Citrus Sinensis ID: 034020

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100------
Protein Sequence
MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARIYVPPSADNAAAAAVSNTQTEALVSSS
Secondary Structure (PSIPRED)
ccEEEEEEEEcccccEEEEEEEEEEccccccEEEEEEEcEEEEccccccccccEEEEEEcccccccccEEEEEEEEEcEEcccccccHHHHHHccccccccccccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEEEcccccEEEEEEEEccccccccEEEEEcEEEEEcccccccccccEEEEEccccccccccEEEEEEEEEEEEEcccccccHHHccccccEcccccccc
Coil and Loop (DISEMBL)
MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKfmahdennqcnigdrvrldpsrplskhKHWAVAEILKKAriyvppsadnaAAAAVSNTQTEALVSSS
Flexible Loop (DISEMBL)
mksvvglvvsnkmqksvvvavdrlfhhkVYNRYVKRtskfmahdennqcnigdrvrldpsrpLSKHKHWAVAEILKKARIYVPPSADNAAAAAVSNTQTEALVSSS
Low Complexity Region (SEG)
MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARIYvppsadnaaaaavsnTQTEALVSSS
Disordered region (IsUnstruct)
****VGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVR********KHKHWAVAEILKKARIYVP***********************
Disordered Region (DISOPRED)
MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARI**************************
Disordered Region (DISEMBL)
MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARIYVPPSA********************
Disordered Region (DISPRO)
MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARIYVPPS*********************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARIYVPPSADNAAAAAVSNTQTEALVSSS
Positional Conservation
no confident homologs detected

---

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	106	2.2.26 [Sep-21-2011]
B1I1J7	85	30S ribosomal protein S17	yes	no	0.707	0.882	0.613	2e-22
Q7U4J1	103	30S ribosomal protein S17	yes	no	0.820	0.844	0.489	1e-21
Q0ID14	88	30S ribosomal protein S17	yes	no	0.735	0.886	0.538	5e-21
A7HM43	100	30S ribosomal protein S17	yes	no	0.830	0.88	0.5	2e-20
A4XLS1	86	30S ribosomal protein S17	yes	no	0.735	0.906	0.538	2e-20
A5GIT6	88	30S ribosomal protein S17	yes	no	0.707	0.852	0.573	3e-20
A5D5G4	87	30S ribosomal protein S17	yes	no	0.735	0.896	0.551	3e-20
A8ZV66	85	30S ribosomal protein S17	yes	no	0.688	0.858	0.575	3e-20
B9MKH2	86	30S ribosomal protein S17	yes	no	0.735	0.906	0.551	4e-20
Q6LVA7	84	30S ribosomal protein S17	yes	no	0.716	0.904	0.526	5e-20

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

 Score =  104 bits (259), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 46/75 (61%), Positives = 61/75 (81%)

Query: 6  GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSK 65
          G VVS+KM K+VVVAVD L  H +Y R V+RT KFMAHDE+NQC IGD+V++  +RPLS+
Sbjct: 11 GRVVSDKMDKTVVVAVDTLVKHPLYGRTVRRTRKFMAHDEDNQCRIGDKVKIAETRPLSR 70

Query: 66 HKHWAVAEILKKARI 80
          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 =  101 bits (252), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 45/92 (48%), Positives = 66/92 (71%), Gaps = 5/92 (5%)

Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          +K  VG VVS+KM+K+VVVAV+  F H +Y + V RT+++ AHDE+N C +GDRVR+  +
Sbjct: 3  VKERVGTVVSDKMEKTVVVAVESRFPHPIYQKTVSRTTRYKAHDEDNSCRVGDRVRITET 62

Query: 61 RPLSKHKHWAVAEILKKARIYVPPSADNAAAA 92
          RP+S+HK WA+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|Q0ID14|RS17_SYNS3 30S ribosomal protein S17 OS=Synechococcus sp. (strain CC9311) GN=rpsQ PE=3 SV=1

 Score = 99.4 bits (246), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 42/78 (53%), Positives = 60/78 (76%)

Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          +K  VG VVS+KM K+VVVAV+  F H +Y + V RT+++ AHDE+N C +GDRVR+  +
Sbjct: 3  LKERVGTVVSDKMDKTVVVAVENRFPHPIYQKTVSRTTRYKAHDEDNACRVGDRVRITET 62

Query: 61 RPLSKHKHWAVAEILKKA 78
          RPLS+HK WA+AE+L ++
Sbjct: 63 RPLSRHKRWAIAEVLSQS 80

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

Synechococcus sp. (strain CC9311) (taxid: 64471)

>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 = 60/88 (68%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K +VG+VVS+KM K+V V V+RL  H  + +YVKRT KF AHDENN C +GD V ++ SR
Sbjct: 4  KRLVGVVVSDKMDKTVTVKVERLVKHAKFGKYVKRTKKFYAHDENNACRVGDVVEIEESR 63

Query: 62 PLSKHKHWAVAEILKKARIYVPPSADNA 89
          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 = 97.4 bits (241), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 42/78 (53%), Positives = 61/78 (78%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K+ +G+VVS+KM K+VVVAV+ L  H +Y + +KRT+KF AHDENN+C +GD+V +  +R
Sbjct: 9  KTRIGVVVSDKMDKTVVVAVETLVQHPLYKKTIKRTTKFKAHDENNECRVGDKVLIMETR 68

Query: 62 PLSKHKHWAVAEILKKAR 79
          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|A5GIT6|RS17_SYNPW 30S ribosomal protein S17 OS=Synechococcus sp. (strain WH7803) GN=rpsQ PE=3 SV=1

 Score = 97.1 bits (240), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 43/75 (57%), Positives = 57/75 (76%)

Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          +K  VG VVS+KM K+VVVAV+  F H +Y + V RT+++ AHDENN   +GDRVR+  +
Sbjct: 3  LKERVGTVVSDKMDKTVVVAVENRFPHPIYQKTVSRTTRYKAHDENNSVRVGDRVRITET 62

Query: 61 RPLSKHKHWAVAEIL 75
          RPLS+HK WAVAE+L
Sbjct: 63 RPLSRHKRWAVAEVL 77

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

Synechococcus sp. (strain WH7803) (taxid: 32051)

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

 Score = 97.1 bits (240), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 43/78 (55%), Positives = 57/78 (73%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K++ G VVSNKM K+VVVAV+ L  H +Y R ++RT KF AHDE N C IGD+V++  +R
Sbjct: 8  KTLTGRVVSNKMDKTVVVAVETLVRHPLYQRTIRRTKKFKAHDEENACRIGDKVKMMETR 67

Query: 62 PLSKHKHWAVAEILKKAR 79
          PLSK K W V EIL++ +
Sbjct: 68 PLSKEKRWRVVEILERTK 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|A8ZV66|RS17_DESOH 30S ribosomal protein S17 OS=Desulfococcus oleovorans (strain DSM 6200 / Hxd3) GN=rpsQ PE=3 SV=1

 Score = 96.7 bits (239), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 42/73 (57%), Positives = 57/73 (78%)

Query: 6  GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSK 65
          G VVS+KM K+V+VAV+RL  H+ Y +YV+RT+KF AHDE NQC +GD+V +  SRPLS+
Sbjct: 12 GTVVSDKMDKTVIVAVERLVKHQEYKKYVRRTAKFAAHDEQNQCAVGDKVIITESRPLSR 71

Query: 66 HKHWAVAEILKKA 78
           KHW V  +++KA
Sbjct: 72 TKHWRVVNVVEKA 84

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

Desulfococcus oleovorans (strain DSM 6200 / Hxd3) (taxid: 96561)

>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 = 96.3 bits (238), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 43/78 (55%), Positives = 61/78 (78%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K+ VG+VVS+KM K+VVVAV+R   H +Y + +KRT+KF AHDENN+C +GD+V +  +R
Sbjct: 9  KTRVGVVVSDKMDKTVVVAVERHVQHPLYKKTIKRTTKFKAHDENNECRVGDKVLIMETR 68

Query: 62 PLSKHKHWAVAEILKKAR 79
          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 = 96.3 bits (238), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 40/76 (52%), Positives = 58/76 (76%)

Query: 5  VGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLS 64
          +G V+S+KM KS+VVA++R+  H +Y +Y+KRT+K  AHDENN+CN+GD V +   RPLS
Sbjct: 9  LGRVISSKMDKSIVVAIERMVKHPMYGKYIKRTTKLHAHDENNECNLGDTVEVRECRPLS 68

Query: 65 KHKHWAVAEILKKARI 80
          K K W +  I++KAR+
Sbjct: 69 KTKSWTLVRIVEKARV 84

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

Photobacterium profundum (taxid: 74109)

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	106
224118698	105	predicted protein [Populus trichocarpa]	0.952	0.961	0.811	3e-42
224087361	105	predicted protein [Populus trichocarpa]	0.858	0.866	0.913	7e-42
357468525	172	30S ribosomal protein S17 [Medicago trun	0.933	0.575	0.813	1e-41
449438751	124	PREDICTED: 30S ribosomal protein S17-lik	0.905	0.774	0.833	1e-41
388502514	103	unknown [Medicago truncatula]	0.933	0.961	0.813	1e-41
449438753	103	PREDICTED: 30S ribosomal protein S17-lik	0.905	0.932	0.833	2e-41
357495711	103	30S ribosomal protein S17 [Medicago trun	0.933	0.961	0.803	9e-41
388515351	102	unknown [Lotus japonicus] gi|388520851|g	0.952	0.990	0.792	6e-40
357113631	106	PREDICTED: 30S ribosomal protein S17-lik	1.0	1.0	0.745	1e-39
388512251	88	unknown [Lotus japonicus]	0.811	0.977	0.906	2e-39

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

 Score =  175 bits (444), Expect = 3e-42,   Method: Compositional matrix adjust.
 Identities = 82/101 (81%), Positives = 90/101 (89%)

Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
           MKSVVG+VVSNKMQKSVVVAVDRLFHHK+YNRYVKRTSKFMAHDEN+ CNIGDRVRLDPS
Sbjct: 1   MKSVVGMVVSNKMQKSVVVAVDRLFHHKLYNRYVKRTSKFMAHDENDLCNIGDRVRLDPS 60

Query: 61  RPLSKHKHWAVAEILKKARIYVPPSADNAAAAAVSNTQTEA 101
           RPLSK KHW VAEILKKARIYVPPSA ++ A+  +  +  A
Sbjct: 61  RPLSKRKHWVVAEILKKARIYVPPSAGDSGASNTAGMKASA 101

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  174 bits (440), Expect = 7e-42,   Method: Compositional matrix adjust.
 Identities = 84/92 (91%), Positives = 88/92 (95%), Gaps = 1/92 (1%)

Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          MKSVVG+VVSNKMQKSVVVAVDRLFHHK+YNRYVKRTSKFMAHDENN CNIGDRVRLDPS
Sbjct: 1  MKSVVGMVVSNKMQKSVVVAVDRLFHHKLYNRYVKRTSKFMAHDENNLCNIGDRVRLDPS 60

Query: 61 RPLSKHKHWAVAEILKKARIYVPPS-ADNAAA 91
          RPLSK K+W VAEILKKARIYVPPS ADNAA+
Sbjct: 61 RPLSKRKNWVVAEILKKARIYVPPSAADNAAS 92

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  173 bits (438), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 83/102 (81%), Positives = 91/102 (89%), Gaps = 3/102 (2%)

Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
           MK VVG+VVSNKMQKSVVVAVDRLFHHK++NRY+KRTSKFMAHDENN CNIGDRVRLD S
Sbjct: 70  MKQVVGMVVSNKMQKSVVVAVDRLFHHKMFNRYIKRTSKFMAHDENNLCNIGDRVRLDSS 129

Query: 61  RPLSKHKHWAVAEILKKARIYVPPSA---DNAAAAAVSNTQT 99
           RPLSKHKHW VAEILKKARIYVPPSA   +NA++ +V  T T
Sbjct: 130 RPLSKHKHWVVAEILKKARIYVPPSATVSENASSNSVGPTST 171

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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 =  173 bits (438), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 80/96 (83%), Positives = 87/96 (90%)

Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
           MK VVG+VVSNKMQKSVVVAVDRLF+HK+YNRYVKRTSKFMAHDENNQCNIGDRV+LDPS
Sbjct: 22  MKQVVGMVVSNKMQKSVVVAVDRLFYHKLYNRYVKRTSKFMAHDENNQCNIGDRVKLDPS 81

Query: 61  RPLSKHKHWAVAEILKKARIYVPPSADNAAAAAVSN 96
           RPLSKHKHW VAEIL+KARIY PPS D  + +  SN
Sbjct: 82  RPLSKHKHWVVAEILRKARIYEPPSQDKQSVSDKSN 117

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  173 bits (438), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 83/102 (81%), Positives = 91/102 (89%), Gaps = 3/102 (2%)

Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
           MK VVG+VVSNKMQKSVVVAVDRLFHHK++NRY+KRTSKFMAHDENN CNIGDRVRLD S
Sbjct: 1   MKQVVGMVVSNKMQKSVVVAVDRLFHHKMFNRYIKRTSKFMAHDENNLCNIGDRVRLDSS 60

Query: 61  RPLSKHKHWAVAEILKKARIYVPPSA---DNAAAAAVSNTQT 99
           RPLSKHKHW VAEILKKARIYVPPSA   +NA++ +V  T T
Sbjct: 61  RPLSKHKHWVVAEILKKARIYVPPSATVSENASSNSVGPTST 102

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

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 =  173 bits (438), Expect = 2e-41,   Method: Compositional matrix adjust.
 Identities = 80/96 (83%), Positives = 87/96 (90%)

Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          MK VVG+VVSNKMQKSVVVAVDRLF+HK+YNRYVKRTSKFMAHDENNQCNIGDRV+LDPS
Sbjct: 1  MKQVVGMVVSNKMQKSVVVAVDRLFYHKLYNRYVKRTSKFMAHDENNQCNIGDRVKLDPS 60

Query: 61 RPLSKHKHWAVAEILKKARIYVPPSADNAAAAAVSN 96
          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|357495711|ref|XP_003618144.1| 30S ribosomal protein S17 [Medicago truncatula] gi|355493159|gb|AES74362.1| 30S ribosomal protein S17 [Medicago truncatula]

 Score =  170 bits (431), Expect = 9e-41,   Method: Compositional matrix adjust.
 Identities = 82/102 (80%), Positives = 90/102 (88%), Gaps = 3/102 (2%)

Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
           MK VVG+VVSNKMQKSVVVAVDRLFHHK++NRY+KRTSKFMAHDENN CNIGDRVRLD S
Sbjct: 1   MKEVVGMVVSNKMQKSVVVAVDRLFHHKMFNRYIKRTSKFMAHDENNLCNIGDRVRLDSS 60

Query: 61  RPLSKHKHWAVAEILKKARIYVPPSA---DNAAAAAVSNTQT 99
           RPLSK KHW VAEILKKARIYVPPSA   +NA++ +V  T 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 =  167 bits (424), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 80/101 (79%), Positives = 88/101 (87%)

Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
           MK VVG+VVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENN CNIGDRVRL+PS
Sbjct: 1   MKQVVGMVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNLCNIGDRVRLNPS 60

Query: 61  RPLSKHKHWAVAEILKKARIYVPPSADNAAAAAVSNTQTEA 101
           RPLSK+K W VAEILKKARIYVPP++   +    S+T+  A
Sbjct: 61  RPLSKNKCWVVAEILKKARIYVPPTSTPVSEKVSSSTEAPA 101

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 =  166 bits (421), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 79/106 (74%), Positives = 91/106 (85%)

Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
           MK VVG+VVSNKMQKSVVVAVDRLFH+KVYNRYVKRTSKFMAHDE + CNIGDRVRLDPS
Sbjct: 1   MKPVVGIVVSNKMQKSVVVAVDRLFHNKVYNRYVKRTSKFMAHDETDDCNIGDRVRLDPS 60

Query: 61  RPLSKHKHWAVAEILKKARIYVPPSADNAAAAAVSNTQTEALVSSS 106
           RPLSK+KHW VAE+L++A++YVPPSA  A++   S  Q  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|388512251|gb|AFK44187.1| unknown [Lotus japonicus]

 Score =  166 bits (419), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 78/86 (90%), Positives = 82/86 (95%)

Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          MK VVG+VVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENN CNIGDRVRL+PS
Sbjct: 1  MKQVVGMVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNLCNIGDRVRLNPS 60

Query: 61 RPLSKHKHWAVAEILKKARIYVPPSA 86
          RPLSKHK W VAEILKKARIYVPP++
Sbjct: 61 RPLSKHKCWVVAEILKKARIYVPPTS 86

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

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	106
TAIR|locus:2010227	116	emb1129 "embryo defective 1129	1.0	0.913	0.660	7.4e-34
TAIR|locus:2087896	105	AT3G18880 [Arabidopsis thalian	0.990	1.0	0.669	1.2e-33
UNIPROTKB|Q9KNZ3	84	rpsQ "30S ribosomal protein S1	0.754	0.952	0.5	4e-19
TIGR_CMR|VC_2587	84	VC_2587 "ribosomal protein S17	0.754	0.952	0.5	4e-19
UNIPROTKB|P0AG63	84	rpsQ [Escherichia coli K-12 (t	0.735	0.928	0.474	5.8e-18
TIGR_CMR|CHY_2300	98	CHY_2300 "ribosomal protein S1	0.745	0.806	0.493	9.5e-18
TIGR_CMR|GSU_2848	85	GSU_2848 "ribosomal protein S1	0.716	0.894	0.526	1.6e-17
TIGR_CMR|SO_0240	82	SO_0240 "ribosomal protein S17	0.735	0.951	0.487	2e-17
TIGR_CMR|CPS_0864	83	CPS_0864 "ribosomal protein S1	0.735	0.939	0.435	1.3e-15
UNIPROTKB|P95058	135	rpsQ "30S ribosomal protein S1	0.735	0.577	0.461	8.8e-15

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

 Score = 368 (134.6 bits), Expect = 7.4e-34, P = 7.4e-34
 Identities = 70/106 (66%), Positives = 80/106 (75%)

Query:     1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
             MK V+G VVSNKMQKSVVVAVDRLFH+K+YNRYVKRTSKFMAHD+ + CNIGDRV+LDPS
Sbjct:     1 MKPVIGTVVSNKMQKSVVVAVDRLFHNKIYNRYVKRTSKFMAHDDKDACNIGDRVKLDPS 60

Query:    61 RPLSKHKHWAVAEILKKARIYXXXXXXXXXXXXXXXTQTEALVSSS 106
             RPLSK+KHW VAEI+KKARIY               +      SS+
Sbjct:    61 RPLSKNKHWIVAEIIKKARIYSPKAAAAAVSASASASSASTTDSSA 106

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

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

 Score = 366 (133.9 bits), Expect = 1.2e-33, P = 1.2e-33
 Identities = 71/106 (66%), Positives = 81/106 (76%)

Query:     1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
             MK+V+G VVSNKMQ SVVVAVDRLFH+ +YNRYVKRTSKFMAHDE + CNIGDRV+LDPS
Sbjct:     1 MKAVIGTVVSNKMQMSVVVAVDRLFHNNIYNRYVKRTSKFMAHDEKDSCNIGDRVKLDPS 60

Query:    61 RPLSKHKHWAVAEILKKARIYXXXXXXXXXXXXXXXTQTEALVSSS 106
             RPLSKHKHW V+EI+KKARIY                + +  VSSS
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

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

 Score = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 40/80 (50%), Positives = 61/80 (76%)

Query:     1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
             +++ +G VVS+KM KS+VVA++R+  H +Y ++VKRT+K  AHDENN+C IGD V +   
Sbjct:     5 IRTQLGRVVSDKMDKSIVVAIERMVKHPIYGKFVKRTTKVHAHDENNECGIGDTVEIREC 64

Query:    61 RPLSKHKHWAVAEILKKARI 80
             RPLSK K W + +I++KA++
Sbjct:    65 RPLSKTKSWTLVKIVEKAKM 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 = 229 (85.7 bits), Expect = 4.0e-19, P = 4.0e-19
 Identities = 40/80 (50%), Positives = 61/80 (76%)

Query:     1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
             +++ +G VVS+KM KS+VVA++R+  H +Y ++VKRT+K  AHDENN+C IGD V +   
Sbjct:     5 IRTQLGRVVSDKMDKSIVVAIERMVKHPIYGKFVKRTTKVHAHDENNECGIGDTVEIREC 64

Query:    61 RPLSKHKHWAVAEILKKARI 80
             RPLSK K W + +I++KA++
Sbjct:    65 RPLSKTKSWTLVKIVEKAKM 84

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

GO:0006412 "translation" evidence=ISS

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

 Score = 218 (81.8 bits), Expect = 5.8e-18, P = 5.8e-18
 Identities = 37/78 (47%), Positives = 57/78 (73%)

Query:     1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
             ++++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENN+C IGD V +   
Sbjct:     5 IRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIREC 64

Query:    61 RPLSKHKHWAVAEILKKA 78
             RPLSK K W +  +++KA
Sbjct:    65 RPLSKTKSWTLVRVVEKA 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 = 216 (81.1 bits), Expect = 9.5e-18, P = 9.5e-18
 Identities = 39/79 (49%), Positives = 56/79 (70%)

Query:     2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
             K  +G VVS+KM K+VVVAV+ L  H +Y + ++RT KF AHDE+N C  GD V++  +R
Sbjct:     8 KIKIGRVVSDKMDKTVVVAVEELVSHPLYKKTIRRTKKFKAHDEHNACRTGDIVKIAETR 67

Query:    62 PLSKHKHWAVAEILKKARI 80
             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 = 214 (80.4 bits), Expect = 1.6e-17, P = 1.6e-17
 Identities = 40/76 (52%), Positives = 54/76 (71%)

Query:     2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
             K+ VG+VVS+KM K+VVV V  L  H VYN+Y+KR+ K+ AHD +N C  GDRV +  +R
Sbjct:     8 KTQVGVVVSDKMDKTVVVRVSHLVKHPVYNKYIKRSVKYKAHDTDNSCKTGDRVLIVETR 67

Query:    62 PLSKHKHWAVAEILKK 77
             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 = 213 (80.0 bits), Expect = 2.0e-17, P = 2.0e-17
 Identities = 38/78 (48%), Positives = 54/78 (69%)

Query:     1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
             ++++ G V SNKM K++ VA++R   H +Y +Y+KRT+K  AHDE NQCN GD V +   
Sbjct:     5 IRTLQGRVTSNKMDKTITVAIERQVKHPIYGKYIKRTTKIHAHDEANQCNEGDVVAIREC 64

Query:    61 RPLSKHKHWAVAEILKKA 78
             RPLSK K W + E++ KA
Sbjct:    65 RPLSKTKSWTLVEVVSKA 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 = 196 (74.1 bits), Expect = 1.3e-15, P = 1.3e-15
 Identities = 34/78 (43%), Positives = 54/78 (69%)

Query:     1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
             ++++ G+VVSNKM KS+VV ++R   H +Y +Y+ R++K  AHDE N CN GD V +   
Sbjct:     6 IRTLQGVVVSNKMDKSIVVLIERRVKHPMYGKYMTRSTKLKAHDETNVCNEGDLVTITEV 65

Query:    61 RPLSKHKHWAVAEILKKA 78
              P+SK K+W + +++ KA
Sbjct:    66 APISKSKNWKLVDVITKA 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 = 188 (71.2 bits), Expect = 8.8e-15, P = 8.8e-15
 Identities = 36/78 (46%), Positives = 53/78 (67%)

Query:     2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
             K+ +G VVS+KMQK++VV ++    H +Y + ++ T K  AHDE++   IGDRV L  +R
Sbjct:    58 KTRIGYVVSDKMQKTIVVELEDRMRHPLYGKIIRTTKKVKAHDEDSVAGIGDRVSLMETR 117

Query:    62 PLSKHKHWAVAEILKKAR 79
             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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q7V9X1	RS17_PROMA	No assigned EC number	0.5063	0.7452	0.8977	yes	no
A5D5G4	RS17_PELTS	No assigned EC number	0.5512	0.7358	0.8965	yes	no
Q0ID14	RS17_SYNS3	No assigned EC number	0.5384	0.7358	0.8863	yes	no
A0LIJ9	RS17_SYNFM	No assigned EC number	0.5316	0.7452	0.9080	yes	no
A5GVW9	RS17_SYNR3	No assigned EC number	0.5466	0.7075	0.9036	yes	no
B1I1J7	RS17_DESAP	No assigned EC number	0.6133	0.7075	0.8823	yes	no
Q7U4J1	RS17_SYNPX	No assigned EC number	0.4891	0.8207	0.8446	yes	no
A7HBM7	RS17_ANADF	No assigned EC number	0.5443	0.7452	0.9294	yes	no
B0KCK9	RS17_THEP3	No assigned EC number	0.5540	0.6981	0.8809	yes	no
Q3MFB2	RS17_ANAVT	No assigned EC number	0.56	0.7075	0.9259	yes	no
B1LBN1	RS17_THESQ	No assigned EC number	0.5394	0.7169	0.7102	yes	no
Q8YPI8	RS17_NOSS1	No assigned EC number	0.56	0.7075	0.9259	yes	no
A8F4S0	RS17_THELT	No assigned EC number	0.5189	0.7452	0.8315	yes	no
B0K5Q2	RS17_THEPX	No assigned EC number	0.5540	0.6981	0.8809	yes	no
A7N0I6	RS17_VIBHB	No assigned EC number	0.5333	0.7075	0.8928	yes	no
Q8R7W3	RS17_THETN	No assigned EC number	0.5675	0.6981	0.8809	yes	no
Q67JV2	RS17_SYMTH	No assigned EC number	0.55	0.7547	0.8510	yes	no
Q6LVA7	RS17_PHOPR	No assigned EC number	0.5263	0.7169	0.9047	yes	no
Q12SV0	RS17_SHEDO	No assigned EC number	0.5128	0.7358	0.9512	yes	no
A1TYK6	RS17_MARAV	No assigned EC number	0.5194	0.7264	0.875	yes	no
Q089P5	RS17_SHEFN	No assigned EC number	0.5194	0.7264	0.9390	yes	no
A7HM43	RS17_FERNB	No assigned EC number	0.5	0.8301	0.88	yes	no
B9M6G9	RS17_GEOSF	No assigned EC number	0.5263	0.7169	0.8941	yes	no
A5GIT6	RS17_SYNPW	No assigned EC number	0.5733	0.7075	0.8522	yes	no
Q3A6N8	RS17_PELCD	No assigned EC number	0.5263	0.7169	0.8636	yes	no
A4XLS1	RS17_CALS8	No assigned EC number	0.5384	0.7358	0.9069	yes	no
Q3AMN9	RS17_SYNSC	No assigned EC number	0.52	0.7075	0.7653	yes	no
B9K895	RS17_THENN	No assigned EC number	0.5263	0.7169	0.6785	yes	no
A5IM92	RS17_THEP1	No assigned EC number	0.5394	0.7169	0.7102	yes	no
Q605C1	RS17_METCA	No assigned EC number	0.5128	0.7358	0.9069	yes	no
A1ALV0	RS17_PELPD	No assigned EC number	0.5942	0.6509	0.8414	yes	no
Q1LTC9	RS17_BAUCH	No assigned EC number	0.5479	0.6886	0.8202	yes	no
A8ZV66	RS17_DESOH	No assigned EC number	0.5753	0.6886	0.8588	yes	no
P38519	RS17_THEMA	No assigned EC number	0.5394	0.7169	0.7102	yes	no
A5USI0	RS17_ROSS1	No assigned EC number	0.6301	0.6792	0.8372	yes	no
A7NR54	RS17_ROSCS	No assigned EC number	0.6438	0.6792	0.8372	yes	no
Q3AW84	RS17_SYNS9	No assigned EC number	0.5333	0.7075	0.7894	yes	no
B9MKH2	RS17_CALBD	No assigned EC number	0.5512	0.7358	0.9069	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_pg.C_1640025	hypothetical protein (106 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	gw1.16155.2.1	Predicted protein (206 aa)	•			•	•		•		0.983
	rps8	RecName- Full=30S ribosomal protein S8, chloroplastic;; One of the primary rRNA binding protein [...] (134 aa)	•			•	•		•		0.982
	gw1.IV.3048.1	SubName- Full=Putative uncharacterized protein; (227 aa)	•			•	•		•		0.978
	gw1.8701.6.1	Predicted protein (100 aa)	•			•	•		•		0.972
	rpl22	50S ribosomal protein L22 ; This protein binds specifically to 23S rRNA (By similarity) (129 aa)	•			•			•		0.967
	eugene3.00141000	hypothetical protein (227 aa)	•			•			•		0.965
	grail3.0553000101	SubName- Full=Putative uncharacterized protein; (104 aa)	•			•	•		•		0.959
	fgenesh4_pm.C_LG_XIII000297	hypothetical protein (222 aa)	•			•			•		0.949
	gw1.II.2942.1	SubName- Full=Putative uncharacterized protein; (218 aa)	•			•			•		0.946
	fgenesh4_pg.C_scaffold_166000032	hypothetical protein (285 aa)	•			•			•		0.943

---

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	106
PRK05610	84	PRK05610, rpsQ, 30S ribosomal protein S17; Reviewe	2e-36
TIGR03635	71	TIGR03635, S17_bact, 30S ribosomal protein S17	4e-32
COG0186	87	COG0186, RpsQ, Ribosomal protein S17 [Translation,	5e-32
CHL00142	84	CHL00142, rps17, ribosomal protein S17; Validated	9e-27
pfam00366	69	pfam00366, Ribosomal_S17, Ribosomal protein S17	1e-22
PRK08572	108	PRK08572, rps17p, 30S ribosomal protein S17P; Revi	2e-16
TIGR03630	102	TIGR03630, arch_S17P, archaeal ribosomal protein S	1e-14
PTZ00241	158	PTZ00241, PTZ00241, 40S ribosomal protein S11; Pro	9e-06

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

 Score =  118 bits (298), Expect = 2e-36
 Identities = 40/78 (51%), Positives = 56/78 (71%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K++ G VVS+KM K++VV V+R   H +Y + VKR+ K+ AHDENN+  IGD VR+  +R
Sbjct: 7  KTLQGRVVSDKMDKTIVVLVERRVKHPLYGKIVKRSKKYHAHDENNEAKIGDVVRIMETR 66

Query: 62 PLSKHKHWAVAEILKKAR 79
          PLSK K W + EI++KA 
Sbjct: 67 PLSKTKRWRLVEIVEKAV 84

Length = 84

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

 Score =  107 bits (269), Expect = 4e-32
 Identities = 37/70 (52%), Positives = 52/70 (74%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K++ G+VVS+KM K++VV V+R   H +Y + VKRT K+ AHDENN+C +GD VR+  +R
Sbjct: 2  KTLQGVVVSDKMDKTIVVLVERRVKHPLYGKIVKRTKKYHAHDENNECKVGDVVRIIETR 61

Query: 62 PLSKHKHWAV 71
          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|223264 COG0186, RpsQ, Ribosomal protein S17 [Translation, ribosomal structure and biogenesis]

 Score =  107 bits (269), Expect = 5e-32
 Identities = 38/79 (48%), Positives = 56/79 (70%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          + + G+VVS+KM K+VVV V+R  +H  Y +YV+R+ K+ AHDE N+  +GD VR+  +R
Sbjct: 9  RVLEGVVVSDKMDKTVVVEVERKVYHPKYGKYVRRSKKYHAHDECNEAKVGDIVRIAETR 68

Query: 62 PLSKHKHWAVAEILKKARI 80
          PLSK K + V EI++KA  
Sbjct: 69 PLSKTKRFVVVEIVEKAVE 87

Length = 87

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

 Score = 93.6 bits (233), Expect = 9e-27
 Identities = 38/78 (48%), Positives = 58/78 (74%)

Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          +K  +G+VVSNKM K++VVAV+  + H +Y + + +T K++ HDE N+CNIGD+V ++ +
Sbjct: 3  VKEKIGIVVSNKMNKTIVVAVENRYKHPIYGKIITKTKKYLVHDEENECNIGDQVLIEET 62

Query: 61 RPLSKHKHWAVAEILKKA 78
          RPLSK K W + EIL K+
Sbjct: 63 RPLSKTKRWILKEILSKS 80

Length = 84

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

 Score = 83.2 bits (206), Expect = 1e-22
 Identities = 32/69 (46%), Positives = 45/69 (65%)

Query: 6  GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSK 65
          G+VVS+KM+K++VV V+RL  H  Y +Y KRT K+ AHD      +GD V++   RPLSK
Sbjct: 1  GVVVSDKMEKTIVVRVERLVPHPKYGKYEKRTKKYPAHDPPCFRKVGDVVKIGECRPLSK 60

Query: 66 HKHWAVAEI 74
           K + V  +
Sbjct: 61 TKRFRVVRV 69

Length = 69

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

 Score = 68.0 bits (167), Expect = 2e-16
 Identities = 33/80 (41%), Positives = 47/80 (58%), Gaps = 5/80 (6%)

Query: 2   KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQC---NIGDRVRLD 58
           + + G VVS+KM K+VVV  + L +   Y RY KR S+  AH  N  C    +GD+V++ 
Sbjct: 30  QVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAH--NPPCIDAKVGDKVKIA 87

Query: 59  PSRPLSKHKHWAVAEILKKA 78
             RPLSK K + V E  ++A
Sbjct: 88  ECRPLSKTKSFVVVEKKERA 107

Length = 108

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

 Score = 63.5 bits (155), Expect = 1e-14
 Identities = 31/74 (41%), Positives = 43/74 (58%), Gaps = 5/74 (6%)

Query: 5   VGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQC---NIGDRVRLDPSR 61
            G+VVS+KM K+VVV  + L++ + Y RY +R SK  AH  N  C     GD V +  +R
Sbjct: 31  EGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAH--NPPCIDVKEGDIVIIGETR 88

Query: 62  PLSKHKHWAVAEIL 75
           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 = 41.6 bits (98), Expect = 9e-06
 Identities = 26/75 (34%), Positives = 40/75 (53%), Gaps = 5/75 (6%)

Query: 6   GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQC---NIGDRVRLDPSRP 62
           G+V+S KM++++++  D L + K YNRY KR      H   + C     GD V +   RP
Sbjct: 73  GVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVH--CSPCFDVKEGDIVVVGQCRP 130

Query: 63  LSKHKHWAVAEILKK 77
           LSK   + V ++ K 
Sbjct: 131 LSKTVRFNVLKVEKN 145

Length = 158

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	106
CHL00142	84	rps17 ribosomal protein S17; Validated	100.0
COG0186	87	RpsQ Ribosomal protein S17 [Translation, ribosomal	100.0
PRK05610	84	rpsQ 30S ribosomal protein S17; Reviewed	100.0
PRK08572	108	rps17p 30S ribosomal protein S17P; Reviewed	100.0
TIGR03635	71	S17_bact 30S ribosomal protein S17. This model des	100.0
TIGR03630	102	arch_S17P archaeal ribosomal protein S17P. This mo	100.0
PF00366	69	Ribosomal_S17: Ribosomal protein S17; InterPro: IP	100.0
PTZ00241	158	40S ribosomal protein S11; Provisional	100.0
KOG1740	107	consensus Predicted mitochondrial/chloroplast ribo	99.97
KOG1728	156	consensus 40S ribosomal protein S11 [Translation,	99.88
KOG3447	150	consensus Mitochondrial/chloroplast ribosomal S17-	99.71

>CHL00142 rps17 ribosomal protein S17; Validated

Probab=100.00  E-value=1.7e-37  Score=209.77  Aligned_cols=80  Identities=48%  Similarity=0.921  Sum_probs=77.5

Q ss_pred             CceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeeccc
Q 034020            1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARI   80 (106)
Q Consensus         1 ~k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~~   80 (106)
                      ++.++|+|+|++|+|||+|+|+|+++||+|+|+++++++|+||||+|+|++||+|+|+|||||||+|+|+|.+|++++..
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            47899999999999999999999999999999999999999999999999999999999999999999999999998764

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

Probab=100.00  E-value=2.5e-37  Score=210.28  Aligned_cols=78  Identities=49%  Similarity=0.790  Sum_probs=75.8

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeecc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKAR   79 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~   79 (106)
                      +.|+|+|+|++|+||++|.+++.++||+|+||+++++||+||||+|+|++||.|+|+|||||||+|+|+|++|++++.
T Consensus         9 k~l~G~VvS~Km~KTvvV~ve~~~~hp~Y~K~v~r~kK~~aHde~~~~k~GD~V~I~EtRPLSKtK~~~vv~i~~~a~   86 (87)
T COG0186           9 RVLEGVVVSDKMDKTVVVEVERKVYHPKYGKYVRRSKKYHAHDECNEAKVGDIVRIAETRPLSKTKRFVVVEIVEKAV   86 (87)
T ss_pred             eEEEEEEEEccCceeEEEEEEEEEecccceEEEEEEeeeEeecccccCCCCCEEEEEEccccCCcceEEEEEEeeecc
Confidence            589999999999999999999999999999999999999999999999999999999999999999999999998864

>PRK05610 rpsQ 30S ribosomal protein S17; Reviewed

Probab=100.00  E-value=7.4e-37  Score=206.51  Aligned_cols=77  Identities=52%  Similarity=0.846  Sum_probs=75.3

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeec
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKA   78 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~   78 (106)
                      +.|.|+|+|++|+||++|+++|++|||+|+||++++++|+||||+|+|++||+|+|+|||||||+|+|+|.+|++++
T Consensus         7 ~~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          7 KTLQGRVVSDKMDKTIVVLVERRVKHPLYGKIVKRSKKYHAHDENNEAKIGDVVRIMETRPLSKTKRWRLVEIVEKA   83 (84)
T ss_pred             CEEEEEEEcccCCceEEEEEEEEEEeccccEEEEcceEEEEECCCCCCCCCCEEEEEEcccCCCCEEEEEEEEEecc
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999875

>PRK08572 rps17p 30S ribosomal protein S17P; Reviewed

Probab=100.00  E-value=2.1e-35  Score=207.68  Aligned_cols=77  Identities=40%  Similarity=0.605  Sum_probs=74.8

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCC-CCCCCCCEEEEeecccCCcceeEEEEEEEeec
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN-NQCNIGDRVRLDPSRPLSKHKHWAVAEILKKA   78 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~-~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~   78 (106)
                      +.|+|+|+|++|+|||+|+|+|+++||+|+|+++++++|+||||+ |+|++||.|+|+|||||||+|+|.|.+|++++
T Consensus        30 k~l~G~VvS~Km~KTvvV~v~r~~~hpkY~K~i~r~kky~aHDe~cn~~kvGD~V~I~E~RPiSKtK~w~v~~i~~~~  107 (108)
T PRK08572         30 QVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAHNPPCIDAKVGDKVKIAECRPLSKTKSFVVVEKKERA  107 (108)
T ss_pred             EEEEEEEEecCCCceEEEEEEEEEecCCccEEEEEeeeEEEECCCCCCCCCCCEEEEEEcCCCCCceEEEEEEEEEcC
Confidence            579999999999999999999999999999999999999999999 79999999999999999999999999999875

>TIGR03635 S17_bact 30S ribosomal protein S17

Probab=100.00  E-value=1.8e-35  Score=194.27  Aligned_cols=70  Identities=53%  Similarity=0.920  Sum_probs=68.7

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEE
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAV   71 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V   71 (106)
                      ++|.|+|+|++|+||++|++++++|||+|+|+++++++|+||||+|+|++||+|+|+|||||||+|+|+|
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            6899999999999999999999999999999999999999999999999999999999999999999985

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.

>TIGR03630 arch_S17P archaeal ribosomal protein S17P

Probab=100.00  E-value=4.2e-35  Score=204.38  Aligned_cols=74  Identities=39%  Similarity=0.584  Sum_probs=72.0

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCC-CCCCCCCEEEEeecccCCcceeEEEEEEE
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN-NQCNIGDRVRLDPSRPLSKHKHWAVAEIL   75 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~-~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii   75 (106)
                      +.|+|+|+|++|+|||+|+|+|+++||+|+|+++++++|+||||+ |+|++||.|+|+|||||||+|+|+|++|+
T Consensus        28 k~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        28 QILEGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAHNPPCIDVKEGDIVIIGETRPLSKTKSFVVLGKV  102 (102)
T ss_pred             EEEEEEEEecCCCceEEEEEEEEEecCCccEEEEEeeeEEEECCCCCCCCCCCEEEEEEcCCCCCceEEEEEEeC
Confidence            689999999999999999999999999999999999999999999 79999999999999999999999999874

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

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

Probab=100.00  E-value=2.3e-34  Score=187.71  Aligned_cols=69  Identities=57%  Similarity=0.984  Sum_probs=67.0

Q ss_pred             EEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEE
Q 034020            6 GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEI   74 (106)
Q Consensus         6 G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~I   74 (106)
                      |+|+|++|+||++|++++++|||+|+|+++++++|+||||+|+|++||+|+|+|||||||+|+|.|.++
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=100.00  E-value=9.7e-33  Score=204.68  Aligned_cols=77  Identities=32%  Similarity=0.487  Sum_probs=73.9

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECC-CCCCCCCCEEEEeecccCCcceeEEEEEEEeec
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDE-NNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKA   78 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe-~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~   78 (106)
                      ++|+|+|+|++|+|||+|+++|+++||+|+||++++++|+|||| .++|++||+|+|+|||||||+|+|+|++|++++
T Consensus        69 ril~G~VvS~KM~KTIVV~ve~~~~h~kY~K~~kr~kk~~aHd~~~~~~kvGD~V~I~EcRPLSKTKrf~Vv~V~~~~  146 (158)
T PTZ00241         69 RILRGVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVHCSPCFDVKEGDIVVVGQCRPLSKTVRFNVLKVEKNE  146 (158)
T ss_pred             eEEEEEEEEccCCccEEEEEEEEEecCccceEEEeeecEEEeCCccCCCCCCCEEEEEEcCCCCCceeEEEEEEEecc
Confidence            68999999999999999999999999999999999999999996 459999999999999999999999999999864

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

Probab=99.97  E-value=2.4e-33  Score=195.52  Aligned_cols=86  Identities=72%  Similarity=1.108  Sum_probs=81.9

Q ss_pred             CceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeeccc
Q 034020            1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARI   80 (106)
Q Consensus         1 ~k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~~   80 (106)
                      |+.++|+|+|.+|+||++|+|+++.+||+|+||++++++|+||||.|+|++||.|+|.+||||||+|+|.+.+||.++..
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            67899999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             cCCCCc
Q 034020           81 YVPPSA   86 (106)
Q Consensus        81 ~~~p~t   86 (106)
                      ..|...
T Consensus        82 ~spa~~   87 (107)
T KOG1740|consen   82 YSPAAE   87 (107)
T ss_pred             hCcchh
Confidence            766433

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

Probab=99.88  E-value=9.4e-24  Score=154.84  Aligned_cols=79  Identities=37%  Similarity=0.493  Sum_probs=75.8

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCC--CCCCCCEEEEeecccCCcceeEEEEEEEeecc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENN--QCNIGDRVRLDPSRPLSKHKHWAVAEILKKAR   79 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~--~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~   79 (106)
                      ++|.|+|.+.||++||+|+.+|++|.++|++|.+|++++.||..+|  ++++||+|+|.|||||||+++|+|+++++.++
T Consensus        69 ril~G~V~k~Km~rTIvvrrdYlHy~~KY~ryekrHkN~svh~SPcFrdi~~gDiVtvGecrPLSKtvrfnVLkv~k~~g  148 (156)
T KOG1728|consen   69 RILTGTVVKMKMQRTIVVRRDYLHYIKKYNRYEKRHKNMSVHVSPCFRDIQEGDIVTVGECRPLSKTVRFNVLKVIKAAG  148 (156)
T ss_pred             EEEeeEEeeeceeEEEEEEhhhhhHhHHhhHHHHhccCCccccchhhhccccCCEEEEeecccccceEEEEEEEEeecCC
Confidence            5899999999999999999999999999999999999999999998  69999999999999999999999999998875


Q ss_pred             c
Q 034020           80 I   80 (106)
Q Consensus        80 ~   80 (106)
                      .
T Consensus       149 ~  149 (156)
T KOG1728|consen  149 S  149 (156)
T ss_pred             C
Confidence            3

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

Probab=99.71  E-value=1.9e-18  Score=126.24  Aligned_cols=90  Identities=30%  Similarity=0.450  Sum_probs=86.1

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeec-ccCCcceeEEEEEEEeeccc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS-RPLSKHKHWAVAEILKKARI   80 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~-RPiSK~K~f~V~~Ii~k~~~   80 (106)
                      +.|.|.|+..+|+++.+|++.|+.++|..+||+.+++.|||||+...|++||.|+|++. -|.-+..+|.|.+|+.+-+.
T Consensus        11 ~~lmGk~ig~~~q~~akVR~~r~eld~yL~kYf~k~~~yfAhD~~~~c~vGDtVLir~lp~r~t~~V~H~v~~VVfk~G~   90 (150)
T KOG3447|consen   11 QWLMGKVIGTKMQKTAKVRVTRLELDPYLLKYFNKRKTYFAHDALQQCTVGDTVLIRALPVRRTKHVKHEVAEVVFKVGK   90 (150)
T ss_pred             EEEEeeeeeccccccceeeeehhhcCHHHHHHhccccceeecchhhccccCCEEEEecCCcchhhhhhhhhHhheeeccc
Confidence            47899999999999999999999999999999999999999999999999999999998 58888999999999999999


Q ss_pred             cCCCCcchhhh
Q 034020           81 YVPPSADNAAA   91 (106)
Q Consensus        81 ~~~p~t~~~~~   91 (106)
                      ++||.||...+
T Consensus        91 IidPvTGkk~~  101 (150)
T KOG3447|consen   91 IIDPVTGKKCA  101 (150)
T ss_pred             ccCCCcCcccc
Confidence            99999998765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	106
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		3e-19
2gy9_Q	79	Structure Of The 30s Subunit Of A Pre-Translocation		5e-19
1fjg_Q	105	Structure Of The Thermus Thermophilus 30s Ribosomal		3e-14
2j00_Q	105	Structure Of The Thermus Thermophilus 70s Ribosome		3e-14
1j5e_Q	104	Structure Of The Thermus Thermophilus 30s Ribosomal		3e-14
3mr8_Q	99	Recognition Of The Amber Stop Codon By Release Fact		3e-14
1i94_Q	104	Crystal Structures Of The Small Ribosomal Subunit W		3e-14
3fic_Q	100	T. Thermophilus 70s Ribosome In Complex With Mrna,		3e-14
1rip_A	81	Ribosomal Protein S17: Characterization Of The Thre		3e-12
1qd7_I	89	Partial Model For 30s Ribosomal Subunit Length = 89		3e-12
1eg0_G	93	Fitting Of Components With Known Structure Into An		4e-12
3bbn_Q	142	Homology Model For The Spinach Chloroplast 30s Subu		3e-11
3j20_R	113	Promiscuous Behavior Of Proteins In Archaeal Riboso		4e-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 = 90.1 bits (222), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 37/78 (47%), Positives = 57/78 (73%)
Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          ++++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENN+C IGD V +   
Sbjct: 5  IRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIREC 64
Query: 61 RPLSKHKHWAVAEILKKA 78
          RPLSK K W +  +++KA
Sbjct: 65 RPLSKTKSWTLVRVVEKA 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 = 90.1 bits (222), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 37/78 (47%), Positives = 57/78 (73%)
Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          ++++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENN+C IGD V +   
Sbjct: 4  IRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIREC 63
Query: 61 RPLSKHKHWAVAEILKKA 78
          RPLSK K W +  +++KA
Sbjct: 64 RPLSKTKSWTLVRVVEKA 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 = 3e-19,   Method: Compositional matrix adjust.
 Identities = 37/78 (47%), Positives = 57/78 (73%)
Query: 1  MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
          ++++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENN+C IGD V +   
Sbjct: 2  IRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIREC 61
Query: 61 RPLSKHKHWAVAEILKKA 78
          RPLSK K W +  +++KA
Sbjct: 62 RPLSKTKSWTLVRVVEKA 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 = 89.4 bits (220), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 37/77 (48%), Positives = 56/77 (72%)
Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          +++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENN+C IGD V +   R
Sbjct: 1  RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIRECR 60
Query: 62 PLSKHKHWAVAEILKKA 78
          PLSK K W +  +++KA
Sbjct: 61 PLSKTKSWTLVRVVEKA 77

>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 = 73.6 bits (179), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 4  KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 63
Query: 62 PLSKHKHWAVAEILKKARI 80
          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 = 73.6 bits (179), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 4  KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 63
Query: 62 PLSKHKHWAVAEILKKARI 80
          P+SK K + V  +++  R+
Sbjct: 64 PISKRKRFRVLRLVESGRM 82

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

Iteration: 1
 Score = 73.2 bits (178), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 3  KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 62
Query: 62 PLSKHKHWAVAEILKKARI 80
          P+SK K + V  +++  R+
Sbjct: 63 PISKRKRFRVLRLVESGRM 81

>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 = 73.2 bits (178), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 3  KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 62
Query: 62 PLSKHKHWAVAEILKKARI 80
          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 = 73.2 bits (178), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 32/79 (40%), Positives = 54/79 (68%)
Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  +R
Sbjct: 3  KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEERYKVGDVVEIIEAR 62
Query: 62 PLSKHKHWAVAEILKKARI 80
          P+SK K + V  ++++ R+
Sbjct: 63 PISKRKRFRVLRLVEEGRL 81

>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 = 73.2 bits (178), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 33/79 (41%), Positives = 53/79 (67%)
Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 3  KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 62
Query: 62 PLSKHKHWAVAEILKKARI 80
          P+SK K + V  +++  R+
Sbjct: 63 PISKRKRFRVLRLVESGRM 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 = 66.6 bits (161), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 51/77 (66%)
Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K  VG VVS+KM K++ V V+    H +Y + VK + K+ AHDE+N+  +GD V++  +R
Sbjct: 3  KVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMETR 62
Query: 62 PLSKHKHWAVAEILKKA 78
          PLS  K + + EI++KA
Sbjct: 63 PLSATKRFRLVEIVEKA 79

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

Iteration: 1
 Score = 66.6 bits (161), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 33/77 (42%), Positives = 51/77 (66%)
Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K  VG VVS+KM K++ V V+    H +Y + VK + K+ AHDE+N+  +GD V++  +R
Sbjct: 3  KVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMETR 62
Query: 62 PLSKHKHWAVAEILKKA 78
          PLS  K + + EI++KA
Sbjct: 63 PLSATKRFRLVEIVEKA 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 = 63.5 bits (153), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 33/78 (42%), Positives = 46/78 (58%)
Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
           MK++ G VV     K+V V V RL  H  Y R V+   K+ AHD +NQ  +GD VRL+ S
Sbjct: 60  MKTMQGRVVCATSDKTVAVEVVRLAPHPKYKRRVRMKKKYQAHDPDNQFKVGDVVRLEKS 119
Query: 61  RPLSKHKHWAVAEILKKA 78
           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 = 53.1 bits (126), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 32/76 (42%), Positives = 45/76 (59%), Gaps = 5/76 (6%)
Query: 6   GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQC---NIGDRVRLDPSRP 62
           G+VVS+K +K+V V     F+   Y RY  R SK  AH  N  C    +GD+V +  +RP
Sbjct: 36  GIVVSDKPRKTVTVERQYYFYLNKYERYELRRSKIHAH--NPPCINAKVGDKVLIAETRP 93
Query: 63  LSKHKHWAVAEILKKA 78
           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 = 40.4 bits (93), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 26/75 (34%), Positives = 38/75 (50%), Gaps = 2/75 (2%)
Query: 6   GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN--NQCNIGDRVRLDPSRPL 63
           G+V   KMQ+++V+  D L + + YNR+ KR      H         IGD V +   RPL
Sbjct: 75  GVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDVQIGDIVTVGECRPL 134
Query: 64  SKHKHWAVAEILKKA 78
           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	106
3r8n_Q	80	30S ribosomal protein S17; protein biosynthesis, R	4e-38
1qd7_I	89	S17 ribosomal protein; 30S ribosomal subunit, low	2e-37
2vqe_Q	105	30S ribosomal protein S17; tRNA-binding, rRNA-bind	6e-37
3bbn_Q	142	Ribosomal protein S17; small ribosomal subunit, sp	1e-36
3u5c_L	156	RP41, S18, YS12, 40S ribosomal protein S11-A; tran	1e-30
2xzm_Q	157	Ribosomal protein S17 containing protein; ribosome	3e-30
2zkq_q	158	40S ribosomal protein S11E; protein-RNA complex, 4	8e-30
3iz6_P	161	40S ribosomal protein S11 (S17P); eukaryotic ribos	2e-29
1qzv_F	154	Plant photosystem I: subunit PSAF; photosynthesis,	4e-04

>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 =  120 bits (303), Expect = 2e-37
 Identities = 36/91 (39%), Positives = 55/91 (60%), Gaps = 4/91 (4%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K  VG VVS+KM K++ V V+    H +Y + VK + K+ AHDE+N+  +GD V++  +R
Sbjct: 3  KVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMETR 62

Query: 62 PLSKHKHWAVAEILKKARIYVPPSADNAAAA 92
          PLS  K + + EI++KA      +   A AA
Sbjct: 63 PLSATKRFRLVEIVEKA----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 =  119 bits (301), Expect = 6e-37
 Identities = 35/100 (35%), Positives = 57/100 (57%), Gaps = 4/100 (4%)

Query: 2   KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
           K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 4   KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 63

Query: 62  PLSKHKHWAVAEILKKARIYVPPSADNAAAAAVSNTQTEA 101
           P+SK K + V  +++  R+               N Q+ +
Sbjct: 64  PISKRKRFRVLRLVESGRM----DLVEKYLIRRQNYQSLS 99

>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 =  119 bits (301), Expect = 1e-36
 Identities = 32/77 (41%), Positives = 45/77 (58%)

Query: 2   KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
           K++ G VV     K+V V V RL  H  Y R V+   K+ AHD +NQ  +GD VRL+ SR
Sbjct: 61  KTMQGRVVCATSDKTVAVEVVRLAPHPKYKRRVRMKKKYQAHDPDNQFKVGDVVRLEKSR 120

Query: 62  PLSKHKHWAVAEILKKA 78
           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 =  105 bits (264), Expect = 1e-30
 Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 1/78 (1%)

Query: 2   KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAH-DENNQCNIGDRVRLDPS 60
           K + G VVS KM +++V+    L +   YNRY KR      H     +  +GD V +   
Sbjct: 69  KILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVTVGQC 128

Query: 61  RPLSKHKHWAVAEILKKA 78
           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 =  104 bits (261), Expect = 3e-30
 Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 1/81 (1%)

Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAH-DENNQCNIGDRVRLDP 59
            K + GLV+S KM ++V++  D L + + YNRY KR      H         GD +    
Sbjct: 67  GKIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVHISPCFSVKEGDILVAGQ 126

Query: 60  SRPLSKHKHWAVAEILKKARI 80
            RP+SK   +   +++    I
Sbjct: 127 CRPISKTVRFNALQVVPNEII 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 =  103 bits (258), Expect = 8e-30
 Identities = 26/75 (34%), Positives = 38/75 (50%), Gaps = 2/75 (2%)

Query: 6   GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN--NQCNIGDRVRLDPSRPL 63
           G+V   KMQ+++V+  D L + + YNR+ KR      H         IGD V +   RPL
Sbjct: 75  GVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDVQIGDIVTVGECRPL 134

Query: 64  SKHKHWAVAEILKKA 78
           SK   + V ++ K A
Sbjct: 135 SKTVRFNVLKVTKAA 149

>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 =  102 bits (256), Expect = 2e-29
 Identities = 24/79 (30%), Positives = 37/79 (46%), Gaps = 1/79 (1%)

Query: 1   MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAH-DENNQCNIGDRVRLDP 59
            + + G   S KM ++++V  + L   K Y RY KR S   AH     +   GD V +  
Sbjct: 69  GRIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKEGDHVIIGQ 128

Query: 60  SRPLSKHKHWAVAEILKKA 78
            RPLSK   + V +++   
Sbjct: 129 CRPLSKTVRFNVLKVIPAG 147

>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant photosynthetic reaction center, peripheral antenna; HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1 Length = 154

 Score = 36.5 bits (83), Expect = 4e-04
 Identities = 9/30 (30%), Positives = 13/30 (43%), Gaps = 8/30 (26%)

Query: 75  LKKA----RIYVPPSADNAAAAAVSNTQTE 100
           LKK     ++Y     D+A A A+     E
Sbjct: 22  LKKLQASLKLYAD---DSAPALAI-KATME 47

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	106
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
3j20_R	113	30S ribosomal protein S17P; archaea, archaeal, KIN	100.0
3bbn_Q	142	Ribosomal protein S17; small ribosomal subunit, sp	100.0
2xzm_Q	157	Ribosomal protein S17 containing protein; ribosome	100.0
3u5c_L	156	RP41, S18, YS12, 40S ribosomal protein S11-A; tran	100.0
2zkq_q	158	40S ribosomal protein S11E; protein-RNA complex, 4	100.0
3iz6_P	161	40S ribosomal protein S11 (S17P); eukaryotic ribos	99.97

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

Probab=100.00  E-value=5.5e-40  Score=223.09  Aligned_cols=80  Identities=41%  Similarity=0.630  Sum_probs=77.7

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeecccc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARIY   81 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~~~   81 (106)
                      ++|+|+|+|++|+|||+|+|+|+++||+|+|+++++++|+||||+|+|++||+|+|+|||||||+|+|+|++|++++..+
T Consensus         3 k~l~G~VvS~Km~KTivV~ve~~~~hp~Y~K~~kr~kk~~aHDe~n~~k~GD~V~I~E~RPlSKtK~~~vv~iv~~a~~~   82 (89)
T 1qd7_I            3 KVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMETRPLSATKRFRLVEIVEKAVRA   82 (89)
T ss_pred             EEEEEEEEecCCCceEEEEEEEEEEcCccceEEeccEEEEEeCCccCCCCCCEEEEEEcccCCCCEEEEEEEEEeeceee
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999998754

>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=5.2e-37  Score=213.81  Aligned_cols=79  Identities=42%  Similarity=0.746  Sum_probs=77.4

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeeccc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARI   80 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~~   80 (106)
                      ++|+|+|+|++|+|||+|.|+|+++||+|+||++++++|+||||+|+|++||+|+|+|||||||+|+|+|++|++++..
T Consensus         4 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            4 KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESRPISKRKRFRVLRLVESGRM   82 (105)
T ss_dssp             CEEEEEEEEEEETTEEEEEEEEEEECTTTCCEEEEEEEEEEECTTCCCCTTCEEEEEEEEEEETTEEEEEEEEEECCCH
T ss_pred             eEEEEEEEecCCCcEEEEEEEEEEEcCccceEEecceEEEEECCCCCCCCCCEEEEEEcccCCCCEEEEEEEEeecccc
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999999999885

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

Probab=100.00  E-value=8.2e-36  Score=210.07  Aligned_cols=78  Identities=38%  Similarity=0.603  Sum_probs=75.8

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECC-CCCCCCCCEEEEeecccCCcceeEEEEEEEeecc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDE-NNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKAR   79 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe-~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~   79 (106)
                      ++|+|+|+|++|+|||+|+|+|+++||+|+|+++++++|+|||| .|+|++||+|+|+|||||||+|+|+|++|++++.
T Consensus        32 r~l~G~VvS~KM~KTivV~ve~~~~hpkY~K~~kr~kk~~aHDe~~n~~~vGD~V~I~E~RPlSKtKr~~vv~i~~~a~  110 (113)
T 3j20_R           32 RVFEGIVVSDKPRKTVTVERQYYFYLNKYERYELRRSKIHAHNPPCINAKVGDKVLIAETRPLSKTKHFVVVAVLERAE  110 (113)
T ss_dssp             CEEEEEEEECCSTTEEEEEEEEEEEETTTTEEEEEEEEEEEECCTTSCCCTTSEEEEEECSCSSSSEEEEEEEECCCCC
T ss_pred             EEEEEEEEeccCCceEEEEEEEEEEcCcccEEEECceEEEEECCCCCCCCCCCEEEEEecccCCCcEeEEEEEEEeccc
Confidence            68999999999999999999999999999999999999999999 6899999999999999999999999999999875

>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=3.6e-36  Score=218.81  Aligned_cols=79  Identities=42%  Similarity=0.632  Sum_probs=76.9

Q ss_pred             CceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeecc
Q 034020            1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKAR   79 (106)
Q Consensus         1 ~k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~   79 (106)
                      .++|+|+|+|+||+|||+|+|+|+++||+|+|+++++++|+||||+|+|++||+|+|+|||||||+|+|+|++|++++.
T Consensus        60 ~k~l~G~VVS~KMdKTIvV~Ver~~~hpkY~K~vkr~kKy~AHDe~n~~kvGD~V~I~E~RPLSKtKrw~VveIveka~  138 (142)
T 3bbn_Q           60 MKTMQGRVVCATSDKTVAVEVVRLAPHPKYKRRVRMKKKYQAHDPDNQFKVGDVVRLEKSRPISKTKSFVALPVIARAA  138 (142)
T ss_dssp             CCEEEEEEEECCSTTEEEEEEEEEEECSSSCSEEEEEEEEEEECTTCCCCTTEEEEEEECCCSSSSCCEEECCCSEEEC
T ss_pred             eEEEEEEEEEccCCceEEEEEEEEEEcCccccEEecceEEEEECCCCCCCCCCEEEEEEccCCCCcEEEEEEEEEeccc
Confidence            3789999999999999999999999999999999999999999999999999999999999999999999999999876

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

Probab=100.00  E-value=2.6e-34  Score=211.90  Aligned_cols=78  Identities=29%  Similarity=0.444  Sum_probs=74.4

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECC-CCCCCCCCEEEEeecccCCcceeEEEEEEEeecc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDE-NNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKAR   79 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe-~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~   79 (106)
                      ++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+|||| .|+|++||+|+|+|||||||+|+|+|++|++++.
T Consensus        68 r~l~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDee~n~~kvGD~V~I~EcRPLSKtKrw~Vv~I~~ka~  146 (157)
T 2xzm_Q           68 KIIKGLVISTKMNRTVIIRRDYLHYVRKYNRYEKRHRNIPVHISPCFSVKEGDILVAGQCRPISKTVRFNALQVVPNEI  146 (157)
T ss_dssp             CEEEEEEEECCSTTEEEEEEEEEEEETTTTEEEEEEEEEEEECCTTSCCCTTCEEEEEECCCCSSSCCEEEEEECCCCC
T ss_pred             EEEEEEEEEecCCccEEEEEEEEEecCccceEeecceeEEEECCCCCCCCCCCEEEEEEcCCCCCcEEEEEEEEEeccc
Confidence            68999999999999999999999999999999999999999995 5799999999999999999999999999997753

>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=5.2e-34  Score=210.14  Aligned_cols=78  Identities=32%  Similarity=0.465  Sum_probs=75.0

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCC-CCCCCCCEEEEeecccCCcceeEEEEEEEeecc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN-NQCNIGDRVRLDPSRPLSKHKHWAVAEILKKAR   79 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~-~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~   79 (106)
                      ++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+||||+ |+|++||+|+|+|||||||+|+|+|++|+++++
T Consensus        69 r~l~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~~n~~kvGD~V~I~EcRPLSKtKrw~Vv~Iv~ka~  147 (156)
T 3u5c_L           69 KILTGTVVSTKMHRTIVIRRAYLHYIPKYNRYEKRHKNVPVHVSPAFRVQVGDIVTVGQCRPISKTVRFNVVKVSAAAG  147 (156)
T ss_dssp             EEEEEEEEECCSTTEEEEEEEEEEEEGGGTEEEEEEEEEEEECCTTSCCCTTCEEEEEEEEEEETTEEEEEEEECCCCS
T ss_pred             EEEEEEEEeecCCCeEEEEEEEEeecCccceEEECceEEEEECCCcCcCCCCCEEEEEecccCCCcEeEEEEEEEecCC
Confidence            589999999999999999999999999999999999999999985 599999999999999999999999999999864

>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=6.2e-34  Score=210.11  Aligned_cols=77  Identities=34%  Similarity=0.503  Sum_probs=71.3

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCC-C-CCCCCCEEEEeecccCCcceeEEEEEEEeec
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDEN-N-QCNIGDRVRLDPSRPLSKHKHWAVAEILKKA   78 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~-~-~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~   78 (106)
                      ++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+||||+ | +|++||+|+|+|||||||+|+|+|++|++..
T Consensus        71 r~l~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~~n~~~kvGD~V~I~E~RPLSKtKrw~Vv~I~~~~  149 (158)
T 2zkq_q           71 RILSGVVTKMKMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKVTKAA  149 (158)
T ss_dssp             CEEEEEEEECSSSCEEEEEEEEECSSTTCCCEEEEEEEECCBCCSSCCCC-CCCEEEEECCSCSSSCC-CEEEEEEEC-
T ss_pred             EEEEEEEEEccCCccEEEEEEEEEecCccceeeecceeEEEECCcccCcCCCCCEEEEEEccccCCcEEEEEEEEecCC
Confidence            689999999999999999999999999999999999999999987 4 7999999999999999999999999999754

>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=99.97  E-value=8e-34  Score=209.99  Aligned_cols=78  Identities=31%  Similarity=0.467  Sum_probs=51.9

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECC-CCCCCCCCEEEEeecccCCcceeEEEEEEEeecc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDE-NNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKAR   79 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe-~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~   79 (106)
                      ++|+|+|+|++|+|||+|+++++++||+|+|+++++++|+|||| .|+|++||+|+|+|||||||+|+|+|++|++++.
T Consensus        70 ril~G~VVS~KMdKTIvV~ve~~~~hpkY~K~vkr~kKy~AHDe~~n~~kvGD~V~I~EcRPLSKtKrw~Vv~Iv~~~~  148 (161)
T 3iz6_P           70 RIIAGTCHSAKMNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHVSPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVIPAGS  148 (161)
T ss_dssp             EECTTTCCEEEEEEEEEEECTTCCCCSSCEEEEEECCCSSSSCCEEEEECCCCCC------------------------
T ss_pred             EEEEEEEEeccCCCeEEEEEEEEEecCccceEEECceeEEEECCCCCcCCCCCEEEEEeccCCCCcEeEEEEEEEecCc
Confidence            57899999999999999999999999999999999999999998 4799999999999999999999999999999864

---

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	106
d2uubq1	100	b.40.4.5 (Q:2-101) Ribosomal protein S17 {Thermus	2e-33
d2gy9q1	78	b.40.4.5 (Q:5-82) Ribosomal protein S17 {Escherich	1e-30
d1ripa_	81	b.40.4.5 (A:) Ribosomal protein S17 {Bacillus stea	8e-30

>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 =  109 bits (274), Expect = 2e-33
 Identities = 33/85 (38%), Positives = 54/85 (63%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K + G+VVS+KMQK+V V V+R F H +Y + +KR+ K++AHD   +  +GD V +  SR
Sbjct: 3  KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESR 62

Query: 62 PLSKHKHWAVAEILKKARIYVPPSA 86
          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 =  102 bits (255), Expect = 1e-30
 Identities = 37/77 (48%), Positives = 56/77 (72%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          +++ G VVS+KM+KS+VVA++R   H +Y +++KRT+K   HDENN+C IGD V +   R
Sbjct: 1  RTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIRECR 60

Query: 62 PLSKHKHWAVAEILKKA 78
          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 = 99.8 bits (249), Expect = 8e-30
 Identities = 33/77 (42%), Positives = 51/77 (66%)

Query: 2  KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
          K  VG VVS+KM K++ V V+    H +Y + VK + K+ AHDE+N+  +GD V++  +R
Sbjct: 3  KVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMETR 62

Query: 62 PLSKHKHWAVAEILKKA 78
          PLS  K + + EI++KA
Sbjct: 63 PLSATKRFRLVEIVEKA 79

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	106
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	100.0

>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=1.1e-37  Score=205.40  Aligned_cols=77  Identities=48%  Similarity=0.915  Sum_probs=75.5

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeec
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKA   78 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~   78 (106)
                      ++|.|+|+|++|+||++|+|+|+++||+|+|+++++++|+||||+|+|++||.|+|+|||||||+|+|.|.+|++++
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            58999999999999999999999999999999999999999999999999999999999999999999999999975

>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=2.2e-37  Score=212.29  Aligned_cols=79  Identities=42%  Similarity=0.746  Sum_probs=77.4

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeeccc
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKARI   80 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~~~   80 (106)
                      ++|.|+|+|++|+|||+|.|+|+++||+|+|+++++++|+||||+|+|++||.|+|+|||||||+|+|.|.+|++++..
T Consensus         3 r~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           3 KVLTGVVVSDKMQKTVTVLVERQFPHPLYGKVIKRSKKYLAHDPEEKYKLGDVVEIIESRPISKRKRFRVLRLVESGRM   81 (100)
T ss_dssp             CEEEEEECCCCBTTEEEEEEEEEEEETTTEEEEEEEEEEEEECTTCCCCTTCEEEEEEEEEEETTEEEEEEEEEECCCH
T ss_pred             eEEEEEEEEcCCCCcEEEEEEEEEeccccCEEEEeeEEEEEECCCCCCCCCCEEEEEECcCCCCceEEEEEEEEeccCC
Confidence            6899999999999999999999999999999999999999999999999999999999999999999999999998876

>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=100.00  E-value=2.3e-37  Score=205.24  Aligned_cols=77  Identities=43%  Similarity=0.682  Sum_probs=75.3

Q ss_pred             ceEEEEEEeCCCCCeEEEEEeeEEeecceeeEEEeeeeEEEECCCCCCCCCCEEEEeecccCCcceeEEEEEEEeec
Q 034020            2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKA   78 (106)
Q Consensus         2 k~l~G~VvS~km~KTvvV~V~r~~~hpkY~K~~~r~kk~~vHDe~~~~k~GD~V~I~e~RPiSK~K~f~V~~Ii~k~   78 (106)
                      ++|.|+|+|++|+||++|+|+|+++||+|+|+++++++|+||||+|+|++||+|+|.|||||||+|+|.|.+|++++
T Consensus         3 k~~~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_           3 KVYVGRVVSDKMDKTITVLVETYKKHPLYGKRVKYSKKYKAHDEHNEAKVGDIVKIMETRPLSATKRFRLVEIVEKA   79 (81)
T ss_dssp             SCBCCEESCCCSSSCSCCCBCCSCCCSCSSSCCCCSBCCCCCCCSTTCSSCEECCBCCCCCSSSCCCCCCCCCBSSS
T ss_pred             cEEEEEEEecCCCCcEEEEEEEEEEcCccCEEEEeeEEEEEECCCCCCccCCEEEEEEccCCCCCeeEEEEEEehHh
Confidence            67999999999999999999999999999999999999999999999999999999999999999999999999876