YRC Public Data Repository - Protein Structure Prediction

Protein:	RPS4B, RPS4A
Organism:	Saccharomyces cerevisiae
Length:	261 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 RPS4B, RPS4A.

Description	E-value	Query Range	Subject Range
RS4X_MACFU - 40S ribosomal protein S4, X isoform OS=Macaca fuscata fuscata GN=RPS4X PE=2 SV=3 RS4X_MESAU - 40S ribosomal protein S4, X isoform OS=Mesocricetus auratus GN=RPS4X PE=2 SV=2 RS4X_FELCA - 40S ribosomal protein S4, X isoform OS=Felis catus GN=RPS4X PE=2 SV=2 RS4X_CHLAE - 40S ribosomal protein S4, X isoform OS=Chlorocebus aethiops GN=RPS4X PE=2 SV=3 gi\|6519820 - gi\|6519820\|dbj\|BAA87932.1\| ribosomal protein S4X (RPS4X) [Macaca fuscata] gi\|1083572 - gi\|1083572\|pir\|\|A55276 ribosomal protein S4 - western wild mouse gi\|2148029, gi\|2... - gi\|220321\|dbj\|BAA01858.1\| ribosomal protein S4 [Mesocricetus sp.], gi\|2148029\|pir\|\|I48169 ribosomal ... gi\|57135 - gi\|57135\|emb\|CAA32427.1\| unnamed protein product [Rattus rattus] gi\|114689107, gi... - gi\|114689107\|ref\|XP_001139217.1\| PREDICTED: hypothetical protein isoform 3 [Pan troglodytes], gi\|114... gi\|149759012, gi... - gi\|255653020\|ref\|NP_001157422.1\| ribosomal protein S4 [Equus caballus], gi\|149759012\|ref\|XP_00148806... gi\|123993841, gi... - gi\|123996497\|gb\|ABM85850.1\| ribosomal protein S4, X-linked [synthetic construct], gi\|123993841\|gb\|AB... RS4X_MOUSE - 40S ribosomal protein S4, X isoform OS=Mus musculus GN=Rps4x PE=1 SV=2 gi\|109131194 - gi\|109131194\|ref\|XP_001093393.1\| PREDICTED: similar to 40S ribosomal protein S4, X isoform [Macaca m... gi\|90075468 - gi\|90075468\|dbj\|BAE87414.1\| unnamed protein product [Macaca fascicularis] RS4X_RAT - 40S ribosomal protein S4, X isoform OS=Rattus norvegicus GN=Rps4x PE=2 SV=2 RPS4X - ribosomal protein S4, X-linked RS4_BOVIN - 40S ribosomal protein S4 OS=Bos taurus GN=RPS4 PE=2 SV=3 ENSCJAT00000008044 - null	473.0	[0..1]	[259..1]
RS4_CRIGR - 40S ribosomal protein S4 OS=Cricetulus griseus GN=RPS4 PE=2 SV=2	472.0	[0..1]	[259..1]
gi\|57090063 - gi\|57090063\|ref\|XP_537399.1\| PREDICTED: similar to 40S ribosomal protein S4, X isoform [Canis famili...	471.0	[0..1]	[259..1]
gi\|74179765 - gi\|74179765\|dbj\|BAE22507.1\| unnamed protein product [Mus musculus]	471.0	[0..1]	[259..1]
RS4_CHICK - 40S ribosomal protein S4 OS=Gallus gallus GN=RPS4 PE=2 SV=2	471.0	[0..1]	[259..1]
gi\|227229 - gi\|227229\|prf\|\|1617101C ribosomal protein S4	471.0	[0..1]	[259..1]
gi\|126722859, gi... - gi\|61835740\|ref\|XP_591678.1\| PREDICTED: similar to 40S ribosomal protein S4, X isoform [Bos taurus],...	470.0	[0..1]	[259..1]
RS4X_MESAU - (P62704) 40S ribosomal protein S4, X isoform RS4X_RAT - (P62703) 40S ribosomal protein S4, X isoform RS4X_CERAE - (Q76N24) 40S ribosomal protein S4, X isoform RS4X_FELCA - (P62705) 40S ribosomal protein S4, X isoform RPS4X - ribosomal protein S4, X-linked RS4X_MACFU - (Q76MY1) 40S ribosomal protein S4, X isoform RS4X_MOUSE - (P62702) 40S ribosomal protein S4, X isoform tr\|F7DFM3\|F7DFM3... - 40S ribosomal protein S4 OS=Equus caballus OX=9796 GN=RPS4X PE=3 SV=1	470.0	[0..2]	[259..1]

Back

Predicted Domain #1

Region A:
Residues: [1-67]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MARGPKKHLK RLAAPHHWLL DKLSGCYAPR PSAGPHKLRE SLPLIVFLRN RLKYALNGRE  60
   61 VKAILMQ

[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	0.649	N/A	N/A	a.39.1	EF-hand
View	Download	0.516	N/A	N/A	c.47.1	Thioredoxin-like
View	Download	0.498	N/A	N/A	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain
View	Download	0.488	N/A	N/A	a.24.13	Domain of the SRP/SRP receptor G-proteins

Predicted Domain #2

Region A:
Residues: [68-186]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RHVKVDGKVR TDTTYPAGFM DVITLDATNE NFRLVYDVKG RFAVHRITDE EASYKLGKVK  60
   61 KVQLGKKGVP YVVTHDGRTI RYPDPNIKVN DTVKIDLASG KITDFIKFDA GKLVYVTGG

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	41.60206
Match:	PF00900.11
Description:	No description for PF00900.11 was found.

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	0.863	N/A	N/A	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.858	N/A	N/A	b.71.1	Glycosyl hydrolase domain
View	Download	0.778	N/A	N/A	b.61.4	Quinohemoprotein amine dehydrogenase A chain, domain 3
View	Download	0.733	N/A	N/A	b.71.1	Glycosyl hydrolase domain

Predicted Domain #3

Region A:
Residues: [187-261]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 RNLGRIGTIV HKERHDGGFD LVHIKDSLDN TFVTRLNNVF VIGEQGKPYI SLPKGKGIKL  60
   61 SIAEERDRRR AQQGL

[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	0.720	N/A	N/A	b.101.1	Ribonuclease domain of colicin E3
View	Download	0.700	N/A	N/A	b.55.1	PH domain-like
View	Download	0.674	N/A	N/A	b.55.1	PH domain-like
View	Download	0.650	N/A	N/A	b.1.2	Fibronectin type III
View	Download	0.638	N/A	N/A	b.1.2	Fibronectin type III

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