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View Structure Prediction Details

Protein: YNR029C
Organism: Saccharomyces cerevisiae
Length: 429 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 YNR029C.

Description E-value Query
Range
Subject
Range
YN8H_YEAST - Uncharacterized protein YNR029C OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=YNR029C ...
YNR029C - Putative protein of unknown function, deletion confers reduced fitness in saline
0.0 [1..429] [1..429]
gi|11348350 - pir||D82953 conserved hypothetical protein PA5535 [imported] - Pseudomonas aeruginosa (strain PAO1)
gi|9951874, gi|1... - gi|9951874|gb|AAG08920.1|AE004966_2 conserved hypothetical protein [Pseudomonas aeruginosa PAO1], gi...
6.0E-95 [69..428] [3..373]
YCIC_BACSU - Putative metal chaperone YciC OS=Bacillus subtilis (strain 168) GN=yciC PE=2 SV=1
gi|221312473 - gi|221312473|ref|ZP_03594278.1| hypothetical protein BsubsN3_01886 [Bacillus subtilis subsp. subtili...
gi|221317406 - gi|221317406|ref|ZP_03598700.1| hypothetical protein BsubsJ_01873 [Bacillus subtilis subsp. subtilis...
YCIC_BACSU - Putative metal chaperone YciC OS=Bacillus subtilis GN=yciC PE=2 SV=1
gi|221321669 - gi|221321669|ref|ZP_03602963.1| hypothetical protein BsubsS_01904 [Bacillus subtilis subsp. subtilis...
9.0E-92 [68..428] [1..374]
gi|66392706, gi|... - gi|66392706|emb|CAG29811.1| nitrile hydratase activator P44k [Rhodococcus erythropolis], gi|23304614...
gi|10129794 - gi|10129794|emb|CAC08207.1| P44k protein [Rhodococcus sp. AJ270]
2.0E-91 [68..428] [3..370]
gi|15614353, gi|... - gi|15614353|ref|NP_242656.1| hypothetical protein BH1790 [Bacillus halodurans C-125], gi|10174408|db...
gi|25315926 - pir||F83873 hypothetical protein BH1790 [imported] - Bacillus halodurans (strain C-125)
2.0E-90 [70..428] [5..372]
gi|15160214, gi|... - gi|15891748|ref|NP_357420.1| hypothetical protein AGR_L_3257 [Agrobacterium tumefaciens str. C58], g...
gi|25315936 - pir||C98335 hypothetical protein AGR_L_3257 [imported] - Agrobacterium tumefaciens (strain C58, Cere...
3.0E-90 [67..428] [31..405]
gi|254698171 - gi|254698171|ref|ZP_05159999.1| cobalamin synthesis protein/P47K family protein [Brucella abortus bv...
gi|254731615 - gi|254731615|ref|ZP_05190193.1| cobalamin synthesis protein/P47K family protein [Brucella abortus bv...
gi|17988523, gi|... - gi|17988523|ref|NP_541156.1| zinc transporter [Brucella melitensis 16M], gi|17984316|gb|AAL53420.1| ...
gi|83269917 - gi|83269917|ref|YP_419208.1| cobalamin synthesis protein P47K [Brucella melitensis biovar Abortus 23...
gi|237787320, gi... - gi|237817485|ref|ZP_04596476.1| cobalamin synthesis protein/P47K family protein [Brucella abortus st...
gi|254691630 - gi|254691630|ref|ZP_05154884.1| cobalamin synthesis protein/P47K family protein [Brucella abortus bv...
gi|82940191 - gi|82940191|emb|CAJ13244.1| ATP/GTP-binding site motif A (P-loop):Cobalamin synthesis protein/P47K [...
gi|25315940 - pir||AI3531 low affinity zinc transport membrane protein [imported] - Brucella melitensis (strain 16...
gi|62317940, gi|... - gi|62317940|ref|YP_223793.1| cobalamin synthesis protein/P47K family protein [Brucella abortus bv. 1...
gi|189021765, gi... - gi|189023191|ref|YP_001932932.1| Cobalamin synthesis protein/P47K [Brucella abortus S19], gi|1890217...
gi|225686867, gi... - gi|225686867|ref|YP_002734839.1| cobalamin synthesis protein/P47K family protein [Brucella melitensi...
5.0E-88 [69..428] [3..375]
gi|15923440, gi|... - gi|15923440|ref|NP_370974.1| putative cobalamin synthesis protein [Staphylococcus aureus subsp. aure...
gi|15926128, gi|... - gi|15926128|ref|NP_373661.1| hypothetical protein SA0410 [Staphylococcus aureus subsp. aureus N315],...
gi|25315934 - pir||D89810 conserved hypothetical protein SA0410 [imported] - Staphylococcus aureus (strain N315)
gi|149945407, gi... - gi|90583968|ref|ZP_01239716.1| Cobalamin synthesis protein/P47K:Cobalamin synthesis CobW, C-terminal...
gi|148266910, gi... - gi|90586519|ref|ZP_01242214.1| Cobalamin synthesis protein/P47K:Cobalamin synthesis CobW, C-terminal...
gi|253315050 - gi|253315050|ref|ZP_04838263.1| hypothetical protein SauraC_02538 [Staphylococcus aureus subsp. aure...
gi|255005246 - gi|255005246|ref|ZP_05143847.2| hypothetical protein SauraM_02225 [Staphylococcus aureus subsp. aure...
gi|156978779, gi... - gi|156978779|ref|YP_001441038.1| hypothetical protein SAHV_0448 [Staphylococcus aureus subsp. aureus...
gi|269202071|ref... - cobalamin synthesis protein, putative [Staphylococcus aureus subsp. aureus ED98]
6.0E-87 [68..428] [1..375]
gi|216854|dbj|BA... - unnamed protein product [Pseudomonas chlororaphis]
P47K_PSECL - 47 kDa protein OS=Pseudomonas chlororaphis PE=3 SV=1
6.0E-86 [64..428] [3..379]

Back

Predicted Domain #1
Region A:
Residues: [1-65]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSALRNIKFN EEEDGELPCL VTGEENNLQE ILENVSYDGG NIVSDAKVER VNKQVENTSA  60
   61 GATDV

[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 0.511 c.47.1 Thioredoxin-like
View Download 0.342 b.84.2 Rudiment single hybrid motif
View Download 0.304 a.60.2 RuvA domain 2-like
View Download 0.267 a.55.1 IHF-like DNA-binding proteins
View Download 0.253 a.60.2 RuvA domain 2-like
View Download 0.252 a.60.3 C-terminal domain of RNA polymerase alpha subunit
View Download 0.248 a.4.1 Homeodomain-like
View Download 0.246 c.55.7 Methylated DNA-protein cysteine methyltransferase domain
View Download 0.236 a.101.1 Uteroglobin-like
View Download 0.232 a.77.1 DEATH domain
View Download 0.231 a.4.5 "Winged helix" DNA-binding domain
View Download 0.225 a.55.1 IHF-like DNA-binding proteins
View Download 0.223 d.129.1 TATA-box binding protein-like
View Download 0.211 a.4.5 "Winged helix" DNA-binding domain

Predicted functions:

Term Confidence Notes
binding 1.41264401383678 bayes_pls_golite062009
catalytic activity 1.00104173493322 bayes_pls_golite062009
nucleic acid binding 0.736973987187739 bayes_pls_golite062009
RNA helicase activity 0.39531421511441 bayes_pls_golite062009
RNA-dependent ATPase activity 0.249558209438385 bayes_pls_golite062009
ATP-dependent RNA helicase activity 0.231952192863482 bayes_pls_golite062009
DNA binding 0.156173690421144 bayes_pls_golite062009
nucleotide binding 0.114848452385726 bayes_pls_golite062009
purine nucleotide binding 0.10713474095071 bayes_pls_golite062009
purine ribonucleotide binding 0.0916519414118148 bayes_pls_golite062009
ribonucleotide binding 0.0915913646217636 bayes_pls_golite062009

Predicted Domain #2
Region A:
Residues: [66-315]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 HEKKRIPVSI ITGYLGSGKS TLLEKIALKG ADKKIAVILN EFGDSSEIEK AMTIKNGSNS  60
   61 YQEWLDLGNG CLCCSLKNIG VKAIEDMVER SPGKIDYILL ETSGIADPAP IAKMFWQDEG 120
  121 LNSSVYIDGI ITVLDCEHIL KCLDDISIDA HWHGDKVGLE GNLTIAHFQL AMADRIIMNK 180
  181 YDTIEHSPEM VKQLKERVRE INSIAPMFFT KYSDTPIQNL LDIHAYDSVR ISDILDSGSG 240
  241 NGTIHDDRMG 

[Run NCBI BLAST on this sequence.]

Detection Method: PSI-BLAST
Confidence: 2.09691
Match: 2ffhA_
Description: Signal sequence recognition protein Ffh; Signal sequence binding protein Ffh; GTPase domain of the signal sequence recognition protein Ffh
Matching Structure (courtesy of the PDB):

Predicted Domain #3
Region A:
Residues: [316-429]
      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TIMLTFRPLK NEEEYNNKFI KQFLQPLLWK NFGAMTVLGG RRRDDGRDWE VQRTKGLILI  60
   61 EGENPIARVI QGVRDTYDVF PGKYDGSNKE CKIVLIGKYL EKESIEELLR KTLE

[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 0.444 0.589 cytoplasm b.40.4 Nucleic acid-binding proteins
View Download 0.323 0.129 cytoplasm a.118.8 TPR-like
View Download 0.324 0.093 cytoplasm d.110.4 SNARE-like
View Download 0.336 0.000 cytoplasm a.81.1 N-terminal domain of DnaB helicase
View Download 0.336 N/A N/A c.25.1 Ferredoxin reductase-like, C-terminal NADP-linked domain
View Download 0.318 N/A N/A a.1.1 Globin-like
View Download 0.317 N/A N/A d.130.1 S-adenosylmethionine synthetase
View Download 0.294 N/A N/A d.58.44 Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
View Download 0.291 N/A N/A c.58.1 Aminoacid dehydrogenase-like, N-terminal domain
View Download 0.290 N/A N/A a.4.5 "Winged helix" DNA-binding domain
View Download 0.280 N/A N/A c.95.1 Thiolase-like
View Download 0.270 N/A N/A a.1.1 Globin-like
View Download 0.267 N/A N/A a.76.1 Iron-dependent represor protein, dimerization domain
View Download 0.266 N/A N/A a.24.17 Group V grass pollen allergen
View Download 0.243 N/A N/A c.37.1 P-loop containing nucleoside triphosphate hydrolases
View Download 0.241 N/A N/A d.118.1 N-acetylmuramoyl-L-alanine amidase-like
View Download 0.238 N/A N/A d.94.2 Putative transcriptional regulator TM1602, C-terminal domain
View Download 0.234 N/A N/A d.129.4 Cell-division protein ZipA, C-terminal domain
View Download 0.222 N/A N/A d.68.6 DNA-binding protein Sso10b (AlbA)
View Download 0.220 N/A N/A a.60.10 Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain
View Download 0.210 N/A N/A d.112.1 Phoshotransferase/anion transport protein
View Download 0.201 N/A N/A a.74.1 Cyclin-like


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