Citrus Sinensis ID: 032281

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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----
Protein Sequence
MAEQTEKAFLKQPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Secondary Structure (PSIPRED)
cHHHHHHHHHccccccccEEEEEEccccccccccccccccccccccccccEEEcEEEEEEEEEcccccEEEEEEEEEEEEccccEEEEEEEEEEEEcccccccccccEEEEcEEccccccEEEEEEEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHccccccccEEEEEccccccccHHHccccEEccccccccEEEEEEEEEEEEEEEcccccEEEEEHHHHHHHHHHHHHHHHcccccccccccEEEEcccEEEEEEEcccccEEEEEEEEEEccccccccccccccc
Coil and Loop (DISEMBL)
MAEQTEKaflkqpgkggnrfwksiglgfktpreaiegtyidkkcpftgtvsirgrilagtchsakmNRTIIVRRNYLHFVKKYQRYEkrhsnipahispcfrvkegdhviigqcrplsktvrfnvlkvipagssggaKKAFTAM
Flexible Loop (DISEMBL)
MAEQTEkaflkqpgkggnrfwKSIGLGFKTPREAIEgtyidkkcpftgtVSIRGRILagtchsakmnrtiivRRNYLHFVKKYQRyekrhsnipahispcfrvKEGDHVIIGQcrplsktvrFNVLkvipagssggakkaftam
Low Complexity Region (SEG)
MAEQTEKAFLKQPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Disordered region (IsUnstruct)
*****************NRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIP**************
Disordered Region (DISOPRED)
***QTEKAFLKQPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKV*********KKAFTAM
Disordered Region (DISEMBL)
**********KQPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Disordered Region (DISPRO)
*****EKAFLKQPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPA*************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MAEQTEKAFLKQPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
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	144	2.2.26 [Sep-21-2011]
Q9M5M1	159	40S ribosomal protein S11	N/A	no	1.0	0.905	0.874	1e-73
P17093	159	40S ribosomal protein S11	yes	no	1.0	0.905	0.874	9e-73
P42733	159	40S ribosomal protein S11	yes	no	1.0	0.905	0.830	2e-69
P16181	160	40S ribosomal protein S11	no	no	1.0	0.9	0.825	8e-69
O65569	159	40S ribosomal protein S11	no	no	1.0	0.905	0.823	2e-68
P25460	159	40S ribosomal protein S11	N/A	no	0.993	0.899	0.867	1e-67
P42756	157	40S ribosomal protein S11	N/A	no	0.986	0.904	0.672	1e-56
Q54S90	155	40S ribosomal protein S11	yes	no	0.979	0.909	0.632	1e-49
P41115	158	40S ribosomal protein S11	N/A	no	0.958	0.873	0.594	5e-47
P0CX48	156	40S ribosomal protein S11	yes	no	0.965	0.891	0.589	8e-47

>sp|Q9M5M1|RS11_EUPES 40S ribosomal protein S11 OS=Euphorbia esula GN=RPS11 PE=2 SV=1

 Score =  274 bits (701), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 139/159 (87%), Positives = 143/159 (89%), Gaps = 15/159 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWKSIGLGFKTPREAI+GTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLASKKTGKGKRPGKGGNRFWKSIGLGFKTPREAIDGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPAH+SPCFRVKE
Sbjct: 61  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPAHVSPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
           GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGG KKAFTA+
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGVKKAFTAI 159

Euphorbia esula (taxid: 3993)

>sp|P17093|RS11_SOYBN 40S ribosomal protein S11 OS=Glycine max GN=RPS11 PE=2 SV=2

 Score =  271 bits (693), Expect = 9e-73,   Method: Compositional matrix adjust.
 Identities = 139/159 (87%), Positives = 140/159 (88%), Gaps = 15/159 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLSTKKTGKGKRPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTG VSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPAHISP FRVKE
Sbjct: 61  FTGNVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPAHISPAFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
           GDHVIIGQCRPLSKTVRFNVLKVIPAGSS GAKKAFT M
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSSGAKKAFTGM 159

Glycine max (taxid: 3847)

>sp|P42733|RS113_ARATH 40S ribosomal protein S11-3 OS=Arabidopsis thaliana GN=RPS11C PE=2 SV=2

 Score =  260 bits (664), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 132/159 (83%), Positives = 137/159 (86%), Gaps = 15/159 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWK+IGLGFKTPREAI+G YID KCP
Sbjct: 1   MAEQTEKAFLKQPKVFLSSKISGKGKRPGKGGNRFWKNIGLGFKTPREAIDGAYIDSKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRILAGTCHSAKM RTIIVRRNYLHFVKKYQRYEKRHSNIPAH+SPCFRVKE
Sbjct: 61  FTGTVSIRGRILAGTCHSAKMQRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
           GDHVIIGQCRPLSKTVRFNVLKVIPAG+S   KKAFT +
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGASAFGKKAFTGV 159

Arabidopsis thaliana (taxid: 3702)

>sp|P16181|RS111_ARATH 40S ribosomal protein S11-1 OS=Arabidopsis thaliana GN=RPS11A PE=2 SV=1

 Score =  258 bits (659), Expect = 8e-69,   Method: Compositional matrix adjust.
 Identities = 132/160 (82%), Positives = 138/160 (86%), Gaps = 16/160 (10%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWK+IGLGFKTPREAI+G Y+DKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLSSKKSGKGKRPGKGGNRFWKNIGLGFKTPREAIDGAYVDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRILAGTCHSAKM RTIIVRR+YLHFVKKYQRYEKRHSNIPAH+SPCFRVKE
Sbjct: 61  FTGTVSIRGRILAGTCHSAKMQRTIIVRRDYLHFVKKYQRYEKRHSNIPAHVSPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGG-AKKAFTAM 144
           GDH+IIGQCRPLSKTVRFNVLKVIPAGSS    KKAFT M
Sbjct: 121 GDHIIIGQCRPLSKTVRFNVLKVIPAGSSSSFGKKAFTGM 160

Arabidopsis thaliana (taxid: 3702)

>sp|O65569|RS112_ARATH 40S ribosomal protein S11-2 OS=Arabidopsis thaliana GN=RPS11B PE=2 SV=2

 Score =  256 bits (655), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 131/159 (82%), Positives = 137/159 (86%), Gaps = 15/159 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWK+IGLGFKTPREAIEGTYID+KCP
Sbjct: 1   MAEQTEKAFLKQPKVFLSSKKSGKGKRPGKGGNRFWKNIGLGFKTPREAIEGTYIDQKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRIL+GTCHSAKM RTIIVRR+YLHFVKKY+RYEKRHSNIPAH+SPCFRVKE
Sbjct: 61  FTGTVSIRGRILSGTCHSAKMQRTIIVRRDYLHFVKKYRRYEKRHSNIPAHVSPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
           GD V IGQCRPLSKTVRFNVLKVIPAGSS   KKAFT M
Sbjct: 121 GDRVTIGQCRPLSKTVRFNVLKVIPAGSSSIGKKAFTGM 159

Arabidopsis thaliana (taxid: 3702)

>sp|P25460|RS11_MAIZE 40S ribosomal protein S11 OS=Zea mays GN=RPS11 PE=2 SV=1

 Score =  254 bits (648), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 137/158 (86%), Positives = 140/158 (88%), Gaps = 15/158 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLSSKKSGKGKKPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE
Sbjct: 61  FTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTA 143
           GDHVIIGQCRPLSKTVRFNV+KVIPAGS+   KKAFTA
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVVKVIPAGSAAAGKKAFTA 158

Zea mays (taxid: 4577)

>sp|P42756|RS11_DUNTE 40S ribosomal protein S11 OS=Dunaliella tertiolecta GN=RPS11 PE=2 SV=1

 Score =  218 bits (554), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 107/159 (67%), Positives = 127/159 (79%), Gaps = 17/159 (10%)

Query: 1   MAEQTEKAFLKQ--------------PGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPF 46
           MAEQTEKAF KQ              PGK G+RF+K++GL FKTP+EAI+G Y+DKKCPF
Sbjct: 1   MAEQTEKAFQKQVGVTGCFKSKEKKAPGKSGHRFFKNVGLNFKTPKEAIDGNYVDKKCPF 60

Query: 47  TGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEG 106
           TG VSIRGRIL G   S+KM RTIIVRR+YLHF+ KY RYEKRH+NIPAH+SPCFRV++G
Sbjct: 61  TGNVSIRGRILTGVVKSSKMMRTIIVRRDYLHFIPKYARYEKRHTNIPAHVSPCFRVRDG 120

Query: 107 DHVIIGQCRPLSKTVRFNVLKVIP-AGSSGGAKKAFTAM 144
           D VIIGQCRPLSKT+RFNVL+VIP AG++G  KK+F+  
Sbjct: 121 DTVIIGQCRPLSKTIRFNVLRVIPQAGATG--KKSFSGF 157

Dunaliella tertiolecta (taxid: 3047)

>sp|Q54S90|RS11_DICDI 40S ribosomal protein S11 OS=Dictyostelium discoideum GN=rps11 PE=1 SV=1

 Score =  194 bits (493), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 98/155 (63%), Positives = 115/155 (74%), Gaps = 14/155 (9%)

Query: 1   MAE-QTEKAFLKQP-------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPF 46
           MA+ Q EKAF KQ              GK G R++K+IGLG++TP++AIEGTYIDKKCPF
Sbjct: 1   MADIQAEKAFQKQQVSFKNRFQLKASKGKEGIRYYKNIGLGYRTPKDAIEGTYIDKKCPF 60

Query: 47  TGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEG 106
           T  VSIRG IL GT  S KM RT++VRRNYLH++KKY R+EKRHSNIPAH+SP F VKEG
Sbjct: 61  TSDVSIRGAILRGTVISTKMRRTLVVRRNYLHYIKKYNRFEKRHSNIPAHVSPAFNVKEG 120

Query: 107 DHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
           D V IGQCRPLSKTVRFNV+K   + +S    KAF
Sbjct: 121 DSVTIGQCRPLSKTVRFNVIKHDISAASKKQFKAF 155

Dictyostelium discoideum (taxid: 44689)

>sp|P41115|RS11_XENLA 40S ribosomal protein S11 OS=Xenopus laevis GN=rps11 PE=2 SV=1

 Score =  186 bits (471), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 94/158 (59%), Positives = 116/158 (73%), Gaps = 20/158 (12%)

Query: 1   MAE-QTEKAFLKQP-----------GKGGN----RFWKSIGLGFKTPREAIEGTYIDKKC 44
           MA+ QTE+A+ KQP           G+ G     R+++S+GLGFKTPREAI+GTYIDKKC
Sbjct: 1   MADIQTERAYQKQPTIFQNKKRVLEGETGKEKLPRYYRSVGLGFKTPREAIDGTYIDKKC 60

Query: 45  PFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFR-V 103
           PFTG VSIRGRIL+G     KM RTI++RR+YLH+++KY R+EKRH N+  H+SPCFR V
Sbjct: 61  PFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDV 120

Query: 104 KEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
           + GD V +G+CRPLSKTVRFNVLKV  A    G KK F
Sbjct: 121 QVGDTVTVGECRPLSKTVRFNVLKVTKA---AGTKKQF 155

Xenopus laevis (taxid: 8355)

>sp|P0CX48|RS11B_YEAST 40S ribosomal protein S11-B OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPS11B PE=1 SV=1

 Score =  185 bits (469), Expect = 8e-47,   Method: Compositional matrix adjust.
 Identities = 89/151 (58%), Positives = 112/151 (74%), Gaps = 12/151 (7%)

Query: 1   MAEQTEKAFLKQP----------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTV 50
           +  Q+E+AF KQP           K   R++K+ GLGFKTP+ AIEG+YIDKKCPFTG V
Sbjct: 5   LTVQSERAFQKQPHIFNNPKVKTSKRTKRWYKNAGLGFKTPKTAIEGSYIDKKCPFTGLV 64

Query: 51  SIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI 110
           SIRG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H+SP FRV+ GD V 
Sbjct: 65  SIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVT 124

Query: 111 IGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
           +GQCRP+SKTVRFNV+KV  + ++G A K F
Sbjct: 125 VGQCRPISKTVRFNVVKV--SAAAGKANKQF 153

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

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	144
255571087	159	40S ribosomal protein S11, putative [Ric	1.0	0.905	0.899	2e-73
414586503	571	TPA: 40S ribosomal protein S11 [Zea mays	0.993	0.250	0.861	1e-72
242065758	160	hypothetical protein SORBIDRAFT_04g02587	0.993	0.893	0.874	2e-72
326497551	159	predicted protein [Hordeum vulgare subsp	0.993	0.899	0.841	5e-72
62287477	159	RecName: Full=40S ribosomal protein S11	1.0	0.905	0.874	7e-72
224063643	159	predicted protein [Populus trichocarpa]	1.0	0.905	0.867	2e-71
195626802	160	40S ribosomal protein S11 [Zea mays]	0.993	0.893	0.855	2e-71
226506626	160	40S ribosomal protein S11 [Zea mays] gi|	0.993	0.893	0.855	3e-71
326496288	159	predicted protein [Hordeum vulgare subsp	0.993	0.899	0.835	5e-71
351721866	159	40S ribosomal protein S11 [Glycine max]	1.0	0.905	0.874	6e-71

>gi|255571087|ref|XP_002526494.1| 40S ribosomal protein S11, putative [Ricinus communis] gi|223534169|gb|EEF35885.1| 40S ribosomal protein S11, putative [Ricinus communis]

 Score =  280 bits (715), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 143/159 (89%), Positives = 144/159 (90%), Gaps = 15/159 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLSSKKTGKGKRPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPAHISPCFRVKE
Sbjct: 61  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPAHISPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
           GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 159

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414586503|tpg|DAA37074.1| TPA: 40S ribosomal protein S11 [Zea mays]

 Score =  277 bits (708), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 137/159 (86%), Positives = 141/159 (88%), Gaps = 16/159 (10%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTE+AFLKQP               GKGGNRFWK+IGLGFKTPREAIEGTYIDKKCP
Sbjct: 412 MAEQTERAFLKQPKVFLCSKKATKVNKPGKGGNRFWKNIGLGFKTPREAIEGTYIDKKCP 471

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE
Sbjct: 472 FTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 531

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGS-SGGAKKAFTA 143
           GDHVIIGQCRP+SKTVRFNVLKVIPAGS SG  KKAFTA
Sbjct: 532 GDHVIIGQCRPVSKTVRFNVLKVIPAGSKSGAVKKAFTA 570

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242065758|ref|XP_002454168.1| hypothetical protein SORBIDRAFT_04g025870 [Sorghum bicolor] gi|242076386|ref|XP_002448129.1| hypothetical protein SORBIDRAFT_06g021750 [Sorghum bicolor] gi|241933999|gb|EES07144.1| hypothetical protein SORBIDRAFT_04g025870 [Sorghum bicolor] gi|241939312|gb|EES12457.1| hypothetical protein SORBIDRAFT_06g021750 [Sorghum bicolor]

 Score =  276 bits (707), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 139/159 (87%), Positives = 141/159 (88%), Gaps = 16/159 (10%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWK+IGLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLCSKKAAKGNKPGKGGNRFWKNIGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE
Sbjct: 61  FTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGS-SGGAKKAFTA 143
           GDHVIIGQCRPLSKTVRFNVLKVIPAGS SG  KKAFTA
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSKSGAVKKAFTA 159

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326497551|dbj|BAK05865.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  275 bits (703), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 133/158 (84%), Positives = 140/158 (88%), Gaps = 15/158 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEK+FLKQP               GK GNRFWKS+GLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTEKSFLKQPKVFLSTKKADKAKRPGKAGNRFWKSVGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTV+IRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE
Sbjct: 61  FTGTVAIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTA 143
           GDHVIIGQCRPLSKTVRFNVLKV+PAG++GG KKAF A
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVVPAGTTGGGKKAFIA 158

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|62287477|sp|Q9M5M1.1|RS11_EUPES RecName: Full=40S ribosomal protein S11 gi|6984142|gb|AAF34771.1|AF227626_1 40S ribosomal protein S11 [Euphorbia esula]

 Score =  274 bits (701), Expect = 7e-72,   Method: Compositional matrix adjust.
 Identities = 139/159 (87%), Positives = 143/159 (89%), Gaps = 15/159 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWKSIGLGFKTPREAI+GTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLASKKTGKGKRPGKGGNRFWKSIGLGFKTPREAIDGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPAH+SPCFRVKE
Sbjct: 61  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPAHVSPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
           GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGG KKAFTA+
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGVKKAFTAI 159

Source: Euphorbia esula

Species: Euphorbia esula

Genus: Euphorbia

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224063643|ref|XP_002301243.1| predicted protein [Populus trichocarpa] gi|118484152|gb|ABK93959.1| unknown [Populus trichocarpa] gi|118485320|gb|ABK94519.1| unknown [Populus trichocarpa] gi|222842969|gb|EEE80516.1| predicted protein [Populus trichocarpa]

 Score =  273 bits (698), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 138/159 (86%), Positives = 143/159 (89%), Gaps = 15/159 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWKSIGLGFKTPR+AIEGTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPRVFLSSKKSGKGKRPGKGGNRFWKSIGLGFKTPRDAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVS+RGRILAGTCHSAKMNRTIIVRRNYLH+VKKYQRYEKRHSNIPAHISPCFR++E
Sbjct: 61  FTGTVSVRGRILAGTCHSAKMNRTIIVRRNYLHWVKKYQRYEKRHSNIPAHISPCFRIRE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
           GDHV IGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Sbjct: 121 GDHVTIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 159

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|195626802|gb|ACG35231.1| 40S ribosomal protein S11 [Zea mays]

 Score =  273 bits (698), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 136/159 (85%), Positives = 141/159 (88%), Gaps = 16/159 (10%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTE+AFLKQP               GKGGNRFWK+IGLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTERAFLKQPKVFLCSKKATKVNKPGKGGNRFWKNIGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE
Sbjct: 61  FTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGS-SGGAKKAFTA 143
           GDHVIIGQCRP+SKTVRFNV+KVIPAGS SG  KKAFTA
Sbjct: 121 GDHVIIGQCRPVSKTVRFNVVKVIPAGSKSGAVKKAFTA 159

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226506626|ref|NP_001146950.1| 40S ribosomal protein S11 [Zea mays] gi|195605736|gb|ACG24698.1| 40S ribosomal protein S11 [Zea mays]

 Score =  272 bits (696), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 136/159 (85%), Positives = 141/159 (88%), Gaps = 16/159 (10%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTE+AFLKQP               GKGGNRFWK+IGLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTERAFLKQPKVFLCSKKASKGNKPGKGGNRFWKNIGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE
Sbjct: 61  FTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGS-SGGAKKAFTA 143
           GDHVIIGQCRP+SKTVRFNV+KVIPAGS SG  KKAFTA
Sbjct: 121 GDHVIIGQCRPVSKTVRFNVVKVIPAGSKSGAVKKAFTA 159

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326496288|dbj|BAJ94606.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  271 bits (694), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 132/158 (83%), Positives = 139/158 (87%), Gaps = 15/158 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEK+FLKQP               GK GNRFWKS+GLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTEKSFLKQPKVFLSTKKADKAKRPGKAGNRFWKSVGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTV+IRGRI+AGT HSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE
Sbjct: 61  FTGTVAIRGRIIAGTYHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTA 143
           GDHVIIGQCRPLSKTVRFNVLKV+PAG++GG KKAF A
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVVPAGTTGGGKKAFIA 158

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351721866|ref|NP_001236968.1| 40S ribosomal protein S11 [Glycine max] gi|1173223|sp|P17093.2|RS11_SOYBN RecName: Full=40S ribosomal protein S11 gi|454848|gb|AAC14469.1| ribosomal protein S11 [Glycine max] gi|255625845|gb|ACU13267.1| unknown [Glycine max]

 Score =  271 bits (693), Expect = 6e-71,   Method: Compositional matrix adjust.
 Identities = 139/159 (87%), Positives = 140/159 (88%), Gaps = 15/159 (9%)

Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLSTKKTGKGKRPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTG VSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPAHISP FRVKE
Sbjct: 61  FTGNVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPAHISPAFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
           GDHVIIGQCRPLSKTVRFNVLKVIPAGSS GAKKAFT M
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSSGAKKAFTGM 159

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	144
TAIR|locus:2172783	159	RPS11-BETA "ribosomal protein	1.0	0.905	0.830	2.8e-66
TAIR|locus:2101278	160	EMB1080 "embryo defective 1080	1.0	0.9	0.825	3.6e-66
TAIR|locus:2126639	159	AT4G30800 [Arabidopsis thalian	1.0	0.905	0.823	3.2e-65
UNIPROTKB|A2Q0S6	161	rpS11 "Ribosomal protein S11"	0.833	0.745	0.685	2e-45
DICTYBASE|DDB_G0282601	155	rps11 "40S ribosomal protein S	0.972	0.903	0.630	2.1e-45
GENEDB_PFALCIPARUM|PFC0775w	161	PFC0775w "40S ribosomal protei	0.916	0.819	0.674	9.1e-45
ASPGD|ASPL0000026885	160	AN5222 [Emericella nidulans (t	0.923	0.831	0.661	3.1e-44
POMBASE|SPAC144.11	152	rps1102 "40S ribosomal protein	0.875	0.828	0.669	3.1e-44
POMBASE|SPAC31G5.03	152	rps1101 "40S ribosomal protein	0.875	0.828	0.669	3.1e-44
UNIPROTKB|Q3T0V4	158	RPS11 "40S ribosomal protein S	0.958	0.873	0.601	2.2e-43

TAIR|locus:2172783 RPS11-BETA "ribosomal protein S11-beta" [Arabidopsis thaliana (taxid:3702)]

 Score = 674 (242.3 bits), Expect = 2.8e-66, P = 2.8e-66
 Identities = 132/159 (83%), Positives = 137/159 (86%)

Query:     1 MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
             MAEQTEKAFLKQP               GKGGNRFWK+IGLGFKTPREAI+G YID KCP
Sbjct:     1 MAEQTEKAFLKQPKVFLSSKISGKGKRPGKGGNRFWKNIGLGFKTPREAIDGAYIDSKCP 60

Query:    46 FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
             FTGTVSIRGRILAGTCHSAKM RTIIVRRNYLHFVKKYQRYEKRHSNIPAH+SPCFRVKE
Sbjct:    61 FTGTVSIRGRILAGTCHSAKMQRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKE 120

Query:   106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
             GDHVIIGQCRPLSKTVRFNVLKVIPAG+S   KKAFT +
Sbjct:   121 GDHVIIGQCRPLSKTVRFNVLKVIPAGASAFGKKAFTGV 159

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:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

TAIR|locus:2101278 EMB1080 "embryo defective 1080" [Arabidopsis thaliana (taxid:3702)]

 Score = 673 (242.0 bits), Expect = 3.6e-66, P = 3.6e-66
 Identities = 132/160 (82%), Positives = 138/160 (86%)

Query:     1 MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
             MAEQTEKAFLKQP               GKGGNRFWK+IGLGFKTPREAI+G Y+DKKCP
Sbjct:     1 MAEQTEKAFLKQPKVFLSSKKSGKGKRPGKGGNRFWKNIGLGFKTPREAIDGAYVDKKCP 60

Query:    46 FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
             FTGTVSIRGRILAGTCHSAKM RTIIVRR+YLHFVKKYQRYEKRHSNIPAH+SPCFRVKE
Sbjct:    61 FTGTVSIRGRILAGTCHSAKMQRTIIVRRDYLHFVKKYQRYEKRHSNIPAHVSPCFRVKE 120

Query:   106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGG-AKKAFTAM 144
             GDH+IIGQCRPLSKTVRFNVLKVIPAGSS    KKAFT M
Sbjct:   121 GDHIIIGQCRPLSKTVRFNVLKVIPAGSSSSFGKKAFTGM 160

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:0009793 "embryo development ending in seed dormancy" evidence=NAS

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

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0005618 "cell wall" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2126639 AT4G30800 [Arabidopsis thaliana (taxid:3702)]

 Score = 664 (238.8 bits), Expect = 3.2e-65, P = 3.2e-65
 Identities = 131/159 (82%), Positives = 137/159 (86%)

Query:     1 MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
             MAEQTEKAFLKQP               GKGGNRFWK+IGLGFKTPREAIEGTYID+KCP
Sbjct:     1 MAEQTEKAFLKQPKVFLSSKKSGKGKRPGKGGNRFWKNIGLGFKTPREAIEGTYIDQKCP 60

Query:    46 FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
             FTGTVSIRGRIL+GTCHSAKM RTIIVRR+YLHFVKKY+RYEKRHSNIPAH+SPCFRVKE
Sbjct:    61 FTGTVSIRGRILSGTCHSAKMQRTIIVRRDYLHFVKKYRRYEKRHSNIPAHVSPCFRVKE 120

Query:   106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 144
             GD V IGQCRPLSKTVRFNVLKVIPAGSS   KKAFT M
Sbjct:   121 GDRVTIGQCRPLSKTVRFNVLKVIPAGSSSIGKKAFTGM 159

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:0005829 "cytosol" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0034968 "histone lysine methylation" evidence=RCA

UNIPROTKB|A2Q0S6 rpS11 "Ribosomal protein S11" [Solea senegalensis (taxid:28829)]

 Score = 453 (164.5 bits), Expect = 2.0e-45, Sum P(2) = 2.0e-45
 Identities = 85/124 (68%), Positives = 100/124 (80%)

Query:    19 RFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLH 78
             R+ KS+GLGFKTPREAI+GTYIDKKCPFTG VSIRGRIL+G     KM RTI++RR+YLH
Sbjct:    38 RYHKSVGLGFKTPREAIDGTYIDKKCPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLH 97

Query:    79 FVKKYQRYEKRHSNIPAHISPCFR-VKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGA 137
             +++KY R+EKRH N+  H+SPCFR V  GD V +G+CRPLSKTVRFNVLKV  A    GA
Sbjct:    98 YIRKYNRFEKRHKNLSVHLSPCFRDVSVGDIVTVGECRPLSKTVRFNVLKVTKAA---GA 154

Query:   138 KKAF 141
             KK F
Sbjct:   155 KKQF 158

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

DICTYBASE|DDB_G0282601 rps11 "40S ribosomal protein S11" [Dictyostelium discoideum (taxid:44689)]

 Score = 477 (173.0 bits), Expect = 2.1e-45, P = 2.1e-45
 Identities = 99/157 (63%), Positives = 115/157 (73%)

Query:     1 MAE-QTEKAFLKQP-------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPF 46
             MA+ Q EKAF KQ              GK G R++K+IGLG++TP++AIEGTYIDKKCPF
Sbjct:     1 MADIQAEKAFQKQQVSFKNRFQLKASKGKEGIRYYKNIGLGYRTPKDAIEGTYIDKKCPF 60

Query:    47 TGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEG 106
             T  VSIRG IL GT  S KM RT++VRRNYLH++KKY R+EKRHSNIPAH+SP F VKEG
Sbjct:    61 TSDVSIRGAILRGTVISTKMRRTLVVRRNYLHYIKKYNRFEKRHSNIPAHVSPAFNVKEG 120

Query:   107 DHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTA 143
             D V IGQCRPLSKTVRFNV+K      S  +KK F A
Sbjct:   121 DSVTIGQCRPLSKTVRFNVIK---HDISAASKKQFKA 154

GO:0006412 "translation" evidence=IEA;ISS

GO:0005840 "ribosome" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

GENEDB_PFALCIPARUM|PFC0775w PFC0775w "40S ribosomal protein S11, putative" [Plasmodium falciparum (taxid:5833)]

 Score = 471 (170.9 bits), Expect = 9.1e-45, P = 9.1e-45
 Identities = 89/132 (67%), Positives = 100/132 (75%)

Query:    10 LKQPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRT 69
             +K+  K   R+WK +GLGF TP+EA EG Y+DKKCPFTG VSIRGRIL G   S KM RT
Sbjct:    27 IKKGSKSYIRYWKKVGLGFATPKEAKEGVYVDKKCPFTGNVSIRGRILKGMVISNKMKRT 86

Query:    70 IIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVI 129
             II+RRNYLH+VKKY R+EKRH NIP H SPCF VKEGD V +GQCRPLSKTVRFNVL V 
Sbjct:    87 IIIRRNYLHYVKKYNRFEKRHKNIPCHCSPCFDVKEGDIVTVGQCRPLSKTVRFNVLHVE 146

Query:   130 PAGSSGGAKKAF 141
                  G A+K F
Sbjct:   147 KHQIFGSARKQF 158

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

ASPGD|ASPL0000026885 AN5222 [Emericella nidulans (taxid:162425)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 90/136 (66%), Positives = 109/136 (80%)

Query:     7 KAFLKQPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKM 66
             KA  K+ G+   R++K +GLGF+TP+ AIEG+YIDKKCPFTG VSIRGRIL G   S KM
Sbjct:    26 KAKSKKVGQT-RRWYKDVGLGFRTPKTAIEGSYIDKKCPFTGMVSIRGRILTGRVVSTKM 84

Query:    67 NRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVL 126
             +RTII+RR YLH+V KY RYEKRH N+ AH+SP FRV+EGD V +GQCRPLSKTVRFNVL
Sbjct:    85 HRTIIIRREYLHYVPKYNRYEKRHKNLAAHVSPAFRVEEGDWVTVGQCRPLSKTVRFNVL 144

Query:   127 KVIPAGSSGGAKKAFT 142
             +V+P   +G A KAF+
Sbjct:   145 RVLPR--TGKAVKAFS 158

GO:0005634 "nucleus" evidence=IEA

GO:0030686 "90S preribosome" evidence=IEA

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

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

GO:0006412 "translation" evidence=IEA

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

GO:0000462 "maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)" evidence=IEA

POMBASE|SPAC144.11 rps1102 "40S ribosomal protein S11 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 89/133 (66%), Positives = 104/133 (78%)

Query:     4 QTEKAFLKQPG------KG-GNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRI 56
             Q+E+AF KQP       KG G R++K +GLGFKTP EAI G Y+DKKCPF G VSIRGRI
Sbjct:     8 QSERAFQKQPHIFQNAKKGAGRRWYKDVGLGFKTPAEAIYGEYVDKKCPFVGQVSIRGRI 67

Query:    57 LAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRP 116
             L GT  S KM+RTII+RR YLHF+ KY RYEKRH N+ AH+SP FR+ EGD V +GQCRP
Sbjct:    68 LTGTVVSTKMHRTIIIRREYLHFIPKYNRYEKRHKNLAAHVSPAFRINEGDVVTVGQCRP 127

Query:   117 LSKTVRFNVLKVI 129
             LSKTVRFNVL+V+
Sbjct:   128 LSKTVRFNVLRVV 140

GO:0002181 "cytoplasmic translation" evidence=NAS

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

GO:0006412 "translation" evidence=ISO

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

GO:0042254 "ribosome biogenesis" evidence=ISO

POMBASE|SPAC31G5.03 rps1101 "40S ribosomal protein S11 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 466 (169.1 bits), Expect = 3.1e-44, P = 3.1e-44
 Identities = 89/133 (66%), Positives = 104/133 (78%)

Query:     4 QTEKAFLKQPG------KG-GNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRI 56
             Q+E+AF KQP       KG G R++K +GLGFKTP EAI G Y+DKKCPF G VSIRGRI
Sbjct:     8 QSERAFQKQPHIFQNAKKGAGRRWYKDVGLGFKTPAEAIYGEYVDKKCPFVGQVSIRGRI 67

Query:    57 LAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRP 116
             L GT  S KM+RTII+RR YLHF+ KY RYEKRH N+ AH+SP FR+ EGD V +GQCRP
Sbjct:    68 LTGTVVSTKMHRTIIIRREYLHFIPKYNRYEKRHKNLAAHVSPAFRINEGDVVTVGQCRP 127

Query:   117 LSKTVRFNVLKVI 129
             LSKTVRFNVL+V+
Sbjct:   128 LSKTVRFNVLRVV 140

GO:0002181 "cytoplasmic translation" evidence=NAS

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

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006412 "translation" evidence=ISO

GO:0019843 "rRNA binding" evidence=IEA

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

GO:0042254 "ribosome biogenesis" evidence=ISO

UNIPROTKB|Q3T0V4 RPS11 "40S ribosomal protein S11" [Bos taurus (taxid:9913)]

 Score = 458 (166.3 bits), Expect = 2.2e-43, P = 2.2e-43
 Identities = 95/158 (60%), Positives = 116/158 (73%)

Query:     1 MAE-QTEKAFLKQP-----------GKGGN----RFWKSIGLGFKTPREAIEGTYIDKKC 44
             MA+ QTE+A+ KQP           G+ G     R++K+IGLGFKTP+EAIEGTYIDKKC
Sbjct:     1 MADIQTERAYQKQPTIFQNKKRVLLGETGKEKLPRYYKNIGLGFKTPKEAIEGTYIDKKC 60

Query:    45 PFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFR-V 103
             PFTG VSIRGRIL+G     KM RTI++RR+YLH+++KY R+EKRH N+  H+SPCFR V
Sbjct:    61 PFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDV 120

Query:   104 KEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
             + GD V +G+CRPLSKTVRFNVLKV  A    G KK F
Sbjct:   121 QIGDIVTVGECRPLSKTVRFNVLKVTKAA---GTKKQF 155

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

GO:0019843 "rRNA binding" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P61270	RS11_MACFA	No assigned EC number	0.6012	0.9583	0.8734	N/A	no
P42756	RS11_DUNTE	No assigned EC number	0.6729	0.9861	0.9044	N/A	no
O65569	RS112_ARATH	No assigned EC number	0.8238	1.0	0.9056	no	no
P42733	RS113_ARATH	No assigned EC number	0.8301	1.0	0.9056	yes	no
Q6XHX5	RS11_DROYA	No assigned EC number	0.6064	0.9583	0.8903	N/A	no
Q0E9B6	RS11_DROME	No assigned EC number	0.6064	0.9583	0.8903	yes	no
O26120	RS17_METTH	No assigned EC number	0.5113	0.6111	0.8301	yes	no
P41115	RS11_XENLA	No assigned EC number	0.5949	0.9583	0.8734	N/A	no
P62280	RS11_HUMAN	No assigned EC number	0.6012	0.9583	0.8734	yes	no
P62281	RS11_MOUSE	No assigned EC number	0.6012	0.9583	0.8734	yes	no
P62282	RS11_RAT	No assigned EC number	0.6012	0.9583	0.8734	yes	no
Q3T0V4	RS11_BOVIN	No assigned EC number	0.6012	0.9583	0.8734	yes	no
P25460	RS11_MAIZE	No assigned EC number	0.8670	0.9930	0.8993	N/A	no
P0CX48	RS11B_YEAST	No assigned EC number	0.5894	0.9652	0.8910	yes	no
P17093	RS11_SOYBN	No assigned EC number	0.8742	1.0	0.9056	yes	no
Q292D0	RS11_DROPS	No assigned EC number	0.5935	0.9583	0.8903	yes	no
Q9M5M1	RS11_EUPES	No assigned EC number	0.8742	1.0	0.9056	N/A	no
P0CX47	RS11A_YEAST	No assigned EC number	0.5894	0.9652	0.8910	yes	no
P52812	RS11_ANOGA	No assigned EC number	0.5974	0.9652	0.9084	yes	no
P16181	RS111_ARATH	No assigned EC number	0.825	1.0	0.9	no	no
Q9XSU4	RS11_CANFA	No assigned EC number	0.6012	0.9583	0.8734	yes	no
P79013	RS11_SCHPO	No assigned EC number	0.6544	0.8958	0.8486	yes	no
Q54S90	RS11_DICDI	No assigned EC number	0.6322	0.9791	0.9096	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:
	Sb06g021750.1	hypothetical protein (160 aa)
		(Sorghum bicolor)
Predicted Functional Partners:
	Sb03g006610.1	hypothetical protein (158 aa)	•			•	•	•	•		0.952
	Sb03g009210.1	annotation not avaliable (202 aa)			•	•	•	•	•		0.928
	Sb06g021660.1	annotation not avaliable (153 aa)	•			•	•	•	•		0.920
	Sb10g000700.1	hypothetical protein (191 aa)	•			•		•	•		0.891
	Sb07g004290.1	hypothetical protein (229 aa)	•			•	•	•	•		0.872
	Sb02g038990.1	hypothetical protein (232 aa)	•			•	•	•	•		0.870
	Sb10g006620.1	hypothetical protein (143 aa)				•	•	•			0.838
	Sb01g001850.1	hypothetical protein (264 aa)	•			•	•	•	•		0.818
	Sb09g018320.1	hypothetical protein (263 aa)	•			•	•	•	•		0.809
	Sb03g014380.1	hypothetical protein (266 aa)	•			•	•	•	•		0.807

---

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	144
PTZ00241	158	PTZ00241, PTZ00241, 40S ribosomal protein S11; Pro	2e-86
PRK08572	108	PRK08572, rps17p, 30S ribosomal protein S17P; Revi	4e-43
TIGR03630	102	TIGR03630, arch_S17P, archaeal ribosomal protein S	7e-42
pfam00366	69	pfam00366, Ribosomal_S17, Ribosomal protein S17	1e-32
COG0186	87	COG0186, RpsQ, Ribosomal protein S17 [Translation,	1e-29
TIGR03635	71	TIGR03635, S17_bact, 30S ribosomal protein S17	3e-09
PRK05610	84	PRK05610, rpsQ, 30S ribosomal protein S17; Reviewe	5e-09
CHL00142	84	CHL00142, rps17, ribosomal protein S17; Validated	1e-04

>gnl|CDD|240326 PTZ00241, PTZ00241, 40S ribosomal protein S11; Provisional

 Score =  248 bits (636), Expect = 2e-86
 Identities = 99/154 (64%), Positives = 109/154 (70%), Gaps = 13/154 (8%)

Query: 1   MAEQTEKAFLKQPG-------------KGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFT 47
              QTE+AF KQ G               G R+WK +GLGFKTP+EAIEG YIDKKCPFT
Sbjct: 2   ADVQTERAFQKQEGVFQNSKRLLKKKTSKGVRYWKKVGLGFKTPKEAIEGKYIDKKCPFT 61

Query: 48  GTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGD 107
           G VSIRGRIL G   S KM RTII+RR+YLH+VKKY RYEKRH NIP H SPCF VKEGD
Sbjct: 62  GNVSIRGRILRGVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVHCSPCFDVKEGD 121

Query: 108 HVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
            V++GQCRPLSKTVRFNVLKV      G  +K F
Sbjct: 122 IVVVGQCRPLSKTVRFNVLKVEKNEIIGNVRKQF 155

Length = 158

>gnl|CDD|236296 PRK08572, rps17p, 30S ribosomal protein S17P; Reviewed

 Score =  137 bits (348), Expect = 4e-43
 Identities = 54/108 (50%), Positives = 70/108 (64%), Gaps = 4/108 (3%)

Query: 22  KSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVK 81
           ++IGL  K P E  +    D  CPF GT+ +RG++L GT  S KM++T++V R YLH+V 
Sbjct: 1   RNIGLDVKPPEEECD----DPNCPFHGTLPVRGQVLEGTVVSDKMHKTVVVEREYLHYVP 56

Query: 82  KYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVI 129
           KY+RYEKR S I AH  PC   K GD V I +CRPLSKT  F V++  
Sbjct: 57  KYERYEKRRSRIHAHNPPCIDAKVGDKVKIAECRPLSKTKSFVVVEKK 104

Length = 108

>gnl|CDD|132669 TIGR03630, arch_S17P, archaeal ribosomal protein S17P

 Score =  134 bits (339), Expect = 7e-42
 Identities = 54/106 (50%), Positives = 68/106 (64%), Gaps = 4/106 (3%)

Query: 24  IGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKY 83
           IG+  K P         D KCPF G + +RG+IL G   S KMN+T++V R YL++ +KY
Sbjct: 1   IGIPVKPPERECN----DPKCPFHGHLKVRGQILEGVVVSDKMNKTVVVEREYLYYDRKY 56

Query: 84  QRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVI 129
           +RYE+R S I AH  PC  VKEGD VIIG+ RPLSKT  F VL  +
Sbjct: 57  ERYERRRSKIHAHNPPCIDVKEGDIVIIGETRPLSKTKSFVVLGKV 102

This model describes exclusively the archaeal ribosomal protein S17P. It excludes the homologous ribosomal protein S17 from bacteria, and is not intended for use on eukaryotic sequences, where some instances of ribosomal proteins S11 score above the trusted cutoff [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 102

>gnl|CDD|109426 pfam00366, Ribosomal_S17, Ribosomal protein S17

 Score =  109 bits (275), Expect = 1e-32
 Identities = 39/70 (55%), Positives = 45/70 (64%), Gaps = 1/70 (1%)

Query: 59  GTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLS 118
           G   S KM +TI+VR   L    KY +YEKR    PAH  PCFR K GD V IG+CRPLS
Sbjct: 1   GVVVSDKMEKTIVVRVERLVPHPKYGKYEKRTKKYPAHDPPCFR-KVGDVVKIGECRPLS 59

Query: 119 KTVRFNVLKV 128
           KT RF V++V
Sbjct: 60  KTKRFRVVRV 69

Length = 69

>gnl|CDD|223264 COG0186, RpsQ, Ribosomal protein S17 [Translation, ribosomal structure and biogenesis]

 Score =  102 bits (257), Expect = 1e-29
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 1/83 (1%)

Query: 47  TGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEG 106
            G + +RGR+L G   S KM++T++V      +  KY +Y +R     AH   C   K G
Sbjct: 1   HGKLRVRGRVLEGVVVSDKMDKTVVVEVERKVYHPKYGKYVRRSKKYHAH-DECNEAKVG 59

Query: 107 DHVIIGQCRPLSKTVRFNVLKVI 129
           D V I + RPLSKT RF V++++
Sbjct: 60  DIVRIAETRPLSKTKRFVVVEIV 82

Length = 87

>gnl|CDD|213841 TIGR03635, S17_bact, 30S ribosomal protein S17

 Score = 50.2 bits (121), Expect = 3e-09
 Identities = 27/73 (36%), Positives = 35/73 (47%), Gaps = 5/73 (6%)

Query: 55  RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           + L G   S KM++TI+V   R   H    Y +  KR     AH       K GD V I 
Sbjct: 2   KTLQGVVVSDKMDKTIVVLVERRVKH--PLYGKIVKRTKKYHAH-DENNECKVGDVVRII 58

Query: 113 QCRPLSKTVRFNV 125
           + RPLSKT R+ +
Sbjct: 59  ETRPLSKTKRWRL 71

This model describes the bacterial ribosomal small subunit protein S17, while excluding cytosolic eukaryotic homologs and archaeal homologs. The model finds many, but not, chloroplast and mitochondrial counterparts to bacterial S17 [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 71

>gnl|CDD|235532 PRK05610, rpsQ, 30S ribosomal protein S17; Reviewed

 Score = 49.8 bits (120), Expect = 5e-09
 Identities = 27/77 (35%), Positives = 39/77 (50%), Gaps = 5/77 (6%)

Query: 55  RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           + L G   S KM++TI+V   R   H    Y +  KR     AH       K GD V I 
Sbjct: 7   KTLQGRVVSDKMDKTIVVLVERRVKH--PLYGKIVKRSKKYHAH-DENNEAKIGDVVRIM 63

Query: 113 QCRPLSKTVRFNVLKVI 129
           + RPLSKT R+ +++++
Sbjct: 64  ETRPLSKTKRWRLVEIV 80

Length = 84

>gnl|CDD|177064 CHL00142, rps17, ribosomal protein S17; Validated

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 25/83 (30%), Positives = 38/83 (45%), Gaps = 15/83 (18%)

Query: 59  GTCHSAKMNRTIIVR-------RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVII 111
           G   S KMN+TI+V          Y   + K ++Y   H       + C     GD V+I
Sbjct: 8   GIVVSNKMNKTIVVAVENRYKHPIYGKIITKTKKY-LVHD----EENEC---NIGDQVLI 59

Query: 112 GQCRPLSKTVRFNVLKVIPAGSS 134
            + RPLSKT R+ + +++   S 
Sbjct: 60  EETRPLSKTKRWILKEILSKSSL 82

Length = 84

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	144
PTZ00241	158	40S ribosomal protein S11; Provisional	100.0
KOG1728	156	consensus 40S ribosomal protein S11 [Translation,	100.0
PRK08572	108	rps17p 30S ribosomal protein S17P; Reviewed	100.0
TIGR03630	102	arch_S17P archaeal ribosomal protein S17P. This mo	100.0
COG0186	87	RpsQ Ribosomal protein S17 [Translation, ribosomal	100.0
CHL00142	84	rps17 ribosomal protein S17; Validated	100.0
PRK05610	84	rpsQ 30S ribosomal protein S17; Reviewed	100.0
TIGR03635	71	S17_bact 30S ribosomal protein S17. This model des	100.0
PF00366	69	Ribosomal_S17: Ribosomal protein S17; InterPro: IP	99.97
KOG1740	107	consensus Predicted mitochondrial/chloroplast ribo	99.94
KOG3447	150	consensus Mitochondrial/chloroplast ribosomal S17-	99.25

>PTZ00241 40S ribosomal protein S11; Provisional

Probab=100.00  E-value=6.6e-70  Score=425.44  Aligned_cols=144  Identities=69%  Similarity=1.142  Sum_probs=134.0

Q ss_pred             CchhhhHhhccCC----------CCC---CCeeeeeecccccCCcccccccccCcCCCceeeeeEeceEEEEEEEecCCC
Q 032281            1 MAEQTEKAFLKQP----------GKG---GNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMN   67 (144)
Q Consensus         1 m~~~~~~a~~kq~----------~~~---~~r~~~~igl~~k~P~~~~~~~y~D~kcPf~g~~sirg~il~G~VvS~KM~   67 (144)
                      |++|+|||||||+          +++   .+||++||||||++|++||||+|||++|||||||||||++|+|+|+|+||+
T Consensus         2 ~~~q~e~a~qkq~~i~~~~~~~~~~~~~~~~r~~k~iGl~~~~P~~~~~~~yiD~kCPf~G~~~iRgril~G~VvS~KM~   81 (158)
T PTZ00241          2 ADVQTERAFQKQEGVFQNSKRLLKKKTSKGVRYWKKVGLGFKTPKEAIEGKYIDKKCPFTGNVSIRGRILRGVVISTKMK   81 (158)
T ss_pred             ccccchhhhccCCceeeccccccccccccccchhhhcCCCCcCChhhhcccccCCCCCccceeeEcceEEEEEEEEccCC
Confidence            3459999999994          222   379999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecCCCCCcccccccC
Q 032281           68 RTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM  144 (144)
Q Consensus        68 KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~~~~~~k~f~~f  144 (144)
                      |||+|+++|++|||+|+||++|+++|+|||||||+|++||+|+|+|||||||||+|+|++|++++..++.+|||++|
T Consensus        82 KTIVV~ve~~~~h~kY~K~~kr~kk~~aHd~~~~~~kvGD~V~I~EcRPLSKTKrf~Vv~V~~~~~~~~~~k~f~~f  158 (158)
T PTZ00241         82 RTIIIRRDYLHYVKKYNRYEKRHKNIPVHCSPCFDVKEGDIVVVGQCRPLSKTVRFNVLKVEKNEIIGNVRKQFVLF  158 (158)
T ss_pred             ccEEEEEEEEEecCccceEEEeeecEEEeCCccCCCCCCCEEEEEEcCCCCCceeEEEEEEEecccccccccccccC
Confidence            99999999999999999999999999999989999999999999999999999999999999976333359999988

>KOG1728 consensus 40S ribosomal protein S11 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1e-66  Score=401.62  Aligned_cols=141  Identities=72%  Similarity=1.207  Sum_probs=135.5

Q ss_pred             CchhhhHhhccCC-------------CCCCCeeeeeecccccCCcccccccccCcCCCceeeeeEeceEEEEEEEecCCC
Q 032281            1 MAEQTEKAFLKQP-------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMN   67 (144)
Q Consensus         1 m~~~~~~a~~kq~-------------~~~~~r~~~~igl~~k~P~~~~~~~y~D~kcPf~g~~sirg~il~G~VvS~KM~   67 (144)
                      |++|+|+|||+|+             +++.+||++|||||||||+||++|+|||+||||+|+|||||++|+|+|+++||+
T Consensus         2 ~~vq~eraF~kq~~v~~~~k~~~~~~~k~~~r~~~~iglGFKtP~eAiegtYIDKKCPftG~vsIRGril~G~V~k~Km~   81 (156)
T KOG1728|consen    2 MAVQTERAFQKQPGVFLNAKASGKRTSKKGKRRYKNIGLGFKTPREAIEGTYIDKKCPFTGNVSIRGRILTGTVVKMKMQ   81 (156)
T ss_pred             cchhhhHHhhhCccccccCcccccccccccchhhhhcCcccCChHHhhcceeecccCCcccceeEeeEEEeeEEeeecee
Confidence            6789999999994             357899999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCC-CCCCCEEEEeeeecCCCeeeEEEEEeeecCCCCCcccccccC
Q 032281           68 RTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFR-VKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM  144 (144)
Q Consensus        68 KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~-~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~~~~~~k~f~~f  144 (144)
                      +||+|++|||||.+||++|++||+|++||.|||+. +++||+|+|+||||||||+||+|+++++.+   +..|||.+|
T Consensus        82 rTIvvrrdYlHy~~KY~ryekrHkN~svh~SPcFrdi~~gDiVtvGecrPLSKtvrfnVLkv~k~~---g~~k~~~k~  156 (156)
T KOG1728|consen   82 RTIVVRRDYLHYIKKYNRYEKRHKNMSVHVSPCFRDIQEGDIVTVGECRPLSKTVRFNVLKVIKAA---GSKKQFKKF  156 (156)
T ss_pred             EEEEEEhhhhhHhHHhhHHHHhccCCccccchhhhccccCCEEEEeecccccceEEEEEEEEeecC---CCccccccC
Confidence            99999999999999999999999999999999997 999999999999999999999999999986   568999987

>PRK08572 rps17p 30S ribosomal protein S17P; Reviewed

Probab=100.00  E-value=1.4e-52  Score=311.08  Aligned_cols=107  Identities=50%  Similarity=0.915  Sum_probs=104.3

Q ss_pred             eeecccccCCcccccccccCcCCCceeeeeEeceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCC
Q 032281           22 KSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCF  101 (144)
Q Consensus        22 ~~igl~~k~P~~~~~~~y~D~kcPf~g~~sirg~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~  101 (144)
                      +||||||++|+++||    |++|||||+|+|||++|+|+|+|++|+|||+|++++++|||+|+|+++++++|+|||++||
T Consensus         1 ~~ig~~~~~p~~~~~----d~~cP~~g~l~irgk~l~G~VvS~Km~KTvvV~v~r~~~hpkY~K~i~r~kky~aHDe~cn   76 (108)
T PRK08572          1 RNIGLDVKPPEEECD----DPNCPFHGTLPVRGQVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAHNPPCI   76 (108)
T ss_pred             CccccCCCCCccccc----CCCCCCcceeeeeeEEEEEEEEecCCCceEEEEEEEEEecCCccEEEEEeeeEEEECCCCC
Confidence            589999999999999    9999999999999999999999999999999999999999999999999999999997779


Q ss_pred             CCCCCCEEEEeeeecCCCeeeEEEEEeeecC
Q 032281          102 RVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG  132 (144)
Q Consensus       102 ~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~  132 (144)
                      +|++||+|+|+|||||||+|+|+|++|++++
T Consensus        77 ~~kvGD~V~I~E~RPiSKtK~w~v~~i~~~~  107 (108)
T PRK08572         77 DAKVGDKVKIAECRPLSKTKSFVVVEKKERA  107 (108)
T ss_pred             CCCCCCEEEEEEcCCCCCceEEEEEEEEEcC
Confidence            9999999999999999999999999999874

>TIGR03630 arch_S17P archaeal ribosomal protein S17P

Probab=100.00  E-value=8e-50  Score=293.72  Aligned_cols=102  Identities=53%  Similarity=0.926  Sum_probs=98.7

Q ss_pred             ecccccCCcccccccccCcCCCceeeeeEeceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCC
Q 032281           24 IGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRV  103 (144)
Q Consensus        24 igl~~k~P~~~~~~~y~D~kcPf~g~~sirg~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~  103 (144)
                      |||++++|+++|+    |++|||||+|+|||++|+|+|+|+||+|||+|+++++++||+|+|+++++++|+|||++||+|
T Consensus         1 ig~~~~~p~~~~~----d~~cpf~g~l~irgk~l~G~VvS~Km~KTivV~V~r~~~hpkY~K~i~r~kky~aHDe~cn~~   76 (102)
T TIGR03630         1 IGIPVKPPERECN----DPKCPFHGHLKVRGQILEGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAHNPPCIDV   76 (102)
T ss_pred             CCcccCCCCcccc----CCCCCccceeeeeeEEEEEEEEecCCCceEEEEEEEEEecCCccEEEEEeeeEEEECCCCCCC
Confidence            7999999998777    999999999999999999999999999999999999999999999999999999999777999


Q ss_pred             CCCCEEEEeeeecCCCeeeEEEEEee
Q 032281          104 KEGDHVIIGQCRPLSKTVRFNVLKVI  129 (144)
Q Consensus       104 kvGD~V~I~ecRPlSKtK~f~V~~ii  129 (144)
                      ++||+|+|+|||||||||+|+|++|+
T Consensus        77 kvGD~V~I~E~RPlSKtK~w~vv~i~  102 (102)
T TIGR03630        77 KEGDIVIIGETRPLSKTKSFVVLGKV  102 (102)
T ss_pred             CCCCEEEEEEcCCCCCceEEEEEEeC
Confidence            99999999999999999999999874

This model describes exclusively the archaeal ribosomal protein S17P. It excludes homologous ribosomal proteins S11 from eukaryotes and S17 from bacteria.

>COG0186 RpsQ Ribosomal protein S17 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=1.5e-39  Score=233.39  Aligned_cols=85  Identities=38%  Similarity=0.629  Sum_probs=83.4

Q ss_pred             eeeeeEeceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEE
Q 032281           47 TGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVL  126 (144)
Q Consensus        47 ~g~~sirg~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~  126 (144)
                      ||+++++|++|+|+|+|+||+|||+|++++.+|||+|+||++++++|+||| |||+|++||+|+|+|||||||||+|+|+
T Consensus         1 ~~~~~~~~k~l~G~VvS~Km~KTvvV~ve~~~~hp~Y~K~v~r~kK~~aHd-e~~~~k~GD~V~I~EtRPLSKtK~~~vv   79 (87)
T COG0186           1 HGKLRVRGRVLEGVVVSDKMDKTVVVEVERKVYHPKYGKYVRRSKKYHAHD-ECNEAKVGDIVRIAETRPLSKTKRFVVV   79 (87)
T ss_pred             CCccccCceEEEEEEEEccCceeEEEEEEEEEecccceEEEEEEeeeEeec-ccccCCCCCEEEEEEccccCCcceEEEE
Confidence            689999999999999999999999999999999999999999999999999 9999999999999999999999999999


Q ss_pred             EeeecC
Q 032281          127 KVIPAG  132 (144)
Q Consensus       127 ~ii~~~  132 (144)
                      ++++++
T Consensus        80 ~i~~~a   85 (87)
T COG0186          80 EIVEKA   85 (87)
T ss_pred             EEeeec
Confidence            999875

>CHL00142 rps17 ribosomal protein S17; Validated

Probab=100.00  E-value=1e-34  Score=207.15  Aligned_cols=79  Identities=28%  Similarity=0.307  Sum_probs=76.2

Q ss_pred             ceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecCC
Q 032281           54 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  133 (144)
Q Consensus        54 g~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~  133 (144)
                      .+.|.|+|+|++|+|||+|++++++|||+|+|+++++++|+||| |+|+|++||+|+|+|||||||||+|+|++|++++.
T Consensus         3 ~~~~~G~Vvs~km~KTivV~v~r~~~h~kY~K~~~r~kk~~aHD-e~n~~~~GD~V~I~e~RPlSKtK~~~v~~i~~~~~   81 (84)
T CHL00142          3 VKEKIGIVVSNKMNKTIVVAVENRYKHPIYGKIITKTKKYLVHD-EENECNIGDQVLIEETRPLSKTKRWILKEILSKSS   81 (84)
T ss_pred             ceEEEEEEEeCCCCceEEEEEEEEEEcCcccEEEEeeEEEEEeC-CCCCCCCCCEEEEEEcCCCCCcEEEEEEEEEEeee
Confidence            57899999999999999999999999999999999999999999 89999999999999999999999999999998864

>PRK05610 rpsQ 30S ribosomal protein S17; Reviewed

Probab=100.00  E-value=1e-34  Score=206.90  Aligned_cols=78  Identities=32%  Similarity=0.373  Sum_probs=75.7

Q ss_pred             ceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecC
Q 032281           54 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG  132 (144)
Q Consensus        54 g~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~  132 (144)
                      +++|.|+|+|++|+|||+|++++++|||+|+||++++++|+||| |+|+|++||+|+|+|||||||+|+|+|++|++++
T Consensus         6 ~~~l~G~Vvs~km~KTvvV~v~r~~~h~kY~K~~~r~kk~~aHD-~~n~~k~GD~V~I~e~rPlSK~K~~~v~~i~~~~   83 (84)
T PRK05610          6 RKTLQGRVVSDKMDKTIVVLVERRVKHPLYGKIVKRSKKYHAHD-ENNEAKIGDVVRIMETRPLSKTKRWRLVEIVEKA   83 (84)
T ss_pred             CCEEEEEEEcccCCceEEEEEEEEEEeccccEEEEcceEEEEEC-CCCCCCCCCEEEEEEcccCCCCEEEEEEEEEecc
Confidence            78999999999999999999999999999999999999999999 7889999999999999999999999999999864

>TIGR03635 S17_bact 30S ribosomal protein S17

Probab=100.00  E-value=1.2e-33  Score=195.81  Aligned_cols=70  Identities=36%  Similarity=0.377  Sum_probs=68.2

Q ss_pred             eEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEE
Q 032281           55 RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNV  125 (144)
Q Consensus        55 ~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V  125 (144)
                      ++|.|+|+|++|+|||+|++++++|||+|+|+++++++|+||| |+|+|++||+|+|+|||||||+|+|+|
T Consensus         2 ~~l~G~Vvs~km~KTvvV~v~~~~~h~ky~k~~~r~kk~~aHD-~~~~~k~GD~V~I~ecrPlSK~K~~~~   71 (71)
T TIGR03635         2 KTLQGVVVSDKMDKTIVVLVERRVKHPLYGKIVKRTKKYHAHD-ENNECKVGDVVRIIETRPLSKTKRWRL   71 (71)
T ss_pred             eEEEEEEEcccCCceEEEEEEEEEEeccccEEEEccEEEEEEC-CCCCCCCCCEEEEEEcCCcCCceEeEC
Confidence            7899999999999999999999999999999999999999999 788999999999999999999999985

This model describes the bacterial ribosomal small subunit protein S17, while excluding cytosolic eukaryotic homologs and archaeal homologs. The model finds many, but not, chloroplast and mitochondrial counterparts to bacterial S17.

>PF00366 Ribosomal_S17: Ribosomal protein S17; InterPro: IPR000266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.97  E-value=1.6e-31  Score=183.91  Aligned_cols=69  Identities=43%  Similarity=0.632  Sum_probs=66.4

Q ss_pred             EEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEe
Q 032281           59 GTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKV  128 (144)
Q Consensus        59 G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~i  128 (144)
                      |+|+|++|+|||+|++++++|||+|+|+++++++|+||| |.+.|++||+|+|.|||||||+|+|+|++|
T Consensus         1 G~Vvs~km~KTv~V~v~~~~~~~ky~K~~~~~kk~~aHD-~~~~~~vGD~V~I~e~rPiSk~K~~~v~~v   69 (69)
T PF00366_consen    1 GVVVSDKMDKTVVVRVERLVYHPKYKKYIKRTKKYMAHD-ENNICKVGDKVRIRECRPISKTKRFVVVEV   69 (69)
T ss_dssp             EEEEEEESTTEEEEEEEEEEEETTTEEEEEEEEEEEEE--TTSSSTTTSEEEEEEEEEEETTEEEEEEEE
T ss_pred             CEEEEcCCCCeEEEEEEEEEEcceEeeccCccccEEEeC-CccCCCCCCEEEEEeeeccCCcEeEEEEEC
Confidence            899999999999999999999999999999999999999 788899999999999999999999999986

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 [, ]. The ribosomal proteins catalyse ribosome assembly and stabilise the rRNA, tuning the structure of the ribosome for optimal function. Evidence suggests that, in prokaryotes, the peptidyl transferase reaction is performed by the large subunit 23S rRNA, whereas proteins probably have a greater role in eukaryotic ribosomes. Most of the proteins lie close to, or on the surface of, the 30S subunit, arranged peripherally around the rRNA []. The small subunit ribosomal proteins can be categorised as primary binding proteins, which bind directly and independently to 16S rRNA; secondary binding proteins, which display no specific affinity for 16S rRNA, but its assembly is contingent upon the presence of one or more primary binding proteins; and tertiary binding proteins, which require the presence of one or more secondary binding proteins and sometimes other tertiary binding proteins. The small ribosomal subunit protein S17 is known to bind specifically to the 5' end of 16S ribosomal RNA in Escherichia coli (primary rRNA binding protein), and is thought to be involved in the recognition of termination codons. Experimental evidence [] has revealed that S17 has virtually no groups exposed on the ribosomal surface.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2YKR_Q 2VHP_Q 3BBN_Q 2QAL_Q 3OAR_Q 1VS5_Q 3KC4_Q 2AW7_Q 3E1C_J 2AVY_Q ....

>KOG1740 consensus Predicted mitochondrial/chloroplast ribosomal protein S17 [Translation, ribosomal structure and biogenesis]

Probab=99.94  E-value=1e-28  Score=181.68  Aligned_cols=77  Identities=39%  Similarity=0.519  Sum_probs=74.2

Q ss_pred             eEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecC
Q 032281           55 RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG  132 (144)
Q Consensus        55 ~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~  132 (144)
                      +-+.|+|+|.+|+||++|+|+++.+||+|+||++++++|+||| |.+.|++||.|+|..||||||||+|.+.+|++++
T Consensus         3 ~~~vg~VvS~kmqKTv~V~V~rl~~n~~ynryv~~~~kymahD-~~n~cnvGD~VrlepsRPlSk~K~f~i~eII~~a   79 (107)
T KOG1740|consen    3 KNVVGTVVSNKMQKTVKVRVDRLFFNPKYNRYVKRTSKYMAHD-DKNQCNVGDRVRLEPSRPLSKTKHFIIAEIIKKA   79 (107)
T ss_pred             ccceeeeeecccCceeEEEeeeccccHHHHHHHHHhhheeecC-ccccccccceEEeccCCcccccceeehHHHHHHH
Confidence            4678999999999999999999999999999999999999999 8999999999999999999999999999999875

>KOG3447 consensus Mitochondrial/chloroplast ribosomal S17-like protein [Translation, ribosomal structure and biogenesis]

Probab=99.25  E-value=1.3e-12  Score=100.99  Aligned_cols=81  Identities=25%  Similarity=0.274  Sum_probs=75.8

Q ss_pred             eeEeceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeee-ecCCCeeeEEEEEe
Q 032281           50 VSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQC-RPLSKTVRFNVLKV  128 (144)
Q Consensus        50 ~sirg~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ec-RPlSKtK~f~V~~i  128 (144)
                      -|+++++|.|.|+..+|++|..|++.++.++|..++|+++++.|.||| +...|++||+|.|.+. -|+.+.+++.|.+|
T Consensus         6 ~s~~~~~lmGk~ig~~~q~~akVR~~r~eld~yL~kYf~k~~~yfAhD-~~~~c~vGDtVLir~lp~r~t~~V~H~v~~V   84 (150)
T KOG3447|consen    6 SSVHAQWLMGKVIGTKMQKTAKVRVTRLELDPYLLKYFNKRKTYFAHD-ALQQCTVGDTVLIRALPVRRTKHVKHEVAEV   84 (150)
T ss_pred             eecccEEEEeeeeeccccccceeeeehhhcCHHHHHHhccccceeecc-hhhccccCCEEEEecCCcchhhhhhhhhHhh
Confidence            589999999999999999999999999999999999999999999999 8999999999999996 67778888988888


Q ss_pred             eec
Q 032281          129 IPA  131 (144)
Q Consensus       129 i~~  131 (144)
                      +-+
T Consensus        85 Vfk   87 (150)
T KOG3447|consen   85 VFK   87 (150)
T ss_pred             eee
Confidence            765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	144
3iz6_P	161	Localization Of The Small Subunit Ribosomal Protein		1e-68
2xzm_Q	157	Crystal Structure Of The Eukaryotic 40s Ribosomal S		8e-51
3izb_P	156	Localization Of The Small Subunit Ribosomal Protein		8e-48
2zkq_q	158	Structure Of A Mammalian Ribosomal 40s Subunit With		1e-47
3zey_E	174	High-resolution Cryo-electron Microscopy Structure		3e-45
3jyv_Q	80	Structure Of The 40s Rrna And Proteins And PE TRNA		3e-27
1s1h_Q	76	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		7e-26
3j20_R	113	Promiscuous Behavior Of Proteins In Archaeal Riboso		2e-18
1i94_Q	104	Crystal Structures Of The Small Ribosomal Subunit W		4e-05
2j00_Q	105	Structure Of The Thermus Thermophilus 70s Ribosome		7e-05
1fjg_Q	105	Structure Of The Thermus Thermophilus 30s Ribosomal		7e-05
1j5e_Q	104	Structure Of The Thermus Thermophilus 30s Ribosomal		8e-05
3mr8_Q	99	Recognition Of The Amber Stop Codon By Release Fact		8e-05
3fic_Q	100	T. Thermophilus 70s Ribosome In Complex With Mrna,		9e-05

>pdb|3IZ6|P Chain P, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 161

Iteration: 1
 Score =  254 bits (649), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 129/146 (88%), Positives = 131/146 (89%), Gaps = 15/146 (10%)
Query: 1   MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP               GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLSSKKSGKGKKPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60
Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH+SPCFRVKE
Sbjct: 61  FTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKE 120
Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPA 131
           GDHVIIGQCRPLSKTVRFNVLKVIPA
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPA 146

>pdb|2XZM|Q Chain Q, 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 = 157

Iteration: 1
 Score =  195 bits (495), Expect = 8e-51,   Method: Compositional matrix adjust.
 Identities = 90/154 (58%), Positives = 112/154 (72%), Gaps = 13/154 (8%)
Query: 1   MAEQTEKAFLKQPG-------------KGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFT 47
           M  Q ++A+ KQ G               G R++K+IGLGFKTP+EAIEGTY+DKKCPFT
Sbjct: 1   MDTQIQRAYQKQDGVFLNSKKLLAKKTSAGVRYYKNIGLGFKTPKEAIEGTYVDKKCPFT 60
Query: 48  GTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGD 107
             +SIRG+I+ G   S KMNRT+I+RR+YLH+V+KY RYEKRH NIP HISPCF VKEGD
Sbjct: 61  SNLSIRGKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVHISPCFSVKEGD 120
Query: 108 HVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
            ++ GQCRP+SKTVRFN L+V+P    G  +K F
Sbjct: 121 ILVAGQCRPISKTVRFNALQVVPNEIIGSVRKQF 154

>pdb|3IZB|P Chain P, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 156

Iteration: 1
 Score =  185 bits (469), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 89/151 (58%), Positives = 112/151 (74%), Gaps = 12/151 (7%)
Query: 1   MAEQTEKAFLKQP----------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTV 50
           +  Q+E+AF KQP           K   R++K+ GLGFKTP+ AIEG+YIDKKCPFTG V
Sbjct: 5   LTVQSERAFQKQPHIFNNPKVKTSKRTKRWYKNAGLGFKTPKTAIEGSYIDKKCPFTGLV 64
Query: 51  SIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI 110
           SIRG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H+SP FRV+ GD V 
Sbjct: 65  SIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVT 124
Query: 111 IGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
           +GQCRP+SKTVRFNV+KV  + ++G A K F
Sbjct: 125 VGQCRPISKTVRFNVVKV--SAAAGKANKQF 153

>pdb|2ZKQ|QQ Chain q, 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 = 158

Iteration: 1
 Score =  184 bits (468), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 95/158 (60%), Positives = 116/158 (73%), Gaps = 20/158 (12%)
Query: 1   MAE-QTEKAFLKQP-----------GKGGN----RFWKSIGLGFKTPREAIEGTYIDKKC 44
           MA+ QTE+A+ KQP           G+ G     R++K+IGLGFKTP+EAIEGTYIDKKC
Sbjct: 1   MADIQTERAYQKQPTIFQNKKRVLLGETGKEKLPRYYKNIGLGFKTPKEAIEGTYIDKKC 60
Query: 45  PFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFR-V 103
           PFTG VSIRGRIL+G     KM RTI++RR+YLH+++KY R+EKRH N+  H+SPCFR V
Sbjct: 61  PFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDV 120
Query: 104 KEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
           + GD V +G+CRPLSKTVRFNVLKV  A    G KK F
Sbjct: 121 QIGDIVTVGECRPLSKTVRFNVLKVTKA---AGTKKQF 155

>pdb|3ZEY|E Chain E, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 174

Iteration: 1
 Score =  176 bits (447), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 83/157 (52%), Positives = 104/157 (66%), Gaps = 15/157 (9%)
Query: 1   MAEQTEKAFLKQPGKGGN---------------RFWKSIGLGFKTPREAIEGTYIDKKCP 45
           +  Q EKA+ +Q     N               R+ K IGLGF TP+ AI G YID+KCP
Sbjct: 16  LTVQHEKAYQRQTAVNENIRTASKKHVNRSGHIRYSKKIGLGFATPKAAINGKYIDRKCP 75
Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FT  VSIRGRIL G  HS KM R+I++RRNYLHF++KYQRY+KRH NI  H SPCF  K 
Sbjct: 76  FTSNVSIRGRILRGVVHSTKMRRSIVIRRNYLHFIRKYQRYQKRHRNITVHCSPCFDPKP 135
Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 142
           GD V++GQCRPLSKT+R+NVL+V+   ++    K F+
Sbjct: 136 GDEVVVGQCRPLSKTIRYNVLQVVSKSAADKMGKKFS 172

>pdb|3JYV|Q Chain Q, 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 = 80

Iteration: 1
 Score =  117 bits (293), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 52/80 (65%), Positives = 64/80 (80%)
Query: 53  RGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           RG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H+SP FRV+ GD V +G
Sbjct: 1   RGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVTVG 60
Query: 113 QCRPLSKTVRFNVLKVIPAG 132
           QCRP+SKTVRFNV+KV  A 
Sbjct: 61  QCRPISKTVRFNVVKVSAAA 80

>pdb|1S1H|Q Chain Q, 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 = 76

Iteration: 1
 Score =  112 bits (280), Expect = 7e-26,   Method: Compositional matrix adjust.
 Identities = 49/74 (66%), Positives = 61/74 (82%)
Query: 55  RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQC 114
           +IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H+SP FRV+ GD V +GQC
Sbjct: 1   KILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVTVGQC 60
Query: 115 RPLSKTVRFNVLKV 128
           RP+SKTVRFNV+KV
Sbjct: 61  RPISKTVRFNVVKV 74

>pdb|3J20|R Chain R, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (30s Ribosomal Subunit) Length = 113

Iteration: 1
 Score = 88.2 bits (217), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 46/108 (42%), Positives = 61/108 (56%), Gaps = 4/108 (3%)
Query: 22  KSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVK 81
           + IGL  + P E  +    D KCP+ G + I GR+  G   S K  +T+ V R Y  ++ 
Sbjct: 3   RDIGLRVQPPAEKCD----DPKCPWHGNLKIHGRVFEGIVVSDKPRKTVTVERQYYFYLN 58
Query: 82  KYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVI 129
           KY+RYE R S I AH  PC   K GD V+I + RPLSKT  F V+ V+
Sbjct: 59  KYERYELRRSKIHAHNPPCINAKVGDKVLIAETRPLSKTKHFVVVAVL 106

>pdb|1I94|Q Chain Q, Crystal Structures Of The Small Ribosomal Subunit With Tetracycline, Edeine And If3 Length = 104

Iteration: 1
 Score = 43.5 bits (101), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 43/80 (53%), Gaps = 5/80 (6%)
Query: 55  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  R K GD V I 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEERYKVGDVVEII 59
Query: 113 QCRPLSKTVRFNVLKVIPAG 132
           + RP+SK  RF VL+++  G
Sbjct: 60  EARPISKRKRFRVLRLVEEG 79

>pdb|2J00|Q Chain Q, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 1 Of 4). This File Contains The 30s Subunit, Mrna, A-, P- And E-Site Trnas And Paromomycin For Molecule I. Length = 105

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 30/89 (33%), Positives = 46/89 (51%), Gaps = 5/89 (5%)
Query: 55  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 60
Query: 113 QCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
           + RP+SK  RF VL+++ +G     +K  
Sbjct: 61  ESRPISKRKRFRVLRLVESGRMDLVEKYL 89

>pdb|1FJG|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit In Complex With The Antibiotics Streptomycin, Spectinomycin, And Paromomycin Length = 105

Iteration: 1
 Score = 42.7 bits (99), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 30/89 (33%), Positives = 46/89 (51%), Gaps = 5/89 (5%)
Query: 55  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 60
Query: 113 QCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
           + RP+SK  RF VL+++ +G     +K  
Sbjct: 61  ESRPISKRKRFRVLRLVESGRMDLVEKYL 89

>pdb|1J5E|Q Chain Q, Structure Of The Thermus Thermophilus 30s Ribosomal Subunit Length = 104

Iteration: 1
 Score = 42.7 bits (99), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 55  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 59
Query: 113 QCRPLSKTVRFNVLKVIPAG 132
           + RP+SK  RF VL+++ +G
Sbjct: 60  ESRPISKRKRFRVLRLVESG 79

>pdb|3MR8|Q Chain Q, Recognition Of The Amber Stop Codon By Release Factor Rf1. This Entry 3mr8 Contains 30s Ribosomal Subunit. The 50s Ribosomal Subunit Can Be Found In Pdb Entry 3ms1. Molecule B In The Same Asymmetric Unit Is Deposited As 3mrz (50s) And 3ms0 (30s). Length = 99

Iteration: 1
 Score = 42.4 bits (98), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 30/89 (33%), Positives = 46/89 (51%), Gaps = 5/89 (5%)
Query: 55  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 59
Query: 113 QCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
           + RP+SK  RF VL+++ +G     +K  
Sbjct: 60  ESRPISKRKRFRVLRLVESGRMDLVEKYL 88

>pdb|3FIC|Q Chain Q, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 30s Subunit And The Ligands Length = 100

Iteration: 1
 Score = 42.4 bits (98), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 30/89 (33%), Positives = 46/89 (51%), Gaps = 5/89 (5%)
Query: 55  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 59
Query: 113 QCRPLSKTVRFNVLKVIPAGSSGGAKKAF 141
           + RP+SK  RF VL+++ +G     +K  
Sbjct: 60  ESRPISKRKRFRVLRLVESGRMDLVEKYL 88

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	144
2xzm_Q	157	Ribosomal protein S17 containing protein; ribosome	4e-65
3iz6_P	161	40S ribosomal protein S11 (S17P); eukaryotic ribos	5e-64
3u5c_L	156	RP41, S18, YS12, 40S ribosomal protein S11-A; tran	3e-63
2zkq_q	158	40S ribosomal protein S11E; protein-RNA complex, 4	2e-62
3bbn_Q	142	Ribosomal protein S17; small ribosomal subunit, sp	5e-10
2vqe_Q	105	30S ribosomal protein S17; tRNA-binding, rRNA-bind	6e-10
3r8n_Q	80	30S ribosomal protein S17; protein biosynthesis, R	6e-10
1qd7_I	89	S17 ribosomal protein; 30S ribosomal subunit, low	2e-09

>2xzm_Q Ribosomal protein S17 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_Q Length = 157

 Score =  194 bits (495), Expect = 4e-65
 Identities = 90/155 (58%), Positives = 112/155 (72%), Gaps = 13/155 (8%)

Query: 1   MAEQTEKAFLKQPG-------------KGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFT 47
           M  Q ++A+ KQ G               G R++K+IGLGFKTP+EAIEGTY+DKKCPFT
Sbjct: 1   MDTQIQRAYQKQDGVFLNSKKLLAKKTSAGVRYYKNIGLGFKTPKEAIEGTYVDKKCPFT 60

Query: 48  GTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGD 107
             +SIRG+I+ G   S KMNRT+I+RR+YLH+V+KY RYEKRH NIP HISPCF VKEGD
Sbjct: 61  SNLSIRGKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVHISPCFSVKEGD 120

Query: 108 HVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 142
            ++ GQCRP+SKTVRFN L+V+P    G  +K F 
Sbjct: 121 ILVAGQCRPISKTVRFNALQVVPNEIIGSVRKQFL 155

>3iz6_P 40S ribosomal protein S11 (S17P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} Length = 161

 Score =  192 bits (488), Expect = 5e-64
 Identities = 138/160 (86%), Positives = 142/160 (88%), Gaps = 17/160 (10%)

Query: 1   MAEQTEKAFLKQPG---------------KGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 45
           MAEQTEKAFLKQP                KGGNRFWKSIGLGFKTPREAIEGTYIDKKCP
Sbjct: 1   MAEQTEKAFLKQPKVFLSSKKSGKGKKPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCP 60

Query: 46  FTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE 105
           FTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH+SPCFRVKE
Sbjct: 61  FTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKE 120

Query: 106 GDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGA--KKAFTA 143
           GDHVIIGQCRPLSKTVRFNVLKVIPAGS+GG+  KKAFTA
Sbjct: 121 GDHVIIGQCRPLSKTVRFNVLKVIPAGSTGGSGGKKAFTA 160

>3u5c_L RP41, S18, YS12, 40S ribosomal protein S11-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_P 3o30_F 3o2z_F 3u5g_L 3jyv_Q* 1s1h_Q Length = 156

 Score =  190 bits (483), Expect = 3e-63
 Identities = 90/152 (59%), Positives = 111/152 (73%), Gaps = 12/152 (7%)

Query: 1   MAEQTEKAFLKQPG----------KGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTV 50
           +  Q+E+AF KQP           K   R++K+ GLGFKTP+ AIEG+YIDKKCPFTG V
Sbjct: 5   LTVQSERAFQKQPHIFNNPKVKTSKRTKRWYKNAGLGFKTPKTAIEGSYIDKKCPFTGLV 64

Query: 51  SIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI 110
           SIRG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H+SP FRV+ GD V 
Sbjct: 65  SIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVT 124

Query: 111 IGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 142
           +GQCRP+SKTVRFNV+KV  A  +G A K F 
Sbjct: 125 VGQCRPISKTVRFNVVKVSAA--AGKANKQFA 154

>2zkq_q 40S ribosomal protein S11E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 3jyv_Q* 1s1h_Q Length = 158

 Score =  187 bits (477), Expect = 2e-62
 Identities = 93/159 (58%), Positives = 114/159 (71%), Gaps = 20/159 (12%)

Query: 1   MAE-QTEKAFLKQPG---------------KGGNRFWKSIGLGFKTPREAIEGTYIDKKC 44
           MA+ QTE+A+ KQP                +   R++K+IGLGFKTP+EAIEGTYIDKKC
Sbjct: 1   MADIQTERAYQKQPTIFQNKKRVLLGETGKEKLPRYYKNIGLGFKTPKEAIEGTYIDKKC 60

Query: 45  PFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFR-V 103
           PFTG VSIRGRIL+G     KM RTI++RR+YLH+++KY R+EKRH N+  H+SPCFR V
Sbjct: 61  PFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDV 120

Query: 104 KEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 142
           + GD V +G+CRPLSKTVRFNVLKV  A    G KK F 
Sbjct: 121 QIGDIVTVGECRPLSKTVRFNVLKVTKA---AGTKKQFQ 156

>3bbn_Q Ribosomal protein S17; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 142

 Score = 53.3 bits (128), Expect = 5e-10
 Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 5/77 (6%)

Query: 55  RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           + + G    A  ++T+ V   R   H   KY+R  +      AH  P  + K GD V + 
Sbjct: 61  KTMQGRVVCATSDKTVAVEVVRLAPH--PKYKRRVRMKKKYQAH-DPDNQFKVGDVVRLE 117

Query: 113 QCRPLSKTVRFNVLKVI 129
           + RP+SKT  F  L VI
Sbjct: 118 KSRPISKTKSFVALPVI 134

>2vqe_Q 30S ribosomal protein S17; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: b.40.4.5 PDB: 1gix_T* 1hnw_Q* 1hnx_Q* 1hnz_Q* 1hr0_Q 1ibk_Q* 1ibl_Q* 1ibm_Q 1jgo_T* 1jgp_T* 1jgq_T* 1ml5_T* 1xmo_Q* 1xmq_Q* 1xnq_Q* 1xnr_Q* 1yl4_T 2b64_Q* 2b9m_Q* 2b9o_Q* ... Length = 105

 Score = 51.9 bits (125), Expect = 6e-10
 Identities = 28/77 (36%), Positives = 40/77 (51%), Gaps = 5/77 (6%)

Query: 55  RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           ++L G   S KM +T+ V   R + H    Y +  KR     AH  P  + K GD V I 
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPH--PLYGKVIKRSKKYLAH-DPEEKYKLGDVVEII 60

Query: 113 QCRPLSKTVRFNVLKVI 129
           + RP+SK  RF VL+++
Sbjct: 61  ESRPISKRKRFRVLRLV 77

>1qd7_I S17 ribosomal protein; 30S ribosomal subunit, low resolution model, ribosome; 5.50A {Thermus thermophilus} SCOP: i.1.1.3 PDB: 1eg0_G 1rip_A Length = 89

 Score = 50.3 bits (121), Expect = 2e-09
 Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 5/79 (6%)

Query: 53  RGRILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI 110
           + ++  G   S KM++TI V       H    Y +  K      AH       K GD V 
Sbjct: 1   QRKVYVGRVVSDKMDKTITVLVETYKKH--PLYGKRVKYSKKYKAH-DEHNEAKVGDIVK 57

Query: 111 IGQCRPLSKTVRFNVLKVI 129
           I + RPLS T RF +++++
Sbjct: 58  IMETRPLSATKRFRLVEIV 76

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	144
2xzm_Q	157	Ribosomal protein S17 containing protein; ribosome	100.0
3u5c_L	156	RP41, S18, YS12, 40S ribosomal protein S11-A; tran	100.0
2zkq_q	158	40S ribosomal protein S11E; protein-RNA complex, 4	100.0
3iz6_P	161	40S ribosomal protein S11 (S17P); eukaryotic ribos	100.0
3j20_R	113	30S ribosomal protein S17P; archaea, archaeal, KIN	100.0
3bbn_Q	142	Ribosomal protein S17; small ribosomal subunit, sp	100.0
1qd7_I	89	S17 ribosomal protein; 30S ribosomal subunit, low	100.0
3r8n_Q	80	30S ribosomal protein S17; protein biosynthesis, R	100.0
2vqe_Q	105	30S ribosomal protein S17; tRNA-binding, rRNA-bind	100.0

>2xzm_Q Ribosomal protein S17 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_Q

Probab=100.00  E-value=1.5e-70  Score=428.01  Aligned_cols=144  Identities=62%  Similarity=1.111  Sum_probs=137.3

Q ss_pred             CchhhhHhhccCC-------------CCCCCeeeeeecccccCCcccccccccCcCCCceeeeeEeceEEEEEEEecCCC
Q 032281            1 MAEQTEKAFLKQP-------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMN   67 (144)
Q Consensus         1 m~~~~~~a~~kq~-------------~~~~~r~~~~igl~~k~P~~~~~~~y~D~kcPf~g~~sirg~il~G~VvS~KM~   67 (144)
                      ||+|+|||||||+             +++++||++||||||++|++||+|+|||++|||||||||||++|+|+|+|++|+
T Consensus         1 m~~q~e~a~qkq~~i~~~~~~~~~~~~~~~~r~~k~iGl~~k~P~~~~~~~~~D~kCPf~G~lsvRgr~l~G~VVS~KMd   80 (157)
T 2xzm_Q            1 MDTQIQRAYQKQDGVFLNSKKLLAKKTSAGVRYYKNIGLGFKTPKEAIEGTYVDKKCPFTSNLSIRGKIIKGLVISTKMN   80 (157)
T ss_dssp             CTTTTSSSSCCCCSSCCGGGGGGSSCCSSSCCCCCCCCSSCCCCHHHHTCCCCCTTCSSSSSCCCCSCEEEEEEEECCST
T ss_pred             CcchhhHhhccCcceeecceehhccccccCceeEEecccCCcCChHHhcccccCCCCCCccceeeeeEEEEEEEEEecCC
Confidence            8999999999994             457789999999999999999999999999999999999999999999999999


Q ss_pred             CeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecCCCCCcccccccC
Q 032281           68 RTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM  144 (144)
Q Consensus        68 KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~~~~~~k~f~~f  144 (144)
                      |||+|++++++|||+|+|+++|+++|+|||+|||+|++||+|+|+|||||||||+|+|++|++++..++++|||++|
T Consensus        81 KTIvV~ve~~~~hpkY~K~vkr~kKy~AHDee~n~~kvGD~V~I~EcRPLSKtKrw~Vv~I~~ka~~g~~~k~f~~f  157 (157)
T 2xzm_Q           81 RTVIIRRDYLHYVRKYNRYEKRHRNIPVHISPCFSVKEGDILVAGQCRPISKTVRFNALQVVPNEIIGSVRKQFLLF  157 (157)
T ss_dssp             TEEEEEEEEEEEETTTTEEEEEEEEEEEECCTTSCCCTTCEEEEEECCCCSSSCCEEEEEECCCCCCSCTTTCCCCC
T ss_pred             ccEEEEEEEEEecCccceEeecceeEEEECCCCCCCCCCCEEEEEEcCCCCCcEEEEEEEEEeccccCccchhhhcC
Confidence            99999999999999999999999999999988999999999999999999999999999999886533478999998

>3u5c_L RP41, S18, YS12, 40S ribosomal protein S11-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_P 3o30_F 3o2z_F 3u5g_L 3jyv_Q* 1s1h_Q

Probab=100.00  E-value=3.1e-70  Score=425.70  Aligned_cols=140  Identities=64%  Similarity=1.097  Sum_probs=134.3

Q ss_pred             hhhhHhhccCC----------CCCCCeeeeeecccccCCcccccccccCcCCCceeeeeEeceEEEEEEEecCCCCeEEE
Q 032281            3 EQTEKAFLKQP----------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIV   72 (144)
Q Consensus         3 ~~~~~a~~kq~----------~~~~~r~~~~igl~~k~P~~~~~~~y~D~kcPf~g~~sirg~il~G~VvS~KM~KTvvV   72 (144)
                      +|+|+|||||+          +++.+||++||||||++|++||||+|||++|||||||||||++|+|+|+|++|+|||+|
T Consensus         7 ~q~e~a~qkq~~i~~~~~~~~~~~~~r~~~~iGl~~k~P~~a~~g~y~D~kCPf~G~lsvRgr~l~G~VVS~KMdKTIvV   86 (156)
T 3u5c_L            7 VQSERAFQKQPHIFNNPKVKTSKRTKRWYKNAGLGFKTPKTAIEGSYIDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVI   86 (156)
T ss_dssp             SSCSSSCCCCTTCCCCSSSCCSSSSCCCCCCCSTTCCCCHHHHHCCCCCTTCTTTSSCCEEEEEEEEEEEECCSTTEEEE
T ss_pred             hhhhhhhccCcceeecccccccccCceeeeecCcCccCChhhccceeccccCCcccceeEeeEEEEEEEEeecCCCeEEE
Confidence            39999999994          46788999999999999999999999999999999999999999999999999999999


Q ss_pred             EEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecCCCCCcccccccC
Q 032281           73 RRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM  144 (144)
Q Consensus        73 ~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~~~~~~k~f~~f  144 (144)
                      ++++++|||+|+|+++|+++|+|||+|||+|++||+|+|+|||||||||+|+|++|++++.  +++|||++|
T Consensus        87 ~ve~~~~hpkY~K~vkr~kKy~AHDe~~n~~kvGD~V~I~EcRPLSKtKrw~Vv~Iv~ka~--~~~k~f~~f  156 (156)
T 3u5c_L           87 RRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVTVGQCRPISKTVRFNVVKVSAAAG--KANKQFAKF  156 (156)
T ss_dssp             EEEEEEEEGGGTEEEEEEEEEEEECCTTSCCCTTCEEEEEEEEEEETTEEEEEEEECCCCS--SSGGGCCCC
T ss_pred             EEEEEeecCccceEEECceEEEEECCCcCcCCCCCEEEEEecccCCCcEeEEEEEEEecCC--CcccccccC
Confidence            9999999999999999999999999779999999999999999999999999999999963  579999998

>2zkq_q 40S ribosomal protein S11E; protein-RNA complex, 40S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 3jyv_Q* 1s1h_Q

Probab=100.00  E-value=1.9e-69  Score=422.04  Aligned_cols=141  Identities=65%  Similarity=1.143  Sum_probs=73.1

Q ss_pred             Cch-hhhHhhccCC---------------CCCCCeeeeeecccccCCcccccccccCcCCCceeeeeEeceEEEEEEEec
Q 032281            1 MAE-QTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSA   64 (144)
Q Consensus         1 m~~-~~~~a~~kq~---------------~~~~~r~~~~igl~~k~P~~~~~~~y~D~kcPf~g~~sirg~il~G~VvS~   64 (144)
                      ||+ |+|||||||+               +++++||+|||||||++|+|||+|+|||++|||||+|||||++|+|+|+|+
T Consensus         1 m~~~q~e~afqkq~~i~~~~~~~~~~~~~~~~~~r~~k~iGl~~k~P~~~~~~~~~D~kCPf~G~lsvRGr~l~G~VVS~   80 (158)
T 2zkq_q            1 MADIQTERAYQKQPTIFQNKKRVLLGETGKEKLPRYYKNIGLGFKTPKEAIEGTYIDKKCPFTGNVSIRGRILSGVVTKM   80 (158)
T ss_dssp             ----------------------------------------------------------------------CEEEEEEEEC
T ss_pred             CcchhhhhhhccCcceeecceehhccccccccCceEEEecccCccCChHHhcccccCCCCCCccccceeeEEEEEEEEEc
Confidence            888 9999999993               346789999999999999999999999999999999999999999999999


Q ss_pred             CCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCC-CCCCCCEEEEeeeecCCCeeeEEEEEeeecCCCCCccccccc
Q 032281           65 KMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCF-RVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTA  143 (144)
Q Consensus        65 KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~-~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~~~~~~k~f~~  143 (144)
                      +|+|||+|++++++|||+|+|+++|+++|+|||+||| +|++||+|+|+|||||||||+|+|++|++++   +++|||++
T Consensus        81 KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~~n~~~kvGD~V~I~E~RPLSKtKrw~Vv~I~~~~---~~~k~f~~  157 (158)
T 2zkq_q           81 KMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKVTKAA---GTKKQFQK  157 (158)
T ss_dssp             SSSCEEEEEEEEECSSTTCCCEEEEEEEECCBCCSSCCCC-CCCEEEEECCSCSSSCC-CEEEEEEEC------------
T ss_pred             cCCccEEEEEEEEEecCccceeeecceeEEEECCcccCcCCCCCEEEEEEccccCCcEEEEEEEEecCC---Ccchhhhc
Confidence            9999999999999999999999999999999997788 8999999999999999999999999999754   46899998


Q ss_pred             C
Q 032281          144 M  144 (144)
Q Consensus       144 f  144 (144)
                      |
T Consensus       158 f  158 (158)
T 2zkq_q          158 F  158 (158)
T ss_dssp             -
T ss_pred             C
Confidence            8

>3iz6_P 40S ribosomal protein S11 (S17P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}

Probab=100.00  E-value=5.5e-70  Score=426.08  Aligned_cols=143  Identities=97%  Similarity=1.532  Sum_probs=84.0

Q ss_pred             CchhhhHhhccCC---------------CCCCCeeeeeecccccCCcccccccccCcCCCceeeeeEeceEEEEEEEecC
Q 032281            1 MAEQTEKAFLKQP---------------GKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAK   65 (144)
Q Consensus         1 m~~~~~~a~~kq~---------------~~~~~r~~~~igl~~k~P~~~~~~~y~D~kcPf~g~~sirg~il~G~VvS~K   65 (144)
                      ||+|+|+|||||+               +++.+|||+||||||++|++||||+|||++|||||||||||++|+|+|+|++
T Consensus         1 ~~~q~e~a~qkq~~i~~~~k~~~~~~~~~~~~~r~~k~iGl~~k~P~~a~~g~y~D~kCPf~G~lsiRgril~G~VVS~K   80 (161)
T 3iz6_P            1 MAEQTEKAFLKQPKVFLSSKKSGKGKKPGKGGNRFWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRIIAGTCHSAK   80 (161)
T ss_dssp             ---------------------------------------CCCCCCEEEECCCCSSSSCCSEEEEEEEEEEECTTTCCEEE
T ss_pred             CcchhhhhhccCccceecceeccccccccccCceEEEecCcCCCCChHHhcCcccccCCCccceeEEeeEEEEEEEEecc
Confidence            8999999999993               3467899999999999999999999999999999999999999999999999


Q ss_pred             CCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecCCCC--Cccccccc
Q 032281           66 MNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSG--GAKKAFTA  143 (144)
Q Consensus        66 M~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~~~--~~~k~f~~  143 (144)
                      |+|||+|++++++|||+|+|+++++++|+|||+|||+|++||+|+|+|||||||||+|+|++|+++++.+  +.+|||..
T Consensus        81 MdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~~n~~kvGD~V~I~EcRPLSKtKrw~Vv~Iv~~~~~~~~~~~k~f~~  160 (161)
T 3iz6_P           81 MNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSTGGSGGKKAFTA  160 (161)
T ss_dssp             EEEEEEEECTTCCCCSSCEEEEEECCCSSSSCCEEEEECCCCCC------------------------------------
T ss_pred             CCCeEEEEEEEEEecCccceEEECceeEEEECCCCCcCCCCCEEEEEeccCCCCcEeEEEEEEEecCcccccccchhccc
Confidence            9999999999999999999999999999999966999999999999999999999999999999997653  56899964

>3j20_R 30S ribosomal protein S17P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=1.2e-55  Score=328.67  Aligned_cols=109  Identities=42%  Similarity=0.766  Sum_probs=104.3

Q ss_pred             eeeecccccCCcccccccccCcCCCceeeeeEeceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCC
Q 032281           21 WKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPC  100 (144)
Q Consensus        21 ~~~igl~~k~P~~~~~~~y~D~kcPf~g~~sirg~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~  100 (144)
                      |+||||||++|+++    |+|++|||||||||||++|+|+|+|+||+|||+|+++|++|||+|+||++++++|+|||+||
T Consensus         2 m~~igl~~~~p~~~----~~d~~cPf~G~~~vrgr~l~G~VvS~KM~KTivV~ve~~~~hpkY~K~~kr~kk~~aHDe~~   77 (113)
T 3j20_R            2 MRDIGLRVQPPAEK----CDDPKCPWHGNLKIHGRVFEGIVVSDKPRKTVTVERQYYFYLNKYERYELRRSKIHAHNPPC   77 (113)
T ss_dssp             CCCCCTTCCCCSSC----CCCSSSTTSSSCCCCSCEEEEEEEECCSTTEEEEEEEEEEEETTTTEEEEEEEEEEEECCTT
T ss_pred             chhcCCCCCCCccc----ccCCCCCCcceeeEeeEEEEEEEEeccCCceEEEEEEEEEEcCcccEEEECceEEEEECCCC
Confidence            68999999999765    55999999999999999999999999999999999999999999999999999999999659


Q ss_pred             CCCCCCCEEEEeeeecCCCeeeEEEEEeeecCC
Q 032281          101 FRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  133 (144)
Q Consensus       101 ~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~  133 (144)
                      |+|++||+|+|+|||||||||+|+|++|++++.
T Consensus        78 n~~~vGD~V~I~E~RPlSKtKr~~vv~i~~~a~  110 (113)
T 3j20_R           78 INAKVGDKVLIAETRPLSKTKHFVVVAVLERAE  110 (113)
T ss_dssp             SCCCTTSEEEEEECSCSSSSEEEEEEEECCCCC
T ss_pred             CCCCCCCEEEEEecccCCCcEeEEEEEEEeccc
Confidence            999999999999999999999999999999864

>3bbn_Q Ribosomal protein S17; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1

Probab=100.00  E-value=5e-43  Score=269.17  Aligned_cols=92  Identities=28%  Similarity=0.311  Sum_probs=75.8

Q ss_pred             CcCCCceeeeeEec-eEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCC
Q 032281           41 DKKCPFTGTVSIRG-RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSK  119 (144)
Q Consensus        41 D~kcPf~g~~sirg-~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSK  119 (144)
                      |++|||||+|+||| ++|.|+|+|+||+|||+|++++++|||+|+||++++++|+||| |.|+|++||+|+|+|||||||
T Consensus        46 ~~~cP~~G~lsvrg~k~l~G~VVS~KMdKTIvV~Ver~~~hpkY~K~vkr~kKy~AHD-e~n~~kvGD~V~I~E~RPLSK  124 (142)
T 3bbn_Q           46 PNHRMPALVPVIRAMKTMQGRVVCATSDKTVAVEVVRLAPHPKYKRRVRMKKKYQAHD-PDNQFKVGDVVRLEKSRPISK  124 (142)
T ss_dssp             --------------CCEEEEEEEECCSTTEEEEEEEEEEECSSSCSEEEEEEEEEEEC-TTCCCCTTEEEEEEECCCSSS
T ss_pred             CCcCCCCccccccceEEEEEEEEEccCCceEEEEEEEEEEcCccccEEecceEEEEEC-CCCCCCCCCEEEEEEccCCCC
Confidence            99999999999999 9999999999999999999999999999999999999999999 778999999999999999999


Q ss_pred             eeeEEEEEeeecCC
Q 032281          120 TVRFNVLKVIPAGS  133 (144)
Q Consensus       120 tK~f~V~~ii~~~~  133 (144)
                      +|+|+|++|++++.
T Consensus       125 tKrw~VveIveka~  138 (142)
T 3bbn_Q          125 TKSFVALPVIARAA  138 (142)
T ss_dssp             SCCEEECCCSEEEC
T ss_pred             cEEEEEEEEEeccc
Confidence            99999999999864

>1qd7_I S17 ribosomal protein; 30S ribosomal subunit, low resolution model, ribosome; 5.50A {Thermus thermophilus} SCOP: i.1.1.3 PDB: 1eg0_G 1rip_A

Probab=100.00  E-value=5.4e-36  Score=214.73  Aligned_cols=79  Identities=29%  Similarity=0.343  Sum_probs=75.9

Q ss_pred             ceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecCC
Q 032281           54 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  133 (144)
Q Consensus        54 g~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~  133 (144)
                      .++|+|+|+|++|+|||+|++++++|||+|+||++++++|+||| |.|+|++||+|+|+|||||||||+|+|++|++++.
T Consensus         2 ~k~l~G~VvS~Km~KTivV~ve~~~~hp~Y~K~~kr~kk~~aHD-e~n~~k~GD~V~I~E~RPlSKtK~~~vv~iv~~a~   80 (89)
T 1qd7_I            2 RKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHD-EHNEAKVGDIVKIMETRPLSATKRFRLVEIVEKAV   80 (89)
T ss_pred             cEEEEEEEEecCCCceEEEEEEEEEEcCccceEEeccEEEEEeC-CccCCCCCCEEEEEEcccCCCCEEEEEEEEEeece
Confidence            48999999999999999999999999999999999999999999 77899999999999999999999999999998764

>2vqe_Q 30S ribosomal protein S17; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: b.40.4.5 PDB: 1gix_T* 1hnw_Q* 1hnx_Q* 1hnz_Q* 1hr0_Q 1ibk_Q* 1ibl_Q* 1ibm_Q 1jgo_T* 1jgp_T* 1jgq_T* 1ml5_T* 1xmo_Q* 1xmq_Q* 1xnq_Q* 1xnr_Q* 1yl4_T 2b64_Q* 2b9m_Q* 2b9o_Q* ...

Probab=100.00  E-value=8.8e-35  Score=213.88  Aligned_cols=79  Identities=34%  Similarity=0.433  Sum_probs=75.9

Q ss_pred             ceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecCC
Q 032281           54 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  133 (144)
Q Consensus        54 g~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~  133 (144)
                      .++|.|+|+|++|+|||+|++++++|||+|+||++++++|+||| |.|+|++||+|+|+|||||||||+|+|++|++++.
T Consensus         3 ~k~l~G~VvS~Km~KTivV~ver~~~hpkY~K~~kr~kk~~aHD-e~n~~k~GD~V~I~E~RPlSKtKr~~vv~iv~~a~   81 (105)
T 2vqe_Q            3 KKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHD-PEEKYKLGDVVEIIESRPISKRKRFRVLRLVESGR   81 (105)
T ss_dssp             CCEEEEEEEEEEETTEEEEEEEEEEECTTTCCEEEEEEEEEEEC-TTCCCCTTCEEEEEEEEEEETTEEEEEEEEEECCC
T ss_pred             ceEEEEEEEecCCCcEEEEEEEEEEEcCccceEEecceEEEEEC-CCCCCCCCCEEEEEEcccCCCCEEEEEEEEeeccc
Confidence            47999999999999999999999999999999999999999999 67999999999999999999999999999998863

---

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	144
d2uubq1	100	b.40.4.5 (Q:2-101) Ribosomal protein S17 {Thermus	8e-24
d2gy9q1	78	b.40.4.5 (Q:5-82) Ribosomal protein S17 {Escherich	1e-21
d1ripa_	81	b.40.4.5 (A:) Ribosomal protein S17 {Bacillus stea	4e-21

>d2uubq1 b.40.4.5 (Q:2-101) Ribosomal protein S17 {Thermus thermophilus [TaxId: 274]} Length = 100

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Ribosomal protein S17
species: Thermus thermophilus [TaxId: 274]

 Score = 86.7 bits (215), Expect = 8e-24
 Identities = 26/75 (34%), Positives = 37/75 (49%), Gaps = 1/75 (1%)

Query: 55  RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQC 114
           ++L G   S KM +T+ V          Y +  KR     AH  P  + K GD V I + 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAH-DPEEKYKLGDVVEIIES 61

Query: 115 RPLSKTVRFNVLKVI 129
           RP+SK  RF VL+++
Sbjct: 62  RPISKRKRFRVLRLV 76

>d2gy9q1 b.40.4.5 (Q:5-82) Ribosomal protein S17 {Escherichia coli [TaxId: 562]} Length = 78

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Ribosomal protein S17
species: Escherichia coli [TaxId: 562]

 Score = 80.5 bits (199), Expect = 1e-21
 Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 1/75 (1%)

Query: 55  RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQC 114
           R L G   S KM ++I+V          Y ++ KR + +  H         GD V I +C
Sbjct: 1   RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENN-ECGIGDVVEIREC 59

Query: 115 RPLSKTVRFNVLKVI 129
           RPLSKT  + +++V+
Sbjct: 60  RPLSKTKSWTLVRVV 74

>d1ripa_ b.40.4.5 (A:) Ribosomal protein S17 {Bacillus stearothermophilus [TaxId: 1422]} Length = 81

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Ribosomal protein S17
species: Bacillus stearothermophilus [TaxId: 1422]

 Score = 79.3 bits (196), Expect = 4e-21
 Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 53  RGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 112
           + ++  G   S KM++TI V          Y +  K      AH       K GD V I 
Sbjct: 1   QRKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHN-EAKVGDIVKIM 59

Query: 113 QCRPLSKTVRFNVLKVI 129
           + RPLS T RF +++++
Sbjct: 60  ETRPLSATKRFRLVEIV 76

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	144
d2gy9q1	78	Ribosomal protein S17 {Escherichia coli [TaxId: 56	100.0
d2uubq1	100	Ribosomal protein S17 {Thermus thermophilus [TaxId	100.0
d1ripa_	81	Ribosomal protein S17 {Bacillus stearothermophilus	99.97

>d2gy9q1 b.40.4.5 (Q:5-82) Ribosomal protein S17 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Ribosomal protein S17
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=9.6e-35  Score=201.84  Aligned_cols=77  Identities=31%  Similarity=0.466  Sum_probs=74.6

Q ss_pred             eEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecC
Q 032281           55 RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG  132 (144)
Q Consensus        55 ~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~  132 (144)
                      ++|.|+|+|++|+|||+|+++++++||+|+|+++++++|+||| |.|.|++||+|+|+|||||||+|+|+|++|++++
T Consensus         1 r~l~G~Vvs~km~KTv~V~v~r~~~h~ky~K~~~~~kky~aHD-e~~~~~~GD~V~I~e~rPlSK~K~~~v~~iv~ka   77 (78)
T d2gy9q1           1 RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHD-ENNECGIGDVVEIRECRPLSKTKSWTLVRVVEKA   77 (78)
T ss_dssp             CEEEEEEEECCSSSEEEEEEEEEEECSSSCCEEEEEEEEEEEC-TTCCCCTTCEEEEEECSCSSSSCCEEEEEEEESC
T ss_pred             CEEEEEEEecCCCCcEEEEEEEEEEcCccCEEEEeeEEEEEEC-CCCCCccccEEEEEEcCcCCCcEEEEEEEEEecc
Confidence            5899999999999999999999999999999999999999999 7789999999999999999999999999999885

>d2uubq1 b.40.4.5 (Q:2-101) Ribosomal protein S17 {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Ribosomal protein S17
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=5.1e-34  Score=206.37  Aligned_cols=79  Identities=34%  Similarity=0.433  Sum_probs=76.1

Q ss_pred             ceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecCC
Q 032281           54 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  133 (144)
Q Consensus        54 g~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~~  133 (144)
                      .++|.|+|+|++|+|||+|++++++|||+|+|+++++++|+||| |+|.|++||+|+|+|||||||+|+|+|++|++++.
T Consensus         2 kr~l~G~Vvs~km~KTv~V~v~r~~~h~ky~K~~~r~kk~~vHD-~~n~~k~GD~V~I~e~rPlSK~K~~~v~~Iv~ka~   80 (100)
T d2uubq1           2 KKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHD-PEEKYKLGDVVEIIESRPISKRKRFRVLRLVESGR   80 (100)
T ss_dssp             CCEEEEEECCCCBTTEEEEEEEEEEEETTTEEEEEEEEEEEEEC-TTCCCCTTCEEEEEEEEEEETTEEEEEEEEEECCC
T ss_pred             CeEEEEEEEEcCCCCcEEEEEEEEEeccccCEEEEeeEEEEEEC-CCCCCCCCCEEEEEECcCCCCceEEEEEEEEeccC
Confidence            47999999999999999999999999999999999999999999 78899999999999999999999999999999864

>d1ripa_ b.40.4.5 (A:) Ribosomal protein S17 {Bacillus stearothermophilus [TaxId: 1422]}

class: All beta proteins
fold: OB-fold
superfamily: Nucleic acid-binding proteins
family: Cold shock DNA-binding domain-like
domain: Ribosomal protein S17
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.97  E-value=3.1e-35  Score=205.68  Aligned_cols=79  Identities=29%  Similarity=0.354  Sum_probs=76.1

Q ss_pred             eceEEEEEEEecCCCCeEEEEEeEEEeeceeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeeeecCCCeeeEEEEEeeecC
Q 032281           53 RGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG  132 (144)
Q Consensus        53 rg~il~G~VvS~KM~KTvvV~v~~~~~~pkY~K~~kr~kk~~vHd~p~~~~kvGD~V~I~ecRPlSKtK~f~V~~ii~~~  132 (144)
                      +.++|.|+|+|++|+|||+|++++++|||+|+|+++++++|+||| |.|+|++||+|+|.|||||||+|+|+|++|++++
T Consensus         1 ~rk~~~G~Vvs~km~KTv~V~v~r~~~~~ky~K~~kr~kk~~aHd-~~~~~~~GD~V~I~e~rPlSK~K~~~v~~Ii~ka   79 (81)
T d1ripa_           1 QRKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHD-EHNEAKVGDIVKIMETRPLSATKRFRLVEIVEKA   79 (81)
T ss_dssp             CCSCBCCEESCCCSSSCSCCCBCCSCCCSCSSSCCCCSBCCCCCC-CSTTCSSCEECCBCCCCCSSSCCCCCCCCCBSSS
T ss_pred             CCcEEEEEEEecCCCCcEEEEEEEEEEcCccCEEEEeeEEEEEEC-CCCCCccCCEEEEEEccCCCCCeeEEEEEEehHh
Confidence            467899999999999999999999999999999999999999999 7889999999999999999999999999999885