Citrus Sinensis ID: 032468

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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
MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccHHHHHHcccccccEEEcHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHccccccccc
Secondary Structure Prediction (SSPRO)
cccEcccccccccccccccccccccccccHHHHHHHHHHHHHccccHcHHHHEEEHccccccEEEccHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHccccccccc
Coil and Loop (DISEMBL)
mgrmhsrgkgisasalpykrtppswlkissQDVEDNICKFakkgltpsqigvILRDSHGIAQVKSVTGSKILRILKahglapeipEDLYHLIKKAVAIRKHLErnrkdkdskFRLILVESRIHRLARYYKktkklppvwk
Flexible Loop (DISEMBL)
mgrmhsrgkgisasalpykrtppsWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRkhlernrkdkdskfrlilvesrihrlaryykktkklppvwk
Low Complexity Region (SEG)
MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK
Disordered region (IsUnstruct)
************************WLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLER*****DSKFRLILVESRIHRLARYYKK*********
Disordered Region (DISOPRED)
*GR*************PYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLE*****KDSKFRLILVESRIHRLARYYKKTKKLPP*W*
Disordered Region (DISEMBL)
**********ISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKT********
Disordered Region (DISPRO)
*****************YKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLP**W*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK
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	140	2.2.26 [Sep-21-2011]
P62302	151	40S ribosomal protein S13	yes	no	1.0	0.927	0.971	4e-75
P59224	151	40S ribosomal protein S13	yes	no	1.0	0.927	0.942	2e-72
P59223	151	40S ribosomal protein S13	yes	no	1.0	0.927	0.935	1e-71
P46298	151	40S ribosomal protein S13	N/A	no	1.0	0.927	0.928	2e-71
Q69UI1	151	40S ribosomal protein S13	yes	no	1.0	0.927	0.871	1e-65
Q69UI2	151	40S ribosomal protein S13	yes	no	1.0	0.927	0.857	5e-65
Q05761	151	40S ribosomal protein S13	N/A	no	1.0	0.927	0.857	1e-64
P62278	151	40S ribosomal protein S13	yes	no	1.0	0.927	0.771	4e-60
P62301	151	40S ribosomal protein S13	yes	no	1.0	0.927	0.771	4e-60
P62277	151	40S ribosomal protein S13	yes	no	1.0	0.927	0.771	4e-60

>sp|P62302|RS13_SOYBN 40S ribosomal protein S13 OS=Glycine max GN=RPS13 PE=2 SV=1

 Score =  279 bits (713), Expect = 4e-75,   Method: Compositional matrix adjust.
 Identities = 136/140 (97%), Positives = 139/140 (99%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGIS+SALPYKRTPPSWLKISSQDVE+NICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISSSALPYKRTPPSWLKISSQDVEENICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQV SVTGSKILRILKAHGLAPEIPEDLYHLIKKAV+IRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVNSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVSIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Glycine max (taxid: 3847)

>sp|P59224|RS132_ARATH 40S ribosomal protein S13-2 OS=Arabidopsis thaliana GN=RPS13B PE=2 SV=1

 Score =  270 bits (690), Expect = 2e-72,   Method: Compositional matrix adjust.
 Identities = 132/140 (94%), Positives = 137/140 (97%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGISASALPYKR+ PSWLK +SQDV+++ICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISASALPYKRSSPSWLKTTSQDVDESICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
            QVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  PQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Arabidopsis thaliana (taxid: 3702)

>sp|P59223|RS131_ARATH 40S ribosomal protein S13-1 OS=Arabidopsis thaliana GN=RPS13A PE=2 SV=1

 Score =  267 bits (683), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 131/140 (93%), Positives = 136/140 (97%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGISASALPYKR+ PSWLK + QDV+++ICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISASALPYKRSSPSWLKTTPQDVDESICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
            QVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  PQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Arabidopsis thaliana (taxid: 3702)

>sp|P46298|RS13_PEA 40S ribosomal protein S13 OS=Pisum sativum GN=RPS13 PE=2 SV=1

 Score =  266 bits (680), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 130/140 (92%), Positives = 137/140 (97%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGR+HS+GKGIS+SALPY+RT PSWLKISSQDV++ ICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRLHSKGKGISSSALPYRRTAPSWLKISSQDVDETICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAV+IRKHLER RKDKDSKFRLILVES
Sbjct: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVSIRKHLERFRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Pisum sativum (taxid: 3888)

>sp|Q69UI1|RS132_ORYSJ 40S ribosomal protein S13-2 OS=Oryza sativa subsp. japonica GN=Os08g0117300 PE=1 SV=1

 Score =  248 bits (632), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 122/140 (87%), Positives = 128/140 (91%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGIS+SALPYKRTPPSWLK ++ DVE+ I K AKKG  PSQIGV+LRD HGI
Sbjct: 1   MGRMHSRGKGISSSALPYKRTPPSWLKTAASDVEEMIMKAAKKGQMPSQIGVVLRDQHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             VKSVTGSKILRILKAHGLAPEIPEDLY LIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  PLVKSVTGSKILRILKAHGLAPEIPEDLYFLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYK+TKKLPP WK
Sbjct: 121 RIHRLARYYKRTKKLPPTWK 140

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q69UI2|RS131_ORYSJ 40S ribosomal protein S13-1 OS=Oryza sativa subsp. japonica GN=Os08g0117200 PE=2 SV=2

 Score =  245 bits (626), Expect = 5e-65,   Method: Compositional matrix adjust.
 Identities = 120/140 (85%), Positives = 128/140 (91%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGIS+SA+PYKRTPPSW+K ++ DVE+ I K AKKG  PSQIGV+LRD HGI
Sbjct: 1   MGRMHSRGKGISSSAIPYKRTPPSWVKTAAADVEEMIMKAAKKGQMPSQIGVVLRDQHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             VKSVTGSKILRILKAHGLAPEIPEDLY LIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  PLVKSVTGSKILRILKAHGLAPEIPEDLYFLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYK+TKKLPP WK
Sbjct: 121 RIHRLARYYKRTKKLPPTWK 140

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q05761|RS13_MAIZE 40S ribosomal protein S13 OS=Zea mays GN=RPS13 PE=2 SV=1

 Score =  244 bits (623), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 120/140 (85%), Positives = 127/140 (90%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MG MHSRGKGIS+SALPYKRTPP+WLK ++ DVE+ I K AKKG  PSQIGV+LRD HGI
Sbjct: 1   MGAMHSRGKGISSSALPYKRTPPTWLKTAASDVEEMITKAAKKGQMPSQIGVLLRDQHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             VKSVTGSKILRILKAHGLAPEIPEDLY LIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  PLVKSVTGSKILRILKAHGLAPEIPEDLYFLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYK+TKKLPP WK
Sbjct: 121 RIHRLARYYKRTKKLPPTWK 140

Zea mays (taxid: 4577)

>sp|P62278|RS13_RAT 40S ribosomal protein S13 OS=Rattus norvegicus GN=Rps13 PE=1 SV=2

 Score =  229 bits (583), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 108/140 (77%), Positives = 127/140 (90%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMH+ GKG+S SALPY+R+ P+WLK++S DV++ I K AKKGLTPSQIGVILRDSHG+
Sbjct: 1   MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGV 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQV+ VTG+KILRILK+ GLAP++PEDLYHLIKKAVA+RKHLERNRKDKD+KFRLIL+ES
Sbjct: 61  AQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYK  + LPP WK
Sbjct: 121 RIHRLARYYKTKRVLPPNWK 140

Rattus norvegicus (taxid: 10116)

>sp|P62301|RS13_MOUSE 40S ribosomal protein S13 OS=Mus musculus GN=Rps13 PE=1 SV=2

 Score =  229 bits (583), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 108/140 (77%), Positives = 127/140 (90%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMH+ GKG+S SALPY+R+ P+WLK++S DV++ I K AKKGLTPSQIGVILRDSHG+
Sbjct: 1   MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGV 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQV+ VTG+KILRILK+ GLAP++PEDLYHLIKKAVA+RKHLERNRKDKD+KFRLIL+ES
Sbjct: 61  AQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYK  + LPP WK
Sbjct: 121 RIHRLARYYKTKRVLPPNWK 140

Mus musculus (taxid: 10090)

>sp|P62277|RS13_HUMAN 40S ribosomal protein S13 OS=Homo sapiens GN=RPS13 PE=1 SV=2

 Score =  229 bits (583), Expect = 4e-60,   Method: Compositional matrix adjust.
 Identities = 108/140 (77%), Positives = 127/140 (90%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMH+ GKG+S SALPY+R+ P+WLK++S DV++ I K AKKGLTPSQIGVILRDSHG+
Sbjct: 1   MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGV 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQV+ VTG+KILRILK+ GLAP++PEDLYHLIKKAVA+RKHLERNRKDKD+KFRLIL+ES
Sbjct: 61  AQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYK  + LPP WK
Sbjct: 121 RIHRLARYYKTKRVLPPNWK 140

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	140
82621170	151	cytoplasmic ribosomal protein S13-like [	1.0	0.927	0.985	2e-73
225453951	151	PREDICTED: 40S ribosomal protein S13 [Vi	1.0	0.927	0.971	2e-73
8131699	151	cytoplasmic ribosomal protein S13 [Panax	1.0	0.927	0.978	2e-73
449459684	151	PREDICTED: 40S ribosomal protein S13-lik	1.0	0.927	0.978	2e-73
351722010	151	40S ribosomal protein S13 [Glycine max]	1.0	0.927	0.971	3e-73
116783993	151	unknown [Picea sitchensis]	1.0	0.927	0.957	4e-73
388521223	151	unknown [Lotus japonicus] gi|388521665|g	1.0	0.927	0.964	5e-73
449472968	151	PREDICTED: 40S ribosomal protein S13-lik	1.0	0.927	0.971	5e-73
350534834	151	cytoplasmic ribosomal protein S13 [Solan	1.0	0.927	0.978	6e-73
255541262	151	40S ribosomal protein S13, putative [Ric	1.0	0.927	0.978	6e-73

>gi|82621170|gb|ABB86273.1| cytoplasmic ribosomal protein S13-like [Solanum tuberosum]

 Score =  280 bits (716), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 138/140 (98%), Positives = 139/140 (99%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGISASALPYKRTPPSWLKIS+ DVEDNICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISASALPYKRTPPSWLKISAPDVEDNICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225453951|ref|XP_002280012.1| PREDICTED: 40S ribosomal protein S13 [Vitis vinifera] gi|147820740|emb|CAN69640.1| hypothetical protein VITISV_028568 [Vitis vinifera] gi|296089171|emb|CBI38874.3| unnamed protein product [Vitis vinifera]

 Score =  280 bits (715), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 136/140 (97%), Positives = 140/140 (100%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGIS+SALPYKRTPPSWLKISSQDVE+NICKFAKKG+TPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISSSALPYKRTPPSWLKISSQDVEENICKFAKKGMTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYK+TKKLPPVWK
Sbjct: 121 RIHRLARYYKRTKKLPPVWK 140

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|8131699|dbj|BAA96366.1| cytoplasmic ribosomal protein S13 [Panax ginseng]

 Score =  280 bits (715), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 137/140 (97%), Positives = 139/140 (99%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGISASALPYKRTPPSWLKI+ QDV+DNICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISASALPYKRTPPSWLKITPQDVDDNICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Source: Panax ginseng

Species: Panax ginseng

Genus: Panax

Family: Araliaceae

Order: Apiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449459684|ref|XP_004147576.1| PREDICTED: 40S ribosomal protein S13-like [Cucumis sativus] gi|449506113|ref|XP_004162657.1| PREDICTED: 40S ribosomal protein S13-like [Cucumis sativus]

 Score =  279 bits (714), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 137/140 (97%), Positives = 139/140 (99%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGISASALPYKRTPPSWLKISS DVEDNICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSTDVEDNICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVKSVTG+KILRILKAHGLAPEIPEDLYHLIKKAV+IRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVKSVTGNKILRILKAHGLAPEIPEDLYHLIKKAVSIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351722010|ref|NP_001237229.1| 40S ribosomal protein S13 [Glycine max] gi|356514135|ref|XP_003525762.1| PREDICTED: 40S ribosomal protein S13-like [Glycine max] gi|356514137|ref|XP_003525763.1| PREDICTED: 40S ribosomal protein S13-like [Glycine max] gi|356563264|ref|XP_003549884.1| PREDICTED: 40S ribosomal protein S13-like [Glycine max] gi|54039313|sp|P62302.1|RS13_SOYBN RecName: Full=40S ribosomal protein S13 gi|44662862|gb|AAS47510.1| ribosomal protein S13 [Glycine max] gi|161367348|gb|ABX71080.1| ribosomal protein S13 [Glycine max] gi|255625887|gb|ACU13288.1| unknown [Glycine max]

 Score =  279 bits (713), Expect = 3e-73,   Method: Compositional matrix adjust.
 Identities = 136/140 (97%), Positives = 139/140 (99%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGIS+SALPYKRTPPSWLKISSQDVE+NICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISSSALPYKRTPPSWLKISSQDVEENICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQV SVTGSKILRILKAHGLAPEIPEDLYHLIKKAV+IRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVNSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVSIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116783993|gb|ABK23173.1| unknown [Picea sitchensis]

 Score =  278 bits (712), Expect = 4e-73,   Method: Compositional matrix adjust.
 Identities = 134/140 (95%), Positives = 139/140 (99%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGIS+SALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISSSALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVKSVTGSK+LRILKAHGLAPEIPEDLYHLIKKAVA+RKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVKSVTGSKVLRILKAHGLAPEIPEDLYHLIKKAVAVRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           R+HRLARYYK+ KKLPPVWK
Sbjct: 121 RVHRLARYYKRVKKLPPVWK 140

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388521223|gb|AFK48673.1| unknown [Lotus japonicus] gi|388521665|gb|AFK48894.1| unknown [Lotus japonicus]

 Score =  278 bits (711), Expect = 5e-73,   Method: Compositional matrix adjust.
 Identities = 135/140 (96%), Positives = 140/140 (100%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGIS+SALPYKRTPPSWLKI+SQDVE+NICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISSSALPYKRTPPSWLKIASQDVEENICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQV+SVTGSKILRILKAHGLAPEIPEDLYHLIKKAV+IRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVRSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVSIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449472968|ref|XP_004153746.1| PREDICTED: 40S ribosomal protein S13-like [Cucumis sativus] gi|449498912|ref|XP_004160669.1| PREDICTED: 40S ribosomal protein S13-like [Cucumis sativus]

 Score =  278 bits (711), Expect = 5e-73,   Method: Compositional matrix adjust.
 Identities = 136/140 (97%), Positives = 139/140 (99%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGISASALPYKRTPPSWLKISSQDV +NICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVAENICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVKSVTG+KILRILKAHGLAPEIPEDLYHLIKKAV+IRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVKSVTGNKILRILKAHGLAPEIPEDLYHLIKKAVSIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|350534834|ref|NP_001234162.1| cytoplasmic ribosomal protein S13 [Solanum lycopersicum] gi|68449762|gb|AAY97868.1| cytoplasmic ribosomal protein S13 [Solanum lycopersicum]

 Score =  278 bits (711), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 137/140 (97%), Positives = 138/140 (98%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGISASALPYKR PPSWLKIS+ DVEDNICKFAKKGLTPSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISASALPYKRAPPSWLKISAPDVEDNICKFAKKGLTPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Source: Solanum lycopersicum

Species: Solanum lycopersicum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255541262|ref|XP_002511695.1| 40S ribosomal protein S13, putative [Ricinus communis] gi|223548875|gb|EEF50364.1| 40S ribosomal protein S13, putative [Ricinus communis]

 Score =  278 bits (711), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 137/140 (97%), Positives = 139/140 (99%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGISASALPYKRTPPSWLKISSQDV++NICKFAKKGL PSQIGVILRDSHGI
Sbjct: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVDENICKFAKKGLRPSQIGVILRDSHGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYKKTKKLPPVWK
Sbjct: 121 RIHRLARYYKKTKKLPPVWK 140

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	140
TAIR|locus:2126936	151	RPS13A "ribosomal protein S13A	1.0	0.927	0.942	2.4e-67
TAIR|locus:2101901	151	AT3G60770 [Arabidopsis thalian	1.0	0.927	0.935	8.2e-67
ASPGD|ASPL0000002296	151	AN6679 [Emericella nidulans (t	1.0	0.927	0.771	2.8e-57
UNIPROTKB|Q6ITC7	151	RPS13 "40S ribosomal protein S	1.0	0.927	0.771	2.5e-56
UNIPROTKB|Q56JX8	151	RPS13 "40S ribosomal protein S	1.0	0.927	0.771	2.5e-56
UNIPROTKB|P62277	151	RPS13 "40S ribosomal protein S	1.0	0.927	0.771	2.5e-56
RGD|621027	151	Rps13 "ribosomal protein S13"	1.0	0.927	0.771	2.5e-56
UNIPROTKB|G4NCQ6	151	MGG_00349 "40S ribosomal prote	1.0	0.927	0.778	3.3e-56
ZFIN|ZDB-GENE-040625-52	151	rps13 "ribosomal protein S13"	1.0	0.927	0.771	1.4e-55
UNIPROTKB|F6Q5P0	153	RPS13 "40S ribosomal protein S	1.0	0.915	0.760	3.7e-55

TAIR|locus:2126936 RPS13A "ribosomal protein S13A" [Arabidopsis thaliana (taxid:3702)]

 Score = 684 (245.8 bits), Expect = 2.4e-67, P = 2.4e-67
 Identities = 132/140 (94%), Positives = 137/140 (97%)

Query:     1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
             MGRMHSRGKGISASALPYKR+ PSWLK +SQDV+++ICKFAKKGLTPSQIGVILRDSHGI
Sbjct:     1 MGRMHSRGKGISASALPYKRSSPSWLKTTSQDVDESICKFAKKGLTPSQIGVILRDSHGI 60

Query:    61 AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
              QVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct:    61 PQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query:   121 RIHRLARYYKKTKKLPPVWK 140
             RIHRLARYYKKTKKLPPVWK
Sbjct:   121 RIHRLARYYKKTKKLPPVWK 140

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;TAS

GO:0009507 "chloroplast" evidence=ISM

GO:0000911 "cytokinesis by cell plate formation" evidence=IMP

GO:0009965 "leaf morphogenesis" evidence=IMP

GO:0010090 "trichome morphogenesis" evidence=IMP

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

GO:0005730 "nucleolus" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0005794 "Golgi apparatus" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

GO:0009664 "plant-type cell wall organization" evidence=RCA

GO:0042545 "cell wall modification" evidence=RCA

GO:0005783 "endoplasmic reticulum" evidence=IDA

TAIR|locus:2101901 AT3G60770 [Arabidopsis thaliana (taxid:3702)]

 Score = 679 (244.1 bits), Expect = 8.2e-67, P = 8.2e-67
 Identities = 131/140 (93%), Positives = 136/140 (97%)

Query:     1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
             MGRMHSRGKGISASALPYKR+ PSWLK + QDV+++ICKFAKKGLTPSQIGVILRDSHGI
Sbjct:     1 MGRMHSRGKGISASALPYKRSSPSWLKTTPQDVDESICKFAKKGLTPSQIGVILRDSHGI 60

Query:    61 AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
              QVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct:    61 PQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120

Query:   121 RIHRLARYYKKTKKLPPVWK 140
             RIHRLARYYKKTKKLPPVWK
Sbjct:   121 RIHRLARYYKKTKKLPPVWK 140

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;IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0005618 "cell wall" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

ASPGD|ASPL0000002296 AN6679 [Emericella nidulans (taxid:162425)]

 Score = 589 (212.4 bits), Expect = 2.8e-57, P = 2.8e-57
 Identities = 108/140 (77%), Positives = 127/140 (90%)

Query:     1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
             MGR+HS+GKGI++SALPY RTP  W+KI+ + V D+ICK A+KG +PSQIGV+LRDSHG+
Sbjct:     1 MGRLHSKGKGIASSALPYSRTPAPWVKITPEQVVDHICKLARKGASPSQIGVVLRDSHGV 60

Query:    61 AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             AQVK+VTG+KILRILK++GLAPEIPEDLYHLIKKAVA+RKHLERNRKDKDSKFRLIL+ES
Sbjct:    61 AQVKTVTGNKILRILKSNGLAPEIPEDLYHLIKKAVAVRKHLERNRKDKDSKFRLILIES 120

Query:   121 RIHRLARYYKKTKKLPPVWK 140
             RIHRL+RYYK    LPP WK
Sbjct:   121 RIHRLSRYYKTVGVLPPTWK 140

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

GO:0030686 "90S preribosome" evidence=IEA

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

GO:0070181 "SSU rRNA binding" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

UNIPROTKB|Q6ITC7 RPS13 "40S ribosomal protein S13" [Gallus gallus (taxid:9031)]

 Score = 580 (209.2 bits), Expect = 2.5e-56, P = 2.5e-56
 Identities = 108/140 (77%), Positives = 127/140 (90%)

Query:     1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
             MGRMH+ GKG+S SALPY+R+ P+WLK++S DV++ I K AKKGLTPSQIGVILRDSHG+
Sbjct:     1 MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGV 60

Query:    61 AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             AQV+ VTG+KILRILK+ GLAP++PEDLYHLIKKAVA+RKHLERNRKDKD+KFRLIL+ES
Sbjct:    61 AQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIES 120

Query:   121 RIHRLARYYKKTKKLPPVWK 140
             RIHRLARYYK  + LPP WK
Sbjct:   121 RIHRLARYYKTKRVLPPNWK 140

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

GO:0006412 "translation" evidence=IEA

GO:0003729 "mRNA binding" evidence=IEA

GO:0005730 "nucleolus" evidence=IEA

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

GO:0033119 "negative regulation of RNA splicing" evidence=IEA

UNIPROTKB|Q56JX8 RPS13 "40S ribosomal protein S13" [Bos taurus (taxid:9913)]

 Score = 580 (209.2 bits), Expect = 2.5e-56, P = 2.5e-56
 Identities = 108/140 (77%), Positives = 127/140 (90%)

Query:     1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
             MGRMH+ GKG+S SALPY+R+ P+WLK++S DV++ I K AKKGLTPSQIGVILRDSHG+
Sbjct:     1 MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGV 60

Query:    61 AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             AQV+ VTG+KILRILK+ GLAP++PEDLYHLIKKAVA+RKHLERNRKDKD+KFRLIL+ES
Sbjct:    61 AQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIES 120

Query:   121 RIHRLARYYKKTKKLPPVWK 140
             RIHRLARYYK  + LPP WK
Sbjct:   121 RIHRLARYYKTKRVLPPNWK 140

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|P62277 RPS13 "40S ribosomal protein S13" [Homo sapiens (taxid:9606)]

 Score = 580 (209.2 bits), Expect = 2.5e-56, P = 2.5e-56
 Identities = 108/140 (77%), Positives = 127/140 (90%)

Query:     1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
             MGRMH+ GKG+S SALPY+R+ P+WLK++S DV++ I K AKKGLTPSQIGVILRDSHG+
Sbjct:     1 MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGV 60

Query:    61 AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             AQV+ VTG+KILRILK+ GLAP++PEDLYHLIKKAVA+RKHLERNRKDKD+KFRLIL+ES
Sbjct:    61 AQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIES 120

Query:   121 RIHRLARYYKKTKKLPPVWK 140
             RIHRLARYYK  + LPP WK
Sbjct:   121 RIHRLARYYKTKRVLPPNWK 140

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

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

GO:0006412 "translation" evidence=IC;TAS

GO:0003729 "mRNA binding" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0033119 "negative regulation of RNA splicing" evidence=IDA

GO:0005840 "ribosome" evidence=NAS

GO:0005515 "protein binding" evidence=IPI

GO:0000184 "nuclear-transcribed mRNA catabolic process, nonsense-mediated decay" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0006414 "translational elongation" evidence=TAS

GO:0006415 "translational termination" evidence=TAS

GO:0006614 "SRP-dependent cotranslational protein targeting to membrane" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0019058 "viral infectious cycle" evidence=TAS

GO:0019083 "viral transcription" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

RGD|621027 Rps13 "ribosomal protein S13" [Rattus norvegicus (taxid:10116)]

 Score = 580 (209.2 bits), Expect = 2.5e-56, P = 2.5e-56
 Identities = 108/140 (77%), Positives = 127/140 (90%)

Query:     1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
             MGRMH+ GKG+S SALPY+R+ P+WLK++S DV++ I K AKKGLTPSQIGVILRDSHG+
Sbjct:     1 MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGV 60

Query:    61 AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             AQV+ VTG+KILRILK+ GLAP++PEDLYHLIKKAVA+RKHLERNRKDKD+KFRLIL+ES
Sbjct:    61 AQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIES 120

Query:   121 RIHRLARYYKKTKKLPPVWK 140
             RIHRLARYYK  + LPP WK
Sbjct:   121 RIHRLARYYKTKRVLPPNWK 140

GO:0003674 "molecular_function" evidence=ND

GO:0003729 "mRNA binding" evidence=ISO

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

GO:0005634 "nucleus" evidence=ISO

GO:0005730 "nucleolus" evidence=ISO

GO:0006412 "translation" evidence=IEA

GO:0008150 "biological_process" evidence=ND

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

GO:0033119 "negative regulation of RNA splicing" evidence=ISO

UNIPROTKB|G4NCQ6 MGG_00349 "40S ribosomal protein S13" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 579 (208.9 bits), Expect = 3.3e-56, P = 3.3e-56
 Identities = 109/140 (77%), Positives = 122/140 (87%)

Query:     1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
             MGRMHS GKGISASA+PY R PP+WLK +   V + ICK A+KG TPSQIGV+LRDSHGI
Sbjct:     1 MGRMHSNGKGISASAIPYSRNPPAWLKTTPDQVVEQICKLARKGATPSQIGVVLRDSHGI 60

Query:    61 AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             AQVK VTG+KILRILK++GLAP+IPEDLY LIKKAV++RKHLERNRKDKDSKFRLIL+ES
Sbjct:    61 AQVKIVTGNKILRILKSNGLAPDIPEDLYMLIKKAVSVRKHLERNRKDKDSKFRLILIES 120

Query:   121 RIHRLARYYKKTKKLPPVWK 140
             RIHRLARYYK    LPP WK
Sbjct:   121 RIHRLARYYKTVGVLPPTWK 140

GO:0043581 "mycelium development" evidence=IEP

ZFIN|ZDB-GENE-040625-52 rps13 "ribosomal protein S13" [Danio rerio (taxid:7955)]

 Score = 573 (206.8 bits), Expect = 1.4e-55, P = 1.4e-55
 Identities = 108/140 (77%), Positives = 126/140 (90%)

Query:     1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
             MGRMH+ GKG+S SALPY+R+ P+WLK++S DV++ I K AKKGLTPSQIGVILRDSHG+
Sbjct:     1 MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIFKLAKKGLTPSQIGVILRDSHGV 60

Query:    61 AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             AQV+ VTG+KILRILK+ GLAP++PEDLYHLIKKAVA+RKHLERNRKDKD+KFRLILVES
Sbjct:    61 AQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILVES 120

Query:   121 RIHRLARYYKKTKKLPPVWK 140
             RIHRLARYYK  + L P WK
Sbjct:   121 RIHRLARYYKTRRVLAPNWK 140

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

UNIPROTKB|F6Q5P0 RPS13 "40S ribosomal protein S13" [Sus scrofa (taxid:9823)]

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 108/142 (76%), Positives = 127/142 (89%)

Query:     1 MGRMHSRGKGISASALPYKRTPPS--WLKISSQDVEDNICKFAKKGLTPSQIGVILRDSH 58
             MGRMH+ GKG+S SALPY+R+ P+  WLK++S DV++ I K AKKGLTPSQIGVILRDSH
Sbjct:     1 MGRMHAPGKGLSQSALPYRRSVPTKQWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSH 60

Query:    59 GIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILV 118
             G+AQV+ VTG+KILRILK+ GLAP++PEDLYHLIKKAVA+RKHLERNRKDKD+KFRLIL+
Sbjct:    61 GVAQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILI 120

Query:   119 ESRIHRLARYYKKTKKLPPVWK 140
             ESRIHRLARYYK  + LPP WK
Sbjct:   121 ESRIHRLARYYKTKRVLPPNWK 142

GO:0033119 "negative regulation of RNA splicing" evidence=IEA

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

GO:0005730 "nucleolus" evidence=IEA

GO:0003729 "mRNA binding" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
A4WMA2	RS15_PYRAR	No assigned EC number	0.4921	0.9142	0.8311	yes	no
P49393	RS13_XENLA	No assigned EC number	0.7714	1.0	0.9271	N/A	no
A6UQM4	RS15_METVS	No assigned EC number	0.4571	1.0	0.9271	yes	no
Q962R6	RS13_SPOFR	No assigned EC number	0.7642	1.0	0.9271	N/A	no
P05756	RS13_YEAST	No assigned EC number	0.7142	1.0	0.9271	yes	no
A8AAU0	RS15_IGNH4	No assigned EC number	0.4696	0.9428	0.8301	yes	no
P47772	RS13_ICTPU	No assigned EC number	0.7642	1.0	0.9271	N/A	no
Q03334	RS13_DROME	No assigned EC number	0.7571	1.0	0.9271	yes	no
Q9V2K9	RS15_PYRAB	No assigned EC number	0.4761	1.0	0.8860	yes	no
Q0W938	RS15_UNCMA	No assigned EC number	0.4532	0.9928	0.9144	yes	no
P54012	RS15_METJA	No assigned EC number	0.4785	1.0	0.9150	yes	no
P62301	RS13_MOUSE	No assigned EC number	0.7714	1.0	0.9271	yes	no
P62300	RS13_WUCBA	No assigned EC number	0.7571	1.0	0.9271	N/A	no
Q9DFR6	RS13_GILMI	No assigned EC number	0.7642	1.0	0.9271	N/A	no
P62302	RS13_SOYBN	No assigned EC number	0.9714	1.0	0.9271	yes	no
Q69UI2	RS131_ORYSJ	No assigned EC number	0.8571	1.0	0.9271	yes	no
P59223	RS131_ARATH	No assigned EC number	0.9357	1.0	0.9271	yes	no
P59224	RS132_ARATH	No assigned EC number	0.9428	1.0	0.9271	yes	no
A6UUL9	RS15_META3	No assigned EC number	0.4785	1.0	0.9271	yes	no
P28189	RS13_SCHPO	No assigned EC number	0.7357	1.0	0.9271	yes	no
Q9WVH0	RS13_CRIGR	No assigned EC number	0.7714	1.0	0.9271	yes	no
Q8TV08	RS15_METKA	No assigned EC number	0.5142	1.0	0.9395	yes	no
Q56JX8	RS13_BOVIN	No assigned EC number	0.7714	1.0	0.9271	yes	no
Q6ITC7	RS13_CHICK	No assigned EC number	0.7714	1.0	0.9271	yes	no
O29457	RS15_ARCFU	No assigned EC number	0.4785	1.0	0.9210	yes	no
Q5JGJ4	RS15_PYRKO	No assigned EC number	0.4928	1.0	0.9271	yes	no
Q05761	RS13_MAIZE	No assigned EC number	0.8571	1.0	0.9271	N/A	no
Q8I7D6	RS13_CIOIN	No assigned EC number	0.7571	1.0	0.9271	yes	no
P62299	RS13_BRUPA	No assigned EC number	0.7571	1.0	0.9271	N/A	no
P78571	RS13_AGABI	No assigned EC number	0.7428	1.0	0.9271	N/A	no
Q69UI1	RS132_ORYSJ	No assigned EC number	0.8714	1.0	0.9271	yes	no
A8MCD3	RS15_CALMQ	No assigned EC number	0.5234	0.9142	0.8533	yes	no
Q8MUR2	RS13_CHOPR	No assigned EC number	0.7571	1.0	0.9271	N/A	no
P33192	RS13_CANMA	No assigned EC number	0.7428	1.0	0.9271	N/A	no
O77303	RS13_LUMRU	No assigned EC number	0.8	1.0	0.9271	N/A	no
Q8I7U0	RS13_PLUXY	No assigned EC number	0.7571	1.0	0.9271	N/A	no
A3DMT2	RS15_STAMF	No assigned EC number	0.5	0.9571	0.8701	yes	no
P52811	RS13_ANOGA	No assigned EC number	0.7428	1.0	0.9271	yes	no
Q8PVA5	RS15_METMA	No assigned EC number	0.4676	0.9928	0.9144	yes	no
Q8ZT11	RS15_PYRAE	No assigned EC number	0.4961	0.9214	0.8543	yes	no
P27072	RS13_MUSDO	No assigned EC number	0.7941	0.7285	0.8947	N/A	no
A2SQ60	RS15_METLZ	No assigned EC number	0.4532	0.9928	0.9144	yes	no
Q54PH8	RS13_DICDI	No assigned EC number	0.6785	1.0	0.9271	yes	no
P62277	RS13_HUMAN	No assigned EC number	0.7714	1.0	0.9271	yes	no
A1RSM4	RS15_PYRIL	No assigned EC number	0.5156	0.9142	0.8476	yes	no
P46298	RS13_PEA	No assigned EC number	0.9285	1.0	0.9271	N/A	no
P51404	RS13_CAEEL	No assigned EC number	0.7071	1.0	0.9271	yes	no
P62278	RS13_RAT	No assigned EC number	0.7714	1.0	0.9271	yes	no
A1RXJ1	RS15_THEPD	No assigned EC number	0.5185	0.9642	0.9121	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

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	140
PTZ00072	148	PTZ00072, PTZ00072, 40S ribosomal protein S13; Pro	4e-92
PRK08561	151	PRK08561, rps15p, 30S ribosomal protein S15P; Revi	1e-62
pfam08069	60	pfam08069, Ribosomal_S13_N, Ribosomal S13/S15 N-te	6e-35
cd00353	80	cd00353, Ribosomal_S15p_S13e, Ribosomal protein S1	7e-24
COG0184	89	COG0184, RpsO, Ribosomal protein S15P/S13E [Transl	2e-21
pfam00312	83	pfam00312, Ribosomal_S15, Ribosomal protein S15	2e-19
cd00677	46	cd00677, S15_NS1_EPRS_RNA-bind, S15/NS1/EPRS_RNA-b	2e-11

>gnl|CDD|185427 PTZ00072, PTZ00072, 40S ribosomal protein S13; Provisional

 Score =  262 bits (672), Expect = 4e-92
 Identities = 115/137 (83%), Positives = 127/137 (92%)

Query: 4   MHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQV 63
           M+ +GKGIS+SALPY+R PPSWLK+SS +VED ICK AKKGLTPSQIGVILRDS GI QV
Sbjct: 1   MYGKGKGISSSALPYRRKPPSWLKLSSSEVEDQICKLAKKGLTPSQIGVILRDSMGIPQV 60

Query: 64  KSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIH 123
           K+VTGSKILRILK +GLAPEIPEDLY LIKKAV+IRKHLE+NRKDKDSKFRLILVESRIH
Sbjct: 61  KNVTGSKILRILKKNGLAPEIPEDLYFLIKKAVSIRKHLEKNRKDKDSKFRLILVESRIH 120

Query: 124 RLARYYKKTKKLPPVWK 140
           RLARYYK+TK+LPP WK
Sbjct: 121 RLARYYKRTKQLPPNWK 137

Length = 148

>gnl|CDD|236287 PRK08561, rps15p, 30S ribosomal protein S15P; Reviewed

 Score =  188 bits (480), Expect = 1e-62
 Identities = 74/140 (52%), Positives = 99/140 (70%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           M RMH+R +G S S  P +  PP W+  S +++E+ + + AK+G +PS IG+ILRD +GI
Sbjct: 1   MARMHTRRRGKSGSTRPARTEPPEWVDYSPEEIEELVVELAKQGYSPSMIGIILRDQYGI 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             VK +TG KI  IL+ +GLAPEIPEDL +LIKKAV +RKHLE N KD  +K  L L+ES
Sbjct: 61  PDVKLITGKKITEILEENGLAPEIPEDLRNLIKKAVNLRKHLEENPKDLHNKRGLQLIES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           +I RL +YYK+T  LP  W+
Sbjct: 121 KIRRLVKYYKRTGVLPADWR 140

Length = 151

>gnl|CDD|191937 pfam08069, Ribosomal_S13_N, Ribosomal S13/S15 N-terminal domain

 Score =  114 bits (289), Expect = 6e-35
 Identities = 45/60 (75%), Positives = 50/60 (83%)

Query: 1  MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
          M RMHSRGKGIS SA PY+RTPP WLK S ++VE+ I K AKKGLTPSQIGVILRD +GI
Sbjct: 1  MARMHSRGKGISGSARPYRRTPPEWLKYSPEEVEELIVKLAKKGLTPSQIGVILRDQYGI 60

This domain is found at the N-terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021. Length = 60

>gnl|CDD|238213 cd00353, Ribosomal_S15p_S13e, Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome

 Score = 87.6 bits (218), Expect = 7e-24
 Identities = 28/75 (37%), Positives = 40/75 (53%), Gaps = 4/75 (5%)

Query: 70  KILRILKAHGLA----PEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRL 125
           K   ILK  GLA          L  L ++ V + +HLE+N+KDK SK  L+L+ S+  RL
Sbjct: 1   KKQEILKEFGLAEGDTGSPEVQLALLTERIVNLTEHLEKNKKDKHSKRGLLLLVSKRRRL 60

Query: 126 ARYYKKTKKLPPVWK 140
            +Y K+  +L   W 
Sbjct: 61  LKYLKRKDRLRYEWL 75

S15 also plays an important autoregulatory role by binding and preventing its own mRNA from being translated. S15 has a predominantly alpha-helical fold that is highly structured except for the N-terminal alpha helix. Length = 80

>gnl|CDD|223262 COG0184, RpsO, Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]

 Score = 81.8 bits (203), Expect = 2e-21
 Identities = 25/97 (25%), Positives = 43/97 (44%), Gaps = 16/97 (16%)

Query: 44  GLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLE 103
               S+I   LRD +GI +V + +G                   L  L ++   + +HL+
Sbjct: 1   MSLTSEIKQELRDEYGIPEVDTGSG----------------EVQLALLTERINNLTEHLK 44

Query: 104 RNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK 140
            ++KD  S+  L+L+ S+  RL +Y K+   L   W 
Sbjct: 45  EHKKDHHSRRGLLLLVSKRRRLLKYLKRKDVLRYRWL 81

Length = 89

>gnl|CDD|109373 pfam00312, Ribosomal_S15, Ribosomal protein S15

 Score = 76.2 bits (188), Expect = 2e-19
 Identities = 25/70 (35%), Positives = 34/70 (48%)

Query: 66  VTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRL 125
            TG  I   LKA      +   +  L ++ V +RKHLE ++KD  SK  LI + S+  RL
Sbjct: 2   ATGLIISEFLKAEKDTGSVEVQIALLTERIVRLRKHLEEHKKDYHSKRGLIKMVSKRRRL 61

Query: 126 ARYYKKTKKL 135
             Y KK    
Sbjct: 62  LAYLKKKDTA 71

Length = 83

>gnl|CDD|238361 cd00677, S15_NS1_EPRS_RNA-bind, S15/NS1/EPRS_RNA-binding domain

 Score = 54.8 bits (133), Expect = 2e-11
 Identities = 16/46 (34%), Positives = 27/46 (58%)

Query: 85  PEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYK 130
              +  L ++   +++HL +N+KDK SK  L L+ S+  RL +Y K
Sbjct: 1   EVQIALLTERIRNLKEHLAKNKKDKHSKRGLDLLVSKRLRLLKYLK 46

This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic aminoacyl tRNA synthetases (aaRSs), where it occurs as a single or a repeated unit. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions in the formation of tRNA-synthetases into multienzyme complexes. While this domain lacks significant sequence similarity between the subgroups in which it is found, they share similar electrostatic surface potentials and thus are likely to bind to RNA via the same mechanism. Length = 46

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	140
PTZ00072	148	40S ribosomal protein S13; Provisional	100.0
PRK08561	151	rps15p 30S ribosomal protein S15P; Reviewed	100.0
KOG0400	151	consensus 40S ribosomal protein S13 [Translation,	100.0
PF08069	60	Ribosomal_S13_N: Ribosomal S13/S15 N-terminal doma	100.0
COG0184	89	RpsO Ribosomal protein S15P/S13E [Translation, rib	99.94
cd00353	80	Ribosomal_S15p_S13e Ribosomal protein S15 (prokary	99.58
PF00312	83	Ribosomal_S15: Ribosomal protein S15; InterPro: IP	99.55
cd00677	46	S15_NS1_EPRS_RNA-bind S15/NS1/EPRS_RNA-binding dom	99.14
TIGR00952	86	S15_bact ribosomal protein S15, bacterial/organell	97.41
CHL00027	90	rps15 ribosomal protein S15	97.26
PRK05626	89	rpsO 30S ribosomal protein S15; Reviewed	97.2
PTZ00119	302	40S ribosomal protein S15; Provisional	96.71
COG2257	92	Uncharacterized homolog of the cytoplasmic domain	95.39
PF13565	77	HTH_32: Homeodomain-like domain	92.08
TIGR00789	82	flhB_rel flhB C-terminus-related protein. This mod	87.56
PF13276	60	HTH_21: HTH-like domain	87.4
COG3328	379	Transposase and inactivated derivatives [DNA repli	85.48
PF07750	162	GcrA: GcrA cell cycle regulator; InterPro: IPR0116	83.65
PF00292	125	PAX: 'Paired box' domain; InterPro: IPR001523 The	83.09
PHA02591	83	hypothetical protein; Provisional	80.15

>PTZ00072 40S ribosomal protein S13; Provisional

Probab=100.00  E-value=6.3e-81  Score=484.68  Aligned_cols=137  Identities=84%  Similarity=1.298  Sum_probs=136.5

Q ss_pred             CCCCCCCCCCcCCCCCCCCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCCCCC
Q 032468            4 MHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPE   83 (140)
Q Consensus         4 mh~~~kG~S~S~~P~~~~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~nglap~   83 (140)
                      ||++|||+|+|++||++++|+|+++++||||++||+|||+|+||||||++|||||||||||.|||+||++||++||+||+
T Consensus         1 Mhs~gkG~S~S~~P~~r~~P~w~~~~~eeVe~~I~klaKkG~~pSqIG~iLRD~~gi~~vk~vtG~kI~rILk~~Glap~   80 (148)
T PTZ00072          1 MYGKGKGISSSALPYRRKPPSWLKLSSSEVEDQICKLAKKGLTPSQIGVILRDSMGIPQVKNVTGSKILRILKKNGLAPE   80 (148)
T ss_pred             CCCCCCCCCCCCCCCCCCCCchhcCCHHHHHHHHHHHHHCCCCHhHhhhhhhhccCccceeeccchHHHHHHHhcCCCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 032468           84 IPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK  140 (140)
Q Consensus        84 iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~~LP~~Wk  140 (140)
                      ||||||+||+|||+||||||+|+||+||||+|||||||||||+||||++++||+||+
T Consensus        81 iPeDly~LikKAv~iRkHLe~n~kD~~sK~~LiLiESkI~RL~rYYk~~~~lP~~Wk  137 (148)
T PTZ00072         81 IPEDLYFLIKKAVSIRKHLEKNRKDKDSKFRLILVESRIHRLARYYKRTKQLPPNWK  137 (148)
T ss_pred             CchHHHHHHHHHHHHHHHHHHcccchhhhHHHHHHHHHHHHHHHHHhhccCCCCCCc
Confidence            999999999999999999999999999999999999999999999999999999996

>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed

Probab=100.00  E-value=2.9e-77  Score=465.75  Aligned_cols=140  Identities=53%  Similarity=0.891  Sum_probs=139.5

Q ss_pred             CCCCCCCCCCCCCcCCCCCCCCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCC
Q 032468            1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGL   80 (140)
Q Consensus         1 M~rmh~~~kG~S~S~~P~~~~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~ngl   80 (140)
                      |||||++|||+|+|++||++++|+|+++++||||++||+|||+|+||||||++||||||||+||.|||+||++||++||+
T Consensus         1 M~rmh~~~kG~S~S~~P~~~~~P~W~~~~~eeve~~I~~lakkG~~pSqIG~~LRD~~gip~Vk~vtG~ki~~iLk~~gl   80 (151)
T PRK08561          1 MARMHTRRRGKSGSTRPARTEPPEWVDYSPEEIEELVVELAKQGYSPSMIGIILRDQYGIPDVKLITGKKITEILEENGL   80 (151)
T ss_pred             CCCcCCCCCCCCCCCCCCCCCCCccccCCHHHHHHHHHHHHHCCCCHHHhhhhHhhccCCCceeeeccchHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 032468           81 APEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK  140 (140)
Q Consensus        81 ap~iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~~LP~~Wk  140 (140)
                      +|+|||||||||+||++|++||+.|+||+||||+|+++|||+|||++||+++++||+||+
T Consensus        81 ~p~iPEDL~~L~~ri~~L~~HL~~nkKD~~skRgL~~~~skrrRLl~Yyk~~~~LP~~Wk  140 (151)
T PRK08561         81 APEIPEDLRNLIKKAVNLRKHLEENPKDLHNKRGLQLIESKIRRLVKYYKRTGVLPADWR  140 (151)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHHHHHHHhcCCCCCCCc
Confidence            999999999999999999999999999999999999999999999999999999999996

>KOG0400 consensus 40S ribosomal protein S13 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2e-77  Score=462.82  Aligned_cols=140  Identities=81%  Similarity=1.261  Sum_probs=139.6

Q ss_pred             CCCCCCCCCCCCCcCCCCCCCCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCC
Q 032468            1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGL   80 (140)
Q Consensus         1 M~rmh~~~kG~S~S~~P~~~~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~ngl   80 (140)
                      |||||++|||+|+|++||++.+|+|+++++|||.++|++|||||+||||||++|||+||||+|++|||+||++||+.||+
T Consensus         1 MgrMHs~GKGis~SAlPY~r~~PtWlK~~~ddvkeqI~K~akKGltpsqIGviLRDshGi~q~r~v~G~kI~Rilk~~Gl   80 (151)
T KOG0400|consen    1 MGRMHSPGKGISGSALPYRRSVPTWLKLTADDVKEQIYKLAKKGLTPSQIGVILRDSHGIGQVRFVTGNKILRILKSNGL   80 (151)
T ss_pred             CCcccCCCcccccCccccccCCcHHHhcCHHHHHHHHHHHHHcCCChhHceeeeecccCcchhheechhHHHHHHHHcCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 032468           81 APEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK  140 (140)
Q Consensus        81 ap~iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~~LP~~Wk  140 (140)
                      +|+||||||+||+|||++|||||+|+||+|+||||||||||||||+||||++.+||+|||
T Consensus        81 ~PeiPeDLy~likkAv~iRkHLer~RKD~d~K~RLILveSRihRlARYYk~~~~lPp~WK  140 (151)
T KOG0400|consen   81 APEIPEDLYHLIKKAVAIRKHLERNRKDKDAKFRLILVESRIHRLARYYKTKMVLPPNWK  140 (151)
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHHHhccccccceEEEeehHHHHHHHHHHHhcccCCCCCC
Confidence            999999999999999999999999999999999999999999999999999999999997

>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=9.3e-38  Score=212.22  Aligned_cols=60  Identities=75%  Similarity=1.200  Sum_probs=41.8

Q ss_pred             CCCCCCCCCCCCCcCCCCCCCCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCC
Q 032468            1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI   60 (140)
Q Consensus         1 M~rmh~~~kG~S~S~~P~~~~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GV   60 (140)
                      |||||++|||+|+|++||++++|+|+++++||||++||+|||+|+||||||++|||||||
T Consensus         1 M~RMh~~~kG~S~S~~P~~~~~P~W~~~~~~eVe~~I~klakkG~tpSqIG~iLRD~~GI   60 (60)
T PF08069_consen    1 MGRMHSRGKGISGSTRPYRRSPPSWLKYSPEEVEELIVKLAKKGLTPSQIGVILRDQYGI   60 (60)
T ss_dssp             ---TTSSS---------S-SS--TT--S-HHHHHHHHHHHCCTTHCHHHHHHHHHHSCTC
T ss_pred             CCCccCCCCCccCCCCCCCCCCCCCcCCCHHHHHHHHHHHHHcCCCHHHhhhhhhhccCC
Confidence            999999999999999999999999999999999999999999999999999999999998

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.

>COG0184 RpsO Ribosomal protein S15P/S13E [Translation, ribosomal structure and biogenesis]

Probab=99.94  E-value=5.8e-27  Score=169.52  Aligned_cols=81  Identities=31%  Similarity=0.445  Sum_probs=78.7

Q ss_pred             CCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCCCCCChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHH
Q 032468           44 GLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIH  123 (140)
Q Consensus        44 G~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~nglap~iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~  123 (140)
                      |+.|||||..|||+||+|.+...+|                |||+.+|+++|++|++|++.|+||.||||+|++++||++
T Consensus         1 m~~~~~~k~~l~~eyg~~~~dtgs~----------------evq~a~Lt~ri~~L~~Hlk~hkKD~~srRGL~~~vskrr   64 (89)
T COG0184           1 MSLTSEIKQELRDEYGIPEVDTGSG----------------EVQLALLTERINNLTEHLKEHKKDHHSRRGLLLLVSKRR   64 (89)
T ss_pred             CCchHHHHHHHHHHhCCCCCCCCCc----------------HHHHHHHHHHHHHHHHHHHHCCcchhHHHHHHHHHHHHH
Confidence            6789999999999999999999888                999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCCCCCCC
Q 032468          124 RLARYYKKTKKLPPVWK  140 (140)
Q Consensus       124 RL~rYYk~~~~LP~~Wk  140 (140)
                      ||++|||+++++|.+|.
T Consensus        65 rLl~Ylk~~~~~~y~~l   81 (89)
T COG0184          65 RLLKYLKRKDVLRYRWL   81 (89)
T ss_pred             HHHHHHHhcCcchHHHH
Confidence            99999999999999883

>cd00353 Ribosomal_S15p_S13e Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome

Probab=99.58  E-value=2.9e-15  Score=105.28  Aligned_cols=69  Identities=39%  Similarity=0.568  Sum_probs=65.6

Q ss_pred             HHHHHHHcCCC----CCChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcCCCCCCC
Q 032468           71 ILRILKAHGLA----PEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVW  139 (140)
Q Consensus        71 i~~ILk~ngla----p~iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~~LP~~W  139 (140)
                      +.+|+++.|..    +.+|+++..|..++.+|++||+.|+||++|+++|+.++||.+||.+||++++..|-+|
T Consensus         2 ~~~i~~~~~~~~~DtGs~evQia~LT~rI~~L~~Hl~~~~KD~~~krgL~~lv~kRrrLL~YLk~~~~~~y~~   74 (80)
T cd00353           2 KQEILKEFGLAEGDTGSPEVQLALLTERIVNLTEHLEKNKKDKHSKRGLLLLVSKRRRLLKYLKRKDRLRYEW   74 (80)
T ss_pred             HHHHHHHhCCCCCCCCChHHHHHHHHHHHHHHHHHHHHccccchHHHhHHHHHHHHHHHHHHHHHcCchhHHH
Confidence            56889999988    8999999999999999999999999999999999999999999999999999888766

S15 also plays an important autoregulatory role by binding and preventing its own mRNA from being translated. S15 has a predominantly alpha-helical fold that is highly structured except for the N-terminal alpha helix.

>PF00312 Ribosomal_S15: Ribosomal protein S15; InterPro: IPR000589 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.55  E-value=6.3e-15  Score=104.06  Aligned_cols=68  Identities=22%  Similarity=0.327  Sum_probs=65.7

Q ss_pred             ecchhHHHHHHHcCCCCCChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           66 VTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        66 vtG~ki~~ILk~nglap~iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      ++++.|.++++++|-.+.+|+++..|..++.+|++|++.|+||++|+++|..++||.+||.+||+++.
T Consensus         2 ~k~~~i~~~~~~~~dtgs~evqia~LT~rI~~L~~Hl~~~kkD~~skr~L~~lv~kRrrlL~YLrr~~   69 (83)
T PF00312_consen    2 RKQKSIKKFQRHPNDTGSPEVQIAILTERIRNLQEHLKKNKKDKHSKRGLLKLVSKRRRLLKYLRRKD   69 (83)
T ss_dssp             HHHHHHHHHSSSTTSSSSHHHHHHHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHhccccccceehhHHHHHHHHHHHHHHhCC
Confidence            46889999999999999999999999999999999999999999999999999999999999999875

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S15 is one of the proteins from the small ribosomal subunit. In Escherichia coli, this protein binds to 16S ribosomal RNA and functions at early steps in ribosome assembly. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ,], groups bacterial and plant chloroplast S15; archaeal Haloarcula marismortui HmaS15 (HS11); yeast mitochondrial S28; and mammalian, yeast, Brugia pahangi and Wuchereria bancrofti S13. S15 is a protein of 80 to 250 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1YSH_E 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 1S1H_O 3MR8_O 3D5C_O 3MS0_O ....

>cd00677 S15_NS1_EPRS_RNA-bind S15/NS1/EPRS_RNA-binding domain

Probab=99.14  E-value=9.2e-11  Score=74.31  Aligned_cols=46  Identities=35%  Similarity=0.478  Sum_probs=44.5

Q ss_pred             hhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHH
Q 032468           85 PEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYK  130 (140)
Q Consensus        85 PEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk  130 (140)
                      |+++..|..++.++..|++.|+||++++++|..++++++||.+||+
T Consensus         1 ~vqia~lt~~i~~L~~hl~~~~kD~~~kr~L~~~v~kr~rLl~ylk   46 (46)
T cd00677           1 EVQIALLTERIRNLKEHLAKNKKDKHSKRGLDLLVSKRLRLLKYLK   46 (46)
T ss_pred             CHHHHHHHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHHHHHhC
Confidence            6789999999999999999999999999999999999999999996

This short domain consists of a helix-turn-helix structure, which can bind to several types of RNA. It is found in the ribosomal protein S15, the influenza A viral nonstructural protein (NSA) and in several eukaryotic aminoacyl tRNA synthetases (aaRSs), where it occurs as a single or a repeated unit. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions in the formation of tRNA-synthetases into multienzyme complexes. While this domain lacks significant sequence similarity between the subgroups in which it is found, they share similar electrostatic surface potentials and thus are likely to bind to RNA via the same mechanism.

>TIGR00952 S15_bact ribosomal protein S15, bacterial/organelle

Probab=97.41  E-value=0.00041  Score=50.07  Aligned_cols=47  Identities=30%  Similarity=0.490  Sum_probs=41.9

Q ss_pred             hHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           87 DLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        87 DL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      -...|=.+-.+|..|++.|+||++|+++|...-++=+||.+|-+++.
T Consensus        25 QiA~LT~rI~~L~~Hl~~h~KD~~srrgL~~lv~kRkrlL~YL~~~d   71 (86)
T TIGR00952        25 QIALLTERINQLTEHLKANKKDHHSRRGLLKLVGRRRRLLKYLKRTD   71 (86)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            34566678889999999999999999999999999999999998864

This model is built to recognize specifically bacterial, chloroplast, and mitochondrial ribosomal protein S15. The homologous proteins of Archaea and Eukarya are designated S13.

>CHL00027 rps15 ribosomal protein S15

Probab=97.26  E-value=0.00082  Score=49.18  Aligned_cols=48  Identities=25%  Similarity=0.349  Sum_probs=42.4

Q ss_pred             hhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           86 EDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        86 EDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      --..-|=.+-..+..||+.|+||.+++++|.-.-++=+||.+|.+++.
T Consensus        24 vQiA~LT~rI~~Lt~Hlk~hkKD~~s~RgL~~lv~kRkrLL~YL~r~d   71 (90)
T CHL00027         24 FQVFSFTNKIRRLTSHLELHKKDYSSQRGLRKILGKRQRLLAYLSKKN   71 (90)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCcchhHHHHHHHHHHHHHHHHHHHhCC
Confidence            345566678889999999999999999999999999999999998864

>PRK05626 rpsO 30S ribosomal protein S15; Reviewed

Probab=97.20  E-value=0.00095  Score=48.47  Aligned_cols=46  Identities=24%  Similarity=0.397  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           88 LYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        88 L~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      ..-|=.+-.+|..|++.|+||++++++|...=++=+||-+|-+++.
T Consensus        29 iA~LT~rI~~L~~Hlk~~~KD~~srrgL~~lv~kRkrlL~YL~~~d   74 (89)
T PRK05626         29 VALLTERINHLTEHLKEHKKDHHSRRGLLKMVGQRRKLLDYLKKKD   74 (89)
T ss_pred             HHHHHHHHHHHHHHHHHcccchhhHHHHHHHHHhHHHHHHHHHhcC
Confidence            3455668889999999999999999999999999999999998864

>PTZ00119 40S ribosomal protein S15; Provisional

Probab=96.71  E-value=0.0028  Score=54.89  Aligned_cols=64  Identities=28%  Similarity=0.354  Sum_probs=50.4

Q ss_pred             hHHHHHHHcCCCC----CChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           70 KILRILKAHGLAP----EIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        70 ki~~ILk~nglap----~iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      +..+|.++-+..+    ...--..-|=.+-.+|..||+.|+||.+|+++|...-++=+||.+|.+++.
T Consensus       109 rK~eIIkkfqr~~~DTGS~EVQIAiLTeRI~~LTeHLk~hkKD~~SrRGLlkLV~KRRKLLkYLKrkD  176 (302)
T PTZ00119        109 KKLCIRRCLQRRPFDTGSAPVQIGCLTEKILNLRAHLILRCKDHPKKRTMSILLARRQKLMKYLYKTD  176 (302)
T ss_pred             HHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhCCCccHhHHHHHHHHHHHHHHHHHHHhcC
Confidence            3345555555433    233345667788899999999999999999999999999999999999864

>COG2257 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]

Probab=95.39  E-value=0.12  Score=38.30  Aligned_cols=70  Identities=23%  Similarity=0.424  Sum_probs=60.9

Q ss_pred             CCCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCCCCCChhhHHHHHHHHHHHH
Q 032468           20 RTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIR   99 (140)
Q Consensus        20 ~~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~nglap~iPEDL~~LikKAv~~R   99 (140)
                      ..+|.=+-.-.-+|-+.|++.||+              ||||.+..   ..+.+.|-.-.+..+|||.||.-|-.-...-
T Consensus        20 ~~AP~vvA~G~G~iAe~II~~Ake--------------~~Vpi~ed---p~Lv~~L~~lelg~~IPeelY~vVAEifafi   82 (92)
T COG2257          20 DKAPKVVASGKGEIAEKIIEKAKE--------------HGVPIQED---PLLVELLLKLELGDEIPEELYEVVAEIFAFI   82 (92)
T ss_pred             CCCCEEEeecchHHHHHHHHHHHH--------------cCCCcccC---HHHHHHHHhccccccCCHHHHHHHHHHHHHH
Confidence            468888888899999999999985              89998775   5599999999999999999999998888888


Q ss_pred             HHHhHcC
Q 032468          100 KHLERNR  106 (140)
Q Consensus       100 kHLe~n~  106 (140)
                      .+++.|-
T Consensus        83 ~~~~~~~   89 (92)
T COG2257          83 YEVDNNV   89 (92)
T ss_pred             HHHHccC
Confidence            8887663

>PF13565 HTH_32: Homeodomain-like domain

Probab=92.08  E-value=0.33  Score=31.99  Aligned_cols=44  Identities=27%  Similarity=0.468  Sum_probs=34.3

Q ss_pred             hHHHHHHHHHHHhcC--CCcchhhhHhhhccCCCceeeecchhHHHHH
Q 032468           30 SQDVEDNICKFAKKG--LTPSQIGVILRDSHGIAQVKSVTGSKILRIL   75 (140)
Q Consensus        30 ~eeve~~IvklakkG--~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~IL   75 (140)
                      ++|+++.|+++....  .|+.+|-..|.++|||..  .+.-..|-++|
T Consensus        32 ~~e~~~~i~~~~~~~p~wt~~~i~~~L~~~~g~~~--~~S~~tv~R~L   77 (77)
T PF13565_consen   32 DPEQRERIIALIEEHPRWTPREIAEYLEEEFGISV--RVSRSTVYRIL   77 (77)
T ss_pred             cHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhCCCC--CccHhHHHHhC
Confidence            677878899987765  899999999999999865  44445555554

>TIGR00789 flhB_rel flhB C-terminus-related protein

Probab=87.56  E-value=2.1  Score=30.46  Aligned_cols=60  Identities=30%  Similarity=0.532  Sum_probs=46.5

Q ss_pred             CCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCCCCCChhhHHHHHHHHHH
Q 032468           21 TPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVA   97 (140)
Q Consensus        21 ~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~nglap~iPEDL~~LikKAv~   97 (140)
                      .+|-=+-.-.+++-+.|.++|+              ++|||.+..   ..+.+.|-.-++..+||||||.-+-....
T Consensus        16 ~aP~VvAKG~g~~A~~I~~~A~--------------e~~VPi~~~---~~LAr~L~~~~ig~~IP~~ly~aVAeil~   75 (82)
T TIGR00789        16 KAPKVVASGVGEVAERIIEIAK--------------KHGIPIVED---PDLVDVLLKLDLDDEIPEELYEVVAEIFA   75 (82)
T ss_pred             CCCEEEEEeCCHHHHHHHHHHH--------------HcCCCEEeC---HHHHHHHHhCCCCCccCHHHHHHHHHHHH
Confidence            4555555567788888888887              479999887   45888888889999999999977755443

This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.

>PF13276 HTH_21: HTH-like domain

Probab=87.40  E-value=1.6  Score=28.05  Aligned_cols=51  Identities=22%  Similarity=0.311  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHhc---CCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCCCCCCh
Q 032468           31 QDVEDNICKFAKK---GLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIP   85 (140)
Q Consensus        31 eeve~~Ivklakk---G~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~nglap~iP   85 (140)
                      +++.+.|.++...   -+-.-.|-..|++++|+    .|.-++|.++++++||...++
T Consensus         4 ~~l~~~I~~i~~~~~~~yG~rri~~~L~~~~~~----~v~~krV~RlM~~~gL~~~~r   57 (60)
T PF13276_consen    4 EALRELIKEIFKESKPTYGYRRIWAELRREGGI----RVSRKRVRRLMREMGLRSKRR   57 (60)
T ss_pred             HHHHHHHHHHHHHcCCCeehhHHHHHHhccCcc----cccHHHHHHHHHHcCCcccCC
Confidence            5566667766653   34556888999999987    477888999999999987653

>COG3328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]

Probab=85.48  E-value=0.92  Score=40.33  Aligned_cols=48  Identities=17%  Similarity=0.203  Sum_probs=43.5

Q ss_pred             CCCCCcCCCCCCCCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCC
Q 032468            9 KGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI   60 (140)
Q Consensus         9 kG~S~S~~P~~~~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GV   60 (140)
                      |+..+|-.|    .++|.+.....+++.|..|..+|+|+.+|...++..|+.
T Consensus        69 r~r~g~f~p----l~~~~~r~~~~~~~~v~~~y~~gv~Tr~i~~~~~~~~~~  116 (379)
T COG3328          69 RDRKGSFEP----LIERYQRRERALDLPVLSMYAKGVTTREIEALLEELYGH  116 (379)
T ss_pred             cccccCccc----cchhhHhhhhhHHHHHHHHHHcCCcHHHHHHHHHHhhCc
Confidence            566777555    689999999999999999999999999999999999988

>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator

Probab=83.65  E-value=0.98  Score=35.56  Aligned_cols=25  Identities=28%  Similarity=0.356  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHHhcCCCcchhhhHhh
Q 032468           31 QDVEDNICKFAKKGLTPSQIGVILR   55 (140)
Q Consensus        31 eeve~~IvklakkG~~pSqIG~~LR   55 (140)
                      ||-.+.+.+|+++|+|-|||+..|=
T Consensus         5 de~~~~L~~lw~~G~SasqIA~~lg   29 (162)
T PF07750_consen    5 DERVERLRKLWAEGLSASQIARQLG   29 (162)
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHhC
Confidence            4555689999999999999998874

These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].

>PF00292 PAX: 'Paired box' domain; InterPro: IPR001523 The paired box is a conserved 124 amino acid N-terminal domain of unknown function that usually, but not always, precedes a homeobox domain (see IPR001356 from INTERPRO) [, ]

Probab=83.09  E-value=0.73  Score=35.50  Aligned_cols=30  Identities=37%  Similarity=0.657  Sum_probs=23.4

Q ss_pred             hHHHHHHHHHHHhcCCCcchhhhHhhhccC
Q 032468           30 SQDVEDNICKFAKKGLTPSQIGVILRDSHG   59 (140)
Q Consensus        30 ~eeve~~IvklakkG~~pSqIG~~LRD~~G   59 (140)
                      ++|+-+.|++||+.|+.|++|-..|+=+||
T Consensus        19 p~~~R~rIvela~~G~rp~~Isr~l~Vs~g   48 (125)
T PF00292_consen   19 PNELRQRIVELAKEGVRPCDISRQLRVSHG   48 (125)
T ss_dssp             -HHHHHHHHHHHHTT--HHHHHHHHT--HH
T ss_pred             cHHHHHHHHHHhhhcCCHHHHHHHHccchh
Confidence            688999999999999999999999988775

Paired box genes are expressed in alternate segments of the developing fruit fly, the observed grouping of segments into pairs depending on the position of the segment in the segmental array, and not on the identity of the segment as in the case of homeotic genes. This implies that the genes affect different processes from those altered by homeotic genes.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 6PAX_A 1K78_E 1MDM_A 2K27_A 1PDN_C.

>PHA02591 hypothetical protein; Provisional

Probab=80.15  E-value=1.5  Score=31.94  Aligned_cols=28  Identities=29%  Similarity=0.381  Sum_probs=25.1

Q ss_pred             cCChHHHHHHHHHHHhcCCCcchhhhHh
Q 032468           27 KISSQDVEDNICKFAKKGLTPSQIGVIL   54 (140)
Q Consensus        27 ~~~~eeve~~IvklakkG~~pSqIG~~L   54 (140)
                      --+.|++....-+|++.|+|.+||...|
T Consensus        42 i~~~dd~~~vA~eL~eqGlSqeqIA~~L   69 (83)
T PHA02591         42 VESEDDLISVTHELARKGFTVEKIASLL   69 (83)
T ss_pred             EeccchHHHHHHHHHHcCCCHHHHHHHh
Confidence            3478899999999999999999999877

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	140
3iz6_O	151	Localization Of The Small Subunit Ribosomal Protein		5e-66
3izb_O	151	Localization Of The Small Subunit Ribosomal Protein		5e-59
3zey_G	151	High-resolution Cryo-electron Microscopy Structure		3e-57
2xzm_O	153	Crystal Structure Of The Eukaryotic 40s Ribosomal S		2e-52
1ysh_E	84	Localization And Dynamic Behavior Of Ribosomal Prot		2e-36
3jyv_O	84	Structure Of The 40s Rrna And Proteins And PE TRNA		8e-31
3j20_Q	158	Promiscuous Behavior Of Proteins In Archaeal Riboso		3e-30
1s1h_O	65	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		2e-27

>pdb|3IZ6|O Chain O, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 151

Iteration: 1
 Score =  245 bits (626), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 120/140 (85%), Positives = 128/140 (91%)
Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHSRGKGIS+SA+PYKRTPPSW+K ++ DVE+ I K AKKG  PSQIGV+LRD HGI
Sbjct: 1   MGRMHSRGKGISSSAIPYKRTPPSWVKTAAADVEEMIMKAAKKGQMPSQIGVVLRDQHGI 60
Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
             VKSVTGSKILRILKAHGLAPEIPEDLY LIKKAVAIRKHLERNRKDKDSKFRLILVES
Sbjct: 61  PLVKSVTGSKILRILKAHGLAPEIPEDLYFLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYYK+TKKLPP WK
Sbjct: 121 RIHRLARYYKRTKKLPPTWK 140

>pdb|3IZB|O Chain O, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 151

Iteration: 1
 Score =  222 bits (566), Expect = 5e-59,   Method: Compositional matrix adjust.
 Identities = 100/140 (71%), Positives = 123/140 (87%)
Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHS GKGIS+SA+PY R  P+W K+SS+ V + I K+A+KGLTPSQIGV+LRD+HG+
Sbjct: 1   MGRMHSAGKGISSSAIPYSRNAPAWFKLSSESVIEQIVKYARKGLTPSQIGVLLRDAHGV 60
Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
            Q + +TG+KI+RILK++GLAPEIPEDLY+LIKKAV++RKHLERNRKDKD+KFRLIL+ES
Sbjct: 61  TQARVITGNKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKHLERNRKDKDAKFRLILIES 120
Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYY+    LPP WK
Sbjct: 121 RIHRLARYYRTVAVLPPNWK 140

>pdb|3ZEY|G Chain G, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 151

Iteration: 1
 Score =  216 bits (551), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 104/140 (74%), Positives = 120/140 (85%)
Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           M RMH  G G +ASALPY+RTPP+WLK SS+DV D +CK AKKGL+PS+IG+ LRDS GI
Sbjct: 1   MVRMHGNGHGKAASALPYRRTPPTWLKSSSRDVIDAVCKLAKKGLSPSRIGMQLRDSMGI 60
Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
           AQVK+VTG KILRILK  G+APEIPEDLY LIK+A  +RKHLERN KDKD+KFRLILVES
Sbjct: 61  AQVKNVTGRKILRILKHKGMAPEIPEDLYCLIKRATQMRKHLERNTKDKDTKFRLILVES 120
Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYY++ K+LPP WK
Sbjct: 121 RIHRLARYYRRVKQLPPTWK 140

>pdb|2XZM|O Chain O, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit In Complex With Initiation Factor 1. This File Contains The 40s Subunit And Initiation Factor For Molecule 1 Length = 153

Iteration: 1
 Score =  200 bits (509), Expect = 2e-52,   Method: Compositional matrix adjust.
 Identities = 100/142 (70%), Positives = 115/142 (80%), Gaps = 2/142 (1%)
Query: 1   MGRMH--SRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSH 58
           MGRM    +GKGIS SALP+KR  P WL ++   V D   K AKKGLTPSQIGVILRD H
Sbjct: 1   MGRMQMKGKGKGISGSALPFKRRSPKWLHMTPSTVVDLSVKLAKKGLTPSQIGVILRDQH 60
Query: 59  GIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILV 118
           GI QV+ +TG KILRILK +G AP++PEDLY LIKKA++IRKHLE+NRKDKDSK+RLILV
Sbjct: 61  GIPQVRFLTGQKILRILKKNGCAPQLPEDLYFLIKKALSIRKHLEKNRKDKDSKYRLILV 120
Query: 119 ESRIHRLARYYKKTKKLPPVWK 140
           ESRIHRL+RYYK  +KLPP WK
Sbjct: 121 ESRIHRLSRYYKLNQKLPPKWK 142

>pdb|1YSH|E Chain E, Localization And Dynamic Behavior Of Ribosomal Protein L30e Length = 84

Iteration: 1
 Score =  147 bits (371), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 73/76 (96%), Positives = 74/76 (97%)
Query: 65  SVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHR 124
           SVTGSKILRILKAHGLAPEIPEDLY LIKKAVAIRKHLERNRKDKDSKFRLILVESRIHR
Sbjct: 1   SVTGSKILRILKAHGLAPEIPEDLYFLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHR 60
Query: 125 LARYYKKTKKLPPVWK 140
           LARYYK+TKKLPP WK
Sbjct: 61  LARYYKRTKKLPPTWK 76

>pdb|3JYV|O Chain O, Structure Of The 40s Rrna And Proteins And PE TRNA FOR EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 84

Iteration: 1
 Score =  129 bits (323), Expect = 8e-31,   Method: Compositional matrix adjust.
 Identities = 59/75 (78%), Positives = 70/75 (93%)
Query: 66  VTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRL 125
           +TG+KI+RILK++GLAPEIPEDLY+LIKKAV++RKHLERNRKDKD+KFRLIL+ESRIHRL
Sbjct: 1   ITGNKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKHLERNRKDKDAKFRLILIESRIHRL 60
Query: 126 ARYYKKTKKLPPVWK 140
           ARYY+    LPP WK
Sbjct: 61  ARYYRTVAVLPPNWK 75

>pdb|3J20|Q Chain Q, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (30s Ribosomal Subunit) Length = 158

Iteration: 1
 Score =  126 bits (317), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 67/147 (45%), Positives = 93/147 (63%), Gaps = 7/147 (4%)
Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           M RMH+R +G S S  P +  PP W++ + +++E+ + K  K+G + + IG ILRD +GI
Sbjct: 1   MARMHARKRGKSGSKRPPRTAPPIWVEYTVEEIENLVVKLRKEGYSTAMIGTILRDQYGI 60
Query: 61  AQVKSVTGSK-------ILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKF 113
             VK             I RIL+ HGLAPEIPEDL  LI++AV +RKHLE++ KD  S  
Sbjct: 61  PSVKLFKDPDNPNRNLTITRILEKHGLAPEIPEDLMFLIRRAVNLRKHLEQHPKDLHSMR 120
Query: 114 RLILVESRIHRLARYYKKTKKLPPVWK 140
            L L+ES+I RL +YYK+  KLP  W+
Sbjct: 121 GLQLIESKIRRLVKYYKRKGKLPKNWR 147

>pdb|1S1H|O Chain O, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is In File 1s1i Length = 65

Iteration: 1
 Score =  117 bits (294), Expect = 2e-27,   Method: Compositional matrix adjust.
 Identities = 54/65 (83%), Positives = 65/65 (100%)
Query: 66  VTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRL 125
           +TG+KI+RILK++GLAPEIPEDLY+LIKKAV++RKHLERNRKDKD+KFRLIL+ESRIHRL
Sbjct: 1   ITGNKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKHLERNRKDKDAKFRLILIESRIHRL 60
Query: 126 ARYYK 130
           ARYY+
Sbjct: 61  ARYYR 65

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	140
3u5c_N	151	S27A, YS15, 40S ribosomal protein S13; translation	7e-78
2xzm_O	153	RPS13E; ribosome, translation; 3.93A {Tetrahymena	4e-76
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05

>3u5c_N S27A, YS15, 40S ribosomal protein S13; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_O 3o30_G 3o2z_G 3u5g_N 3iz6_O 3jyv_O* 1ysh_E 1s1h_O Length = 151

 Score =  226 bits (577), Expect = 7e-78
 Identities = 100/140 (71%), Positives = 123/140 (87%)

Query: 1   MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGI 60
           MGRMHS GKGIS+SA+PY R  P+W K+SS+ V + I K+A+KGLTPSQIGV+LRD+HG+
Sbjct: 1   MGRMHSAGKGISSSAIPYSRNAPAWFKLSSESVIEQIVKYARKGLTPSQIGVLLRDAHGV 60

Query: 61  AQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVES 120
            Q + +TG+KI+RILK++GLAPEIPEDLY+LIKKAV++RKHLERNRKDKD+KFRLIL+ES
Sbjct: 61  TQARVITGNKIMRILKSNGLAPEIPEDLYYLIKKAVSVRKHLERNRKDKDAKFRLILIES 120

Query: 121 RIHRLARYYKKTKKLPPVWK 140
           RIHRLARYY+    LPP WK
Sbjct: 121 RIHRLARYYRTVAVLPPNWK 140

>2xzm_O RPS13E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_O 1ysh_E 3jyv_O* 1s1h_O Length = 153

 Score =  222 bits (566), Expect = 4e-76
 Identities = 100/142 (70%), Positives = 115/142 (80%), Gaps = 2/142 (1%)

Query: 1   MGRMH--SRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSH 58
           MGRM    +GKGIS SALP+KR  P WL ++   V D   K AKKGLTPSQIGVILRD H
Sbjct: 1   MGRMQMKGKGKGISGSALPFKRRSPKWLHMTPSTVVDLSVKLAKKGLTPSQIGVILRDQH 60

Query: 59  GIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILV 118
           GI QV+ +TG KILRILK +G AP++PEDLY LIKKA++IRKHLE+NRKDKDSK+RLILV
Sbjct: 61  GIPQVRFLTGQKILRILKKNGCAPQLPEDLYFLIKKALSIRKHLEKNRKDKDSKYRLILV 120

Query: 119 ESRIHRLARYYKKTKKLPPVWK 140
           ESRIHRL+RYYK  +KLPP WK
Sbjct: 121 ESRIHRLSRYYKLNQKLPPKWK 142

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 42.1 bits (98), Expect = 2e-05
 Identities = 20/121 (16%), Positives = 34/121 (28%), Gaps = 39/121 (32%)

Query: 25  WLKISSQDVEDNICKFAKKGLTPSQIGVILRDS-------HGIAQVKSVTGS-------- 69
           W  +   DV   + K  K  L       + +           I     V           
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSL-------VEKQPKESTISIPSIYLELKVKLENEYALHRS 448

Query: 70  -----KILRILKAHGLAPEIPEDLY---HLIKKAVAIRKHLER-NRKDKDSKFRLILVES 120
                 I +   +  L P    D Y   H       I  HL+     ++ + FR++ ++ 
Sbjct: 449 IVDHYNIPKTFDSDDLIPP-YLDQYFYSH-------IGHHLKNIEHPERMTLFRMVFLDF 500

Query: 121 R 121
           R
Sbjct: 501 R 501

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	140
3u5c_N	151	S27A, YS15, 40S ribosomal protein S13; translation	100.0
2xzm_O	153	RPS13E; ribosome, translation; 3.93A {Tetrahymena	100.0
3j20_Q	158	30S ribosomal protein S15P/S13E; archaea, archaeal	100.0
4a5u_B	88	30S ribosomal protein S15; transferase-RNA binding	98.19
3ulw_A	93	30S ribosomal protein S15; structural genomics, ID	98.18
1a32_A	88	Ribosomal protein S15; multiwavelength anomalous d	97.91
2vqe_O	89	30S ribosomal protein S15; tRNA-binding, rRNA-bind	97.81
3r8n_O	88	30S ribosomal protein S15; protein biosynthesis, R	97.68
3bbn_O	90	Ribosomal protein S15; small ribosomal subunit, sp	97.43
1ynp_A	317	Oxidoreductase, AKR11C1; aldo-keto reductase, NADP	82.64
1jko_C	52	HIN recombinase, DNA-invertase HIN; water-mediated	81.04
3m66_A	270	Mterf3, mterf domain-containing protein 1, mitocho	80.88

>3u5c_N S27A, YS15, 40S ribosomal protein S13; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_O 3o30_G 3o2z_G 3u5g_N 3iz6_O 3jyv_O* 1ysh_E 1s1h_O

Probab=100.00  E-value=5e-85  Score=508.12  Aligned_cols=140  Identities=71%  Similarity=1.207  Sum_probs=138.6

Q ss_pred             CCCCCCCCCCCCCcCCCCCCCCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCC
Q 032468            1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGL   80 (140)
Q Consensus         1 M~rmh~~~kG~S~S~~P~~~~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~ngl   80 (140)
                      |||||++|||+|+|++||++++|+|+++|+||||++||+|||+|+||||||++||||||||+||+|||+||++||++||+
T Consensus         1 M~Rmh~~~kG~S~S~~P~~~~~P~W~~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~GIp~Vk~vtG~kI~rILk~~gl   80 (151)
T 3u5c_N            1 MGRMHSAGKGISSSAIPYSRNAPAWFKLSSESVIEQIVKYARKGLTPSQIGVLLRDAHGVTQARVITGNKIMRILKSNGL   80 (151)
T ss_dssp             -CCTTSSCCCCCCCCCCSCCSCCSSCCSCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCSCHHHHSSSCHHHHHHHTTC
T ss_pred             CCCcCCCCCCCCCCCCCCCCCCCCCcCCCHHHHHHHHHHHHHCCCCHHHhhhHHhccCCCCCeeeecccHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 032468           81 APEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK  140 (140)
Q Consensus        81 ap~iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~~LP~~Wk  140 (140)
                      +|+|||||||||+|||+||||||+|+||+||||+|||||||||||++|||++++||+||+
T Consensus        81 apeiPEDL~~LikKAv~lrkHLe~n~kD~~sK~~L~liESkI~RL~rYYk~~~~LP~~Wk  140 (151)
T 3u5c_N           81 APEIPEDLYYLIKKAVSVRKHLERNRKDKDAKFRLILIESRIHRLARYYRTVAVLPPNWK  140 (151)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTSSCTTCC
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHhcCcCCCCCc
Confidence            999999999999999999999999999999999999999999999999999999999996

>2xzm_O RPS13E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_O 1ysh_E 3jyv_O* 1s1h_O

Probab=100.00  E-value=5.2e-85  Score=508.79  Aligned_cols=140  Identities=71%  Similarity=1.151  Sum_probs=136.6

Q ss_pred             CCCCC--CCCCCCCCcCCCCCCCCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeecchhHHHHHHHc
Q 032468            1 MGRMH--SRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAH   78 (140)
Q Consensus         1 M~rmh--~~~kG~S~S~~P~~~~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~n   78 (140)
                      |||||  ++|||+|+|++||++++|+|+++++||||++||+|||+|+||||||++||||||||+||+|||+||++|||+|
T Consensus         1 M~rmh~~~~~kG~S~S~~P~~~~~P~W~~~~~eeVe~~I~klakkG~tpSqIG~iLRD~~GIp~Vk~vtG~kI~rILk~~   80 (153)
T 2xzm_O            1 MGRMQMKGKGKGISGSALPFKRRSPKWLHMTPSTVVDLSVKLAKKGLTPSQIGVILRDQHGIPQVRFLTGQKILRILKKN   80 (153)
T ss_dssp             ---CCSCSSCCCCCCCCCCSCCSCCSSCCCCHHHHHHHHHHHHHTTCCHHHHHHHHHHSSCCSCHHHHHSSCHHHHHHHT
T ss_pred             CCCCCcCCCCCCccCCCCCCCCCCCccccCCHHHHHHHHHHHHHCCCCHHHhhhHHhhcCCCCCeeeeccchHHHHHHHc
Confidence            99999  9999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 032468           79 GLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK  140 (140)
Q Consensus        79 glap~iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~~LP~~Wk  140 (140)
                      |++|+|||||||||+|||+||||||+|+||+||||+|||||||||||+||||++++||+||+
T Consensus        81 glapeiPEDL~~LikKAv~lRkHLe~n~kD~~sK~~L~LiESkI~RL~rYYk~~~~LP~~Wk  142 (153)
T 2xzm_O           81 GCAPQLPEDLYFLIKKALSIRKHLEKNRKDKDSKYRLILVESRIHRLSRYYKLNQKLPPKWK  142 (153)
T ss_dssp             TCCCSSCHHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHHHHHTTSSCTTCC
T ss_pred             CCCCCCcHHHHHHHHHHHHHHHHHHHcccchhhHHHHHHHHHHHHHHHHHHHhcCcCCCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999996

>3j20_Q 30S ribosomal protein S15P/S13E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=1.6e-71  Score=434.87  Aligned_cols=140  Identities=48%  Similarity=0.819  Sum_probs=139.5

Q ss_pred             CCCCCCCCCCCCCcCCCCCCCCCCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeec-------chhHHH
Q 032468            1 MGRMHSRGKGISASALPYKRTPPSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVT-------GSKILR   73 (140)
Q Consensus         1 M~rmh~~~kG~S~S~~P~~~~~P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vt-------G~ki~~   73 (140)
                      |||||++|||+|+|++||++++|+|+++++||||++||+|||+|+||||||++||||||||+||+||       |+||++
T Consensus         1 M~rmh~~~kG~S~S~~P~~~~~P~W~~~~~eev~~~i~klakkG~~pSqIG~~LRD~~gip~Vk~vt~~~~~~~G~ki~~   80 (158)
T 3j20_Q            1 MARMHARKRGKSGSKRPPRTAPPIWVEYTVEEIENLVVKLRKEGYSTAMIGTILRDQYGIPSVKLFKDPDNPNRNLTITR   80 (158)
T ss_dssp             CCCCSSSSSCCCCCCCCCCSSCCSSSCCCHHHHHHHHHHHHHHTCCHHHHHHHHHHTTCCSCHHHHHCSSSTTSCCCTHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCcCCCHHHHHHHHHHHHHCCCCHHHhhHHHhccCCCCCeeeccccccccCcCcHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999       999999


Q ss_pred             HHHHcCCCCCChhhHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcCCCCCCCC
Q 032468           74 ILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWK  140 (140)
Q Consensus        74 ILk~nglap~iPEDL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~~LP~~Wk  140 (140)
                      ||++||++|+|||||++|++||++|++||+.|+||+||+|+|++++||++||.+||+++.+||+||+
T Consensus        81 iLk~~gl~p~iPEDL~~Lt~RI~~Lt~HLk~hkKD~hSrRgL~~lv~kRrrLL~YLk~kd~lp~~w~  147 (158)
T 3j20_Q           81 ILEKHGLAPEIPEDLMFLIRRAVNLRKHLEQHPKDLHSMRGLQLIESKIRRLVKYYKRKGKLPKNWR  147 (158)
T ss_dssp             HHHHHTCSCSSCHHHHHHHHHHHHHHHHHHHCCCCSHHHHHHHHHHHHHHHHHHHHHHHTSSCTTCC
T ss_pred             HHHHcCCCCCCHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHhcCCCCCCce
Confidence            9999999999999999999999999999999999999999999999999999999999999999996

>4a5u_B 30S ribosomal protein S15; transferase-RNA binding protein complex, cysteine proteinase; 2.00A {Escherichia coli} PDB: 1p6g_O 1p87_O 2ykr_O* 3j18_O 3oar_O 3oaq_O 3ofb_O 3ofa_O 3ofp_O 3ofx_O 3ofy_O 3ofo_O 3r8o_O 3r8n_O 4gd1_O 4gd2_O 3i1m_O 2qan_O* 2qb9_O* 2qbb_O* ...

Probab=98.19  E-value=1.3e-06  Score=62.32  Aligned_cols=46  Identities=22%  Similarity=0.358  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           88 LYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        88 L~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      ...|=.+..++..|++.|+||.+|+++|..+.++-+||.+|++++.
T Consensus        28 iA~LT~rI~~L~~Hlk~hkKD~~srRgL~~lv~kRrrLL~YLk~~d   73 (88)
T 4a5u_B           28 VALLTAQINHLQGHFAEHKKDHHSRRGLLRMVSQRRKLLDYLKRKD   73 (88)
T ss_dssp             HHHHHHHHHHHHHHC--------CHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHcccchhhHHHHHHHHHHHHHHHHHHHHcC
Confidence            3556789999999999999999999999999999999999999864

>1a32_A Ribosomal protein S15; multiwavelength anomalous diffraction, protein-RNA, ribosomal protein interactions, ribosome, RNA-binding; 2.10A {Geobacillus stearothermophilus} SCOP: a.16.1.2 PDB: 1qd7_H

Probab=97.91  E-value=5.7e-05  Score=53.76  Aligned_cols=63  Identities=21%  Similarity=0.323  Sum_probs=52.1

Q ss_pred             HHHHHHHcCCCC---CChhh-HHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           71 ILRILKAHGLAP---EIPED-LYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        71 i~~ILk~nglap---~iPED-L~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      -.+|.++.+..+   -=||- ..-|-.+..++..|++.|+||.+|+++|...-++-+||.+|.+++.
T Consensus         7 K~~ii~~~~~~~~DTGS~EvQIA~LT~rI~~Lt~Hlk~hkKD~~srRgL~~lv~kRrkLL~YL~~~d   73 (88)
T 1a32_A            7 KREIIEQFKVHENDTGSPEVQIAILTEQINNLNEHLRVHKKDHHSRRGLLKMVGKRRRLLAYLRNKD   73 (88)
T ss_dssp             HHHHHHHTCCSCCCCCSHHHHHHHHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHcC
Confidence            345666666544   45665 6677789999999999999999999999999999999999998864

>2vqe_O 30S ribosomal protein S15; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: i.1.1.1 PDB: 1eg0_F* 1gix_R* 1hnw_O* 1hnx_O* 1hnz_O* 1hr0_O 1ibk_O* 1ibl_O* 1ibm_O 1jgo_R* 1jgp_R* 1jgq_R* 1ml5_R* 1xmo_O* 1xmq_O* 1xnq_O* 1xnr_O* 1yl4_R 2b64_O* 2b9m_O* ...

Probab=97.81  E-value=5.6e-05  Score=53.88  Aligned_cols=63  Identities=21%  Similarity=0.343  Sum_probs=51.6

Q ss_pred             HHHHHHHcCCCC---CChhh-HHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           71 ILRILKAHGLAP---EIPED-LYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        71 i~~ILk~nglap---~iPED-L~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      -.+|.++.+-.+   -=||- ...|-.+..++..|++.|+||.+|+++|...-++-+||.+|.+++.
T Consensus         8 K~~ii~~~~~~~~DTGS~EvQIA~LT~rI~~Lt~Hlk~hkKD~~srRgL~~lv~kRrkLL~YLk~~d   74 (89)
T 2vqe_O            8 KQKVIQEFARFPGDTGSTEVQVALLTLRINRLSEHLKVHKKDHHSHRGLLMMVGQRRRLLRYLQRED   74 (89)
T ss_dssp             HHHHHHTTCSSTTCCSSHHHHHHHHHHHHHHHHHHTTSSTTCHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCcccccchhHHHHHHHHHHHHHHHHHHcC
Confidence            345556555444   44555 5677789999999999999999999999999999999999999864

>3bbn_O Ribosomal protein S15; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=97.43  E-value=4.1e-05  Score=54.88  Aligned_cols=47  Identities=26%  Similarity=0.318  Sum_probs=42.7

Q ss_pred             hHHHHHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           87 DLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        87 DL~~LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      -...|=.+..+|..|++.|+||.+|+++|...-++-+||.+|.+++.
T Consensus        25 QIA~LT~rI~~Lt~Hlk~hkKD~~srRgL~~lv~kRrkLL~YLk~kd   71 (90)
T 3bbn_O           25 QVFCFTNKIRRLTLHLELHKKDYSSQRGLRKTLGKRQRLLAYLLKIN   71 (90)
T ss_dssp             HHHHHHHHHTTTTTTTTTCTTCSTTSHHHHHHHHHHHHHHTTHHHHC
T ss_pred             HHHHHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHHHHHHHHhcC
Confidence            45667788899999999999999999999999999999999999864

>1ynp_A Oxidoreductase, AKR11C1; aldo-keto reductase, NADPH; HET: SUC; 1.25A {Bacillus halodurans} PDB: 1ynq_A*

Probab=82.64  E-value=2.1  Score=34.43  Aligned_cols=71  Identities=7%  Similarity=0.041  Sum_probs=47.3

Q ss_pred             CCCccCChHHHHHHHHHHHhcCCCcchhhhHhhhccC---CCceeeecchhHHHHHHHcCCCCCChhhHHHHHHHH
Q 032468           23 PSWLKISSQDVEDNICKFAKKGLTPSQIGVILRDSHG---IAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKA   95 (140)
Q Consensus        23 P~W~~~~~eeve~~IvklakkG~~pSqIG~~LRD~~G---Vp~Vk~vtG~ki~~ILk~nglap~iPEDL~~LikKA   95 (140)
                      +.|+....+++.+.+.++|+ |.||+|+-+.--=++|   +|.++.-+-.-|.+.++.-.. .+++++.+.-|..+
T Consensus       233 ~~~~~~~~~~~~~~l~~ia~-g~s~aqvaL~w~l~~~~v~~vI~g~~~~~~l~en~~a~~~-~~Ls~ee~~~l~~~  306 (317)
T 1ynp_A          233 EGYLNYRYDELKLLRESLPT-DRPLHELALQYCLAHDVVATVAAGASSIDQVKANVQAVEA-TPLTAEERQHIQKL  306 (317)
T ss_dssp             CCBTTBCHHHHHHHHHHSCS-SSCHHHHHHHHHHTSTTEEEEECCCSSHHHHHHHHHHHTS-CCCCHHHHHHHHHH
T ss_pred             cccccccHHHHHHHHHHHHc-CCCHHHHHHHHHHhCCCCeEEEeCCCCHHHHHHHHHhccC-CCCCHHHHHHHHHH
Confidence            46777788888899999999 9999999876555554   233333333334444443221 68988888777665

>1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C

Probab=81.04  E-value=1  Score=25.45  Aligned_cols=46  Identities=24%  Similarity=0.479  Sum_probs=29.4

Q ss_pred             CChHHHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCCCCCC
Q 032468           28 ISSQDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEI   84 (140)
Q Consensus        28 ~~~eeve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~nglap~i   84 (140)
                      +++++. +.|+.|...|+|.++|...|    ||      .-..|.++|++.|+.|.+
T Consensus         6 ~~~~~~-~~i~~l~~~g~s~~~ia~~l----gv------s~~Tv~r~l~~~~~~~~~   51 (52)
T 1jko_C            6 INKHEQ-EQISRLLEKGHPRQQLAIIF----GI------GVSTLYRYFPASSIKKRM   51 (52)
T ss_dssp             SCTTHH-HHHHHHHHTTCCHHHHHHTT----SC------CHHHHHHHSCTTC-----
T ss_pred             CCHHHH-HHHHHHHHcCCCHHHHHHHH----CC------CHHHHHHHHHHccccccc
Confidence            455555 56777888999999987654    53      445677888888876643

>3m66_A Mterf3, mterf domain-containing protein 1, mitochondrial; mitochondrion, DNA binding protein, transcription factor, transcription termination; 1.60A {Homo sapiens} PDB: 3opg_A 3my3_A

Probab=80.88  E-value=0.92  Score=35.43  Aligned_cols=70  Identities=16%  Similarity=0.320  Sum_probs=43.9

Q ss_pred             CCCCC----ccCChH-HHHHHHHHHHhcCCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCCCCCChhhHHHHHH
Q 032468           21 TPPSW----LKISSQ-DVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIK   93 (140)
Q Consensus        21 ~~P~W----~~~~~e-eve~~IvklakkG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~nglap~iPEDL~~Lik   93 (140)
                      ..|.|    +.++.+ .+...+.-|..-|+++++||.++.-.-.+=.-..-.=+...+.|++-|+.   ++|+..++.
T Consensus        24 k~p~~~p~lL~~~~~~~l~~~l~fL~~lG~~~~~i~~il~~~P~lL~~~~e~l~p~v~~L~~~Gls---~~~i~~~l~   98 (270)
T 3m66_A           24 KHPEAANLLLRLDFEKDIKQMLLFLKDVGIEDNQLGAFLTKNHAIFSEDLENLKTRVAYLHSKNFS---KADVAQMVR   98 (270)
T ss_dssp             TSHHHHHHHHTCCHHHHTHHHHHHHHHHTCCGGGHHHHHHHCTTGGGSCHHHHHHHHHHHHHTTCC---HHHHHHHHH
T ss_pred             hccchhhhhhccChhhhHHHHHHHHHHcCCCHHHHHHHHHhCChhhhCCHHHHHHHHHHHHHcCCC---HHHHHHHHH
Confidence            34777    788875 78888888888999999999888655332111111112245567777765   345554443

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	140
d1vs5o1	88	Ribosomal protein S15 {Escherichia coli [TaxId: 56	97.45
d1kuqa_	84	Ribosomal protein S15 {Thermus thermophilus [TaxId	97.33
d1a32a_	85	Ribosomal protein S15 {Bacillus stearothermophilus	97.28
g3bzy.1	100	Type III secretion proteins EscU {Escherichia coli	89.56
g3c01.1	108	Surface presentation of antigens protein SpaS {Sal	89.03
g2vt1.1	102	Surface presentation of antigens protein SpaS {Shi	82.9
d1pjra2	333	DEXX box DNA helicase {Bacillus stearothermophilus	81.24
d1efaa1	59	Lac repressor (LacR), N-terminal domain {Escherich	80.22

>d1vs5o1 a.16.1.2 (O:1-88) Ribosomal protein S15 {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: S15/NS1 RNA-binding domain
superfamily: S15/NS1 RNA-binding domain
family: Ribosomal protein S15
domain: Ribosomal protein S15
species: Escherichia coli [TaxId: 562]

Probab=97.45  E-value=9.2e-05  Score=50.91  Aligned_cols=43  Identities=23%  Similarity=0.400  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           91 LIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        91 LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      |=.+--+|..||+.|+||++++++|...-++=+||.+|.+++.
T Consensus        31 lT~rI~~Lt~Hl~~~kKD~~s~rgL~~lv~kRkklL~YL~~~d   73 (88)
T d1vs5o1          31 LTAQINHLQGHFAEHKKDHHSRRGLLRMVSQRRKLLDYLKRKD   73 (88)
T ss_dssp             HHHHHHHHHHHHHSSCCCCTTHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHhcC
Confidence            3378889999999999999999999999999999999998763

>d1kuqa_ a.16.1.2 (A:) Ribosomal protein S15 {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: S15/NS1 RNA-binding domain
superfamily: S15/NS1 RNA-binding domain
family: Ribosomal protein S15
domain: Ribosomal protein S15
species: Thermus thermophilus [TaxId: 274]

Probab=97.33  E-value=0.00016  Score=49.26  Aligned_cols=49  Identities=24%  Similarity=0.406  Sum_probs=41.2

Q ss_pred             hhhHHHHH-HHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           85 PEDLYHLI-KKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        85 PEDL~~Li-kKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      ||==.+++ .+--+|..|++.|+||++++++|.-.-++=+||.+|.+++.
T Consensus        22 ~evQiA~lT~rI~~L~~Hlk~~kkD~~s~rgL~~lv~kRkklL~YLrk~d   71 (84)
T d1kuqa_          22 TEVQVALLTLRINRLSEHLKVHKKDHHSHRGLLMMVGQRRRLLRYLQRED   71 (84)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCccccccHHHHHHHHHHHHHHHHHHHhcC
Confidence            44333333 67889999999999999999999999999999999998753

>d1a32a_ a.16.1.2 (A:) Ribosomal protein S15 {Bacillus stearothermophilus [TaxId: 1422]}

class: All alpha proteins
fold: S15/NS1 RNA-binding domain
superfamily: S15/NS1 RNA-binding domain
family: Ribosomal protein S15
domain: Ribosomal protein S15
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.28  E-value=0.00018  Score=48.97  Aligned_cols=43  Identities=23%  Similarity=0.416  Sum_probs=38.8

Q ss_pred             HHHHHHHHHHHHhHcCCcccchhHHHHHHHHHHHHHHHHHhcC
Q 032468           91 LIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTK  133 (140)
Q Consensus        91 LikKAv~~RkHLe~n~kD~~~k~~L~LiESkI~RL~rYYk~~~  133 (140)
                      |=.+--++..|++.|+||++++++|...-++=+||.+|.+++.
T Consensus        30 lT~rI~~L~~Hlk~~kkD~~srrgL~~lv~~RrklL~YLrk~d   72 (85)
T d1a32a_          30 LTEQINNLNEHLRVHKKDHHSRRGLLKMVGKRRRLLAYLRNKD   72 (85)
T ss_dssp             HHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             hHHHHHHHHHHHHHCccccccHHHHHHHHHHHHHHHHHHHhcC
Confidence            3367788999999999999999999999999999999998764

>d1pjra2 c.37.1.19 (A:319-651) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=81.24  E-value=0.35  Score=35.03  Aligned_cols=55  Identities=18%  Similarity=0.266  Sum_probs=42.3

Q ss_pred             HHHHHHHHHhcC-CCcchhhhHhhhccCCCceeeecchhHHHHHHHcCCCCCChh-----------hHHHHHHHH
Q 032468           33 VEDNICKFAKKG-LTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPE-----------DLYHLIKKA   95 (140)
Q Consensus        33 ve~~IvklakkG-~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~nglap~iPE-----------DL~~LikKA   95 (140)
                      |.+.|.+|..+| ++++.|++..|..   .+     +..|...|+++|+.-.+++           ||+.+++-.
T Consensus        18 Ia~~I~~li~~g~~~~~DIAILvRt~---~~-----~~~i~~~L~~~gIP~~~~~~~~~~~~~~i~~l~~~l~~l   84 (333)
T d1pjra2          18 VAGRIREAVERGERRYRDFAVLYRTN---AQ-----SRVMEEMLLKANIPYQIVGGLKFYDRKEIKDILAYLRVI   84 (333)
T ss_dssp             HHHHHHHHHTTTSCCGGGEEEEESSG---GG-----HHHHHHHHHHTTCCEEEETSCCGGGSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCcCCEEEEEECc---Hh-----HHHHHHHHHHCCCCEEEeCCccccccHHHHHHHHHHHHH
Confidence            889999999998 8899999998863   22     3458889999998776665           666666443

>d1efaa1 a.35.1.5 (A:2-60) Lac repressor (LacR), N-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: lambda repressor-like DNA-binding domains
superfamily: lambda repressor-like DNA-binding domains
family: GalR/LacI-like bacterial regulator
domain: Lac repressor (LacR), N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=80.22  E-value=0.71  Score=28.56  Aligned_cols=43  Identities=14%  Similarity=0.285  Sum_probs=36.3

Q ss_pred             HHHHh-cCCCcchhhhHhhhccCCCceeeecchhHHHHHHHcCCCCC
Q 032468           38 CKFAK-KGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPE   83 (140)
Q Consensus        38 vklak-kG~~pSqIG~~LRD~~GVp~Vk~vtG~ki~~ILk~nglap~   83 (140)
                      .+.|+ -|+|+|-+-..|++.   |.|..-|-.+|.++.++.|-.|.
T Consensus         6 ~diA~~agvS~sTVSr~l~~~---~~vs~~tr~rI~~~a~~lgY~pn   49 (59)
T d1efaa1           6 YDVAEYAGVSYQTVSRVVNQA---SHVSAKTREKVEAAMAELNYIPN   49 (59)
T ss_dssp             HHHHHTTTSCHHHHHHHHTTC---SSCCTHHHHHHHHHHHHHTCCCC
T ss_pred             HHHHHHHCCCHHHHHHHHCCC---CcCCHHHHHHHHHHHHHHCCCcC
Confidence            34444 599999999999877   67889999999999999998875