YRC Public Data Repository - Protein Structure Prediction

Protein:	RL25_PHOLL
Organism:	Photorhabdus luminescens subsp. laumondii
Length:	94 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 RL25_PHOLL.

Description	E-value	Query Range	Subject Range
gi\|110806164, gi... - gi\|110806164\|ref\|YP_689684.1\| 50S ribosomal protein L25 [Shigella flexneri 5 str. 8401], gi\|11061571...	140.0	[0..1]	[94..25]
gi\|26248568, gi\|... - gi\|26248568\|ref\|NP_754608.1\| 50S ribosomal protein L25 [Escherichia coli CFT073], gi\|26108973\|gb\|AAN... gi\|91211475, gi\|... - gi\|91211475\|ref\|YP_541461.1\| 50S ribosomal protein L25 [Escherichia coli UTI89], gi\|91073049\|gb\|ABE0...	138.0	[0..1]	[94..33]
gi\|114773564, gi... - gi\|114773564\|ref\|ZP_01450662.1\| ribosomal 5S rRNA E-loop binding protein Ctc/L25/TL5 [alpha proteoba... gi\|114773564 - gi\|114773564\|ref\|ZP_01450662.1\| ribosomal 5S rRNA E-loop binding protein Ctc/L25/TL5 [alpha proteoba... gi\|221135305 - gi\|221135305\|ref\|ZP_03561608.1\| 50S ribosomal protein L25/general stress protein Ctc [Glaciecola sp....	135.0	[0..1]	[93..5]
gi\|7767190 - gi\|7767190\|pdb\|487D\|N Chain N, Seven Ribosomal Proteins Fitted To A Cryo-Electron Microscopic Map Of...	133.0	[0..1]	[94..1]
RL25_ECOLI - 50S ribosomal protein L25 - Escherichia coli EG10885 - 50S ribosomal subunit protein L25 / 50S ribosomal subunit protein L25; 5S rRNA-binding gi\|56480061, gi\|... - gi\|56480061\|ref\|NP_708084.2\| 50S ribosomal protein L25 [Shigella flexneri 2a str. 301], gi\|56383612\|... gi\|193062225, gi... - gi\|75259659\|ref\|ZP_00730961.1\| COG1825: Ribosomal protein L25 (general stress protein Ctc) [Escheric... gi\|75237981, gi\|... - gi\|75237981\|ref\|ZP_00721986.1\| COG1825: Ribosomal protein L25 (general stress protein Ctc) [Escheric... RL25_ECOLC - 50S ribosomal protein L25 OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=rplY PE=3 SV... gi\|75231475, gi\|... - gi\|75231475\|ref\|ZP_00717844.1\| COG1825: Ribosomal protein L25 (general stress protein Ctc) [Escheric... gi\|75211603, gi\|... - gi\|75211603\|ref\|ZP_00711682.1\| COG1825: Ribosomal protein L25 (general stress protein Ctc) [Escheric... gi\|85675294, gi\|... - gi\|89109003\|ref\|AP_002783.1\| 50S ribosomal subunit protein L25 [Escherichia coli str. K-12 substr. W... RL25_SHIDS - 50S ribosomal protein L25 OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=rplY PE=3 SV=1 RL25_SHISS - 50S ribosomal protein L25 OS=Shigella sonnei (strain Ss046) GN=rplY PE=3 SV=1 gi\|188488955, gi... - gi\|75514475\|ref\|ZP_00736753.1\| COG1825: Ribosomal protein L25 (general stress protein Ctc) [Escheric... RL25_ECOHS - 50S ribosomal protein L25 OS=Escherichia coli O9:H4 (strain HS) GN=rplY PE=3 SV=1 RL25_ECO24 - 50S ribosomal protein L25 OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=rplY PE=3 SV=1 gi\|124526763, gi... - gi\|124526763\|ref\|ZP_01698672.1\| ribosomal protein L25 [Escherichia coli B], gi\|124501819\|gb\|EAY49281... RL25_ECODH - 50S ribosomal protein L25 OS=Escherichia coli (strain K12 / DH10B) GN=rplY PE=3 SV=1 RL25_ECO8A - 50S ribosomal protein L25 OS=Escherichia coli O8 (strain IAI1) GN=rplY PE=3 SV=1 RL25_ECOSE - 50S ribosomal protein L25 OS=Escherichia coli (strain SE11) GN=rplY PE=3 SV=1 gi\|229774940 - gi\|229774940\|ref\|YP_689684.2\| 50S ribosomal protein L25 [Shigella flexneri 5 str. 8401] RL25_ECOBW - 50S ribosomal protein L25 OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=rplY PE=3 SV=1 gi\|242377824, gi... - gi\|251785551\|ref\|YP_002999855.1\| hypothetical protein B21_02074 [Escherichia coli BL21], gi\|24237782... gi\|253772888, gi... - gi\|254288961\|ref\|YP_003054709.1\| 50S ribosomal protein L25 [Escherichia coli BL21(DE3)], gi\|25397826... gi\|253974101, gi... - gi\|254162200\|ref\|YP_003045308.1\| 50S ribosomal protein L25 [Escherichia coli B str. REL606], gi\|2539... gi\|194436155, gi... - gi\|83588167\|ref\|ZP_00926792.1\| COG1825: Ribosomal protein L25 (general stress protein Ctc) [Escheric... gi\|14278052 - gi\|14278052\|pdb\|1GIY\|V Chain V, Crystal Structure Of The Ribosome At 5.5 A Resolution. This File, 1g... RL25_SHIFL - 50S ribosomal protein L25 OS=Shigella flexneri GN=rplY PE=3 SV=1 RL25_ECO55 - 50S ribosomal protein L25 OS=Escherichia coli (strain 55989 / EAEC) GN=rplY PE=3 SV=1 gi\|30041881, gi\|... - gi\|30063628\|ref\|NP_837799.1\| 50S ribosomal protein L25 [Shigella flexneri 2a str. 2457T], gi\|3004188... EG10885 - 50S ribosomal subunit protein L25 / 50S ribosomal subunit protein L25; 5S rRNA-binding gi\|157836110 - gi\|157836110\|pdb\|2QOX\|V Chain V, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli I...	133.0	[0..1]	[94..1]
gi\|42631535 - gi\|42631535\|ref\|ZP_00157073.1\| COG1825: Ribosomal protein L25 (general stress protein Ctc) [Haemophi... gi\|145641796, gi... - gi\|145641796\|ref\|ZP_01797372.1\| 50S ribosomal protein L25 [Haemophilus influenzae R3021], gi\|1449834... gi\|145639243, gi... - gi\|145639243\|ref\|ZP_01794849.1\| 50S ribosomal protein L25 [Haemophilus influenzae PittII], gi\|145271... gi\|145273610, gi... - gi\|145641796\|ref\|ZP_01797372.1\| 50S ribosomal protein L25 [Haemophilus influenzae R3021], gi\|1456309... gi\|144979544, gi... - gi\|145627769\|ref\|ZP_01783570.1\| 50S ribosomal protein L25 [Haemophilus influenzae 22.1-21], gi\|14497...	133.0	[0..2]	[94..3]
RL25_SHIB3 - 50S ribosomal protein L25 OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=rplY PE=3 S...	132.0	[0..1]	[94..1]
gi\|145635085, gi... - gi\|145635085\|ref\|ZP_01790791.1\| 50S ribosomal protein L25 [Haemophilus influenzae PittAA], gi\|145267... gi\|229844811, gi... - gi\|229844811\|ref\|ZP_04464949.1\| 50S ribosomal protein L25 [Haemophilus influenzae 6P18H1], gi\|229812... RL25_HAEI8 - 50S ribosomal protein L25 OS=Haemophilus influenzae (strain 86-028NP) GN=rplY PE=3 SV=1 RL25_HAEIE - 50S ribosomal protein L25 OS=Haemophilus influenzae (strain PittEE) GN=rplY PE=3 SV=1	132.0	[0..2]	[94..3]
gi\|208807041, gi... - gi\|208807041\|ref\|ZP_03249378.1\| ribosomal L25p family protein [Escherichia coli O157:H7 str. EC4206]... gi\|195935567 - gi\|195935567\|ref\|ZP_03080949.1\| 50S ribosomal protein L25 [Escherichia coli O157:H7 str. EC4024] gi\|254794086, gi... - gi\|254794086\|ref\|YP_003078923.1\| 50S ribosomal subunit protein L25 [Escherichia coli O157:H7 str. TW... gi\|189375583, gi... - gi\|189406271\|ref\|ZP_02827407.2\| ribosomal L25p family [Escherichia coli O157:H7 str. EC508], gi\|1893... gi\|189405210, gi... - gi\|189405210\|ref\|ZP_02814011.2\| ribosomal L25p family [Escherichia coli O157:H7 str. EC869], gi\|1893... gi\|217320314, gi... - gi\|217327947\|ref\|ZP_03444030.1\| ribosomal L25p family protein [Escherichia coli O157:H7 str. TW14588... RL25_ECO5E - 50S ribosomal protein L25 OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=rplY PE=3 SV=1 gi\|208739173, gi... - gi\|208819050\|ref\|ZP_03259370.1\| ribosomal L25p family protein [Escherichia coli O157:H7 str. EC4042]... gi\|208734644, gi... - gi\|208813367\|ref\|ZP_03254696.1\| ribosomal L25p family protein [Escherichia coli O157:H7 str. EC4045]... gi\|188024890, gi... - gi\|188024890\|ref\|ZP_02774614.2\| ribosomal L25p family [Escherichia coli O157:H7 str. EC4113], gi\|188... gi\|187771079, gi... - gi\|187775726\|ref\|ZP_02798101.2\| ribosomal L25p family [Escherichia coli O157:H7 str. EC4196], gi\|187... gi\|189364889, gi... - gi\|189404570\|ref\|ZP_02790366.2\| ribosomal L25p family [Escherichia coli O157:H7 str. EC4501], gi\|189... gi\|189362864, gi... - gi\|189403055\|ref\|ZP_02792816.2\| ribosomal L25p family [Escherichia coli O157:H7 str. EC4486], gi\|189... gi\|189354272, gi... - gi\|189402686\|ref\|ZP_02784079.2\| ribosomal L25p family [Escherichia coli O157:H7 str. EC4401], gi\|189... gi\|189010144, gi... - gi\|189010144\|ref\|ZP_02805045.2\| ribosomal L25p family [Escherichia coli O157:H7 str. EC4076], gi\|189... gi\|15832331, gi\|... - gi\|15832331\|ref\|NP_311104.1\| 50S ribosomal protein L25 [Escherichia coli O157:H7 str. Sakai], gi\|133... RL25_ECO57 - 50S ribosomal protein L25 OS=Escherichia coli O157:H7 GN=rplY PE=3 SV=1 gi\|209765906, gi... - pir\|\|G85857 50S ribosomal subunit protein L25 [imported] - Escherichia coli (strain O157:H7, substra... gi\|15802741, gi\|... - gi\|15802741\|ref\|NP_288768.1\| 50S ribosomal protein L25 [Escherichia coli O157:H7 EDL933], gi\|1251651...	132.0	[0..1]	[94..1]
gi\|42629655 - gi\|42629655\|ref\|ZP_00155201.1\| COG1825: Ribosomal protein L25 (general stress protein Ctc) [Haemophi... RL25_HAEIG - 50S ribosomal protein L25 OS=Haemophilus influenzae (strain PittGG) GN=rplY PE=3 SV=1 gi\|229811268, gi... - gi\|229846264\|ref\|ZP_04466376.1\| 50S ribosomal protein L25 [Haemophilus influenzae 7P49H1], gi\|229811... gi\|145637517, gi... - gi\|145637517\|ref\|ZP_01793175.1\| 50S ribosomal protein L25 [Haemophilus influenzae PittHH], gi\|145269... gi\|144986257, gi... - gi\|145633031\|ref\|ZP_01788763.1\| 50S ribosomal protein L25 [Haemophilus influenzae 3655], gi\|14498625...	132.0	[0..2]	[94..3]

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Predicted Domain #1

Region A:
Residues: [1-94]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MFTINAEVRK EQGKGASRRL RRANKFPAIV YGGNQELVSI ELDHDQVINM EQKAEFYSDV  60
   61 LTLVIDGKET KVKVQAVQRH PFKPKLAHID FLRA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.0
Match:	1b75A
Description:	Ribosomal protein L25
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	3.20160657268678	bayes_pls_golite062009
structural molecule activity	2.91807402311048	bayes_pls_golite062009
5S rRNA binding	1.81739845276686	bayes_pls_golite062009
nucleic acid binding	1.69231105225212	bayes_pls_golite062009
binding	1.17696230219913	bayes_pls_golite062009
RNA binding	1.10721612326963	bayes_pls_golite062009
rRNA binding	1.09906733598731	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: