Psyllid ID: psy13610

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120---
Protein Sequence
MARKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALEIGVSSVRINVRGLGPGRL
Secondary Structure (PSIPRED)
cccccccccccccccEEccEEEEcccEEEEEcccccEEEEEEcccccEEEEEccccccccccccccHHHHHHHHHHHHHHHHHcccEEEEEEEEcccccHHHHHHHHHccccEEEEEcccccc
Secondary Structure Prediction (SSPRO)
cccHccccccccccccccccccccccEEEEEEccccEEEEEEcccccEEEEEccccccccccccccHHHHHHHHHHHHHHHHHccccEEEEEEEcccccHHHHHHHHHHEEEEEEEccccccc
Coil and Loop (DISEMBL)
markdifpdentpdlifdglkfknlpimnirvtknntilslSDAKGVVKLLRSCgmegfknarkGTNIAAQAAGITIGKKALEIGVSSVRinvrglgpgrlKALEIGVSSVRinvrglgpgrl
Flexible Loop (DISEMBL)
markdifpdentpdlifdglkfknlpIMNIRvtknntilslsdAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVrinvrglgpgrlkaleigvssvrinvrglgpgrl
Low Complexity Region (SEG)
MARKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALEIGVSSVRINVRGLGPGRL
Disordered region (IsUnstruct)
*************DLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALEIGVSSVRINVR*******
Disordered Region (DISOPRED)
*********************FKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGME*FKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALEIGVSSVRINVRGLGPG**
Disordered Region (DISEMBL)
MARKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALEIGVSSVRINVRGLGPGRL
Disordered Region (DISPRO)
*****IFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALEIGVSSVRINVRGLG****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MARKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALEIGVSSVRINVRGLGPGRL
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	123	2.2.26 [Sep-21-2011]
P82912	194	28S ribosomal protein S11	yes	N/A	0.788	0.5	0.448	2e-12
Q9DCA2	191	28S ribosomal protein S11	yes	N/A	0.747	0.481	0.456	5e-12
P82911	197	28S ribosomal protein S11	yes	N/A	0.747	0.467	0.478	1e-11
A8F4T7	128	30S ribosomal protein S11	yes	N/A	0.634	0.609	0.461	1e-11
Q9A8T0	129	30S ribosomal protein S11	yes	N/A	0.634	0.604	0.435	1e-10
B8H4F7	129	30S ribosomal protein S11	yes	N/A	0.634	0.604	0.435	1e-10
Q2W2L2	131	30S ribosomal protein S11	yes	N/A	0.634	0.595	0.410	1e-10
Q6F1W8	130	30S ribosomal protein S11	yes	N/A	0.666	0.630	0.452	2e-10
A5V5X6	129	30S ribosomal protein S11	yes	N/A	0.634	0.604	0.423	2e-10
Q5NQ41	129	30S ribosomal protein S11	yes	N/A	0.634	0.604	0.423	2e-10

>sp|P82912|RT11_HUMAN 28S ribosomal protein S11, mitochondrial OS=Homo sapiens GN=MRPS11 PE=1 SV=2

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 44/98 (44%), Positives = 61/98 (62%), Gaps = 1/98 (1%)

Query: 8   PDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTN 67
           P E +  L + G KF+ +PI +I+ + NNT + +  A        SCG EGF+NA+KGT 
Sbjct: 67  PGEES-SLRWAGKKFEEIPIAHIKASHNNTQIQVVSASNEPLAFASCGTEGFRNAKKGTG 125

Query: 68  IAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           IAAQ AGI    +A + GV  +R+ V+GLGPGRL A+ 
Sbjct: 126 IAAQTAGIAAAARAKQKGVIHIRVVVKGLGPGRLSAMH 163

Homo sapiens (taxid: 9606)

>sp|Q9DCA2|RT11_MOUSE 28S ribosomal protein S11, mitochondrial OS=Mus musculus GN=Mrps11 PE=2 SV=2

 Score = 69.7 bits (169), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 42/92 (45%), Positives = 60/92 (65%)

Query: 14  DLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAA 73
            L + G+KF+++PI +I+ T NNT + +  A        SCG EGF+NA+KGT IAAQ A
Sbjct: 69  SLQWAGMKFEDVPIAHIKATYNNTQIQVVSATNASLARASCGTEGFRNAKKGTGIAAQTA 128

Query: 74  GITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           GI    KA   GV+ +R+ V+G+GPGR  A++
Sbjct: 129 GIAAAAKATGKGVTHIRVVVKGMGPGRWSAIK 160

Mus musculus (taxid: 10090)

>sp|P82911|RT11_BOVIN 28S ribosomal protein S11, mitochondrial OS=Bos taurus GN=MRPS11 PE=1 SV=2

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/92 (47%), Positives = 59/92 (64%)

Query: 14  DLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAA 73
            L + G KF+ +PI +I+ + NNT + +  A        SCG EGF+NA+KGT IAAQ A
Sbjct: 75  SLRWAGKKFEEIPIAHIKASYNNTQIHVVSAAHQPLARASCGTEGFRNAKKGTGIAAQTA 134

Query: 74  GITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           GI    KA   GV+ VR+ V+GLGPGRL A++
Sbjct: 135 GIAAAAKATGKGVTHVRVVVKGLGPGRLSAIK 166

Bos taurus (taxid: 9913)

>sp|A8F4T7|RS11_THELT 30S ribosomal protein S11 OS=Thermotoga lettingae (strain ATCC BAA-301 / DSM 14385 / TMO) GN=rpsK PE=3 SV=1

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 36/78 (46%), Positives = 50/78 (64%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           +++I+ T NNT+++LSDA G   L  S G  GF+  RKGT  AAQ A   I K+AL +G+
Sbjct: 19  VVHIKSTFNNTVITLSDADGATILWSSGGTAGFEGTRKGTPYAAQLAADKIAKEALRLGI 78

Query: 87  SSVRINVRGLGPGRLKAL 104
             V + V+G GPGR  A+
Sbjct: 79  KRVDVLVKGPGPGREAAI 96

Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome.

Thermotoga lettingae (strain ATCC BAA-301 / DSM 14385 / TMO) (taxid: 416591)

>sp|Q9A8T0|RS11_CAUCR 30S ribosomal protein S11 OS=Caulobacter crescentus (strain ATCC 19089 / CB15) GN=rpsK PE=3 SV=1

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + ++  + NNT+++++DA+G      S GM GFK +RK T  AAQ A    GKKA E GV
Sbjct: 20  VAHVNASFNNTMITITDAQGNTISWSSAGMMGFKGSRKSTPYAAQMAAEDAGKKAAEHGV 79

Query: 87  SSVRINVRGLGPGRLKAL 104
            ++ +NV G G GR  AL
Sbjct: 80  KTLEVNVSGPGSGRESAL 97

Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome.

Caulobacter crescentus (strain ATCC 19089 / CB15) (taxid: 190650)

>sp|B8H4F7|RS11_CAUCN 30S ribosomal protein S11 OS=Caulobacter crescentus (strain NA1000 / CB15N) GN=rpsK PE=3 SV=1

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 34/78 (43%), Positives = 48/78 (61%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + ++  + NNT+++++DA+G      S GM GFK +RK T  AAQ A    GKKA E GV
Sbjct: 20  VAHVNASFNNTMITITDAQGNTISWSSAGMMGFKGSRKSTPYAAQMAAEDAGKKAAEHGV 79

Query: 87  SSVRINVRGLGPGRLKAL 104
            ++ +NV G G GR  AL
Sbjct: 80  KTLEVNVSGPGSGRESAL 97

Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome.

Caulobacter crescentus (strain NA1000 / CB15N) (taxid: 565050)

>sp|Q2W2L2|RS11_MAGSA 30S ribosomal protein S11 OS=Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) GN=rpsK PE=3 SV=1

 Score = 64.7 bits (156), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 49/78 (62%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + ++  T NNT+++++DA+G      S GM+GFK +RK T  AAQ A    G+KA E G+
Sbjct: 22  VAHVNATFNNTMITITDAQGNTISWSSAGMQGFKGSRKSTPYAAQVAAEDAGRKASEHGM 81

Query: 87  SSVRINVRGLGPGRLKAL 104
            ++ + V+G G GR  AL
Sbjct: 82  RTLEVEVKGPGAGRESAL 99

Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome.

Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) (taxid: 342108)

>sp|Q6F1W8|RS11_MESFL 30S ribosomal protein S11 OS=Mesoplasma florum (strain ATCC 33453 / NBRC 100688 / NCTC 11704 / L1) GN=rpsK PE=3 SV=1

 Score = 64.7 bits (156), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 38/84 (45%), Positives = 51/84 (60%), Gaps = 2/84 (2%)

Query: 23  KNLP--IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKK 80
           KN+P  I +I  T NNTI+++SD KG V    S G  GFK ++K T  AAQ       K 
Sbjct: 15  KNIPKGIAHIHSTFNNTIVTISDEKGNVLSWSSAGAIGFKGSKKSTPYAAQMISEAAAKG 74

Query: 81  ALEIGVSSVRINVRGLGPGRLKAL 104
           A++ GV SV++ V+G GPGR  A+
Sbjct: 75  AMDQGVKSVQVEVKGPGPGRDAAV 98

Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome.

Mesoplasma florum (strain ATCC 33453 / NBRC 100688 / NCTC 11704 / L1) (taxid: 265311)

>sp|A5V5X6|RS11_SPHWW 30S ribosomal protein S11 OS=Sphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273) GN=rpsK PE=3 SV=1

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 48/78 (61%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + ++  + NNT+++++DA+G      S GM GFK +RK T  AAQ A    GKKA E GV
Sbjct: 20  VAHVNASFNNTMITITDAQGNAIAWSSAGMMGFKGSRKSTPYAAQVAAEDAGKKAAEHGV 79

Query: 87  SSVRINVRGLGPGRLKAL 104
            ++ + V+G G GR  AL
Sbjct: 80  RTLEVEVKGPGSGRESAL 97

Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome.

Sphingomonas wittichii (strain RW1 / DSM 6014 / JCM 10273) (taxid: 392499)

>sp|Q5NQ41|RS11_ZYMMO 30S ribosomal protein S11 OS=Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4) GN=rpsK PE=3 SV=1

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 48/78 (61%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + ++  + NNT+++++DA+G      S GM GFK +RK T  AAQ A    GKKA E GV
Sbjct: 20  VAHVNASFNNTMITITDAQGNAISWSSAGMMGFKGSRKSTPYAAQVAAEDAGKKAAEHGV 79

Query: 87  SSVRINVRGLGPGRLKAL 104
            ++ + V+G G GR  AL
Sbjct: 80  RTLEVEVKGPGSGRESAL 97

Located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA. Forms part of the Shine-Dalgarno cleft in the 70S ribosome.

Zymomonas mobilis (strain ATCC 31821 / ZM4 / CP4) (taxid: 264203)

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	123
91087153	204	PREDICTED: similar to AGAP003644-PA [Tri	0.837	0.504	0.669	4e-35
156554906	212	PREDICTED: 28S ribosomal protein S11, mi	0.837	0.485	0.592	7e-31
17738009	200	mitochondrial ribosomal protein S11 [Dro	0.837	0.515	0.582	5e-30
157109892	195	mitochondrial ribosomal protein, S11, pu	0.837	0.528	0.582	7e-30
194900516	200	GG21973 [Drosophila erecta] gi|190651506	0.813	0.5	0.6	9e-30
195107271	160	GI23856 [Drosophila mojavensis] gi|19391	0.837	0.643	0.592	1e-29
194742483	199	GF17084 [Drosophila ananassae] gi|190626	0.837	0.517	0.572	1e-29
195349201	200	GM15204 [Drosophila sechellia] gi|194122	0.813	0.5	0.6	1e-29
195570225	200	mRpS11 [Drosophila simulans] gi|19419903	0.813	0.5	0.6	1e-29
195500111	200	GE24607 [Drosophila yakuba] gi|194183336	0.837	0.515	0.582	2e-29

>gi|91087153|ref|XP_975332.1| PREDICTED: similar to AGAP003644-PA [Tribolium castaneum]

 Score =  151 bits (382), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 69/103 (66%), Positives = 87/103 (84%)

Query: 3   RKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNA 62
           + DIFPD +TP+ +F+G+ FKNLPIMNIRV+ NNTI++++D KG VKLLRSCG+EGFKN 
Sbjct: 71  KTDIFPDADTPNRLFNGIPFKNLPIMNIRVSPNNTIITMTDDKGAVKLLRSCGIEGFKNT 130

Query: 63  RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           RKGTNIAAQA  ITIG K LE G+ +VR+ VRGLGPGR+ A++
Sbjct: 131 RKGTNIAAQATAITIGTKVLERGIKTVRVRVRGLGPGRMSAIK 173

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156554906|ref|XP_001602758.1| PREDICTED: 28S ribosomal protein S11, mitochondrial [Nasonia vitripennis]

 Score =  137 bits (346), Expect = 7e-31,   Method: Compositional matrix adjust.
 Identities = 61/103 (59%), Positives = 82/103 (79%)

Query: 3   RKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNA 62
           ++D+FPDENTP+ +FDG+ +K LPI NI+VT NNTI++L+D KG V +L+SCG EGF+ A
Sbjct: 79  QEDLFPDENTPNRLFDGIPYKELPIFNIKVTPNNTIITLTDFKGGVHILKSCGTEGFRTA 138

Query: 63  RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           RKGTNIAAQ   I+I  KA  IGV + R+ +RG+GPGRL A++
Sbjct: 139 RKGTNIAAQTTAISISTKAQSIGVRTARVRIRGIGPGRLAAIK 181

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17738009|ref|NP_524382.1| mitochondrial ribosomal protein S11 [Drosophila melanogaster] gi|7300221|gb|AAF55385.1| mitochondrial ribosomal protein S11 [Drosophila melanogaster] gi|20177051|gb|AAM12287.1| RE01527p [Drosophila melanogaster] gi|66803705|gb|AAY56633.1| mitochondrial ribosomal protein S11 [Drosophila melanogaster] gi|220947756|gb|ACL86421.1| mRpS11-PA [synthetic construct]

 Score =  134 bits (338), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 60/103 (58%), Positives = 82/103 (79%)

Query: 3   RKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNA 62
           +   FPD +T + +F+G+ F  LPI NIRV+ NNTI+S++D KGV++L+RSCG+EGFKN 
Sbjct: 67  KAKFFPDASTANTLFNGIPFNELPICNIRVSPNNTIISVTDHKGVLRLIRSCGIEGFKNT 126

Query: 63  RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           RKGTNIAAQA  +TI  KA+E+G  +VR+ VRGLGPGR+ A++
Sbjct: 127 RKGTNIAAQATAVTISGKAIELGWKTVRVKVRGLGPGRMSAIK 169

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157109892|ref|XP_001650870.1| mitochondrial ribosomal protein, S11, putative [Aedes aegypti] gi|108878907|gb|EAT43132.1| AAEL005413-PB [Aedes aegypti]

 Score =  134 bits (337), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 60/103 (58%), Positives = 79/103 (76%)

Query: 3   RKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNA 62
           ++ IFPD NTP  +F+G+ F  +PI NIRV+ NNTI+++ DAKG  + +RSCG+EGFKN 
Sbjct: 62  KERIFPDANTPTTLFNGIPFNEIPICNIRVSPNNTIITICDAKGTPQFIRSCGIEGFKNT 121

Query: 63  RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           RKGTNIAAQA  I+I  KA+E G   VR+ VRGLGPGR+ A++
Sbjct: 122 RKGTNIAAQATAISICSKAIERGYKQVRVTVRGLGPGRMSAIK 164

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194900516|ref|XP_001979803.1| GG21973 [Drosophila erecta] gi|190651506|gb|EDV48761.1| GG21973 [Drosophila erecta]

 Score =  134 bits (336), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 60/100 (60%), Positives = 79/100 (79%)

Query: 6   IFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKG 65
            FPD +T   +F+G  F  LPI NIRV+ NNTI+S++D KGV++L+RSCG+EGFKN RKG
Sbjct: 70  FFPDASTATTLFNGTPFNELPICNIRVSPNNTIISVTDHKGVLRLIRSCGIEGFKNTRKG 129

Query: 66  TNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           TNIAAQA  +TI  KA+E+G  +VR+ VRGLGPGR+ A++
Sbjct: 130 TNIAAQATAVTISAKAVELGWKTVRVKVRGLGPGRMSAIK 169

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195107271|ref|XP_001998237.1| GI23856 [Drosophila mojavensis] gi|193914831|gb|EDW13698.1| GI23856 [Drosophila mojavensis]

 Score =  133 bits (335), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 61/103 (59%), Positives = 80/103 (77%)

Query: 3   RKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNA 62
           R   FPD  T   +F+G+ F  LPI NIRV+ NNTI+S++D KGV +L+RSCG+EGFKN 
Sbjct: 27  RAKSFPDATTATKLFNGIPFNELPICNIRVSPNNTIISVTDYKGVPRLIRSCGIEGFKNT 86

Query: 63  RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           RKGTNIAAQA  +TIG KA+E+G  ++R+ VRGLGPGR+ A++
Sbjct: 87  RKGTNIAAQATAVTIGAKAVELGWKTIRVKVRGLGPGRMSAIK 129

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194742483|ref|XP_001953732.1| GF17084 [Drosophila ananassae] gi|190626769|gb|EDV42293.1| GF17084 [Drosophila ananassae]

 Score =  133 bits (335), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 59/103 (57%), Positives = 81/103 (78%)

Query: 3   RKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNA 62
           +   FPD +T   +F+G+ F  LPI NIRV+ NNTI+S++D KGV++L+RSCG+EGFKN 
Sbjct: 66  KAQFFPDASTATQLFNGIPFNELPICNIRVSSNNTIISVTDYKGVLRLIRSCGIEGFKNT 125

Query: 63  RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           RKGTNIAAQA  ++I  KA+E+G  +VR+ VRGLGPGR+ A++
Sbjct: 126 RKGTNIAAQATAVSISAKAVELGWKTVRVKVRGLGPGRMSAIK 168

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195349201|ref|XP_002041135.1| GM15204 [Drosophila sechellia] gi|194122740|gb|EDW44783.1| GM15204 [Drosophila sechellia]

 Score =  133 bits (334), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 60/100 (60%), Positives = 79/100 (79%)

Query: 6   IFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKG 65
            FPD +T   +F+G  F  LPI NIRV+ NNTI+S++D KGV++L+RSCG+EGFKN RKG
Sbjct: 70  FFPDASTATTLFNGTPFNELPICNIRVSPNNTIISVTDHKGVLRLIRSCGIEGFKNTRKG 129

Query: 66  TNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           TNIAAQA  +TI  KA+E+G  +VR+ VRGLGPGR+ A++
Sbjct: 130 TNIAAQATAVTISGKAIELGWKTVRVKVRGLGPGRMSAIK 169

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195570225|ref|XP_002103109.1| mRpS11 [Drosophila simulans] gi|194199036|gb|EDX12612.1| mRpS11 [Drosophila simulans]

 Score =  133 bits (334), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 60/100 (60%), Positives = 79/100 (79%)

Query: 6   IFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKG 65
            FPD +T   +F+G  F  LPI NIRV+ NNTI+S++D KGV++L+RSCG+EGFKN RKG
Sbjct: 70  FFPDASTATTLFNGTPFNELPICNIRVSPNNTIISVTDHKGVLRLIRSCGIEGFKNTRKG 129

Query: 66  TNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           TNIAAQA  +TI  KA+E+G  +VR+ VRGLGPGR+ A++
Sbjct: 130 TNIAAQATAVTISGKAIELGWKTVRVKVRGLGPGRMSAIK 169

Source: Drosophila simulans

Species: Drosophila simulans

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195500111|ref|XP_002097235.1| GE24607 [Drosophila yakuba] gi|194183336|gb|EDW96947.1| GE24607 [Drosophila yakuba]

 Score =  133 bits (334), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 60/103 (58%), Positives = 80/103 (77%)

Query: 3   RKDIFPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNA 62
           +   FPD +T   +F+G  F  LPI NIRV+ NNTI+S++D KGV++L+RSCG+EGFKN 
Sbjct: 67  KAKFFPDASTATTLFNGTPFNELPICNIRVSPNNTIISVTDHKGVLRLIRSCGIEGFKNT 126

Query: 63  RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
           RKGTNIAAQA  +TI  KA+E+G  +VR+ VRGLGPGR+ A++
Sbjct: 127 RKGTNIAAQATAVTISGKAIELGWKTVRVKVRGLGPGRMSAIK 169

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	123
FB|FBgn0038474	200	mRpS11 "mitochondrial ribosoma	0.878	0.54	0.568	2.3e-30
ZFIN|ZDB-GENE-040724-84	240	mrps11 "mitochondrial ribosoma	0.756	0.387	0.5	5.1e-19
WB|WBGene00012244	208	mrps-11 [Caenorhabditis elegan	0.861	0.509	0.411	1.1e-18
UNIPROTKB|E2R6F3	196	MRPS11 "Uncharacterized protei	0.788	0.494	0.459	1.6e-17
UNIPROTKB|P82912	194	MRPS11 "28S ribosomal protein	0.780	0.494	0.453	3.2e-17
MGI|MGI:1915244	191	Mrps11 "mitochondrial ribosoma	0.707	0.455	0.471	4.1e-17
RGD|1559901	191	Mrps11 "mitochondrial ribosoma	0.845	0.544	0.424	4.1e-17
UNIPROTKB|F1SRT1	196	MRPS11 "Uncharacterized protei	0.764	0.479	0.479	8.6e-17
UNIPROTKB|F1N498	197	MRPS11 "28S ribosomal protein	0.707	0.441	0.494	1.1e-16
UNIPROTKB|P82911	197	MRPS11 "28S ribosomal protein	0.707	0.441	0.494	1.1e-16

FB|FBgn0038474 mRpS11 "mitochondrial ribosomal protein S11" [Drosophila melanogaster (taxid:7227)]

 Score = 335 (123.0 bits), Expect = 2.3e-30, P = 2.3e-30
 Identities = 62/109 (56%), Positives = 86/109 (78%)

Query:     7 FPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGT 66
             FPD +T + +F+G+ F  LPI NIRV+ NNTI+S++D KGV++L+RSCG+EGFKN RKGT
Sbjct:    71 FPDASTANTLFNGIPFNELPICNIRVSPNNTIISVTDHKGVLRLIRSCGIEGFKNTRKGT 130

Query:    67 NIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALEIGVSSVRINV 115
             NIAAQA  +TI  KA+E+G  +VR+ VRGLGPGR+ A++ G+    +N+
Sbjct:   131 NIAAQATAVTISGKAIELGWKTVRVKVRGLGPGRMSAIK-GLQMGGLNI 178

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

GO:0005763 "mitochondrial small ribosomal subunit" evidence=ISS

GO:0006412 "translation" evidence=ISS

ZFIN|ZDB-GENE-040724-84 mrps11 "mitochondrial ribosomal protein S11" [Danio rerio (taxid:7955)]

 Score = 228 (85.3 bits), Expect = 5.1e-19, P = 5.1e-19
 Identities = 47/94 (50%), Positives = 63/94 (67%)

Query:     7 FPDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGT 66
             FP E++P L +D  KF+ LPI +++ T NNT + ++D  G   +  SCG EGFKN +K T
Sbjct:    99 FPGEDSP-LRWDSKKFEELPIAHVKATYNNTHIQVTDCAGQYMVRTSCGTEGFKNVKKST 157

Query:    67 NIAAQAAGITIGKKALEIGVSSVRINVRGLGPGR 100
              IAAQ AGI+   KA   GV+ VR+ V+GLGPGR
Sbjct:   158 PIAAQTAGISAAAKARAKGVTYVRVLVKGLGPGR 191

GO:0005840 "ribosome" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

WB|WBGene00012244 mrps-11 [Caenorhabditis elegans (taxid:6239)]

 Score = 225 (84.3 bits), Expect = 1.1e-18, P = 1.1e-18
 Identities = 44/107 (41%), Positives = 68/107 (63%)

Query:     8 PDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTN 67
             P   T    FDG+ +  LP++ IR +KNNT++++ D K  V    SC +EGFKNARK T 
Sbjct:    80 PTAETLKQQFDGVAYHELPLVYIRASKNNTLVTVMDNKNEVITSTSCRLEGFKNARKKTT 139

Query:    68 IAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE-IGVSSVRI 113
             IA Q  G+  G++ +  G+ +VR+ V+GLGPGR+  ++ + V+ V +
Sbjct:   140 IAGQTTGVAAGQRLVRRGIRTVRVQVKGLGPGRMTCVKGLTVAGVHV 186

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0040010 "positive regulation of growth rate" evidence=IMP

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

UNIPROTKB|E2R6F3 MRPS11 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 45/98 (45%), Positives = 63/98 (64%)

Query:     8 PDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTN 67
             P + +P L + G KF+ +PI +I+ + NNT + +  A        SCG EGF+NA+KGT 
Sbjct:    69 PGQESP-LRWAGKKFEEIPIAHIKASYNNTQIQVVSAANQPLARTSCGTEGFRNAKKGTG 127

Query:    68 IAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
             IAAQ AGI    KA   GV+ +R+ V+GLGPGRL A++
Sbjct:   128 IAAQTAGIAAAVKATGKGVTHIRVVVKGLGPGRLSAIK 165

GO:0005739 "mitochondrion" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|P82912 MRPS11 "28S ribosomal protein S11, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 211 (79.3 bits), Expect = 3.2e-17, P = 3.2e-17
 Identities = 44/97 (45%), Positives = 61/97 (62%)

Query:     8 PDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTN 67
             P E +  L + G KF+ +PI +I+ + NNT + +  A        SCG EGF+NA+KGT 
Sbjct:    67 PGEES-SLRWAGKKFEEIPIAHIKASHNNTQIQVVSASNEPLAFASCGTEGFRNAKKGTG 125

Query:    68 IAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKAL 104
             IAAQ AGI    +A + GV  +R+ V+GLGPGRL A+
Sbjct:   126 IAAQTAGIAAAARAKQKGVIHIRVVVKGLGPGRLSAM 162

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

GO:0006412 "translation" evidence=IEA

GO:0042769 "DNA damage response, detection of DNA damage" evidence=NAS

GO:0005763 "mitochondrial small ribosomal subunit" evidence=ISS;IDA

MGI|MGI:1915244 Mrps11 "mitochondrial ribosomal protein S11" [Mus musculus (taxid:10090)]

 Score = 210 (79.0 bits), Expect = 4.1e-17, P = 4.1e-17
 Identities = 41/87 (47%), Positives = 58/87 (66%)

Query:    19 GLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIG 78
             G+KF+++PI +I+ T NNT + +  A        SCG EGF+NA+KGT IAAQ AGI   
Sbjct:    74 GMKFEDVPIAHIKATYNNTQIQVVSATNASLARASCGTEGFRNAKKGTGIAAQTAGIAAA 133

Query:    79 KKALEIGVSSVRINVRGLGPGRLKALE 105
              KA   GV+ +R+ V+G+GPGR  A++
Sbjct:   134 AKATGKGVTHIRVVVKGMGPGRWSAIK 160

GO:0003674 "molecular_function" evidence=ND

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0005763 "mitochondrial small ribosomal subunit" evidence=ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0030529 "ribonucleoprotein complex" evidence=IEA

RGD|1559901 Mrps11 "mitochondrial ribosomal protein S11" [Rattus norvegicus (taxid:10116)]

 Score = 210 (79.0 bits), Expect = 4.1e-17, P = 4.1e-17
 Identities = 45/106 (42%), Positives = 64/106 (60%)

Query:     2 ARKDIFPDE--NTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGF 59
             +R  I+P        L + G+KF+ +PI +I+ T NNT + +  A        SCG EGF
Sbjct:    55 SRFSIYPPVPGQESSLQWAGMKFEEVPIAHIKATYNNTQIQVVSATNTSLARASCGTEGF 114

Query:    60 KNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
             +NA+KGT IAAQ AGI    KA   GV+ +R+ V+G+GPGR  A++
Sbjct:   115 RNAKKGTGIAAQTAGIAAAAKATGKGVTHIRVVVKGIGPGRWSAIK 160

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

GO:0005739 "mitochondrion" evidence=ISO

GO:0005763 "mitochondrial small ribosomal subunit" evidence=ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|F1SRT1 MRPS11 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 46/96 (47%), Positives = 62/96 (64%)

Query:    10 ENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIA 69
             EN+  L + G KF+ +PI +I+ + NNT + +  A        SCG EGF+NA+KGT IA
Sbjct:    72 ENS--LRWAGKKFEEIPIAHIKASYNNTQIQVVSAAHQPLAHASCGTEGFRNAKKGTGIA 129

Query:    70 AQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE 105
             AQ AGI    KA   GV+ VR+ V+GLGPGRL A++
Sbjct:   130 AQTAGIAAAAKATGKGVTHVRVVVKGLGPGRLSAIK 165

GO:0005739 "mitochondrion" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|F1N498 MRPS11 "28S ribosomal protein S11, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 206 (77.6 bits), Expect = 1.1e-16, P = 1.1e-16
 Identities = 43/87 (49%), Positives = 57/87 (65%)

Query:    19 GLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIG 78
             G KF+ +PI +I+ + NNT + +  A        SCG EGF+NA+KGT IAAQ AGI   
Sbjct:    80 GKKFEEIPIAHIKASYNNTQIHVVSAAHQPLARASCGTEGFRNAKKGTGIAAQTAGIAAA 139

Query:    79 KKALEIGVSSVRINVRGLGPGRLKALE 105
              KA   GV+ VR+ V+GLGPGRL A++
Sbjct:   140 AKATGKGVTHVRVVVKGLGPGRLSAIK 166

GO:0005739 "mitochondrion" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|P82911 MRPS11 "28S ribosomal protein S11, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 206 (77.6 bits), Expect = 1.1e-16, P = 1.1e-16
 Identities = 43/87 (49%), Positives = 57/87 (65%)

Query:    19 GLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIG 78
             G KF+ +PI +I+ + NNT + +  A        SCG EGF+NA+KGT IAAQ AGI   
Sbjct:    80 GKKFEEIPIAHIKASYNNTQIHVVSAAHQPLARASCGTEGFRNAKKGTGIAAQTAGIAAA 139

Query:    79 KKALEIGVSSVRINVRGLGPGRLKALE 105
              KA   GV+ VR+ V+GLGPGRL A++
Sbjct:   140 AKATGKGVTHVRVVVKGLGPGRLSAIK 166

GO:0043043 "peptide biosynthetic process" evidence=IC

GO:0005763 "mitochondrial small ribosomal subunit" evidence=IDA

GO:0006412 "translation" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q3K610	RS11_PSEPF	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
A7X5C5	RS11_STAA1	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
A9IHR9	RS11_BORPD	No assigned EC number	0.3846	0.6910	0.6390	yes	N/A
Q9HWF8	RS11_PSEAE	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
C1DKN6	RS11_AZOVD	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
A5V5X6	RS11_SPHWW	No assigned EC number	0.4230	0.6341	0.6046	yes	N/A
Q7VTA7	RS11_BORPE	No assigned EC number	0.3736	0.6910	0.6390	yes	N/A
Q2FW31	RS11_STAA8	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
A6U3V0	RS11_STAA2	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
Q1GVN5	RS11_SPHAL	No assigned EC number	0.4230	0.6341	0.6046	yes	N/A
Q4ZMR6	RS11_PSEU2	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
P66358	RS11_STAAW	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
Q49ZE3	RS11_STAS1	No assigned EC number	0.3846	0.7886	0.7519	yes	N/A
Q2N9D6	RS11_ERYLH	No assigned EC number	0.4102	0.6341	0.6046	yes	N/A
B0T2E5	RS11_CAUSK	No assigned EC number	0.4230	0.6341	0.6046	yes	N/A
Q39XY1	RS11_GEOMG	No assigned EC number	0.4337	0.6585	0.6183	yes	N/A
Q48D59	RS11_PSE14	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
Q02T57	RS11_PSEAB	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
A5IV09	RS11_STAA9	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
Q5HM24	RS11_STAEQ	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
A8F4T7	RS11_THELT	No assigned EC number	0.4615	0.6341	0.6093	yes	N/A
Q6F1W8	RS11_MESFL	No assigned EC number	0.4523	0.6666	0.6307	yes	N/A
Q5NQ41	RS11_ZYMMO	No assigned EC number	0.4230	0.6341	0.6046	yes	N/A
Q9A8T0	RS11_CAUCR	No assigned EC number	0.4358	0.6341	0.6046	yes	N/A
P66356	RS11_STAAM	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
P66357	RS11_STAAN	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
A6UZL1	RS11_PSEA7	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
B8H4F7	RS11_CAUCN	No assigned EC number	0.4358	0.6341	0.6046	yes	N/A
A8Z332	RS11_STAAT	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
Q4L889	RS11_STAHJ	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
Q5HDY3	RS11_STAAC	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
B9DM52	RS11_STACT	No assigned EC number	0.4358	0.6341	0.6046	yes	N/A
Q749B1	RS11_GEOSL	No assigned EC number	0.4337	0.6585	0.6183	yes	N/A
Q2LQD1	RS11_SYNAS	No assigned EC number	0.4578	0.6585	0.6230	yes	N/A
Q6GEK8	RS11_STAAR	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
B7V666	RS11_PSEA8	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
Q6G796	RS11_STAAS	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
Q2YYM1	RS11_STAAB	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
A6QJ67	RS11_STAAE	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
C3K2V3	RS11_PSEFS	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
Q889U8	RS11_PSESM	No assigned EC number	0.3461	0.7886	0.7519	yes	N/A
P59377	RS11_STAES	No assigned EC number	0.375	0.7886	0.7519	yes	N/A
B0C431	RS11_ACAM1	No assigned EC number	0.4047	0.6666	0.6307	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	123
TIGR03632	108	TIGR03632, bact_S11, 30S ribosomal protein S11	6e-17
PRK05309	128	PRK05309, PRK05309, 30S ribosomal protein S11; Val	6e-17
COG0100	129	COG0100, RpsK, Ribosomal protein S11 [Translation,	2e-15
pfam00411	109	pfam00411, Ribosomal_S11, Ribosomal protein S11	3e-15
CHL00041	116	CHL00041, rps11, ribosomal protein S11	4e-15
TIGR03628	114	TIGR03628, arch_S11P, archaeal ribosomal protein S	2e-04
PRK09607	132	PRK09607, rps11p, 30S ribosomal protein S11P; Revi	0.004

>gnl|CDD|188357 TIGR03632, bact_S11, 30S ribosomal protein S11

 Score = 70.3 bits (173), Expect = 6e-17
 Identities = 31/74 (41%), Positives = 44/74 (59%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + +I  T NNTI++++D +G V    S G  GFK ++K T  AAQ A     KKA E G+
Sbjct: 2   VAHIHATFNNTIVTITDPQGNVLSWASAGAVGFKGSKKSTPYAAQLAAEDAAKKAKEFGM 61

Query: 87  SSVRINVRGLGPGR 100
            +V + V+G G GR
Sbjct: 62  KTVDVYVKGPGAGR 75

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 [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 108

>gnl|CDD|180007 PRK05309, PRK05309, 30S ribosomal protein S11; Validated

 Score = 70.6 bits (174), Expect = 6e-17
 Identities = 35/80 (43%), Positives = 48/80 (60%), Gaps = 2/80 (2%)

Query: 23  KNLP--IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKK 80
           KN+P  + +I  T NNTI++++D +G V    S G  GFK +RK T  AAQ A     KK
Sbjct: 13  KNIPSGVAHIHATFNNTIVTITDRQGNVISWASAGGLGFKGSRKSTPYAAQVAAEDAAKK 72

Query: 81  ALEIGVSSVRINVRGLGPGR 100
           A E G+ +V + V+G G GR
Sbjct: 73  AKEHGMKTVEVFVKGPGSGR 92

Length = 128

>gnl|CDD|223178 COG0100, RpsK, Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]

 Score = 66.5 bits (163), Expect = 2e-15
 Identities = 38/92 (41%), Positives = 53/92 (57%), Gaps = 4/92 (4%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + +I  + NNTI++++D  G V +  S G  GFK +RK T  AAQ A     KKA E G+
Sbjct: 20  VAHIHASFNNTIVTITDLTGNVIIWASSGGMGFKGSRKSTPYAAQLAAEDAAKKAKEHGI 79

Query: 87  SSVRINVRGLGPGR---LKALE-IGVSSVRIN 114
            SV + V+G GPGR   ++AL   G+   RI 
Sbjct: 80  KSVEVKVKGPGPGREAAIRALAAAGLKITRIE 111

Length = 129

>gnl|CDD|189537 pfam00411, Ribosomal_S11, Ribosomal protein S11

 Score = 65.8 bits (161), Expect = 3e-15
 Identities = 33/79 (41%), Positives = 47/79 (59%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           I +I+ + NNTI++++D  G V L  S G  GFK +RK T  AAQ A     K A E G+
Sbjct: 2   IAHIQASFNNTIITITDVIGRVVLWSSAGGCGFKGSRKSTPYAAQTAAENAAKIAKEQGI 61

Query: 87  SSVRINVRGLGPGRLKALE 105
            ++ + ++G GPGR  AL 
Sbjct: 62  KALEVKIKGPGPGRESALR 80

Length = 109

>gnl|CDD|176982 CHL00041, rps11, ribosomal protein S11

 Score = 65.7 bits (161), Expect = 4e-15
 Identities = 32/89 (35%), Positives = 51/89 (57%), Gaps = 6/89 (6%)

Query: 30  IRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSV 89
           I+ + NNTI++++D +G V    S G  GFK ARKGT  AAQ A     +  ++ G+   
Sbjct: 18  IQASFNNTIVTVTDVRGRVISWSSAGACGFKGARKGTPFAAQTAAENAIRTVIDQGMKRA 77

Query: 90  RINVRGLGPGR---LKALE---IGVSSVR 112
            + ++G G GR   L+A+    + +SS+R
Sbjct: 78  EVMIKGPGLGRDTALRAIRRSGLKLSSIR 106

Length = 116

>gnl|CDD|132667 TIGR03628, arch_S11P, archaeal ribosomal protein S11P

 Score = 37.5 bits (87), Expect = 2e-04
 Identities = 24/72 (33%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 27 IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNAR-KGTNIAAQAAGITIGKKALEIG 85
          I +I  + NNTI++++D  G   + RS G    K  R + +  AA  A     +KA E G
Sbjct: 4  IAHIYSSFNNTIITITDITGAETIARSSGGMVVKADRDESSPYAAMQAAGRAAEKAKERG 63

Query: 86 VSSVRINVRGLG 97
          ++ + I VR  G
Sbjct: 64 ITGLHIKVRAPG 75

This model describes exclusively the archaeal ribosomal protein S11P. It excludes homologous ribosomal proteins S14 from eukaryotes and S11 from bacteria [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 114

>gnl|CDD|236588 PRK09607, rps11p, 30S ribosomal protein S11P; Reviewed

 Score = 34.6 bits (80), Expect = 0.004
 Identities = 24/77 (31%), Positives = 37/77 (48%), Gaps = 1/77 (1%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNAR-KGTNIAAQAAGITIGKKALEIG 85
           I +I  + NNTI++++D  G   + +S G    K  R + +  AA  A     + A E G
Sbjct: 11  IAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADRDESSPYAAMQAAEKAAEDAKEKG 70

Query: 86  VSSVRINVRGLGPGRLK 102
           ++ V I VR  G    K
Sbjct: 71  ITGVHIKVRAPGGNGQK 87

Length = 132

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	123
COG0100	129	RpsK Ribosomal protein S11 [Translation, ribosomal	100.0
TIGR03632	108	bact_S11 30S ribosomal protein S11. This model des	100.0
CHL00041	116	rps11 ribosomal protein S11	100.0
TIGR03628	114	arch_S11P archaeal ribosomal protein S11P. This mo	100.0
PRK05309	128	30S ribosomal protein S11; Validated	100.0
PTZ00129	149	40S ribosomal protein S14; Provisional	100.0
PRK09607	132	rps11p 30S ribosomal protein S11P; Reviewed	100.0
KOG0408|consensus	190		100.0
PF00411	110	Ribosomal_S11: Ribosomal protein S11; InterPro: IP	100.0
PTZ00090	233	40S ribosomal protein S11; Provisional	99.96
KOG0407|consensus	139		99.92
cd00432	103	Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is	97.67
TIGR00060	114	L18_bact ribosomal protein L18, bacterial type. Th	97.15
CHL00139	109	rpl18 ribosomal protein L18; Validated	96.94
PF00861	119	Ribosomal_L18p: Ribosomal L18p/L5e family; InterPr	96.88
PRK05593	117	rplR 50S ribosomal protein L18; Reviewed	96.86
PRK08569	193	rpl18p 50S ribosomal protein L18P; Reviewed	96.68
PTZ00032	211	60S ribosomal protein L18; Provisional	95.92
COG0256	125	RplR Ribosomal protein L18 [Translation, ribosomal	94.16

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

Probab=100.00  E-value=3.2e-36  Score=220.41  Aligned_cols=92  Identities=38%  Similarity=0.507  Sum_probs=89.2

Q ss_pred             ccccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHHH
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLK  102 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~~  102 (123)
                      ...+++||++||||||||+||++||+++|.|+|.+|||++||+||||||+||+++++.++|+||+.|||+|||||+|||+
T Consensus        16 i~~GvahI~asfNNTivtitD~~Gn~i~wassG~~gfk~~rk~tpyAA~~aa~~aa~~a~e~Gi~~v~v~vkgpG~Grea   95 (129)
T COG0100          16 IADGVAHIHASFNNTIVTITDLTGNVIIWASSGGMGFKGSRKSTPYAAQLAAEDAAKKAKEHGIKSVEVKVKGPGPGREA   95 (129)
T ss_pred             cccceEEEEcccCCcEEEecCCCCCEEEEEecCCceEcCCCCCCHHHHHHHHHHHHHHHHHhCccEEEEEEECCCCcHHH
Confidence            47889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhh-hcCceee
Q psy13610        103 ALEIG-VSSVRIN  114 (123)
Q Consensus       103 alkal-~~g~~i~  114 (123)
                      |||+| ++|++|+
T Consensus        96 AiraL~~ag~~i~  108 (129)
T COG0100          96 AIRALAAAGLKIT  108 (129)
T ss_pred             HHHHHHHccceEE
Confidence            99987 8899986

>TIGR03632 bact_S11 30S ribosomal protein S11

Probab=100.00  E-value=1.7e-35  Score=210.54  Aligned_cols=89  Identities=36%  Similarity=0.504  Sum_probs=86.2

Q ss_pred             cEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHHHHHH
Q psy13610         26 PIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE  105 (123)
Q Consensus        26 ~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~~alk  105 (123)
                      +++||++|+||||||+||++|++++|.|+|++||||+||+||||||.+|++++++++++||+.|+|++||+|+||+++||
T Consensus         1 gi~hI~~s~NNT~itlTd~~g~~~~~~S~G~~gfkg~rk~t~~Aa~~~a~~~~~~~~~~gi~~v~v~~kG~G~gr~~~ir   80 (108)
T TIGR03632         1 GVAHIHATFNNTIVTITDPQGNVLSWASAGAVGFKGSKKSTPYAAQLAAEDAAKKAKEFGMKTVDVYVKGPGAGRESAIR   80 (108)
T ss_pred             CEEEEEccCCCEEEEEEcCCCCEEEEEecCceeeCCCccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECCCCcHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hh-hcCceee
Q psy13610        106 IG-VSSVRIN  114 (123)
Q Consensus       106 al-~~g~~i~  114 (123)
                      +| ++|++|.
T Consensus        81 ~l~~~glkI~   90 (108)
T TIGR03632        81 ALQAAGLEVT   90 (108)
T ss_pred             HHHHCCCEEE
Confidence            86 6788875

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.

>CHL00041 rps11 ribosomal protein S11

Probab=100.00  E-value=1.7e-35  Score=213.10  Aligned_cols=92  Identities=33%  Similarity=0.468  Sum_probs=88.9

Q ss_pred             ccccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHHH
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLK  102 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~~  102 (123)
                      ...+++||++|+||||||+||++|++++|.|+|++||||+||+||||||++|++++++|+++|++.|+|++||+|+||++
T Consensus        11 ~~~gi~hI~~t~NNTiiTlTd~~G~~l~~~S~G~~gfKg~rK~T~~Aa~~~a~~~~~~~~~~gi~~v~I~ikG~G~Gr~~   90 (116)
T CHL00041         11 IPKGVIHIQASFNNTIVTVTDVRGRVISWSSAGACGFKGARKGTPFAAQTAAENAIRTVIDQGMKRAEVMIKGPGLGRDT   90 (116)
T ss_pred             ceeEEEEEEcccCCEEEEEEcCCCCEEEEEecCceeeCCCccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECCCCcHHH
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhh-hcCceee
Q psy13610        103 ALEIG-VSSVRIN  114 (123)
Q Consensus       103 alkal-~~g~~i~  114 (123)
                      +||+| ++|++|.
T Consensus        91 ~ir~l~~~glkI~  103 (116)
T CHL00041         91 ALRAIRRSGLKLS  103 (116)
T ss_pred             HHHHHHHCCCEEE
Confidence            99987 7799886

>TIGR03628 arch_S11P archaeal ribosomal protein S11P

Probab=100.00  E-value=1.5e-35  Score=213.23  Aligned_cols=90  Identities=30%  Similarity=0.356  Sum_probs=87.0

Q ss_pred             ccEEEEEecCCCceEEEeCCCCC-EEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEc--------
Q psy13610         25 LPIMNIRVTKNNTILSLSDAKGV-VKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRG--------   95 (123)
Q Consensus        25 ~~i~hI~st~NNTiitlTD~~G~-~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG--------   95 (123)
                      .+|+||++|+||||||+||.+|+ +++|+|+|++|||++||+||||||.|+|+++++|+++||+.|+|+|||        
T Consensus         2 ~gi~hI~as~NNTiitvTD~~G~~~~~~~S~G~~g~kg~kk~TpyAAq~aa~~~~~~~~~~Gi~~v~v~ikG~gg~~~~~   81 (114)
T TIGR03628         2 WGIAHIYSSFNNTIITITDITGAETIARSSGGMVVKADRDESSPYAAMQAAGRAAEKAKERGITGLHIKVRAPGGNGQKS   81 (114)
T ss_pred             cEEEEEEccCCCeEEEEEcCCCCEEEEEecCcceEeCCCccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCCC
Confidence            68999999999999999999995 699999999999999999999999999999999999999999999999        


Q ss_pred             CCcCHHHHHHhh-hcCceee
Q psy13610         96 LGPGRLKALEIG-VSSVRIN  114 (123)
Q Consensus        96 ~G~GR~~alkal-~~g~~i~  114 (123)
                      +|+||++|||+| ++|++|.
T Consensus        82 ~G~Gr~~air~l~~~glkI~  101 (114)
T TIGR03628        82 PGPGAQAAIRALARAGLRIG  101 (114)
T ss_pred             CCCcHHHHHHHHHHCCCEEE
Confidence            999999999987 8899986

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

>PRK05309 30S ribosomal protein S11; Validated

Probab=100.00  E-value=4.5e-35  Score=214.16  Aligned_cols=92  Identities=36%  Similarity=0.450  Sum_probs=88.2

Q ss_pred             ccccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHHH
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLK  102 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~~  102 (123)
                      ...+|+||++|+||||||+||++|++++|.|||++||||+||+||||||++|++++++|+++||+.|+|++||+|+||++
T Consensus        15 ~~~gi~hI~~t~NNTiitlTd~~G~~~~~~S~G~~gfKg~rK~T~~Aa~~aa~~~~~~~~~~gi~~v~v~ikG~G~Gr~~   94 (128)
T PRK05309         15 IPSGVAHIHATFNNTIVTITDRQGNVISWASAGGLGFKGSRKSTPYAAQVAAEDAAKKAKEHGMKTVEVFVKGPGSGRES   94 (128)
T ss_pred             cceeEEEEEccCCCEEEEEEcCCCCEEEEEecCccEeCCCccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEECCCCcHHH
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhh-hcCceee
Q psy13610        103 ALEIG-VSSVRIN  114 (123)
Q Consensus       103 alkal-~~g~~i~  114 (123)
                      +||+| ++|++|.
T Consensus        95 air~L~~~glkI~  107 (128)
T PRK05309         95 AIRALQAAGLEVT  107 (128)
T ss_pred             HHHHHHHCCCEEE
Confidence            99987 6788775

>PTZ00129 40S ribosomal protein S14; Provisional

Probab=100.00  E-value=5e-35  Score=218.63  Aligned_cols=91  Identities=24%  Similarity=0.381  Sum_probs=88.2

Q ss_pred             cccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCC-CCChHHHHHHHHHHHHHHHHcCCeEEEEEE--------E
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNAR-KGTNIAAQAAGITIGKKALEIGVSSVRINV--------R   94 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~r-K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~i--------k   94 (123)
                      ..+|+||++|+|||||||||++|++++|.|+|.+|||++| |+||||||.||++++++|+++||+.|+|+|        +
T Consensus        27 ~~Gi~hI~as~NNTiItiTD~~G~~~~w~SsG~~gfKg~r~KsTpyAAq~aa~~~a~k~~~~Gi~~v~V~vr~~gg~~~k  106 (149)
T PTZ00129         27 VFGVAHIFASFNDTFIHVTDLSGRETLVRVTGGMKVKADRDESSPYAAMMAAQDVAARCKELGINALHIKLRATGGVRTK  106 (149)
T ss_pred             eEEEEEEEcccCCeEEEEEcccCCEEEEEecCcceecccccCCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEecCCCCCC
Confidence            5799999999999999999999999999999999999999 999999999999999999999999999999        8


Q ss_pred             cCCcCHHHHHHhh-hcCceee
Q psy13610         95 GLGPGRLKALEIG-VSSVRIN  114 (123)
Q Consensus        95 G~G~GR~~alkal-~~g~~i~  114 (123)
                      |+|+||++|||+| ++|++|.
T Consensus       107 g~GpGr~~airaL~~~glkI~  127 (149)
T PTZ00129        107 TPGPGAQAALRALARAGLKIG  127 (149)
T ss_pred             CCCCCHHHHHHHHHHCCCEEE
Confidence            8999999999987 8899986

>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed

Probab=100.00  E-value=6.3e-35  Score=214.59  Aligned_cols=91  Identities=30%  Similarity=0.363  Sum_probs=88.3

Q ss_pred             cccEEEEEecCCCceEEEeCCCCC-EEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEc-------
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAKGV-VKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRG-------   95 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~G~-~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG-------   95 (123)
                      ..+|+||++|+|||||||||++|+ +++|+|+|++|||+++|+||||||.|||+++++|+++||+.|+|+|||       
T Consensus         8 ~~gi~hI~as~NNTivtvTD~~G~~~~~~~S~G~~g~kg~kK~TpyAAq~aae~~~~~~~~~Gi~~v~v~vkG~Ggn~~~   87 (132)
T PRK09607          8 KWGIAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADRDESSPYAAMQAAEKAAEDAKEKGITGVHIKVRAPGGNGQK   87 (132)
T ss_pred             eeeEEEEEcccCCeEEEEEcCCCCEEEEEecCcceeeCCCccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCc
Confidence            579999999999999999999996 999999999999999999999999999999999999999999999999       


Q ss_pred             -CCcCHHHHHHhh-hcCceee
Q psy13610         96 -LGPGRLKALEIG-VSSVRIN  114 (123)
Q Consensus        96 -~G~GR~~alkal-~~g~~i~  114 (123)
                       +|+||++|||+| ++|++|.
T Consensus        88 ~~G~Gr~~airal~~~glkI~  108 (132)
T PRK09607         88 SPGPGAQAAIRALARAGLRIG  108 (132)
T ss_pred             CCCCcHHHHHHHHHHCCCEEE
Confidence             999999999987 8899986

>KOG0408|consensus

Probab=100.00  E-value=8.7e-35  Score=220.62  Aligned_cols=106  Identities=43%  Similarity=0.757  Sum_probs=103.0

Q ss_pred             CCCCCCccccCCeecccccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCe
Q psy13610          8 PDENTPDLIFDGLKFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVS   87 (123)
Q Consensus         8 p~~~~~~~~~~g~~~~~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~   87 (123)
                      |++++-+.+|+|++|.+++|+||++|+|||||++||.+|.++.|+|||.+||||+||+|++|||.|+..++.++.++|++
T Consensus        62 p~aet~~r~~~g~~f~eiPi~hIraS~NNTivtVtd~kg~vi~~~ScgteGFrntrkgT~iAaQtaavaa~~r~v~~G~~  141 (190)
T KOG0408|consen   62 PGAETNTRSFSGKNFREIPIIHIRASFNNTIVTVTDVKGEVISWSSCGTEGFRNTRKGTPIAAQTAAVAAIRRAVDQGMQ  141 (190)
T ss_pred             CChhhhhcccCCccccccceEEEEecCCCeEEEEEccCCcEEEEeecccccccccccCCchhHHHHHHHHHHHHHHhcce
Confidence            78899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEEcCCcCHHHHHHhh-hcCcee
Q psy13610         88 SVRINVRGLGPGRLKALEIG-VSSVRI  113 (123)
Q Consensus        88 ~i~V~ikG~G~GR~~alkal-~~g~~i  113 (123)
                      .++|+|||+||||.+|+|.| |+|+.+
T Consensus       142 ~vrV~VkGlGpGRmsa~kgl~m~Gl~v  168 (190)
T KOG0408|consen  142 TVRVRVKGLGPGRMSALKGLRMGGLLV  168 (190)
T ss_pred             EEEEEEecCCccHHHHHhhhhhcceEE
Confidence            99999999999999999976 888875

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

Probab=100.00  E-value=9.4e-35  Score=206.99  Aligned_cols=89  Identities=46%  Similarity=0.656  Sum_probs=86.3

Q ss_pred             cEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHHHHHH
Q psy13610         26 PIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKALE  105 (123)
Q Consensus        26 ~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~~alk  105 (123)
                      ||+||++|+||||||+||.+|++++|.|+|++|||++||+||||||+++++++++|+++|++.|+|+|||+|+||+++||
T Consensus         1 giihI~~s~NNt~vtlTd~~G~~~~~~S~G~~gfK~~rk~t~~Aa~~~a~~~~~~~~~~gi~~v~v~ikG~g~gr~~~lk   80 (110)
T PF00411_consen    1 GIIHIKSSFNNTIVTLTDLKGNVLFWSSAGSLGFKGARKSTPYAAQQAAEKIAKKAKELGIKTVRVKIKGFGPGREAALK   80 (110)
T ss_dssp             EEEEEEEESSEEEEEEEETTSEEEEEEETTTSSTTTTCGSSHHHHHHHHHHHHHHHHCTTEEEEEEEEESSSTTHHHHHH
T ss_pred             CEEEEEecCCCEEEEEECCCCCEEEEEeccccccccccccCHHHHHHHHHHHHHHHHHcCCeEEEEEEcCCCccHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hh-hcCceee
Q psy13610        106 IG-VSSVRIN  114 (123)
Q Consensus       106 al-~~g~~i~  114 (123)
                      +| ++|++|.
T Consensus        81 ~l~~~gl~I~   90 (110)
T PF00411_consen   81 ALKKSGLKIV   90 (110)
T ss_dssp             HHHHTTSEEE
T ss_pred             HHHhcCCEEE
Confidence            87 5798875

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 ....

>PTZ00090 40S ribosomal protein S11; Provisional

Probab=99.96  E-value=2.5e-29  Score=197.51  Aligned_cols=90  Identities=19%  Similarity=0.222  Sum_probs=84.6

Q ss_pred             cccEEEEEecCCCceEEEeCCCCCE--EEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHH
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAKGVV--KLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRL  101 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~G~~--l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~  101 (123)
                      +.-.+-|++|+||||||+||.+||+  ++|+|+|.|||||+||+||||||.||++++++|+++||+.|+|+|||+| |||
T Consensus       117 ~~f~~vI~aSfNNTIVTlTD~~GNv~tl~WSSAG~~GFKGsKKsTpfAAQ~aae~aakka~~~GIk~V~V~vKGpG-gRE  195 (233)
T PTZ00090        117 DRFMLVITTSKNNVHAQVVNKSKNYKTVFGSFAGNVGFRKKLQQSERCAYRIGENIAKKCRRLGIFAVDIKFRRIM-RVE  195 (233)
T ss_pred             CcEEEEEEeccCcEEEEEEeCCCCEEEEEEEcccccCcccCccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEeCCC-hHH
Confidence            4445669999999999999999995  9999999999999999999999999999999999999999999999999 699


Q ss_pred             HHHHhh-hcCceee
Q psy13610        102 KALEIG-VSSVRIN  114 (123)
Q Consensus       102 ~alkal-~~g~~i~  114 (123)
                      +|||++ .+|++|+
T Consensus       196 tALRaL~~~GLkIt  209 (233)
T PTZ00090        196 TVLQAFYANGLQVT  209 (233)
T ss_pred             HHHHHHHHCCCEEE
Confidence            999987 7799986

>KOG0407|consensus

Probab=99.92  E-value=1.4e-24  Score=156.77  Aligned_cols=91  Identities=27%  Similarity=0.402  Sum_probs=87.5

Q ss_pred             cccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCC-CCChHHHHHHHHHHHHHHHHcCCeEEEEEEEc-------
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNAR-KGTNIAAQAAGITIGKKALEIGVSSVRINVRG-------   95 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~r-K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG-------   95 (123)
                      ..++.||++|||+|||++||++|++....-.|.+..|..| .+|||||++||++++.+|+++||+.+||++|+       
T Consensus        15 vfgvahi~asfndtfvhitdlsg~eti~rvtggmkvkadrdesspyaamlaaqdva~kck~~gi~alh~klratgg~ktk   94 (139)
T KOG0407|consen   15 VFGVAHIFASFNDTFVHVTDLSGKETIVRVTGGMKVKADRDESSPYAAMLAAQDVAAKCKELGITALHIKLRATGGTKTK   94 (139)
T ss_pred             eeeEEEEEeecccceEEEeccCCceEEEEecCCeEEecccccCChHHHHHHHHHHHHHHHhcCeeEEEEEEEecCCcccC
Confidence            6789999999999999999999999999999999999999 89999999999999999999999999999998       


Q ss_pred             -CCcCHHHHHHhh-hcCceee
Q psy13610         96 -LGPGRLKALEIG-VSSVRIN  114 (123)
Q Consensus        96 -~G~GR~~alkal-~~g~~i~  114 (123)
                       +|||.+++||+| |+|++|+
T Consensus        95 tpgpgaqsalralar~gmrig  115 (139)
T KOG0407|consen   95 TPGPGAQSALRALARSGMRIG  115 (139)
T ss_pred             CCCccHHHHHHHHHHhcceee
Confidence             889999999976 9999996

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

Probab=97.67  E-value=0.00086  Score=46.74  Aligned_cols=86  Identities=22%  Similarity=0.214  Sum_probs=71.5

Q ss_pred             cccEEEEEecCCCceEEEeCCC-CCEEEEEeecccccccCC--CCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCC-cC
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAK-GVVKLLRSCGMEGFKNAR--KGTNIAAQAAGITIGKKALEIGVSSVRINVRGLG-PG   99 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~-G~~l~~~S~G~~GfK~~r--K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G-~G   99 (123)
                      ..+.+.|+.|.+|....+.|.. +++++..|+-...+++..  .....||+.+++.++++|+++|+..+.+-..|+- -|
T Consensus        10 ~~~RL~v~~Sn~~i~aqvi~~~~~~vl~sast~e~~~~~~~~~~~n~~aA~~vG~~la~r~~~~gi~~vv~D~~~~~~~g   89 (103)
T cd00432          10 ERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVFDRGGYRYHG   89 (103)
T ss_pred             CCCEEEEEEeCCEEEEEEEEeCcCeEEEEEecCchhhcccccCCCcHHHHHHHHHHHHHHHHHCCCCEEEEeCCCccccc
Confidence            6788999999999999999997 889999999998888753  6778899999999999999999999998876655 35


Q ss_pred             HHHH-HHhhhc
Q psy13610        100 RLKA-LEIGVS  109 (123)
Q Consensus       100 R~~a-lkal~~  109 (123)
                      |-.+ +++++.
T Consensus        90 rv~a~~~~~r~  100 (103)
T cd00432          90 RVKALAKGARE  100 (103)
T ss_pred             HHHHHHHHHHH
Confidence            6443 345544

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.

>TIGR00060 L18_bact ribosomal protein L18, bacterial type

Probab=97.15  E-value=0.0093  Score=43.10  Aligned_cols=87  Identities=21%  Similarity=0.233  Sum_probs=65.0

Q ss_pred             cccEEEEEecCCCceEEEeCCCCC-EEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCC-cCHH
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAKGV-VKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLG-PGRL  101 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~G~-~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G-~GR~  101 (123)
                      +.|.+.|+-|.++....+.|..+. +++..|+=...++  ...+-.||..+++.++++|++.||..+..--.|+= -||-
T Consensus        23 ~rpRL~V~rSnk~iyaQiIdd~~~~tlasaST~ek~~~--~~~n~~aA~~vG~~la~ra~~~gi~~vvfDrgg~~YhGrv  100 (114)
T TIGR00060        23 NRPRLVVFRSNRHIYAQVIDDSKSEVLASASTLEKKLK--YTGNKDAAKKVGKLVAERLKEKGIKDVVFDRGGYKYHGRV  100 (114)
T ss_pred             CCcEEEEEEeCCeEEEEEEECCCCEEEEEEecchhhhc--CCCCHHHHHHHHHHHHHHHHHCCCCEEEEeCCCCcchHHH
Confidence            577899999999999999877555 6777666444565  56667899999999999999999999977744433 2675


Q ss_pred             HHHH-hhhc-Cce
Q psy13610        102 KALE-IGVS-SVR  112 (123)
Q Consensus       102 ~alk-al~~-g~~  112 (123)
                      .++- ++|+ |++
T Consensus       101 ~A~a~~aRe~Gl~  113 (114)
T TIGR00060       101 AALAEAAREAGLN  113 (114)
T ss_pred             HHHHHHHHHhCCC
Confidence            5554 5544 554

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

>CHL00139 rpl18 ribosomal protein L18; Validated

Probab=96.94  E-value=0.019  Score=41.12  Aligned_cols=90  Identities=22%  Similarity=0.269  Sum_probs=66.8

Q ss_pred             ccccEEEEEecCCCceEEEe-CCCCCEEEEEeecccccccCC--CCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCc-
Q psy13610         23 KNLPIMNIRVTKNNTILSLS-DAKGVVKLLRSCGMEGFKNAR--KGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGP-   98 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlT-D~~G~~l~~~S~G~~GfK~~r--K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~-   98 (123)
                      ...|.+-|+-|.++....+. |.+|++++..|+=...+++..  ...-.||+.+++-++++|++.||..+..--.|+=+ 
T Consensus        13 ~~rpRL~V~rSnkhiyaQvidd~~g~tlasaST~ek~~~~~~~~~~n~~aA~~vG~lla~ra~~~gi~~vvfDrgg~~yh   92 (109)
T CHL00139         13 AERPRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKKGITKVVFDRGGKLYH   92 (109)
T ss_pred             CCCCEEEEEEeCCeEEEEEEECCCCCEEEEEecCchhhhccccCCCCHHHHHHHHHHHHHHHHHCCCCEEEEcCCCCccc
Confidence            35678899999999988776 568899999998666666543  56677899999999999999999998777444333 


Q ss_pred             CHHHHH-Hhhhc-Cce
Q psy13610         99 GRLKAL-EIGVS-SVR  112 (123)
Q Consensus        99 GR~~al-kal~~-g~~  112 (123)
                      ||-.++ .++|+ |++
T Consensus        93 GrV~a~a~~are~GL~  108 (109)
T CHL00139         93 GRIKALAEAAREAGLQ  108 (109)
T ss_pred             hHHHHHHHHHHHhCCC
Confidence            564444 35544 554

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

Probab=96.88  E-value=0.015  Score=41.75  Aligned_cols=91  Identities=20%  Similarity=0.194  Sum_probs=69.8

Q ss_pred             ccccEEEEEecCCCceEEEeCCC-CCEEEEEeecccccccC----CCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCC
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAK-GVVKLLRSCGMEGFKNA----RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLG   97 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~-G~~l~~~S~G~~GfK~~----rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G   97 (123)
                      ...+.+-|+.|..++...+.|.. +.++...|+=..-++..    ....-.||+.+++.++++|++.||..+..-..|+-
T Consensus        21 ~~~~RL~V~~Snk~i~aQii~~~~~~~l~~aSt~~~~l~~~~~~~~~~n~~aa~~vG~lla~ra~~~gi~~v~fdr~~~~  100 (119)
T PF00861_consen   21 AERPRLVVFRSNKHIYAQIIDDSKGGTLASASTLSKELKKYGWKGSTKNVEAAYLVGELLAKRALEKGIAKVVFDRGGYK  100 (119)
T ss_dssp             TSSEEEEEEEESSEEEEEEEECTTTEEEEEEEEETTTGGGTT-SSTTSSHHHHHHHHHHHHHHHHHTTSSEEEECTSTSS
T ss_pred             CCCCEEEEEeccCeEEEEEEeeCCCCeEEEEEecchhhhhhhhccCCCCEehHHHHHHHHHHHHHHcCCcEEEEcCCCCc
Confidence            35678889999999999886655 88888888888888863    23467799999999999999999999888877765


Q ss_pred             c-CHHH-HHHhhh-cCcee
Q psy13610         98 P-GRLK-ALEIGV-SSVRI  113 (123)
Q Consensus        98 ~-GR~~-alkal~-~g~~i  113 (123)
                      . ||-. ++++++ .|+++
T Consensus       101 y~grv~a~~~~~re~Gl~f  119 (119)
T PF00861_consen  101 YHGRVKALADGAREGGLEF  119 (119)
T ss_dssp             SSSHHHHHHHHHHHTTCB-
T ss_pred             ccHHHHHHHHHHHHcCCCC
Confidence            5 5644 444554 47653

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 ....

>PRK05593 rplR 50S ribosomal protein L18; Reviewed

Probab=96.86  E-value=0.02  Score=41.43  Aligned_cols=90  Identities=19%  Similarity=0.221  Sum_probs=65.9

Q ss_pred             ccccEEEEEecCCCceEEEeCCCCC-EEEEEeecccccccCC-CCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCc-C
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAKGV-VKLLRSCGMEGFKNAR-KGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGP-G   99 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~G~-~l~~~S~G~~GfK~~r-K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~-G   99 (123)
                      .+.|.+-|+.|.++....+.|..+. +++..|+=...++..- ...-.||+.+++.++++|++.||..+..--.|+=+ |
T Consensus        22 ~~rpRL~V~~SnkhiyAQvidd~~~~tl~saST~e~~~k~~~~~~n~~aa~~vG~~la~ra~~~gi~~vvfDrg~~~yhG  101 (117)
T PRK05593         22 AERPRLSVFRSNRHIYAQVIDDVKGKTLASASTLEKDVRAGLKGGNKEAAKKVGKLIAERAKAKGIKQVVFDRGGYKYHG  101 (117)
T ss_pred             CCCCEEEEEEeCCeEEEEEEECCCCEEEEEEecCcHhHhccccCCCHHHHHHHHHHHHHHHHHCCCCEEEEcCCCCcccH
Confidence            4678899999999999999977666 6677776555554433 66678999999999999999999998777444333 5


Q ss_pred             HHHHH-Hhhh-cCce
Q psy13610        100 RLKAL-EIGV-SSVR  112 (123)
Q Consensus       100 R~~al-kal~-~g~~  112 (123)
                      |-.++ .++| .|++
T Consensus       102 rV~a~a~~are~Gl~  116 (117)
T PRK05593        102 RVKALADAAREAGLK  116 (117)
T ss_pred             HHHHHHHHHHHhCCC
Confidence            54443 3554 4654

>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed

Probab=96.68  E-value=0.032  Score=43.74  Aligned_cols=93  Identities=23%  Similarity=0.234  Sum_probs=69.4

Q ss_pred             ccccEEEEEecCCCceEEEe--CC-CCCEEEEEeecccccccCC--CCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCC
Q psy13610         23 KNLPIMNIRVTKNNTILSLS--DA-KGVVKLLRSCGMEGFKNAR--KGTNIAAQAAGITIGKKALEIGVSSVRINVRGLG   97 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlT--D~-~G~~l~~~S~G~~GfK~~r--K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G   97 (123)
                      .+.+.+-|+-|.+|.++-+.  |. .+.+++..|+=....++-.  ....-||+.++.-++++|++.||+.+.+=.-|.=
T Consensus        30 ~~kpRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~g~~~~~~N~~AAy~vG~llA~ral~kGi~~vvfDrGg~~  109 (193)
T PRK08569         30 SGKPRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKYGWKGDTGNTPAAYLTGLLAGKKALKAGVEEAVLDIGLHR  109 (193)
T ss_pred             cCCCEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhccccCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEecCCcc
Confidence            34578889999999999999  44 5557777777666555533  5667789999999999999999999888876644


Q ss_pred             c---CHHH-HHHhh-hcCceeee
Q psy13610         98 P---GRLK-ALEIG-VSSVRINV  115 (123)
Q Consensus        98 ~---GR~~-alkal-~~g~~i~~  115 (123)
                      +   ||-. +++++ -+|++|-.
T Consensus       110 yh~gGRV~A~akgArd~GL~fPh  132 (193)
T PRK08569        110 PTKGSRVFAALKGAIDAGLEIPH  132 (193)
T ss_pred             ccCCccHHHHHHHHHHcCCcCCC
Confidence            3   6744 55555 55888754

>PTZ00032 60S ribosomal protein L18; Provisional

Probab=95.92  E-value=0.096  Score=41.58  Aligned_cols=94  Identities=26%  Similarity=0.332  Sum_probs=68.7

Q ss_pred             ccCCeecccccEEEEEecCCCceEEEeC-CCCCEEEEEeecccccccC--------------CCCChHHHHHHHHHHHHH
Q psy13610         16 IFDGLKFKNLPIMNIRVTKNNTILSLSD-AKGVVKLLRSCGMEGFKNA--------------RKGTNIAAQAAGITIGKK   80 (123)
Q Consensus        16 ~~~g~~~~~~~i~hI~st~NNTiitlTD-~~G~~l~~~S~G~~GfK~~--------------rK~T~~Aa~~aa~~v~~~   80 (123)
                      +.+|+   ..+.+-|+-|.++.-..+.| .+|.++++.|+=.-.+++.              ..++-.||..+++.++++
T Consensus        99 i~~gk---rrPRLsV~RSnkHIYAQIIDD~~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~IAer  175 (211)
T PTZ00032         99 IIKGK---RRPRLTLKNTNNQMYATIVDDYTRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKLIGRK  175 (211)
T ss_pred             HHcCC---CcceEEEEecCCeEEEEEEECCCCCEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHHHHHH
Confidence            44555   46777888898888888866 4788888888755555442              356788999999999999


Q ss_pred             HHHcCCeEEEEEEEcCCc-CHHHHHH-hhhc-Cce
Q psy13610         81 ALEIGVSSVRINVRGLGP-GRLKALE-IGVS-SVR  112 (123)
Q Consensus        81 a~~~Gi~~i~V~ikG~G~-GR~~alk-al~~-g~~  112 (123)
                      |+++||..|..==.|+=. ||-.||- ++|+ |++
T Consensus       176 Al~kGI~kVvFDRgGy~YHGRVkALAdaARe~GLk  210 (211)
T PTZ00032        176 ALSKGISKVRFDRAHYKYAGKVEALAEGARAVGLQ  210 (211)
T ss_pred             HHHCCCCEEEEeCCCCeehhHHHHHHHHHHHcCCC
Confidence            999999998776444433 7877776 4544 553

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

Probab=94.16  E-value=0.99  Score=33.20  Aligned_cols=89  Identities=21%  Similarity=0.256  Sum_probs=60.8

Q ss_pred             cccEEEEEecCCCceEEEeCCC-CCEEEEEeeccccccc--C--CCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCc
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAK-GVVKLLRSCGMEGFKN--A--RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGP   98 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~-G~~l~~~S~G~~GfK~--~--rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~   98 (123)
                      ..+.+-|+-|.+|.+.-+.|.. +.++...|+=.--.++  .  ....-.||..+++.++++|++.||+.+.+=..|+=.
T Consensus        28 ~rpRL~V~rSnkhi~aQiId~~~~~tla~aSt~~~~l~~~g~~~~~~N~~aA~~vG~lia~ra~~kgi~~vVfdr~g~~y  107 (125)
T COG0256          28 GRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKYGKKGGGGNTEAAYLVGKLIAERALAKGIEEVVFDRGGYKY  107 (125)
T ss_pred             CCcEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHHhhcccCCCCCHHHHHHHHHHHHHHHHHcCCcEEEEcCCCCCc
Confidence            5566778888888888876654 5567766654433321  1  133467899999999999999999999877777665


Q ss_pred             -CHHHHH-Hhhh-cCce
Q psy13610         99 -GRLKAL-EIGV-SSVR  112 (123)
Q Consensus        99 -GR~~al-kal~-~g~~  112 (123)
                       ||=.++ ++++ .|++
T Consensus       108 hgRV~Ala~~AreaGL~  124 (125)
T COG0256         108 HGRVAALADGAREAGLE  124 (125)
T ss_pred             chHHHHHHHHHHHcCcC
Confidence             454443 4544 4665

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	123
2gy9_K	116	Structure Of The 30s Subunit Of A Pre-Translocation		4e-07
3fih_K	117	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		4e-07
1vs5_K	129	Crystal Structure Of The Bacterial Ribosome From Es		5e-07
1p6g_K	128	Real Space Refined Coordinates Of The 30s Subunit F		5e-07
3bbn_K	140	Homology Model For The Spinach Chloroplast 30s Subu		2e-06
1fjg_K	129	Structure Of The Thermus Thermophilus 30s Ribosomal		3e-05
1i94_K	128	Crystal Structures Of The Small Ribosomal Subunit W		3e-05
1pns_K	119	Crystal Structure Of A Streptomycin Dependent Ribos		4e-05

>pdb|2GY9|K Chain K, Structure Of The 30s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 116

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 41/74 (55%)
Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + +I  + NNTI++++D +G      + G  GF+ +RK T  AAQ A         E G+
Sbjct: 8   VAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFAAQVAAERCADAVKEYGI 67
Query: 87  SSVRINVRGLGPGR 100
            ++ + V+G GPGR
Sbjct: 68  KNLEVMVKGPGPGR 81

>pdb|3FIH|K Chain K, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 30s Subunit, Trnas And The Ternary Complex. Length = 117

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 41/74 (55%)
Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + +I  + NNTI++++D +G      + G  GF+ +RK T  AAQ A         E G+
Sbjct: 8   VAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFAAQVAAERCADAVKEYGI 67
Query: 87  SSVRINVRGLGPGR 100
            ++ + V+G GPGR
Sbjct: 68  KNLEVMVKGPGPGR 81

>pdb|1VS5|K Chain K, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 129

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 41/74 (55%)
Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + +I  + NNTI++++D +G      + G  GF+ +RK T  AAQ A         E G+
Sbjct: 20  VAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFAAQVAAERCADAVKEYGI 79
Query: 87  SSVRINVRGLGPGR 100
            ++ + V+G GPGR
Sbjct: 80  KNLEVMVKGPGPGR 93

>pdb|1P6G|K Chain K, Real Space Refined Coordinates Of The 30s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 128

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 41/74 (55%)
Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           + +I  + NNTI++++D +G      + G  GF+ +RK T  AAQ A         E G+
Sbjct: 19  VAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFAAQVAAERCADAVKEYGI 78
Query: 87  SSVRINVRGLGPGR 100
            ++ + V+G GPGR
Sbjct: 79  KNLEVMVKGPGPGR 92

>pdb|3BBN|K Chain K, Homology Model For The Spinach Chloroplast 30s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 140

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 45/79 (56%)
Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
           +++++ + NNTI++++D +G V    S G  GF+  ++GT  AAQ A     +  +E G+
Sbjct: 31  VIHVQASFNNTIVTVTDVRGRVVSWASAGTCGFRGTKRGTPFAAQTAAGNAIRTVVEQGM 90
Query: 87  SSVRINVRGLGPGRLKALE 105
               + ++G G GR  AL 
Sbjct: 91  QRAEVMIKGPGLGRDAALR 109

>pdb|1FJG|K Chain K, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With The Antibiotics Streptomycin, Spectinomycin, And Paromomycin Length = 129

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/75 (42%), Positives = 46/75 (61%)
Query: 30  IRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSV 89
           I  + NNTI++++D  G      S G+ G+K +RKGT  AAQ A +   KKA+  G+ SV
Sbjct: 21  IHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSV 80
Query: 90  RINVRGLGPGRLKAL 104
            + VRG G GR +A+
Sbjct: 81  DVIVRGTGAGREQAI 95

>pdb|1I94|K Chain K, Crystal Structures Of The Small Ribosomal Subunit With Tetracycline, Edeine And If3 Length = 128

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/75 (42%), Positives = 46/75 (61%)
Query: 30  IRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSV 89
           I  + NNTI++++D  G      S G+ G+K +RKGT  AAQ A +   KKA+  G+ SV
Sbjct: 20  IHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSV 79
Query: 90  RINVRGLGPGRLKAL 104
            + VRG G GR +A+
Sbjct: 80  DVIVRGTGAGREQAI 94

>pdb|1PNS|K Chain K, Crystal Structure Of A Streptomycin Dependent Ribosome From E. Coli, 30s Subunit Of 70s Ribosome. This File, 1pns, Contains The 30s Subunit, Two Trnas, And One Mrna Molecule. The 50s Ribosomal Subunit Is In File 1pnu. Length = 119

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 32/75 (42%), Positives = 46/75 (61%)
Query: 30  IRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSV 89
           I  + NNTI++++D  G      S G+ G+K +RKGT  AAQ A +   KKA+  G+ SV
Sbjct: 11  IHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSV 70
Query: 90  RINVRGLGPGRLKAL 104
            + VRG G GR +A+
Sbjct: 71  DVIVRGTGAGREQAI 85

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	123
3bbn_K	140	Ribosomal protein S11; small ribosomal subunit, sp	7e-25
2vqe_K	129	30S ribosomal protein S11, 30S ribosomal protein S	2e-24
3r8n_K	117	30S ribosomal protein S11; protein biosynthesis, R	2e-24
3u5c_O	137	RP59A, 40S ribosomal protein S14-A; translation, r	3e-16
2xzm_K	151	RPS14E; ribosome, translation; 3.93A {Tetrahymena	7e-14

>3bbn_K Ribosomal protein S11; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 140

 Score = 90.8 bits (226), Expect = 7e-25
 Identities = 25/84 (29%), Positives = 46/84 (54%)

Query: 21  KFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKK 80
           +     +++++ + NNTI++++D +G V    S G  GF+  ++GT  AAQ A     + 
Sbjct: 25  RKIPKGVIHVQASFNNTIVTVTDVRGRVVSWASAGTCGFRGTKRGTPFAAQTAAGNAIRT 84

Query: 81  ALEIGVSSVRINVRGLGPGRLKAL 104
            +E G+    + ++G G GR  AL
Sbjct: 85  VVEQGMQRAEVMIKGPGLGRDAAL 108

>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* ... Length = 129

 Score = 89.7 bits (223), Expect = 2e-24
 Identities = 32/78 (41%), Positives = 46/78 (58%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGV 86
              I  + NNTI++++D  G      S G+ G+K +RKGT  AAQ A +   KKA+  G+
Sbjct: 18  RAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGM 77

Query: 87  SSVRINVRGLGPGRLKAL 104
            SV + VRG G GR +A+
Sbjct: 78  QSVDVIVRGTGAGREQAI 95

>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* Length = 137

 Score = 68.5 bits (168), Expect = 3e-16
 Identities = 23/97 (23%), Positives = 39/97 (40%), Gaps = 15/97 (15%)

Query: 27  IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNAR-KGTNIAAQAAGITIGKKALEIG 85
           +  I  + N+T + ++D  G   + R  G    K  R + +  AA  A   +  K  E+G
Sbjct: 16  VARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVG 75

Query: 86  VSSVRINVRGLGPGRLKALEIGVSSVRINVRGLGPGR 122
           +++V + +R  G  R K                GPG 
Sbjct: 76  ITAVHVKIRATGGTRTK--------------TPGPGG 98

>2xzm_K RPS14E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_K 3j0o_K 3j0l_K 2zkq_k 3iz6_K 3jyv_K* Length = 151

 Score = 62.9 bits (153), Expect = 7e-14
 Identities = 23/93 (24%), Positives = 40/93 (43%), Gaps = 9/93 (9%)

Query: 21  KFKNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARK-GTNIAAQAAGITIGK 79
                 + +I  T N+T + ++D  G   L+R  G    K  R+  +  AA  A I +  
Sbjct: 24  NENVFGVCHIMATWNDTFIHVTDLSGRETLVRVTGGMKVKADREESSPYAAMQAAIDVVN 83

Query: 80  KALEIGVSSVRINVR--------GLGPGRLKAL 104
           +  E+ ++++ I +R          GPG   AL
Sbjct: 84  RCKELKINALHIKLRAKGGVETKQPGPGAQSAL 116

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	123
3r8n_K	117	30S ribosomal protein S11; protein biosynthesis, R	100.0
2vqe_K	129	30S ribosomal protein S11, 30S ribosomal protein S	100.0
3j20_M	137	30S ribosomal protein S11P; archaea, archaeal, KIN	100.0
3bbn_K	140	Ribosomal protein S11; small ribosomal subunit, sp	100.0
3u5c_O	137	RP59A, 40S ribosomal protein S14-A; translation, r	100.0
2xzm_K	151	RPS14E; ribosome, translation; 3.93A {Tetrahymena	100.0
3r8s_O	116	50S ribosomal protein L18; protein biosynthesis, R	96.91
3v2d_S	112	50S ribosomal protein L18; ribosome associated inh	96.39
1vq8_N	187	50S ribosomal protein L18P; ribosome 50S, protein-	95.62
1ovy_A	120	50S ribosomal protein L18; ribosome; NMR {Geobacil	95.58
3j21_O	203	50S ribosomal protein L18P; archaea, archaeal, KIN	94.33
3bbo_Q	161	Ribosomal protein L18; large ribosomal subunit, sp	93.64
2zjr_L	114	50S ribosomal protein L18; ribosome, large ribosom	92.96
2zkr_n	297	60S ribosomal protein L5; protein-RNA complex, 60S	86.9
4a17_M	301	RPL5, 60S ribosomal protein L5; eukaryotic ribosom	82.13

>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=100.00  E-value=2.3e-37  Score=225.61  Aligned_cols=91  Identities=36%  Similarity=0.498  Sum_probs=87.8

Q ss_pred             cccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHHHH
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKA  103 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~~a  103 (123)
                      ..+++||++|+||||||+||++|++++|.|+|++|||++||+||||||+||++++++|+|+||+.|+|+|||||+|||++
T Consensus        15 ~~gi~hI~as~NNTivtiTd~~G~~~~~~SaG~~gfKg~rk~tp~AA~~aa~~~~~~~~~~Gi~~v~V~vkG~G~Gre~a   94 (129)
T 2vqe_K           15 ASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGTGAGREQA   94 (129)
T ss_dssp             SEEEEEEEECSSCEEEEEECTTSCEEEECCTTTTTCCSGGGGSHHHHHHHHHHHHHHHHTTTCCEEEEEEESCCTTHHHH
T ss_pred             cceEEEEEecCCCEEEEEEcCCCCEEEEEeccceeEcCCCcCCHHHHHHHHHHHHHHHHHhCCeEEEEEEECCCCCHHHH
Confidence            56999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhh-hcCceee
Q psy13610        104 LEIG-VSSVRIN  114 (123)
Q Consensus       104 lkal-~~g~~i~  114 (123)
                      ||+| ++|++|+
T Consensus        95 iraL~~~Gl~I~  106 (129)
T 2vqe_K           95 IRALQASGLQVK  106 (129)
T ss_dssp             HHHHHTSSSEEE
T ss_pred             HHHHHHCCCEEE
Confidence            9987 6698875

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

Probab=100.00  E-value=3.7e-36  Score=221.24  Aligned_cols=92  Identities=29%  Similarity=0.342  Sum_probs=88.4

Q ss_pred             ccccEEEEEecCCCceEEEeCCCCC-EEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEc------
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAKGV-VKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRG------   95 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~G~-~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG------   95 (123)
                      +.++|+||++||||||||+||++|+ +++|+|+|++|||+++|+||||||+||++++++|+++||+.|+|+|||      
T Consensus        12 ~~~gi~hI~asfNNTivtiTD~~G~~~i~~~S~G~~gfkg~~ksTp~AA~~aa~~~~~~a~e~Gi~~v~V~vkG~gg~~~   91 (137)
T 3j20_M           12 EKWGIAHIYSSFNNTIIHITDITGAETISRWSGGMVVKADRDEPSPYAAMLAARRAAEEALEKGIVGVHIRVRAPGGSKS   91 (137)
T ss_dssp             CEEEEEEEEECSSCEEEEEEESSSCSEEEEEEGGGTCSCTTTSSSHHHHHHHHHHHHHHHHHHTEEEEEEEEECCCSSSC
T ss_pred             CcceEEEEEcCCCCEEEEEEcCCCCEEEEEEccceeeecCCccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEECCCCCCC
Confidence            4799999999999999999999995 999999999999999999999999999999999999999999999999      


Q ss_pred             --CCcCHHHHHHhh-hcCceee
Q psy13610         96 --LGPGRLKALEIG-VSSVRIN  114 (123)
Q Consensus        96 --~G~GR~~alkal-~~g~~i~  114 (123)
                        ||+||++|||+| ++|++|+
T Consensus        92 ~~pG~GresairaL~~~Gl~I~  113 (137)
T 3j20_M           92 KTPGPGAQAAIRALARAGLKIG  113 (137)
T ss_dssp             CSCCTHHHHHHHHHHHHTCEEE
T ss_pred             cCCCCcHHHHHHHHHhCCCEEE
Confidence              799999999987 7899975

>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=100.00  E-value=7.2e-37  Score=225.72  Aligned_cols=92  Identities=28%  Similarity=0.426  Sum_probs=88.1

Q ss_pred             ccccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHHH
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLK  102 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~~  102 (123)
                      ...+++||++|+||||||+||++|++++|.|+|++|||++||+||||||+||++++++|+|+||+.|+|+|||||+|||+
T Consensus        27 ~~~gi~hI~as~NNTivtiTD~~G~~i~~~SaG~~GfKg~rksTp~AA~~aa~~~~~~a~e~Gi~~v~V~vkG~G~GRea  106 (140)
T 3bbn_K           27 IPKGVIHVQASFNNTIVTVTDVRGRVVSWASAGTCGFRGTKRGTPFAAQTAAGNAIRTVVEQGMQRAEVMIKGPGLGRDA  106 (140)
T ss_dssp             CCCCEEEEEECSSCEEEEEECSSSCEEEEEETTTSSCCTTSCSSHHHHHHHHTSGGGTSTTTCCCEEEEEEESCSTTSSH
T ss_pred             ceeeEEEEEecCCCEEEEEEcCCCCEEEEEeccceeEcccccCCHHHHHHHHHHHHHHHHHhCCeEEEEEEECCCCcHHH
Confidence            35699999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhh-hcCceee
Q psy13610        103 ALEIG-VSSVRIN  114 (123)
Q Consensus       103 alkal-~~g~~i~  114 (123)
                      +||+| ++|++|+
T Consensus       107 airaL~~~Gl~I~  119 (140)
T 3bbn_K          107 ALRAIRRSGILLS  119 (140)
T ss_dssp             HHHHHHTTTCEEE
T ss_pred             HHHHHHHCCCEEE
Confidence            99987 6698875

>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=100.00  E-value=4.4e-36  Score=220.85  Aligned_cols=92  Identities=26%  Similarity=0.386  Sum_probs=88.1

Q ss_pred             ccccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCC-CCChHHHHHHHHHHHHHHHHcCCeEEEEEE--------
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNAR-KGTNIAAQAAGITIGKKALEIGVSSVRINV--------   93 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~r-K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~i--------   93 (123)
                      ..++|+||++||||||||+||++|+++.|+|+|++|||++| |+||||||+||++++++|+++||+.|+|+|        
T Consensus        12 ~~~gi~hI~asfNNTivtvTD~~G~~~~~~ssG~~gfKg~r~ksTpyAAq~aa~~~a~~a~e~Gi~~v~V~vra~gg~~~   91 (137)
T 3u5c_O           12 QVFGVARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVGITAVHVKIRATGGTRT   91 (137)
T ss_dssp             CCEEECCEEEETTEEEECCEETTSSSCCCCCBTTTTSCCSTTTTCHHHHHHHHHHHHHHHHHHTCCEEECEEECSCTTSC
T ss_pred             eeeEEEEEEccCCCEEEEEEcCCCCEEEEEeCCCcEEeCCcccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEeccCCCcc
Confidence            46899999999999999999999999999999999999999 899999999999999999999999999999        


Q ss_pred             EcCCcCHHHHHHhh-hcCceee
Q psy13610         94 RGLGPGRLKALEIG-VSSVRIN  114 (123)
Q Consensus        94 kG~G~GR~~alkal-~~g~~i~  114 (123)
                      ||||+|||+|||+| ++|++|+
T Consensus        92 kgpG~Gr~sairaL~~~Gl~I~  113 (137)
T 3u5c_O           92 KTPGPGGQAALRALARSGLRIG  113 (137)
T ss_dssp             CSCCGGGHHHHHHHHTTTCEEC
T ss_pred             cCCCcchHHHHHHHHhCCCEEE
Confidence            69999999999987 7899875

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

Probab=100.00  E-value=2.4e-33  Score=209.15  Aligned_cols=92  Identities=27%  Similarity=0.392  Sum_probs=85.6

Q ss_pred             ccccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCC-CCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcC-----
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNAR-KGTNIAAQAAGITIGKKALEIGVSSVRINVRGL-----   96 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~r-K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~-----   96 (123)
                      ...+++||++|||||||||||++|+++.|+|+|.++||+++ |+||||||+||++++++|+++||+.|+|+|||+     
T Consensus        26 ~~~gi~hI~asfNNTiVtiTD~~G~~~~~~ssgg~~~k~~r~ksTpyAAq~aa~~~a~~a~e~Gi~~v~V~vkG~gg~~~  105 (151)
T 2xzm_K           26 NVFGVCHIMATWNDTFIHVTDLSGRETLVRVTGGMKVKADREESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGVET  105 (151)
T ss_dssp             CCEEEEEEEBCSSCBCCEEECTTCCSEEEECCHHHHCSSGGGGSCHHHHHHHHHHHHHHHHHHTCCEEEEEEECCCTTSC
T ss_pred             eeeeEEEEEccCCCEEEEEECCCCCEEEEEecCcceEeCCCCcCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCCCCc
Confidence            36799999999999999999999998888888888888777 999999999999999999999999999999977     


Q ss_pred             ---CcCHHHHHHhh-hcCceee
Q psy13610         97 ---GPGRLKALEIG-VSSVRIN  114 (123)
Q Consensus        97 ---G~GR~~alkal-~~g~~i~  114 (123)
                         |+||++|||+| ++|++|+
T Consensus       106 kgpG~GresairaL~~~GlkI~  127 (151)
T 2xzm_K          106 KQPGPGAQSALRALARSGMKIG  127 (151)
T ss_dssp             CSCCSHHHHHHHHHHHTSCEEE
T ss_pred             cCCCccHHHHHHHHHHCCCEEE
Confidence               99999999987 6799986

>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=96.91  E-value=0.0066  Score=42.83  Aligned_cols=89  Identities=20%  Similarity=0.262  Sum_probs=68.0

Q ss_pred             cccEEEEEecCCCceEEEeCC-CCCEEEEEeecccccccCC--CCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCc-C
Q psy13610         24 NLPIMNIRVTKNNTILSLSDA-KGVVKLLRSCGMEGFKNAR--KGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGP-G   99 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~-~G~~l~~~S~G~~GfK~~r--K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~-G   99 (123)
                      +.|.+-|+-|.++....+.|. .|.+++..|+=-...++..  .....||..+++-++++|++.||+.+..-..|+=+ |
T Consensus        21 ~rpRL~V~rSnkhIyAQiidd~~g~tlasAST~e~~~~~~~~~~~n~~AA~~vG~llA~Ral~~GI~~vvfDrgg~~yhG  100 (116)
T 3r8s_O           21 GATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAVAERALEKGIKDVSFDRSGFQYHG  100 (116)
T ss_dssp             TCCEEEEEECSSCEEEEEECTTSSCEEEECCSSSHHHHTTCSCSSSHHHHHHHHHHHHHHHHTTTCCCCEEECTTSCSSS
T ss_pred             CCCEEEEEEeCCEEEEEEEEcCCCeEEEEEeeCchhhccccCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEecCCCcccH
Confidence            578889999999999999986 4668888888776666543  45678899999999999999999998877656433 6


Q ss_pred             HHHHHH-hhhc-Cce
Q psy13610        100 RLKALE-IGVS-SVR  112 (123)
Q Consensus       100 R~~alk-al~~-g~~  112 (123)
                      |-.++- ++|+ |++
T Consensus       101 rV~Ala~~are~Gl~  115 (116)
T 3r8s_O          101 RVQALADAAREAGLQ  115 (116)
T ss_dssp             HHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHhCCC
Confidence            755554 5543 553

>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=96.39  E-value=0.012  Score=41.41  Aligned_cols=85  Identities=21%  Similarity=0.241  Sum_probs=63.5

Q ss_pred             ccEEEEEecCCCceEEEeCCC-CCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCC-cCHHH
Q psy13610         25 LPIMNIRVTKNNTILSLSDAK-GVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLG-PGRLK  102 (123)
Q Consensus        25 ~~i~hI~st~NNTiitlTD~~-G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G-~GR~~  102 (123)
                      .+.+-|+-|.++....+.|.. |.+++..|+=-..+|   .....||+.+++-++++|++.||..+..-..|+= -||-.
T Consensus        23 rpRL~V~rSnkhiyAQiidd~~~~tlasAsT~e~~~k---~~n~~AA~~vG~llA~ra~~~GI~~vvfDrgg~~yhGrV~   99 (112)
T 3v2d_S           23 RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK---GNKTEVARQVGRALAEKALALGIKQVAFDRGPYKYHGRVK   99 (112)
T ss_dssp             CCEEEEEECSSCEEEEEEETTTTEEEEEEETTTTTCC---CCHHHHHHHHHHHHHHHHHTTTCCBCEEECTTSCSCSSTT
T ss_pred             CCEEEEEEeCCeEEEEEEecCCCeEEEEEEecchhcc---CCCHHHHHHHHHHHHHHHHHCCCCEEEEecCCCcccHHHH
Confidence            678889999999999998765 557888887766664   4556788999999999999999999876655533 26644


Q ss_pred             HH-Hhhhc-Cce
Q psy13610        103 AL-EIGVS-SVR  112 (123)
Q Consensus       103 al-kal~~-g~~  112 (123)
                      ++ .+++. |++
T Consensus       100 Ala~~are~GL~  111 (112)
T 3v2d_S          100 ALAEGAREGGLE  111 (112)
T ss_dssp             HHHHHHHHTTCB
T ss_pred             HHHHHHHHcCCC
Confidence            44 45543 554

>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=95.62  E-value=0.12  Score=39.16  Aligned_cols=92  Identities=15%  Similarity=0.122  Sum_probs=65.3

Q ss_pred             ccccEEEEEecCCCceEEEe--CCCCC-EEEEEeeccccccc-C--CCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcC
Q psy13610         23 KNLPIMNIRVTKNNTILSLS--DAKGV-VKLLRSCGMEGFKN-A--RKGTNIAAQAAGITIGKKALEIGVSSVRINVRGL   96 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlT--D~~G~-~l~~~S~G~~GfK~-~--rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~   96 (123)
                      .+.+.+-|+-|.++.+..+.  |..|. +++..|+=-.. |. -  ......||..+++-++++|++.||..+.+-..|+
T Consensus        30 ~~rpRL~V~rSnkhIyAQII~~dd~~~~tlasAsT~e~~-k~~~k~~~~N~~AA~~vG~llA~Ral~kGI~~vvfDrgg~  108 (187)
T 1vq8_N           30 SGKPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLA-EYGWEAPTGNMPSAYLTGLLAGLRAQEAGVEEAVLDIGLN  108 (187)
T ss_dssp             TCSCEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGG-GGTCCSCSSSHHHHHHHHHHHHHHHHHTTCCBCEEECTTS
T ss_pred             cCCCEEEEEEeCCcEEEEEEEecCCCCEEEEEEEccchh-ccccccCCCcHHHHHHHHHHHHHHHHHCCCCEEEEcCCCc
Confidence            35688899999999999998  55555 77777775544 31 1  2456778899999999999999999985554443


Q ss_pred             C-c--CH-HHHHHhh-hcCceeee
Q psy13610         97 G-P--GR-LKALEIG-VSSVRINV  115 (123)
Q Consensus        97 G-~--GR-~~alkal-~~g~~i~~  115 (123)
                      = -  || .++++++ -.|+++..
T Consensus       109 ~yh~GgRV~Ala~gAre~GL~fph  132 (187)
T 1vq8_N          109 SPTPGSKVFAIQEGAIDAGLDIPH  132 (187)
T ss_dssp             CCCTTCHHHHHHHHHHHTTCBCCC
T ss_pred             eeccchHHHHHHHHhhcCCEeccC
Confidence            2 1  67 4455655 45887653

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

Probab=95.58  E-value=0.042  Score=38.96  Aligned_cols=89  Identities=18%  Similarity=0.208  Sum_probs=62.3

Q ss_pred             ccccEEEEEecCCCceEEEeCCC-CCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCC-cCH
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAK-GVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLG-PGR  100 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~-G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G-~GR  100 (123)
                      .+.|.+-|+-|.++....+.|.. |.+++..|+=-..++-.......||..+++-++++|++.||..+..-..|+= -||
T Consensus        26 ~~rpRL~V~rSnkhIyAQiidd~~~~tl~sAsT~e~~~~~~~~~n~~AA~~vG~llA~Ral~~GI~~vvfDrgg~~yhgr  105 (120)
T 1ovy_A           26 TERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLDSTNNIEAAKKVGELVAKRALEKGIKQVVFDRGGYLYHGR  105 (120)
T ss_dssp             SSCCSEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTCSSCTTSHHHHHHHHHHHHHHHHHHSSSCCCCCSTTCSSCSS
T ss_pred             CCCCEEEEEEeCCeEEEEEEEcCCCEEEEEEecCchhhCcCCCCcHHHHHHHHHHHHHHHHHCCCCEEEEecCCccccHH
Confidence            35678889999999999988865 5668887775555662234667888999999999999999998655433322 245


Q ss_pred             H-HHHHhhhc-Cc
Q psy13610        101 L-KALEIGVS-SV  111 (123)
Q Consensus       101 ~-~alkal~~-g~  111 (123)
                      - +++++++. |+
T Consensus       106 V~ala~~are~GL  118 (120)
T 1ovy_A          106 VKALADAAREAGL  118 (120)
T ss_dssp             THHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCC
Confidence            3 34445543 44

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

Probab=94.33  E-value=0.072  Score=40.95  Aligned_cols=91  Identities=16%  Similarity=0.156  Sum_probs=67.4

Q ss_pred             cccEEEEEecCCCceEEEeC--CC-CCEEEEEeecccccc-c--CCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCC
Q psy13610         24 NLPIMNIRVTKNNTILSLSD--AK-GVVKLLRSCGMEGFK-N--ARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLG   97 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD--~~-G~~l~~~S~G~~GfK-~--~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G   97 (123)
                      ..+.+-|+-|.++.+..+.|  .. |.+++..|+=-...| +  .......||..++.-++++|++.||..+.+-..|+=
T Consensus        31 ~kpRL~V~rSnkhIyAQIId~d~~g~~tLasAST~El~lk~g~~~~~~N~~AA~~vG~llA~Ral~kGI~~vvfDrgg~~  110 (203)
T 3j21_O           31 GKPRLVVRKSLNHHIAQIIVYDPKGDRTLVSAHTRELIRDFGWKGHCGNTPSAYLLGLLIGYKAKQAGIEEAILDIGLHP  110 (203)
T ss_dssp             CCCEEEEEECSSCEEEEEEECCTTSCEEEEEECSTTTSSSSSCCSCTTSHHHHHHHHHHSSSSTTSSCCCCCEEECCSSC
T ss_pred             CCCEEEEEEeCCeEEEEEEEecCCCCeEEEEEEccchhhhhcccCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEecCcce
Confidence            46788899999999999996  66 567877777655422 2  124556788999999999999999999887776665


Q ss_pred             c---CHHH-HHHhh-hcCceee
Q psy13610         98 P---GRLK-ALEIG-VSSVRIN  114 (123)
Q Consensus        98 ~---GR~~-alkal-~~g~~i~  114 (123)
                      .   ||-. +++++ -.|++|-
T Consensus       111 y~~hgRV~Ala~gAre~GL~iP  132 (203)
T 3j21_O          111 PVRGSSVFAVLKGAVDAGLNVP  132 (203)
T ss_dssp             CCTTSHHHHHHHHHHHHTCCCC
T ss_pred             eccCcchhhhhhhcccCCeecc
Confidence            5   7744 55555 4588774

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

Probab=93.64  E-value=0.041  Score=40.96  Aligned_cols=89  Identities=20%  Similarity=0.222  Sum_probs=64.0

Q ss_pred             cccEEEEEecCCCceEEEeCC-CCCEEEEEeeccccccc----CCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCc
Q psy13610         24 NLPIMNIRVTKNNTILSLSDA-KGVVKLLRSCGMEGFKN----ARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGP   98 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~-~G~~l~~~S~G~~GfK~----~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~   98 (123)
                      +.+.+-|+-|.++....|.|. +|.++...|+=--.+++    .....-.||..+++.++++|++.||+.+..-..|+=+
T Consensus        64 ~rPRL~V~rSnkhIyAQvIdd~~g~tLasASTlek~lk~~l~~g~~~n~~AA~~VG~liAeRA~e~GI~~VvFDRgg~~Y  143 (161)
T 3bbo_Q           64 ERPRLCVFRSNKHLYVQVIDDSKMHTLASASTMQKSISEELDYSSSPTIEVAKKVGEVIASACLEKGITKVAFDRGGYPY  143 (161)
T ss_dssp             SCCCCEEEECSSCEEEEEECCTTSCEEEEEEHHHHHHHHCCTTCCSSSHHHHHHHHHHSSSHHHHTSSCCCCCCCSSSCS
T ss_pred             CCCEEEEEecCCeEEEEEEECCCCEEEEEEeCCcHHHHhhccccCCCCHHHHHHHHHHHHHHHHHCCCCEEEEeCCCCcc
Confidence            467899999999999998755 56688888874333332    2356778999999999999999999998665444332


Q ss_pred             -CHHHHHH-hhhc-Cce
Q psy13610         99 -GRLKALE-IGVS-SVR  112 (123)
Q Consensus        99 -GR~~alk-al~~-g~~  112 (123)
                       ||-.++- ++|+ |++
T Consensus       144 hGRVkAladaaRe~GL~  160 (161)
T 3bbo_Q          144 HGRVKALADAAREKGLQ  160 (161)
T ss_dssp             SSTTHHHHHHHTTTTCC
T ss_pred             hHHHHHHHHHHHHhCCc
Confidence             6755444 5544 554

>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=92.96  E-value=0.068  Score=37.59  Aligned_cols=85  Identities=14%  Similarity=0.141  Sum_probs=58.4

Q ss_pred             cccEEEEEecCCCceEEEeCCCCC-EEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCC-cCHH
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAKGV-VKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLG-PGRL  101 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~G~-~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G-~GR~  101 (123)
                      +.|.+-|+-|.++....+.|..+. +++..|+=-  +  .......||..+++-++++|++.||..+..-..|+= -||-
T Consensus        25 ~rpRL~V~rSnkhIyAQiidd~~~~tl~sAST~e--l--~~~~n~~AA~~vG~llA~Ral~~GI~~vvfDrgg~~yhgrV  100 (114)
T 2zjr_L           25 GRLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAA--L--KSGNKTDTAAAVGKALAAAAAEKGIKQVVFDRGSYKYHGRV  100 (114)
T ss_dssp             CSEEECCCTTSSCCCCCEEETTTTEECCCCCSCS--C--CTTCSSSSHHHHHHHHHHHHHTTCCCCCEECCCSSCSCSHH
T ss_pred             CCCEEEEEEeCCeEEEEEEEcCCCEEEEEEEchH--h--cCCCCHHHHHHHHHHHHHHHHHCCCCEEEEecCCccccHHH
Confidence            456788899999998888877665 666555544  3  234556788999999999999999999876655543 3664


Q ss_pred             H-HHHhhhc-Cce
Q psy13610        102 K-ALEIGVS-SVR  112 (123)
Q Consensus       102 ~-alkal~~-g~~  112 (123)
                      . ++++++. |++
T Consensus       101 ~Ala~~are~GL~  113 (114)
T 2zjr_L          101 KALADAAREGGLD  113 (114)
T ss_dssp             HHHHHHHHHHC--
T ss_pred             HHHHHHHHHhCCc
Confidence            4 4445543 654

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

Probab=86.90  E-value=4.5  Score=32.62  Aligned_cols=98  Identities=17%  Similarity=0.191  Sum_probs=66.5

Q ss_pred             ccCCee-c-ccccEEEEEecCCCceEEEeCCC--CC-EEEEEeecccc---cccCCCCChHHHHHHHHHHHHHHHHc---
Q psy13610         16 IFDGLK-F-KNLPIMNIRVTKNNTILSLSDAK--GV-VKLLRSCGMEG---FKNARKGTNIAAQAAGITIGKKALEI---   84 (123)
Q Consensus        16 ~~~g~~-~-~~~~i~hI~st~NNTiitlTD~~--G~-~l~~~S~G~~G---fK~~rK~T~~Aa~~aa~~v~~~a~~~---   84 (123)
                      |.+++. | .+.+.+-|+-|..+.+.-+.|..  |. +++..|+=-+.   .+++ ....-||+.++.-+++++.+.   
T Consensus        37 i~qdknkynt~kpRLvVrrSNk~I~aQII~~~~~gd~tLasAsS~El~kyg~k~g-~tN~aAAy~tGlLlArRal~k~~l  115 (297)
T 2zkr_n           37 VIQDKNKYNTPKYRMIVRVTNRDIICQIAYARIEGDMIVCARYAHELPKYGVKVG-LTNYAAAYCTGLLLARRLLNRFGM  115 (297)
T ss_dssp             HCCCSTTCSCCSEEEEEEEETTEEEEEEEECCSSSCEEEEEEEGGGGGGTCCCSC-SSSHHHHHHHHHHHHHHHHCCCSC
T ss_pred             HhcCCcccCCCCceEEEEEecCcEEEEEEeccCCCCEEEEEeecCcccccccccC-CCcHHHHHHHHHHHHHHHHHhhcc
Confidence            445553 3 25677889999999999999977  54 66666664433   3322 345677899999999999988   


Q ss_pred             ------------------------CCeEEEEEEEcCCc---CH-HHHHHhh-hcCceee
Q psy13610         85 ------------------------GVSSVRINVRGLGP---GR-LKALEIG-VSSVRIN  114 (123)
Q Consensus        85 ------------------------Gi~~i~V~ikG~G~---GR-~~alkal-~~g~~i~  114 (123)
                                              |+..+-+=+-|.=.   || .++++++ -.|+.|-
T Consensus       116 d~~y~G~~e~~g~~~~ve~~~~~~gi~~vvfDrGl~ryttggRVfa~akGArDgGL~~P  174 (297)
T 2zkr_n          116 DKIYEGQVEVTGDEYNVESIDGQPGAFTCYLDAGLARTTTGNKVFGALKGAVDGGLSIP  174 (297)
T ss_dssp             CCCCSSCCSSSSCCCCCSSSCSSSCCCBEEEECTTSCCCTTCHHHHHHHHHHHTTCBCC
T ss_pred             chhhcCccccccccccccccccCCCceEEEEecCCcccCCCchHHHHHHHHHhcCcccC
Confidence                                    77877666655444   55 4466654 5578764

>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=82.13  E-value=3.9  Score=33.02  Aligned_cols=61  Identities=18%  Similarity=0.044  Sum_probs=46.5

Q ss_pred             cccEEEEEecCCCceEEEeCC--CC-CEEEEEeecccccccC--CCCChHHHHHHHHHHHHHHHHc
Q psy13610         24 NLPIMNIRVTKNNTILSLSDA--KG-VVKLLRSCGMEGFKNA--RKGTNIAAQAAGITIGKKALEI   84 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~--~G-~~l~~~S~G~~GfK~~--rK~T~~Aa~~aa~~v~~~a~~~   84 (123)
                      +.+.+-|+-|..++++-+.|.  .| .+++..|+=-....+-  ......||..++.-++++|++.
T Consensus        47 pkpRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~~~g~k~~~~N~~AAy~vG~LiAeRAl~k  112 (301)
T 4a17_M           47 PKYRLVARATNTRIIAQIVYATLKCDRVLCAADSYELKRFGVSTGLASYAAAYATGLLLARRLLKQ  112 (301)
T ss_dssp             CCEEEEEEECSSCEEEEEEEECSSCEEEEEEEETTHHHHTTCCSCTTSHHHHHHHHHHHHHHHHHH
T ss_pred             CCceEEEEEcCCeEEEEEeecCCCCCEEEEEEeeccchhccccCCCCcHHHHHHHHHHHHHHHHHh
Confidence            567888999999999999986  56 6787777755433332  2345678899999999999987

---

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	123
d2qalk1	117	c.55.4.1 (K:12-128) Ribosomal protein S11 {Escheri	2e-17
d2uubk1	119	c.55.4.1 (K:11-129) Ribosomal protein S11 {Thermus	3e-16
d1ovya_	97	c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacill	0.003

>d2qalk1 c.55.4.1 (K:12-128) Ribosomal protein S11 {Escherichia coli [TaxId: 562]} Length = 117

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]

 Score = 70.3 bits (172), Expect = 2e-17
 Identities = 26/84 (30%), Positives = 44/84 (52%), Gaps = 2/84 (2%)

Query: 23  KNLP--IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKK 80
           K +   + +I  + NNTI++++D +G      + G  GF+ +RK T  AAQ A       
Sbjct: 2   KQVSDGVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFAAQVAAERCADA 61

Query: 81  ALEIGVSSVRINVRGLGPGRLKAL 104
             E G+ ++ + V+G GPGR   +
Sbjct: 62  VKEYGIKNLEVMVKGPGPGRESTI 85

>d2uubk1 c.55.4.1 (K:11-129) Ribosomal protein S11 {Thermus thermophilus [TaxId: 274]} Length = 119

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]

 Score = 66.8 bits (163), Expect = 3e-16
 Identities = 32/84 (38%), Positives = 48/84 (57%), Gaps = 2/84 (2%)

Query: 23  KNLP--IMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKK 80
           + +      I  + NNTI++++D  G      S G+ G+K +RKGT  AAQ A +   KK
Sbjct: 2   RQVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKK 61

Query: 81  ALEIGVSSVRINVRGLGPGRLKAL 104
           A+  G+ SV + VRG G GR +A+
Sbjct: 62  AMAYGMQSVDVIVRGTGAGREQAI 85

>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 = 32.5 bits (74), Expect = 0.003
 Identities = 19/85 (22%), Positives = 36/85 (42%), Gaps = 2/85 (2%)

Query: 26  PIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNI-AAQAAGITIGKKALEI 84
           P +++  +  +    + D      ++ +  ++         NI AA+  G  + K+ALE 
Sbjct: 6   PRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLDSTNNIEAAKKVGELVAKRALEK 65

Query: 85  GVSSVRINVRGLGP-GRLKALEIGV 108
           G+  V  +  G    GR+KAL    
Sbjct: 66  GIKQVVFDRGGYLYHGRVKALADAA 90

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	123
d2uubk1	119	Ribosomal protein S11 {Thermus thermophilus [TaxId	100.0
d2qalk1	117	Ribosomal protein S11 {Escherichia coli [TaxId: 56	100.0
d1ovya_	97	Ribosomal protein L18 (L18p) {Bacillus stearotherm	96.76
d1vqon1	186	Ribosomal protein L18 (L18p) {Archaeon Haloarcula	96.52
d2gycm1	113	Ribosomal protein L18 (L18p) {Escherichia coli [Ta	95.61
d2j01s1	86	Ribosomal protein L18 (L18p) {Thermus thermophilus	95.24
d2zjrl1	104	Ribosomal protein L18 (L18p) {Deinococcus radiodur	86.4

>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=100.00  E-value=7.7e-36  Score=212.86  Aligned_cols=92  Identities=36%  Similarity=0.487  Sum_probs=88.3

Q ss_pred             ccccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHHH
Q psy13610         23 KNLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLK  102 (123)
Q Consensus        23 ~~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~~  102 (123)
                      ...+++||++|+|||||||||++|++++|+|+|++|||++||+||||||++++.++++++++|++.|+|+++|+|+||++
T Consensus         4 ~~~GivhI~~t~NNT~itlTD~~Gn~i~~~S~G~~gfkg~rk~t~~Aa~~~a~~~~~k~~~~g~~~v~v~~kG~G~gR~~   83 (119)
T d2uubk1           4 VASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRGTGAGREQ   83 (119)
T ss_dssp             CSEEEEEEEECSSCEEEEEECTTSCEEEEEETTTSSCCSGGGGSHHHHHHHHHHHHHHHHTTTCCEEEEEEECCCTTHHH
T ss_pred             ccccEEEEEeccCCEEEEEECCCCCEEEEEecccceeccccccchhHHHHHHHHHHHHHHHcCCcEEEEEEEcCCCChHH
Confidence            35689999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhh-hcCceee
Q psy13610        103 ALEIG-VSSVRIN  114 (123)
Q Consensus       103 alkal-~~g~~i~  114 (123)
                      +||+| ++|++|.
T Consensus        84 ~ik~l~~~g~kI~   96 (119)
T d2uubk1          84 AIRALQASGLQVK   96 (119)
T ss_dssp             HHHHHHTSSSEEE
T ss_pred             HHHHHHHCCCEEE
Confidence            99987 7788875

>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=100.00  E-value=5.7e-36  Score=213.10  Aligned_cols=91  Identities=30%  Similarity=0.456  Sum_probs=87.4

Q ss_pred             cccEEEEEecCCCceEEEeCCCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCcCHHHH
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGPGRLKA  103 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~GR~~a  103 (123)
                      ..||+||++|+|||||||||++|++++|.|+|++|||+++|+||||||++|+.++++++++||+.|+|+++|+|+||+++
T Consensus         5 ~~Gi~hI~~t~NNTiitlTD~~G~~~~~~S~G~~gfkg~~K~t~~Aa~~~a~~~~~~~~~~gi~~v~V~~kG~G~GR~~a   84 (117)
T d2qalk1           5 SDGVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFAAQVAAERCADAVKEYGIKNLEVMVKGPGPGREST   84 (117)
T ss_dssp             CEEEEEEECCSSCCEEEEEETTSCEEEEEETTTSSCCHHHHTSHHHHHHHHHHHHHHHGGGTCCEEEEEEECCSTTTTHH
T ss_pred             cceEEEEEecCCCEEEEEECCCCCEEEEEeccccccccccccchHHHHHHHHHHHHHHHHcCCcEEEEEEeCCCCchHHH
Confidence            56899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhh-hcCceee
Q psy13610        104 LEIG-VSSVRIN  114 (123)
Q Consensus       104 lkal-~~g~~i~  114 (123)
                      ||++ .+|++|.
T Consensus        85 ir~l~~~gl~I~   96 (117)
T d2qalk1          85 IRALNAAGFRIT   96 (117)
T ss_dssp             HHHHHHTTCEEE
T ss_pred             HHHHHhCCCEEE
Confidence            9987 6788764

>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=96.76  E-value=0.0023  Score=42.19  Aligned_cols=89  Identities=22%  Similarity=0.259  Sum_probs=63.9

Q ss_pred             cccEEEEEecCCCceEEEeCC-CCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCc-CHH
Q psy13610         24 NLPIMNIRVTKNNTILSLSDA-KGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRGLGP-GRL  101 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~-~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG~G~-GR~  101 (123)
                      +.|.+-|+-|.+|..+.+.|. +|.+++..|+=.--++......-.||..+++.++++|+++||+.+..--.|+=+ ||-
T Consensus         4 ~rpRL~V~kSnkhiyaQlIdd~~~~tl~s~St~~k~~~~~~~~n~~aA~~vG~~~a~kak~~gi~~vvfDr~g~~yhGrv   83 (97)
T d1ovya_           4 ERPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLDSTNNIEAAKKVGELVAKRALEKGIKQVVFDRGGYLYHGRV   83 (97)
T ss_dssp             SCCSEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTCSSCTTSHHHHHHHHHHHHHHHHHHSSSCCCCCSTTCSSCSST
T ss_pred             CCCEEEEEEeCCeEEEEEEEcCCCeEEEEecchhhhhcccccCcHHHHHHHHHHHHHHHHHcCCCEEEEcCCCCcchHHH
Confidence            556788999999999999865 788888888755455544456778999999999999999999977443333222 664


Q ss_pred             HHH-Hhhhc-Cce
Q psy13610        102 KAL-EIGVS-SVR  112 (123)
Q Consensus       102 ~al-kal~~-g~~  112 (123)
                      .++ .++|+ |++
T Consensus        84 ka~a~~~R~~Gl~   96 (97)
T d1ovya_          84 KALADAAREAGLE   96 (97)
T ss_dssp             HHHHHHHHHHHCC
T ss_pred             HHHHHHHHHhCCC
Confidence            443 35553 553

>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=96.52  E-value=0.012  Score=42.92  Aligned_cols=92  Identities=16%  Similarity=0.119  Sum_probs=65.8

Q ss_pred             cccEEEEEecCCCceEEEe--CCCCC-EEEEEeecccccccCC--CCChHHHHHHHHHHHHHHHHcCCeEEEEE--EEcC
Q psy13610         24 NLPIMNIRVTKNNTILSLS--DAKGV-VKLLRSCGMEGFKNAR--KGTNIAAQAAGITIGKKALEIGVSSVRIN--VRGL   96 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlT--D~~G~-~l~~~S~G~~GfK~~r--K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~--ikG~   96 (123)
                      ..+-+-|+-|.+|.++.+.  |.+|. +++..|+=.+-.++-+  ....-||+.++.-++++|++.||+.+.+-  ++|+
T Consensus        30 ~kpRLvVrrSNk~IyaQII~~d~~gd~vlaSAsS~el~k~g~k~~~~N~~AAy~~G~liA~ra~~~gi~~vvfD~G~~~~  109 (186)
T d1vqon1          30 GKPRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLAEYGWEAPTGNMPSAYLTGLLAGLRAQEAGVEEAVLDIGLNSP  109 (186)
T ss_dssp             CSCEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGGGGSCCSCSSSHHHHHHHHHHHHHHHHHTTCCBCEEECTTSCC
T ss_pred             CCCeEEEEEeCCceEEEEEEecCCCCEEEEEEecchhhhhccccCccHHHHHHHhHHHHHHHHHhhcccceEEeeCCCCC
Confidence            4578889999999999998  55555 5566555554444433  23456889999999999999999988776  4455


Q ss_pred             Cc-CHHH-HHHh-hhcCceeee
Q psy13610         97 GP-GRLK-ALEI-GVSSVRINV  115 (123)
Q Consensus        97 G~-GR~~-alka-l~~g~~i~~  115 (123)
                      -. ||-. ++++ .-+|++|-.
T Consensus       110 ~yhgRV~A~akgard~GL~Iph  131 (186)
T d1vqon1         110 TPGSKVFAIQEGAIDAGLDIPH  131 (186)
T ss_dssp             CTTCHHHHHHHHHHHTTCBCCC
T ss_pred             CccchHHHHHHHHHhcCccCCC
Confidence            44 6644 5565 466999865

>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=95.61  E-value=0.015  Score=39.14  Aligned_cols=83  Identities=22%  Similarity=0.288  Sum_probs=60.5

Q ss_pred             cEEEEEecCCCceEEEeCCC-CCEEEEEeecccccccCC--CCChHHHHHHHHHHHHHHHHcCCeEEEEEEEc-CC-cCH
Q psy13610         26 PIMNIRVTKNNTILSLSDAK-GVVKLLRSCGMEGFKNAR--KGTNIAAQAAGITIGKKALEIGVSSVRINVRG-LG-PGR  100 (123)
Q Consensus        26 ~i~hI~st~NNTiitlTD~~-G~~l~~~S~G~~GfK~~r--K~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG-~G-~GR  100 (123)
                      +-+-|+-|.+|....+.|.. |.+++..|+=.-.++...  ...-.||..+++.++++|++.||+.+..- || += -||
T Consensus        22 pRL~V~rSnkhiyaQiIdd~~~~tl~saST~~k~~~~~~~~~~n~~aA~~vG~~la~ra~~~gI~~vvfD-R~g~~YhGr  100 (113)
T d2gycm1          22 TRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAVAERALEKGIKDVSFD-RSGFQYHGR  100 (113)
T ss_dssp             CCCBEEECSSCEEEEEEETTTTEEEEEEETTGGGGTSCCSCSSSHHHHHHHHHHHHHHHHHHTCCCCCCB-CCSCCSSSH
T ss_pred             CeEEEEEeCCcEEEEEEEccCCcEEEEeeehhhhhhhhcCCCcchHHHHHHHHHHHHHHHHCCCCEEEEC-CCCCccchH
Confidence            56778999999999877655 567777777555666554  35578999999999999999999987443 44 22 277


Q ss_pred             HHHHH-hhhc
Q psy13610        101 LKALE-IGVS  109 (123)
Q Consensus       101 ~~alk-al~~  109 (123)
                      -.++- ++|+
T Consensus       101 Vka~ad~aRe  110 (113)
T d2gycm1         101 VQALADAARE  110 (113)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            66665 5544

>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=95.24  E-value=0.02  Score=36.85  Aligned_cols=62  Identities=21%  Similarity=0.249  Sum_probs=46.2

Q ss_pred             cEEEEEecCCCceEEEeC-CCCCEEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEE
Q psy13610         26 PIMNIRVTKNNTILSLSD-AKGVVKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVR   90 (123)
Q Consensus        26 ~i~hI~st~NNTiitlTD-~~G~~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~   90 (123)
                      +.+-|+-|.+|....+.| .+|.+++..|+=...+|   .....+|..+++.++++++++||+.|.
T Consensus         2 ~RL~V~rSnk~iyaQiIDd~~~~tl~s~St~~k~~k---~~~~~~A~~vG~~la~~ak~~gI~~v~   64 (86)
T d2j01s1           2 LRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK---GNKTEVARQVGRALAEKALALGIKQVA   64 (86)
T ss_dssp             CEEECCBCSSCBCEEEEETTTTEEEEEECSTTTCCC---SCHHHHHHHHHHHHHHHHHHTSCCCCB
T ss_pred             cEEEEEEcCCeEEEEEEEcCCCeEEEEEeccchhhc---CCCHHHHHHHHHHHHHHHHHCCCCEEE
Confidence            346678888888888865 45667776665433333   345688999999999999999999773

>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=86.40  E-value=0.15  Score=33.39  Aligned_cols=77  Identities=22%  Similarity=0.248  Sum_probs=51.7

Q ss_pred             cccEEEEEecCCCceEEEeCCCCC-EEEEEeecccccccCCCCChHHHHHHHHHHHHHHHHcCCeEEEEEEEc-CC-cCH
Q psy13610         24 NLPIMNIRVTKNNTILSLSDAKGV-VKLLRSCGMEGFKNARKGTNIAAQAAGITIGKKALEIGVSSVRINVRG-LG-PGR  100 (123)
Q Consensus        24 ~~~i~hI~st~NNTiitlTD~~G~-~l~~~S~G~~GfK~~rK~T~~Aa~~aa~~v~~~a~~~Gi~~i~V~ikG-~G-~GR  100 (123)
                      +.+-|-|+-|.+|....|.|..+. +++..|+  ...+.  .....+|..+++.+++++++.||+.| +.=|| += -||
T Consensus        18 ~rpRL~V~rSnkhiyaQiIDd~~~~tl~s~St--~~~~~--~~~~~~a~~vG~~ia~~a~~kgi~~v-~FDR~g~~YHGr   92 (104)
T d2zjrl1          18 GRLRLSVYRSSKHIYAQIIDDSRGQTLAAASS--AALKS--GNKTDTAAAVGKALAAAAAEKGIKQV-VFDRGSYKYHGR   92 (104)
T ss_dssp             CSEEECCCTTSSCCCCCEEETTTTEECCCCCS--CSCCT--TCSSSSHHHHHHHHHHHHHTTCCCCC-EECCCSSCSCSH
T ss_pred             CCcEEEEEEccCeeEEEEEecCCCeEEEeecc--ccccc--cchhhHHHHHHHHHHHHHHHCCCCEE-EECCCCCcchhH
Confidence            346788899999988888776654 5555554  33222  23455667799999999999999987 33344 22 377


Q ss_pred             HHHHH
Q psy13610        101 LKALE  105 (123)
Q Consensus       101 ~~alk  105 (123)
                      -.++-
T Consensus        93 vka~a   97 (104)
T d2zjrl1          93 VKALA   97 (104)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55554