Citrus Sinensis ID: 032855

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130--
Protein Sequence
MFSYQSVSIRVWERTRVLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Secondary Structure (PSIPRED)
cccEEEEEEEEEEEEEccccccccccccccccccccEEEEEEEEEEEEEEEccccccEEEEEEEEEEEccccEEEEEEEEEEEEcccccccccccEEEEcEEccccccEEEEEEEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEEEccccccccccccEcccccccccEEEEEEEEEEEEEEEcccccEEEEEHHHHHHHHHHHHHHHHcccccccccccEEEEcccEEEEEEEcccccEEEEEEEEEEcccccccccccEccc
Coil and Loop (DISEMBL)
MFSYQSVSIRVWERTRVLMSLCfsgtyidkkcpftgtvsirgrilagtchsakmNRTIIVRRNYLHFVKKYQRYEkrhsnipahispcfrvkegdhviigqcrplsktvrfnvlkvipagssggaKKAFTAM
Flexible Loop (DISEMBL)
mfsyqsvsirvwERTRVLMSLCFsgtyidkkcpftgtVSIRGRILagtchsakmnrtiivRRNYLHFVKKYQRyekrhsnipahispcfrvKEGDHVIIGQcrplsktvrFNVLkvipagssggakkaftam
Low Complexity Region (SEG)
MFSYQSVSIRVWERTRVLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Disordered region (IsUnstruct)
*****SVSIRVWERTRVLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIP**************
Disordered Region (DISOPRED)
*******SIRVWERTRVLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKV*********KKAFTAM
Disordered Region (DISEMBL)
MFSYQSVSIRVWERTRVLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Disordered Region (DISPRO)
*****SVSIRVWERTRVLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFSYQSVSIRVWERTRVLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
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	132	2.2.26 [Sep-21-2011]
Q9M5M1	159	40S ribosomal protein S11	N/A	no	0.825	0.685	0.954	7e-58
P17093	159	40S ribosomal protein S11	yes	no	0.825	0.685	0.944	1e-56
P42733	159	40S ribosomal protein S11	yes	no	0.825	0.685	0.899	8e-54
P16181	160	40S ribosomal protein S11	no	no	0.825	0.681	0.890	2e-53
O65569	159	40S ribosomal protein S11	no	no	0.825	0.685	0.880	2e-52
P25460	159	40S ribosomal protein S11	N/A	no	0.818	0.679	0.935	4e-51
P42756	157	40S ribosomal protein S11	N/A	no	0.810	0.681	0.727	2e-42
Q54S90	155	40S ribosomal protein S11	yes	no	0.818	0.696	0.694	1e-38
P0CX48	156	40S ribosomal protein S11	yes	no	0.803	0.679	0.638	1e-36
P0CX47	156	40S ribosomal protein S11	yes	no	0.803	0.679	0.638	1e-36

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

 Score =  221 bits (564), Expect = 7e-58,   Method: Compositional matrix adjust.
 Identities = 104/109 (95%), Positives = 107/109 (98%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPA
Sbjct: 51  DGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           H+SPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGG KKAFTA+
Sbjct: 111 HVSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGVKKAFTAI 159

Euphorbia esula (taxid: 3993)

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

 Score =  218 bits (554), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 103/109 (94%), Positives = 104/109 (95%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTG VSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGNVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           HISP FRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSS GAKKAFT M
Sbjct: 111 HISPAFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSSGAKKAFTGM 159

Glycine max (taxid: 3847)

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

 Score =  208 bits (529), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 98/109 (89%), Positives = 101/109 (92%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            G YID KCPFTGTVSIRGRILAGTCHSAKM RTIIVRRNYLHFVKKYQRYEKRHSNIPA
Sbjct: 51  DGAYIDSKCPFTGTVSIRGRILAGTCHSAKMQRTIIVRRNYLHFVKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           H+SPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG+S   KKAFT +
Sbjct: 111 HVSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGASAFGKKAFTGV 159

Arabidopsis thaliana (taxid: 3702)

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

 Score =  206 bits (525), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 98/110 (89%), Positives = 102/110 (92%), Gaps = 1/110 (0%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            G Y+DKKCPFTGTVSIRGRILAGTCHSAKM RTIIVRR+YLHFVKKYQRYEKRHSNIPA
Sbjct: 51  DGAYVDKKCPFTGTVSIRGRILAGTCHSAKMQRTIIVRRDYLHFVKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGG-AKKAFTAM 132
           H+SPCFRVKEGDH+IIGQCRPLSKTVRFNVLKVIPAGSS    KKAFT M
Sbjct: 111 HVSPCFRVKEGDHIIIGQCRPLSKTVRFNVLKVIPAGSSSSFGKKAFTGM 160

Arabidopsis thaliana (taxid: 3702)

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

 Score =  203 bits (517), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 96/109 (88%), Positives = 101/109 (92%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYID+KCPFTGTVSIRGRIL+GTCHSAKM RTIIVRR+YLHFVKKY+RYEKRHSNIPA
Sbjct: 51  EGTYIDQKCPFTGTVSIRGRILSGTCHSAKMQRTIIVRRDYLHFVKKYRRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           H+SPCFRVKEGD V IGQCRPLSKTVRFNVLKVIPAGSS   KKAFT M
Sbjct: 111 HVSPCFRVKEGDRVTIGQCRPLSKTVRFNVLKVIPAGSSSIGKKAFTGM 159

Arabidopsis thaliana (taxid: 3702)

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

 Score =  199 bits (506), Expect = 4e-51,   Method: Compositional matrix adjust.
 Identities = 101/108 (93%), Positives = 104/108 (96%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTA 131
           HISPCFRVKEGDHVIIGQCRPLSKTVRFNV+KVIPAGS+   KKAFTA
Sbjct: 111 HISPCFRVKEGDHVIIGQCRPLSKTVRFNVVKVIPAGSAAAGKKAFTA 158

Zea mays (taxid: 4577)

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

 Score =  170 bits (430), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 80/110 (72%), Positives = 94/110 (85%), Gaps = 3/110 (2%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            G Y+DKKCPFTG VSIRGRIL G   S+KM RTIIVRR+YLHF+ KY RYEKRH+NIPA
Sbjct: 50  DGNYVDKKCPFTGNVSIRGRILTGVVKSSKMMRTIIVRRDYLHFIPKYARYEKRHTNIPA 109

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIP-AGSSGGAKKAFTAM 132
           H+SPCFRV++GD VIIGQCRPLSKT+RFNVL+VIP AG++G  KK+F+  
Sbjct: 110 HVSPCFRVRDGDTVIIGQCRPLSKTIRFNVLRVIPQAGATG--KKSFSGF 157

Dunaliella tertiolecta (taxid: 3047)

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

 Score =  158 bits (399), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 75/108 (69%), Positives = 84/108 (77%)

Query: 22  CFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNI 81
              GTYIDKKCPFT  VSIRG IL GT  S KM RT++VRRNYLH++KKY R+EKRHSNI
Sbjct: 48  AIEGTYIDKKCPFTSDVSIRGAILRGTVISTKMRRTLVVRRNYLHYIKKYNRFEKRHSNI 107

Query: 82  PAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
           PAH+SP F VKEGD V IGQCRPLSKTVRFNV+K   + +S    KAF
Sbjct: 108 PAHVSPAFNVKEGDSVTIGQCRPLSKTVRFNVIKHDISAASKKQFKAF 155

Dictyostelium discoideum (taxid: 44689)

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

 Score =  151 bits (382), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 69/108 (63%), Positives = 85/108 (78%), Gaps = 2/108 (1%)

Query: 22  CFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNI 81
              G+YIDKKCPFTG VSIRG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+
Sbjct: 48  AIEGSYIDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNV 107

Query: 82  PAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
           P H+SP FRV+ GD V +GQCRP+SKTVRFNV+KV  + ++G A K F
Sbjct: 108 PVHVSPAFRVQVGDIVTVGQCRPISKTVRFNVVKV--SAAAGKANKQF 153

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

>sp|P0CX47|RS11A_YEAST 40S ribosomal protein S11-A OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPS11A PE=1 SV=1

 Score =  151 bits (382), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 69/108 (63%), Positives = 85/108 (78%), Gaps = 2/108 (1%)

Query: 22  CFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNI 81
              G+YIDKKCPFTG VSIRG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+
Sbjct: 48  AIEGSYIDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNV 107

Query: 82  PAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
           P H+SP FRV+ GD V +GQCRP+SKTVRFNV+KV  + ++G A K F
Sbjct: 108 PVHVSPAFRVQVGDIVTVGQCRPISKTVRFNVVKV--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	132
255571087	159	40S ribosomal protein S11, putative [Ric	0.825	0.685	0.981	3e-57
62287477	159	RecName: Full=40S ribosomal protein S11	0.825	0.685	0.954	5e-56
224063643	159	predicted protein [Populus trichocarpa]	0.825	0.685	0.944	1e-55
255583494	159	40S ribosomal protein S11, putative [Ric	0.825	0.685	0.944	7e-55
356562904	159	PREDICTED: 40S ribosomal protein S11-lik	0.825	0.685	0.944	9e-55
351721866	159	40S ribosomal protein S11 [Glycine max]	0.825	0.685	0.944	9e-55
224137086	159	predicted protein [Populus trichocarpa]	0.825	0.685	0.935	2e-54
170054	141	ribosomal protein S11, partial [Glycine	0.825	0.773	0.944	3e-54
218200667	159	hypothetical protein OsI_28229 [Oryza sa	0.818	0.679	0.944	3e-54
326497551	159	predicted protein [Hordeum vulgare subsp	0.818	0.679	0.925	3e-54

>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 =  226 bits (575), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 107/109 (98%), Positives = 108/109 (99%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Sbjct: 111 HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 159

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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 =  221 bits (564), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 104/109 (95%), Positives = 107/109 (98%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPA
Sbjct: 51  DGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           H+SPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGG KKAFTA+
Sbjct: 111 HVSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGVKKAFTAI 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 =  220 bits (561), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 103/109 (94%), Positives = 107/109 (98%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTVS+RGRILAGTCHSAKMNRTIIVRRNYLH+VKKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGTVSVRGRILAGTCHSAKMNRTIIVRRNYLHWVKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           HISPCFR++EGDHV IGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM
Sbjct: 111 HISPCFRIREGDHVTIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 159

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255583494|ref|XP_002532505.1| 40S ribosomal protein S11, putative [Ricinus communis] gi|223527780|gb|EEF29881.1| 40S ribosomal protein S11, putative [Ricinus communis]

 Score =  218 bits (554), Expect = 7e-55,   Method: Compositional matrix adjust.
 Identities = 103/109 (94%), Positives = 105/109 (96%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTVSIRGRILAGTCHSAKM R+IIVRRNYLHF+KKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGTVSIRGRILAGTCHSAKMMRSIIVRRNYLHFIKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGG KKAFT M
Sbjct: 111 HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGGKKAFTGM 159

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356562904|ref|XP_003549708.1| PREDICTED: 40S ribosomal protein S11-like [Glycine max]

 Score =  218 bits (554), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 103/109 (94%), Positives = 104/109 (95%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTG VSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGNVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           HISP FRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSS GAKKAFT M
Sbjct: 111 HISPAFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSSGAKKAFTGM 159

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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 =  218 bits (554), Expect = 9e-55,   Method: Compositional matrix adjust.
 Identities = 103/109 (94%), Positives = 104/109 (95%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTG VSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGNVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           HISP FRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSS GAKKAFT M
Sbjct: 111 HISPAFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSSGAKKAFTGM 159

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224137086|ref|XP_002327018.1| predicted protein [Populus trichocarpa] gi|118481533|gb|ABK92709.1| unknown [Populus trichocarpa] gi|222835333|gb|EEE73768.1| predicted protein [Populus trichocarpa]

 Score =  216 bits (550), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 102/109 (93%), Positives = 106/109 (97%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTVSIRGRIL+GTCHSAKMNRTIIVRRNYLH+VKKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGTVSIRGRILSGTCHSAKMNRTIIVRRNYLHWVKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           HISPCFRV+EGD+VIIGQCRPLSKTVRFNVLKVIPAGSSGGAKK FT M
Sbjct: 111 HISPCFRVREGDYVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKVFTGM 159

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|170054|gb|AAA34006.1| ribosomal protein S11, partial [Glycine max]

 Score =  216 bits (549), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 103/109 (94%), Positives = 104/109 (95%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTG VSIRGRILAGTCHSAKMNRTIIVRRNYLHF+KKYQRYEKRHSNIPA
Sbjct: 33  EGTYIDKKCPFTGNVSIRGRILAGTCHSAKMNRTIIVRRNYLHFIKKYQRYEKRHSNIPA 92

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
           HISP FRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSS GAKKAFT M
Sbjct: 93  HISPAFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSSGAKKAFTGM 141

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218200667|gb|EEC83094.1| hypothetical protein OsI_28229 [Oryza sativa Indica Group]

 Score =  216 bits (549), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 102/108 (94%), Positives = 105/108 (97%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTA 131
           HISPCFRVKEGDHVIIGQCRPLSKTVRFNV+KVIPAGS+GG KKAF A
Sbjct: 111 HISPCFRVKEGDHVIIGQCRPLSKTVRFNVIKVIPAGSTGGGKKAFIA 158

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  216 bits (549), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 100/108 (92%), Positives = 105/108 (97%)

Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTV+IRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGTVAIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 110

Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTA 131
           HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKV+PAG++GG KKAF A
Sbjct: 111 HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVVPAGTTGGGKKAFIA 158

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	132
TAIR|locus:2172783	159	RPS11-BETA "ribosomal protein	0.818	0.679	0.907	1.3e-50
TAIR|locus:2101278	160	EMB1080 "embryo defective 1080	0.818	0.675	0.899	1.7e-50
TAIR|locus:2126639	159	AT4G30800 [Arabidopsis thalian	0.818	0.679	0.888	3.2e-49
ASPGD|ASPL0000026885	160	AN5222 [Emericella nidulans (t	0.787	0.65	0.707	8e-37
DICTYBASE|DDB_G0282601	155	rps11 "40S ribosomal protein S	0.787	0.670	0.710	1.3e-36
GENEDB_PFALCIPARUM|PFC0775w	161	PFC0775w "40S ribosomal protei	0.916	0.751	0.629	1.3e-36
SGD|S000002432	156	RPS11A "Protein component of t	0.780	0.660	0.657	4e-35
SGD|S000000252	156	RPS11B "Protein component of t	0.780	0.660	0.657	4e-35
UNIPROTKB|A0EZU4	161	A0EZU4 "40S ribosomal protein	0.772	0.633	0.679	6.5e-35
UNIPROTKB|A2Q0S6	161	rpS11 "Ribosomal protein S11"	0.772	0.633	0.669	1.1e-34

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

 Score = 526 (190.2 bits), Expect = 1.3e-50, P = 1.3e-50
 Identities = 98/108 (90%), Positives = 101/108 (93%)

Query:    25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
             G YID KCPFTGTVSIRGRILAGTCHSAKM RTIIVRRNYLHFVKKYQRYEKRHSNIPAH
Sbjct:    52 GAYIDSKCPFTGTVSIRGRILAGTCHSAKMQRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 111

Query:    85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
             +SPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG+S   KKAFT +
Sbjct:   112 VSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGASAFGKKAFTGV 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 = 525 (189.9 bits), Expect = 1.7e-50, P = 1.7e-50
 Identities = 98/109 (89%), Positives = 102/109 (93%)

Query:    25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
             G Y+DKKCPFTGTVSIRGRILAGTCHSAKM RTIIVRR+YLHFVKKYQRYEKRHSNIPAH
Sbjct:    52 GAYVDKKCPFTGTVSIRGRILAGTCHSAKMQRTIIVRRDYLHFVKKYQRYEKRHSNIPAH 111

Query:    85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGG-AKKAFTAM 132
             +SPCFRVKEGDH+IIGQCRPLSKTVRFNVLKVIPAGSS    KKAFT M
Sbjct:   112 VSPCFRVKEGDHIIIGQCRPLSKTVRFNVLKVIPAGSSSSFGKKAFTGM 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 = 513 (185.6 bits), Expect = 3.2e-49, P = 3.2e-49
 Identities = 96/108 (88%), Positives = 101/108 (93%)

Query:    25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
             GTYID+KCPFTGTVSIRGRIL+GTCHSAKM RTIIVRR+YLHFVKKY+RYEKRHSNIPAH
Sbjct:    52 GTYIDQKCPFTGTVSIRGRILSGTCHSAKMQRTIIVRRDYLHFVKKYRRYEKRHSNIPAH 111

Query:    85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM 132
             +SPCFRVKEGD V IGQCRPLSKTVRFNVLKVIPAGSS   KKAFT M
Sbjct:   112 VSPCFRVKEGDRVTIGQCRPLSKTVRFNVLKVIPAGSSSIGKKAFTGM 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

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

 Score = 396 (144.5 bits), Expect = 8.0e-37, P = 8.0e-37
 Identities = 75/106 (70%), Positives = 87/106 (82%)

Query:    25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
             G+YIDKKCPFTG VSIRGRIL G   S KM+RTII+RR YLH+V KY RYEKRH N+ AH
Sbjct:    55 GSYIDKKCPFTGMVSIRGRILTGRVVSTKMHRTIIIRREYLHYVPKYNRYEKRHKNLAAH 114

Query:    85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 130
             +SP FRV+EGD V +GQCRPLSKTVRFNVL+V+P   +G A KAF+
Sbjct:   115 VSPAFRVEEGDWVTVGQCRPLSKTVRFNVLRVLPR--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

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

 Score = 394 (143.8 bits), Expect = 1.3e-36, P = 1.3e-36
 Identities = 76/107 (71%), Positives = 84/107 (78%)

Query:    25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
             GTYIDKKCPFT  VSIRG IL GT  S KM RT++VRRNYLH++KKY R+EKRHSNIPAH
Sbjct:    51 GTYIDKKCPFTSDVSIRGAILRGTVISTKMRRTLVVRRNYLHYIKKYNRFEKRHSNIPAH 110

Query:    85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTA 131
             +SP F VKEGD V IGQCRPLSKTVRFNV+K      S  +KK F A
Sbjct:   111 VSPAFNVKEGDSVTIGQCRPLSKTVRFNVIK---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 = 394 (143.8 bits), Expect = 1.3e-36, P = 1.3e-36
 Identities = 78/124 (62%), Positives = 88/124 (70%)

Query:     9 IRVWERTRVLMSL---CFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYL 65
             IR W++  +  +       G Y+DKKCPFTG VSIRGRIL G   S KM RTII+RRNYL
Sbjct:    35 IRYWKKVGLGFATPKEAKEGVYVDKKCPFTGNVSIRGRILKGMVISNKMKRTIIIRRNYL 94

Query:    66 HFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGA 125
             H+VKKY R+EKRH NIP H SPCF VKEGD V +GQCRPLSKTVRFNVL V      G A
Sbjct:    95 HYVKKYNRFEKRHKNIPCHCSPCFDVKEGDIVTVGQCRPLSKTVRFNVLHVEKHQIFGSA 154

Query:   126 KKAF 129
             +K F
Sbjct:   155 RKQF 158

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

SGD|S000002432 RPS11A "Protein component of the small (40S) ribosomal subunit" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 380 (138.8 bits), Expect = 4.0e-35, P = 4.0e-35
 Identities = 69/105 (65%), Positives = 85/105 (80%)

Query:    25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
             G+YIDKKCPFTG VSIRG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H
Sbjct:    51 GSYIDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVH 110

Query:    85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
             +SP FRV+ GD V +GQCRP+SKTVRFNV+KV  + ++G A K F
Sbjct:   111 VSPAFRVQVGDIVTVGQCRPISKTVRFNVVKV--SAAAGKANKQF 153

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0030686 "90S preribosome" evidence=IDA

GO:0005622 "intracellular" evidence=IEA

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

GO:0003723 "RNA binding" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

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

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

GO:0002181 "cytoplasmic translation" evidence=IC

GO:0019843 "rRNA binding" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

SGD|S000000252 RPS11B "Protein component of the small (40S) ribosomal subunit" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 380 (138.8 bits), Expect = 4.0e-35, P = 4.0e-35
 Identities = 69/105 (65%), Positives = 85/105 (80%)

Query:    25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
             G+YIDKKCPFTG VSIRG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H
Sbjct:    51 GSYIDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVH 110

Query:    85 ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
             +SP FRV+ GD V +GQCRP+SKTVRFNV+KV  + ++G A K F
Sbjct:   111 VSPAFRVQVGDIVTVGQCRPISKTVRFNVVKV--SAAAGKANKQF 153

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

GO:0030686 "90S preribosome" evidence=IDA

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

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

GO:0002181 "cytoplasmic translation" evidence=IC

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0019843 "rRNA binding" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|A0EZU4 A0EZU4 "40S ribosomal protein S11" [Scophthalmus maximus (taxid:52904)]

 Score = 378 (138.1 bits), Expect = 6.5e-35, P = 6.5e-35
 Identities = 72/106 (67%), Positives = 83/106 (78%)

Query:    25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
             GTYIDKKCPFTG VSIRGRIL+G     KM RTI++RR+YLH+++KY R+EKRH NI  H
Sbjct:    56 GTYIDKKCPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNISVH 115

Query:    85 ISPCFR-VKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
             +SPCFR V  GD V +G+CRPLSKTVRFNVLKV  A    GAKK F
Sbjct:   116 LSPCFRDVSVGDIVTVGECRPLSKTVRFNVLKVTKAA---GAKKQF 158

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

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

 Score = 376 (137.4 bits), Expect = 1.1e-34, P = 1.1e-34
 Identities = 71/106 (66%), Positives = 83/106 (78%)

Query:    25 GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
             GTYIDKKCPFTG VSIRGRIL+G     KM RTI++RR+YLH+++KY R+EKRH N+  H
Sbjct:    56 GTYIDKKCPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNLSVH 115

Query:    85 ISPCFR-VKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
             +SPCFR V  GD V +G+CRPLSKTVRFNVLKV  A    GAKK F
Sbjct:   116 LSPCFRDVSVGDIVTVGECRPLSKTVRFNVLKVTKAA---GAKKQF 158

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P42756	RS11_DUNTE	No assigned EC number	0.7272	0.8106	0.6815	N/A	no
P42733	RS113_ARATH	No assigned EC number	0.8990	0.8257	0.6855	yes	no
Q0E9B6	RS11_DROME	No assigned EC number	0.6513	0.7954	0.6774	yes	no
O26120	RS17_METTH	No assigned EC number	0.5113	0.6666	0.8301	yes	no
Q46GA4	RS17_METBF	No assigned EC number	0.5172	0.6590	0.7981	yes	no
Q8PV41	RS17_METMA	No assigned EC number	0.5287	0.6590	0.7981	yes	no
P62280	RS11_HUMAN	No assigned EC number	0.6422	0.7954	0.6645	yes	no
P62281	RS11_MOUSE	No assigned EC number	0.6422	0.7954	0.6645	yes	no
P62282	RS11_RAT	No assigned EC number	0.6422	0.7954	0.6645	yes	no
Q3T0V4	RS11_BOVIN	No assigned EC number	0.6422	0.7954	0.6645	yes	no
P25460	RS11_MAIZE	No assigned EC number	0.9351	0.8181	0.6792	N/A	no
B8GKE2	RS17_METPE	No assigned EC number	0.5113	0.6666	0.8148	yes	no
P0CX48	RS11B_YEAST	No assigned EC number	0.6388	0.8030	0.6794	yes	no
P17093	RS11_SOYBN	No assigned EC number	0.9449	0.8257	0.6855	yes	no
Q12ZU2	RS17_METBU	No assigned EC number	0.5057	0.6590	0.7981	yes	no
Q9M5M1	RS11_EUPES	No assigned EC number	0.9541	0.8257	0.6855	N/A	no
Q2FT32	RS17_METHJ	No assigned EC number	0.5227	0.6666	0.8148	yes	no
A3CT06	RS17_METMJ	No assigned EC number	0.5056	0.6742	0.8240	yes	no
P0CX47	RS11A_YEAST	No assigned EC number	0.6388	0.8030	0.6794	yes	no
P52812	RS11_ANOGA	No assigned EC number	0.6272	0.8030	0.6928	yes	no
Q8TRT8	RS17_METAC	No assigned EC number	0.5172	0.6590	0.7981	yes	no
Q9XSU4	RS11_CANFA	No assigned EC number	0.6422	0.7954	0.6645	yes	no
P79013	RS11_SCHPO	No assigned EC number	0.7204	0.7045	0.6118	yes	no
Q0W1X9	RS17_UNCMA	No assigned EC number	0.5227	0.6666	0.7927	yes	no
Q54S90	RS11_DICDI	No assigned EC number	0.6944	0.8181	0.6967	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:
	estExt_fgenesh4_kg.C_LG_II0054	SubName- Full=Putative uncharacterized protein; (159 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	gw1.XVI.1998.1	SubName- Full=Putative uncharacterized protein; (204 aa)			•	•	•	•	•		0.825
	eugene3.00061162	SubName- Full=Putative uncharacterized protein; (208 aa)			•	•	•	•	•		0.822
	eugene3.00011680	hypothetical protein (270 aa)	•		•	•	•	•	•		0.756
	eugene3.00060477	SubName- Full=Putative uncharacterized protein; (270 aa)	•		•	•	•	•	•		0.753
	estExt_Genewise1_v1.C_LG_XVI1732	hypothetical protein (276 aa)	•		•	•	•	•			0.752
	estExt_fgenesh4_pg.C_LG_VII0552	SubName- Full=Putative uncharacterized protein; (146 aa)	•			•		•	•		0.718
	estExt_fgenesh4_pm.C_LG_III0216	SubName- Full=Putative uncharacterized protein; (146 aa)	•			•		•	•		0.717
	estExt_fgenesh4_pg.C_LG_V0222	SubName- Full=Putative uncharacterized protein; (147 aa)	•			•		•	•		0.709
	estExt_fgenesh4_pm.C_LG_IX0111	SubName- Full=Putative uncharacterized protein; (113 aa)			•	•		•			0.675
	estExt_fgenesh4_pm.C_LG_XV0178	SubName- Full=Putative uncharacterized protein; (233 aa)	•			•	•	•			0.671

---

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	132
PTZ00241	158	PTZ00241, PTZ00241, 40S ribosomal protein S11; Pro	2e-68
PRK08572	108	PRK08572, rps17p, 30S ribosomal protein S17P; Revi	4e-41
TIGR03630	102	TIGR03630, arch_S17P, archaeal ribosomal protein S	1e-40
pfam00366	69	pfam00366, Ribosomal_S17, Ribosomal protein S17	1e-31
COG0186	87	COG0186, RpsQ, Ribosomal protein S17 [Translation,	3e-29
TIGR03635	71	TIGR03635, S17_bact, 30S ribosomal protein S17	5e-09
PRK05610	84	PRK05610, rpsQ, 30S ribosomal protein S17; Reviewe	6e-09
CHL00142	84	CHL00142, rps17, ribosomal protein S17; Validated	2e-04

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

 Score =  202 bits (516), Expect = 2e-68
 Identities = 76/105 (72%), Positives = 82/105 (78%)

Query: 25  GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
           G YIDKKCPFTG VSIRGRIL G   S KM RTII+RR+YLH+VKKY RYEKRH NIP H
Sbjct: 51  GKYIDKKCPFTGNVSIRGRILRGVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVH 110

Query: 85  ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
            SPCF VKEGD V++GQCRPLSKTVRFNVLKV      G  +K F
Sbjct: 111 CSPCFDVKEGDIVVVGQCRPLSKTVRFNVLKVEKNEIIGNVRKQF 155

Length = 158

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

 Score =  131 bits (333), Expect = 4e-41
 Identities = 48/89 (53%), Positives = 61/89 (68%)

Query: 29  DKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPC 88
           D  CPF GT+ +RG++L GT  S KM++T++V R YLH+V KY+RYEKR S I AH  PC
Sbjct: 16  DPNCPFHGTLPVRGQVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAHNPPC 75

Query: 89  FRVKEGDHVIIGQCRPLSKTVRFNVLKVI 117
              K GD V I +CRPLSKT  F V++  
Sbjct: 76  IDAKVGDKVKIAECRPLSKTKSFVVVEKK 104

Length = 108

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

 Score =  130 bits (329), Expect = 1e-40
 Identities = 50/89 (56%), Positives = 63/89 (70%)

Query: 29  DKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPC 88
           D KCPF G + +RG+IL G   S KMN+T++V R YL++ +KY+RYE+R S I AH  PC
Sbjct: 14  DPKCPFHGHLKVRGQILEGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAHNPPC 73

Query: 89  FRVKEGDHVIIGQCRPLSKTVRFNVLKVI 117
             VKEGD VIIG+ RPLSKT  F VL  +
Sbjct: 74  IDVKEGDIVIIGETRPLSKTKSFVVLGKV 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 =  107 bits (268), Expect = 1e-31
 Identities = 39/70 (55%), Positives = 45/70 (64%), Gaps = 1/70 (1%)

Query: 47  GTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLS 106
           G   S KM +TI+VR   L    KY +YEKR    PAH  PCFR K GD V IG+CRPLS
Sbjct: 1   GVVVSDKMEKTIVVRVERLVPHPKYGKYEKRTKKYPAHDPPCFR-KVGDVVKIGECRPLS 59

Query: 107 KTVRFNVLKV 116
           KT RF V++V
Sbjct: 60  KTKRFRVVRV 69

Length = 69

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

 Score =  101 bits (253), Expect = 3e-29
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 1/83 (1%)

Query: 35  TGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEG 94
            G + +RGR+L G   S KM++T++V      +  KY +Y +R     AH   C   K G
Sbjct: 1   HGKLRVRGRVLEGVVVSDKMDKTVVVEVERKVYHPKYGKYVRRSKKYHAH-DECNEAKVG 59

Query: 95  DHVIIGQCRPLSKTVRFNVLKVI 117
           D V I + RPLSKT RF V++++
Sbjct: 60  DIVRIAETRPLSKTKRFVVVEIV 82

Length = 87

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

 Score = 49.1 bits (118), Expect = 5e-09
 Identities = 27/73 (36%), Positives = 35/73 (47%), Gaps = 5/73 (6%)

Query: 43  RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           + L G   S KM++TI+V   R   H    Y +  KR     AH       K GD V I 
Sbjct: 2   KTLQGVVVSDKMDKTIVVLVERRVKH--PLYGKIVKRTKKYHAH-DENNECKVGDVVRII 58

Query: 101 QCRPLSKTVRFNV 113
           + 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 = 49.4 bits (119), Expect = 6e-09
 Identities = 27/77 (35%), Positives = 39/77 (50%), Gaps = 5/77 (6%)

Query: 43  RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           + L G   S KM++TI+V   R   H    Y +  KR     AH       K GD V I 
Sbjct: 7   KTLQGRVVSDKMDKTIVVLVERRVKH--PLYGKIVKRSKKYHAH-DENNEAKIGDVVRIM 63

Query: 101 QCRPLSKTVRFNVLKVI 117
           + RPLSKT R+ +++++
Sbjct: 64  ETRPLSKTKRWRLVEIV 80

Length = 84

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

 Score = 36.9 bits (86), Expect = 2e-04
 Identities = 25/83 (30%), Positives = 38/83 (45%), Gaps = 15/83 (18%)

Query: 47  GTCHSAKMNRTIIVR-------RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVII 99
           G   S KMN+TI+V          Y   + K ++Y   H       + C     GD V+I
Sbjct: 8   GIVVSNKMNKTIVVAVENRYKHPIYGKIITKTKKY-LVHD----EENEC---NIGDQVLI 59

Query: 100 GQCRPLSKTVRFNVLKVIPAGSS 122
            + 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	132
PTZ00241	158	40S ribosomal protein S11; Provisional	100.0
PRK08572	108	rps17p 30S ribosomal protein S17P; Reviewed	100.0
TIGR03630	102	arch_S17P archaeal ribosomal protein S17P. This mo	100.0
KOG1728	156	consensus 40S ribosomal protein S11 [Translation,	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	99.95
KOG3447	150	consensus Mitochondrial/chloroplast ribosomal S17-	99.39

>PTZ00241 40S ribosomal protein S11; Provisional

Probab=100.00  E-value=8.6e-50  Score=308.24  Aligned_cols=115  Identities=66%  Similarity=1.094  Sum_probs=109.9

Q ss_pred             chhhhcccccccCCCCCcceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEE
Q 032855           18 LMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHV   97 (132)
Q Consensus        18 ~~~~~~~~~~~d~~cp~~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V   97 (132)
                      .|.+|++|+|+|++||||||++|||++|+|+|+|+||+|||+|+++++++||+|+|+++++++|+|||||||+|++||+|
T Consensus        44 ~P~~~~~~~yiD~kCPf~G~~~iRgril~G~VvS~KM~KTIVV~ve~~~~h~kY~K~~kr~kk~~aHd~~~~~~kvGD~V  123 (158)
T PTZ00241         44 TPKEAIEGKYIDKKCPFTGNVSIRGRILRGVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVHCSPCFDVKEGDIV  123 (158)
T ss_pred             CChhhhcccccCCCCCccceeeEcceEEEEEEEEccCCccEEEEEEEEEecCccceEEEeeecEEEeCCccCCCCCCCEE
Confidence            47899999999999999999999999999999999999999999999999999999999999999999889999999999


Q ss_pred             EEeecccCCCeeeEEEEEeeecCCCCCcccccccC
Q 032855           98 IIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM  132 (132)
Q Consensus        98 ~I~ecRPiSKtK~~~V~~Ii~k~~~~~~~~~f~~~  132 (132)
                      +|+|||||||+|+|+|++|++++.+++.++||++|
T Consensus       124 ~I~EcRPLSKTKrf~Vv~V~~~~~~~~~~k~f~~f  158 (158)
T PTZ00241        124 VVGQCRPLSKTVRFNVLKVEKNEIIGNVRKQFVLF  158 (158)
T ss_pred             EEEEcCCCCCceeEEEEEEEecccccccccccccC
Confidence            99999999999999999999987544459999987

>PRK08572 rps17p 30S ribosomal protein S17P; Reviewed

Probab=100.00  E-value=3.4e-46  Score=273.37  Aligned_cols=105  Identities=47%  Similarity=0.760  Sum_probs=99.4

Q ss_pred             ccchhhhcccccccCCCCCcceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCC
Q 032855           16 RVLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGD   95 (132)
Q Consensus        16 ~~~~~~~~~~~~~d~~cp~~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD   95 (132)
                      .||.-++-++.|+|++|||||+|+|||+.|+|+|+|++|+|||+|+++++++||+|+|+++++++|+||||+||+|++||
T Consensus         3 ig~~~~~p~~~~~d~~cP~~g~l~irgk~l~G~VvS~Km~KTvvV~v~r~~~hpkY~K~i~r~kky~aHDe~cn~~kvGD   82 (108)
T PRK08572          3 IGLDVKPPEEECDDPNCPFHGTLPVRGQVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAHNPPCIDAKVGD   82 (108)
T ss_pred             cccCCCCCcccccCCCCCCcceeeeeeEEEEEEEEecCCCceEEEEEEEEEecCCccEEEEEeeeEEEECCCCCCCCCCC
Confidence            46666677788999999999999999999999999999999999999999999999999999999999996569999999


Q ss_pred             EEEEeecccCCCeeeEEEEEeeecC
Q 032855           96 HVIIGQCRPLSKTVRFNVLKVIPAG  120 (132)
Q Consensus        96 ~V~I~ecRPiSKtK~~~V~~Ii~k~  120 (132)
                      .|+|+|||||||+|+|.|.+|++++
T Consensus        83 ~V~I~E~RPiSKtK~w~v~~i~~~~  107 (108)
T PRK08572         83 KVKIAECRPLSKTKSFVVVEKKERA  107 (108)
T ss_pred             EEEEEEcCCCCCceEEEEEEEEEcC
Confidence            9999999999999999999999875

>TIGR03630 arch_S17P archaeal ribosomal protein S17P

Probab=100.00  E-value=4.1e-46  Score=270.65  Aligned_cols=101  Identities=50%  Similarity=0.802  Sum_probs=96.0

Q ss_pred             cchhhhcccccccCCCCCcceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCE
Q 032855           17 VLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDH   96 (132)
Q Consensus        17 ~~~~~~~~~~~~d~~cp~~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~   96 (132)
                      ||+-.+=+++|+|++|||||+|+|||++|+|+|+|+||+|||+|+|+++++||+|+|+++++++|+||||+||+|++||+
T Consensus         2 g~~~~~p~~~~~d~~cpf~g~l~irgk~l~G~VvS~Km~KTivV~V~r~~~hpkY~K~i~r~kky~aHDe~cn~~kvGD~   81 (102)
T TIGR03630         2 GIPVKPPERECNDPKCPFHGHLKVRGQILEGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAHNPPCIDVKEGDI   81 (102)
T ss_pred             CcccCCCCccccCCCCCccceeeeeeEEEEEEEEecCCCceEEEEEEEEEecCCccEEEEEeeeEEEECCCCCCCCCCCE
Confidence            66666678899999999999999999999999999999999999999999999999999999999999966699999999


Q ss_pred             EEEeecccCCCeeeEEEEEee
Q 032855           97 VIIGQCRPLSKTVRFNVLKVI  117 (132)
Q Consensus        97 V~I~ecRPiSKtK~~~V~~Ii  117 (132)
                      |+|+|||||||+|+|+|.+|+
T Consensus        82 V~I~E~RPlSKtK~w~vv~i~  102 (102)
T TIGR03630        82 VIIGETRPLSKTKSFVVLGKV  102 (102)
T ss_pred             EEEEEcCCCCCceEEEEEEeC
Confidence            999999999999999999874

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

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

Probab=100.00  E-value=2.5e-42  Score=263.32  Aligned_cols=111  Identities=68%  Similarity=1.172  Sum_probs=108.5

Q ss_pred             hhhhcccccccCCCCCcceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCC-CCCCCEE
Q 032855           19 MSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFR-VKEGDHV   97 (132)
Q Consensus        19 ~~~~~~~~~~d~~cp~~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~-~kvGD~V   97 (132)
                      |.|||+|+|+|++|||+||++|||++|.|+|+++||++||+|+.+|+|+.+||++|.+||+++.||.+||+. .++||+|
T Consensus        45 P~eAiegtYIDKKCPftG~vsIRGril~G~V~k~Km~rTIvvrrdYlHy~~KY~ryekrHkN~svh~SPcFrdi~~gDiV  124 (156)
T KOG1728|consen   45 PREAIEGTYIDKKCPFTGNVSIRGRILTGTVVKMKMQRTIVVRRDYLHYIKKYNRYEKRHKNMSVHVSPCFRDIQEGDIV  124 (156)
T ss_pred             hHHhhcceeecccCCcccceeEeeEEEeeEEeeeceeEEEEEEhhhhhHhHHhhHHHHhccCCccccchhhhccccCCEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999997 9999999


Q ss_pred             EEeecccCCCeeeEEEEEeeecCCCCCcccccccC
Q 032855           98 IIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM  132 (132)
Q Consensus        98 ~I~ecRPiSKtK~~~V~~Ii~k~~~~~~~~~f~~~  132 (132)
                      +|+|||||||+++|.|++++++   ||.++||++|
T Consensus       125 tvGecrPLSKtvrfnVLkv~k~---~g~~k~~~k~  156 (156)
T KOG1728|consen  125 TVGECRPLSKTVRFNVLKVIKA---AGSKKQFKKF  156 (156)
T ss_pred             EEeecccccceEEEEEEEEeec---CCCccccccC
Confidence            9999999999999999999999   4689999987

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

Probab=100.00  E-value=2.1e-38  Score=224.73  Aligned_cols=86  Identities=37%  Similarity=0.618  Sum_probs=83.8

Q ss_pred             cceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEE
Q 032855           35 TGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVL  114 (132)
Q Consensus        35 ~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~  114 (132)
                      ||++++++++|+|+|+|+||+|||+|++++.++||+|+|+++++++|+||| |||+|++||+|+|+|||||||||+|+|+
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             EeeecCC
Q 032855          115 KVIPAGS  121 (132)
Q Consensus       115 ~Ii~k~~  121 (132)
                      +|++++.
T Consensus        80 ~i~~~a~   86 (87)
T COG0186          80 EIVEKAV   86 (87)
T ss_pred             EEeeecc
Confidence            9999864

>CHL00142 rps17 ribosomal protein S17; Validated

Probab=100.00  E-value=4.2e-35  Score=206.45  Aligned_cols=79  Identities=28%  Similarity=0.307  Sum_probs=76.8

Q ss_pred             cEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEEEeeecCC
Q 032855           42 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  121 (132)
Q Consensus        42 ~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~~  121 (132)
                      .+.++|+|+|++|+|||+|+++++++||+|+|+++++++|+||| |+|+|++||+|+|+|||||||+|+|+|.+|++++.
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 89999999999999999999999999999999875

>PRK05610 rpsQ 30S ribosomal protein S17; Reviewed

Probab=100.00  E-value=7.6e-35  Score=204.94  Aligned_cols=79  Identities=32%  Similarity=0.364  Sum_probs=76.4

Q ss_pred             ecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEEEeeecC
Q 032855           41 RGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG  120 (132)
Q Consensus        41 r~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~  120 (132)
                      .++.|.|+|+|++|+||++|+++++++||+|+|+++++++|+||| |+|+|++||+|+|+|||||||+|+|+|.+|++++
T Consensus         5 ~~~~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          5 PRKTLQGRVVSDKMDKTIVVLVERRVKHPLYGKIVKRSKKYHAHD-ENNEAKIGDVVRIMETRPLSKTKRWRLVEIVEKA   83 (84)
T ss_pred             CCCEEEEEEEcccCCceEEEEEEEEEEeccccEEEEcceEEEEEC-CCCCCCCCCEEEEEEcccCCCCEEEEEEEEEecc
Confidence            368999999999999999999999999999999999999999999 7899999999999999999999999999999875

>TIGR03635 S17_bact 30S ribosomal protein S17

Probab=100.00  E-value=1.7e-33  Score=192.66  Aligned_cols=71  Identities=35%  Similarity=0.367  Sum_probs=68.6

Q ss_pred             cEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEE
Q 032855           42 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNV  113 (132)
Q Consensus        42 ~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V  113 (132)
                      .++|.|+|+|++|+||++|+++++++||+|+|+++++++|+||| |+|+|++||+|.|+|||||||+|+|.|
T Consensus         1 ~~~l~G~Vvs~km~KTvvV~v~~~~~h~ky~k~~~r~kk~~aHD-~~~~~k~GD~V~I~ecrPlSK~K~~~~   71 (71)
T TIGR03635         1 RKTLQGVVVSDKMDKTIVVLVERRVKHPLYGKIVKRTKKYHAHD-ENNECKVGDVVRIIETRPLSKTKRWRL   71 (71)
T ss_pred             CeEEEEEEEcccCCceEEEEEEEEEEeccccEEEEccEEEEEEC-CCCCCCCCCEEEEEEcCCcCCceEeEC
Confidence            37899999999999999999999999999999999999999999 789999999999999999999999985

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=6.6e-32  Score=183.45  Aligned_cols=69  Identities=43%  Similarity=0.632  Sum_probs=66.6

Q ss_pred             EEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEEEe
Q 032855           47 GTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKV  116 (132)
Q Consensus        47 G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~~I  116 (132)
                      |+|+|++|+||++|+++++++||+|+|+++++++|+||| |.|+|++||+|+|.|||||||+|+|.|.++
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 899999999999999999999999999986

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=99.95  E-value=7.5e-30  Score=185.54  Aligned_cols=78  Identities=38%  Similarity=0.498  Sum_probs=75.0

Q ss_pred             cEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEEEeeecC
Q 032855           42 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG  120 (132)
Q Consensus        42 ~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~  120 (132)
                      .+.+.|+|+|.+|+||++|+|+++..||+|+|+++++++|+||| |.|.|++||.|+|.+||||||+|+|.+.+||.++
T Consensus         2 m~~~vg~VvS~kmqKTv~V~V~rl~~n~~ynryv~~~~kymahD-~~n~cnvGD~VrlepsRPlSk~K~f~i~eII~~a   79 (107)
T KOG1740|consen    2 MKNVVGTVVSNKMQKTVKVRVDRLFFNPKYNRYVKRTSKYMAHD-DKNQCNVGDRVRLEPSRPLSKTKHFIIAEIIKKA   79 (107)
T ss_pred             CccceeeeeecccCceeEEEeeeccccHHHHHHHHHhhheeecC-ccccccccceEEeccCCcccccceeehHHHHHHH
Confidence            35689999999999999999999999999999999999999999 8999999999999999999999999999999874

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

Probab=99.39  E-value=6.6e-14  Score=106.92  Aligned_cols=81  Identities=25%  Similarity=0.274  Sum_probs=74.5

Q ss_pred             eeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeec-ccCCCeeeEEEEEe
Q 032855           38 VSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQC-RPLSKTVRFNVLKV  116 (132)
Q Consensus        38 ~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ec-RPiSKtK~~~V~~I  116 (132)
                      .+++++.|.|.|+..+|++|+.|++.++..+|..+||+++.+.|+||| +...|++||+|.|++. -|..+..+|.|.+|
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            467899999999999999999999999999999999999999999999 8999999999999996 56677788888888


Q ss_pred             eec
Q 032855          117 IPA  119 (132)
Q Consensus       117 i~k  119 (132)
                      +.+
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	132
3iz6_P	161	Localization Of The Small Subunit Ribosomal Protein		3e-52
2xzm_Q	157	Crystal Structure Of The Eukaryotic 40s Ribosomal S		8e-40
3zey_E	174	High-resolution Cryo-electron Microscopy Structure		6e-38
3izb_P	156	Localization Of The Small Subunit Ribosomal Protein		9e-38
2zkq_q	158	Structure Of A Mammalian Ribosomal 40s Subunit With		1e-36
3jyv_Q	80	Structure Of The 40s Rrna And Proteins And PE TRNA		2e-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-17
1i94_Q	104	Crystal Structures Of The Small Ribosomal Subunit W		2e-05
2j00_Q	105	Structure Of The Thermus Thermophilus 70s Ribosome		4e-05
1j5e_Q	104	Structure Of The Thermus Thermophilus 30s Ribosomal		4e-05
1fjg_Q	105	Structure Of The Thermus Thermophilus 30s Ribosomal		4e-05
3mr8_Q	99	Recognition Of The Amber Stop Codon By Release Fact		5e-05
3fic_Q	100	T. Thermophilus 70s Ribosome In Complex With Mrna,		5e-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 =  199 bits (507), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 93/96 (96%), Positives = 95/96 (98%)
Query: 24  SGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 83
            GTYIDKKCPFTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA
Sbjct: 51  EGTYIDKKCPFTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPA 110
Query: 84  HISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPA 119
           H+SPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPA
Sbjct: 111 HVSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPA 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 =  158 bits (400), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 69/108 (63%), Positives = 84/108 (77%)
Query: 22  CFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNI 81
              GTY+DKKCPFT  +SIRG+I+ G   S KMNRT+I+RR+YLH+V+KY RYEKRH NI
Sbjct: 47  AIEGTYVDKKCPFTSNLSIRGKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNI 106
Query: 82  PAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
           P HISPCF VKEGD ++ GQCRP+SKTVRFN L+V+P    G  +K F
Sbjct: 107 PVHISPCFSVKEGDILVAGQCRPISKTVRFNALQVVPNEIIGSVRKQF 154

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

Iteration: 1
 Score =  152 bits (383), Expect = 6e-38,   Method: Compositional matrix adjust.
 Identities = 66/109 (60%), Positives = 83/109 (76%)
Query: 22  CFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNI 81
             +G YID+KCPFT  VSIRGRIL G  HS KM R+I++RRNYLHF++KYQRY+KRH NI
Sbjct: 64  AINGKYIDRKCPFTSNVSIRGRILRGVVHSTKMRRSIVIRRNYLHFIRKYQRYQKRHRNI 123
Query: 82  PAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 130
             H SPCF  K GD V++GQCRPLSKT+R+NVL+V+   ++    K F+
Sbjct: 124 TVHCSPCFDPKPGDEVVVGQCRPLSKTIRYNVLQVVSKSAADKMGKKFS 172

>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 =  151 bits (382), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 69/108 (63%), Positives = 85/108 (78%), Gaps = 2/108 (1%)
Query: 22  CFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNI 81
              G+YIDKKCPFTG VSIRG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+
Sbjct: 48  AIEGSYIDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNV 107
Query: 82  PAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
           P H+SP FRV+ GD V +GQCRP+SKTVRFNV+KV  + ++G A K F
Sbjct: 108 PVHVSPAFRVQVGDIVTVGQCRPISKTVRFNVVKV--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 =  147 bits (372), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 70/109 (64%), Positives = 83/109 (76%), Gaps = 4/109 (3%)
Query: 22  CFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNI 81
              GTYIDKKCPFTG VSIRGRIL+G     KM RTI++RR+YLH+++KY R+EKRH N+
Sbjct: 50  AIEGTYIDKKCPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNM 109
Query: 82  PAHISPCFR-VKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAF 129
             H+SPCFR V+ GD V +G+CRPLSKTVRFNVLKV  A    G KK F
Sbjct: 110 SVHLSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKVTKA---AGTKKQF 155

>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 (292), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 52/80 (65%), Positives = 64/80 (80%)
Query: 41  RGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           RG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H+SP FRV+ GD V +G
Sbjct: 1   RGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVTVG 60
Query: 101 QCRPLSKTVRFNVLKVIPAG 120
           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: 43  RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQC 102
           +IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H+SP FRV+ GD V +GQC
Sbjct: 1   KILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVTVGQC 60
Query: 103 RPLSKTVRFNVLKV 116
           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 = 84.3 bits (207), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 41/89 (46%), Positives = 53/89 (59%)
Query: 29  DKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPC 88
           D KCP+ G + I GR+  G   S K  +T+ V R Y  ++ KY+RYE R S I AH  PC
Sbjct: 18  DPKCPWHGNLKIHGRVFEGIVVSDKPRKTVTVERQYYFYLNKYERYELRRSKIHAHNPPC 77
Query: 89  FRVKEGDHVIIGQCRPLSKTVRFNVLKVI 117
              K GD V+I + RPLSKT  F V+ V+
Sbjct: 78  INAKVGDKVLIAETRPLSKTKHFVVVAVL 106

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 30/80 (37%), Positives = 43/80 (53%), Gaps = 5/80 (6%)
Query: 43  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  R K GD V I 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEERYKVGDVVEII 59
Query: 101 QCRPLSKTVRFNVLKVIPAG 120
           + 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 = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 43  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 60
Query: 101 QCRPLSKTVRFNVLKVIPAG 120
           + RP+SK  RF VL+++ +G
Sbjct: 61  ESRPISKRKRFRVLRLVESG 80

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 43  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 59
Query: 101 QCRPLSKTVRFNVLKVIPAG 120
           + RP+SK  RF VL+++ +G
Sbjct: 60  ESRPISKRKRFRVLRLVESG 79

>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 = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 43  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 60
Query: 101 QCRPLSKTVRFNVLKVIPAG 120
           + RP+SK  RF VL+++ +G
Sbjct: 61  ESRPISKRKRFRVLRLVESG 80

>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 = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 43  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 59
Query: 101 QCRPLSKTVRFNVLKVIPAG 120
           + RP+SK  RF VL+++ +G
Sbjct: 60  ESRPISKRKRFRVLRLVESG 79

>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 = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/80 (36%), Positives = 44/80 (55%), Gaps = 5/80 (6%)
Query: 43  RILAGTCHSAKMNRTI--IVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           ++L G   S KM +T+  +V R + H +  Y +  KR     AH  P  + K GD V I 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPL--YGKVIKRSKKYLAH-DPEEKYKLGDVVEII 59
Query: 101 QCRPLSKTVRFNVLKVIPAG 120
           + RP+SK  RF VL+++ +G
Sbjct: 60  ESRPISKRKRFRVLRLVESG 79

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	132
2xzm_Q	157	Ribosomal protein S17 containing protein; ribosome	6e-48
3u5c_L	156	RP41, S18, YS12, 40S ribosomal protein S11-A; tran	5e-47
2zkq_q	158	40S ribosomal protein S11E; protein-RNA complex, 4	2e-46
3iz6_P	161	40S ribosomal protein S11 (S17P); eukaryotic ribos	5e-46
2vqe_Q	105	30S ribosomal protein S17; tRNA-binding, rRNA-bind	3e-10
3bbn_Q	142	Ribosomal protein S17; small ribosomal subunit, sp	5e-10
3r8n_Q	80	30S ribosomal protein S17; protein biosynthesis, R	9e-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 =  150 bits (380), Expect = 6e-48
 Identities = 69/106 (65%), Positives = 84/106 (79%)

Query: 25  GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
           GTY+DKKCPFT  +SIRG+I+ G   S KMNRT+I+RR+YLH+V+KY RYEKRH NIP H
Sbjct: 50  GTYVDKKCPFTSNLSIRGKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVH 109

Query: 85  ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 130
           ISPCF VKEGD ++ GQCRP+SKTVRFN L+V+P    G  +K F 
Sbjct: 110 ISPCFSVKEGDILVAGQCRPISKTVRFNALQVVPNEIIGSVRKQFL 155

>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 =  148 bits (374), Expect = 5e-47
 Identities = 70/106 (66%), Positives = 84/106 (79%), Gaps = 2/106 (1%)

Query: 25  GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
           G+YIDKKCPFTG VSIRG+IL GT  S KM+RTI++RR YLH++ KY RYEKRH N+P H
Sbjct: 51  GSYIDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVH 110

Query: 85  ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 130
           +SP FRV+ GD V +GQCRP+SKTVRFNV+KV  A  +G A K F 
Sbjct: 111 VSPAFRVQVGDIVTVGQCRPISKTVRFNVVKVSAA--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 =  146 bits (370), Expect = 2e-46
 Identities = 70/107 (65%), Positives = 83/107 (77%), Gaps = 4/107 (3%)

Query: 25  GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
           GTYIDKKCPFTG VSIRGRIL+G     KM RTI++RR+YLH+++KY R+EKRH N+  H
Sbjct: 53  GTYIDKKCPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVH 112

Query: 85  ISPCFR-VKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFT 130
           +SPCFR V+ GD V +G+CRPLSKTVRFNVLKV  A    G KK F 
Sbjct: 113 LSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKVTKA---AGTKKQFQ 156

>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 =  145 bits (368), Expect = 5e-46
 Identities = 103/109 (94%), Positives = 107/109 (98%), Gaps = 2/109 (1%)

Query: 25  GTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 84
           GTYIDKKCPFTGTVSIRGRI+AGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH
Sbjct: 52  GTYIDKKCPFTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAH 111

Query: 85  ISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGA--KKAFTA 131
           +SPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS+GG+  KKAFTA
Sbjct: 112 VSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSTGGSGGKKAFTA 160

>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 = 52.3 bits (126), Expect = 3e-10
 Identities = 28/77 (36%), Positives = 40/77 (51%), Gaps = 5/77 (6%)

Query: 43  RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           ++L G   S KM +T+ V   R + H    Y +  KR     AH  P  + K GD V I 
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPH--PLYGKVIKRSKKYLAH-DPEEKYKLGDVVEII 60

Query: 101 QCRPLSKTVRFNVLKVI 117
           + RP+SK  RF VL+++
Sbjct: 61  ESRPISKRKRFRVLRLV 77

>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 = 52.9 bits (127), Expect = 5e-10
 Identities = 25/77 (32%), Positives = 36/77 (46%), Gaps = 5/77 (6%)

Query: 43  RILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           + + G    A  ++T+ V   R   H   KY+R  +      AH  P  + K GD V + 
Sbjct: 61  KTMQGRVVCATSDKTVAVEVVRLAPH--PKYKRRVRMKKKYQAH-DPDNQFKVGDVVRLE 117

Query: 101 QCRPLSKTVRFNVLKVI 117
           + RP+SKT  F  L VI
Sbjct: 118 KSRPISKTKSFVALPVI 134

>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: 41  RGRILAGTCHSAKMNRTIIVR--RNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI 98
           + ++  G   S KM++TI V       H    Y +  K      AH       K GD V 
Sbjct: 1   QRKVYVGRVVSDKMDKTITVLVETYKKH--PLYGKRVKYSKKYKAH-DEHNEAKVGDIVK 57

Query: 99  IGQCRPLSKTVRFNVLKVI 117
           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	132
3u5c_L	156	RP41, S18, YS12, 40S ribosomal protein S11-A; tran	100.0
2xzm_Q	157	Ribosomal protein S17 containing protein; ribosome	100.0
2zkq_q	158	40S ribosomal protein S11E; protein-RNA complex, 4	100.0
3j20_R	113	30S ribosomal protein S17P; archaea, archaeal, KIN	100.0
3iz6_P	161	40S ribosomal protein S11 (S17P); eukaryotic ribos	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

>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=4.4e-52  Score=319.46  Aligned_cols=119  Identities=60%  Similarity=1.053  Sum_probs=113.0

Q ss_pred             Eeeeccc----hhhhcccccccCCCCCcceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCC
Q 032855           12 WERTRVL----MSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISP   87 (132)
Q Consensus        12 ~~~~~~~----~~~~~~~~~~d~~cp~~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e   87 (132)
                      |-|..||    |+||++|+|+|++|||||||+|||++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+|||||
T Consensus        34 ~~~~iGl~~k~P~~a~~g~y~D~kCPf~G~lsvRgr~l~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~  113 (156)
T 3u5c_L           34 WYKNAGLGFKTPKTAIEGSYIDKKCPFTGLVSIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSP  113 (156)
T ss_dssp             CCCCCSTTCCCCHHHHHCCCCCTTCTTTSSCCEEEEEEEEEEEECCSTTEEEEEEEEEEEEGGGTEEEEEEEEEEEECCT
T ss_pred             eeeecCcCccCChhhccceeccccCCcccceeEeeEEEEEEEEeecCCCeEEEEEEEEeecCccceEEECceEEEEECCC
Confidence            4466677    999999999999999999999999999999999999999999999999999999999999999999966


Q ss_pred             CCCCCCCCEEEEeecccCCCeeeEEEEEeeecCCCCCcccccccC
Q 032855           88 CFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM  132 (132)
Q Consensus        88 ~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~~~~~~~~~f~~~  132 (132)
                      ||+|++||+|+|+|||||||+|+|+|++|++++.  ++++||++|
T Consensus       114 ~n~~kvGD~V~I~EcRPLSKtKrw~Vv~Iv~ka~--~~~k~f~~f  156 (156)
T 3u5c_L          114 AFRVQVGDIVTVGQCRPISKTVRFNVVKVSAAAG--KANKQFAKF  156 (156)
T ss_dssp             TSCCCTTCEEEEEEEEEEETTEEEEEEEECCCCS--SSGGGCCCC
T ss_pred             cCcCCCCCEEEEEecccCCCcEeEEEEEEEecCC--CcccccccC
Confidence            8999999999999999999999999999999943  589999998

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

Probab=100.00  E-value=2.9e-51  Score=315.25  Aligned_cols=114  Identities=61%  Similarity=1.098  Sum_probs=110.2

Q ss_pred             hhhhcccccccCCCCCcceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEE
Q 032855           19 MSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVI   98 (132)
Q Consensus        19 ~~~~~~~~~~d~~cp~~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~   98 (132)
                      |+||++|+|+|++||||||++|||++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+|||||||+|++||+|+
T Consensus        44 P~~~~~~~~~D~kCPf~G~lsvRgr~l~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDee~n~~kvGD~V~  123 (157)
T 2xzm_Q           44 PKEAIEGTYVDKKCPFTSNLSIRGKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVHISPCFSVKEGDILV  123 (157)
T ss_dssp             CHHHHTCCCCCTTCSSSSSCCCCSCEEEEEEEECCSTTEEEEEEEEEEEETTTTEEEEEEEEEEEECCTTSCCCTTCEEE
T ss_pred             ChHHhcccccCCCCCCccceeeeeEEEEEEEEEecCCccEEEEEEEEEecCccceEeecceeEEEECCCCCCCCCCCEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999997799999999999


Q ss_pred             EeecccCCCeeeEEEEEeeecCCCCCcccccccC
Q 032855           99 IGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM  132 (132)
Q Consensus        99 I~ecRPiSKtK~~~V~~Ii~k~~~~~~~~~f~~~  132 (132)
                      |+|||||||+|+|+|++|++++..+.+++||++|
T Consensus       124 I~EcRPLSKtKrw~Vv~I~~ka~~g~~~k~f~~f  157 (157)
T 2xzm_Q          124 AGQCRPISKTVRFNALQVVPNEIIGSVRKQFLLF  157 (157)
T ss_dssp             EEECCCCSSSCCEEEEEECCCCCCSCTTTCCCCC
T ss_pred             EEEcCCCCCcEEEEEEEEEeccccCccchhhhcC
Confidence            9999999999999999999997755578999987

>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=3.1e-50  Score=309.81  Aligned_cols=116  Identities=60%  Similarity=1.068  Sum_probs=72.8

Q ss_pred             eeccc----hhhhcccccccCCCCCcceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCC
Q 032855           14 RTRVL----MSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCF   89 (132)
Q Consensus        14 ~~~~~----~~~~~~~~~~d~~cp~~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n   89 (132)
                      |..||    |+||++|+|+|++||||||++|||++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+|||||||
T Consensus        38 k~iGl~~k~P~~~~~~~~~D~kCPf~G~lsvRGr~l~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~~n  117 (158)
T 2zkq_q           38 KNIGLGFKTPKEAIEGTYIDKKCPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCF  117 (158)
T ss_dssp             ---------------------------------CEEEEEEEECSSSCEEEEEEEEECSSTTCCCEEEEEEEECCBCCSSC
T ss_pred             EecccCccCChHHhcccccCCCCCCccccceeeEEEEEEEEEccCCccEEEEEEEEEecCccceeeecceeEEEECCccc
Confidence            55555    89999999999999999999999999999999999999999999999999999999999999999996677


Q ss_pred             -CCCCCCEEEEeecccCCCeeeEEEEEeeecCCCCCcccccccC
Q 032855           90 -RVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSGGAKKAFTAM  132 (132)
Q Consensus        90 -~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~~~~~~~~~f~~~  132 (132)
                       +|++||+|+|+|||||||+|+|+|++|++++   |+++||++|
T Consensus       118 ~~~kvGD~V~I~E~RPLSKtKrw~Vv~I~~~~---~~~k~f~~f  158 (158)
T 2zkq_q          118 RDVQIGDIVTVGECRPLSKTVRFNVLKVTKAA---GTKKQFQKF  158 (158)
T ss_dssp             CCC-CCCEEEEECCSCSSSCC-CEEEEEEEC-------------
T ss_pred             CcCCCCCEEEEEEccccCCcEEEEEEEEecCC---CcchhhhcC
Confidence             8999999999999999999999999999763   478999987

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

Probab=100.00  E-value=8.2e-49  Score=288.07  Aligned_cols=109  Identities=39%  Similarity=0.658  Sum_probs=103.2

Q ss_pred             eeccchhhhcccccccCCCCCcceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCC
Q 032855           14 RTRVLMSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKE   93 (132)
Q Consensus        14 ~~~~~~~~~~~~~~~d~~cp~~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kv   93 (132)
                      |..||.-.+-+++|+|++||||||++|||++|+|+|+|+||+|||+|+++++++||+|+|+++++++|+|||||+|+|++
T Consensus         3 ~~igl~~~~p~~~~~d~~cPf~G~~~vrgr~l~G~VvS~KM~KTivV~ve~~~~hpkY~K~~kr~kk~~aHDe~~n~~~v   82 (113)
T 3j20_R            3 RDIGLRVQPPAEKCDDPKCPWHGNLKIHGRVFEGIVVSDKPRKTVTVERQYYFYLNKYERYELRRSKIHAHNPPCINAKV   82 (113)
T ss_dssp             CCCCTTCCCCSSCCCCSSSTTSSSCCCCSCEEEEEEEECCSTTEEEEEEEEEEEETTTTEEEEEEEEEEEECCTTSCCCT
T ss_pred             hhcCCCCCCCcccccCCCCCCcceeeEeeEEEEEEEEeccCCceEEEEEEEEEEcCcccEEEECceEEEEECCCCCCCCC
Confidence            45677777778999999999999999999999999999999999999999999999999999999999999944999999


Q ss_pred             CCEEEEeecccCCCeeeEEEEEeeecCCC
Q 032855           94 GDHVIIGQCRPLSKTVRFNVLKVIPAGSS  122 (132)
Q Consensus        94 GD~V~I~ecRPiSKtK~~~V~~Ii~k~~~  122 (132)
                      ||+|+|+|||||||+|+|+|++|+++|.|
T Consensus        83 GD~V~I~E~RPlSKtKr~~vv~i~~~a~~  111 (113)
T 3j20_R           83 GDKVLIAETRPLSKTKHFVVVAVLERAEE  111 (113)
T ss_dssp             TSEEEEEECSCSSSSEEEEEEEECCCCCC
T ss_pred             CCEEEEEecccCCCcEeEEEEEEEecccc
Confidence            99999999999999999999999999764

>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=2e-50  Score=311.53  Aligned_cols=120  Identities=87%  Similarity=1.358  Sum_probs=79.2

Q ss_pred             Eeeeccc----hhhhcccccccCCCCCcceeeeecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCC
Q 032855           12 WERTRVL----MSLCFSGTYIDKKCPFTGTVSIRGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISP   87 (132)
Q Consensus        12 ~~~~~~~----~~~~~~~~~~d~~cp~~g~~~vr~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e   87 (132)
                      |-|..||    |+||++|+|+|++||||||++|||++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+|||||
T Consensus        35 ~~k~iGl~~k~P~~a~~g~y~D~kCPf~G~lsiRgril~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~  114 (161)
T 3iz6_P           35 FWKSIGLGFKTPREAIEGTYIDKKCPFTGTVSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSP  114 (161)
T ss_dssp             -----CCCCCCEEEECCCCSSSSCCSEEEEEEEEEEECTTTCCEEEEEEEEEEECTTCCCCSSCEEEEEECCCSSSSCCE
T ss_pred             EEEecCcCCCCChHHhcCcccccCCCccceeEEeeEEEEEEEEeccCCCeEEEEEEEEEecCccceEEECceeEEEECCC
Confidence            5566777    999999999999999999999999999999999999999999999999999999999999999999955


Q ss_pred             CCCCCCCCEEEEeecccCCCeeeEEEEEeeecCCCC--Cccccccc
Q 032855           88 CFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSSG--GAKKAFTA  131 (132)
Q Consensus        88 ~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~~~~--~~~~~f~~  131 (132)
                      ||+|++||+|+|+|||||||+|+|+|++|++++..+  +.++||.+
T Consensus       115 ~n~~kvGD~V~I~EcRPLSKtKrw~Vv~Iv~~~~~~~~~~~k~f~~  160 (161)
T 3iz6_P          115 CFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGSTGGSGGKKAFTA  160 (161)
T ss_dssp             EEEECCCCCC------------------------------------
T ss_pred             CCcCCCCCEEEEEeccCCCCcEeEEEEEEEecCcccccccchhccc
Confidence            899999999999999999999999999999998765  67899965

>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=3.1e-42  Score=261.37  Aligned_cols=96  Identities=27%  Similarity=0.291  Sum_probs=76.4

Q ss_pred             cccccCCCCCcceeeeec-EEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecc
Q 032855           25 GTYIDKKCPFTGTVSIRG-RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCR  103 (132)
Q Consensus        25 ~~~~d~~cp~~g~~~vr~-k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecR  103 (132)
                      .++.|++|||||+++|+| ++++|+|+|+||+|||+|+|+++++||+|+|+++++++|+||| |+|+|++||+|+|+|||
T Consensus        42 p~~~~~~cP~~G~lsvrg~k~l~G~VVS~KMdKTIvV~Ver~~~hpkY~K~vkr~kKy~AHD-e~n~~kvGD~V~I~E~R  120 (142)
T 3bbn_Q           42 PNSFPNHRMPALVPVIRAMKTMQGRVVCATSDKTVAVEVVRLAPHPKYKRRVRMKKKYQAHD-PDNQFKVGDVVRLEKSR  120 (142)
T ss_dssp             ------------------CCEEEEEEEECCSTTEEEEEEEEEEECSSSCSEEEEEEEEEEEC-TTCCCCTTEEEEEEECC
T ss_pred             CCCCCCcCCCCccccccceEEEEEEEEEccCCceEEEEEEEEEEcCccccEEecceEEEEEC-CCCCCCCCCEEEEEEcc
Confidence            358999999999999999 9999999999999999999999999999999999999999999 78999999999999999


Q ss_pred             cCCCeeeEEEEEeeecCC
Q 032855          104 PLSKTVRFNVLKVIPAGS  121 (132)
Q Consensus       104 PiSKtK~~~V~~Ii~k~~  121 (132)
                      ||||+|+|+|++|++++.
T Consensus       121 PLSKtKrw~VveIveka~  138 (142)
T 3bbn_Q          121 PISKTKSFVALPVIARAA  138 (142)
T ss_dssp             CSSSSCCEEECCCSEEEC
T ss_pred             CCCCcEEEEEEEEEeccc
Confidence            999999999999999865

>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=1.3e-36  Score=215.07  Aligned_cols=79  Identities=29%  Similarity=0.343  Sum_probs=76.8

Q ss_pred             cEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEEEeeecCC
Q 032855           42 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  121 (132)
Q Consensus        42 ~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~~  121 (132)
                      +++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+||| |+|+|++||+|+|+|||||||+|+|+|.+|++++.
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            58999999999999999999999999999999999999999999 78899999999999999999999999999999876

>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=7.6e-35  Score=211.47  Aligned_cols=79  Identities=34%  Similarity=0.433  Sum_probs=76.5

Q ss_pred             cEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEEEeeecCC
Q 032855           42 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  121 (132)
Q Consensus        42 ~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~~  121 (132)
                      +++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+||| |+|+|++||+|+|+|||||||+|+|.|++|++++.
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            58999999999999999999999999999999999999999999 77999999999999999999999999999999875

---

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	132
d2uubq1	100	b.40.4.5 (Q:2-101) Ribosomal protein S17 {Thermus	1e-23
d2gy9q1	78	b.40.4.5 (Q:5-82) Ribosomal protein S17 {Escherich	7e-21
d1ripa_	81	b.40.4.5 (A:) Ribosomal protein S17 {Bacillus stea	2e-20

>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 = 85.9 bits (213), Expect = 1e-23
 Identities = 26/75 (34%), Positives = 37/75 (49%), Gaps = 1/75 (1%)

Query: 43  RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQC 102
           ++L G   S KM +T+ V          Y +  KR     AH  P  + K GD V I + 
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAH-DPEEKYKLGDVVEIIES 61

Query: 103 RPLSKTVRFNVLKVI 117
           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 = 78.2 bits (193), Expect = 7e-21
 Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 1/75 (1%)

Query: 43  RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQC 102
           R L G   S KM ++I+V          Y ++ KR + +  H         GD V I +C
Sbjct: 1   RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENN-ECGIGDVVEIREC 59

Query: 103 RPLSKTVRFNVLKVI 117
           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 = 77.0 bits (190), Expect = 2e-20
 Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 1/77 (1%)

Query: 41  RGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIG 100
           + ++  G   S KM++TI V          Y +  K      AH       K GD V I 
Sbjct: 1   QRKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHN-EAKVGDIVKIM 59

Query: 101 QCRPLSKTVRFNVLKVI 117
           + 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	132
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=2.6e-35  Score=202.05  Aligned_cols=78  Identities=31%  Similarity=0.456  Sum_probs=75.4

Q ss_pred             EEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEEEeeecCC
Q 032855           43 RILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  121 (132)
Q Consensus        43 k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~~  121 (132)
                      ++|.|+|+|++|+||++|+++++++||+|+|+++++++|+||| |.|+|++||.|.|.|||||||+|+|.|.+|+++|.
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~kav   78 (78)
T d2gy9q1           1 RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHD-ENNECGIGDVVEIRECRPLSKTKSWTLVRVVEKAV   78 (78)
T ss_dssp             CEEEEEEEECCSSSEEEEEEEEEEECSSSCCEEEEEEEEEEEC-TTCCCCTTCEEEEEECSCSSSSCCEEEEEEEESCC
T ss_pred             CEEEEEEEecCCCCcEEEEEEEEEEcCccCEEEEeeEEEEEEC-CCCCCccccEEEEEEcCcCCCcEEEEEEEEEeccC
Confidence            4799999999999999999999999999999999999999999 78899999999999999999999999999999863

>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=2.3e-34  Score=205.53  Aligned_cols=79  Identities=34%  Similarity=0.433  Sum_probs=76.6

Q ss_pred             cEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEEEeeecCC
Q 032855           42 GRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  121 (132)
Q Consensus        42 ~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~~  121 (132)
                      +++|.|+|+|++|+|||+|+++++++||+|+|+++++++|+||| |+|.|++||+|+|.|||||||+|+|.|.+|++++.
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            58999999999999999999999999999999999999999999 78999999999999999999999999999999864

>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=9.3e-36  Score=205.67  Aligned_cols=80  Identities=29%  Similarity=0.345  Sum_probs=77.1

Q ss_pred             ecEEEEEEEEecCCCCeEEEEEeEEEeeeeeeeEEeeeeeEEEEcCCCCCCCCCCEEEEeecccCCCeeeEEEEEeeecC
Q 032855           41 RGRILAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAG  120 (132)
Q Consensus        41 r~k~l~G~VVS~Km~KTivV~v~~~~~hpkY~K~ikr~kky~vHD~e~n~~kvGD~V~I~ecRPiSKtK~~~V~~Ii~k~  120 (132)
                      ++++|.|+|+|++|+||++|+++++++||+|+|+++++++|+||| |+|+|++||+|.|.|||||||+|+|.|.+|+++|
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            468899999999999999999999999999999999999999999 7899999999999999999999999999999997


Q ss_pred             C
Q 032855          121 S  121 (132)
Q Consensus       121 ~  121 (132)
                      .
T Consensus        80 ~   80 (81)
T d1ripa_          80 V   80 (81)
T ss_dssp             C
T ss_pred             C
Confidence            5