YRC Public Data Repository - Protein Structure Prediction

Protein:	RS28_KLUMA
Organism:	Kluyveromyces marxianus
Length:	67 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[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 RS28_KLUMA.

Description	E-value	Query Range	Subject Range
gi\|46108760, gi\|... - gi\|46108760\|ref\|XP_381438.1\| hypothetical protein FG01262.1 [Gibberella zeae PH-1], gi\|42547728\|gb\|E...	119.0	[0..2]	[64..3]
gi\|45268967 - gi\|45268967\|gb\|AAS55896.1\| 40S ribosomal protein S28 [Sus scrofa]	118.0	[0..2]	[67..15]
gi\|82894922, gi\|... - gi\|82894922\|ref\|XP_914732.1\| PREDICTED: similar to 40S ribosomal protein S28 [Mus musculus], gi\|1492...	117.0	[0..1]	[67..3]
gi\|169171642, gi... - gi\|169171642\|ref\|XP_001721356.1\| PREDICTED: similar to 40S ribosomal protein S28 [Homo sapiens], gi\|...	115.0	[0..2]	[67..4]
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	114.0	[0..2]	[67..4]
gi\|115956863, gi... - gi\|115956863\|ref\|XP_001190124.1\| PREDICTED: hypothetical protein [Strongylocentrotus purpuratus], gi...	114.0	[0..5]	[67..3]
gi\|62858613, gi\|... - gi\|62858613\|ref\|NP_001016950.1\| hypothetical protein LOC549704 [Xenopus (Silurana) tropicalis], gi\|1... gi\|71051186, gi\|... - gi\|71051186\|gb\|AAH99294.1\| MGC85550 protein [Xenopus laevis], gi\|51873955\|gb\|AAH78605.1\| MGC85550 pr...	113.0	[0..2]	[67..4]
gi\|47216403 - gi\|47216403\|emb\|CAG01954.1\| unnamed protein product [Tetraodon nigroviridis]	113.0	[0..2]	[67..4]

Back

Predicted Domain #1

Region A:
Residues: [1-67]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDSKTPVTLA KVIKVLGRTG SRGGVTQVRV EFLEDTTRTI VRNVKGPVRE GDILVLMESE  60
   61 REARRLR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	17.0
Match:	1ne3A
Description:	Solution structure of ribosomal protein S28E from Methanobacterium Thermoautotrophicum. Ontario Centre for Structural Proteomics target MTH0256_1_68; Northeast Structural Genomics Target TT744
Matching Structure (courtesy of the PDB):

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: