Psyllid ID: psy4335

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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-------150--
Protein Sequence
MVQCLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGDQQIPGGRKSKVLSSPENLKVTSTSKC
Secondary Structure (PSIPRED)
cccccEEcccccccHHHHHHcccccccHHHHHHcccccccccEEEEEEEEEEEccccEEEEEEEEEEccccccccccccccHHHHHHHHHHHHHHHHcccccccccccccccccEEEccEEccccEEEEEcccccEEEEcHHHHHHHHcccc
Secondary Structure Prediction (SSPRO)
ccEEEEEEccccccHHHHHHcccccccHHHHHHHcccccHHHHEEcccHHHHccccccEEEEEEEEEEcccccEEcccccHHHHHHHHHHHHHHHHccEEEEEcccccccccccccccEEEccccccEEccccccEEEEccHHHHHHHHccc
Coil and Loop (DISEMBL)
mvqclafrdgkIQSLEQIYLFslpikefeiidffigsslkdevlkimpvqkqtragqRTRFKAFVAIgdsnghiglgvkCSKEVATAIRGAIILAKLSvvpvrrgywgnkigkphtvpckrlthgdqqipggrkskvlsspenlkvtstskc
Flexible Loop (DISEMBL)
mvqclafrdgkiqslEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPvqkqtragqrTRFKAFVAIgdsnghiglGVKCSKEVATAIRGAiilaklsvvpVRRGYWGNkigkphtvpckrlthgdqqipggrkskvlsspenlkvtstskc
Low Complexity Region (SEG)
MVQCLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGDQQIPGGRKSKVLSSPENLKVTSTSKC
Disordered region (IsUnstruct)
***CLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRL******************************
Disordered Region (DISOPRED)
*VQCLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGDQQIPGGRKSKVLSSPENLKVTSTSKC
Disordered Region (DISEMBL)
MVQCLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD**************************
Disordered Region (DISPRO)
MVQCLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGDQQIPGGRKSKVLSSPENLKVTSTSKC
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVQCLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGDQQIPGGRKSKVLSSPENLKVTSTSKC
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	152	2.2.26 [Sep-21-2011]
P31009	267	40S ribosomal protein S2	yes	N/A	0.881	0.501	0.811	2e-59
P15880	293	40S ribosomal protein S2	yes	N/A	0.881	0.457	0.782	6e-57
P27952	293	40S ribosomal protein S2	yes	N/A	0.881	0.457	0.782	7e-57
P25444	293	40S ribosomal protein S2	yes	N/A	0.881	0.457	0.782	7e-57
O18789	293	40S ribosomal protein S2	yes	N/A	0.881	0.457	0.782	7e-57
P49154	278	40S ribosomal protein S2	N/A	N/A	0.881	0.482	0.782	8e-57
P46791	202	40S ribosomal protein S2	yes	N/A	0.881	0.663	0.782	1e-56
Q90YS3	277	40S ribosomal protein S2	N/A	N/A	0.881	0.483	0.768	2e-56
Q9SCM3	276	40S ribosomal protein S2-	yes	N/A	0.743	0.409	0.831	3e-53
Q93VB8	284	40S ribosomal protein S2-	no	N/A	0.736	0.394	0.848	7e-53

>sp|P31009|RS2_DROME 40S ribosomal protein S2 OS=Drosophila melanogaster GN=RpS2 PE=1 SV=2

 Score =  227 bits (579), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 112/138 (81%), Positives = 124/138 (89%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           R+GKI+SLE+IYL+SLPIKEFEIIDFF+GSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 54  REGKIKSLEEIYLYSLPIKEFEIIDFFLGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 113

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRL----T 123
           GD+NGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK      +
Sbjct: 114 GDNNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 173

Query: 124 HGDQQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 174 VSVRLIPAPRGTGIVSAP 191

Has a specific developmental role during oogenesis and a general role in protein synthesis as a component of the small ribosomal subunit.
Drosophila melanogaster (taxid: 7227)

>sp|P15880|RS2_HUMAN 40S ribosomal protein S2 OS=Homo sapiens GN=RPS2 PE=1 SV=2

 Score =  219 bits (557), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 108/138 (78%), Positives = 120/138 (86%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 71  KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK       
Sbjct: 131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query: 127 ---QQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 191 VLVRLIPAPRGTGIVSAP 208

Homo sapiens (taxid: 9606)

>sp|P27952|RS2_RAT 40S ribosomal protein S2 OS=Rattus norvegicus GN=Rps2 PE=1 SV=1

 Score =  219 bits (557), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 108/138 (78%), Positives = 120/138 (86%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 71  KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK       
Sbjct: 131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query: 127 ---QQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 191 VLVRLIPAPRGTGIVSAP 208

Rattus norvegicus (taxid: 10116)

>sp|P25444|RS2_MOUSE 40S ribosomal protein S2 OS=Mus musculus GN=Rps2 PE=1 SV=3

 Score =  219 bits (557), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 108/138 (78%), Positives = 120/138 (86%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 71  KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK       
Sbjct: 131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query: 127 ---QQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 191 VLVRLIPAPRGTGIVSAP 208

Mus musculus (taxid: 10090)

>sp|O18789|RS2_BOVIN 40S ribosomal protein S2 OS=Bos taurus GN=RPS2 PE=2 SV=2

 Score =  219 bits (557), Expect = 7e-57,   Method: Compositional matrix adjust.
 Identities = 108/138 (78%), Positives = 120/138 (86%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 71  KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK       
Sbjct: 131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query: 127 ---QQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 191 VLVRLIPAPRGTGIVSAP 208

Bos taurus (taxid: 9913)

>sp|P49154|RS2_URECA 40S ribosomal protein S2 OS=Urechis caupo GN=RPS2 PE=2 SV=1

 Score =  218 bits (556), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 108/138 (78%), Positives = 120/138 (86%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           +D KI++LE+IYLFSLPIKEFEIIDFF+G +LKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 57  KDMKIKTLEEIYLFSLPIKEFEIIDFFLGDALKDEVLKIMPVQKQTRAGQRTRFKAFVAI 116

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GD NGH+GLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK       
Sbjct: 117 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 176

Query: 127 ---QQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 177 VLVRLIPAPRGTGIVSAP 194

Urechis caupo (taxid: 6431)

>sp|P46791|RS2_CRIGR 40S ribosomal protein S2 (Fragment) OS=Cricetulus griseus GN=RPS2 PE=2 SV=1

 Score =  218 bits (555), Expect = 1e-56,   Method: Compositional matrix adjust.
 Identities = 108/138 (78%), Positives = 120/138 (86%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 11  KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 70

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK       
Sbjct: 71  GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 130

Query: 127 ---QQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 131 VLVRLIPAPRGTGIVSAP 148

Cricetulus griseus (taxid: 10029)

>sp|Q90YS3|RS2_ICTPU 40S ribosomal protein S2 OS=Ictalurus punctatus GN=rps2 PE=2 SV=1

 Score =  217 bits (552), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 106/138 (76%), Positives = 120/138 (86%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           +D KI+SLE+IYL+SLPIKE EIIDFF+GS+LKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 56  KDMKIKSLEEIYLYSLPIKESEIIDFFLGSALKDEVLKIMPVQKQTRAGQRTRFKAFVAI 115

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GD NGH+GLGVKCSKEVATAIRGAIILAKLS++PVRRGYWGNKIGKPHTVPCK       
Sbjct: 116 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIIPVRRGYWGNKIGKPHTVPCKVTGRCGS 175

Query: 127 ---QQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 176 VLVRLIPAPRGTGIVSAP 193

Ictalurus punctatus (taxid: 7998)

>sp|Q9SCM3|RS24_ARATH 40S ribosomal protein S2-4 OS=Arabidopsis thaliana GN=RPS2D PE=2 SV=1

 Score =  206 bits (525), Expect = 3e-53,   Method: Compositional matrix adjust.
 Identities = 94/113 (83%), Positives = 106/113 (93%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           ++GKI  +EQIYL SLP+KE++IID  +G SLKDEV+KIMPVQKQTRAGQRTRFKAF+ +
Sbjct: 56  KEGKITKIEQIYLHSLPVKEYQIIDLLVGPSLKDEVMKIMPVQKQTRAGQRTRFKAFIVV 115

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 120
           GDSNGH+GLGVKCSKEVATAIRGAIILAKLSVVP+RRGYWGNKIGKPHTVPCK
Sbjct: 116 GDSNGHVGLGVKCSKEVATAIRGAIILAKLSVVPIRRGYWGNKIGKPHTVPCK 168

Arabidopsis thaliana (taxid: 3702)

>sp|Q93VB8|RS22_ARATH 40S ribosomal protein S2-2 OS=Arabidopsis thaliana GN=RPS2B PE=2 SV=1

 Score =  205 bits (522), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 95/112 (84%), Positives = 103/112 (91%)

Query: 9   DGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIG 68
           D KI  LEQIYL SLP+KE++IID  +G +LKDEV+KIMPVQKQTRAGQRTRFKAFV +G
Sbjct: 65  DNKITKLEQIYLHSLPVKEYQIIDHLVGPTLKDEVMKIMPVQKQTRAGQRTRFKAFVVVG 124

Query: 69  DSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 120
           D NGH+GLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK
Sbjct: 125 DGNGHVGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 176

Arabidopsis thaliana (taxid: 3702)

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	152
110671482	273	putative ribosomal protein S2 [Diaphorin	0.743	0.413	1.0	2e-59
156550181	278	PREDICTED: 40S ribosomal protein S2-like	0.881	0.482	0.847	7e-59
240849555	265	40S ribosomal protein S2-like [Acyrthosi	0.881	0.505	0.826	3e-58
91081061	278	PREDICTED: similar to ribosomal protein	0.881	0.482	0.826	6e-58
321466956	278	hypothetical protein DAPPUDRAFT_92887 [D	0.881	0.482	0.811	9e-58
17136734	267	ribosomal protein S2, isoform A [Drosoph	0.881	0.501	0.811	1e-57
195117071	268	GI24366 [Drosophila mojavensis] gi|19391	0.881	0.5	0.804	2e-57
194759452	268	GF15233 [Drosophila ananassae] gi|190615	0.881	0.5	0.804	2e-57
321456601	278	hypothetical protein DAPPUDRAFT_93655 [D	0.881	0.482	0.804	2e-57
195436971	268	GK18106 [Drosophila willistoni] gi|19416	0.881	0.5	0.804	2e-57

>gi|110671482|gb|ABG81992.1| putative ribosomal protein S2 [Diaphorina citri]

 Score =  233 bits (594), Expect = 2e-59,   Method: Compositional matrix adjust.
 Identities = 113/113 (100%), Positives = 113/113 (100%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 58  RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 117

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 120
           GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK
Sbjct: 118 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 170

Source: Diaphorina citri

Species: Diaphorina citri

Genus: Diaphorina

Family: Psyllidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156550181|ref|XP_001604681.1| PREDICTED: 40S ribosomal protein S2-like [Nasonia vitripennis]

 Score =  231 bits (589), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 117/138 (84%), Positives = 123/138 (89%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           RDGKI SLE+IYLFSLPIKEFEIIDFFIG+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 60  RDGKISSLEEIYLFSLPIKEFEIIDFFIGTSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 119

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
           GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK     G 
Sbjct: 120 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 179

Query: 127 QQ---IPGGRKSKVLSSP 141
            Q   IP  R + ++S+P
Sbjct: 180 VQVRLIPAPRGTGIVSAP 197

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|240849555|ref|NP_001155755.1| 40S ribosomal protein S2-like [Acyrthosiphon pisum] gi|239788328|dbj|BAH70852.1| ACYPI008325 [Acyrthosiphon pisum]

 Score =  229 bits (583), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 114/138 (82%), Positives = 122/138 (88%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           +DGKI SLE+IYLFSLPIKEFEIIDFFIGSSL DEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 49  KDGKISSLEEIYLFSLPIKEFEIIDFFIGSSLNDEVLKIMPVQKQTRAGQRTRFKAFVAI 108

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRL----T 123
           GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK      +
Sbjct: 109 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 168

Query: 124 HGDQQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 169 VAVRLIPAPRGTGIVSAP 186

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91081061|ref|XP_975415.1| PREDICTED: similar to ribosomal protein S2 [Tribolium castaneum] gi|270005317|gb|EFA01765.1| hypothetical protein TcasGA2_TC007364 [Tribolium castaneum]

 Score =  228 bits (581), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 114/138 (82%), Positives = 123/138 (89%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           RDGKI+SLE+IYLFSLPIKE+EIIDFFIG SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 59  RDGKIRSLEEIYLFSLPIKEYEIIDFFIGPSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 118

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRL----T 123
           GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK      +
Sbjct: 119 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 178

Query: 124 HGDQQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 179 VTVRLIPAPRGTGIVSAP 196

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321466956|gb|EFX77948.1| hypothetical protein DAPPUDRAFT_92887 [Daphnia pulex]

 Score =  228 bits (580), Expect = 9e-58,   Method: Compositional matrix adjust.
 Identities = 112/138 (81%), Positives = 123/138 (89%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           RDGKI++LE+IYLFSLPIKEFEIIDFF+GS+LKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 59  RDGKIRTLEEIYLFSLPIKEFEIIDFFLGSALKDEVLKIMPVQKQTRAGQRTRFKAFVAI 118

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GD NGHIGLGVKCSKEVATAIRGAII+AKLSVVPVRRGYWGNKIGKPHTVPCK       
Sbjct: 119 GDYNGHIGLGVKCSKEVATAIRGAIIMAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 178

Query: 127 ---QQIPGGRKSKVLSSP 141
              + IPG R + ++S+P
Sbjct: 179 VLVRLIPGPRGTGIVSAP 196

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17136734|ref|NP_476874.1| ribosomal protein S2, isoform A [Drosophila melanogaster] gi|442627099|ref|NP_001260303.1| ribosomal protein S2, isoform B [Drosophila melanogaster] gi|730652|sp|P31009.2|RS2_DROME RecName: Full=40S ribosomal protein S2; AltName: Full=Protein strings of pearls gi|515971|gb|AAC34198.1| ribosomal protein S2 [Drosophila melanogaster] gi|515972|gb|AAA87053.1| ribosomal protein S2 [Drosophila melanogaster] gi|7297568|gb|AAF52822.1| ribosomal protein S2, isoform A [Drosophila melanogaster] gi|20151585|gb|AAM11152.1| LD24077p [Drosophila melanogaster] gi|220947136|gb|ACL86111.1| sop-PA [synthetic construct] gi|220956626|gb|ACL90856.1| sop-PA [synthetic construct] gi|440213619|gb|AGB92838.1| ribosomal protein S2, isoform B [Drosophila melanogaster]

 Score =  227 bits (579), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 112/138 (81%), Positives = 124/138 (89%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           R+GKI+SLE+IYL+SLPIKEFEIIDFF+GSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 54  REGKIKSLEEIYLYSLPIKEFEIIDFFLGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 113

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRL----T 123
           GD+NGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK      +
Sbjct: 114 GDNNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 173

Query: 124 HGDQQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 174 VSVRLIPAPRGTGIVSAP 191

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195117071|ref|XP_002003073.1| GI24366 [Drosophila mojavensis] gi|193913648|gb|EDW12515.1| GI24366 [Drosophila mojavensis]

 Score =  226 bits (577), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 111/138 (80%), Positives = 124/138 (89%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           R+GKI+SLE+IYL+SLPIKEFEIIDFF+GSSL+DEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 55  REGKIKSLEEIYLYSLPIKEFEIIDFFLGSSLRDEVLKIMPVQKQTRAGQRTRFKAFVAI 114

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRL----T 123
           GD+NGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK      +
Sbjct: 115 GDNNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 174

Query: 124 HGDQQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 175 VSVRLIPAPRGTGIVSAP 192

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194759452|ref|XP_001961962.1| GF15233 [Drosophila ananassae] gi|190615659|gb|EDV31183.1| GF15233 [Drosophila ananassae]

 Score =  226 bits (577), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 111/138 (80%), Positives = 124/138 (89%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           R+GKI+SLE+IYL+SLPIKEFEIIDFF+GS+LKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 55  REGKIKSLEEIYLYSLPIKEFEIIDFFLGSALKDEVLKIMPVQKQTRAGQRTRFKAFVAI 114

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRL----T 123
           GD+NGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK      +
Sbjct: 115 GDNNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 174

Query: 124 HGDQQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 175 VSVRLIPAPRGTGIVSAP 192

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321456601|gb|EFX67704.1| hypothetical protein DAPPUDRAFT_93655 [Daphnia pulex]

 Score =  226 bits (577), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 111/138 (80%), Positives = 123/138 (89%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           RDGKI++LE+IYLFSLPIKEFEIIDFF+G++LKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 59  RDGKIRTLEEIYLFSLPIKEFEIIDFFLGTALKDEVLKIMPVQKQTRAGQRTRFKAFVAI 118

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GD NGHIGLGVKCSKEVATAIRGAII+AKLSVVPVRRGYWGNKIGKPHTVPCK       
Sbjct: 119 GDYNGHIGLGVKCSKEVATAIRGAIIMAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 178

Query: 127 ---QQIPGGRKSKVLSSP 141
              + IPG R + ++S+P
Sbjct: 179 VLVRLIPGPRGTGIVSAP 196

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195436971|ref|XP_002066418.1| GK18106 [Drosophila willistoni] gi|194162503|gb|EDW77404.1| GK18106 [Drosophila willistoni]

 Score =  226 bits (577), Expect = 2e-57,   Method: Compositional matrix adjust.
 Identities = 111/138 (80%), Positives = 123/138 (89%), Gaps = 4/138 (2%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           RD KI+SLE+IYL+SLPIKEFEIIDFF+GSSL+DEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct: 55  RDAKIKSLEEIYLYSLPIKEFEIIDFFLGSSLRDEVLKIMPVQKQTRAGQRTRFKAFVAI 114

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRL----T 123
           GD+NGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK      +
Sbjct: 115 GDNNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 174

Query: 124 HGDQQIPGGRKSKVLSSP 141
              + IP  R + ++S+P
Sbjct: 175 VSVRLIPAPRGTGIVSAP 192

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	152
FB|FBgn0004867	267	RpS2 "Ribosomal protein S2" [D	0.881	0.501	0.818	2.1e-54
UNIPROTKB|E1C4M0	286	E1C4M0 "Uncharacterized protei	0.881	0.468	0.797	1.3e-52
UNIPROTKB|O18789	293	RPS2 "40S ribosomal protein S2	0.881	0.457	0.789	2.7e-52
UNIPROTKB|E2QWY6	293	LOC608162 "Uncharacterized pro	0.881	0.457	0.789	2.7e-52
UNIPROTKB|E9PMM9	218	RPS2 "40S ribosomal protein S2	0.881	0.614	0.789	2.7e-52
UNIPROTKB|P15880	293	RPS2 "40S ribosomal protein S2	0.881	0.457	0.789	2.7e-52
RGD|2323085	267	LOC100359960 "ribosomal protei	0.881	0.501	0.789	2.7e-52
RGD|619887	293	Rps2 "ribosomal protein S2" [R	0.881	0.457	0.789	2.7e-52
UNIPROTKB|E9PTY3	297	LOC100359960 "Protein LOC10035	0.881	0.451	0.789	2.7e-52
UNIPROTKB|E9PU05	259	LOC100359960 "Protein LOC10035	0.881	0.517	0.789	2.7e-52

FB|FBgn0004867 RpS2 "Ribosomal protein S2" [Drosophila melanogaster (taxid:7227)]

 Score = 562 (202.9 bits), Expect = 2.1e-54, P = 2.1e-54
 Identities = 113/138 (81%), Positives = 124/138 (89%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             R+GKI+SLE+IYL+SLPIKEFEIIDFF+GSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    54 REGKIKSLEEIYLYSLPIKEFEIIDFFLGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 113

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD+NGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:   114 GDNNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKVTGKCGS 173

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   174 VSVRLIPAPRGTGIVSAP 191

GO:0006412 "translation" evidence=ISS;NAS

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

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

GO:0005840 "ribosome" evidence=IDA;NAS

GO:0003723 "RNA binding" evidence=IEA

GO:0005811 "lipid particle" evidence=IDA

UNIPROTKB|E1C4M0 E1C4M0 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 545 (196.9 bits), Expect = 1.3e-52, P = 1.3e-52
 Identities = 110/138 (79%), Positives = 121/138 (87%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             +D KI+SLE+IYLFSLPIKE EIIDFF+GSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    64 KDMKIKSLEEIYLFSLPIKESEIIDFFLGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 123

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:   124 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 183

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   184 VLVRLIPAPRGTGIVSAP 201

GO:0003723 "RNA binding" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0005654 "nucleoplasm" evidence=IEA

GO:0017134 "fibroblast growth factor binding" evidence=IEA

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

UNIPROTKB|O18789 RPS2 "40S ribosomal protein S2" [Bos taurus (taxid:9913)]

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 109/138 (78%), Positives = 121/138 (87%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    71 KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:   131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   191 VLVRLIPAPRGTGIVSAP 208

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

GO:0017134 "fibroblast growth factor binding" evidence=IEA

GO:0005654 "nucleoplasm" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E2QWY6 LOC608162 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 109/138 (78%), Positives = 121/138 (87%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    71 KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:   131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   191 VLVRLIPAPRGTGIVSAP 208

GO:0015935 "small ribosomal subunit" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

GO:0003723 "RNA binding" evidence=IEA

UNIPROTKB|E9PMM9 RPS2 "40S ribosomal protein S2" [Homo sapiens (taxid:9606)]

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 109/138 (78%), Positives = 121/138 (87%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    71 KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:   131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   191 VLVRLIPAPRGTGIVSAP 208

GO:0003723 "RNA binding" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0015935 "small ribosomal subunit" evidence=IEA

UNIPROTKB|P15880 RPS2 "40S ribosomal protein S2" [Homo sapiens (taxid:9606)]

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 109/138 (78%), Positives = 121/138 (87%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    71 KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:   131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   191 VLVRLIPAPRGTGIVSAP 208

GO:0003723 "RNA binding" evidence=IEA

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

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

GO:0005730 "nucleolus" evidence=IDA

GO:0005654 "nucleoplasm" evidence=IDA

GO:0017134 "fibroblast growth factor binding" evidence=IPI

GO:0006412 "translation" evidence=IC;TAS

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|2323085 LOC100359960 "ribosomal protein S2-like" [Rattus norvegicus (taxid:10116)]

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 109/138 (78%), Positives = 121/138 (87%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    45 KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 104

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:   105 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 164

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   165 VLVRLIPAPRGTGIVSAP 182

GO:0003723 "RNA binding" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0015935 "small ribosomal subunit" evidence=IEA

RGD|619887 Rps2 "ribosomal protein S2" [Rattus norvegicus (taxid:10116)]

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 109/138 (78%), Positives = 121/138 (87%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    71 KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:   131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   191 VLVRLIPAPRGTGIVSAP 208

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

GO:0001731 "formation of translation preinitiation complex" evidence=IMP

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005654 "nucleoplasm" evidence=ISO

GO:0017134 "fibroblast growth factor binding" evidence=ISO

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

GO:0030529 "ribonucleoprotein complex" evidence=IDA

GO:0032403 "protein complex binding" evidence=IMP

GO:0071353 "cellular response to interleukin-4" evidence=ISO

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|E9PTY3 LOC100359960 "Protein LOC100359960" [Rattus norvegicus (taxid:10116)]

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 109/138 (78%), Positives = 121/138 (87%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    71 KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 130

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:   131 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 190

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   191 VLVRLIPAPRGTGIVSAP 208

GO:0003723 "RNA binding" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0015935 "small ribosomal subunit" evidence=IEA

UNIPROTKB|E9PU05 LOC100359960 "Protein LOC100359960" [Rattus norvegicus (taxid:10116)]

 Score = 542 (195.9 bits), Expect = 2.7e-52, P = 2.7e-52
 Identities = 109/138 (78%), Positives = 121/138 (87%)

Query:     8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
             +D KI+SLE+IYLFSLPIKE EIIDFF+G+SLKDEVLKIMPVQKQTRAGQRTRFKAFVAI
Sbjct:    37 KDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 96

Query:    68 GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-GD 126
             GD NGH+GLGVKCSKEVATAIRGAIILAKLS+VPVRRGYWGNKIGKPHTVPCK     G 
Sbjct:    97 GDYNGHVGLGVKCSKEVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRCGS 156

Query:   127 ---QQIPGGRKSKVLSSP 141
                + IP  R + ++S+P
Sbjct:   157 VLVRLIPAPRGTGIVSAP 174

GO:0003723 "RNA binding" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0015935 "small ribosomal subunit" 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)
P27952	RS2_RAT	No assigned EC number	0.7826	0.8815	0.4573	yes	N/A
O18789	RS2_BOVIN	No assigned EC number	0.7826	0.8815	0.4573	yes	N/A
P25444	RS2_MOUSE	No assigned EC number	0.7826	0.8815	0.4573	yes	N/A
P25443	RS2_YEAST	No assigned EC number	0.5714	0.8618	0.5157	yes	N/A
P27685	RS2_DICDI	No assigned EC number	0.7477	0.7171	0.4113	yes	N/A
O74892	RS2_SCHPO	No assigned EC number	0.7079	0.7368	0.4426	yes	N/A
P15880	RS2_HUMAN	No assigned EC number	0.7826	0.8815	0.4573	yes	N/A
Q9SCM3	RS24_ARATH	No assigned EC number	0.8318	0.7434	0.4094	yes	N/A
P31009	RS2_DROME	No assigned EC number	0.8115	0.8815	0.5018	yes	N/A
P46791	RS2_CRIGR	No assigned EC number	0.7826	0.8815	0.6633	yes	N/A
P51403	RS2_CAEEL	No assigned EC number	0.7028	0.875	0.4889	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	152
PTZ00070	257	PTZ00070, PTZ00070, 40S ribosomal protein S2; Prov	2e-78
TIGR01020	212	TIGR01020, rpsE_arch, ribosomal protein S5(archaea	1e-57
PRK04044	211	PRK04044, rps5p, 30S ribosomal protein S5P; Review	8e-37
pfam00333	67	pfam00333, Ribosomal_S5, Ribosomal protein S5, N-t	5e-30
COG0098	181	COG0098, RpsE, Ribosomal protein S5 [Translation,	2e-27
PRK00550	168	PRK00550, rpsE, 30S ribosomal protein S5; Validate	2e-08
TIGR01021	154	TIGR01021, rpsE_bact, ribosomal protein S5, bacter	5e-08
CHL00138	143	CHL00138, rps5, ribosomal protein S5; Validated	4e-05

>gnl|CDD|240255 PTZ00070, PTZ00070, 40S ribosomal protein S2; Provisional

 Score =  232 bits (594), Expect = 2e-78
 Identities = 88/114 (77%), Positives = 101/114 (88%), Gaps = 1/114 (0%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIID-FFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVA 66
           + GKI SLE+I+LFS+PIKE++I+D FF  S LKDEV+KIMPVQKQT AGQRTRFKAFV 
Sbjct: 48  KAGKITSLEEIFLFSIPIKEYQIVDHFFAESKLKDEVMKIMPVQKQTSAGQRTRFKAFVV 107

Query: 67  IGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 120
           +GD NGHIGLG K +KEVATAIRGAII AKL++VPVRRGYWGNKIG+PHTVP K
Sbjct: 108 VGDGNGHIGLGAKVAKEVATAIRGAIIAAKLNLVPVRRGYWGNKIGEPHTVPMK 161

Length = 257

>gnl|CDD|233235 TIGR01020, rpsE_arch, ribosomal protein S5(archaeal type)/S2(eukaryote cytosolic type)

 Score =  178 bits (452), Expect = 1e-57
 Identities = 58/115 (50%), Positives = 88/115 (76%), Gaps = 2/115 (1%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           ++GKI+S+++I+L +LPIKE EI+D+ +    ++EVL +  VQ+ T +G+RTRF+AFV +
Sbjct: 19  KEGKIKSIDEIFLRNLPIKEPEIVDYLLPDLNEEEVLDVSLVQRMTDSGRRTRFRAFVVV 78

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRR--GYWGNKIGKPHTVPCK 120
           G+ +G++GLG+  +KEVA AIR AII AKL+++PVRR  G W    G+PH+VP K
Sbjct: 79  GNRDGYVGLGIGKAKEVAPAIRKAIINAKLNIIPVRRGCGSWECGCGRPHSVPFK 133

This model finds eukaryotic ribosomal protein S2 as well as archaeal ribosomal protein S5 [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 212

>gnl|CDD|235213 PRK04044, rps5p, 30S ribosomal protein S5P; Reviewed

 Score =  125 bits (315), Expect = 8e-37
 Identities = 52/114 (45%), Positives = 77/114 (67%), Gaps = 3/114 (2%)

Query: 9   DGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIG 68
           +GKI S+++I+   LPIKE EI+D  +   L+DEVL I  VQ+ T +G+R RF+  V +G
Sbjct: 21  EGKITSIDEIFDSGLPIKEPEIVDVLL-PDLEDEVLDINMVQRMTDSGRRVRFRVVVVVG 79

Query: 69  DSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRR--GYWGNKIGKPHTVPCK 120
           + +G++G+G   +K+V  AIR AI  AKL+++ VRR  G W    G+PH+VP K
Sbjct: 80  NRDGYVGVGQGKAKQVGPAIRKAIRNAKLNIIKVRRGCGSWECGCGEPHSVPFK 133

Length = 211

>gnl|CDD|144065 pfam00333, Ribosomal_S5, Ribosomal protein S5, N-terminal domain

 Score =  103 bits (259), Expect = 5e-30
 Identities = 34/67 (50%), Positives = 46/67 (68%)

Query: 38  SLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKL 97
            L+++VL I  VQK T+ G+R  F+A V +GD NGH+GLG   +KEV  AIR AI  AKL
Sbjct: 1   DLEEKVLVINRVQKVTKGGRRFSFRALVVVGDKNGHVGLGEGKAKEVPGAIRKAIEDAKL 60

Query: 98  SVVPVRR 104
           +++ V R
Sbjct: 61  NLIEVPR 67

Length = 67

>gnl|CDD|223176 COG0098, RpsE, Ribosomal protein S5 [Translation, ribosomal structure and biogenesis]

 Score =  100 bits (251), Expect = 2e-27
 Identities = 43/112 (38%), Positives = 62/112 (55%), Gaps = 15/112 (13%)

Query: 9   DGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIG 68
           +GKI ++E  +   LPIKE E+        L ++V+ I  V K  + G+R RF A V +G
Sbjct: 2   EGKIATIE--FKSGLPIKEPEV------DELLEKVVDINRVSKVVKGGRRFRFSALVVVG 53

Query: 69  DSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 120
           D NG +G G+  +KEV  AIR AI  AK +++ V R       G  HT+P +
Sbjct: 54  DRNGRVGFGIGKAKEVPEAIRKAIEDAKKNIIEVPR-------GNGHTIPHE 98

Length = 181

>gnl|CDD|234790 PRK00550, rpsE, 30S ribosomal protein S5; Validated

 Score = 50.1 bits (121), Expect = 2e-08
 Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 2/69 (2%)

Query: 39  LKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAK-- 96
           L+++V+ I  V K  + G+R  F A V +GD  G +G G   ++EV  AIR A+  AK  
Sbjct: 13  LEEKVVAINRVTKVVKGGRRFSFSALVVVGDGKGRVGFGYGKAREVPEAIRKAVEDAKKN 72

Query: 97  LSVVPVRRG 105
           +  VP+  G
Sbjct: 73  MIKVPLVGG 81

Length = 168

>gnl|CDD|130093 TIGR01021, rpsE_bact, ribosomal protein S5, bacterial/organelle type

 Score = 48.8 bits (117), Expect = 5e-08
 Identities = 23/69 (33%), Positives = 40/69 (57%), Gaps = 2/69 (2%)

Query: 39  LKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLS 98
           L++ ++ +  V K  + G+R  F A V +GD  G +G G   +KEV  AI+ A+  A+ +
Sbjct: 2   LEERLIAVNRVSKVVKGGRRFSFSALVVVGDGKGRVGFGFGKAKEVPDAIKKAVEAARKN 61

Query: 99  V--VPVRRG 105
           +  VP+ +G
Sbjct: 62  LINVPLTKG 70

This model finds chloroplast ribosomal protein S5 as well as bacterial ribosomal protein S5. A candidate mitochondrial form (Saccharomyces cerevisiae YBR251W and its homolog) differs substantially and is not included in this model [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 154

>gnl|CDD|177060 CHL00138, rps5, ribosomal protein S5; Validated

 Score = 40.7 bits (96), Expect = 4e-05
 Identities = 20/54 (37%), Positives = 34/54 (62%)

Query: 43 VLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAK 96
          V++I  V K  + G++  F+A V IG+ NG +G+GV  + +V  A++ A+  AK
Sbjct: 28 VIQIKRVSKVVKGGKKLSFRAIVVIGNENGWVGVGVGKADDVQNAVKKAVTDAK 81

Length = 143

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	152
PTZ00070	257	40S ribosomal protein S2; Provisional	100.0
TIGR01020	212	rpsE_arch ribosomal protein S5(archaeal type)/S2(e	100.0
PRK04044	211	rps5p 30S ribosomal protein S5P; Reviewed	100.0
KOG0877|consensus	213		100.0
COG0098	181	RpsE Ribosomal protein S5 [Translation, ribosomal	100.0
CHL00138	143	rps5 ribosomal protein S5; Validated	100.0
TIGR01021	154	rpsE_bact ribosomal protein S5, bacterial/organell	100.0
PRK00550	168	rpsE 30S ribosomal protein S5; Validated	100.0
PF00333	67	Ribosomal_S5: Ribosomal protein S5, N-terminal dom	99.94
KOG2646|consensus	396		99.84
PF03719	74	Ribosomal_S5_C: Ribosomal protein S5, C-terminal d	98.72

>PTZ00070 40S ribosomal protein S2; Provisional

Probab=100.00  E-value=7.1e-64  Score=413.45  Aligned_cols=148  Identities=62%  Similarity=0.998  Sum_probs=146.4

Q ss_pred             ceeeccCCccCHHHHhhcCCCCCchhhhhcccC-CCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecch
Q psy4335           4 CLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIG-SSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSK   82 (152)
Q Consensus         4 ~~~vk~~~i~~~~~~~~~~l~i~e~eiid~~~~-~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~   82 (152)
                      |||||||||+||||||+|||||+|+||||+||+ ++|+|+||+|+||||||++||++||+|||+|||+||+||||++||+
T Consensus        44 GrlVk~gki~s~eei~~~~lpikE~eIvd~ll~~~~L~eeVl~I~rVqK~TkgGrr~rF~AlVVVGd~nG~VGlG~gKak  123 (257)
T PTZ00070         44 GRLVKAGKITSLEEIFLFSIPIKEYQIVDHFFAESKLKDEVMKIMPVQKQTSAGQRTRFKAFVVVGDGNGHIGLGAKVAK  123 (257)
T ss_pred             hhhhhcCccccHHHHHhcCCCccchhhHHHHccCccchheEEEEeeeEEEecCCcEEEEEEEEEEeCCCCcEecceeech
Confidence            899999999999999999999999999999996 8999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhcceeeeecccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335          83 EVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus        83 ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      ||++||+||+.+|++||++|+|+||+|+++++|||||+++|| |   |.|+|||+||||+|++++++||+|||
T Consensus       124 EV~~AIrKAi~~AK~nii~V~rgyW~~~~g~~hTIp~~V~GK~GSv~V~L~PAP~GtGivAg~~vk~VLelAG  196 (257)
T PTZ00070        124 EVATAIRGAIIAAKLNLVPVRRGYWGNKIGEPHTVPMKVTGKCGSVRVRLVPAPRGTGIVAAPTPKKILEFAG  196 (257)
T ss_pred             hHHHHHHHHHHHHHhCeEEEecccccccCCCCCCeeeeEEEEeCeEEEEEEeCCCCccEEeCcHHHHHHHHcC
Confidence            999999999999999999999999999999999999999999 6   99999999999999999999999998

>TIGR01020 rpsE_arch ribosomal protein S5(archaeal type)/S2(eukaryote cytosolic type)

Probab=100.00  E-value=8.7e-62  Score=392.98  Aligned_cols=147  Identities=44%  Similarity=0.738  Sum_probs=144.9

Q ss_pred             ceeeccCCccCHHHHhhcCCCCCchhhhhcccCCCc-cceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecch
Q psy4335           4 CLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSL-KDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSK   82 (152)
Q Consensus         4 ~~~vk~~~i~~~~~~~~~~l~i~e~eiid~~~~~~l-~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~   82 (152)
                      |||||||||+||||||.||+||+|+||||+|| ++| +|+||+|+||||||++||++||+|||+|||+||++|||+|||+
T Consensus        15 grlV~~g~i~s~~ei~~~~~~i~E~eivd~ll-~~l~~e~vl~I~rV~K~tkgGr~~~F~alVvVGn~~G~vG~G~GKa~   93 (212)
T TIGR01020        15 GRLVKEGKIKSIDEIFLRNLPIKEPEIVDYLL-PDLNEEEVLDVSLVQRMTDSGRRTRFRAFVVVGNRDGYVGLGIGKAK   93 (212)
T ss_pred             hhhhhcCCcccHHHHHHcCCCccchhhHHHHh-hhcCcceEEEEEeeEEEecCCcEEEEEEEEEEeCCCCeEeeceeecc
Confidence            89999999999999999999999999999999 599 8899999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhcceeeee--cccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335          83 EVATAIRGAIILAKLSVVPVRR--GYWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus        83 ev~~Ai~kA~~~Ak~nli~v~r--gy~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |+++||++|+.+|++||++|+|  |||+|.|+++|||||+++|| |   |.|+|||+|+||+|+++++++|+|||
T Consensus        94 ev~~AI~kA~~~Ak~n~i~V~rg~g~w~~~~~~~hTIp~~v~Gk~gs~~V~L~PAP~GtGliag~~~r~ilelAG  168 (212)
T TIGR01020        94 EVAPAIRKAIINAKLNIIPVRRGCGSWECGCGRPHSVPFKVTGKCGSVRVRLIPAPRGLGLVAGDVAKKVLRLAG  168 (212)
T ss_pred             hHHHHHHHHHHHHHhCEEEEecccccccccCCCCCcEeEEEEEEEccEEEEEEeCCCCCceecCcHHHHHHHHcC
Confidence            9999999999999999999999  89999999999999999999 6   99999999999999999999999998

This model finds eukaryotic ribosomal protein S2 as well as archaeal ribosomal protein S5.

>PRK04044 rps5p 30S ribosomal protein S5P; Reviewed

Probab=100.00  E-value=7.2e-59  Score=376.11  Aligned_cols=147  Identities=39%  Similarity=0.607  Sum_probs=145.0

Q ss_pred             ceeeccCCccCHHHHhhcCCCCCchhhhhcccCCCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchh
Q psy4335           4 CLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKE   83 (152)
Q Consensus         4 ~~~vk~~~i~~~~~~~~~~l~i~e~eiid~~~~~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~e   83 (152)
                      |||||||+|+||||||.+|+||+|+||||+|| ++|+|+||+++||||||++||++||+|||+|||+||++|||+|||+|
T Consensus        16 g~lv~~~~i~s~e~i~~~~~~i~e~eivd~ll-~~l~e~vv~i~rV~kvtkgGr~~sf~alVvVGn~~G~vG~G~GKa~e   94 (211)
T PRK04044         16 GRLVKEGKITSIDEIFDSGLPIKEPEIVDVLL-PDLEDEVLDINMVQRMTDSGRRVRFRVVVVVGNRDGYVGVGQGKAKQ   94 (211)
T ss_pred             hhhhhcCCcccHHHHHhcCCCcccchhhhhhh-ccceeEEEEEEeEEeeecCCcEEEEEEEEEEeCCCCeEeeeeeeccc
Confidence            89999999999999999999999999999999 79999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcceeeeec--ccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335          84 VATAIRGAIILAKLSVVPVRRG--YWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus        84 v~~Ai~kA~~~Ak~nli~v~rg--y~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      +++||+||+.+|++||++|+|+  ||||.|+++|||||+++|| |   |+|+|||+||||+|++.+++||++||
T Consensus        95 v~~Ai~kA~~~Akknli~V~r~~g~We~~~~~~~TI~h~v~gk~gs~~V~l~Pap~GtGiiag~~vr~vlelaG  168 (211)
T PRK04044         95 VGPAIRKAIRNAKLNIIKVRRGCGSWECGCGEPHSVPFKVTGKAGSVEVTLKPAPRGLGLVAGDVAKKVLELAG  168 (211)
T ss_pred             hHHHHHHHHHHHHhCeEEEEcccccccccCCCCCcCCeEEEEEEccEEEEEEECCCCCeEEECcHHHHHHHHcC
Confidence            9999999999999999999995  8999999999999999999 6   99999999999999999999999998

>KOG0877|consensus

Probab=100.00  E-value=2.2e-57  Score=363.53  Aligned_cols=149  Identities=74%  Similarity=1.108  Sum_probs=147.4

Q ss_pred             cceeeccCCccCHHHHhhcCCCCCchhhhhcccCCCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecch
Q psy4335           3 QCLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSK   82 (152)
Q Consensus         3 ~~~~vk~~~i~~~~~~~~~~l~i~e~eiid~~~~~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~   82 (152)
                      -|++|++|||+|+||||+|||||+|+||||||++.+|+|+||+|++|||||++||++||+|+|++||+||+||+|+.|++
T Consensus        15 lG~lv~~~ki~sleeiyl~slpike~eiid~~lg~slkdeVLkImpVqKqtrAGQrtRfKAfVaigD~~ghVGlgvk~sK   94 (213)
T KOG0877|consen   15 LGRLVKDMKIKSLEEIYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDYNGHVGLGVKCSK   94 (213)
T ss_pred             ccccchhchhhhhhhhhccCccccchhhhhhhhccchHhhhheeeecccccccccccceEEEEEEeecCCceeeeeeehH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhcceeeeecccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335          83 EVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus        83 ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |+++||++|+.+|+++++||+|+||+|++++|||+||+++|+ +   |.++|||||+||++.|+++++|+|||
T Consensus        95 eva~airgaiilaklsivpvrrgyw~~~~g~pHt~~~kvtg~~~svlv~l~papRgtGivs~p~~kkll~mAG  167 (213)
T KOG0877|consen   95 EVATAIRGAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGDCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAG  167 (213)
T ss_pred             HHHHHHhHHHhhhheeeeeeeccccccccCCCccccCcccccCCcceEEEeecCCCCceeeccccHHHHHhcc
Confidence            999999999999999999999999999999999999999999 6   99999999999999999999999998

>COG0098 RpsE Ribosomal protein S5 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=4.3e-45  Score=288.94  Aligned_cols=129  Identities=36%  Similarity=0.563  Sum_probs=122.9

Q ss_pred             ccCCccCHHHHhhcCCCCCchhhhhcccCCCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHH
Q psy4335           8 RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATA   87 (152)
Q Consensus         8 k~~~i~~~~~~~~~~l~i~e~eiid~~~~~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~A   87 (152)
                      +++++.+++  |..++|++|+| +|.     |.+++|+|+||||||++||++||+|||+|||+||+||||.||++||+.|
T Consensus         1 ~~~~~~~~~--~~~~~~~~e~~-~~~-----l~e~vv~inrV~K~~kgGRr~~F~alvVVGd~~G~VG~G~GKA~EV~~A   72 (181)
T COG0098           1 KEGKIATIE--FKSGLPIKEPE-VDE-----LLEKVVDINRVSKVVKGGRRFRFSALVVVGDRNGRVGFGIGKAKEVPEA   72 (181)
T ss_pred             CCccccchh--hhhccCcCCch-hhh-----cceeeeEEEEEEEeecCceEEEEEEEEEEeCCCCeEeeeecchhhhHHH
Confidence            468899997  99999999999 774     4588999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcceeeeecccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335          88 IRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus        88 i~kA~~~Ak~nli~v~rgy~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |+||+..|++||++|+|+       ++|||||++.|+ |   |+|+|||+||||+|++++|+||||||
T Consensus        73 IrKAi~~Ak~nii~V~~~-------~~~Tiph~v~Gk~g~~~V~L~PA~~GtGiiAGg~~r~vlelAG  133 (181)
T COG0098          73 IRKAIEDAKKNIIEVPRG-------NGHTIPHEVIGKHGAVKVLLKPAPEGTGIIAGGAVRAVLELAG  133 (181)
T ss_pred             HHHHHHHHHhCeEEEecC-------CCceeeeEEEEEECcEEEEEEECCCCceEEeCcHHHHHHHHcC
Confidence            999999999999999995       679999999999 6   99999999999999999999999998

>CHL00138 rps5 ribosomal protein S5; Validated

Probab=100.00  E-value=1e-40  Score=256.64  Aligned_cols=108  Identities=25%  Similarity=0.398  Sum_probs=105.4

Q ss_pred             CCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeeecccCCcCCCCce
Q psy4335          37 SSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHT  116 (152)
Q Consensus        37 ~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hT  116 (152)
                      ++|+|++|+++||||||++||++||+|||+|||+||++|+|+||++|+++||++|+.+|++||++|+|+       ++||
T Consensus        22 ~~l~ekvl~i~rV~k~tkgGR~~~f~alvvvGn~~G~vG~G~GKa~ev~~Ai~KA~~~Akknl~~V~~~-------~~~T   94 (143)
T CHL00138         22 NKWEERVIQIKRVSKVVKGGKKLSFRAIVVIGNENGWVGVGVGKADDVQNAVKKAVTDAKKNLITIPLT-------KSNS   94 (143)
T ss_pred             CCceEEEEEEeeeeEEecCCcEEEEEEEEEEECCCCeEEEeeEecchHHHHHHHHHHHHHhCeEEEEcC-------CCCe
Confidence            789999999999999999999999999999999999999999999999999999999999999999995       5699


Q ss_pred             eeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         117 VPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       117 I~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |||+++|| +   |.|+|||+|+||+|++.++++|++||
T Consensus        95 I~~~v~gk~gs~~V~l~Pap~G~Gi~a~~~i~~vlelaG  133 (143)
T CHL00138         95 IPHNITGIFGAAKVILRPSAPGSGVIAGGSVRIVLELAG  133 (143)
T ss_pred             EeeEEEEEEeeEEEEEEECCCCCcEEECcHHHHHHHHcC
Confidence            99999999 6   99999999999999999999999998

>TIGR01021 rpsE_bact ribosomal protein S5, bacterial/organelle type

Probab=100.00  E-value=1.9e-39  Score=252.27  Aligned_cols=106  Identities=25%  Similarity=0.413  Sum_probs=102.7

Q ss_pred             CccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeeecccCCcCCCCcee
Q psy4335          38 SLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTV  117 (152)
Q Consensus        38 ~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hTI  117 (152)
                      +|+|++|+++||||||++||++||+|+|+|||+||++|+|+||++|+++||++|+.+|++||++|+|+       ++ ||
T Consensus         1 ~l~e~vl~i~rv~k~tkgGr~~sf~alvvvGn~~G~vG~G~GKa~ev~~Ai~kA~~~Ak~nl~~V~~~-------~~-Ti   72 (154)
T TIGR01021         1 ELEERLIAVNRVSKVVKGGRRFSFSALVVVGDGKGRVGFGFGKAKEVPDAIKKAVEKARKNLINVPLT-------KG-TI   72 (154)
T ss_pred             CceeEEEEEeeeeEEecCCcEEEEEEEEEEECCCCeEeeeeeecchHHHHHHHHHHHHHhCeEEEecC-------CC-cc
Confidence            58999999999999999999999999999999999999999999999999999999999999999994       34 99


Q ss_pred             eeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         118 PCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       118 ~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      ||++.|| |   |+|+|||+|+||+|++.+++||++||
T Consensus        73 ~~~v~gk~gs~~V~l~Pap~G~Gi~a~~~~~~il~laG  110 (154)
T TIGR01021        73 PHEVIGVSGAAKVLLKPASPGTGVIAGGAVRAILELAG  110 (154)
T ss_pred             ceEEEEEECcEEEEEEECCCCCceEeCcHHHHHHHHcC
Confidence            9999999 6   99999999999999999999999998

This model finds chloroplast ribosomal protein S5 as well as bacterial ribosomal protein S5. A candidate mitochondrial form (Saccharomyces cerevisiae YBR251W and its homolog) differs substantially and is not included in this model.

>PRK00550 rpsE 30S ribosomal protein S5; Validated

Probab=100.00  E-value=6.2e-39  Score=252.46  Aligned_cols=107  Identities=28%  Similarity=0.398  Sum_probs=104.2

Q ss_pred             CCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeeecccCCcCCCCce
Q psy4335          37 SSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHT  116 (152)
Q Consensus        37 ~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hT  116 (152)
                      .+|+|+||+++||||||++||++||+|+|+|||+||++|||+||++|+++||++|+..|++||++|+|+        +||
T Consensus        11 ~~l~~~vl~v~rv~k~tk~Gr~~~f~alvvvGn~~G~vG~G~gKa~ev~~Ai~kA~~~A~~nl~~V~~~--------~~T   82 (168)
T PRK00550         11 LELEEKVVAINRVTKVVKGGRRFSFSALVVVGDGKGRVGFGYGKAREVPEAIRKAVEDAKKNMIKVPLV--------GGT   82 (168)
T ss_pred             CCceEEEEEEeeeEEEecCCcEEEEEEEEEEECCCCeEeeeeeecchHHHHHHHHHHHHHhCEEEEecC--------CCc
Confidence            489999999999999999999999999999999999999999999999999999999999999999993        499


Q ss_pred             eeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         117 VPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       117 I~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |||++.|| +   |+|+|||+|+||+|++.+++||++||
T Consensus        83 i~~~v~gk~gs~kV~l~Pap~G~Gl~a~~~i~~il~laG  121 (168)
T PRK00550         83 IPHEVIGKFGAAKVLLKPASEGTGVIAGGAVRAVLELAG  121 (168)
T ss_pred             cceeEEEEEceEEEEEEeCCCCCceEeChHHHHHHHHcC
Confidence            99999999 6   99999999999999999999999998

>PF00333 Ribosomal_S5: Ribosomal protein S5, N-terminal domain; InterPro: IPR013810 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.94  E-value=1e-26  Score=158.53  Aligned_cols=67  Identities=40%  Similarity=0.601  Sum_probs=64.8

Q ss_pred             CccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeee
Q psy4335          38 SLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRR  104 (152)
Q Consensus        38 ~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~r  104 (152)
                      +|++++|+++||++||++||++||+|||++||+||++|||+|||.|+++|+++|..+|++||++|+|
T Consensus         1 ~l~~~vl~v~rv~k~tk~Gr~~~~~alvvvGn~~G~vG~G~gKa~~~~~Ai~kA~~~A~knl~~V~R   67 (67)
T PF00333_consen    1 DLEEKVLEVKRVSKMTKGGRIFSFRALVVVGNGNGLVGFGVGKAKEVPDAIRKAKRKAKKNLIYVPR   67 (67)
T ss_dssp             SHEEEEEEEEEEEEEETTEEEEEEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHHHCSEEE-SC
T ss_pred             CceEEEEEEEEEEEEecCCceeEEEEEEEEecCCCcEecCcccchhHHHHHHHHHHHHHhCCEECcC
Confidence            5899999999999999999999999999999999999999999999999999999999999999987

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 S5 is one of the proteins from the small ribosomal subunit, and is a protein of 166 to 254 amino-acid residues. In Escherichia coli, S5 is known to be important in the assembly and function of the 30S ribosomal subunit. Mutations in S5 have been shown to increase translational error frequencies. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ], groups bacterial, cyanelle, red algal chloroplast, archaeal and fungal mitochondrial S5; mammalian, Caenorhabditis elegans, Drosophila and plant S2; and yeast S4 (SUP44). This entry represents the N-terminal domain of ribosomal protein S5, which has an alpha-beta(3)-alpha structure that folds into two layers, alpha/beta.; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2ZKQ_e 2XZN_E 2XZM_E 3O30_B 1S1H_E 3IZB_E 3U5C_C 3U5G_C 3O2Z_B 3BBN_E ....

>KOG2646|consensus

Probab=99.84  E-value=5.2e-22  Score=171.04  Aligned_cols=107  Identities=21%  Similarity=0.215  Sum_probs=98.7

Q ss_pred             CccceeEEE--eeeeeeecCCeeEEEEEEEEecCCCceEEeeeecch-hHHHHHHHHHHHHhhcceeeeecccCCcCCCC
Q psy4335          38 SLKDEVLKI--MPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSK-EVATAIRGAIILAKLSVVPVRRGYWGNKIGKP  114 (152)
Q Consensus        38 ~l~~~vl~i--~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~-ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~  114 (152)
                      +|+.+.+.+  +++..||+.|+..+|+|||+|||+||.+|||+||+. +...|+.+|+..|.+||.+|+| |      +.
T Consensus       181 Dfe~r~l~lvrr~~~~~~r~Gki~s~~~LVvvGn~nGaaG~~eGKa~~~~s~A~~ka~~rAv~~l~~ieR-y------E~  253 (396)
T KOG2646|consen  181 DFELRHLELVRRRVENQNRKGKIASMYALVVVGNGNGAAGLGEGKAADPNSPAIYKAIGRAVRNLGYIER-Y------ER  253 (396)
T ss_pred             hhhHHHHHHHHhhhhccccccceeeEEEEEEEecCCcceeeccccCcCccCHHHHHHHHHHHhhcCcccc-c------cC
Confidence            466777776  668888899999999999999999999999999999 7899999999999999999999 7      45


Q ss_pred             ceeeeeeeee--e--EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         115 HTVPCKRLTH--G--DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       115 hTI~~~v~gk--g--V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |||++|+.-+  +  ++|+.+|+|+|+.|||++.+||++||
T Consensus       254 rTiygDi~~r~~~~~l~mk~rp~GfGLrcn~il~kIC~~~G  294 (396)
T KOG2646|consen  254 RTIYGDIDDRFHEVRLDMKSRPDGFGLRCNPILIKICECAG  294 (396)
T ss_pred             ccccccchhhhhhhhhhhhhCCCcccccccHHHHHHHHHhc
Confidence            9999999777  3  99999999999999999999999998

>PF03719 Ribosomal_S5_C: Ribosomal protein S5, C-terminal domain; InterPro: IPR005324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.72  E-value=9.8e-09  Score=71.10  Aligned_cols=31  Identities=6%  Similarity=-0.020  Sum_probs=28.5

Q ss_pred             eeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         121 RLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       121 v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      ++|| +   |+|+|||+|+||+|++.++.||+|||
T Consensus         1 V~gk~g~~~V~l~Pap~G~Gl~a~~~vr~il~laG   35 (74)
T PF03719_consen    1 VTGKFGATKVFLKPAPPGTGLVAGGAVRAILELAG   35 (74)
T ss_dssp             EEEEETTEEEEEEESCTTSCEESSHHHHHHHHHTT
T ss_pred             CEEEEeeEEEEEEeCCCCcceeechhHHHHHHhcc
Confidence            4567 4   99999999999999999999999998

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 is a family of proteins related to the 30S ribosomal protein S5P from Sulfolobus acidocaldarius (O05641 from SWISSPROT). Ribosomal protein S5 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S5 is known to be important in the assembly and function of the 30S ribosomal subunit. Mutations in S5 have been shown to increase translational error frequencies.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XZN_E 2XZM_E 2WDK_E 3KNJ_E 3HUY_E 2B9M_E 2Y18_E 1XMQ_E 1IBM_E 3TVF_H ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	152
3iz6_E	274	Localization Of The Small Subunit Ribosomal Protein		1e-47
2zkq_e	179	Structure Of A Mammalian Ribosomal 40s Subunit With		9e-47
3izb_E	254	Localization Of The Small Subunit Ribosomal Protein		5e-41
3zey_P	266	High-resolution Cryo-electron Microscopy Structure		6e-39
2xzm_E	296	Crystal Structure Of The Eukaryotic 40s Ribosomal S		5e-37
1s1h_E	149	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		4e-32
3jyv_E	162	Structure Of The 40s Rrna And Proteins And PE TRNA		6e-32
3j20_F	236	Promiscuous Behavior Of Proteins In Archaeal Riboso		1e-16
1pkp_A	150	The Structure Of Ribosomal Protein S5 Reveals Sites		6e-08
1eg0_B	148	Fitting Of Components With Known Structure Into An		6e-08
1qd7_D	145	Partial Model For 30s Ribosomal Subunit Length = 14		7e-08
3bbn_E	308	Homology Model For The Spinach Chloroplast 30s Subu		2e-06

>pdb|3IZ6|E Chain E, Localization Of The Small Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 274

Iteration: 1
 Score =  184 bits (468), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 85/113 (75%), Positives = 101/113 (89%), Gaps = 1/113 (0%)
Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           ++G+   +E+IYL SLP+KE +I++  +   LKDEV+KI PVQKQTRAGQRTRFKAFV +
Sbjct: 55  KEGRFSKIEEIYLHSLPVKEHQIVETLV-PGLKDEVMKITPVQKQTRAGQRTRFKAFVVV 113
Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 120
           GD+NGH+GLGVKC+KEVATAIRGAIILAKLSVVPVRRGYWGNKIG+PHTVPCK
Sbjct: 114 GDNNGHVGLGVKCAKEVATAIRGAIILAKLSVVPVRRGYWGNKIGQPHTVPCK 166

>pdb|2ZKQ|EE Chain e, Structure Of A Mammalian Ribosomal 40s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 179

Iteration: 1
 Score =  182 bits (461), Expect = 9e-47,   Method: Compositional matrix adjust.
 Identities = 89/116 (76%), Positives = 100/116 (86%), Gaps = 4/116 (3%)
Query: 30  IIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIR 89
           IIDF++G+SLKDEVLKI+PVQKQTRAGQRTRFKAFVAIGD NGH+GLGVKCSKEVATAIR
Sbjct: 1   IIDFYLGASLKDEVLKIVPVQKQTRAGQRTRFKAFVAIGDHNGHVGLGVKCSKEVATAIR 60
Query: 90  GAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD----QQIPGGRKSKVLSSP 141
           GAIILAKLS+VPVRRGYWGNKIGKPHTVPCK          + IP  R + ++S+P
Sbjct: 61  GAIILAKLSIVPVRRGYWGNKIGKPHTVPCKVTGRSGSVPVRLIPAPRGTGIVSAP 116

>pdb|3IZB|E Chain E, Localization Of The Small Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 254

Iteration: 1
 Score =  162 bits (411), Expect = 5e-41,   Method: Compositional matrix adjust.
 Identities = 80/140 (57%), Positives = 105/140 (75%), Gaps = 9/140 (6%)
Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           + GKI ++E+I+L SLP+KEF+IID  +   L+DEV+ I PVQKQTRAGQRTRFKA V +
Sbjct: 46  KAGKITTIEEIFLHSLPVKEFQIIDTLL-PGLQDEVMNIKPVQKQTRAGQRTRFKAVVVV 104
Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTHGD- 126
           GDSNGH+GLG+K +KEVA AIR  II+AKLSV+P+RRGYWG  +G+PH++  K  T G  
Sbjct: 105 GDSNGHVGLGIKTAKEVAGAIRAGIIIAKLSVIPIRRGYWGTNLGQPHSLATK--TTGKC 162
Query: 127 -----QQIPGGRKSKVLSSP 141
                + IP  R S +++SP
Sbjct: 163 GSVTVRLIPAPRGSGIVASP 182

>pdb|3ZEY|P Chain P, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 266

Iteration: 1
 Score =  155 bits (393), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 76/139 (54%), Positives = 102/139 (73%), Gaps = 5/139 (3%)
Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFI-GSSLKDEVLKIMPVQKQTRAGQRTRFKAFVA 66
           +D KI SLE+I+LFS+PIKE +I+D  I    L+DE++ + PVQK T AGQRTRFKAF  
Sbjct: 54  KDQKITSLEEIFLFSMPIKEHQIVDQLIREGDLRDEMMLVFPVQKATSAGQRTRFKAFNV 113
Query: 67  IGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRL---- 122
           +GD NGHIG+G +  KEV+ AIR ++I AKLS+VPVRRGYWGNKIG+PHT+P K      
Sbjct: 114 VGDGNGHIGVGARVGKEVSLAIRASMIAAKLSIVPVRRGYWGNKIGEPHTIPIKVTGKCG 173
Query: 123 THGDQQIPGGRKSKVLSSP 141
           +   + IP  R + ++++P
Sbjct: 174 SVAVRLIPAPRGAGIVAAP 192

>pdb|2XZM|E Chain E, 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 = 296

Iteration: 1
 Score =  149 bits (377), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 74/119 (62%), Positives = 90/119 (75%), Gaps = 8/119 (6%)
Query: 10  GKIQSLEQIYLFSLPIKEFEIIDFFIGSS--------LKDEVLKIMPVQKQTRAGQRTRF 61
           GKI SL++I+ +S+PIKE EIID F   +        L +EVL+I PVQKQT+AGQRTRF
Sbjct: 40  GKISSLDEIFKYSIPIKEPEIIDHFYPKNKDVQAEHKLMEEVLQITPVQKQTQAGQRTRF 99
Query: 62  KAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 120
           K FV +GDSNGHIGLG K +KEV  AI+GAI  AKL++VPVR+GYWGNKI   HT+P K
Sbjct: 100 KGFVVVGDSNGHIGLGWKVAKEVQGAIKGAITHAKLNMVPVRKGYWGNKIANAHTIPQK 158

>pdb|1S1H|E Chain E, 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 = 149

Iteration: 1
 Score =  133 bits (334), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 65/109 (59%), Positives = 82/109 (75%), Gaps = 8/109 (7%)
Query: 39  LKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLS 98
           L+DEV+ I PVQKQTRAGQRTRFKA V +GDSNGH+GLG+K +KEVA AIR  II+AKLS
Sbjct: 2   LQDEVMNIKPVQKQTRAGQRTRFKAVVVVGDSNGHVGLGIKTAKEVAGAIRAGIIIAKLS 61
Query: 99  VVPVRRGYWGNKIGKPHTVPCKRLTHGD------QQIPGGRKSKVLSSP 141
           V+P+RRGYWG  +G+PH++  K  T G       + IP  R S +++SP
Sbjct: 62  VIPIRRGYWGTNLGQPHSLATK--TTGKCGSVTVRLIPAPRGSGIVASP 108

>pdb|3JYV|E Chain E, 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 = 162

Iteration: 1
 Score =  132 bits (333), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 65/109 (59%), Positives = 82/109 (75%), Gaps = 8/109 (7%)
Query: 39  LKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLS 98
           L+DEV+ I PVQKQTRAGQRTRFKA V +GDSNGH+GLG+K +KEVA AIR  II+AKLS
Sbjct: 2   LQDEVMNIKPVQKQTRAGQRTRFKAVVVVGDSNGHVGLGIKTAKEVAGAIRAGIIIAKLS 61
Query: 99  VVPVRRGYWGNKIGKPHTVPCKRLTHGD------QQIPGGRKSKVLSSP 141
           V+P+RRGYWG  +G+PH++  K  T G       + IP  R S +++SP
Sbjct: 62  VIPIRRGYWGTNLGQPHSLATK--TTGKCGSVTVRLIPAPRGSGIVASP 108

>pdb|3J20|F Chain F, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (30s Ribosomal Subunit) Length = 236

Iteration: 1
 Score = 81.6 bits (200), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 43/119 (36%), Positives = 70/119 (58%), Gaps = 5/119 (4%)
Query: 5   LAFRDGKIQSLEQIYLFSLPIKEFEIIDFF---IGSSLKDEVLKIMPVQKQTRAGQRTRF 61
           +  ++G+I  + +I+     IKE EIID     + +    EVL I    + T +G+R RF
Sbjct: 24  MMVKEGQITDIHEIFRRGYQIKEPEIIDVLLPEVNARENQEVLDIALTVRMTDSGRRVRF 83
Query: 62  KAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRR--GYWGNKIGKPHTVP 118
           +   A+G+ +G++GLG+   KEV  AIR AI  AKL+++ ++R  G W  +  +PH+VP
Sbjct: 84  RVLAAVGNRDGYVGLGIGHGKEVGIAIRKAINYAKLNIIEIKRGCGSWECRCRRPHSVP 142

>pdb|1PKP|A Chain A, The Structure Of Ribosomal Protein S5 Reveals Sites Of Interaction With 16s Rrna Length = 150

Iteration: 1
 Score = 53.1 bits (126), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 27/65 (41%), Positives = 40/65 (61%)
Query: 38  SLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKL 97
            L++ V+ +  V K  + G+R RF A V +GD NGH+G G   ++EV  AIR AI  AK 
Sbjct: 10  ELEERVVAVNRVAKVVKGGRRLRFSALVVVGDKNGHVGFGTGKAQEVPEAIRKAIEDAKK 69
Query: 98  SVVPV 102
           +++ V
Sbjct: 70  NLIEV 74

>pdb|1QD7|D Chain D, Partial Model For 30s Ribosomal Subunit Length = 145

Iteration: 1
 Score = 53.1 bits (126), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 27/65 (41%), Positives = 40/65 (61%)
Query: 38  SLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKL 97
            L++ V+ +  V K  + G+R RF A V +GD NGH+G G   ++EV  AIR AI  AK 
Sbjct: 7   ELEERVVAVNRVAKVVKGGRRLRFSALVVVGDKNGHVGFGTGKAQEVPEAIRKAIEDAKK 66
Query: 98  SVVPV 102
           +++ V
Sbjct: 67  NLIEV 71

>pdb|3BBN|E Chain E, Homology Model For The Spinach Chloroplast 30s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 308

Iteration: 1
 Score = 48.1 bits (113), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 22/68 (32%), Positives = 42/68 (61%)
Query: 35  IGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIIL 94
           I    ++ V+++  V K  + G+  RF+A V +GD  G +G+GV  +KEV +A++ A + 
Sbjct: 148 IRDGFEENVVQVRRVTKVVKGGKHMRFRAIVVVGDKKGQVGVGVGKAKEVVSAVQKAAVD 207
Query: 95  AKLSVVPV 102
           A+ +++ V
Sbjct: 208 ARRNIITV 215

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	152
3u5c_C	254	Guanine nucleotide-binding protein subunit beta-L	8e-63
3iz6_E	274	40S ribosomal protein S2 (S5P); eukaryotic ribosom	4e-60
2xzm_E	296	Ribosomal protein S5 containing protein; ribosome,	1e-57
1pkp_A	150	Ribosomal protein S5; 2.80A {Geobacillus stearothe	4e-10
3i1m_E	167	30S ribosomal protein S5; ribosome structure, prot	4e-10
3bbn_E	308	Ribosomal protein S5; small ribosomal subunit, spi	4e-10
3r8n_E	150	30S ribosomal protein S5; protein biosynthesis, RN	5e-10
2vqe_E	162	30S ribosomal protein S5; tRNA-binding, rRNA-bindi	6e-10

>3u5c_C Guanine nucleotide-binding protein subunit beta-L protein (ASC1, RACK1); translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_E 3o30_B 3o2z_B 3u5g_C 3jyv_E* 1s1h_E Length = 254

 Score =  192 bits (489), Expect = 8e-63
 Identities = 72/113 (63%), Positives = 93/113 (82%), Gaps = 1/113 (0%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           + GKI ++E+I+L SLP+KEF+IID  +   L+DEV+ I PVQKQTRAGQRTRFKA V +
Sbjct: 46  KAGKITTIEEIFLHSLPVKEFQIIDTLLPG-LQDEVMNIKPVQKQTRAGQRTRFKAVVVV 104

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 120
           GDSNGH+GLG+K +KEVA AIR  II+AKLSV+P+RRGYWG  +G+PH++  K
Sbjct: 105 GDSNGHVGLGIKTAKEVAGAIRAGIIIAKLSVIPIRRGYWGTNLGQPHSLATK 157

>3iz6_E 40S ribosomal protein S2 (S5P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 2zkq_e 1s1h_E Length = 274

 Score =  186 bits (473), Expect = 4e-60
 Identities = 85/113 (75%), Positives = 101/113 (89%), Gaps = 1/113 (0%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAI 67
           ++G+   +E+IYL SLP+KE +I++  +   LKDEV+KI PVQKQTRAGQRTRFKAFV +
Sbjct: 55  KEGRFSKIEEIYLHSLPVKEHQIVETLVPG-LKDEVMKITPVQKQTRAGQRTRFKAFVVV 113

Query: 68  GDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCK 120
           GD+NGH+GLGVKC+KEVATAIRGAIILAKLSVVPVRRGYWGNKIG+PHTVPCK
Sbjct: 114 GDNNGHVGLGVKCAKEVATAIRGAIILAKLSVVPVRRGYWGNKIGQPHTVPCK 166

>2xzm_E Ribosomal protein S5 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_E Length = 296

 Score =  180 bits (458), Expect = 1e-57
 Identities = 74/121 (61%), Positives = 90/121 (74%), Gaps = 8/121 (6%)

Query: 8   RDGKIQSLEQIYLFSLPIKEFEIIDFFIG--------SSLKDEVLKIMPVQKQTRAGQRT 59
           + GKI SL++I+ +S+PIKE EIID F            L +EVL+I PVQKQT+AGQRT
Sbjct: 38  KYGKISSLDEIFKYSIPIKEPEIIDHFYPKNKDVQAEHKLMEEVLQITPVQKQTQAGQRT 97

Query: 60  RFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPC 119
           RFK FV +GDSNGHIGLG K +KEV  AI+GAI  AKL++VPVR+GYWGNKI   HT+P 
Sbjct: 98  RFKGFVVVGDSNGHIGLGWKVAKEVQGAIKGAITHAKLNMVPVRKGYWGNKIANAHTIPQ 157

Query: 120 K 120
           K
Sbjct: 158 K 158

>1pkp_A Ribosomal protein S5; 2.80A {Geobacillus stearothermophilus} SCOP: d.14.1.1 d.50.1.2 PDB: 1eg0_B 1dv4_E* 1qd7_D Length = 150

 Score = 53.7 bits (130), Expect = 4e-10
 Identities = 29/72 (40%), Positives = 40/72 (55%), Gaps = 2/72 (2%)

Query: 36  GSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILA 95
              L++ V+ +  V K  + G+R RF A V +GD NGH+G G   ++EV  AIR AI  A
Sbjct: 8   KLELEERVVAVNRVAKVVKGGRRLRFSALVVVGDKNGHVGFGTGKAQEVPEAIRKAIEDA 67

Query: 96  K--LSVVPVRRG 105
           K  L  VP+   
Sbjct: 68  KKNLIEVPIVGT 79

>3i1m_E 30S ribosomal protein S5; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_E* 1vs5_E 3i1o_E 3i1q_E 3i1s_E 3i1z_E 3i21_E 3izv_I* 3izw_I* 3kc4_E 3or9_E 3ora_E 3sfs_E* 3uoq_E* Length = 167

 Score = 54.1 bits (131), Expect = 4e-10
 Identities = 20/72 (27%), Positives = 37/72 (51%), Gaps = 2/72 (2%)

Query: 36  GSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILA 95
              L+++++ +  V K  + G+   F A   +GD NG +G G   ++EV  AI+ A+  A
Sbjct: 8   AGELQEKLIAVNRVSKTVKGGRIFSFTALTVVGDGNGRVGFGYGKAREVPAAIQKAMEKA 67

Query: 96  K--LSVVPVRRG 105
           +  +  V +  G
Sbjct: 68  RRNMINVALNNG 79

>3bbn_E Ribosomal protein S5; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 308

 Score = 55.6 bits (134), Expect = 4e-10
 Identities = 22/72 (30%), Positives = 42/72 (58%), Gaps = 2/72 (2%)

Query: 36  GSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILA 95
               ++ V+++  V K  + G+  RF+A V +GD  G +G+GV  +KEV +A++ A + A
Sbjct: 149 RDGFEENVVQVRRVTKVVKGGKHMRFRAIVVVGDKKGQVGVGVGKAKEVVSAVQKAAVDA 208

Query: 96  K--LSVVPVRRG 105
           +  +  VP+ + 
Sbjct: 209 RRNIITVPMTKY 220

>2vqe_E 30S ribosomal protein S5; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: i.1.1.3 PDB: 1fka_E 1gix_H* 1hnw_E* 1hnx_E* 1hnz_E* 1hr0_E 1ibk_E* 1ibl_E* 1ibm_E 1jgo_H* 1jgp_H* 1jgq_H* 1ml5_H* 1xmo_E* 1xmq_E* 1xnq_E* 1xnr_E* 1yl4_H 2b64_E* 2b9m_E* ... Length = 162

 Score = 53.7 bits (130), Expect = 6e-10
 Identities = 21/71 (29%), Positives = 38/71 (53%), Gaps = 2/71 (2%)

Query: 37  SSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAK 96
           +  +++++ I    +    G+R RF A V +GD  G +GLG   + EV  A++ A   A+
Sbjct: 4   TDFEEKMILIRRTARMQAGGRRFRFGALVVVGDRQGRVGLGFGKAPEVPLAVQKAGYYAR 63

Query: 97  --LSVVPVRRG 105
             +  VP++ G
Sbjct: 64  RNMVEVPLQNG 74

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	152
3u5c_C	254	Guanine nucleotide-binding protein subunit beta-L	100.0
3j20_F	236	30S ribosomal protein S5P; archaea, archaeal, KINK	100.0
2xzm_E	296	Ribosomal protein S5 containing protein; ribosome,	100.0
3iz6_E	274	40S ribosomal protein S2 (S5P); eukaryotic ribosom	100.0
3bbn_E	308	Ribosomal protein S5; small ribosomal subunit, spi	100.0
3r8n_E	150	30S ribosomal protein S5; protein biosynthesis, RN	100.0
1pkp_A	150	Ribosomal protein S5; 2.80A {Geobacillus stearothe	100.0
2vqe_E	162	30S ribosomal protein S5; tRNA-binding, rRNA-bindi	100.0
3i1m_E	167	30S ribosomal protein S5; ribosome structure, prot	100.0

>3u5c_C Guanine nucleotide-binding protein subunit beta-L protein (ASC1, RACK1); translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_E 3o30_B 3o2z_B 3u5g_C 3jyv_E* 1s1h_E

Probab=100.00  E-value=4.6e-65  Score=419.87  Aligned_cols=147  Identities=54%  Similarity=0.914  Sum_probs=145.8

Q ss_pred             ceeeccCCccCHHHHhhcCCCCCchhhhhcccCCCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchh
Q psy4335           4 CLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKE   83 (152)
Q Consensus         4 ~~~vk~~~i~~~~~~~~~~l~i~e~eiid~~~~~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~e   83 (152)
                      |||||||||+||||||+|||||+|+||||||| ++|+|+||+|+||||||++||++||+|||+|||+||+||+|+|||+|
T Consensus        42 G~lVk~~kiksleei~~~slpikE~eiiD~~l-~~Lke~Vl~I~rVqK~tkgGrr~rF~AlVVVGD~nG~VGlG~gkakE  120 (254)
T 3u5c_C           42 GRLVKAGKITTIEEIFLHSLPVKEFQIIDTLL-PGLQDEVMNIKPVQKQTRAGQRTRFKAVVVVGDSNGHVGLGIKTAKE  120 (254)
T ss_dssp             HHHHHTTCCCCHHHHHHTTCCCCCHHHHHHHC-CCCBCCEEEEEEEEEEETTEEEEEEEEEEEEECSSSEEEEEEEEESS
T ss_pred             cchhhcCccccHHHHHHcCCCccchHHHHHHH-HhhhhhEEEEeeeEEEecCCcEEEEEEEEEecCCCCceeecccccch
Confidence            89999999999999999999999999999999 99999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcceeeeecccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335          84 VATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus        84 v~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |++||++|+.+|++||+||+|+||+|+++++|||||+++|+ |   |+|+|||+||||+|++++++||+|||
T Consensus       121 V~~AIrkAi~~Ak~nlipV~rgyWg~~~g~~hTIp~~V~Gk~Gs~~V~L~PAp~GtGIiag~~~r~vLelAG  192 (254)
T 3u5c_C          121 VAGAIRAGIIIAKLSVIPIRRGYWGTNLGQPHSLATKTTGKCGSVTVRLIPAPRGSGIVASPAVKKLLQLAG  192 (254)
T ss_dssp             HHHHHHHHHHHHHHTCEECCEECSSSCCSSCCEESSCEEEEETTEEEEEEECCTTCCEESCHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCeEEeccccccccCCCCcceeeEEEeeecceEEEEecCCCCcCeecCcHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999 6   99999999999999999999999998

>3j20_F 30S ribosomal protein S5P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=1.8e-64  Score=412.88  Aligned_cols=147  Identities=33%  Similarity=0.587  Sum_probs=145.4

Q ss_pred             ceeeccCCccCHHHHhhcCCCCCchhhhhcccCCCcc----ceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeee
Q psy4335           4 CLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLK----DEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVK   79 (152)
Q Consensus         4 ~~~vk~~~i~~~~~~~~~~l~i~e~eiid~~~~~~l~----~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~g   79 (152)
                      |||||||||+||||||+|||||+|+||||||| ++|+    |+||+|+||||||++||++||+|||+|||+||+||+|+|
T Consensus        23 G~lVk~~ki~sleei~~~~lpike~eiid~~l-~~Lk~~~~e~Vl~I~rV~K~tkgGrr~rF~AlVvVGD~nG~VGlG~g  101 (236)
T 3j20_F           23 GMMVKEGQITDIHEIFRRGYQIKEPEIIDVLL-PEVNARENQEVLDIALTVRMTDSGRRVRFRVLAAVGNRDGYVGLGIG  101 (236)
T ss_dssp             HHHHHTTCSCCHHHHHHHTCCCCCSHHHHHHC-CSSSSCCEEEEEEECCCEEEETTEEEECEEEEEEEEETTTEEEEEEE
T ss_pred             cceeecCccccHHHHHhcCCCcccHHHHHHHH-HhhcccCCcEEEEEeeeEEeecCCcEEEEEEEEEEECCCCcCccccc
Confidence            89999999999999999999999999999999 8999    999999999999999999999999999999999999999


Q ss_pred             cchhHHHHHHHHHHHHhhcceeeeec--ccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335          80 CSKEVATAIRGAIILAKLSVVPVRRG--YWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus        80 ks~ev~~Ai~kA~~~Ak~nli~v~rg--y~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      ||+|+++||++|+.+|++||++|+|+  ||+|+++++|||||+++|+ |   |+|+|||+||||+|+|+++++|+|||
T Consensus       102 KakEV~~AIrkAi~~Ak~nli~V~r~~g~W~~~~g~~hTIp~~V~Gk~Gs~~V~L~PAp~GtGIiag~~~r~vLelAG  179 (236)
T 3j20_F          102 HGKEVGIAIRKAINYAKLNIIEIKRGCGSWECRCRRPHSVPFAVEGKEGSVRVRLIPGPRGLGLVIGDVGKKILRLAG  179 (236)
T ss_dssp             EESSHHHHHHHHHHHHHHSEEECCCBSSCSSSCCSSCCBCSSCEEEEETTEEEEEECCCSSCCCBSCHHHHHHHHHHT
T ss_pred             cchhHHHHHHHHHHHHHhCeEEEecccccccccCCCCCceeeEEEEEECCEEEEEEcCCCcCCcccCcHHHHHHHhCC
Confidence            99999999999999999999999998  9999999999999999999 6   99999999999999999999999998

>2xzm_E Ribosomal protein S5 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_E

Probab=100.00  E-value=7.3e-62  Score=407.43  Aligned_cols=147  Identities=54%  Similarity=0.848  Sum_probs=144.9

Q ss_pred             ceeeccCCccCHHHHhhcCCCCCchhhhhcccCCC---------ccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceE
Q psy4335           4 CLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSS---------LKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHI   74 (152)
Q Consensus         4 ~~~vk~~~i~~~~~~~~~~l~i~e~eiid~~~~~~---------l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~v   74 (152)
                      |||||||||+||||||+|||||+|+||||||| ++         |+|+||+|+||||||++||++||+|||+|||+||+|
T Consensus        34 GrlVk~gkI~sleei~~~slpIkE~eIiD~ll-~~~~~~~~~~~L~ekVv~I~rVqKvTkgGRr~rF~AlVVVGD~nG~V  112 (296)
T 2xzm_E           34 GRLVKYGKISSLDEIFKYSIPIKEPEIIDHFY-PKNKDVQAEHKLMEEVLQITPVQKQTQAGQRTRFKGFVVVGDSNGHI  112 (296)
T ss_dssp             HHHHHTTCSCCHHHHHHTTCCCCCSHHHHHHS-CTTCCSCCTTCCEEEEEEEEEEEEEETTEEEEEEEEEEEEEETTTEE
T ss_pred             cccccCCccCCHHHHHhcCCCcCchhhhHHHh-ccCcccchhhhheeEEEEEEeEEEEecCCcEEEEEEEEEEeCCCccC
Confidence            89999999999999999999999999999999 55         999999999999999999999999999999999999


Q ss_pred             EeeeecchhHHHHHHHHHHHHhhcceeeeecccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhccc
Q psy4335          75 GLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTS  150 (152)
Q Consensus        75 G~G~gks~ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lA  150 (152)
                      |||+|||+||++||+||+.+|++||++|+|+||||+++++|||||+++|+ |   |+|+|||+||||+|++++++||+||
T Consensus       113 GlG~GKAkEV~~AIrKAi~~Ak~nli~V~rg~wen~~g~~hTIph~V~Gk~Gs~~V~L~PAP~GTGIiAg~~~r~VLelA  192 (296)
T 2xzm_E          113 GLGWKVAKEVQGAIKGAITHAKLNMVPVRKGYWGNKIANAHTIPQKITGKSGSVRIRLVPAPRGTGIVAAPIPKKVLQFA  192 (296)
T ss_dssp             EEEEEEESSHHHHHHHHHHHHHHTEEECCCBCSSSCCSSCCBCSSCEEEEETTEEEEEECCCSSCCCBSCHHHHHHHHTT
T ss_pred             ccceeechHHHHHHHHHHHHHHhCcEEEecccccccCCCCCeeeEEEEEEECcEEEEEEECCCCcceecCcHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999 6   9999999999999999999999999


Q ss_pred             C
Q psy4335         151 K  151 (152)
Q Consensus       151 g  151 (152)
                      |
T Consensus       193 G  193 (296)
T 2xzm_E          193 G  193 (296)
T ss_dssp             T
T ss_pred             C
Confidence            8

>3iz6_E 40S ribosomal protein S2 (S5P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 2zkq_e

Probab=100.00  E-value=2.5e-64  Score=418.91  Aligned_cols=147  Identities=62%  Similarity=1.015  Sum_probs=145.6

Q ss_pred             ceeeccCCccCHHHHhhcCCCCCchhhhhcccCCCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchh
Q psy4335           4 CLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKE   83 (152)
Q Consensus         4 ~~~vk~~~i~~~~~~~~~~l~i~e~eiid~~~~~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~e   83 (152)
                      ||||||||||||||||+|||||+|+||||||| ++|+|+||+|+||||||++||++||+|||+|||+||+||||++||+|
T Consensus        51 G~lVk~~kiksleei~~~slpIkE~eIiD~~l-~~Lke~Vl~I~rVqK~tkgGrr~rF~AlVVVGD~nG~VGlG~gKakE  129 (274)
T 3iz6_E           51 GRLVKEGRFSKIEEIYLHSLPVKEHQIVETLV-PGLKDEVMKITPVQKQTRAGQRTRFKAFVVVGDNNGHVGLGVKCAKE  129 (274)
T ss_dssp             TCCCSSCTTHHHHHHHTTHHHHHHHTCCSSSS-HHHHHHHHCCSHHHHHHTTTCSSSCSSCCSHHHHCCCCEEEEEEECC
T ss_pred             cceeccCccccHHHHHHcCCCccchHHHHHHH-HhhhhcEEEEeeeEeEecCCcEEEEEEEEEecCCCCceeccccccch
Confidence            89999999999999999999999999999999 89999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcceeeeecccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335          84 VATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus        84 v~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |++||++|+.+|++||+||+|+||+|+++++|||||+++|+ +   |+|+|||+||||+|++++++||+|||
T Consensus       130 V~~AIrkAi~~AK~nlipV~rgyWg~~~g~~hTIph~V~Gk~Gs~~V~L~PAP~GTGIiag~~~r~vLelAG  201 (274)
T 3iz6_E          130 VATAIRGAIILAKLSVVPVRRGYWGNKIGQPHTVPCKVTGKCGSVTVRMVPAPRGSGIVAARVPKKVLQFAG  201 (274)
T ss_dssp             EEECSSCEEECEEEEEEECSSSBCCCCEEESSHHHHHHHHHHHHHSSCBCCCBCSSSCBSSCEECCCSSCEE
T ss_pred             HHHHHHHHHHHHHhCcEEeccccccccCCCCcccceEEEEEEcCEEEEEeeCCCCcCeecCcHHHHHHhhcC
Confidence            99999999999999999999999999999999999999999 6   99999999999999999999999998

>3bbn_E Ribosomal protein S5; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=6.3e-49  Score=330.65  Aligned_cols=136  Identities=24%  Similarity=0.303  Sum_probs=103.8

Q ss_pred             cceeeccCCccCHHHHhhcCCCCCchhhhhcccCCCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecch
Q psy4335           3 QCLAFRDGKIQSLEQIYLFSLPIKEFEIIDFFIGSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSK   82 (152)
Q Consensus         3 ~~~~vk~~~i~~~~~~~~~~l~i~e~eiid~~~~~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~   82 (152)
                      -||+|+|++||+. |+|.|||||+|+||+|+     |+|+||+|+||||||++||++||+|||+|||+||+||+|+|||+
T Consensus       122 lGrlVk~~kik~~-~~~~fsl~ike~ei~d~-----f~ekVv~I~RV~KvTkgGRr~rF~AlVVVGDgnG~VGlG~GKAk  195 (308)
T 3bbn_E          122 LGNDVYAMDSKIK-KATGFGSKSKKEKIRDG-----FEENVVQVRRVTKVVKGGKHMRFRAIVVVGDKKGQVGVGVGKAK  195 (308)
T ss_dssp             ------------------------------C-----CEEEEEEEECCEEEETTEEEECCEEEEEEECSSSEEEEEEEECS
T ss_pred             cCccCCCccccch-hhhcccccccccccccc-----ceeeEEEEeeeEEEecCCcEEEEEEEEEEeCCCceEeeeeeecc
Confidence            4999999999976 89999999999999994     56999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhcceeeeecccCCcCCCCceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335          83 EVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus        83 ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      ||++||+||+.+|++||++|+|+       ++|||||+++|| |   |+|+|||+||||+|++++|+||+|||
T Consensus       196 EV~~AIrKAi~~Akknli~V~r~-------~~hTIph~V~Gk~Gs~~V~L~PAP~GTGIiAg~~vr~VLelAG  261 (308)
T 3bbn_E          196 EVVSAVQKAAVDARRNIITVPMT-------KYLTFPHRNEADYGAARVMLRPAAPGTGVIAGGAVRTVLEMAG  261 (308)
T ss_dssp             SHHHHHHHHHHTTTTSCEECCCC-------SSSBCSSCEEEEETTEEEEEEECCTTCCEECCTTTHHHHTTTT
T ss_pred             hHHHHHHHHHHHHHhCeEEEecC-------CCcccceEEEEEEeeEEEEEEECCCCCceecCcHHHHHHHhcC
Confidence            99999999999999999999995       679999999999 6   99999999999999999999999998

>1pkp_A Ribosomal protein S5; 2.80A {Geobacillus stearothermophilus} SCOP: d.14.1.1 d.50.1.2 PDB: 1eg0_B 1dv4_E* 1qd7_D

Probab=100.00  E-value=7.8e-43  Score=269.14  Aligned_cols=107  Identities=32%  Similarity=0.460  Sum_probs=104.1

Q ss_pred             CCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeeecccCCcCCCCce
Q psy4335          37 SSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHT  116 (152)
Q Consensus        37 ~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hT  116 (152)
                      ++|+|++|+|+||||||++||++||+|||+|||+||++|||+|||+|+++||+||+.+|++||++|+|+       + ||
T Consensus         9 ~~l~e~vv~i~rV~K~tk~Gr~~~F~alVvVGd~nG~vG~G~gka~ev~~Ai~kA~~~Ak~nl~~V~~~-------~-~T   80 (150)
T 1pkp_A            9 LELEERVVAVNRVAKVVKGGRRLRFSALVVVGDKNGHVGFGTGKAQEVPEAIRKAIEDAKKNLIEVPIV-------G-TT   80 (150)
T ss_dssp             SCCEEEEEEEECSSSBCSSCCSSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHHTTSCEECCCB-------T-TB
T ss_pred             CCceEEEEEEEeEEEEeCCCcEEEEEEEEEEeCCCCeEeeeEEecchHHHHHHHHHHHHHHCCeEEccC-------C-ce
Confidence            479999999999999999999999999999999999999999999999999999999999999999994       3 99


Q ss_pred             eeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         117 VPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       117 I~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |||+++|+ |   |+|+|||+||||+|+++++++|+|||
T Consensus        81 ip~~v~gk~gs~~V~l~Pap~GtGiia~~~~r~vl~~aG  119 (150)
T 1pkp_A           81 IPHEVIGHFGAGEIILKPASEGTGVIAGGPARAVLELAG  119 (150)
T ss_dssp             CSSCEEEEETTEEEEEEECCTTCCEESCHHHHHHHHHHT
T ss_pred             eeEEEEEEECCEEEEEEECCCCCccccCcHHHHHHHhcC
Confidence            99999999 6   99999999999999999999999998

>2vqe_E 30S ribosomal protein S5; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: i.1.1.3 PDB: 1fka_E 1gix_H* 1hnw_E* 1hnx_E* 1hnz_E* 1hr0_E 1ibk_E* 1ibl_E* 1ibm_E 1jgo_H* 1jgp_H* 1jgq_H* 1ml5_H* 1xmo_E* 1xmq_E* 1xnq_E* 1xnr_E* 1yl4_H 2b64_E* 2b9m_E* ...

Probab=100.00  E-value=3.1e-42  Score=268.67  Aligned_cols=107  Identities=23%  Similarity=0.353  Sum_probs=103.5

Q ss_pred             CCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeeecccCCcCCCCce
Q psy4335          37 SSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHT  116 (152)
Q Consensus        37 ~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hT  116 (152)
                      .+|+|++|+|+||||||++||++||+|||+|||+||++|||+|||+|+++||+||+++|++||++|+|+        +||
T Consensus         4 ~~l~e~vv~I~rV~K~tkgGr~~~F~alVvvGd~nG~vG~G~gKa~ev~~AIrkA~~~Ak~nli~V~~~--------~~T   75 (162)
T 2vqe_E            4 TDFEEKMILIRRTARMQAGGRRFRFGALVVVGDRQGRVGLGFGKAPEVPLAVQKAGYYARRNMVEVPLQ--------NGT   75 (162)
T ss_dssp             -CCEEEEEEEEEEEEEETTEEEEEEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHHTTSEEECCCS--------TTS
T ss_pred             cCceeEEEEEEeEEEEeCCCcEEEEEEEEEEeCCCCeEecceEecccHHHHHHHHHHHHHhCcEEEecC--------CCc
Confidence            479999999999999999999999999999999999999999999999999999999999999999994        389


Q ss_pred             eeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         117 VPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       117 I~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |||+++|+ |   |+|+|||+||||+|+++++++|+|||
T Consensus        76 Ip~~v~gk~gs~~V~l~Pap~GtGiiag~~~r~vl~~aG  114 (162)
T 2vqe_E           76 IPHEIEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAG  114 (162)
T ss_dssp             CSSCEEEEETTEEEEEEECCTTSCEESCHHHHHHHHTTT
T ss_pred             ccEEEEEEeCcEEEEEEECCCCcceecCcHHHHHHHhcC
Confidence            99999999 6   99999999999999999999999998

>3i1m_E 30S ribosomal protein S5; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_E* 1vs5_E 3i1o_E 3i1q_E 3i1s_E 3i1z_E 3i21_E 3izv_I* 3izw_I* 3kc4_E 3or9_E 3ora_E 3sfs_E* 3uoq_E* 4gaq_E* 4gas_E*

Probab=100.00  E-value=8.1e-43  Score=273.11  Aligned_cols=107  Identities=21%  Similarity=0.315  Sum_probs=103.6

Q ss_pred             CCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeeecccCCcCCCCce
Q psy4335          37 SSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRGYWGNKIGKPHT  116 (152)
Q Consensus        37 ~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~rgy~~~~~~~~hT  116 (152)
                      .+|+|+||+|+||||||++||++||+|||+|||+||+||||+|||+|+++||++|+++|++||+||+|        ++||
T Consensus         9 ~~l~e~vv~I~rV~K~tk~Gr~~~F~AlVvvGd~nG~VG~G~gka~Ev~~AI~kAi~~Ak~nli~V~~--------~~~T   80 (167)
T 3i1m_E            9 GELQEKLIAVNRVSKTVKGGRIFSFTALTVVGDGNGRVGFGYGKAREVPAAIQKAMEKARRNMINVAL--------NNGT   80 (167)
T ss_dssp             -CCCEEEEEEEEEECCBTTBCCEEEEEEEEEECSSSCEEEECCEESSHHHHHHHHHHHHHSSEECCCC--------BTTB
T ss_pred             CceeEEEEEEEeeEEEEcCCcEEEEEEEEEEECCCCcEeecccccccHHHHHHHHHHHHHhCeEEEec--------CCCe
Confidence            36999999999999999999999999999999999999999999999999999999999999999999        3699


Q ss_pred             eeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         117 VPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       117 I~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      |||+++|+ |   |+|+|||+||||+|+|+++++|+|||
T Consensus        81 ip~~v~gk~gs~~V~l~Pap~GtGiia~~~~r~vl~~aG  119 (167)
T 3i1m_E           81 LQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAG  119 (167)
T ss_dssp             CSSCEEEEETTEEEEEECCCCSSSCBCCSSSSSHHHHHT
T ss_pred             eeeEeeeeeccEEEEEEcCCCccceecCcHHHHHHHhCC
Confidence            99999999 6   99999999999999999999999998

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	152
d1pkpa2	74	d.50.1.2 (A:4-77) Ribosomal S5 protein, N-terminal	2e-30
d2qale2	69	d.50.1.2 (E:9-77) Ribosomal S5 protein, N-terminal	6e-30
d2uube2	69	d.50.1.2 (E:5-73) Ribosomal S5 protein, N-terminal	6e-29

>d1pkpa2 d.50.1.2 (A:4-77) Ribosomal S5 protein, N-terminal domain {Bacillus stearothermophilus [TaxId: 1422]} Length = 74

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Ribosomal S5 protein, N-terminal domain
domain: Ribosomal S5 protein, N-terminal domain
species: Bacillus stearothermophilus [TaxId: 1422]

 Score =  103 bits (258), Expect = 2e-30
 Identities = 27/64 (42%), Positives = 40/64 (62%)

Query: 39  LKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLS 98
           L++ V+ +  V K  + G+R RF A V +GD NGH+G G   ++EV  AIR AI  AK +
Sbjct: 8   LEERVVAVNRVAKVVKGGRRLRFSALVVVGDKNGHVGFGTGKAQEVPEAIRKAIEDAKKN 67

Query: 99  VVPV 102
           ++ V
Sbjct: 68  LIEV 71

>d2qale2 d.50.1.2 (E:9-77) Ribosomal S5 protein, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 69

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Ribosomal S5 protein, N-terminal domain
domain: Ribosomal S5 protein, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score =  101 bits (254), Expect = 6e-30
 Identities = 19/67 (28%), Positives = 37/67 (55%)

Query: 39  LKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLS 98
           L+++++ +  V K  + G+   F A   +GD NG +G G   ++EV  AI+ A+  A+ +
Sbjct: 2   LQEKLIAVNRVSKTVKGGRIFSFTALTVVGDGNGRVGFGYGKAREVPAAIQKAMEKARRN 61

Query: 99  VVPVRRG 105
           ++ V   
Sbjct: 62  MINVALN 68

>d2uube2 d.50.1.2 (E:5-73) Ribosomal S5 protein, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 69

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Ribosomal S5 protein, N-terminal domain
domain: Ribosomal S5 protein, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

 Score = 98.9 bits (247), Expect = 6e-29
 Identities = 20/64 (31%), Positives = 35/64 (54%)

Query: 39  LKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLS 98
            +++++ I    +    G+R RF A V +GD  G +GLG   + EV  A++ A   A+ +
Sbjct: 2   FEEKMILIRRTARMQAGGRRFRFGALVVVGDRQGRVGLGFGKAPEVPLAVQKAGYYARRN 61

Query: 99  VVPV 102
           +V V
Sbjct: 62  MVEV 65

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	152
d2uube2	69	Ribosomal S5 protein, N-terminal domain {Thermus t	99.94
d2qale2	69	Ribosomal S5 protein, N-terminal domain {Escherich	99.94
d1pkpa2	74	Ribosomal S5 protein, N-terminal domain {Bacillus	99.94
d1pkpa1	71	Ribosomal protein S5, C-terminal domain {Bacillus	99.37
d2uube1	81	Ribosomal protein S5, C-terminal domain {Thermus t	99.27
d2qale1	81	Ribosomal protein S5, C-terminal domain {Escherich	99.22
d1nu5a2	126	Chlormuconate cycloisomerase {Pseudomonas sp. p51	84.8

>d2uube2 d.50.1.2 (E:5-73) Ribosomal S5 protein, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Ribosomal S5 protein, N-terminal domain
domain: Ribosomal S5 protein, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.94  E-value=1.3e-27  Score=161.18  Aligned_cols=67  Identities=30%  Similarity=0.491  Sum_probs=65.7

Q ss_pred             CccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeee
Q psy4335          38 SLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRR  104 (152)
Q Consensus        38 ~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~r  104 (152)
                      +|+|++|+++||++||++||++||+|+|++||+||++|+|.|||+|+++||+||+.+|++||++|+.
T Consensus         1 d~~e~vv~i~rV~k~tk~Gr~~~f~alvvvGn~~G~vG~G~gKa~ev~~Ai~KA~~~Ak~nm~~Vpl   67 (69)
T d2uube2           1 DFEEKMILIRRTARMQAGGRRFRFGALVVVGDRQGRVGLGFGKAPEVPLAVQKAGYYARRNMVEVPL   67 (69)
T ss_dssp             CCEEEEEEEEEEEEEETTEEEEEEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHHHHSEEECCC
T ss_pred             CceeEEEEEEeeeEEEcCCceeEEEEEEEEECCCCcEeeccccchHHHHHHHHHHHHHHhCcEEEec
Confidence            5899999999999999999999999999999999999999999999999999999999999999986

>d2qale2 d.50.1.2 (E:9-77) Ribosomal S5 protein, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Ribosomal S5 protein, N-terminal domain
domain: Ribosomal S5 protein, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.94  E-value=1.3e-27  Score=161.25  Aligned_cols=68  Identities=28%  Similarity=0.516  Sum_probs=66.3

Q ss_pred             CccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeeec
Q psy4335          38 SLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRRG  105 (152)
Q Consensus        38 ~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~rg  105 (152)
                      +|+|++|+++||++||++||++||+|+|++||+||++|+|+|||+|+++||+||+..|++||++|+++
T Consensus         1 dl~e~vi~i~Rv~k~t~~Gr~~~f~alVvvGn~~G~vG~G~gKa~ev~~Ai~KA~~~Ak~nl~~V~l~   68 (69)
T d2qale2           1 ELQEKLIAVNRVSKTVKGGRIFSFTALTVVGDGNGRVGFGYGKAREVPAAIQKAMEKARRNMINVALN   68 (69)
T ss_dssp             CCEEEEEEEECCCCCBTTBCCCCCEEEEEEECSSSBCCEEEEECSSHHHHHHHHHHHHHSSCCBCCCB
T ss_pred             CceeEEEEEeeeEEEecCCceeEEEEEEEeeCCCCcEeEeeeccccHHHHHHHHHHHHHhCcEEEeCC
Confidence            58999999999999999999999999999999999999999999999999999999999999999983

>d1pkpa2 d.50.1.2 (A:4-77) Ribosomal S5 protein, N-terminal domain {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a+b)
fold: dsRBD-like
superfamily: dsRNA-binding domain-like
family: Ribosomal S5 protein, N-terminal domain
domain: Ribosomal S5 protein, N-terminal domain
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.94  E-value=2.8e-27  Score=161.50  Aligned_cols=69  Identities=39%  Similarity=0.595  Sum_probs=66.6

Q ss_pred             CCCccceeEEEeeeeeeecCCeeEEEEEEEEecCCCceEEeeeecchhHHHHHHHHHHHHhhcceeeee
Q psy4335          36 GSSLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDSNGHIGLGVKCSKEVATAIRGAIILAKLSVVPVRR  104 (152)
Q Consensus        36 ~~~l~~~vl~i~rV~k~tk~Gr~~rf~alVvvGn~nG~vG~G~gks~ev~~Ai~kA~~~Ak~nli~v~r  104 (152)
                      ..+|+|++|+++||||||++||++||+|+|++||+||++|+|.|||+|+.+||+||..+|++||++|+.
T Consensus         5 ~~~l~e~vi~i~rV~k~tk~Gr~~~f~a~VvvGn~~G~vG~G~gKa~ev~~Ai~KA~~~Ak~nl~~Vpl   73 (74)
T d1pkpa2           5 KLELEERVVAVNRVAKVVKGGRRLRFSALVVVGDKNGHVGFGTGKAQEVPEAIRKAIEDAKKNLIEVPI   73 (74)
T ss_dssp             GSCCEEEEEEEECSSSBCSSCCSSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHHTTSCEECCC
T ss_pred             cCCceEEEEEEeeeeEEecCCceeEEEEEEEeeCCCCcEEEEEEEchHHHHHHHHHHHHHHhCCEEeec
Confidence            358999999999999999999999999999999999999999999999999999999999999999874

>d1pkpa1 d.14.1.1 (A:78-148) Ribosomal protein S5, C-terminal domain {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Translational machinery components
domain: Ribosomal protein S5, C-terminal domain
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.37  E-value=9.3e-14  Score=93.13  Aligned_cols=37  Identities=19%  Similarity=0.250  Sum_probs=36.1

Q ss_pred             ceeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         115 HTVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       115 hTI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      +||||++.|| +   |.|+|||+|+||+|++.+++||+|||
T Consensus         2 ~TIph~v~gk~gs~~V~l~PAp~GtGliag~~vr~il~laG   42 (71)
T d1pkpa1           2 TTIPHEVIGHFGAGEIILKPASEGTGVIAGGPARAVLELAG   42 (71)
T ss_dssp             TBCSSCEEEEETTEEEEEEECCTTCCEESCHHHHHHHHHHT
T ss_pred             CeeeEEEEEEECeEEEEEEECCCCCccccCHHHHHHHHHcC
Confidence            7999999999 6   99999999999999999999999998

>d2uube1 d.14.1.1 (E:74-154) Ribosomal protein S5, C-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Translational machinery components
domain: Ribosomal protein S5, C-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.27  E-value=7.9e-13  Score=90.59  Aligned_cols=36  Identities=14%  Similarity=0.152  Sum_probs=35.2

Q ss_pred             eeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         116 TVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       116 TI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      ||||++.|| +   |.|+|||+||||+|++.+++||++||
T Consensus         2 TIph~v~gk~gs~kV~l~PAp~GtGliag~~vr~ilelaG   41 (81)
T d2uube1           2 TIPHEIEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAG   41 (81)
T ss_dssp             BCSSCEEEEETTEEEEEEECCTTCCEECCHHHHHHHHHTT
T ss_pred             ccceEEEEEECcEEEEEEECCCCCcccccHHHHHHHHHhC
Confidence            999999999 6   99999999999999999999999998

>d2qale1 d.14.1.1 (E:78-158) Ribosomal protein S5, C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein S5 domain 2-like
superfamily: Ribosomal protein S5 domain 2-like
family: Translational machinery components
domain: Ribosomal protein S5, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.22  E-value=9.6e-13  Score=90.13  Aligned_cols=36  Identities=8%  Similarity=-0.025  Sum_probs=35.2

Q ss_pred             eeeeeeeee-e---EEEeecCCCcceeeChhhHHhhcccC
Q psy4335         116 TVPCKRLTH-G---DQQIPGGRKSKVLSSPENLKVTSTSK  151 (152)
Q Consensus       116 TI~~~v~gk-g---V~l~Pap~GtGiva~~~~k~il~lAg  151 (152)
                      ||||++.|| +   |.|+|||+|+||+|++.+++||++||
T Consensus         2 TIph~v~gk~gs~kV~l~PAp~GtGliag~~vr~ilelaG   41 (81)
T d2qale1           2 TLQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAG   41 (81)
T ss_dssp             BCSSCBCCEETTEEEEBCBCCTTSCEECCHHHHHHHHHHT
T ss_pred             cccEEEEEEECcEEEEEEECCCCCccccCHHHHHHHHHcC
Confidence            899999999 6   99999999999999999999999998

>d1nu5a2 d.54.1.1 (A:1-126) Chlormuconate cycloisomerase {Pseudomonas sp. p51 [TaxId: 65067]}

class: Alpha and beta proteins (a+b)
fold: Enolase N-terminal domain-like
superfamily: Enolase N-terminal domain-like
family: Enolase N-terminal domain-like
domain: Chlormuconate cycloisomerase
species: Pseudomonas sp. p51 [TaxId: 65067]

Probab=84.80  E-value=0.14  Score=34.45  Aligned_cols=37  Identities=24%  Similarity=0.295  Sum_probs=21.6

Q ss_pred             CeeEEEE-EEEEecCCCceEEeeeecc-------hhHHHHHHHHHH
Q psy4335          56 GQRTRFK-AFVAIGDSNGHIGLGVKCS-------KEVATAIRGAII   93 (152)
Q Consensus        56 Gr~~rf~-alVvvGn~nG~vG~G~gks-------~ev~~Ai~kA~~   93 (152)
                      |...... .+|-+-+ ||.+|+|...+       .|..+++..++.
T Consensus        24 ~~~~~~~~~~V~i~~-dG~~G~GE~~~~~~~~~~~~~~~~~~~~i~   68 (126)
T d1nu5a2          24 TTVHKQSYVIVQVKA-GGLVGIGEGGSVGGPTWGSESAETIKVIID   68 (126)
T ss_dssp             EEEEEEEEEEEEEEE-TTEEEEEEECCSTTTTTSSCCHHHHHHHHH
T ss_pred             eEEEeeeEEEEEEEc-CCeEEEeeccccCCCccccccHHHHHHHHH
Confidence            3344333 4444565 79999999754       355555555444