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View Structure Prediction Details

Protein: RRP9
Organism: Saccharomyces cerevisiae
Length: 573 amino acids
Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076



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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for RRP9.

Description E-value Query
Range
Subject
Range
gi|186464325, gi... - gi|23128981|ref|ZP_00110817.1| COG2319: FOG: WD40 repeat [Nostoc punctiforme PCC 73102], gi|18668187...
0.0 [1..572] [1042..1688]
YY46_NOSS1 - Uncharacterized WD repeat-containing protein alr3466 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=...
gi|25530855 - pir||AC2239 WD-40 repeat protein [imported] - Nostoc sp. (strain PCC 7120)
0.0 [72..572] [939..1464]
gi|17225210 - gi|17225210|gb|AAL37301.1|AF323585_1 beta transducin-like protein HET-D2Y [Podospora anserina]
0.0 [108..571] [823..1304]

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Predicted Domain #1
Region A:
Residues: [1-59]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSDVTQQKKR KRSKGEVNPS KPTVDEEITD PSSNEDEQLE VSDEEDALES EEEFEGENP

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

    MCM
Score
SCOP
Match
SCOP Description
View Download 0.316 a.4.1 Homeodomain-like
View Download 0.647 a.16.1 S15/NS1 RNA-binding domain
View Download 0.321 a.6.1 Putative DNA-binding domain
View Download 0.296 a.52.1 Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View Download 0.433 d.48.1 RecA protein, C-terminal domain
View Download 0.280 a.76.1 Iron-dependent represor protein, dimerization domain
View Download 0.274 a.5.1 DNA helicase RuvA subunit, C-terminal domain
View Download 0.274 a.60.4 DNA repair protein Rad51, N-terminal domain
View Download 0.270 g.57.1 Serine proteinase inhibitor lekti
View Download 0.253 a.5.2 UBA-like
View Download 0.235 a.4.1 Homeodomain-like
View Download 0.216 a.5.7 4-hydroxy-2-oxovalerate aldolase DmpG, communication domain
View Download 0.206 a.64.2 Bacteriocin AS-48

Predicted Domain #2
Region A:
Residues: [60-140]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ADKRRRLAKQ YLENLKSEAN DILTDNRNAE EKDLNNLKER TIDEYNNFDA GDLDKDIIAS  60
   61 RLKEDVAEQQ GRVFRYFGDK L

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 129.68867
Match: 1nexB_
Description: Cdc4 F-box and linker domains; Cdc4 propeller domain
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [141-434]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LISEAKQSFT RVGENNLTCI SCFQPVLNKY TFEESSNGDK NKGRLFAYTV SKDLQLTKYD  60
   61 ITDFSKRPKK LKYAKGGAKY IPTSKHEYEN TTEGHYDEIL TVAASPDGKY VVTGGRDRKL 120
  121 IVWSTESLSP VKVIPTKDRR GEVLSLAFRK NSDQLYASCA DFKIRTYSIN QFSQLEILYG 180
  181 HHDIVEDISA LAMERCVTVG ARDRTAMLWK IPDETRLTFR GGDEPQKLLR RWMKENAKEG 240
  241 EDGEVKYPDE SEAPLFFCEG SIDVVSMVDD FHFITGSDNG NICLWSLAKK KPIF

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 129.68867
Match: 1nexB_
Description: Cdc4 F-box and linker domains; Cdc4 propeller domain
Matching Structure (courtesy of the PDB):

Predicted Domain #4
Region A:
Residues: [435-502]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TERIAHGILP EPSFNDISGE TDEELRKRQL QGKKLLQPFW ITSLYAIPYS NVFISGSWSG  60
   61 SLKVWKIS

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 123.927757
Match: 1erjA_
Description: Tup1, C-terminal domain
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [503-573]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 DNLRSFELLG ELSGAKGVVT KIQVVESGKH GKEKFRILAS IAKEHRLGRW IANVSGARNG  60
   61 IYSAVIDQTG F

[Run NCBI BLAST on this sequence.]

Detection Method: deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

    MCM
Score
GO
Score
GO
Term
SCOP
Match
SCOP Description
View Download 0.690 0.859 small nuclear ribonucleoprotein complex d.58.7 RNA-binding domain, RBD
View Download 0.622 0.859 small nuclear ribonucleoprotein complex g.7.1 Snake toxin-like
View Download 0.729 0.859 small nuclear ribonucleoprotein complex b.34.4 Electron transport accessory proteins
View Download 0.671 0.859 small nuclear ribonucleoprotein complex d.58.7 RNA-binding domain, RBD
View Download 0.644 0.859 small nuclear ribonucleoprotein complex d.58.40 D-ribose-5-phosphate isomerase (RpiA), lid domain
View Download 0.616 0.859 small nuclear ribonucleoprotein complex d.58.5 GlnB-like
View Download 0.603 0.859 small nuclear ribonucleoprotein complex b.4.1 HSP40/DnaJ peptide-binding domain
View Download 0.597 0.859 small nuclear ribonucleoprotein complex d.58.7 RNA-binding domain, RBD
View Download 0.580 0.859 small nuclear ribonucleoprotein complex d.17.2 Copper amine oxidase, domains 1 and 2
View Download 0.573 0.859 small nuclear ribonucleoprotein complex d.58.8 Viral DNA-binding domain
View Download 0.570 0.859 small nuclear ribonucleoprotein complex d.16.1 FAD-linked reductases, C-terminal domain
View Download 0.566 0.859 small nuclear ribonucleoprotein complex d.58.18 Regulatory domain in the aminoacid metabolism
View Download 0.552 0.859 small nuclear ribonucleoprotein complex d.9.1 Interleukin 8-like chemokines
View Download 0.543 0.859 small nuclear ribonucleoprotein complex b.1.1 Immunoglobulin
View Download 0.543 0.859 small nuclear ribonucleoprotein complex d.58.5 GlnB-like
View Download 0.532 0.859 small nuclear ribonucleoprotein complex d.52.3 Prokaryotic type KH domain (KH-domain type II)
View Download 0.516 0.859 small nuclear ribonucleoprotein complex d.51.1 Eukaryotic type KH-domain (KH-domain type I)
View Download 0.513 0.859 small nuclear ribonucleoprotein complex d.58.8 Viral DNA-binding domain
View Download 0.497 0.859 small nuclear ribonucleoprotein complex d.15.7 Immunoglobulin-binding domains
View Download 0.493 0.859 small nuclear ribonucleoprotein complex d.58.1 4Fe-4S ferredoxins
View Download 0.487 0.859 small nuclear ribonucleoprotein complex d.50.1 dsRNA-binding domain-like
View Download 0.486 0.859 small nuclear ribonucleoprotein complex d.52.1 Alpha-lytic protease prodomain
View Download 0.483 0.859 small nuclear ribonucleoprotein complex d.58.7 RNA-binding domain, RBD
View Download 0.460 0.859 small nuclear ribonucleoprotein complex b.1.1 Immunoglobulin
View Download 0.439 0.859 small nuclear ribonucleoprotein complex d.58.12 eEF-1beta-like
View Download 0.423 0.859 small nuclear ribonucleoprotein complex b.84.2 Rudiment single hybrid motif
View Download 0.415 0.859 small nuclear ribonucleoprotein complex d.58.14 Ribosomal protein S6
View Download 0.394 0.859 small nuclear ribonucleoprotein complex d.58.17 Metal-binding domain
View Download 0.361 0.859 small nuclear ribonucleoprotein complex a.57.1 Protein HNS-dependent expression A; HdeA
View Download 0.352 0.859 small nuclear ribonucleoprotein complex d.58.44 Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
View Download 0.302 0.859 small nuclear ribonucleoprotein complex d.67.2 Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
View Download 0.285 0.859 small nuclear ribonucleoprotein complex d.17.2 Copper amine oxidase, domains 1 and 2
View Download 0.256 0.859 small nuclear ribonucleoprotein complex b.1.1 Immunoglobulin
View Download 0.251 0.859 small nuclear ribonucleoprotein complex d.74.3 RBP11-like subunits of RNA polymerase
View Download 0.238 0.859 small nuclear ribonucleoprotein complex d.89.1 Origin of replication-binding domain, RBD-like
View Download 0.228 0.859 small nuclear ribonucleoprotein complex d.58.12 eEF-1beta-like
View Download 0.218 0.859 small nuclear ribonucleoprotein complex d.58.3 Protease propeptides/inhibitors
View Download 0.215 0.859 small nuclear ribonucleoprotein complex b.1.2 Fibronectin type III
View Download 0.213 0.859 small nuclear ribonucleoprotein complex b.36.1 PDZ domain-like
View Download 0.212 0.859 small nuclear ribonucleoprotein complex b.1.1 Immunoglobulin
View Download 0.212 0.859 small nuclear ribonucleoprotein complex d.74.3 RBP11-like subunits of RNA polymerase


YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle