YRC Public Data Repository - Protein Structure Prediction

Protein:	RL13_YERPY
Organism:	Yersinia pseudotuberculosis YPIII
Length:	142 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 RL13_YERPY.

Description	E-value	Query Range	Subject Range
gi\|26249811, gi\|... - gi\|26249811\|ref\|NP_755851.1\| 50S ribosomal protein L13 [Escherichia coli CFT073], gi\|26110239\|gb\|AAN... gi\|254038390, gi... - gi\|254038390\|ref\|ZP_04872448.1\| 50S ribosomal subunit protein L13 [Escherichia sp. 1_1_43], gi\|22684... gi\|24114518, gi\|... - ref\|NP_709028.1\| 50S ribosomal subunit protein L13 [Shigella flexneri 2a str. 301], gb\|AAN44735.1\| ... gi\|91212650, gi\|... - gi\|91212650\|ref\|YP_542636.1\| 50S ribosomal subunit protein L13 [Escherichia coli UTI89], gi\|91074224... gi\|237706023, gi... - gi\|237706023\|ref\|ZP_04536504.1\| 50S ribosomal subunit protein L13 [Escherichia sp. 3_2_53FAA], gi\|22...	2.0E-56	[1..142]	[26..167]
gi\|114773863, gi... - gi\|114773863\|ref\|ZP_01450822.1\| 50S ribosomal subunit protein L13 [alpha proteobacterium HTCC2255], ... gi\|114773863 - gi\|114773863\|ref\|ZP_01450822.1\| 50S ribosomal subunit protein L13 [alpha proteobacterium HTCC2255] gi\|221135443 - gi\|221135443\|ref\|ZP_03561746.1\| 50S ribosomal protein L13 [Glaciecola sp. HTCC2999]	9.0E-56	[1..142]	[1..142]
gi\|110807093, gi... - gi\|110807093\|ref\|YP_690613.1\| 50S ribosomal subunit protein L13 [Shigella flexneri 5 str. 8401], gi\|...	9.0E-56	[1..142]	[19..160]
RL13_HAES1 - 50S ribosomal protein L13 OS=Haemophilus somnus (strain 129Pt) GN=rplM PE=3 SV=1	2.0E-55	[1..142]	[1..142]
RL13_HISS2 - 50S ribosomal protein L13 OS=Histophilus somni (strain 2336) GN=rplM PE=3 SV=1	2.0E-55	[1..142]	[1..142]
RL13_SYMTH - 50S ribosomal protein L13 OS=Symbiobacterium thermophilum GN=rplM PE=3 SV=1 RL13_SYMTH - 50S ribosomal protein L13 OS=Symbiobacterium thermophilum (strain T / IAM 14863) GN=rplM PE=3 SV=1	4.0E-55	[2..142]	[3..143]
gi\|68517336, gi\|... - gi\|68544959\|ref\|ZP_00584516.1\| Ribosomal protein L13, bacterial and organelle form [Shewanella balti...	5.0E-55	[1..142]	[7..148]
RL13_PHOLL - 50S ribosomal protein L13 OS=Photorhabdus luminescens subsp. laumondii GN=rplM PE=3 SV=1 gi\|253782577, gi... - gi\|253991127\|ref\|YP_003042483.1\| 50s ribosomal protein l13 [Photorhabdus asymbiotica], gi\|253782577\|... RL13_PHOLL - 50S ribosomal protein L13 OS=Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CIP 10556...	8.0E-55	[1..142]	[1..142]
RL13_SHIB3 - 50S ribosomal protein L13 OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=rplM PE=3 S... RL13_SHIBS - 50S ribosomal protein L13 OS=Shigella boydii serotype 4 (strain Sb227) GN=rplM PE=3 SV=1	1.0E-54	[1..142]	[1..142]
gi\|238714001, gi... - gi\|77957463\|ref\|ZP_00821518.1\| COG0102: Ribosomal protein L13 [Yersinia bercovieri ATCC 43970], gi\|2... gi\|77963493, gi\|... - gi\|77963493\|ref\|ZP_00827302.1\| COG0102: Ribosomal protein L13 [Yersinia mollaretii ATCC 43969], gi\|2...	1.0E-54	[1..142]	[1..142]

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Predicted Domain #1

Region A:
Residues: [1-142]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKTFTAKPET VKRDWYVVDA SGKTLGRLAT ELARRLRGKH KAEYTPHVDT GDYIIVLNAE  60
   61 KVAVTGNKRT DKIYYHHTGF VGGIKQATFE EMIARRPERV IEIAVKGMLP KGPLGRAMYR 120
  121 KLKVYAGTEH NHAAQQPQVL DI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	56.0
Match:	1p85H
Description:	70S ribosome functional complex
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
structural constituent of ribosome	10.0286073270483	bayes_pls_golite062009
structural molecule activity	9.45133141168812	bayes_pls_golite062009
binding	1.22159759850364	bayes_pls_golite062009
RNA binding	0.840527362301162	bayes_pls_golite062009
nucleic acid binding	0.513360853458228	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: