Citrus Sinensis ID: 030865

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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
MSLTKAAAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFLQQR
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccEEEEEccccHHHHHHHHHHHHHcccccccccccEEEEcccccEEEEEEEcccccEEEEEcccHHHHHcccccccccHHHHHHHHHHHHHHHHHccccEEEEEcccccccHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHccccccccccccccHcccccccccEEEEEEcccHHHHHHHHHHHHHHHccccccccccEEEEccccEEEEEEEcccccEEEEEccccHHHHHHcccccccHHHHHHHHHHHHHHHHHccccEEEEEEccccEccHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
MSLTKAAAALQFNacdffgtkakpfnllpsqtqrrsfILKPLVVEARANARTESAKIRNRRIQkkfngtptkprlsvfcsdkQLYAMLVDDqnkkclffgSTLQqsirgngnppcsTIEAAERIGEELIKTCIALNITEissydrngsrrgermqafeipisrhgflqqr
Flexible Loop (DISEMBL)
MSLTKAAAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEAranartesakirnrriqkkfngtptkprlsvFCSDKQLYAMLVDDQNKKCLFFGSTLqqsirgngnppCSTIEAAERIGEELIKTCIAlniteissydrngsrrGERMqafeipisrhgflqqr
Low Complexity Region (SEG)
MSLTKAAAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFLQQR
Disordered region (IsUnstruct)
*******AALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEA***************************RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSY***************************
Disordered Region (DISOPRED)
************NACDF*******************************************RIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQ************IEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL***
Disordered Region (DISEMBL)
MSLTKAAAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFLQQR
Disordered Region (DISPRO)
*SL*K****LQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRH******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MSLTKAAAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFLQQR
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	170	2.2.26 [Sep-21-2011]
Q9SX68	170	50S ribosomal protein L18	no	no	0.817	0.817	0.344	6e-16
Q8SAY0	170	50S ribosomal protein L18	no	no	0.711	0.711	0.370	4e-14
P04453	116	50S ribosomal protein L18	yes	no	0.594	0.870	0.373	4e-13
B7KI02	120	50S ribosomal protein L18	yes	no	0.617	0.875	0.355	2e-12
A9FGF8	119	50S ribosomal protein L18	yes	no	0.517	0.739	0.4	4e-12
Q6XYX2	121	50S ribosomal protein L18	N/A	no	0.605	0.851	0.354	1e-11
B7JKD5	120	50S ribosomal protein L18	yes	no	0.576	0.816	0.362	1e-11
Q6MSP1	116	50S ribosomal protein L18	yes	no	0.594	0.870	0.345	2e-11
Q6HPP2	120	50S ribosomal protein L18	yes	no	0.576	0.816	0.362	2e-11
Q63H74	120	50S ribosomal protein L18	yes	no	0.576	0.816	0.362	2e-11

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

 Score = 83.6 bits (205), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 52/151 (34%), Positives = 77/151 (50%), Gaps = 12/151 (7%)

Query: 27  LLPSQTQRRSFILKP----------LVVEARANARTESAKIRNRRIQKKFNGTPTKPRLS 76
            L +  Q R+  LKP          +VVEA+    +E    R+ RI+KK NGT  +PRL 
Sbjct: 19  FLGNGLQHRAVFLKPWSSSSLQSRSMVVEAKTKTSSEDRIARHSRIRKKVNGTTERPRLC 78

Query: 77  VFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCS-TIEAAERIGEELIKTCIAL 135
           VF S+K LY  ++DD     L   ST Q+ I    +     TIE A+++GE + K+C+  
Sbjct: 79  VFRSNKHLYVQVIDDTKMHTLASASTKQKPISEEFDYTSGPTIEVAKKVGEVIAKSCLEK 138

Query: 136 NITEISSYDRNGSRRGERMQAFEIPISRHGF 166
            IT++ ++DR G     R++A       HG 
Sbjct: 139 GITKV-AFDRGGYPYHGRIEALAAAAREHGL 168

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 = 77.4 bits (189), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 50/135 (37%), Positives = 76/135 (56%), Gaps = 14/135 (10%)

Query: 29  PSQTQRRSFILKPLVVEARANARTESAK--IRNRRIQKKFNGTPTKPRLSVFCSDKQLYA 86
           PSQ +RR+     LVV A+    T  A    R+ R++KK +GT  +PRLSVF S+K LYA
Sbjct: 33  PSQARRRA----SLVVVAKVKVSTPQADRIARHVRLRKKVSGTTERPRLSVFRSNKHLYA 88

Query: 87  MLVDDQNKKCLFFGSTLQQSIRGN----GNPPCSTIEAAERIGEELIKTCIALNITEISS 142
            ++DD     L   ST+ +S+  +      P   T+E A++IGE + K+C+   IT++  
Sbjct: 89  QVIDDTKSCTLVSASTMHKSLSKDLEYSAGP---TVEVAQKIGEVIAKSCLEKGITKV-V 144

Query: 143 YDRNGSRRGERMQAF 157
           +DR G     R++A 
Sbjct: 145 FDRGGFLYHGRIKAL 159

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

Oryza sativa subsp. japonica (taxid: 39947)

>sp|P04453|RL18_MYCCT 50S ribosomal protein L18 OS=Mycoplasma capricolum subsp. capricolum (strain California kid / ATCC 27343 / NCTC 10154) GN=rplR PE=3 SV=2

 Score = 74.3 bits (181), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 40/107 (37%), Positives = 63/107 (58%), Gaps = 6/107 (5%)

Query: 51  RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGN 110
           +TE+ K R+ R++ K  GT  +PRL+VF S+   YA ++DD     L   STL+  ++  
Sbjct: 5   KTEARKRRHFRVRHKVVGTAERPRLNVFKSNTNFYAQIIDDTKGVTLVSASTLKMDLKSK 64

Query: 111 GNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
            N     I+AAE++ EEL K  +A NI ++  +DRNG     +++AF
Sbjct: 65  SN-----IQAAEKVAEELTKKALAANINQV-VFDRNGYLYHGKIKAF 105

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.

Mycoplasma capricolum subsp. capricolum (strain California kid / ATCC 27343 / NCTC 10154) (taxid: 340047)

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

 Score = 71.6 bits (174), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 38/107 (35%), Positives = 67/107 (62%), Gaps = 2/107 (1%)

Query: 51  RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGN 110
           RTES + R+ RI++K  GTP++PRL+VF S+  +YA ++DD  +  L   STL + ++G 
Sbjct: 5   RTESVQRRHSRIRRKVEGTPSRPRLAVFRSNNHIYAQVIDDVAQHTLVAASTLDKDLKGE 64

Query: 111 GNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
            +   +T EA+E +G+ + +  +A  I ++  +DR G+    R++A 
Sbjct: 65  FSSG-ATCEASEAVGKLVAQRALAKGIEKV-VFDRGGNLYHGRIRAL 109

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|A9FGF8|RL18_SORC5 50S ribosomal protein L18 OS=Sorangium cellulosum (strain So ce56) GN=rplR PE=3 SV=1

 Score = 70.9 bits (172), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 36/90 (40%), Positives = 57/90 (63%), Gaps = 2/90 (2%)

Query: 58  RNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCST 117
           R  RI+KK  GTP +PRLSVF S K +YA ++DD + K L   STL + ++G+ +   + 
Sbjct: 11  RKLRIRKKVEGTPERPRLSVFRSSKHIYAQVIDDVSGKTLAHASTLSKDLKGSLDED-NK 69

Query: 118 IEAAERIGEELIKTCIALNITEISSYDRNG 147
           +EAA+++G  + + C    I ++  +DRNG
Sbjct: 70  VEAAKKVGALIARICKERQIDKV-VFDRNG 98

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.

Sorangium cellulosum (strain So ce56) (taxid: 448385)

>sp|Q6XYX2|RL18_SPIKU 50S ribosomal protein L18 OS=Spiroplasma kunkelii GN=rplR PE=3 SV=1

 Score = 69.3 bits (168), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 39/110 (35%), Positives = 64/110 (58%), Gaps = 7/110 (6%)

Query: 50  ARTESAKIRNR--RIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSI 107
           +++ SAK + R  R++ K NGT + PRL+VF S+   YA L+DD  +K +   STL+ + 
Sbjct: 6   SKSSSAKRKRRHFRVRAKINGTTSVPRLNVFKSNGHFYAQLIDDVKQKTIVAASTLKMT- 64

Query: 108 RGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
              G    S I AAE++G+E+ K  +   +T +  +DR G     +++AF
Sbjct: 65  ---GLKSTSNIAAAEKVGDEIAKKALDKKVTTV-VFDRGGYLYHGKVKAF 110

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.

Spiroplasma kunkelii (taxid: 47834)

>sp|B7JKD5|RL18_BACC0 50S ribosomal protein L18 OS=Bacillus cereus (strain AH820) GN=rplR PE=3 SV=1

 Score = 69.3 bits (168), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 37/102 (36%), Positives = 58/102 (56%), Gaps = 4/102 (3%)

Query: 56  KIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPC 115
           K R+ R++ K  GT  +PRL+VF S++ +YA ++DD N   L   STL + +  NG    
Sbjct: 12  KKRHARVRAKLTGTAERPRLNVFRSNQHIYAQVIDDVNGVTLVSASTLDKDLALNG---T 68

Query: 116 STIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
           S IEAA ++GE + K  +   + E+  +DR G     R++A 
Sbjct: 69  SNIEAATKVGESVAKRAVEXGVKEV-VFDRGGYLYHGRVKAL 109

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 cereus (strain AH820) (taxid: 405535)

>sp|Q6MSP1|RL18_MYCMS 50S ribosomal protein L18 OS=Mycoplasma mycoides subsp. mycoides SC (strain PG1) GN=rplR PE=3 SV=1

 Score = 68.9 bits (167), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/107 (34%), Positives = 62/107 (57%), Gaps = 6/107 (5%)

Query: 51  RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGN 110
           + E+ K R+ R+++K  GT  +PRL+VF S+   YA ++DD     L   STL+  ++  
Sbjct: 5   KAEARKRRHFRVRQKVVGTAERPRLNVFKSNTNFYAQIIDDTKGVTLVSASTLKMDLKSK 64

Query: 111 GNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
            N       AA+++ EE+ K  +A NIT++  +DRNG     +++AF
Sbjct: 65  SNTL-----AAQKVAEEIAKKALAANITQV-VFDRNGYLYHGKIKAF 105

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.

Mycoplasma mycoides subsp. mycoides SC (strain PG1) (taxid: 272632)

>sp|Q6HPP2|RL18_BACHK 50S ribosomal protein L18 OS=Bacillus thuringiensis subsp. konkukian (strain 97-27) GN=rplR PE=3 SV=1

 Score = 68.6 bits (166), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/102 (36%), Positives = 58/102 (56%), Gaps = 4/102 (3%)

Query: 56  KIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPC 115
           K R+ R++ K  GT  +PRL+VF S++ +YA ++DD N   L   STL + +  NG    
Sbjct: 12  KKRHARVRAKLTGTAERPRLNVFRSNQHIYAQVIDDVNGVTLVSASTLDKDLALNG---T 68

Query: 116 STIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
           S IEAA ++GE + K  +   + E+  +DR G     R++A 
Sbjct: 69  SNIEAATKVGESVAKRAVEKGVKEV-VFDRGGYLYHGRVKAL 109

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 thuringiensis subsp. konkukian (strain 97-27) (taxid: 281309)

>sp|Q63H74|RL18_BACCZ 50S ribosomal protein L18 OS=Bacillus cereus (strain ZK / E33L) GN=rplR PE=3 SV=1

 Score = 68.6 bits (166), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 37/102 (36%), Positives = 58/102 (56%), Gaps = 4/102 (3%)

Query: 56  KIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPC 115
           K R+ R++ K  GT  +PRL+VF S++ +YA ++DD N   L   STL + +  NG    
Sbjct: 12  KKRHARVRAKLTGTAERPRLNVFRSNQHIYAQVIDDVNGVTLVSASTLDKDLALNG---T 68

Query: 116 STIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
           S IEAA ++GE + K  +   + E+  +DR G     R++A 
Sbjct: 69  SNIEAATKVGESVAKRAVEKGVKEV-VFDRGGYLYHGRVKAL 109

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 cereus (strain ZK / E33L) (taxid: 288681)

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	170
225448091	177	PREDICTED: 50S ribosomal protein L18-lik	0.923	0.887	0.689	9e-56
357487053	189	50S ribosomal protein L18 [Medicago trun	0.905	0.814	0.696	2e-55
298204602	164	unnamed protein product [Vitis vinifera]	0.923	0.957	0.689	3e-55
224101357	165	predicted protein [Populus trichocarpa]	0.958	0.987	0.688	3e-55
334182569	165	Ribosomal L.8/L5e family protein [Arabid	0.964	0.993	0.634	1e-54
255562882	164	50S ribosomal protein L18, chloroplast p	0.911	0.945	0.672	3e-54
388499264	164	unknown [Lotus japonicus]	0.935	0.969	0.668	5e-54
449434778	180	PREDICTED: 50S ribosomal protein L18, ch	0.864	0.816	0.668	2e-53
356499819	170	PREDICTED: 50S ribosomal protein L18, ch	0.923	0.923	0.640	2e-49
115450997	175	Os03g0169400 [Oryza sativa Japonica Grou	0.705	0.685	0.688	1e-43

>gi|225448091|ref|XP_002276553.1| PREDICTED: 50S ribosomal protein L18-like [Vitis vinifera]

 Score =  221 bits (562), Expect = 9e-56,   Method: Compositional matrix adjust.
 Identities = 111/161 (68%), Positives = 126/161 (78%), Gaps = 4/161 (2%)

Query: 7   AAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKF 66
           A  LQF +   FGT +   + L S     SF  K +V+EARANA+ +SAKIRNRR+Q+KF
Sbjct: 19  APTLQFKSSGLFGTHSNSISFL-SMPITNSFT-KAMVIEARANAKKDSAKIRNRRLQRKF 76

Query: 67  NGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGE 126
           NG+PTKPRLSVFCS KQLYAMLVDDQNK+CLF+GSTLQ+SI GN   PCS IEAAER+GE
Sbjct: 77  NGSPTKPRLSVFCSAKQLYAMLVDDQNKRCLFYGSTLQKSIHGNN--PCSAIEAAERVGE 134

Query: 127 ELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL 167
           EL+K CI   I EISSYDRNG  RGERMQAFEI ISRHGFL
Sbjct: 135 ELVKACIDHQINEISSYDRNGFARGERMQAFEIAISRHGFL 175

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357487053|ref|XP_003613814.1| 50S ribosomal protein L18 [Medicago truncatula] gi|355515149|gb|AES96772.1| 50S ribosomal protein L18 [Medicago truncatula]

 Score =  219 bits (559), Expect = 2e-55,   Method: Compositional matrix adjust.
 Identities = 110/158 (69%), Positives = 122/158 (77%), Gaps = 4/158 (2%)

Query: 10  LQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKFNGT 69
            QFN   FFG   KPF  +  Q Q  S I K LV +A+ANAR ESAKIRNR++QKKFNGT
Sbjct: 11  FQFNTSSFFGVIPKPF--ISFQPQTTSLIKKSLVTKAKANARKESAKIRNRKMQKKFNGT 68

Query: 70  PTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELI 129
            T PRLSVFCSDKQLYAMLVDDQNKKCLF+GSTLQ+  R   NPPCSTIEAA+R+GE L+
Sbjct: 69  ATHPRLSVFCSDKQLYAMLVDDQNKKCLFYGSTLQKLFR--ENPPCSTIEAAQRVGEALV 126

Query: 130 KTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL 167
           K C+ LNI EISSYDRNG  RGER+ AFEI IS  GFL
Sbjct: 127 KACVDLNINEISSYDRNGFGRGERLNAFEIAISNFGFL 164

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|298204602|emb|CBI23877.3| unnamed protein product [Vitis vinifera]

 Score =  219 bits (559), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 111/161 (68%), Positives = 126/161 (78%), Gaps = 4/161 (2%)

Query: 7   AAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKF 66
           A  LQF +   FGT +   + L S     SF  K +V+EARANA+ +SAKIRNRR+Q+KF
Sbjct: 6   APTLQFKSSGLFGTHSNSISFL-SMPITNSFT-KAMVIEARANAKKDSAKIRNRRLQRKF 63

Query: 67  NGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGE 126
           NG+PTKPRLSVFCS KQLYAMLVDDQNK+CLF+GSTLQ+SI GN   PCS IEAAER+GE
Sbjct: 64  NGSPTKPRLSVFCSAKQLYAMLVDDQNKRCLFYGSTLQKSIHGNN--PCSAIEAAERVGE 121

Query: 127 ELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL 167
           EL+K CI   I EISSYDRNG  RGERMQAFEI ISRHGFL
Sbjct: 122 ELVKACIDHQINEISSYDRNGFARGERMQAFEIAISRHGFL 162

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224101357|ref|XP_002312248.1| predicted protein [Populus trichocarpa] gi|222852068|gb|EEE89615.1| predicted protein [Populus trichocarpa]

 Score =  219 bits (558), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 115/167 (68%), Positives = 128/167 (76%), Gaps = 4/167 (2%)

Query: 1   MSLTKAAAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNR 60
           M++    +AL F  CD FG   KPFN LP QT  R+F  K LV + RAN RTESAKIRNR
Sbjct: 1   MAVRSVPSALPFKTCDVFGNPLKPFNFLPIQT--RNFQTKTLVAKRRANTRTESAKIRNR 58

Query: 61  RIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEA 120
           R  KKFNGT TKPRLSVFCS KQLYAMLVDDQ+KKCLF+GSTLQ+ +  +G+ P STIEA
Sbjct: 59  RTLKKFNGTRTKPRLSVFCSTKQLYAMLVDDQSKKCLFYGSTLQKPL--SGDLPRSTIEA 116

Query: 121 AERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL 167
           AE +GEELIK C+ L I EISSYDRNG   GERMQAFEI ISRHGFL
Sbjct: 117 AECLGEELIKACMDLKINEISSYDRNGFAGGERMQAFEIAISRHGFL 163

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|334182569|ref|NP_683305.2| Ribosomal L.8/L5e family protein [Arabidopsis thaliana] gi|332191001|gb|AEE29122.1| Ribosomal L.8/L5e family protein [Arabidopsis thaliana]

 Score =  217 bits (552), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 106/167 (63%), Positives = 127/167 (76%), Gaps = 3/167 (1%)

Query: 1   MSLTKAAAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNR 60
           M+   + + +QF   D  GT+ KP+   P +    S ++KP V+EAR N R ES K RNR
Sbjct: 1   MAALTSLSTVQFRVSDILGTRLKPYPQFPIRITTMS-VVKPFVIEARGNTRVESPKTRNR 59

Query: 61  RIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEA 120
           R +KKF GT TKPRLSVFCSDKQLYAMLVDD NKKCLF+ STLQ+SIR  G+PPC+ IEA
Sbjct: 60  RSRKKFTGTQTKPRLSVFCSDKQLYAMLVDDFNKKCLFYASTLQKSIR--GDPPCTVIEA 117

Query: 121 AERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL 167
           A+R+GEELIK  I L I EISSYDRNG++RGERMQAFEI I++HGFL
Sbjct: 118 AKRVGEELIKASIDLKINEISSYDRNGNKRGERMQAFEIAIAQHGFL 164

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255562882|ref|XP_002522446.1| 50S ribosomal protein L18, chloroplast precursor, putative [Ricinus communis] gi|223538331|gb|EEF39938.1| 50S ribosomal protein L18, chloroplast precursor, putative [Ricinus communis]

 Score =  216 bits (550), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 107/159 (67%), Positives = 125/159 (78%), Gaps = 4/159 (2%)

Query: 9   ALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKFNG 68
           ALQF  CDFFG ++K F  LP QT   +F    ++   RAN +TESAK  N R +KKFNG
Sbjct: 8   ALQFKNCDFFGNRSKAFTFLPLQTT--NFQAMTVMASKRANTKTESAKTINIRRRKKFNG 65

Query: 69  TPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEEL 128
           TP KPRLSVFCS KQLYAMLVDDQNKKCLF+GSTLQ+S+R  G+PPCS IEAA+ +GEEL
Sbjct: 66  TPIKPRLSVFCSTKQLYAMLVDDQNKKCLFYGSTLQKSLR--GSPPCSKIEAAKCLGEEL 123

Query: 129 IKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL 167
           +K C+ L++ EISSYDRNG  RGERMQAFE+ ISRHGFL
Sbjct: 124 VKACVDLDVNEISSYDRNGFPRGERMQAFELAISRHGFL 162

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388499264|gb|AFK37698.1| unknown [Lotus japonicus]

 Score =  215 bits (548), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 109/163 (66%), Positives = 122/163 (74%), Gaps = 4/163 (2%)

Query: 7   AAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKF 66
           A AL F +   FG   K F     Q Q R  I KPLVVEARAN RTES KIRNRR+QKKF
Sbjct: 6   APALHFKSSSVFGINPKSFIYF--QGQSRCLIKKPLVVEARANTRTESPKIRNRRMQKKF 63

Query: 67  NGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGE 126
           NGT   PRLSVFCSDKQLYAMLVDD+NKKCLF+GSTL +S R   NPPCST+EAA+R+GE
Sbjct: 64  NGTARHPRLSVFCSDKQLYAMLVDDKNKKCLFYGSTLHKSFR--ENPPCSTVEAAQRVGE 121

Query: 127 ELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFLQQ 169
            L+K C  L I EISSYDRNG  RG+R+ AFEI IS +GFLQ+
Sbjct: 122 ALVKACTDLKINEISSYDRNGFGRGQRLDAFEIAISSYGFLQR 164

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449434778|ref|XP_004135173.1| PREDICTED: 50S ribosomal protein L18, chloroplastic-like [Cucumis sativus] gi|449478396|ref|XP_004155307.1| PREDICTED: 50S ribosomal protein L18, chloroplastic-like [Cucumis sativus]

 Score =  213 bits (542), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 101/151 (66%), Positives = 125/151 (82%), Gaps = 4/151 (2%)

Query: 18  FGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKFNGTPTKPRLSV 77
           FG ++KPF+    +T+     +KPL ++AR N++TESAK+RNRR+QKK+NGTPT+PRLSV
Sbjct: 34  FGLQSKPFDFRSLKTKHCD--VKPLTIQARGNSKTESAKVRNRRMQKKYNGTPTRPRLSV 91

Query: 78  FCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNI 137
           FCSDKQLYAMLVDDQNKKCLF+GSTLQ+S+R    P C+TIEAA+ +GEEL+K C+ LNI
Sbjct: 92  FCSDKQLYAMLVDDQNKKCLFYGSTLQKSMR--PTPSCTTIEAAQHVGEELVKVCMDLNI 149

Query: 138 TEISSYDRNGSRRGERMQAFEIPISRHGFLQ 168
            EIS YDRNG   GE+MQAFEI ISR+GFLQ
Sbjct: 150 HEISLYDRNGFACGEKMQAFEIAISRYGFLQ 180

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356499819|ref|XP_003518734.1| PREDICTED: 50S ribosomal protein L18, chloroplastic-like [Glycine max]

 Score =  200 bits (509), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 105/164 (64%), Positives = 124/164 (75%), Gaps = 7/164 (4%)

Query: 7   AAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARA--NARTESAKIRNRRIQK 64
           A  LQF     FG +  P + +  QTQ RS   KPLV+EARA  N R ES KIRNRR+ K
Sbjct: 9   APMLQFKNSALFGIQ--PNSFVCFQTQSRSITKKPLVIEARARANTRKESGKIRNRRMLK 66

Query: 65  KFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERI 124
           K+NGT T PRLSVFCSDKQLYAMLVDD+NKKCLF+GSTLQ+SIR   +PPCST+EAA+R+
Sbjct: 67  KYNGTATHPRLSVFCSDKQLYAMLVDDKNKKCLFYGSTLQKSIR--QDPPCSTLEAAQRV 124

Query: 125 GEELIKTCIALNITEISSYDRNGSR-RGERMQAFEIPISRHGFL 167
           GE L+K C+ LNI EI SYDRNG R R E+++AFE  IS +GFL
Sbjct: 125 GEALVKACVDLNINEILSYDRNGLRQREEKLKAFENAISSYGFL 168

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115450997|ref|NP_001049099.1| Os03g0169400 [Oryza sativa Japonica Group] gi|19071629|gb|AAL84296.1|AC073556_13 putative ribosomal protein [Oryza sativa Japonica Group] gi|108706398|gb|ABF94193.1| 50S ribosomal protein L18, chloroplast precursor, putative, expressed [Oryza sativa Japonica Group] gi|113547570|dbj|BAF11013.1| Os03g0169400 [Oryza sativa Japonica Group] gi|125542570|gb|EAY88709.1| hypothetical protein OsI_10184 [Oryza sativa Indica Group] gi|125585071|gb|EAZ25735.1| hypothetical protein OsJ_09570 [Oryza sativa Japonica Group]

 Score =  181 bits (458), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 84/122 (68%), Positives = 103/122 (84%), Gaps = 2/122 (1%)

Query: 46  ARANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQ 105
           AR  AR E+ K+RNRR+QKKFNGT TKPRLSVFCS++QLYAMLVDD N+K LF+GSTLQ+
Sbjct: 54  ARHGARKENPKVRNRRLQKKFNGTATKPRLSVFCSNRQLYAMLVDDHNRKILFYGSTLQK 113

Query: 106 SIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHG 165
           +I   G+PPC  +EAA R+GEELI+ C  L+ITEISSYDRNG  RGE+M AFE+P+S++G
Sbjct: 114 AI--CGDPPCGAVEAAGRVGEELIRACKELDITEISSYDRNGFARGEKMMAFEVPVSQYG 171

Query: 166 FL 167
           FL
Sbjct: 172 FL 173

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

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	170
TAIR|locus:2007690	170	EMB3105 "EMBRYO DEFECTIVE 3105	0.923	0.923	0.337	4.7e-16
TIGR_CMR|BA_0126	120	BA_0126 "ribosomal protein L18	0.635	0.9	0.347	3.1e-12
TIGR_CMR|GSU_2841	122	GSU_2841 "ribosomal protein L1	0.570	0.795	0.363	1e-11
TIGR_CMR|CHY_2293	122	CHY_2293 "ribosomal protein L1	0.676	0.942	0.347	3.5e-11
TIGR_CMR|DET_0490	121	DET_0490 "ribosomal protein L1	0.7	0.983	0.308	7.6e-09
UNIPROTKB|P66076	122	rplR "50S ribosomal protein L1	0.558	0.778	0.292	2.1e-06
TIGR_CMR|CJE_1859	118	CJE_1859 "ribosomal protein L1	0.547	0.788	0.336	9e-06
TIGR_CMR|CBU_0254	117	CBU_0254 "ribosomal protein L1	0.617	0.897	0.268	0.0004

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

 Score = 200 (75.5 bits), Expect = 4.7e-16, P = 4.7e-16
 Identities = 56/166 (33%), Positives = 83/166 (50%)

Query:     1 MSLTKAAAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNR 60
             +SL    +A   N         KP++   S  Q RS     +VVEA+    +E    R+ 
Sbjct:    10 VSLITNRSAFLGNGLQHRAVFLKPWS--SSSLQSRS-----MVVEAKTKTSSEDRIARHS 62

Query:    61 RIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCS-TIE 119
             RI+KK NGT  +PRL VF S+K LY  ++DD     L   ST Q+ I    +     TIE
Sbjct:    63 RIRKKVNGTTERPRLCVFRSNKHLYVQVIDDTKMHTLASASTKQKPISEEFDYTSGPTIE 122

Query:   120 AAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHG 165
              A+++GE + K+C+   IT+++ +DR G     R++A       HG
Sbjct:   123 VAKKVGEVIAKSCLEKGITKVA-FDRGGYPYHGRIEALAAAAREHG 167

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

 Score = 164 (62.8 bits), Expect = 3.1e-12, P = 3.1e-12
 Identities = 40/115 (34%), Positives = 65/115 (56%)

Query:    42 LVVEARANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGS 101
             ++ +A  NA   + K R+ R++ K  GT  +PRL+VF S++ +YA ++DD N   L   S
Sbjct:     1 MITKADKNA---TRKKRHARVRAKLTGTAERPRLNVFRSNQHIYAQVIDDVNGVTLVSAS 57

Query:   102 TLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQA 156
             TL + +  NG    S IEAA ++GE + K  +   + E+  +DR G     R++A
Sbjct:    58 TLDKDLALNGT---SNIEAATKVGESVAKRAVEKGVKEVV-FDRGGYLYHGRVKA 108

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 = 159 (61.0 bits), Expect = 1.0e-11, P = 1.0e-11
 Identities = 36/99 (36%), Positives = 56/99 (56%)

Query:    58 RNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCST 117
             R  R++KK  GT  +PRL+VF S + +YA ++DD     L   ST+Q+    + N  C  
Sbjct:    14 RKTRVRKKIRGTTERPRLNVFKSAQHIYAQIIDDTTGTTLVSASTVQKEASESLNH-CGN 72

Query:   118 IEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQA 156
             +EAA+R+G  + K  +  NI  +  +DRNG     R++A
Sbjct:    73 VEAAKRVGALIAKRALEKNIATVV-FDRNGFLYHGRIKA 110

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

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

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 41/118 (34%), Positives = 64/118 (54%)

Query:    51 RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGN 110
             R    K R+ R++KK +GTP +PRL+V+ S K +YA ++DD + + L   STL   +RG 
Sbjct:     7 RNLERKRRHLRVRKKIHGTPERPRLNVYRSLKHIYAQIIDDVSGRTLVAASTLDPELRGK 66

Query:   111 GNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFLQ 168
                    IEAA+ +G  + +   A  I ++  +DR G     R++A     +R G LQ
Sbjct:    67 IGYG-GNIEAAKAVGRLIAERAKAKGIEKVV-FDRGGYLYHGRVKALA-EAAREGGLQ 121

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

GO:0006412 "translation" evidence=ISS

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

 Score = 132 (51.5 bits), Expect = 7.6e-09, P = 7.6e-09
 Identities = 38/123 (30%), Positives = 64/123 (52%)

Query:    46 ARANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQ 105
             A+ NAR E+  +R+ R++KK +GT  +PRL VF S + +Y  +++D     L   ST   
Sbjct:     2 AKVNAR-EARIVRHERLRKKVSGTEARPRLCVFRSIENIYTQVINDNCGSTLVQASTKDA 60

Query:   106 SIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHG 165
              ++   +    T E A  IG  + K  +   I+E+  +DR G +   R++A     +R G
Sbjct:    61 ELKAELDGKTKT-EQAVVIGNLIAKRSLEAGISEVV-FDRGGYKYHGRVKALA-EAARSG 117

Query:   166 FLQ 168
              L+
Sbjct:   118 GLK 120

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 = 109 (43.4 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 29/99 (29%), Positives = 51/99 (51%)

Query:    58 RNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCST 117
             R+ R++KK +GT  +PRL V  S + ++  LV+D N   +   S+++  +RG    P   
Sbjct:    16 RHTRLRKKLSGTAERPRLVVHRSARHIHVQLVNDLNGTTVAAASSIEADVRG---VPGDK 72

Query:   118 IEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQA 156
                + R+G+ + +   A  I  +  +DR G   G R+ A
Sbjct:    73 KARSVRVGQLIAERAKAAGIDTVV-FDRGGYTYGGRIAA 110

GO:0040007 "growth" evidence=IMP

TIGR_CMR|CJE_1859 CJE_1859 "ribosomal protein L18" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 103 (41.3 bits), Expect = 9.0e-06, P = 9.0e-06
 Identities = 35/104 (33%), Positives = 51/104 (49%)

Query:    47 RANA--RTESAKI-RNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTL 103
             RAN   R  + +I R +RI+ K +G    PR+SVF S++ LY   +DD     L      
Sbjct:     2 RANVLKRKLTLRIKRKKRIRAKISGCENFPRISVFKSNRTLYIQAIDDVKAVTLAAVDGR 61

Query:   104 QQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNG 147
             +  ++ N        E A++I  E  KT  A  I E + +DRNG
Sbjct:    62 KLGVKANK-------EGAKKIAAEFAKTLKAKKI-EQAVFDRNG 97

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

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|CBU_0254 CBU_0254 "ribosomal protein L18" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 89 (36.4 bits), Expect = 0.00040, P = 0.00040
 Identities = 29/108 (26%), Positives = 51/108 (47%)

Query:    58 RNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCST 117
             R RR + K        RL V  S   +YA L+  ++ K L   STL++ +R         
Sbjct:    10 RARRTRAKIKELGAV-RLCVHRSLNHIYAQLISPRDSKVLVCASTLEKEVRSQIKHG-GN 67

Query:   118 IEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHG 165
             I+AA  IG+ + +      +T+++ +DR+G +   R++A    +   G
Sbjct:    68 IQAATAIGKLIAQRAKKAGVTKVA-FDRSGYKYHGRVRALAEAVREGG 114


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.321   0.133   0.384    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      170       170   0.00086  108 3  11 22  0.36    32
                                                     31  0.47    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  8
  No. of states in DFA:  558 (59 KB)
  Total size of DFA:  131 KB (2083 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  14.48u 0.11s 14.59t   Elapsed:  00:00:01
  Total cpu time:  14.48u 0.11s 14.59t   Elapsed:  00:00:01
  Start:  Fri May 10 01:10:13 2013   End:  Fri May 10 01:10:14 2013

GO:0003735 "structural constituent of ribosome" 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	170
cd00432	103	cd00432, Ribosomal_L18_L5e, Ribosomal L18/L5e: L18	4e-23
PRK05593	117	PRK05593, rplR, 50S ribosomal protein L18; Reviewe	1e-17
CHL00139	109	CHL00139, rpl18, ribosomal protein L18; Validated	4e-17
COG0256	125	COG0256, RplR, Ribosomal protein L18 [Translation,	8e-15
pfam00861	119	pfam00861, Ribosomal_L18p, Ribosomal L18p/L5e fami	1e-13
TIGR00060	114	TIGR00060, L18_bact, ribosomal protein L18, bacter	6e-13

>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 = 87.6 bits (218), Expect = 4e-23
 Identities = 33/96 (34%), Positives = 52/96 (54%), Gaps = 2/96 (2%)

Query: 62  IQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAA 121
            ++K  GT  +PRL V  S+K +YA ++DD   K L   STL+ +I+G      + +EAA
Sbjct: 1   RRRKRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKG-VLGSGNNVEAA 59

Query: 122 ERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
             +G  L K  +   I ++  +DR G R   R++A 
Sbjct: 60  YLVGRLLAKRALEKGIKKV-VFDRGGYRYHGRVKAL 94

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

 Score = 73.6 bits (182), Expect = 1e-17
 Identities = 36/107 (33%), Positives = 63/107 (58%), Gaps = 3/107 (2%)

Query: 51  RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGN 110
           + E+   R+RR++KK +GT  +PRLSVF S++ +YA ++DD   K L   STL++ +R  
Sbjct: 3   KKEARLRRHRRVRKKISGTAERPRLSVFRSNRHIYAQVIDDVKGKTLASASTLEKDVRAG 62

Query: 111 GNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
                   EAA+++G+ + +   A  I ++  +DR G +   R++A 
Sbjct: 63  LK--GGNKEAAKKVGKLIAERAKAKGIKQV-VFDRGGYKYHGRVKAL 106

Length = 117

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

 Score = 72.4 bits (178), Expect = 4e-17
 Identities = 34/90 (37%), Positives = 57/90 (63%), Gaps = 2/90 (2%)

Query: 58  RNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCST 117
           +  R++KK  GT  +PRLSVF S+K +YA ++DD N K L   STL+  ++ + +   ST
Sbjct: 1   KRERVRKKIKGTAERPRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSLSST-ST 59

Query: 118 IEAAERIGEELIKTCIALNITEISSYDRNG 147
            +A++ +G++L K  +   IT++  +DR G
Sbjct: 60  CDASKLVGQKLAKKSLKKGITKV-VFDRGG 88

Length = 109

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

 Score = 66.5 bits (163), Expect = 8e-15
 Identities = 35/108 (32%), Positives = 53/108 (49%), Gaps = 2/108 (1%)

Query: 51  RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGN 110
           R      R  RI+KK  GT  +PRL V  S++ +YA ++DD     L   STL + +R  
Sbjct: 8   RRRRRGKRAYRIRKKLLGTSGRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKY 67

Query: 111 G-NPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
           G        EAA  +G+ + +  +A  I E+  +DR G +   R+ A 
Sbjct: 68  GKKGGGGNTEAAYLVGKLIAERALAKGIEEV-VFDRGGYKYHGRVAAL 114

Length = 125

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

 Score = 63.8 bits (156), Expect = 1e-13
 Identities = 30/109 (27%), Positives = 50/109 (45%), Gaps = 2/109 (1%)

Query: 50  ARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRG 109
            +    + +  R+++K  GT  +PRL V  S+K +YA ++DD     L   STL + ++ 
Sbjct: 1   GKRRRRRRKRLRVRRKLKGTAERPRLVVRRSNKHIYAQIIDDTKGGTLVSASTLSKELKK 60

Query: 110 NGNP-PCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
            G     +   AA  +G  L K  +   I  +  +DR G     R+ A 
Sbjct: 61  YGLKGGGNNTAAAYLVGLLLAKRALKKGI-AVVVFDRGGYTYHGRVFAL 108

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|213499 TIGR00060, L18_bact, ribosomal protein L18, bacterial type

 Score = 61.8 bits (150), Expect = 6e-13
 Identities = 30/109 (27%), Positives = 59/109 (54%), Gaps = 8/109 (7%)

Query: 51  RTESAKIRNRRIQKKFNGT--PTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIR 108
           +  +   R++RI++K   T    +PRL VF S++ +YA ++DD   + L   STL++ ++
Sbjct: 1   KKSARIRRHKRIRRKLRETGEANRPRLVVFRSNRHIYAQVIDDSKSEVLASASTLEKKLK 60

Query: 109 GNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
             GN      +AA+++G+ + +      I ++  +DR G +   R+ A 
Sbjct: 61  YTGN-----KDAAKKVGKLVAERLKEKGIKDV-VFDRGGYKYHGRVAAL 103

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	170
TIGR00060	114	L18_bact ribosomal protein L18, bacterial type. Th	100.0
PRK05593	117	rplR 50S ribosomal protein L18; Reviewed	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
PTZ00069	300	60S ribosomal protein L5; Provisional	99.51
KOG3333	188	consensus Mitochondrial/chloroplast ribosomal prot	99.24
PTZ00090	233	40S ribosomal protein S11; Provisional	97.45
TIGR03632	108	bact_S11 30S ribosomal protein S11. This model des	97.32
PF00411	110	Ribosomal_S11: Ribosomal protein S11; InterPro: IP	97.25
CHL00041	116	rps11 ribosomal protein S11	97.2
PRK05309	128	30S ribosomal protein S11; Validated	96.94
TIGR03628	114	arch_S11P archaeal ribosomal protein S11P. This mo	96.53
PRK09607	132	rps11p 30S ribosomal protein S11P; Reviewed	96.18
KOG0875	264	consensus 60S ribosomal protein L5 [Translation, r	96.12
PTZ00129	149	40S ribosomal protein S14; Provisional	95.54
COG0100	129	RpsK Ribosomal protein S11 [Translation, ribosomal	92.08
KOG0408	190	consensus Mitochondrial/chloroplast ribosomal prot	89.65
KOG0407	139	consensus 40S ribosomal protein S14 [Translation,	80.1

>TIGR00060 L18_bact ribosomal protein L18, bacterial type

Probab=100.00  E-value=1.2e-44  Score=277.75  Aligned_cols=110  Identities=26%  Similarity=0.470  Sum_probs=104.5

Q ss_pred             HHHHHHHHHHHHHHhcCCC--CCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHH
Q 030865           52 TESAKIRNRRIQKKFNGTP--TKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELI  129 (170)
Q Consensus        52 ~~~r~~R~~RiRkki~gt~--~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lA  129 (170)
                      ++.|.+||.|+|+||.||+  ++|||+||+||+|||||||||++++||+|+||+|++++     +++|+++|+.||++||
T Consensus         2 ~~~r~~r~~r~r~ki~gt~~~~rpRL~V~rSnk~iyaQiIdd~~~~tlasaST~ek~~~-----~~~n~~aA~~vG~~la   76 (114)
T TIGR00060         2 KSARIRRHKRIRRKLRETGEANRPRLVVFRSNRHIYAQVIDDSKSEVLASASTLEKKLK-----YTGNKDAAKKVGKLVA   76 (114)
T ss_pred             cHHHHHHHHHHHHHhcCCCCCCCcEEEEEEeCCeEEEEEEECCCCEEEEEEecchhhhc-----CCCCHHHHHHHHHHHH
Confidence            4567789999999999999  89999999999999999999999999999999999876     3589999999999999


Q ss_pred             HHHHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          130 KTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       130 kra~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      ++|+++||++|+ ||||||+|||||+||||++||+||.
T Consensus        77 ~ra~~~gi~~vv-fDrgg~~YhGrv~A~a~~aRe~Gl~  113 (114)
T TIGR00060        77 ERLKEKGIKDVV-FDRGGYKYHGRVAALAEAAREAGLN  113 (114)
T ss_pred             HHHHHCCCCEEE-EeCCCCcchHHHHHHHHHHHHhCCC
Confidence            999999999999 9999999999999999999999984

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

>PRK05593 rplR 50S ribosomal protein L18; Reviewed

Probab=100.00  E-value=1.6e-44  Score=277.68  Aligned_cols=115  Identities=32%  Similarity=0.520  Sum_probs=109.2

Q ss_pred             chHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHH
Q 030865           50 ARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELI  129 (170)
Q Consensus        50 ~r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lA  129 (170)
                      ++++.|.+||+|+|+||.||+++|||+||+||+|||||||||++++||+||||+|++++..+  .++|++||+.||++||
T Consensus         2 ~~~~~r~~r~~r~r~ki~g~~~rpRL~V~~SnkhiyAQvidd~~~~tl~saST~e~~~k~~~--~~~n~~aa~~vG~~la   79 (117)
T PRK05593          2 DKKEARLRRHRRVRKKISGTAERPRLSVFRSNRHIYAQVIDDVKGKTLASASTLEKDVRAGL--KGGNKEAAKKVGKLIA   79 (117)
T ss_pred             chHHHHHHHHHHHHHHhcCCCCCCEEEEEEeCCeEEEEEEECCCCEEEEEEecCcHhHhccc--cCCCHHHHHHHHHHHH
Confidence            46778999999999999999999999999999999999999999999999999999997643  2799999999999999


Q ss_pred             HHHHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          130 KTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       130 kra~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      ++|+++||++|+ ||||||+|||||+||+|+|||+||-
T Consensus        80 ~ra~~~gi~~vv-fDrg~~~yhGrV~a~a~~are~Gl~  116 (117)
T PRK05593         80 ERAKAKGIKQVV-FDRGGYKYHGRVKALADAAREAGLK  116 (117)
T ss_pred             HHHHHCCCCEEE-EcCCCCcccHHHHHHHHHHHHhCCC
Confidence            999999999999 9999999999999999999999984

>CHL00139 rpl18 ribosomal protein L18; Validated

Probab=100.00  E-value=3.7e-44  Score=272.89  Aligned_cols=108  Identities=34%  Similarity=0.571  Sum_probs=103.8

Q ss_pred             HHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCC
Q 030865           58 RNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNI  137 (170)
Q Consensus        58 R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI  137 (170)
                      +++|+|+||.|++++|||+||+||+|||||||||.+|+||+||||+||++++++ .+++|+++|+.||++||+||+++||
T Consensus         1 ~~~r~r~ki~g~~~rpRL~V~rSnkhiyaQvidd~~g~tlasaST~ek~~~~~~-~~~~n~~aA~~vG~lla~ra~~~gi   79 (109)
T CHL00139          1 KRERVRKKIKGTAERPRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSL-SSTSTCDASKLVGQKLAKKSLKKGI   79 (109)
T ss_pred             CCeeeeeeecCCCCCCEEEEEEeCCeEEEEEEECCCCCEEEEEecCchhhhccc-cCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            367999999999999999999999999999999999999999999999999885 4789999999999999999999999


Q ss_pred             CEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          138 TEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       138 ~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      ++|+ ||||||+|||||+||+|+|||+||.
T Consensus        80 ~~vv-fDrgg~~yhGrV~a~a~~are~GL~  108 (109)
T CHL00139         80 TKVV-FDRGGKLYHGRIKALAEAAREAGLQ  108 (109)
T ss_pred             CEEE-EcCCCCccchHHHHHHHHHHHhCCC
Confidence            9999 9999999999999999999999984

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

Probab=100.00  E-value=4.7e-42  Score=267.05  Aligned_cols=118  Identities=30%  Similarity=0.406  Sum_probs=110.9

Q ss_pred             ccchHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhcc--CCCCCCCcHHHHHHHH
Q 030865           48 ANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRG--NGNPPCSTIEAAERIG  125 (170)
Q Consensus        48 ~~~r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~--~l~~s~~n~~AA~~VG  125 (170)
                      ...|++++.+|+.|+|+||.|++++|||+||+||+|||||||||..+.||+++||++++++.  + ...++|+++|++||
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 VKFRRRRRGKRAYRIRKKLLGTSGRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKYGK-KGGGGNTEAAYLVG   83 (125)
T ss_pred             hhhHHHHHHhHHHHHHHhhccCCCCcEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHHhhcc-cCCCCCHHHHHHHH
Confidence            34688899999999999999999999999999999999999999999999999999999965  4 23568999999999


Q ss_pred             HHHHHHHHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          126 EELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       126 ~~lAkra~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      +++|++|+++||++|| |||+||+|||||+|+||++||+||-
T Consensus        84 ~lia~ra~~kgi~~vV-fdr~g~~yhgRV~Ala~~AreaGL~  124 (125)
T COG0256          84 KLIAERALAKGIEEVV-FDRGGYKYHGRVAALADGAREAGLE  124 (125)
T ss_pred             HHHHHHHHHcCCcEEE-EcCCCCCcchHHHHHHHHHHHcCcC
Confidence            9999999999999999 9999999999999999999999984

>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=3.3e-39  Score=247.51  Aligned_cols=116  Identities=31%  Similarity=0.503  Sum_probs=109.2

Q ss_pred             hHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCC-CCCCCcHHHHHHHHHHHH
Q 030865           51 RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNG-NPPCSTIEAAERIGEELI  129 (170)
Q Consensus        51 r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l-~~s~~n~~AA~~VG~~lA  129 (170)
                      +++++.+|+.++|+++.+++++|||+||+||+|||||||||..+.||++|||.+++++..+ ..+++|++||+.||++||
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            4578889999999999999999999999999999999999999999999999999999742 356789999999999999


Q ss_pred             HHHHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          130 KTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       130 kra~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      ++|+++||+.|+ |||+|++|||||+||+|+|||+||-
T Consensus        82 ~ra~~~gi~~v~-fdr~~~~y~grv~a~~~~~re~Gl~  118 (119)
T PF00861_consen   82 KRALEKGIAKVV-FDRGGYKYHGRVKALADGAREGGLE  118 (119)
T ss_dssp             HHHHHTTSSEEE-ECTSTSSSSSHHHHHHHHHHHTTCB
T ss_pred             HHHHHcCCcEEE-EcCCCCcccHHHHHHHHHHHHcCCC
Confidence            999999999999 9999999999999999999999984

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=7.5e-38  Score=259.97  Aligned_cols=97  Identities=23%  Similarity=0.357  Sum_probs=90.6

Q ss_pred             CCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCC-----------CCCCcHHHHHHHHHHHHHHHHhCCCC
Q 030865           70 PTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGN-----------PPCSTIEAAERIGEELIKTCIALNIT  138 (170)
Q Consensus        70 ~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~-----------~s~~n~~AA~~VG~~lAkra~e~gI~  138 (170)
                      -.+|||+||+||+|||||||||.+++|||++||+++++++.+.           ..++|+++|+.||++||++|+++||+
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            3699999999999999999999999999999999999976432           14789999999999999999999999


Q ss_pred             EEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          139 EISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       139 ~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      +|+ ||||||+|||||+||||+|||+||.
T Consensus       183 kVv-FDRgGy~YHGRVkALAdaARe~GLk  210 (211)
T PTZ00032        183 KVR-FDRAHYKYAGKVEALAEGARAVGLQ  210 (211)
T ss_pred             EEE-EeCCCCeehhHHHHHHHHHHHcCCC
Confidence            999 9999999999999999999999984

>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=2.8e-36  Score=224.63  Aligned_cols=102  Identities=33%  Similarity=0.479  Sum_probs=96.5

Q ss_pred             HHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEE
Q 030865           63 QKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISS  142 (170)
Q Consensus        63 Rkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~  142 (170)
                      ++++.|+..+|||+||+||+|||||||||.+++||++|||.|+++++++ .+++|++||+.||++||+||+++||++|+ 
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            3456678899999999999999999999999999999999999999875 57899999999999999999999999999 


Q ss_pred             ecCCCCccchHHHHHHHHHHHcCC
Q 030865          143 YDRNGSRRGERMQAFEIPISRHGF  166 (170)
Q Consensus       143 fDRgg~~YhGrVkAladaaRe~Gl  166 (170)
                      ||||+++|||||+||+|++||+||
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=3.1e-34  Score=237.02  Aligned_cols=112  Identities=21%  Similarity=0.159  Sum_probs=101.9

Q ss_pred             hHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEE--eCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHH
Q 030865           51 RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLV--DDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEEL  128 (170)
Q Consensus        51 r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvI--dd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~l  128 (170)
                      |+|-+.-.++|+|...   +++|||+||+||+|||||||  ||++++||+||||+|++.++|. .+++|++||+.||++|
T Consensus        14 rRegkTdY~~R~rl~~---~~kpRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~g~~-~~~~N~~AAy~vG~ll   89 (193)
T PRK08569         14 RREGKTDYRKRLKLLL---SGKPRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKYGWK-GDTGNTPAAYLTGLLA   89 (193)
T ss_pred             cccccccHHHHHHHHh---cCCCEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhcccc-CCCCCHHHHHHHHHHH
Confidence            4555566677776654   47899999999999999999  8999999999999999998874 4689999999999999


Q ss_pred             HHHHHhCCCCEEEEecCCCCccc--hHHHHHHHHHHHcCCc
Q 030865          129 IKTCIALNITEISSYDRNGSRRG--ERMQAFEIPISRHGFL  167 (170)
Q Consensus       129 Akra~e~gI~~Vv~fDRgg~~Yh--GrVkAladaaRe~Gl~  167 (170)
                      |+||+++||++|+ |||||++||  |||+|+||+|||+||-
T Consensus        90 A~ral~kGi~~vv-fDrGg~~yh~gGRV~A~akgArd~GL~  129 (193)
T PRK08569         90 GKKALKAGVEEAV-LDIGLHRPTKGSRVFAALKGAIDAGLE  129 (193)
T ss_pred             HHHHHHCCCCEEE-EecCCccccCCccHHHHHHHHHHcCCc
Confidence            9999999999999 999999999  9999999999999985

>PTZ00069 60S ribosomal protein L5; Provisional

Probab=99.51  E-value=7.3e-14  Score=122.06  Aligned_cols=107  Identities=18%  Similarity=0.097  Sum_probs=92.0

Q ss_pred             HHHHHHHhcCC----CCCCeEEEEecCCeEEEEEEe--CCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHH
Q 030865           59 NRRIQKKFNGT----PTKPRLSVFCSDKQLYAMLVD--DQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTC  132 (170)
Q Consensus        59 ~~RiRkki~gt----~~rPRL~V~kSNkhIyAQvId--d~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra  132 (170)
                      +.|.|.-+.+.    +.+|||+|..||++|.|||+.  .+++++|++|.|.|+.-.+| ..+.+|.+||+.+|.++|.|+
T Consensus        31 ~~R~rLi~q~knKynspK~RlVVR~TN~~ii~Qiv~~~~~GD~vl~sA~S~eL~kyG~-k~gl~N~~AAY~TGlL~arR~  109 (300)
T PTZ00069         31 YARRRLILQDKNKYNSPKYRLVVRITNKDIICQIVYATIVGDKVLAAAYSHELPRFGI-PVGLTNYAAAYATGLLLARRL  109 (300)
T ss_pred             HHHHHHHHccccccCCCCceEEEEEECCcEEEEEEEeecCCCEEEEEeehhhHhhcCc-CCCCccHHHHHHHHHHHHHHH
Confidence            45555555542    358999999999999999997  88999999999999987887 467899999999999999999


Q ss_pred             HhC--------CCC--------------------EEEEecCCCCc--cchHHHHHHHHHHHcCCc
Q 030865          133 IAL--------NIT--------------------EISSYDRNGSR--RGERMQAFEIPISRHGFL  167 (170)
Q Consensus       133 ~e~--------gI~--------------------~Vv~fDRgg~~--YhGrVkAladaaRe~Gl~  167 (170)
                      +++        |++                    +++ +|-|..+  .++||+|...|+.++||-
T Consensus       110 L~kl~ld~~y~G~~e~~g~~y~v~e~~~~~~rpf~a~-LDiGL~rtt~G~RVFaalKGa~DgGl~  173 (300)
T PTZ00069        110 LKKLGLDKQFEGVKEADGEYYHVDEEDDEERRPFKAI-LDVGLARTTTGNRVFGALKGAVDGGLH  173 (300)
T ss_pred             HHhhcccccccCcccccCcccccccccccCCCCceEE-EeeccccCCCCceeeeehhcccccCcc
Confidence            998        773                    678 9999755  588999999999999984

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

Probab=99.24  E-value=3.7e-11  Score=97.79  Aligned_cols=94  Identities=18%  Similarity=0.279  Sum_probs=82.1

Q ss_pred             CeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCC-Cccc
Q 030865           73 PRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNG-SRRG  151 (170)
Q Consensus        73 PRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg-~~Yh  151 (170)
                      ++|.|-++..|+-+-|.+.++|.+ +||||.||.|+..|+ ++.|+.|+..+|.+||+||++.||+.++ +.-.. ....
T Consensus        61 h~lev~~~~~hveg~v~H~~~gvv-vSAST~EwaIk~qLY-st~dtsA~~niGRVLAqRCLqsGI~fm~-~~~t~ea~~~  137 (188)
T KOG3333|consen   61 HRLEVIRTQHHVEGLVEHQNGGVV-VSASTREWAIKKQLY-STRDTSACENIGRVLAQRCLQSGINFMV-YQPTPEAAAS  137 (188)
T ss_pred             eEEEEeecccceeeeeeEecCCEE-EEecccchHHHHHHh-hccchHHHHHHHHHHHHHHHHhCcceec-cCCChhhccc
Confidence            589999999999999998776655 799999999999886 8899999999999999999999999999 65433 3346


Q ss_pred             hHHHHHHHHHHHcCCccC
Q 030865          152 ERMQAFEIPISRHGFLQQ  169 (170)
Q Consensus       152 GrVkAladaaRe~Gl~~~  169 (170)
                      ..++-|..++.|+|+...
T Consensus       138 s~~q~l~~a~~e~Gv~lk  155 (188)
T KOG3333|consen  138 SSMQRLQSAMTEGGVVLK  155 (188)
T ss_pred             hHHHHHHHHHHhCCeeec
Confidence            789999999999999754

>PTZ00090 40S ribosomal protein S11; Provisional

Probab=97.45  E-value=0.0022  Score=54.93  Aligned_cols=89  Identities=19%  Similarity=0.185  Sum_probs=73.8

Q ss_pred             CCeEEEEecCCeEEEEEEeCCCCe-EEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCcc
Q 030865           72 KPRLSVFCSDKQLYAMLVDDQNKK-CLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRR  150 (170)
Q Consensus        72 rPRL~V~kSNkhIyAQvIdd~~gk-tLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~Y  150 (170)
                      +.+|+|+.|-++..++|.|..+.. ||+-+|+-...+++.   ..++--||+.+++.+|++|++.||.+|-.+=+|.   
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            558999999999999999877775 688777777777764   3467789999999999999999999998666663   


Q ss_pred             chHHHHHHHHHHHcCCc
Q 030865          151 GERMQAFEIPISRHGFL  167 (170)
Q Consensus       151 hGrVkAladaaRe~Gl~  167 (170)
                      +| .++...++...||.
T Consensus       192 Gg-REtALRaL~~~GLk  207 (233)
T PTZ00090        192 MR-VETVLQAFYANGLQ  207 (233)
T ss_pred             Ch-HHHHHHHHHHCCCE
Confidence            34 89999999999974

>TIGR03632 bact_S11 30S ribosomal protein S11

Probab=97.32  E-value=0.0038  Score=47.38  Aligned_cols=86  Identities=15%  Similarity=0.173  Sum_probs=66.8

Q ss_pred             EEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCccchHH
Q 030865           75 LSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERM  154 (170)
Q Consensus        75 L~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~YhGrV  154 (170)
                      +.|+.|.++..+.|-|. .|.+++.+|+-...+++.   ...+.-||..+++.++++|+++||..|..+=||. -+ || 
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---KKSTPYAAQLAAEDAAKKAKEFGMKTVDVYVKGP-GA-GR-   75 (108)
T ss_pred             EEEEccCCCEEEEEEcC-CCCEEEEEecCceeeCCC---ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECC-CC-cH-
Confidence            67899999999999987 456888888877677763   3577889999999999999999999888666662 22 44 


Q ss_pred             HHHHHHHHHcCCc
Q 030865          155 QAFEIPISRHGFL  167 (170)
Q Consensus       155 kAladaaRe~Gl~  167 (170)
                      +++..++...|+.
T Consensus        76 ~~~ir~l~~~glk   88 (108)
T TIGR03632        76 ESAIRALQAAGLE   88 (108)
T ss_pred             HHHHHHHHHCCCE
Confidence            5566666667763

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=97.25  E-value=0.0047  Score=46.88  Aligned_cols=85  Identities=20%  Similarity=0.198  Sum_probs=65.6

Q ss_pred             EEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCccchHH
Q 030865           75 LSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERM  154 (170)
Q Consensus        75 L~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~YhGrV  154 (170)
                      +.|+.|.++..+.|-|.. |.++++.|+-...+++.   ...+..||+.+++.++++|++.||+.|..+=+|  .--||-
T Consensus         3 ihI~~s~NNt~vtlTd~~-G~~~~~~S~G~~gfK~~---rk~t~~Aa~~~a~~~~~~~~~~gi~~v~v~ikG--~g~gr~   76 (110)
T PF00411_consen    3 IHIKSSFNNTIVTLTDLK-GNVLFWSSAGSLGFKGA---RKSTPYAAQQAAEKIAKKAKELGIKTVRVKIKG--FGPGRE   76 (110)
T ss_dssp             EEEEEESSEEEEEEEETT-SEEEEEEETTTSSTTTT---CGSSHHHHHHHHHHHHHHHHCTTEEEEEEEEES--SSTTHH
T ss_pred             EEEEecCCCEEEEEECCC-CCEEEEEeccccccccc---cccCHHHHHHHHHHHHHHHHHcCCeEEEEEEcC--CCccHH
Confidence            678999999999999654 77778889887777763   357889999999999999999999988755555  223454


Q ss_pred             HHHHHHHHHcCC
Q 030865          155 QAFEIPISRHGF  166 (170)
Q Consensus       155 kAladaaRe~Gl  166 (170)
                      . +..++...|+
T Consensus        77 ~-~lk~l~~~gl   87 (110)
T PF00411_consen   77 A-ALKALKKSGL   87 (110)
T ss_dssp             H-HHHHHHHTTS
T ss_pred             H-HHHHHHhcCC
Confidence            3 3366666776

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=97.20  E-value=0.0069  Score=46.63  Aligned_cols=87  Identities=17%  Similarity=0.145  Sum_probs=69.7

Q ss_pred             eEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCccchH
Q 030865           74 RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGER  153 (170)
Q Consensus        74 RL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~YhGr  153 (170)
                      .+.|+.|.++..+.|-|.. |.+|+.+|.-...+++.   ..++.-||..+++.++++|++.||+.|..+=|| +- .||
T Consensus        15 i~hI~~t~NNTiiTlTd~~-G~~l~~~S~G~~gfKg~---rK~T~~Aa~~~a~~~~~~~~~~gi~~v~I~ikG-~G-~Gr   88 (116)
T CHL00041         15 VIHIQASFNNTIVTVTDVR-GRVISWSSAGACGFKGA---RKGTPFAAQTAAENAIRTVIDQGMKRAEVMIKG-PG-LGR   88 (116)
T ss_pred             EEEEEcccCCEEEEEEcCC-CCEEEEEecCceeeCCC---ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEC-CC-CcH
Confidence            7899999999999999764 67899988887777763   347788999999999999999999988856666 32 355


Q ss_pred             HHHHHHHHHHcCCc
Q 030865          154 MQAFEIPISRHGFL  167 (170)
Q Consensus       154 VkAladaaRe~Gl~  167 (170)
                       +++..++...||.
T Consensus        89 -~~~ir~l~~~glk  101 (116)
T CHL00041         89 -DTALRAIRRSGLK  101 (116)
T ss_pred             -HHHHHHHHHCCCE
Confidence             5556777788864

>PRK05309 30S ribosomal protein S11; Validated

Probab=96.94  E-value=0.015  Score=45.51  Aligned_cols=89  Identities=12%  Similarity=0.131  Sum_probs=68.8

Q ss_pred             CCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCccc
Q 030865           72 KPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRG  151 (170)
Q Consensus        72 rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~Yh  151 (170)
                      .-.+.|+.|.++..+.|-|. .|.+++..|.-...+++.   ..++..||..+++.+++.|++.||+.|..+=|| .-+ 
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            35899999999999999975 677888888766666653   357788999999999999999999988855666 322 


Q ss_pred             hHHHHHHHHHHHcCCc
Q 030865          152 ERMQAFEIPISRHGFL  167 (170)
Q Consensus       152 GrVkAladaaRe~Gl~  167 (170)
                      || +++..++...|+.
T Consensus        91 Gr-~~air~L~~~glk  105 (128)
T PRK05309         91 GR-ESAIRALQAAGLE  105 (128)
T ss_pred             cH-HHHHHHHHHCCCE
Confidence            44 5555566667763

>TIGR03628 arch_S11P archaeal ribosomal protein S11P

Probab=96.53  E-value=0.048  Score=42.23  Aligned_cols=90  Identities=17%  Similarity=0.063  Sum_probs=66.5

Q ss_pred             eEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCC--CCc--
Q 030865           74 RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRN--GSR--  149 (170)
Q Consensus        74 RL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRg--g~~--  149 (170)
                      .+.|+-|-++....|-|..+..+|+-+|.-..-+++.   ..++-=||...++.++++|+++||+.|..+=||  |.+  
T Consensus         4 i~hI~as~NNTiitvTD~~G~~~~~~~S~G~~g~kg~---kk~TpyAAq~aa~~~~~~~~~~Gi~~v~v~ikG~gg~~~~   80 (114)
T TIGR03628         4 IAHIYSSFNNTIITITDITGAETIARSSGGMVVKADR---DESSPYAAMQAAGRAAEKAKERGITGLHIKVRAPGGNGQK   80 (114)
T ss_pred             EEEEEccCCCeEEEEEcCCCCEEEEEecCcceEeCCC---ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCC
Confidence            3568888899999999877778888888777666653   245667999999999999999999999866666  333  


Q ss_pred             -cc-hHHHHHHHHHHHcCCc
Q 030865          150 -RG-ERMQAFEIPISRHGFL  167 (170)
Q Consensus       150 -Yh-GrVkAladaaRe~Gl~  167 (170)
                       ++ || ++...++...||.
T Consensus        81 ~~G~Gr-~~air~l~~~glk   99 (114)
T TIGR03628        81 SPGPGA-QAAIRALARAGLR   99 (114)
T ss_pred             CCCCcH-HHHHHHHHHCCCE
Confidence             22 44 3444566667763

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=96.18  E-value=0.061  Score=42.72  Aligned_cols=89  Identities=18%  Similarity=0.093  Sum_probs=65.3

Q ss_pred             eEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCC--CCc--
Q 030865           74 RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRN--GSR--  149 (170)
Q Consensus        74 RL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRg--g~~--  149 (170)
                      .+.|+.|-++.+..|-|..+..||+.+|.-..-+++.   ..++-=||...++.++++|+++||+.|..+=||  |..  
T Consensus        11 i~hI~as~NNTivtvTD~~G~~~~~~~S~G~~g~kg~---kK~TpyAAq~aae~~~~~~~~~Gi~~v~v~vkG~Ggn~~~   87 (132)
T PRK09607         11 IAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADR---DESSPYAAMQAAEKAAEDAKEKGITGVHIKVRAPGGNGQK   87 (132)
T ss_pred             EEEEEcccCCeEEEEEcCCCCEEEEEecCcceeeCCC---ccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCc
Confidence            6889999999999999877667888877766555542   245667999999999999999999999866666  222  


Q ss_pred             -cc-hHHHHHHHHHHHcCC
Q 030865          150 -RG-ERMQAFEIPISRHGF  166 (170)
Q Consensus       150 -Yh-GrVkAladaaRe~Gl  166 (170)
                       ++ |+ ++...++...||
T Consensus        88 ~~G~Gr-~~airal~~~gl  105 (132)
T PRK09607         88 SPGPGA-QAAIRALARAGL  105 (132)
T ss_pred             CCCCcH-HHHHHHHHHCCC
Confidence             22 44 334455555665

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

Probab=96.12  E-value=0.0091  Score=52.04  Aligned_cols=116  Identities=14%  Similarity=0.049  Sum_probs=83.4

Q ss_pred             chHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEe--CCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHH
Q 030865           50 ARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVD--DQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEE  127 (170)
Q Consensus        50 ~r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvId--d~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~  127 (170)
                      -++.-..++|.-+.-|-.-...+.||.|..+|+.|.+||+-  -+.+.+++++-+.|..-.+.. ....|-.||+..|.+
T Consensus        26 GkTdy~arkrl~~qdknk~nt~kyR~ivr~~n~~iicqi~~~~i~gd~v~~~a~s~elpkyg~~-~GLtNyaAay~TglL  104 (264)
T KOG0875|consen   26 GKTDYYARKRLVVQDKNKYNTPKYRMIVRVINKDIICQIAYATIEGDVIVRAAYAHELPKYGVK-VGLTNYAAAYCTGLL  104 (264)
T ss_pred             CCccHHHHHHHHhhcccccCCCceEEEEEEechhhHHHHHhheecceEEEEeeccccccccccc-cccchhHHHHhhHHH
Confidence            34444444455444444333468899999999999999986  556677888899988876642 345789999999999


Q ss_pred             HHHHHHh-CCCCE--------------------------EEEecCCCCc--cchHHHHHHHHHHHcCCc
Q 030865          128 LIKTCIA-LNITE--------------------------ISSYDRNGSR--RGERMQAFEIPISRHGFL  167 (170)
Q Consensus       128 lAkra~e-~gI~~--------------------------Vv~fDRgg~~--YhGrVkAladaaRe~Gl~  167 (170)
                      ||.|+++ .|.++                          +. +|-|.-+  -+.||+...+++.++||.
T Consensus       105 LarR~l~~~gmD~~yeg~~e~~gde~~~e~idgq~~aFt~~-Ld~GLaRtttg~kvFGAlkga~dGGL~  172 (264)
T KOG0875|consen  105 LACRLLKRFGMDKIYEGQVEVTGDEYNVESIDGQPGAFTCY-LDAGLARTTTGNKVFGALKGAVDGGLS  172 (264)
T ss_pred             HHHHHHHHhCcccccccceeecCcccccccccCCCCCeEEE-ecccccccCCCceeeeeeehhccccee
Confidence            9999986 55432                          33 5666433  256888888888888885

>PTZ00129 40S ribosomal protein S14; Provisional

Probab=95.54  E-value=0.22  Score=40.36  Aligned_cols=92  Identities=18%  Similarity=0.174  Sum_probs=65.2

Q ss_pred             CeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCC--CCcc
Q 030865           73 PRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRN--GSRR  150 (170)
Q Consensus        73 PRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRg--g~~Y  150 (170)
                      -.+.|+-|-++....|-|.. |.+++..|+-...+++..  ..++-=||...++.++++|+++||+.|..+=|+  |..-
T Consensus        29 Gi~hI~as~NNTiItiTD~~-G~~~~w~SsG~~gfKg~r--~KsTpyAAq~aa~~~a~k~~~~Gi~~v~V~vr~~gg~~~  105 (149)
T PTZ00129         29 GVAHIFASFNDTFIHVTDLS-GRETLVRVTGGMKVKADR--DESSPYAAMMAAQDVAARCKELGINALHIKLRATGGVRT  105 (149)
T ss_pred             EEEEEEcccCCeEEEEEccc-CCEEEEEecCcceecccc--cCCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEecCCCCC
Confidence            47889999999999998765 555667777666666532  145566899999999999999999998866653  3222


Q ss_pred             ch---HHHHHHHHHHHcCCc
Q 030865          151 GE---RMQAFEIPISRHGFL  167 (170)
Q Consensus       151 hG---rVkAladaaRe~Gl~  167 (170)
                      +|   -=++...+|...||.
T Consensus       106 kg~GpGr~~airaL~~~glk  125 (149)
T PTZ00129        106 KTPGPGAQAALRALARAGLK  125 (149)
T ss_pred             CCCCCCHHHHHHHHHHCCCE
Confidence            21   234555666667764

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

Probab=92.08  E-value=1  Score=35.81  Aligned_cols=84  Identities=18%  Similarity=0.199  Sum_probs=57.9

Q ss_pred             EEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCC-CCccchH
Q 030865           75 LSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRN-GSRRGER  153 (170)
Q Consensus        75 L~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRg-g~~YhGr  153 (170)
                      ..|+.|-++-...+- |..|..+..+|+=..-+++.   ..++--||...++..++.++|.||..|-++=+| |.   ||
T Consensus        21 ahI~asfNNTivtit-D~~Gn~i~wassG~~gfk~~---rk~tpyAA~~aa~~aa~~a~e~Gi~~v~v~vkgpG~---Gr   93 (129)
T COG0100          21 AHIHASFNNTIVTIT-DLTGNVIIWASSGGMGFKGS---RKSTPYAAQLAAEDAAKKAKEHGIKSVEVKVKGPGP---GR   93 (129)
T ss_pred             EEEEcccCCcEEEec-CCCCCEEEEEecCCceEcCC---CCCCHHHHHHHHHHHHHHHHHhCccEEEEEEECCCC---cH
Confidence            445555555444444 67788888999988888763   256777888899999999999999988755666 22   22


Q ss_pred             HHHHHHHHHHcCC
Q 030865          154 MQAFEIPISRHGF  166 (170)
Q Consensus       154 VkAladaaRe~Gl  166 (170)
                       +|...+|-.+|+
T Consensus        94 -eaAiraL~~ag~  105 (129)
T COG0100          94 -EAAIRALAAAGL  105 (129)
T ss_pred             -HHHHHHHHHccc
Confidence             334444446665

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

Probab=89.65  E-value=4.2  Score=33.99  Aligned_cols=90  Identities=16%  Similarity=0.162  Sum_probs=67.9

Q ss_pred             CCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCcc
Q 030865           71 TKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRR  150 (170)
Q Consensus        71 ~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~Y  150 (170)
                      +-|-..|.-|.++-..+|.| ..|+++..+|---.-+++.   ..++--||.-.|-..+.+++++|+..|-+-=+|  .-
T Consensus        78 eiPi~hIraS~NNTivtVtd-~kg~vi~~~ScgteGFrnt---rkgT~iAaQtaavaa~~r~v~~G~~~vrV~VkG--lG  151 (190)
T KOG0408|consen   78 EIPIIHIRASFNNTIVTVTD-VKGEVISWSSCGTEGFRNT---RKGTPIAAQTAAVAAIRRAVDQGMQTVRVRVKG--LG  151 (190)
T ss_pred             ccceEEEEecCCCeEEEEEc-cCCcEEEEeeccccccccc---ccCCchhHHHHHHHHHHHHHHhcceEEEEEEec--CC
Confidence            67999999999999999985 5667776666555556653   346677899999999999999999977633444  34


Q ss_pred             chHHHHHHHHHHHcCCc
Q 030865          151 GERMQAFEIPISRHGFL  167 (170)
Q Consensus       151 hGrVkAladaaRe~Gl~  167 (170)
                      -||+.|+ .+++-+||.
T Consensus       152 pGRmsa~-kgl~m~Gl~  167 (190)
T KOG0408|consen  152 PGRMSAL-KGLRMGGLL  167 (190)
T ss_pred             ccHHHHH-hhhhhcceE
Confidence            5887765 677777774

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

Probab=80.10  E-value=11  Score=29.88  Aligned_cols=89  Identities=18%  Similarity=0.246  Sum_probs=58.4

Q ss_pred             eEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecC---CCCc-
Q 030865           74 RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDR---NGSR-  149 (170)
Q Consensus        74 RL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDR---gg~~-  149 (170)
                      ...||-|-+..++.|-|-.+.+|++-..---+ ++..  ...++--||-+-...+|.+|++.||+.+- +.-   ||.+ 
T Consensus        18 vahi~asfndtfvhitdlsg~eti~rvtggmk-vkad--rdesspyaamlaaqdva~kck~~gi~alh-~klratgg~kt   93 (139)
T KOG0407|consen   18 VAHIFASFNDTFVHVTDLSGKETIVRVTGGMK-VKAD--RDESSPYAAMLAAQDVAAKCKELGITALH-IKLRATGGTKT   93 (139)
T ss_pred             EEEEEeecccceEEEeccCCceEEEEecCCeE-Eecc--cccCChHHHHHHHHHHHHHHHhcCeeEEE-EEEEecCCccc
Confidence            34577788888888888888899887654433 2221  22456678888899999999999999887 543   3433 


Q ss_pred             --cchHHHHHHHHHHHcCC
Q 030865          150 --RGERMQAFEIPISRHGF  166 (170)
Q Consensus       150 --YhGrVkAladaaRe~Gl  166 (170)
                        .+---++...+|-.+|+
T Consensus        94 ktpgpgaqsalralar~gm  112 (139)
T KOG0407|consen   94 KTPGPGAQSALRALARSGM  112 (139)
T ss_pred             CCCCccHHHHHHHHHHhcc
Confidence              22223444444545554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	170
3bbo_Q	161	Homology Model For The Spinach Chloroplast 50s Subu		2e-17
1ovy_A	120	Solution Structure Of Ribosomal Protein L18 From Ba		3e-11
3pyo_O	98	Crystal Structure Of A Complex Containing Domain 3		1e-05
3fin_S	99	T. Thermophilus 70s Ribosome In Complex With Mrna,		1e-05
2j01_S	112	Structure Of The Thermus Thermophilus 70s Ribosome		1e-05
3mrz_O	111	Recognition Of The Amber Stop Codon By Release Fact		1e-05
1ily_A	90	Solution Structure Of Ribosomal Protein L18 Of Ther		1e-05

>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 = 84.7 bits (208), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 53/151 (35%), Positives = 81/151 (53%), Gaps = 4/151 (2%)
Query: 8   AALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKFN 67
           A+L F    F  ++  P  LLP     +  +    ++EA+A  R E    R+ RI+KK  
Sbjct: 3   ASLSFLQSAFASSQQLP--LLPKFAAAKPLLPSFPIIEAKAKTRREDRTARHVRIRKKVE 60
Query: 68  GTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCS-TIEAAERIGE 126
           GTP +PRL VF S+K LY  ++DD     L   ST+Q+SI    +   S TIE A+++GE
Sbjct: 61  GTPERPRLCVFRSNKHLYVQVIDDSKMHTLASASTMQKSISEELDYSSSPTIEVAKKVGE 120
Query: 127 ELIKTCIALNITEISSYDRNGSRRGERMQAF 157
            +   C+   IT++ ++DR G     R++A 
Sbjct: 121 VIASACLEKGITKV-AFDRGGYPYHGRVKAL 150

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

Iteration: 1
 Score = 64.3 bits (155), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 37/102 (36%), Positives = 57/102 (55%), Gaps = 4/102 (3%)
Query: 56  KIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPC 115
           K R+ RI+KK  GT  +PRLSVF S+K +YA ++DD     +   STL +     G    
Sbjct: 12  KKRHARIRKKIFGTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEF---GLDST 68
Query: 116 STIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
           + IEAA+++GE + K  +   I ++  +DR G     R++A 
Sbjct: 69  NNIEAAKKVGELVAKRALEKGIKQV-VFDRGGYLYHGRVKAL 109

>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 = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 7/84 (8%)
Query: 74  RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCI 133
           RLSVF S K +YA ++DD+    L   S+L   ++GN        E A ++G  L +  +
Sbjct: 15  RLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLKGN------KTEVARQVGRALAEKAL 68
Query: 134 ALNITEISSYDRNGSRRGERMQAF 157
           AL I ++ ++DR   +   R++A 
Sbjct: 69  ALGIKQV-AFDRGPYKYHGRVKAL 91

>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 = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 7/84 (8%)
Query: 74  RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCI 133
           RLSVF S K +YA ++DD+    L   S+L   ++GN        E A ++G  L +  +
Sbjct: 15  RLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLKGN------KTEVARQVGRALAEKAL 68
Query: 134 ALNITEISSYDRNGSRRGERMQAF 157
           AL I ++ ++DR   +   R++A 
Sbjct: 69  ALGIKQV-AFDRGPYKYHGRVKAL 91

>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 = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/108 (29%), Positives = 56/108 (51%), Gaps = 8/108 (7%)
Query: 50  ARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRG 109
           AR  + + R  R++ +   T  + RLSVF S K +YA ++DD+    L   S+L   ++G
Sbjct: 2   ARLTAYERRKFRVRNRIKRTG-RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLKG 60
Query: 110 NGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
           N        E A ++G  L +  +AL I ++ ++DR   +   R++A 
Sbjct: 61  N------KTEVARQVGRALAEKALALGIKQV-AFDRGPYKYHGRVKAL 101

>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 = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 32/108 (29%), Positives = 56/108 (51%), Gaps = 8/108 (7%)
Query: 50  ARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRG 109
           AR  + + R  R++ +   T  + RLSVF S K +YA ++DD+    L   S+L   ++G
Sbjct: 1   ARLTAYERRKFRVRNRIKRTG-RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLKG 59
Query: 110 NGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
           N        E A ++G  L +  +AL I ++ ++DR   +   R++A 
Sbjct: 60  N------KTEVARQVGRALAEKALALGIKQV-AFDRGPYKYHGRVKAL 100

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 45/84 (53%), Gaps = 7/84 (8%)
Query: 74  RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCI 133
           RLSVF S K +YA ++DD+    L   S+L   ++GN        E A ++G  L +  +
Sbjct: 3   RLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLKGN------KTEVARQVGRALAEKAL 56
Query: 134 ALNITEISSYDRNGSRRGERMQAF 157
           AL I ++ ++DR   +   R++A 
Sbjct: 57  ALGIKQV-AFDRGPYKYHGRVKAL 79

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	170
3bbo_Q	161	Ribosomal protein L18; large ribosomal subunit, sp	3e-22
1ovy_A	120	50S ribosomal protein L18; ribosome; NMR {Geobacil	2e-20
2zjr_L	114	50S ribosomal protein L18; ribosome, large ribosom	5e-19
3v2d_S	112	50S ribosomal protein L18; ribosome associated inh	1e-17
3r8s_O	116	50S ribosomal protein L18; protein biosynthesis, R	7e-17
1vq8_N	187	50S ribosomal protein L18P; ribosome 50S, protein-	5e-05

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

 Score = 86.3 bits (214), Expect = 3e-22
 Identities = 49/142 (34%), Positives = 75/142 (52%), Gaps = 4/142 (2%)

Query: 7   AAALQFNACDFFGTKAKPFNLLPSQTQRRSFILKPLVVEARANARTESAKIRNRRIQKKF 66
            A+L F    F  ++  P   LP     +  +    ++EA+A  R E    R+ RI+KK 
Sbjct: 2   CASLSFLQSAFASSQQLPL--LPKFAAAKPLLPSFPIIEAKAKTRREDRTARHVRIRKKV 59

Query: 67  NGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPP-CSTIEAAERIG 125
            GTP +PRL VF S+K LY  ++DD     L   ST+Q+SI    +     TIE A+++G
Sbjct: 60  EGTPERPRLCVFRSNKHLYVQVIDDSKMHTLASASTMQKSISEELDYSSSPTIEVAKKVG 119

Query: 126 EELIKTCIALNITEISSYDRNG 147
           E +   C+   IT++ ++DR G
Sbjct: 120 EVIASACLEKGITKV-AFDRGG 140

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

 Score = 80.7 bits (200), Expect = 2e-20
 Identities = 35/97 (36%), Positives = 54/97 (55%), Gaps = 4/97 (4%)

Query: 51  RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGN 110
           R    K R+ RI+KK  GT  +PRLSVF S+K +YA ++DD     +   STL +    +
Sbjct: 7   RNAVRKKRHARIRKKIFGTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLD 66

Query: 111 GNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNG 147
                + IEAA+++GE + K  +   I ++  +DR G
Sbjct: 67  ST---NNIEAAKKVGELVAKRALEKGIKQV-VFDRGG 99

>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 = 76.9 bits (190), Expect = 5e-19
 Identities = 25/100 (25%), Positives = 40/100 (40%), Gaps = 8/100 (8%)

Query: 48  ANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSI 107
           A A T   K+R RR  +       + RLSV+ S K +YA ++DD   + L   S+     
Sbjct: 2   ATATTIRRKLRTRRKVRTTTAASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALKS 61

Query: 108 RGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNG 147
                      + A  +G+ L        I ++  +DR  
Sbjct: 62  GNK-------TDTAAAVGKALAAAAAEKGIKQV-VFDRGS 93

>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 = 73.4 bits (181), Expect = 1e-17
 Identities = 30/98 (30%), Positives = 51/98 (52%), Gaps = 8/98 (8%)

Query: 50  ARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRG 109
           AR  + + R  R++ +   T  + RLSVF S K +YA ++DD+    L   S+L   ++G
Sbjct: 2   ARLTAYERRKFRVRNRIKRTG-RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLKG 60

Query: 110 NGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNG 147
           N        E A ++G  L +  +AL I ++ ++DR  
Sbjct: 61  N------KTEVARQVGRALAEKALALGIKQV-AFDRGP 91

>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 = 71.0 bits (175), Expect = 7e-17
 Identities = 20/97 (20%), Positives = 44/97 (45%), Gaps = 3/97 (3%)

Query: 51  RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGN 110
           +  +   R  R ++K        RL V  + + +YA ++     + L   ST++++I   
Sbjct: 2   KKSARIRRATRARRKLQELG-ATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQ 60

Query: 111 GNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNG 147
                   +AA  +G+ + +  +   I ++ S+DR+G
Sbjct: 61  LK-YTGNKDAAAAVGKAVAERALEKGIKDV-SFDRSG 95

>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 = 40.6 bits (95), Expect = 5e-05
 Identities = 24/129 (18%), Positives = 42/129 (32%), Gaps = 18/129 (13%)

Query: 51  RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLV--DDQNKKCLFFGSTLQQSIR 108
           R E+    ++R++   +G   KPRL    S+K + A LV         L    +   +  
Sbjct: 14  RREARTDYHQRLRLLKSG---KPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLAEY 70

Query: 109 GNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSR--RGERMQA---------F 157
           G    P   + +A   G           + E    D   +    G ++ A          
Sbjct: 71  G-WEAPTGNMPSAYLTGLLAGLRAQEAGVEEA-VLDIGLNSPTPGSKVFAIQEGAIDAGL 128

Query: 158 EIPISRHGF 166
           +IP +    
Sbjct: 129 DIPHNDDVL 137

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	170
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
4a17_M	301	RPL5, 60S ribosomal protein L5; eukaryotic ribosom	99.93
3u5e_D	297	60S ribosomal protein L5; translation, ribosome, r	99.93
3iz5_Q	304	60S ribosomal protein L5 (L18P); eukaryotic riboso	99.87
2vqe_K	129	30S ribosomal protein S11, 30S ribosomal protein S	97.16
3bbn_K	140	Ribosomal protein S11; small ribosomal subunit, sp	97.0
3j20_M	137	30S ribosomal protein S11P; archaea, archaeal, KIN	96.99
2xzm_K	151	RPS14E; ribosome, translation; 3.93A {Tetrahymena	96.42
3r8n_K	117	30S ribosomal protein S11; protein biosynthesis, R	96.3
3u5c_O	137	RP59A, 40S ribosomal protein S14-A; translation, r	94.41

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

Probab=100.00  E-value=9.1e-51  Score=326.14  Aligned_cols=149  Identities=30%  Similarity=0.472  Sum_probs=113.3

Q ss_pred             ccccCCCCCccccccCccccccccccceeeeec-ccchHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCC
Q 030865           15 CDFFGTKAKPFNLLPSQTQRRSFILKPLVVEAR-ANARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQN   93 (170)
Q Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~   93 (170)
                      +.+|++++.++.+.+.++.+.+.   ++.+||+ .++|++.|++||+|+|+||.||+++|||+||+||+|||||||||++
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~k~~~R~rR~~RiR~ki~gt~~rPRL~V~rSnkhIyAQvIdd~~   86 (161)
T 3bbo_Q           10 SAFASSQQLPLLPKFAAAKPLLP---SFPIIEAKAKTRREDRTARHVRIRKKVEGTPERPRLCVFRSNKHLYVQVIDDSK   86 (161)
T ss_dssp             ---------------------------------CCCCCCCCGGGTSCCSCSGGGGSSSCCCCEEEECSSCEEEEEECCTT
T ss_pred             HhhccccccccccccCCCCCCCC---ceeeEeeccCchHHHHHHHHHHHHHhhccCCCCCEEEEEecCCeEEEEEEECCC
Confidence            34556665555555544322222   4455566 7899999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEechhhhhccCCC-CCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865           94 KKCLFFGSTLQQSIRGNGN-PPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus        94 gktLasaST~ek~ik~~l~-~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      |+||++|||+|+++++.++ ++++|++||+.||++||+||+|+||++|+ ||||||+|||||+||||++||+||.
T Consensus        87 g~tLasASTlek~lk~~l~~g~~~n~~AA~~VG~liAeRA~e~GI~~Vv-FDRgg~~YhGRVkAladaaRe~GL~  160 (161)
T 3bbo_Q           87 MHTLASASTMQKSISEELDYSSSPTIEVAKKVGEVIASACLEKGITKVA-FDRGGYPYHGRVKALADAAREKGLQ  160 (161)
T ss_dssp             SCEEEEEEHHHHHHHHCCTTCCSSSHHHHHHHHHHSSSHHHHTSSCCCC-CCCSSSCSSSTTHHHHHHHTTTTCC
T ss_pred             CEEEEEEeCCcHHHHhhccccCCCCHHHHHHHHHHHHHHHHHCCCCEEE-EeCCCCcchHHHHHHHHHHHHhCCc
Confidence            9999999999999986432 26899999999999999999999999999 9999999999999999999999984

>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=1.8e-46  Score=287.06  Aligned_cols=114  Identities=21%  Similarity=0.343  Sum_probs=109.5

Q ss_pred             hHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHH
Q 030865           51 RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIK  130 (170)
Q Consensus        51 r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAk  130 (170)
                      |++.|.+||+|+|+||.| +++|||+||+||+|||||||||++|+||+||||+|+++++++ .+++|++||+.||++||+
T Consensus         2 ~~~~r~~r~~r~R~ki~~-~~rpRL~V~rSnkhIyAQiidd~~g~tlasAST~e~~~~~~~-~~~~n~~AA~~vG~llA~   79 (116)
T 3r8s_O            2 KKSARIRRATRARRKLQE-LGATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQL-KYTGNKDAAAAVGKAVAE   79 (116)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TTCCEEEEEECSSCEEEEEECTTSSCEEEECCSSSHHHHTTC-SCSSSHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhcc-CCCCEEEEEEeCCEEEEEEEEcCCCeEEEEEeeCchhhcccc-CCCCCHHHHHHHHHHHHH
Confidence            677899999999999999 799999999999999999999999999999999999999875 478999999999999999


Q ss_pred             HHHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          131 TCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       131 ra~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      ||+++||++|+ ||||||+|||||+||||++||+||-
T Consensus        80 Ral~~GI~~vv-fDrgg~~yhGrV~Ala~~are~Gl~  115 (116)
T 3r8s_O           80 RALEKGIKDVS-FDRSGFQYHGRVQALADAAREAGLQ  115 (116)
T ss_dssp             HHHTTTCCCCE-EECTTSCSSSHHHHHHHHHHHTTCC
T ss_pred             HHHHCCCCEEE-EecCCCcccHHHHHHHHHHHHhCCC
Confidence            99999999999 9999999999999999999999984

>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=8.9e-46  Score=282.14  Aligned_cols=109  Identities=28%  Similarity=0.437  Sum_probs=104.6

Q ss_pred             hHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHH
Q 030865           51 RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIK  130 (170)
Q Consensus        51 r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAk  130 (170)
                      |++.|.+||+|+|+||.||+ +|||+||+||+|||||||||++|+||+||||+|++++      ++|++||+.||++||+
T Consensus         3 ~~~~r~~r~~r~r~ki~gt~-rpRL~V~rSnkhiyAQiidd~~~~tlasAsT~e~~~k------~~n~~AA~~vG~llA~   75 (112)
T 3v2d_S            3 RLTAYERRKFRVRNRIKRTG-RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK------GNKTEVARQVGRALAE   75 (112)
T ss_dssp             CCCHHHHHHHHHHHHHHHTC-CCEEEEEECSSCEEEEEEETTTTEEEEEEETTTTTCC------CCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCCC-CCEEEEEEeCCeEEEEEEecCCCeEEEEEEecchhcc------CCCHHHHHHHHHHHHH
Confidence            56788999999999999998 9999999999999999999999999999999999874      4799999999999999


Q ss_pred             HHHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          131 TCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       131 ra~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      ||+++||++|+ ||||||+|||||+||+|++||+||-
T Consensus        76 ra~~~GI~~vv-fDrgg~~yhGrV~Ala~~are~GL~  111 (112)
T 3v2d_S           76 KALALGIKQVA-FDRGPYKYHGRVKALAEGAREGGLE  111 (112)
T ss_dssp             HHHTTTCCBCE-EECTTSCSCSSTTHHHHHHHHTTCB
T ss_pred             HHHHCCCCEEE-EecCCCcccHHHHHHHHHHHHcCCC
Confidence            99999999999 9999999999999999999999984

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

Probab=100.00  E-value=1.2e-45  Score=284.31  Aligned_cols=114  Identities=33%  Similarity=0.509  Sum_probs=92.4

Q ss_pred             chHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHH
Q 030865           50 ARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELI  129 (170)
Q Consensus        50 ~r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lA  129 (170)
                      +|+++|.+||+|+|+|+.||+++|||+||+||+|||||||||++|+||+||||+|++++  + .+++|++||+.||++||
T Consensus         6 ~~~~~r~~r~~R~r~ki~gt~~rpRL~V~rSnkhIyAQiidd~~~~tl~sAsT~e~~~~--~-~~~~n~~AA~~vG~llA   82 (120)
T 1ovy_A            6 DRNAVRKKRHARIRKKIFGTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFG--L-DSTNNIEAAKKVGELVA   82 (120)
T ss_dssp             ------------------CCSSCCSEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTC--S-SCTTSHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhcCCCCCCEEEEEEeCCeEEEEEEEcCCCEEEEEEecCchhhC--c-CCCCcHHHHHHHHHHHH
Confidence            46788999999999999999999999999999999999999999999999999999987  2 36799999999999999


Q ss_pred             HHHHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          130 KTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       130 kra~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      +||+++||++|+ ||||||+|||||+||+|++||+||.
T Consensus        83 ~Ral~~GI~~vv-fDrgg~~yhgrV~ala~~are~GL~  119 (120)
T 1ovy_A           83 KRALEKGIKQVV-FDRGGYLYHGRVKALADAAREAGLE  119 (120)
T ss_dssp             HHHHHHSSSCCC-CCSTTCSSCSSTHHHHHHHHHHHCC
T ss_pred             HHHHHCCCCEEE-EecCCccccHHHHHHHHHHHHhCCc
Confidence            999999999999 9999999999999999999999984

>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=6.1e-44  Score=272.75  Aligned_cols=108  Identities=24%  Similarity=0.371  Sum_probs=97.9

Q ss_pred             HHHHHHHHHHHHHHhcCC---CCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHH
Q 030865           52 TESAKIRNRRIQKKFNGT---PTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEEL  128 (170)
Q Consensus        52 ~~~r~~R~~RiRkki~gt---~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~l  128 (170)
                      +++|.+||+|+|+||.||   +++|||+||+||+|||||||||++|+||+||||+|  + .    +++|++||+.||++|
T Consensus         3 ~~~r~~r~~r~r~ki~gt~~~~~rpRL~V~rSnkhIyAQiidd~~~~tl~sAST~e--l-~----~~~n~~AA~~vG~ll   75 (114)
T 2zjr_L            3 TATTIRRKLRTRRKVRTTTAASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAA--L-K----SGNKTDTAAAVGKAL   75 (114)
T ss_dssp             -----CHHHHHHHHHHSCSTTTCSEEECCCTTSSCCCCCEEETTTTEECCCCCSCS--C-C----TTCSSSSHHHHHHHH
T ss_pred             hHHHHHHHHHHHhhhccccCCCCCCEEEEEEeCCeEEEEEEEcCCCEEEEEEEchH--h-c----CCCCHHHHHHHHHHH
Confidence            467889999999999999   99999999999999999999999999999999999  3 2    468999999999999


Q ss_pred             HHHHHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCCc
Q 030865          129 IKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       129 Akra~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl~  167 (170)
                      |+||+++||++|+ ||||||+|||||+||+|++||+||.
T Consensus        76 A~Ral~~GI~~vv-fDrgg~~yhgrV~Ala~~are~GL~  113 (114)
T 2zjr_L           76 AAAAAEKGIKQVV-FDRGSYKYHGRVKALADAAREGGLD  113 (114)
T ss_dssp             HHHHHTTCCCCCE-ECCCSSCSCSHHHHHHHHHHHHC--
T ss_pred             HHHHHHCCCCEEE-EecCCccccHHHHHHHHHHHHhCCc
Confidence            9999999999999 9999999999999999999999984

>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=1.3e-35  Score=243.02  Aligned_cols=112  Identities=18%  Similarity=0.106  Sum_probs=99.7

Q ss_pred             hHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEE--eCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHH
Q 030865           51 RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLV--DDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEEL  128 (170)
Q Consensus        51 r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvI--dd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~l  128 (170)
                      |+|-+.-.+.|+|..+   +++|||+||+||+|||||||  ||++|+||+||||+|++ +..++.+++|++||+.||++|
T Consensus        14 rregkTdy~~R~rl~~---~~rpRL~V~rSnkhIyAQII~~dd~~~~tlasAsT~e~~-k~~~k~~~~N~~AA~~vG~ll   89 (187)
T 1vq8_N           14 RREARTDYHQRLRLLK---SGKPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLA-EYGWEAPTGNMPSAYLTGLLA   89 (187)
T ss_dssp             HHTTCCCHHHHHHHHT---TCSCEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGG-GGTCCSCSSSHHHHHHHHHHH
T ss_pred             hhccchhHHHHHHHHh---cCCCEEEEEEeCCcEEEEEEEecCCCCEEEEEEEccchh-ccccccCCCcHHHHHHHHHHH
Confidence            4444455678877776   47899999999999999999  99999999999999999 532234579999999999999


Q ss_pred             HHHHHhCCCCEEEEecCCCCccc--hHHHHHHHHHHHcCCc
Q 030865          129 IKTCIALNITEISSYDRNGSRRG--ERMQAFEIPISRHGFL  167 (170)
Q Consensus       129 Akra~e~gI~~Vv~fDRgg~~Yh--GrVkAladaaRe~Gl~  167 (170)
                      |+||+++||++|+ |||||++||  |||+||+|+|||+||.
T Consensus        90 A~Ral~kGI~~vv-fDrgg~~yh~GgRV~Ala~gAre~GL~  129 (187)
T 1vq8_N           90 GLRAQEAGVEEAV-LDIGLNSPTPGSKVFAIQEGAIDAGLD  129 (187)
T ss_dssp             HHHHHHTTCCBCE-EECTTSCCCTTCHHHHHHHHHHHTTCB
T ss_pred             HHHHHHCCCCEEE-EcCCCceeccchHHHHHHHHhhcCCEe
Confidence            9999999999999 999999999  9999999999999995

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

Probab=100.00  E-value=1.7e-35  Score=244.88  Aligned_cols=113  Identities=19%  Similarity=0.108  Sum_probs=102.3

Q ss_pred             chHHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEe--CCCCeEEEEEechhhhh-ccCCCCCCCcHHHHHHHHH
Q 030865           50 ARTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVD--DQNKKCLFFGSTLQQSI-RGNGNPPCSTIEAAERIGE  126 (170)
Q Consensus        50 ~r~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvId--d~~gktLasaST~ek~i-k~~l~~s~~n~~AA~~VG~  126 (170)
                      .|++.+..+|+|+|.++.   .+|||+||+||+||||||||  |++|+||+||||+|+++ .++. .+++|++||+.||+
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 RRREGKTNYRKRLKLLKS---GKPRLVVRKSLNHHIAQIIVYDPKGDRTLVSAHTRELIRDFGWK-GHCGNTPSAYLLGL   88 (203)
T ss_dssp             HHHHTCCCHHHHHHHHTT---CCCEEEEEECSSCEEEEEEECCTTSCEEEEEECSTTTSSSSSCC-SCTTSHHHHHHHHH
T ss_pred             hHHHHhHHHHHHHHHHhc---CCCEEEEEEeCCeEEEEEEEecCCCCeEEEEEEccchhhhhccc-CCCCcHHHHHHHHH
Confidence            455666778999988876   58999999999999999998  88899999999999996 3552 46799999999999


Q ss_pred             HHHHHHHhCCCCEEEEecCCCCcc--chHHHHHHHHHHHcCCc
Q 030865          127 ELIKTCIALNITEISSYDRNGSRR--GERMQAFEIPISRHGFL  167 (170)
Q Consensus       127 ~lAkra~e~gI~~Vv~fDRgg~~Y--hGrVkAladaaRe~Gl~  167 (170)
                      +||+||+++||++|+ |||||++|  ||||+||+|+|||+||.
T Consensus        89 llA~Ral~kGI~~vv-fDrgg~~y~~hgRV~Ala~gAre~GL~  130 (203)
T 3j21_O           89 LIGYKAKQAGIEEAI-LDIGLHPPVRGSSVFAVLKGAVDAGLN  130 (203)
T ss_dssp             HSSSSTTSSCCCCCE-EECCSSCCCTTSHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHhCCCCEEE-EecCcceeccCcchhhhhhhcccCCee
Confidence            999999999999999 99999999  89999999999999994

>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=2.1e-28  Score=211.39  Aligned_cols=107  Identities=12%  Similarity=0.053  Sum_probs=93.9

Q ss_pred             HHHHHHHhcCC----CCCCeEEEEecCCeEEEEEEeCC--CCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHH
Q 030865           59 NRRIQKKFNGT----PTKPRLSVFCSDKQLYAMLVDDQ--NKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTC  132 (170)
Q Consensus        59 ~~RiRkki~gt----~~rPRL~V~kSNkhIyAQvIdd~--~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra  132 (170)
                      +.|.|.-+.+.    +.+|||+||+||+|||||||||.  +|+|||||||+|++-.++ ...++|.+||+.||.+||+||
T Consensus        31 ~~R~rLi~qdknkynt~kpRLvVrrSNk~I~aQII~~~~~gd~tLasAsS~El~kyg~-k~g~tN~aAAy~tGlLlArRa  109 (297)
T 2zkr_n           31 YARKRLVIQDKNKYNTPKYRMIVRVTNRDIICQIAYARIEGDMIVCARYAHELPKYGV-KVGLTNYAAAYCTGLLLARRL  109 (297)
T ss_dssp             HHHHHHHCCCSTTCSCCSEEEEEEEETTEEEEEEEECCSSSCEEEEEEEGGGGGGTCC-CSCSSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCcccCCCCceEEEEEecCcEEEEEEeccCCCCEEEEEeecCccccccc-ccCCCcHHHHHHHHHHHHHHH
Confidence            34555555543    35799999999999999999977  999999999999983343 335789999999999999999


Q ss_pred             HhC---------------------------CCCEEEEecCCCCcc--chHHHHHHHHHHHcCCc
Q 030865          133 IAL---------------------------NITEISSYDRNGSRR--GERMQAFEIPISRHGFL  167 (170)
Q Consensus       133 ~e~---------------------------gI~~Vv~fDRgg~~Y--hGrVkAladaaRe~Gl~  167 (170)
                      +++                           ||.+|+ |||||++|  ||||+|+++||||+||-
T Consensus       110 l~k~~ld~~y~G~~e~~g~~~~ve~~~~~~gi~~vv-fDrGl~ryttggRVfa~akGArDgGL~  172 (297)
T 2zkr_n          110 LNRFGMDKIYEGQVEVTGDEYNVESIDGQPGAFTCY-LDAGLARTTTGNKVFGALKGAVDGGLS  172 (297)
T ss_dssp             HCCCSCCCCCSSCCSSSSCCCCCSSSCSSSCCCBEE-EECTTSCCCTTCHHHHHHHHHHHTTCB
T ss_pred             HHhhccchhhcCccccccccccccccccCCCceEEE-EecCCcccCCCchHHHHHHHHHhcCcc
Confidence            999                           999999 99999999  99999999999999985

>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=99.93  E-value=3.6e-26  Score=197.83  Aligned_cols=107  Identities=17%  Similarity=0.126  Sum_probs=93.6

Q ss_pred             HHHHHHHhcCC----CCCCeEEEEecCCeEEEEEEeC--CCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHH
Q 030865           59 NRRIQKKFNGT----PTKPRLSVFCSDKQLYAMLVDD--QNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTC  132 (170)
Q Consensus        59 ~~RiRkki~gt----~~rPRL~V~kSNkhIyAQvIdd--~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra  132 (170)
                      +.|.|.-+.+.    +.+|||+||+||+|||||||||  ++|+|||||||+|++..++ ...++|++||+.||++||+||
T Consensus        31 ~~R~rlv~qdknKynspkpRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~~~g~-k~~~~N~~AAy~vG~LiAeRA  109 (301)
T 4a17_M           31 YARKRLIIQDKDKYNTPKYRLVARATNTRIIAQIVYATLKCDRVLCAADSYELKRFGV-STGLASYAAAYATGLLLARRL  109 (301)
T ss_dssp             HHHHHHHCCCTTSCSCCCEEEEEEECSSCEEEEEEEECSSCEEEEEEEETTHHHHTTC-CSCTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHccccccCCCCceEEEEEcCCeEEEEEeecCCCCCEEEEEEeeccchhccc-cCCCCcHHHHHHHHHHHHHHH
Confidence            34555555442    4689999999999999999998  6889999999999987775 246789999999999999999


Q ss_pred             HhC--------CCC-------------------EEEEecCCCCcc--chHHHHHHHHHHHcCCc
Q 030865          133 IAL--------NIT-------------------EISSYDRNGSRR--GERMQAFEIPISRHGFL  167 (170)
Q Consensus       133 ~e~--------gI~-------------------~Vv~fDRgg~~Y--hGrVkAladaaRe~Gl~  167 (170)
                      +++        |++                   +++ ||+|+.+|  ||||+|+++||+++||-
T Consensus       110 l~k~~~d~~y~G~~e~~g~~~~ve~~~~~~~~f~~~-LD~Gl~rtt~G~RVfaalKGA~DgGL~  172 (301)
T 4a17_M          110 LKQIGLDTVYAGQTKVDGAYFNVDEDQKEKKPFKAI-LDAGLVRTTTGNRVFGVLKGACDGGIN  172 (301)
T ss_dssp             HHHHTCTTTCCCCSSCCCSCCCGGGTCCSSCCCBCE-EECTTSCCCSSCHHHHHHHHHHHTTCB
T ss_pred             HHhcCCcccccCccccccceeecccccCCCCceEEE-EecCCcccCcccchhhhhhcccccCcc
Confidence            999        999                   588 99999999  99999999999999994

>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=99.93  E-value=7.4e-26  Score=195.68  Aligned_cols=96  Identities=18%  Similarity=0.155  Sum_probs=88.9

Q ss_pred             CCCCeEEEEecCCeEEEEEEeC--CCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhC--------CCCE
Q 030865           70 PTKPRLSVFCSDKQLYAMLVDD--QNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIAL--------NITE  139 (170)
Q Consensus        70 ~~rPRL~V~kSNkhIyAQvIdd--~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~--------gI~~  139 (170)
                      +.+|||+||+||+|||||||||  ++|+|||||||+|++..++ ...++|++||+.||++||+||+++        |+++
T Consensus        46 t~kpRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~k~g~-k~~~~N~~AAy~vG~LiAeRAl~k~~ld~~y~G~~e  124 (297)
T 3u5e_D           46 TPKYRLVVRFTNKDIICQIISSTITGDVVLAAAYSHELPRYGI-THGLTNWAAAYATGLLIARRTLQKLGLDETYKGVEE  124 (297)
T ss_dssp             CCCCEEEEEEETTEEEEEEEECCTTCCEEEEEEEGGGGGGGTC-CSCTTSHHHHHHHHHHHHHHHHHHTSTTSSCCCCSS
T ss_pred             CCCceEEEEEcCCeEEEEEeecCCCCCEEEEEEeecchhhccc-CCCCCcHHHHHHHHHHHHHHHHHhhCCcccccCccc
Confidence            4799999999999999999998  7899999999999987765 346789999999999999999999        9998


Q ss_pred             -------------------EEEecCCCCcc--chHHHHHHHHHHHcCCc
Q 030865          140 -------------------ISSYDRNGSRR--GERMQAFEIPISRHGFL  167 (170)
Q Consensus       140 -------------------Vv~fDRgg~~Y--hGrVkAladaaRe~Gl~  167 (170)
                                         ++ ||+|+.+|  ||||+|+++||+++||-
T Consensus       125 ~~g~~~~ve~~~~~~~~f~~~-LDvGl~rtttG~RVfaalKGA~DgGL~  172 (297)
T 3u5e_D          125 VEGEYELTEAVEDGPRPFKVF-LDIGLQRTTTGARVFGALKGASDGGLY  172 (297)
T ss_dssp             CCCCCCCCCCCSSSCCCCBCE-EECTTCCCCTTCSHHHHHHHHHHHTCB
T ss_pred             cccceeccccccCCCCceeEE-EecCCCccCccceehhhhhcccccCcc
Confidence                               88 99999999  99999999999999994

>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=97.16  E-value=0.0029  Score=48.66  Aligned_cols=90  Identities=14%  Similarity=0.127  Sum_probs=70.1

Q ss_pred             CCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCcc
Q 030865           71 TKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRR  150 (170)
Q Consensus        71 ~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~Y  150 (170)
                      ..+.+.|+.|-++..+.|-|. +|.+++.+|+-...+++.   ..++-.||..+++.++++|+|.||+.|..+=+|. - 
T Consensus        15 ~~gi~hI~as~NNTivtiTd~-~G~~~~~~SaG~~gfKg~---rk~tp~AA~~aa~~~~~~~~~~Gi~~v~V~vkG~-G-   88 (129)
T 2vqe_K           15 ASGRAYIHASYNNTIVTITDP-DGNPITWSSGGVIGYKGS---RKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGT-G-   88 (129)
T ss_dssp             SEEEEEEEECSSCEEEEEECT-TSCEEEECCTTTTTCCSG---GGGSHHHHHHHHHHHHHHHHTTTCCEEEEEEESC-C-
T ss_pred             cceEEEEEecCCCEEEEEEcC-CCCEEEEEeccceeEcCC---CcCCHHHHHHHHHHHHHHHHHhCCeEEEEEEECC-C-
Confidence            458999999999999999864 567778888877777763   3578899999999999999999999887566652 1 


Q ss_pred             chHHHHHHHHHHHcCCc
Q 030865          151 GERMQAFEIPISRHGFL  167 (170)
Q Consensus       151 hGrVkAladaaRe~Gl~  167 (170)
                      -|| +++..++...||.
T Consensus        89 ~Gr-e~airaL~~~Gl~  104 (129)
T 2vqe_K           89 AGR-EQAIRALQASGLQ  104 (129)
T ss_dssp             TTH-HHHHHHHHTSSSE
T ss_pred             CCH-HHHHHHHHHCCCE
Confidence            244 4566777777763

>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=97.00  E-value=0.0029  Score=49.38  Aligned_cols=89  Identities=19%  Similarity=0.146  Sum_probs=69.1

Q ss_pred             CCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCcc
Q 030865           71 TKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRR  150 (170)
Q Consensus        71 ~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~Y  150 (170)
                      ..+.+.|+.|-++..+.|-| .+|.+++.+|+-...+++.   ..++-.||..+++.++++|+|.||+.|..+=+|. - 
T Consensus        28 ~~gi~hI~as~NNTivtiTD-~~G~~i~~~SaG~~GfKg~---rksTp~AA~~aa~~~~~~a~e~Gi~~v~V~vkG~-G-  101 (140)
T 3bbn_K           28 PKGVIHVQASFNNTIVTVTD-VRGRVVSWASAGTCGFRGT---KRGTPFAAQTAAGNAIRTVVEQGMQRAEVMIKGP-G-  101 (140)
T ss_dssp             CCCEEEEEECSSCEEEEEEC-SSSCEEEEEETTTSSCCTT---SCSSHHHHHHHHTSGGGTSTTTCCCEEEEEEESC-S-
T ss_pred             eeeEEEEEecCCCEEEEEEc-CCCCEEEEEeccceeEccc---ccCCHHHHHHHHHHHHHHHHHhCCeEEEEEEECC-C-
Confidence            56899999999999999986 4567788888877777763   3588899999999999999999999887566662 1 


Q ss_pred             chHHHHHHHHHHHcCC
Q 030865          151 GERMQAFEIPISRHGF  166 (170)
Q Consensus       151 hGrVkAladaaRe~Gl  166 (170)
                      -|| +++..++...||
T Consensus       102 ~GR-eaairaL~~~Gl  116 (140)
T 3bbn_K          102 LGR-DAALRAIRRSGI  116 (140)
T ss_dssp             TTS-SHHHHHHHTTTC
T ss_pred             CcH-HHHHHHHHHCCC
Confidence            133 255566666676

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

Probab=96.99  E-value=0.0051  Score=47.85  Aligned_cols=93  Identities=14%  Similarity=0.007  Sum_probs=69.9

Q ss_pred             CCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCC--CC
Q 030865           71 TKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRN--GS  148 (170)
Q Consensus        71 ~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRg--g~  148 (170)
                      ....+.|+-|-++..+.|-|..+..+|+.+|.-..-+++.   ..++--||...++.++++|++.||+.|..+=+|  |+
T Consensus        13 ~~gi~hI~asfNNTivtiTD~~G~~~i~~~S~G~~gfkg~---~ksTp~AA~~aa~~~~~~a~e~Gi~~v~V~vkG~gg~   89 (137)
T 3j20_M           13 KWGIAHIYSSFNNTIIHITDITGAETISRWSGGMVVKADR---DEPSPYAAMLAARRAAEEALEKGIVGVHIRVRAPGGS   89 (137)
T ss_dssp             EEEEEEEEECSSCEEEEEEESSSCSEEEEEEGGGTCSCTT---TSSSHHHHHHHHHHHHHHHHHHTEEEEEEEEECCCSS
T ss_pred             cceEEEEEcCCCCEEEEEEcCCCCEEEEEEccceeeecCC---ccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEECCCCC
Confidence            3568999999999999999887768998888877666653   347788999999999999999999988766666  22


Q ss_pred             c---c-chHHHHHHHHHHHcCCc
Q 030865          149 R---R-GERMQAFEIPISRHGFL  167 (170)
Q Consensus       149 ~---Y-hGrVkAladaaRe~Gl~  167 (170)
                      +   + -|| +++..+|...||.
T Consensus        90 ~~~~pG~Gr-esairaL~~~Gl~  111 (137)
T 3j20_M           90 KSKTPGPGA-QAAIRALARAGLK  111 (137)
T ss_dssp             SCCSCCTHH-HHHHHHHHHHTCE
T ss_pred             CCcCCCCcH-HHHHHHHHhCCCE
Confidence            2   2 244 3334455556763

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

Probab=96.42  E-value=0.015  Score=45.82  Aligned_cols=92  Identities=14%  Similarity=0.142  Sum_probs=66.4

Q ss_pred             CCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCC--CCc
Q 030865           72 KPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRN--GSR  149 (170)
Q Consensus        72 rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRg--g~~  149 (170)
                      .+.+.|+-|-++..+.|-|..+..++..+|.- ..+++.  ...++--||...++.++++|++.||+.|..+=||  |++
T Consensus        28 ~gi~hI~asfNNTiVtiTD~~G~~~~~~ssgg-~~~k~~--r~ksTpyAAq~aa~~~a~~a~e~Gi~~v~V~vkG~gg~~  104 (151)
T 2xzm_K           28 FGVCHIMATWNDTFIHVTDLSGRETLVRVTGG-MKVKAD--REESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGVE  104 (151)
T ss_dssp             EEEEEEEBCSSCBCCEEECTTCCSEEEECCHH-HHCSSG--GGGSCHHHHHHHHHHHHHHHHHHTCCEEEEEEECCCTTS
T ss_pred             eeEEEEEccCCCEEEEEECCCCCEEEEEecCc-ceEeCC--CCcCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCCCC
Confidence            56899999999999999987777676664443 333331  1246778999999999999999999988756664  222


Q ss_pred             ---c-chHHHHHHHHHHHcCCc
Q 030865          150 ---R-GERMQAFEIPISRHGFL  167 (170)
Q Consensus       150 ---Y-hGrVkAladaaRe~Gl~  167 (170)
                         + -|| +++..+|...||.
T Consensus       105 ~kgpG~Gr-esairaL~~~Glk  125 (151)
T 2xzm_K          105 TKQPGPGA-QSALRALARSGMK  125 (151)
T ss_dssp             CCSCCSHH-HHHHHHHHHTSCE
T ss_pred             ccCCCccH-HHHHHHHHHCCCE
Confidence               2 244 5666777777863

>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=94.41  E-value=0.079  Score=41.11  Aligned_cols=94  Identities=18%  Similarity=0.182  Sum_probs=64.6

Q ss_pred             CCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecC--CC
Q 030865           70 PTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDR--NG  147 (170)
Q Consensus        70 ~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDR--gg  147 (170)
                      -....+.|+-|-++.++.|-|..+..+ ...|+-...+++.  ...++--||...++.++++|+|+||+.|..+=|  ||
T Consensus        12 ~~~gi~hI~asfNNTivtvTD~~G~~~-~~~ssG~~gfKg~--r~ksTpyAAq~aa~~~a~~a~e~Gi~~v~V~vra~gg   88 (137)
T 3u5c_O           12 QVFGVARIYASFNDTFVHVTDLSGKET-IARVTGGMKVKAD--RDESSPYAAMLAAQDVAAKCKEVGITAVHVKIRATGG   88 (137)
T ss_dssp             CCEEECCEEEETTEEEECCEETTSSSC-CCCCBTTTTSCCS--TTTTCHHHHHHHHHHHHHHHHHHTCCEEECEEECSCT
T ss_pred             eeeEEEEEEccCCCEEEEEEcCCCCEE-EEEeCCCcEEeCC--cccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEeccCC
Confidence            345678899999999999998766655 4455555466652  124777899999999999999999998775554  33


Q ss_pred             Ccc----chHHHHHHHHHHHcCCc
Q 030865          148 SRR----GERMQAFEIPISRHGFL  167 (170)
Q Consensus       148 ~~Y----hGrVkAladaaRe~Gl~  167 (170)
                      ++.    -|| ++...+|...||.
T Consensus        89 ~~~kgpG~Gr-~sairaL~~~Gl~  111 (137)
T 3u5c_O           89 TRTKTPGPGG-QAALRALARSGLR  111 (137)
T ss_dssp             TSCCSCCGGG-HHHHHHHHTTTCE
T ss_pred             CcccCCCcch-HHHHHHHHhCCCE
Confidence            322    233 3444555556763

---

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	170
d1ovya_	97	c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacill	1e-18
d2j01s1	86	c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {	1e-15
d2gycm1	113	c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {E	7e-15
d2zjrl1	104	c.55.4.1 (L:8-111) Ribosomal protein L18 (L18p) {D	2e-14
d1vqon1	186	c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {A	3e-09

>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 = 74.1 bits (182), Expect = 1e-18
 Identities = 31/99 (31%), Positives = 50/99 (50%), Gaps = 4/99 (4%)

Query: 68  GTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEE 127
           GT  +PRLSVF S+K +YA ++DD     +   STL +    +     + IEAA+++GE 
Sbjct: 1   GTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLD---STNNIEAAKKVGEL 57

Query: 128 LIKTCIALNITEISSYDRNGSRRGERMQAFEIPISRHGF 166
           + K  +   I ++  +DR G     R++A        G 
Sbjct: 58  VAKRALEKGIKQV-VFDRGGYLYHGRVKALADAAREAGL 95

>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 = 66.3 bits (162), Expect = 1e-15
 Identities = 27/86 (31%), Positives = 46/86 (53%), Gaps = 7/86 (8%)

Query: 72  KPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKT 131
           + RLSVF S K +YA ++DD+    L   S+L   ++GN        E A ++G  L + 
Sbjct: 1   RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLKGN------KTEVARQVGRALAEK 54

Query: 132 CIALNITEISSYDRNGSRRGERMQAF 157
            +AL I ++ ++DR   +   R++A 
Sbjct: 55  ALALGIKQV-AFDRGPYKYHGRVKAL 79

>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 = 65.0 bits (158), Expect = 7e-15
 Identities = 23/107 (21%), Positives = 49/107 (45%), Gaps = 3/107 (2%)

Query: 51  RTESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGN 110
           +  +   R  R ++K        RL V  + + +YA ++     + L   ST++++I   
Sbjct: 1   KKSARIRRATRARRKLQELG-ATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQ 59

Query: 111 GNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
                   +AA  +G+ + +  +   I ++ S+DR+G +   R+QA 
Sbjct: 60  LKYTG-NKDAAAAVGKAVAERALEKGIKDV-SFDRSGFQYHGRVQAL 104

>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 = 63.8 bits (155), Expect = 2e-14
 Identities = 23/102 (22%), Positives = 42/102 (41%), Gaps = 8/102 (7%)

Query: 56  KIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPC 115
           K+R RR  +       + RLSV+ S K +YA ++DD   + L        +         
Sbjct: 3   KLRTRRKVRTTTAASGRLRLSVYRSSKHIYAQIIDDSRGQTLA-------AASSAALKSG 55

Query: 116 STIEAAERIGEELIKTCIALNITEISSYDRNGSRRGERMQAF 157
           +  + A  +G+ L        I ++  +DR   +   R++A 
Sbjct: 56  NKTDTAAAVGKALAAAAAEKGIKQV-VFDRGSYKYHGRVKAL 96

>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 = 51.5 bits (123), Expect = 3e-09
 Identities = 18/102 (17%), Positives = 31/102 (30%), Gaps = 5/102 (4%)

Query: 59  NRRIQKKFNGTPTKPRLSVFCSDKQLYAMLV--DDQNKKCLFFGSTLQQSIRGNGNPPCS 116
           +   + +   +  KPRL    S+K + A LV         L    +   +  G    P  
Sbjct: 19  DYHQRLRLLKSG-KPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLAEYG-WEAPTG 76

Query: 117 TIEAAERIGEELIKTCIALNITEISSY-DRNGSRRGERMQAF 157
            + +A   G           + E       N    G ++ A 
Sbjct: 77  NMPSAYLTGLLAGLRAQEAGVEEAVLDIGLNSPTPGSKVFAI 118

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	170
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	100.0
d2uubk1	119	Ribosomal protein S11 {Thermus thermophilus [TaxId	97.3
d2qalk1	117	Ribosomal protein S11 {Escherichia coli [TaxId: 56	96.89

>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=2.4e-46  Score=283.58  Aligned_cols=112  Identities=21%  Similarity=0.347  Sum_probs=106.7

Q ss_pred             HHHHHHHHHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHH
Q 030865           52 TESAKIRNRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKT  131 (170)
Q Consensus        52 ~~~r~~R~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkr  131 (170)
                      ++.|.+|+.|+|++|.|+. +|||+||+||+|||||||||.+++||+++||+|++++.++ +.++|+++|+.||++||++
T Consensus         2 ~~~r~rR~~R~R~ki~~~~-~pRL~V~rSnkhiyaQiIdd~~~~tl~saST~~k~~~~~~-~~~~n~~aA~~vG~~la~r   79 (113)
T d2gycm1           2 KSARIRRATRARRKLQELG-ATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQL-KYTGNKDAAAAVGKAVAER   79 (113)
T ss_dssp             CCCHHHHTTCSCSTTTTTT-CCCCBEEECSSCEEEEEEETTTTEEEEEEETTGGGGTSCC-SCSSSHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccCC-CCeEEEEEeCCcEEEEEEEccCCcEEEEeeehhhhhhhhc-CCCcchHHHHHHHHHHHHH
Confidence            4568899999999999985 6999999999999999999999999999999999999875 4789999999999999999


Q ss_pred             HHhCCCCEEEEecCCCCccchHHHHHHHHHHHcCC
Q 030865          132 CIALNITEISSYDRNGSRRGERMQAFEIPISRHGF  166 (170)
Q Consensus       132 a~e~gI~~Vv~fDRgg~~YhGrVkAladaaRe~Gl  166 (170)
                      |+++||++|+ ||||||+|||||+||||+|||+||
T Consensus        80 a~~~gI~~vv-fDR~g~~YhGrVka~ad~aRe~Gl  113 (113)
T d2gycm1          80 ALEKGIKDVS-FDRSGFQYHGRVQALADAAREAGL  113 (113)
T ss_dssp             HHHHTCCCCC-CBCCSCCSSSHHHHHHHHHHHHTC
T ss_pred             HHHCCCCEEE-ECCCCCccchHHHHHHHHHHHcCC
Confidence            9999999999 999999999999999999999997

>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=2.8e-41  Score=249.32  Aligned_cols=96  Identities=32%  Similarity=0.530  Sum_probs=91.5

Q ss_pred             CCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCC
Q 030865           68 GTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNG  147 (170)
Q Consensus        68 gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg  147 (170)
                      ||++||||+||+||+|||||||||.+++||+++||++++++..   ..+|+++|++||++||++|+++||++|+ |||||
T Consensus         1 gt~~rpRL~V~kSnkhiyaQlIdd~~~~tl~s~St~~k~~~~~---~~~n~~aA~~vG~~~a~kak~~gi~~vv-fDr~g   76 (97)
T d1ovya_           1 GTTERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLD---STNNIEAAKKVGELVAKRALEKGIKQVV-FDRGG   76 (97)
T ss_dssp             CCSSCCSEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTCSS---CTTSHHHHHHHHHHHHHHHHHHSSSCCC-CCSTT
T ss_pred             CCCCCCEEEEEEeCCeEEEEEEEcCCCeEEEEecchhhhhccc---ccCcHHHHHHHHHHHHHHHHHcCCCEEE-EcCCC
Confidence            7999999999999999999999999999999999999998652   3579999999999999999999999999 99999


Q ss_pred             CccchHHHHHHHHHHHcCCc
Q 030865          148 SRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       148 ~~YhGrVkAladaaRe~Gl~  167 (170)
                      |+|||||+||||+|||+||-
T Consensus        77 ~~yhGrvka~a~~~R~~Gl~   96 (97)
T d1ovya_          77 YLYHGRVKALADAAREAGLE   96 (97)
T ss_dssp             CSSCSSTHHHHHHHHHHHCC
T ss_pred             CcchHHHHHHHHHHHHhCCC
Confidence            99999999999999999984

>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=5.7e-41  Score=250.61  Aligned_cols=98  Identities=22%  Similarity=0.379  Sum_probs=87.5

Q ss_pred             HHHHHHHhcCCCCCCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCC
Q 030865           59 NRRIQKKFNGTPTKPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNIT  138 (170)
Q Consensus        59 ~~RiRkki~gt~~rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~  138 (170)
                      ++++|+++ +++++|||+||+||+|||||||||++++||+++||.+++.       .+|+++|..||++||++++++||+
T Consensus         7 r~k~r~~~-~~~~rpRL~V~rSnkhiyaQiIDd~~~~tl~s~St~~~~~-------~~~~~~a~~vG~~ia~~a~~kgi~   78 (104)
T d2zjrl1           7 RRKVRTTT-AASGRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALKS-------GNKTDTAAAVGKALAAAAAEKGIK   78 (104)
T ss_dssp             HHHHHSCS-TTTCSEEECCCTTSSCCCCCEEETTTTEECCCCCSCSCCT-------TCSSSSHHHHHHHHHHHHHTTCCC
T ss_pred             HHHHhccc-ccCCCcEEEEEEccCeeEEEEEecCCCeEEEeeccccccc-------cchhhHHHHHHHHHHHHHHHCCCC
Confidence            33444333 4568999999999999999999999999999999987642       368899999999999999999999


Q ss_pred             EEEEecCCCCccchHHHHHHHHHHHcC
Q 030865          139 EISSYDRNGSRRGERMQAFEIPISRHG  165 (170)
Q Consensus       139 ~Vv~fDRgg~~YhGrVkAladaaRe~G  165 (170)
                      +|+ ||||||+|||||+||||+|||+|
T Consensus        79 ~v~-FDR~g~~YHGrvka~ad~~R~~G  104 (104)
T d2zjrl1          79 QVV-FDRGSYKYHGRVKALADAAREGG  104 (104)
T ss_dssp             CCE-ECCCSSCSCSHHHHHHHHHHHHC
T ss_pred             EEE-ECCCCCcchhHHHHHHHHHHhCC
Confidence            999 99999999999999999999998

>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=9.8e-40  Score=236.93  Aligned_cols=86  Identities=30%  Similarity=0.495  Sum_probs=82.8

Q ss_pred             CCeEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCccc
Q 030865           72 KPRLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRG  151 (170)
Q Consensus        72 rPRL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~Yh  151 (170)
                      ||||+||+||+|||||||||.+++||+++||+++++++      +|+++|+.||++||++|+++||++|+ ||||||+||
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 RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLKG------NKTEVARQVGRALAEKALALGIKQVA-FDRGPYKYH   73 (86)
T ss_dssp             SCEEECCBCSSCBCEEEEETTTTEEEEEECSTTTCCCS------CHHHHHHHHHHHHHHHHHHTSCCCCB-CCCSTTCSS
T ss_pred             CcEEEEEEcCCeEEEEEEEcCCCeEEEEEeccchhhcC------CCHHHHHHHHHHHHHHHHHCCCCEEE-EeCCCCccc
Confidence            79999999999999999999999999999999998764      68999999999999999999999999 999999999


Q ss_pred             hHHHHHHHHHHHc
Q 030865          152 ERMQAFEIPISRH  164 (170)
Q Consensus       152 GrVkAladaaRe~  164 (170)
                      |||+||||+|||+
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=100.00  E-value=3e-33  Score=226.89  Aligned_cols=104  Identities=19%  Similarity=0.166  Sum_probs=93.8

Q ss_pred             HHHHHHHhcCCCCCCeEEEEecCCeEEEEEE--eCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCC
Q 030865           59 NRRIQKKFNGTPTKPRLSVFCSDKQLYAMLV--DDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALN  136 (170)
Q Consensus        59 ~~RiRkki~gt~~rPRL~V~kSNkhIyAQvI--dd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~g  136 (170)
                      +.|+|..  .+ .+|||+||+||+|||||||  ||.+++||+||||.++..+++. .+++|++||+.||+++|++|+++|
T Consensus        21 ~~R~rl~--~s-~kpRLvVrrSNk~IyaQII~~d~~gd~vlaSAsS~el~k~g~k-~~~~N~~AAy~~G~liA~ra~~~g   96 (186)
T d1vqon1          21 HQRLRLL--KS-GKPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLAEYGWE-APTGNMPSAYLTGLLAGLRAQEAG   96 (186)
T ss_dssp             HHHHHHH--TT-CSCEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGGGGSCC-SCSSSHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHh--cC-CCCeEEEEEeCCceEEEEEEecCCCCEEEEEEecchhhhhccc-cCccHHHHHHHhHHHHHHHHHhhc
Confidence            4444444  33 5899999999999999999  6889999999999999988873 578999999999999999999999


Q ss_pred             CCEEEEecCC--CCccchHHHHHHHHHHHcCCc
Q 030865          137 ITEISSYDRN--GSRRGERMQAFEIPISRHGFL  167 (170)
Q Consensus       137 I~~Vv~fDRg--g~~YhGrVkAladaaRe~Gl~  167 (170)
                      |++|+ ||+|  ++.|||||+|+||+|||+||-
T Consensus        97 i~~vv-fD~G~~~~~yhgRV~A~akgard~GL~  128 (186)
T d1vqon1          97 VEEAV-LDIGLNSPTPGSKVFAIQEGAIDAGLD  128 (186)
T ss_dssp             CCBCE-EECTTSCCCTTCHHHHHHHHHHHTTCB
T ss_pred             ccceE-EeeCCCCCCccchHHHHHHHHHhcCcc
Confidence            99999 9977  999999999999999999985

>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=97.30  E-value=0.0012  Score=48.05  Aligned_cols=86  Identities=15%  Similarity=0.137  Sum_probs=66.4

Q ss_pred             eEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCccchH
Q 030865           74 RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGER  153 (170)
Q Consensus        74 RL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~YhGr  153 (170)
                      .+.|+.|.++..+.|.|.. |++|..+|+-...+++.   ..++-.||+.+++.+++++++.||..|..+=+|-  --||
T Consensus         8 ivhI~~t~NNT~itlTD~~-Gn~i~~~S~G~~gfkg~---rk~t~~Aa~~~a~~~~~k~~~~g~~~v~v~~kG~--G~gR   81 (119)
T d2uubk1           8 RAYIHASYNNTIVTITDPD-GNPITWSSGGVIGYKGS---RKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGT--GAGR   81 (119)
T ss_dssp             EEEEEECSSCEEEEEECTT-SCEEEEEETTTSSCCSG---GGGSHHHHHHHHHHHHHHHHTTTCCEEEEEEECC--CTTH
T ss_pred             EEEEEeccCCEEEEEECCC-CCEEEEEecccceeccc---cccchhHHHHHHHHHHHHHHHcCCcEEEEEEEcC--CCCh
Confidence            7899999999999998655 57888888877666653   3477889999999999999999999887566662  2355


Q ss_pred             HHHHHHHHHHcCC
Q 030865          154 MQAFEIPISRHGF  166 (170)
Q Consensus       154 VkAladaaRe~Gl  166 (170)
                       +++..++...||
T Consensus        82 -~~~ik~l~~~g~   93 (119)
T d2uubk1          82 -EQAIRALQASGL   93 (119)
T ss_dssp             -HHHHHHHHTSSS
T ss_pred             -HHHHHHHHHCCC
Confidence             455555666776

>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=96.89  E-value=0.0018  Score=47.05  Aligned_cols=86  Identities=16%  Similarity=0.150  Sum_probs=65.5

Q ss_pred             eEEEEecCCeEEEEEEeCCCCeEEEEEechhhhhccCCCCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCCCCccchH
Q 030865           74 RLSVFCSDKQLYAMLVDDQNKKCLFFGSTLQQSIRGNGNPPCSTIEAAERIGEELIKTCIALNITEISSYDRNGSRRGER  153 (170)
Q Consensus        74 RL~V~kSNkhIyAQvIdd~~gktLasaST~ek~ik~~l~~s~~n~~AA~~VG~~lAkra~e~gI~~Vv~fDRgg~~YhGr  153 (170)
                      .+.|+.|.++....|-| .+|+++...|+-...+++.   ..++-.||..+++.++++|++.||+.|..+=+|- - -||
T Consensus         8 i~hI~~t~NNTiitlTD-~~G~~~~~~S~G~~gfkg~---~K~t~~Aa~~~a~~~~~~~~~~gi~~v~V~~kG~-G-~GR   81 (117)
T d2qalk1           8 VAHIHASFNNTIVTITD-RQGNALGWATAGGSGFRGS---RKSTPFAAQVAAERCADAVKEYGIKNLEVMVKGP-G-PGR   81 (117)
T ss_dssp             EEEEECCSSCCEEEEEE-TTSCEEEEEETTTSSCCHH---HHTSHHHHHHHHHHHHHHHGGGTCCEEEEEEECC-S-TTT
T ss_pred             EEEEEecCCCEEEEEEC-CCCCEEEEEeccccccccc---cccchHHHHHHHHHHHHHHHHcCCcEEEEEEeCC-C-Cch
Confidence            68899999999999986 5667778778766666652   2367789999999999999999999887666661 1 133


Q ss_pred             HHHHHHHHHHcCC
Q 030865          154 MQAFEIPISRHGF  166 (170)
Q Consensus       154 VkAladaaRe~Gl  166 (170)
                       +++..++...||
T Consensus        82 -~~air~l~~~gl   93 (117)
T d2qalk1          82 -ESTIRALNAAGF   93 (117)
T ss_dssp             -THHHHHHHHTTC
T ss_pred             -HHHHHHHHhCCC
Confidence             355666777776