YRC Public Data Repository - Protein Structure Prediction

Protein:	rps-0
Organism:	Caenorhabditis elegans
Length:	276 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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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 rps-0.

Description	E-value	Query Range	Subject Range
gi\|73963290, gi\|... - gi\|73963292\|ref\|XP_866616.1\| PREDICTED: similar to 40S ribosomal protein SA (p40) (34/67 kDa laminin...	381.0	[0..1]	[276..1]
gi\|61370578, gi\|... - gi\|61370584\|gb\|AAX43520.1\| laminin receptor 1 [synthetic construct], gi\|61370578\|gb\|AAX43519.1\| lami...	379.0	[0..1]	[276..1]
gi\|30047125 - gi\|30047125\|gb\|AAH50688.1\| Ribosomal protein SA [Homo sapiens]	379.0	[0..1]	[276..1]
RSSA_CHLAE - 40S ribosomal protein SA OS=Chlorocebus aethiops GN=RPSA PE=2 SV=3 gi\|90075168 - gi\|90075168\|dbj\|BAE87264.1\| unnamed protein product [Macaca fascicularis] ENSCJAT00000009364 - null gi\|109041469, gi... - gi\|109041484\|ref\|XP_001083829.1\| PREDICTED: similar to 40S ribosomal protein SA (p40) (34/67 kDa lam...	378.0	[0..1]	[276..1]
RSSA_RAT - 40S ribosomal protein SA OS=Rattus norvegicus GN=Rpsa PE=1 SV=3	378.0	[0..1]	[276..1]
RSSA_PIG - 40S ribosomal protein SA OS=Sus scrofa GN=RPSA PE=1 SV=3	378.0	[0..1]	[276..1]

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Predicted Domain #1

Region A:
Residues: [1-203]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSGGAAHSAL TEEDVMKLLA TQAHLGSTNL NFQMQQYVYK RRFDGPNIIN VKKTWEKLLL  60
   61 AARAIAAVEN PADVVVVSAR PYAQRALLKF AAHTGATAIF GRFSPGCLTN QIQKTFKEPR 120
  121 LLVISDPRID HQAVTEASYV GVPVISFVNT ESPLKLIDIG VPCNNKGERS IGLMWWMLAR 180
  181 EILILRGKIS RQTGFVLEGK EIM

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	59.69897
Match:	1s1hB
Description:	Structure of the ribosomal 80S-eEF2-sordarin complex from yeast obtained by docking atomic models for RNA and protein components into a 11.7 A cryo-EM map. This file, 1S1H, Contains 40S subunit. The 60S Ribosomal Subunit Is In File 1S1I.
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [204-276]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PDLYFYRDPT ETEKEETGAH ADVAEAQEYQ QPTDIDFTTQ GGKVDDWAAE TATWTAETKT  60
   61 TEEWANAPTQ SNW

[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	0.322	0.279	protein binding	a.60.1	SAM/Pointed domain
View	Download	0.219	0.001	protein binding	a.52.1	Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin
View	Download	0.203	0.000	protein binding	a.60.6	DNA polymerase beta, N-terminal domain-like
View	Download	0.227	N/A	N/A	a.44.1	Disulphide-bond formation facilitator (DSBA), insertion domain
View	Download	0.214	N/A	N/A	a.60.1	SAM/Pointed domain

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