Citrus Sinensis ID: 041511

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------
Protein Sequence
TNSPRTVPPPHHRFLSCAVDLRQLLWPPSVSSLSIQIGPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARIYVPPSADNAAAAAVSNPETEAPVSSS
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccccccccccEEEEEEEEEcccccEEEEEEEEEEccccccEEEEEEEcEEEEccccccccccEEEEEEcccccccccEEEEEEEEEccccccccccHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHcccccccHHHHHHHHcccEEEEEEEEEcccccEEEEEEEEccccccccEEEEEEEEEEEcccccccccccEEEEEccccccccccEEEEEEEEEEEEEccccHHHHHHccccccccccccccc
Coil and Loop (DISEMBL)
tnsprtvppphhrflSCAVDlrqllwppsvsslsiqigpsqmKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFmahdennecnigdrvrldpsrplskhKHWLVAEILKKAriyvppsadnaaaaavsnpeteapvsss
Flexible Loop (DISEMBL)
tnsprtvppphhRFLSCAVDLRQLLWPPSVSSLSIQIGPSQMKSVVGLVVSNKMQKSVVVAvdrlfhhkvYNRYVKRtskfmahdennecnigdrvrldpsrplSKHKHWLVAEILKKARIYVPPSADNAAaaavsnpeteapvsss
Low Complexity Region (SEG)
TNSPRTVPPPHHRFLSCAVDLRQLLWPPSVSSLSIQIGPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARIYvppsadnaaaaavsnPETEAPVSSS
Disordered region (IsUnstruct)
************RFLSCAVDLRQLLWPPSVSSLSIQIGPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRL*****LSKHKHWLVAEILKKARIYV************************
Disordered Region (DISOPRED)
******V*PPHHRFLSCAV***************************GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARI**************************
Disordered Region (DISEMBL)
**********HHRFLSCAVDLRQLLWPPSVSSLSIQIGPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARIYVPPS*********************
Disordered Region (DISPRO)
*****TVPPPHHRFLSCAVDLRQLLWPPSVSS*S****PSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARIYVPPS*********************
Transmembrane Helix (TMHMM)
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Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
TNSPRTVPPPHHRFLSCAVDLRQLLWPPSVSSLSIQIGPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARIYVPPSADNAAAAAVSNPETEAPVSSS
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	147	2.2.26 [Sep-21-2011]
B1I1J7	85	30S ribosomal protein S17	yes	no	0.510	0.882	0.6	9e-22
Q7U4J1	103	30S ribosomal protein S17	yes	no	0.591	0.844	0.478	2e-20
A7HM43	100	30S ribosomal protein S17	yes	no	0.598	0.88	0.5	2e-20
A4XLS1	86	30S ribosomal protein S17	yes	no	0.530	0.906	0.551	2e-20
Q605C1	86	30S ribosomal protein S17	yes	no	0.551	0.941	0.506	4e-20
B9MKH2	86	30S ribosomal protein S17	yes	no	0.530	0.906	0.564	4e-20
Q6LVA7	84	30S ribosomal protein S17	yes	no	0.557	0.976	0.512	4e-20
A5D5G4	87	30S ribosomal protein S17	yes	no	0.564	0.954	0.530	5e-20
Q8R7W3	84	30S ribosomal protein S17	yes	no	0.544	0.952	0.55	6e-20
B1LBN1	107	30S ribosomal protein S17	yes	no	0.517	0.710	0.552	6e-20

>sp|B1I1J7|RS17_DESAP 30S ribosomal protein S17 OS=Desulforudis audaxviator (strain MP104C) GN=rpsQ PE=3 SV=1

 Score =  102 bits (254), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 45/75 (60%), Positives = 61/75 (81%)

Query: 47  GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSK 106
           G VVS+KM K+VVVAVD L  H +Y R V+RT KFMAHDE+N+C IGD+V++  +RPLS+
Sbjct: 11  GRVVSDKMDKTVVVAVDTLVKHPLYGRTVRRTRKFMAHDEDNQCRIGDKVKIAETRPLSR 70

Query: 107 HKHWLVAEILKKARI 121
           HK W VAE+L++++I
Sbjct: 71  HKRWRVAEVLERSQI 85

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.
Desulforudis audaxviator (strain MP104C) (taxid: 477974)

>sp|Q7U4J1|RS17_SYNPX 30S ribosomal protein S17 OS=Synechococcus sp. (strain WH8102) GN=rpsQ PE=3 SV=1

 Score = 98.2 bits (243), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 44/92 (47%), Positives = 65/92 (70%), Gaps = 5/92 (5%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           +K  VG VVS+KM+K+VVVAV+  F H +Y + V RT+++ AHDE+N C +GDRVR+  +
Sbjct: 3   VKERVGTVVSDKMEKTVVVAVESRFPHPIYQKTVSRTTRYKAHDEDNSCRVGDRVRITET 62

Query: 102 RPLSKHKHWLVAEILKKARIYVPPSADNAAAA 133
           RP+S+HK W +AE+L  +     P AD +A +
Sbjct: 63  RPMSRHKRWAIAEVLSHS-----PKADKSAGS 89

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.

Synechococcus sp. (strain WH8102) (taxid: 84588)

>sp|A7HM43|RS17_FERNB 30S ribosomal protein S17 OS=Fervidobacterium nodosum (strain ATCC 35602 / DSM 5306 / Rt17-B1) GN=rpsQ PE=3 SV=1

 Score = 97.8 bits (242), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 44/88 (50%), Positives = 61/88 (69%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K +VG+VVS+KM K+V V V+RL  H  + +YVKRT KF AHDENN C +GD V ++ SR
Sbjct: 4   KRLVGVVVSDKMDKTVTVKVERLVKHAKFGKYVKRTKKFYAHDENNACRVGDVVEIEESR 63

Query: 103 PLSKHKHWLVAEILKKARIYVPPSADNA 130
           PLSK K W+V  IL+++++   P  +  
Sbjct: 64  PLSKLKRWVVVNILERSKLSETPEIEET 91

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.

Fervidobacterium nodosum (strain ATCC 35602 / DSM 5306 / Rt17-B1) (taxid: 381764)

>sp|A4XLS1|RS17_CALS8 30S ribosomal protein S17 OS=Caldicellulosiruptor saccharolyticus (strain ATCC 43494 / DSM 8903) GN=rpsQ PE=3 SV=1

 Score = 97.8 bits (242), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 43/78 (55%), Positives = 61/78 (78%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K+ +G+VVS+KM K+VVVAV+ L  H +Y + +KRT+KF AHDENNEC +GD+V +  +R
Sbjct: 9   KTRIGVVVSDKMDKTVVVAVETLVQHPLYKKTIKRTTKFKAHDENNECRVGDKVLIMETR 68

Query: 103 PLSKHKHWLVAEILKKAR 120
           PLSK K W V +IL++A+
Sbjct: 69  PLSKEKRWRVVQILERAK 86

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.

Caldicellulosiruptor saccharolyticus (strain ATCC 43494 / DSM 8903) (taxid: 351627)

>sp|Q605C1|RS17_METCA 30S ribosomal protein S17 OS=Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath) GN=rpsQ PE=3 SV=1

 Score = 97.1 bits (240), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 41/81 (50%), Positives = 61/81 (75%)

Query: 39  PSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRL 98
             +++SV G VVSNKM +++VVA++R   H +Y +Y++RT+K +AHDENNEC+IGD V L
Sbjct: 5   EGRVRSVTGRVVSNKMDRTIVVAIERQVSHPLYGKYIRRTTKVLAHDENNECSIGDLVTL 64

Query: 99  DPSRPLSKHKHWLVAEILKKA 119
             SRP+SK K W +  I+++A
Sbjct: 65  HASRPISKKKAWTLGAIVERA 85

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.

Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath) (taxid: 243233)

>sp|B9MKH2|RS17_CALBD 30S ribosomal protein S17 OS=Caldicellulosiruptor bescii (strain ATCC BAA-1888 / DSM 6725 / Z-1320) GN=rpsQ PE=3 SV=1

 Score = 97.1 bits (240), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 44/78 (56%), Positives = 61/78 (78%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K+ VG+VVS+KM K+VVVAV+R   H +Y + +KRT+KF AHDENNEC +GD+V +  +R
Sbjct: 9   KTRVGVVVSDKMDKTVVVAVERHVQHPLYKKTIKRTTKFKAHDENNECRVGDKVLIMETR 68

Query: 103 PLSKHKHWLVAEILKKAR 120
           PLSK K W V +IL++A+
Sbjct: 69  PLSKEKRWRVVQILERAK 86

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.

Anaerocellum thermophilum (strain DSM 6725 / Z-1320) (taxid: 521460)

>sp|Q6LVA7|RS17_PHOPR 30S ribosomal protein S17 OS=Photobacterium profundum GN=rpsQ PE=3 SV=1

 Score = 96.7 bits (239), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 42/82 (51%), Positives = 60/82 (73%)

Query: 40  SQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLD 99
            Q +  +G V+S+KM KS+VVA++R+  H +Y +Y+KRT+K  AHDENNECN+GD V + 
Sbjct: 3   EQTRIQLGRVISSKMDKSIVVAIERMVKHPMYGKYIKRTTKLHAHDENNECNLGDTVEVR 62

Query: 100 PSRPLSKHKHWLVAEILKKARI 121
             RPLSK K W +  I++KAR+
Sbjct: 63  ECRPLSKTKSWTLVRIVEKARV 84

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.

Photobacterium profundum (taxid: 74109)

>sp|A5D5G4|RS17_PELTS 30S ribosomal protein S17 OS=Pelotomaculum thermopropionicum (strain DSM 13744 / JCM 10971 / SI) GN=rpsQ PE=3 SV=1

 Score = 96.7 bits (239), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 44/83 (53%), Positives = 58/83 (69%)

Query: 38  GPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVR 97
           G    K++ G VVSNKM K+VVVAV+ L  H +Y R ++RT KF AHDE N C IGD+V+
Sbjct: 3   GRGIRKTLTGRVVSNKMDKTVVVAVETLVRHPLYQRTIRRTKKFKAHDEENACRIGDKVK 62

Query: 98  LDPSRPLSKHKHWLVAEILKKAR 120
           +  +RPLSK K W V EIL++ +
Sbjct: 63  MMETRPLSKEKRWRVVEILERTK 85

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.

Pelotomaculum thermopropionicum (strain DSM 13744 / JCM 10971 / SI) (taxid: 370438)

>sp|Q8R7W3|RS17_THETN 30S ribosomal protein S17 OS=Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) GN=rpsQ PE=3 SV=1

 Score = 96.3 bits (238), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 44/80 (55%), Positives = 58/80 (72%)

Query: 40  SQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLD 99
            Q K  +G VVSNKMQK++VVAV+  F H +Y + VKRT K+  HDENN CN+GD V++ 
Sbjct: 4   GQRKVRIGTVVSNKMQKTIVVAVEDKFRHPLYGKIVKRTKKYKVHDENNICNVGDVVKIM 63

Query: 100 PSRPLSKHKHWLVAEILKKA 119
            +RPLSK K W + E++KKA
Sbjct: 64  ETRPLSKEKRWRLVEVIKKA 83

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.

Thermoanaerobacter tengcongensis (strain DSM 15242 / JCM 11007 / NBRC 100824 / MB4) (taxid: 273068)

>sp|B1LBN1|RS17_THESQ 30S ribosomal protein S17 OS=Thermotoga sp. (strain RQ2) GN=rpsQ PE=3 SV=1

 Score = 96.3 bits (238), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 42/76 (55%), Positives = 57/76 (75%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K + G+VVS+KM K+VVVAV++L  H +Y +YVKRT K+ AHDE NEC IGD V ++ +R
Sbjct: 4   KRLTGIVVSDKMDKTVVVAVEKLVQHTIYKKYVKRTKKYHAHDERNECKIGDVVEIEETR 63

Query: 103 PLSKHKHWLVAEILKK 118
           PLSK K W V  I+++
Sbjct: 64  PLSKTKRWRVVRIIQR 79

One of the primary rRNA binding proteins, it binds specifically to the 5'-end of 16S ribosomal RNA.

Thermotoga sp. (strain RQ2) (taxid: 126740)

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	147
224087361	105	predicted protein [Populus trichocarpa]	0.700	0.980	0.831	3e-42
224118698	105	predicted protein [Populus trichocarpa]	0.714	1.0	0.790	6e-42
449438751	124	PREDICTED: 30S ribosomal protein S17-lik	0.666	0.790	0.806	5e-41
449438753	103	PREDICTED: 30S ribosomal protein S17-lik	0.653	0.932	0.822	1e-40
357468525	172	30S ribosomal protein S17 [Medicago trun	0.693	0.593	0.783	1e-40
388502514	103	unknown [Medicago truncatula]	0.646	0.922	0.826	2e-40
357495711	103	30S ribosomal protein S17 [Medicago trun	0.673	0.961	0.794	7e-40
388515351	102	unknown [Lotus japonicus] gi|388520851|g	0.693	1.0	0.798	4e-39
357113631	106	PREDICTED: 30S ribosomal protein S17-lik	0.721	1.0	0.735	6e-39
351725253	101	uncharacterized protein LOC100305504 [Gl	0.646	0.940	0.795	7e-39

>gi|224087361|ref|XP_002308136.1| predicted protein [Populus trichocarpa] gi|222854112|gb|EEE91659.1| predicted protein [Populus trichocarpa]

 Score =  176 bits (446), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 89/107 (83%), Positives = 95/107 (88%), Gaps = 4/107 (3%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           MKSVVG+VVSNKMQKSVVVAVDRLFHHK+YNRYVKRTSKFMAHDENN CNIGDRVRLDPS
Sbjct: 1   MKSVVGMVVSNKMQKSVVVAVDRLFHHKLYNRYVKRTSKFMAHDENNLCNIGDRVRLDPS 60

Query: 102 RPLSKHKHWLVAEILKKARIYVPPS-ADNAAAAAVSNPETEAPVSSS 147
           RPLSK K+W+VAEILKKARIYVPPS ADNAA+        EAP SS+
Sbjct: 61  RPLSKRKNWVVAEILKKARIYVPPSAADNAAS---KTKGAEAPTSST 104

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118698|ref|XP_002331425.1| predicted protein [Populus trichocarpa] gi|222873639|gb|EEF10770.1| predicted protein [Populus trichocarpa]

 Score =  175 bits (443), Expect = 6e-42,   Method: Compositional matrix adjust.
 Identities = 83/105 (79%), Positives = 93/105 (88%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           MKSVVG+VVSNKMQKSVVVAVDRLFHHK+YNRYVKRTSKFMAHDEN+ CNIGDRVRLDPS
Sbjct: 1   MKSVVGMVVSNKMQKSVVVAVDRLFHHKLYNRYVKRTSKFMAHDENDLCNIGDRVRLDPS 60

Query: 102 RPLSKHKHWLVAEILKKARIYVPPSADNAAAAAVSNPETEAPVSS 146
           RPLSK KHW+VAEILKKARIYVPPSA ++ A+  +  +  A  +S
Sbjct: 61  RPLSKRKHWVVAEILKKARIYVPPSAGDSGASNTAGMKASASSTS 105

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438751|ref|XP_004137151.1| PREDICTED: 30S ribosomal protein S17-like isoform 1 [Cucumis sativus] gi|449515672|ref|XP_004164872.1| PREDICTED: 30S ribosomal protein S17-like isoform 1 [Cucumis sativus]

 Score =  172 bits (436), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 79/98 (80%), Positives = 90/98 (91%)

Query: 40  SQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLD 99
           ++MK VVG+VVSNKMQKSVVVAVDRLF+HK+YNRYVKRTSKFMAHDENN+CNIGDRV+LD
Sbjct: 20  TKMKQVVGMVVSNKMQKSVVVAVDRLFYHKLYNRYVKRTSKFMAHDENNQCNIGDRVKLD 79

Query: 100 PSRPLSKHKHWLVAEILKKARIYVPPSADNAAAAAVSN 137
           PSRPLSKHKHW+VAEIL+KARIY PPS D  + +  SN
Sbjct: 80  PSRPLSKHKHWVVAEILRKARIYEPPSQDKQSVSDKSN 117

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438753|ref|XP_004137152.1| PREDICTED: 30S ribosomal protein S17-like isoform 2 [Cucumis sativus] gi|449515674|ref|XP_004164873.1| PREDICTED: 30S ribosomal protein S17-like isoform 2 [Cucumis sativus]

 Score =  171 bits (433), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 79/96 (82%), Positives = 88/96 (91%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           MK VVG+VVSNKMQKSVVVAVDRLF+HK+YNRYVKRTSKFMAHDENN+CNIGDRV+LDPS
Sbjct: 1   MKQVVGMVVSNKMQKSVVVAVDRLFYHKLYNRYVKRTSKFMAHDENNQCNIGDRVKLDPS 60

Query: 102 RPLSKHKHWLVAEILKKARIYVPPSADNAAAAAVSN 137
           RPLSKHKHW+VAEIL+KARIY PPS D  + +  SN
Sbjct: 61  RPLSKHKHWVVAEILRKARIYEPPSQDKQSVSDKSN 96

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357468525|ref|XP_003604547.1| 30S ribosomal protein S17 [Medicago truncatula] gi|355505602|gb|AES86744.1| 30S ribosomal protein S17 [Medicago truncatula]

 Score =  171 bits (432), Expect = 1e-40,   Method: Compositional matrix adjust.
 Identities = 83/106 (78%), Positives = 95/106 (89%), Gaps = 4/106 (3%)

Query: 35  IQIGPSQ-MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIG 93
           + IG ++ MK VVG+VVSNKMQKSVVVAVDRLFHHK++NRY+KRTSKFMAHDENN CNIG
Sbjct: 62  VGIGIAEKMKQVVGMVVSNKMQKSVVVAVDRLFHHKMFNRYIKRTSKFMAHDENNLCNIG 121

Query: 94  DRVRLDPSRPLSKHKHWLVAEILKKARIYVPPSA---DNAAAAAVS 136
           DRVRLD SRPLSKHKHW+VAEILKKARIYVPPSA   +NA++ +V 
Sbjct: 122 DRVRLDSSRPLSKHKHWVVAEILKKARIYVPPSATVSENASSNSVG 167

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388502514|gb|AFK39323.1| unknown [Medicago truncatula]

 Score =  170 bits (430), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 81/98 (82%), Positives = 90/98 (91%), Gaps = 3/98 (3%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           MK VVG+VVSNKMQKSVVVAVDRLFHHK++NRY+KRTSKFMAHDENN CNIGDRVRLD S
Sbjct: 1   MKQVVGMVVSNKMQKSVVVAVDRLFHHKMFNRYIKRTSKFMAHDENNLCNIGDRVRLDSS 60

Query: 102 RPLSKHKHWLVAEILKKARIYVPPSA---DNAAAAAVS 136
           RPLSKHKHW+VAEILKKARIYVPPSA   +NA++ +V 
Sbjct: 61  RPLSKHKHWVVAEILKKARIYVPPSATVSENASSNSVG 98

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357495711|ref|XP_003618144.1| 30S ribosomal protein S17 [Medicago truncatula] gi|355493159|gb|AES74362.1| 30S ribosomal protein S17 [Medicago truncatula]

 Score =  168 bits (425), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 81/102 (79%), Positives = 90/102 (88%), Gaps = 3/102 (2%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           MK VVG+VVSNKMQKSVVVAVDRLFHHK++NRY+KRTSKFMAHDENN CNIGDRVRLD S
Sbjct: 1   MKEVVGMVVSNKMQKSVVVAVDRLFHHKMFNRYIKRTSKFMAHDENNLCNIGDRVRLDSS 60

Query: 102 RPLSKHKHWLVAEILKKARIYVPPSA---DNAAAAAVSNPET 140
           RPLSK KHW+VAEILKKARIYVPPSA   +NA++ +V    T
Sbjct: 61  RPLSKRKHWVVAEILKKARIYVPPSATVSENASSNSVRATST 102

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388515351|gb|AFK45737.1| unknown [Lotus japonicus] gi|388520851|gb|AFK48487.1| unknown [Lotus japonicus]

 Score =  166 bits (419), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 83/104 (79%), Positives = 91/104 (87%), Gaps = 2/104 (1%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           MK VVG+VVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENN CNIGDRVRL+PS
Sbjct: 1   MKQVVGMVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNLCNIGDRVRLNPS 60

Query: 102 RPLSKHKHWLVAEILKKARIYVPPSADNAAAAAVSNPETEAPVS 145
           RPLSK+K W+VAEILKKARIYVPP++   +    S+  TEAP S
Sbjct: 61  RPLSKNKCWVVAEILKKARIYVPPTSTPVSEKVSSS--TEAPAS 102

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357113631|ref|XP_003558605.1| PREDICTED: 30S ribosomal protein S17-like [Brachypodium distachyon]

 Score =  165 bits (417), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 78/106 (73%), Positives = 93/106 (87%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           MK VVG+VVSNKMQKSVVVAVDRLFH+KVYNRYVKRTSKFMAHDE ++CNIGDRVRLDPS
Sbjct: 1   MKPVVGIVVSNKMQKSVVVAVDRLFHNKVYNRYVKRTSKFMAHDETDDCNIGDRVRLDPS 60

Query: 102 RPLSKHKHWLVAEILKKARIYVPPSADNAAAAAVSNPETEAPVSSS 147
           RPLSK+KHW+VAE+L++A++YVPPSA  A++   S  +  A  SS+
Sbjct: 61  RPLSKNKHWVVAEVLRRAKMYVPPSAATASSELGSTAQQAATKSSA 106

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351725253|ref|NP_001236318.1| uncharacterized protein LOC100305504 [Glycine max] gi|255625719|gb|ACU13204.1| unknown [Glycine max]

 Score =  165 bits (417), Expect = 7e-39,   Method: Compositional matrix adjust.
 Identities = 78/98 (79%), Positives = 91/98 (92%), Gaps = 3/98 (3%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           MK VVG+VVSNKMQKSVVVAVDRLF+HK+Y+RYVKRTSKFMAHDENN CNIGD+VRLDPS
Sbjct: 1   MKQVVGMVVSNKMQKSVVVAVDRLFYHKLYDRYVKRTSKFMAHDENNLCNIGDKVRLDPS 60

Query: 102 RPLSKHKHWLVAEILKKARIYVP---PSADNAAAAAVS 136
           RPLSKHKHW+VAEILKKA+IYVP   P++DN  +++V+
Sbjct: 61  RPLSKHKHWVVAEILKKAQIYVPLSTPASDNVNSSSVA 98

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	147
TAIR|locus:2087896	105	AT3G18880 [Arabidopsis thalian	0.714	1.0	0.688	3.1e-35
TAIR|locus:2010227	116	emb1129 "embryo defective 1129	0.551	0.698	0.839	5.8e-34
UNIPROTKB|Q9KNZ3	84	rpsQ "30S ribosomal protein S1	0.551	0.964	0.506	1.9e-19
TIGR_CMR|VC_2587	84	VC_2587 "ribosomal protein S17	0.551	0.964	0.506	1.9e-19
UNIPROTKB|P0AG63	84	rpsQ [Escherichia coli K-12 (t	0.537	0.940	0.481	2.8e-18
TIGR_CMR|CHY_2300	98	CHY_2300 "ribosomal protein S1	0.537	0.806	0.493	1.2e-17
TIGR_CMR|GSU_2848	85	GSU_2848 "ribosomal protein S1	0.517	0.894	0.526	2e-17
TIGR_CMR|SO_0240	82	SO_0240 "ribosomal protein S17	0.537	0.963	0.468	4.1e-17
TIGR_CMR|CPS_0864	83	CPS_0864 "ribosomal protein S1	0.544	0.963	0.425	9.8e-16
UNIPROTKB|P95058	135	rpsQ "30S ribosomal protein S1	0.530	0.577	0.461	1.1e-14

TAIR|locus:2087896 AT3G18880 [Arabidopsis thaliana (taxid:3702)]

 Score = 381 (139.2 bits), Expect = 3.1e-35, P = 3.1e-35
 Identities = 73/106 (68%), Positives = 83/106 (78%)

Query:    42 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
             MK+V+G VVSNKMQ SVVVAVDRLFH+ +YNRYVKRTSKFMAHDE + CNIGDRV+LDPS
Sbjct:     1 MKAVIGTVVSNKMQMSVVVAVDRLFHNNIYNRYVKRTSKFMAHDEKDSCNIGDRVKLDPS 60

Query:   102 RPLSKHKHWLVAEILKKARIYXXXXXXXXXXXXXXXPETEAPVSSS 147
             RPLSKHKHW+V+EI+KKARIY                E + PVSSS
Sbjct:    61 RPLSKHKHWIVSEIIKKARIYSPQAAAAALNSSTSIAE-QPPVSSS 105

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA;ISS

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

GO:0006354 "DNA-dependent transcription, elongation" evidence=RCA

TAIR|locus:2010227 emb1129 "embryo defective 1129" [Arabidopsis thaliana (taxid:3702)]

 Score = 369 (135.0 bits), Expect = 5.8e-34, P = 5.8e-34
 Identities = 68/81 (83%), Positives = 77/81 (95%)

Query:    42 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
             MK V+G VVSNKMQKSVVVAVDRLFH+K+YNRYVKRTSKFMAHD+ + CNIGDRV+LDPS
Sbjct:     1 MKPVIGTVVSNKMQKSVVVAVDRLFHNKIYNRYVKRTSKFMAHDDKDACNIGDRVKLDPS 60

Query:   102 RPLSKHKHWLVAEILKKARIY 122
             RPLSK+KHW+VAEI+KKARIY
Sbjct:    61 RPLSKNKHWIVAEIIKKARIY 81

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

GO:0005622 "intracellular" evidence=IEA

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

GO:0006354 "DNA-dependent transcription, elongation" evidence=RCA

UNIPROTKB|Q9KNZ3 rpsQ "30S ribosomal protein S17" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 41/81 (50%), Positives = 62/81 (76%)

Query:    41 QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDP 100
             ++++ +G VVS+KM KS+VVA++R+  H +Y ++VKRT+K  AHDENNEC IGD V +  
Sbjct:     4 KIRTQLGRVVSDKMDKSIVVAIERMVKHPIYGKFVKRTTKVHAHDENNECGIGDTVEIRE 63

Query:   101 SRPLSKHKHWLVAEILKKARI 121
              RPLSK K W + +I++KA++
Sbjct:    64 CRPLSKTKSWTLVKIVEKAKM 84

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_2587 VC_2587 "ribosomal protein S17" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 41/81 (50%), Positives = 62/81 (76%)

Query:    41 QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDP 100
             ++++ +G VVS+KM KS+VVA++R+  H +Y ++VKRT+K  AHDENNEC IGD V +  
Sbjct:     4 KIRTQLGRVVSDKMDKSIVVAIERMVKHPIYGKFVKRTTKVHAHDENNECGIGDTVEIRE 63

Query:   101 SRPLSKHKHWLVAEILKKARI 121
              RPLSK K W + +I++KA++
Sbjct:    64 CRPLSKTKSWTLVKIVEKAKM 84

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

GO:0006412 "translation" evidence=ISS

UNIPROTKB|P0AG63 rpsQ [Escherichia coli K-12 (taxid:83333)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 38/79 (48%), Positives = 58/79 (73%)

Query:    41 QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDP 100
             +++++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENNEC IGD V +  
Sbjct:     4 KIRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIRE 63

Query:   101 SRPLSKHKHWLVAEILKKA 119
              RPLSK K W +  +++KA
Sbjct:    64 CRPLSKTKSWTLVRVVEKA 82

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

GO:0019843 "rRNA binding" evidence=IDA

GO:0070181 "SSU rRNA binding" evidence=IDA

GO:0046677 "response to antibiotic" evidence=IEA;IMP

GO:0006412 "translation" evidence=IEA

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

TIGR_CMR|CHY_2300 CHY_2300 "ribosomal protein S17" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 215 (80.7 bits), Expect = 1.2e-17, P = 1.2e-17
 Identities = 39/79 (49%), Positives = 56/79 (70%)

Query:    43 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
             K  +G VVS+KM K+VVVAV+ L  H +Y + ++RT KF AHDE+N C  GD V++  +R
Sbjct:     8 KIKIGRVVSDKMDKTVVVAVEELVSHPLYKKTIRRTKKFKAHDEHNACRTGDIVKIAETR 67

Query:   103 PLSKHKHWLVAEILKKARI 121
             PLSK K W V EI+++ ++
Sbjct:    68 PLSKEKRWRVVEIIERGKV 86

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|GSU_2848 GSU_2848 "ribosomal protein S17" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 40/76 (52%), Positives = 54/76 (71%)

Query:    43 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
             K+ VG+VVS+KM K+VVV V  L  H VYN+Y+KR+ K+ AHD +N C  GDRV +  +R
Sbjct:     8 KTQVGVVVSDKMDKTVVVRVSHLVKHPVYNKYIKRSVKYKAHDTDNSCKTGDRVLIVETR 67

Query:   103 PLSKHKHWLVAEILKK 118
             PLSK K W V +I+ +
Sbjct:    68 PLSKDKRWKVRQIIDR 83

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|SO_0240 SO_0240 "ribosomal protein S17" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 210 (79.0 bits), Expect = 4.1e-17, P = 4.1e-17
 Identities = 37/79 (46%), Positives = 55/79 (69%)

Query:    41 QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDP 100
             +++++ G V SNKM K++ VA++R   H +Y +Y+KRT+K  AHDE N+CN GD V +  
Sbjct:     4 KIRTLQGRVTSNKMDKTITVAIERQVKHPIYGKYIKRTTKIHAHDEANQCNEGDVVAIRE 63

Query:   101 SRPLSKHKHWLVAEILKKA 119
              RPLSK K W + E++ KA
Sbjct:    64 CRPLSKTKSWTLVEVVSKA 82

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|CPS_0864 CPS_0864 "ribosomal protein S17" [Colwellia psychrerythraea 34H (taxid:167879)]

 Score = 197 (74.4 bits), Expect = 9.8e-16, P = 9.8e-16
 Identities = 34/80 (42%), Positives = 56/80 (70%)

Query:    40 SQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLD 99
             ++++++ G+VVSNKM KS+VV ++R   H +Y +Y+ R++K  AHDE N CN GD V + 
Sbjct:     4 TKIRTLQGVVVSNKMDKSIVVLIERRVKHPMYGKYMTRSTKLKAHDETNVCNEGDLVTIT 63

Query:   100 PSRPLSKHKHWLVAEILKKA 119
                P+SK K+W + +++ KA
Sbjct:    64 EVAPISKSKNWKLVDVITKA 83

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

GO:0006412 "translation" evidence=ISS

GO:0015935 "small ribosomal subunit" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

UNIPROTKB|P95058 rpsQ "30S ribosomal protein S17" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 187 (70.9 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 36/78 (46%), Positives = 53/78 (67%)

Query:    43 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
             K+ +G VVS+KMQK++VV ++    H +Y + ++ T K  AHDE++   IGDRV L  +R
Sbjct:    58 KTRIGYVVSDKMQKTIVVELEDRMRHPLYGKIIRTTKKVKAHDEDSVAGIGDRVSLMETR 117

Query:   103 PLSKHKHWLVAEILKKAR 120
             PLS  K W + EIL+KA+
Sbjct:   118 PLSATKRWRLVEILEKAK 135

GO:0005886 "plasma membrane" evidence=IDA

GO:0040007 "growth" evidence=IMP

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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

Fail to connect to STRING server

---

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	147
PRK05610	84	PRK05610, rpsQ, 30S ribosomal protein S17; Reviewe	1e-38
COG0186	87	COG0186, RpsQ, Ribosomal protein S17 [Translation,	2e-34
TIGR03635	71	TIGR03635, S17_bact, 30S ribosomal protein S17	2e-34
CHL00142	84	CHL00142, rps17, ribosomal protein S17; Validated	4e-28
pfam00366	69	pfam00366, Ribosomal_S17, Ribosomal protein S17	4e-24
PRK08572	108	PRK08572, rps17p, 30S ribosomal protein S17P; Revi	1e-16
TIGR03630	102	TIGR03630, arch_S17P, archaeal ribosomal protein S	9e-15
PTZ00241	158	PTZ00241, PTZ00241, 40S ribosomal protein S11; Pro	6e-06

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

 Score =  125 bits (317), Expect = 1e-38
 Identities = 41/78 (52%), Positives = 56/78 (71%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K++ G VVS+KM K++VV V+R   H +Y + VKR+ K+ AHDENNE  IGD VR+  +R
Sbjct: 7   KTLQGRVVSDKMDKTIVVLVERRVKHPLYGKIVKRSKKYHAHDENNEAKIGDVVRIMETR 66

Query: 103 PLSKHKHWLVAEILKKAR 120
           PLSK K W + EI++KA 
Sbjct: 67  PLSKTKRWRLVEIVEKAV 84

Length = 84

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

 Score =  114 bits (288), Expect = 2e-34
 Identities = 39/79 (49%), Positives = 57/79 (72%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           + + G+VVS+KM K+VVV V+R  +H  Y +YV+R+ K+ AHDE NE  +GD VR+  +R
Sbjct: 9   RVLEGVVVSDKMDKTVVVEVERKVYHPKYGKYVRRSKKYHAHDECNEAKVGDIVRIAETR 68

Query: 103 PLSKHKHWLVAEILKKARI 121
           PLSK K ++V EI++KA  
Sbjct: 69  PLSKTKRFVVVEIVEKAVE 87

Length = 87

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

 Score =  114 bits (287), Expect = 2e-34
 Identities = 38/70 (54%), Positives = 52/70 (74%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K++ G+VVS+KM K++VV V+R   H +Y + VKRT K+ AHDENNEC +GD VR+  +R
Sbjct: 2   KTLQGVVVSDKMDKTIVVLVERRVKHPLYGKIVKRTKKYHAHDENNECKVGDVVRIIETR 61

Query: 103 PLSKHKHWLV 112
           PLSK K W +
Sbjct: 62  PLSKTKRWRL 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|177064 CHL00142, rps17, ribosomal protein S17; Validated

 Score = 99.0 bits (247), Expect = 4e-28
 Identities = 39/78 (50%), Positives = 59/78 (75%)

Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           +K  +G+VVSNKM K++VVAV+  + H +Y + + +T K++ HDE NECNIGD+V ++ +
Sbjct: 3   VKEKIGIVVSNKMNKTIVVAVENRYKHPIYGKIITKTKKYLVHDEENECNIGDQVLIEET 62

Query: 102 RPLSKHKHWLVAEILKKA 119
           RPLSK K W++ EIL K+
Sbjct: 63  RPLSKTKRWILKEILSKS 80

Length = 84

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

 Score = 88.2 bits (219), Expect = 4e-24
 Identities = 32/69 (46%), Positives = 45/69 (65%)

Query: 47  GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSK 106
           G+VVS+KM+K++VV V+RL  H  Y +Y KRT K+ AHD      +GD V++   RPLSK
Sbjct: 1   GVVVSDKMEKTIVVRVERLVPHPKYGKYEKRTKKYPAHDPPCFRKVGDVVKIGECRPLSK 60

Query: 107 HKHWLVAEI 115
            K + V  +
Sbjct: 61  TKRFRVVRV 69

Length = 69

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

 Score = 70.3 bits (173), Expect = 1e-16
 Identities = 33/80 (41%), Positives = 48/80 (60%), Gaps = 5/80 (6%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNEC---NIGDRVRLD 99
           + + G VVS+KM K+VVV  + L +   Y RY KR S+  AH  N  C    +GD+V++ 
Sbjct: 30  QVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAH--NPPCIDAKVGDKVKIA 87

Query: 100 PSRPLSKHKHWLVAEILKKA 119
             RPLSK K ++V E  ++A
Sbjct: 88  ECRPLSKTKSFVVVEKKERA 107

Length = 108

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

 Score = 65.0 bits (159), Expect = 9e-15
 Identities = 31/74 (41%), Positives = 44/74 (59%), Gaps = 5/74 (6%)

Query: 46  VGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNEC---NIGDRVRLDPSR 102
            G+VVS+KM K+VVV  + L++ + Y RY +R SK  AH  N  C     GD V +  +R
Sbjct: 31  EGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAH--NPPCIDVKEGDIVIIGETR 88

Query: 103 PLSKHKHWLVAEIL 116
           PLSK K ++V   +
Sbjct: 89  PLSKTKSFVVLGKV 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|240326 PTZ00241, PTZ00241, 40S ribosomal protein S11; Provisional

 Score = 43.2 bits (102), Expect = 6e-06
 Identities = 25/73 (34%), Positives = 39/73 (53%), Gaps = 1/73 (1%)

Query: 47  GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENN-ECNIGDRVRLDPSRPLS 105
           G+V+S KM++++++  D L + K YNRY KR      H     +   GD V +   RPLS
Sbjct: 73  GVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVHCSPCFDVKEGDIVVVGQCRPLS 132

Query: 106 KHKHWLVAEILKK 118
           K   + V ++ K 
Sbjct: 133 KTVRFNVLKVEKN 145

Length = 158

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	147
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
PRK08572	108	rps17p 30S ribosomal protein S17P; Reviewed	100.0
TIGR03630	102	arch_S17P archaeal ribosomal protein S17P. This mo	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
PTZ00241	158	40S ribosomal protein S11; Provisional	99.97
KOG1740	107	consensus Predicted mitochondrial/chloroplast ribo	99.97
KOG1728	156	consensus 40S ribosomal protein S11 [Translation,	99.85
KOG3447	150	consensus Mitochondrial/chloroplast ribosomal S17-	99.72

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

Probab=100.00  E-value=5.4e-35  Score=211.31  Aligned_cols=82  Identities=48%  Similarity=0.750  Sum_probs=79.0

Q ss_pred             cCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEec
Q 041511           39 PSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKK  118 (147)
Q Consensus        39 ~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~k  118 (147)
                      +.+++.|+|+|+|++|+|||+|.+++.++||+|+||+++++||+||||+++|++||+|+|+|||||||+|+|+|++|+++
T Consensus         5 ~~~~k~l~G~VvS~Km~KTvvV~ve~~~~hp~Y~K~v~r~kK~~aHde~~~~k~GD~V~I~EtRPLSKtK~~~vv~i~~~   84 (87)
T COG0186           5 RVRGRVLEGVVVSDKMDKTVVVEVERKVYHPKYGKYVRRSKKYHAHDECNEAKVGDIVRIAETRPLSKTKRFVVVEIVEK   84 (87)
T ss_pred             ccCceEEEEEEEEccCceeEEEEEEEEEecccceEEEEEEeeeEeecccccCCCCCEEEEEEccccCCcceEEEEEEeee
Confidence            56788999999999999999999999999999999999999999999999999999999999999999999999999987


Q ss_pred             cc
Q 041511          119 AR  120 (147)
Q Consensus       119 ~~  120 (147)
                      +.
T Consensus        85 a~   86 (87)
T COG0186          85 AV   86 (87)
T ss_pred             cc
Confidence            64

>CHL00142 rps17 ribosomal protein S17; Validated

Probab=100.00  E-value=1.7e-34  Score=207.27  Aligned_cols=80  Identities=49%  Similarity=0.944  Sum_probs=77.3

Q ss_pred             cceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEecccc
Q 041511           42 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARI  121 (147)
Q Consensus        42 ~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~k~~~  121 (147)
                      .+.|+|+|+|++|+|||+|+|++++|||+|+|+++++++|+||||+|+|++||+|+|+|||||||+|+|.|.+|+++++.
T Consensus         3 ~~~~~G~Vvs~km~KTivV~v~r~~~h~kY~K~~~r~kk~~aHDe~n~~~~GD~V~I~e~RPlSKtK~~~v~~i~~~~~~   82 (84)
T CHL00142          3 VKEKIGIVVSNKMNKTIVVAVENRYKHPIYGKIITKTKKYLVHDEENECNIGDQVLIEETRPLSKTKRWILKEILSKSSL   82 (84)
T ss_pred             ceEEEEEEEeCCCCceEEEEEEEEEEcCcccEEEEeeEEEEEeCCCCCCCCCCEEEEEEcCCCCCcEEEEEEEEEEeeec
Confidence            46799999999999999999999999999999999999999999999999999999999999999999999999998764

>PRK05610 rpsQ 30S ribosomal protein S17; Reviewed

Probab=100.00  E-value=3.4e-34  Score=205.44  Aligned_cols=78  Identities=53%  Similarity=0.829  Sum_probs=76.2

Q ss_pred             cceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEecc
Q 041511           42 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKA  119 (147)
Q Consensus        42 ~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~k~  119 (147)
                      ++.|+|+|+|++|+||++|+|++++|||+|+||++++++|+||||+|+|++||+|+|+|||||||+|+|+|.+|++++
T Consensus         6 ~~~l~G~Vvs~km~KTvvV~v~r~~~h~kY~K~~~r~kk~~aHD~~n~~k~GD~V~I~e~rPlSK~K~~~v~~i~~~~   83 (84)
T PRK05610          6 RKTLQGRVVSDKMDKTIVVLVERRVKHPLYGKIVKRSKKYHAHDENNEAKIGDVVRIMETRPLSKTKRWRLVEIVEKA   83 (84)
T ss_pred             CCEEEEEEEcccCCceEEEEEEEEEEeccccEEEEcceEEEEECCCCCCCCCCEEEEEEcccCCCCEEEEEEEEEecc
Confidence            578999999999999999999999999999999999999999999999999999999999999999999999999875

>PRK08572 rps17p 30S ribosomal protein S17P; Reviewed

Probab=100.00  E-value=1.6e-33  Score=210.43  Aligned_cols=81  Identities=40%  Similarity=0.608  Sum_probs=78.0

Q ss_pred             cCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCC-CCCCCCCEEEEeecCcCCcceeEEEEEEEe
Q 041511           39 PSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN-NECNIGDRVRLDPSRPLSKHKHWLVAEILK  117 (147)
Q Consensus        39 ~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~-n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~  117 (147)
                      +.+++.|+|+|+|++|+|||+|+|+++++||+|+|+++++++|+||||+ |+|++||+|+|+|||||||+|+|.|.+|++
T Consensus        26 ~irgk~l~G~VvS~Km~KTvvV~v~r~~~hpkY~K~i~r~kky~aHDe~cn~~kvGD~V~I~E~RPiSKtK~w~v~~i~~  105 (108)
T PRK08572         26 PVRGQVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAHNPPCIDAKVGDKVKIAECRPLSKTKSFVVVEKKE  105 (108)
T ss_pred             eeeeEEEEEEEEecCCCceEEEEEEEEEecCCccEEEEEeeeEEEECCCCCCCCCCCEEEEEEcCCCCCceEEEEEEEEE
Confidence            4567899999999999999999999999999999999999999999999 799999999999999999999999999998


Q ss_pred             cc
Q 041511          118 KA  119 (147)
Q Consensus       118 k~  119 (147)
                      ++
T Consensus       106 ~~  107 (108)
T PRK08572        106 RA  107 (108)
T ss_pred             cC
Confidence            75

>TIGR03630 arch_S17P archaeal ribosomal protein S17P

Probab=100.00  E-value=3.9e-33  Score=206.63  Aligned_cols=78  Identities=37%  Similarity=0.554  Sum_probs=75.3

Q ss_pred             cCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCC-CCCCCCCEEEEeecCcCCcceeEEEEEEE
Q 041511           39 PSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN-NECNIGDRVRLDPSRPLSKHKHWLVAEIL  116 (147)
Q Consensus        39 ~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~-n~~kvGDiV~I~ecRPiSK~K~f~V~eIi  116 (147)
                      +.+++.|+|+|+|++|+|||+|+|+|+++||+|+|+++++++|+||||+ |+|++||+|+|+|||||||+|+|.|.+|+
T Consensus        24 ~irgk~l~G~VvS~Km~KTivV~V~r~~~hpkY~K~i~r~kky~aHDe~cn~~kvGD~V~I~E~RPlSKtK~w~vv~i~  102 (102)
T TIGR03630        24 KVRGQILEGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAHNPPCIDVKEGDIVIIGETRPLSKTKSFVVLGKV  102 (102)
T ss_pred             eeeeEEEEEEEEecCCCceEEEEEEEEEecCCccEEEEEeeeEEEECCCCCCCCCCCEEEEEEcCCCCCceEEEEEEeC
Confidence            5578899999999999999999999999999999999999999999999 79999999999999999999999999985

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

>TIGR03635 S17_bact 30S ribosomal protein S17

Probab=100.00  E-value=1.2e-32  Score=192.00  Aligned_cols=70  Identities=54%  Similarity=0.922  Sum_probs=68.6

Q ss_pred             ceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEE
Q 041511           43 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLV  112 (147)
Q Consensus        43 k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V  112 (147)
                      +.|+|+|+|++|+||++|+|++++|||+|+|+++++++|+||||+|+|++||+|+|+|||||||+|+|.|
T Consensus         2 ~~l~G~Vvs~km~KTvvV~v~~~~~h~ky~k~~~r~kk~~aHD~~~~~k~GD~V~I~ecrPlSK~K~~~~   71 (71)
T TIGR03635         2 KTLQGVVVSDKMDKTIVVLVERRVKHPLYGKIVKRTKKYHAHDENNECKVGDVVRIIETRPLSKTKRWRL   71 (71)
T ss_pred             eEEEEEEEcccCCceEEEEEEEEEEeccccEEEEccEEEEEECCCCCCCCCCEEEEEEcCCcCCceEeEC
Confidence            5799999999999999999999999999999999999999999999999999999999999999999985

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=9.2e-32  Score=186.16  Aligned_cols=69  Identities=57%  Similarity=0.989  Sum_probs=67.1

Q ss_pred             EEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEE
Q 041511           47 GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEI  115 (147)
Q Consensus        47 G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eI  115 (147)
                      |+|+|++|+||++|+|++++|||+|+|+++++++|+||||+|+|++||+|+|+|||||||+|+|.|.++
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 GVVVSDKMDKTVVVRVERLVYHPKYKKYIKRTKKYMAHDENNICKVGDKVRIRECRPISKTKRFVVVEV   69 (69)
T ss_dssp             EEEEEEESTTEEEEEEEEEEEETTTEEEEEEEEEEEEE-TTSSSTTTSEEEEEEEEEEETTEEEEEEEE
T ss_pred             CEEEEcCCCCeEEEEEEEEEEcceEeeccCccccEEEeCCccCCCCCCEEEEEeeeccCCcEeEEEEEC
Confidence            999999999999999999999999999999999999999999999999999999999999999999986

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 ....

>PTZ00241 40S ribosomal protein S11; Provisional

Probab=99.97  E-value=1.2e-30  Score=205.79  Aligned_cols=82  Identities=30%  Similarity=0.426  Sum_probs=78.3

Q ss_pred             ccCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECC-CCCCCCCCEEEEeecCcCCcceeEEEEEEE
Q 041511           38 GPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDE-NNECNIGDRVRLDPSRPLSKHKHWLVAEIL  116 (147)
Q Consensus        38 ~~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp-~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi  116 (147)
                      .+.++++|+|+|+|++|+|||+|++++++|||+|+||++++++|+|||+ .++|++||+|+|+|||||||+|+|+|++|+
T Consensus        64 ~~iRgril~G~VvS~KM~KTIVV~ve~~~~h~kY~K~~kr~kk~~aHd~~~~~~kvGD~V~I~EcRPLSKTKrf~Vv~V~  143 (158)
T PTZ00241         64 VSIRGRILRGVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVHCSPCFDVKEGDIVVVGQCRPLSKTVRFNVLKVE  143 (158)
T ss_pred             eeEcceEEEEEEEEccCCccEEEEEEEEEecCccceEEEeeecEEEeCCccCCCCCCCEEEEEEcCCCCCceeEEEEEEE
Confidence            4778999999999999999999999999999999999999999999996 579999999999999999999999999999


Q ss_pred             ecc
Q 041511          117 KKA  119 (147)
Q Consensus       117 ~k~  119 (147)
                      +++
T Consensus       144 ~~~  146 (158)
T PTZ00241        144 KNE  146 (158)
T ss_pred             ecc
Confidence            865

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

Probab=99.97  E-value=9.8e-32  Score=199.26  Aligned_cols=95  Identities=66%  Similarity=1.037  Sum_probs=86.6

Q ss_pred             cceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEecccc
Q 041511           42 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARI  121 (147)
Q Consensus        42 ~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~k~~~  121 (147)
                      ++.++|+|+|.+|+||++|+|+++.+||+|+||++++++|+|||+.|.|++||.|+|.+||||||+|+|++.+||+++++
T Consensus         2 m~~~vg~VvS~kmqKTv~V~V~rl~~n~~ynryv~~~~kymahD~~n~cnvGD~VrlepsRPlSk~K~f~i~eII~~a~r   81 (107)
T KOG1740|consen    2 MKNVVGTVVSNKMQKTVKVRVDRLFFNPKYNRYVKRTSKYMAHDDKNQCNVGDRVRLEPSRPLSKTKHFIIAEIIKKARR   81 (107)
T ss_pred             CccceeeeeecccCceeEEEeeeccccHHHHHHHHHhhheeecCccccccccceEEeccCCcccccceeehHHHHHHHhh
Confidence            45689999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             cCCCCccchhccccc
Q 041511          122 YVPPSADNAAAAAVS  136 (147)
Q Consensus       122 ~~~p~~~~~~~~~~~  136 (147)
                      ..+.....+..+..+
T Consensus        82 ~spa~~~ea~~s~~~   96 (107)
T KOG1740|consen   82 YSPAAEAEALGSSAS   96 (107)
T ss_pred             hCcchhhhhhcCchh
Confidence            877666555444333

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

Probab=99.85  E-value=2.9e-22  Score=156.32  Aligned_cols=84  Identities=35%  Similarity=0.434  Sum_probs=80.1

Q ss_pred             ccCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCC--CCCCCCEEEEeecCcCCcceeEEEEEE
Q 041511           38 GPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENN--ECNIGDRVRLDPSRPLSKHKHWLVAEI  115 (147)
Q Consensus        38 ~~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n--~~kvGDiV~I~ecRPiSK~K~f~V~eI  115 (147)
                      .+.++++|.|+|++.||++||+|+.++++|.+||++|.+|++++.||...+  ++++||+|+|+|||||||+++|.|+++
T Consensus        64 vsIRGril~G~V~k~Km~rTIvvrrdYlHy~~KY~ryekrHkN~svh~SPcFrdi~~gDiVtvGecrPLSKtvrfnVLkv  143 (156)
T KOG1728|consen   64 VSIRGRILTGTVVKMKMQRTIVVRRDYLHYIKKYNRYEKRHKNMSVHVSPCFRDIQEGDIVTVGECRPLSKTVRFNVLKV  143 (156)
T ss_pred             eeEeeEEEeeEEeeeceeEEEEEEhhhhhHhHHhhHHHHhccCCccccchhhhccccCCEEEEeecccccceEEEEEEEE
Confidence            477899999999999999999999999999999999999999999999997  799999999999999999999999999


Q ss_pred             Eecccc
Q 041511          116 LKKARI  121 (147)
Q Consensus       116 i~k~~~  121 (147)
                      ++.++.
T Consensus       144 ~k~~g~  149 (156)
T KOG1728|consen  144 IKAAGS  149 (156)
T ss_pred             eecCCC
Confidence            988753

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

Probab=99.72  E-value=1.4e-18  Score=135.08  Aligned_cols=98  Identities=27%  Similarity=0.407  Sum_probs=92.8

Q ss_pred             cceeeccCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeec-CcCCcceeEE
Q 041511           33 LSIQIGPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS-RPLSKHKHWL  111 (147)
Q Consensus        33 ~~~~~~~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ec-RPiSK~K~f~  111 (147)
                      ||+.-.+..++.|.|.|+..+|+|+++|++.++.++|..+||+.+++.|+|||+...|++||+|+|++. -+..+..+|.
T Consensus         1 ~sv~~~s~~~~~lmGk~ig~~~q~~akVR~~r~eld~yL~kYf~k~~~yfAhD~~~~c~vGDtVLir~lp~r~t~~V~H~   80 (150)
T KOG3447|consen    1 MSVVKSSVHAQWLMGKVIGTKMQKTAKVRVTRLELDPYLLKYFNKRKTYFAHDALQQCTVGDTVLIRALPVRRTKHVKHE   80 (150)
T ss_pred             CceEEeecccEEEEeeeeeccccccceeeeehhhcCHHHHHHhccccceeecchhhccccCCEEEEecCCcchhhhhhhh
Confidence            456667888999999999999999999999999999999999999999999999999999999999999 6889999999


Q ss_pred             EEEEEecccccCCCCccch
Q 041511          112 VAEILKKARIYVPPSADNA  130 (147)
Q Consensus       112 V~eIi~k~~~~~~p~~~~~  130 (147)
                      |.+|+.+-|.+.||.||.-
T Consensus        81 v~~VVfk~G~IidPvTGkk   99 (150)
T KOG3447|consen   81 VAEVVFKVGKIIDPVTGKK   99 (150)
T ss_pred             hHhheeecccccCCCcCcc
Confidence            9999999999999999974

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	147
1vs5_Q	84	Crystal Structure Of The Bacterial Ribosome From Es		3e-19
1p6g_Q	83	Real Space Refined Coordinates Of The 30s Subunit F		3e-19
3fih_Q	80	Ternary Complex-Bound E.Coli 70s Ribosome. This Ent		4e-19
2gy9_Q	79	Structure Of The 30s Subunit Of A Pre-Translocation		8e-19
3mr8_Q	99	Recognition Of The Amber Stop Codon By Release Fact		2e-13
1fjg_Q	105	Structure Of The Thermus Thermophilus 30s Ribosomal		3e-13
2j00_Q	105	Structure Of The Thermus Thermophilus 70s Ribosome		3e-13
3fic_Q	100	T. Thermophilus 70s Ribosome In Complex With Mrna,		3e-13
1j5e_Q	104	Structure Of The Thermus Thermophilus 30s Ribosomal		3e-13
1i94_Q	104	Crystal Structures Of The Small Ribosomal Subunit W		3e-13
1eg0_G	93	Fitting Of Components With Known Structure Into An		8e-13
1rip_A	81	Ribosomal Protein S17: Characterization Of The Thre		1e-12
1qd7_I	89	Partial Model For 30s Ribosomal Subunit Length = 89		1e-12
3bbn_Q	142	Homology Model For The Spinach Chloroplast 30s Subu		8e-11
3j20_R	113	Promiscuous Behavior Of Proteins In Archaeal Riboso		6e-08
2zkq_q	158	Structure Of A Mammalian Ribosomal 40s Subunit With		2e-04

>pdb|1VS5|Q Chain Q, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 30s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 84

Iteration: 1
 Score = 90.5 bits (223), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 38/80 (47%), Positives = 58/80 (72%)
Query: 40  SQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLD 99
            +++++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENNEC IGD V + 
Sbjct: 3   DKIRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIR 62
Query: 100 PSRPLSKHKHWLVAEILKKA 119
             RPLSK K W +  +++KA
Sbjct: 63  ECRPLSKTKSWTLVRVVEKA 82

>pdb|1P6G|Q Chain Q, Real Space Refined Coordinates Of The 30s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 83

Iteration: 1
 Score = 90.5 bits (223), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 38/80 (47%), Positives = 58/80 (72%)
Query: 40  SQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLD 99
            +++++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENNEC IGD V + 
Sbjct: 2   DKIRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIR 61
Query: 100 PSRPLSKHKHWLVAEILKKA 119
             RPLSK K W +  +++KA
Sbjct: 62  ECRPLSKTKSWTLVRVVEKA 81

>pdb|3FIH|Q Chain Q, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry Consists Of The 30s Subunit, Trnas And The Ternary Complex. Length = 80

Iteration: 1
 Score = 90.1 bits (222), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 38/79 (48%), Positives = 58/79 (73%)
Query: 41  QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDP 100
           +++++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENNEC IGD V +  
Sbjct: 1   KIRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIRE 60
Query: 101 SRPLSKHKHWLVAEILKKA 119
            RPLSK K W +  +++KA
Sbjct: 61  CRPLSKTKSWTLVRVVEKA 79

>pdb|2GY9|Q Chain Q, Structure Of The 30s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 79

Iteration: 1
 Score = 89.0 bits (219), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 38/77 (49%), Positives = 56/77 (72%)
Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           +++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENNEC IGD V +   R
Sbjct: 1   RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIRECR 60
Query: 103 PLSKHKHWLVAEILKKA 119
           PLSK K W +  +++KA
Sbjct: 61  PLSKTKSWTLVRVVEKA 77

>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 = 70.9 bits (172), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 62
Query: 103 PLSKHKHWLVAEILKKARI 121
           P+SK K + V  +++  R+
Sbjct: 63  PISKRKRFRVLRLVESGRM 81

>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 = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 63
Query: 103 PLSKHKHWLVAEILKKARI 121
           P+SK K + V  +++  R+
Sbjct: 64  PISKRKRFRVLRLVESGRM 82

>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 = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 63
Query: 103 PLSKHKHWLVAEILKKARI 121
           P+SK K + V  +++  R+
Sbjct: 64  PISKRKRFRVLRLVESGRM 82

>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 = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 62
Query: 103 PLSKHKHWLVAEILKKARI 121
           P+SK K + V  +++  R+
Sbjct: 63  PISKRKRFRVLRLVESGRM 81

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

Iteration: 1
 Score = 70.9 bits (172), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 62
Query: 103 PLSKHKHWLVAEILKKARI 121
           P+SK K + V  +++  R+
Sbjct: 63  PISKRKRFRVLRLVESGRM 81

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

Iteration: 1
 Score = 70.5 bits (171), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 32/79 (40%), Positives = 53/79 (67%)
Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD      +GD V +  +R
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEERYKVGDVVEIIEAR 62
Query: 103 PLSKHKHWLVAEILKKARI 121
           P+SK K + V  ++++ R+
Sbjct: 63  PISKRKRFRVLRLVEEGRL 81

>pdb|1RIP|A Chain A, Ribosomal Protein S17: Characterization Of The Three- Dimensional Structure By 1h-And 15n-Nmr Length = 81

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 35/79 (44%), Positives = 52/79 (65%)
Query: 41  QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDP 100
           Q K  VG VVS+KM K++ V V+    H +Y + VK + K+ AHDE+NE  +GD V++  
Sbjct: 1   QRKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIME 60
Query: 101 SRPLSKHKHWLVAEILKKA 119
           +RPLS  K + + EI++KA
Sbjct: 61  TRPLSATKRFRLVEIVEKA 79

>pdb|1QD7|I Chain I, Partial Model For 30s Ribosomal Subunit Length = 89

Iteration: 1
 Score = 68.9 bits (167), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 35/79 (44%), Positives = 52/79 (65%)
Query: 41  QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDP 100
           Q K  VG VVS+KM K++ V V+    H +Y + VK + K+ AHDE+NE  +GD V++  
Sbjct: 1   QRKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIME 60
Query: 101 SRPLSKHKHWLVAEILKKA 119
           +RPLS  K + + EI++KA
Sbjct: 61  TRPLSATKRFRLVEIVEKA 79

>pdb|3BBN|Q Chain Q, Homology Model For The Spinach Chloroplast 30s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 142

Iteration: 1
 Score = 62.4 bits (150), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 32/78 (41%), Positives = 47/78 (60%)
Query: 42  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPS 101
           MK++ G VV     K+V V V RL  H  Y R V+   K+ AHD +N+  +GD VRL+ S
Sbjct: 60  MKTMQGRVVCATSDKTVAVEVVRLAPHPKYKRRVRMKKKYQAHDPDNQFKVGDVVRLEKS 119
Query: 102 RPLSKHKHWLVAEILKKA 119
           RP+SK K ++   ++ +A
Sbjct: 120 RPISKTKSFVALPVIARA 137

>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 = 52.8 bits (125), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 46/76 (60%), Gaps = 5/76 (6%)
Query: 47  GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNEC---NIGDRVRLDPSRP 103
           G+VVS+K +K+V V     F+   Y RY  R SK  AH  N  C    +GD+V +  +RP
Sbjct: 36  GIVVSDKPRKTVTVERQYYFYLNKYERYELRRSKIHAH--NPPCINAKVGDKVLIAETRP 93
Query: 104 LSKHKHWLVAEILKKA 119
           LSK KH++V  +L++A
Sbjct: 94  LSKTKHFVVVAVLERA 109

>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 = 41.2 bits (95), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 39/75 (52%), Gaps = 2/75 (2%)
Query: 47  GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDE--NNECNIGDRVRLDPSRPL 104
           G+V   KMQ+++V+  D L + + YNR+ KR      H      +  IGD V +   RPL
Sbjct: 75  GVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDVQIGDIVTVGECRPL 134
Query: 105 SKHKHWLVAEILKKA 119
           SK   + V ++ K A
Sbjct: 135 SKTVRFNVLKVTKAA 149

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	147
3r8n_Q	80	30S ribosomal protein S17; protein biosynthesis, R	1e-40
1qd7_I	89	S17 ribosomal protein; 30S ribosomal subunit, low	1e-39
2vqe_Q	105	30S ribosomal protein S17; tRNA-binding, rRNA-bind	4e-39
3bbn_Q	142	Ribosomal protein S17; small ribosomal subunit, sp	1e-37
3u5c_L	156	RP41, S18, YS12, 40S ribosomal protein S11-A; tran	2e-32
2xzm_Q	157	Ribosomal protein S17 containing protein; ribosome	6e-32
3iz6_P	161	40S ribosomal protein S11 (S17P); eukaryotic ribos	3e-31
2zkq_q	158	40S ribosomal protein S11E; protein-RNA complex, 4	5e-31

>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 =  127 bits (322), Expect = 1e-39
 Identities = 38/93 (40%), Positives = 56/93 (60%), Gaps = 4/93 (4%)

Query: 41  QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDP 100
           Q K  VG VVS+KM K++ V V+    H +Y + VK + K+ AHDE+NE  +GD V++  
Sbjct: 1   QRKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIME 60

Query: 101 SRPLSKHKHWLVAEILKKARIYVPPSADNAAAA 133
           +RPLS  K + + EI++KA      +   A AA
Sbjct: 61  TRPLSATKRFRLVEIVEKA----VRAGAGAGAA 89

>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 =  127 bits (320), Expect = 4e-39
 Identities = 33/79 (41%), Positives = 53/79 (67%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 63

Query: 103 PLSKHKHWLVAEILKKARI 121
           P+SK K + V  +++  R+
Sbjct: 64  PISKRKRFRVLRLVESGRM 82

>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 =  124 bits (313), Expect = 1e-37
 Identities = 31/77 (40%), Positives = 46/77 (59%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K++ G VV     K+V V V RL  H  Y R V+   K+ AHD +N+  +GD VRL+ SR
Sbjct: 61  KTMQGRVVCATSDKTVAVEVVRLAPHPKYKRRVRMKKKYQAHDPDNQFKVGDVVRLEKSR 120

Query: 103 PLSKHKHWLVAEILKKA 119
           P+SK K ++   ++ +A
Sbjct: 121 PISKTKSFVALPVIARA 137

>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 =  111 bits (280), Expect = 2e-32
 Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 1/78 (1%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAH-DENNECNIGDRVRLDPS 101
           K + G VVS KM +++V+    L +   YNRY KR      H        +GD V +   
Sbjct: 69  KILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVTVGQC 128

Query: 102 RPLSKHKHWLVAEILKKA 119
           RP+SK   + V ++   A
Sbjct: 129 RPISKTVRFNVVKVSAAA 146

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

 Score =  110 bits (276), Expect = 6e-32
 Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 1/84 (1%)

Query: 39  PSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAH-DENNECNIGDRVR 97
             + K + GLV+S KM ++V++  D L + + YNRY KR      H         GD + 
Sbjct: 64  SIRGKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVHISPCFSVKEGDILV 123

Query: 98  LDPSRPLSKHKHWLVAEILKKARI 121
               RP+SK   +   +++    I
Sbjct: 124 AGQCRPISKTVRFNALQVVPNEII 147

>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 =  108 bits (272), Expect = 3e-31
 Identities = 24/82 (29%), Positives = 37/82 (45%), Gaps = 1/82 (1%)

Query: 39  PSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAH-DENNECNIGDRVR 97
             + + + G   S KM ++++V  + L   K Y RY KR S   AH         GD V 
Sbjct: 66  SIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKEGDHVI 125

Query: 98  LDPSRPLSKHKHWLVAEILKKA 119
           +   RPLSK   + V +++   
Sbjct: 126 IGQCRPLSKTVRFNVLKVIPAG 147

>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 =  107 bits (270), Expect = 5e-31
 Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 2/79 (2%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN--NECNIGDRVRLDP 100
           + + G+V   KMQ+++V+  D L + + YNR+ KR      H      +  IGD V +  
Sbjct: 71  RILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDVQIGDIVTVGE 130

Query: 101 SRPLSKHKHWLVAEILKKA 119
            RPLSK   + V ++ K A
Sbjct: 131 CRPLSKTVRFNVLKVTKAA 149

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	147
1qd7_I	89	S17 ribosomal protein; 30S ribosomal subunit, low	100.0
3r8n_Q	80	30S ribosomal protein S17; protein biosynthesis, R	100.0
3j20_R	113	30S ribosomal protein S17P; archaea, archaeal, KIN	100.0
2vqe_Q	105	30S ribosomal protein S17; tRNA-binding, rRNA-bind	100.0
3bbn_Q	142	Ribosomal protein S17; small ribosomal subunit, sp	100.0
2xzm_Q	157	Ribosomal protein S17 containing protein; ribosome	99.98
3u5c_L	156	RP41, S18, YS12, 40S ribosomal protein S11-A; tran	99.97
2zkq_q	158	40S ribosomal protein S11E; protein-RNA complex, 4	99.97
3iz6_P	161	40S ribosomal protein S11 (S17P); eukaryotic ribos	99.96

>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=7.6e-37  Score=220.48  Aligned_cols=81  Identities=42%  Similarity=0.616  Sum_probs=78.5

Q ss_pred             cceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEecccc
Q 041511           42 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARI  121 (147)
Q Consensus        42 ~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~k~~~  121 (147)
                      .++|+|+|+|++|+|||+|+|+++++||+|+||++++++|+||||+|+|++||+|+|+|||||||+|+|.|++|++++..
T Consensus         2 ~k~l~G~VvS~Km~KTivV~ve~~~~hp~Y~K~~kr~kk~~aHDe~n~~k~GD~V~I~E~RPlSKtK~~~vv~iv~~a~~   81 (89)
T 1qd7_I            2 RKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMETRPLSATKRFRLVEIVEKAVR   81 (89)
T ss_pred             cEEEEEEEEecCCCceEEEEEEEEEEcCccceEEeccEEEEEeCCccCCCCCCEEEEEEcccCCCCEEEEEEEEEeecee
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999876


Q ss_pred             c
Q 041511          122 Y  122 (147)
Q Consensus       122 ~  122 (147)
                      +
T Consensus        82 ~   82 (89)
T 1qd7_I           82 A   82 (89)
T ss_pred             e
Confidence            4

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

Probab=100.00  E-value=3.8e-34  Score=214.16  Aligned_cols=83  Identities=36%  Similarity=0.538  Sum_probs=79.8

Q ss_pred             ccCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECC-CCCCCCCCEEEEeecCcCCcceeEEEEEEE
Q 041511           38 GPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDE-NNECNIGDRVRLDPSRPLSKHKHWLVAEIL  116 (147)
Q Consensus        38 ~~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp-~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi  116 (147)
                      .+.++++|+|+|+|++|+|||+|+|+++++||+|+||++++++|+|||| .|+|++||+|+|+|||||||+|+|.|++|+
T Consensus        27 ~~vrgr~l~G~VvS~KM~KTivV~ve~~~~hpkY~K~~kr~kk~~aHDe~~n~~~vGD~V~I~E~RPlSKtKr~~vv~i~  106 (113)
T 3j20_R           27 LKIHGRVFEGIVVSDKPRKTVTVERQYYFYLNKYERYELRRSKIHAHNPPCINAKVGDKVLIAETRPLSKTKHFVVVAVL  106 (113)
T ss_dssp             CCCCSCEEEEEEEECCSTTEEEEEEEEEEEETTTTEEEEEEEEEEEECCTTSCCCTTSEEEEEECSCSSSSEEEEEEEEC
T ss_pred             eeEeeEEEEEEEEeccCCceEEEEEEEEEEcCcccEEEECceEEEEECCCCCCCCCCCEEEEEecccCCCcEeEEEEEEE
Confidence            3668899999999999999999999999999999999999999999999 789999999999999999999999999999


Q ss_pred             eccc
Q 041511          117 KKAR  120 (147)
Q Consensus       117 ~k~~  120 (147)
                      +++.
T Consensus       107 ~~a~  110 (113)
T 3j20_R          107 ERAE  110 (113)
T ss_dssp             CCCC
T ss_pred             eccc
Confidence            9875

>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=2.2e-34  Score=213.10  Aligned_cols=81  Identities=41%  Similarity=0.703  Sum_probs=78.2

Q ss_pred             cceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEecccc
Q 041511           42 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARI  121 (147)
Q Consensus        42 ~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~k~~~  121 (147)
                      .++|+|+|+|++|+|||+|.|+++++||+|+||++++++|+||||+|+|++||+|+|+|||||||+|+|.|++|++++..
T Consensus         3 ~k~l~G~VvS~Km~KTivV~ver~~~hpkY~K~~kr~kk~~aHDe~n~~k~GD~V~I~E~RPlSKtKr~~vv~iv~~a~~   82 (105)
T 2vqe_Q            3 KKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESRPISKRKRFRVLRLVESGRM   82 (105)
T ss_dssp             CCEEEEEEEEEEETTEEEEEEEEEEECTTTCCEEEEEEEEEEECTTCCCCTTCEEEEEEEEEEETTEEEEEEEEEECCCH
T ss_pred             ceEEEEEEEecCCCcEEEEEEEEEEEcCccceEEecceEEEEECCCCCCCCCCEEEEEEcccCCCCEEEEEEEEeecccc
Confidence            37899999999999999999999999999999999999999999999999999999999999999999999999999875


Q ss_pred             c
Q 041511          122 Y  122 (147)
Q Consensus       122 ~  122 (147)
                      +
T Consensus        83 ~   83 (105)
T 2vqe_Q           83 D   83 (105)
T ss_dssp             H
T ss_pred             c
Confidence            3

>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=3.4e-34  Score=221.51  Aligned_cols=82  Identities=38%  Similarity=0.583  Sum_probs=76.7

Q ss_pred             cCcc-ceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEe
Q 041511           39 PSQM-KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILK  117 (147)
Q Consensus        39 ~~~~-k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~  117 (147)
                      +.++ ++|+|+|+|++|+|||+|+|+++++||+|+||+++++||+||||+|+|++||+|+|+|||||||+|+|+|++|++
T Consensus        56 svrg~k~l~G~VVS~KMdKTIvV~Ver~~~hpkY~K~vkr~kKy~AHDe~n~~kvGD~V~I~E~RPLSKtKrw~VveIve  135 (142)
T 3bbn_Q           56 VIRAMKTMQGRVVCATSDKTVAVEVVRLAPHPKYKRRVRMKKKYQAHDPDNQFKVGDVVRLEKSRPISKTKSFVALPVIA  135 (142)
T ss_dssp             ----CCEEEEEEEECCSTTEEEEEEEEEEECSSSCSEEEEEEEEEEECTTCCCCTTEEEEEEECCCSSSSCCEEECCCSE
T ss_pred             cccceEEEEEEEEEccCCceEEEEEEEEEEcCccccEEecceEEEEECCCCCCCCCCEEEEEEccCCCCcEEEEEEEEEe
Confidence            4555 899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccc
Q 041511          118 KAR  120 (147)
Q Consensus       118 k~~  120 (147)
                      ++.
T Consensus       136 ka~  138 (142)
T 3bbn_Q          136 RAA  138 (142)
T ss_dssp             EEC
T ss_pred             ccc
Confidence            876

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

Probab=99.98  E-value=2.1e-32  Score=214.48  Aligned_cols=82  Identities=28%  Similarity=0.390  Sum_probs=78.1

Q ss_pred             ccCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECC-CCCCCCCCEEEEeecCcCCcceeEEEEEEE
Q 041511           38 GPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDE-NNECNIGDRVRLDPSRPLSKHKHWLVAEIL  116 (147)
Q Consensus        38 ~~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp-~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi  116 (147)
                      .+.++++|+|+|+|++|+|||+|+|+++++||+|+|+++++++|+|||| .|+|++||+|+|+|||||||+|+|+|++|+
T Consensus        63 lsvRgr~l~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDee~n~~kvGD~V~I~EcRPLSKtKrw~Vv~I~  142 (157)
T 2xzm_Q           63 LSIRGKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVHISPCFSVKEGDILVAGQCRPISKTVRFNALQVV  142 (157)
T ss_dssp             CCCCSCEEEEEEEECCSTTEEEEEEEEEEEETTTTEEEEEEEEEEEECCTTSCCCTTCEEEEEECCCCSSSCCEEEEEEC
T ss_pred             eeeeeEEEEEEEEEecCCccEEEEEEEEEecCccceEeecceeEEEECCCCCCCCCCCEEEEEEcCCCCCcEEEEEEEEE
Confidence            3668899999999999999999999999999999999999999999995 589999999999999999999999999999


Q ss_pred             ecc
Q 041511          117 KKA  119 (147)
Q Consensus       117 ~k~  119 (147)
                      +++
T Consensus       143 ~ka  145 (157)
T 2xzm_Q          143 PNE  145 (157)
T ss_dssp             CCC
T ss_pred             ecc
Confidence            774

>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=99.97  E-value=3e-32  Score=213.42  Aligned_cols=82  Identities=30%  Similarity=0.414  Sum_probs=78.5

Q ss_pred             cCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCC-CCCCCCCEEEEeecCcCCcceeEEEEEEEe
Q 041511           39 PSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN-NECNIGDRVRLDPSRPLSKHKHWLVAEILK  117 (147)
Q Consensus        39 ~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~-n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~  117 (147)
                      +.++++|+|+|+|++|+|||+|++++++|||+|+|+++++++|+||||+ |+|++||+|+|+|||||||+|+|+|++|++
T Consensus        65 svRgr~l~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~~n~~kvGD~V~I~EcRPLSKtKrw~Vv~Iv~  144 (156)
T 3u5c_L           65 SIRGKILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVTVGQCRPISKTVRFNVVKVSA  144 (156)
T ss_dssp             CEEEEEEEEEEEECCSTTEEEEEEEEEEEEGGGTEEEEEEEEEEEECCTTSCCCTTCEEEEEEEEEEETTEEEEEEEECC
T ss_pred             eEeeEEEEEEEEeecCCCeEEEEEEEEeecCccceEEECceEEEEECCCcCcCCCCCEEEEEecccCCCcEeEEEEEEEe
Confidence            5688999999999999999999999999999999999999999999985 699999999999999999999999999999


Q ss_pred             ccc
Q 041511          118 KAR  120 (147)
Q Consensus       118 k~~  120 (147)
                      +++
T Consensus       145 ka~  147 (156)
T 3u5c_L          145 AAG  147 (156)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            863

>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=99.97  E-value=5.7e-32  Score=212.20  Aligned_cols=82  Identities=32%  Similarity=0.441  Sum_probs=71.9

Q ss_pred             ccCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCC-C-CCCCCCEEEEeecCcCCcceeEEEEEE
Q 041511           38 GPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN-N-ECNIGDRVRLDPSRPLSKHKHWLVAEI  115 (147)
Q Consensus        38 ~~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~-n-~~kvGDiV~I~ecRPiSK~K~f~V~eI  115 (147)
                      .+.++++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+||||+ | +|++||+|+|+|||||||+|+|+|++|
T Consensus        66 lsvRGr~l~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~~n~~~kvGD~V~I~E~RPLSKtKrw~Vv~I  145 (158)
T 2zkq_q           66 VSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKV  145 (158)
T ss_dssp             -----CEEEEEEEECSSSCEEEEEEEEECSSTTCCCEEEEEEEECCBCCSSCCCC-CCCEEEEECCSCSSSCC-CEEEEE
T ss_pred             cceeeEEEEEEEEEccCCccEEEEEEEEEecCccceeeecceeEEEECCcccCcCCCCCEEEEEEccccCCcEEEEEEEE
Confidence            36788999999999999999999999999999999999999999999987 4 799999999999999999999999999


Q ss_pred             Eecc
Q 041511          116 LKKA  119 (147)
Q Consensus       116 i~k~  119 (147)
                      ++.+
T Consensus       146 ~~~~  149 (158)
T 2zkq_q          146 TKAA  149 (158)
T ss_dssp             EEC-
T ss_pred             ecCC
Confidence            9754

>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=99.96  E-value=4.6e-32  Score=213.25  Aligned_cols=82  Identities=29%  Similarity=0.402  Sum_probs=56.5

Q ss_pred             ccCccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECC-CCCCCCCCEEEEeecCcCCcceeEEEEEEE
Q 041511           38 GPSQMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDE-NNECNIGDRVRLDPSRPLSKHKHWLVAEIL  116 (147)
Q Consensus        38 ~~~~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp-~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi  116 (147)
                      .+.++++|+|+|+|++|+|||+|++++++|||+|+||++++++|+|||| .|+|++||+|+|+|||||||+|+|+|++|+
T Consensus        65 lsiRgril~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~~n~~kvGD~V~I~EcRPLSKtKrw~Vv~Iv  144 (161)
T 3iz6_P           65 VSIRGRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVI  144 (161)
T ss_dssp             EEEEEEECTTTCCEEEEEEEEEEECTTCCCCSSCEEEEEECCCSSSSCCEEEEECCCCCC--------------------
T ss_pred             eEEeeEEEEEEEEeccCCCeEEEEEEEEEecCccceEEECceeEEEECCCCCcCCCCCEEEEEeccCCCCcEeEEEEEEE
Confidence            4678999999999999999999999999999999999999999999998 479999999999999999999999999999


Q ss_pred             ecc
Q 041511          117 KKA  119 (147)
Q Consensus       117 ~k~  119 (147)
                      +++
T Consensus       145 ~~~  147 (161)
T 3iz6_P          145 PAG  147 (161)
T ss_dssp             ---
T ss_pred             ecC
Confidence            886

---

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	147
d2uubq1	100	b.40.4.5 (Q:2-101) Ribosomal protein S17 {Thermus	3e-35
d2gy9q1	78	b.40.4.5 (Q:5-82) Ribosomal protein S17 {Escherich	4e-33
d1ripa_	81	b.40.4.5 (A:) Ribosomal protein S17 {Bacillus stea	2e-32

>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 =  115 bits (291), Expect = 3e-35
 Identities = 33/85 (38%), Positives = 54/85 (63%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 3   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 62

Query: 103 PLSKHKHWLVAEILKKARIYVPPSA 127
           P+SK K + V  +++  R+ +    
Sbjct: 63  PISKRKRFRVLRLVESGRMDLVEKY 87

>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 =  109 bits (275), Expect = 4e-33
 Identities = 38/77 (49%), Positives = 56/77 (72%)

Query: 43  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSR 102
           +++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENNEC IGD V +   R
Sbjct: 1   RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIRECR 60

Query: 103 PLSKHKHWLVAEILKKA 119
           PLSK K W +  +++KA
Sbjct: 61  PLSKTKSWTLVRVVEKA 77

>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 =  107 bits (270), Expect = 2e-32
 Identities = 35/79 (44%), Positives = 52/79 (65%)

Query: 41  QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDP 100
           Q K  VG VVS+KM K++ V V+    H +Y + VK + K+ AHDE+NE  +GD V++  
Sbjct: 1   QRKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIME 60

Query: 101 SRPLSKHKHWLVAEILKKA 119
           +RPLS  K + + EI++KA
Sbjct: 61  TRPLSATKRFRLVEIVEKA 79

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	147
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=7.2e-35  Score=203.65  Aligned_cols=77  Identities=49%  Similarity=0.915  Sum_probs=75.3

Q ss_pred             ceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEecc
Q 041511           43 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKA  119 (147)
Q Consensus        43 k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~k~  119 (147)
                      ++|.|+|+|++|+||++|+|+|+++||+|+|+++++++|+||||+|+|++||+|+|+|||||||+|+|.|.+|++++
T Consensus         1 r~l~G~Vvs~km~KTv~V~v~r~~~h~ky~K~~~~~kky~aHDe~~~~~~GD~V~I~e~rPlSK~K~~~v~~iv~ka   77 (78)
T d2gy9q1           1 RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIRECRPLSKTKSWTLVRVVEKA   77 (78)
T ss_dssp             CEEEEEEEECCSSSEEEEEEEEEEECSSSCCEEEEEEEEEEECTTCCCCTTCEEEEEECSCSSSSCCEEEEEEEESC
T ss_pred             CEEEEEEEecCCCCcEEEEEEEEEEcCccCEEEEeeEEEEEECCCCCCccccEEEEEEcCcCCCcEEEEEEEEEecc
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999886

>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=3.8e-34  Score=208.30  Aligned_cols=80  Identities=41%  Similarity=0.723  Sum_probs=77.7

Q ss_pred             cceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEecccc
Q 041511           42 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKARI  121 (147)
Q Consensus        42 ~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~k~~~  121 (147)
                      .++|.|+|+|++|+|||+|.|+++++||+|+||++++++|+||||+|+|++||+|+|.|||||||+|+|.|.+|++++++
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~~   81 (100)
T d2uubq1           2 KKVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESRPISKRKRFRVLRLVESGRM   81 (100)
T ss_dssp             CCEEEEEECCCCBTTEEEEEEEEEEEETTTEEEEEEEEEEEEECTTCCCCTTCEEEEEEEEEEETTEEEEEEEEEECCCH
T ss_pred             CeEEEEEEEEcCCCCcEEEEEEEEEeccccCEEEEeeEEEEEECCCCCCCCCCEEEEEECcCCCCceEEEEEEEEeccCC
Confidence            36899999999999999999999999999999999999999999999999999999999999999999999999999875

>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=5.4e-35  Score=205.67  Aligned_cols=79  Identities=44%  Similarity=0.671  Sum_probs=76.6

Q ss_pred             ccceEEEEEEeCCCCceEEEEEeeEEeecceeeEEeeeceEEEECCCCCCCCCCEEEEeecCcCCcceeEEEEEEEecc
Q 041511           41 QMKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNECNIGDRVRLDPSRPLSKHKHWLVAEILKKA  119 (147)
Q Consensus        41 ~~k~l~G~VVS~km~KTvvV~V~r~~~hpkY~K~i~r~kK~~vHDp~n~~kvGDiV~I~ecRPiSK~K~f~V~eIi~k~  119 (147)
                      +++.|+|+|+|++|+||++|+|+|+++||+|+|+++++++|+||||+|+|++||+|+|.|||||||+|+|.|.+|++++
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 QRKVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMETRPLSATKRFRLVEIVEKA   79 (81)
T ss_dssp             CCSCBCCEESCCCSSSCSCCCBCCSCCCSCSSSCCCCSBCCCCCCCSTTCSSCEECCBCCCCCSSSCCCCCCCCCBSSS
T ss_pred             CCcEEEEEEEecCCCCcEEEEEEEEEEcCccCEEEEeeEEEEEECCCCCCccCCEEEEEEccCCCCCeeEEEEEEehHh
Confidence            3578999999999999999999999999999999999999999999999999999999999999999999999999886