YRC Public Data Repository - Protein Structure Prediction

Protein:	RPL8B
Organism:	Saccharomyces cerevisiae
Length:	256 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 RPL8B.

Description	E-value	Query Range	Subject Range
gi\|187609304 - gi\|187609304\|pdb\|2ZKR\|FF Chain f, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Compl... gi\|162287231, gi... - gi\|162287231\|ref\|NP_001104616.1\| hypothetical protein LOC100037086 [Xenopus laevis], gi\|160773913\|gb... RL7A_MOUSE - 60S ribosomal protein L7a OS=Mus musculus GN=Rpl7a PE=1 SV=2	9.0E-99	[2..253]	[7..257]
gi\|123998529, gi... - gi\|60655915\|gb\|AAX32521.1\| ribosomal protein L7a [synthetic construct], gi\|123998529\|gb\|ABM86866.1\| ... gi\|57092007 - gi\|57092007\|ref\|XP_537800.1\| PREDICTED: similar to 60S ribosomal protein L7a [Canis familiaris] RL7A_MACFA - 60S ribosomal protein L7a OS=Macaca fascicularis GN=RPL7A PE=2 SV=1 gi\|221139842, gi... - gi\|221139842\|ref\|NP_001137511.1\| 60S ribosomal protein L7a [Macaca mulatta], gi\|109109907\|ref\|XP_001... gi\|114605477, gi... - gi\|114605477\|ref\|XP_001167921.1\| PREDICTED: similar to L7a protein isoform 3 [Pan troglodytes], gi\|1... RPL7A - ribosomal protein L7a RL7A_RAT - 60S ribosomal protein L7a OS=Rattus norvegicus GN=Rpl7a PE=1 SV=2 gi\|56956 - gi\|56956\|emb\|CAA33117.1\| unnamed protein product [Rattus rattus]	2.0E-98	[2..253]	[7..257]
RL7A_CHICK - 60S ribosomal protein L7a OS=Gallus gallus GN=RPL7A PE=2 SV=2	3.0E-97	[2..253]	[7..257]
RL7A_TAKRU - 60S ribosomal protein L7a OS=Takifugu rubripes GN=rpl7a PE=3 SV=3	2.0E-94	[2..253]	[7..257]
RL7A_ICTPU - 60S ribosomal protein L7a OS=Ictalurus punctatus GN=rpl7a PE=2 SV=3	5.0E-94	[2..253]	[7..257]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	7.0E-80	[5..256]	[15..268]
gi\|220947724 - gi\|220947724\|gb\|ACL86405.1\| RpL7A-PA [synthetic construct] gi\|194203683, gi... - gi\|195565439\|ref\|XP_002106309.1\| GD16190 [Drosophila simulans], gi\|194203683\|gb\|EDX17259.1\| GD16190 ... gi\|195469971, gi... - gi\|38047799\|gb\|AAR09802.1\| similar to Drosophila melanogaster RpL7A [Drosophila yakuba], gi\|19546997... FBpp0309986, FBp... - The gene Ribosomal protein L7A is referred to in FlyBase by the symbol Dmel\RpL7A (CG3314, FBgn00140...	8.0E-80	[5..253]	[15..262]
gi\|190405750 - gi\|190405750\|gb\|EDV09017.1\| ribosomal protein L8A [Saccharomyces cerevisiae RM11-1a] RL8A_YEAST - 60S ribosomal protein L8-A OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPL8A PE=1 SV... RPL8A - Ribosomal protein L4 of the large (60S) ribosomal subunit, nearly identical to Rpl8Bp and has simila...	2.0E-79	[1..256]	[1..256]

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Predicted Domain #1

Region A:
Residues: [1-96]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MAPGKKVAPA PFGAKSTKSN KAKNPLTHST PKNFGIGQAV QPKRNLSRYV KWPEYVRLQR  60
   61 QKKILSIRLK VPPTIAQFQY TLDRNTAAET FKLFNK

[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	0.216	N/A	N/A	c.47.1	Thioredoxin-like
View	Download	0.332	N/A	N/A	d.120.1	Cytochrome b5
View	Download	0.214	N/A	N/A	a.28.1	ACP-like
View	Download	0.332	N/A	N/A	d.120.1	Cytochrome b5
View	Download	0.216	N/A	N/A	c.47.1	Thioredoxin-like
View	Download	0.214	N/A	N/A	a.28.1	ACP-like

Predicted Domain #2

Region A:
Residues: [97-256]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 YRPETAAEKK ERLTKEAAAI AEGKSKQDAS PKPYAVKYGL NHVVSLIENK KAKLVLIAND  60
   61 VDPIELVVFL PALCKKMGVP YAIIKGKARL GTLVNQKTSA VAALTEVRAE DEAALAKLVS 120
  121 TIDANFADKY DEVKKHWGGG ILGNKAQAKM DKRAKTSDSA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	529.383689
Match:	1k5yG_
Description:	No description for 1k5yG_ was found.

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