YRC Public Data Repository - Protein Structure Prediction

Protein:	RPS28A
Organism:	Saccharomyces cerevisiae
Length:	67 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 RPS28A.

Description	E-value	Query Range	Subject Range
gi\|209737176, gi... - gi\|223672277\|gb\|ACN12320.1\| 40S ribosomal protein S28 [Salmo salar], gi\|223646430\|gb\|ACN09973.1\| 40S... gi\|229366522 - gi\|229366522\|gb\|ACQ58241.1\| 40S ribosomal protein S28 [Anoplopoma fimbria] gi\|124300845 - gi\|124300845\|dbj\|BAF45918.1\| ribosomal protein S28 [Solea senegalensis] gi\|225711112 - gi\|225711112\|gb\|ACO11402.1\| 40S ribosomal protein S28 [Caligus rogercresseyi] gi\|225716510 - gi\|225716510\|gb\|ACO14101.1\| 40S ribosomal protein S28 [Esox lucius] RS28_ICTPU - 40S ribosomal protein S28 OS=Ictalurus punctatus GN=rps28 PE=3 SV=1 RS28_DANRE - 40S ribosomal protein S28 OS=Danio rerio GN=rps28 PE=3 SV=1	1.0E-21	[6..67]	[8..69]
tr\|G3I5R2\|G3I5R2... - 40S ribosomal protein S28 OS=Cricetulus griseus GN=H671_5g13698 PE=3 SV=1 RS28_MOUSE - 40S ribosomal protein S28 OS=Mus musculus GN=Rps28 PE=1 SV=1 ENSCJAT00000020884 - null gi\|57726 - gi\|57726\|emb\|CAA41967.1\| ribosomal protein S28 [Rattus rattus] tr\|M3X2Q9\|M3X2Q9... - Ribosomal protein S28 OS=Felis catus GN=RPS28 PE=3 SV=1 RS28_BOVIN - 40S ribosomal protein S28 OS=Bos taurus GN=RPS28 PE=3 SV=1 gi\|114675098, gi... - gi\|114675098\|ref\|XP_001157792.1\| PREDICTED: similar to ribosomal protein S28 [Pan troglodytes], gi\|1... gi\|197129910, gi... - gi\|197129910\|gb\|ACH46408.1\| putative ribosomal protein S28 [Taeniopygia guttata], gi\|197127423\|gb\|AC... gi\|73987191 - gi\|73987191\|ref\|XP_542128.2\| PREDICTED: similar to 40S ribosomal protein S28 [Canis familiaris] gi\|123980908, gi... - gi\|61359175\|gb\|AAX41679.1\| ribosomal protein S28 [synthetic construct], gi\|123995725\|gb\|ABM85464.1\| ... gi\|149716415 - gi\|149716415\|ref\|XP_001498263.1\| PREDICTED: similar to ribosomal protein S28 [Equus caballus] gi\|363743624\|ref... - PREDICTED: 40S ribosomal protein S28 [Gallus gallus] gi\|109123228 - gi\|109123228\|ref\|XP_001093698.1\| PREDICTED: similar to 40S ribosomal protein S28 [Macaca mulatta] tr\|G1TIB4\|G1TIB4... - pep:novel scaffold:oryCun2:GL018767:383778:384626:-1 gene:ENSOCUG00000021484 transcript:ENSOCUT00000... RPS28 - ribosomal protein S28 RS28_RAT - 40S ribosomal protein S28 OS=Rattus norvegicus GN=Rps28 PE=1 SV=1 RS28_PIG - 40S ribosomal protein S28 OS=Sus scrofa GN=RPS28 PE=1 SV=2	2.0E-21	[6..67]	[8..69]
RPS28B - Protein component of the small (40S) ribosomal subunit; nearly identical to Rps28Ap and has similari... ORFP:15843 - YLR264W, Contig c146 19013-19216 reverse complement RS28B_YEAST - 40S ribosomal protein S28-B OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPS28B PE=1 ... gi\|190405324 - gi\|190405324\|gb\|EDV08591.1\| ribosomal protein S28B [Saccharomyces cerevisiae RM11-1a] gi\|151941098 - gi\|151941098\|gb\|EDN59478.1\| ribosomal protein S28B [Saccharomyces cerevisiae YJM789]	5.0E-21	[1..67]	[1..67]
RS28_KLUMA - 40S ribosomal protein S28 OS=Kluyveromyces marxianus GN=RPS28 PE=3 SV=1	8.0E-21	[1..67]	[1..67]
rps2801, rps2802 - 40S ribosomal protein S28, 40S ribosomal protein S28 RS28A_SCHPO, RS2... - 40S ribosomal protein S28-B OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rps2802 PE=3 S... gi\|213406339, gi... - gi\|213410114\|ref\|XP_002175827.1\| 40S ribosomal protein S28 [Schizosaccharomyces japonicus yFS275], g...	1.0E-20	[1..67]	[1..68]
gi\|12239511 - gi\|12239511\|gb\|AAG49498.1\| ribosomal protein S28 [Cricetulus griseus]	1.0E-20	[6..64]	[8..66]
FBpp0310057, RpS... - The gene Ribosomal protein S28b is referred to in FlyBase by the symbol Dmel\RpS28b (CG2998, FBgn003... gi\|195044778, gi... - gi\|195044778\|ref\|XP_001991871.1\| GH12901 [Drosophila grimshawi], gi\|193901629\|gb\|EDW00496.1\| GH12901... gi\|190648966, gi... - gi\|194890478\|ref\|XP_001977317.1\| GG18316 [Drosophila erecta], gi\|190648966\|gb\|EDV46244.1\| GG18316 [D... gi\|195350506, gi... - gi\|195350506\|ref\|XP_002041781.1\| GM11375 [Drosophila sechellia], gi\|194123586\|gb\|EDW45629.1\| GM11375... gi\|193909058, gi... - gi\|195134759\|ref\|XP_002011804.1\| GI14378 [Drosophila mojavensis], gi\|193909058\|gb\|EDW07925.1\| GI1437... gi\|194167066, gi... - gi\|195446918\|ref\|XP_002070981.1\| GK25380 [Drosophila willistoni], gi\|194167066\|gb\|EDW81967.1\| GK2538... gi\|54643976, gi\|... - gi\|54643976\|gb\|EAL32719.1\| GA15566 [Drosophila pseudoobscura pseudoobscura], gi\|125983790\|ref\|XP_001... gi\|195393766, gi... - gi\|195393766\|ref\|XP_002055524.1\| GJ19416 [Drosophila virilis], gi\|194150034\|gb\|EDW65725.1\| GJ19416 [... gi\|194203950, gi... - gi\|195565977\|ref\|XP_002106570.1\| GD16052 [Drosophila simulans], gi\|194203950\|gb\|EDX17526.1\| GD16052 ... gi\|195481706, gi... - gi\|195481706\|ref\|XP_002101747.1\| GE17798 [Drosophila yakuba], gi\|194189271\|gb\|EDX02855.1\| GE17798 [D... gi\|220956992, gi... - gi\|220956992\|gb\|ACL91039.1\| RpS28b-PA [synthetic construct], gi\|220947628\|gb\|ACL86357.1\| RpS28b-PA [... gi\|54643976\|gb\|E... - GA15566-PA [Drosophila pseudoobscura], GA15566 [Drosophila pseudoobscura pseudoobscura]	2.0E-20	[6..67]	[4..65]
RS28_KLULA - 40S ribosomal protein S28 OS=Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 12... RS28_KLULA - 40S ribosomal protein S28 OS=Kluyveromyces lactis GN=RPS28 PE=3 SV=1	2.0E-20	[1..67]	[1..67]
RS28_OSTOS - 40S ribosomal protein S28 OS=Ostertagia ostertagi GN=rps-28 PE=3 SV=1	8.0E-20	[6..67]	[4..66]

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Predicted Domain #1

Region A:
Residues: [1-67]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDNKTPVTLA KVIKVLGRTG SRGGVTQVRV EFLEDTSRTI VRNVKGPVRE NDILVLMESE  60
   61 REARRLR

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	43.522879
Match:	PF01200
Description:	Ribosomal protein S28e

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
structural constituent of ribosome	7.45319063235379	bayes_pls_golite062009
structural molecule activity	6.87843523680097	bayes_pls_golite062009
translation elongation factor activity	3.58178742491041	bayes_pls_golite062009
RNA binding	3.30183895019873	bayes_pls_golite062009
nucleic acid binding	2.61313484113692	bayes_pls_golite062009
binding	2.20683882867211	bayes_pls_golite062009
DNA binding	1.87254683997276	bayes_pls_golite062009
	1.49823328757628	bayes_pls_golite062009
translation regulator activity	1.46320772716954	bayes_pls_golite062009
translation factor activity, nucleic acid binding	1.40718318783582	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	1.35850109411274	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	1.35845277283398	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	1.35845277283398	bayes_pls_golite062009
translation initiation factor activity	1.27539679024898	bayes_pls_golite062009
structure-specific DNA binding	1.10289736160471	bayes_pls_golite062009
single-stranded DNA binding	0.96886436248958	bayes_pls_golite062009
mRNA binding	0.66243778931831	bayes_pls_golite062009
ribonuclease activity	0.498439111185072	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	0.438266295385131	bayes_pls_golite062009
exoribonuclease activity	0.39131721416336	bayes_pls_golite062009
ligase activity	0.346041081217685	bayes_pls_golite062009
transcription regulator activity	0.259353733157995	bayes_pls_golite062009
nuclease activity	0.17660139576327	bayes_pls_golite062009
aspartate-tRNA ligase activity	0.151650064901878	bayes_pls_golite062009
3'-5'-exoribonuclease activity	0.0717589400404304	bayes_pls_golite062009
protein binding	0.0528188351789111	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: