YRC Public Data Repository - Protein Structure Prediction

Protein:	MRPL7
Organism:	Saccharomyces cerevisiae
Length:	292 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 MRPL7.

Description	E-value	Query Range	Subject Range
RM07_YEAST - 54S ribosomal protein L7, mitochondrial OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=... MRPL7 - Mitochondrial ribosomal protein of the large subunit gi\|151942214 - gi\|151942214\|gb\|EDN60570.1\| YmL5/7 [Saccharomyces cerevisiae YJM789]	0.0	[1..292]	[1..292]
gi\|28922248, gi\|... - gi\|32405796\|ref\|XP_323511.1\| hypothetical protein ( (AL513445) related to ribosomal protein L5 precu... gi\|85099166 - gi\|85099166\|ref\|XP_960729.1\| hypothetical protein NCU04171 [Neurospora crassa OR74A]	3.0E-74	[37..287]	[93..349]
RL5_RHILO - 50S ribosomal protein L5 OS=Rhizobium loti (strain MAFF303099) GN=rplE PE=3 SV=1 RL5_RHILO - 50S ribosomal protein L5 OS=Rhizobium loti GN=rplE PE=3 SV=1	1.0E-72	[92..288]	[1..191]
RM07_SCHPO - Probable 54S ribosomal protein L7, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 248... mrpl7 - mitochondrial ribosomal protein subunit L7	6.0E-71	[37..287]	[23..277]
RL5_MICLU - 50S ribosomal protein L5 OS=Micrococcus luteus GN=rplE PE=3 SV=1	2.0E-69	[96..288]	[2..188]
gi\|221312261 - gi\|221312261\|ref\|ZP_03594066.1\| 50S ribosomal protein L5 [Bacillus subtilis subsp. subtilis str. NCI... RL5_BACSU - 50S ribosomal protein L5 OS=Bacillus subtilis (strain 168) GN=rplE PE=1 SV=1 gi\|221317195 - gi\|221317195\|ref\|ZP_03598489.1\| 50S ribosomal protein L5 [Bacillus subtilis subsp. subtilis str. JH6... RL5_BACSU - 50S ribosomal protein L5 OS=Bacillus subtilis GN=rplE PE=3 SV=1 gi\|221321458 - gi\|221321458\|ref\|ZP_03602752.1\| 50S ribosomal protein L5 [Bacillus subtilis subsp. subtilis str. SMY...	8.0E-69	[106..289]	[2..179]
gi\|14719574, gi\|... - gi\|14719575\|pdb\|1IQ4\|B Chain B, 5s-Rrna Binding Ribosomal Protein L5 From Bacillus Stearothermophilu...	1.0E-68	[106..289]	[2..179]
gi\|153217554, gi... - gi\|153217554\|ref\|ZP_01951235.1\| ribosomal protein L5 [Vibrio cholerae 1587], gi\|124113496\|gb\|EAY3231... gi\|153225193, gi... - gi\|153225193\|ref\|ZP_01954716.1\| ribosomal protein L5 [Vibrio cholerae MAK 757], gi\|124117359\|gb\|EAY3... gi\|229369525, gi... - gi\|229606870\|ref\|YP_002877518.1\| LSU ribosomal protein L5p (L11e) [Vibrio cholerae MJ-1236], gi\|2293... gi\|229335118, gi... - gi\|229527486\|ref\|ZP_04416878.1\| LSU ribosomal protein L5p (L11e) [Vibrio cholerae 12129(1)], gi\|2293... gi\|254292236, gi... - gi\|254292236\|ref\|ZP_04963000.1\| ribosomal protein L5 [Vibrio cholerae AM-19226], gi\|197750430\|ref\|YP... gi\|229524565, gi... - gi\|229524565\|ref\|ZP_04413970.1\| LSU ribosomal protein L5p (L11e) [Vibrio cholerae bv. albensis VL426... gi\|229521650, gi... - gi\|229521650\|ref\|ZP_04411068.1\| LSU ribosomal protein L5p (L11e) [Vibrio cholerae TM 11079-80], gi\|2... gi\|229516837, gi... - gi\|229516837\|ref\|ZP_04406283.1\| LSU ribosomal protein L5p (L11e) [Vibrio cholerae RC9], gi\|229345900... gi\|148873353, gi... - gi\|153831166\|ref\|ZP_01983833.1\| ribosomal protein L5 [Vibrio cholerae 623-39], gi\|148873353\|gb\|EDL71... gi\|229513507, gi... - gi\|229513507\|ref\|ZP_04402971.1\| LSU ribosomal protein L5p (L11e) [Vibrio cholerae TMA 21], gi\|229349... gi\|229507364, gi... - gi\|229507364\|ref\|ZP_04396869.1\| LSU ribosomal protein L5p (L11e) [Vibrio cholerae BX 330286], gi\|229... RL5_VIBCM - 50S ribosomal protein L5 OS=Vibrio cholerae serotype O1 (strain M66-2) GN=rplE PE=3 SV=1 gi\|183013146, gi... - gi\|183179735\|ref\|ZP_02957946.1\| ribosomal protein L5 [Vibrio cholerae MZO-3], gi\|183013146\|gb\|EDT884... RL5_VIBCH - 50S ribosomal protein L5 OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN... gi\|254846829, gi... - gi\|75828592\|ref\|ZP_00757967.1\| COG0094: Ribosomal protein L5 [Vibrio cholerae MO10], gi\|254851124\|re... RL5_VIBC3 - 50S ribosomal protein L5 OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O... gi\|121628099, gi... - gi\|75814256\|ref\|ZP_00744872.1\| COG0094: Ribosomal protein L5 [Vibrio cholerae V52], gi\|121730157\|ref... RL5_VIBCH - 50S ribosomal protein L5 OS=Vibrio cholerae GN=rplE PE=3 SV=1	2.0E-68	[107..289]	[3..179]
RL5_SALCH - 50S ribosomal protein L5 OS=Salmonella choleraesuis GN=rplE PE=3 SV=1 RL5_SALTY - 50S ribosomal protein L5 OS=Salmonella typhimurium GN=rplE PE=3 SV=2 RL5_SALNS - 50S ribosomal protein L5 OS=Salmonella newport (strain SL254) GN=rplE PE=3 SV=1 RL5_SALCH - 50S ribosomal protein L5 OS=Salmonella choleraesuis (strain SC-B67) GN=rplE PE=3 SV=1 RL5_SALHS - 50S ribosomal protein L5 OS=Salmonella heidelberg (strain SL476) GN=rplE PE=3 SV=1 RL5_SALPA - 50S ribosomal protein L5 OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=rplE PE=3 SV=1 gi\|194471288, gi... - gi\|194471288\|ref\|ZP_03077272.1\| ribosomal protein L5 [Salmonella enterica subsp. enterica serovar Ke... RL5_SALSV - 50S ribosomal protein L5 OS=Salmonella schwarzengrund (strain CVM19633) GN=rplE PE=3 SV=1 gi\|168264689, gi... - gi\|205346893\|gb\|EDZ33524.1\| ribosomal protein L5 [Salmonella enterica subsp. enterica serovar Hadar ... RL5_SALPB - 50S ribosomal protein L5 OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=rplE PE=3 SV=1 gi\|195628881, gi... - gi\|195628881\|gb\|EDX48291.1\| ribosomal protein L5 [Salmonella enterica subsp. enterica serovar Newpor... RL5_SALTY - 50S ribosomal protein L5 OS=Salmonella typhimurium GN=rplE PE=3 SV=2 RL5_SALTI - 50S ribosomal protein L5 OS=Salmonella typhi GN=rplE PE=3 SV=2 RL5_SALCH - 50S ribosomal protein L5 OS=Salmonella choleraesuis GN=rplE PE=3 SV=1 RL5_SALPA - 50S ribosomal protein L5 OS=Salmonella paratyphi A GN=rplE PE=3 SV=1 RL5_SALTI - 50S ribosomal protein L5 OS=Salmonella typhi GN=rplE PE=3 SV=2 gi\|16762855 - gi\|16762855\|ref\|NP_458472.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serovar T... RL5_SALTY - 50S ribosomal protein L5 OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=rplE PE=... gi\|29139980, gi\|... - gi\|29144342\|ref\|NP_807684.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serovar T... gi\|213646536 - gi\|213646536\|ref\|ZP_03376589.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serova... gi\|213852172 - gi\|213852172\|ref\|ZP_03381704.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serova... gi\|213999772 - gi\|213999772\|ref\|ZP_03410507.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serova... RL5_SALPC - 50S ribosomal protein L5 OS=Salmonella paratyphi C (strain RKS4594) GN=rplE PE=3 SV=1 gi\|213418134 - gi\|213418134\|ref\|ZP_03351200.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serova... gi\|213425763 - gi\|213425763\|ref\|ZP_03358513.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serova... gi\|213581220 - gi\|213581220\|ref\|ZP_03363046.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serova... gi\|213612421 - gi\|213612421\|ref\|ZP_03370247.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serova... gi\|200389086, gi... - gi\|200389086\|ref\|ZP_03215698.1\| ribosomal protein L5 [Salmonella enterica subsp. enterica serovar Vi... RL5_SALG2 - 50S ribosomal protein L5 OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=rplE PE=3 SV=1 RL5_SALEP - 50S ribosomal protein L5 OS=Salmonella enteritidis PT4 (strain P125109) GN=rplE PE=3 SV=1 gi\|209900872, gi... - gi\|209905804\|ref\|ZP_03280288.1\| hypothetical protein ENTCAN_00029 [Enterobacter cancerogenus ATCC 35... RL5_SALA4 - 50S ribosomal protein L5 OS=Salmonella agona (strain SL483) GN=rplE PE=3 SV=1 gi\|197242849, gi... - gi\|197264594\|ref\|ZP_03164668.1\| ribosomal protein L5 [Salmonella enterica subsp. enterica serovar Sa... RL5_SALPK - 50S ribosomal protein L5 OS=Salmonella paratyphi A (strain AKU_12601) GN=rplE PE=3 SV=1 RL5_SALDC - 50S ribosomal protein L5 OS=Salmonella dublin (strain CT_02021853) GN=rplE PE=3 SV=1 gi\|283788056\|ref... - 50S ribosomal subunit protein L5 [Citrobacter rodentium ICC168] RL5_SALPB - 50S ribosomal protein L5 OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=rplE PE=3 SV=1 gi\|238913857 - gi\|238913857\|ref\|ZP_04657694.1\| 50S ribosomal protein L5 [Salmonella enterica subsp. enterica serova... lcl\|NC_016856.1_... - [gene=rplE] [protein=50S ribosomal protein L5] [protein_id=YP_005239618.1] [location=complement(3604...	2.0E-68	[107..289]	[3..179]

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Predicted Domain #1

Region A:
Residues: [1-102]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MQRFSLVTHR SFSHSCVKPK SACSLVKPVH HLVKIDKSKL SPRFPELKYD KSDIRSPGFK  60
   61 PKDTHADRLN DHYLNTLQSD LLLINYSHNA AVVKGLKQRA WS

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below are all of our de novo (Rosetta) predictions for this domain.
Click here to view only most confident match.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.434	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.434	a.4.5	"Winged helix" DNA-binding domain
View	Download	0.297	a.23.4	Mitochondrial import receptor subunit Tom20
View	Download	0.329	a.4.6	C-terminal effector domain of the bipartite response regulators
View	Download	0.329	a.4.6	C-terminal effector domain of the bipartite response regulators
View	Download	0.312	a.24.17	Group V grass pollen allergen
View	Download	0.312	a.24.17	Group V grass pollen allergen
View	Download	0.451	d.58.44	Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
View	Download	0.451	d.58.44	Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains
View	Download	0.297	a.23.4	Mitochondrial import receptor subunit Tom20
View	Download	0.293	d.185.1	LuxS/MPP-like metallohydrolase
View	Download	0.277	f.32.1	a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
View	Download	0.268	a.100.1	6-phosphogluconate dehydrogenase C-terminal domain-like
View	Download	0.256	a.4.1	Homeodomain-like
View	Download	0.241	a.118.1	ARM repeat
View	Download	0.239	a.74.1	Cyclin-like
View	Download	0.239	a.142.1	PTS-regulatory domain, PRD
View	Download	0.224	a.60.9	lambda integrase-like, N-terminal domain
View	Download	0.222	a.16.1	S15/NS1 RNA-binding domain
View	Download	0.214	a.181.1	Antibiotic binding domain of TipA-like multidrug resistance regulators
View	Download	0.214	a.149.1	RNase III endonuclease catalytic domain
View	Download	0.212	a.39.1	EF-hand
View	Download	0.209	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain
View	Download	0.208	a.77.1	DEATH domain
View	Download	0.205	d.189.1	PX domain
View	Download	0.201	a.7.2	Enzyme IIa from lactose specific PTS, IIa-lac

Predicted Domain #2

Region A:
Residues: [103-292]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GDSPYHLNRP PKNPRGSKAQ LPDIHPIKWS NIPGLESVVI NCFVREAREN QLLAITAALQ  60
   61 LQQITGCKPH PIFSKNDVPT WKLRKGHQMG AKVELKGKEM SQFLSTLTEI VLPRIREYKG 120
  121 ISNQSGNRFG GISFGLTAED IKFFPEIDAN QDSWPKTFGM HININTSAQL DYQARTLLSG 180
  181 FQFPFFGEEK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	264.626727
Match:	1iq4A_
Description:	Ribosomal protein L5
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	10.0077098174023	bayes_pls_golite062009
structural molecule activity	9.43117206427219	bayes_pls_golite062009
binding	1.22985833191636	bayes_pls_golite062009
protein binding	0.551360246680731	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: