Citrus Sinensis ID: 043606

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-
Protein Sequence
ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL
Secondary Structure (PSIPRED)
ccEEEEEccccEEcccccccHHHHHHHHHHHHHHHHHccccEEEEEEEEccccccccccccHHHHHHHHHHcccEEcEEEEcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEcccEEEccccccccHHHHHHHHHHHHHHHHHccccEEEEEEEccccccccccccHHHHHHHHHHHcccEEEEEEccccccccccccccccccccc
Coil and Loop (DISEMBL)
etleritggmkvkadrdesspYAAMLAAQDVSQRCKERGITALHIKLRatggnktktpgpgAQSALRALARSGmkigriedvtpiptdstrrkggrrgrrl
Flexible Loop (DISEMBL)
etleritggmkvkadrdesspYAAMLAAQDVSQRCKERGITALHIklratggnktktpgpgaQSALRALARsgmkigriedvtpiptdstrrkggrrgrrl
Low Complexity Region (SEG)
ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAtggnktktpgpgAQSALRALARSGMKIGRIEDVTPIPTDSTrrkggrrgrrL
Disordered region (IsUnstruct)
*************************************RGITALHIKL******************************************************
Disordered Region (DISOPRED)
ETLERIT**************YAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPIPTDST***********
Disordered Region (DISEMBL)
******************SSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPIPT**************
Disordered Region (DISPRO)
ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPIP***************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL
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	101	2.2.26 [Sep-21-2011]
Q54EG3	152	40S ribosomal protein S14	yes	no	1.0	0.664	0.851	2e-44
P19950	149	40S ribosomal protein S14	N/A	no	0.891	0.604	0.955	6e-44
P42036	150	40S ribosomal protein S14	yes	no	0.891	0.6	0.944	9e-44
Q9CAX6	150	40S ribosomal protein S14	yes	no	0.891	0.6	0.944	9e-44
Q9SIH0	150	40S ribosomal protein S14	yes	no	0.891	0.6	0.944	9e-44
P19951	150	40S ribosomal protein S14	N/A	no	0.891	0.6	0.944	2e-43
P46295	153	40S ribosomal protein S14	N/A	no	0.891	0.588	0.911	1e-42
P62264	151	40S ribosomal protein S14	yes	no	0.891	0.596	0.922	1e-42
P62263	151	40S ribosomal protein S14	yes	no	0.891	0.596	0.922	1e-42
P62265	151	40S ribosomal protein S14	yes	no	0.891	0.596	0.922	1e-42

>sp|Q54EG3|RS14_DICDI 40S ribosomal protein S14 OS=Dictyostelium discoideum GN=rps14 PE=3 SV=1

 Score =  177 bits (448), Expect = 2e-44,   Method: Compositional matrix adjust.
 Identities = 86/101 (85%), Positives = 93/101 (92%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ R+TGGMKVK DRDESSPYAA +AAQDV+ RCKE G+TALHIKLRATGGN +KTPGP
Sbjct: 52  ETIVRVTGGMKVKTDRDESSPYAATMAAQDVALRCKELGVTALHIKLRATGGNGSKTPGP 111

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
           GAQSALRALARSGM+IGRIEDVTPIPTDSTRRK G RGRRL
Sbjct: 112 GAQSALRALARSGMRIGRIEDVTPIPTDSTRRKSGHRGRRL 152

Dictyostelium discoideum (taxid: 44689)

>sp|P19950|RS141_MAIZE 40S ribosomal protein S14 OS=Zea mays PE=3 SV=1

 Score =  175 bits (444), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 86/90 (95%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRATGGNKTKTPGP
Sbjct: 49  ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGP 108

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGMKIGRIEDVTP+PTDST
Sbjct: 109 GAQSALRALARSGMKIGRIEDVTPVPTDST 138

Zea mays (taxid: 4577)

>sp|P42036|RS143_ARATH 40S ribosomal protein S14-3 OS=Arabidopsis thaliana GN=RPS14C PE=2 SV=2

 Score =  175 bits (443), Expect = 9e-44,   Method: Compositional matrix adjust.
 Identities = 85/90 (94%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITA+H+KLRATGGNKTKTPGP
Sbjct: 50  ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITAIHVKLRATGGNKTKTPGP 109

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGMKIGRIEDVTPIPTDST
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPIPTDST 139

Arabidopsis thaliana (taxid: 3702)

>sp|Q9CAX6|RS142_ARATH 40S ribosomal protein S14-2 OS=Arabidopsis thaliana GN=RPS14B PE=1 SV=1

 Score =  175 bits (443), Expect = 9e-44,   Method: Compositional matrix adjust.
 Identities = 85/90 (94%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITA+H+KLRATGGNKTKTPGP
Sbjct: 50  ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITAMHVKLRATGGNKTKTPGP 109

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGMKIGRIEDVTPIPTDST
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPIPTDST 139

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIH0|RS141_ARATH 40S ribosomal protein S14-1 OS=Arabidopsis thaliana GN=RPS14A PE=1 SV=1

 Score =  175 bits (443), Expect = 9e-44,   Method: Compositional matrix adjust.
 Identities = 85/90 (94%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITA+H+KLRATGGNKTKTPGP
Sbjct: 50  ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITAMHVKLRATGGNKTKTPGP 109

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGMKIGRIEDVTPIPTDST
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPIPTDST 139

Arabidopsis thaliana (taxid: 3702)

>sp|P19951|RS142_MAIZE 40S ribosomal protein S14 OS=Zea mays PE=3 SV=1

 Score =  174 bits (441), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 85/90 (94%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLA+QDV+QRCKE GITALHIKLRATGGNKTKTPGP
Sbjct: 50  ETLVRITGGMKVKADRDESSPYAAMLASQDVAQRCKELGITALHIKLRATGGNKTKTPGP 109

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGMKIGRIEDVTP+PTDST
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPVPTDST 139

Zea mays (taxid: 4577)

>sp|P46295|RS14_CHLRE 40S ribosomal protein S14 OS=Chlamydomonas reinhardtii GN=RPS14 PE=3 SV=1

 Score =  171 bits (434), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 82/90 (91%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+Q+CKE GITALHIKLRATGGN+TKTPGP
Sbjct: 53  ETISRVTGGMKVKADRDESSPYAAMLAAQDVAQKCKELGITALHIKLRATGGNRTKTPGP 112

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALAR+GMKIGRIEDVTPIPTDST
Sbjct: 113 GAQSALRALARAGMKIGRIEDVTPIPTDST 142

Chlamydomonas reinhardtii (taxid: 3055)

>sp|P62264|RS14_MOUSE 40S ribosomal protein S14 OS=Mus musculus GN=Rps14 PE=2 SV=3

 Score =  171 bits (433), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 83/90 (92%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRATGGN+TKTPGP
Sbjct: 51  ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct: 111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

Mus musculus (taxid: 10090)

>sp|P62263|RS14_HUMAN 40S ribosomal protein S14 OS=Homo sapiens GN=RPS14 PE=1 SV=3

 Score =  171 bits (433), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 83/90 (92%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRATGGN+TKTPGP
Sbjct: 51  ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct: 111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

Homo sapiens (taxid: 9606)

>sp|P62265|RS14_CRIGR 40S ribosomal protein S14 OS=Cricetulus griseus GN=RPS14 PE=2 SV=3

 Score =  171 bits (433), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 83/90 (92%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRATGGN+TKTPGP
Sbjct: 51  ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct: 111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

Cricetulus griseus (taxid: 10029)

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	101
118488611	150	unknown [Populus trichocarpa]	1.0	0.673	0.980	1e-48
224106672	150	predicted protein [Populus trichocarpa]	1.0	0.673	0.980	1e-48
118481419	150	unknown [Populus trichocarpa]	1.0	0.673	0.980	1e-48
194696114	141	unknown [Zea mays]	0.910	0.652	0.956	3e-43
66802868	152	40S ribosomal protein S14 [Dictyostelium	1.0	0.664	0.851	8e-43
449459348	173	PREDICTED: 40S ribosomal protein S14-2-l	0.891	0.520	0.966	9e-43
449516992	173	PREDICTED: 40S ribosomal protein S14-2-l	0.891	0.520	0.966	1e-42
297740678	689	unnamed protein product [Vitis vinifera]	0.891	0.130	0.955	1e-42
188572393	144	putative 40S ribosomal protein RPS14 [No	0.940	0.659	0.894	1e-42
296084888	191	unnamed protein product [Vitis vinifera]	0.891	0.471	0.955	2e-42

>gi|118488611|gb|ABK96118.1| unknown [Populus trichocarpa]

 Score =  196 bits (498), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 99/101 (98%), Positives = 99/101 (98%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDVSQRCKE GITALHIKLRATGGNKTKTPGP
Sbjct: 50  ETLVRITGGMKVKADRDESSPYAAMLAAQDVSQRCKELGITALHIKLRATGGNKTKTPGP 109

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
           GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 150

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224106672|ref|XP_002314245.1| predicted protein [Populus trichocarpa] gi|118483965|gb|ABK93870.1| unknown [Populus trichocarpa] gi|222850653|gb|EEE88200.1| predicted protein [Populus trichocarpa]

 Score =  196 bits (498), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 99/101 (98%), Positives = 99/101 (98%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDVSQRCKE GITALHIKLRATGGNKTKTPGP
Sbjct: 50  ETLVRITGGMKVKADRDESSPYAAMLAAQDVSQRCKELGITALHIKLRATGGNKTKTPGP 109

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
           GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 150

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|118481419|gb|ABK92652.1| unknown [Populus trichocarpa]

 Score =  196 bits (498), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 99/101 (98%), Positives = 99/101 (98%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDVSQRCKE GITALHIKLRATGGNKTKTPGP
Sbjct: 50  ETLVRITGGMKVKADRDESSPYAAMLAAQDVSQRCKELGITALHIKLRATGGNKTKTPGP 109

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
           GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 150

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|194696114|gb|ACF82141.1| unknown [Zea mays]

 Score =  178 bits (452), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 88/92 (95%), Positives = 90/92 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRATGGNKTKTPGP
Sbjct: 50  ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGP 109

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRR 92
           GAQSALRALARSGMKIGRIEDVTP+PTDSTRR
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPVPTDSTRR 141

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|66802868|ref|XP_635277.1| 40S ribosomal protein S14 [Dictyostelium discoideum AX4] gi|74896814|sp|Q54EG3.1|RS14_DICDI RecName: Full=40S ribosomal protein S14 gi|60463562|gb|EAL61747.1| 40S ribosomal protein S14 [Dictyostelium discoideum AX4]

 Score =  177 bits (448), Expect = 8e-43,   Method: Compositional matrix adjust.
 Identities = 86/101 (85%), Positives = 93/101 (92%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ R+TGGMKVK DRDESSPYAA +AAQDV+ RCKE G+TALHIKLRATGGN +KTPGP
Sbjct: 52  ETIVRVTGGMKVKTDRDESSPYAATMAAQDVALRCKELGVTALHIKLRATGGNGSKTPGP 111

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
           GAQSALRALARSGM+IGRIEDVTPIPTDSTRRK G RGRRL
Sbjct: 112 GAQSALRALARSGMRIGRIEDVTPIPTDSTRRKSGHRGRRL 152

Source: Dictyostelium discoideum AX4

Species: Dictyostelium discoideum

Genus: Dictyostelium

Order: Dictyosteliida

Superkingdom: Eukaryota

>gi|449459348|ref|XP_004147408.1| PREDICTED: 40S ribosomal protein S14-2-like isoform 1 [Cucumis sativus]

 Score =  177 bits (448), Expect = 9e-43,   Method: Compositional matrix adjust.
 Identities = 87/90 (96%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDVSQRCKE GITALHIKLRATGGNKTKTPGP
Sbjct: 73  ETLVRITGGMKVKADRDESSPYAAMLAAQDVSQRCKELGITALHIKLRATGGNKTKTPGP 132

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGM+IGRIEDVTPIPTDST
Sbjct: 133 GAQSALRALARSGMRIGRIEDVTPIPTDST 162

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449516992|ref|XP_004165530.1| PREDICTED: 40S ribosomal protein S14-2-like isoform 1 [Cucumis sativus]

 Score =  177 bits (448), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 87/90 (96%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDVSQRCKE GITALHIKLRATGGNKTKTPGP
Sbjct: 73  ETLVRITGGMKVKADRDESSPYAAMLAAQDVSQRCKELGITALHIKLRATGGNKTKTPGP 132

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGM+IGRIEDVTPIPTDST
Sbjct: 133 GAQSALRALARSGMRIGRIEDVTPIPTDST 162

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297740678|emb|CBI30860.3| unnamed protein product [Vitis vinifera]

 Score =  176 bits (447), Expect = 1e-42,   Method: Composition-based stats.
 Identities = 86/90 (95%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRATGGNKTKTPGP
Sbjct: 589 ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGP 648

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGM+IGRIEDVTPIPTDST
Sbjct: 649 GAQSALRALARSGMRIGRIEDVTPIPTDST 678

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|188572393|gb|ACD65103.1| putative 40S ribosomal protein RPS14 [Novocrania anomala]

 Score =  176 bits (447), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 85/95 (89%), Positives = 92/95 (96%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ R+TGGMKVKADRDE+SPYAAMLAAQDV++RCK  GITALHIKLRATGGN+TKTPGP
Sbjct: 50  ETIARVTGGMKVKADRDEASPYAAMLAAQDVAERCKTLGITALHIKLRATGGNRTKTPGP 109

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGG 95
           GAQSALRALARSGMKIGRIEDVTPIP+DSTRRKGG
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPIPSDSTRRKGG 144

Source: Novocrania anomala

Species: Novocrania anomala

Genus: Novocrania

Family: Craniidae

Order: Craniida

Class: Craniata

Phylum: Brachiopoda

Superkingdom: Eukaryota

>gi|296084888|emb|CBI28297.3| unnamed protein product [Vitis vinifera]

 Score =  176 bits (446), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 86/90 (95%), Positives = 88/90 (97%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL RITGGMKVKADRDESSPYAAMLAAQDVSQRCKE G+TALHIKLRATGGNKTKTPGP
Sbjct: 91  ETLVRITGGMKVKADRDESSPYAAMLAAQDVSQRCKELGVTALHIKLRATGGNKTKTPGP 150

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQSALRALARSGM+IGRIEDVTPIPTDST
Sbjct: 151 GAQSALRALARSGMRIGRIEDVTPIPTDST 180

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	101
TAIR|locus:2080692	150	AT3G11510 [Arabidopsis thalian	0.891	0.6	0.811	3.7e-32
TAIR|locus:2079914	150	AT3G52580 [Arabidopsis thalian	0.891	0.6	0.811	3.7e-32
TAIR|locus:2053501	150	AT2G36160 [Arabidopsis thalian	0.891	0.6	0.811	3.7e-32
UNIPROTKB|Q5ZHW8	151	RPS14 "Uncharacterized protein	0.891	0.596	0.8	1.6e-31
UNIPROTKB|F2Z4N1	162	RPS14 "Uncharacterized protein	0.891	0.555	0.8	1.6e-31
UNIPROTKB|P62263	151	RPS14 "40S ribosomal protein S	0.891	0.596	0.8	1.6e-31
UNIPROTKB|P62265	151	RPS14 "40S ribosomal protein S	0.891	0.596	0.8	1.6e-31
MGI|MGI:98107	151	Rps14 "ribosomal protein S14"	0.891	0.596	0.8	1.6e-31
RGD|62025	151	Rps14 "ribosomal protein S14"	0.891	0.596	0.8	1.6e-31
UNIPROTKB|Q6PDV6	151	Rps14 "RCG63012" [Rattus norve	0.891	0.596	0.8	1.6e-31

TAIR|locus:2080692 AT3G11510 [Arabidopsis thaliana (taxid:3702)]

 Score = 352 (129.0 bits), Expect = 3.7e-32, P = 3.7e-32
 Identities = 73/90 (81%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ETL RITGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITA+H+KLRA           
Sbjct:    50 ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITAMHVKLRATGGNKTKTPGP 109

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIPTDST
Sbjct:   110 GAQSALRALARSGMKIGRIEDVTPIPTDST 139

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

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0022627 "cytosolic small ribosomal subunit" evidence=ISS;IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

TAIR|locus:2079914 AT3G52580 [Arabidopsis thaliana (taxid:3702)]

 Score = 352 (129.0 bits), Expect = 3.7e-32, P = 3.7e-32
 Identities = 73/90 (81%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ETL RITGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITA+H+KLRA           
Sbjct:    50 ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITAIHVKLRATGGNKTKTPGP 109

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIPTDST
Sbjct:   110 GAQSALRALARSGMKIGRIEDVTPIPTDST 139

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

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

GO:0022627 "cytosolic small ribosomal subunit" evidence=ISS

GO:0005829 "cytosol" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

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

GO:0042545 "cell wall modification" evidence=RCA

TAIR|locus:2053501 AT2G36160 [Arabidopsis thaliana (taxid:3702)]

 Score = 352 (129.0 bits), Expect = 3.7e-32, P = 3.7e-32
 Identities = 73/90 (81%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ETL RITGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITA+H+KLRA           
Sbjct:    50 ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITAMHVKLRATGGNKTKTPGP 109

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIPTDST
Sbjct:   110 GAQSALRALARSGMKIGRIEDVTPIPTDST 139

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

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

GO:0022627 "cytosolic small ribosomal subunit" evidence=ISS;IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

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

GO:0042545 "cell wall modification" evidence=RCA

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q5ZHW8 RPS14 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 346 (126.9 bits), Expect = 1.6e-31, P = 1.6e-31
 Identities = 72/90 (80%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRA           
Sbjct:    51 ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct:   111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

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

GO:0006412 "translation" evidence=IEA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0022627 "cytosolic small ribosomal subunit" evidence=IEA

GO:0030218 "erythrocyte differentiation" evidence=IEA

GO:0045182 "translation regulator activity" evidence=IEA

GO:0048027 "mRNA 5'-UTR binding" evidence=IEA

UNIPROTKB|F2Z4N1 RPS14 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 346 (126.9 bits), Expect = 1.6e-31, P = 1.6e-31
 Identities = 72/90 (80%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRA           
Sbjct:    62 ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 121

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct:   122 GAQSALRALARSGMKIGRIEDVTPIPSDST 151

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|P62263 RPS14 "40S ribosomal protein S14" [Homo sapiens (taxid:9606)]

 Score = 346 (126.9 bits), Expect = 1.6e-31, P = 1.6e-31
 Identities = 72/90 (80%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRA           
Sbjct:    51 ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct:   111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

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

GO:0005739 "mitochondrion" evidence=IEA

GO:0006412 "translation" evidence=IC;IMP;TAS

GO:0030490 "maturation of SSU-rRNA" evidence=ISS

GO:0022627 "cytosolic small ribosomal subunit" evidence=IDA

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=IDA

GO:0000028 "ribosomal small subunit assembly" evidence=ISS;IMP

GO:0003723 "RNA binding" evidence=ISS

GO:0045182 "translation regulator activity" evidence=IMP

GO:0030218 "erythrocyte differentiation" evidence=IMP

GO:0005730 "nucleolus" evidence=IDA

GO:0048027 "mRNA 5'-UTR binding" evidence=IDA

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

GO:0005829 "cytosol" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0006414 "translational elongation" evidence=TAS

GO:0006415 "translational termination" evidence=TAS

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

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0019058 "viral infectious cycle" evidence=TAS

GO:0019083 "viral transcription" evidence=TAS

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

GO:0006417 "regulation of translation" evidence=IMP

UNIPROTKB|P62265 RPS14 "40S ribosomal protein S14" [Cricetulus griseus (taxid:10029)]

 Score = 346 (126.9 bits), Expect = 1.6e-31, P = 1.6e-31
 Identities = 72/90 (80%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRA           
Sbjct:    51 ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct:   111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

MGI|MGI:98107 Rps14 "ribosomal protein S14" [Mus musculus (taxid:10090)]

 Score = 346 (126.9 bits), Expect = 1.6e-31, P = 1.6e-31
 Identities = 72/90 (80%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRA           
Sbjct:    51 ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct:   111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

GO:0000028 "ribosomal small subunit assembly" evidence=ISO

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO

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

GO:0005622 "intracellular" evidence=IEA

GO:0005730 "nucleolus" evidence=ISO

GO:0005739 "mitochondrion" evidence=IDA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=ISO

GO:0006417 "regulation of translation" evidence=ISO

GO:0022627 "cytosolic small ribosomal subunit" evidence=ISO

GO:0030218 "erythrocyte differentiation" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0045182 "translation regulator activity" evidence=ISO

GO:0048027 "mRNA 5'-UTR binding" evidence=ISO

RGD|62025 Rps14 "ribosomal protein S14" [Rattus norvegicus (taxid:10116)]

 Score = 346 (126.9 bits), Expect = 1.6e-31, P = 1.6e-31
 Identities = 72/90 (80%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRA           
Sbjct:    51 ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct:   111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

GO:0000028 "ribosomal small subunit assembly" evidence=ISO;ISS;IMP

GO:0000122 "negative regulation of transcription from RNA polymerase II promoter" evidence=ISO

GO:0003723 "RNA binding" evidence=ISS

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

GO:0005730 "nucleolus" evidence=ISO

GO:0005739 "mitochondrion" evidence=ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISO

GO:0006417 "regulation of translation" evidence=ISO

GO:0022627 "cytosolic small ribosomal subunit" evidence=ISO;IDA

GO:0030218 "erythrocyte differentiation" evidence=ISO

GO:0030490 "maturation of SSU-rRNA" evidence=ISS

GO:0045182 "translation regulator activity" evidence=ISO

GO:0048027 "mRNA 5'-UTR binding" evidence=ISO

UNIPROTKB|Q6PDV6 Rps14 "RCG63012" [Rattus norvegicus (taxid:10116)]

 Score = 346 (126.9 bits), Expect = 1.6e-31, P = 1.6e-31
 Identities = 72/90 (80%), Positives = 76/90 (84%)

Query:     1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
             ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRA           
Sbjct:    51 ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110

Query:    61 XAQSALRALARSGMKIGRIEDVTPIPTDST 90
              AQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct:   111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

GO:0006412 "translation" evidence=IEA

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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)
Q7QBX2	RS14B_ANOGA	No assigned EC number	0.8666	0.8910	0.5921	yes	no
Q97B94	RS11_THEVO	No assigned EC number	0.6444	0.8910	0.6818	yes	no
Q6LXM9	RS11_METMP	No assigned EC number	0.5888	0.8910	0.7258	yes	no
A4FWL3	RS11_METM5	No assigned EC number	0.5888	0.8910	0.7258	yes	no
P14130	RS14_DROME	No assigned EC number	0.8777	0.8910	0.5960	yes	no
Q9HJD8	RS11_THEAC	No assigned EC number	0.6444	0.8910	0.6923	yes	no
P48150	RS14_CAEEL	No assigned EC number	0.8555	0.8910	0.5921	yes	no
P27069	RS14_KLULA	No assigned EC number	0.8	0.8910	0.6569	yes	no
C6A1B2	RS11_THESM	No assigned EC number	0.6451	0.9207	0.6690	yes	no
Q46GC9	RS11_METBF	No assigned EC number	0.5979	0.9603	0.7698	yes	no
A2SSV8	RS11_METLZ	No assigned EC number	0.5913	0.9207	0.7099	yes	no
P19950	RS141_MAIZE	No assigned EC number	0.9555	0.8910	0.6040	N/A	no
P19951	RS142_MAIZE	No assigned EC number	0.9444	0.8910	0.6	N/A	no
A0B9L3	RS11_METTP	No assigned EC number	0.6336	1.0	0.7829	yes	no
Q12ZR4	RS11_METBU	No assigned EC number	0.5979	0.9603	0.7698	yes	no
B6YSQ2	RS11_THEON	No assigned EC number	0.6451	0.9207	0.6690	yes	no
Q9SIH0	RS141_ARATH	No assigned EC number	0.9444	0.8910	0.6	yes	no
P62264	RS14_MOUSE	No assigned EC number	0.9222	0.8910	0.5960	yes	no
P62265	RS14_CRIGR	No assigned EC number	0.9222	0.8910	0.5960	yes	no
P62263	RS14_HUMAN	No assigned EC number	0.9222	0.8910	0.5960	yes	no
P42036	RS143_ARATH	No assigned EC number	0.9444	0.8910	0.6	yes	no
O22584	RS14_LUPLU	No assigned EC number	0.9333	0.8910	0.6	N/A	no
Q8PV17	RS11_METMA	No assigned EC number	0.5979	0.9603	0.7698	yes	no
Q2FT98	RS11_METHJ	No assigned EC number	0.6129	0.9207	0.7099	yes	no
A6UPW6	RS11_METVS	No assigned EC number	0.5888	0.8910	0.7258	yes	no
P19115	RS14_NEUCR	No assigned EC number	0.8602	0.9207	0.62	N/A	no
Q7QEH1	RS14A_ANOGA	No assigned EC number	0.8666	0.8910	0.5921	yes	no
A3CWH8	RS11_METMJ	No assigned EC number	0.6179	0.8811	0.6899	yes	no
Q54EG3	RS14_DICDI	No assigned EC number	0.8514	1.0	0.6644	yes	no
Q9XEK6	RS14_TORRU	No assigned EC number	0.8777	0.8811	0.6641	N/A	no
Q96W53	RS14_CANAX	No assigned EC number	0.8444	0.8910	0.6716	N/A	no
P19800	RS14_TRYBB	No assigned EC number	0.8111	0.8910	0.625	N/A	no
Q9YB55	RS11_AERPE	No assigned EC number	0.6777	0.8910	0.6766	yes	no
O14150	RS14_SCHPO	No assigned EC number	0.8333	0.8910	0.6474	yes	no
A7IAH6	RS11_METB6	No assigned EC number	0.6021	0.9207	0.7045	yes	no
P13471	RS14_RAT	No assigned EC number	0.9222	0.8910	0.5960	yes	no
Q8TRR0	RS11_METAC	No assigned EC number	0.6082	0.9603	0.7698	yes	no
P39516	RS14B_YEAST	No assigned EC number	0.8	0.8910	0.6521	yes	no
O28001	RS11_ARCFU	No assigned EC number	0.6534	1.0	0.7593	yes	no
A6VGQ8	RS11_METM7	No assigned EC number	0.5888	0.8910	0.7258	yes	no
A6UW04	RS11_META3	No assigned EC number	0.6185	0.9603	0.7822	yes	no
P46295	RS14_CHLRE	No assigned EC number	0.9111	0.8910	0.5882	N/A	no
P06367	RS14A_YEAST	No assigned EC number	0.8	0.8910	0.6569	yes	no
Q0W1V4	RS11_UNCMA	No assigned EC number	0.6138	1.0	0.7651	yes	no
Q9CAX6	RS142_ARATH	No assigned EC number	0.9444	0.8910	0.6	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	eugene3.00091453	SubName- Full=Putative uncharacterized protein; (151 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	gw1.XVI.1998.1	SubName- Full=Putative uncharacterized protein; (204 aa)				•	•	•	•		0.747
	eugene3.00051184	SubName- Full=Putative uncharacterized protein; (153 aa)	•			•	•		•		0.733
	eugene3.00020474	SubName- Full=Putative uncharacterized protein; (153 aa)	•			•	•		•		0.732
	eugene3.00061162	SubName- Full=Putative uncharacterized protein; (208 aa)				•	•	•	•		0.730
	eugene3.00051033	hypothetical protein (152 aa)	•			•	•		•		0.719
	estExt_fgenesh4_pg.C_LG_VIII1330	SubName- Full=Putative uncharacterized protein; (145 aa)	•			•	•		•		0.669
	estExt_fgenesh4_pg.C_LG_I2557	SubName- Full=Putative uncharacterized protein; (146 aa)	•			•	•		•		0.668
	estExt_fgenesh4_pg.C_LG_X0832	SubName- Full=Putative uncharacterized protein; (145 aa)	•			•	•		•		0.668
	gw1.IX.2304.1	hypothetical protein (321 aa)	•		•						0.660
	estExt_fgenesh4_pm.C_LG_XVII0043	SubName- Full=Putative uncharacterized protein; (206 aa)	•			•	•		•		0.658

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	101
PTZ00129	149	PTZ00129, PTZ00129, 40S ribosomal protein S14; Pro	1e-59
PRK09607	132	PRK09607, rps11p, 30S ribosomal protein S11P; Revi	7e-54
TIGR03628	114	TIGR03628, arch_S11P, archaeal ribosomal protein S	1e-43
COG0100	129	COG0100, RpsK, Ribosomal protein S11 [Translation,	2e-31
pfam00411	109	pfam00411, Ribosomal_S11, Ribosomal protein S11	6e-31
PRK05309	128	PRK05309, PRK05309, 30S ribosomal protein S11; Val	7e-15
TIGR03632	108	TIGR03632, bact_S11, 30S ribosomal protein S11	3e-14
CHL00041	116	CHL00041, rps11, ribosomal protein S11	8e-11

>gnl|CDD|185465 PTZ00129, PTZ00129, 40S ribosomal protein S14; Provisional

 Score =  179 bits (455), Expect = 1e-59
 Identities = 87/99 (87%), Positives = 94/99 (94%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL R+TGGMKVKADRDESSPYAAM+AAQDV+ RCKE GI ALHIKLRATGG +TKTPGP
Sbjct: 51  ETLVRVTGGMKVKADRDESSPYAAMMAAQDVAARCKELGINALHIKLRATGGVRTKTPGP 110

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGR 99
           GAQ+ALRALAR+G+KIGRIEDVTPIPTDSTRRKGGRRGR
Sbjct: 111 GAQAALRALARAGLKIGRIEDVTPIPTDSTRRKGGRRGR 149

Length = 149

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

 Score =  163 bits (415), Expect = 7e-54
 Identities = 69/101 (68%), Positives = 85/101 (84%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ + +GGM VKADRDESSPYAAM AA+  ++  KE+GIT +HIK+RA GGN  K+PGP
Sbjct: 32  ETIAKSSGGMVVKADRDESSPYAAMQAAEKAAEDAKEKGITGVHIKVRAPGGNGQKSPGP 91

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
           GAQ+A+RALAR+G++IGRIEDVTPIP D TR  GGRRGRR+
Sbjct: 92  GAQAAIRALARAGLRIGRIEDVTPIPHDGTRPPGGRRGRRV 132

Length = 132

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

 Score =  137 bits (346), Expect = 1e-43
 Identities = 64/90 (71%), Positives = 76/90 (84%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ R +GGM VKADRDESSPYAAM AA   +++ KERGIT LHIK+RA GGN  K+PGP
Sbjct: 25  ETIARSSGGMVVKADRDESSPYAAMQAAGRAAEKAKERGITGLHIKVRAPGGNGQKSPGP 84

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDST 90
           GAQ+A+RALAR+G++IGRIEDVTPIP D T
Sbjct: 85  GAQAAIRALARAGLRIGRIEDVTPIPHDGT 114

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

 Score =  106 bits (267), Expect = 2e-31
 Identities = 43/98 (43%), Positives = 62/98 (63%), Gaps = 9/98 (9%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
             +   +GGM  K  R +S+PYAA LAA+D +++ KE GI ++ +K++         PGP
Sbjct: 41  VIIWASSGGMGFKGSR-KSTPYAAQLAAEDAAKKAKEHGIKSVEVKVKG--------PGP 91

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRG 98
           G ++A+RALA +G+KI RIEDVTPIP +  R    RR 
Sbjct: 92  GREAAIRALAAAGLKITRIEDVTPIPHNGCRPPKRRRV 129

Length = 129

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

 Score =  105 bits (263), Expect = 6e-31
 Identities = 44/96 (45%), Positives = 58/96 (60%), Gaps = 9/96 (9%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
             L    GG   K  R +S+PYAA  AA++ ++  KE+GI AL +K++         PGP
Sbjct: 23  VVLWSSAGGCGFKGSR-KSTPYAAQTAAENAAKIAKEQGIKALEVKIKG--------PGP 73

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGR 96
           G +SALRALARSG++I RI DVTPIP +  R    R
Sbjct: 74  GRESALRALARSGLRITRIRDVTPIPHNGCRPPKKR 109

Length = 109

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

 Score = 64.4 bits (158), Expect = 7e-15
 Identities = 31/79 (39%), Positives = 49/79 (62%), Gaps = 8/79 (10%)

Query: 19  SSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGR 78
           S+PYAA +AA+D +++ KE G+  + + +        K PG G +SA+RAL  +G+++  
Sbjct: 57  STPYAAQVAAEDAAKKAKEHGMKTVEVFV--------KGPGSGRESAIRALQAAGLEVTS 108

Query: 79  IEDVTPIPTDSTRRKGGRR 97
           I+DVTPIP +  R    RR
Sbjct: 109 IKDVTPIPHNGCRPPKRRR 127

Length = 128

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

 Score = 62.2 bits (152), Expect = 3e-14
 Identities = 32/84 (38%), Positives = 52/84 (61%), Gaps = 9/84 (10%)

Query: 8   GGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALR 67
           G +  K  + +S+PYAA LAA+D +++ KE G+  + + +        K PG G +SA+R
Sbjct: 30  GAVGFKGSK-KSTPYAAQLAAEDAAKKAKEFGMKTVDVYV--------KGPGAGRESAIR 80

Query: 68  ALARSGMKIGRIEDVTPIPTDSTR 91
           AL  +G+++  I+DVTPIP +  R
Sbjct: 81  ALQAAGLEVTSIKDVTPIPHNGCR 104

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|176982 CHL00041, rps11, ribosomal protein S11

 Score = 53.7 bits (130), Expect = 8e-11
 Identities = 24/68 (35%), Positives = 39/68 (57%), Gaps = 8/68 (11%)

Query: 19  SSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGR 78
            +P+AA  AA++  +   ++G+    + +        K PG G  +ALRA+ RSG+K+  
Sbjct: 53  GTPFAAQTAAENAIRTVIDQGMKRAEVMI--------KGPGLGRDTALRAIRRSGLKLSS 104

Query: 79  IEDVTPIP 86
           I DVTP+P
Sbjct: 105 IRDVTPMP 112

Length = 116

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	101
PTZ00129	149	40S ribosomal protein S14; Provisional	100.0
PRK09607	132	rps11p 30S ribosomal protein S11P; Reviewed	100.0
COG0100	129	RpsK Ribosomal protein S11 [Translation, ribosomal	100.0
PF00411	110	Ribosomal_S11: Ribosomal protein S11; InterPro: IP	100.0
PRK05309	128	30S ribosomal protein S11; Validated	100.0
TIGR03632	108	bact_S11 30S ribosomal protein S11. This model des	100.0
TIGR03628	114	arch_S11P archaeal ribosomal protein S11P. This mo	100.0
PTZ00090	233	40S ribosomal protein S11; Provisional	100.0
CHL00041	116	rps11 ribosomal protein S11	100.0
KOG0408	190	consensus Mitochondrial/chloroplast ribosomal prot	99.97
KOG0407	139	consensus 40S ribosomal protein S14 [Translation,	99.96
PRK08569	193	rpl18p 50S ribosomal protein L18P; Reviewed	92.73
cd00432	103	Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is	90.99
PF00861	119	Ribosomal_L18p: Ribosomal L18p/L5e family; InterPr	90.95
TIGR00060	114	L18_bact ribosomal protein L18, bacterial type. Th	87.01
PRK05593	117	rplR 50S ribosomal protein L18; Reviewed	86.62
CHL00139	109	rpl18 ribosomal protein L18; Validated	85.77
COG0256	125	RplR Ribosomal protein L18 [Translation, ribosomal	85.58

>PTZ00129 40S ribosomal protein S14; Provisional

Probab=100.00  E-value=1e-43  Score=255.10  Aligned_cols=99  Identities=88%  Similarity=1.295  Sum_probs=97.0

Q ss_pred             CceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEE
Q 043606            1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIE   80 (101)
Q Consensus         1 ~t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~   80 (101)
                      |++|.|+|++|||+.++|+||||||.|+|+++++|+++||+.|+|+|||+|||.++|+|+||++|||+|+++||+|.+|+
T Consensus        51 ~~~w~SsG~~gfKg~r~KsTpyAAq~aa~~~a~k~~~~Gi~~v~V~vr~~gg~~~kg~GpGr~~airaL~~~glkI~~I~  130 (149)
T PTZ00129         51 ETLVRVTGGMKVKADRDESSPYAAMMAAQDVAARCKELGINALHIKLRATGGVRTKTPGPGAQAALRALARAGLKIGRIE  130 (149)
T ss_pred             EEEEEecCcceecccccCCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEecCCCCCCCCCCCHHHHHHHHHHCCCEEEEEE
Confidence            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCCCCCCCCCCCCCCC
Q 043606           81 DVTPIPTDSTRRKGGRRGR   99 (101)
Q Consensus        81 D~TpiphNGcR~~K~RR~~   99 (101)
                      |+||+|||||||||+||.|
T Consensus       131 DvTPiPhNGcRppk~RR~r  149 (149)
T PTZ00129        131 DVTPIPTDSTRRKGGRRGR  149 (149)
T ss_pred             ecCCCCCCCCCCCCCCCCC
Confidence            9999999999999999976

>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed

Probab=100.00  E-value=4.4e-42  Score=242.76  Aligned_cols=100  Identities=61%  Similarity=0.973  Sum_probs=93.9

Q ss_pred             Cceeee-eccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEE
Q 043606            1 ETLERI-TGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRI   79 (101)
Q Consensus         1 ~t~~~S-sG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I   79 (101)
                      |+++|+ +|.+||+|.+ |+||||||.|+|+++++|+++||+.|+|+|+|+|||..+-+|+||++||++|+++||+|.+|
T Consensus        32 ~~~~~~S~G~~g~kg~k-K~TpyAAq~aae~~~~~~~~~Gi~~v~v~vkG~Ggn~~~~~G~Gr~~airal~~~glkI~~I  110 (132)
T PRK09607         32 ETIAKSSGGMVVKADRD-ESSPYAAMQAAEKAAEDAKEKGITGVHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGRI  110 (132)
T ss_pred             EEEEEecCcceeeCCCc-cCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCcCCCCcHHHHHHHHHHCCCEEEEE
Confidence            366665 5556788887 99999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCCCCCCCCCCCCCCCCC
Q 043606           80 EDVTPIPTDSTRRKGGRRGRRL  101 (101)
Q Consensus        80 ~D~TpiphNGcR~~K~RR~~~~  101 (101)
                      +|+||+|||||||||+||+|||
T Consensus       111 ~DvTpiPhNGCRp~K~RR~r~~  132 (132)
T PRK09607        111 EDVTPIPHDGTRPPGGRRGRRV  132 (132)
T ss_pred             EEcCCCCCCCCCCCCCCCCCCC
Confidence            9999999999999999999996

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

Probab=100.00  E-value=1.5e-38  Score=223.77  Aligned_cols=89  Identities=49%  Similarity=0.800  Sum_probs=86.4

Q ss_pred             CceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEE
Q 043606            1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIE   80 (101)
Q Consensus         1 ~t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~   80 (101)
                      |++|.|+|++|||+++ |+||||||.|++.+++.++++|++.|+|+|        +|||+||++|||+|+.+|++|.+|+
T Consensus        41 ~i~wassG~~gfk~~r-k~tpyAA~~aa~~aa~~a~e~Gi~~v~v~v--------kgpG~GreaAiraL~~ag~~i~~I~  111 (129)
T COG0100          41 VIIWASSGGMGFKGSR-KSTPYAAQLAAEDAAKKAKEHGIKSVEVKV--------KGPGPGREAAIRALAAAGLKITRIE  111 (129)
T ss_pred             EEEEEecCCceEcCCC-CCCHHHHHHHHHHHHHHHHHhCccEEEEEE--------ECCCCcHHHHHHHHHHccceEEEEE
Confidence            5789999999999999 999999999999999999999999999999        7899999999999999999999999


Q ss_pred             ecCCCCCCCCCCCCCCCC
Q 043606           81 DVTPIPTDSTRRKGGRRG   98 (101)
Q Consensus        81 D~TpiphNGcR~~K~RR~   98 (101)
                      |+||+|||||||||+||+
T Consensus       112 DvTPiphnG~Rppk~RR~  129 (129)
T COG0100         112 DVTPIPHNGCRPPKRRRV  129 (129)
T ss_pred             EcCCCCCCCCCCCCCCCC
Confidence            999999999999999985

>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=3.9e-38  Score=215.72  Aligned_cols=87  Identities=44%  Similarity=0.697  Sum_probs=80.9

Q ss_pred             ceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEe
Q 043606            2 TLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIED   81 (101)
Q Consensus         2 t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D   81 (101)
                      .+|.|+|++|||+++ |+||||||++++.++++|+++|++.|+|+|        +|+|+||+++|++|+.+|++|.+|+|
T Consensus        24 ~~~~S~G~~gfK~~r-k~t~~Aa~~~a~~~~~~~~~~gi~~v~v~i--------kG~g~gr~~~lk~l~~~gl~I~~I~D   94 (110)
T PF00411_consen   24 LFWSSAGSLGFKGAR-KSTPYAAQQAAEKIAKKAKELGIKTVRVKI--------KGFGPGREAALKALKKSGLKIVSITD   94 (110)
T ss_dssp             EEEEETTTSSTTTTC-GSSHHHHHHHHHHHHHHHHCTTEEEEEEEE--------ESSSTTHHHHHHHHHHTTSEEEEEEE
T ss_pred             EEEEecccccccccc-ccCHHHHHHHHHHHHHHHHHcCCeEEEEEE--------cCCCccHHHHHHHHHhcCCEEEEEEe
Confidence            578999999999999 999999999999999999999999999999        78999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCCCC
Q 043606           82 VTPIPTDSTRRKGGRR   97 (101)
Q Consensus        82 ~TpiphNGcR~~K~RR   97 (101)
                      +||+|||||||||+||
T Consensus        95 ~T~iphnGcR~kK~RR  110 (110)
T PF00411_consen   95 VTPIPHNGCRPKKKRR  110 (110)
T ss_dssp             ETT--SSSS--TTTTT
T ss_pred             ecCCCCCCCCCCCCCC
Confidence            9999999999999998

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 ....

>PRK05309 30S ribosomal protein S11; Validated

Probab=100.00  E-value=1e-37  Score=219.31  Aligned_cols=88  Identities=40%  Similarity=0.677  Sum_probs=84.5

Q ss_pred             ceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEe
Q 043606            2 TLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIED   81 (101)
Q Consensus         2 t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D   81 (101)
                      .+|.|+|.+||||.+ |+||||||.+++.++++++++||+.|+|+|        +|+|+||+++|++|+.+|++|.+|+|
T Consensus        41 ~~~~S~G~~gfKg~r-K~T~~Aa~~aa~~~~~~~~~~gi~~v~v~i--------kG~G~Gr~~air~L~~~glkI~~I~D  111 (128)
T PRK05309         41 ISWASAGGLGFKGSR-KSTPYAAQVAAEDAAKKAKEHGMKTVEVFV--------KGPGSGRESAIRALQAAGLEVTSIKD  111 (128)
T ss_pred             EEEEecCccEeCCCc-cCCHHHHHHHHHHHHHHHHHcCCcEEEEEE--------ECCCCcHHHHHHHHHHCCCEEEEEEE
Confidence            457799999999999 999999999999999999999999999999        78999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCCCCC
Q 043606           82 VTPIPTDSTRRKGGRRG   98 (101)
Q Consensus        82 ~TpiphNGcR~~K~RR~   98 (101)
                      +||+|||||||||+||+
T Consensus       112 ~TpiphNGcR~~K~RRv  128 (128)
T PRK05309        112 VTPIPHNGCRPPKRRRV  128 (128)
T ss_pred             cCCCCCCCcCcCCCCCC
Confidence            99999999999999985

>TIGR03632 bact_S11 30S ribosomal protein S11

Probab=100.00  E-value=1.1e-36  Score=208.34  Aligned_cols=85  Identities=38%  Similarity=0.636  Sum_probs=81.8

Q ss_pred             ceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEe
Q 043606            2 TLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIED   81 (101)
Q Consensus         2 t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D   81 (101)
                      ..|.|+|++||||.+ |+||||||.++|.++++++++||+.|+|++        +|+|+||+++|++|+++|++|.+|+|
T Consensus        24 ~~~~S~G~~gfkg~r-k~t~~Aa~~~a~~~~~~~~~~gi~~v~v~~--------kG~G~gr~~~ir~l~~~glkI~~I~D   94 (108)
T TIGR03632        24 LSWASAGAVGFKGSK-KSTPYAAQLAAEDAAKKAKEFGMKTVDVYV--------KGPGAGRESAIRALQAAGLEVTSIKD   94 (108)
T ss_pred             EEEEecCceeeCCCc-cCCHHHHHHHHHHHHHHHHHcCCcEEEEEE--------ECCCCcHHHHHHHHHHCCCEEEEEEE
Confidence            467799999999999 999999999999999999999999999999        78999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCC
Q 043606           82 VTPIPTDSTRRKGG   95 (101)
Q Consensus        82 ~TpiphNGcR~~K~   95 (101)
                      +||+|||||||||+
T Consensus        95 ~T~iphNGcR~~K~  108 (108)
T TIGR03632        95 VTPIPHNGCRPPKR  108 (108)
T ss_pred             cCCCCCCCcCCCCC
Confidence            99999999999984

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.

>TIGR03628 arch_S11P archaeal ribosomal protein S11P

Probab=100.00  E-value=1.2e-35  Score=205.51  Aligned_cols=88  Identities=63%  Similarity=0.949  Sum_probs=83.2

Q ss_pred             ceee-eeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEE
Q 043606            2 TLER-ITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIE   80 (101)
Q Consensus         2 t~~~-SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~   80 (101)
                      +++| |+|.+|||+.+ |+||||||.|+|+++++|+++||+.|+|+|+|.|||.++.+|+||++|||+|+++||+|.+|+
T Consensus        26 ~~~~~S~G~~g~kg~k-k~TpyAAq~aa~~~~~~~~~~Gi~~v~v~ikG~gg~~~~~~G~Gr~~air~l~~~glkI~~I~  104 (114)
T TIGR03628        26 TIARSSGGMVVKADRD-ESSPYAAMQAAGRAAEKAKERGITGLHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGRIE  104 (114)
T ss_pred             EEEEecCcceEeCCCc-cCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCCCCCCcHHHHHHHHHHCCCEEEEEE
Confidence            4555 56667888888 999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCCCCCC
Q 043606           81 DVTPIPTDST   90 (101)
Q Consensus        81 D~TpiphNGc   90 (101)
                      |+||+|||||
T Consensus       105 DvTpiPhNGC  114 (114)
T TIGR03628       105 DVTPIPHDGT  114 (114)
T ss_pred             EcCCCCCCCC
Confidence            9999999999

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

>PTZ00090 40S ribosomal protein S11; Provisional

Probab=100.00  E-value=2.3e-34  Score=217.12  Aligned_cols=86  Identities=19%  Similarity=0.397  Sum_probs=81.6

Q ss_pred             eeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEec
Q 043606            3 LERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDV   82 (101)
Q Consensus         3 ~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D~   82 (101)
                      .|.|+|.+||||++ |+||||||.|+|+++++|+++||+.|+|.|        +|+| +||+|||+|+.+||+|.+|.|+
T Consensus       145 ~WSSAG~~GFKGsK-KsTpfAAQ~aae~aakka~~~GIk~V~V~v--------KGpG-gREtALRaL~~~GLkIt~I~Dv  214 (233)
T PTZ00090        145 FGSFAGNVGFRKKL-QQSERCAYRIGENIAKKCRRLGIFAVDIKF--------RRIM-RVETVLQAFYANGLQVTQIIHE  214 (233)
T ss_pred             EEEcccccCcccCc-cCCHHHHHHHHHHHHHHHHHcCCeEEEEEE--------eCCC-hHHHHHHHHHHCCCEEEEEEEC
Confidence            56789999999999 999999999999999999999999999999        7788 6999999999999999999999


Q ss_pred             CCCCC---CCCCCCCCCCC
Q 043606           83 TPIPT---DSTRRKGGRRG   98 (101)
Q Consensus        83 Tpiph---NGcR~~K~RR~   98 (101)
                      ||+||   |||||||+||+
T Consensus       215 TpiPHNG~NGCRPpKKRRV  233 (233)
T PTZ00090        215 PRLPKCGLNAVKPRKRRRV  233 (233)
T ss_pred             CCCCcCCCCCCCCCCCCCC
Confidence            99999   55999999885

>CHL00041 rps11 ribosomal protein S11

Probab=100.00  E-value=1.3e-32  Score=190.52  Aligned_cols=80  Identities=34%  Similarity=0.588  Sum_probs=77.1

Q ss_pred             ceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEe
Q 043606            2 TLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIED   81 (101)
Q Consensus         2 t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D   81 (101)
                      ..|.|+|++||||++ |+||||||.++|+++++++++||+.|+|++        +|+|+||+++|++|+++|++|.+|+|
T Consensus        37 l~~~S~G~~gfKg~r-K~T~~Aa~~~a~~~~~~~~~~gi~~v~I~i--------kG~G~Gr~~~ir~l~~~glkI~~I~D  107 (116)
T CHL00041         37 ISWSSAGACGFKGAR-KGTPFAAQTAAENAIRTVIDQGMKRAEVMI--------KGPGLGRDTALRAIRRSGLKLSSIRD  107 (116)
T ss_pred             EEEEecCceeeCCCc-cCCHHHHHHHHHHHHHHHHHcCCcEEEEEE--------ECCCCcHHHHHHHHHHCCCEEEEEEE
Confidence            356789999999999 999999999999999999999999999999        78999999999999999999999999


Q ss_pred             cCCCCCCCC
Q 043606           82 VTPIPTDST   90 (101)
Q Consensus        82 ~TpiphNGc   90 (101)
                      +||+|||||
T Consensus       108 ~TpiphNGC  116 (116)
T CHL00041        108 VTPMPHNGC  116 (116)
T ss_pred             cCCCCCCCC
Confidence            999999999

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

Probab=99.97  E-value=5.3e-32  Score=197.73  Aligned_cols=88  Identities=30%  Similarity=0.457  Sum_probs=84.8

Q ss_pred             ceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEe
Q 043606            2 TLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIED   81 (101)
Q Consensus         2 t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D   81 (101)
                      .+|.|||.+||++.| |+|++|||.++-.++++++++|+..|+|.+        ||+||||++||++|...||.|++|+|
T Consensus       103 i~~~ScgteGFrntr-kgT~iAaQtaavaa~~r~v~~G~~~vrV~V--------kGlGpGRmsa~kgl~m~Gl~vvsItD  173 (190)
T KOG0408|consen  103 ISWSSCGTEGFRNTR-KGTPIAAQTAAVAAIRRAVDQGMQTVRVRV--------KGLGPGRMSALKGLRMGGLLVVSITD  173 (190)
T ss_pred             EEEeecccccccccc-cCCchhHHHHHHHHHHHHHHhcceEEEEEE--------ecCCccHHHHHhhhhhcceEEEEeec
Confidence            357799999999999 999999999999999999999999999999        88999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCCCCC
Q 043606           82 VTPIPTDSTRRKGGRRG   98 (101)
Q Consensus        82 ~TpiphNGcR~~K~RR~   98 (101)
                      .||+|||||||+|+||.
T Consensus       174 ~Tp~~~ng~RPrK~Rrl  190 (190)
T KOG0408|consen  174 NTPMPHNGCRPRKKRRL  190 (190)
T ss_pred             CCcCCCCCCCccccccC
Confidence            99999999999999984

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

Probab=99.96  E-value=2.8e-29  Score=174.45  Aligned_cols=101  Identities=90%  Similarity=1.316  Sum_probs=99.6

Q ss_pred             CceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEE
Q 043606            1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIE   80 (101)
Q Consensus         1 ~t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~   80 (101)
                      ||+....|+|..|..++.++||||++||+.++.+|+++||+.+||+||++||++.+.+|||.+++||+|.++|++|..|+
T Consensus        39 eti~rvtggmkvkadrdesspyaamlaaqdva~kck~~gi~alh~klratgg~ktktpgpgaqsalralar~gmrigrie  118 (139)
T KOG0407|consen   39 ETIVRVTGGMKVKADRDESSPYAAMLAAQDVAAKCKELGITALHIKLRATGGTKTKTPGPGAQSALRALARSGMRIGRIE  118 (139)
T ss_pred             eEEEEecCCeEEecccccCChHHHHHHHHHHHHHHHhcCeeEEEEEEEecCCcccCCCCccHHHHHHHHHHhcceeeeec
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCCCCCCCCCCCCCCCCC
Q 043606           81 DVTPIPTDSTRRKGGRRGRRL  101 (101)
Q Consensus        81 D~TpiphNGcR~~K~RR~~~~  101 (101)
                      |+||+|.+-.|.+..||.||+
T Consensus       119 dvtpip~d~trrkggrrgrrl  139 (139)
T KOG0407|consen  119 DVTPIPSDSTRRKGGRRGRRL  139 (139)
T ss_pred             ccccCCccchhhccCcccccC
Confidence            999999999999999999986

>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed

Probab=92.73  E-value=1.1  Score=33.86  Aligned_cols=67  Identities=19%  Similarity=0.291  Sum_probs=48.2

Q ss_pred             cHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEecCCCCCCCCCCCCCCCCC
Q 043606           20 SPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGR   99 (101)
Q Consensus        20 t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D~TpiphNGcR~~K~RR~~   99 (101)
                      .--||..+++.+++++++.|++.+.+-.   ||...+ .|--=.+++++...+||+         +|||-.|.|---|.+
T Consensus        78 N~~AAy~vG~llA~ral~kGi~~vvfDr---Gg~~yh-~gGRV~A~akgArd~GL~---------fPh~~~~~p~~~ri~  144 (193)
T PRK08569         78 NTPAAYLTGLLAGKKALKAGVEEAVLDI---GLHRPT-KGSRVFAALKGAIDAGLE---------IPHGEEVLPDEDRIR  144 (193)
T ss_pred             CHHHHHHHHHHHHHHHHHCCCCEEEEec---CCcccc-CCccHHHHHHHHHHcCCc---------CCCCCCcCCCccccc
Confidence            3448888999999999999999988776   222222 111234577888889997         499988888765543

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

Probab=90.99  E-value=1.6  Score=28.89  Aligned_cols=61  Identities=18%  Similarity=0.194  Sum_probs=40.0

Q ss_pred             eeccceeecc-CCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCC-CChH-HHHHHHHhCCC
Q 043606            6 ITGGMKVKAD-RDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPG-PGAQ-SALRALARSGM   74 (101)
Q Consensus         6 SsG~~gfKg~-r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G-~gr~-~~lr~l~~~gl   74 (101)
                      |+-...+++. .....-.||..+++.++++|++.|+..+.+-.        .+.- -||. +++.++...||
T Consensus        40 st~e~~~~~~~~~~~n~~aA~~vG~~la~r~~~~gi~~vv~D~--------~~~~~~grv~a~~~~~r~~Gl  103 (103)
T cd00432          40 STLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVFDR--------GGYRYHGRVKALAKGAREGGL  103 (103)
T ss_pred             ecCchhhcccccCCCcHHHHHHHHHHHHHHHHHCCCCEEEEeC--------CCcccccHHHHHHHHHHHcCC
Confidence            3333444442 22456678999999999999999999988876        2222 2343 45566766664

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.

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

Probab=90.95  E-value=0.52  Score=32.42  Aligned_cols=49  Identities=18%  Similarity=0.236  Sum_probs=36.1

Q ss_pred             cHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCC-Ch-HHHHHHHHhCCCeE
Q 043606           20 SPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP-GA-QSALRALARSGMKI   76 (101)
Q Consensus        20 t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~-gr-~~~lr~l~~~gl~I   76 (101)
                      .--||..+++.++++|++.|+..|.+-.        .|+-. || .+++.++...||+|
T Consensus        69 n~~aa~~vG~lla~ra~~~gi~~v~fdr--------~~~~y~grv~a~~~~~re~Gl~f  119 (119)
T PF00861_consen   69 NVEAAYLVGELLAKRALEKGIAKVVFDR--------GGYKYHGRVKALADGAREGGLEF  119 (119)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTSSEEEECT--------STSSSSSHHHHHHHHHHHTTCB-
T ss_pred             CEehHHHHHHHHHHHHHHcCCcEEEEcC--------CCCcccHHHHHHHHHHHHcCCCC
Confidence            4558899999999999999998887765        33222 34 34667888889875

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 ....

>TIGR00060 L18_bact ribosomal protein L18, bacterial type

Probab=87.01  E-value=4.8  Score=27.89  Aligned_cols=51  Identities=27%  Similarity=0.351  Sum_probs=35.3

Q ss_pred             CCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHH-HHHHHHhCCCe
Q 043606           18 ESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQS-ALRALARSGMK   75 (101)
Q Consensus        18 k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~-~lr~l~~~gl~   75 (101)
                      ..+--||..+++.++++|++.||+.|..--   +|-..    -||-. +..++...||+
T Consensus        62 ~~n~~aA~~vG~~la~ra~~~gi~~vvfDr---gg~~Y----hGrv~A~a~~aRe~Gl~  113 (114)
T TIGR00060        62 TGNKDAAKKVGKLVAERLKEKGIKDVVFDR---GGYKY----HGRVAALAEAAREAGLN  113 (114)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCCEEEEeC---CCCcc----hHHHHHHHHHHHHhCCC
Confidence            445568899999999999999999986553   22222    24543 44666777876

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

>PRK05593 rplR 50S ribosomal protein L18; Reviewed

Probab=86.62  E-value=2.9  Score=28.98  Aligned_cols=51  Identities=25%  Similarity=0.377  Sum_probs=35.4

Q ss_pred             CCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCCh-HHHHHHHHhCCCe
Q 043606           18 ESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGA-QSALRALARSGMK   75 (101)
Q Consensus        18 k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr-~~~lr~l~~~gl~   75 (101)
                      ...--||..+++.++++|++.||+.+..--   +|...+    || .+++.++..+||+
T Consensus        65 ~~n~~aa~~vG~~la~ra~~~gi~~vvfDr---g~~~yh----GrV~a~a~~are~Gl~  116 (117)
T PRK05593         65 GGNKEAAKKVGKLIAERAKAKGIKQVVFDR---GGYKYH----GRVKALADAAREAGLK  116 (117)
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCCEEEEcC---CCCccc----HHHHHHHHHHHHhCCC
Confidence            445568899999999999999999975553   222222    23 3455667777876

>CHL00139 rpl18 ribosomal protein L18; Validated

Probab=85.77  E-value=2.1  Score=29.35  Aligned_cols=50  Identities=24%  Similarity=0.393  Sum_probs=34.5

Q ss_pred             CcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCCh-HHHHHHHHhCCCe
Q 043606           19 SSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGA-QSALRALARSGMK   75 (101)
Q Consensus        19 ~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr-~~~lr~l~~~gl~   75 (101)
                      ..--||..+++.++++|++.||+.|..--   +|....    || .+++.++..+||+
T Consensus        58 ~n~~aA~~vG~lla~ra~~~gi~~vvfDr---gg~~yh----GrV~a~a~~are~GL~  108 (109)
T CHL00139         58 STCDASKLVGQKLAKKSLKKGITKVVFDR---GGKLYH----GRIKALAEAAREAGLQ  108 (109)
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCEEEEcC---CCCccc----hHHHHHHHHHHHhCCC
Confidence            34458888999999999999999986663   222211    33 3455667777876

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

Probab=85.58  E-value=3.1  Score=29.41  Aligned_cols=48  Identities=17%  Similarity=0.214  Sum_probs=34.6

Q ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCC-ChHH-HHHHHHhCCCeE
Q 043606           21 PYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP-GAQS-ALRALARSGMKI   76 (101)
Q Consensus        21 ~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~-gr~~-~lr~l~~~gl~I   76 (101)
                      --||..+++.+++++++.||+.+.+-.        .|+=+ ||-. ++++...+||+|
T Consensus        76 ~~aA~~vG~lia~ra~~kgi~~vVfdr--------~g~~yhgRV~Ala~~AreaGL~f  125 (125)
T COG0256          76 TEAAYLVGKLIAERALAKGIEEVVFDR--------GGYKYHGRVAALADGAREAGLEF  125 (125)
T ss_pred             HHHHHHHHHHHHHHHHHcCCcEEEEcC--------CCCCcchHHHHHHHHHHHcCcCC
Confidence            448888999999999999999999665        44443 3433 445566678764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	101
3iz6_K	150	Localization Of The Small Subunit Ribosomal Protein		1e-35
2zkq_k	151	Structure Of A Mammalian Ribosomal 40s Subunit With		4e-35
3izb_K	137	Localization Of The Small Subunit Ribosomal Protein		8e-32
3jyv_K	125	Structure Of The 40s Rrna And Proteins And PE TRNA		9e-32
1s1h_K	136	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		2e-31
2xzm_K	151	Crystal Structure Of The Eukaryotic 40s Ribosomal S		2e-31
3j0l_K	140	Core Of Mammalian 80s Pre-Ribosome In Complex With		2e-31
3zey_H	144	High-resolution Cryo-electron Microscopy Structure		2e-26
3j20_M	137	Promiscuous Behavior Of Proteins In Archaeal Riboso		1e-19
2gy9_K	116	Structure Of The 30s Subunit Of A Pre-Translocation		1e-05
3fih_K	117	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		2e-05
1p6g_K	128	Real Space Refined Coordinates Of The 30s Subunit F		2e-05
1vs5_K	129	Crystal Structure Of The Bacterial Ribosome From Es		2e-05

>pdb|3IZ6|K Chain K, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 150

Iteration: 1
 Score =  144 bits (364), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 73/90 (81%), Positives = 76/90 (84%)
Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
           ETL RITGGMKVKADRDESSPYAAMLA+QDV+QRCKE GITALHIKLRA           
Sbjct: 50  ETLVRITGGMKVKADRDESSPYAAMLASQDVAQRCKELGITALHIKLRATGGNKTKTPGP 109
Query: 61  XAQSALRALARSGMKIGRIEDVTPIPTDST 90
            AQSALRALARSGMKIGRIEDVTP+PTDST
Sbjct: 110 GAQSALRALARSGMKIGRIEDVTPVPTDST 139

>pdb|2ZKQ|KK Chain k, Structure Of A Mammalian Ribosomal 40s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 151

Iteration: 1
 Score =  142 bits (358), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 72/90 (80%), Positives = 76/90 (84%)
Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
           ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+QRCKE GITALHIKLRA           
Sbjct: 51  ETICRVTGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGP 110
Query: 61  XAQSALRALARSGMKIGRIEDVTPIPTDST 90
            AQSALRALARSGMKIGRIEDVTPIP+DST
Sbjct: 111 GAQSALRALARSGMKIGRIEDVTPIPSDST 140

>pdb|3IZB|K Chain K, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 137

Iteration: 1
 Score =  131 bits (330), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 62/90 (68%), Positives = 74/90 (82%)
Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
           ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+ +CKE GITA+H+K+RA           
Sbjct: 37  ETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVGITAVHVKIRATGGTRTKTPGP 96
Query: 61  XAQSALRALARSGMKIGRIEDVTPIPTDST 90
             Q+ALRALARSG++IGRIEDVTP+P+DST
Sbjct: 97  GGQAALRALARSGLRIGRIEDVTPVPSDST 126

>pdb|3JYV|K Chain K, Structure Of The 40s Rrna And Proteins And PE TRNA FOR EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 125

Iteration: 1
 Score =  131 bits (330), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 62/90 (68%), Positives = 74/90 (82%)
Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
           ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+ +CKE GITA+H+K+RA           
Sbjct: 29  ETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVGITAVHVKIRATGGTRTKTPGP 88
Query: 61  XAQSALRALARSGMKIGRIEDVTPIPTDST 90
             Q+ALRALARSG++IGRIEDVTP+P+DST
Sbjct: 89  GGQAALRALARSGLRIGRIEDVTPVPSDST 118

>pdb|1S1H|K Chain K, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is In File 1s1i Length = 136

Iteration: 1
 Score =  130 bits (327), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 61/90 (67%), Positives = 74/90 (82%)
Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
           ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+ +C+E GITA+H+K+RA           
Sbjct: 36  ETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCREVGITAVHVKIRATGGTRTKTPGP 95
Query: 61  XAQSALRALARSGMKIGRIEDVTPIPTDST 90
             Q+ALRALARSG++IGRIEDVTP+P+DST
Sbjct: 96  GGQAALRALARSGLRIGRIEDVTPVPSDST 125

>pdb|2XZM|K Chain K, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In Complex With Initiation Factor 1. This File Contains The 40s Subunit And Initiation Factor For Molecule 1 Length = 151

Iteration: 1
 Score =  130 bits (326), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 68/90 (75%), Positives = 70/90 (77%)
Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
           ETL R+TGGMKVKADR+ESSPYAAM AA DV  RCKE  I ALHIKLRA           
Sbjct: 51  ETLVRVTGGMKVKADREESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGVETKQPGP 110
Query: 61  XAQSALRALARSGMKIGRIEDVTPIPTDST 90
            AQSALRALARSGMKIGRIEDVTPIPTDST
Sbjct: 111 GAQSALRALARSGMKIGRIEDVTPIPTDST 140

>pdb|3J0L|K Chain K, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas Fitted To A 9.8a Cryo-Em Map: Classic Pre State 1 Length = 140

Iteration: 1
 Score =  130 bits (326), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 68/90 (75%), Positives = 70/90 (77%)
Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
           ETL R+TGGMKVKADR+ESSPYAAM AA DV  RCKE  I ALHIKLRA           
Sbjct: 40  ETLVRVTGGMKVKADREESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGVETKQPGP 99
Query: 61  XAQSALRALARSGMKIGRIEDVTPIPTDST 90
            AQSALRALARSGMKIGRIEDVTPIPTDST
Sbjct: 100 GAQSALRALARSGMKIGRIEDVTPIPTDST 129

>pdb|3ZEY|H Chain H, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 144

Iteration: 1
 Score =  113 bits (283), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 64/90 (71%), Positives = 72/90 (80%)
Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
           ET  ++TGGMKVKADRDESSPYAAM+AAQDV  RCKE GI ALH+K+RA           
Sbjct: 44  ETFCKVTGGMKVKADRDESSPYAAMMAAQDVVARCKECGINALHVKMRATGGVGTKSPGP 103
Query: 61  XAQSALRALARSGMKIGRIEDVTPIPTDST 90
            AQ+ALRALAR+GMKIGRIEDVTP+PTDST
Sbjct: 104 GAQAALRALARAGMKIGRIEDVTPVPTDST 133

>pdb|3J20|M Chain M, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (30s Ribosomal Subunit) Length = 137

Iteration: 1
 Score = 90.9 bits (224), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 51/90 (56%), Positives = 65/90 (72%)
Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXX 60
           ET+ R +GGM VKADRDE SPYAAMLAA+  ++   E+GI  +HI++RA           
Sbjct: 37  ETISRWSGGMVVKADRDEPSPYAAMLAARRAAEEALEKGIVGVHIRVRAPGGSKSKTPGP 96
Query: 61  XAQSALRALARSGMKIGRIEDVTPIPTDST 90
            AQ+A+RALAR+G+KIGR+EDVTPIP D T
Sbjct: 97  GAQAAIRALARAGLKIGRVEDVTPIPHDGT 126

>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 = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 9/81 (11%)
Query: 8   GGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXXXAQSALR 67
           GG   +  R +S+P+AA +AA+  +   KE GI  L + ++              +S +R
Sbjct: 36  GGSGFRGSR-KSTPFAAQVAAERCADAVKEYGIKNLEVMVKGPGPGR--------ESTIR 86
Query: 68  ALARSGMKIGRIEDVTPIPTD 88
           AL  +G +I  I DVTPIP +
Sbjct: 87  ALNAAGFRITNITDVTPIPHN 107

>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 = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 9/81 (11%)
Query: 8   GGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXXXAQSALR 67
           GG   +  R +S+P+AA +AA+  +   KE GI  L + ++              +S +R
Sbjct: 36  GGSGFRGSR-KSTPFAAQVAAERCADAVKEYGIKNLEVMVKGPGPGR--------ESTIR 86
Query: 68  ALARSGMKIGRIEDVTPIPTD 88
           AL  +G +I  I DVTPIP +
Sbjct: 87  ALNAAGFRITNITDVTPIPHN 107

>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 = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 9/81 (11%)
Query: 8   GGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXXXAQSALR 67
           GG   +  R +S+P+AA +AA+  +   KE GI  L + ++              +S +R
Sbjct: 47  GGSGFRGSR-KSTPFAAQVAAERCADAVKEYGIKNLEVMVKGPGPGR--------ESTIR 97
Query: 68  ALARSGMKIGRIEDVTPIPTD 88
           AL  +G +I  I DVTPIP +
Sbjct: 98  ALNAAGFRITNITDVTPIPHN 118

>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 = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 27/81 (33%), Positives = 42/81 (51%), Gaps = 9/81 (11%)
Query: 8   GGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRAXXXXXXXXXXXXAQSALR 67
           GG   +  R +S+P+AA +AA+  +   KE GI  L + ++              +S +R
Sbjct: 48  GGSGFRGSR-KSTPFAAQVAAERCADAVKEYGIKNLEVMVKGPGPGR--------ESTIR 98
Query: 68  ALARSGMKIGRIEDVTPIPTD 88
           AL  +G +I  I DVTPIP +
Sbjct: 99  ALNAAGFRITNITDVTPIPHN 119

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	101
3u5c_O	137	RP59A, 40S ribosomal protein S14-A; translation, r	9e-47
2xzm_K	151	RPS14E; ribosome, translation; 3.93A {Tetrahymena	1e-40
3r8n_K	117	30S ribosomal protein S11; protein biosynthesis, R	8e-32
2vqe_K	129	30S ribosomal protein S11, 30S ribosomal protein S	3e-29
3bbn_K	140	Ribosomal protein S11; small ribosomal subunit, sp	9e-29

>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 =  145 bits (368), Expect = 9e-47
 Identities = 82/101 (81%), Positives = 96/101 (95%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+ +CKE GITA+H+K+RATGG +TKTPGP
Sbjct: 37  ETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVGITAVHVKIRATGGTRTKTPGP 96

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
           G Q+ALRALARSG++IGRIEDVTP+P+DSTR+KGGRRGRRL
Sbjct: 97  GGQAALRALARSGLRIGRIEDVTPVPSDSTRKKGGRRGRRL 137

>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 =  130 bits (328), Expect = 1e-40
 Identities = 86/101 (85%), Positives = 90/101 (89%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
           ETL R+TGGMKVKADR+ESSPYAAM AA DV  RCKE  I ALHIKLRA GG +TK PGP
Sbjct: 51  ETLVRVTGGMKVKADREESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGVETKQPGP 110

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL 101
           GAQSALRALARSGMKIGRIEDVTPIPTDSTRR+GGRRGRRL
Sbjct: 111 GAQSALRALARSGMKIGRIEDVTPIPTDSTRREGGRRGRRL 151

>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 =  100 bits (251), Expect = 3e-29
 Identities = 28/97 (28%), Positives = 48/97 (49%), Gaps = 8/97 (8%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
             +   +GG+       + +PYAA LAA D +++    G+ ++ + +R          G 
Sbjct: 38  NPITWSSGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRG--------TGA 89

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRR 97
           G + A+RAL  SG+++  I D TP+P +  R K   R
Sbjct: 90  GREQAIRALQASGLQVKSIVDDTPVPHNGCRPKKKFR 126

>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 =  100 bits (250), Expect = 9e-29
 Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 8/97 (8%)

Query: 1   ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP 60
             +   + G          +P+AA  AA +  +   E+G+    + +        K PG 
Sbjct: 51  RVVSWASAGTCGFRGTKRGTPFAAQTAAGNAIRTVVEQGMQRAEVMI--------KGPGL 102

Query: 61  GAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRR 97
           G  +ALRA+ RSG+ +  + DVTP+P +  R    RR
Sbjct: 103 GRDAALRAIRRSGILLSFVRDVTPMPHNGCRPPKKRR 139

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	101
3u5c_O	137	RP59A, 40S ribosomal protein S14-A; translation, r	100.0
2xzm_K	151	RPS14E; ribosome, translation; 3.93A {Tetrahymena	100.0
3j20_M	137	30S ribosomal protein S11P; archaea, archaeal, KIN	100.0
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
3bbn_K	140	Ribosomal protein S11; small ribosomal subunit, sp	100.0
4e0a_A	164	BH1408 protein; structural genomics, PSI-biology,	85.96
3v2d_S	112	50S ribosomal protein L18; ribosome associated inh	84.55
3r8s_O	116	50S ribosomal protein L18; protein biosynthesis, R	82.15

>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=1.7e-46  Score=265.58  Aligned_cols=101  Identities=81%  Similarity=1.282  Sum_probs=99.0

Q ss_pred             CceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEE
Q 043606            1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIE   80 (101)
Q Consensus         1 ~t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~   80 (101)
                      |++|+|+|++|||++++|+||||||+||++++++|+++||+.|+|+|+|+|||+++|||+||++|||+|+.+||+|.+|+
T Consensus        37 ~~~~~ssG~~gfKg~r~ksTpyAAq~aa~~~a~~a~e~Gi~~v~V~vra~gg~~~kgpG~Gr~sairaL~~~Gl~I~~I~  116 (137)
T 3u5c_O           37 ETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVGITAVHVKIRATGGTRTKTPGPGGQAALRALARSGLRIGRIE  116 (137)
T ss_dssp             SCCCCCBTTTTSCCSTTTTCHHHHHHHHHHHHHHHHHHTCCEEECEEECSCTTSCCSCCGGGHHHHHHHHTTTCEECCCE
T ss_pred             EEEEEeCCCcEEeCCcccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEeccCCCcccCCCcchHHHHHHHHhCCCEEEEEE
Confidence            57899999999999998999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCCCCCCCCCCCCCCCCC
Q 043606           81 DVTPIPTDSTRRKGGRRGRRL  101 (101)
Q Consensus        81 D~TpiphNGcR~~K~RR~~~~  101 (101)
                      |+||+|||||||||+||.|||
T Consensus       117 DvTpiPhnGcRp~K~RR~~~~  137 (137)
T 3u5c_O          117 DVTPVPSDSTRKKGGRRGRRL  137 (137)
T ss_dssp             ECCCCCSSCSCCTTCTTCCCC
T ss_pred             EcCCCCCCCCCCCCCCCCCCC
Confidence            999999999999999999996

>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=4.3e-45  Score=261.97  Aligned_cols=101  Identities=85%  Similarity=1.217  Sum_probs=99.0

Q ss_pred             CceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEE
Q 043606            1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIE   80 (101)
Q Consensus         1 ~t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~   80 (101)
                      |++|+|||+++|+++++|+||||||+||++++++|+++||+.|+|+|+|+|||+++|||+||++|||+|+.+||+|.+|+
T Consensus        51 ~~~~~ssgg~~~k~~r~ksTpyAAq~aa~~~a~~a~e~Gi~~v~V~vkG~gg~~~kgpG~GresairaL~~~GlkI~~I~  130 (151)
T 2xzm_K           51 ETLVRVTGGMKVKADREESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGVETKQPGPGAQSALRALARSGMKIGRIE  130 (151)
T ss_dssp             SEEEECCHHHHCSSGGGGSCHHHHHHHHHHHHHHHHHHTCCEEEEEEECCCTTSCCSCCSHHHHHHHHHHHTSCEEEEEE
T ss_pred             EEEEEecCcceEeCCCCcCCHHHHHHHHHHHHHHHHHcCCeEEEEEEEcCCCCCccCCCccHHHHHHHHHHCCCEEEEEE
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ecCCCCCCCCCCCCCCCCCCC
Q 043606           81 DVTPIPTDSTRRKGGRRGRRL  101 (101)
Q Consensus        81 D~TpiphNGcR~~K~RR~~~~  101 (101)
                      |+||+|||||||||+||+||+
T Consensus       131 DvTpiPhNGcRp~K~RRvr~~  151 (151)
T 2xzm_K          131 DVTPIPTDSTRREGGRRGRRL  151 (151)
T ss_dssp             ECCCCCSSCCCCSSCTTCSCC
T ss_pred             EeCCCCCCCCCCCCCCCCCCC
Confidence            999999999999999999986

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

Probab=100.00  E-value=1.2e-42  Score=246.01  Aligned_cols=100  Identities=61%  Similarity=0.989  Sum_probs=94.8

Q ss_pred             Cceee-eeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEE
Q 043606            1 ETLER-ITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRI   79 (101)
Q Consensus         1 ~t~~~-SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I   79 (101)
                      |+++| |+|++||++.+ |+||||||+||++++++|+++||+.|+|+|+|+|||+++-||+||++|||+|+.+||+|.+|
T Consensus        37 ~~i~~~S~G~~gfkg~~-ksTp~AA~~aa~~~~~~a~e~Gi~~v~V~vkG~gg~~~~~pG~GresairaL~~~Gl~I~~I  115 (137)
T 3j20_M           37 ETISRWSGGMVVKADRD-EPSPYAAMLAARRAAEEALEKGIVGVHIRVRAPGGSKSKTPGPGAQAAIRALARAGLKIGRV  115 (137)
T ss_dssp             SEEEEEEGGGTCSCTTT-SSSHHHHHHHHHHHHHHHHHHTEEEEEEEEECCCSSSCCSCCTHHHHHHHHHHHHTCEEEEE
T ss_pred             EEEEEEccceeeecCCc-cCCHHHHHHHHHHHHHHHHHcCCeEEEEEEECCCCCCCcCCCCcHHHHHHHHHhCCCEEEEE
Confidence            35555 66778999988 99999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EecCCCCCCCCCCCCCCCCCCC
Q 043606           80 EDVTPIPTDSTRRKGGRRGRRL  101 (101)
Q Consensus        80 ~D~TpiphNGcR~~K~RR~~~~  101 (101)
                      +|+||+||||||||+.||+|||
T Consensus       116 ~DvTpiPhnGcRp~g~rr~rrv  137 (137)
T 3j20_M          116 EDVTPIPHDGTRPKGGRRGRRV  137 (137)
T ss_dssp             EECCCCCSSCCCCSCCSSSSCC
T ss_pred             EEcCCCCCCCCCCCCCCCCCCC
Confidence            9999999999999999999997

>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-40  Score=232.11  Aligned_cols=88  Identities=32%  Similarity=0.508  Sum_probs=85.4

Q ss_pred             ceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEe
Q 043606            2 TLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIED   81 (101)
Q Consensus         2 t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D   81 (101)
                      ++|.|+|++||||++ |+||||||+||++++++|+|+||+.|+|+|        +|||+||+++|++|+.+||+|.+|+|
T Consensus        40 ~~~~SaG~~gfKg~r-k~tp~AA~~aa~~~~~~~~~~Gi~~v~V~v--------kG~G~Gre~airaL~~~Gl~I~~I~D  110 (129)
T 2vqe_K           40 ITWSSGGVIGYKGSR-KGTPYAAQLAALDAAKKAMAYGMQSVDVIV--------RGTGAGREQAIRALQASGLQVKSIVD  110 (129)
T ss_dssp             EEECCTTTTTCCSGG-GGSHHHHHHHHHHHHHHHHTTTCCEEEEEE--------ESCCTTHHHHHHHHHTSSSEEEECEE
T ss_pred             EEEEeccceeEcCCC-cCCHHHHHHHHHHHHHHHHHhCCeEEEEEE--------ECCCCCHHHHHHHHHHCCCEEEEEEE
Confidence            578899999999999 999999999999999999999999999999        78999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCCCCC
Q 043606           82 VTPIPTDSTRRKGGRRG   98 (101)
Q Consensus        82 ~TpiphNGcR~~K~RR~   98 (101)
                      +||+|||||||||+||+
T Consensus       111 vTpiPhnGcRp~K~RRv  127 (129)
T 2vqe_K          111 DTPVPHNGCRPKKKFRK  127 (129)
T ss_dssp             CCCCCSSCSCCCGGGCS
T ss_pred             cCCCCCCCCCCCCCCCC
Confidence            99999999999999986

>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=1.1e-39  Score=231.44  Aligned_cols=89  Identities=30%  Similarity=0.489  Sum_probs=85.6

Q ss_pred             CceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEE
Q 043606            1 ETLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIE   80 (101)
Q Consensus         1 ~t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~   80 (101)
                      +++|.|+|++||||++ |+||||||+|+++++++|+|+||+.|+|+|        +|||+||+++|++|+.+||+|.+|+
T Consensus        52 ~i~~~SaG~~GfKg~r-ksTp~AA~~aa~~~~~~a~e~Gi~~v~V~v--------kG~G~GReaairaL~~~Gl~I~~I~  122 (140)
T 3bbn_K           52 VVSWASAGTCGFRGTK-RGTPFAAQTAAGNAIRTVVEQGMQRAEVMI--------KGPGLGRDAALRAIRRSGILLSFVR  122 (140)
T ss_dssp             EEEEEETTTSSCCTTS-CSSHHHHHHHHTSGGGTSTTTCCCEEEEEE--------ESCSTTSSHHHHHHHTTTCEEEEEE
T ss_pred             EEEEEeccceeEcccc-cCCHHHHHHHHHHHHHHHHHhCCeEEEEEE--------ECCCCcHHHHHHHHHHCCCEEEEEE
Confidence            3578899999999999 999999999999999999999999999999        7899999999999999999999999


Q ss_pred             ecCCCCCCCCCCCCCCCC
Q 043606           81 DVTPIPTDSTRRKGGRRG   98 (101)
Q Consensus        81 D~TpiphNGcR~~K~RR~   98 (101)
                      |+||+|||||||||+||+
T Consensus       123 DvTpiPhnGcRppK~RRv  140 (140)
T 3bbn_K          123 DVTPMPHNGCRPPKKRRV  140 (140)
T ss_dssp             ECCCCCCSCCCCCCCCCC
T ss_pred             EcCCCCCCCCCCCCCCCC
Confidence            999999999999999985

>4e0a_A BH1408 protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG, transferase; 1.80A {Bacillus halodurans} PDB: 4f6a_A*

Probab=85.96  E-value=4.2  Score=24.96  Aligned_cols=57  Identities=11%  Similarity=0.097  Sum_probs=41.7

Q ss_pred             CcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEecCCCCC
Q 043606           19 SSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPIPT   87 (101)
Q Consensus        19 ~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D~Tpiph   87 (101)
                      +.=++.++. +.+.+.+.+.|+..|.+.+           -.....+++..++.|++.......++-|-
T Consensus       102 g~Gig~~ll-~~~~~~~~~~g~~~i~l~~-----------~~~n~~a~~~y~k~GF~~~~~~~~~~~~~  158 (164)
T 4e0a_A          102 GGGIGRLIF-EAIISYGKAHQVDAIELDV-----------YDFNDRAKAFYHSLGMRCQKQTMELPLLE  158 (164)
T ss_dssp             SSSHHHHHH-HHHHHHHHHTTCSEEEEEE-----------ETTCHHHHHHHHHTTCEEEEEEEEEECC-
T ss_pred             cCChHHHHH-HHHHHHHHHcCCCEEEEEE-----------EcCCHHHHHHHHHcCCEEeceeccCCccc
Confidence            334555544 5688889999999999998           23456788999999999887776665543

>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=84.55  E-value=1.3  Score=29.58  Aligned_cols=49  Identities=14%  Similarity=0.240  Sum_probs=35.6

Q ss_pred             cHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCCh-HHHHHHHHhCCCe
Q 043606           20 SPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGA-QSALRALARSGMK   75 (101)
Q Consensus        20 t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr-~~~lr~l~~~gl~   75 (101)
                      .--||..+++.++++|++.||+.|..-.   +|....    || .++..++...||+
T Consensus        62 n~~AA~~vG~llA~ra~~~GI~~vvfDr---gg~~yh----GrV~Ala~~are~GL~  111 (112)
T 3v2d_S           62 KTEVARQVGRALAEKALALGIKQVAFDR---GPYKYH----GRVKALAEGAREGGLE  111 (112)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTCCBCEEEC---TTSCSC----SSTTHHHHHHHHTTCB
T ss_pred             CHHHHHHHHHHHHHHHHHCCCCEEEEec---CCCccc----HHHHHHHHHHHHcCCC
Confidence            4458888999999999999999986553   343332    33 3566777888886

>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=82.15  E-value=1.5  Score=29.34  Aligned_cols=50  Identities=22%  Similarity=0.325  Sum_probs=35.2

Q ss_pred             CcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHH-HHHHHHhCCCe
Q 043606           19 SSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQS-ALRALARSGMK   75 (101)
Q Consensus        19 ~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~-~lr~l~~~gl~   75 (101)
                      ..--||..+++.++++|++.||+.|..-.   +|....    ||-. +..++...||+
T Consensus        65 ~n~~AA~~vG~llA~Ral~~GI~~vvfDr---gg~~yh----GrV~Ala~~are~Gl~  115 (116)
T 3r8s_O           65 GNKDAAAAVGKAVAERALEKGIKDVSFDR---SGFQYH----GRVQALADAAREAGLQ  115 (116)
T ss_dssp             SSHHHHHHHHHHHHHHHHTTTCCCCEEEC---TTSCSS----SHHHHHHHHHHHTTCC
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCEEEEec---CCCccc----HHHHHHHHHHHHhCCC
Confidence            34558888999999999999999988654   333332    4533 45666777875

---

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	101
d2qalk1	117	c.55.4.1 (K:12-128) Ribosomal protein S11 {Escheri	3e-23
d2uubk1	119	c.55.4.1 (K:11-129) Ribosomal protein S11 {Thermus	1e-20

>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 = 84.1 bits (208), Expect = 3e-23
 Identities = 34/91 (37%), Positives = 47/91 (51%), Gaps = 8/91 (8%)

Query: 7   TGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSAL 66
           T G        +S+P+AA +AA+  +   KE GI  L + +        K PGPG +S +
Sbjct: 34  TAGGSGFRGSRKSTPFAAQVAAERCADAVKEYGIKNLEVMV--------KGPGPGRESTI 85

Query: 67  RALARSGMKIGRIEDVTPIPTDSTRRKGGRR 97
           RAL  +G +I  I DVTPIP +  R    RR
Sbjct: 86  RALNAAGFRITNITDVTPIPHNGCRPPKKRR 116

>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 = 77.2 bits (190), Expect = 1e-20
 Identities = 28/91 (30%), Positives = 47/91 (51%), Gaps = 8/91 (8%)

Query: 7   TGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSAL 66
           +GG+       + +PYAA LAA D +++    G+ ++ + +R          G G + A+
Sbjct: 34  SGGVIGYKGSRKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRG--------TGAGREQAI 85

Query: 67  RALARSGMKIGRIEDVTPIPTDSTRRKGGRR 97
           RAL  SG+++  I D TP+P +  R K   R
Sbjct: 86  RALQASGLQVKSIVDDTPVPHNGCRPKKKFR 116

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	101
d2qalk1	117	Ribosomal protein S11 {Escherichia coli [TaxId: 56	100.0
d2uubk1	119	Ribosomal protein S11 {Thermus thermophilus [TaxId	100.0
d1vqon1	186	Ribosomal protein L18 (L18p) {Archaeon Haloarcula	91.7
d1nxua_	332	2,3-diketogulonate oxidoreductase (YiaK) {Escheric	84.15
d2nu7b1	150	Succinyl-CoA synthetase, beta-chain, C-terminal do	83.79
d1ufha_	155	Putative acetyltransferase YycN {Bacillus subtilis	82.08
d1rfma_	344	L-sulfolactate dehydrogenase {Archaeon Methanococc	81.96
d1xrha_	343	Ureidoglycolate dehydrogenase AllD {Escherichia co	81.71

>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=4.9e-39  Score=220.19  Aligned_cols=88  Identities=40%  Similarity=0.636  Sum_probs=84.9

Q ss_pred             ceeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEe
Q 043606            2 TLERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIED   81 (101)
Q Consensus         2 t~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D   81 (101)
                      ..|.|+|.+||||.+ |+||||||.+++.++++++++||+.|+|++        +|+|+||+++|++|+.+||+|.+|+|
T Consensus        30 ~~~~S~G~~gfkg~~-K~t~~Aa~~~a~~~~~~~~~~gi~~v~V~~--------kG~G~GR~~air~l~~~gl~I~~I~D  100 (117)
T d2qalk1          30 LGWATAGGSGFRGSR-KSTPFAAQVAAERCADAVKEYGIKNLEVMV--------KGPGPGRESTIRALNAAGFRITNITD  100 (117)
T ss_dssp             EEEEETTTSSCCHHH-HTSHHHHHHHHHHHHHHHGGGTCCEEEEEE--------ECCSTTTTHHHHHHHHTTCEEEEEEE
T ss_pred             EEEEecccccccccc-ccchHHHHHHHHHHHHHHHHcCCcEEEEEE--------eCCCCchHHHHHHHHhCCCEEEEEEE
Confidence            467899999999999 999999999999999999999999999999        78999999999999999999999999


Q ss_pred             cCCCCCCCCCCCCCCCC
Q 043606           82 VTPIPTDSTRRKGGRRG   98 (101)
Q Consensus        82 ~TpiphNGcR~~K~RR~   98 (101)
                      +||+|||||||||+||+
T Consensus       101 ~TpiphnGcRp~K~RRv  117 (117)
T d2qalk1         101 VTPIPHNGCRPPKKRRV  117 (117)
T ss_dssp             CCCCCSSCSCCCCCCCC
T ss_pred             CCCCCCCCCCCCCCCCC
Confidence            99999999999999985

>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=1.7e-38  Score=217.92  Aligned_cols=87  Identities=32%  Similarity=0.516  Sum_probs=84.0

Q ss_pred             eeeeeccceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEec
Q 043606            3 LERITGGMKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDV   82 (101)
Q Consensus         3 ~~~SsG~~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D~   82 (101)
                      .|.|+|.+||||++ |+||||||++++.++++++++||+.|+|++        +|+|+||+++|++|+.+|++|++|+|+
T Consensus        31 ~~~S~G~~gfkg~r-k~t~~Aa~~~a~~~~~k~~~~g~~~v~v~~--------kG~G~gR~~~ik~l~~~g~kI~~I~D~  101 (119)
T d2uubk1          31 TWSSGGVIGYKGSR-KGTPYAAQLAALDAAKKAMAYGMQSVDVIV--------RGTGAGREQAIRALQASGLQVKSIVDD  101 (119)
T ss_dssp             EEEETTTSSCCSGG-GGSHHHHHHHHHHHHHHHHTTTCCEEEEEE--------ECCCTTHHHHHHHHHTSSSEEEECEEC
T ss_pred             EEEecccceecccc-ccchhHHHHHHHHHHHHHHHcCCcEEEEEE--------EcCCCChHHHHHHHHHCCCEEEEEEEC
Confidence            46789999999999 999999999999999999999999999999        789999999999999999999999999


Q ss_pred             CCCCCCCCCCCCCCCC
Q 043606           83 TPIPTDSTRRKGGRRG   98 (101)
Q Consensus        83 TpiphNGcR~~K~RR~   98 (101)
                      ||+|||||||||+||+
T Consensus       102 T~iphnGcRp~K~RRk  117 (119)
T d2uubk1         102 TPVPHNGCRPKKKFRK  117 (119)
T ss_dssp             CCCCSSCSCCCGGGCC
T ss_pred             CCCCCCCCCCCCCCCC
Confidence            9999999999999986

>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=91.70  E-value=0.18  Score=34.91  Aligned_cols=58  Identities=17%  Similarity=0.298  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCC-Ch-HHHHHHHHhCCCeEEEEEecCCCCCCCCCCCC
Q 043606           22 YAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGP-GA-QSALRALARSGMKIGRIEDVTPIPTDSTRRKG   94 (101)
Q Consensus        22 ~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~-gr-~~~lr~l~~~gl~I~~I~D~TpiphNGcR~~K   94 (101)
                      -||..++..+++++++.|++.+.+-+ |.     +|+=. || .+++++...+||+|         |||-.+-|.
T Consensus        79 ~AAy~~G~liA~ra~~~gi~~vvfD~-G~-----~~~~yhgRV~A~akgard~GL~I---------ph~~~~~p~  138 (186)
T d1vqon1          79 PSAYLTGLLAGLRAQEAGVEEAVLDI-GL-----NSPTPGSKVFAIQEGAIDAGLDI---------PHNDDVLAD  138 (186)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCBCEEEC-TT-----SCCCTTCHHHHHHHHHHHTTCBC---------CCCGGGSCC
T ss_pred             HHHHHhHHHHHHHHHhhcccceEEee-CC-----CCCCccchHHHHHHHHHhcCccC---------CCCCccCCC
Confidence            37888999999999999999988874 11     23222 34 45778889999985         887666553

>d1nxua_ c.122.1.1 (A:) 2,3-diketogulonate oxidoreductase (YiaK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: L-sulfolactate dehydrogenase-like
superfamily: L-sulfolactate dehydrogenase-like
family: L-sulfolactate dehydrogenase-like
domain: 2,3-diketogulonate oxidoreductase (YiaK)
species: Escherichia coli [TaxId: 562]

Probab=84.15  E-value=5  Score=29.06  Aligned_cols=74  Identities=12%  Similarity=0.063  Sum_probs=57.8

Q ss_pred             ceeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEecCCC--CC
Q 043606           10 MKVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPI--PT   87 (101)
Q Consensus        10 ~gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D~Tpi--ph   87 (101)
                      .-+.+.. ---++++..|.+.++++|++.|+-.|.|+=       ++.+|.--..+.++.. .|+--+...+..|.  ||
T Consensus        77 ~~vDg~~-g~G~~~~~~a~~~ai~kA~~~Gi~~v~v~n-------s~h~G~~g~y~~~aa~-~g~igi~~tn~~~~vap~  147 (332)
T d1nxua_          77 EQWDAQR-SIGNLTAKKMMDRAIELAADHGIGLVALRN-------ANHWMRGGSYGWQAAE-KGYIGICWTNSIAVMPPW  147 (332)
T ss_dssp             EEEECTT-CCHHHHHHHHHHHHHHHHHHHSEEEEEEEE-------ECCCSCTHHHHHHHHH-TTCEEEEEECCSSCBCCT
T ss_pred             EEEcccc-cccHHHHHHHHHHHHHHHHhccccEEeecc-------CCcchHHHHHhHHHHh-cCceEEEecCCCCccCCC
Confidence            3456666 778899999999999999999999998885       3789998888877655 67766666666664  88


Q ss_pred             CCCCC
Q 043606           88 DSTRR   92 (101)
Q Consensus        88 NGcR~   92 (101)
                      +|-+|
T Consensus       148 Gg~~~  152 (332)
T d1nxua_         148 GAKEC  152 (332)
T ss_dssp             TBSSC
T ss_pred             CCCCc
Confidence            88554

>d2nu7b1 c.23.4.1 (B:239-388) Succinyl-CoA synthetase, beta-chain, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Succinyl-CoA synthetase domains
family: Succinyl-CoA synthetase domains
domain: Succinyl-CoA synthetase, beta-chain, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=83.79  E-value=0.72  Score=30.61  Aligned_cols=48  Identities=25%  Similarity=0.379  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHHHcCCc-EEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEec
Q 043606           25 MLAAQDVSQRCKERGIT-ALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDV   82 (101)
Q Consensus        25 ~~a~~~~~~~~~~~gi~-~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D~   82 (101)
                      ..+|+-+++.+++.+++ ++.|++.          |.+.+-+.+.|+.+|++|....|.
T Consensus        88 d~vA~GIv~A~k~~~~~iPiVVRl~----------Gtn~eeg~~iL~~~gl~i~~~~~l  136 (150)
T d2nu7b1          88 DLIADGIIGAVAEVGVNVPVVVRLE----------GNNAELGAKKLADSGLNIIAAKGL  136 (150)
T ss_dssp             HHHHHHHHHHHHHHTCCSCEEEEEE----------STTHHHHHHHHHHHCSSEEECSSH
T ss_pred             HHHHHHHHHHHHhcCCCCcEEEEec----------CCCHHHHHHHHHHCCCCeEEeCCH
Confidence            44667778888888776 6888883          778899999999999998865553

>d1ufha_ d.108.1.1 (A:) Putative acetyltransferase YycN {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Acyl-CoA N-acyltransferases (Nat)
superfamily: Acyl-CoA N-acyltransferases (Nat)
family: N-acetyl transferase, NAT
domain: Putative acetyltransferase YycN
species: Bacillus subtilis [TaxId: 1423]

Probab=82.08  E-value=0.95  Score=26.91  Aligned_cols=49  Identities=18%  Similarity=0.264  Sum_probs=37.0

Q ss_pred             cHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEE
Q 043606           20 SPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIE   80 (101)
Q Consensus        20 t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~   80 (101)
                      .=++..+ -+.+.+.+.++|++.|.+.+           ..+-+.+++..++.|+++..|.
T Consensus       102 ~Gig~~l-l~~~~~~~~~~g~~~i~l~v-----------~~~N~~a~~~y~k~GF~~~g~~  150 (155)
T d1ufha_         102 KGYAKQA-LAALDQAARSMGIRKLSLHV-----------FAHNQTARKLYEQTGFQETDVV  150 (155)
T ss_dssp             SSHHHHH-HHHHHHHHHHTTCCEEEECC-----------CTTCHHHHHHHHHTTCCCCCCC
T ss_pred             CcccchH-HHHHHHHhhhcCCceeEEEE-----------cCCCHHHHHHHHHCCCEEEeEE
Confidence            3355443 45677888999999988877           4556789999999999887654

>d1rfma_ c.122.1.1 (A:) L-sulfolactate dehydrogenase {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: L-sulfolactate dehydrogenase-like
superfamily: L-sulfolactate dehydrogenase-like
family: L-sulfolactate dehydrogenase-like
domain: L-sulfolactate dehydrogenase
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=81.96  E-value=4.1  Score=29.60  Aligned_cols=72  Identities=14%  Similarity=0.112  Sum_probs=56.2

Q ss_pred             eeeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEecCCC--CCC
Q 043606           11 KVKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPI--PTD   88 (101)
Q Consensus        11 gfKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D~Tpi--phN   88 (101)
                      -+.+.. ---++|+..+.+.++++|++.|+-.|.|+=       +..+|..-..+.++.. .|+--+..++..|.  ||+
T Consensus        78 ~vDg~~-g~G~~a~~~a~~~aie~A~~~Gi~~v~v~n-------s~h~G~~g~y~~~aa~-~g~i~i~~tn~~~~vap~G  148 (344)
T d1rfma_          78 VIDGDL-GLGQVVGKKAMELAIKKAKNVGVGVVATRN-------ANHFGIAGYYSELAMN-QDMIGITITNTEPAMAPFG  148 (344)
T ss_dssp             EEEEEE-ECHHHHHHHHHHHHHHHHHHHSEEEEEEEE-------ECCCSCTHHHHHHHHT-TTSEEEEEECCSSCBCCTT
T ss_pred             EEcccC-CccHHHHHHHHHHHHHHHHhcCceEEEecc-------CCCCcccHHHHHHHHh-cCCeEEEeecccceecccC
Confidence            344554 557889999999999999999999998875       3779998888877654 67777777777776  888


Q ss_pred             CCC
Q 043606           89 STR   91 (101)
Q Consensus        89 GcR   91 (101)
                      |-.
T Consensus       149 g~~  151 (344)
T d1rfma_         149 GKE  151 (344)
T ss_dssp             BCS
T ss_pred             Ccc
Confidence            843

>d1xrha_ c.122.1.1 (A:) Ureidoglycolate dehydrogenase AllD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: L-sulfolactate dehydrogenase-like
superfamily: L-sulfolactate dehydrogenase-like
family: L-sulfolactate dehydrogenase-like
domain: Ureidoglycolate dehydrogenase AllD
species: Escherichia coli [TaxId: 562]

Probab=81.71  E-value=5.1  Score=29.17  Aligned_cols=72  Identities=15%  Similarity=0.207  Sum_probs=55.2

Q ss_pred             eeccCCCCcHHHHHHHHHHHHHHHHHcCCcEEEEEEeecCCCcccCCCCChHHHHHHHHhCCCeEEEEEecCCC--CCCC
Q 043606           12 VKADRDESSPYAAMLAAQDVSQRCKERGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPI--PTDS   89 (101)
Q Consensus        12 fKg~r~k~t~~Aa~~a~~~~~~~~~~~gi~~v~V~lrg~~g~~~kG~G~gr~~~lr~l~~~gl~I~~I~D~Tpi--phNG   89 (101)
                      +.+.. ---++++..|.+.++++|++.|+-.|.|+=       +..+|.--..+.++.. .|+--+...+..|.  ||+|
T Consensus        80 vDg~~-g~G~~a~~~A~~~aiekAk~~Gi~~v~v~n-------s~H~G~~~~y~~~aa~-~g~igi~~tn~~~~vap~Gg  150 (343)
T d1xrha_          80 LHADN-AAGQVAAKMGMEHAIKTAQQNGVAVVGISR-------MGHSGAISYFVQQAAR-AGFIGISMCQSDPMVVPFGG  150 (343)
T ss_dssp             EEEEE-ECHHHHHHHHHHHHHHHHHHHSEEEEEEEE-------ECCCCCTHHHHHHHHH-TTSEEEEEECCCCCBCCTTB
T ss_pred             ehhcc-cchHHHHHHHHHHHHHHHhhcCcceEeecc-------CcchhhHHHHHHHHHH-cCceeEEeeccchhhhhcCC
Confidence            44444 456889999999999999999999999885       3789998888877555 57766666776665  8887


Q ss_pred             CCC
Q 043606           90 TRR   92 (101)
Q Consensus        90 cR~   92 (101)
                      -+|
T Consensus       151 ~~~  153 (343)
T d1xrha_         151 AEI  153 (343)
T ss_dssp             SSC
T ss_pred             cCc
Confidence            543