Citrus Sinensis ID: 030804

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-
Protein Sequence
MAAGASSVWMLNQSSFLGSCQQLSSVSKLVASRRPRPAPPSLFIVEASTRPRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF
Secondary Structure (PSIPRED)
cccccccHHHHccccccccccccccHHHHccccccccccccEEEEEEEEccccHHHHHHHHHHHHHccccccccccEEEEEEccccEEEEEEEcccccEEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHccccEEEEcccccccHHHHHHHHHHHHHccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHcccccccHHHHHHcccccccccccEEEEEEEEccccHHHHHHHHHHHHHHHccccccccccEEEEccccEEEEEEEccccEEEEEEccccHHHHHHHcccccccHHHHHHHHHHHHHHHHHccccEEEEcccccEccHHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MAAGASSVWMLNqssflgscqQLSSVSKLvasrrprpappslfiveastrprtkredrTARHSRIRkkidgtperprlcvfrsnkHLYVQVIDDTKMHTLASAStmqkpiseeldyssgptieVSKKVGEMIAKSCLEKgitkvafdrggypyhgRIQALADAAREYGLQF
Flexible Loop (DISEMBL)
MAAGASSVWMLNQSSFLGSCQQLSSVSKLVasrrprpappslfiveastrprtkredrtarhsrirkkidgtperprlcvfrsNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF
Low Complexity Region (SEG)
MAAGASSVWMLNQSSFLGSCQQLSSVSKLVasrrprpappsLFIVEASTRPRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF
Disordered region (IsUnstruct)
****************************************************************************RLCVFRSNKHLYVQVIDDTKMH****************************KVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADA********
Disordered Region (DISOPRED)
**********LNQSSFL*********************************************SRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKP*************EVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF
Disordered Region (DISEMBL)
MAAGASSVWMLNQSSFLGSCQQLSSVSKLVASRRPRPAPPSLFIVEAS***************RIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF
Disordered Region (DISPRO)
****ASSVW*LNQSSFLGSCQQLSSVSKLVASRRPRPAPPSLFIVEASTRPRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREY*L*F
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAAGASSVWMLNQSSFLGSCQQLSSVSKLVASRRPRPAPPSLFIVEASTRPRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF
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	171	2.2.26 [Sep-21-2011]
Q9SX68	170	50S ribosomal protein L18	yes	no	0.964	0.970	0.7	3e-61
Q8SAY0	170	50S ribosomal protein L18	yes	no	0.754	0.758	0.689	2e-48
Q5L3S3	120	50S ribosomal protein L18	yes	no	0.643	0.916	0.657	7e-38
C5D3T3	120	50S ribosomal protein L18	yes	no	0.643	0.916	0.649	1e-37
P09415	120	50S ribosomal protein L18	N/A	no	0.643	0.916	0.649	3e-37
A4IJK4	120	50S ribosomal protein L18	yes	no	0.643	0.916	0.649	2e-36
Q8YPJ4	120	50S ribosomal protein L18	yes	no	0.684	0.975	0.596	5e-36
Q3MFA6	120	50S ribosomal protein L18	yes	no	0.684	0.975	0.596	8e-36
B7KI02	120	50S ribosomal protein L18	yes	no	0.690	0.983	0.6	9e-36
Q65P91	120	50S ribosomal protein L18	yes	no	0.672	0.958	0.588	5e-35

>sp|Q9SX68|RK18_ARATH 50S ribosomal protein L18, chloroplastic OS=Arabidopsis thaliana GN=RPL18 PE=1 SV=1

 Score =  234 bits (596), Expect = 3e-61,   Method: Compositional matrix adjust.
 Identities = 119/170 (70%), Positives = 136/170 (80%), Gaps = 5/170 (2%)

Query: 3   AGASSVWML-NQSSFLGSCQQLSSVSKLVASRRPRPAPPSLFIVEASTRPRTKREDRTAR 61
           +G  SV ++ N+S+FLG+  Q  +V   +             +VEA T+  T  EDR AR
Sbjct: 5   SGCGSVSLITNRSAFLGNGLQHRAV--FLKPWSSSSLQSRSMVVEAKTK--TSSEDRIAR 60

Query: 62  HSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPT 121
           HSRIRKK++GT ERPRLCVFRSNKHLYVQVIDDTKMHTLASAST QKPISEE DY+SGPT
Sbjct: 61  HSRIRKKVNGTTERPRLCVFRSNKHLYVQVIDDTKMHTLASASTKQKPISEEFDYTSGPT 120

Query: 122 IEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           IEV+KKVGE+IAKSCLEKGITKVAFDRGGYPYHGRI+ALA AARE+GLQF
Sbjct: 121 IEVAKKVGEVIAKSCLEKGITKVAFDRGGYPYHGRIEALAAAAREHGLQF 170

Binds 5S rRNA, forms part of the central protuberance of the 50S subunit.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8SAY0|RK18_ORYSJ 50S ribosomal protein L18, chloroplastic OS=Oryza sativa subsp. japonica GN=RPL18 PE=2 SV=1

 Score =  191 bits (485), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 89/129 (68%), Positives = 106/129 (82%)

Query: 43  FIVEASTRPRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLAS 102
            +V A  +  T + DR ARH R+RKK+ GT ERPRL VFRSNKHLY QVIDDTK  TL S
Sbjct: 42  LVVVAKVKVSTPQADRIARHVRLRKKVSGTTERPRLSVFRSNKHLYAQVIDDTKSCTLVS 101

Query: 103 ASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALAD 162
           ASTM K +S++L+YS+GPT+EV++K+GE+IAKSCLEKGITKV FDRGG+ YHGRI+ALAD
Sbjct: 102 ASTMHKSLSKDLEYSAGPTVEVAQKIGEVIAKSCLEKGITKVVFDRGGFLYHGRIKALAD 161

Query: 163 AAREYGLQF 171
           AARE GL F
Sbjct: 162 AARENGLDF 170

Binds 5S rRNA, forms part of the central protuberance of the 50S subunit.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q5L3S3|RL18_GEOKA 50S ribosomal protein L18 OS=Geobacillus kaustophilus (strain HTA426) GN=rplR PE=3 SV=1

 Score =  156 bits (394), Expect = 7e-38,   Method: Compositional matrix adjust.
 Identities = 75/114 (65%), Positives = 86/114 (75%), Gaps = 4/114 (3%)

Query: 58  RTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYS 117
           R  RH+RIRKKI GT ERPRL VFRSNKH+Y Q+IDDTK  T+ SAST+ K    E    
Sbjct: 11  RKKRHARIRKKIFGTAERPRLSVFRSNKHIYAQIIDDTKSSTIVSASTLDK----EFGLD 66

Query: 118 SGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           S   IE +KKVGE++AK  LEKGI KV FDRGGY YHGR++ALADAARE GL+F
Sbjct: 67  STNNIEAAKKVGELVAKRALEKGIKKVVFDRGGYLYHGRVKALADAAREAGLEF 120

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Geobacillus kaustophilus (strain HTA426) (taxid: 235909)

>sp|C5D3T3|RL18_GEOSW 50S ribosomal protein L18 OS=Geobacillus sp. (strain WCH70) GN=rplR PE=3 SV=1

 Score =  155 bits (392), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/114 (64%), Positives = 86/114 (75%), Gaps = 4/114 (3%)

Query: 58  RTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYS 117
           R  RH+R+RKKI GT ERPRL VFRSNKH+Y Q+IDD K  T+ SAST+ K    E D  
Sbjct: 11  RKKRHARVRKKIFGTAERPRLNVFRSNKHIYAQIIDDMKAVTIVSASTLDK----EFDLE 66

Query: 118 SGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           S   IE +KKVGE++AK  LEKGI KV FDRGGY YHGR++ALADAARE GL+F
Sbjct: 67  STGNIEAAKKVGELVAKRALEKGIKKVVFDRGGYLYHGRVKALADAAREAGLEF 120

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Geobacillus sp. (strain WCH70) (taxid: 471223)

>sp|P09415|RL18_GEOSE 50S ribosomal protein L18 OS=Geobacillus stearothermophilus GN=rplR PE=1 SV=1

 Score =  154 bits (389), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 74/114 (64%), Positives = 86/114 (75%), Gaps = 4/114 (3%)

Query: 58  RTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYS 117
           R  RH+RIRKKI GT ERPRL VFRSNKH+Y Q+IDDTK  T+ SAST+ K    E    
Sbjct: 11  RKKRHARIRKKIFGTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDK----EFGLD 66

Query: 118 SGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           S   IE +KKVGE++AK  LEKGI +V FDRGGY YHGR++ALADAARE GL+F
Sbjct: 67  STNNIEAAKKVGELVAKRALEKGIKQVVFDRGGYLYHGRVKALADAAREAGLEF 120

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Geobacillus stearothermophilus (taxid: 1422)

>sp|A4IJK4|RL18_GEOTN 50S ribosomal protein L18 OS=Geobacillus thermodenitrificans (strain NG80-2) GN=rplR PE=3 SV=1

 Score =  151 bits (382), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 74/114 (64%), Positives = 87/114 (76%), Gaps = 4/114 (3%)

Query: 58  RTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYS 117
           R  RH+RIRKKI GT ERPRL VFRSNKH+Y Q+IDD K  T+ SAST+ K  S  LD  
Sbjct: 11  RKKRHARIRKKIFGTAERPRLSVFRSNKHIYAQIIDDVKSATIVSASTLDKEFS--LD-- 66

Query: 118 SGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           S   I+ +KKVGE++AK  LEKGI +V FDRGGY YHGR++ALADAARE GL+F
Sbjct: 67  STNNIDAAKKVGELVAKRALEKGIKQVVFDRGGYLYHGRVKALADAAREAGLEF 120

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Geobacillus thermodenitrificans (strain NG80-2) (taxid: 420246)

>sp|Q8YPJ4|RL18_NOSS1 50S ribosomal protein L18 OS=Nostoc sp. (strain PCC 7120 / UTEX 2576) GN=rplR PE=3 SV=1

 Score =  150 bits (378), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 71/119 (59%), Positives = 90/119 (75%), Gaps = 2/119 (1%)

Query: 53  TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISE 112
           T+RE +  RH R+R K+ G+PERPRL VFRSN+H+Y QVIDDT+ HTLA+AST++  +  
Sbjct: 4   TRRESKERRHRRVRGKVQGSPERPRLAVFRSNEHIYAQVIDDTQHHTLAAASTVEPELKS 63

Query: 113 ELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
            L  +SG   E S ++G++IA   LEKGITKV FDRGG  YHGRI+ALA+AARE GL F
Sbjct: 64  SL--ASGSNCEASAQIGKLIAARSLEKGITKVVFDRGGNLYHGRIKALAEAAREAGLDF 120

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Nostoc sp. (strain PCC 7120 / UTEX 2576) (taxid: 103690)

>sp|Q3MFA6|RL18_ANAVT 50S ribosomal protein L18 OS=Anabaena variabilis (strain ATCC 29413 / PCC 7937) GN=rplR PE=3 SV=1

 Score =  149 bits (376), Expect = 8e-36,   Method: Compositional matrix adjust.
 Identities = 71/119 (59%), Positives = 89/119 (74%), Gaps = 2/119 (1%)

Query: 53  TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISE 112
           T+RE +  RH R+R K+ G+PERPRL VFRSN+H+Y QVIDDT+ HTL SAST++  +  
Sbjct: 4   TRRESKQRRHRRVRGKVQGSPERPRLAVFRSNEHIYAQVIDDTQHHTLVSASTVEPEVKS 63

Query: 113 ELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
            L  +SG   E S ++G++IA   LEKGITKV FDRGG  YHGRI+ALA+AARE GL F
Sbjct: 64  SL--ASGANCEASSQIGKLIAVRSLEKGITKVVFDRGGNLYHGRIKALAEAAREAGLDF 120

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Anabaena variabilis (strain ATCC 29413 / PCC 7937) (taxid: 240292)

>sp|B7KI02|RL18_CYAP7 50S ribosomal protein L18 OS=Cyanothece sp. (strain PCC 7424) GN=rplR PE=3 SV=1

 Score =  149 bits (376), Expect = 9e-36,   Method: Compositional matrix adjust.
 Identities = 72/120 (60%), Positives = 87/120 (72%), Gaps = 2/120 (1%)

Query: 52  RTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPIS 111
           RT+ E    RHSRIR+K++GTP RPRL VFRSN H+Y QVIDD   HTL +AST+ K + 
Sbjct: 3   RTRTESVQRRHSRIRRKVEGTPSRPRLAVFRSNNHIYAQVIDDVAQHTLVAASTLDKDLK 62

Query: 112 EELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
            E  +SSG T E S+ VG+++A+  L KGI KV FDRGG  YHGRI+ALA AARE GL F
Sbjct: 63  GE--FSSGATCEASEAVGKLVAQRALAKGIEKVVFDRGGNLYHGRIRALAQAAREAGLDF 120

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Cyanothece sp. (strain PCC 7424) (taxid: 65393)

>sp|Q65P91|RL18_BACLD 50S ribosomal protein L18 OS=Bacillus licheniformis (strain DSM 13 / ATCC 14580) GN=rplR PE=3 SV=1

 Score =  147 bits (370), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 70/119 (58%), Positives = 84/119 (70%), Gaps = 4/119 (3%)

Query: 53  TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISE 112
           +K   R  RH+R+R K+ GTPERPRL VFRSNKH+Y QVIDD    TL SAST+ K  + 
Sbjct: 6   SKNAARLKRHARVRAKLSGTPERPRLNVFRSNKHIYAQVIDDVNGVTLVSASTLDKDFNA 65

Query: 113 ELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           E    +G     + KVGE++AK   EKGIT V FDRGGY YHGR++ALADAARE GL+F
Sbjct: 66  E----NGSDTAAAAKVGELVAKRASEKGITNVVFDRGGYLYHGRVKALADAAREAGLEF 120

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Bacillus licheniformis (strain DSM 13 / ATCC 14580) (taxid: 279010)

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	171
255537691	164	50S ribosomal protein L18, chloroplast p	0.941	0.981	0.729	1e-63
224100865	165	predicted protein [Populus trichocarpa]	0.953	0.987	0.705	2e-62
224107028	165	predicted protein [Populus trichocarpa]	0.947	0.981	0.701	6e-62
225432240	161	PREDICTED: 50S ribosomal protein L18, ch	0.894	0.950	0.754	1e-61
297847090	170	ribosomal protein L18 family protein [Ar	0.964	0.970	0.705	6e-60
15221153	170	50S ribosomal protein L18 [Arabidopsis t	0.964	0.970	0.7	1e-59
388493848	162	unknown [Lotus japonicus] gi|388495768|g	0.906	0.956	0.746	2e-58
449459812	170	PREDICTED: 50S ribosomal protein L18, ch	0.906	0.911	0.689	7e-57
357450229	166	50S ribosomal protein L18 [Medicago trun	0.923	0.951	0.682	5e-56
217071684	166	unknown [Medicago truncatula]	0.923	0.951	0.676	1e-55

>gi|255537691|ref|XP_002509912.1| 50S ribosomal protein L18, chloroplast precursor, putative [Ricinus communis] gi|223549811|gb|EEF51299.1| 50S ribosomal protein L18, chloroplast precursor, putative [Ricinus communis]

 Score =  247 bits (630), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 127/174 (72%), Positives = 142/174 (81%), Gaps = 13/174 (7%)

Query: 1   MAAGASSVWMLNQSSFLGSCQQLSSVSKLVASRRPRPAP---PSLFIVEASTRPRTKRED 57
           MA  A+S+     SSFLG  Q LS+      S RP P P   P    +EA+T+  T+RE+
Sbjct: 1   MATAAASIC----SSFLGYRQHLSAS----ISARPNPTPIQPPRFLRIEANTK--TRREN 50

Query: 58  RTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYS 117
           RTARH RIRKK++GTPERPRL VFRSNKHLYVQVIDD+KMHTLASASTMQKPISEE DYS
Sbjct: 51  RTARHVRIRKKVEGTPERPRLSVFRSNKHLYVQVIDDSKMHTLASASTMQKPISEEFDYS 110

Query: 118 SGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           SGPT+EV+KKVGE+IAKSCLEKGITKVAFDRGGYPYHGRI+ALADAARE GLQF
Sbjct: 111 SGPTLEVAKKVGEVIAKSCLEKGITKVAFDRGGYPYHGRIEALADAARENGLQF 164

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224100865|ref|XP_002334329.1| predicted protein [Populus trichocarpa] gi|222871392|gb|EEF08523.1| predicted protein [Populus trichocarpa]

 Score =  243 bits (620), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 120/170 (70%), Positives = 137/170 (80%), Gaps = 7/170 (4%)

Query: 2   AAGASSVWMLNQSSFLGSCQQLSSVSKLVASRRPRPAPPSLFIVEASTRPRTKREDRTAR 61
           ++G  S+W    S FLGS  Q    S   A +R     PSL  V    +P+T+REDRTAR
Sbjct: 3   SSGTCSLW----SGFLGSGGQQLRASVAAAQQR---TSPSLSFVPFEAKPQTRREDRTAR 55

Query: 62  HSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPT 121
           H RIRKK++GTP+RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKP +++ DYSSGPT
Sbjct: 56  HIRIRKKVEGTPDRPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPFAQDFDYSSGPT 115

Query: 122 IEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           I+V+KKVGE+IAKSCLEKGITKVAFDRGGYPYHGR+ ALADAARE GLQF
Sbjct: 116 IDVAKKVGEVIAKSCLEKGITKVAFDRGGYPYHGRVAALADAARENGLQF 165

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224107028|ref|XP_002314349.1| predicted protein [Populus trichocarpa] gi|118487426|gb|ABK95541.1| unknown [Populus trichocarpa] gi|222863389|gb|EEF00520.1| predicted protein [Populus trichocarpa]

 Score =  241 bits (616), Expect = 6e-62,   Method: Compositional matrix adjust.
 Identities = 120/171 (70%), Positives = 137/171 (80%), Gaps = 9/171 (5%)

Query: 2   AAGASSVWMLNQSSFLGSC-QQLSSVSKLVASRRPRPAPPSLFIVEASTRPRTKREDRTA 60
           ++G  S+W    S FLGS  QQL +    V  R      PSL  V    + +T+REDRTA
Sbjct: 3   SSGTCSLW----SGFLGSGGQQLRASVAAVKQR----TSPSLSFVTVEAKAKTRREDRTA 54

Query: 61  RHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGP 120
           RH RIRKK++GTP+RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKP +++ DYSSGP
Sbjct: 55  RHIRIRKKVEGTPDRPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPFAQDFDYSSGP 114

Query: 121 TIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           TI+V+KKVGE+IAKSCLEKGITKVAFDRGGYPYHGR+ ALADAARE GLQF
Sbjct: 115 TIDVAKKVGEVIAKSCLEKGITKVAFDRGGYPYHGRVAALADAARENGLQF 165

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225432240|ref|XP_002270819.1| PREDICTED: 50S ribosomal protein L18, chloroplastic isoform 1 [Vitis vinifera] gi|189096139|pdb|3BBO|Q Chain Q, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome gi|147854297|emb|CAN83428.1| hypothetical protein VITISV_034871 [Vitis vinifera] gi|297736841|emb|CBI26042.3| unnamed protein product [Vitis vinifera]

 Score =  240 bits (613), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 120/159 (75%), Positives = 136/159 (85%), Gaps = 6/159 (3%)

Query: 13  QSSFLGSCQQLSSVSKLVASRRPRPAPPSLFIVEASTRPRTKREDRTARHSRIRKKIDGT 72
           QS+F  S QQL  + K  A++   P  PS  I+EA  + +T+REDRTARH RIRKK++GT
Sbjct: 9   QSAF-ASSQQLPLLPKFAAAK---PLLPSFPIIEA--KAKTRREDRTARHVRIRKKVEGT 62

Query: 73  PERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMI 132
           PERPRLCVFRSNKHLYVQVIDD+KMHTLASASTMQK ISEELDYSS PTIEV+KKVGE+I
Sbjct: 63  PERPRLCVFRSNKHLYVQVIDDSKMHTLASASTMQKSISEELDYSSSPTIEVAKKVGEVI 122

Query: 133 AKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           A +CLEKGITKVAFDRGGYPYHGR++ALADAARE GLQF
Sbjct: 123 ASACLEKGITKVAFDRGGYPYHGRVKALADAAREKGLQF 161

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297847090|ref|XP_002891426.1| ribosomal protein L18 family protein [Arabidopsis lyrata subsp. lyrata] gi|297337268|gb|EFH67685.1| ribosomal protein L18 family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  235 bits (599), Expect = 6e-60,   Method: Compositional matrix adjust.
 Identities = 120/170 (70%), Positives = 136/170 (80%), Gaps = 5/170 (2%)

Query: 3   AGASSVWML-NQSSFLGSCQQLSSVSKLVASRRPRPAPPSLFIVEASTRPRTKREDRTAR 61
           +G  SV ++ N+S+FLGS  Q  +V   +             +VEA T+  T  EDR AR
Sbjct: 5   SGCGSVSLITNRSTFLGSGLQHRAV--FLKPWSSSSLQSRSMVVEAKTK--TSSEDRIAR 60

Query: 62  HSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPT 121
           HSRIRKK++GT ERPRLCVFRSNKHLYVQVIDDTKMHTLASAST QKPISEE DY+SGPT
Sbjct: 61  HSRIRKKVNGTTERPRLCVFRSNKHLYVQVIDDTKMHTLASASTKQKPISEEFDYTSGPT 120

Query: 122 IEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           IEV+KKVGE+IAKSCLEKGITKVAFDRGGYPYHGRI+ALA AARE+GLQF
Sbjct: 121 IEVAKKVGEVIAKSCLEKGITKVAFDRGGYPYHGRIEALAAAAREHGLQF 170

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15221153|ref|NP_175268.1| 50S ribosomal protein L18 [Arabidopsis thaliana] gi|73621536|sp|Q9SX68.1|RK18_ARATH RecName: Full=50S ribosomal protein L18, chloroplastic; AltName: Full=CL18; Flags: Precursor gi|5733872|gb|AAD49760.1|AC007932_8 Similar to 50S Ribosomal protein L18 from Thermotoga maritima gb|AE001798. ESTs gb|AI993387, gb|T75951 and gb|T22182 come from this gene [Arabidopsis thaliana] gi|12484209|gb|AAG54003.1|AF336922_1 putative ribosomal protein L18 [Arabidopsis thaliana] gi|110740956|dbj|BAE98573.1| hypothetical protein [Arabidopsis thaliana] gi|332194156|gb|AEE32277.1| 50S ribosomal protein L18 [Arabidopsis thaliana]

 Score =  234 bits (596), Expect = 1e-59,   Method: Compositional matrix adjust.
 Identities = 119/170 (70%), Positives = 136/170 (80%), Gaps = 5/170 (2%)

Query: 3   AGASSVWML-NQSSFLGSCQQLSSVSKLVASRRPRPAPPSLFIVEASTRPRTKREDRTAR 61
           +G  SV ++ N+S+FLG+  Q  +V   +             +VEA T+  T  EDR AR
Sbjct: 5   SGCGSVSLITNRSAFLGNGLQHRAV--FLKPWSSSSLQSRSMVVEAKTK--TSSEDRIAR 60

Query: 62  HSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPT 121
           HSRIRKK++GT ERPRLCVFRSNKHLYVQVIDDTKMHTLASAST QKPISEE DY+SGPT
Sbjct: 61  HSRIRKKVNGTTERPRLCVFRSNKHLYVQVIDDTKMHTLASASTKQKPISEEFDYTSGPT 120

Query: 122 IEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           IEV+KKVGE+IAKSCLEKGITKVAFDRGGYPYHGRI+ALA AARE+GLQF
Sbjct: 121 IEVAKKVGEVIAKSCLEKGITKVAFDRGGYPYHGRIEALAAAAREHGLQF 170

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388493848|gb|AFK34990.1| unknown [Lotus japonicus] gi|388495768|gb|AFK35950.1| unknown [Lotus japonicus]

 Score =  230 bits (586), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 118/158 (74%), Positives = 130/158 (82%), Gaps = 3/158 (1%)

Query: 15  SFLGSCQQLSSVSKLVASRRPRPAPPSL-FIVEASTRPRTKREDRTARHSRIRKKIDGTP 73
           SFL SC   SS S         P P SL F+VEA +R RT  +DRTARH+RIRKK++GTP
Sbjct: 7   SFLHSCAFPSSSSSSSLFTTSTPNPNSLPFVVEAKSRTRT--DDRTARHARIRKKVEGTP 64

Query: 74  ERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIA 133
           ERPRL VFRSNKHL VQVIDDTKMHTLASASTMQK I+EE  Y++GPTIEV+KKVGE+IA
Sbjct: 65  ERPRLAVFRSNKHLAVQVIDDTKMHTLASASTMQKAIAEEFSYTAGPTIEVAKKVGEIIA 124

Query: 134 KSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           KSCLEKGITKVAFDRGGYPYHGR+QALADAARE GL F
Sbjct: 125 KSCLEKGITKVAFDRGGYPYHGRVQALADAARENGLDF 162

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449459812|ref|XP_004147640.1| PREDICTED: 50S ribosomal protein L18, chloroplastic-like [Cucumis sativus] gi|449498793|ref|XP_004160635.1| PREDICTED: 50S ribosomal protein L18, chloroplastic-like [Cucumis sativus]

 Score =  224 bits (572), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 113/164 (68%), Positives = 131/164 (79%), Gaps = 9/164 (5%)

Query: 15  SFLGSCQQLSSVSKLVASRRPRPAPPSL-------FIVEASTRPRTKREDRTARHSRIRK 67
           SFL +     S S+ + +R     PP+         +VEA  +  T+REDRTARHSRIRK
Sbjct: 9   SFLRTSFLTVSYSQNILNRPHLHFPPTTSSSGRHSLVVEA--KATTRREDRTARHSRIRK 66

Query: 68  KIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKK 127
           K++GT ERPRL VFRSNKHLYVQVIDD+KMHTLA+ STMQK ISE LDYS+GPTIEV+KK
Sbjct: 67  KVEGTTERPRLSVFRSNKHLYVQVIDDSKMHTLAAVSTMQKSISEGLDYSAGPTIEVAKK 126

Query: 128 VGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           +GE IAKSCLEKGITKVAFDRGGYPYHGR++ALADAARE+GLQF
Sbjct: 127 IGEAIAKSCLEKGITKVAFDRGGYPYHGRVEALADAAREHGLQF 170

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357450229|ref|XP_003595391.1| 50S ribosomal protein L18 [Medicago truncatula] gi|124360326|gb|ABN08339.1| Ribosomal protein L18 [Medicago truncatula] gi|355484439|gb|AES65642.1| 50S ribosomal protein L18 [Medicago truncatula] gi|388519743|gb|AFK47933.1| unknown [Medicago truncatula]

 Score =  222 bits (565), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 116/170 (68%), Positives = 135/170 (79%), Gaps = 12/170 (7%)

Query: 10  MLNQS-SFLGSC----QQLSSVSKLVASRRPRP---APPSLFIVEASTRPRTKREDRTAR 61
           ML  S SFL SC       SS S L     P P   +    F+V+A+TR    REDR AR
Sbjct: 1   MLTSSLSFLHSCTFPSSSSSSSSSLFTIPTPNPNSSSSSLSFVVQATTR----REDRIAR 56

Query: 62  HSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPT 121
           H R+RKKI+GTPERPRL VFRSNKHL+VQVIDDTKMHTLASASTMQK I+EEL+++SGPT
Sbjct: 57  HVRLRKKIEGTPERPRLSVFRSNKHLFVQVIDDTKMHTLASASTMQKAIAEELNFTSGPT 116

Query: 122 IEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           IEV+K+VGE+IAKSCLEKGITKV FDRGGYPYHGR++A+ADAARE+GL+F
Sbjct: 117 IEVAKRVGEIIAKSCLEKGITKVVFDRGGYPYHGRVKAIADAAREHGLEF 166

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217071684|gb|ACJ84202.1| unknown [Medicago truncatula]

 Score =  220 bits (561), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 115/170 (67%), Positives = 134/170 (78%), Gaps = 12/170 (7%)

Query: 10  MLNQS-SFLGSC----QQLSSVSKLVASRRPRP---APPSLFIVEASTRPRTKREDRTAR 61
           ML  S SFL SC       SS S L     P P   +    F+V+A+TR    REDR AR
Sbjct: 1   MLTSSLSFLHSCTFPSSSSSSSSSLFTIPTPNPNSSSSSLSFVVQATTR----REDRIAR 56

Query: 62  HSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPT 121
           H R+RKKI+GTPERPRL VFRSNKHL+VQVIDDTKMHTLASASTMQK I+EEL+++SGPT
Sbjct: 57  HVRLRKKIEGTPERPRLSVFRSNKHLFVQVIDDTKMHTLASASTMQKAIAEELNFTSGPT 116

Query: 122 IEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           IEV+K+VGE+IAKSCLEKGITKV FDRGGYPYHGR++ +ADAARE+GL+F
Sbjct: 117 IEVAKRVGEIIAKSCLEKGITKVVFDRGGYPYHGRVKTIADAAREHGLEF 166

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

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	171
TAIR|locus:2007690	170	EMB3105 "EMBRYO DEFECTIVE 3105	0.964	0.970	0.7	5.3e-56
TIGR_CMR|CHY_2293	122	CHY_2293 "ribosomal protein L1	0.690	0.967	0.561	3.8e-30
TIGR_CMR|BA_0126	120	BA_0126 "ribosomal protein L18	0.666	0.95	0.576	7.9e-30
TIGR_CMR|GSU_2841	122	GSU_2841 "ribosomal protein L1	0.678	0.950	0.559	1.5e-28
TIGR_CMR|DET_0490	121	DET_0490 "ribosomal protein L1	0.666	0.942	0.542	5.7e-27
UNIPROTKB|P66076	122	rplR "50S ribosomal protein L1	0.672	0.942	0.478	1.6e-22
TIGR_CMR|SO_0247	116	SO_0247 "ribosomal protein L18	0.666	0.982	0.474	4.3e-22
UNIPROTKB|Q9KP00	117	rplR "50S ribosomal protein L1	0.672	0.982	0.457	1.5e-21
TIGR_CMR|CPS_0617	117	CPS_0617 "ribosomal protein L1	0.672	0.982	0.457	1.5e-21
TIGR_CMR|VC_2580	117	VC_2580 "ribosomal protein L18	0.672	0.982	0.457	1.5e-21

TAIR|locus:2007690 EMB3105 "EMBRYO DEFECTIVE 3105" [Arabidopsis thaliana (taxid:3702)]

 Score = 577 (208.2 bits), Expect = 5.3e-56, P = 5.3e-56
 Identities = 119/170 (70%), Positives = 136/170 (80%)

Query:     3 AGASSVWML-NQSSFLGSCQQLSSVSKLVXXXXXXXXXXXLFIVEASTRPRTKREDRTAR 61
             +G  SV ++ N+S+FLG+  Q  +V   +             +VEA T+  T  EDR AR
Sbjct:     5 SGCGSVSLITNRSAFLGNGLQHRAV--FLKPWSSSSLQSRSMVVEAKTK--TSSEDRIAR 60

Query:    62 HSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPT 121
             HSRIRKK++GT ERPRLCVFRSNKHLYVQVIDDTKMHTLASAST QKPISEE DY+SGPT
Sbjct:    61 HSRIRKKVNGTTERPRLCVFRSNKHLYVQVIDDTKMHTLASASTKQKPISEEFDYTSGPT 120

Query:   122 IEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             IEV+KKVGE+IAKSCLEKGITKVAFDRGGYPYHGRI+ALA AARE+GLQF
Sbjct:   121 IEVAKKVGEVIAKSCLEKGITKVAFDRGGYPYHGRIEALAAAAREHGLQF 170

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:0009507 "chloroplast" evidence=ISM;IDA

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0007389 "pattern specification process" evidence=RCA

GO:0008361 "regulation of cell size" evidence=RCA

GO:0009664 "plant-type cell wall organization" evidence=RCA

GO:0009832 "plant-type cell wall biogenesis" evidence=RCA

GO:0009926 "auxin polar transport" evidence=RCA

GO:0010015 "root morphogenesis" evidence=RCA

GO:0010075 "regulation of meristem growth" evidence=RCA

GO:0040007 "growth" evidence=RCA

GO:0048653 "anther development" evidence=RCA

TIGR_CMR|CHY_2293 CHY_2293 "ribosomal protein L18" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 68/121 (56%), Positives = 85/121 (70%)

Query:    52 RTKRE-DRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPI 110
             +T R  +R  RH R+RKKI GTPERPRL V+RS KH+Y Q+IDD    TL +AST+   +
Sbjct:     4 KTNRNLERKRRHLRVRKKIHGTPERPRLNVYRSLKHIYAQIIDDVSGRTLVAASTLDPEL 63

Query:   111 SEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQ 170
               ++ Y  G  IE +K VG +IA+    KGI KV FDRGGY YHGR++ALA+AARE GLQ
Sbjct:    64 RGKIGY--GGNIEAAKAVGRLIAERAKAKGIEKVVFDRGGYLYHGRVKALAEAAREGGLQ 121

Query:   171 F 171
             F
Sbjct:   122 F 122

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|BA_0126 BA_0126 "ribosomal protein L18" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 330 (121.2 bits), Expect = 7.9e-30, P = 7.9e-30
 Identities = 68/118 (57%), Positives = 86/118 (72%)

Query:    54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEE 113
             K   R  RH+R+R K+ GT ERPRL VFRSN+H+Y QVIDD    TL SAST+ K ++  
Sbjct:     7 KNATRKKRHARVRAKLTGTAERPRLNVFRSNQHIYAQVIDDVNGVTLVSASTLDKDLA-- 64

Query:   114 LDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             L+ +S   IE + KVGE +AK  +EKG+ +V FDRGGY YHGR++ALA+AARE GLQF
Sbjct:    65 LNGTSN--IEAATKVGESVAKRAVEKGVKEVVFDRGGYLYHGRVKALAEAAREAGLQF 120

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|GSU_2841 GSU_2841 "ribosomal protein L18" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 318 (117.0 bits), Expect = 1.5e-28, P = 1.5e-28
 Identities = 66/118 (55%), Positives = 83/118 (70%)

Query:    54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEE 113
             K+     R +R+RKKI GT ERPRL VF+S +H+Y Q+IDDT   TL SAST+QK  SE 
Sbjct:     7 KKVAHLKRKTRVRKKIRGTTERPRLNVFKSAQHIYAQIIDDTTGTTLVSASTVQKEASES 66

Query:   114 LDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             L++     +E +K+VG +IAK  LEK I  V FDR G+ YHGRI+ALAD+ARE GL F
Sbjct:    67 LNHCGN--VEAAKRVGALIAKRALEKNIATVVFDRNGFLYHGRIKALADSARENGLTF 122

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|DET_0490 DET_0490 "ribosomal protein L18" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 303 (111.7 bits), Expect = 5.7e-27, P = 5.7e-27
 Identities = 64/118 (54%), Positives = 80/118 (67%)

Query:    55 REDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEEL 114
             RE R  RH R+RKK+ GT  RPRLCVFRS +++Y QVI+D    TL  AST    +  EL
Sbjct:     7 REARIVRHERLRKKVSGTEARPRLCVFRSIENIYTQVINDNCGSTLVQASTKDAELKAEL 66

Query:   115 DYSSGPT-IEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             D   G T  E +  +G +IAK  LE GI++V FDRGGY YHGR++ALA+AAR  GL+F
Sbjct:    67 D---GKTKTEQAVVIGNLIAKRSLEAGISEVVFDRGGYKYHGRVKALAEAARSGGLKF 121

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

UNIPROTKB|P66076 rplR "50S ribosomal protein L18" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 261 (96.9 bits), Expect = 1.6e-22, P = 1.6e-22
 Identities = 57/119 (47%), Positives = 77/119 (64%)

Query:    53 TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISE 112
             T+R  R  RH+R+RKK+ GT ERPRL V RS +H++VQ+++D    T+A+AS+++  +  
Sbjct:     8 TRRISRLRRHTRLRKKLSGTAERPRLVVHRSARHIHVQLVNDLNGTTVAAASSIEADVRG 67

Query:   113 ELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
                   G     S +VG++IA+     GI  V FDRGGY Y GRI ALADAARE GL F
Sbjct:    68 V----PGDKKARSVRVGQLIAERAKAAGIDTVVFDRGGYTYGGRIAALADAARENGLSF 122

GO:0040007 "growth" evidence=IMP

TIGR_CMR|SO_0247 SO_0247 "ribosomal protein L18" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 257 (95.5 bits), Expect = 4.3e-22, P = 4.3e-22
 Identities = 56/118 (47%), Positives = 79/118 (66%)

Query:    54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEE 113
             K+  R  R  R RKKI       RL V R+ +H+Y QVI+  +   +A+AST++K + E+
Sbjct:     3 KKTSRLRRAIRARKKIQELGVN-RLVVHRTPRHIYAQVINP-EAQVVAAASTVEKAVKEQ 60

Query:   114 LDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             L  S+G  ++ +K VG+ +A+  +EKG+T VAFDR G+ YHGR+ ALADAARE GLQF
Sbjct:    61 LK-STG-NVDAAKAVGKFVAERAIEKGVTNVAFDRSGFKYHGRVAALADAAREAGLQF 116

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

GO:0006412 "translation" evidence=ISS

UNIPROTKB|Q9KP00 rplR "50S ribosomal protein L18" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 54/118 (45%), Positives = 77/118 (65%)

Query:    54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEE 113
             K+  R  R +R R+KI       RL V R+ +H+Y QVI       +A+AST++K I E+
Sbjct:     3 KKASRIRRATRARRKI-AELGATRLVVHRTPRHVYAQVIAANGSEVIAAASTVEKAIREQ 61

Query:   114 LDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             + Y+    I+ +K VG+ +A+  LEKG+T VAFDR G+ YHGR+ ALAD+ARE GL+F
Sbjct:    62 VKYTGN--IDAAKAVGKAVAERALEKGVTVVAFDRSGFQYHGRVAALADSAREAGLKF 117

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CPS_0617 CPS_0617 "ribosomal protein L18" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 54/118 (45%), Positives = 76/118 (64%)

Query:    54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEE 113
             KR  R  R  R R KI       RL +FR+ +H+Y Q+I  T    +ASAST+ K +S +
Sbjct:     3 KRSSRLRRAKRARAKISELGAN-RLVIFRTPRHIYAQLIAPTGSEVIASASTLDKEVSAQ 61

Query:   114 LDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             ++  +G  +  +  VG+ IA+  + KGITK+AFDR G+ YHGR++ALA+AARE GLQF
Sbjct:    62 IE-KTG-NVAAATAVGKAIAERAVAKGITKIAFDRSGFLYHGRVKALAEAAREAGLQF 117

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_2580 VC_2580 "ribosomal protein L18" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 54/118 (45%), Positives = 77/118 (65%)

Query:    54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEE 113
             K+  R  R +R R+KI       RL V R+ +H+Y QVI       +A+AST++K I E+
Sbjct:     3 KKASRIRRATRARRKI-AELGATRLVVHRTPRHVYAQVIAANGSEVIAAASTVEKAIREQ 61

Query:   114 LDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             + Y+    I+ +K VG+ +A+  LEKG+T VAFDR G+ YHGR+ ALAD+ARE GL+F
Sbjct:    62 VKYTGN--IDAAKAVGKAVAERALEKGVTVVAFDRSGFQYHGRVAALADSAREAGLKF 117

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

GO:0006412 "translation" evidence=ISS

---

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)
Q9Z9J8	RL18_BACHD	No assigned EC number	0.5528	0.6900	0.9833	yes	no
A7GK36	RL18_BACCN	No assigned EC number	0.5762	0.6666	0.95	yes	no
C3LJ98	RL18_BACAC	No assigned EC number	0.5677	0.6666	0.95	yes	no
C1ET55	RL18_BACC3	No assigned EC number	0.5677	0.6666	0.95	yes	no
Q5L3S3	RL18_GEOKA	No assigned EC number	0.6578	0.6432	0.9166	yes	no
A7HM36	RL18_FERNB	No assigned EC number	0.5901	0.6783	0.9508	yes	no
A4IJK4	RL18_GEOTN	No assigned EC number	0.6491	0.6432	0.9166	yes	no
B9LJE8	RL18_CHLSY	No assigned EC number	0.5691	0.6666	0.95	yes	no
A7Z0Q4	RL18_BACA2	No assigned EC number	0.5714	0.6725	0.9583	yes	no
B9K8A2	RL18_THENN	No assigned EC number	0.6285	0.6023	0.8442	yes	no
O67564	RL18_AQUAE	No assigned EC number	0.5655	0.7134	0.9838	yes	no
B2ITP0	RL18_NOSP7	No assigned EC number	0.5630	0.6842	0.975	yes	no
B7K233	RL18_CYAP8	No assigned EC number	0.5546	0.6842	0.975	yes	no
A4XLR4	RL18_CALS8	No assigned EC number	0.5714	0.6842	0.9435	yes	no
B0C1E8	RL18_ACAM1	No assigned EC number	0.5630	0.6725	0.9745	yes	no
Q6HPP2	RL18_BACHK	No assigned EC number	0.5677	0.6666	0.95	yes	no
B7HJ64	RL18_BACC4	No assigned EC number	0.5677	0.6666	0.95	yes	no
B9IZL0	RL18_BACCQ	No assigned EC number	0.5677	0.6666	0.95	yes	no
Q73F80	RL18_BACC1	No assigned EC number	0.5677	0.6666	0.95	yes	no
B5YDV9	RL18_DICT6	No assigned EC number	0.5785	0.6959	0.9754	yes	no
C3P9S1	RL18_BACAA	No assigned EC number	0.5677	0.6666	0.95	yes	no
C6E4P1	RL18_GEOSM	No assigned EC number	0.5762	0.6783	0.9508	yes	no
C5CGI6	RL18_KOSOT	No assigned EC number	0.5416	0.6900	0.9672	yes	no
Q110C2	RL18_TRIEI	No assigned EC number	0.5546	0.6842	0.975	yes	no
Q1ISA6	RL18_KORVE	No assigned EC number	0.5909	0.6432	0.8870	yes	no
C5D3T3	RL18_GEOSW	No assigned EC number	0.6491	0.6432	0.9166	yes	no
B7IT35	RL18_BACC2	No assigned EC number	0.5593	0.6666	0.95	yes	no
A9WH82	RL18_CHLAA	No assigned EC number	0.5691	0.6666	0.95	yes	no
B8G6Q9	RL18_CHLAD	No assigned EC number	0.5691	0.6666	0.95	yes	no
A9KJH8	RL18_CLOPH	No assigned EC number	0.5378	0.6842	0.9590	yes	no
P46899	RL18_BACSU	No assigned EC number	0.5882	0.6725	0.9583	yes	no
Q81VR4	RL18_BACAN	No assigned EC number	0.5677	0.6666	0.95	yes	no
Q8YPJ4	RL18_NOSS1	No assigned EC number	0.5966	0.6842	0.975	yes	no
Q3MFA6	RL18_ANAVT	No assigned EC number	0.5966	0.6842	0.975	yes	no
Q81J26	RL18_BACCR	No assigned EC number	0.5677	0.6666	0.95	yes	no
Q18CH4	RL18_CLOD6	No assigned EC number	0.5423	0.6783	0.9508	yes	no
Q9SX68	RK18_ARATH	No assigned EC number	0.7	0.9649	0.9705	yes	no
Q49ZF2	RL18_STAS1	No assigned EC number	0.5593	0.6666	0.95	yes	no
Q8SAY0	RK18_ORYSJ	No assigned EC number	0.6899	0.7543	0.7588	yes	no
B9KZX2	RL18_THERP	No assigned EC number	0.5789	0.6608	0.9112	yes	no
B9E9K7	RL18_MACCJ	No assigned EC number	0.5593	0.6666	0.95	yes	no
B7KI02	RL18_CYAP7	No assigned EC number	0.6	0.6900	0.9833	yes	no
B7HQW0	RL18_BACC7	No assigned EC number	0.5677	0.6666	0.95	yes	no
B9DM31	RL18_STACT	No assigned EC number	0.5677	0.6666	0.95	yes	no
Q63H74	RL18_BACCZ	No assigned EC number	0.5677	0.6666	0.95	yes	no
Q65P91	RL18_BACLD	No assigned EC number	0.5882	0.6725	0.9583	yes	no
B7JKD5	RL18_BACC0	No assigned EC number	0.5593	0.6666	0.95	yes	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

Fail to connect to STRING server

---

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	171
PRK05593	117	PRK05593, rplR, 50S ribosomal protein L18; Reviewe	1e-64
CHL00139	109	CHL00139, rpl18, ribosomal protein L18; Validated	1e-52
COG0256	125	COG0256, RplR, Ribosomal protein L18 [Translation,	4e-49
pfam00861	119	pfam00861, Ribosomal_L18p, Ribosomal L18p/L5e fami	1e-47
cd00432	103	cd00432, Ribosomal_L18_L5e, Ribosomal L18/L5e: L18	3e-46
TIGR00060	114	TIGR00060, L18_bact, ribosomal protein L18, bacter	2e-43
PTZ00032	211	PTZ00032, PTZ00032, 60S ribosomal protein L18; Pro	2e-23

>gnl|CDD|235524 PRK05593, rplR, 50S ribosomal protein L18; Reviewed

 Score =  193 bits (493), Expect = 1e-64
 Identities = 72/120 (60%), Positives = 87/120 (72%), Gaps = 3/120 (2%)

Query: 52  RTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPIS 111
             K+E R  RH R+RKKI GT ERPRL VFRSN+H+Y QVIDD K  TLASAST++K + 
Sbjct: 1   MDKKEARLRRHRRVRKKISGTAERPRLSVFRSNRHIYAQVIDDVKGKTLASASTLEKDVR 60

Query: 112 EELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             L    G   E +KKVG++IA+    KGI +V FDRGGY YHGR++ALADAARE GL+F
Sbjct: 61  AGL---KGGNKEAAKKVGKLIAERAKAKGIKQVVFDRGGYKYHGRVKALADAAREAGLKF 117

Length = 117

>gnl|CDD|214373 CHL00139, rpl18, ribosomal protein L18; Validated

 Score =  162 bits (413), Expect = 1e-52
 Identities = 67/111 (60%), Positives = 81/111 (72%), Gaps = 2/111 (1%)

Query: 61  RHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGP 120
           +  R+RKKI GT ERPRL VFRSNKH+Y Q+IDDT   TL + ST++  +   L  SS  
Sbjct: 1   KRERVRKKIKGTAERPRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSL--SSTS 58

Query: 121 TIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           T + SK VG+ +AK  L+KGITKV FDRGG  YHGRI+ALA+AARE GLQF
Sbjct: 59  TCDASKLVGQKLAKKSLKKGITKVVFDRGGKLYHGRIKALAEAAREAGLQF 109

Length = 109

>gnl|CDD|223334 COG0256, RplR, Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]

 Score =  154 bits (392), Expect = 4e-49
 Identities = 64/120 (53%), Positives = 80/120 (66%), Gaps = 2/120 (1%)

Query: 52  RTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPIS 111
           R +R  +  R  RIRKK+ GT  RPRL V RSN+H+Y Q+IDD K  TLASAST+ K + 
Sbjct: 8   RRRRRGK--RAYRIRKKLLGTSGRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELR 65

Query: 112 EELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           +      G   E +  VG++IA+  L KGI +V FDRGGY YHGR+ ALAD ARE GL+F
Sbjct: 66  KYGKKGGGGNTEAAYLVGKLIAERALAKGIEEVVFDRGGYKYHGRVAALADGAREAGLEF 125

Length = 125

>gnl|CDD|216159 pfam00861, Ribosomal_L18p, Ribosomal L18p/L5e family

 Score =  150 bits (381), Expect = 1e-47
 Identities = 62/119 (52%), Positives = 76/119 (63%)

Query: 53  TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISE 112
            KR  R  +  R+R+K+ GT ERPRL V RSNKH+Y Q+IDDTK  TL SAST+ K + +
Sbjct: 1   GKRRRRRRKRLRVRRKLKGTAERPRLVVRRSNKHIYAQIIDDTKGGTLVSASTLSKELKK 60

Query: 113 ELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
                 G     +  VG ++AK  L+KGI  V FDRGGY YHGR+ ALA  ARE GL F
Sbjct: 61  YGLKGGGNNTAAAYLVGLLLAKRALKKGIAVVVFDRGGYTYHGRVFALAKGAREAGLNF 119

This family includes ribosomal proteins from the large subunit. This family includes L18 from bacteria and L5 from eukaryotes. It has been shown that the amino terminal 93 amino acids of rat Rpl5 are necessary and sufficient to bind 5S rRNA in vitro. Suggesting that the entire family has a function in rRNA binding. Length = 119

>gnl|CDD|238246 cd00432, Ribosomal_L18_L5e, Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit

 Score =  146 bits (371), Expect = 3e-46
 Identities = 59/105 (56%), Positives = 72/105 (68%), Gaps = 2/105 (1%)

Query: 65  IRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEV 124
            R+K  GT ERPRL V +SNKH+Y Q+IDD+   TL SAST++  I   L   SG  +E 
Sbjct: 1   RRRKRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLG--SGNNVEA 58

Query: 125 SKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGL 169
           +  VG ++AK  LEKGI KV FDRGGY YHGR++ALA  ARE GL
Sbjct: 59  AYLVGRLLAKRALEKGIKKVVFDRGGYRYHGRVKALAKGAREGGL 103

L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified. Length = 103

>gnl|CDD|213499 TIGR00060, L18_bact, ribosomal protein L18, bacterial type

 Score =  139 bits (353), Expect = 2e-43
 Identities = 64/120 (53%), Positives = 80/120 (66%), Gaps = 8/120 (6%)

Query: 54  KREDRTARHSRIRKKIDGTPE--RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPIS 111
           K+  R  RH RIR+K+  T E  RPRL VFRSN+H+Y QVIDD+K   LASAST++K   
Sbjct: 1   KKSARIRRHKRIRRKLRETGEANRPRLVVFRSNRHIYAQVIDDSKSEVLASASTLEK--- 57

Query: 112 EELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
                      + +KKVG+++A+   EKGI  V FDRGGY YHGR+ ALA+AARE GL F
Sbjct: 58  ---KLKYTGNKDAAKKVGKLVAERLKEKGIKDVVFDRGGYKYHGRVAALAEAAREAGLNF 114

The archaeal and eukaryotic type rpL18 is not detectable under this model [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 114

>gnl|CDD|240235 PTZ00032, PTZ00032, 60S ribosomal protein L18; Provisional

 Score = 91.1 bits (226), Expect = 2e-23
 Identities = 39/107 (36%), Positives = 60/107 (56%), Gaps = 10/107 (9%)

Query: 75  RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEEL----------DYSSGPTIEV 124
           RPRL +  +N  +Y  ++DD   H L  + T  K +S               ++G TI+ 
Sbjct: 105 RPRLTLKNTNNQMYATIVDDYTRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKA 164

Query: 125 SKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           + ++G++I +  L KGI+KV FDR  Y Y G+++ALA+ AR  GLQF
Sbjct: 165 AYELGKLIGRKALSKGISKVRFDRAHYKYAGKVEALAEGARAVGLQF 211

Length = 211

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	171
PRK05593	117	rplR 50S ribosomal protein L18; Reviewed	100.0
TIGR00060	114	L18_bact ribosomal protein L18, bacterial type. Th	100.0
CHL00139	109	rpl18 ribosomal protein L18; Validated	100.0
COG0256	125	RplR Ribosomal protein L18 [Translation, ribosomal	100.0
PF00861	119	Ribosomal_L18p: Ribosomal L18p/L5e family; InterPr	100.0
PTZ00032	211	60S ribosomal protein L18; Provisional	100.0
cd00432	103	Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is	100.0
PRK08569	193	rpl18p 50S ribosomal protein L18P; Reviewed	100.0
KOG3333	188	consensus Mitochondrial/chloroplast ribosomal prot	99.48
PTZ00069	300	60S ribosomal protein L5; Provisional	99.47
PTZ00090	233	40S ribosomal protein S11; Provisional	97.79
TIGR03632	108	bact_S11 30S ribosomal protein S11. This model des	97.73
PF00411	110	Ribosomal_S11: Ribosomal protein S11; InterPro: IP	97.59
CHL00041	116	rps11 ribosomal protein S11	97.57
PRK05309	128	30S ribosomal protein S11; Validated	97.45
TIGR03628	114	arch_S11P archaeal ribosomal protein S11P. This mo	97.05
PRK09607	132	rps11p 30S ribosomal protein S11P; Reviewed	96.85
KOG0875	264	consensus 60S ribosomal protein L5 [Translation, r	96.77
PTZ00129	149	40S ribosomal protein S14; Provisional	96.49
COG0100	129	RpsK Ribosomal protein S11 [Translation, ribosomal	94.39
KOG0408	190	consensus Mitochondrial/chloroplast ribosomal prot	92.7
KOG0407	139	consensus 40S ribosomal protein S14 [Translation,	87.33

>PRK05593 rplR 50S ribosomal protein L18; Reviewed

Probab=100.00  E-value=2.9e-46  Score=287.14  Aligned_cols=116  Identities=62%  Similarity=0.963  Sum_probs=111.6

Q ss_pred             CcHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHH
Q 030804           53 TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMI  132 (171)
Q Consensus        53 ~r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~L  132 (171)
                      ++++.|++||+|+|+||.||+++|||+||+||+|||||||||.+++||+||||+|++++..|+   ++|++||+.||++|
T Consensus         2 ~~~~~r~~r~~r~r~ki~g~~~rpRL~V~~SnkhiyAQvidd~~~~tl~saST~e~~~k~~~~---~~n~~aa~~vG~~l   78 (117)
T PRK05593          2 DKKEARLRRHRRVRKKISGTAERPRLSVFRSNRHIYAQVIDDVKGKTLASASTLEKDVRAGLK---GGNKEAAKKVGKLI   78 (117)
T ss_pred             chHHHHHHHHHHHHHHhcCCCCCCEEEEEEeCCeEEEEEEECCCCEEEEEEecCcHhHhcccc---CCCHHHHHHHHHHH
Confidence            466788999999999999999999999999999999999999999999999999999988763   78999999999999


Q ss_pred             HHHHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          133 AKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       133 Akra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      |++|+++||++|+||||+|+|||||+||+|++||+||+|
T Consensus        79 a~ra~~~gi~~vvfDrg~~~yhGrV~a~a~~are~Gl~f  117 (117)
T PRK05593         79 AERAKAKGIKQVVFDRGGYKYHGRVKALADAAREAGLKF  117 (117)
T ss_pred             HHHHHHCCCCEEEEcCCCCcccHHHHHHHHHHHHhCCCC
Confidence            999999999999999999999999999999999999998

>TIGR00060 L18_bact ribosomal protein L18, bacterial type

Probab=100.00  E-value=4.5e-46  Score=285.23  Aligned_cols=111  Identities=56%  Similarity=0.895  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHhhhhhcCCC--CCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHH
Q 030804           55 REDRTARHSRIRKKIDGTP--ERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMI  132 (171)
Q Consensus        55 ~~~r~~R~~RirkKi~gt~--~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~L  132 (171)
                      ++.|++||+|+|+||.||+  ++|||+||+||+|||||||||.+++||+|+||+|++++      .++|+++|++||++|
T Consensus         2 ~~~r~~r~~r~r~ki~gt~~~~rpRL~V~rSnk~iyaQiIdd~~~~tlasaST~ek~~~------~~~n~~aA~~vG~~l   75 (114)
T TIGR00060         2 KSARIRRHKRIRRKLRETGEANRPRLVVFRSNRHIYAQVIDDSKSEVLASASTLEKKLK------YTGNKDAAKKVGKLV   75 (114)
T ss_pred             cHHHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCeEEEEEEECCCCEEEEEEecchhhhc------CCCCHHHHHHHHHHH
Confidence            3567799999999999998  89999999999999999999999999999999999875      367999999999999


Q ss_pred             HHHHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          133 AKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       133 Akra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      |++|+++||++|+||||||+|||||+||+|++||+||+|
T Consensus        76 a~ra~~~gi~~vvfDrgg~~YhGrv~A~a~~aRe~Gl~F  114 (114)
T TIGR00060        76 AERLKEKGIKDVVFDRGGYKYHGRVAALAEAAREAGLNF  114 (114)
T ss_pred             HHHHHHCCCCEEEEeCCCCcchHHHHHHHHHHHHhCCCC
Confidence            999999999999999999999999999999999999998

The archaeal and eukaryotic type rpL18 is not detectable under this model.

>CHL00139 rpl18 ribosomal protein L18; Validated

Probab=100.00  E-value=4.1e-45  Score=277.84  Aligned_cols=109  Identities=61%  Similarity=0.923  Sum_probs=104.4

Q ss_pred             HHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcC
Q 030804           61 RHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKG  140 (171)
Q Consensus        61 R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~G  140 (171)
                      +++|+|+||.||+++|||+||+||+|||||||||.+|+||+||||+||+++..+  .+++|+++|+.||++||+||+++|
T Consensus         1 ~~~r~r~ki~g~~~rpRL~V~rSnkhiyaQvidd~~g~tlasaST~ek~~~~~~--~~~~n~~aA~~vG~lla~ra~~~g   78 (109)
T CHL00139          1 KRERVRKKIKGTAERPRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSL--SSTSTCDASKLVGQKLAKKSLKKG   78 (109)
T ss_pred             CCeeeeeeecCCCCCCEEEEEEeCCeEEEEEEECCCCCEEEEEecCchhhhccc--cCCCCHHHHHHHHHHHHHHHHHCC
Confidence            367999999999999999999999999999999999999999999999998765  468899999999999999999999


Q ss_pred             CCEEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          141 ITKVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       141 I~~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      |++|+||||+|+|||||+||+|++||+||+|
T Consensus        79 i~~vvfDrgg~~yhGrV~a~a~~are~GL~f  109 (109)
T CHL00139         79 ITKVVFDRGGKLYHGRIKALAEAAREAGLQF  109 (109)
T ss_pred             CCEEEEcCCCCccchHHHHHHHHHHHhCCCC
Confidence            9999999999999999999999999999998

>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.3e-43  Score=273.92  Aligned_cols=120  Identities=53%  Similarity=0.805  Sum_probs=112.6

Q ss_pred             CCCcHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCccccc-ccCCCCCCcHHHHHHHH
Q 030804           51 PRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISE-ELDYSSGPTIEVSKKVG  129 (171)
Q Consensus        51 ~~~r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~-~l~~~~~~n~~AA~~VG  129 (171)
                      ...|++++.+|+.|+|+||.|++++|||+||+||+|||||||||..+.||+++||++++++. .|. ..++|+++|++||
T Consensus         5 ~~~rr~~~~kr~~r~R~kl~g~~~rpRL~V~rSnkhi~aQiId~~~~~tla~aSt~~~~l~~~g~~-~~~~N~~aA~~vG   83 (125)
T COG0256           5 VKFRRRRRGKRAYRIRKKLLGTSGRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKYGKK-GGGGNTEAAYLVG   83 (125)
T ss_pred             hhhHHHHHHhHHHHHHHhhccCCCCcEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHHhhccc-CCCCCHHHHHHHH
Confidence            35678899999999999999999999999999999999999999999999999999999974 342 3567999999999


Q ss_pred             HHHHHHHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          130 EMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       130 ~~LAkra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      +++|++++++||++|+|||+||+|||||+||+|++||+||+|
T Consensus        84 ~lia~ra~~kgi~~vVfdr~g~~yhgRV~Ala~~AreaGL~f  125 (125)
T COG0256          84 KLIAERALAKGIEEVVFDRGGYKYHGRVAALADGAREAGLEF  125 (125)
T ss_pred             HHHHHHHHHcCCcEEEEcCCCCCcchHHHHHHHHHHHcCcCC
Confidence            999999999999999999999999999999999999999998

>PF00861 Ribosomal_L18p: Ribosomal L18p/L5e family; InterPro: IPR005484 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=2.1e-40  Score=254.19  Aligned_cols=118  Identities=59%  Similarity=0.875  Sum_probs=109.8

Q ss_pred             cHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHH
Q 030804           54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIA  133 (171)
Q Consensus        54 r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LA  133 (171)
                      +++.+.+|+.++|+++.++.++|||+||+||+|||||||||.++++|++|||++++++......+++|++||+.||++||
T Consensus         2 k~~~~~~r~~~~r~~~~~~~~~~RL~V~~Snk~i~aQii~~~~~~~l~~aSt~~~~l~~~~~~~~~~n~~aa~~vG~lla   81 (119)
T PF00861_consen    2 KKRRRRRRKLRIRRKIKGTAERPRLVVFRSNKHIYAQIIDDSKGGTLASASTLSKELKKYGWKGSTKNVEAAYLVGELLA   81 (119)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTSSEEEEEEEESSEEEEEEEECTTTEEEEEEEEETTTGGGTT-SSTTSSHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhcCCCCCEEEEEeccCeEEEEEEeeCCCCeEEEEEecchhhhhhhhccCCCCEehHHHHHHHHH
Confidence            45688899999999999999999999999999999999999999999999999999997421246789999999999999


Q ss_pred             HHHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          134 KSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       134 kra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      +||+++||..|+|||++++|||||+||+|++||+||+|
T Consensus        82 ~ra~~~gi~~v~fdr~~~~y~grv~a~~~~~re~Gl~f  119 (119)
T PF00861_consen   82 KRALEKGIAKVVFDRGGYKYHGRVKALADGAREGGLEF  119 (119)
T ss_dssp             HHHHHTTSSEEEECTSTSSSSSHHHHHHHHHHHTTCB-
T ss_pred             HHHHHcCCcEEEEcCCCCcccHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999998

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 [, ]. This family includes L18 from bacteria and L5 from eukaryotes. The ribosomal 5S RNA is the only known rRNA species to bind a ribosomal protein before its assembly into the ribosomal subunits []. In eukaryotes, the 5S rRNA molecule binds one protein species, a 34kDa protein which has been implicated in the intracellular transport of 5 S rRNA, while in bacteria it binds two or three different protein species []. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_M 4A1C_M 4A1A_M 4A17_M 3IZR_Q 3O58_E 1S1I_E 3IZS_Q 3O5H_E 1KQS_M ....

>PTZ00032 60S ribosomal protein L18; Provisional

Probab=100.00  E-value=5.7e-39  Score=266.03  Aligned_cols=99  Identities=39%  Similarity=0.678  Sum_probs=92.7

Q ss_pred             CCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCC----------CCCCcHHHHHHHHHHHHHHHHHcCCC
Q 030804           73 PERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDY----------SSGPTIEVSKKVGEMIAKSCLEKGIT  142 (171)
Q Consensus        73 ~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~----------~~~~n~~AA~~VG~~LAkra~e~GI~  142 (171)
                      ..+|||+||+||+|||||||||.+++||+++||++++++..+..          ..++|+++|+.||++||++|+++||+
T Consensus       103 krrPRLsV~RSnkHIYAQIIDD~~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~IAerAl~kGI~  182 (211)
T PTZ00032        103 KRRPRLTLKNTNNQMYATIVDDYTRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKLIGRKALSKGIS  182 (211)
T ss_pred             CCcceEEEEecCCeEEEEEEECCCCCEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHHHHHHHHHCCCC
Confidence            46899999999999999999999999999999999999875421          14789999999999999999999999


Q ss_pred             EEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          143 KVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       143 ~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      +|+||||||+|||||+||||++||+||+|
T Consensus       183 kVvFDRgGy~YHGRVkALAdaARe~GLkF  211 (211)
T PTZ00032        183 KVRFDRAHYKYAGKVEALAEGARAVGLQF  211 (211)
T ss_pred             EEEEeCCCCeehhHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999998

>cd00432 Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit

Probab=100.00  E-value=3.1e-36  Score=224.58  Aligned_cols=102  Identities=58%  Similarity=0.861  Sum_probs=96.3

Q ss_pred             hhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEE
Q 030804           66 RKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVA  145 (171)
Q Consensus        66 rkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~Vv  145 (171)
                      ++++.|+..+|||+||+||+|||||||||.+++||++|||+|++++..+  .+++|++||+.||++||+||+|+||++|+
T Consensus         2 ~~~~~~~~~~~RL~v~~Sn~~i~aqvi~~~~~~vl~sast~e~~~~~~~--~~~~n~~aA~~vG~~la~r~~~~gi~~vv   79 (103)
T cd00432           2 RRKRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVL--GSGNNVEAAYLVGRLLAKRALEKGIKKVV   79 (103)
T ss_pred             ceEecCcCCCCEEEEEEeCCEEEEEEEEeCcCeEEEEEecCchhhcccc--cCCCcHHHHHHHHHHHHHHHHHCCCCEEE
Confidence            3456677789999999999999999999999999999999999998876  47899999999999999999999999999


Q ss_pred             EecCCCchhhHHHHHHHHHHHcCC
Q 030804          146 FDRGGYPYHGRIQALADAAREYGL  169 (171)
Q Consensus       146 fDRgg~~YhGrVkAlad~aRe~GL  169 (171)
                      ||||+++|||||+||+|++||+||
T Consensus        80 ~D~~~~~~~grv~a~~~~~r~~Gl  103 (103)
T cd00432          80 FDRGGYRYHGRVKALAKGAREGGL  103 (103)
T ss_pred             EeCCCcccccHHHHHHHHHHHcCC
Confidence            999999999999999999999997

L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.

>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed

Probab=100.00  E-value=3.5e-34  Score=236.34  Aligned_cols=114  Identities=25%  Similarity=0.350  Sum_probs=101.0

Q ss_pred             CcHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEE--eCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHH
Q 030804           53 TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVI--DDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGE  130 (171)
Q Consensus        53 ~r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvI--dd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~  130 (171)
                      .|+|-+...+.|.|...   +++|||+||+||+|||||||  ||.+++||+||||+|+++.+ |. ..++|++||+.||.
T Consensus        13 RrRegkTdY~~R~rl~~---~~kpRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~g-~~-~~~~N~~AAy~vG~   87 (193)
T PRK08569         13 RRREGKTDYRKRLKLLL---SGKPRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKYG-WK-GDTGNTPAAYLTGL   87 (193)
T ss_pred             ccccccccHHHHHHHHh---cCCCEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhcc-cc-CCCCCHHHHHHHHH
Confidence            45555666666665443   57999999999999999999  89999999999999998744 32 46889999999999


Q ss_pred             HHHHHHHHcCCCEEEEecCCCchh--hHHHHHHHHHHHcCCcC
Q 030804          131 MIAKSCLEKGITKVAFDRGGYPYH--GRIQALADAAREYGLQF  171 (171)
Q Consensus       131 ~LAkra~e~GI~~VvfDRgg~~Yh--GrVkAlad~aRe~GL~f  171 (171)
                      +||+||+++||++|+||||+++||  |||+||+|++||+||+|
T Consensus        88 llA~ral~kGi~~vvfDrGg~~yh~gGRV~A~akgArd~GL~f  130 (193)
T PRK08569         88 LAGKKALKAGVEEAVLDIGLHRPTKGSRVFAALKGAIDAGLEI  130 (193)
T ss_pred             HHHHHHHHCCCCEEEEecCCccccCCccHHHHHHHHHHcCCcC
Confidence            999999999999999999999999  99999999999999997

>KOG3333 consensus Mitochondrial/chloroplast ribosomal protein L18 [Translation, ribosomal structure and biogenesis]

Probab=99.48  E-value=1.1e-13  Score=112.02  Aligned_cols=93  Identities=26%  Similarity=0.345  Sum_probs=83.3

Q ss_pred             ceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEEEecCC-Cchh
Q 030804           76 PRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGG-YPYH  154 (171)
Q Consensus        76 PRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~VvfDRgg-~~Yh  154 (171)
                      ++|.|-++..|+-+-|.|.++| +++||||.||.|+.+|  +++.|+.|+..+|++||+||++.||..+++.-.. ..-.
T Consensus        61 h~lev~~~~~hveg~v~H~~~g-vvvSAST~EwaIk~qL--Yst~dtsA~~niGRVLAqRCLqsGI~fm~~~~t~ea~~~  137 (188)
T KOG3333|consen   61 HRLEVIRTQHHVEGLVEHQNGG-VVVSASTREWAIKKQL--YSTRDTSACENIGRVLAQRCLQSGINFMVYQPTPEAAAS  137 (188)
T ss_pred             eEEEEeecccceeeeeeEecCC-EEEEecccchHHHHHH--hhccchHHHHHHHHHHHHHHHHhCcceeccCCChhhccc
Confidence            4999999999999999986665 6799999999999998  6899999999999999999999999999998543 3447


Q ss_pred             hHHHHHHHHHHHcCCcC
Q 030804          155 GRIQALADAAREYGLQF  171 (171)
Q Consensus       155 GrVkAlad~aRe~GL~f  171 (171)
                      ..++-|..+|.|+|+.|
T Consensus       138 s~~q~l~~a~~e~Gv~l  154 (188)
T KOG3333|consen  138 SSMQRLQSAMTEGGVVL  154 (188)
T ss_pred             hHHHHHHHHHHhCCeee
Confidence            88999999999999865

>PTZ00069 60S ribosomal protein L5; Provisional

Probab=99.47  E-value=1.9e-13  Score=119.22  Aligned_cols=96  Identities=23%  Similarity=0.252  Sum_probs=86.1

Q ss_pred             CCceEEEEeeCCcEEEEEEe--CCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHc--------CCC-
Q 030804           74 ERPRLCVFRSNKHLYVQVID--DTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEK--------GIT-  142 (171)
Q Consensus        74 ~rPRL~V~rSnkhiyAQvId--d~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~--------GI~-  142 (171)
                      .+|||+|.+||++|.|||+.  ..+++||++|.+.|+. +.+|+ .+.+|.+|||.+|.++|.|++++        |++ 
T Consensus        47 pK~RlVVR~TN~~ii~Qiv~~~~~GD~vl~sA~S~eL~-kyG~k-~gl~N~~AAY~TGlL~arR~L~kl~ld~~y~G~~e  124 (300)
T PTZ00069         47 PKYRLVVRITNKDIICQIVYATIVGDKVLAAAYSHELP-RFGIP-VGLTNYAAAYATGLLLARRLLKKLGLDKQFEGVKE  124 (300)
T ss_pred             CCceEEEEEECCcEEEEEEEeecCCCEEEEEeehhhHh-hcCcC-CCCccHHHHHHHHHHHHHHHHHhhcccccccCccc
Confidence            48999999999999999997  6799999999999987 67886 57889999999999999999998        773 


Q ss_pred             -------------------EEEEecCCCc--hhhHHHHHHHHHHHcCCcC
Q 030804          143 -------------------KVAFDRGGYP--YHGRIQALADAAREYGLQF  171 (171)
Q Consensus       143 -------------------~VvfDRgg~~--YhGrVkAlad~aRe~GL~f  171 (171)
                                         ++++|.|..+  .++||.|.+.|+.|+||++
T Consensus       125 ~~g~~y~v~e~~~~~~rpf~a~LDiGL~rtt~G~RVFaalKGa~DgGl~I  174 (300)
T PTZ00069        125 ADGEYYHVDEEDDEERRPFKAILDVGLARTTTGNRVFGALKGAVDGGLHI  174 (300)
T ss_pred             ccCcccccccccccCCCCceEEEeeccccCCCCceeeeehhcccccCccc
Confidence                               7789998655  4899999999999999975

>PTZ00090 40S ribosomal protein S11; Provisional

Probab=97.79  E-value=0.00041  Score=59.17  Aligned_cols=89  Identities=24%  Similarity=0.234  Sum_probs=72.7

Q ss_pred             CceEEEEeeCCcEEEEEEeCCCCc-EEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEE-EEecCCCc
Q 030804           75 RPRLCVFRSNKHLYVQVIDDTKMH-TLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKV-AFDRGGYP  152 (171)
Q Consensus        75 rPRL~V~rSnkhiyAQvIdd~~~k-tLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~V-vfDRgg~~  152 (171)
                      +.+|+|+-|-++..++|.|..+.. ||+-+|.-...+++.    ...+-=||+.+++.+++.|++.||.+| ++=+|.  
T Consensus       118 ~f~~vI~aSfNNTIVTlTD~~GNv~tl~WSSAG~~GFKGs----KKsTpfAAQ~aae~aakka~~~GIk~V~V~vKGp--  191 (233)
T PTZ00090        118 RFMLVITTSKNNVHAQVVNKSKNYKTVFGSFAGNVGFRKK----LQQSERCAYRIGENIAKKCRRLGIFAVDIKFRRI--  191 (233)
T ss_pred             cEEEEEEeccCcEEEEEEeCCCCEEEEEEEcccccCcccC----ccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEeCC--
Confidence            348999999999999999877664 677777777777653    345677999999999999999999999 555664  


Q ss_pred             hhhHHHHHHHHHHHcCCcC
Q 030804          153 YHGRIQALADAAREYGLQF  171 (171)
Q Consensus       153 YhGrVkAlad~aRe~GL~f  171 (171)
                       +| .++.+.++...||++
T Consensus       192 -Gg-REtALRaL~~~GLkI  208 (233)
T PTZ00090        192 -MR-VETVLQAFYANGLQV  208 (233)
T ss_pred             -Ch-HHHHHHHHHHCCCEE
Confidence             24 899999999999974

>TIGR03632 bact_S11 30S ribosomal protein S11

Probab=97.73  E-value=0.0006  Score=51.74  Aligned_cols=86  Identities=21%  Similarity=0.202  Sum_probs=67.3

Q ss_pred             EEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEE-EecCCCchhhH
Q 030804           78 LCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVA-FDRGGYPYHGR  156 (171)
Q Consensus        78 L~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~Vv-fDRgg~~YhGr  156 (171)
                      +.|+.|.++..+.|.|. +|.+++.+|.-...++..    ...+.-||..+++.++++|++.||+.|. +=|| .-+ ||
T Consensus         3 ~hI~~s~NNT~itlTd~-~g~~~~~~S~G~~gfkg~----rk~t~~Aa~~~a~~~~~~~~~~gi~~v~v~~kG-~G~-gr   75 (108)
T TIGR03632         3 AHIHATFNNTIVTITDP-QGNVLSWASAGAVGFKGS----KKSTPYAAQLAAEDAAKKAKEFGMKTVDVYVKG-PGA-GR   75 (108)
T ss_pred             EEEEccCCCEEEEEEcC-CCCEEEEEecCceeeCCC----ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEC-CCC-cH
Confidence            67999999999999976 556888888877777764    4567889999999999999999999984 4455 322 44


Q ss_pred             HHHHHHHHHHcCCcC
Q 030804          157 IQALADAAREYGLQF  171 (171)
Q Consensus       157 VkAlad~aRe~GL~f  171 (171)
                       +++..++...||++
T Consensus        76 -~~~ir~l~~~glkI   89 (108)
T TIGR03632        76 -ESAIRALQAAGLEV   89 (108)
T ss_pred             -HHHHHHHHHCCCEE
Confidence             56677777788863

This model describes the bacterial 30S ribosomal protein S11. Cutoffs are set such that the model excludes archaeal and eukaryotic ribosomal proteins, but many chloroplast and mitochondrial equivalents of S11 are detected.

>PF00411 Ribosomal_S11: Ribosomal protein S11; InterPro: IPR001971 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.59  E-value=0.0011  Score=50.21  Aligned_cols=86  Identities=26%  Similarity=0.208  Sum_probs=66.8

Q ss_pred             EEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEEE-ecCCCchhhH
Q 030804           78 LCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAF-DRGGYPYHGR  156 (171)
Q Consensus        78 L~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~Vvf-DRgg~~YhGr  156 (171)
                      +.|+.|.++..+.|.| ..|.++++.|+-...++..    ...+..||+.+++.++++|++.||+.|.. =+|  .--||
T Consensus         3 ihI~~s~NNt~vtlTd-~~G~~~~~~S~G~~gfK~~----rk~t~~Aa~~~a~~~~~~~~~~gi~~v~v~ikG--~g~gr   75 (110)
T PF00411_consen    3 IHIKSSFNNTIVTLTD-LKGNVLFWSSAGSLGFKGA----RKSTPYAAQQAAEKIAKKAKELGIKTVRVKIKG--FGPGR   75 (110)
T ss_dssp             EEEEEESSEEEEEEEE-TTSEEEEEEETTTSSTTTT----CGSSHHHHHHHHHHHHHHHHCTTEEEEEEEEES--SSTTH
T ss_pred             EEEEecCCCEEEEEEC-CCCCEEEEEeccccccccc----cccCHHHHHHHHHHHHHHHHHcCCeEEEEEEcC--CCccH
Confidence            6799999999999986 5577888888888877764    45678999999999999999999998843 344  22355


Q ss_pred             HHHHHHHHHHcCCcC
Q 030804          157 IQALADAAREYGLQF  171 (171)
Q Consensus       157 VkAlad~aRe~GL~f  171 (171)
                      - ++..++...||++
T Consensus        76 ~-~~lk~l~~~gl~I   89 (110)
T PF00411_consen   76 E-AALKALKKSGLKI   89 (110)
T ss_dssp             H-HHHHHHHHTTSEE
T ss_pred             H-HHHHHHHhcCCEE
Confidence            4 3446777788753

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 [, ]. Ribosomal protein S11 [] plays an essential role in selecting the correct tRNA in protein biosynthesis. It is located on the large lobe of the small ribosomal subunit. On the basis of sequence similarities, S11 belongs to a family of bacterial, archaeal and eukaryotic ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2YKR_K 3U5C_O 3O2Z_H 3IZB_K 3U5G_O 3O30_H 1S1H_K 3BBN_K 2XZN_K 2XZM_K ....

>CHL00041 rps11 ribosomal protein S11

Probab=97.57  E-value=0.0014  Score=50.43  Aligned_cols=88  Identities=17%  Similarity=0.193  Sum_probs=70.5

Q ss_pred             ceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEE-EecCCCchh
Q 030804           76 PRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVA-FDRGGYPYH  154 (171)
Q Consensus        76 PRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~Vv-fDRgg~~Yh  154 (171)
                      --+.|+.|.++....|.|. .|++|+.+|.-...++..    ...+.-||..+++.++++|++.||+.|. +=|| +- .
T Consensus        14 gi~hI~~t~NNTiiTlTd~-~G~~l~~~S~G~~gfKg~----rK~T~~Aa~~~a~~~~~~~~~~gi~~v~I~ikG-~G-~   86 (116)
T CHL00041         14 GVIHIQASFNNTIVTVTDV-RGRVISWSSAGACGFKGA----RKGTPFAAQTAAENAIRTVIDQGMKRAEVMIKG-PG-L   86 (116)
T ss_pred             EEEEEEcccCCEEEEEEcC-CCCEEEEEecCceeeCCC----ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEC-CC-C
Confidence            3789999999999999876 467899999887777764    3457789999999999999999999984 4455 22 3


Q ss_pred             hHHHHHHHHHHHcCCcC
Q 030804          155 GRIQALADAAREYGLQF  171 (171)
Q Consensus       155 GrVkAlad~aRe~GL~f  171 (171)
                      || +++..++...||++
T Consensus        87 Gr-~~~ir~l~~~glkI  102 (116)
T CHL00041         87 GR-DTALRAIRRSGLKL  102 (116)
T ss_pred             cH-HHHHHHHHHCCCEE
Confidence            66 56678888888863

>PRK05309 30S ribosomal protein S11; Validated

Probab=97.45  E-value=0.0025  Score=49.90  Aligned_cols=89  Identities=19%  Similarity=0.172  Sum_probs=69.2

Q ss_pred             CceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEEE-ecCCCch
Q 030804           75 RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAF-DRGGYPY  153 (171)
Q Consensus        75 rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~Vvf-DRgg~~Y  153 (171)
                      .-.+.|+.|.++..+.|.|. .|.+++..|.-...+++.    ...+..||..+++.+++.|++.||+.|.. =+| +-+
T Consensus        17 ~gi~hI~~t~NNTiitlTd~-~G~~~~~~S~G~~gfKg~----rK~T~~Aa~~aa~~~~~~~~~~gi~~v~v~ikG-~G~   90 (128)
T PRK05309         17 SGVAHIHATFNNTIVTITDR-QGNVISWASAGGLGFKGS----RKSTPYAAQVAAEDAAKKAKEHGMKTVEVFVKG-PGS   90 (128)
T ss_pred             eeEEEEEccCCCEEEEEEcC-CCCEEEEEecCccEeCCC----ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEC-CCC
Confidence            45899999999999999975 667888888776667653    35677899999999999999999998844 455 322


Q ss_pred             hhHHHHHHHHHHHcCCcC
Q 030804          154 HGRIQALADAAREYGLQF  171 (171)
Q Consensus       154 hGrVkAlad~aRe~GL~f  171 (171)
                       || +++..++...||++
T Consensus        91 -Gr-~~air~L~~~glkI  106 (128)
T PRK05309         91 -GR-ESAIRALQAAGLEV  106 (128)
T ss_pred             -cH-HHHHHHHHHCCCEE
Confidence             44 56666777788863

>TIGR03628 arch_S11P archaeal ribosomal protein S11P

Probab=97.05  E-value=0.011  Score=45.78  Aligned_cols=89  Identities=21%  Similarity=0.194  Sum_probs=65.9

Q ss_pred             EEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEE-EecC--CCc--
Q 030804           78 LCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVA-FDRG--GYP--  152 (171)
Q Consensus        78 L~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~Vv-fDRg--g~~--  152 (171)
                      +.|+-|-++....|.|..+..+|+-+|.-...++..    ..++-=||....+.++++|+|.||+.|. +=||  |.+  
T Consensus         5 ~hI~as~NNTiitvTD~~G~~~~~~~S~G~~g~kg~----kk~TpyAAq~aa~~~~~~~~~~Gi~~v~v~ikG~gg~~~~   80 (114)
T TIGR03628         5 AHIYSSFNNTIITITDITGAETIARSSGGMVVKADR----DESSPYAAMQAAGRAAEKAKERGITGLHIKVRAPGGNGQK   80 (114)
T ss_pred             EEEEccCCCeEEEEEcCCCCEEEEEecCcceEeCCC----ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCC
Confidence            578889999999999877768888888877766542    2345668999999999999999999994 4454  333  


Q ss_pred             -h-hhHHHHHHHHHHHcCCcC
Q 030804          153 -Y-HGRIQALADAAREYGLQF  171 (171)
Q Consensus       153 -Y-hGrVkAlad~aRe~GL~f  171 (171)
                       + -|| ++.+.++...||++
T Consensus        81 ~~G~Gr-~~air~l~~~glkI  100 (114)
T TIGR03628        81 SPGPGA-QAAIRALARAGLRI  100 (114)
T ss_pred             CCCCcH-HHHHHHHHHCCCEE
Confidence             2 244 44556777788763

This model describes exclusively the archaeal ribosomal protein S11P. It excludes homologous ribosomal proteins S14 from eukaryotes and S11 from bacteria.

>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed

Probab=96.85  E-value=0.01  Score=46.98  Aligned_cols=91  Identities=24%  Similarity=0.216  Sum_probs=66.4

Q ss_pred             ceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEEE-ecC--CCc
Q 030804           76 PRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAF-DRG--GYP  152 (171)
Q Consensus        76 PRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~Vvf-DRg--g~~  152 (171)
                      --+.|+-|-++.+..|.|..+..||+.+|.-...++..    ...+-=||...++.++++|++.||+.|.. =+|  |..
T Consensus        10 gi~hI~as~NNTivtvTD~~G~~~~~~~S~G~~g~kg~----kK~TpyAAq~aae~~~~~~~~~Gi~~v~v~vkG~Ggn~   85 (132)
T PRK09607         10 GIAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADR----DESSPYAAMQAAEKAAEDAKEKGITGVHIKVRAPGGNG   85 (132)
T ss_pred             eEEEEEcccCCeEEEEEcCCCCEEEEEecCcceeeCCC----ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCC
Confidence            37889999999999999866657888887776655542    23455699999999999999999999954 454  222


Q ss_pred             ---h-hhHHHHHHHHHHHcCCcC
Q 030804          153 ---Y-HGRIQALADAAREYGLQF  171 (171)
Q Consensus       153 ---Y-hGrVkAlad~aRe~GL~f  171 (171)
                         + -|| ++.+.++...||++
T Consensus        86 ~~~~G~Gr-~~airal~~~glkI  107 (132)
T PRK09607         86 QKSPGPGA-QAAIRALARAGLRI  107 (132)
T ss_pred             CcCCCCcH-HHHHHHHHHCCCEE
Confidence               2 244 34456777778763

>KOG0875 consensus 60S ribosomal protein L5 [Translation, ribosomal structure and biogenesis]

Probab=96.77  E-value=0.0022  Score=55.65  Aligned_cols=120  Identities=17%  Similarity=0.122  Sum_probs=81.1

Q ss_pred             CCCCcHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEe--CCCCcEEEEEecCCcccccccCCCCCCcHHHHHH
Q 030804           50 RPRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVID--DTKMHTLASASTMQKPISEELDYSSGPTIEVSKK  127 (171)
Q Consensus        50 ~~~~r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvId--d~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~  127 (171)
                      |..-+..-..++|.-+.-|-+-...+.||.|..+|+.|.+||+-  -+.+.+++++-+.|.. +..+. ..-.|-.||+.
T Consensus        23 rreGkTdy~arkrl~~qdknk~nt~kyR~ivr~~n~~iicqi~~~~i~gd~v~~~a~s~elp-kyg~~-~GLtNyaAay~  100 (264)
T KOG0875|consen   23 RREGKTDYYARKRLVVQDKNKYNTPKYRMIVRVINKDIICQIAYATIEGDVIVRAAYAHELP-KYGVK-VGLTNYAAAYC  100 (264)
T ss_pred             ecCCCccHHHHHHHHhhcccccCCCceEEEEEEechhhHHHHHhheecceEEEEeecccccc-ccccc-cccchhHHHHh
Confidence            44455555555565555554443468899999999999999986  3456667777777775 33332 23468899999


Q ss_pred             HHHHHHHHHHH-cCCCE--------------------------EEEecCCCc--hhhHHHHHHHHHHHcCCcC
Q 030804          128 VGEMIAKSCLE-KGITK--------------------------VAFDRGGYP--YHGRIQALADAAREYGLQF  171 (171)
Q Consensus       128 VG~~LAkra~e-~GI~~--------------------------VvfDRgg~~--YhGrVkAlad~aRe~GL~f  171 (171)
                      .|-+||.|.++ .|.++                          +.+|-|.-+  -+-||...++++.++||.+
T Consensus       101 TglLLarR~l~~~gmD~~yeg~~e~~gde~~~e~idgq~~aFt~~Ld~GLaRtttg~kvFGAlkga~dGGL~I  173 (264)
T KOG0875|consen  101 TGLLLACRLLKRFGMDKIYEGQVEVTGDEYNVESIDGQPGAFTCYLDAGLARTTTGNKVFGALKGAVDGGLSI  173 (264)
T ss_pred             hHHHHHHHHHHHhCcccccccceeecCcccccccccCCCCCeEEEecccccccCCCceeeeeeehhcccceec
Confidence            99999999986 45322                          233333222  2567777788888888753

>PTZ00129 40S ribosomal protein S14; Provisional

Probab=96.49  E-value=0.043  Score=44.37  Aligned_cols=92  Identities=20%  Similarity=0.170  Sum_probs=65.9

Q ss_pred             CceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEE-EEecC--CC
Q 030804           75 RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKV-AFDRG--GY  151 (171)
Q Consensus        75 rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~V-vfDRg--g~  151 (171)
                      .--+.|+-|-++....|.|.. |.+++..|+-...++..-   ..++-=||....+.++++|++.||+.| ++=|+  |.
T Consensus        28 ~Gi~hI~as~NNTiItiTD~~-G~~~~w~SsG~~gfKg~r---~KsTpyAAq~aa~~~a~k~~~~Gi~~v~V~vr~~gg~  103 (149)
T PTZ00129         28 FGVAHIFASFNDTFIHVTDLS-GRETLVRVTGGMKVKADR---DESSPYAAMMAAQDVAARCKELGINALHIKLRATGGV  103 (149)
T ss_pred             EEEEEEEcccCCeEEEEEccc-CCEEEEEecCcceecccc---cCCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEecCCC
Confidence            347899999999999998655 556677777666666542   133456899999999999999999999 45542  32


Q ss_pred             ch----hhHHHHHHHHHHHcCCcC
Q 030804          152 PY----HGRIQALADAAREYGLQF  171 (171)
Q Consensus       152 ~Y----hGrVkAlad~aRe~GL~f  171 (171)
                      .-    .|+ ++.+.+|...||++
T Consensus       104 ~~kg~GpGr-~~airaL~~~glkI  126 (149)
T PTZ00129        104 RTKTPGPGA-QAALRALARAGLKI  126 (149)
T ss_pred             CCCCCCCCH-HHHHHHHHHCCCEE
Confidence            22    233 45567777788763

>COG0100 RpsK Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]

Probab=94.39  E-value=0.6  Score=36.98  Aligned_cols=84  Identities=25%  Similarity=0.216  Sum_probs=60.4

Q ss_pred             EEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEE-EEecC-CCchhh
Q 030804           78 LCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKV-AFDRG-GYPYHG  155 (171)
Q Consensus        78 L~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~V-vfDRg-g~~YhG  155 (171)
                      ..|+.|-++-...+- |..|..++.+|+=..-++..    ..++--||...++..++.++|.||+.| ++=+| |.   |
T Consensus        21 ahI~asfNNTivtit-D~~Gn~i~wassG~~gfk~~----rk~tpyAA~~aa~~aa~~a~e~Gi~~v~v~vkgpG~---G   92 (129)
T COG0100          21 AHIHASFNNTIVTIT-DLTGNVIIWASSGGMGFKGS----RKSTPYAAQLAAEDAAKKAKEHGIKSVEVKVKGPGP---G   92 (129)
T ss_pred             EEEEcccCCcEEEec-CCCCCEEEEEecCCceEcCC----CCCCHHHHHHHHHHHHHHHHHhCccEEEEEEECCCC---c
Confidence            566677666666665 67788889999988888764    245667888999999999999999998 44455 22   3


Q ss_pred             HHHHHHHHHHHcCCc
Q 030804          156 RIQALADAAREYGLQ  170 (171)
Q Consensus       156 rVkAlad~aRe~GL~  170 (171)
                      | ++...+|..+||+
T Consensus        93 r-eaAiraL~~ag~~  106 (129)
T COG0100          93 R-EAAIRALAAAGLK  106 (129)
T ss_pred             H-HHHHHHHHHccce
Confidence            3 3444445566765

>KOG0408 consensus Mitochondrial/chloroplast ribosomal protein S11 [Translation, ribosomal structure and biogenesis]

Probab=92.70  E-value=1.3  Score=36.82  Aligned_cols=89  Identities=21%  Similarity=0.236  Sum_probs=69.0

Q ss_pred             CCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEEEe-cCCCc
Q 030804           74 ERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFD-RGGYP  152 (171)
Q Consensus        74 ~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~VvfD-Rgg~~  152 (171)
                      +-|-..|.-|.++...+|.| ..|.++...|--...||..    ..++--||...|-..+.++++.|+..|--- +|  .
T Consensus        78 eiPi~hIraS~NNTivtVtd-~kg~vi~~~ScgteGFrnt----rkgT~iAaQtaavaa~~r~v~~G~~~vrV~VkG--l  150 (190)
T KOG0408|consen   78 EIPIIHIRASFNNTIVTVTD-VKGEVISWSSCGTEGFRNT----RKGTPIAAQTAAVAAIRRAVDQGMQTVRVRVKG--L  150 (190)
T ss_pred             ccceEEEEecCCCeEEEEEc-cCCcEEEEeeccccccccc----ccCCchhHHHHHHHHHHHHHHhcceEEEEEEec--C
Confidence            67899999999999999985 6677777777766667653    344566889999999999999999988443 44  3


Q ss_pred             hhhHHHHHHHHHHHcCCc
Q 030804          153 YHGRIQALADAAREYGLQ  170 (171)
Q Consensus       153 YhGrVkAlad~aRe~GL~  170 (171)
                      --||+.|+ .+|+-+||.
T Consensus       151 GpGRmsa~-kgl~m~Gl~  167 (190)
T KOG0408|consen  151 GPGRMSAL-KGLRMGGLL  167 (190)
T ss_pred             CccHHHHH-hhhhhcceE
Confidence            45888764 688888875

>KOG0407 consensus 40S ribosomal protein S14 [Translation, ribosomal structure and biogenesis]

Probab=87.33  E-value=10  Score=29.87  Aligned_cols=90  Identities=21%  Similarity=0.258  Sum_probs=61.2

Q ss_pred             eEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEEEe-c--CCCch
Q 030804           77 RLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFD-R--GGYPY  153 (171)
Q Consensus        77 RL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~VvfD-R--gg~~Y  153 (171)
                      ...||-|-+..++.|.|-.+..||+-...--+ +|.+-   ..++--||-+-..-.|.+|++.||+.+.|. |  ||.+-
T Consensus        18 vahi~asfndtfvhitdlsg~eti~rvtggmk-vkadr---desspyaamlaaqdva~kck~~gi~alh~klratgg~kt   93 (139)
T KOG0407|consen   18 VAHIFASFNDTFVHVTDLSGKETIVRVTGGMK-VKADR---DESSPYAAMLAAQDVAAKCKELGITALHIKLRATGGTKT   93 (139)
T ss_pred             EEEEEeecccceEEEeccCCceEEEEecCCeE-Eeccc---ccCChHHHHHHHHHHHHHHHhcCeeEEEEEEEecCCccc
Confidence            45678888888889988888899988765544 34332   234566888888999999999999999876 2  44332


Q ss_pred             ---hhHHHHHHHHHHHcCCc
Q 030804          154 ---HGRIQALADAAREYGLQ  170 (171)
Q Consensus       154 ---hGrVkAlad~aRe~GL~  170 (171)
                         +---++.+.+|-..|+.
T Consensus        94 ktpgpgaqsalralar~gmr  113 (139)
T KOG0407|consen   94 KTPGPGAQSALRALARSGMR  113 (139)
T ss_pred             CCCCccHHHHHHHHHHhcce
Confidence               22234444455555554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	171
3bbo_Q	161	Homology Model For The Spinach Chloroplast 50s Subu		2e-61
1ovy_A	120	Solution Structure Of Ribosomal Protein L18 From Ba		3e-38
2j01_S	112	Structure Of The Thermus Thermophilus 70s Ribosome		5e-22
3mrz_O	111	Recognition Of The Amber Stop Codon By Release Fact		5e-22
1ily_A	90	Solution Structure Of Ribosomal Protein L18 Of Ther		8e-21
3fin_S	99	T. Thermophilus 70s Ribosome In Complex With Mrna,		4e-20
3pyo_O	98	Crystal Structure Of A Complex Containing Domain 3		9e-20
3fik_O	116	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		7e-19
1p85_M	117	Real Space Refined Coordinates Of The 50s Subunit F		7e-19
2gya_M	113	Structure Of The 50s Subunit Of A Pre-Translocation		2e-17
1nwx_M	113	Complex Of The Large Ribosomal Subunit From Deinoco		5e-16
1nkw_M	114	Crystal Structure Of The Large Ribosomal Subunit Fr		5e-16
1pnu_M	111	Crystal Structure Of A Streptomycin Dependent Ribos		6e-16

>pdb|3BBO|Q Chain Q, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 161

Iteration: 1
 Score =  231 bits (589), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 116/159 (72%), Positives = 130/159 (81%), Gaps = 6/159 (3%)
Query: 13  QSSFLGSCQQLSSVSKLVXXXXXXXXXXXLFIVEASTRPRTKREDRTARHSRIRKKIDGT 72
           QS+F  S QQL  + K               I+EA  + +T+REDRTARH RIRKK++GT
Sbjct: 9   QSAF-ASSQQLPLLPKFAAAKPLLPS---FPIIEA--KAKTRREDRTARHVRIRKKVEGT 62
Query: 73  PERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMI 132
           PERPRLCVFRSNKHLYVQVIDD+KMHTLASASTMQK ISEELDYSS PTIEV+KKVGE+I
Sbjct: 63  PERPRLCVFRSNKHLYVQVIDDSKMHTLASASTMQKSISEELDYSSSPTIEVAKKVGEVI 122
Query: 133 AKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           A +CLEKGITKVAFDRGGYPYHGR++ALADAARE GLQF
Sbjct: 123 ASACLEKGITKVAFDRGGYPYHGRVKALADAAREKGLQF 161

>pdb|1OVY|A Chain A, Solution Structure Of Ribosomal Protein L18 From Bacillus Stearothermophilus Length = 120

Iteration: 1
 Score =  154 bits (388), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 74/114 (64%), Positives = 86/114 (75%), Gaps = 4/114 (3%)
Query: 58  RTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYS 117
           R  RH+RIRKKI GT ERPRL VFRSNKH+Y Q+IDDTK  T+ SAST+ K    E    
Sbjct: 11  RKKRHARIRKKIFGTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDK----EFGLD 66
Query: 118 SGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           S   IE +KKVGE++AK  LEKGI +V FDRGGY YHGR++ALADAARE GL+F
Sbjct: 67  STNNIEAAKKVGELVAKRALEKGIKQVVFDRGGYLYHGRVKALADAAREAGLEF 120

>pdb|2J01|S Chain S, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4). This File Contains The 50s Subunit From Molecule I. Length = 112

Iteration: 1
 Score =  100 bits (248), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 54/111 (48%), Positives = 71/111 (63%), Gaps = 8/111 (7%)
Query: 61  RHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGP 120
           R  R+R +I  T  R RL VFRS KH+Y Q+IDD K  TL SAS++   +        G 
Sbjct: 10  RKFRVRNRIKRTG-RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-------GN 61
Query: 121 TIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             EV+++VG  +A+  L  GI +VAFDRG Y YHGR++ALA+ ARE GL+F
Sbjct: 62  KTEVARQVGRALAEKALALGIKQVAFDRGPYKYHGRVKALAEGAREGGLEF 112

>pdb|3MRZ|O Chain O, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 3ms0. Molecule A In The Same Asymmetric Unit Is Deposited As 3mr8 (50s) And 3ms1 (30s). Length = 111

Iteration: 1
 Score =  100 bits (248), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 54/111 (48%), Positives = 71/111 (63%), Gaps = 8/111 (7%)
Query: 61  RHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGP 120
           R  R+R +I  T  R RL VFRS KH+Y Q+IDD K  TL SAS++   +        G 
Sbjct: 9   RKFRVRNRIKRTG-RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-------GN 60
Query: 121 TIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             EV+++VG  +A+  L  GI +VAFDRG Y YHGR++ALA+ ARE GL+F
Sbjct: 61  KTEVARQVGRALAEKALALGIKQVAFDRGPYKYHGRVKALAEGAREGGLEF 111

>pdb|1ILY|A Chain A, Solution Structure Of Ribosomal Protein L18 Of Thermus Thermophilus Length = 90

Iteration: 1
 Score = 96.3 bits (238), Expect = 8e-21,   Method: Compositional matrix adjust.
 Identities = 49/97 (50%), Positives = 64/97 (65%), Gaps = 7/97 (7%)
Query: 75  RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAK 134
           R RL VFRS KH+Y Q+IDD K  TL SAS++   +        G   EV+++VG  +A+
Sbjct: 1   RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-------GNKTEVARQVGRALAE 53
Query: 135 SCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
             L  GI +VAFDRG Y YHGR++ALA+ ARE GL+F
Sbjct: 54  KALALGIKQVAFDRGPYKYHGRVKALAEGAREGGLEF 90

>pdb|3FIN|S Chain S, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 50s Subunit Length = 99

Iteration: 1
 Score = 94.0 bits (232), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 51/105 (48%), Positives = 67/105 (63%), Gaps = 8/105 (7%)
Query: 64  RIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIE 123
           R+R +I  T  R RL VFRS KH+Y Q+IDD K  TL SAS++   +        G   E
Sbjct: 3   RVRNRIKRTG-RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-------GNKTE 54
Query: 124 VSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYG 168
           V+++VG  +A+  L  GI +VAFDRG Y YHGR++ALA+ ARE G
Sbjct: 55  VARQVGRALAEKALALGIKQVAFDRGPYKYHGRVKALAEGAREGG 99

>pdb|3PYO|O Chain O, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 50s Subunit Of The First 70s Ribosome. Length = 98

Iteration: 1
 Score = 92.8 bits (229), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 50/103 (48%), Positives = 66/103 (64%), Gaps = 8/103 (7%)
Query: 64  RIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIE 123
           R+R +I  T  R RL VFRS KH+Y Q+IDD K  TL SAS++   +        G   E
Sbjct: 3   RVRNRIKRTG-RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-------GNKTE 54
Query: 124 VSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAARE 166
           V+++VG  +A+  L  GI +VAFDRG Y YHGR++ALA+ ARE
Sbjct: 55  VARQVGRALAEKALALGIKQVAFDRGPYKYHGRVKALAEGARE 97

>pdb|3FIK|O Chain O, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 50s Subunit. Length = 116

Iteration: 1
 Score = 89.7 bits (221), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 48/95 (50%), Positives = 65/95 (68%), Gaps = 2/95 (2%)
Query: 77  RLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSC 136
           RL V R+ +H+Y QVI       L +AST++K I+E+L Y+     + +  VG+ +A+  
Sbjct: 24  RLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNK--DAAAAVGKAVAERA 81
Query: 137 LEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           LEKGI  V+FDR G+ YHGR+QALADAARE GLQF
Sbjct: 82  LEKGIKDVSFDRSGFQYHGRVQALADAAREAGLQF 116

>pdb|1P85|M Chain M, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 117

Iteration: 1
 Score = 89.7 bits (221), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 48/95 (50%), Positives = 65/95 (68%), Gaps = 2/95 (2%)
Query: 77  RLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSC 136
           RL V R+ +H+Y QVI       L +AST++K I+E+L Y+     + +  VG+ +A+  
Sbjct: 25  RLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNK--DAAAAVGKAVAERA 82
Query: 137 LEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           LEKGI  V+FDR G+ YHGR+QALADAARE GLQF
Sbjct: 83  LEKGIKDVSFDRSGFQYHGRVQALADAAREAGLQF 117

>pdb|2GYA|M Chain M, Structure Of The 50s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 113

Iteration: 1
 Score = 85.1 bits (209), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 46/93 (49%), Positives = 63/93 (67%), Gaps = 2/93 (2%)
Query: 77  RLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSC 136
           RL V R+ +H+Y QVI       L +AST++K I+E+L Y+     + +  VG+ +A+  
Sbjct: 23  RLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNK--DAAAAVGKAVAERA 80
Query: 137 LEKGITKVAFDRGGYPYHGRIQALADAAREYGL 169
           LEKGI  V+FDR G+ YHGR+QALADAARE GL
Sbjct: 81  LEKGIKDVSFDRSGFQYHGRVQALADAAREAGL 113

>pdb|1NWX|M Chain M, Complex Of The Large Ribosomal Subunit From Deinococcus Radiodurans With Abt-773 Length = 113

Iteration: 1
 Score = 80.1 bits (196), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 48/97 (49%), Positives = 64/97 (65%), Gaps = 8/97 (8%)
Query: 75  RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAK 134
           R RL V+RS+KH+Y Q+IDD++  TLA+AS+            SG   + +  VG+ +A 
Sbjct: 25  RLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALK--------SGNKTDTAAAVGKALAA 76
Query: 135 SCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           +  EKGI +V FDRG Y YHGR++ALADAARE GL F
Sbjct: 77  AAAEKGIKQVVFDRGSYKYHGRVKALADAAREGGLDF 113

>pdb|1NKW|M Chain M, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 114

Iteration: 1
 Score = 80.1 bits (196), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 48/97 (49%), Positives = 64/97 (65%), Gaps = 8/97 (8%)
Query: 75  RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAK 134
           R RL V+RS+KH+Y Q+IDD++  TLA+AS+            SG   + +  VG+ +A 
Sbjct: 26  RLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALK--------SGNKTDTAAAVGKALAA 77
Query: 135 SCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           +  EKGI +V FDRG Y YHGR++ALADAARE GL F
Sbjct: 78  AAAEKGIKQVVFDRGSYKYHGRVKALADAAREGGLDF 114

>pdb|1PNU|M Chain M, Crystal Structure Of A Streptomycin Dependent Ribosome From Escherichia Coli, 50s Subunit Of 70s Ribosome. This File, 1pnu, Contains Only Molecules Of The 50s Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site Trna Are In The Pdb File 1pns. Length = 111

Iteration: 1
 Score = 80.1 bits (196), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 48/97 (49%), Positives = 64/97 (65%), Gaps = 8/97 (8%)
Query: 75  RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAK 134
           R RL V+RS+KH+Y Q+IDD++  TLA+AS+            SG   + +  VG+ +A 
Sbjct: 23  RLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALK--------SGNKTDTAAAVGKALAA 74
Query: 135 SCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           +  EKGI +V FDRG Y YHGR++ALADAARE GL F
Sbjct: 75  AAAEKGIKQVVFDRGSYKYHGRVKALADAAREGGLDF 111

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	171
3bbo_Q	161	Ribosomal protein L18; large ribosomal subunit, sp	9e-72
1ovy_A	120	50S ribosomal protein L18; ribosome; NMR {Geobacil	1e-66
3r8s_O	116	50S ribosomal protein L18; protein biosynthesis, R	2e-64
2zjr_L	114	50S ribosomal protein L18; ribosome, large ribosom	4e-62
3v2d_S	112	50S ribosomal protein L18; ribosome associated inh	1e-60
1vq8_N	187	50S ribosomal protein L18P; ribosome 50S, protein-	4e-32

>3bbo_Q Ribosomal protein L18; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 161

 Score =  212 bits (542), Expect = 9e-72
 Identities = 117/158 (74%), Positives = 130/158 (82%), Gaps = 3/158 (1%)

Query: 15  SFLGSCQQLSSVSKLVASRRP-RPAPPSLFIVEASTRPRTKREDRTARHSRIRKKIDGTP 73
           SFL S    S    L+      +P  PS  I+EA  +  T+REDRTARH RIRKK++GTP
Sbjct: 6   SFLQSAFASSQQLPLLPKFAAAKPLLPSFPIIEAKAK--TRREDRTARHVRIRKKVEGTP 63

Query: 74  ERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIA 133
           ERPRLCVFRSNKHLYVQVIDD+KMHTLASASTMQK ISEELDYSS PTIEV+KKVGE+IA
Sbjct: 64  ERPRLCVFRSNKHLYVQVIDDSKMHTLASASTMQKSISEELDYSSSPTIEVAKKVGEVIA 123

Query: 134 KSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
            +CLEKGITKVAFDRGGYPYHGR++ALADAARE GLQF
Sbjct: 124 SACLEKGITKVAFDRGGYPYHGRVKALADAAREKGLQF 161

>1ovy_A 50S ribosomal protein L18; ribosome; NMR {Geobacillus stearothermophilus} SCOP: c.55.4.1 Length = 120

 Score =  198 bits (505), Expect = 1e-66
 Identities = 74/119 (62%), Positives = 87/119 (73%), Gaps = 4/119 (3%)

Query: 53  TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISE 112
            +   R  RH+RIRKKI GT ERPRL VFRSNKH+Y Q+IDDTK  T+ SAST+ K    
Sbjct: 6   DRNAVRKKRHARIRKKIFGTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDK---- 61

Query: 113 ELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           E    S   IE +KKVGE++AK  LEKGI +V FDRGGY YHGR++ALADAARE GL+F
Sbjct: 62  EFGLDSTNNIEAAKKVGELVAKRALEKGIKQVVFDRGGYLYHGRVKALADAAREAGLEF 120

>3r8s_O 50S ribosomal protein L18; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_O 2wwq_O 3oat_O* 3oas_O* 3ofd_O 3ofc_O 3ofr_O* 3ofz_O* 3og0_O 3ofq_O 3r8t_O 3i1n_O 1p85_M 1p86_M 1vs8_O 1vs6_O 2aw4_O 2awb_O 1vt2_O 2i2v_O ... Length = 116

 Score =  191 bits (489), Expect = 2e-64
 Identities = 53/118 (44%), Positives = 73/118 (61%), Gaps = 3/118 (2%)

Query: 54  KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEE 113
           K+  R  R +R R+K+       RL V R+ +H+Y QVI       L +AST++K I+E+
Sbjct: 2   KKSARIRRATRARRKLQEL-GATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQ 60

Query: 114 LDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           L        + +  VG+ +A+  LEKGI  V+FDR G+ YHGR+QALADAARE GLQF
Sbjct: 61  LK--YTGNKDAAAAVGKAVAERALEKGIKDVSFDRSGFQYHGRVQALADAAREAGLQF 116

>2zjr_L 50S ribosomal protein L18; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.55.4.1 PDB: 1sm1_M* 2zjp_L* 2zjq_L 1nkw_M 3cf5_L* 3dll_L* 3pio_L* 3pip_L* 1nwy_M* 1nwx_M* 1xbp_M* 1pnu_M 1pny_M 1vor_P 1vou_P 1vow_P 1voy_P 1vp0_P Length = 114

 Score =  186 bits (474), Expect = 4e-62
 Identities = 51/119 (42%), Positives = 68/119 (57%), Gaps = 8/119 (6%)

Query: 53  TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISE 112
                R  R  R  +       R RL V+RS+KH+Y Q+IDD++  TLA+AS+       
Sbjct: 4   ATTIRRKLRTRRKVRTTTAASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAAL---- 59

Query: 113 ELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
                SG   + +  VG+ +A +  EKGI +V FDRG Y YHGR++ALADAARE GL F
Sbjct: 60  ----KSGNKTDTAAAVGKALAAAAAEKGIKQVVFDRGSYKYHGRVKALADAAREGGLDF 114

>3v2d_S 50S ribosomal protein L18; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_M 2hgj_R 2hgq_R 2hgu_R 1vsa_M 2j03_S 2jl6_S 2jl8_S 2v47_S 2v49_S 2wdi_S 2wdj_S 2wdl_S 2wdn_S 2wh2_S 2wh4_S 2wrj_S 2wrl_S 2wro_S 2wrr_S ... Length = 112

 Score =  182 bits (465), Expect = 1e-60
 Identities = 54/119 (45%), Positives = 72/119 (60%), Gaps = 8/119 (6%)

Query: 53  TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISE 112
            +      R  R+R +I  T  R RL VFRS KH+Y Q+IDD K  TL SAS++   +  
Sbjct: 2   ARLTAYERRKFRVRNRIKRT-GRLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK- 59

Query: 113 ELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
                 G   EV+++VG  +A+  L  GI +VAFDRG Y YHGR++ALA+ ARE GL+F
Sbjct: 60  ------GNKTEVARQVGRALAEKALALGIKQVAFDRGPYKYHGRVKALAEGAREGGLEF 112

>1vq8_N 50S ribosomal protein L18P; 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: c.55.4.1 PDB: 1vq4_N* 1vq5_N* 1vq6_N* 1vq7_N* 1s72_N* 1vq9_N* 1vqk_N* 1vql_N* 1vqm_N* 1vqn_N* 1vqo_N* 1vqp_N* 1yhq_N* 1yi2_N* 1yij_N* 1yit_N* 1yj9_N* 1yjn_N* 1yjw_N* 2otj_N* ... Length = 187

 Score =  112 bits (282), Expect = 4e-32
 Identities = 31/125 (24%), Positives = 50/125 (40%), Gaps = 9/125 (7%)

Query: 49  TRPRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVI--DDTKMHTLASASTM 106
              R +RE RT  H R+R    G   +PRL   +SNKH+  Q++        TLASA + 
Sbjct: 9   VPMRRRREARTDYHQRLRLLKSG---KPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSS 65

Query: 107 QKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRG--GYPYHGRIQALADAA 164
                     +    +  +   G +      E G+ +   D G        ++ A+ + A
Sbjct: 66  DLAEYGWE--APTGNMPSAYLTGLLAGLRAQEAGVEEAVLDIGLNSPTPGSKVFAIQEGA 123

Query: 165 REYGL 169
            + GL
Sbjct: 124 IDAGL 128

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	171
3bbo_Q	161	Ribosomal protein L18; large ribosomal subunit, sp	100.0
3r8s_O	116	50S ribosomal protein L18; protein biosynthesis, R	100.0
3v2d_S	112	50S ribosomal protein L18; ribosome associated inh	100.0
1ovy_A	120	50S ribosomal protein L18; ribosome; NMR {Geobacil	100.0
2zjr_L	114	50S ribosomal protein L18; ribosome, large ribosom	100.0
1vq8_N	187	50S ribosomal protein L18P; ribosome 50S, protein-	100.0
3j21_O	203	50S ribosomal protein L18P; archaea, archaeal, KIN	100.0
2zkr_n	297	60S ribosomal protein L5; protein-RNA complex, 60S	99.96
3u5e_D	297	60S ribosomal protein L5; translation, ribosome, r	99.92
4a17_M	301	RPL5, 60S ribosomal protein L5; eukaryotic ribosom	99.92
3iz5_Q	304	60S ribosomal protein L5 (L18P); eukaryotic riboso	99.85
2vqe_K	129	30S ribosomal protein S11, 30S ribosomal protein S	97.63
3j20_M	137	30S ribosomal protein S11P; archaea, archaeal, KIN	97.43
3bbn_K	140	Ribosomal protein S11; small ribosomal subunit, sp	97.4
3r8n_K	117	30S ribosomal protein S11; protein biosynthesis, R	97.16
2xzm_K	151	RPS14E; ribosome, translation; 3.93A {Tetrahymena	96.85
3u5c_O	137	RP59A, 40S ribosomal protein S14-A; translation, r	95.95

>3bbo_Q Ribosomal protein L18; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=4.7e-57  Score=362.11  Aligned_cols=160  Identities=72%  Similarity=1.044  Sum_probs=115.6

Q ss_pred             hhhhhhccccceeccccc-eecccCCCCCCCCceeEEEeccCCCCcHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEE
Q 030804           10 MLNQSSFLGSCQQLSSVS-KLVASRRPRPAPPSLFIVEASTRPRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLY   88 (171)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~-~~~~~~~p~~~~~~~~~~~a~~~~~~r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiy   88 (171)
                      |+++++|+++|.|.+++. .++++++|.|.+. +++++|.. .++|++.|++||+|+|+|+.||.++|||+||+||+|||
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~k~~~R~rR~~RiR~ki~gt~~rPRL~V~rSnkhIy   78 (161)
T 3bbo_Q            1 MCASLSFLQSAFASSQQLPLLPKFAAAKPLLP-SFPIIEAK-AKTRREDRTARHVRIRKKVEGTPERPRLCVFRSNKHLY   78 (161)
T ss_dssp             ----------------------------------------C-CCCCCCCGGGTSCCSCSGGGGSSSCCCCEEEECSSCEE
T ss_pred             CCcchhHHHHhhccccccccccccCCCCCCCC-ceeeEeec-cCchHHHHHHHHHHHHHhhccCCCCCEEEEEecCCeEE
Confidence            467899999999855552 5666666666655 67777731 57888889999999999999999999999999999999


Q ss_pred             EEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcC
Q 030804           89 VQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYG  168 (171)
Q Consensus        89 AQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~G  168 (171)
                      ||||||.+|+||++|||+|++++.++++++++|+++|+.||++||+||+|+||++|+||||||+|||||+||+|++||+|
T Consensus        79 AQvIdd~~g~tLasASTlek~lk~~l~~g~~~n~~AA~~VG~liAeRA~e~GI~~VvFDRgg~~YhGRVkAladaaRe~G  158 (161)
T 3bbo_Q           79 VQVIDDSKMHTLASASTMQKSISEELDYSSSPTIEVAKKVGEVIASACLEKGITKVAFDRGGYPYHGRVKALADAAREKG  158 (161)
T ss_dssp             EEEECCTTSCEEEEEEHHHHHHHHCCTTCCSSSHHHHHHHHHHSSSHHHHTSSCCCCCCCSSSCSSSTTHHHHHHHTTTT
T ss_pred             EEEEECCCCEEEEEEeCCcHHHHhhccccCCCCHHHHHHHHHHHHHHHHHCCCCEEEEeCCCCcchHHHHHHHHHHHHhC
Confidence            99999999999999999999999776434689999999999999999999999999999999999999999999999999


Q ss_pred             CcC
Q 030804          169 LQF  171 (171)
Q Consensus       169 L~f  171 (171)
                      |+|
T Consensus       159 L~F  161 (161)
T 3bbo_Q          159 LQF  161 (161)
T ss_dssp             CCC
T ss_pred             CcC
Confidence            998

>3r8s_O 50S ribosomal protein L18; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_O 3j19_O 2wwq_O 3oat_O* 3oas_O* 3ofd_O 3ofc_O 3ofr_O* 3ofz_O* 3og0_O 3ofq_O 3r8t_O 3i1n_O 1p85_M 1p86_M 1vs8_O 1vs6_O 2aw4_O 2awb_O 1vt2_O ...

Probab=100.00  E-value=1.7e-47  Score=292.54  Aligned_cols=115  Identities=46%  Similarity=0.728  Sum_probs=110.2

Q ss_pred             cHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHH
Q 030804           54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIA  133 (171)
Q Consensus        54 r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LA  133 (171)
                      |++.|++||+|+|+||.| +++|||+||+||+|||||||||.+|+||+||||+|++++..+  .+++|++||+.||++||
T Consensus         2 ~~~~r~~r~~r~R~ki~~-~~rpRL~V~rSnkhIyAQiidd~~g~tlasAST~e~~~~~~~--~~~~n~~AA~~vG~llA   78 (116)
T 3r8s_O            2 KKSARIRRATRARRKLQE-LGATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQL--KYTGNKDAAAAVGKAVA   78 (116)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TTCCEEEEEECSSCEEEEEECTTSSCEEEECCSSSHHHHTTC--SCSSSHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhcc-CCCCEEEEEEeCCEEEEEEEEcCCCeEEEEEeeCchhhcccc--CCCCCHHHHHHHHHHHH
Confidence            577899999999999999 799999999999999999999999999999999999988765  36789999999999999


Q ss_pred             HHHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          134 KSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       134 kra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      +||+++||++|+||||||+|||||+||+|++||+||+|
T Consensus        79 ~Ral~~GI~~vvfDrgg~~yhGrV~Ala~~are~Gl~f  116 (116)
T 3r8s_O           79 ERALEKGIKDVSFDRSGFQYHGRVQALADAAREAGLQF  116 (116)
T ss_dssp             HHHHTTTCCCCEEECTTSCSSSHHHHHHHHHHHTTCCC
T ss_pred             HHHHHCCCCEEEEecCCCcccHHHHHHHHHHHHhCCCC
Confidence            99999999999999999999999999999999999998

>3v2d_S 50S ribosomal protein L18; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_M 2hgj_R 2hgq_R 2hgu_R 1vsa_M 2j03_S 2jl6_S 2jl8_S 2v47_S 2v49_S 2wdi_S 2wdj_S 2wdl_S 2wdn_S 2wh2_S 2wh4_S 2wrj_S 2wrl_S 2wro_S 2wrr_S ...

Probab=100.00  E-value=5e-47  Score=288.66  Aligned_cols=110  Identities=49%  Similarity=0.760  Sum_probs=105.8

Q ss_pred             cHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHH
Q 030804           54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIA  133 (171)
Q Consensus        54 r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LA  133 (171)
                      |++.|++||+|+|+||.||+ +|||+||+||+|||||||||.+|+||+||||+|++++       ++|++||+.||++||
T Consensus         3 ~~~~r~~r~~r~r~ki~gt~-rpRL~V~rSnkhiyAQiidd~~~~tlasAsT~e~~~k-------~~n~~AA~~vG~llA   74 (112)
T 3v2d_S            3 RLTAYERRKFRVRNRIKRTG-RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-------GNKTEVARQVGRALA   74 (112)
T ss_dssp             CCCHHHHHHHHHHHHHHHTC-CCEEEEEECSSCEEEEEEETTTTEEEEEEETTTTTCC-------CCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCCC-CCEEEEEEeCCeEEEEEEecCCCeEEEEEEecchhcc-------CCCHHHHHHHHHHHH
Confidence            56688999999999999998 9999999999999999999999999999999999874       569999999999999


Q ss_pred             HHHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          134 KSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       134 kra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      +||+++||++|+||||||+|||||+||+|++||+||+|
T Consensus        75 ~ra~~~GI~~vvfDrgg~~yhGrV~Ala~~are~GL~f  112 (112)
T 3v2d_S           75 EKALALGIKQVAFDRGPYKYHGRVKALAEGAREGGLEF  112 (112)
T ss_dssp             HHHHTTTCCBCEEECTTSCSCSSTTHHHHHHHHTTCBC
T ss_pred             HHHHHCCCCEEEEecCCCcccHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999998

>1ovy_A 50S ribosomal protein L18; ribosome; NMR {Geobacillus stearothermophilus} SCOP: c.55.4.1

Probab=100.00  E-value=5.5e-47  Score=291.33  Aligned_cols=115  Identities=64%  Similarity=0.975  Sum_probs=94.1

Q ss_pred             CcHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHH
Q 030804           53 TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMI  132 (171)
Q Consensus        53 ~r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~L  132 (171)
                      +|++.|.+||+|+|+|+.||+++|||+||+||+|||||||||.+|+||+||||+|++++  +  .+++|++||+.||++|
T Consensus         6 ~~~~~r~~r~~R~r~ki~gt~~rpRL~V~rSnkhIyAQiidd~~~~tl~sAsT~e~~~~--~--~~~~n~~AA~~vG~ll   81 (120)
T 1ovy_A            6 DRNAVRKKRHARIRKKIFGTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFG--L--DSTNNIEAAKKVGELV   81 (120)
T ss_dssp             ------------------CCSSCCSEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTC--S--SCTTSHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhcCCCCCCEEEEEEeCCeEEEEEEEcCCCEEEEEEecCchhhC--c--CCCCcHHHHHHHHHHH
Confidence            46788999999999999999999999999999999999999999999999999999987  3  3678999999999999


Q ss_pred             HHHHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          133 AKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       133 Akra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      |+||+|+||++|+||||||+|||||+||+|++||+||+|
T Consensus        82 A~Ral~~GI~~vvfDrgg~~yhgrV~ala~~are~GL~f  120 (120)
T 1ovy_A           82 AKRALEKGIKQVVFDRGGYLYHGRVKALADAAREAGLEF  120 (120)
T ss_dssp             HHHHHHHSSSCCCCCSTTCSSCSSTHHHHHHHHHHHCCC
T ss_pred             HHHHHHCCCCEEEEecCCccccHHHHHHHHHHHHhCCcC
Confidence            999999999999999999999999999999999999998

>2zjr_L 50S ribosomal protein L18; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.55.4.1 PDB: 1sm1_M* 2zjp_L* 2zjq_L 1nkw_M 3cf5_L* 3dll_L* 3pio_L* 3pip_L* 1nwy_M* 1nwx_M* 1xbp_M* 1pnu_M 1pny_M 1vor_P 1vou_P 1vow_P 1voy_P 1vp0_P

Probab=100.00  E-value=4.7e-45  Score=278.54  Aligned_cols=109  Identities=49%  Similarity=0.788  Sum_probs=97.8

Q ss_pred             HHHHHHHHHHhhhhhcCC---CCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHH
Q 030804           55 REDRTARHSRIRKKIDGT---PERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEM  131 (171)
Q Consensus        55 ~~~r~~R~~RirkKi~gt---~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~  131 (171)
                      .++|++||+|+|+|+.||   +++|||+||+||+|||||||||.+|+||+||||+|  + .     +++|++||+.||++
T Consensus         3 ~~~r~~r~~r~r~ki~gt~~~~~rpRL~V~rSnkhIyAQiidd~~~~tl~sAST~e--l-~-----~~~n~~AA~~vG~l   74 (114)
T 2zjr_L            3 TATTIRRKLRTRRKVRTTTAASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAA--L-K-----SGNKTDTAAAVGKA   74 (114)
T ss_dssp             -----CHHHHHHHHHHSCSTTTCSEEECCCTTSSCCCCCEEETTTTEECCCCCSCS--C-C-----TTCSSSSHHHHHHH
T ss_pred             hHHHHHHHHHHHhhhccccCCCCCCEEEEEEeCCeEEEEEEEcCCCEEEEEEEchH--h-c-----CCCCHHHHHHHHHH
Confidence            357889999999999999   99999999999999999999999999999999999  3 1     46799999999999


Q ss_pred             HHHHHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcCCcC
Q 030804          132 IAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       132 LAkra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~GL~f  171 (171)
                      ||+||+++||++|+||||||+|||||+||+|++||+||+|
T Consensus        75 lA~Ral~~GI~~vvfDrgg~~yhgrV~Ala~~are~GL~f  114 (114)
T 2zjr_L           75 LAAAAAEKGIKQVVFDRGSYKYHGRVKALADAAREGGLDF  114 (114)
T ss_dssp             HHHHHHTTCCCCCEECCCSSCSCSHHHHHHHHHHHHC---
T ss_pred             HHHHHHHCCCCEEEEecCCccccHHHHHHHHHHHHhCCcC
Confidence            9999999999999999999999999999999999999998

>1vq8_N 50S ribosomal protein L18P; 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: c.55.4.1 PDB: 1vq4_N* 1vq5_N* 1vq6_N* 1vq7_N* 1s72_N* 1vq9_N* 1vqk_N* 1vql_N* 1vqm_N* 1vqn_N* 1vqo_N* 1vqp_N* 1yhq_N* 1yi2_N* 1yij_N* 1yit_N* 1yj9_N* 1yjn_N* 1yjw_N* 2otj_N* ...

Probab=100.00  E-value=1.2e-36  Score=248.92  Aligned_cols=113  Identities=26%  Similarity=0.348  Sum_probs=101.0

Q ss_pred             cHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEE--eCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHH
Q 030804           54 KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVI--DDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEM  131 (171)
Q Consensus        54 r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvI--dd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~  131 (171)
                      |+|-+.-.+.|+|..+   +++|||+||+||+|||||||  ||.+|+||+||||+|++ +.+|+ .+++|++||+.||++
T Consensus        14 rregkTdy~~R~rl~~---~~rpRL~V~rSnkhIyAQII~~dd~~~~tlasAsT~e~~-k~~~k-~~~~N~~AA~~vG~l   88 (187)
T 1vq8_N           14 RREARTDYHQRLRLLK---SGKPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLA-EYGWE-APTGNMPSAYLTGLL   88 (187)
T ss_dssp             HHTTCCCHHHHHHHHT---TCSCEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGG-GGTCC-SCSSSHHHHHHHHHH
T ss_pred             hhccchhHHHHHHHHh---cCCCEEEEEEeCCcEEEEEEEecCCCCEEEEEEEccchh-ccccc-cCCCcHHHHHHHHHH
Confidence            3444444566666655   57999999999999999999  99999999999999999 77763 357899999999999


Q ss_pred             HHHHHHHcCCCEEEEecCCCchh--hHHHHHHHHHHHcCCcC
Q 030804          132 IAKSCLEKGITKVAFDRGGYPYH--GRIQALADAAREYGLQF  171 (171)
Q Consensus       132 LAkra~e~GI~~VvfDRgg~~Yh--GrVkAlad~aRe~GL~f  171 (171)
                      ||+||+++||++|+||||||+||  |||+||+|++||+||+|
T Consensus        89 lA~Ral~kGI~~vvfDrgg~~yh~GgRV~Ala~gAre~GL~f  130 (187)
T 1vq8_N           89 AGLRAQEAGVEEAVLDIGLNSPTPGSKVFAIQEGAIDAGLDI  130 (187)
T ss_dssp             HHHHHHHTTCCBCEEECTTSCCCTTCHHHHHHHHHHHTTCBC
T ss_pred             HHHHHHHCCCCEEEEcCCCceeccchHHHHHHHHhhcCCEec
Confidence            99999999999999999999999  99999999999999997

>3j21_O 50S ribosomal protein L18P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=1.6e-36  Score=250.81  Aligned_cols=115  Identities=25%  Similarity=0.274  Sum_probs=104.0

Q ss_pred             CcHHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEe--CCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHH
Q 030804           53 TKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVID--DTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGE  130 (171)
Q Consensus        53 ~r~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvId--d~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~  130 (171)
                      .|+|.+..++.|+|..+.+   +|||+||+||+||||||||  |.+|+||+||||+|++++.+|. .+++|++||+.||+
T Consensus        13 rRregkt~y~~R~rl~~~~---kpRL~V~rSnkhIyAQIId~d~~g~~tLasAST~El~lk~g~~-~~~~N~~AA~~vG~   88 (203)
T 3j21_O           13 RRREGKTNYRKRLKLLKSG---KPRLVVRKSLNHHIAQIIVYDPKGDRTLVSAHTRELIRDFGWK-GHCGNTPSAYLLGL   88 (203)
T ss_dssp             HHHHTCCCHHHHHHHHTTC---CCEEEEEECSSCEEEEEEECCTTSCEEEEEECSTTTSSSSSCC-SCTTSHHHHHHHHH
T ss_pred             hHHHHhHHHHHHHHHHhcC---CCEEEEEEeCCeEEEEEEEecCCCCeEEEEEEccchhhhhccc-CCCCcHHHHHHHHH
Confidence            4556666788888887754   9999999999999999998  8889999999999999876653 46789999999999


Q ss_pred             HHHHHHHHcCCCEEEEecCCCch--hhHHHHHHHHHHHcCCcC
Q 030804          131 MIAKSCLEKGITKVAFDRGGYPY--HGRIQALADAAREYGLQF  171 (171)
Q Consensus       131 ~LAkra~e~GI~~VvfDRgg~~Y--hGrVkAlad~aRe~GL~f  171 (171)
                      +||+||+++||++|+|||||++|  ||||+||+|++||+||+|
T Consensus        89 llA~Ral~kGI~~vvfDrgg~~y~~hgRV~Ala~gAre~GL~i  131 (203)
T 3j21_O           89 LIGYKAKQAGIEEAILDIGLHPPVRGSSVFAVLKGAVDAGLNV  131 (203)
T ss_dssp             HSSSSTTSSCCCCCEEECCSSCCCTTSHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHhCCCCEEEEecCcceeccCcchhhhhhhcccCCeec
Confidence            99999999999999999999999  899999999999999987

>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=99.96  E-value=8.5e-29  Score=213.54  Aligned_cols=96  Identities=15%  Similarity=0.158  Sum_probs=90.6

Q ss_pred             CCceEEEEeeCCcEEEEEEeCC--CCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHc------------
Q 030804           74 ERPRLCVFRSNKHLYVQVIDDT--KMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEK------------  139 (171)
Q Consensus        74 ~rPRL~V~rSnkhiyAQvIdd~--~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~------------  139 (171)
                      .+|||+||+||+|||||||||.  +|+||++|||+|++ +.+|. ..++|.+||+.+|.+||+|++++            
T Consensus        47 ~kpRLvVrrSNk~I~aQII~~~~~gd~tLasAsS~El~-kyg~k-~g~tN~aAAy~tGlLlArRal~k~~ld~~y~G~~e  124 (297)
T 2zkr_n           47 PKYRMIVRVTNRDIICQIAYARIEGDMIVCARYAHELP-KYGVK-VGLTNYAAAYCTGLLLARRLLNRFGMDKIYEGQVE  124 (297)
T ss_dssp             CSEEEEEEEETTEEEEEEEECCSSSCEEEEEEEGGGGG-GTCCC-SCSSSHHHHHHHHHHHHHHHHCCCSCCCCCSSCCS
T ss_pred             CCceEEEEEecCcEEEEEEeccCCCCEEEEEeecCccc-ccccc-cCCCcHHHHHHHHHHHHHHHHHhhccchhhcCccc
Confidence            5799999999999999999987  99999999999998 76664 35789999999999999999999            


Q ss_pred             ---------------CCCEEEEecCCCch--hhHHHHHHHHHHHcCCcC
Q 030804          140 ---------------GITKVAFDRGGYPY--HGRIQALADAAREYGLQF  171 (171)
Q Consensus       140 ---------------GI~~VvfDRgg~~Y--hGrVkAlad~aRe~GL~f  171 (171)
                                     ||.+|+||||+++|  ||||+|+++++||+||+|
T Consensus       125 ~~g~~~~ve~~~~~~gi~~vvfDrGl~ryttggRVfa~akGArDgGL~~  173 (297)
T 2zkr_n          125 VTGDEYNVESIDGQPGAFTCYLDAGLARTTTGNKVFGALKGAVDGGLSI  173 (297)
T ss_dssp             SSSCCCCCSSSCSSSCCCBEEEECTTSCCCTTCHHHHHHHHHHHTTCBC
T ss_pred             cccccccccccccCCCceEEEEecCCcccCCCchHHHHHHHHHhcCccc
Confidence                           99999999999999  999999999999999987

>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_D 4b6a_D 3izc_Q 3izs_Q 3o58_E 3o5h_E 3jyw_E 1s1i_E

Probab=99.92  E-value=2.6e-25  Score=191.95  Aligned_cols=97  Identities=26%  Similarity=0.283  Sum_probs=88.8

Q ss_pred             CCCceEEEEeeCCcEEEEEEeC--CCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHc--------CCC
Q 030804           73 PERPRLCVFRSNKHLYVQVIDD--TKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEK--------GIT  142 (171)
Q Consensus        73 ~~rPRL~V~rSnkhiyAQvIdd--~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~--------GI~  142 (171)
                      +.+|||+||+||+|||||||||  .+|+||+||||+|++ +.+|. ..++|++||+.||.+||+||+++        |++
T Consensus        46 t~kpRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~-k~g~k-~~~~N~~AAy~vG~LiAeRAl~k~~ld~~y~G~~  123 (297)
T 3u5e_D           46 TPKYRLVVRFTNKDIICQIISSTITGDVVLAAAYSHELP-RYGIT-HGLTNWAAAYATGLLIARRTLQKLGLDETYKGVE  123 (297)
T ss_dssp             CCCCEEEEEEETTEEEEEEEECCTTCCEEEEEEEGGGGG-GGTCC-SCTTSHHHHHHHHHHHHHHHHHHTSTTSSCCCCS
T ss_pred             CCCceEEEEEcCCeEEEEEeecCCCCCEEEEEEeecchh-hcccC-CCCCcHHHHHHHHHHHHHHHHHhhCCcccccCcc
Confidence            4699999999999999999998  689999999999998 34453 35789999999999999999999        998


Q ss_pred             E-------------------EEEecCCCch--hhHHHHHHHHHHHcCCcC
Q 030804          143 K-------------------VAFDRGGYPY--HGRIQALADAAREYGLQF  171 (171)
Q Consensus       143 ~-------------------VvfDRgg~~Y--hGrVkAlad~aRe~GL~f  171 (171)
                      +                   ++||+|+.++  |+||++++++++|+||++
T Consensus       124 e~~g~~~~ve~~~~~~~~f~~~LDvGl~rtttG~RVfaalKGA~DgGL~I  173 (297)
T 3u5e_D          124 EVEGEYELTEAVEDGPRPFKVFLDIGLQRTTTGARVFGALKGASDGGLYV  173 (297)
T ss_dssp             SCCCCCCCCCCCSSSCCCCBCEEECTTCCCCTTCSHHHHHHHHHHHTCBC
T ss_pred             ccccceeccccccCCCCceeEEEecCCCccCccceehhhhhcccccCccc
Confidence            8                   9999999999  999999999999999974

>4a17_M RPL5, 60S ribosomal protein L5; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_M 4a1c_M 4a1e_M

Probab=99.92  E-value=2.4e-25  Score=192.42  Aligned_cols=97  Identities=18%  Similarity=0.223  Sum_probs=88.0

Q ss_pred             CCCceEEEEeeCCcEEEEEEeC--CCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHc--------CCC
Q 030804           73 PERPRLCVFRSNKHLYVQVIDD--TKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEK--------GIT  142 (171)
Q Consensus        73 ~~rPRL~V~rSnkhiyAQvIdd--~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~--------GI~  142 (171)
                      +.+|||+||+||+|||||||||  .+|+||+||||+|++. .+|. ..++|++||+.||.+||+||+++        |++
T Consensus        46 spkpRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~~-~g~k-~~~~N~~AAy~vG~LiAeRAl~k~~~d~~y~G~~  123 (301)
T 4a17_M           46 TPKYRLVARATNTRIIAQIVYATLKCDRVLCAADSYELKR-FGVS-TGLASYAAAYATGLLLARRLLKQIGLDTVYAGQT  123 (301)
T ss_dssp             CCCEEEEEEECSSCEEEEEEEECSSCEEEEEEEETTHHHH-TTCC-SCTTSHHHHHHHHHHHHHHHHHHHTCTTTCCCCS
T ss_pred             CCCceEEEEEcCCeEEEEEeecCCCCCEEEEEEeeccchh-cccc-CCCCcHHHHHHHHHHHHHHHHHhcCCcccccCcc
Confidence            4589999999999999999998  6889999999999973 4443 35789999999999999999999        998


Q ss_pred             -------------------EEEEecCCCch--hhHHHHHHHHHHHcCCcC
Q 030804          143 -------------------KVAFDRGGYPY--HGRIQALADAAREYGLQF  171 (171)
Q Consensus       143 -------------------~VvfDRgg~~Y--hGrVkAlad~aRe~GL~f  171 (171)
                                         +++||+|+.++  |+||++++++++|+||++
T Consensus       124 e~~g~~~~ve~~~~~~~~f~~~LD~Gl~rtt~G~RVfaalKGA~DgGL~I  173 (301)
T 4a17_M          124 KVDGAYFNVDEDQKEKKPFKAILDAGLVRTTTGNRVFGVLKGACDGGINI  173 (301)
T ss_dssp             SCCCSCCCGGGTCCSSCCCBCEEECTTSCCCSSCHHHHHHHHHHHTTCBC
T ss_pred             ccccceeecccccCCCCceEEEEecCCcccCcccchhhhhhcccccCccc
Confidence                               69999999999  999999999999999974

>2vqe_K 30S ribosomal protein S11, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: c.55.4.1 PDB: 1gix_N* 1hnw_K* 1hnx_K* 1hnz_K* 1hr0_K 1ibk_K* 1ibl_K* 1ibm_K 1j5e_K 1jgo_N* 1jgp_N* 1jgq_N* 1ml5_N* 1n32_K* 1n33_K* 1n34_K 1n36_K 1xmo_K* 1xmq_K* 1xnq_K* ...

Probab=97.63  E-value=0.00051  Score=52.83  Aligned_cols=90  Identities=20%  Similarity=0.161  Sum_probs=71.0

Q ss_pred             CCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEE-EEecCCC
Q 030804           73 PERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKV-AFDRGGY  151 (171)
Q Consensus        73 ~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~V-vfDRgg~  151 (171)
                      -..+.+.|+.|-++..+.|.| .+|.+++..|+-...++..    ..++-.||..+++.++++|+|.||+.| ++=+|. 
T Consensus        14 ~~~gi~hI~as~NNTivtiTd-~~G~~~~~~SaG~~gfKg~----rk~tp~AA~~aa~~~~~~~~~~Gi~~v~V~vkG~-   87 (129)
T 2vqe_K           14 VASGRAYIHASYNNTIVTITD-PDGNPITWSSGGVIGYKGS----RKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGT-   87 (129)
T ss_dssp             CSEEEEEEEECSSCEEEEEEC-TTSCEEEECCTTTTTCCSG----GGGSHHHHHHHHHHHHHHHHTTTCCEEEEEEESC-
T ss_pred             ccceEEEEEecCCCEEEEEEc-CCCCEEEEEeccceeEcCC----CcCCHHHHHHHHHHHHHHHHHhCCeEEEEEEECC-
Confidence            357899999999999999986 5667888888888777765    346789999999999999999999988 444542 


Q ss_pred             chhhHHHHHHHHHHHcCCc
Q 030804          152 PYHGRIQALADAAREYGLQ  170 (171)
Q Consensus       152 ~YhGrVkAlad~aRe~GL~  170 (171)
                      - -|| +++..+|...||+
T Consensus        88 G-~Gr-e~airaL~~~Gl~  104 (129)
T 2vqe_K           88 G-AGR-EQAIRALQASGLQ  104 (129)
T ss_dssp             C-TTH-HHHHHHHHTSSSE
T ss_pred             C-CCH-HHHHHHHHHCCCE
Confidence            1 244 4667777778876

>3j20_M 30S ribosomal protein S11P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=97.43  E-value=0.0013  Score=51.10  Aligned_cols=93  Identities=22%  Similarity=0.174  Sum_probs=69.4

Q ss_pred             CCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEE-EEecC--C
Q 030804           74 ERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKV-AFDRG--G  150 (171)
Q Consensus        74 ~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~V-vfDRg--g  150 (171)
                      ....+.||-|-++..+.|.|..+..+|+.+|.-...++..    ..++--||...++.++++|+|.||+.| ++=+|  |
T Consensus        13 ~~gi~hI~asfNNTivtiTD~~G~~~i~~~S~G~~gfkg~----~ksTp~AA~~aa~~~~~~a~e~Gi~~v~V~vkG~gg   88 (137)
T 3j20_M           13 KWGIAHIYSSFNNTIIHITDITGAETISRWSGGMVVKADR----DEPSPYAAMLAARRAAEEALEKGIVGVHIRVRAPGG   88 (137)
T ss_dssp             EEEEEEEEECSSCEEEEEEESSSCSEEEEEEGGGTCSCTT----TSSSHHHHHHHHHHHHHHHHHHTEEEEEEEEECCCS
T ss_pred             cceEEEEEcCCCCEEEEEEcCCCCEEEEEEccceeeecCC----ccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEECCCC
Confidence            4568999999999999999877667998888877766543    345778999999999999999999988 44454  3


Q ss_pred             Cc----hhhHHHHHHHHHHHcCCcC
Q 030804          151 YP----YHGRIQALADAAREYGLQF  171 (171)
Q Consensus       151 ~~----YhGrVkAlad~aRe~GL~f  171 (171)
                      .+    --||- +++.+|...||++
T Consensus        89 ~~~~~pG~Gre-sairaL~~~Gl~I  112 (137)
T 3j20_M           89 SKSKTPGPGAQ-AAIRALARAGLKI  112 (137)
T ss_dssp             SSCCSCCTHHH-HHHHHHHHHTCEE
T ss_pred             CCCcCCCCcHH-HHHHHHHhCCCEE
Confidence            32    13553 3455666678763

>3bbn_K Ribosomal protein S11; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1

Probab=97.40  E-value=0.00042  Score=54.12  Aligned_cols=90  Identities=19%  Similarity=0.173  Sum_probs=70.2

Q ss_pred             CCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEE-EEecCCC
Q 030804           73 PERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKV-AFDRGGY  151 (171)
Q Consensus        73 ~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~V-vfDRgg~  151 (171)
                      -..+.+.|+.|-++..+.|.| .+|.+++..|+-...++..    ..++-.||..+++.++++|+|.||+.| ++=+|. 
T Consensus        27 ~~~gi~hI~as~NNTivtiTD-~~G~~i~~~SaG~~GfKg~----rksTp~AA~~aa~~~~~~a~e~Gi~~v~V~vkG~-  100 (140)
T 3bbn_K           27 IPKGVIHVQASFNNTIVTVTD-VRGRVVSWASAGTCGFRGT----KRGTPFAAQTAAGNAIRTVVEQGMQRAEVMIKGP-  100 (140)
T ss_dssp             CCCCEEEEEECSSCEEEEEEC-SSSCEEEEEETTTSSCCTT----SCSSHHHHHHHHTSGGGTSTTTCCCEEEEEEESC-
T ss_pred             ceeeEEEEEecCCCEEEEEEc-CCCCEEEEEeccceeEccc----ccCCHHHHHHHHHHHHHHHHHhCCeEEEEEEECC-
Confidence            357899999999999999986 5667888888887778764    356789999999999999999999988 444542 


Q ss_pred             chhhHHHHHHHHHHHcCCc
Q 030804          152 PYHGRIQALADAAREYGLQ  170 (171)
Q Consensus       152 ~YhGrVkAlad~aRe~GL~  170 (171)
                      - -|| +++..+|...||+
T Consensus       101 G-~GR-eaairaL~~~Gl~  117 (140)
T 3bbn_K          101 G-LGR-DAALRAIRRSGIL  117 (140)
T ss_dssp             S-TTS-SHHHHHHHTTTCE
T ss_pred             C-CcH-HHHHHHHHHCCCE
Confidence            1 133 3556677777875

>2xzm_K RPS14E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_K 3j0o_K 3j0l_K 2zkq_k 3iz6_K 3jyv_K*

Probab=96.85  E-value=0.0033  Score=49.57  Aligned_cols=92  Identities=15%  Similarity=0.156  Sum_probs=66.1

Q ss_pred             CceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEE-EEecC--CC
Q 030804           75 RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKV-AFDRG--GY  151 (171)
Q Consensus        75 rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~V-vfDRg--g~  151 (171)
                      ...+.|+-|-++..+.|.|..+..++..+|.-.. ++..   ...++--||...++.++++|+|.||+.| ++=+|  |.
T Consensus        28 ~gi~hI~asfNNTiVtiTD~~G~~~~~~ssgg~~-~k~~---r~ksTpyAAq~aa~~~a~~a~e~Gi~~v~V~vkG~gg~  103 (151)
T 2xzm_K           28 FGVCHIMATWNDTFIHVTDLSGRETLVRVTGGMK-VKAD---REESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGV  103 (151)
T ss_dssp             EEEEEEEBCSSCBCCEEECTTCCSEEEECCHHHH-CSSG---GGGSCHHHHHHHHHHHHHHHHHHTCCEEEEEEECCCTT
T ss_pred             eeEEEEEccCCCEEEEEECCCCCEEEEEecCcce-EeCC---CCcCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCCC
Confidence            5789999999999999998777767766554433 3332   1235678999999999999999999988 34443  32


Q ss_pred             c----hhhHHHHHHHHHHHcCCcC
Q 030804          152 P----YHGRIQALADAAREYGLQF  171 (171)
Q Consensus       152 ~----YhGrVkAlad~aRe~GL~f  171 (171)
                      +    --|| ++++.+|...||++
T Consensus       104 ~~kgpG~Gr-esairaL~~~GlkI  126 (151)
T 2xzm_K          104 ETKQPGPGA-QSALRALARSGMKI  126 (151)
T ss_dssp             SCCSCCSHH-HHHHHHHHHTSCEE
T ss_pred             CccCCCccH-HHHHHHHHHCCCEE
Confidence            2    2355 56677777788863

>3u5c_O RP59A, 40S ribosomal protein S14-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_K 3o30_H 3o2z_H 3u5g_O 1s1h_K 3jyv_K*

Probab=95.95  E-value=0.014  Score=45.35  Aligned_cols=93  Identities=24%  Similarity=0.207  Sum_probs=64.3

Q ss_pred             CCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEE-Eec--C
Q 030804           73 PERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVA-FDR--G  149 (171)
Q Consensus        73 ~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~Vv-fDR--g  149 (171)
                      -....+.||-|-++.+..|.|..+..+ ...|+-...+|..-   ..++--||...++.++++|+|.||+.+. +=|  |
T Consensus        12 ~~~gi~hI~asfNNTivtvTD~~G~~~-~~~ssG~~gfKg~r---~ksTpyAAq~aa~~~a~~a~e~Gi~~v~V~vra~g   87 (137)
T 3u5c_O           12 QVFGVARIYASFNDTFVHVTDLSGKET-IARVTGGMKVKADR---DESSPYAAMLAAQDVAAKCKEVGITAVHVKIRATG   87 (137)
T ss_dssp             CCEEECCEEEETTEEEECCEETTSSSC-CCCCBTTTTSCCST---TTTCHHHHHHHHHHHHHHHHHHTCCEEECEEECSC
T ss_pred             eeeEEEEEEccCCCEEEEEEcCCCCEE-EEEeCCCcEEeCCc---ccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEeccC
Confidence            345688899999999999998665554 44455444666531   2356789999999999999999999883 333  3


Q ss_pred             CCch----hhHHHHHHHHHHHcCCc
Q 030804          150 GYPY----HGRIQALADAAREYGLQ  170 (171)
Q Consensus       150 g~~Y----hGrVkAlad~aRe~GL~  170 (171)
                      |.+.    -|| ++.+.+|...||+
T Consensus        88 g~~~kgpG~Gr-~sairaL~~~Gl~  111 (137)
T 3u5c_O           88 GTRTKTPGPGG-QAALRALARSGLR  111 (137)
T ss_dssp             TTSCCSCCGGG-HHHHHHHHTTTCE
T ss_pred             CCcccCCCcch-HHHHHHHHhCCCE
Confidence            3322    244 4445566667775

---

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	171
d2gycm1	113	c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {E	1e-41
d1ovya_	97	c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacill	5e-41
d2j01s1	86	c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {	8e-41
d2zjrl1	104	c.55.4.1 (L:8-111) Ribosomal protein L18 (L18p) {D	1e-38
d1vqon1	186	c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {A	2e-29

>d2gycm1 c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {Escherichia coli [TaxId: 562]} Length = 113

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Escherichia coli [TaxId: 562]

 Score =  133 bits (336), Expect = 1e-41
 Identities = 51/116 (43%), Positives = 71/116 (61%), Gaps = 3/116 (2%)

Query: 54  KREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEE 113
           K+  R  R +R R+K+       RL V R+ +H+Y QVI       L +AST++K I+E+
Sbjct: 1   KKSARIRRATRARRKLQELG-ATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQ 59

Query: 114 LDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGL 169
           L        + +  VG+ +A+  LEKGI  V+FDR G+ YHGR+QALADAARE GL
Sbjct: 60  L--KYTGNKDAAAAVGKAVAERALEKGIKDVSFDRSGFQYHGRVQALADAAREAGL 113

>d1ovya_ c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacillus stearothermophilus [TaxId: 1422]} Length = 97

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Bacillus stearothermophilus [TaxId: 1422]

 Score =  131 bits (331), Expect = 5e-41
 Identities = 63/101 (62%), Positives = 75/101 (74%), Gaps = 4/101 (3%)

Query: 71  GTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGE 130
           GT ERPRL VFRSNKH+Y Q+IDDTK  T+ SAST+ K    +        IE +KKVGE
Sbjct: 1   GTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLDST----NNIEAAKKVGE 56

Query: 131 MIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYGLQF 171
           ++AK  LEKGI +V FDRGGY YHGR++ALADAARE GL+F
Sbjct: 57  LVAKRALEKGIKQVVFDRGGYLYHGRVKALADAAREAGLEF 97

>d2j01s1 c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {Thermus thermophilus [TaxId: 274]} Length = 86

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Thermus thermophilus [TaxId: 274]

 Score =  130 bits (329), Expect = 8e-41
 Identities = 46/92 (50%), Positives = 60/92 (65%), Gaps = 7/92 (7%)

Query: 75  RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAK 134
           R RL VFRS KH+Y Q+IDD K  TL SAS++   +        G   EV+++VG  +A+
Sbjct: 1   RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-------GNKTEVARQVGRALAE 53

Query: 135 SCLEKGITKVAFDRGGYPYHGRIQALADAARE 166
             L  GI +VAFDRG Y YHGR++ALA+ ARE
Sbjct: 54  KALALGIKQVAFDRGPYKYHGRVKALAEGARE 85

>d2zjrl1 c.55.4.1 (L:8-111) Ribosomal protein L18 (L18p) {Deinococcus radiodurans [TaxId: 1299]} Length = 104

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Deinococcus radiodurans [TaxId: 1299]

 Score =  125 bits (315), Expect = 1e-38
 Identities = 50/111 (45%), Positives = 68/111 (61%), Gaps = 11/111 (9%)

Query: 61  RHSRIRKKI---DGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYS 117
           R  R R+K+        R RL V+RS+KH+Y Q+IDD++  TLA+AS+            
Sbjct: 2   RKLRTRRKVRTTTAASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAA--------LK 53

Query: 118 SGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYHGRIQALADAAREYG 168
           SG   + +  VG+ +A +  EKGI +V FDRG Y YHGR++ALADAARE G
Sbjct: 54  SGNKTDTAAAVGKALAAAAAEKGIKQVVFDRGSYKYHGRVKALADAAREGG 104

>d1vqon1 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 186

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score =  104 bits (261), Expect = 2e-29
 Identities = 31/125 (24%), Positives = 50/125 (40%), Gaps = 9/125 (7%)

Query: 49  TRPRTKREDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVI--DDTKMHTLASASTM 106
              R +RE RT  H R+R    G   +PRL   +SNKH+  Q++        TLASA + 
Sbjct: 8   VPMRRRREARTDYHQRLRLLKSG---KPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSS 64

Query: 107 QKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRG--GYPYHGRIQALADAA 164
                     +    +  +   G +      E G+ +   D G        ++ A+ + A
Sbjct: 65  DLAEYGWE--APTGNMPSAYLTGLLAGLRAQEAGVEEAVLDIGLNSPTPGSKVFAIQEGA 122

Query: 165 REYGL 169
            + GL
Sbjct: 123 IDAGL 127

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	171
d2gycm1	113	Ribosomal protein L18 (L18p) {Escherichia coli [Ta	100.0
d1ovya_	97	Ribosomal protein L18 (L18p) {Bacillus stearotherm	100.0
d2zjrl1	104	Ribosomal protein L18 (L18p) {Deinococcus radiodur	100.0
d2j01s1	86	Ribosomal protein L18 (L18p) {Thermus thermophilus	100.0
d1vqon1	186	Ribosomal protein L18 (L18p) {Archaeon Haloarcula	99.98
d2uubk1	119	Ribosomal protein S11 {Thermus thermophilus [TaxId	97.66
d2qalk1	117	Ribosomal protein S11 {Escherichia coli [TaxId: 56	97.37

>d2gycm1 c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=2.2e-46  Score=283.50  Aligned_cols=112  Identities=45%  Similarity=0.710  Sum_probs=106.5

Q ss_pred             HHHHHHHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHH
Q 030804           55 REDRTARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAK  134 (171)
Q Consensus        55 ~~~r~~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAk  134 (171)
                      ++.|.+|+.|+|+||.|+. +|||+||+||+|||||||||.+++||+++||+|++++..+  ..++|+++|+.||++||+
T Consensus         2 ~~~r~rR~~R~R~ki~~~~-~pRL~V~rSnkhiyaQiIdd~~~~tl~saST~~k~~~~~~--~~~~n~~aA~~vG~~la~   78 (113)
T d2gycm1           2 KSARIRRATRARRKLQELG-ATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQL--KYTGNKDAAAAVGKAVAE   78 (113)
T ss_dssp             CCCHHHHTTCSCSTTTTTT-CCCCBEEECSSCEEEEEEETTTTEEEEEEETTGGGGTSCC--SCSSSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccCC-CCeEEEEEeCCcEEEEEEEccCCcEEEEeeehhhhhhhhc--CCCcchHHHHHHHHHHHH
Confidence            4568899999999999985 6999999999999999999999999999999999999876  367899999999999999


Q ss_pred             HHHHcCCCEEEEecCCCchhhHHHHHHHHHHHcCC
Q 030804          135 SCLEKGITKVAFDRGGYPYHGRIQALADAAREYGL  169 (171)
Q Consensus       135 ra~e~GI~~VvfDRgg~~YhGrVkAlad~aRe~GL  169 (171)
                      +|+++||++|+||||||+|||||+||||++||+||
T Consensus        79 ra~~~gI~~vvfDR~g~~YhGrVka~ad~aRe~Gl  113 (113)
T d2gycm1          79 RALEKGIKDVSFDRSGFQYHGRVQALADAAREAGL  113 (113)
T ss_dssp             HHHHHTCCCCCCBCCSCCSSSHHHHHHHHHHHHTC
T ss_pred             HHHHCCCCEEEECCCCCccchHHHHHHHHHHHcCC
Confidence            99999999999999999999999999999999997

>d1ovya_ c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=100.00  E-value=1.2e-42  Score=256.50  Aligned_cols=97  Identities=66%  Similarity=1.017  Sum_probs=93.2

Q ss_pred             CCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEEEecCC
Q 030804           71 GTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGG  150 (171)
Q Consensus        71 gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~VvfDRgg  150 (171)
                      ||++||||+||+||+|||||||||.+++||+++||++++++..    ..+|+++|++||++||++++++||++|+|||||
T Consensus         1 gt~~rpRL~V~kSnkhiyaQlIdd~~~~tl~s~St~~k~~~~~----~~~n~~aA~~vG~~~a~kak~~gi~~vvfDr~g   76 (97)
T d1ovya_           1 GTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLD----STNNIEAAKKVGELVAKRALEKGIKQVVFDRGG   76 (97)
T ss_dssp             CCSSCCSEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTCSS----CTTSHHHHHHHHHHHHHHHHHHSSSCCCCCSTT
T ss_pred             CCCCCCEEEEEEeCCeEEEEEEEcCCCeEEEEecchhhhhccc----ccCcHHHHHHHHHHHHHHHHHcCCCEEEEcCCC
Confidence            7899999999999999999999999999999999999998653    457999999999999999999999999999999


Q ss_pred             CchhhHHHHHHHHHHHcCCcC
Q 030804          151 YPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       151 ~~YhGrVkAlad~aRe~GL~f  171 (171)
                      |+|||||+||+|++||+||+|
T Consensus        77 ~~yhGrvka~a~~~R~~Gl~F   97 (97)
T d1ovya_          77 YLYHGRVKALADAAREAGLEF   97 (97)
T ss_dssp             CSSCSSTHHHHHHHHHHHCCC
T ss_pred             CcchHHHHHHHHHHHHhCCCC
Confidence            999999999999999999998

>d2zjrl1 c.55.4.1 (L:8-111) Ribosomal protein L18 (L18p) {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=4.4e-41  Score=250.96  Aligned_cols=100  Identities=47%  Similarity=0.765  Sum_probs=88.9

Q ss_pred             HHHHHhhhhhcCCCCCceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHc
Q 030804           60 ARHSRIRKKIDGTPERPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEK  139 (171)
Q Consensus        60 ~R~~RirkKi~gt~~rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~  139 (171)
                      |+++++|.++ ++.++|||+||+||+|||||||||++++||+|+||.+++        ..+|+++|..||++||++++++
T Consensus         5 R~r~k~r~~~-~~~~rpRL~V~rSnkhiyaQiIDd~~~~tl~s~St~~~~--------~~~~~~~a~~vG~~ia~~a~~k   75 (104)
T d2zjrl1           5 RTRRKVRTTT-AASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALK--------SGNKTDTAAAVGKALAAAAAEK   75 (104)
T ss_dssp             HHHHHHHSCS-TTTCSEEECCCTTSSCCCCCEEETTTTEECCCCCSCSCC--------TTCSSSSHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhccc-ccCCCcEEEEEEccCeeEEEEEecCCCeEEEeecccccc--------ccchhhHHHHHHHHHHHHHHHC
Confidence            3344444443 346799999999999999999999999999999999874        2458899999999999999999


Q ss_pred             CCCEEEEecCCCchhhHHHHHHHHHHHcC
Q 030804          140 GITKVAFDRGGYPYHGRIQALADAAREYG  168 (171)
Q Consensus       140 GI~~VvfDRgg~~YhGrVkAlad~aRe~G  168 (171)
                      ||++|+||||||+|||||+||||++||+|
T Consensus        76 gi~~v~FDR~g~~YHGrvka~ad~~R~~G  104 (104)
T d2zjrl1          76 GIKQVVFDRGSYKYHGRVKALADAAREGG  104 (104)
T ss_dssp             CCCCCEECCCSSCSCSHHHHHHHHHHHHC
T ss_pred             CCCEEEECCCCCcchhHHHHHHHHHHhCC
Confidence            99999999999999999999999999998

>d2j01s1 c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=1.9e-39  Score=235.05  Aligned_cols=86  Identities=53%  Similarity=0.818  Sum_probs=82.5

Q ss_pred             CceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEEEEecCCCchh
Q 030804           75 RPRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKVAFDRGGYPYH  154 (171)
Q Consensus        75 rPRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~VvfDRgg~~Yh  154 (171)
                      ||||+|||||+|||||||||.+++||+++||++++++       .+|+++|..||++||++|+++||++|+||||||+||
T Consensus         1 R~RL~V~rSnk~iyaQiIDd~~~~tl~s~St~~k~~k-------~~~~~~A~~vG~~la~~ak~~gI~~v~FDR~g~~YH   73 (86)
T d2j01s1           1 RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-------GNKTEVARQVGRALAEKALALGIKQVAFDRGPYKYH   73 (86)
T ss_dssp             SCEEECCBCSSCBCEEEEETTTTEEEEEECSTTTCCC-------SCHHHHHHHHHHHHHHHHHHTSCCCCBCCCSTTCSS
T ss_pred             CcEEEEEEcCCeEEEEEEEcCCCeEEEEEeccchhhc-------CCCHHHHHHHHHHHHHHHHHCCCCEEEEeCCCCccc
Confidence            7999999999999999999999999999999999865       358999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHc
Q 030804          155 GRIQALADAAREY  167 (171)
Q Consensus       155 GrVkAlad~aRe~  167 (171)
                      |||+||||++||+
T Consensus        74 Grvka~Ad~~Reg   86 (86)
T d2j01s1          74 GRVKALAEGAREG   86 (86)
T ss_dssp             SSCCCCSSCTTCC
T ss_pred             cHHHHHHHHHhCC
Confidence            9999999999985

>d1vqon1 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.98  E-value=5e-33  Score=225.38  Aligned_cols=105  Identities=22%  Similarity=0.294  Sum_probs=93.2

Q ss_pred             HhhhhhcCCCCCceEEEEeeCCcEEEEEE--eCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCC
Q 030804           64 RIRKKIDGTPERPRLCVFRSNKHLYVQVI--DDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGI  141 (171)
Q Consensus        64 RirkKi~gt~~rPRL~V~rSnkhiyAQvI--dd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI  141 (171)
                      +.|.++..+ .+|||+||+||+|||||||  ||.+++||+||||.++... .|. .+++|++||+.+|.+||++|+++||
T Consensus        21 ~~R~rl~~s-~kpRLvVrrSNk~IyaQII~~d~~gd~vlaSAsS~el~k~-g~k-~~~~N~~AAy~~G~liA~ra~~~gi   97 (186)
T d1vqon1          21 HQRLRLLKS-GKPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLAEY-GWE-APTGNMPSAYLTGLLAGLRAQEAGV   97 (186)
T ss_dssp             HHHHHHHTT-CSCEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGGGG-SCC-SCSSSHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcC-CCCeEEEEEeCCceEEEEEEecCCCCEEEEEEecchhhhh-ccc-cCccHHHHHHHhHHHHHHHHHhhcc
Confidence            344555553 5999999999999999999  6889999999999999854 443 4678999999999999999999999


Q ss_pred             CEEEEecC--CCchhhHHHHHHHHHHHcCCcC
Q 030804          142 TKVAFDRG--GYPYHGRIQALADAAREYGLQF  171 (171)
Q Consensus       142 ~~VvfDRg--g~~YhGrVkAlad~aRe~GL~f  171 (171)
                      ++|+||+|  +|.|||||+||+|++||+||++
T Consensus        98 ~~vvfD~G~~~~~yhgRV~A~akgard~GL~I  129 (186)
T d1vqon1          98 EEAVLDIGLNSPTPGSKVFAIQEGAIDAGLDI  129 (186)
T ss_dssp             CBCEEECTTSCCCTTCHHHHHHHHHHHTTCBC
T ss_pred             cceEEeeCCCCCCccchHHHHHHHHHhcCccC
Confidence            99999977  9999999999999999999985

>d2uubk1 c.55.4.1 (K:11-129) Ribosomal protein S11 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein S11
species: Thermus thermophilus [TaxId: 274]

Probab=97.66  E-value=0.00026  Score=51.71  Aligned_cols=87  Identities=21%  Similarity=0.160  Sum_probs=67.4

Q ss_pred             ceEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEE-EEecCCCchh
Q 030804           76 PRLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKV-AFDRGGYPYH  154 (171)
Q Consensus        76 PRL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~V-vfDRgg~~Yh  154 (171)
                      -.+.|+.|.++..+.|.|.. |++|..+|+-...++..    ...+-.||..+++.+++++++.||+.| ++=+|.  --
T Consensus         7 GivhI~~t~NNT~itlTD~~-Gn~i~~~S~G~~gfkg~----rk~t~~Aa~~~a~~~~~k~~~~g~~~v~v~~kG~--G~   79 (119)
T d2uubk1           7 GRAYIHASYNNTIVTITDPD-GNPITWSSGGVIGYKGS----RKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGT--GA   79 (119)
T ss_dssp             EEEEEEECSSCEEEEEECTT-SCEEEEEETTTSSCCSG----GGGSHHHHHHHHHHHHHHHHTTTCCEEEEEEECC--CT
T ss_pred             cEEEEEeccCCEEEEEECCC-CCEEEEEecccceeccc----cccchhHHHHHHHHHHHHHHHcCCcEEEEEEEcC--CC
Confidence            37899999999999998655 56888888877777664    345778999999999999999999988 444551  23


Q ss_pred             hHHHHHHHHHHHcCCc
Q 030804          155 GRIQALADAAREYGLQ  170 (171)
Q Consensus       155 GrVkAlad~aRe~GL~  170 (171)
                      || +++..++...||+
T Consensus        80 gR-~~~ik~l~~~g~k   94 (119)
T d2uubk1          80 GR-EQAIRALQASGLQ   94 (119)
T ss_dssp             TH-HHHHHHHHTSSSE
T ss_pred             Ch-HHHHHHHHHCCCE
Confidence            55 4566667777875

>d2qalk1 c.55.4.1 (K:12-128) Ribosomal protein S11 {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein S11
species: Escherichia coli [TaxId: 562]

Probab=97.37  E-value=0.00037  Score=50.77  Aligned_cols=86  Identities=19%  Similarity=0.167  Sum_probs=66.6

Q ss_pred             eEEEEeeCCcEEEEEEeCCCCcEEEEEecCCcccccccCCCCCCcHHHHHHHHHHHHHHHHHcCCCEE-EEecCCCchhh
Q 030804           77 RLCVFRSNKHLYVQVIDDTKMHTLASASTMQKPISEELDYSSGPTIEVSKKVGEMIAKSCLEKGITKV-AFDRGGYPYHG  155 (171)
Q Consensus        77 RL~V~rSnkhiyAQvIdd~~~ktLasaST~ek~ik~~l~~~~~~n~~AA~~VG~~LAkra~e~GI~~V-vfDRgg~~YhG  155 (171)
                      .+.|+.|.++....|.| .+|+++...|.-...++..-    ..+-.||..+++.++++|+|.||+.| ++=+| +- -|
T Consensus         8 i~hI~~t~NNTiitlTD-~~G~~~~~~S~G~~gfkg~~----K~t~~Aa~~~a~~~~~~~~~~gi~~v~V~~kG-~G-~G   80 (117)
T d2qalk1           8 VAHIHASFNNTIVTITD-RQGNALGWATAGGSGFRGSR----KSTPFAAQVAAERCADAVKEYGIKNLEVMVKG-PG-PG   80 (117)
T ss_dssp             EEEEECCSSCCEEEEEE-TTSCEEEEEETTTSSCCHHH----HTSHHHHHHHHHHHHHHHGGGTCCEEEEEEEC-CS-TT
T ss_pred             EEEEEecCCCEEEEEEC-CCCCEEEEEecccccccccc----ccchHHHHHHHHHHHHHHHHcCCcEEEEEEeC-CC-Cc
Confidence            68899999999999986 56667888888777777642    34678999999999999999999988 44455 11 23


Q ss_pred             HHHHHHHHHHHcCCc
Q 030804          156 RIQALADAAREYGLQ  170 (171)
Q Consensus       156 rVkAlad~aRe~GL~  170 (171)
                      | +++..+++..||+
T Consensus        81 R-~~air~l~~~gl~   94 (117)
T d2qalk1          81 R-ESTIRALNAAGFR   94 (117)
T ss_dssp             T-THHHHHHHHTTCE
T ss_pred             h-HHHHHHHHhCCCE
Confidence            4 3566778888875