Citrus Sinensis ID: 035394

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50-
Protein Sequence
MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHHHcccccccEEEEEcccEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHHHHHcccccccEEEEEcccEEEEccccccHHHHcccc
Coil and Loop (DISEMBL)
MPSHKTFMIKKKLAKKMrqnrpiphwirmrtdntirynakrrhwrrtklgf
Flexible Loop (DISEMBL)
mpshktfmIKKKlakkmrqnrpiphwirmrtdntirynakrrhwrrtklgf
Low Complexity Region (SEG)
MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Disordered region (IsUnstruct)
**********************IPHWIRMRTDNTIRYNAK***********
Disordered Region (DISOPRED)
****KTF*IKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKL**
Disordered Region (DISEMBL)
********IKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Disordered Region (DISPRO)
****KTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKR**********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	51	2.2.26 [Sep-21-2011]
P51424	51	60S ribosomal protein L39	yes	no	1.0	1.0	0.941	2e-21
Q5SMI4	51	60S ribosomal protein L39	yes	no	1.0	1.0	0.960	2e-21
P51425	51	60S ribosomal protein L39	N/A	no	1.0	1.0	0.960	4e-21
P51426	51	60S ribosomal protein L39	yes	no	1.0	1.0	0.960	4e-21
Q6KAJ8	51	60S ribosomal protein L39	yes	no	1.0	1.0	0.960	4e-21
Q8L8W6	51	60S ribosomal protein L39	yes	no	1.0	1.0	0.901	4e-20
Q962S4	51	60S ribosomal protein L39	N/A	no	1.0	1.0	0.784	5e-17
Q6F482	51	60S ribosomal protein L39	N/A	no	1.0	1.0	0.784	5e-17
Q96W55	51	60S ribosomal protein L39	N/A	no	1.0	1.0	0.745	4e-16
Q98TF5	51	60S ribosomal protein L39	yes	no	1.0	1.0	0.764	2e-15

>sp|P51424|RL391_ARATH 60S ribosomal protein L39-1 OS=Arabidopsis thaliana GN=RPL39A PE=3 SV=2

 Score =  101 bits (251), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 48/51 (94%), Positives = 50/51 (98%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHK+FMIKKKL KKMRQNRPIPHWIR+RTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKSFMIKKKLGKKMRQNRPIPHWIRLRTDNTIRYNAKRRHWRRTKLGF 51

Arabidopsis thaliana (taxid: 3702)

>sp|Q5SMI4|RL393_ORYSJ 60S ribosomal protein L39-3 OS=Oryza sativa subsp. japonica GN=RPL39C PE=3 SV=1

 Score =  100 bits (250), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 49/51 (96%), Positives = 50/51 (98%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTF IKKKLAKKMRQNRPIP+WIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFQIKKKLAKKMRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKLGF 51

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P51425|RL39_MAIZE 60S ribosomal protein L39 OS=Zea mays GN=RPL39 PE=3 SV=1

 Score =  100 bits (248), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 49/51 (96%), Positives = 50/51 (98%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTF IKKKLAKKMRQNRPIP+WIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFRIKKKLAKKMRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKLGF 51

Zea mays (taxid: 4577)

>sp|P51426|RL392_ORYSJ 60S ribosomal protein L39-2 OS=Oryza sativa subsp. japonica GN=RPL39B PE=3 SV=2

 Score =  100 bits (248), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 49/51 (96%), Positives = 50/51 (98%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTF IKKKLAKKMRQNRPIP+WIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFRIKKKLAKKMRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKLGF 51

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q6KAJ8|RL391_ORYSJ 60S ribosomal protein L39-1 OS=Oryza sativa subsp. japonica GN=RPL39A PE=3 SV=2

 Score =  100 bits (248), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 49/51 (96%), Positives = 50/51 (98%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTF IKKKLAKKMRQNRPIP+WIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFRIKKKLAKKMRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKLGF 51

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q8L8W6|RL392_ARATH 60S ribosomal protein L39-2 OS=Arabidopsis thaliana GN=RPL39B PE=3 SV=1

 Score = 96.7 bits (239), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 46/51 (90%), Positives = 49/51 (96%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHK+FMIKKKL KKMRQNRPIP+WIR+RTDN IRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKSFMIKKKLGKKMRQNRPIPNWIRLRTDNKIRYNAKRRHWRRTKLGF 51

Arabidopsis thaliana (taxid: 3702)

>sp|Q962S4|RL39_SPOFR 60S ribosomal protein L39 OS=Spodoptera frugiperda GN=RpL39 PE=3 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/51 (78%), Positives = 46/51 (90%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          M +HKTF+IK+KLAKK++QNRPIP W+RMRT NTIRYNAKRRHWRRTKL  
Sbjct: 1  MSAHKTFIIKRKLAKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKLKL 51

Spodoptera frugiperda (taxid: 7108)

>sp|Q6F482|RL39_PLUXY 60S ribosomal protein L39 OS=Plutella xylostella GN=RpL39 PE=3 SV=1

 Score = 86.3 bits (212), Expect = 5e-17,   Method: Compositional matrix adjust.
 Identities = 40/51 (78%), Positives = 46/51 (90%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          M +HKTF+IK+KLAKK++QNRPIP W+RMRT NTIRYNAKRRHWRRTKL  
Sbjct: 1  MSAHKTFIIKRKLAKKLKQNRPIPQWVRMRTGNTIRYNAKRRHWRRTKLKL 51

Plutella xylostella (taxid: 51655)

>sp|Q96W55|RL39_CANAX 60S ribosomal protein L39 OS=Candida albicans GN=RPL39 PE=3 SV=1

 Score = 83.2 bits (204), Expect = 4e-16,   Method: Compositional matrix adjust.
 Identities = 38/51 (74%), Positives = 43/51 (84%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPS K+F  K+KLAK  +QNRP+P WIR+RTDN IRYNAKRRHWRRTKLG 
Sbjct: 1  MPSQKSFRTKQKLAKAQKQNRPLPQWIRLRTDNKIRYNAKRRHWRRTKLGI 51

Candida albicans (taxid: 5476)

>sp|Q98TF5|RL39_CHICK 60S ribosomal protein L39 OS=Gallus gallus GN=RPL39 PE=2 SV=1

 Score = 81.3 bits (199), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 39/51 (76%), Positives = 43/51 (84%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          M SHKTF IK+ LAKK +QNRPIP WIRM+T N IRYN+KRRHWRRTKLG 
Sbjct: 1  MSSHKTFKIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

Gallus gallus (taxid: 9031)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	51
296082089	112	unnamed protein product [Vitis vinifera]	1.0	0.455	0.980	2e-21
296084596	70	unnamed protein product [Vitis vinifera]	1.0	0.728	1.0	4e-21
296084598	72	unnamed protein product [Vitis vinifera]	1.0	0.708	1.0	4e-21
255565061	67	ribosomal protein L39e, putative [Ricinu	1.0	0.761	0.980	5e-21
209967447	51	60S ribosomal protein L39 [Vernicia ford	1.0	1.0	1.0	7e-21
330318571	51	ribosomal protein L39e [Camellia sinensi	1.0	1.0	0.980	2e-20
225430396	51	PREDICTED: 60S ribosomal protein L39-3-l	1.0	1.0	0.980	2e-20
297802832	51	60S ribosomal protein L39 [Arabidopsis l	1.0	1.0	0.960	2e-20
224091665	51	predicted protein [Populus trichocarpa]	1.0	1.0	0.980	5e-20
357466073	51	60S ribosomal protein L39 [Medicago trun	1.0	1.0	0.960	5e-20

>gi|296082089|emb|CBI21094.3| unnamed protein product [Vitis vinifera]

 Score =  106 bits (264), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 50/51 (98%), Positives = 51/51 (100%)

Query: 1   MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
           MPSHKTF+IKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 62  MPSHKTFIIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 112

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296084596|emb|CBI25617.3| unnamed protein product [Vitis vinifera]

 Score =  105 bits (262), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 51/51 (100%), Positives = 51/51 (100%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 20 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 70

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296084598|emb|CBI25619.3| unnamed protein product [Vitis vinifera]

 Score =  105 bits (261), Expect = 4e-21,   Method: Compositional matrix adjust.
 Identities = 51/51 (100%), Positives = 51/51 (100%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 22 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 72

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255565061|ref|XP_002523523.1| ribosomal protein L39e, putative [Ricinus communis] gi|223537230|gb|EEF38862.1| ribosomal protein L39e, putative [Ricinus communis]

 Score =  105 bits (261), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 50/51 (98%), Positives = 51/51 (100%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTF+IKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 17 MPSHKTFIIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 67

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|209967447|gb|ACJ02352.1| 60S ribosomal protein L39 [Vernicia fordii] gi|257219568|gb|ACV50437.1| 60S ribosomal protein L39 [Jatropha curcas]

 Score =  104 bits (260), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 51/51 (100%), Positives = 51/51 (100%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51

Source: Vernicia fordii

Species: Vernicia fordii

Genus: Vernicia

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|330318571|gb|AEC10956.1| ribosomal protein L39e [Camellia sinensis]

 Score =  103 bits (256), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 50/51 (98%), Positives = 51/51 (100%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTFMIKKKLAKK+RQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFMIKKKLAKKIRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51

Source: Camellia sinensis

Species: Camellia sinensis

Genus: Camellia

Family: Theaceae

Order: Ericales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430396|ref|XP_002285383.1| PREDICTED: 60S ribosomal protein L39-3-like [Vitis vinifera]

 Score =  103 bits (256), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 50/51 (98%), Positives = 51/51 (100%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTF+IKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFIIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297802832|ref|XP_002869300.1| 60S ribosomal protein L39 [Arabidopsis lyrata subsp. lyrata] gi|297821901|ref|XP_002878833.1| 60S ribosomal protein L39 [Arabidopsis lyrata subsp. lyrata] gi|297315136|gb|EFH45559.1| 60S ribosomal protein L39 [Arabidopsis lyrata subsp. lyrata] gi|297324672|gb|EFH55092.1| 60S ribosomal protein L39 [Arabidopsis lyrata subsp. lyrata]

 Score =  102 bits (255), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 49/51 (96%), Positives = 51/51 (100%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHK+FMIKKKLAKKMRQNRPIPHWIR+RTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKSFMIKKKLAKKMRQNRPIPHWIRLRTDNTIRYNAKRRHWRRTKLGF 51

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224091665|ref|XP_002309322.1| predicted protein [Populus trichocarpa] gi|224092556|ref|XP_002309660.1| predicted protein [Populus trichocarpa] gi|224092560|ref|XP_002309662.1| predicted protein [Populus trichocarpa] gi|224142435|ref|XP_002324563.1| predicted protein [Populus trichocarpa] gi|224143262|ref|XP_002324897.1| predicted protein [Populus trichocarpa] gi|224150169|ref|XP_002336917.1| predicted protein [Populus trichocarpa] gi|118484124|gb|ABK93945.1| unknown [Populus trichocarpa] gi|118484214|gb|ABK93987.1| unknown [Populus trichocarpa] gi|118484655|gb|ABK94198.1| unknown [Populus trichocarpa] gi|118485050|gb|ABK94389.1| unknown [Populus trichocarpa] gi|118485082|gb|ABK94404.1| unknown [Populus trichocarpa] gi|118485092|gb|ABK94409.1| unknown [Populus trichocarpa] gi|118486670|gb|ABK95172.1| unknown [Populus trichocarpa] gi|222837127|gb|EEE75506.1| predicted protein [Populus trichocarpa] gi|222855298|gb|EEE92845.1| predicted protein [Populus trichocarpa] gi|222855636|gb|EEE93183.1| predicted protein [Populus trichocarpa] gi|222855638|gb|EEE93185.1| predicted protein [Populus trichocarpa] gi|222865997|gb|EEF03128.1| predicted protein [Populus trichocarpa] gi|222866331|gb|EEF03462.1| predicted protein [Populus trichocarpa]

 Score =  101 bits (252), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 50/51 (98%), Positives = 50/51 (98%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTF IKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFRIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357466073|ref|XP_003603321.1| 60S ribosomal protein L39 [Medicago truncatula] gi|355492369|gb|AES73572.1| 60S ribosomal protein L39 [Medicago truncatula] gi|388513831|gb|AFK44977.1| unknown [Medicago truncatula] gi|388516927|gb|AFK46525.1| unknown [Medicago truncatula]

 Score =  101 bits (252), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 49/51 (96%), Positives = 51/51 (100%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTF+IKKKLAKKMRQNRPIP+WIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFVIKKKLAKKMRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKLGF 51

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	51
TAIR|locus:505006541	51	AT4G31985 [Arabidopsis thalian	1.0	1.0	0.941	1.4e-23
TAIR|locus:2076527	51	AT3G02190 [Arabidopsis thalian	1.0	1.0	0.901	3.4e-22
TAIR|locus:2059541	44	AT2G25210 [Arabidopsis thalian	0.862	1.0	0.954	9.2e-20
ASPGD|ASPL0000049335	51	AN2301 [Emericella nidulans (t	0.980	0.980	0.76	4.6e-18
DICTYBASE|DDB_G0302511	51	rpl39 "60S ribosomal protein L	0.980	0.980	0.78	4.6e-18
UNIPROTKB|Q98TF5	51	RPL39 "60S ribosomal protein L	0.980	0.980	0.78	9.5e-18
UNIPROTKB|Q3T051	51	RPL39 "60S ribosomal protein L	0.980	0.980	0.78	9.5e-18
UNIPROTKB|J9NZS7	51	RPL39 "Uncharacterized protein	0.980	0.980	0.78	9.5e-18
UNIPROTKB|P62891	51	RPL39 "60S ribosomal protein L	0.980	0.980	0.78	9.5e-18
UNIPROTKB|K7GP63	51	LOC100736568 "Uncharacterized	0.980	0.980	0.78	9.5e-18

TAIR|locus:505006541 AT4G31985 [Arabidopsis thaliana (taxid:3702)]

 Score = 271 (100.5 bits), Expect = 1.4e-23, P = 1.4e-23
 Identities = 48/51 (94%), Positives = 50/51 (98%)

Query:     1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
             MPSHK+FMIKKKL KKMRQNRPIPHWIR+RTDNTIRYNAKRRHWRRTKLGF
Sbjct:     1 MPSHKSFMIKKKLGKKMRQNRPIPHWIRLRTDNTIRYNAKRRHWRRTKLGF 51

GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA

TAIR|locus:2076527 AT3G02190 [Arabidopsis thaliana (taxid:3702)]

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 46/51 (90%), Positives = 49/51 (96%)

Query:     1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
             MPSHK+FMIKKKL KKMRQNRPIP+WIR+RTDN IRYNAKRRHWRRTKLGF
Sbjct:     1 MPSHKSFMIKKKLGKKMRQNRPIPNWIRLRTDNKIRYNAKRRHWRRTKLGF 51

GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS

GO:0005840 "ribosome" evidence=ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA

GO:0006626 "protein targeting to mitochondrion" evidence=RCA

TAIR|locus:2059541 AT2G25210 [Arabidopsis thaliana (taxid:3702)]

 Score = 235 (87.8 bits), Expect = 9.2e-20, P = 9.2e-20
 Identities = 42/44 (95%), Positives = 43/44 (97%)

Query:     8 MIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
             MIKKKL KKMRQNRPIPHWIR+RTDNTIRYNAKRRHWRRTKLGF
Sbjct:     1 MIKKKLGKKMRQNRPIPHWIRLRTDNTIRYNAKRRHWRRTKLGF 44

GO:0003735 "structural constituent of ribosome" evidence=IEA;ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA

ASPGD|ASPL0000049335 AN2301 [Emericella nidulans (taxid:162425)]

 Score = 219 (82.2 bits), Expect = 4.6e-18, P = 4.6e-18
 Identities = 38/50 (76%), Positives = 44/50 (88%)

Query:     1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
             MPSHK+F  K+KLAK  +QNRPIP WIR+RT NTIRYNAKRRHWR+T+LG
Sbjct:     1 MPSHKSFRTKQKLAKAQKQNRPIPQWIRLRTGNTIRYNAKRRHWRKTRLG 50

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

DICTYBASE|DDB_G0302511 rpl39 "60S ribosomal protein L39" [Dictyostelium discoideum (taxid:44689)]

 Score = 219 (82.2 bits), Expect = 4.6e-18, P = 4.6e-18
 Identities = 39/50 (78%), Positives = 43/50 (86%)

Query:     1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
             MPS+KT  IKK L KK +QNRP+P WIR+RTDNTIRYN KRRHWRRTKLG
Sbjct:     1 MPSNKTLKIKKILGKKQKQNRPVPQWIRLRTDNTIRYNNKRRHWRRTKLG 50

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

UNIPROTKB|Q98TF5 RPL39 "60S ribosomal protein L39" [Gallus gallus (taxid:9031)]

 Score = 216 (81.1 bits), Expect = 9.5e-18, P = 9.5e-18
 Identities = 39/50 (78%), Positives = 43/50 (86%)

Query:     1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
             M SHKTF IK+ LAKK +QNRPIP WIRM+T N IRYN+KRRHWRRTKLG
Sbjct:     1 MSSHKTFKIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLG 50

GO:0003735 "structural constituent of ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

UNIPROTKB|Q3T051 RPL39 "60S ribosomal protein L39" [Bos taurus (taxid:9913)]

 Score = 216 (81.1 bits), Expect = 9.5e-18, P = 9.5e-18
 Identities = 39/50 (78%), Positives = 43/50 (86%)

Query:     1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
             M SHKTF IK+ LAKK +QNRPIP WIRM+T N IRYN+KRRHWRRTKLG
Sbjct:     1 MSSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLG 50

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

UNIPROTKB|J9NZS7 RPL39 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 216 (81.1 bits), Expect = 9.5e-18, P = 9.5e-18
 Identities = 39/50 (78%), Positives = 43/50 (86%)

Query:     1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
             M SHKTF IK+ LAKK +QNRPIP WIRM+T N IRYN+KRRHWRRTKLG
Sbjct:     1 MSSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLG 50

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

UNIPROTKB|P62891 RPL39 "60S ribosomal protein L39" [Homo sapiens (taxid:9606)]

 Score = 216 (81.1 bits), Expect = 9.5e-18, P = 9.5e-18
 Identities = 39/50 (78%), Positives = 43/50 (86%)

Query:     1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
             M SHKTF IK+ LAKK +QNRPIP WIRM+T N IRYN+KRRHWRRTKLG
Sbjct:     1 MSSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLG 50

GO:0003723 "RNA binding" evidence=TAS

GO:0003735 "structural constituent of ribosome" evidence=NAS;TAS

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA;TAS

GO:0006412 "translation" evidence=NAS;TAS

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0006414 "translational elongation" evidence=TAS

GO:0006415 "translational termination" evidence=TAS

GO:0006614 "SRP-dependent cotranslational protein targeting to membrane" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0019058 "viral infectious cycle" evidence=TAS

GO:0019083 "viral transcription" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

UNIPROTKB|K7GP63 LOC100736568 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 216 (81.1 bits), Expect = 9.5e-18, P = 9.5e-18
 Identities = 39/50 (78%), Positives = 43/50 (86%)

Query:     1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
             M SHKTF IK+ LAKK +QNRPIP WIRM+T N IRYN+KRRHWRRTKLG
Sbjct:     1 MSSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLG 50

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003735 "structural constituent of ribosome" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q90YS9	RL39_ICTPU	No assigned EC number	0.7647	1.0	1.0	N/A	no
Q3T051	RL39_BOVIN	No assigned EC number	0.7647	1.0	1.0	yes	no
Q758D8	RL39_ASHGO	No assigned EC number	0.6666	1.0	1.0	yes	no
A8MAL5	RL39_CALMQ	No assigned EC number	0.4489	0.9607	0.9423	yes	no
Q8L8W6	RL392_ARATH	No assigned EC number	0.9019	1.0	1.0	yes	no
C3MXG5	RL39_SULIM	No assigned EC number	0.4489	0.9607	0.9607	yes	no
O16130	RL39_DROME	No assigned EC number	0.7346	0.9607	0.9607	yes	no
Q98TF5	RL39_CHICK	No assigned EC number	0.7647	1.0	1.0	yes	no
Q9UYI8	RL39_PYRAB	No assigned EC number	0.4693	0.9607	0.9607	yes	no
C4KII9	RL39_SULIK	No assigned EC number	0.4489	0.9607	0.9607	yes	no
Q59GN2	R39L5_HUMAN	No assigned EC number	0.7450	1.0	1.0	no	no
C5A7H4	RL39_THEGJ	No assigned EC number	0.4489	0.9607	0.9607	yes	no
P05767	RL39_SCHPO	No assigned EC number	0.7254	1.0	1.0	yes	no
P62891	RL39_HUMAN	No assigned EC number	0.7647	1.0	1.0	yes	no
P62893	RL39_RAT	No assigned EC number	0.7647	1.0	1.0	no	no
P62892	RL39_MOUSE	No assigned EC number	0.7647	1.0	1.0	yes	no
P0DJ61	RL39_TETTS	No assigned EC number	0.5510	0.9607	0.9423	N/A	no
C3NGA3	RL39_SULIN	No assigned EC number	0.4489	0.9607	0.9607	yes	no
P59473	RL39_PYRHO	No assigned EC number	0.4897	0.9607	0.9607	yes	no
P59472	RL39_AERPE	No assigned EC number	0.4693	0.9607	0.9607	yes	no
Q6BHV8	RL39_DEBHA	No assigned EC number	0.7058	1.0	1.0	yes	no
Q5JGT6	RL39_PYRKO	No assigned EC number	0.4693	0.9607	0.9607	yes	no
Q8SQP8	RL39_ENCCU	No assigned EC number	0.4489	0.9607	0.9423	yes	no
C3N7D1	RL39_SULIY	No assigned EC number	0.4489	0.9607	0.9607	yes	no
A4YH79	RL39_METS5	No assigned EC number	0.3877	0.9607	0.9607	yes	no
Q6KAJ8	RL391_ORYSJ	No assigned EC number	0.9607	1.0	1.0	yes	no
B9LUV0	RL39_HALLT	No assigned EC number	0.4680	0.9215	0.94	yes	no
A2BN55	RL39_HYPBU	No assigned EC number	0.4693	0.9607	0.9607	yes	no
Q5SMI4	RL393_ORYSJ	No assigned EC number	0.9607	1.0	1.0	yes	no
P13005	RL39_SULAC	No assigned EC number	0.4285	0.9607	0.9607	yes	no
Q980F9	RL39_SULSO	No assigned EC number	0.4489	0.9607	0.9607	yes	no
O28212	RL39_ARCFU	No assigned EC number	0.5111	0.8823	0.9	yes	no
Q96EH5	RL39L_HUMAN	No assigned EC number	0.7058	1.0	1.0	no	no
Q962S4	RL39_SPOFR	No assigned EC number	0.7843	1.0	1.0	N/A	no
P04650	RL39_YEAST	No assigned EC number	0.6470	1.0	1.0	yes	no
Q96W55	RL39_CANAX	No assigned EC number	0.7450	1.0	1.0	N/A	no
C3MR76	RL39_SULIL	No assigned EC number	0.4489	0.9607	0.9607	yes	no
C3MZB1	RL39_SULIA	No assigned EC number	0.4489	0.9607	0.9607	yes	no
P52814	RL39_CAEEL	No assigned EC number	0.6470	1.0	1.0	yes	no
P48536	RL39_KLUMA	No assigned EC number	0.6938	0.9607	0.9607	N/A	no
Q6F482	RL39_PLUXY	No assigned EC number	0.7843	1.0	1.0	N/A	no
Q971I1	RL39_SULTO	No assigned EC number	0.3877	0.9607	0.9607	yes	no
Q6CW22	RL39_KLULA	No assigned EC number	0.6666	1.0	1.0	yes	no
P51426	RL392_ORYSJ	No assigned EC number	0.9607	1.0	1.0	yes	no
P51424	RL391_ARATH	No assigned EC number	0.9411	1.0	1.0	yes	no
P51425	RL39_MAIZE	No assigned EC number	0.9607	1.0	1.0	N/A	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: grail3.6312000101 SubName- Full=Putative uncharacterized protein; (52 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	51
pfam00832	43	pfam00832, Ribosomal_L39, Ribosomal L39 protein	1e-12
COG2167	51	COG2167, RPL39, Ribosomal protein L39E [Translatio	3e-11
PRK01242	50	PRK01242, rpl39e, 50S ribosomal protein L39e; Vali	9e-09

>gnl|CDD|201464 pfam00832, Ribosomal_L39, Ribosomal L39 protein

 Score = 54.6 bits (132), Expect = 1e-12
 Identities = 25/42 (59%), Positives = 33/42 (78%)

Query: 9  IKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
           K +LAK ++QNRP+P W+R++T   +RYN KRRHWRRTKL 
Sbjct: 1  KKLRLAKALKQNRPVPAWVRLKTGRKVRYNPKRRHWRRTKLK 42

Length = 43

>gnl|CDD|225078 COG2167, RPL39, Ribosomal protein L39E [Translation, ribosomal structure and biogenesis]

 Score = 51.3 bits (123), Expect = 3e-11
 Identities = 26/49 (53%), Positives = 36/49 (73%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKL 49
          M  +K    K +LAK ++QNR +P W+R++T+  +RYN KRRHWRRTKL
Sbjct: 1  MGRNKPLGKKLRLAKALKQNRRVPVWVRVKTNRRVRYNPKRRHWRRTKL 49

Length = 51

>gnl|CDD|179261 PRK01242, rpl39e, 50S ribosomal protein L39e; Validated

 Score = 45.0 bits (107), Expect = 9e-09
 Identities = 21/47 (44%), Positives = 33/47 (70%)

Query: 3  SHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKL 49
           +K    K +LAK ++QNR +P W+ ++T+  +R + KRRHWRR+KL
Sbjct: 2  RNKPLGKKLRLAKALKQNRRVPAWVIVKTNRRVRRHPKRRHWRRSKL 48

Length = 50

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	51
PRK01242	50	rpl39e 50S ribosomal protein L39e; Validated	100.0
COG2167	51	RPL39 Ribosomal protein L39E [Translation, ribosom	99.97
KOG0002	48	consensus 60s ribosomal protein L39 [Translation,	99.96
PF00832	43	Ribosomal_L39: Ribosomal L39 protein; InterPro: IP	99.96

>PRK01242 rpl39e 50S ribosomal protein L39e; Validated

Probab=100.00  E-value=4.2e-35  Score=164.83  Aligned_cols=50  Identities=42%  Similarity=0.789  Sum_probs=48.4

Q ss_pred             CCCchHHHHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCCC
Q 035394            2 PSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF   51 (51)
Q Consensus         2 ~s~K~~~~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~~   51 (51)
                      +|||||++|++||||++||+||||||+||||++|+|||||||||||+|+.
T Consensus         1 ~s~Kt~~~K~rLaK~~kQNrpvP~Wv~~KT~~kvr~n~kRRhWRRtkL~~   50 (50)
T PRK01242          1 MRNKPLGKKLRLAKALKQNRRVPAWVIVKTNRRVRRHPKRRHWRRSKLKV   50 (50)
T ss_pred             CCcchHHHHHHHHHHHhccCCCCeEEEEEcCCceecCCccccccccccCC
Confidence            58999999999999999999999999999999999999999999999973

>COG2167 RPL39 Ribosomal protein L39E [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=1.4e-32  Score=155.41  Aligned_cols=51  Identities=51%  Similarity=0.937  Sum_probs=50.2

Q ss_pred             CCCCchHHHHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCCC
Q 035394            1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF   51 (51)
Q Consensus         1 M~s~K~~~~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~~   51 (51)
                      ||++|+++.|++||||.|||++||+||+|+|+++|+|||+||||||++|++
T Consensus         1 M~~~K~~~~K~RLaKA~KqNrrvP~Wv~~kT~~~v~~npkRRhWRR~kLki   51 (51)
T COG2167           1 MGRNKPLGKKLRLAKALKQNRRVPVWVRVKTNRRVRYNPKRRHWRRTKLKI   51 (51)
T ss_pred             CCccchHHHHHHHHHHHHcCCCCCeEEEEecCCccccChhhhhhhhhccCC
Confidence            999999999999999999999999999999999999999999999999985

>KOG0002 consensus 60s ribosomal protein L39 [Translation, ribosomal structure and biogenesis]

Probab=99.96  E-value=9.6e-32  Score=150.44  Aligned_cols=48  Identities=83%  Similarity=1.399  Sum_probs=46.9

Q ss_pred             CchHHHHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCCC
Q 035394            4 HKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF   51 (51)
Q Consensus         4 ~K~~~~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~~   51 (51)
                      +|+|.+|++|||+++||+||||||+|+|||+|+||+||||||||||+|
T Consensus         1 ~ks~~ik~kl~k~~kqnr~iP~WiRm~~gn~iryN~kRRHWRrtKL~l   48 (48)
T KOG0002|consen    1 HKSFRIKQKLAKKLKQNRPIPQWIRMRTGNTIRYNAKRRHWRRTKLGL   48 (48)
T ss_pred             CchhHHHHHHHHHHHccCCccHHHhhccCCccchhHHHHHHHHhhcCC
Confidence            689999999999999999999999999999999999999999999987

>PF00832 Ribosomal_L39: Ribosomal L39 protein; InterPro: IPR000077 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.96  E-value=1.1e-31  Score=147.34  Aligned_cols=43  Identities=67%  Similarity=1.211  Sum_probs=32.4

Q ss_pred             HHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCCC
Q 035394            9 IKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF   51 (51)
Q Consensus         9 ~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~~   51 (51)
                      +|++||||++||+||||||+||||++|+|||+|||||||+|++
T Consensus         1 ~K~rLaKa~kqNrpvP~Wv~~kT~~kiryn~kRRhWRRtkLkv   43 (43)
T PF00832_consen    1 IKLRLAKAQKQNRPVPQWVRMKTGNKIRYNPKRRHWRRTKLKV   43 (43)
T ss_dssp             HHHHHHHHHHHTS---HHGHHCTTSS-SSGTT---TTTS-S--
T ss_pred             CcHHHHHHHhccCCCCcEEEEeCCCceeeCCCcccccccccCC
Confidence            5899999999999999999999999999999999999999986

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaebacterial large subunit ribosomal proteins can be grouped on the basis of sequence similarities. These proteins are very basic. About 50 residues long, they are the smallest proteins of eukaryotic-type ribosomes.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3CCJ_2 3CME_2 3OW2_1 1YI2_2 1KD1_3 3CXC_1 3G6E_2 1VQ4_2 3CCU_2 3CC7_2 ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	51
3izr_o	51	Localization Of The Large Subunit Ribosomal Protein		2e-21
2zkr_3	51	Structure Of A Mammalian Ribosomal 60s Subunit With		1e-16
4a18_B	52	T.Thermophila 60s Ribosomal Subunit In Complex With		4e-11
2ww9_O	51	Cryo-Em Structure Of The Active Yeast Ssh1 Complex		9e-11
3jyw_1	48	Structure Of The 60s Proteins For Eukaryotic Riboso		4e-10
3zf7_q	51	High-resolution Cryo-electron Microscopy Structure		3e-08
1s72_2	50	Refined Crystal Structure Of The Haloarcula Marismo		8e-05
3j21_f	51	Promiscuous Behavior Of Proteins In Archaeal Riboso		1e-04

>pdb|3IZR|OO Chain o, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 51

Iteration: 1
 Score = 97.4 bits (241), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 47/51 (92%), Positives = 49/51 (96%)
Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          MPSHKTF IK+KLAKK RQNRPIP+WIRMRTDNTIRYNAKRRHWRRTKLGF
Sbjct: 1  MPSHKTFRIKQKLAKKQRQNRPIPYWIRMRTDNTIRYNAKRRHWRRTKLGF 51

>pdb|2ZKR|3 Chain 3, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 51

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 39/51 (76%), Positives = 43/51 (84%)
Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          M SHKTF IK+ LAKK +QNRPIP WIRM+T N IRYN+KRRHWRRTKLG 
Sbjct: 1  MSSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL 51

>pdb|4A18|B Chain B, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 26s Rrna And Proteins Of Molecule 1 Length = 52

Iteration: 1
 Score = 62.8 bits (151), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 27/49 (55%), Positives = 40/49 (81%)
Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKL 49
          M ++KT  +KK+  +K++QNRP+P+W R ++D  IRYN+KRR+WRRTKL
Sbjct: 1  MGANKTLNMKKRFGRKIKQNRPLPNWYRYKSDTNIRYNSKRRNWRRTKL 49

>pdb|2WW9|O Chain O, Cryo-Em Structure Of The Active Yeast Ssh1 Complex Bound To The Yeast 80s Ribosome Length = 51

Iteration: 1
 Score = 61.6 bits (148), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 33/51 (64%), Positives = 43/51 (84%)
Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          M + K+F IK+K+AK  +QNRP+P WIR+RT+NTIRYNAKRR+WRRTK+  
Sbjct: 1  MAAQKSFRIKQKMAKAKKQNRPLPQWIRLRTNNTIRYNAKRRNWRRTKMNI 51

>pdb|3JYW|1 Chain 1, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 48

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 32/48 (66%), Positives = 42/48 (87%)
Query: 3  SHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
          + K+F IK+K+AK  +QNRP+P WIR+RT+NTIRYNAKRR+WRRTK+ 
Sbjct: 1  AQKSFRIKQKMAKAKKQNRPLPQWIRLRTNNTIRYNAKRRNWRRTKMN 48

>pdb|3ZF7|QQ Chain q, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 51

Iteration: 1
 Score = 53.1 bits (126), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 23/33 (69%), Positives = 29/33 (87%)
Query: 19 QNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF 51
          QNRP+P+WIR+RT N I++N KRRHWRRTKL +
Sbjct: 19 QNRPVPYWIRLRTGNRIKWNEKRRHWRRTKLHY 51

>pdb|1S72|2 Chain 2, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 50

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 5  KTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRT 47
          K+   KK+LAK   QN  +P W+ ++TD  ++ N KRRHWRR 
Sbjct: 4  KSKATKKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRN 46

>pdb|3J21|FF Chain f, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 51

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 33/49 (67%)
Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKL 49
          M  +K    K +LAK ++QNR +P W+ ++T+  +  + KRR+WRRTKL
Sbjct: 1  MARNKPLAKKLRLAKALKQNRRVPVWVIVKTNRRVLTHPKRRYWRRTKL 49

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	51
4a18_B	52	RPL39, ribosomal protein L37; ribosome, eukaryotic	1e-18
3u5e_L	199	60S ribosomal protein L13-A, 60S ribosomal protein	2e-18
3iz5_O	144	60S ribosomal protein L27A (L15P); eukaryotic ribo	2e-17
1vq8_2	50	50S ribosomal protein L39E; ribosome 50S, protein-	6e-06
1ffk_Y	49	Ribosomal protein L39E; ribosome assembly, RNA-RNA	6e-06

>4a18_B RPL39, ribosomal protein L37; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_B 4a1b_B 4a1d_B Length = 52

 Score = 69.4 bits (170), Expect = 1e-18
 Identities = 27/50 (54%), Positives = 40/50 (80%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
          M ++KT  +KK+  +K++QNRP+P+W R ++D  IRYN+KRR+WRRTKL 
Sbjct: 1  MGANKTLNMKKRFGRKIKQNRPLPNWYRYKSDTNIRYNSKRRNWRRTKLK 50

>3u5e_L 60S ribosomal protein L13-A, 60S ribosomal protein L11-A; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_L Length = 199

 Score = 68.7 bits (168), Expect = 2e-18
 Identities = 10/50 (20%), Positives = 15/50 (30%)

Query: 1  MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG 50
          M   K   I K   +K  Q R   H+ +     + R     R  +     
Sbjct: 1  MAISKNLPILKNHFRKHWQERVKVHFDQAGKKVSRRNARATRAAKIAPRP 50

>1vq8_2 50S ribosomal protein L39E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: a.137.1.1 PDB: 1vq4_2* 1vq5_2* 1vq6_2* 1vq7_2* 1s72_2* 1vq9_2* 1vqk_2* 1vql_2* 1vqm_2* 1vqn_2* 1vqo_2* 1vqp_2* 1yhq_2* 1yi2_2* 1yij_2* 1yit_2* 1yj9_2* 1yjn_2* 1yjw_2* 2otj_2* ... Length = 50

 Score = 37.5 bits (86), Expect = 6e-06
 Identities = 19/40 (47%), Positives = 26/40 (65%)

Query: 10 KKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKL 49
          KK+LAK   QN  +P W+ ++TD  ++ N KRRHWRR   
Sbjct: 9  KKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRNDT 48

>1ffk_Y Ribosomal protein L39E; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: a.137.1.1 Length = 49

 Score = 37.6 bits (86), Expect = 6e-06
 Identities = 17/38 (44%), Positives = 25/38 (65%)

Query: 10 KKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRT 47
          KK+ AK   QN  +P ++ ++TD  ++ N KRRHWRR 
Sbjct: 8  KKRKAKLDNQNSRVPAYVMLKTDREVQRNHKRRHWRRN 45

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	51
3u5e_l	51	L46, YL40, 60S ribosomal protein L39; translation,	100.0
3iz5_o	51	60S ribosomal protein L39 (L39E); eukaryotic ribos	100.0
4a18_B	52	RPL39, ribosomal protein L37; ribosome, eukaryotic	100.0
3j21_f	51	50S ribosomal protein L39E; archaea, archaeal, KIN	100.0
1ffk_Y	49	Ribosomal protein L39E; ribosome assembly, RNA-RNA	100.0
1vq8_2	50	50S ribosomal protein L39E; ribosome 50S, protein-	100.0

>3u5e_l L46, YL40, 60S ribosomal protein L39; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_O 2ww9_O 3izc_o 3izs_o 2wwb_O 3o5h_e 3o58_e 3u5i_l 4b6a_l 3jyw_1

Probab=100.00  E-value=1.2e-37  Score=174.75  Aligned_cols=51  Identities=65%  Similarity=1.174  Sum_probs=49.5

Q ss_pred             CCCCchHHHHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCCC
Q 035394            1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF   51 (51)
Q Consensus         1 M~s~K~~~~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~~   51 (51)
                      |+|||||++|++||||++||+||||||+||||++|+|||||||||||+|+|
T Consensus         1 M~s~Kt~~~K~rLaK~~kqNr~iP~Wv~~KT~~kir~n~KRRhWRRtkL~~   51 (51)
T 3u5e_l            1 MAAQKSFRIKQKMAKAKKQNRPLPQWIRLRTNNTIRYNAKRRNWRRTKMNI   51 (51)
T ss_dssp             -CCSCCHHHHHHHHHHHHTCSCCCGGGGGSTTCCCCSCTTCCCTTTCCCCC
T ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEeCCCccccCCccccccccccCC
Confidence            999999999999999999999999999999999999999999999999997

>4a18_B RPL39, ribosomal protein L37; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_B 4a1b_B 4a1d_B

Probab=100.00  E-value=2.3e-37  Score=174.27  Aligned_cols=51  Identities=53%  Similarity=1.060  Sum_probs=49.4

Q ss_pred             CCCCchHHHHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCCC
Q 035394            1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLGF   51 (51)
Q Consensus         1 M~s~K~~~~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~~   51 (51)
                      |||||||++|++||||++||+||||||+||||++|+|||||||||||+|++
T Consensus         1 M~s~Kt~~~K~rLaK~~kqNr~iP~Wv~~KT~~kir~n~KRRhWRRtkL~~   51 (52)
T 4a18_B            1 MGANKTLNMKKRFGRKIKQNRPLPNWYRYKSDTNIRYNSKRRNWRRTKLKI   51 (52)
T ss_dssp             -CCCCCHHHHHHHHHHHHTTSCCCTTGGGCSSCCCSSCTTCCCTTTSCCCC
T ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEeCCCccccCCccccccccccCc
Confidence            999999999999999999999999999999999999999999999999986

>3j21_f 50S ribosomal protein L39E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=7.2e-37  Score=171.59  Aligned_cols=50  Identities=42%  Similarity=0.751  Sum_probs=49.5

Q ss_pred             CCCCchHHHHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCC
Q 035394            1 MPSHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG   50 (51)
Q Consensus         1 M~s~K~~~~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~   50 (51)
                      |+|||||++|++||||++||+||||||+||||++|+|||||||||||+|+
T Consensus         1 M~s~Kt~~~K~rLaK~~kqNr~iP~Wv~~KT~~kir~n~KRRhWRRtkLk   50 (51)
T 3j21_f            1 MARNKPLAKKLRLAKALKQNRRVPVWVIVKTNRRVLTHPKRRYWRRTKLK   50 (51)
T ss_dssp             CCCCCCHHHHHHHHHHHHHTSCCCHHHHHHHTSCCCSCTTCCCTTTCCCC
T ss_pred             CCCcchHHHHHHHHHHHhccCCCCceEEEeCCCccccCCccccccccccC
Confidence            99999999999999999999999999999999999999999999999997

>1ffk_Y Ribosomal protein L39E; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: a.137.1.1

Probab=100.00  E-value=2.3e-35  Score=164.53  Aligned_cols=48  Identities=38%  Similarity=0.628  Sum_probs=47.2

Q ss_pred             CCchHHHHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCC
Q 035394            3 SHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG   50 (51)
Q Consensus         3 s~K~~~~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~   50 (51)
                      |||||++|++||||++||+||||||+||||++|+|||||||||||+|+
T Consensus         1 ~~Kt~~~K~rLaK~~kQNrpiP~Wv~~KT~~kiryn~KRRhWRRtkL~   48 (49)
T 1ffk_Y            1 GKKSKATKKRKAKLDNQNSRVPAYVMLKTDREVQRNHKRRHWRRNDTD   48 (49)
T ss_pred             CCchHHHHHHHHHHHhccCCCCcEEEEecCCceecCCccccccccccC
Confidence            799999999999999999999999999999999999999999999997

>1vq8_2 50S ribosomal protein L39E; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: a.137.1.1 PDB: 1vq4_2* 1vq5_2* 1vq6_2* 1vq7_2* 1s72_2* 1vq9_2* 1vqk_2* 1vql_2* 1vqm_2* 1vqn_2* 1vqo_2* 1vqp_2* 1yhq_2* 1yi2_2* 1yij_2* 1yit_2* 1yj9_2* 1yjn_2* 1yjw_2* 2otj_2* ...

Probab=100.00  E-value=2.9e-35  Score=164.66  Aligned_cols=48  Identities=42%  Similarity=0.740  Sum_probs=44.3

Q ss_pred             CCchHHHHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCC
Q 035394            3 SHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG   50 (51)
Q Consensus         3 s~K~~~~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~   50 (51)
                      |||||++|++||||++||+||||||+||||++|+|||||||||||+|+
T Consensus         2 s~Kt~~~K~rLaK~~kQNrpiP~Wv~~KT~~kiryn~KRRhWRRtkL~   49 (50)
T 1vq8_2            2 GKKSKATKKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRNDTD   49 (50)
T ss_dssp             CCCCHHHHHHHHHHHHHSSCCCHHHHHHTTC---CCTTCCCTTTCCCC
T ss_pred             CcchHHHHHHHHHHHhccCCCCceEEEecCCceecCCccccccccccC
Confidence            799999999999999999999999999999999999999999999997

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	51
d1vqo21	49	a.137.1.1 (2:1-49) Ribosomal protein L39e {Archaeo	9e-13

>d1vqo21 a.137.1.1 (2:1-49) Ribosomal protein L39e {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 49

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Ribosomal protein L39e
family: Ribosomal protein L39e
domain: Ribosomal protein L39e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 53.3 bits (128), Expect = 9e-13
 Identities = 20/46 (43%), Positives = 28/46 (60%)

Query: 4  HKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKL 49
           K+   KK+LAK   QN  +P W+ ++TD  ++ N KRRHWRR   
Sbjct: 2  KKSKATKKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRNDT 47

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	51
d1vqo21	49	Ribosomal protein L39e {Archaeon Haloarcula marism	99.96

>d1vqo21 a.137.1.1 (2:1-49) Ribosomal protein L39e {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: All alpha proteins
fold: Non-globular all-alpha subunits of globular proteins
superfamily: Ribosomal protein L39e
family: Ribosomal protein L39e
domain: Ribosomal protein L39e
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.96  E-value=8.2e-32  Score=149.13  Aligned_cols=48  Identities=42%  Similarity=0.740  Sum_probs=43.4

Q ss_pred             CCchHHHHHHHHHHHhhcCCCCceEEEecCCceeecCcccccccccCC
Q 035394            3 SHKTFMIKKKLAKKMRQNRPIPHWIRMRTDNTIRYNAKRRHWRRTKLG   50 (51)
Q Consensus         3 s~K~~~~K~rLaK~~kqNrpiP~Wv~~KT~~kiryn~kRRhWRRtkL~   50 (51)
                      .+|+++.|++||||++||+|||+||+||||++|+|||||||||||+|.
T Consensus         1 ~~K~~~~K~rLaK~~kQNr~vP~Wv~~KT~~~vr~n~KRR~WRRt~l~   48 (49)
T d1vqo21           1 GKKSKATKKRLAKLDNQNSRVPAWVMLKTDREVQRNHKRRHWRRNDTD   48 (49)
T ss_dssp             CCCCHHHHHHHHHHHHHSSCCCHHHHHHTTC---CCTTCCCTTTCCCC
T ss_pred             CCcchhHHHHHHHHHhccCCCCcEEEEecCCeeecChhhhhhhhcccc
Confidence            479999999999999999999999999999999999999999999985