons is produced.
GO:0017070 U6 snRNA binding Interacting selectively and non-covalently with the U6 small nuclear RNA (U6 snRNA).
GO:0030623 U5 snRNA binding Interacting selectively and non-covalently with the U5 small nuclear RNA (U5 snRNA).

35 Blast

Analysis Hit Start End Strand Length Note Hit Coverage Hit Length Hit Pident E Val Hit Description
blastp_kegg lcl|pmum:103328092 1 2063 + 2063 Gaps:1 88.41 2347 97.40 0.0 pre-mRNA-processing-splicing factor 8
blastp_kegg lcl|csv:101205878 1 2063 + 2063 Gaps:1 88.41 2347 97.35 0.0 pre-mRNA-processing-splicing factor 8-like
blastp_kegg lcl|cmo:103499807 1 2063 + 2063 Gaps:1 88.41 2347 97.35 0.0 pre-mRNA-processing-splicing factor 8-like
blastp_kegg lcl|pxb:103939626 1 2063 + 2063 Gaps:1 88.41 2347 97.11 0.0 pre-mRNA-processing-splicing factor 8-like
blastp_kegg lcl|fve:101293320 1 2063 + 2063 Gaps:3 88.40 2345 97.06 0.0 pre-mRNA-processing-splicing factor 8-like
blastp_kegg lcl|pvu:PHAVU_005G178600g 1 2063 + 2063 Gaps:10 88.46 2358 96.74 0.0 hypothetical protein
blastp_kegg lcl|mdm:103437281 1 2063 + 2063 Gaps:1 88.41 2347 97.06 0.0 pre-mRNA-processing-splicing factor 8
blastp_kegg lcl|cam:101510839 1 2063 + 2063 Gaps:8 88.46 2356 96.69 0.0 pre-mRNA-processing-splicing factor 8-like
blastp_kegg lcl|gmx:100804026 1 2063 + 2063 Gaps:10 88.46 2358 96.55 0.0 pre-mRNA-processing-splicing factor 8-like
blastp_kegg lcl|mtr:MTR_2g103960 1 2063 + 2063 Gaps:15 86.86 2398 96.50 0.0 Pre-mRNA-processing-splicing factor
blastp_pdb 2p87_A 1792 2062 + 271 none 99.27 273 69.74 6e-136 mol:protein length:273 Pre-mRNA-splicing factor Prp8
blastp_pdb 2p8r_A 1792 2062 + 271 none 99.27 273 69.37 1e-135 mol:protein length:273 Pre-mRNA-splicing factor Prp8
blastp_pdb 3sbg_A 1712 2045 + 334 Gaps:16 60.18 565 44.41 3e-85 mol:protein length:565 Pre-mRNA-splicing factor 8
blastp_pdb 2og4_A 1792 2045 + 254 Gaps:9 99.61 254 43.48 6e-62 mol:protein length:254 Pre-mRNA-splicing factor 8
blastp_pdb 3e9l_A 1712 1743 + 32 none 12.45 257 81.25 2e-07 mol:protein length:257 Pre-mRNA-processing-splicing factor 8
blastp_pdb 3e66_B 1712 1750 + 39 none 13.83 282 64.10 3e-06 mol:protein length:282 PRP8
blastp_pdb 3e66_A 1712 1750 + 39 none 13.83 282 64.10 3e-06 mol:protein length:282 PRP8
blastp_pdb 3sbt_A 1712 1747 + 36 none 13.85 260 66.67 9e-06 mol:protein length:260 Pre-mRNA-splicing factor 8
blastp_uniprot_sprot sp|Q99PV0|PRP8_MOUSE 7 2063 + 2057 Gaps:12 87.88 2335 81.87 0.0 Pre-mRNA-processing-splicing factor 8 OS Mus musculus GN Prpf8 PE 1 SV 2
blastp_uniprot_sprot sp|Q6P2Q9|PRP8_HUMAN 7 2063 + 2057 Gaps:12 87.88 2335 81.82 0.0 Pre-mRNA-processing-splicing factor 8 OS Homo sapiens GN PRPF8 PE 1 SV 2
blastp_uniprot_sprot sp|P34369|PRP8_CAEEL 34 2063 + 2030 Gaps:5 87.42 2329 80.26 0.0 Pre-mRNA-splicing factor 8 homolog OS Caenorhabditis elegans GN prp-8 PE 1 SV 1
blastp_uniprot_sprot sp|Q8T295|PRP8_DICDI 40 2047 + 2008 Gaps:13 86.81 2327 75.99 0.0 Pre-mRNA-processing-splicing factor 8 homolog OS Dictyostelium discoideum GN prpf8 PE 3 SV 1
blastp_uniprot_sprot sp|O14187|SPP42_SCHPO 32 2063 + 2032 Gaps:23 86.84 2363 71.69 0.0 Pre-mRNA-splicing factor spp42 OS Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN spp42 PE 1 SV 1
blastp_uniprot_sprot sp|P33334|PRP8_YEAST 52 2063 + 2012 Gaps:26 83.67 2413 61.12 0.0 Pre-mRNA-splicing factor 8 OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN PRP8 PE 1 SV 1
rpsblast_cdd gnl|CDD|34777 9 2063 + 2055 Gaps:51 89.60 2365 58.33 0.0 COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification].
rpsblast_cdd gnl|CDD|116688 404 812 + 409 Gaps:1 100.00 408 80.39 0.0 pfam08083 PROCN PROCN (NUC071) domain. The PROCN domain is the central domain in pre-mRNA splicing factors of PRO8 family.
rpsblast_cdd gnl|CDD|163687 1794 2044 + 251 Gaps:1 100.00 252 75.00 1e-142 cd08056 MPN_PRP8 Mpr1p Pad1p N-terminal (MPN) domains without isopeptidase activity found in splicing factor Prp8. Members of this family are found in pre-mRNA-processing factor 8 (Prp8) which is a critical splicing factor interacting with several other spliceosomal proteins snRNAs and the pre-mRNA thus organizing and stabilizing the spliceosome catalytic core. Prp8 is one of the largest and most highly conserved of nuclear proteins occupying a central position in the catalytic core of the spliceosome. Its C-terminal domain exhibits a JAB1/MPN-like core similar to deubiquitinating enzymes but does not show catalytic isopeptidase activity possibly because the putative isopeptidase center is covered by insertions and terminal appendices that are grafted onto this core thus impairing the metal binding site. It is proposed that this domain is a protein interaction domain instead of a Zn(2+)-dependent metalloenzyme as proposed for some MPN proteins. The DEAD-box protein Brr2 and the GTPase Snu114 bind to the Prp8 C-terminus a region where mutations in human Prp8 (hPrp8) cause a severe form of the genetic disorder retinitis pigmentosa RP13 which leads to progressive photoreceptor degeneration in the retina and eventual blindness. At the N-terminus of Prp8 there are several domains including a highly variable nuclear localization signal (NLS) motif rich in prolines a conserved RNA recognition motif (RRM) and U5 and U6 snRNA binding sites.
rpsblast_cdd gnl|CDD|151125 1454 1613 + 160 none 100.00 160 90.00 9e-94 pfam10596 U6-snRNA_bdg U6-snRNA interacting domain of PrP8. This domain incorporates the interacting site for the U6-snRNA as part of the U4/U6.U5 tri-snRNPs complex of the spliceosome and is the prime candidate for the role of cofactor for the spliceosome's RNA core. The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis. This close association with crucial RNA sequences together with extensive genetic evidence suggests that Prp8 could directly affect the function of the catalytic core perhaps acting as a splicing cofactor.
rpsblast_cdd gnl|CDD|149261 68 219 + 152 none 100.00 152 83.55 3e-91 pfam08082 PRO8NT PRO8NT (NUC069) PrP8 N-terminal domain. The PRO8NT domain is found at the N-terminus of pre-mRNA splicing factors of PRO8 family. The NLS or nuclear localisation signal for these spliceosome proteins begins at the start and runs for 60 residues. N-terminal to this domain is a highly variable proline-rich region.
rpsblast_cdd gnl|CDD|119117 1220 1355 + 136 none 100.00 136 78.68 3e-77 pfam10597 U5_2-snRNA_bdg U5-snRNA binding site 2 of PrP8. The essential spliceosomal protein Prp8 interacts with U5 and U6 snRNAs and with specific pre-mRNA sequences that participate in catalysis. This close association with crucial RNA sequences together with extensive genetic evidence suggests that Prp8 could directly affect the function of the catalytic core perhaps acting as a splicing cofactor.

14 Domain Motifs

Analysis Begin End Length Domain Identifier Cross Ref Description Inter Pro
Pfam 404 812 409 PF08083 none PROCN (NUC071) domain IPR012592
Pfam 1454 1613 160 PF10596 none U6-snRNA interacting domain of PrP8 IPR019580
PANTHER 2 2063 2062 PTHR11140:SF0 none none none
Pfam 997 1088 92 PF10598 none RNA recognition motif of the spliceosomal PrP8 IPR019582
SMART 1826 1960 135 SM00232 none JAB/MPN domain IPR000555
SUPERFAMILY 1699 1742 44 SSF53098 none none IPR012337
Pfam 1938 2062 125 PF08084 none PROCT (NUC072) domain IPR012984
Pfam 1828 1926 99 PF01398 none JAB1/Mov34/MPN/PAD-1 ubiquitin protease IPR000555
Pfam 68 219 152 PF08082 none PRO8NT (NUC069), PrP8 N-terminal domain IPR012591
PANTHER 2 2063 2062 PTHR11140 none none IPR027652
Pfam 1221 1355 135 PF10597 none U5-snRNA binding site 2 of PrP8 IPR019581
Coils 1403 1424 22 Coil none none none
ProDom 47 245 199 PD149576 none SPLICING FACTOR PRP8 MRNA PRE-MRNA PROCESSING U5 PRP8 NUCLEAR RNA-BINDING IPR012591
SUPERFAMILY 1008 1265 258 SSF53098 none none IPR012337

0 Localization

2 Qtllist

Qtl Name Chromosome Name Linkage Group Prox Marker Dist Marker Position QTL Pos One Pos Two Test Type Test Value R 2
Bourran2_2014_nSecLBD_3P Qrob_Chr08 8 s_1BN2OD_551 s_1B5AYF_599 17,17 0 43,51 lod 1,9229 4,4
Bourran2_2014_rEpiBC_3P Qrob_Chr05 5 s_2GDU0O_517 s_1BT8O3_239 25,81 0 55,45 lod 2,2101 5,5

0 Targeting