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View Structure Prediction Details

Protein: MIP6
Organism: Saccharomyces cerevisiae
Length: 659 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 MIP6.

Description E-value Query
Range
Subject
Range
PABP1_MOUSE - Polyadenylate-binding protein 1 OS=Mus musculus GN=Pabpc1 PE=1 SV=2
0.0 [102..560] [2..450]
PABP1_BOVIN - Polyadenylate-binding protein 1 OS=Bos taurus GN=PABPC1 PE=2 SV=1
gi|109087089 - gi|109087089|ref|XP_001098239.1| PREDICTED: poly(A) binding protein, cytoplasmic 1 isoform 2 [Macaca...
gi|123993665, gi... - gi|168278070|dbj|BAG11013.1| polyadenylate-binding protein 1 [synthetic construct], gi|123999981|gb|...
gi|194036975 - gi|194036975|ref|XP_001927782.1| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-bind...
PABPC1 - poly(A) binding protein, cytoplasmic 1
gi|73974130, gi|... - gi|73974178|ref|XP_857695.1| PREDICTED: similar to Polyadenylate-binding protein 1 (Poly(A)-binding ...
0.0 [102..560] [2..450]
PABP1_RAT - Polyadenylate-binding protein 1 OS=Rattus norvegicus GN=Pabpc1 PE=1 SV=1
0.0 [102..560] [2..450]
gi|2665654 - gi|2665654|gb|AAB88449.1| polyadenylate binding protein [Petromyzon marinus]
0.0 [102..550] [2..441]
gi|64970 - gi|64970|emb|CAA40721.1| polyA binding protein [Xenopus laevis]
0.0 [102..560] [2..448]
gi|19526272 - gi|19526272|gb|AAL89666.1|AF411956_7 polyA-binding protein [Takifugu rubripes]
0.0 [105..545] [5..435]
gi|7528270 - gi|7528270|gb|AAF63202.1|AF240679_1 poly(A)-binding protein [Cucumis sativus]
0.0 [87..556] [5..461]

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Predicted Domain #1
Region A:
Residues: [1-96]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPNSHGNVLN NISLNSKQNP RSISKSCPND KDARQKSFKT ISAQALVRVQ GAGYKLGDVK  60
   61 LKDAEVKEKN SLKKYDCKNA TQEKKEQEQV FEKTVA

[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 0.426 a.7.6 Ribosomal protein S20
View Download 0.534 a.24.17 Group V grass pollen allergen
View Download 0.610 a.46.1 Methionine synthase domain
View Download 0.421 a.51.1 Cytochrome c oxidase subunit h
View Download 0.426 a.24.17 Group V grass pollen allergen
View Download 0.384 d.88.1 SRF-like
View Download 0.366 a.40.1 Calponin-homology domain, CH-domain
View Download 0.356 a.13.1 alpha-2-Macroglobulin receptor associated protein (RAP) domain 1
View Download 0.321 a.24.13 Domain of the SRP/SRP receptor G-proteins
View Download 0.310 a.39.1 EF-hand
View Download 0.309 a.156.1 S13-like H2TH domain
View Download 0.292 d.15.6 Superantigen toxins, C-terminal domain
View Download 0.291 a.64.1 Saposin
View Download 0.261 d.14.1 Ribosomal protein S5 domain 2-like
View Download 0.258 a.4.12 TrpR-like
View Download 0.253 a.7.1 Spectrin repeat
View Download 0.230 a.26.1 4-helical cytokines
View Download 0.224 a.51.1 Cytochrome c oxidase subunit h
View Download 0.222 a.7.8 GAT domain
View Download 0.210 d.228.1 Replication modulator SeqA, C-terminal DNA-binding domain
View Download 0.207 a.73.1 Retrovirus capsid protein, N-terminal core domain
View Download 0.205 b.1.18 E set domains
View Download 0.201 a.74.1 Cyclin-like

Predicted Domain #2
Region A:
Residues: [97-189]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KGSVQKYITK TSKTNSLFIG NLKSTVTEEM LRKIFKRYQS FESAKVCRDF LTKKSLGYGY  60
   61 LNFKDKNDAE SARKEFNYTV FFGQEVKIMP SMK

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 262.533179
Match: 1cvjA_
Description: Poly(A)-binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
RNA binding 4.43921816934576 bayes_pls_golite062009
binding 3.49612884560266 bayes_pls_golite062009
mRNA binding 3.1794312979994 bayes_pls_golite062009
nucleocytoplasmic transporter activity 2.51546867995401 bayes_pls_golite062009
nucleic acid binding 2.34356093608328 bayes_pls_golite062009
protein binding 1.32954276279597 bayes_pls_golite062009
transporter activity 1.15189574940599 bayes_pls_golite062009
transmembrane transporter activity 1.06701715708589 bayes_pls_golite062009
single-stranded RNA binding 0.851308060174055 bayes_pls_golite062009
substrate-specific transporter activity 0.796360682730618 bayes_pls_golite062009
substrate-specific transmembrane transporter activity 0.540791176419082 bayes_pls_golite062009
mRNA 3'-UTR binding 0.414871108842203 bayes_pls_golite062009
nucleobase, nucleoside, nucleotide and nucleic acid transmembrane transporter activity 0.212405663170905 bayes_pls_golite062009
poly-purine tract binding 0.15653271757169 bayes_pls_golite062009
poly-pyrimidine tract binding 0.11509546367801 bayes_pls_golite062009
nucleoside-triphosphatase activity 0.096231856558874 bayes_pls_golite062009
pyrophosphatase activity 0.059732432409948 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides 0.0510390778764699 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.0484248928275733 bayes_pls_golite062009
poly(A) RNA binding 0.0459878286238641 bayes_pls_golite062009

Predicted Domain #3
Region A:
Residues: [190-294]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NTLFRKNIGT NVFFSNLPLE NPQLTTRSFY LIMIEYGNVL SCLLERRKNI GFVYFDNDIS  60
   61 ARNVIKKYNN QEFFGNKIIC GLHFDKEVRT RPEFTKRKKM IGSDI

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 262.533179
Match: 1cvjA_
Description: Poly(A)-binding protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
RNA binding 4.43921816934576 bayes_pls_golite062009
binding 3.49612884560266 bayes_pls_golite062009
mRNA binding 3.1794312979994 bayes_pls_golite062009
nucleocytoplasmic transporter activity 2.51546867995401 bayes_pls_golite062009
nucleic acid binding 2.34356093608328 bayes_pls_golite062009
protein binding 1.32954276279597 bayes_pls_golite062009
transporter activity 1.15189574940599 bayes_pls_golite062009
transmembrane transporter activity 1.06701715708589 bayes_pls_golite062009
single-stranded RNA binding 0.851308060174055 bayes_pls_golite062009
substrate-specific transporter activity 0.796360682730618 bayes_pls_golite062009
substrate-specific transmembrane transporter activity 0.540791176419082 bayes_pls_golite062009
mRNA 3'-UTR binding 0.414871108842203 bayes_pls_golite062009
nucleobase, nucleoside, nucleotide and nucleic acid transmembrane transporter activity 0.212405663170905 bayes_pls_golite062009
poly-purine tract binding 0.15653271757169 bayes_pls_golite062009
poly-pyrimidine tract binding 0.11509546367801 bayes_pls_golite062009
nucleoside-triphosphatase activity 0.096231856558874 bayes_pls_golite062009
pyrophosphatase activity 0.059732432409948 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides 0.0510390778764699 bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides 0.0484248928275733 bayes_pls_golite062009
poly(A) RNA binding 0.0459878286238641 bayes_pls_golite062009

Predicted Domain #4
Region A:
Residues: [295-389]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VIEDELLASN NLSDNARSKT ILVKNLPSDT TQEEVLDYFS TIGPIKSVFI SEKQANTPHK  60
   61 AFVTYKNEEE SKKAQKCLNK TIFKNHTIWV GPGKD

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 85.056057
Match: 1b7fA_
Description: Sex-lethal protein
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [390-543]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KPVHNQIGTN KKTKVYLKNL SFNCNKEFIS QLCLQEKIRF SEIKITNYNS LNWTFCGHVE  60
   61 CFSRSDAERL FNILDRRLIG SSLVEASWSK NNDNILNEID YDDGNNNENY KKLINISSMM 120
  121 RFRTQELSAH QKGLTSQFQQ VVSPFSSYSN SYTN

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 85.056057
Match: 1b7fA_
Description: Sex-lethal protein
Matching Structure (courtesy of the PDB):

Predicted Domain #6
Region A:
Residues: [544-659]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNSLVATPMK PHPAFNLITN TVDEKLHQPK RTKQENAEIL ESLKKIINRN LQRISISGLN  60
   61 KEENLRSISE FIFDVFWEHD SERLSHFLLM TNTSLESQKI LQKQVTRAAE SLGFTV

[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 0.627 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.729 a.74.1 Cyclin-like
View Download 0.702 a.40.1 Calponin-homology domain, CH-domain
View Download 0.631 a.152.1 Antioxidant defence protein AhpD
View Download 0.623 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.601 d.79.1 YjgF-like
View Download 0.582 a.77.1 DEATH domain
View Download 0.576 d.68.6 DNA-binding protein Sso10b (AlbA)
View Download 0.527 d.68.3 SirA-like
View Download 0.526 a.118.11 Cytochrome c oxidase subunit E
View Download 0.512 d.68.6 DNA-binding protein Sso10b (AlbA)
View Download 0.488 a.74.1 Cyclin-like
View Download 0.479 a.1.1 Globin-like
View Download 0.467 c.13.2 Anti-sigma factor antagonist SpoIIaa
View Download 0.461 a.40.1 Calponin-homology domain, CH-domain
View Download 0.441 a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.432 i.11.1 Computational models partly based on NMR data
View Download 0.416 a.118.1 ARM repeat
View Download 0.404 d.87.1 FAD/NAD-linked reductases, dimerisation (C-terminal) domain
View Download 0.401 a.74.1 Cyclin-like
View Download 0.400 a.24.3 Cytochromes
View Download 0.399 a.118.11 Cytochrome c oxidase subunit E
View Download 0.397 a.118.11 Cytochrome c oxidase subunit E
View Download 0.395 d.39.1 Dynein light chain 8 (DLC8)
View Download 0.390 a.118.11 Cytochrome c oxidase subunit E
View Download 0.388 a.74.1 Cyclin-like
View Download 0.383 a.74.1 Cyclin-like
View Download 0.381 a.118.1 ARM repeat
View Download 0.381 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.380 a.152.1 Antioxidant defence protein AhpD
View Download 0.380 a.118.8 TPR-like
View Download 0.380 d.109.1 Actin depolymerizing proteins
View Download 0.376 a.118.11 Cytochrome c oxidase subunit E
View Download 0.374 a.4.5 "Winged helix" DNA-binding domain
View Download 0.374 a.118.11 Cytochrome c oxidase subunit E
View Download 0.371 a.118.11 Cytochrome c oxidase subunit E
View Download 0.370 a.118.1 ARM repeat
View Download 0.367 d.79.1 YjgF-like
View Download 0.366 c.48.1 TK C-terminal domain-like
View Download 0.366 a.118.8 TPR-like
View Download 0.366 d.87.1 FAD/NAD-linked reductases, dimerisation (C-terminal) domain
View Download 0.364 a.74.1 Cyclin-like
View Download 0.360 a.118.8 TPR-like
View Download 0.358 a.60.9 lambda integrase-like, N-terminal domain
View Download 0.354 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.353 d.79.1 YjgF-like
View Download 0.353 a.74.1 Cyclin-like
View Download 0.346 a.74.1 Cyclin-like
View Download 0.344 d.79.1 YjgF-like
View Download 0.342 a.152.1 Antioxidant defence protein AhpD
View Download 0.341 c.121.1 Ribose/Galactose isomerase RpiB/AlsB
View Download 0.338 c.17.1 Caspase-like
View Download 0.335 c.50.1 Macro domain-like
View Download 0.334 a.79.1 Antitermination factor NusB
View Download 0.334 a.60.9 lambda integrase-like, N-terminal domain
View Download 0.329 a.118.13 Arp2/3 complex 16 kDa subunit ARPC5
View Download 0.325 a.118.11 Cytochrome c oxidase subunit E
View Download 0.324 a.118.1 ARM repeat
View Download 0.324 d.79.1 YjgF-like
View Download 0.323 a.118.11 Cytochrome c oxidase subunit E
View Download 0.322 d.109.1 Actin depolymerizing proteins
View Download 0.320 a.118.11 Cytochrome c oxidase subunit E
View Download 0.320 d.39.1 Dynein light chain 8 (DLC8)
View Download 0.319 d.109.1 Actin depolymerizing proteins
View Download 0.319 a.73.1 Retrovirus capsid protein, N-terminal core domain
View Download 0.318 c.17.1 Caspase-like
View Download 0.314 c.53.1 Resolvase-like
View Download 0.311 d.109.1 Actin depolymerizing proteins
View Download 0.310 a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.307 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.305 a.118.13 Arp2/3 complex 16 kDa subunit ARPC5
View Download 0.304 c.48.1 TK C-terminal domain-like
View Download 0.299 c.55.4 Translational machinery components
View Download 0.297 f.14.1 Voltage-gated potassium channels
View Download 0.295 d.79.1 YjgF-like
View Download 0.294 g.52.1 Inhibitor of apoptosis (IAP) repeat
View Download 0.294 d.109.1 Actin depolymerizing proteins
View Download 0.292 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.288 a.152.1 Antioxidant defence protein AhpD
View Download 0.288 a.118.8 TPR-like
View Download 0.288 d.58.7 RNA-binding domain, RBD
View Download 0.284 c.37.1 P-loop containing nucleoside triphosphate hydrolases
View Download 0.284 c.53.1 Resolvase-like
View Download 0.283 b.55.1 PH domain-like
View Download 0.282 a.118.1 ARM repeat
View Download 0.276 c.32.1 Tubulin/Dihydroxyacetone kinase nucleotide-binding domain
View Download 0.276 d.39.1 Dynein light chain 8 (DLC8)
View Download 0.274 c.2.1 NAD(P)-binding Rossmann-fold domains
View Download 0.273 a.56.1 CO dehydrogenase ISP C-domain like
View Download 0.269 a.118.8 TPR-like
View Download 0.269 a.118.11 Cytochrome c oxidase subunit E
View Download 0.266 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.266 a.74.1 Cyclin-like
View Download 0.262 d.58.33 Formylmethanofuran:tetrahydromethanopterin formyltransferase
View Download 0.261 a.118.1 ARM repeat
View Download 0.260 d.224.1 SufE-like
View Download 0.259 a.74.1 Cyclin-like
View Download 0.257 a.118.11 Cytochrome c oxidase subunit E
View Download 0.256 c.25.1 Ferredoxin reductase-like, C-terminal NADP-linked domain
View Download 0.256 a.118.8 TPR-like
View Download 0.255 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.255 a.118.8 TPR-like
View Download 0.254 a.74.1 Cyclin-like
View Download 0.253 a.73.1 Retrovirus capsid protein, N-terminal core domain
View Download 0.252 a.118.11 Cytochrome c oxidase subunit E
View Download 0.251 a.74.1 Cyclin-like
View Download 0.251 a.23.3 Methane monooxygenase hydrolase, gamma subunit
View Download 0.251 d.54.1 Enolase N-terminal domain-like
View Download 0.251 d.79.1 YjgF-like
View Download 0.251 d.224.1 SufE-like
View Download 0.249 d.187.1 Photosystem I subunit PsaD
View Download 0.249 c.53.1 Resolvase-like
View Download 0.248 c.30.1 PreATP-grasp domain
View Download 0.247 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.246 a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.246 c.53.1 Resolvase-like
View Download 0.246 a.40.1 Calponin-homology domain, CH-domain
View Download 0.246 d.224.1 SufE-like
View Download 0.244 a.40.1 Calponin-homology domain, CH-domain
View Download 0.242 a.74.1 Cyclin-like
View Download 0.241 d.109.1 Actin depolymerizing proteins
View Download 0.241 a.118.11 Cytochrome c oxidase subunit E
View Download 0.240 d.224.1 SufE-like
View Download 0.240 a.85.1 Hemocyanin, N-terminal domain
View Download 0.240 a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.240 d.68.6 DNA-binding protein Sso10b (AlbA)
View Download 0.239 d.224.1 SufE-like
View Download 0.239 a.152.1 Antioxidant defence protein AhpD
View Download 0.238 a.25.1 Ferritin-like
View Download 0.237 a.74.1 Cyclin-like
View Download 0.236 d.68.6 DNA-binding protein Sso10b (AlbA)
View Download 0.233 a.118.13 Arp2/3 complex 16 kDa subunit ARPC5
View Download 0.232 a.74.1 Cyclin-like
View Download 0.232 a.118.1 ARM repeat
View Download 0.231 c.53.1 Resolvase-like
View Download 0.231 a.118.13 Arp2/3 complex 16 kDa subunit ARPC5
View Download 0.230 a.74.1 Cyclin-like
View Download 0.230 d.203.1 DsrC, the gamma subunit of dissimilatory sulfite reductase
View Download 0.230 a.74.1 Cyclin-like
View Download 0.226 d.95.2 Homing endonucleases
View Download 0.225 a.118.11 Cytochrome c oxidase subunit E
View Download 0.224 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.224 a.118.9 ENTH/VHS domain
View Download 0.223 d.58.33 Formylmethanofuran:tetrahydromethanopterin formyltransferase
View Download 0.223 a.152.1 Antioxidant defence protein AhpD
View Download 0.222 a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.222 c.45.1 (Phosphotyrosine protein) phosphatases II
View Download 0.221 a.118.1 ARM repeat
View Download 0.221 c.37.1 P-loop containing nucleoside triphosphate hydrolases
View Download 0.220 a.74.1 Cyclin-like
View Download 0.220 a.24.10 Histidine-containing phosphotransfer domain, HPT domain
View Download 0.220 a.80.1 DNA polymerase III clamp loader subunits, C-terminal domain
View Download 0.220 a.118.1 ARM repeat
View Download 0.218 a.118.1 ARM repeat
View Download 0.218 a.118.13 Arp2/3 complex 16 kDa subunit ARPC5
View Download 0.217 a.45.1 Glutathione S-transferase (GST), C-terminal domain
View Download 0.214 d.21.1 Diaminopimelate epimerase-like
View Download 0.213 a.60.5 Barrier-to-autointegration factor, BAF
View Download 0.211 c.55.4 Translational machinery components
View Download 0.209 c.3.1 FAD/NAD(P)-binding domain
View Download 0.208 d.68.1 Translation initiation factor IF3, C-terminal domain
View Download 0.206 a.118.8 TPR-like
View Download 0.206 a.60.5 Barrier-to-autointegration factor, BAF
View Download 0.205 a.24.17 Group V grass pollen allergen
View Download 0.204 a.118.8 TPR-like
View Download 0.204 d.109.1 Actin depolymerizing proteins
View Download 0.202 a.1.1 Globin-like
View Download 0.201 a.61.1 Retroviral matrix proteins
View Download 0.201 d.224.1 SufE-like


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