YRC Public Data Repository - Protein Structure Prediction

Protein:	CSE4
Organism:	Saccharomyces cerevisiae
Length:	229 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

[What does the above image mean?]

[Show Ginzu Version Information]

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 CSE4.

Description	E-value	Query Range	Subject Range
gi\|30156584 - gi\|30156584\|ref\|XP_293312.2\| PREDICTED: similar to H3 histone, family 3B [Homo sapiens]	8.0E-56	[90..229]	[128..264]
gi\|34858260 - gi\|34858260\|ref\|XP_227461.2\| PREDICTED: similar to histone protein Hist2h3c1 [Rattus norvegicus]	8.0E-55	[86..228]	[50..189]
gi\|148706930, gi... - gi\|62739244\|gb\|AAH94041.1\| Histone cluster 2, H3c1 [Mus musculus], gi\|30061401\|ref\|NP_835734.1\| hist...	2.0E-53	[90..228]	[45..180]
CENPA_YEAST - Histone H3-like centromeric protein CSE4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN... gi\|151941497 - gi\|151941497\|gb\|EDN59860.1\| chromosome segregation-related protein [Saccharomyces cerevisiae YJM789] gi\|190409778 - gi\|190409778\|gb\|EDV13043.1\| chromatin-associated protein CSE4 [Saccharomyces cerevisiae RM11-1a] gi\|207343496 - gi\|207343496\|gb\|EDZ70941.1\| YKL049Cp-like protein [Saccharomyces cerevisiae AWRI1631] CSE4 - Centromere protein that resembles histone H3, required for proper kinetochore function; homolog of h...	3.0E-52	[1..229]	[1..229]
gi\|47085683, gi\|... - gi\|47085683\|ref\|NP_998161.1\| H3 histone, family 3A [Danio rerio], gi\|28277907\|gb\|AAH45982.1\| H3 hist...	5.0E-52	[91..228]	[1..135]
gi\|255581420, gi... - gi\|255581420\|ref\|XP_002531518.1\| histone h3, putative [Ricinus communis], gi\|255545798\|ref\|XP_002513... gi\|357110657\|ref... - PREDICTED: histone H3.3-like isoform 2 [Brachypodium distachyon], PREDICTED: histone H3.3-like isofo... gi\|224814382 - gi\|224814382\|gb\|ACN65412.1\| histone 3.2 [Pteris vittata] gi\|92870265, gi\|... - gi\|92880830\|gb\|ABE85854.1\| Histone core [Medicago truncatula], gi\|92873912\|gb\|ABE82253.1\| Histone H3... gi\|224097140, gi... - gi\|224097140\|ref\|XP_002310848.1\| histone H3 [Populus trichocarpa], gi\|224093720\|ref\|XP_002309961.1\| ... gi\|116779721, gi... - gi\|224286639\|gb\|ACN41024.1\| unknown [Picea sitchensis], gi\|224284828\|gb\|ACN40144.1\| unknown [Picea s... gi\|118489220 - gi\|118489220\|gb\|ABK96416.1\| unknown [Populus trichocarpa x Populus deltoides] gi\|192910840, gi... - gi\|192910874\|gb\|ACF06545.1\| histone H3 [Elaeis guineensis], gi\|192910840\|gb\|ACF06528.1\| histone H3 [... gi\|212721898, gi... - gi\|238013324\|gb\|ACR37697.1\| unknown [Zea mays], gi\|212721898\|ref\|NP_001131417.1\| hypothetical protei... gi\|106879571 - gi\|106879571\|emb\|CAJ38369.1\| histin H3 [Plantago major] gi\|167998945, gi... - gi\|167999225\|ref\|XP_001752318.1\| histone H3 [Physcomitrella patens subsp. patens], gi\|167999057\|ref\|... H33_CAPAN - Histone H3.3 OS=Capsicum annuum PE=2 SV=3 H33_MEDSA - Histone H3.3 OS=Medicago sativa PE=1 SV=2 gi\|1435157, gi\|1... - gi\|151413347\|gb\|ABS11142.1\| histone H3 [Solanum lycopersicum], gi\|1435157\|emb\|CAA58445.1\| histone H3... H33_GOSHI - Histone H3.3 OS=Gossypium hirsutum GN=HIS3 PE=2 SV=3 H33_ORYCO - Histone H3.3 OS=Oryza coarctata PE=2 SV=3 H33_PINPS - Histone H3.3 OS=Pinus pinaster PE=2 SV=3 H33_LOLTE - Histone H3.3 OS=Lolium temulentum PE=2 SV=2 H33_ARATH - Histone H3.3 OS=Arabidopsis thaliana GN=HTR4 PE=1 SV=2 H33_VITVI - Histone H3.3 OS=Vitis vinifera PE=2 SV=3 H33_ORYSJ - Histone H3.3 OS=Oryza sativa subsp. japonica GN=H3 PE=1 SV=2 PGSC0003DMP40005... - PGSC0003DMT400009656, PGSC0003DMT400041662, PGSC0003DMT400043254, PGSC0003DMT400079216 gi\|115394199 - gi\|115394199\|gb\|ABI97039.1\| histone H3 [Robinia pseudoacacia] H33_ORYSA - Histone H3.3 (H3.2) - Oryza sativa (Rice) H33_ORYSI - Histone H3.3 OS=Oryza sativa subsp. indica GN=OsI_011536 PE=3 SV=1 gi\|144953503 - gi\|144953503\|gb\|ABP04114.1\| histone 3 [Lemna minor] gi\|62642117 - gi\|62642117\|gb\|AAX92697.1\| histone 3 [Picea abies] H33_LOLMU - Histone H3.3 OS=Lolium multiflorum GN=RH3 PE=2 SV=3 gi\|72398499, gi\|... - gi\|72398501\|gb\|AAZ72656.1\| histone H3.2 [Craterostigma plantagineum], gi\|72398499\|gb\|AAZ72655.1\| his... H33_TOBAC - Histone H3.3 OS=Nicotiana tabacum GN=H3 PE=1 SV=1 mgf001690m, mgf0... - null, null, null, null gi\|241915979, gi... - gi\|242094532\|ref\|XP_002437756.1\| hypothetical protein SORBIDRAFT_10g002040 [Sorghum bicolor], gi\|242... gi\|255625589 - gi\|255625589\|gb\|ACU13139.1\| unknown [Glycine max]	8.0E-52	[91..228]	[1..135]
gi\|18698662 - gi\|18698662\|gb\|AAL78367.1\|AF467728_1 disease-resistent-related protein [Oryza sativa]	1.0E-51	[91..228]	[1..135]
H3C_CAIMO - Histone H3.3C OS=Cairina moschata GN=H3F3C PE=3 SV=2 gi\|224869 - gi\|224869\|prf\|\|1202296A histone H3.4	2.0E-51	[91..228]	[1..135]
gi\|156210495, gi... - gi\|156356095\|ref\|XP_001623766.1\| predicted protein [Nematostella vectensis], gi\|156210495\|gb\|EDO3166... gi\|190584176, gi... - gi\|196007812\|ref\|XP_002113772.1\| replacement histone H3.3 [Trichoplax adhaerens], gi\|190584176\|gb\|ED... gi\|221130419 - gi\|221130419\|ref\|XP_002154470.1\| PREDICTED: similar to Histone H3.3B CG8989-PA [Hydra magnipapillata... gi\|118776378 - gi\|118776378\|gb\|ABL14206.1\| histone H3.3-like protein protein [Trichinella spiralis] H33_TRIPS - Histone H3.3 OS=Trichinella pseudospiralis GN=HHT3 PE=2 SV=3	2.0E-51	[91..228]	[1..135]

Back

Predicted Domain #1

Region A:
Residues: [1-80]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSSKQQWVSS AIQSDSSGRS LSNVNRLAGD QQSINDRALS LLQRTRATKN LFPRREERRR  60
   61 YESSKSDLDI ETDYEDQAGN

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [81-229]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LEIETENEEE AEMETEVPAP VRTHSYALDR YVRQKRREKQ RKQSLKRVEK KYTPSELALY  60
   61 EIRKYQRSTD LLISKIPFAR LVKEVTDEFT TKDQDLRWQS MAIMALQEAS EAYLVGLLEH 120
  121 TNLLALHAKR ITIMKKDMQL ARRIRGQFI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	51.522879
Match:	1eqzG_
Description:	Histone H3
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
binding	3.12722734218139	bayes_pls_golite062009
centromeric DNA binding	2.60445660474495	bayes_pls_golite062009
general RNA polymerase II transcription factor activity	2.32945404683014	bayes_pls_golite062009
DNA binding	1.81202026929492	bayes_pls_golite062009
nucleic acid binding	1.77431079461635	bayes_pls_golite062009
protein binding	1.2861218811362	bayes_pls_golite062009
RNA polymerase II transcription factor activity	1.21195713556272	bayes_pls_golite062009
transcription regulator activity	1.07001118921201	bayes_pls_golite062009
transcription factor binding	0.98480383054053	bayes_pls_golite062009
transcription cofactor activity	0.86435821849168	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: