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View Structure Prediction Details

Protein: RED1
Organism: Saccharomyces cerevisiae
Length: 827 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 RED1.

Description E-value Query
Range
Subject
Range
RED1_YEAST - Protein RED1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RED1 PE=1 SV=1
RED1 - Protein component of the axial elements of the synaptonemal complex, involved in chromosome segregat...
0.0 [1..827] [1..827]
gi|11558097, gi|... - gi|199425101|emb|CAG98704.2| KLLA0F20405p [Kluyveromyces lactis], gi|11558097|emb|CAC17728.1| RED1 p...
0.0 [57..822] [61..851]

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Predicted Domain #1
Region A:
Residues: [1-320]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEGLKKKIFG VCLKNDLAQT RNETKGIHYG LMTLETSKQL QEFLHLLVIK REVIQNFELL  60
   61 FHIINVAVKI TDSNLPSDDI WHFILKLRFS SEINIDEDSK VLNYLLETGI AMENPVSWKC 120
  121 LAVISSILSS VPQSKKIITN LIETEHAKKI GQLFDNIQDL QQGNFLVEIL SNCFKKSASN 180
  181 SKKVEKIPQL WQSRSKNKFF FENEFYPFSS KNGSLQTCQF LCNNFMSTLS FTGILRQVSY 240
  241 SGSETLKNLR IFKKKDDENS YFIQCIYNKI YLWLDEKAPL EFERKKIRIT KNLKNKIQIK 300
  301 LRQPFHECVR TTADKTALLF 

[Run NCBI BLAST on this sequence.]

Detection Method: 3DJury
Confidence: 2.016
Match:
Description: No description for 1be3C_ was found.

Predicted functions:

Term Confidence Notes
binding 1.81809833018345 bayes_pls_golite062009
nucleic acid binding 0.438940591104341 bayes_pls_golite062009
protein binding 0.391512016855874 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [321-409]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NKTKGFQLEF EDEKLGETFF HNVNNIPKIS EVQNFLVLDY IEEEPENEGE EEEQIGRADE  60
   61 QKEDEEEESL DELSTPMVYP IKSSIPHNH

[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 0.396 a.1.1 Globin-like
View Download 0.429 a.77.1 DEATH domain
View Download 0.387 a.61.1 Retroviral matrix proteins
View Download 0.569 a.59.1 PAH2 domain
View Download 0.396 d.58.20 NAD-binding domain of HMG-CoA reductase
View Download 0.569 a.59.1 PAH2 domain
View Download 0.429 a.77.1 DEATH domain
View Download 0.396 a.1.1 Globin-like
View Download 0.396 d.58.20 NAD-binding domain of HMG-CoA reductase
View Download 0.387 a.61.1 Retroviral matrix proteins
View Download 0.370 d.87.2 CO dehydrogenase flavoprotein C-terminal domain-like
View Download 0.364 a.77.1 DEATH domain
View Download 0.338 a.144.1 PABC (PABP) domain
View Download 0.327 a.118.14 FliG
View Download 0.324 a.80.1 DNA polymerase III clamp loader subunits, C-terminal domain
View Download 0.324 a.47.2 t-snare proteins
View Download 0.319 a.151.1 Glutamyl tRNA-reductase dimerization domain
View Download 0.306 a.4.5 "Winged helix" DNA-binding domain
View Download 0.303 d.96.1 Tetrahydrobiopterin biosynthesis enzymes-like
View Download 0.296 a.39.1 EF-hand
View Download 0.292 a.100.1 6-phosphogluconate dehydrogenase C-terminal domain-like
View Download 0.281 a.11.2 Second domain of FERM
View Download 0.272 a.71.2 Helical domain of Sec23/24
View Download 0.265 a.1.1 Globin-like
View Download 0.257 a.80.1 DNA polymerase III clamp loader subunits, C-terminal domain
View Download 0.248 a.74.1 Cyclin-like
View Download 0.247 a.7.1 Spectrin repeat
View Download 0.211 a.36.1 Signal peptide-binding domain
View Download 0.209 a.12.1 Kix domain of CBP (creb binding protein)

Predicted Domain #3
Region A:
Residues: [410-574]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NEKVQLVTPD RSVSIRSDEW DLKSNTEDEE GNVLADLKIS STKETKRQTD YVHIDSEDQS  60
   61 PVVSAQMRKM RRESTKTLEI LRQEFKDKDV QNKEDQSEQI QNPFVNTSSL VVGKSCLVNP 120
  121 KEKPNIDQTV VGITELKSNS SIKKRDINIL DTIFGQPPSK KQKQF

[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 0.472 a.24.9 alpha-catenin/vinculin
View Download 0.264 f.36.1 Neurotransmitter-gated ion-channel pransmembrane pore
View Download 0.472 a.24.9 alpha-catenin/vinculin
View Download 0.264 f.36.1 Neurotransmitter-gated ion-channel pransmembrane pore

Predicted Domain #4
Region A:
Residues: [575-737]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HKKEKKKQQK KLTNFKPIID VPSQDKRNLR SNAPTKPKSI KVSKLRTDKK VTGEKSSPET  60
   61 AAEKVDDQTV RSNDEQAMSR ATKEKCFPDV NEGKEITKDD AKVSLESKKN NETFVDSSVV 120
  121 EKHTPPDKDC NNCNITDILE STTVIDLQSP HGLSAPGQNT FTN

[Run NCBI BLAST on this sequence.]

Detection Method: MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

Found no structure predictions for this domain.

Predicted Domain #5
Region A:
Residues: [738-827]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KLQEQIYSSI NHFSNELVRK ISIINQELNK KILKELSEKY QKLFSELQDN FQNDTNEMLK  60
   61 FMGEIKDMMN LPEDQLVHAI RTRKFDNNKR 

[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 0.815 0.019 synaptonemal complex a.27.1 Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View Download 0.788 0.019 synaptonemal complex a.7.8 GAT domain
View Download 0.966 0.019 synaptonemal complex a.80.1 DNA polymerase III clamp loader subunits, C-terminal domain
View Download 0.798 0.019 synaptonemal complex a.7.2 Enzyme IIa from lactose specific PTS, IIa-lac
View Download 0.931 0.019 synaptonemal complex a.7.2 Enzyme IIa from lactose specific PTS, IIa-lac
View Download 0.920 0.019 synaptonemal complex a.7.2 Enzyme IIa from lactose specific PTS, IIa-lac
View Download 0.900 0.019 synaptonemal complex a.23.1 HSC20 (HSCB), C-terminal oligomerisation domain
View Download 0.898 0.019 synaptonemal complex a.24.17 Group V grass pollen allergen
View Download 0.883 0.019 synaptonemal complex a.47.2 t-snare proteins
View Download 0.879 0.019 synaptonemal complex a.23.1 HSC20 (HSCB), C-terminal oligomerisation domain
View Download 0.781 0.019 synaptonemal complex f.31.1 Photosystem I reaction center subunit XI, PsaL
View Download 0.779 0.019 synaptonemal complex a.7.1 Spectrin repeat
View Download 0.778 0.019 synaptonemal complex a.24.17 Group V grass pollen allergen
View Download 0.719 0.019 synaptonemal complex a.47.2 t-snare proteins
View Download 0.699 0.019 synaptonemal complex a.52.1 Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View Download 0.687 0.019 synaptonemal complex a.7.7 BAG domain
View Download 0.687 0.019 synaptonemal complex a.7.6 Ribosomal protein S20
View Download 0.686 0.019 synaptonemal complex a.90.1 Transcription factor STAT-4 N-domain
View Download 0.673 0.019 synaptonemal complex a.48.3 Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
View Download 0.659 0.019 synaptonemal complex a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.634 0.019 synaptonemal complex a.24.9 alpha-catenin/vinculin
View Download 0.621 0.019 synaptonemal complex c.102.1 Cell-division inhibitor MinC, N-terminal domain
View Download 0.604 0.019 synaptonemal complex a.7.5 Tubulin chaperone cofactor A
View Download 0.590 0.019 synaptonemal complex a.11.1 Acyl-CoA binding protein
View Download 0.584 0.019 synaptonemal complex a.28.3 Retrovirus capsid protein C-terminal domain
View Download 0.584 0.019 synaptonemal complex a.52.1 Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View Download 0.583 0.019 synaptonemal complex f.15.1 Small-conductance potassium channel
View Download 0.581 0.019 synaptonemal complex d.150.1 4'-phosphopantetheinyl transferase
View Download 0.580 0.019 synaptonemal complex a.46.1 Methionine synthase domain
View Download 0.548 0.019 synaptonemal complex a.65.1 Annexin
View Download 0.515 0.019 synaptonemal complex a.24.3 Cytochromes
View Download 0.507 0.019 synaptonemal complex f.1.1 Colicin
View Download 0.489 0.019 synaptonemal complex a.71.2 Helical domain of Sec23/24
View Download 0.474 0.019 synaptonemal complex a.7.3 Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain
View Download 0.471 0.019 synaptonemal complex a.182.1 GatB/YqeY domain
View Download 0.470 0.019 synaptonemal complex a.7.1 Spectrin repeat
View Download 0.464 0.019 synaptonemal complex a.22.1 Histone-fold
View Download 0.452 0.019 synaptonemal complex a.7.1 Spectrin repeat
View Download 0.450 0.019 synaptonemal complex a.74.1 Cyclin-like
View Download 0.448 0.019 synaptonemal complex a.24.4 Hemerythrin
View Download 0.434 0.019 synaptonemal complex f.34.1 Mechanosensitive channel protein MscS (YggB), transmembrane region
View Download 0.430 0.019 synaptonemal complex a.80.1 DNA polymerase III clamp loader subunits, C-terminal domain
View Download 0.429 0.019 synaptonemal complex a.2.11 Fe,Mn superoxide dismutase (SOD), N-terminal domain
View Download 0.428 0.019 synaptonemal complex a.16.1 S15/NS1 RNA-binding domain
View Download 0.423 0.019 synaptonemal complex a.4.9 Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3
View Download 0.423 0.019 synaptonemal complex d.58.26 GHMP Kinase, C-terminal domain
View Download 0.416 0.019 synaptonemal complex a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.416 0.019 synaptonemal complex a.2.3 Chaperone J-domain
View Download 0.414 0.019 synaptonemal complex a.24.9 alpha-catenin/vinculin
View Download 0.412 0.019 synaptonemal complex a.27.1 Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View Download 0.411 0.019 synaptonemal complex a.7.3 Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain
View Download 0.411 0.019 synaptonemal complex a.24.9 alpha-catenin/vinculin
View Download 0.411 0.019 synaptonemal complex a.60.10 Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain
View Download 0.410 0.019 synaptonemal complex d.150.1 4'-phosphopantetheinyl transferase
View Download 0.408 0.019 synaptonemal complex a.100.1 6-phosphogluconate dehydrogenase C-terminal domain-like
View Download 0.407 0.019 synaptonemal complex a.26.1 4-helical cytokines
View Download 0.401 0.019 synaptonemal complex a.61.1 Retroviral matrix proteins
View Download 0.401 0.019 synaptonemal complex a.24.7 FKBP12-rapamycin-binding domain of FKBP-rapamycin-associated protein (FRAP)
View Download 0.400 0.019 synaptonemal complex a.29.4 RecG, N-terminal domain
View Download 0.392 0.019 synaptonemal complex a.39.1 EF-hand
View Download 0.392 0.019 synaptonemal complex a.26.1 4-helical cytokines
View Download 0.388 0.019 synaptonemal complex a.39.1 EF-hand
View Download 0.387 0.019 synaptonemal complex a.12.1 Kix domain of CBP (creb binding protein)
View Download 0.378 0.019 synaptonemal complex a.2.6 Effector domain of the protein kinase pkn/prk1
View Download 0.373 0.019 synaptonemal complex a.76.1 Iron-dependent represor protein, dimerization domain
View Download 0.372 0.019 synaptonemal complex a.22.1 Histone-fold
View Download 0.363 0.019 synaptonemal complex a.71.1 Endoplasmic reticulum protein ERP29, C-domain
View Download 0.360 0.019 synaptonemal complex a.4.5 "Winged helix" DNA-binding domain
View Download 0.357 0.019 synaptonemal complex a.74.1 Cyclin-like
View Download 0.357 0.019 synaptonemal complex a.69.1 C-terminal domain of alpha and beta subunits of F1 ATP synthase
View Download 0.355 0.019 synaptonemal complex a.130.1 Chorismate mutase II
View Download 0.354 0.019 synaptonemal complex a.69.3 1-deoxy-D-xylulose-5-phosphate reductoisomerase, C-terminal domain
View Download 0.354 0.019 synaptonemal complex a.4.1 Homeodomain-like
View Download 0.351 0.019 synaptonemal complex f.36.1 Neurotransmitter-gated ion-channel pransmembrane pore
View Download 0.345 0.019 synaptonemal complex a.29.5 alpha-ketoacid dehydrogenase kinase, N-terminal domain
View Download 0.345 0.019 synaptonemal complex a.21.1 HMG-box
View Download 0.343 0.019 synaptonemal complex a.2.7 tRNA-binding arm
View Download 0.339 0.019 synaptonemal complex a.112.1 Description not found.
View Download 0.337 0.019 synaptonemal complex a.1.1 Globin-like
View Download 0.332 0.019 synaptonemal complex a.2.8 Eukaryotic DNA topoisomerase I, dispensable insert domain
View Download 0.331 0.019 synaptonemal complex a.5.4 Elongation factor TFIIS domain 2
View Download 0.327 0.019 synaptonemal complex a.167.1 Porin chaperone SurA, peptide-binding domain
View Download 0.322 0.019 synaptonemal complex a.118.1 ARM repeat
View Download 0.318 0.019 synaptonemal complex a.2.9 C-terminal UvrC-binding domain of UvrB
View Download 0.312 0.019 synaptonemal complex d.8.1 Urease, gamma-subunit
View Download 0.309 0.019 synaptonemal complex a.30.2 Homodimeric domain of signal transducing histidine kinase
View Download 0.309 0.019 synaptonemal complex a.77.1 DEATH domain
View Download 0.304 0.019 synaptonemal complex a.25.1 Ferritin-like
View Download 0.303 0.019 synaptonemal complex a.77.1 DEATH domain
View Download 0.303 0.019 synaptonemal complex f.14.1 Voltage-gated potassium channels
View Download 0.302 0.019 synaptonemal complex a.24.16 Nucleotidyltransferase substrate binding subunit/domain
View Download 0.302 0.019 synaptonemal complex a.63.1 Apolipophorin-III
View Download 0.292 0.019 synaptonemal complex a.24.13 Domain of the SRP/SRP receptor G-proteins
View Download 0.282 0.019 synaptonemal complex a.24.17 Group V grass pollen allergen
View Download 0.281 0.019 synaptonemal complex a.118.1 ARM repeat
View Download 0.281 0.019 synaptonemal complex a.26.1 4-helical cytokines
View Download 0.281 0.019 synaptonemal complex a.51.1 Cytochrome c oxidase subunit h
View Download 0.279 0.019 synaptonemal complex a.2.2 Ribosomal protein L29 (L29p)
View Download 0.278 0.019 synaptonemal complex a.24.14 FAT domain of focal adhesion kinase
View Download 0.273 0.019 synaptonemal complex a.118.8 TPR-like
View Download 0.273 0.019 synaptonemal complex a.39.1 EF-hand
View Download 0.272 0.019 synaptonemal complex a.7.1 Spectrin repeat
View Download 0.272 0.019 synaptonemal complex i.11.1 Computational models partly based on NMR data
View Download 0.272 0.019 synaptonemal complex a.70.1 N-terminal domain of the delta subunit of the F1F0-ATP synthase
View Download 0.271 0.019 synaptonemal complex a.4.2 Methylated DNA-protein cysteine methyltransferase, C-terminal domain
View Download 0.271 0.019 synaptonemal complex d.58.35 Pseudouridine synthase
View Download 0.270 0.019 synaptonemal complex a.163.1 Crustacean CHH/MIH/GIH neurohormone
View Download 0.268 0.019 synaptonemal complex a.145.1 Flagellar transcriptional activator FlhD
View Download 0.268 0.019 synaptonemal complex a.141.1 Frizzled cystein-rich domain
View Download 0.268 0.019 synaptonemal complex a.8.2 Plasmid maintenance system epsilon/zeta, antidote epsilon subunit
View Download 0.267 0.019 synaptonemal complex a.13.1 alpha-2-Macroglobulin receptor associated protein (RAP) domain 1
View Download 0.259 0.019 synaptonemal complex a.63.1 Apolipophorin-III
View Download 0.259 0.019 synaptonemal complex d.80.1 Tautomerase/MIF
View Download 0.259 0.019 synaptonemal complex a.22.1 Histone-fold
View Download 0.256 0.019 synaptonemal complex a.8.3 Families 57/38 glycoside transferase middle domain
View Download 0.250 0.019 synaptonemal complex a.118.16 Testis/brain RNA-binding protein (TB-RBP)
View Download 0.249 0.019 synaptonemal complex a.2.11 Fe,Mn superoxide dismutase (SOD), N-terminal domain
View Download 0.248 0.019 synaptonemal complex f.36.1 Neurotransmitter-gated ion-channel pransmembrane pore
View Download 0.247 0.019 synaptonemal complex d.26.1 FKBP-like
View Download 0.246 0.019 synaptonemal complex a.60.8 HRDC-like
View Download 0.244 0.019 synaptonemal complex a.11.2 Second domain of FERM
View Download 0.244 0.019 synaptonemal complex a.19.1 Fertilization protein
View Download 0.244 0.019 synaptonemal complex a.25.1 Ferritin-like
View Download 0.241 0.019 synaptonemal complex a.48.1 N-terminal domain of cbl (N-cbl)
View Download 0.239 0.019 synaptonemal complex a.64.1 Saposin
View Download 0.239 0.019 synaptonemal complex d.67.2 Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
View Download 0.238 0.019 synaptonemal complex a.24.2 Aspartate receptor, ligand-binding domain
View Download 0.238 0.019 synaptonemal complex a.158.1 F-box domain
View Download 0.238 0.019 synaptonemal complex a.24.3 Cytochromes
View Download 0.237 0.019 synaptonemal complex a.29.3 Acyl-CoA dehydrogenase C-terminal domain-like
View Download 0.236 0.019 synaptonemal complex a.61.1 Retroviral matrix proteins
View Download 0.236 0.019 synaptonemal complex a.26.1 4-helical cytokines
View Download 0.235 0.019 synaptonemal complex a.22.1 Histone-fold
View Download 0.230 0.019 synaptonemal complex a.60.5 Barrier-to-autointegration factor, BAF
View Download 0.228 0.019 synaptonemal complex a.77.1 DEATH domain
View Download 0.228 0.019 synaptonemal complex a.76.1 Iron-dependent represor protein, dimerization domain
View Download 0.225 0.019 synaptonemal complex a.21.1 HMG-box
View Download 0.225 0.019 synaptonemal complex a.118.9 ENTH/VHS domain
View Download 0.224 0.019 synaptonemal complex a.100.1 6-phosphogluconate dehydrogenase C-terminal domain-like
View Download 0.223 0.019 synaptonemal complex e.37.1 Bifunctional dehydrogenase/ferrochelatase Met8p, dimerisation and C-terminal domains
View Download 0.223 0.019 synaptonemal complex a.3.1 Cytochrome c
View Download 0.220 0.019 synaptonemal complex f.32.1 a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
View Download 0.220 0.019 synaptonemal complex a.41.1 Domain of poly(ADP-ribose) polymerase
View Download 0.218 0.019 synaptonemal complex d.58.39 Glutamyl tRNA-reductase catalytic, N-terminal domain
View Download 0.215 0.019 synaptonemal complex a.27.1 Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases
View Download 0.212 0.019 synaptonemal complex a.24.3 Cytochromes
View Download 0.211 0.019 synaptonemal complex a.48.2 Transferrin receptor ectodomain, C-terminal domain
View Download 0.209 0.019 synaptonemal complex a.2.7 tRNA-binding arm
View Download 0.208 0.019 synaptonemal complex a.2.10 Epsilon subunit of F1F0-ATP synthase C-terminal domain
View Download 0.207 0.019 synaptonemal complex f.14.1 Voltage-gated potassium channels
View Download 0.206 0.019 synaptonemal complex d.227.1 OsmC-like
View Download 0.206 0.019 synaptonemal complex a.24.11 Bacterial GAP domain
View Download 0.206 0.019 synaptonemal complex a.79.1 Antitermination factor NusB
View Download 0.205 0.019 synaptonemal complex a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.204 0.019 synaptonemal complex a.2.3 Chaperone J-domain
View Download 0.204 0.019 synaptonemal complex a.26.1 4-helical cytokines
View Download 0.202 0.019 synaptonemal complex d.81.1 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain


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