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View Structure Prediction Details

Protein: PIM1
Organism: Saccharomyces cerevisiae
Length: 1133 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 PIM1.

Description E-value Query
Range
Subject
Range
LONM_YEAST - Lon protease homolog, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PIM1...
PIM1 - ATP-dependent Lon protease, involved in degradation of misfolded proteins in mitochondria; required ...
0.0 [1..1133] [1..1133]
lon1 - Lon protease homolog Lon1
LONM_SCHPO - Lon protease homolog, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pim1 P...
0.0 [91..1125] [69..1056]
gi|14719366 - gi|14719366|gb|AAK73158.1| lon proteinase [Paracoccidioides brasiliensis]
0.0 [90..1124] [53..1055]
LONM_RAT - Lon protease homolog, mitochondrial OS=Rattus norvegicus GN=Lonp1 PE=2 SV=1
0.0 [142..1118] [71..948]
gi|126193574, gi... - gi|254240196|ref|ZP_04933518.1| Lon protease [Pseudomonas aeruginosa 2192], gi|194551181|ref|YP_0020...
gi|126166828, gi... - gi|254234897|ref|ZP_04928220.1| Lon protease [Pseudomonas aeruginosa C3719], gi|194545882|ref|YP_002...
gi|218772469, gi... - gi|218892243|ref|YP_002441110.1| Lon protease [Pseudomonas aeruginosa LESB58], gi|218772469|emb|CAW2...
gi|15597000, gi|... - gi|9947786|gb|AAG05192.1|AE004606_6 Lon protease [Pseudomonas aeruginosa PAO1], gi|15597000|ref|NP_2...
gi|11350562 - pir||G83420 Lon proteinase PA1803 [imported] - Pseudomonas aeruginosa (strain PAO1)
0.0 [261..1113] [6..772]
gi|146644 - gi|146644|gb|AAA24079.1| ATP-dependent proteinase (lon) [Escherichia coli]
0.0 [261..1112] [10..776]
LON_RHIME - ATP-dependent protease La OS=Rhizobium meliloti GN=lon PE=3 SV=2
LON_RHIME - Lon protease OS=Rhizobium meliloti (strain 1021) GN=lon PE=3 SV=2
0.0 [261..1113] [13..779]
gi|70731344, gi|... - gi|70731344|ref|YP_261085.1| ATP-dependent protease La [Pseudomonas fluorescens Pf-5], gi|68345643|g...
gi|7644385 - gi|7644385|gb|AAF65564.1|AF250140_1 protease Lon [Pseudomonas fluorescens]
0.0 [261..1113] [6..772]
gi|58037564, gi|... - gi|58037564|ref|NP_083058.1| protease, serine, 15 [Mus musculus], gi|12836291|dbj|BAB23591.1| unname...
0.0 [142..1118] [71..947]

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Predicted Domain #1
Region A:
Residues: [1-155]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLRTRTTKTL STVARTTRAI QYYRSIAKTA AVSQRRFAST LTVRDVENIK PSHIIKSPTW  60
   61 QEFQHQLKDP RYMEHFAQLD AQFARHFMAT NSGKSILAKD DSTSQKKDED VKIVPDEKDT 120
  121 DNDVEPTRDD EIVNKDQEGE ASKNSRSSAS GGGQS

[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.

Found no structure predictions for this domain.

Predicted Domain #2
Region A:
Residues: [156-387]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SSSRSDSGDG SSKQKPPKDV PEVYPQMLAL PIARRPLFPG FYKAVVISDE RVMKAIKEML  60
   61 DRQQPYIGAF MLKNSEEDTD VITDKNDVYD VGVLAQITSA FPSKDEKTGT ETMTALLYPH 120
  121 RRIKIDELFP PNEEKEKSKE QAKDTDTETT VVEDANNPED QESTSPATPK LEDIVVERIP 180
  181 DSELQHHKRV EATEEESEEL DDIQEGEDIN PTEFLKNYNV SLVNVLNLED EP

[Run NCBI BLAST on this sequence.]

Detection Method: Pfam
Confidence: 71.744727
Match: PF02190
Description: ATP-dependent protease La (LON) domain

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 functions:

Term Confidence Notes
binding 1.20426875618254 bayes_pls_golite062009
protein binding 0.594610587848879 bayes_pls_golite062009
ubiquitin-protein ligase activity 0.533622874557729 bayes_pls_golite062009
small conjugating protein ligase activity 0.505301584684092 bayes_pls_golite062009
catalytic activity 0.174240748624544 bayes_pls_golite062009

Predicted Domain #3
Region A:
Residues: [388-449]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FDRKSPVINA LTSEILKVFK EISQLNTMFR EQIATFSASI QSATTNIFEE PARLADFAAA  60
   61 VS

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 7.54
Match: 1jqjC
Description: delta subunit; delta subunit of DNA polymerase III, N-domain
Matching Structure (courtesy of the PDB):

Predicted Domain #4
Region A:
Residues: [450-581]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AGEEDELQDI LSSLNIEHRL EKSLLVLKKE LMNAELQNKI SKDVETKIQK RQREYYLMEQ  60
   61 LKGIKRELGI DDGRDKLIDT YKERIKSLKL PDSVQKIFDD EITKLSTLET SMSEFGVIRN 120
  121 YLDWLTSIPW GK

[Run NCBI BLAST on this sequence.]

Detection Method: ORFEUS
Confidence: 7.54
Match: 1jqjC
Description: delta subunit; delta subunit of DNA polymerase III, N-domain
Matching Structure (courtesy of the PDB):

Predicted Domain #5
Region A:
Residues: [582-768]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HSKEQYSIPR AKKILDEDHY GMVDVKDRIL EFIAVGKLLG KVDGKIICFV GPPGVGKTSI  60
   61 GKSIARALNR KFFRFSVGGM TDVAEIKGHR RTYIGALPGR VVQALKKCQT QNPLILIDEI 120
  121 DKIGHGGIHG DPSAALLEVL DPEQNNSFLD NYLDIPIDLS KVLFVCTANS LETIPRPLLD 180
  181 RMEVIEL

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 62.221849
Match: 1e32A_
Description: Membrane fusion atpase p97 N-terminal domain , P97-Nn; Membrane fusion atpase p97, D1 domain; Membrane fusion atpase p97 domain 2, P97-Nc
Matching Structure (courtesy of the PDB):

Predicted functions:

Term Confidence Notes
ribonuclease activity 2.03745175432755 bayes_pls_golite062009
nuclease activity 1.83032641679211 bayes_pls_golite062009
structural constituent of ribosome 1.38482286547386 bayes_pls_golite062009
hydrolase activity 1.18773479836745 bayes_pls_golite062009
3'-5'-exoribonuclease activity 1.16726450662143 bayes_pls_golite062009
exoribonuclease activity 1.1604717842042 bayes_pls_golite062009
structural molecule activity 1.14918348313691 bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters 1.13566902804592 bayes_pls_golite062009
ATP-dependent peptidase activity 0.99253423929971 bayes_pls_golite062009
binding 0.923114523007774 bayes_pls_golite062009
catalytic activity 0.878454819018611 bayes_pls_golite062009
peptidase activity 0.46678532223973 bayes_pls_golite062009
protein binding 0.398523921130957 bayes_pls_golite062009
endopeptidase activity 0.227419965943609 bayes_pls_golite062009
peptidase activity, acting on L-amino acid peptides 0.161393552073973 bayes_pls_golite062009
hydrolase activity, acting on ester bonds 0.0709817198603016 bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups 6.9430052008157E-5 bayes_pls_golite062009

Predicted Domain #6
Region A:
Residues: [769-890]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TGYVAEDKVK IAEQYLVPSA KKSAGLENSH VDMTEDAITA LMKYYCRESG VRNLKKHIEK  60
   61 IYRKAALQVV KKLSIEDSPT SSADSKPKES VSSEEKAENN AKSSSEKTKD NNSEKTSDDI 120
  121 EA

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 62.221849
Match: 1e32A_
Description: Membrane fusion atpase p97 N-terminal domain , P97-Nn; Membrane fusion atpase p97, D1 domain; Membrane fusion atpase p97 domain 2, P97-Nc
Matching Structure (courtesy of the PDB):

Predicted Domain #7
Region A:
Residues: [891-988]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LKTSEKINVS ISQKNLKDYV GPPVYTTDRL YETTPPGVVM GLAWTNMGGC SLYVESVLEQ  60
   61 PLHNCKHPTF ERTGQLGDVM KESSRLAYSF AKMYLAQK

[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.

    MCM
Score
GO
Score
GO
Term
SCOP
Match
SCOP Description
View Download 0.705 0.049 response to heat d.129.1 TATA-box binding protein-like
View Download 0.865 N/A N/A d.50.2 Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain
View Download 0.849 N/A N/A c.51.2 TolB, N-terminal domain
View Download 0.607 N/A N/A d.105.1 Clathrin adaptor appendage, alpha and beta chain-specific domain
View Download 0.585 N/A N/A d.16.1 FAD-linked reductases, C-terminal domain
View Download 0.583 N/A N/A d.56.1 GroEL-intermediate domain like
View Download 0.576 N/A N/A c.47.2 RNA 3'-terminal phosphate cyclase, RPTC, insert domain
View Download 0.556 N/A N/A d.129.2 Phosphoglucomutase, C-terminal domain
View Download 0.555 N/A N/A d.108.1 Acyl-CoA N-acyltransferases (Nat)
View Download 0.554 N/A N/A d.108.1 Acyl-CoA N-acyltransferases (Nat)
View Download 0.547 N/A N/A b.11.1 gamma-Crystallin-like
View Download 0.541 N/A N/A d.204.1 Ribosome binding protein Y (YfiA homologue)
View Download 0.538 N/A N/A d.202.1 Transcription factor NusA, N-terminal domain
View Download 0.536 N/A N/A d.50.1 dsRNA-binding domain-like
View Download 0.535 N/A N/A d.93.1 SH2 domain
View Download 0.484 N/A N/A d.52.3 Prokaryotic type KH domain (KH-domain type II)
View Download 0.451 N/A N/A b.55.1 PH domain-like
View Download 0.446 N/A N/A b.1.1 Immunoglobulin
View Download 0.436 N/A N/A b.1.12 Purple acid phosphatase, N-terminal domain
View Download 0.431 N/A N/A d.58.4 Dimeric alpha+beta barrel
View Download 0.423 N/A N/A b.97.1 Anemone pore-forming cytolysin
View Download 0.413 N/A N/A d.81.1 Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain
View Download 0.399 N/A N/A c.51.3 B12-dependend dehydatases associated subunit
View Download 0.394 N/A N/A d.17.2 Copper amine oxidase, domains 1 and 2
View Download 0.381 N/A N/A c.23.12 Formate/glycerate dehydrogenase catalytic domain-like
View Download 0.379 N/A N/A d.52.5 Probable GTPase Der, C-terminal domain
View Download 0.371 N/A N/A b.43.4 Riboflavin synthase domain-like
View Download 0.368 N/A N/A b.55.1 PH domain-like
View Download 0.366 N/A N/A d.57.1 DNA damage-inducible protein DinI
View Download 0.360 N/A N/A d.134.1 Sulfite reductase hemoprotein (SiRHP), domains 2 and 4
View Download 0.350 N/A N/A b.61.3 D-aminopeptidase, middle and C-terminal domains
View Download 0.343 N/A N/A a.83.1 Guanido kinase N-terminal domain
View Download 0.328 N/A N/A d.58.19 Bacterial exopeptidase dimerisation domain
View Download 0.325 N/A N/A d.41.2 Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), N-terminal domain
View Download 0.309 N/A N/A d.199.1 DNA-binding C-terminal domain of the transcription factor MotA
View Download 0.308 N/A N/A d.175.1 Penicillin binding protein dimerisation domain
View Download 0.304 N/A N/A c.52.1 Restriction endonuclease-like
View Download 0.304 N/A N/A d.1.1 Microbial ribonucleases
View Download 0.304 N/A N/A d.54.1 Enolase N-terminal domain-like
View Download 0.293 N/A N/A d.110.1 Profilin (actin-binding protein)
View Download 0.293 N/A N/A b.55.1 PH domain-like
View Download 0.290 N/A N/A a.60.5 Barrier-to-autointegration factor, BAF
View Download 0.281 N/A N/A d.198.1 Type III secretory system chaperone
View Download 0.273 N/A N/A d.52.6 BolA-like
View Download 0.258 N/A N/A d.14.1 Ribosomal protein S5 domain 2-like
View Download 0.257 N/A N/A c.51.1 Anticodon-binding domain of Class II aaRS
View Download 0.257 N/A N/A b.61.1 Avidin/streptavidin
View Download 0.252 N/A N/A a.26.1 4-helical cytokines
View Download 0.247 N/A N/A d.52.4 YhbC-like, N-terminal domain
View Download 0.246 N/A N/A c.20.1 Initiation factor IF2/eIF5b, domain 3
View Download 0.241 N/A N/A b.52.2 ADC-like
View Download 0.233 N/A N/A d.17.4 NTF2-like
View Download 0.232 N/A N/A d.9.2 Description not found.
View Download 0.228 N/A N/A c.49.1 Pyruvate kinase, C-terminal domain
View Download 0.225 N/A N/A b.4.1 HSP40/DnaJ peptide-binding domain
View Download 0.221 N/A N/A a.60.1 SAM/Pointed domain
View Download 0.221 N/A N/A d.233.1 Inhibitor of vertebrate lysozyme, Ivy
View Download 0.220 N/A N/A d.82.2 Frataxin-like
View Download 0.218 N/A N/A b.55.1 PH domain-like
View Download 0.216 N/A N/A b.7.1 C2 domain (Calcium/lipid-binding domain, CaLB)
View Download 0.208 N/A N/A d.51.1 Eukaryotic type KH-domain (KH-domain type I)

Predicted Domain #8
Region A:
Residues: [989-1133]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FPENRFFEKA SIHLHCPEGA TPKDGPSAGV TMATSFLSLA LNKSIDPTVA MTGELTLTGK  60
   61 VLRIGGLREK AVAAKRSGAK TIIFPKDNLN DWEELPDNVK EGLEPLAADW YNDIFQKLFK 120
  121 DVNTKEGNSV WKAEFEILDA KKEKD

[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.

    MCM
Score
GO
Score
GO
Term
SCOP
Match
SCOP Description
View Download 0.763 0.539 response to heat c.2.1 NAD(P)-binding Rossmann-fold domains
View Download 0.766 0.099 response to heat c.26.1 Nucleotidylyl transferase
View Download 0.765 0.066 response to heat c.23.1 CheY-like
View Download 0.727 N/A N/A c.55.5 MTH1175-like
View Download 0.552 N/A N/A d.134.1 Sulfite reductase hemoprotein (SiRHP), domains 2 and 4
View Download 0.534 N/A N/A c.30.1 PreATP-grasp domain
View Download 0.523 N/A N/A c.47.1 Thioredoxin-like
View Download 0.516 N/A N/A c.23.1 CheY-like
View Download 0.514 N/A N/A d.58.39 Glutamyl tRNA-reductase catalytic, N-terminal domain
View Download 0.507 N/A N/A c.26.2 Adenine nucleotide alpha hydrolases-like
View Download 0.470 N/A N/A c.98.2 HPr kinase/phoshatase HprK N-terminal domain
View Download 0.462 N/A N/A c.13.2 Anti-sigma factor antagonist SpoIIaa
View Download 0.447 N/A N/A c.23.12 Formate/glycerate dehydrogenase catalytic domain-like
View Download 0.446 N/A N/A c.23.6 Cobalamin (vitamin B12)-binding domain
View Download 0.445 N/A N/A c.53.1 Resolvase-like
View Download 0.444 N/A N/A d.131.1 DNA clamp
View Download 0.442 N/A N/A c.1.17 Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain
View Download 0.441 N/A N/A c.44.2 Enzyme IIB-cellobiose
View Download 0.431 N/A N/A c.2.1 NAD(P)-binding Rossmann-fold domains
View Download 0.430 N/A N/A d.202.1 Transcription factor NusA, N-terminal domain
View Download 0.426 N/A N/A a.118.8 TPR-like
View Download 0.426 N/A N/A c.23.3 Hypothetical protein MTH538
View Download 0.424 N/A N/A c.3.1 FAD/NAD(P)-binding domain
View Download 0.420 N/A N/A c.25.1 Ferredoxin reductase-like, C-terminal NADP-linked domain
View Download 0.411 N/A N/A c.23.14 Nucleoside 2-deoxyribosyltransferase
View Download 0.411 N/A N/A c.52.1 Restriction endonuclease-like
View Download 0.407 N/A N/A c.23.13 Type II 3-dehydroquinate dehydratase
View Download 0.407 N/A N/A c.25.1 Ferredoxin reductase-like, C-terminal NADP-linked domain
View Download 0.406 N/A N/A c.2.1 NAD(P)-binding Rossmann-fold domains
View Download 0.392 N/A N/A c.59.1 MurD-like peptide ligases, peptide-binding domain
View Download 0.391 N/A N/A c.49.1 Pyruvate kinase, C-terminal domain
View Download 0.386 N/A N/A c.97.1 Cytidine deaminase-like
View Download 0.386 N/A N/A d.110.4 SNARE-like
View Download 0.385 N/A N/A d.44.1 Fe,Mn superoxide dismutase (SOD), C-terminal domain
View Download 0.377 N/A N/A d.122.1 ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
View Download 0.374 N/A N/A d.58.26 GHMP Kinase, C-terminal domain
View Download 0.374 N/A N/A c.78.2 Aspartate/glutamate racemase
View Download 0.366 N/A N/A c.2.1 NAD(P)-binding Rossmann-fold domains
View Download 0.357 N/A N/A c.95.1 Thiolase-like
View Download 0.356 N/A N/A c.61.1 PRTase-like
View Download 0.354 N/A N/A c.2.1 NAD(P)-binding Rossmann-fold domains
View Download 0.352 N/A N/A c.95.1 Thiolase-like
View Download 0.341 N/A N/A c.84.1 Phosphoglucomutase, first 3 domains
View Download 0.338 N/A N/A c.30.1 PreATP-grasp domain
View Download 0.338 N/A N/A c.54.1 IIA domain of mannose transporter, IIA-Man
View Download 0.329 N/A N/A c.37.1 P-loop containing nucleoside triphosphate hydrolases
View Download 0.328 N/A N/A c.66.1 S-adenosyl-L-methionine-dependent methyltransferases
View Download 0.326 N/A N/A c.48.1 TK C-terminal domain-like
View Download 0.325 N/A N/A d.79.3 L30e-like
View Download 0.324 N/A N/A c.48.1 TK C-terminal domain-like
View Download 0.320 N/A N/A c.59.1 MurD-like peptide ligases, peptide-binding domain
View Download 0.306 N/A N/A c.24.1 Methylglyoxal synthase-like
View Download 0.295 N/A N/A c.37.1 P-loop containing nucleoside triphosphate hydrolases
View Download 0.293 N/A N/A c.23.16 Class I glutamine amidotransferase-like
View Download 0.289 N/A N/A c.3.1 FAD/NAD(P)-binding domain
View Download 0.279 N/A N/A c.23.6 Cobalamin (vitamin B12)-binding domain
View Download 0.274 N/A N/A d.189.1 PX domain
View Download 0.272 N/A N/A d.79.1 YjgF-like
View Download 0.271 N/A N/A c.98.1 MurE/MurF N-terminal domain
View Download 0.260 N/A N/A d.79.3 L30e-like
View Download 0.260 N/A N/A c.23.1 CheY-like
View Download 0.258 N/A N/A c.1.10 Aldolase
View Download 0.253 N/A N/A c.108.1 HAD-like
View Download 0.251 N/A N/A c.2.1 NAD(P)-binding Rossmann-fold domains
View Download 0.238 N/A N/A c.2.1 NAD(P)-binding Rossmann-fold domains
View Download 0.232 N/A N/A c.23.9 Cutinase-like
View Download 0.224 N/A N/A d.93.1 SH2 domain
View Download 0.222 N/A N/A d.79.1 YjgF-like
View Download 0.221 N/A N/A c.23.1 CheY-like
View Download 0.216 N/A N/A d.109.1 Actin depolymerizing proteins
View Download 0.215 N/A N/A c.51.1 Anticodon-binding domain of Class II aaRS
View Download 0.208 N/A N/A c.51.1 Anticodon-binding domain of Class II aaRS
View Download 0.208 N/A N/A c.2.1 NAD(P)-binding Rossmann-fold domains


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