YRC Public Data Repository - Protein Structure Prediction

Protein:	RPL40B, RPL40A
Organism:	Saccharomyces cerevisiae
Length:	128 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 RPL40B, RPL40A.

Description	E-value	Query Range	Subject Range
gi\|13569612 - gi\|13569612\|gb\|AAK31162.1\| ubiquitin A-52 residue ribosomal protein fusion product 1 [Homo sapiens]	1.0E-57	[1..128]	[14..141]
gi\|194117886, gi... - gi\|195160144\|ref\|XP_002020936.1\| GL13989 [Drosophila persimilis], gi\|194117886\|gb\|EDW39929.1\| GL1398... gi\|195114034, gi... - gi\|195114034\|ref\|XP_002001572.1\| GI16482 [Drosophila mojavensis], gi\|193912147\|gb\|EDW11014.1\| GI1648... gi\|125986696\|ref... - GA15543-PA [Drosophila pseudoobscura], GA15543 [Drosophila pseudoobscura pseudoobscura] gi\|195437464, gi... - gi\|195437464\|ref\|XP_002066660.1\| GK24609 [Drosophila willistoni], gi\|194162745\|gb\|EDW77646.1\| GK2460... gi\|195401058, gi... - gi\|195401058\|ref\|XP_002059131.1\| GJ16220 [Drosophila virilis], gi\|194156005\|gb\|EDW71189.1\| GJ16220 [... gi\|208657505 - gi\|208657505\|gb\|ACI30049.1\| ubiquitin/60S ribosomal protein L40 fusion [Anopheles darlingi] gi\|16074119 - gi\|16074119\|emb\|CAC94469.1\| anopheles stephensi ubiquitin [Anopheles stephensi] gi\|114864908 - gi\|114864908\|gb\|ABI83782.1\| ubiquitin [Anopheles funestus] gi\|194201766, gi... - gi\|195550845\|ref\|XP_002076117.1\| GD12014 [Drosophila simulans], gi\|194201766\|gb\|EDX15342.1\| GD12014 ... gi\|157113624, gi... - gi\|16118870\|gb\|AAL14636.1\|AF418984_1 ubiquitin-52-amino-acid fusion protein [Aedes aegypti], gi\|1571... gi\|125986696, gi... - gi\|54645438\|gb\|EAL34177.1\| GA15543 [Drosophila pseudoobscura pseudoobscura], gi\|125986696\|ref\|XP_001... gi\|220947932, gi... - gi\|220957162\|gb\|ACL91124.1\| RpL40-PA [synthetic construct], gi\|220947932\|gb\|ACL86509.1\| RpL40-PA [sy... gi\|55237763, gi\|... - gi\|58390190\|ref\|XP_317555.2\| AGAP007927-PA [Anopheles gambiae str. PEST], gi\|55237763\|gb\|EAA12215.2\|... gi\|38047797, gi\|... - gi\|38048585\|gb\|AAR10195.1\| similar to Drosophila melanogaster RpL40 [Drosophila yakuba], gi\|38047797... gi\|190615295, gi... - gi\|194758697\|ref\|XP_001961598.1\| GF15052 [Drosophila ananassae], gi\|190615295\|gb\|EDV30819.1\| GF15052... gi\|170032305, gi... - gi\|170032305\|ref\|XP_001844022.1\| anopheles stephensi ubiquitin [Culex quinquefasciatus], gi\|16787230... AGAP007927-PA - RpL40: 60S ribosomal protein L40\|protein_coding\|3R:2920433:2920903:1\|gene:AGAP007927 gi\|195035911, gi... - gi\|195035911\|ref\|XP_001989415.1\| GH10063 [Drosophila grimshawi], gi\|193905415\|gb\|EDW04282.1\| GH10063... gi\|194855956, gi... - gi\|194855956\|ref\|XP_001968650.1\| GG24988 [Drosophila erecta], gi\|190660517\|gb\|EDV57709.1\| GG24988 [D... RpL40-PA, FBpp03... - The gene Ribosomal protein L40 is referred to in FlyBase by the symbol Dmel\RpL40 (CG2960, FBgn00039... gi\|56417572 - gi\|56417572\|gb\|AAV90727.1\| 60S ribosomal protein L40 [Aedes albopictus]	1.0E-56	[1..128]	[1..128]
gi\|185134441, gi... - gi\|6633991\|dbj\|BAA88568.1\| ubiquitin [Oncorhynchus mykiss], gi\|185134441\|ref\|NP_001117666.1\| ubiquit... gi\|197632607, gi... - gi\|223672341\|gb\|ACN12352.1\| Ubiquitin [Salmo salar], gi\|223646494\|gb\|ACN10005.1\| Ubiquitin [Salmo sa... gi\|113707410 - gi\|113707410\|gb\|ABI36601.1\| ubiquitin/ribosomal protein L40 fusion protein [Bufo gargarizans]	2.0E-56	[1..128]	[1..128]
gi\|15187109 - gi\|15187109\|gb\|AAK91296.1\|AF395864_1 ubiquitin [Branchiostoma belcheri]	2.0E-56	[1..128]	[1..128]
gi\|15213800 - gi\|15213800\|gb\|AAK92175.1\|AF400203_1 ribosomal protein L40 [Spodoptera frugiperda]	4.0E-56	[1..128]	[1..128]
gi\|80751117, gi\|... - gi\|80751117\|ref\|NP_001030325.1\| hypothetical protein LOC612529 [Canis lupus familiaris], gi\|5441519\|...	6.0E-56	[1..128]	[1..128]
gi\|47604954, gi\|... - gi\|47604954\|ref\|NP_990406.1\| ubiquitin and ribosomal protein L40 [Gallus gallus], gi\|2558539\|emb\|CAA...	6.0E-56	[1..128]	[1..128]
gi\|567767 - gi\|567767\|gb\|AAA53067.1\| p125 protein	7.0E-56	[1..128]	[423..551]
gi\|7507776 - gi\|7507776\|pir\|\|T16867 probable cytochrome P450 T13C5.1 [similarity] - Caenorhabditis elegans	7.0E-56	[1..128]	[1..128]

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Predicted Domain #1

Region A:
Residues: [1-76]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQIFVKTLTG KTITLEVESS DTIDNVKSKI QDKEGIPPDQ QRLIFAGKQL EDGRTLSDYN  60
   61 IQKESTLHLV LRLRGG

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	370.68867
Match:	1aarA_
Description:	Ubiquitin
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [77-128]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IIEPSLKALA SKYNCDKSVC RKCYARLPPR ATNCRKRKCG HTNQLRPKKK LK

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	33.026872
Match:	PF01020
Description:	Ribosomal L40e family

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this 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