YRC Public Data Repository - Protein Structure Prediction

Protein:	RL4_ECOLI
Organism:	Escherichia coli
Length:	201 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 RL4_ECOLI.

Description	E-value	Query Range	Subject Range
RL4_GEOSE - 50S ribosomal protein L4 OS=Geobacillus stearothermophilus GN=rplD PE=1 SV=1	4.0E-69	[7..201]	[12..207]
RL4_GEOKA - 50S ribosomal protein L4 OS=Geobacillus kaustophilus (strain HTA426) GN=rplD PE=3 SV=1 gi\|220706749, gi... - gi\|221089323\|ref\|ZP_03558843.1\| ribosomal protein L4/L1e [Geobacillus sp. Y412MC61], gi\|220706749\|gb... RL4_GEOKA - 50S ribosomal protein L4 OS=Geobacillus kaustophilus GN=rplD PE=3 SV=1	2.0E-68	[7..201]	[12..207]
RL4_BACHD - 50S ribosomal protein L4 OS=Bacillus halodurans (strain ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9... RL4_BACHD - 50S ribosomal protein L4 OS=Bacillus halodurans GN=rplD PE=3 SV=1	5.0E-68	[2..201]	[3..207]
RL4_BACSK - 50S ribosomal protein L4 OS=Bacillus clausii (strain KSM-K16) GN=rplD PE=3 SV=1	5.0E-68	[8..201]	[13..207]
gi\|228727313, gi... - gi\|229041016\|ref\|ZP_04189779.1\| 50S ribosomal protein L4 [Bacillus cereus AH676], gi\|228727313\|gb\|EE... gi\|228715235, gi... - gi\|229067876\|ref\|ZP_04201193.1\| 50S ribosomal protein L4 [Bacillus cereus F65185], gi\|228715235\|gb\|E... gi\|228776356, gi... - gi\|228983366\|ref\|ZP_04143579.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar tochigiensi... RL4_BACAN - 50S ribosomal protein L4 OS=Bacillus anthracis GN=rplD PE=3 SV=1 gi\|228733347, gi... - gi\|229027959\|ref\|ZP_04184112.1\| 50S ribosomal protein L4 [Bacillus cereus AH1271], gi\|228733347\|gb\|E... gi\|229094833, gi... - gi\|229094833\|ref\|ZP_04225838.1\| 50S ribosomal protein L4 [Bacillus cereus Rock3-29], gi\|228688576\|gb... gi\|228682489, gi... - gi\|229100910\|ref\|ZP_04231714.1\| 50S ribosomal protein L4 [Bacillus cereus Rock3-28], gi\|228682489\|gb... gi\|229074172, gi... - gi\|229074172\|ref\|ZP_04207218.1\| 50S ribosomal protein L4 [Bacillus cereus Rock4-18], gi\|228708942\|gb... gi\|229089242, gi... - gi\|229089242\|ref\|ZP_04220523.1\| 50S ribosomal protein L4 [Bacillus cereus Rock3-42], gi\|228694081\|gb... gi\|229119773, gi... - gi\|229119773\|ref\|ZP_04249034.1\| 50S ribosomal protein L4 [Bacillus cereus 95/8201], gi\|228663674\|gb\|... gi\|228657820, gi... - gi\|229125628\|ref\|ZP_04254660.1\| 50S ribosomal protein L4 [Bacillus cereus BDRD-Cer4], gi\|228657820\|g... gi\|228675646, gi... - gi\|229107797\|ref\|ZP_04237433.1\| 50S ribosomal protein L4 [Bacillus cereus Rock1-15], gi\|228675646\|gb... gi\|228669658, gi... - gi\|229113787\|ref\|ZP_04243222.1\| 50S ribosomal protein L4 [Bacillus cereus Rock1-3], gi\|228669658\|gb\|... gi\|229148520, gi... - gi\|229148520\|ref\|ZP_04276776.1\| 50S ribosomal protein L4 [Bacillus cereus m1550], gi\|228634936\|gb\|EE... gi\|229153889, gi... - gi\|229153889\|ref\|ZP_04282019.1\| 50S ribosomal protein L4 [Bacillus cereus ATCC 4342], gi\|228629570\|g... gi\|229136957, gi... - gi\|229136957\|ref\|ZP_04265584.1\| 50S ribosomal protein L4 [Bacillus cereus BDRD-ST26], gi\|228646495\|g... gi\|229142917, gi... - gi\|229142917\|ref\|ZP_04271358.1\| 50S ribosomal protein L4 [Bacillus cereus BDRD-ST24], gi\|228640538\|g... gi\|229176711, gi... - gi\|229176711\|ref\|ZP_04304115.1\| 50S ribosomal protein L4 [Bacillus cereus 172560W], gi\|228606754\|gb\|... gi\|229182505, gi... - gi\|229182505\|ref\|ZP_04309756.1\| 50S ribosomal protein L4 [Bacillus cereus BGSC 6E1], gi\|228600960\|gb... gi\|229159284, gi... - gi\|229159284\|ref\|ZP_04287308.1\| 50S ribosomal protein L4 [Bacillus cereus R309803], gi\|228624176\|gb\|... gi\|228612502, gi... - gi\|229170962\|ref\|ZP_04298563.1\| 50S ribosomal protein L4 [Bacillus cereus MM3], gi\|228612502\|gb\|EEK6... RL4_BACAA - 50S ribosomal protein L4 OS=Bacillus anthracis (strain A0248) GN=rplD PE=3 SV=1 RL4_BACAH - 50S ribosomal protein L4 OS=Bacillus thuringiensis (strain Al Hakam) GN=rplD PE=3 SV=1 gi\|254684385 - gi\|254684385\|ref\|ZP_05148245.1\| 50S ribosomal protein L4 [Bacillus anthracis str. CNEVA-9066] gi\|229188396, gi... - gi\|229188396\|ref\|ZP_04315444.1\| 50S ribosomal protein L4 [Bacillus cereus ATCC 10876], gi\|228595070\|... gi\|229194501, gi... - gi\|229194501\|ref\|ZP_04321304.1\| 50S ribosomal protein L4 [Bacillus cereus m1293], gi\|228588967\|gb\|EE... gi\|254739508 - gi\|254739508\|ref\|ZP_05197205.1\| 50S ribosomal protein L4 [Bacillus anthracis str. Kruger B] gi\|254751227 - gi\|254751227\|ref\|ZP_05203265.1\| 50S ribosomal protein L4 [Bacillus anthracis str. Vollum] gi\|254720833 - gi\|254720833\|ref\|ZP_05182625.1\| 50S ribosomal protein L4 [Bacillus anthracis str. A1055] gi\|254733588 - gi\|254733588\|ref\|ZP_05191308.1\| 50S ribosomal protein L4 [Bacillus anthracis str. Western North Amer... RL4_BACCR - 50S ribosomal protein L4 OS=Bacillus cereus (strain ATCC 14579 / DSM 31 / JCM 2152 / NBRC 15305 / NC... gi\|254756766 - gi\|254756766\|ref\|ZP_05208795.1\| 50S ribosomal protein L4 [Bacillus anthracis str. Australia 94] gi\|206732852, gi... - gi\|206972278\|ref\|ZP_03233225.1\| 50S ribosomal protein L4 [Bacillus cereus AH1134], gi\|206732852\|gb\|E... RL4_BACC4 - 50S ribosomal protein L4 OS=Bacillus cereus (strain B4264) GN=rplD PE=3 SV=1 RL4_BACC7 - 50S ribosomal protein L4 OS=Bacillus cereus (strain AH187) GN=rplD PE=3 SV=1 RL4_BACAC - 50S ribosomal protein L4 OS=Bacillus anthracis (strain CDC 684 / NRRL 3495) GN=rplD PE=3 SV=1 gi\|228898864, gi... - gi\|228898864\|ref\|ZP_04063146.1\| 50S ribosomal protein L4 [Bacillus thuringiensis IBL 4222], gi\|22886... RL4_BACC3 - 50S ribosomal protein L4 OS=Bacillus cereus (strain 03BB102) GN=rplD PE=3 SV=1 gi\|228919061, gi... - gi\|228919061\|ref\|ZP_04082440.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar huazhongens... gi\|228834286, gi... - gi\|228925364\|ref\|ZP_04088460.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar pondicherie... gi\|228905908, gi... - gi\|228905908\|ref\|ZP_04069805.1\| 50S ribosomal protein L4 [Bacillus thuringiensis IBL 200], gi\|228853... gi\|228912850, gi... - gi\|228912850\|ref\|ZP_04076497.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar pulsiensis ... gi\|228943917, gi... - gi\|228943917\|ref\|ZP_04106302.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar monterrey B... gi\|228950659, gi... - gi\|228950659\|ref\|ZP_04112793.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar kurstaki st... gi\|228828041, gi... - gi\|228931613\|ref\|ZP_04094519.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar andalousien... gi\|228937414, gi... - gi\|228937414\|ref\|ZP_04100060.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar berliner AT... RL4_BACC0 - 50S ribosomal protein L4 OS=Bacillus cereus (strain AH820) GN=rplD PE=3 SV=1 gi\|228789409, gi... - gi\|228970300\|ref\|ZP_04130959.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar thuringiens... RL4_BACC2 - 50S ribosomal protein L4 OS=Bacillus cereus (strain G9842) GN=rplD PE=3 SV=1 gi\|228976870, gi... - gi\|228976870\|ref\|ZP_04137282.1\| 50S ribosomal protein L4 [Bacillus thuringiensis Bt407], gi\|22878284... gi\|228803117, gi... - gi\|228956552\|ref\|ZP_04118348.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar pakistani s... RL4_BACCQ - 50S ribosomal protein L4 OS=Bacillus cereus (strain Q1) GN=rplD PE=3 SV=1 gi\|228796469, gi... - gi\|228963211\|ref\|ZP_04124380.1\| 50S ribosomal protein L4 [Bacillus thuringiensis serovar sotto str. ... RL4_BACHK - 50S ribosomal protein L4 OS=Bacillus thuringiensis subsp. konkukian (strain 97-27) GN=rplD PE=3 SV=1 RL4_BACCZ - 50S ribosomal protein L4 OS=Bacillus cereus (strain ZK / E33L) GN=rplD PE=3 SV=1 gi\|47500515, gi\|... - gi\|47525367\|ref\|YP_016716.1\| 50S ribosomal protein L4 [Bacillus anthracis str. 'Ames Ancestor'], gi\|... gi\|49183145, gi\|... - gi\|49183145\|ref\|YP_026397.1\| 50S ribosomal protein L4 [Bacillus anthracis str. Sterne], gi\|49177072\|... gi\|30260302, gi\|... - gi\|30260302\|ref\|NP_842679.1\| 50S ribosomal protein L4 [Bacillus anthracis str. Ames], gi\|30253623\|gb... RL4_BACC1 - 50S ribosomal protein L4 OS=Bacillus cereus (strain ATCC 10987 / NRS 248) GN=rplD PE=3 SV=1 RL4_BACHK - 50S ribosomal protein L4 OS=Bacillus thuringiensis subsp. konkukian GN=rplD PE=3 SV=1	6.0E-67	[2..201]	[3..207]
gi\|89100348, gi\|... - gi\|89100348\|ref\|ZP_01173213.1\| 50S ribosomal protein L4 [Bacillus sp. NRRL B-14911], gi\|89084969\|gb\|...	2.0E-66	[8..201]	[13..207]
RL4_CLOTE - 50S ribosomal protein L4 OS=Clostridium tetani GN=rplD PE=3 SV=1 RL4_CLOTE - 50S ribosomal protein L4 OS=Clostridium tetani (strain Massachusetts / E88) GN=rplD PE=3 SV=1	3.0E-65	[7..201]	[12..206]
RL4_EXIS2 - 50S ribosomal protein L4 OS=Exiguobacterium sibiricum (strain DSM 17290 / JCM 13490 / 255-15) GN=rpl...	3.0E-65	[8..201]	[13..207]
RL4_BACLD - 50S ribosomal protein L4 OS=Bacillus licheniformis (strain ATCC 14580 / DSM 13 / JCM 2505 / NBRC 122...	6.0E-65	[2..201]	[3..207]
RL4_DESRM - 50S ribosomal protein L4 OS=Desulfotomaculum reducens (strain MI-1) GN=rplD PE=3 SV=1	6.0E-65	[7..201]	[12..206]

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Predicted Domain #1

Region A:
Residues: [1-201]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MELVLKDAQS ALTVSETTFG RDFNEALVHQ VVVAYAAGAR QGTRAQKTRA EVTGSGKKPW  60
   61 RQKGTGRARS GSIKSPIWRS GGVTFAARPQ DHSQKVNKKM YRGALKSILS ELVRQDRLIV 120
  121 VEKFSVEAPK TKLLAQKLKD MALEDVLIIT GELDENLFLA ARNLHKVDVR DATGIDPVSL 180
  181 IAFDKVVMTA DAVKQVEEML A

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	64.69897
Match:	1p85C
Description:	70S ribosome functional complex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	9.46714384821627	bayes_pls_golite062009
structural molecule activity	8.89019844429202	bayes_pls_golite062009
binding	1.20549540301208	bayes_pls_golite062009
protein binding	0.69049990447008	bayes_pls_golite062009
RNA binding	0.514741551458219	bayes_pls_golite062009
nucleic acid binding	0.491336126355036	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: