Citrus Sinensis ID: 039298

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------
Protein Sequence
ETECISLLFRVFTFSFRLGTNPSLLNPSRVFAGMSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGRRL
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHccccccccccccccccccccccccccccccEEEEccccccccccEEEEEEEEcccccEEEEEEcccccEEEEEEccccEEEcccccccHHHHHHHHHHHHHHHHHHcccEEEEEEEEccccccccccccHHHHHHHHHHcccEEEEEEccHHHHHcccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHEEEEEEcccccccccccHHHHHccccccccccccEEEccccEEccccEEEEEEEEEEcccEEEEEEcccccEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHccccEEEEEEEccccccccccccHHHHHHHHHHHcccEEEEEcccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
ETECISLLFRVFTfsfrlgtnpsllnpsrvfagmsrrknrepkeenvtlgpavrdgehvFGVAHIFAsfndtfihvtdlsgRETLVRITGGmkvkadrdesspYAAMLAAQDVSTRCKELGITALHIKLRatggnktktpgpgAQSALRALARSGMKIGRIDLEGLLILGLYyisedvtpiptdstrrkggrrgrrl
Flexible Loop (DISEMBL)
ETECISLLFRVFtfsfrlgtnpsllnpsrvfagmsrrknrepkeenvtlgpavrdGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMkvkadrdessPYAAMLAAQDVSTRCKELGITALHIKlratggnktktpgpgaQSALRALARSGMKIGRIDLEGLLILGLYyisedvtpiptdstrrkggrrgrrl
Low Complexity Region (SEG)
ETECISLLFRVFTFSFRLGTNPSLLNPSRVFAGMSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAtggnktktpgpgAQSALRALARSGMKigridlegllilglYYISEDVTPIPTDSTrrkggrrgrrL
Disordered region (IsUnstruct)
***CISLLFRVFTFSFRLGTNPSLL*************************PAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKV*********YAAMLAAQDVSTRCKELGITALHIKLRA*******************LARSGMKIGRIDLEGLLILGLYYISEDVT******************
Disordered Region (DISOPRED)
***CISLLFRVFTFSFRL***************************************HVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM******D**SPYAAMLAAQDVSTRCKELGITALHIKLRATGGN******PGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTR**********
Disordered Region (DISEMBL)
ETECISLLFRVFTFSFRLGTNPSLLNPSRVFAGM*************TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIP***************
Disordered Region (DISPRO)
ETECISLLFRVFTFSFRLGTNPSLLNPSRVFAGMSRRK*****EENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKT*TPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDST***********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
ETECISLLFRVFTFSFRLGTNPSLLNPSRVFAGMSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGRRL
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	197	2.2.26 [Sep-21-2011]
P42036	150	40S ribosomal protein S14	yes	no	0.705	0.926	0.830	5e-68
P19950	149	40S ribosomal protein S14	N/A	no	0.700	0.926	0.856	2e-67
P19951	150	40S ribosomal protein S14	N/A	no	0.690	0.906	0.854	3e-67
Q9CAX6	150	40S ribosomal protein S14	yes	no	0.705	0.926	0.823	4e-67
O22584	150	40S ribosomal protein S14	N/A	no	0.705	0.926	0.849	8e-67
Q9SIH0	150	40S ribosomal protein S14	yes	no	0.705	0.926	0.816	2e-66
Q08699	151	40S ribosomal protein S14	N/A	no	0.705	0.920	0.759	8e-62
P46295	153	40S ribosomal protein S14	N/A	no	0.685	0.882	0.785	1e-61
P62264	151	40S ribosomal protein S14	yes	no	0.705	0.920	0.766	2e-61
P62263	151	40S ribosomal protein S14	yes	no	0.705	0.920	0.766	2e-61

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

 Score =  256 bits (655), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 127/153 (83%), Positives = 134/153 (87%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MS+RK +EPK ENVTLGPAVR+GE VFGV H+FASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSKRKTKEPKVENVTLGPAVREGEQVFGVVHVFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+ RCKELGITA+H+KLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVAQRCKELGITAIHVKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGMKIGRI              EDVTPIPTDST
Sbjct: 121 SGMKIGRI--------------EDVTPIPTDST 139

Arabidopsis thaliana (taxid: 3702)

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

 Score =  254 bits (650), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 131/153 (85%), Positives = 134/153 (87%), Gaps = 15/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK REPKEENV LGP VR+GE VFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSRRKTREPKEENV-LGPTVREGEFVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 59

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 60  VKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 119

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGMKIGRI              EDVTP+PTDST
Sbjct: 120 SGMKIGRI--------------EDVTPVPTDST 138

Zea mays (taxid: 4577)

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

 Score =  254 bits (649), Expect = 3e-67,   Method: Compositional matrix adjust.
 Identities = 129/151 (85%), Positives = 134/151 (88%), Gaps = 15/151 (9%)

Query: 36  RRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVK 95
           R+K REPKEENV LGPAVR+GEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVK
Sbjct: 4   RKKTREPKEENV-LGPAVREGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVK 62

Query: 96  ADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSG 155
           ADRDESSPYAAMLA+QDV+ RCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSG
Sbjct: 63  ADRDESSPYAAMLASQDVAQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSG 122

Query: 156 MKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           MKIGRI              EDVTP+PTDST
Sbjct: 123 MKIGRI--------------EDVTPVPTDST 139

Zea mays (taxid: 4577)

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

 Score =  253 bits (647), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 126/153 (82%), Positives = 133/153 (86%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MS+RK +EPK E VTLGP+VR+GE VFGV HIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSKRKTKEPKVETVTLGPSVREGEQVFGVVHIFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+ RCKELGITA+H+KLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVAQRCKELGITAMHVKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGMKIGRI              EDVTPIPTDST
Sbjct: 121 SGMKIGRI--------------EDVTPIPTDST 139

Arabidopsis thaliana (taxid: 3702)

>sp|O22584|RS14_LUPLU 40S ribosomal protein S14 OS=Lupinus luteus GN=RPS14 PE=2 SV=1

 Score =  253 bits (645), Expect = 8e-67,   Method: Compositional matrix adjust.
 Identities = 130/153 (84%), Positives = 133/153 (86%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK R+ KEE VTLGPAV DGEHVFGVA IFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSRRKVRDTKEETVTLGPAVSDGEHVFGVARIFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+TRCKELGITALHIKLRATGGNKTKTPG GAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVATRCKELGITALHIKLRATGGNKTKTPGRGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGMKIGRI              EDVTPIP+DST
Sbjct: 121 SGMKIGRI--------------EDVTPIPSDST 139

Lupinus luteus (taxid: 3873)

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

 Score =  251 bits (641), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 125/153 (81%), Positives = 133/153 (86%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MS+RK +EPK + VTLGP+VR+GE VFGV HIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSKRKTKEPKVDVVTLGPSVREGEQVFGVVHIFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+ RCKELGITA+H+KLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVAQRCKELGITAMHVKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGMKIGRI              EDVTPIPTDST
Sbjct: 121 SGMKIGRI--------------EDVTPIPTDST 139

Arabidopsis thaliana (taxid: 3702)

>sp|Q08699|RS14_PODCA 40S ribosomal protein S14 OS=Podocoryne carnea GN=RPS14 PE=2 SV=1

 Score =  236 bits (602), Expect = 8e-62,   Method: Compositional matrix adjust.
 Identities = 117/154 (75%), Positives = 130/154 (84%), Gaps = 15/154 (9%)

Query: 34  MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
           M+ RK + PKEE V +LGP V DGE+VFGVAHIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct: 1   MAPRKGKAPKEEQVISLGPQVADGENVFGVAHIFASFNDTFVHVTDLSGKETIARVTGGM 60

Query: 93  KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALA 152
           KVKADRDESSPYAAMLAAQDV+ RCKE+GITALH+KLRATGGN+TKTPGPGAQSALRALA
Sbjct: 61  KVKADRDESSPYAAMLAAQDVAVRCKEIGITALHVKLRATGGNRTKTPGPGAQSALRALA 120

Query: 153 RSGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           RSGMKIGRI              EDVTPIP+D T
Sbjct: 121 RSGMKIGRI--------------EDVTPIPSDCT 140

Podocoryne carnea (taxid: 6096)

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

 Score =  235 bits (600), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 117/149 (78%), Positives = 127/149 (85%), Gaps = 14/149 (9%)

Query: 38  KNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKAD 97
           K  E  +E V+LGP VR+GEHVFGVAHIFASFNDTF+HVTDLSGRET+ R+TGGMKVKAD
Sbjct: 8   KGDEAPKEVVSLGPTVREGEHVFGVAHIFASFNDTFVHVTDLSGRETISRVTGGMKVKAD 67

Query: 98  RDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMK 157
           RDESSPYAAMLAAQDV+ +CKELGITALHIKLRATGGN+TKTPGPGAQSALRALAR+GMK
Sbjct: 68  RDESSPYAAMLAAQDVAQKCKELGITALHIKLRATGGNRTKTPGPGAQSALRALARAGMK 127

Query: 158 IGRIDLEGLLILGLYYISEDVTPIPTDST 186
           IGRI              EDVTPIPTDST
Sbjct: 128 IGRI--------------EDVTPIPTDST 142

Chlamydomonas reinhardtii (taxid: 3055)

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

 Score =  235 bits (599), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 118/154 (76%), Positives = 130/154 (84%), Gaps = 15/154 (9%)

Query: 34  MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
           M+ RK +E KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct: 1   MAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGM 60

Query: 93  KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALA 152
           KVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRATGGN+TKTPGPGAQSALRALA
Sbjct: 61  KVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALA 120

Query: 153 RSGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           RSGMKIGRI              EDVTPIP+DST
Sbjct: 121 RSGMKIGRI--------------EDVTPIPSDST 140

Mus musculus (taxid: 10090)

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

 Score =  235 bits (599), Expect = 2e-61,   Method: Compositional matrix adjust.
 Identities = 118/154 (76%), Positives = 130/154 (84%), Gaps = 15/154 (9%)

Query: 34  MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
           M+ RK +E KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct: 1   MAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGM 60

Query: 93  KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALA 152
           KVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRATGGN+TKTPGPGAQSALRALA
Sbjct: 61  KVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALA 120

Query: 153 RSGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           RSGMKIGRI              EDVTPIP+DST
Sbjct: 121 RSGMKIGRI--------------EDVTPIPSDST 140

Homo sapiens (taxid: 9606)

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	197
318083375	150	putative ribosomal protein S14 [Wolffia	0.705	0.926	0.882	7e-70
296084888	191	unnamed protein product [Vitis vinifera]	0.827	0.853	0.779	1e-69
297740141	163	unnamed protein product [Vitis vinifera]	0.746	0.901	0.835	1e-69
224106672	150	predicted protein [Populus trichocarpa]	0.705	0.926	0.882	2e-69
297740678	689	unnamed protein product [Vitis vinifera]	0.705	0.201	0.875	3e-69
194696114	141	unknown [Zea mays]	0.715	1.0	0.858	5e-69
225464906	150	PREDICTED: 40S ribosomal protein S14 [Vi	0.705	0.926	0.875	7e-69
192913024	150	ribosomal protein S14 [Elaeis guineensis	0.705	0.926	0.869	9e-69
449462944	150	PREDICTED: 40S ribosomal protein S14-2-l	0.705	0.926	0.875	9e-69
225463474	150	PREDICTED: 40S ribosomal protein S14-lik	0.705	0.926	0.875	1e-68

>gi|318083375|gb|ADV38313.1| putative ribosomal protein S14 [Wolffia arrhiza]

 Score =  268 bits (686), Expect = 7e-70,   Method: Compositional matrix adjust.
 Identities = 135/153 (88%), Positives = 137/153 (89%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK REPKEENVTLGPAVRDGEHVFGVAH+FASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSRRKTREPKEENVTLGPAVRDGEHVFGVAHVFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGMKIGRI              EDVTPIPTDST
Sbjct: 121 SGMKIGRI--------------EDVTPIPTDST 139

Source: Wolffia arrhiza

Species: Wolffia arrhiza

Genus: Wolffia

Family: Araceae

Order: Alismatales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  268 bits (684), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 141/181 (77%), Positives = 147/181 (81%), Gaps = 18/181 (9%)

Query: 7   LLFRVFT-FSFRLGTNPSLLNPSRVFAGMSRRKNREPKEENVTLGPAVRDGEHVFGVAHI 65
           ++F  FT   F L +  S  +P      MSRRK REPKEENVTLGP VRDGEHVFGVAHI
Sbjct: 17  IIFYFFTALFFLLISEHSEFDP---LEAMSRRKVREPKEENVTLGPTVRDGEHVFGVAHI 73

Query: 66  FASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITAL 125
           FASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVS RCKELG+TAL
Sbjct: 74  FASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSQRCKELGVTAL 133

Query: 126 HIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDS 185
           HIKLRATGGNKTKTPGPGAQSALRALARSGM+IGRI              EDVTPIPTDS
Sbjct: 134 HIKLRATGGNKTKTPGPGAQSALRALARSGMRIGRI--------------EDVTPIPTDS 179

Query: 186 T 186
           T
Sbjct: 180 T 180

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297740141|emb|CBI30323.3| unnamed protein product [Vitis vinifera]

 Score =  267 bits (683), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 137/164 (83%), Positives = 140/164 (85%), Gaps = 17/164 (10%)

Query: 23  SLLNPSRVFAGMSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGR 82
           S+ NP   F  MSRRK REPKEENVTLGP VRDGEH FGVAHIFASFNDTFIHVTDLSGR
Sbjct: 6   SIYNP---FEAMSRRKVREPKEENVTLGPTVRDGEHAFGVAHIFASFNDTFIHVTDLSGR 62

Query: 83  ETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGP 142
           ETLVRITGGMKVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRATGGNKTKTPGP
Sbjct: 63  ETLVRITGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGP 122

Query: 143 GAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           GAQSALRALARSGM+IGRI              EDVTPIPTDST
Sbjct: 123 GAQSALRALARSGMRIGRI--------------EDVTPIPTDST 152

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  266 bits (681), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 135/153 (88%), Positives = 136/153 (88%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK REPKEENVTLGP VR+GEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSRRKTREPKEENVTLGPTVREGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDVS RCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVSQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGMKIGRI              EDVTPIPTDST
Sbjct: 121 SGMKIGRI--------------EDVTPIPTDST 139

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  266 bits (681), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 134/153 (87%), Positives = 136/153 (88%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK REPKEENVTLGP VRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 540 MSRRKVREPKEENVTLGPTVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 599

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 600 VKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 659

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGM+IGRI              EDVTPIPTDST
Sbjct: 660 SGMRIGRI--------------EDVTPIPTDST 678

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  266 bits (679), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 133/155 (85%), Positives = 138/155 (89%), Gaps = 14/155 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK REPKEENVTLGP VR+GE+VFGVAHIFASFNDTFIH+TDLSGRETLVRITGGMK
Sbjct: 1   MSRRKTREPKEENVTLGPTVREGEYVFGVAHIFASFNDTFIHITDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRR 188
           SGMKIGRI              EDVTP+PTDSTRR
Sbjct: 121 SGMKIGRI--------------EDVTPVPTDSTRR 141

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225464906|ref|XP_002274381.1| PREDICTED: 40S ribosomal protein S14 [Vitis vinifera] gi|147843327|emb|CAN80530.1| hypothetical protein VITISV_018475 [Vitis vinifera]

 Score =  265 bits (677), Expect = 7e-69,   Method: Compositional matrix adjust.
 Identities = 134/153 (87%), Positives = 136/153 (88%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK REPKEENVTLGP VRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSRRKVREPKEENVTLGPTVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDVS RCKELG+TALHIKLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVSQRCKELGVTALHIKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGM+IGRI              EDVTPIPTDST
Sbjct: 121 SGMRIGRI--------------EDVTPIPTDST 139

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|192913024|gb|ACF06620.1| ribosomal protein S14 [Elaeis guineensis]

 Score =  265 bits (676), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 133/153 (86%), Positives = 136/153 (88%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK REPKEENVTLGP VR+GEHVFGVAHIFASFNDTFIHVTDLSGRET+VRITGGMK
Sbjct: 1   MSRRKTREPKEENVTLGPTVREGEHVFGVAHIFASFNDTFIHVTDLSGRETMVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGMKIGRI              EDVTPIPTDST
Sbjct: 121 SGMKIGRI--------------EDVTPIPTDST 139

Source: Elaeis guineensis

Species: Elaeis guineensis

Genus: Elaeis

Family: Arecaceae

Order: Arecales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449462944|ref|XP_004149195.1| PREDICTED: 40S ribosomal protein S14-2-like [Cucumis sativus] gi|449462948|ref|XP_004149197.1| PREDICTED: 40S ribosomal protein S14-2-like [Cucumis sativus] gi|449500886|ref|XP_004161220.1| PREDICTED: 40S ribosomal protein S14-2-like [Cucumis sativus] gi|449500891|ref|XP_004161222.1| PREDICTED: 40S ribosomal protein S14-2-like [Cucumis sativus]

 Score =  265 bits (676), Expect = 9e-69,   Method: Compositional matrix adjust.
 Identities = 134/153 (87%), Positives = 136/153 (88%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK REPKEE VTLGPAVR+GEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSRRKTREPKEETVTLGPAVREGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDVS RCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVSQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGM+IGRI              EDVTPIPTDST
Sbjct: 121 SGMRIGRI--------------EDVTPIPTDST 139

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463474|ref|XP_002276634.1| PREDICTED: 40S ribosomal protein S14-like [Vitis vinifera]

 Score =  265 bits (676), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 134/153 (87%), Positives = 136/153 (88%), Gaps = 14/153 (9%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MSRRK REPKEENVTLGP VRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSRRKVREPKEENVTLGPTVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 120

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDST 186
           SGM+IGRI              EDVTPIPTDST
Sbjct: 121 SGMRIGRI--------------EDVTPIPTDST 139

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	197
TAIR|locus:2079914	150	AT3G52580 [Arabidopsis thalian	0.705	0.926	0.725	4.6e-50
TAIR|locus:2080692	150	AT3G11510 [Arabidopsis thalian	0.705	0.926	0.718	3.2e-49
TAIR|locus:2053501	150	AT2G36160 [Arabidopsis thalian	0.705	0.926	0.712	1.4e-48
UNIPROTKB|F2Z4N1	162	RPS14 "Uncharacterized protein	0.725	0.882	0.658	3.4e-45
UNIPROTKB|Q5ZHW8	151	RPS14 "Uncharacterized protein	0.705	0.920	0.668	7.1e-45
UNIPROTKB|P62263	151	RPS14 "40S ribosomal protein S	0.705	0.920	0.668	7.1e-45
UNIPROTKB|P62265	151	RPS14 "40S ribosomal protein S	0.705	0.920	0.668	7.1e-45
MGI|MGI:98107	151	Rps14 "ribosomal protein S14"	0.705	0.920	0.668	7.1e-45
UNIPROTKB|Q6PDV6	151	Rps14 "RCG63012" [Rattus norve	0.705	0.920	0.668	7.1e-45
RGD|62025	151	Rps14 "ribosomal protein S14"	0.705	0.920	0.662	1.5e-44

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

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 111/153 (72%), Positives = 118/153 (77%)

Query:    34 MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
             MS+RK +EPK ENVTLGPAVR+GE VFGV H+FASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct:     1 MSKRKTKEPKVENVTLGPAVREGEQVFGVVHVFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query:    94 VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALAR 153
             VKADRDESSPYAAMLAAQDV+ RCKELGITA+H+KLRA            AQSALRALAR
Sbjct:    61 VKADRDESSPYAAMLAAQDVAQRCKELGITAIHVKLRATGGNKTKTPGPGAQSALRALAR 120

Query:   154 SGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             SGMK                  EDVTPIPTDST
Sbjct:   121 SGMKIGRI--------------EDVTPIPTDST 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:2080692 AT3G11510 [Arabidopsis thaliana (taxid:3702)]

 Score = 513 (185.6 bits), Expect = 3.2e-49, P = 3.2e-49
 Identities = 110/153 (71%), Positives = 117/153 (76%)

Query:    34 MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
             MS+RK +EPK E VTLGP+VR+GE VFGV HIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct:     1 MSKRKTKEPKVETVTLGPSVREGEQVFGVVHIFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query:    94 VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALAR 153
             VKADRDESSPYAAMLAAQDV+ RCKELGITA+H+KLRA            AQSALRALAR
Sbjct:    61 VKADRDESSPYAAMLAAQDVAQRCKELGITAMHVKLRATGGNKTKTPGPGAQSALRALAR 120

Query:   154 SGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             SGMK                  EDVTPIPTDST
Sbjct:   121 SGMKIGRI--------------EDVTPIPTDST 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:2053501 AT2G36160 [Arabidopsis thaliana (taxid:3702)]

 Score = 507 (183.5 bits), Expect = 1.4e-48, P = 1.4e-48
 Identities = 109/153 (71%), Positives = 117/153 (76%)

Query:    34 MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
             MS+RK +EPK + VTLGP+VR+GE VFGV HIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct:     1 MSKRKTKEPKVDVVTLGPSVREGEQVFGVVHIFASFNDTFIHVTDLSGRETLVRITGGMK 60

Query:    94 VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALAR 153
             VKADRDESSPYAAMLAAQDV+ RCKELGITA+H+KLRA            AQSALRALAR
Sbjct:    61 VKADRDESSPYAAMLAAQDVAQRCKELGITAMHVKLRATGGNKTKTPGPGAQSALRALAR 120

Query:   154 SGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             SGMK                  EDVTPIPTDST
Sbjct:   121 SGMKIGRI--------------EDVTPIPTDST 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|F2Z4N1 RPS14 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 475 (172.3 bits), Expect = 3.4e-45, P = 3.4e-45
 Identities = 104/158 (65%), Positives = 116/158 (73%)

Query:    30 VFAGMSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRI 88
             + A M+ RK +E KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+
Sbjct:     8 LIAEMAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRV 67

Query:    89 TGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSAL 148
             TGGMKVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRA            AQSAL
Sbjct:    68 TGGMKVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSAL 127

Query:   149 RALARSGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             RALARSGMK                  EDVTPIP+DST
Sbjct:   128 RALARSGMKIGRI--------------EDVTPIPSDST 151

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

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

 Score = 472 (171.2 bits), Expect = 7.1e-45, P = 7.1e-45
 Identities = 103/154 (66%), Positives = 114/154 (74%)

Query:    34 MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
             M+ RK +E KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct:     1 MAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGM 60

Query:    93 KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALA 152
             KVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRA            AQSALRALA
Sbjct:    61 KVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALA 120

Query:   153 RSGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             RSGMK                  EDVTPIP+DST
Sbjct:   121 RSGMKIGRI--------------EDVTPIPSDST 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|P62263 RPS14 "40S ribosomal protein S14" [Homo sapiens (taxid:9606)]

 Score = 472 (171.2 bits), Expect = 7.1e-45, P = 7.1e-45
 Identities = 103/154 (66%), Positives = 114/154 (74%)

Query:    34 MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
             M+ RK +E KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct:     1 MAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGM 60

Query:    93 KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALA 152
             KVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRA            AQSALRALA
Sbjct:    61 KVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALA 120

Query:   153 RSGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             RSGMK                  EDVTPIP+DST
Sbjct:   121 RSGMKIGRI--------------EDVTPIPSDST 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 = 472 (171.2 bits), Expect = 7.1e-45, P = 7.1e-45
 Identities = 103/154 (66%), Positives = 114/154 (74%)

Query:    34 MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
             M+ RK +E KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct:     1 MAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGM 60

Query:    93 KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALA 152
             KVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRA            AQSALRALA
Sbjct:    61 KVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALA 120

Query:   153 RSGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             RSGMK                  EDVTPIP+DST
Sbjct:   121 RSGMKIGRI--------------EDVTPIPSDST 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 = 472 (171.2 bits), Expect = 7.1e-45, P = 7.1e-45
 Identities = 103/154 (66%), Positives = 114/154 (74%)

Query:    34 MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
             M+ RK +E KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct:     1 MAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGM 60

Query:    93 KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALA 152
             KVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRA            AQSALRALA
Sbjct:    61 KVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALA 120

Query:   153 RSGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             RSGMK                  EDVTPIP+DST
Sbjct:   121 RSGMKIGRI--------------EDVTPIPSDST 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

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

 Score = 472 (171.2 bits), Expect = 7.1e-45, P = 7.1e-45
 Identities = 103/154 (66%), Positives = 114/154 (74%)

Query:    34 MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
             M+ RK +E KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct:     1 MAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGM 60

Query:    93 KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALA 152
             KVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRA            AQSALRALA
Sbjct:    61 KVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALA 120

Query:   153 RSGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             RSGMK                  EDVTPIP+DST
Sbjct:   121 RSGMKIGRI--------------EDVTPIPSDST 140

GO:0006412 "translation" evidence=IEA

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

 Score = 469 (170.2 bits), Expect = 1.5e-44, P = 1.5e-44
 Identities = 102/154 (66%), Positives = 114/154 (74%)

Query:    34 MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
             M+ RK ++ KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct:     1 MAPRKGKDKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGM 60

Query:    93 KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALA 152
             KVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRA            AQSALRALA
Sbjct:    61 KVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALA 120

Query:   153 RSGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
             RSGMK                  EDVTPIP+DST
Sbjct:   121 RSGMKIGRI--------------EDVTPIPSDST 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

---

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	0.7615	0.6903	0.8947	yes	no
Q6XI08	RS14A_DROYA	No assigned EC number	0.7597	0.7055	0.9205	N/A	no
P14130	RS14_DROME	No assigned EC number	0.7597	0.7055	0.9205	yes	no
P48150	RS14_CAEEL	No assigned EC number	0.7032	0.7055	0.9144	yes	no
P27069	RS14_KLULA	No assigned EC number	0.7142	0.6040	0.8686	yes	no
Q46GC9	RS11_METBF	No assigned EC number	0.5298	0.6091	0.9523	yes	no
P19950	RS141_MAIZE	No assigned EC number	0.8562	0.7005	0.9261	N/A	no
P19951	RS142_MAIZE	No assigned EC number	0.8543	0.6903	0.9066	N/A	no
A0B9L3	RS11_METTP	No assigned EC number	0.5460	0.6446	0.9844	yes	no
Q12ZR4	RS11_METBU	No assigned EC number	0.5407	0.6142	0.9603	yes	no
Q9SIH0	RS141_ARATH	No assigned EC number	0.8169	0.7055	0.9266	yes	no
P62264	RS14_MOUSE	No assigned EC number	0.7662	0.7055	0.9205	yes	no
P62265	RS14_CRIGR	No assigned EC number	0.7662	0.7055	0.9205	yes	no
P62263	RS14_HUMAN	No assigned EC number	0.7662	0.7055	0.9205	yes	no
P19115	RS14_NEUCR	No assigned EC number	0.7254	0.7055	0.9266	N/A	no
P48855	RS14_PROCL	No assigned EC number	0.7142	0.7055	0.9205	N/A	no
O22584	RS14_LUPLU	No assigned EC number	0.8496	0.7055	0.9266	N/A	no
Q8PV17	RS11_METMA	No assigned EC number	0.5298	0.6091	0.9523	yes	no
Q2FT98	RS11_METHJ	No assigned EC number	0.5407	0.6142	0.9236	yes	no
P42036	RS143_ARATH	No assigned EC number	0.8300	0.7055	0.9266	yes	no
Q7QEH1	RS14A_ANOGA	No assigned EC number	0.7615	0.6903	0.8947	yes	no
Q54EG3	RS14_DICDI	No assigned EC number	0.7197	0.7055	0.9144	yes	no
O14150	RS14_SCHPO	No assigned EC number	0.7318	0.6294	0.8920	yes	no
A7IAH6	RS11_METB6	No assigned EC number	0.5507	0.6243	0.9318	yes	no
P13471	RS14_RAT	No assigned EC number	0.7597	0.7055	0.9205	yes	no
Q8TRR0	RS11_METAC	No assigned EC number	0.5373	0.6091	0.9523	yes	no
P39516	RS14B_YEAST	No assigned EC number	0.7067	0.6040	0.8623	yes	no
Q5UAM9	RS14_BOMMO	No assigned EC number	0.7532	0.7055	0.9205	N/A	no
A6UW04	RS11_META3	No assigned EC number	0.5522	0.6091	0.9677	yes	no
P46295	RS14_CHLRE	No assigned EC number	0.7852	0.6852	0.8823	N/A	no
P06367	RS14A_YEAST	No assigned EC number	0.7067	0.6040	0.8686	yes	no
Q0W1V4	RS11_UNCMA	No assigned EC number	0.5507	0.6294	0.9393	yes	no
Q1HR24	RS14_AEDAE	No assigned EC number	0.7467	0.7055	0.9205	N/A	no
Q08699	RS14_PODCA	No assigned EC number	0.7597	0.7055	0.9205	N/A	no
Q9CAX6	RS142_ARATH	No assigned EC number	0.8235	0.7055	0.9266	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	OsI_07536	Putative uncharacterized protein (234 aa)
		(Oryza sativa Indica)
Predicted Functional Partners:
	OsI_38771	Os12g0567700 (261 aa)	•			•	•	•	•		0.965
	OsI_13996	Os03g0807800 (274 aa)	•			•	•	•	•		0.950
	OsI_13197	Os03g0704000 (161 aa)	•			•	•		•		0.942
	BGIOSIBSE038426	annotation not avaliable (417 aa)	•			•			•		0.870
	OsI_25075	Os03g0794700 (204 aa)	•			•	•	•	•		0.870
	OsI_04329	Os01g0834500 (136 aa)	•		•	•	•	•	•		0.864
	BGIOSIBCE004175	Os01g0834500 (136 aa)	•		•	•	•	•	•		0.864
	RPS16B	40S ribosomal protein S16 (149 aa)	•			•	•	•	•		0.848
	RPS16A	40S ribosomal protein S16 (149 aa)	•			•	•	•	•		0.848
	OsI_01192	Os01g0251100 (319 aa)	•			•			•		0.843

---

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	197
PTZ00129	149	PTZ00129, PTZ00129, 40S ribosomal protein S14; Pro	1e-91
PRK09607	132	PRK09607, rps11p, 30S ribosomal protein S11P; Revi	2e-69
TIGR03628	114	TIGR03628, arch_S11P, archaeal ribosomal protein S	2e-55
COG0100	129	COG0100, RpsK, Ribosomal protein S11 [Translation,	1e-44
pfam00411	109	pfam00411, Ribosomal_S11, Ribosomal protein S11	1e-44
PRK05309	128	PRK05309, PRK05309, 30S ribosomal protein S11; Val	3e-20
TIGR03632	108	TIGR03632, bact_S11, 30S ribosomal protein S11	3e-20
CHL00041	116	CHL00041, rps11, ribosomal protein S11	1e-13

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

 Score =  264 bits (676), Expect = 1e-91
 Identities = 122/162 (75%), Positives = 131/162 (80%), Gaps = 14/162 (8%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
             +      K+E  TLGP V  GE VFGVAHIFASFNDTFIHVTDLSGRETLVR+TGGMK
Sbjct: 2   KKKATKMSKKQEVATLGPNVAKGELVFGVAHIFASFNDTFIHVTDLSGRETLVRVTGGMK 61

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
           VKADRDESSPYAAM+AAQDV+ RCKELGI ALHIKLRATGG +TKTPGPGAQ+ALRALAR
Sbjct: 62  VKADRDESSPYAAMMAAQDVAARCKELGINALHIKLRATGGVRTKTPGPGAQAALRALAR 121

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGR 195
           +G+KIGRI              EDVTPIPTDSTRRKGGRRGR
Sbjct: 122 AGLKIGRI--------------EDVTPIPTDSTRRKGGRRGR 149

Length = 149

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

 Score =  207 bits (529), Expect = 2e-69
 Identities = 83/137 (60%), Positives = 102/137 (74%), Gaps = 14/137 (10%)

Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           G+AHI+ASFN+T I +TDL+G ET+ + +GGM VKADRDESSPYAAM AA+  +   KE 
Sbjct: 10  GIAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADRDESSPYAAMQAAEKAAEDAKEK 69

Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
           GIT +HIK+RA GGN  K+PGPGAQ+A+RALAR+G++IGRI              EDVTP
Sbjct: 70  GITGVHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGRI--------------EDVTP 115

Query: 181 IPTDSTRRKGGRRGRRL 197
           IP D TR  GGRRGRR+
Sbjct: 116 IPHDGTRPPGGRRGRRV 132

Length = 132

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

 Score =  171 bits (434), Expect = 2e-55
 Identities = 75/126 (59%), Positives = 93/126 (73%), Gaps = 14/126 (11%)

Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           G+AHI++SFN+T I +TD++G ET+ R +GGM VKADRDESSPYAAM AA   + + KE 
Sbjct: 3   GIAHIYSSFNNTIITITDITGAETIARSSGGMVVKADRDESSPYAAMQAAGRAAEKAKER 62

Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
           GIT LHIK+RA GGN  K+PGPGAQ+A+RALAR+G++IGRI              EDVTP
Sbjct: 63  GITGLHIKVRAPGGNGQKSPGPGAQAAIRALARAGLRIGRI--------------EDVTP 108

Query: 181 IPTDST 186
           IP D T
Sbjct: 109 IPHDGT 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 =  144 bits (365), Expect = 1e-44
 Identities = 57/134 (42%), Positives = 79/134 (58%), Gaps = 23/134 (17%)

Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           GVAHI ASFN+T + +TDL+G   +   +GGM  K  R +S+PYAA LAA+D + + KE 
Sbjct: 19  GVAHIHASFNNTIVTITDLTGNVIIWASSGGMGFKGSR-KSTPYAAQLAAEDAAKKAKEH 77

Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
           GI ++ +K++         PGPG ++A+RALA +G+KI RI              EDVTP
Sbjct: 78  GIKSVEVKVKG--------PGPGREAAIRALAAAGLKITRI--------------EDVTP 115

Query: 181 IPTDSTRRKGGRRG 194
           IP +  R    RR 
Sbjct: 116 IPHNGCRPPKRRRV 129

Length = 129

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

 Score =  143 bits (363), Expect = 1e-44
 Identities = 58/132 (43%), Positives = 74/132 (56%), Gaps = 23/132 (17%)

Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           G+AHI ASFN+T I +TD+ GR  L    GG   K  R +S+PYAA  AA++ +   KE 
Sbjct: 1   GIAHIQASFNNTIITITDVIGRVVLWSSAGGCGFKGSR-KSTPYAAQTAAENAAKIAKEQ 59

Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
           GI AL +K++         PGPG +SALRALARSG++I RI               DVTP
Sbjct: 60  GIKALEVKIKG--------PGPGRESALRALARSGLRITRI--------------RDVTP 97

Query: 181 IPTDSTRRKGGR 192
           IP +  R    R
Sbjct: 98  IPHNGCRPPKKR 109

Length = 109

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

 Score = 81.7 bits (203), Expect = 3e-20
 Identities = 47/134 (35%), Positives = 72/134 (53%), Gaps = 25/134 (18%)

Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRIT-GGMKVKADRDESSPYAAMLAAQDVSTRCKE 119
           GVAHI A+FN+T + +TD  G   +   + GG+  K  R +S+PYAA +AA+D + + KE
Sbjct: 18  GVAHIHATFNNTIVTITDRQG-NVISWASAGGLGFKGSR-KSTPYAAQVAAEDAAKKAKE 75

Query: 120 LGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVT 179
            G+  + + +        K PG G +SA+RAL  +G+++  I              +DVT
Sbjct: 76  HGMKTVEVFV--------KGPGSGRESAIRALQAAGLEVTSI--------------KDVT 113

Query: 180 PIPTDSTRRKGGRR 193
           PIP +  R    RR
Sbjct: 114 PIPHNGCRPPKRRR 127

Length = 128

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

 Score = 81.1 bits (201), Expect = 3e-20
 Identities = 44/127 (34%), Positives = 67/127 (52%), Gaps = 23/127 (18%)

Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           GVAHI A+FN+T + +TD  G        G +  K  + +S+PYAA LAA+D + + KE 
Sbjct: 1   GVAHIHATFNNTIVTITDPQGNVLSWASAGAVGFKGSK-KSTPYAAQLAAEDAAKKAKEF 59

Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
           G+  + + +        K PG G +SA+RAL  +G+++  I              +DVTP
Sbjct: 60  GMKTVDVYV--------KGPGAGRESAIRALQAAGLEVTSI--------------KDVTP 97

Query: 181 IPTDSTR 187
           IP +  R
Sbjct: 98  IPHNGCR 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 = 64.1 bits (157), Expect = 1e-13
 Identities = 41/122 (33%), Positives = 58/122 (47%), Gaps = 23/122 (18%)

Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           GV HI ASFN+T + VTD+ GR       G    K  R + +P+AA  AA++      + 
Sbjct: 14  GVIHIQASFNNTIVTVTDVRGRVISWSSAGACGFKGAR-KGTPFAAQTAAENAIRTVIDQ 72

Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
           G+    + +        K PG G  +ALRA+ RSG+K+         I        DVTP
Sbjct: 73  GMKRAEVMI--------KGPGLGRDTALRAIRRSGLKL-------SSIR-------DVTP 110

Query: 181 IP 182
           +P
Sbjct: 111 MP 112

Length = 116

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	197
PTZ00129	149	40S ribosomal protein S14; Provisional	100.0
PRK09607	132	rps11p 30S ribosomal protein S11P; Reviewed	100.0
KOG0407	139	consensus 40S ribosomal protein S14 [Translation,	100.0
COG0100	129	RpsK Ribosomal protein S11 [Translation, ribosomal	100.0
PRK05309	128	30S ribosomal protein S11; Validated	100.0
TIGR03628	114	arch_S11P archaeal ribosomal protein S11P. This mo	100.0
PF00411	110	Ribosomal_S11: Ribosomal protein S11; InterPro: IP	100.0
TIGR03632	108	bact_S11 30S ribosomal protein S11. This model des	100.0
CHL00041	116	rps11 ribosomal protein S11	100.0
KOG0408	190	consensus Mitochondrial/chloroplast ribosomal prot	100.0
PTZ00090	233	40S ribosomal protein S11; Provisional	100.0
cd00432	103	Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is	97.38
PF00861	119	Ribosomal_L18p: Ribosomal L18p/L5e family; InterPr	96.95
PRK05593	117	rplR 50S ribosomal protein L18; Reviewed	96.84
TIGR00060	114	L18_bact ribosomal protein L18, bacterial type. Th	96.55
CHL00139	109	rpl18 ribosomal protein L18; Validated	96.35
PRK08569	193	rpl18p 50S ribosomal protein L18P; Reviewed	95.97
COG0256	125	RplR Ribosomal protein L18 [Translation, ribosomal	95.12
PTZ00032	211	60S ribosomal protein L18; Provisional	90.2

>PTZ00129 40S ribosomal protein S14; Provisional

Probab=100.00  E-value=7.5e-55  Score=354.88  Aligned_cols=144  Identities=85%  Similarity=1.258  Sum_probs=136.9

Q ss_pred             cccCccc-cccccCCcccCCceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHH
Q 039298           38 KNREPKE-ENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTR  116 (197)
Q Consensus        38 k~k~~k~-e~islg~~~~e~~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k  116 (197)
                      +.|..|+ .+++++|++.++++.+||+||++|||||||||||++|++++|+|+|++|||++++|+||||||.||++++++
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~~Gi~hI~as~NNTiItiTD~~G~~~~w~SsG~~gfKg~r~KsTpyAAq~aa~~~a~k   84 (149)
T PTZ00129          5 ATKMSKKQEVATLGPNVAKGELVFGVAHIFASFNDTFIHVTDLSGRETLVRVTGGMKVKADRDESSPYAAMMAAQDVAAR   84 (149)
T ss_pred             cccCCcceeeeecCCcccCCceeEEEEEEEcccCCeEEEEEcccCCEEEEEecCcceecccccCCCHHHHHHHHHHHHHH
Confidence            3344444 377889988899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCccEEEEEEEeeCCCCccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCCC
Q 039298          117 CKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGR  195 (197)
Q Consensus       117 ~~elGi~~l~V~lr~~gg~~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~~  195 (197)
                      |+++||+.|+|+|||+|||+++||||||++|||+|+++||+|.+|              +|+||||||||||||+||+|
T Consensus        85 ~~~~Gi~~v~V~vr~~gg~~~kg~GpGr~~airaL~~~glkI~~I--------------~DvTPiPhNGcRppk~RR~r  149 (149)
T PTZ00129         85 CKELGINALHIKLRATGGVRTKTPGPGAQAALRALARAGLKIGRI--------------EDVTPIPTDSTRRKGGRRGR  149 (149)
T ss_pred             HHHcCCeEEEEEEEecCCCCCCCCCCCHHHHHHHHHHCCCEEEEE--------------EecCCCCCCCCCCCCCCCCC
Confidence            999999999999999999999999999999999999999999999              99999999999999999987

>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed

Probab=100.00  E-value=8.1e-51  Score=325.81  Aligned_cols=127  Identities=65%  Similarity=1.061  Sum_probs=119.6

Q ss_pred             ceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCC
Q 039298           57 EHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNK  136 (197)
Q Consensus        57 ~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~  136 (197)
                      +.+.||+||++|||||||||||++|+++++|+|||+.+++++||+||||||.|||+++++|+++||+.|+|+|+|+|||+
T Consensus         6 ~~~~gi~hI~as~NNTivtvTD~~G~~~~~~~S~G~~g~kg~kK~TpyAAq~aae~~~~~~~~~Gi~~v~v~vkG~Ggn~   85 (132)
T PRK09607          6 KEKWGIAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADRDESSPYAAMQAAEKAAEDAKEKGITGVHIKVRAPGGNG   85 (132)
T ss_pred             CceeeEEEEEcccCCeEEEEEcCCCCEEEEEecCcceeeCCCccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCC
Confidence            45799999999999999999999998666677777676777779999999999999999999999999999999999999


Q ss_pred             ccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCCCCC
Q 039298          137 TKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGRRL  197 (197)
Q Consensus       137 ~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~~~~  197 (197)
                      ++-||+||++|||+|+++||+|.+|              +|+||||||||||||+||+|||
T Consensus        86 ~~~~G~Gr~~airal~~~glkI~~I--------------~DvTpiPhNGCRp~K~RR~r~~  132 (132)
T PRK09607         86 QKSPGPGAQAAIRALARAGLRIGRI--------------EDVTPIPHDGTRPPGGRRGRRV  132 (132)
T ss_pred             CcCCCCcHHHHHHHHHHCCCEEEEE--------------EEcCCCCCCCCCCCCCCCCCCC
Confidence            9999999999999999999999999              9999999999999999999996

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

Probab=100.00  E-value=6.8e-48  Score=303.05  Aligned_cols=138  Identities=89%  Similarity=1.350  Sum_probs=136.0

Q ss_pred             ccccCCcccCCceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEE
Q 039298           46 NVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITAL  125 (197)
Q Consensus        46 ~islg~~~~e~~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l  125 (197)
                      +..||||+.|++.++|++||++|||+||||+||++|++++...+|||.+|.+|++++|||||+|||+++.+|+++||+.+
T Consensus         2 ~~~lg~q~~e~~~vfgvahi~asfndtfvhitdlsg~eti~rvtggmkvkadrdesspyaamlaaqdva~kck~~gi~al   81 (139)
T KOG0407|consen    2 AVNLGPQVREGEQVFGVAHIFASFNDTFVHVTDLSGKETIVRVTGGMKVKADRDESSPYAAMLAAQDVAAKCKELGITAL   81 (139)
T ss_pred             cccccchhcccceeeeEEEEEeecccceEEEeccCCceEEEEecCCeEEecccccCChHHHHHHHHHHHHHHHhcCeeEE
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEEEeeCCCCccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCCCCC
Q 039298          126 HIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGRRL  197 (197)
Q Consensus       126 ~V~lr~~gg~~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~~~~  197 (197)
                      ||++||+||+++|.||||.|+|||+|+++||+|++|              +||||||.+.+|+|.+||+||+
T Consensus        82 h~klratgg~ktktpgpgaqsalralar~gmrigri--------------edvtpip~d~trrkggrrgrrl  139 (139)
T KOG0407|consen   82 HIKLRATGGTKTKTPGPGAQSALRALARSGMRIGRI--------------EDVTPIPSDSTRRKGGRRGRRL  139 (139)
T ss_pred             EEEEEecCCcccCCCCccHHHHHHHHHHhcceeeee--------------cccccCCccchhhccCcccccC
Confidence            999999999999999999999999999999999999              9999999999999999999996

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

Probab=100.00  E-value=2.4e-47  Score=304.39  Aligned_cols=118  Identities=49%  Similarity=0.769  Sum_probs=113.9

Q ss_pred             cCCceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeC
Q 039298           54 RDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATG  133 (197)
Q Consensus        54 ~e~~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~g  133 (197)
                      .++.+..|++||++||||||||+||++||+++|.|+|++|||+++ ++||||||+||+++++.++|+||+.|||+|    
T Consensus        12 ~~~~i~~GvahI~asfNNTivtitD~~Gn~i~wassG~~gfk~~r-k~tpyAA~~aa~~aa~~a~e~Gi~~v~v~v----   86 (129)
T COG0100          12 VKKNIADGVAHIHASFNNTIVTITDLTGNVIIWASSGGMGFKGSR-KSTPYAAQLAAEDAAKKAKEHGIKSVEVKV----   86 (129)
T ss_pred             eccccccceEEEEcccCCcEEEecCCCCCEEEEEecCCceEcCCC-CCCHHHHHHHHHHHHHHHHHhCccEEEEEE----
Confidence            334578899999999999999999999999999999999999999 999999999999999999999999999999    


Q ss_pred             CCCccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCC
Q 039298          134 GNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRG  194 (197)
Q Consensus       134 g~~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~  194 (197)
                          +|||||||+|+|+|+++|++|.+|              +|+||||||||||||+||+
T Consensus        87 ----kgpG~GreaAiraL~~ag~~i~~I--------------~DvTPiphnG~Rppk~RR~  129 (129)
T COG0100          87 ----KGPGPGREAAIRALAAAGLKITRI--------------EDVTPIPHNGCRPPKRRRV  129 (129)
T ss_pred             ----ECCCCcHHHHHHHHHHccceEEEE--------------EEcCCCCCCCCCCCCCCCC
Confidence                999999999999999999999999              9999999999999999985

>PRK05309 30S ribosomal protein S11; Validated

Probab=100.00  E-value=4.3e-45  Score=290.90  Aligned_cols=115  Identities=41%  Similarity=0.665  Sum_probs=111.6

Q ss_pred             ceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCC
Q 039298           57 EHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNK  136 (197)
Q Consensus        57 ~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~  136 (197)
                      .+..||+||++|+|||||||||++|+++.|.|+|.+|||+.+ |+||||||+||++++++|+++||+.|+|++       
T Consensus        14 ~~~~gi~hI~~t~NNTiitlTd~~G~~~~~~S~G~~gfKg~r-K~T~~Aa~~aa~~~~~~~~~~gi~~v~v~i-------   85 (128)
T PRK05309         14 NIPSGVAHIHATFNNTIVTITDRQGNVISWASAGGLGFKGSR-KSTPYAAQVAAEDAAKKAKEHGMKTVEVFV-------   85 (128)
T ss_pred             ccceeEEEEEccCCCEEEEEEcCCCCEEEEEecCccEeCCCc-cCCHHHHHHHHHHHHHHHHHcCCcEEEEEE-------
Confidence            477899999999999999999999999999999999999887 899999999999999999999999999999       


Q ss_pred             ccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCC
Q 039298          137 TKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRG  194 (197)
Q Consensus       137 ~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~  194 (197)
                       +|+|+||+++|++|+++|++|.+|              +|+||+|||||||||+||.
T Consensus        86 -kG~G~Gr~~air~L~~~glkI~~I--------------~D~TpiphNGcR~~K~RRv  128 (128)
T PRK05309         86 -KGPGSGRESAIRALQAAGLEVTSI--------------KDVTPIPHNGCRPPKRRRV  128 (128)
T ss_pred             -ECCCCcHHHHHHHHHHCCCEEEEE--------------EEcCCCCCCCcCcCCCCCC
Confidence             999999999999999999999999              9999999999999999984

>TIGR03628 arch_S11P archaeal ribosomal protein S11P

Probab=100.00  E-value=9.3e-45  Score=284.59  Aligned_cols=113  Identities=66%  Similarity=1.067  Sum_probs=107.3

Q ss_pred             eeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCccC
Q 039298           60 FGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKT  139 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~KG  139 (197)
                      +||+||++|||||||||||.+|+++++|+|+|+.+++++||+||||||.|||+++++|+++||+.|+|+|+|+|||++|.
T Consensus         2 ~gi~hI~as~NNTiitvTD~~G~~~~~~~S~G~~g~kg~kk~TpyAAq~aa~~~~~~~~~~Gi~~v~v~ikG~gg~~~~~   81 (114)
T TIGR03628         2 WGIAHIYSSFNNTIITITDITGAETIARSSGGMVVKADRDESSPYAAMQAAGRAAEKAKERGITGLHIKVRAPGGNGQKS   81 (114)
T ss_pred             cEEEEEEccCCCeEEEEEcCCCCEEEEEecCcceEeCCCccCCHHHHHHHHHHHHHHHHHcCCcEEEEEEEecCCCCCCC
Confidence            79999999999999999999998766777777666667779999999999999999999999999999999999999999


Q ss_pred             CCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCC
Q 039298          140 PGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDST  186 (197)
Q Consensus       140 ~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGc  186 (197)
                      |||||++|||+|+++||+|.+|              +|+||+|||||
T Consensus        82 ~G~Gr~~air~l~~~glkI~~I--------------~DvTpiPhNGC  114 (114)
T TIGR03628        82 PGPGAQAAIRALARAGLRIGRI--------------EDVTPIPHDGT  114 (114)
T ss_pred             CCCcHHHHHHHHHHCCCEEEEE--------------EEcCCCCCCCC
Confidence            9999999999999999999999              99999999999

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

>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=8.7e-45  Score=281.38  Aligned_cols=110  Identities=45%  Similarity=0.741  Sum_probs=104.6

Q ss_pred             eEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCccCC
Q 039298           61 GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTP  140 (197)
Q Consensus        61 gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~KG~  140 (197)
                      ||+||++|+|||||||||++|+++.|+|+|++|||+++ |+||||||++|++++++|+++||+.|+|+|        +|+
T Consensus         1 giihI~~s~NNt~vtlTd~~G~~~~~~S~G~~gfK~~r-k~t~~Aa~~~a~~~~~~~~~~gi~~v~v~i--------kG~   71 (110)
T PF00411_consen    1 GIIHIKSSFNNTIVTLTDLKGNVLFWSSAGSLGFKGAR-KSTPYAAQQAAEKIAKKAKELGIKTVRVKI--------KGF   71 (110)
T ss_dssp             EEEEEEEESSEEEEEEEETTSEEEEEEETTTSSTTTTC-GSSHHHHHHHHHHHHHHHHCTTEEEEEEEE--------ESS
T ss_pred             CEEEEEecCCCEEEEEECCCCCEEEEEecccccccccc-ccCHHHHHHHHHHHHHHHHHcCCeEEEEEE--------cCC
Confidence            79999999999999999999999999999999999999 999999999999999999999999999999        999


Q ss_pred             CCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCC
Q 039298          141 GPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRR  193 (197)
Q Consensus       141 G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR  193 (197)
                      |+||++++|+|+++|++|.+|              +|+||+|||||||||+||
T Consensus        72 g~gr~~~lk~l~~~gl~I~~I--------------~D~T~iphnGcR~kK~RR  110 (110)
T PF00411_consen   72 GPGREAALKALKKSGLKIVSI--------------TDVTPIPHNGCRPKKKRR  110 (110)
T ss_dssp             STTHHHHHHHHHHTTSEEEEE--------------EEETT--SSSS--TTTTT
T ss_pred             CccHHHHHHHHHhcCCEEEEE--------------EeecCCCCCCCCCCCCCC
Confidence            999999999999999999999              999999999999999998

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 ....

>TIGR03632 bact_S11 30S ribosomal protein S11

Probab=100.00  E-value=5.1e-44  Score=276.91  Aligned_cols=108  Identities=41%  Similarity=0.699  Sum_probs=105.6

Q ss_pred             eEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCccCC
Q 039298           61 GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTP  140 (197)
Q Consensus        61 gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~KG~  140 (197)
                      |++||++|+||||||+||++|+++.|.|+|.+|||+.+ |+||||||+||++++++++++||+.|+|++        +|+
T Consensus         1 gi~hI~~s~NNT~itlTd~~g~~~~~~S~G~~gfkg~r-k~t~~Aa~~~a~~~~~~~~~~gi~~v~v~~--------kG~   71 (108)
T TIGR03632         1 GVAHIHATFNNTIVTITDPQGNVLSWASAGAVGFKGSK-KSTPYAAQLAAEDAAKKAKEFGMKTVDVYV--------KGP   71 (108)
T ss_pred             CEEEEEccCCCEEEEEEcCCCCEEEEEecCceeeCCCc-cCCHHHHHHHHHHHHHHHHHcCCcEEEEEE--------ECC
Confidence            68999999999999999999999999999999999998 899999999999999999999999999999        999


Q ss_pred             CCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCC
Q 039298          141 GPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGG  191 (197)
Q Consensus       141 G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~  191 (197)
                      |+||+++||+|+++|++|.+|              +|+||+|||||||||+
T Consensus        72 G~gr~~~ir~l~~~glkI~~I--------------~D~T~iphNGcR~~K~  108 (108)
T TIGR03632        72 GAGRESAIRALQAAGLEVTSI--------------KDVTPIPHNGCRPPKR  108 (108)
T ss_pred             CCcHHHHHHHHHHCCCEEEEE--------------EEcCCCCCCCcCCCCC
Confidence            999999999999999999999              9999999999999984

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

>CHL00041 rps11 ribosomal protein S11

Probab=100.00  E-value=1.2e-40  Score=261.23  Aligned_cols=108  Identities=38%  Similarity=0.596  Sum_probs=105.3

Q ss_pred             CceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCC
Q 039298           56 GEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGN  135 (197)
Q Consensus        56 ~~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~  135 (197)
                      +++..|++||++|+|||||||||++|+++.|.|+|.+|||+.+ |+||||||+||++++++|+++||+.|+|++      
T Consensus         9 ~~~~~gi~hI~~t~NNTiiTlTd~~G~~l~~~S~G~~gfKg~r-K~T~~Aa~~~a~~~~~~~~~~gi~~v~I~i------   81 (116)
T CHL00041          9 RKIPKGVIHIQASFNNTIVTVTDVRGRVISWSSAGACGFKGAR-KGTPFAAQTAAENAIRTVIDQGMKRAEVMI------   81 (116)
T ss_pred             ccceeEEEEEEcccCCEEEEEEcCCCCEEEEEecCceeeCCCc-cCCHHHHHHHHHHHHHHHHHcCCcEEEEEE------
Confidence            4578999999999999999999999999999999999999998 899999999999999999999999999999      


Q ss_pred             CccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCC
Q 039298          136 KTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDST  186 (197)
Q Consensus       136 ~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGc  186 (197)
                        +|+|+||+++||+|+++|++|.+|              +|+||+|||||
T Consensus        82 --kG~G~Gr~~~ir~l~~~glkI~~I--------------~D~TpiphNGC  116 (116)
T CHL00041         82 --KGPGLGRDTALRAIRRSGLKLSSI--------------RDVTPMPHNGC  116 (116)
T ss_pred             --ECCCCcHHHHHHHHHHCCCEEEEE--------------EEcCCCCCCCC
Confidence              999999999999999999999999              99999999999

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

Probab=100.00  E-value=2.2e-37  Score=256.37  Aligned_cols=161  Identities=30%  Similarity=0.461  Sum_probs=138.9

Q ss_pred             hhhHhHhhhhccCCCcccCCcccccccccccccCccc---------c-----cc--ccC--C------cccCC--ceeee
Q 039298            8 LFRVFTFSFRLGTNPSLLNPSRVFAGMSRRKNREPKE---------E-----NV--TLG--P------AVRDG--EHVFG   61 (197)
Q Consensus         8 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~rk~k~~k~---------e-----~i--slg--~------~~~e~--~~~~g   61 (197)
                      +-++|....|.-+.|.  +.++|++...++++...++         |     .|  .+.  |      +..++  ...+.
T Consensus         3 lr~~~s~~lRs~t~pa--q~~Rih~s~~ir~a~rq~~~~a~~q~~~egt~g~~i~t~I~r~p~aet~~r~~~g~~f~eiP   80 (190)
T KOG0408|consen    3 LRRLVSDLLRSCTQPA--QQNRIHASISIRDAHRQGTRIATGQVETEGTTGAGIATPINRRPGAETNTRSFSGKNFREIP   80 (190)
T ss_pred             HHHHHHHHHHHhcchh--hhCceecccchhhHHHhhhhhhccceeecCCcccccccccccCCChhhhhcccCCccccccc
Confidence            4578888899999998  7778998888876654422         1     01  111  1      11122  24567


Q ss_pred             EEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCccCCC
Q 039298           62 VAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPG  141 (197)
Q Consensus        62 i~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~KG~G  141 (197)
                      |+||.+|+|||||||||.+|.++.|.|||.+|||+.| |+|++|||.||..++++++++|+..++|++        ||+|
T Consensus        81 i~hIraS~NNTivtVtd~kg~vi~~~ScgteGFrntr-kgT~iAaQtaavaa~~r~v~~G~~~vrV~V--------kGlG  151 (190)
T KOG0408|consen   81 IIHIRASFNNTIVTVTDVKGEVISWSSCGTEGFRNTR-KGTPIAAQTAAVAAIRRAVDQGMQTVRVRV--------KGLG  151 (190)
T ss_pred             eEEEEecCCCeEEEEEccCCcEEEEeecccccccccc-cCCchhHHHHHHHHHHHHHHhcceEEEEEE--------ecCC
Confidence            9999999999999999999999999999999999999 899999999999999999999999999999        9999


Q ss_pred             CChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCC
Q 039298          142 PGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRR  193 (197)
Q Consensus       142 ~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR  193 (197)
                      |||.+|+++|.++|+.+.+|              +|+||+|||||||+|.||
T Consensus       152 pGRmsa~kgl~m~Gl~vvsI--------------tD~Tp~~~ng~RPrK~Rr  189 (190)
T KOG0408|consen  152 PGRMSALKGLRMGGLLVVSI--------------TDNTPMPHNGCRPRKKRR  189 (190)
T ss_pred             ccHHHHHhhhhhcceEEEEe--------------ecCCcCCCCCCCcccccc
Confidence            99999999999999999999              999999999999999998

>PTZ00090 40S ribosomal protein S11; Provisional

Probab=100.00  E-value=7.9e-37  Score=261.82  Aligned_cols=109  Identities=20%  Similarity=0.346  Sum_probs=103.3

Q ss_pred             EEEEEccCCCeEEEEEcCCCCe--EEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCccC
Q 039298           62 VAHIFASFNDTFIHVTDLSGRE--TLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKT  139 (197)
Q Consensus        62 i~hI~ss~NNTiitlTD~~G~~--~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~KG  139 (197)
                      .+-|++|+|||||||||..||+  +.|+|+|.+|||+.+ |+||||||.||++++++|+++||+.|+|+|        +|
T Consensus       120 ~~vI~aSfNNTIVTlTD~~GNv~tl~WSSAG~~GFKGsK-KsTpfAAQ~aae~aakka~~~GIk~V~V~v--------KG  190 (233)
T PTZ00090        120 MLVITTSKNNVHAQVVNKSKNYKTVFGSFAGNVGFRKKL-QQSERCAYRIGENIAKKCRRLGIFAVDIKF--------RR  190 (233)
T ss_pred             EEEEEeccCcEEEEEEeCCCCEEEEEEEcccccCcccCc-cCCHHHHHHHHHHHHHHHHHcCCeEEEEEE--------eC
Confidence            3458999999999999999995  999999999999988 999999999999999999999999999999        99


Q ss_pred             CCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCC---CCCCCCCCCCC
Q 039298          140 PGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPT---DSTRRKGGRRG  194 (197)
Q Consensus       140 ~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPh---nGcR~kK~RR~  194 (197)
                      +| |||+|||+|+.+|++|..|              .|+||+||   |||||||+||+
T Consensus       191 pG-gREtALRaL~~~GLkIt~I--------------~DvTpiPHNG~NGCRPpKKRRV  233 (233)
T PTZ00090        191 IM-RVETVLQAFYANGLQVTQI--------------IHEPRLPKCGLNAVKPRKRRRV  233 (233)
T ss_pred             CC-hHHHHHHHHHHCCCEEEEE--------------EECCCCCcCCCCCCCCCCCCCC
Confidence            99 6999999999999999999              99999999   55999999884

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

Probab=97.38  E-value=0.0036  Score=47.63  Aligned_cols=89  Identities=16%  Similarity=0.128  Sum_probs=65.6

Q ss_pred             eeEEEEEccCCCeEEEEEcCC-CCeEEEEeeccCcccCC-CCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCc
Q 039298           60 FGVAHIFASFNDTFIHVTDLS-GRETLVRITGGMKVKAD-RDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKT  137 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~-G~~~~~~SsG~~g~k~~-rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~  137 (197)
                      ...+.|+.|.+|....|.|.. +.++.+.|+-...+++. .....-.||+.+++.++++|++.|+..+.+-.        
T Consensus        11 ~~RL~v~~Sn~~i~aqvi~~~~~~vl~sast~e~~~~~~~~~~~n~~aA~~vG~~la~r~~~~gi~~vv~D~--------   82 (103)
T cd00432          11 RPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVVFDR--------   82 (103)
T ss_pred             CCEEEEEEeCCEEEEEEEEeCcCeEEEEEecCchhhcccccCCCcHHHHHHHHHHHHHHHHHCCCCEEEEeC--------
Confidence            456788899999999999998 66776667666666543 22566788999999999999999999877765        


Q ss_pred             cCCC-CCh-HHHHHHHHhCCc
Q 039298          138 KTPG-PGA-QSALRALARSGM  156 (197)
Q Consensus       138 KG~G-~Gr-~~alraL~~~Gl  156 (197)
                      .|.- -|| .+++.++...|+
T Consensus        83 ~~~~~~grv~a~~~~~r~~Gl  103 (103)
T cd00432          83 GGYRYHGRVKALAKGAREGGL  103 (103)
T ss_pred             CCcccccHHHHHHHHHHHcCC
Confidence            3332 234 346667766664

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=96.95  E-value=0.016  Score=45.65  Aligned_cols=91  Identities=16%  Similarity=0.111  Sum_probs=66.9

Q ss_pred             eeEEEEEccCCCeEEEEEcCC-CCeEEEEeeccCcccCC---CCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCC
Q 039298           60 FGVAHIFASFNDTFIHVTDLS-GRETLVRITGGMKVKAD---RDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGN  135 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~-G~~~~~~SsG~~g~k~~---rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~  135 (197)
                      ...+-|+.|.+++.+.|.|.. +.++...|+-...+++.   .....--||+.+++.++++|++.||..+.+-.      
T Consensus        23 ~~RL~V~~Snk~i~aQii~~~~~~~l~~aSt~~~~l~~~~~~~~~~n~~aa~~vG~lla~ra~~~gi~~v~fdr------   96 (119)
T PF00861_consen   23 RPRLVVFRSNKHIYAQIIDDSKGGTLASASTLSKELKKYGWKGSTKNVEAAYLVGELLAKRALEKGIAKVVFDR------   96 (119)
T ss_dssp             SEEEEEEEESSEEEEEEEECTTTEEEEEEEEETTTGGGTT-SSTTSSHHHHHHHHHHHHHHHHHTTSSEEEECT------
T ss_pred             CCEEEEEeccCeEEEEEEeeCCCCeEEEEEecchhhhhhhhccCCCCEehHHHHHHHHHHHHHHcCCcEEEEcC------
Confidence            456778899999999997776 66666777777667652   21345778999999999999999998777765      


Q ss_pred             CccCCCCC-h-HHHHHHHHhCCcEE
Q 039298          136 KTKTPGPG-A-QSALRALARSGMKI  158 (197)
Q Consensus       136 ~~KG~G~G-r-~~alraL~~~GlkI  158 (197)
                        .|+-.+ | .+++.++...|++|
T Consensus        97 --~~~~y~grv~a~~~~~re~Gl~f  119 (119)
T PF00861_consen   97 --GGYKYHGRVKALADGAREGGLEF  119 (119)
T ss_dssp             --STSSSSSHHHHHHHHHHHTTCB-
T ss_pred             --CCCcccHHHHHHHHHHHHcCCCC
Confidence              444443 3 45778888888875

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes L18 from bacteria and L5 from eukaryotes. The ribosomal 5S RNA is the only known rRNA species to bind a ribosomal protein before its assembly into the ribosomal subunits []. In eukaryotes, the 5S rRNA molecule binds one protein species, a 34kDa protein which has been implicated in the intracellular transport of 5 S rRNA, while in bacteria it binds two or three different protein species []. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_M 4A1C_M 4A1A_M 4A17_M 3IZR_Q 3O58_E 1S1I_E 3IZS_Q 3O5H_E 1KQS_M ....

>PRK05593 rplR 50S ribosomal protein L18; Reviewed

Probab=96.84  E-value=0.019  Score=45.49  Aligned_cols=93  Identities=19%  Similarity=0.159  Sum_probs=63.5

Q ss_pred             ceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeec-cCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCC
Q 039298           57 EHVFGVAHIFASFNDTFIHVTDLSGRETLVRITG-GMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGN  135 (197)
Q Consensus        57 ~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG-~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~  135 (197)
                      ......+.|+-|.+++.+.|.|..+..++...+. ...++.+-+...--||+.+++.++++|++.||+.+..--      
T Consensus        21 ~~~rpRL~V~~SnkhiyAQvidd~~~~tl~saST~e~~~k~~~~~~n~~aa~~vG~~la~ra~~~gi~~vvfDr------   94 (117)
T PRK05593         21 TAERPRLSVFRSNRHIYAQVIDDVKGKTLASASTLEKDVRAGLKGGNKEAAKKVGKLIAERAKAKGIKQVVFDR------   94 (117)
T ss_pred             CCCCCEEEEEEeCCeEEEEEEECCCCEEEEEEecCcHhHhccccCCCHHHHHHHHHHHHHHHHHCCCCEEEEcC------
Confidence            3345678899999999999998888866554443 333433322456778999999999999999999854432      


Q ss_pred             CccCCCC-Ch-HHHHHHHHhCCcE
Q 039298          136 KTKTPGP-GA-QSALRALARSGMK  157 (197)
Q Consensus       136 ~~KG~G~-Gr-~~alraL~~~Glk  157 (197)
                        .|+=+ || .+++.++..+||+
T Consensus        95 --g~~~yhGrV~a~a~~are~Gl~  116 (117)
T PRK05593         95 --GGYKYHGRVKALADAAREAGLK  116 (117)
T ss_pred             --CCCcccHHHHHHHHHHHHhCCC
Confidence              22222 23 3456677677775

>TIGR00060 L18_bact ribosomal protein L18, bacterial type

Probab=96.55  E-value=0.049  Score=43.18  Aligned_cols=87  Identities=23%  Similarity=0.163  Sum_probs=61.5

Q ss_pred             eeEEEEEccCCCeEEEEEcCCCCeEEEEeecc-CcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCcc
Q 039298           60 FGVAHIFASFNDTFIHVTDLSGRETLVRITGG-MKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTK  138 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~-~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~K  138 (197)
                      ...+.|+-|.+++.+.|.|..+..+++.++.. ..++   ....--||..+++.++++|++.||+.+..--        .
T Consensus        24 rpRL~V~rSnk~iyaQiIdd~~~~tlasaST~ek~~~---~~~n~~aA~~vG~~la~ra~~~gi~~vvfDr--------g   92 (114)
T TIGR00060        24 RPRLVVFRSNRHIYAQVIDDSKSEVLASASTLEKKLK---YTGNKDAAKKVGKLVAERLKEKGIKDVVFDR--------G   92 (114)
T ss_pred             CcEEEEEEeCCeEEEEEEECCCCEEEEEEecchhhhc---CCCCHHHHHHHHHHHHHHHHHCCCCEEEEeC--------C
Confidence            55788899999999999988877666555533 3343   2456778999999999999999999875443        2


Q ss_pred             CCCC-Ch-HHHHHHHHhCCcE
Q 039298          139 TPGP-GA-QSALRALARSGMK  157 (197)
Q Consensus       139 G~G~-Gr-~~alraL~~~Glk  157 (197)
                      |+=. || +++..++...||+
T Consensus        93 g~~YhGrv~A~a~~aRe~Gl~  113 (114)
T TIGR00060        93 GYKYHGRVAALAEAAREAGLN  113 (114)
T ss_pred             CCcchHHHHHHHHHHHHhCCC
Confidence            3322 34 3355666667765

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

>CHL00139 rpl18 ribosomal protein L18; Validated

Probab=96.35  E-value=0.078  Score=41.59  Aligned_cols=91  Identities=21%  Similarity=0.266  Sum_probs=61.0

Q ss_pred             eeEEEEEccCCCeEEEEEc-CCCCeEEEEeeccCcccCC-CCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCc
Q 039298           60 FGVAHIFASFNDTFIHVTD-LSGRETLVRITGGMKVKAD-RDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKT  137 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD-~~G~~~~~~SsG~~g~k~~-rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~  137 (197)
                      ...+.|+-|.+++.+.|.| .+|+++.+.|+-...+++. .....--||+.+++.++++|++.||+.+..--   ||.+ 
T Consensus        15 rpRL~V~rSnkhiyaQvidd~~g~tlasaST~ek~~~~~~~~~~n~~aA~~vG~lla~ra~~~gi~~vvfDr---gg~~-   90 (109)
T CHL00139         15 RPRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKKGITKVVFDR---GGKL-   90 (109)
T ss_pred             CCEEEEEEeCCeEEEEEEECCCCCEEEEEecCchhhhccccCCCCHHHHHHHHHHHHHHHHHCCCCEEEEcC---CCCc-
Confidence            4467888999999997775 5677776666645444431 12355678899999999999999999765443   2222 


Q ss_pred             cCCCCCh-HHHHHHHHhCCcE
Q 039298          138 KTPGPGA-QSALRALARSGMK  157 (197)
Q Consensus       138 KG~G~Gr-~~alraL~~~Glk  157 (197)
                        ++ || +++..++..+||+
T Consensus        91 --yh-GrV~a~a~~are~GL~  108 (109)
T CHL00139         91 --YH-GRIKALAEAAREAGLQ  108 (109)
T ss_pred             --cc-hHHHHHHHHHHHhCCC
Confidence              11 23 3466677777775

>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed

Probab=95.97  E-value=0.16  Score=43.81  Aligned_cols=94  Identities=16%  Similarity=0.209  Sum_probs=62.2

Q ss_pred             eEEEEEccCCCeEEEEE--cCCCCeEEEEeec-cCcccCC-CCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCC
Q 039298           61 GVAHIFASFNDTFIHVT--DLSGRETLVRITG-GMKVKAD-RDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNK  136 (197)
Q Consensus        61 gi~hI~ss~NNTiitlT--D~~G~~~~~~SsG-~~g~k~~-rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~  136 (197)
                      .-+-|+-|.+++++.|.  |..|..+++..+. ....++- .....--||++++..++++|++.||+.+.+-.   ||.+
T Consensus        33 pRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~g~~~~~~N~~AAy~vG~llA~ral~kGi~~vvfDr---Gg~~  109 (193)
T PRK08569         33 PRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKYGWKGDTGNTPAAYLTGLLAGKKALKAGVEEAVLDI---GLHR  109 (193)
T ss_pred             CEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhccccCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEec---CCcc
Confidence            45667889999999999  7777665554443 3333221 11355678899999999999999999866665   3333


Q ss_pred             ccCCCCChHHHHHHHHhCCcEE
Q 039298          137 TKTPGPGAQSALRALARSGMKI  158 (197)
Q Consensus       137 ~KG~G~Gr~~alraL~~~GlkI  158 (197)
                      .. .|--=.+++++...+||+|
T Consensus       110 yh-~gGRV~A~akgArd~GL~f  130 (193)
T PRK08569        110 PT-KGSRVFAALKGAIDAGLEI  130 (193)
T ss_pred             cc-CCccHHHHHHHHHHcCCcC
Confidence            21 1111345778888888764

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

Probab=95.12  E-value=0.4  Score=38.74  Aligned_cols=94  Identities=12%  Similarity=0.042  Sum_probs=61.9

Q ss_pred             ceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeecc-CcccC---CCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEee
Q 039298           57 EHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGG-MKVKA---DRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAT  132 (197)
Q Consensus        57 ~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~-~g~k~---~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~  132 (197)
                      ......+-|+-|.++.++.+.|.+.+.+....|-- ..+++   ......-.||.++++.+++++++.||+.+.+-.   
T Consensus        26 ~~~rpRL~V~rSnkhi~aQiId~~~~~tla~aSt~~~~l~~~g~~~~~~N~~aA~~vG~lia~ra~~kgi~~vVfdr---  102 (125)
T COG0256          26 TSGRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKYGKKGGGGNTEAAYLVGKLIAERALAKGIEEVVFDR---  102 (125)
T ss_pred             CCCCcEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHHhhcccCCCCCHHHHHHHHHHHHHHHHHcCCcEEEEcC---
Confidence            33345666778888999999988887666555532 11211   111244678999999999999999999888555   


Q ss_pred             CCCCccCCCCC-hH-HHHHHHHhCCcEE
Q 039298          133 GGNKTKTPGPG-AQ-SALRALARSGMKI  158 (197)
Q Consensus       133 gg~~~KG~G~G-r~-~alraL~~~GlkI  158 (197)
                           .|+=.| |- ++.++....||++
T Consensus       103 -----~g~~yhgRV~Ala~~AreaGL~f  125 (125)
T COG0256         103 -----GGYKYHGRVAALADGAREAGLEF  125 (125)
T ss_pred             -----CCCCcchHHHHHHHHHHHcCcCC
Confidence                 555554 32 3445555667753

>PTZ00032 60S ribosomal protein L18; Provisional

Probab=90.20  E-value=1.7  Score=37.93  Aligned_cols=67  Identities=10%  Similarity=0.016  Sum_probs=48.3

Q ss_pred             eEEEEEccCCCeEEEEEcCCC-CeEEEEeeccCcccCC-------------CCCCCHHHHHHHHHHHHHHHHHcCccEEE
Q 039298           61 GVAHIFASFNDTFIHVTDLSG-RETLVRITGGMKVKAD-------------RDESSPYAAMLAAQDVSTRCKELGITALH  126 (197)
Q Consensus        61 gi~hI~ss~NNTiitlTD~~G-~~~~~~SsG~~g~k~~-------------rrkst~~Aa~~aa~~v~~k~~elGi~~l~  126 (197)
                      ..+-|+-|.++..+.+.|... .++.+.|+=.-.+++.             +..++--||..+++.++++|++.||+.|.
T Consensus       106 PRLsV~RSnkHIYAQIIDD~~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~IAerAl~kGI~kVv  185 (211)
T PTZ00032        106 PRLTLKNTNNQMYATIVDDYTRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKLIGRKALSKGISKVR  185 (211)
T ss_pred             ceEEEEecCCeEEEEEEECCCCCEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHHHHHHHHHCCCCEEE
Confidence            467889999999999987754 5555444433334331             12567789999999999999999999654


Q ss_pred             E
Q 039298          127 I  127 (197)
Q Consensus       127 V  127 (197)
                      .
T Consensus       186 F  186 (211)
T PTZ00032        186 F  186 (211)
T ss_pred             E
Confidence            3

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	197
3iz6_K	150	Localization Of The Small Subunit Ribosomal Protein		8e-59
2zkq_k	151	Structure Of A Mammalian Ribosomal 40s Subunit With		4e-51
2xzm_K	151	Crystal Structure Of The Eukaryotic 40s Ribosomal S		2e-42
3j0l_K	140	Core Of Mammalian 80s Pre-Ribosome In Complex With		2e-41
3izb_K	137	Localization Of The Small Subunit Ribosomal Protein		3e-41
1s1h_K	136	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		8e-41
3jyv_K	125	Structure Of The 40s Rrna And Proteins And PE TRNA		1e-40
3zey_H	144	High-resolution Cryo-electron Microscopy Structure		9e-35
3j20_M	137	Promiscuous Behavior Of Proteins In Archaeal Riboso		1e-23
2gy9_K	116	Structure Of The 30s Subunit Of A Pre-Translocation		5e-08
3fih_K	117	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		6e-08
1p6g_K	128	Real Space Refined Coordinates Of The 30s Subunit F		7e-08
1vs5_K	129	Crystal Structure Of The Bacterial Ribosome From Es		8e-08

>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 =  222 bits (566), Expect = 8e-59,   Method: Compositional matrix adjust.
 Identities = 114/153 (74%), Positives = 120/153 (78%), Gaps = 14/153 (9%)
Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           MS+RK REPKEENVTLGP VR+GE+VFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK
Sbjct: 1   MSKRKTREPKEENVTLGPTVREGEYVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 60
Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALAR 153
           VKADRDESSPYAAMLA+QDV+ RCKELGITALHIKLRA            AQSALRALAR
Sbjct: 61  VKADRDESSPYAAMLASQDVAQRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 120
Query: 154 SGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
           SGMK                  EDVTP+PTDST
Sbjct: 121 SGMKIGRI--------------EDVTPVPTDST 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 =  197 bits (500), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 103/154 (66%), Positives = 114/154 (74%), Gaps = 15/154 (9%)
Query: 34  MSRRKNREPKEENV-TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
           M+ RK +E KEE V +LGP V +GE+VFGV HIFASFNDTF+HVTDLSG+ET+ R+TGGM
Sbjct: 1   MAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGM 60
Query: 93  KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALA 152
           KVKADRDESSPYAAMLAAQDV+ RCKELGITALHIKLRA            AQSALRALA
Sbjct: 61  KVKADRDESSPYAAMLAAQDVAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALA 120
Query: 153 RSGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
           RSGMK                  EDVTPIP+DST
Sbjct: 121 RSGMKIGRI--------------EDVTPIPSDST 140

>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 =  168 bits (426), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 93/154 (60%), Positives = 104/154 (67%), Gaps = 15/154 (9%)
Query: 34  MSRRKNREPKEENVTLGPA-VRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
           M+ +K    ++E ++ GP  V   E+VFGV HI A++NDTFIHVTDLSGRETLVR+TGGM
Sbjct: 1   MAPKKTAPVQKEVISYGPPNVGANENVFGVCHIMATWNDTFIHVTDLSGRETLVRVTGGM 60
Query: 93  KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALA 152
           KVKADR+ESSPYAAM AA DV  RCKEL I ALHIKLRA            AQSALRALA
Sbjct: 61  KVKADREESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGVETKQPGPGAQSALRALA 120
Query: 153 RSGMKXXXXXXXXXXXXXXYYISEDVTPIPTDST 186
           RSGMK                  EDVTPIPTDST
Sbjct: 121 RSGMKIGRI--------------EDVTPIPTDST 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 =  165 bits (417), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 89/136 (65%), Positives = 94/136 (69%), Gaps = 14/136 (10%)
Query: 51  PAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAA 110
           P V   E+VFGV HI A++NDTFIHVTDLSGRETLVR+TGGMKVKADR+ESSPYAAM AA
Sbjct: 8   PNVGANENVFGVCHIMATWNDTFIHVTDLSGRETLVRVTGGMKVKADREESSPYAAMQAA 67
Query: 111 QDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXXXXXXXXXX 170
            DV  RCKEL I ALHIKLRA            AQSALRALARSGMK             
Sbjct: 68  IDVVNRCKELKINALHIKLRAKGGVETKQPGPGAQSALRALARSGMKIGRI--------- 118
Query: 171 XYYISEDVTPIPTDST 186
                EDVTPIPTDST
Sbjct: 119 -----EDVTPIPTDST 129

>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 =  164 bits (415), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 80/133 (60%), Positives = 96/133 (72%), Gaps = 14/133 (10%)
Query: 54  RDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDV 113
           RD   VFGVA I+ASFNDTF+HVTDLSG+ET+ R+TGGMKVKADRDESSPYAAMLAAQDV
Sbjct: 8   RDNSQVFGVARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADRDESSPYAAMLAAQDV 67
Query: 114 STRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXXXXXXXXXXXYY 173
           + +CKE+GITA+H+K+RA             Q+ALRALARSG++                
Sbjct: 68  AAKCKEVGITAVHVKIRATGGTRTKTPGPGGQAALRALARSGLRIGRI------------ 115
Query: 174 ISEDVTPIPTDST 186
             EDVTP+P+DST
Sbjct: 116 --EDVTPVPSDST 126

>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 =  162 bits (411), Expect = 8e-41,   Method: Compositional matrix adjust.
 Identities = 79/133 (59%), Positives = 96/133 (72%), Gaps = 14/133 (10%)
Query: 54  RDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDV 113
           RD   VFGVA I+ASFNDTF+HVTDLSG+ET+ R+TGGMKVKADRDESSPYAAMLAAQDV
Sbjct: 7   RDNSQVFGVARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADRDESSPYAAMLAAQDV 66
Query: 114 STRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXXXXXXXXXXXYY 173
           + +C+E+GITA+H+K+RA             Q+ALRALARSG++                
Sbjct: 67  AAKCREVGITAVHVKIRATGGTRTKTPGPGGQAALRALARSGLRIGRI------------ 114
Query: 174 ISEDVTPIPTDST 186
             EDVTP+P+DST
Sbjct: 115 --EDVTPVPSDST 125

>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 =  162 bits (409), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 79/132 (59%), Positives = 95/132 (71%), Gaps = 14/132 (10%)
Query: 55  DGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVS 114
           D   VFGVA I+ASFNDTF+HVTDLSG+ET+ R+TGGMKVKADRDESSPYAAMLAAQDV+
Sbjct: 1   DNSQVFGVARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADRDESSPYAAMLAAQDVA 60
Query: 115 TRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXXXXXXXXXXXYYI 174
            +CKE+GITA+H+K+RA             Q+ALRALARSG++                 
Sbjct: 61  AKCKEVGITAVHVKIRATGGTRTKTPGPGGQAALRALARSGLRIGRI------------- 107
Query: 175 SEDVTPIPTDST 186
            EDVTP+P+DST
Sbjct: 108 -EDVTPVPSDST 118

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

Iteration: 1
 Score =  142 bits (359), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 82/144 (56%), Positives = 97/144 (67%), Gaps = 14/144 (9%)
Query: 43  KEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESS 102
           K+E    G +    + V+GV HI+ASFNDTF+HVTD+SGRET  ++TGGMKVKADRDESS
Sbjct: 4   KQEVKYYGSSAGKDQLVYGVVHIYASFNDTFVHVTDMSGRETFCKVTGGMKVKADRDESS 63
Query: 103 PYAAMLAAQDVSTRCKELGITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXX 162
           PYAAM+AAQDV  RCKE GI ALH+K+RA            AQ+ALRALAR+GMK     
Sbjct: 64  PYAAMMAAQDVVARCKECGINALHVKMRATGGVGTKSPGPGAQAALRALARAGMKIGRI- 122
Query: 163 XXXXXXXXXYYISEDVTPIPTDST 186
                        EDVTP+PTDST
Sbjct: 123 -------------EDVTPVPTDST 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 =  106 bits (264), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 61/127 (48%), Positives = 80/127 (62%), Gaps = 14/127 (11%)
Query: 60  FGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKE 119
           +G+AHI++SFN+T IH+TD++G ET+ R +GGM VKADRDE SPYAAMLAA+  +    E
Sbjct: 14  WGIAHIYSSFNNTIIHITDITGAETISRWSGGMVVKADRDEPSPYAAMLAARRAAEEALE 73
Query: 120 LGITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXXXXXXXXXXXYYISEDVT 179
            GI  +HI++RA            AQ+A+RALAR+G+K                  EDVT
Sbjct: 74  KGIVGVHIRVRAPGGSKSKTPGPGAQAAIRALARAGLKIGRV--------------EDVT 119
Query: 180 PIPTDST 186
           PIP D T
Sbjct: 120 PIPHDGT 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 = 53.9 bits (128), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 38/122 (31%), Positives = 55/122 (45%), Gaps = 23/122 (18%)
Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           GVAHI ASFN+T + +TD  G        GG   +  R +S+P+AA +AA+  +   KE 
Sbjct: 7   GVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSR-KSTPFAAQVAAERCADAVKEY 65
Query: 121 GITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXXXXXXXXXXXYYISEDVTP 180
           GI  L + ++              +S +RAL  +G +                   DVTP
Sbjct: 66  GIKNLEVMVKGPGPGR--------ESTIRALNAAGFRITNIT--------------DVTP 103
Query: 181 IP 182
           IP
Sbjct: 104 IP 105

>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 = 53.9 bits (128), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 38/125 (30%), Positives = 56/125 (44%), Gaps = 23/125 (18%)
Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           GVAHI ASFN+T + +TD  G        GG   +  R +S+P+AA +AA+  +   KE 
Sbjct: 7   GVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSR-KSTPFAAQVAAERCADAVKEY 65
Query: 121 GITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXXXXXXXXXXXYYISEDVTP 180
           GI  L + ++              +S +RAL  +G +                   DVTP
Sbjct: 66  GIKNLEVMVKGPGPGR--------ESTIRALNAAGFRITNIT--------------DVTP 103
Query: 181 IPTDS 185
           IP + 
Sbjct: 104 IPHNG 108

>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 = 53.5 bits (127), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 38/125 (30%), Positives = 56/125 (44%), Gaps = 23/125 (18%)
Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           GVAHI ASFN+T + +TD  G        GG   +  R +S+P+AA +AA+  +   KE 
Sbjct: 18  GVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSR-KSTPFAAQVAAERCADAVKEY 76
Query: 121 GITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXXXXXXXXXXXYYISEDVTP 180
           GI  L + ++              +S +RAL  +G +                   DVTP
Sbjct: 77  GIKNLEVMVKGPGPGR--------ESTIRALNAAGFRITNIT--------------DVTP 114
Query: 181 IPTDS 185
           IP + 
Sbjct: 115 IPHNG 119

>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 = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 38/125 (30%), Positives = 56/125 (44%), Gaps = 23/125 (18%)
Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           GVAHI ASFN+T + +TD  G        GG   +  R +S+P+AA +AA+  +   KE 
Sbjct: 19  GVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSR-KSTPFAAQVAAERCADAVKEY 77
Query: 121 GITALHIKLRAXXXXXXXXXXXXAQSALRALARSGMKXXXXXXXXXXXXXXYYISEDVTP 180
           GI  L + ++              +S +RAL  +G +                   DVTP
Sbjct: 78  GIKNLEVMVKGPGPGR--------ESTIRALNAAGFRITNIT--------------DVTP 115
Query: 181 IPTDS 185
           IP + 
Sbjct: 116 IPHNG 120

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	197
3u5c_O	137	RP59A, 40S ribosomal protein S14-A; translation, r	5e-67
2xzm_K	151	RPS14E; ribosome, translation; 3.93A {Tetrahymena	7e-66
3r8n_K	117	30S ribosomal protein S11; protein biosynthesis, R	9e-47
3bbn_K	140	Ribosomal protein S11; small ribosomal subunit, sp	1e-42
2vqe_K	129	30S ribosomal protein S11, 30S ribosomal protein S	4e-42

>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 =  200 bits (511), Expect = 5e-67
 Identities = 104/147 (70%), Positives = 122/147 (82%), Gaps = 14/147 (9%)

Query: 51  PAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAA 110
              RD   VFGVA I+ASFNDTF+HVTDLSG+ET+ R+TGGMKVKADRDESSPYAAMLAA
Sbjct: 5   VQARDNSQVFGVARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADRDESSPYAAMLAA 64

Query: 111 QDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILG 170
           QDV+ +CKE+GITA+H+K+RATGG +TKTPGPG Q+ALRALARSG++IGRI         
Sbjct: 65  QDVAAKCKEVGITAVHVKIRATGGTRTKTPGPGGQAALRALARSGLRIGRI--------- 115

Query: 171 LYYISEDVTPIPTDSTRRKGGRRGRRL 197
                EDVTP+P+DSTR+KGGRRGRRL
Sbjct: 116 -----EDVTPVPSDSTRKKGGRRGRRL 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 =  198 bits (505), Expect = 7e-66
 Identities = 115/165 (69%), Positives = 128/165 (77%), Gaps = 15/165 (9%)

Query: 34  MSRRKNREPKEENVTLGPA-VRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGM 92
           M+ +K    ++E ++ GP  V   E+VFGV HI A++NDTFIHVTDLSGRETLVR+TGGM
Sbjct: 1   MAPKKTAPVQKEVISYGPPNVGANENVFGVCHIMATWNDTFIHVTDLSGRETLVRVTGGM 60

Query: 93  KVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALA 152
           KVKADR+ESSPYAAM AA DV  RCKEL I ALHIKLRA GG +TK PGPGAQSALRALA
Sbjct: 61  KVKADREESSPYAAMQAAIDVVNRCKELKINALHIKLRAKGGVETKQPGPGAQSALRALA 120

Query: 153 RSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGRRL 197
           RSGMKIGRI              EDVTPIPTDSTRR+GGRRGRRL
Sbjct: 121 RSGMKIGRI--------------EDVTPIPTDSTRREGGRRGRRL 151

>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 =  138 bits (351), Expect = 1e-42
 Identities = 41/162 (25%), Positives = 64/162 (39%), Gaps = 25/162 (15%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHV--FGVAHIFASFNDTFIHVTDLSGRETLVRITGG 91
           M++   +     N  +             GV H+ ASFN+T + VTD+ G   +   + G
Sbjct: 1   MAKPIPKIGSRRNGRISSRKSASARKIPKGVIHVQASFNNTIVTVTDVRG-RVVSWASAG 59

Query: 92  MKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRAL 151
                     +P+AA  AA +      E G+    + +        K PG G  +ALRA+
Sbjct: 60  TCGFRGTKRGTPFAAQTAAGNAIRTVVEQGMQRAEVMI--------KGPGLGRDAALRAI 111

Query: 152 ARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRR 193
            RSG+ +  +               DVTP+P +  R    RR
Sbjct: 112 RRSGILLSFV--------------RDVTPMPHNGCRPPKKRR 139

>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 =  137 bits (347), Expect = 4e-42
 Identities = 40/160 (25%), Positives = 71/160 (44%), Gaps = 34/160 (21%)

Query: 34  MSRRKNREPKEENVTLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMK 93
           M+++ +++  +  V             G A+I AS+N+T + +TD  G   +   +GG+ 
Sbjct: 1   MAKKPSKKKVKRQVA-----------SGRAYIHASYNNTIVTITDPDG-NPITWSSGGVI 48

Query: 94  VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALAR 153
                 + +PYAA LAA D + +    G+ ++ + +R          G G + A+RAL  
Sbjct: 49  GYKGSRKGTPYAAQLAALDAAKKAMAYGMQSVDVIVRG--------TGAGREQAIRALQA 100

Query: 154 SGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRR 193
           SG+++  I               D TP+P +  R K   R
Sbjct: 101 SGLQVKSI--------------VDDTPVPHNGCRPKKKFR 126

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	197
2xzm_K	151	RPS14E; ribosome, translation; 3.93A {Tetrahymena	100.0
3u5c_O	137	RP59A, 40S ribosomal protein S14-A; translation, r	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
3r8s_O	116	50S ribosomal protein L18; protein biosynthesis, R	96.18
3v2d_S	112	50S ribosomal protein L18; ribosome associated inh	96.11
1vq8_N	187	50S ribosomal protein L18P; ribosome 50S, protein-	95.6
1ovy_A	120	50S ribosomal protein L18; ribosome; NMR {Geobacil	94.98
3j21_O	203	50S ribosomal protein L18P; archaea, archaeal, KIN	94.68
2zjr_L	114	50S ribosomal protein L18; ribosome, large ribosom	93.31
3bbo_Q	161	Ribosomal protein L18; large ribosomal subunit, sp	92.89
2zkr_n	297	60S ribosomal protein L5; protein-RNA complex, 60S	88.8
3u5e_D	297	60S ribosomal protein L5; translation, ribosome, r	82.84

>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=4.4e-60  Score=385.43  Aligned_cols=150  Identities=77%  Similarity=1.143  Sum_probs=137.2

Q ss_pred             cccccccCccccccccCCc-ccCCceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHH
Q 039298           34 MSRRKNREPKEENVTLGPA-VRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQD  112 (197)
Q Consensus        34 ~~~rk~k~~k~e~islg~~-~~e~~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~  112 (197)
                      |+|+|.++++|++++|||+ +.++++++|++||++|||||||||||++|++++|||||+++||++++|+||||||+||++
T Consensus         1 ~~~~~~~~~~~~~~~~~p~~~~~~~~~~gi~hI~asfNNTiVtiTD~~G~~~~~~ssgg~~~k~~r~ksTpyAAq~aa~~   80 (151)
T 2xzm_K            1 MAPKKTAPVQKEVISYGPPNVGANENVFGVCHIMATWNDTFIHVTDLSGRETLVRVTGGMKVKADREESSPYAAMQAAID   80 (151)
T ss_dssp             -----------CCCCCSCSCCCTTCCCEEEEEEEBCSSCBCCEEECTTCCSEEEECCHHHHCSSGGGGSCHHHHHHHHHH
T ss_pred             CCCccccccccceeecCCccccCCCeeeeEEEEEccCCCEEEEEECCCCCEEEEEecCcceEeCCCCcCCHHHHHHHHHH
Confidence            6888888866679999999 999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCccEEEEEEEeeCCCCccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCC
Q 039298          113 VSTRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGR  192 (197)
Q Consensus       113 v~~k~~elGi~~l~V~lr~~gg~~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~R  192 (197)
                      ++++|+++||+.|+|+|+|+|||++||||+|||+|||+|+++||+|.+|              +|+||||||||||||+|
T Consensus        81 ~a~~a~e~Gi~~v~V~vkG~gg~~~kgpG~GresairaL~~~GlkI~~I--------------~DvTpiPhNGcRp~K~R  146 (151)
T 2xzm_K           81 VVNRCKELKINALHIKLRAKGGVETKQPGPGAQSALRALARSGMKIGRI--------------EDVTPIPTDSTRREGGR  146 (151)
T ss_dssp             HHHHHHHHTCCEEEEEEECCCTTSCCSCCSHHHHHHHHHHHTSCEEEEE--------------EECCCCCSSCCCCSSCT
T ss_pred             HHHHHHHcCCeEEEEEEEcCCCCCccCCCccHHHHHHHHHHCCCEEEEE--------------EEeCCCCCCCCCCCCCC
Confidence            9999999999999999999999999999999999999999999999999              99999999999999999


Q ss_pred             CCCCC
Q 039298          193 RGRRL  197 (197)
Q Consensus       193 R~~~~  197 (197)
                      |+||+
T Consensus       147 Rvr~~  151 (151)
T 2xzm_K          147 RGRRL  151 (151)
T ss_dssp             TCSCC
T ss_pred             CCCCC
Confidence            99996

>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=2.6e-57  Score=364.06  Aligned_cols=136  Identities=76%  Similarity=1.213  Sum_probs=125.8

Q ss_pred             ccCCcccCCceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEE
Q 039298           48 TLGPAVRDGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHI  127 (197)
Q Consensus        48 slg~~~~e~~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V  127 (197)
                      |--+|+.|+++++||+||++|||||||||||++|++++|+|+|+||||++++|+||||||+||++++++|+|+||+.|+|
T Consensus         2 ~~~~~~~~~~~~~gi~hI~asfNNTivtvTD~~G~~~~~~ssG~~gfKg~r~ksTpyAAq~aa~~~a~~a~e~Gi~~v~V   81 (137)
T 3u5c_O            2 SNVVQARDNSQVFGVARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADRDESSPYAAMLAAQDVAAKCKEVGITAVHV   81 (137)
T ss_dssp             ---------CCCEEECCEEEETTEEEECCEETTSSSCCCCCBTTTTSCCSTTTTCHHHHHHHHHHHHHHHHHHTCCEEEC
T ss_pred             CccceeccCceeeEEEEEEccCCCEEEEEEcCCCCEEEEEeCCCcEEeCCcccCCHHHHHHHHHHHHHHHHHcCCeEEEE
Confidence            33468899999999999999999999999999999999999999999999989999999999999999999999999999


Q ss_pred             EEEeeCCCCccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCCCCC
Q 039298          128 KLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGRRL  197 (197)
Q Consensus       128 ~lr~~gg~~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~~~~  197 (197)
                      +|||+|||++||||||||+|||+|+++||+|.+|              +|+||||||||||||+||+||+
T Consensus        82 ~vra~gg~~~kgpG~Gr~sairaL~~~Gl~I~~I--------------~DvTpiPhnGcRp~K~RR~~~~  137 (137)
T 3u5c_O           82 KIRATGGTRTKTPGPGGQAALRALARSGLRIGRI--------------EDVTPVPSDSTRKKGGRRGRRL  137 (137)
T ss_dssp             EEECSCTTSCCSCCGGGHHHHHHHHTTTCEECCC--------------EECCCCCSSCSCCTTCTTCCCC
T ss_pred             EEeccCCCcccCCCcchHHHHHHHHhCCCEEEEE--------------EEcCCCCCCCCCCCCCCCCCCC
Confidence            9999999999999999999999999999999999              9999999999999999999996

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

Probab=100.00  E-value=5.8e-52  Score=333.02  Aligned_cols=128  Identities=56%  Similarity=0.925  Sum_probs=119.5

Q ss_pred             CCceeeeEEEEEccCCCeEEEEEcCCCC-eEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeC
Q 039298           55 DGEHVFGVAHIFASFNDTFIHVTDLSGR-ETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATG  133 (197)
Q Consensus        55 e~~~~~gi~hI~ss~NNTiitlTD~~G~-~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~g  133 (197)
                      |+++++||+||++|||||||||||++|+ ++.|+|+|.+||++. +|+||||||+||++++++|+++||+.|+|+|+|+|
T Consensus         9 ~~~~~~gi~hI~asfNNTivtiTD~~G~~~i~~~S~G~~gfkg~-~ksTp~AA~~aa~~~~~~a~e~Gi~~v~V~vkG~g   87 (137)
T 3j20_M            9 KKKEKWGIAHIYSSFNNTIIHITDITGAETISRWSGGMVVKADR-DEPSPYAAMLAARRAAEEALEKGIVGVHIRVRAPG   87 (137)
T ss_dssp             SSCCEEEEEEEEECSSCEEEEEEESSSCSEEEEEEGGGTCSCTT-TSSSHHHHHHHHHHHHHHHHHHTEEEEEEEEECCC
T ss_pred             ccCCcceEEEEEcCCCCEEEEEEcCCCCEEEEEEccceeeecCC-ccCCHHHHHHHHHHHHHHHHHcCCeEEEEEEECCC
Confidence            4567999999999999999999999996 776666666666655 49999999999999999999999999999999999


Q ss_pred             CCCccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCCCCC
Q 039298          134 GNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRGRRL  197 (197)
Q Consensus       134 g~~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~~~~  197 (197)
                      ||++|.||||||+|||+|+++||+|.+|              +|+|||||||||||+.||+|||
T Consensus        88 g~~~~~pG~GresairaL~~~Gl~I~~I--------------~DvTpiPhnGcRp~g~rr~rrv  137 (137)
T 3j20_M           88 GSKSKTPGPGAQAAIRALARAGLKIGRV--------------EDVTPIPHDGTRPKGGRRGRRV  137 (137)
T ss_dssp             SSSCCSCCTHHHHHHHHHHHHTCEEEEE--------------EECCCCCSSCCCCSCCSSSSCC
T ss_pred             CCCCcCCCCcHHHHHHHHHhCCCEEEEE--------------EEcCCCCCCCCCCCCCCCCCCC
Confidence            9999999999999999999999999999              9999999999999999999996

>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=2.9e-48  Score=308.65  Aligned_cols=115  Identities=33%  Similarity=0.518  Sum_probs=112.0

Q ss_pred             ceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCC
Q 039298           57 EHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNK  136 (197)
Q Consensus        57 ~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~  136 (197)
                      .+..|++||++|||||||||||++|+++.|+|+|++|||+++ |+||||||+||++++++|+|+||+.|+|+|       
T Consensus        13 ~~~~gi~hI~as~NNTivtiTd~~G~~~~~~SaG~~gfKg~r-k~tp~AA~~aa~~~~~~~~~~Gi~~v~V~v-------   84 (129)
T 2vqe_K           13 QVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSR-KGTPYAAQLAALDAAKKAMAYGMQSVDVIV-------   84 (129)
T ss_dssp             CCSEEEEEEEECSSCEEEEEECTTSCEEEECCTTTTTCCSGG-GGSHHHHHHHHHHHHHHHHTTTCCEEEEEE-------
T ss_pred             cccceEEEEEecCCCEEEEEEcCCCCEEEEEeccceeEcCCC-cCCHHHHHHHHHHHHHHHHHhCCeEEEEEE-------
Confidence            466899999999999999999999999999999999999998 999999999999999999999999999999       


Q ss_pred             ccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCC
Q 039298          137 TKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRG  194 (197)
Q Consensus       137 ~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~  194 (197)
                       +|||+|||+|||+|+.+|++|.+|              +|+||||||||||||+||+
T Consensus        85 -kG~G~Gre~airaL~~~Gl~I~~I--------------~DvTpiPhnGcRp~K~RRv  127 (129)
T 2vqe_K           85 -RGTGAGREQAIRALQASGLQVKSI--------------VDDTPVPHNGCRPKKKFRK  127 (129)
T ss_dssp             -ESCCTTHHHHHHHHHTSSSEEEEC--------------EECCCCCSSCSCCCGGGCS
T ss_pred             -ECCCCCHHHHHHHHHHCCCEEEEE--------------EEcCCCCCCCCCCCCCCCC
Confidence             999999999999999999999999              9999999999999999986

>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=1.6e-47  Score=308.13  Aligned_cols=116  Identities=34%  Similarity=0.527  Sum_probs=112.5

Q ss_pred             CceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCC
Q 039298           56 GEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGN  135 (197)
Q Consensus        56 ~~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~  135 (197)
                      +.+..|++||++|||||||||||++|+++.|+|+|++|||+++ |+||||||+||++++++|+|+||+.|+|+|      
T Consensus        25 k~~~~gi~hI~as~NNTivtiTD~~G~~i~~~SaG~~GfKg~r-ksTp~AA~~aa~~~~~~a~e~Gi~~v~V~v------   97 (140)
T 3bbn_K           25 RKIPKGVIHVQASFNNTIVTVTDVRGRVVSWASAGTCGFRGTK-RGTPFAAQTAAGNAIRTVVEQGMQRAEVMI------   97 (140)
T ss_dssp             CCCCCCEEEEEECSSCEEEEEECSSSCEEEEEETTTSSCCTTS-CSSHHHHHHHHTSGGGTSTTTCCCEEEEEE------
T ss_pred             ccceeeEEEEEecCCCEEEEEEcCCCCEEEEEeccceeEcccc-cCCHHHHHHHHHHHHHHHHHhCCeEEEEEE------
Confidence            4567899999999999999999999999999999999999998 999999999999999999999999999999      


Q ss_pred             CccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCC
Q 039298          136 KTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRG  194 (197)
Q Consensus       136 ~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~  194 (197)
                        +|||+|||+|||+|+.+|++|.+|              +|+||||||||||||+||+
T Consensus        98 --kG~G~GReaairaL~~~Gl~I~~I--------------~DvTpiPhnGcRppK~RRv  140 (140)
T 3bbn_K           98 --KGPGLGRDAALRAIRRSGILLSFV--------------RDVTPMPHNGCRPPKKRRV  140 (140)
T ss_dssp             --ESCSTTSSHHHHHHHTTTCEEEEE--------------EECCCCCCSCCCCCCCCCC
T ss_pred             --ECCCCcHHHHHHHHHHCCCEEEEE--------------EEcCCCCCCCCCCCCCCCC
Confidence              999999999999999999999999              9999999999999999985

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

Probab=96.18  E-value=0.033  Score=42.98  Aligned_cols=91  Identities=16%  Similarity=0.154  Sum_probs=60.5

Q ss_pred             eeEEEEEccCCCeEEEEEcCCCC-eEEEEeeccCcccCCC-CCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCc
Q 039298           60 FGVAHIFASFNDTFIHVTDLSGR-ETLVRITGGMKVKADR-DESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKT  137 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~G~-~~~~~SsG~~g~k~~r-rkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~  137 (197)
                      ..-+-|+-|.+++...|.|..+. ++.+.|+--..+++.. ..+.--||+.+++.++++|++.||+.+..-.   ||...
T Consensus        22 rpRL~V~rSnkhIyAQiidd~~g~tlasAST~e~~~~~~~~~~~n~~AA~~vG~llA~Ral~~GI~~vvfDr---gg~~y   98 (116)
T 3r8s_O           22 ATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAVAERALEKGIKDVSFDR---SGFQY   98 (116)
T ss_dssp             CCEEEEEECSSCEEEEEECTTSSCEEEECCSSSHHHHTTCSCSSSHHHHHHHHHHHHHHHHTTTCCCCEEEC---TTSCS
T ss_pred             CCEEEEEEeCCEEEEEEEEcCCCeEEEEEeeCchhhccccCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEec---CCCcc
Confidence            45677889999999999997665 4444444333343311 1345678899999999999999999766543   33332


Q ss_pred             cCCCCCh-HHHHHHHHhCCcE
Q 039298          138 KTPGPGA-QSALRALARSGMK  157 (197)
Q Consensus       138 KG~G~Gr-~~alraL~~~Glk  157 (197)
                          -|| +++..++...||+
T Consensus        99 ----hGrV~Ala~~are~Gl~  115 (116)
T 3r8s_O           99 ----HGRVQALADAAREAGLQ  115 (116)
T ss_dssp             ----SSHHHHHHHHHHHTTCC
T ss_pred             ----cHHHHHHHHHHHHhCCC
Confidence                144 3355666667765

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

Probab=96.11  E-value=0.042  Score=42.29  Aligned_cols=87  Identities=16%  Similarity=0.213  Sum_probs=61.2

Q ss_pred             eeEEEEEccCCCeEEEEEcCCCCeE-EEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCcc
Q 039298           60 FGVAHIFASFNDTFIHVTDLSGRET-LVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTK  138 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~G~~~-~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~K  138 (197)
                      ..-+-|+-|.+++...|.|..|..+ .+.|+--..++    .+.--||+.+++.++++|++.||+.+..-.   ||... 
T Consensus        23 rpRL~V~rSnkhiyAQiidd~~~~tlasAsT~e~~~k----~~n~~AA~~vG~llA~ra~~~GI~~vvfDr---gg~~y-   94 (112)
T 3v2d_S           23 RLRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK----GNKTEVARQVGRALAEKALALGIKQVAFDR---GPYKY-   94 (112)
T ss_dssp             CCEEEEEECSSCEEEEEEETTTTEEEEEEETTTTTCC----CCHHHHHHHHHHHHHHHHHTTTCCBCEEEC---TTSCS-
T ss_pred             CCEEEEEEeCCeEEEEEEecCCCeEEEEEEecchhcc----CCCHHHHHHHHHHHHHHHHHCCCCEEEEec---CCCcc-
Confidence            5677889999999999998776654 44444444443    344568899999999999999999764433   33333 


Q ss_pred             CCCCCh-HHHHHHHHhCCcE
Q 039298          139 TPGPGA-QSALRALARSGMK  157 (197)
Q Consensus       139 G~G~Gr-~~alraL~~~Glk  157 (197)
                        + || +++..++...||+
T Consensus        95 --h-GrV~Ala~~are~GL~  111 (112)
T 3v2d_S           95 --H-GRVKALAEGAREGGLE  111 (112)
T ss_dssp             --C-SSTTHHHHHHHHTTCB
T ss_pred             --c-HHHHHHHHHHHHcCCC
Confidence              1 33 4567777778875

>1vq8_N 50S ribosomal protein L18P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: c.55.4.1 PDB: 1vq4_N* 1vq5_N* 1vq6_N* 1vq7_N* 1s72_N* 1vq9_N* 1vqk_N* 1vql_N* 1vqm_N* 1vqn_N* 1vqo_N* 1vqp_N* 1yhq_N* 1yi2_N* 1yij_N* 1yit_N* 1yj9_N* 1yjn_N* 1yjw_N* 2otj_N* ...

Probab=95.60  E-value=0.11  Score=43.36  Aligned_cols=92  Identities=16%  Similarity=0.184  Sum_probs=62.3

Q ss_pred             eEEEEEccCCCeEEEEE--cCCCCeEEEEeec-cCcccCCC--CCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCC
Q 039298           61 GVAHIFASFNDTFIHVT--DLSGRETLVRITG-GMKVKADR--DESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGN  135 (197)
Q Consensus        61 gi~hI~ss~NNTiitlT--D~~G~~~~~~SsG-~~g~k~~r--rkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~  135 (197)
                      ..+-|+-|.+++++.|.  |..|..+++..+. -.. +.+-  ....--||..++..++++|++.||+.+..-.   ||.
T Consensus        33 pRL~V~rSnkhIyAQII~~dd~~~~tlasAsT~e~~-k~~~k~~~~N~~AA~~vG~llA~Ral~kGI~~vvfDr---gg~  108 (187)
T 1vq8_N           33 PRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLA-EYGWEAPTGNMPSAYLTGLLAGLRAQEAGVEEAVLDI---GLN  108 (187)
T ss_dssp             CEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGG-GGTCCSCSSSHHHHHHHHHHHHHHHHHTTCCBCEEEC---TTS
T ss_pred             CEEEEEEeCCcEEEEEEEecCCCCEEEEEEEccchh-ccccccCCCcHHHHHHHHHHHHHHHHHCCCCEEEEcC---CCc
Confidence            56778899999999999  7777755544333 222 2111  1355678899999999999999999864333   333


Q ss_pred             CccCCCCCh-HHHHHHHHhCCcEE
Q 039298          136 KTKTPGPGA-QSALRALARSGMKI  158 (197)
Q Consensus       136 ~~KG~G~Gr-~~alraL~~~GlkI  158 (197)
                      +.. .| || .+++++....||++
T Consensus       109 ~yh-~G-gRV~Ala~gAre~GL~f  130 (187)
T 1vq8_N          109 SPT-PG-SKVFAIQEGAIDAGLDI  130 (187)
T ss_dssp             CCC-TT-CHHHHHHHHHHHTTCBC
T ss_pred             eec-cc-hHHHHHHHHhhcCCEec
Confidence            321 11 34 56788888888875

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

Probab=94.98  E-value=0.055  Score=42.04  Aligned_cols=91  Identities=20%  Similarity=0.185  Sum_probs=60.0

Q ss_pred             eeEEEEEccCCCeEEEEEcCCCCeEEE-EeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCcc
Q 039298           60 FGVAHIFASFNDTFIHVTDLSGRETLV-RITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTK  138 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~G~~~~~-~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~K  138 (197)
                      ..-+-|+-|.++++..|.|..|..+++ .|+=-..++... ...--||+.+++.++++|++.||+.+.  + ..||... 
T Consensus        28 rpRL~V~rSnkhIyAQiidd~~~~tl~sAsT~e~~~~~~~-~~n~~AA~~vG~llA~Ral~~GI~~vv--f-Drgg~~y-  102 (120)
T 1ovy_A           28 RPRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLDS-TNNIEAAKKVGELVAKRALEKGIKQVV--F-DRGGYLY-  102 (120)
T ss_dssp             CCSEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTCSSC-TTSHHHHHHHHHHHHHHHHHHSSSCCC--C-CSTTCSS-
T ss_pred             CCEEEEEEeCCeEEEEEEEcCCCEEEEEEecCchhhCcCC-CCcHHHHHHHHHHHHHHHHHCCCCEEE--E-ecCCccc-
Confidence            446778899999999999887665444 444233344222 355778899999999999999999653  4 2344333 


Q ss_pred             CCCCChHHHHHHHHhCCcE
Q 039298          139 TPGPGAQSALRALARSGMK  157 (197)
Q Consensus       139 G~G~Gr~~alraL~~~Glk  157 (197)
                        +--=+++.++....|++
T Consensus       103 --hgrV~ala~~are~GL~  119 (120)
T 1ovy_A          103 --HGRVKALADAAREAGLE  119 (120)
T ss_dssp             --CSSTHHHHHHHHHHHCC
T ss_pred             --cHHHHHHHHHHHHhCCc
Confidence              22234566777666664

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

Probab=94.68  E-value=0.046  Score=46.08  Aligned_cols=90  Identities=16%  Similarity=0.176  Sum_probs=60.1

Q ss_pred             eEEEEEccCCCeEEEEEc--CCCCeEE-EEeeccCcccCC--CCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCC
Q 039298           61 GVAHIFASFNDTFIHVTD--LSGRETL-VRITGGMKVKAD--RDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGN  135 (197)
Q Consensus        61 gi~hI~ss~NNTiitlTD--~~G~~~~-~~SsG~~g~k~~--rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~  135 (197)
                      .-+-|+-|.+++++.|.|  ..|..++ +.|+--...+.+  .....--||+.++..++++|++.||+.+.+-.      
T Consensus        33 pRL~V~rSnkhIyAQIId~d~~g~~tLasAST~El~lk~g~~~~~~N~~AA~~vG~llA~Ral~kGI~~vvfDr------  106 (203)
T 3j21_O           33 PRLVVRKSLNHHIAQIIVYDPKGDRTLVSAHTRELIRDFGWKGHCGNTPSAYLLGLLIGYKAKQAGIEEAILDI------  106 (203)
T ss_dssp             CEEEEEECSSCEEEEEEECCTTSCEEEEEECSTTTSSSSSCCSCTTSHHHHHHHHHHSSSSTTSSCCCCCEEEC------
T ss_pred             CEEEEEEeCCeEEEEEEEecCCCCeEEEEEEccchhhhhcccCCCCcHHHHHHHHHHHHHHHHhCCCCEEEEec------
Confidence            566788999999999996  7755444 444433322211  11345678899999999999999999765444      


Q ss_pred             CccCCCC---Ch-HHHHHHHHhCCcEE
Q 039298          136 KTKTPGP---GA-QSALRALARSGMKI  158 (197)
Q Consensus       136 ~~KG~G~---Gr-~~alraL~~~GlkI  158 (197)
                        .|+=.   || .+++++....||+|
T Consensus       107 --gg~~y~~hgRV~Ala~gAre~GL~i  131 (203)
T 3j21_O          107 --GLHPPVRGSSVFAVLKGAVDAGLNV  131 (203)
T ss_dssp             --CSSCCCTTSHHHHHHHHHHHHTCCC
T ss_pred             --CcceeccCcchhhhhhhcccCCeec
Confidence              33333   44 45677777778764

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

Probab=93.31  E-value=0.042  Score=42.46  Aligned_cols=87  Identities=16%  Similarity=0.207  Sum_probs=57.0

Q ss_pred             eeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCccC
Q 039298           60 FGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKT  139 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~KG  139 (197)
                      ..-+-|+-|.++++..|.|..|..+++..+... + ++  ...--||+.+++.++++|++.||+.+..-.   ||.+.  
T Consensus        26 rpRL~V~rSnkhIyAQiidd~~~~tl~sAST~e-l-~~--~~n~~AA~~vG~llA~Ral~~GI~~vvfDr---gg~~y--   96 (114)
T 2zjr_L           26 RLRLSVYRSSKHIYAQIIDDSRGQTLAAASSAA-L-KS--GNKTDTAAAVGKALAAAAAEKGIKQVVFDR---GSYKY--   96 (114)
T ss_dssp             SEEECCCTTSSCCCCCEEETTTTEECCCCCSCS-C-CT--TCSSSSHHHHHHHHHHHHHTTCCCCCEECC---CSSCS--
T ss_pred             CCEEEEEEeCCeEEEEEEEcCCCEEEEEEEchH-h-cC--CCCHHHHHHHHHHHHHHHHHCCCCEEEEec---CCccc--
Confidence            346778899999999999888776654433332 3 21  233457888999999999999999765432   33332  


Q ss_pred             CCCCh-HHHHHHHHhCCcE
Q 039298          140 PGPGA-QSALRALARSGMK  157 (197)
Q Consensus       140 ~G~Gr-~~alraL~~~Glk  157 (197)
                        =|| +++.+++...|++
T Consensus        97 --hgrV~Ala~~are~GL~  113 (114)
T 2zjr_L           97 --HGRVKALADAAREGGLD  113 (114)
T ss_dssp             --CSHHHHHHHHHHHHC--
T ss_pred             --cHHHHHHHHHHHHhCCc
Confidence              233 4466777777775

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

Probab=92.89  E-value=0.087  Score=42.99  Aligned_cols=91  Identities=19%  Similarity=0.216  Sum_probs=59.6

Q ss_pred             eeEEEEEccCCCeEEEEEcCCCC-eEEEEeeccCcccCCC---CCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCC
Q 039298           60 FGVAHIFASFNDTFIHVTDLSGR-ETLVRITGGMKVKADR---DESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGN  135 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~G~-~~~~~SsG~~g~k~~r---rkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~  135 (197)
                      ...+-|+-|.+++...|.|..+. ++.+.|+=-..+++.-   ....--||..+++.++++|++.||+.+..-   .||.
T Consensus        65 rPRL~V~rSnkhIyAQvIdd~~g~tLasASTlek~lk~~l~~g~~~n~~AA~~VG~liAeRA~e~GI~~VvFD---Rgg~  141 (161)
T 3bbo_Q           65 RPRLCVFRSNKHLYVQVIDDSKMHTLASASTMQKSISEELDYSSSPTIEVAKKVGEVIASACLEKGITKVAFD---RGGY  141 (161)
T ss_dssp             CCCCEEEECSSCEEEEEECCTTSCEEEEEEHHHHHHHHCCTTCCSSSHHHHHHHHHHSSSHHHHTSSCCCCCC---CSSS
T ss_pred             CCEEEEEecCCeEEEEEEECCCCEEEEEEeCCcHHHHhhccccCCCCHHHHHHHHHHHHHHHHHCCCCEEEEe---CCCC
Confidence            45678899999999998876655 5555555222233211   145677899999999999999999986433   2332


Q ss_pred             CccCCCCCh-HHHHHHHHhCCcE
Q 039298          136 KTKTPGPGA-QSALRALARSGMK  157 (197)
Q Consensus       136 ~~KG~G~Gr-~~alraL~~~Glk  157 (197)
                      .-   + || +++..++...||+
T Consensus       142 ~Y---h-GRVkAladaaRe~GL~  160 (161)
T 3bbo_Q          142 PY---H-GRVKALADAAREKGLQ  160 (161)
T ss_dssp             CS---S-STTHHHHHHHTTTTCC
T ss_pred             cc---h-HHHHHHHHHHHHhCCc
Confidence            21   1 33 4556666667775

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

Probab=88.80  E-value=3.1  Score=36.85  Aligned_cols=93  Identities=17%  Similarity=0.116  Sum_probs=61.4

Q ss_pred             eeEEEEEccCCCeEEEEEcCC--CCeEEEEeecc-C---cccCCCCCCCHHHHHHHHHHHHHHHHHc-------------
Q 039298           60 FGVAHIFASFNDTFIHVTDLS--GRETLVRITGG-M---KVKADRDESSPYAAMLAAQDVSTRCKEL-------------  120 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~~--G~~~~~~SsG~-~---g~k~~rrkst~~Aa~~aa~~v~~k~~el-------------  120 (197)
                      ..-+-|+-|..++++.|.|..  |..+++..+.. .   |++.+  ....-||+.++.-+++++.+.             
T Consensus        48 kpRLvVrrSNk~I~aQII~~~~~gd~tLasAsS~El~kyg~k~g--~tN~aAAy~tGlLlArRal~k~~ld~~y~G~~e~  125 (297)
T 2zkr_n           48 KYRMIVRVTNRDIICQIAYARIEGDMIVCARYAHELPKYGVKVG--LTNYAAAYCTGLLLARRLLNRFGMDKIYEGQVEV  125 (297)
T ss_dssp             SEEEEEEEETTEEEEEEEECCSSSCEEEEEEEGGGGGGTCCCSC--SSSHHHHHHHHHHHHHHHHCCCSCCCCCSSCCSS
T ss_pred             CceEEEEEecCcEEEEEEeccCCCCEEEEEeecCcccccccccC--CCcHHHHHHHHHHHHHHHHHhhccchhhcCcccc
Confidence            356677889999999999977  77666554443 2   23322  244667899999999999987             


Q ss_pred             --------------CccEEEEEEEeeCCCCccCCCCChHHHHHHHHhCCcEE
Q 039298          121 --------------GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKI  158 (197)
Q Consensus       121 --------------Gi~~l~V~lr~~gg~~~KG~G~Gr~~alraL~~~GlkI  158 (197)
                                    |+..+.+-+   ||.++.. |--=.+++++....||+|
T Consensus       126 ~g~~~~ve~~~~~~gi~~vvfDr---Gl~rytt-ggRVfa~akGArDgGL~~  173 (297)
T 2zkr_n          126 TGDEYNVESIDGQPGAFTCYLDA---GLARTTT-GNKVFGALKGAVDGGLSI  173 (297)
T ss_dssp             SSCCCCCSSSCSSSCCCBEEEEC---TTSCCCT-TCHHHHHHHHHHHTTCBC
T ss_pred             ccccccccccccCCCceEEEEec---CCcccCC-CchHHHHHHHHHhcCccc
Confidence                          777665544   4443311 111245778888888764

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

Probab=82.84  E-value=8.4  Score=34.11  Aligned_cols=97  Identities=15%  Similarity=0.135  Sum_probs=60.2

Q ss_pred             eeEEEEEccCCCeEEEEEcC--CCCeEEEEeec-cCcccCC-CCCCCHHHHHHHHHHHHHHHHHc--------CccEE--
Q 039298           60 FGVAHIFASFNDTFIHVTDL--SGRETLVRITG-GMKVKAD-RDESSPYAAMLAAQDVSTRCKEL--------GITAL--  125 (197)
Q Consensus        60 ~gi~hI~ss~NNTiitlTD~--~G~~~~~~SsG-~~g~k~~-rrkst~~Aa~~aa~~v~~k~~el--------Gi~~l--  125 (197)
                      ..-+-|+-|..++++.|.|.  .|..+++..+. -....+- .....--||.+++..+|++|++.        |+..+  
T Consensus        48 kpRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~k~g~k~~~~N~~AAy~vG~LiAeRAl~k~~ld~~y~G~~e~~g  127 (297)
T 3u5e_D           48 KYRLVVRFTNKDIICQIISSTITGDVVLAAAYSHELPRYGITHGLTNWAAAYATGLLIARRTLQKLGLDETYKGVEEVEG  127 (297)
T ss_dssp             CCEEEEEEETTEEEEEEEECCTTCCEEEEEEEGGGGGGGTCCSCTTSHHHHHHHHHHHHHHHHHHTSTTSSCCCCSSCCC
T ss_pred             CceEEEEEcCCeEEEEEeecCCCCCEEEEEEeecchhhcccCCCCCcHHHHHHHHHHHHHHHHHhhCCcccccCcccccc
Confidence            44566778889999999997  57555544433 3321110 11245678899999999999987        77641  


Q ss_pred             ---------------EEEEEeeCCCCccCCCCChHHHHHHHHhCCcEE
Q 039298          126 ---------------HIKLRATGGNKTKTPGPGAQSALRALARSGMKI  158 (197)
Q Consensus       126 ---------------~V~lr~~gg~~~KG~G~Gr~~alraL~~~GlkI  158 (197)
                                     ...| ..|+.++ ..|--=.+|+++....||.|
T Consensus       128 ~~~~ve~~~~~~~~f~~~L-DvGl~rt-ttG~RVfaalKGA~DgGL~I  173 (297)
T 3u5e_D          128 EYELTEAVEDGPRPFKVFL-DIGLQRT-TTGARVFGALKGASDGGLYV  173 (297)
T ss_dssp             CCCCCCCCSSSCCCCBCEE-ECTTCCC-CTTCSHHHHHHHHHHHTCBC
T ss_pred             ceeccccccCCCCceeEEE-ecCCCcc-CccceehhhhhcccccCccc
Confidence                           1333 2344443 22333467889888888753

---

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	197
d2qalk1	117	c.55.4.1 (K:12-128) Ribosomal protein S11 {Escheri	2e-34
d2uubk1	119	c.55.4.1 (K:11-129) Ribosomal protein S11 {Thermus	3e-31

>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 =  116 bits (292), Expect = 2e-34
 Identities = 47/133 (35%), Positives = 63/133 (47%), Gaps = 23/133 (17%)

Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           GVAHI ASFN+T + +TD  G        GG        +S+P+AA +AA+  +   KE 
Sbjct: 7   GVAHIHASFNNTIVTITDRQGNALGWATAGGS-GFRGSRKSTPFAAQVAAERCADAVKEY 65

Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
           GI  L + +        K PGPG +S +RAL  +G +I  I               DVTP
Sbjct: 66  GIKNLEVMV--------KGPGPGRESTIRALNAAGFRITNI--------------TDVTP 103

Query: 181 IPTDSTRRKGGRR 193
           IP +  R    RR
Sbjct: 104 IPHNGCRPPKKRR 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 =  108 bits (271), Expect = 3e-31
 Identities = 38/133 (28%), Positives = 61/133 (45%), Gaps = 23/133 (17%)

Query: 61  GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKEL 120
           G A+I AS+N+T + +TD  G       +GG+       + +PYAA LAA D + +    
Sbjct: 7   GRAYIHASYNNTIVTITDPDGNPITWS-SGGVIGYKGSRKGTPYAAQLAALDAAKKAMAY 65

Query: 121 GITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTP 180
           G+ ++ + +R          G G + A+RAL  SG+++  I               D TP
Sbjct: 66  GMQSVDVIVRG--------TGAGREQAIRALQASGLQVKSI--------------VDDTP 103

Query: 181 IPTDSTRRKGGRR 193
           +P +  R K   R
Sbjct: 104 VPHNGCRPKKKFR 116

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	197
d2uubk1	119	Ribosomal protein S11 {Thermus thermophilus [TaxId	100.0
d2qalk1	117	Ribosomal protein S11 {Escherichia coli [TaxId: 56	100.0
d1vqon1	186	Ribosomal protein L18 (L18p) {Archaeon Haloarcula	96.7
d1ovya_	97	Ribosomal protein L18 (L18p) {Bacillus stearotherm	95.65
d2gycm1	113	Ribosomal protein L18 (L18p) {Escherichia coli [Ta	95.18
d2j01s1	86	Ribosomal protein L18 (L18p) {Thermus thermophilus	94.09
d2zjrl1	104	Ribosomal protein L18 (L18p) {Deinococcus radiodur	86.48

>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=1.5e-46  Score=292.57  Aligned_cols=116  Identities=33%  Similarity=0.511  Sum_probs=112.3

Q ss_pred             CceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCC
Q 039298           56 GEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGN  135 (197)
Q Consensus        56 ~~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~  135 (197)
                      +++..|++||++|+|||||||||++||++.|+|+|.+|||+.+ |+||||||++|+.++++++++||+.|+|++      
T Consensus         2 ~~~~~GivhI~~t~NNT~itlTD~~Gn~i~~~S~G~~gfkg~r-k~t~~Aa~~~a~~~~~k~~~~g~~~v~v~~------   74 (119)
T d2uubk1           2 RQVASGRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGSR-KGTPYAAQLAALDAAKKAMAYGMQSVDVIV------   74 (119)
T ss_dssp             CCCSEEEEEEEECSSCEEEEEECTTSCEEEEEETTTSSCCSGG-GGSHHHHHHHHHHHHHHHHTTTCCEEEEEE------
T ss_pred             ccccccEEEEEeccCCEEEEEECCCCCEEEEEecccceecccc-ccchhHHHHHHHHHHHHHHHcCCcEEEEEE------
Confidence            4577899999999999999999999999999999999999888 899999999999999999999999999999      


Q ss_pred             CccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCC
Q 039298          136 KTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRG  194 (197)
Q Consensus       136 ~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~  194 (197)
                        +|+|+||++++|+|+.+|++|.+|              +|+||+|||||||||+||+
T Consensus        75 --kG~G~gR~~~ik~l~~~g~kI~~I--------------~D~T~iphnGcRp~K~RRk  117 (119)
T d2uubk1          75 --RGTGAGREQAIRALQASGLQVKSI--------------VDDTPVPHNGCRPKKKFRK  117 (119)
T ss_dssp             --ECCCTTHHHHHHHHHTSSSEEEEC--------------EECCCCCSSCSCCCGGGCC
T ss_pred             --EcCCCChHHHHHHHHHCCCEEEEE--------------EECCCCCCCCCCCCCCCCC
Confidence              999999999999999999999999              9999999999999999996

>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=1.4e-46  Score=292.12  Aligned_cols=116  Identities=41%  Similarity=0.647  Sum_probs=112.5

Q ss_pred             CceeeeEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCC
Q 039298           56 GEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGN  135 (197)
Q Consensus        56 ~~~~~gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~  135 (197)
                      +++..||+||++|+|||||||||++|+++.|.|+|.+|||+.+ |+||||||+||+.++++++++||+.|+|++      
T Consensus         2 ~~~~~Gi~hI~~t~NNTiitlTD~~G~~~~~~S~G~~gfkg~~-K~t~~Aa~~~a~~~~~~~~~~gi~~v~V~~------   74 (117)
T d2qalk1           2 KQVSDGVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSR-KSTPFAAQVAAERCADAVKEYGIKNLEVMV------   74 (117)
T ss_dssp             CCCCEEEEEEECCSSCCEEEEEETTSCEEEEEETTTSSCCHHH-HTSHHHHHHHHHHHHHHHGGGTCCEEEEEE------
T ss_pred             ccccceEEEEEecCCCEEEEEECCCCCEEEEEecccccccccc-ccchHHHHHHHHHHHHHHHHcCCcEEEEEE------
Confidence            4677899999999999999999999999999999999999998 899999999999999999999999999999      


Q ss_pred             CccCCCCChHHHHHHHHhCCcEEEEEecccceeccccccccccCCCCCCCCCCCCCCCC
Q 039298          136 KTKTPGPGAQSALRALARSGMKIGRIDLEGLLILGLYYISEDVTPIPTDSTRRKGGRRG  194 (197)
Q Consensus       136 ~~KG~G~Gr~~alraL~~~GlkI~~I~~~~~~~~~l~~~~~DvTpiPhnGcR~kK~RR~  194 (197)
                        +|+|+||++|+|+|+.+|++|.+|              +|+||+|||||||||+||.
T Consensus        75 --kG~G~GR~~air~l~~~gl~I~~I--------------~D~TpiphnGcRp~K~RRv  117 (117)
T d2qalk1          75 --KGPGPGRESTIRALNAAGFRITNI--------------TDVTPIPHNGCRPPKKRRV  117 (117)
T ss_dssp             --ECCSTTTTHHHHHHHHTTCEEEEE--------------EECCCCCSSCSCCCCCCCC
T ss_pred             --eCCCCchHHHHHHHHhCCCEEEEE--------------EECCCCCCCCCCCCCCCCC
Confidence              999999999999999999999999              9999999999999999984

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

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

Probab=96.70  E-value=0.0066  Score=48.58  Aligned_cols=90  Identities=16%  Similarity=0.162  Sum_probs=63.1

Q ss_pred             eEEEEEccCCCeEEEEE--cCCCCeEEEEeeccC-c---ccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCC
Q 039298           61 GVAHIFASFNDTFIHVT--DLSGRETLVRITGGM-K---VKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGG  134 (197)
Q Consensus        61 gi~hI~ss~NNTiitlT--D~~G~~~~~~SsG~~-g---~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg  134 (197)
                      .-+-|+-|.+|+++.|.  |..|..++++++... .   .+.+.  ..--||+.++..++++|++.||+.+.+-+ |.  
T Consensus        32 pRLvVrrSNk~IyaQII~~d~~gd~vlaSAsS~el~k~g~k~~~--~N~~AAy~~G~liA~ra~~~gi~~vvfD~-G~--  106 (186)
T d1vqon1          32 PRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLAEYGWEAPT--GNMPSAYLTGLLAGLRAQEAGVEEAVLDI-GL--  106 (186)
T ss_dssp             CEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGGGGSCCSCS--SSHHHHHHHHHHHHHHHHHTTCCBCEEEC-TT--
T ss_pred             CeEEEEEeCCceEEEEEEecCCCCEEEEEEecchhhhhccccCc--cHHHHHHHhHHHHHHHHHhhcccceEEee-CC--
Confidence            46678899999999999  677776665555442 2   22222  34567899999999999999999877764 10  


Q ss_pred             CCccCCCC-Ch-HHHHHHHHhCCcEE
Q 039298          135 NKTKTPGP-GA-QSALRALARSGMKI  158 (197)
Q Consensus       135 ~~~KG~G~-Gr-~~alraL~~~GlkI  158 (197)
                         .|+=. || .+++++...+||+|
T Consensus       107 ---~~~~yhgRV~A~akgard~GL~I  129 (186)
T d1vqon1         107 ---NSPTPGSKVFAIQEGAIDAGLDI  129 (186)
T ss_dssp             ---SCCCTTCHHHHHHHHHHHTTCBC
T ss_pred             ---CCCCccchHHHHHHHHHhcCccC
Confidence               23333 33 45778888889875

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

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

Probab=95.65  E-value=0.013  Score=42.08  Aligned_cols=88  Identities=19%  Similarity=0.215  Sum_probs=56.6

Q ss_pred             EEEEEccCCCeEEEEEcCC-CCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEEEeeCCCCccCC
Q 039298           62 VAHIFASFNDTFIHVTDLS-GRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKLRATGGNKTKTP  140 (197)
Q Consensus        62 i~hI~ss~NNTiitlTD~~-G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~lr~~gg~~~KG~  140 (197)
                      -+-|+-|.+|+.+.|.|.. |.++.+.|+=.--++... ...--||..+++.+++++++.||+.+  .+ ..||.+-   
T Consensus         7 RL~V~kSnkhiyaQlIdd~~~~tl~s~St~~k~~~~~~-~~n~~aA~~vG~~~a~kak~~gi~~v--vf-Dr~g~~y---   79 (97)
T d1ovya_           7 RLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGLDS-TNNIEAAKKVGELVAKRALEKGIKQV--VF-DRGGYLY---   79 (97)
T ss_dssp             SEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTCSSC-TTSHHHHHHHHHHHHHHHHHHSSSCC--CC-CSTTCSS---
T ss_pred             EEEEEEeCCeEEEEEEEcCCCeEEEEecchhhhhcccc-cCcHHHHHHHHHHHHHHHHHcCCCEE--EE-cCCCCcc---
Confidence            4567889999999999775 555544444333333333 34567899999999999999999955  44 2333322   


Q ss_pred             CCCh-HHHHHHHHhCCcE
Q 039298          141 GPGA-QSALRALARSGMK  157 (197)
Q Consensus       141 G~Gr-~~alraL~~~Glk  157 (197)
                       =|| .++..++...||+
T Consensus        80 -hGrvka~a~~~R~~Gl~   96 (97)
T d1ovya_          80 -HGRVKALADAAREAGLE   96 (97)
T ss_dssp             -CSSTHHHHHHHHHHHCC
T ss_pred             -hHHHHHHHHHHHHhCCC
Confidence             133 3455666666664

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

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

Probab=95.18  E-value=0.037  Score=40.73  Aligned_cols=65  Identities=18%  Similarity=0.177  Sum_probs=47.0

Q ss_pred             eEEEEEccCCCeEEEEEcCCCCeEEEEeecc-CcccCCC-CCCCHHHHHHHHHHHHHHHHHcCccEE
Q 039298           61 GVAHIFASFNDTFIHVTDLSGRETLVRITGG-MKVKADR-DESSPYAAMLAAQDVSTRCKELGITAL  125 (197)
Q Consensus        61 gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~-~g~k~~r-rkst~~Aa~~aa~~v~~k~~elGi~~l  125 (197)
                      .-+-|+-|.+|..+.|.|..+..+++.+|-. ..+++.- ..+.-.||..+++.++++|++.||+.+
T Consensus        22 pRL~V~rSnkhiyaQiIdd~~~~tl~saST~~k~~~~~~~~~~n~~aA~~vG~~la~ra~~~gI~~v   88 (113)
T d2gycm1          22 TRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAVAERALEKGIKDV   88 (113)
T ss_dssp             CCCBEEECSSCEEEEEEETTTTEEEEEEETTGGGGTSCCSCSSSHHHHHHHHHHHHHHHHHHTCCCC
T ss_pred             CeEEEEEeCCcEEEEEEEccCCcEEEEeeehhhhhhhhcCCCcchHHHHHHHHHHHHHHHHCCCCEE
Confidence            3556788999999999887766555544433 3344322 234567889999999999999999975

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

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

Probab=94.09  E-value=0.052  Score=38.15  Aligned_cols=61  Identities=16%  Similarity=0.211  Sum_probs=44.3

Q ss_pred             EEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEE
Q 039298           62 VAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITAL  125 (197)
Q Consensus        62 i~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l  125 (197)
                      -+-|+-|.+|..+.+.|...+.++..++.. .  +..+....-||..+++.++++++++||+.|
T Consensus         3 RL~V~rSnk~iyaQiIDd~~~~tl~s~St~-~--k~~k~~~~~~A~~vG~~la~~ak~~gI~~v   63 (86)
T d2j01s1           3 RLSVFRSLKHIYAQIIDDEKGVTLVSASSL-A--LKLKGNKTEVARQVGRALAEKALALGIKQV   63 (86)
T ss_dssp             EEECCBCSSCBCEEEEETTTTEEEEEECST-T--TCCCSCHHHHHHHHHHHHHHHHHHTSCCCC
T ss_pred             EEEEEEcCCeEEEEEEEcCCCeEEEEEecc-c--hhhcCCCHHHHHHHHHHHHHHHHHCCCCEE
Confidence            356788899999999887766655544432 1  122234567889999999999999999965

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

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

Probab=86.48  E-value=0.081  Score=38.20  Aligned_cols=63  Identities=16%  Similarity=0.215  Sum_probs=45.9

Q ss_pred             eEEEEEccCCCeEEEEEcCCCCeEEEEeeccCcccCCCCCCCHHHHHHHHHHHHHHHHHcCccEEEEEE
Q 039298           61 GVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLAAQDVSTRCKELGITALHIKL  129 (197)
Q Consensus        61 gi~hI~ss~NNTiitlTD~~G~~~~~~SsG~~g~k~~rrkst~~Aa~~aa~~v~~k~~elGi~~l~V~l  129 (197)
                      .-+.|+-|.+|....|.|..+..+++.++. ...+.+.   ..-+|..+++.+++++++.||+.|  .+
T Consensus        20 pRL~V~rSnkhiyaQiIDd~~~~tl~s~St-~~~~~~~---~~~~a~~vG~~ia~~a~~kgi~~v--~F   82 (104)
T d2zjrl1          20 LRLSVYRSSKHIYAQIIDDSRGQTLAAASS-AALKSGN---KTDTAAAVGKALAAAAAEKGIKQV--VF   82 (104)
T ss_dssp             EEECCCTTSSCCCCCEEETTTTEECCCCCS-CSCCTTC---SSSSHHHHHHHHHHHHHTTCCCCC--EE
T ss_pred             cEEEEEEccCeeEEEEEecCCCeEEEeecc-ccccccc---hhhHHHHHHHHHHHHHHHCCCCEE--EE
Confidence            567789999999999999887776655443 3333322   234566689999999999999965  55