YRC Public Data Repository - Protein Structure Prediction

Protein:	RL3_ECOLI
Organism:	Escherichia coli
Length:	209 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 RL3_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|90437056, gi\|... - gi\|90581758\|ref\|ZP_01237542.1\| 50S ribosomal protein L3 [Vibrio angustum S14], gi\|90437056\|gb\|EAS622... gi\|89047583, gi\|... - gi\|89076770\|ref\|ZP_01163043.1\| 50S ribosomal protein L3 [Photobacterium sp. SKA34], gi\|89047583\|gb\|E...	278.0	[0..1]	[209..1]
gi\|91187418, gi\|... - gi\|91229293\|ref\|ZP_01262910.1\| 50S ribosomal protein L3 [Vibrio alginolyticus 12G01], gi\|91187418\|gb...	275.0	[0..1]	[209..1]
gi\|229516849, gi... - gi\|229516849\|ref\|ZP_04406295.1\| LSU ribosomal protein L3p (L3e) [Vibrio cholerae RC9], gi\|229345912\|... gi\|229521662, gi... - gi\|229521662\|ref\|ZP_04411080.1\| LSU ribosomal protein L3p (L3e) [Vibrio cholerae TM 11079-80], gi\|22... gi\|229524577, gi... - gi\|229524577\|ref\|ZP_04413982.1\| LSU ribosomal protein L3p (L3e) [Vibrio cholerae bv. albensis VL426]... gi\|229335106, gi... - gi\|229527474\|ref\|ZP_04416866.1\| LSU ribosomal protein L3p (L3e) [Vibrio cholerae 12129(1)], gi\|22933... gi\|229369513, gi... - gi\|229606858\|ref\|YP_002877506.1\| LSU ribosomal protein L3p (L3e) [Vibrio cholerae MJ-1236], gi\|22936... RL3_VIBCH - 50S ribosomal protein L3 OS=Vibrio cholerae GN=rplC PE=3 SV=1 RL3_VIBCH - 50S ribosomal protein L3 OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN... gi\|254292178, gi... - gi\|254292178\|ref\|ZP_04962948.1\| ribosomal protein L3 [Vibrio cholerae AM-19226], gi\|197750482\|ref\|YP... gi\|153831409, gi... - gi\|153831409\|ref\|ZP_01984076.1\| ribosomal protein L3 [Vibrio cholerae 623-39], gi\|148873110\|gb\|EDL71... gi\|149738687, gi... - gi\|153827414\|ref\|ZP_01980081.1\| ribosomal protein L3 [Vibrio cholerae MZO-2], gi\|149738687\|gb\|EDM530... gi\|153225384, gi... - gi\|153225384\|ref\|ZP_01954740.1\| ribosomal protein L3 [Vibrio cholerae MAK 757], gi\|124117331\|gb\|EAY3... RL3_VIBCM - 50S ribosomal protein L3 OS=Vibrio cholerae serotype O1 (strain M66-2) GN=rplC PE=3 SV=1 gi\|229507352, gi... - gi\|229507352\|ref\|ZP_04396857.1\| LSU ribosomal protein L3p (L3e) [Vibrio cholerae BX 330286], gi\|2293... RL3_VIBC3 - 50S ribosomal protein L3 OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O... gi\|229353199, gi... - gi\|229509725\|ref\|ZP_04399206.1\| LSU ribosomal protein L3p (L3e) [Vibrio cholerae B33], gi\|229353199\|... gi\|75828660, gi\|... - gi\|75828660\|ref\|ZP_00758020.1\| COG0087: Ribosomal protein L3 [Vibrio cholerae MO10], gi\|254851136\|re... gi\|229349396, gi... - gi\|229513519\|ref\|ZP_04402983.1\| LSU ribosomal protein L3p (L3e) [Vibrio cholerae TMA 21], gi\|2293493...	275.0	[0..1]	[209..1]
gi\|84394648, gi\|... - gi\|84394648\|ref\|ZP_00993340.1\| 50S ribosomal protein L3 [Vibrio splendidus 12B01], gi\|84374730\|gb\|EA... gi\|85833333, gi\|... - gi\|86148881\|ref\|ZP_01067133.1\| 50S ribosomal protein L3 [Vibrio sp. MED222], gi\|85833333\|gb\|EAQ51539... RL3_VIBTL - 50S ribosomal protein L3 OS=Vibrio tasmaniensis (strain LGP32) GN=rplC PE=3 SV=1	275.0	[0..1]	[209..1]
RL3_VIBPA - 50S ribosomal protein L3 OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) GN=rplC PE=... RL3_VIBPA - 50S ribosomal protein L3 OS=Vibrio parahaemolyticus GN=rplC PE=3 SV=1 gi\|153840341, gi... - gi\|153840341\|ref\|ZP_01993008.1\| ribosomal protein L3 [Vibrio parahaemolyticus AQ3810], gi\|149745999\|...	275.0	[0..1]	[209..1]
RL3_PHOPR - 50S ribosomal protein L3 OS=Photobacterium profundum (strain SS9) GN=rplC PE=3 SV=1 RL3_PHOPR - 50S ribosomal protein L3 OS=Photobacterium profundum GN=rplC PE=3 SV=1	275.0	[0..1]	[209..1]
gi\|90415162, gi\|... - gi\|90415162\|ref\|ZP_01223111.1\| 50S ribosomal protein L3 [Photobacterium profundum 3TCK], gi\|90323709...	274.0	[0..1]	[209..1]
RL3_VIBVU - 50S ribosomal protein L3 OS=Vibrio vulnificus (strain CMCP6) GN=rplC PE=3 SV=1 RL3_VIBVU - 50S ribosomal protein L3 OS=Vibrio vulnificus GN=rplC PE=3 SV=1	272.0	[0..1]	[209..1]
RL3_VIBVY - 50S ribosomal protein L3 OS=Vibrio vulnificus (strain YJ016) GN=rplC PE=3 SV=1	272.0	[0..1]	[209..1]
gi\|114548520, gi... - gi\|114770827\|ref\|ZP_01448295.1\| 50S ribosomal subunit protein L3 [alpha proteobacterium HTCC2255], g... gi\|114770827 - gi\|114770827\|ref\|ZP_01448295.1\| 50S ribosomal subunit protein L3 [alpha proteobacterium HTCC2255] gi\|221133614 - gi\|221133614\|ref\|ZP_03559919.1\| 50S ribosomal subunit protein L3 [Glaciecola sp. HTCC2999]	268.0	[0..2]	[209..3]

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Predicted Domain #1

Region A:
Residues: [1-209]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIGLVGKKVG MTRIFTEDGV SIPVTVIEVE ANRVTQVKDL ANDGYRAIQV TTGAKKANRV  60
   61 TKPEAGHFAK AGVEAGRGLW EFRLAEGEEF TVGQSISVEL FADVKKVDVT GTSKGKGFAG 120
  121 TVKRWNFRTQ DATHGNSLSH RVPGSIGQNQ TPGKVFKGKK MAGQMGNERV TVQSLDVVRV 180
  181 DAERNLLLVK GAVPGATGSD LIVKPAVKA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	71.0
Match:	1p85B
Description:	70S ribosome functional complex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	8.74976995123472	bayes_pls_golite062009
structural molecule activity	8.17182185344538	bayes_pls_golite062009
translation initiation factor activity	2.68619850021832	bayes_pls_golite062009
translation regulator activity	2.20347076721097	bayes_pls_golite062009
translation factor activity, nucleic acid binding	2.18748808024313	bayes_pls_golite062009
nucleic acid binding	1.73237871506838	bayes_pls_golite062009
binding	1.44145316612405	bayes_pls_golite062009
peptidyltransferase activity	1.25473146071242	bayes_pls_golite062009
RNA binding	0.798696391797967	bayes_pls_golite062009
protein binding	0.449435758237719	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: