Psyllid ID: psy12294

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120---
Protein Sequence
MDFLQLFWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQHETSSYTETQCMQVLVSSHFPISESLNTISEILEST
Secondary Structure (PSIPRED)
cccccccccccccccEEEccccccccEEEEEEEccEEEEEEEcccccEEEEcccHHHHHHHcccccEEEcccccccccccHHHHHHHHHHcccccccccHHcccccccHHHHHHHHHHHHHcc
Secondary Structure Prediction (SSPRO)
ccEEEEEcccccccccccccccEEEEEEEEccccEEEEEEEEccccccEEEcccHHHHHHHccccccccccccccHHHHHHHHHHHHHHHHccccccHHHcccccccHHHHHHHHHHHccccc
Coil and Loop (DISEMBL)
MDFLQLFWGHLMVTSGILFCQHKVLGLIvtgkcgsvqvrlipaprgtgivgapvpkkllqmagiedcytsargstgtlgnfgecntqhetssyteTQCMQVLVsshfpisesLNTISEILEST
Flexible Loop (DISEMBL)
MDFLQLFWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIpaprgtgivgaPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQHETSSYTETQCMQVLVSShfpiseslntISEILEST
Low Complexity Region (SEG)
MDFLQLFWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQHETSSYTETQCMQVLVSSHFPISESLNTISEILEST
Disordered region (IsUnstruct)
**FLQLFWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQHETSSYTETQCMQVLVSSHFPI**************
Disordered Region (DISOPRED)
MDFLQLFWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQHETSSYTETQCMQVLVSSHFPISESLNTISEIL***
Disordered Region (DISEMBL)
MDFLQLFWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQHETSSYTETQCMQVLVSSHFPISESLNTISEILEST
Disordered Region (DISPRO)
MDFLQLFWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQHETSSYTETQCMQVLVSSHFPISESLNTISEI****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MDFLQLFWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQHETSSYTETQCMQVLVSSHFPISESLNTISEILEST
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	123	2.2.26 [Sep-21-2011]
P31009	267	40S ribosomal protein S2	yes	N/A	0.658	0.303	0.613	7e-24
P15880	293	40S ribosomal protein S2	yes	N/A	0.796	0.334	0.514	4e-22
P27952	293	40S ribosomal protein S2	yes	N/A	0.796	0.334	0.514	4e-22
P25444	293	40S ribosomal protein S2	yes	N/A	0.796	0.334	0.514	4e-22
Q90YS3	277	40S ribosomal protein S2	N/A	N/A	0.853	0.379	0.482	4e-22
O18789	293	40S ribosomal protein S2	yes	N/A	0.796	0.334	0.514	4e-22
P51403	272	40S ribosomal protein S2	yes	N/A	0.658	0.297	0.568	6e-22
P46791	202	40S ribosomal protein S2	no	N/A	0.658	0.400	0.568	6e-22
P49154	278	40S ribosomal protein S2	N/A	N/A	0.552	0.244	0.666	1e-21
O74892	253	40S ribosomal protein S2	yes	N/A	0.430	0.209	0.754	2e-18

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

 Score =  108 bits (271), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 54/88 (61%), Positives = 61/88 (69%), Gaps = 7/88 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSV VRLIPAPRGTGIV APVPKKLL MAGIED
Sbjct: 152 YWGNKIGKPHTVPCK-------VTGKCGSVSVRLIPAPRGTGIVSAPVPKKLLTMAGIED 204

Query: 67  CYTSARGSTGTLGNFGECNTQHETSSYT 94
           CYTSARGSTGTLGNF +        +Y 
Sbjct: 205 CYTSARGSTGTLGNFAKATYAAIAKTYA 232

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 =  103 bits (256), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 55/107 (51%), Positives = 67/107 (62%), Gaps = 9/107 (8%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+D
Sbjct: 169 YWGNKIGKPHTVPCK-------VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDD 221

Query: 67  CYTSARGSTGTLGNFGEC--NTQHETSSYTETQCMQVLVSSHFPISE 111
           CYTSARG T TLGNF +   +   +T SY      +  V +  P  E
Sbjct: 222 CYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWKETVFTKSPYQE 268

Homo sapiens (taxid: 9606)

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

 Score =  103 bits (256), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 55/107 (51%), Positives = 67/107 (62%), Gaps = 9/107 (8%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+D
Sbjct: 169 YWGNKIGKPHTVPCK-------VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDD 221

Query: 67  CYTSARGSTGTLGNFGEC--NTQHETSSYTETQCMQVLVSSHFPISE 111
           CYTSARG T TLGNF +   +   +T SY      +  V +  P  E
Sbjct: 222 CYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWKETVFTKSPYQE 268

Rattus norvegicus (taxid: 10116)

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

 Score =  103 bits (256), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 55/107 (51%), Positives = 67/107 (62%), Gaps = 9/107 (8%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+D
Sbjct: 169 YWGNKIGKPHTVPCK-------VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDD 221

Query: 67  CYTSARGSTGTLGNFGEC--NTQHETSSYTETQCMQVLVSSHFPISE 111
           CYTSARG T TLGNF +   +   +T SY      +  V +  P  E
Sbjct: 222 CYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWKETVFTKSPYQE 268

Mus musculus (taxid: 10090)

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

 Score =  103 bits (256), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 55/114 (48%), Positives = 71/114 (62%), Gaps = 9/114 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+D
Sbjct: 154 YWGNKIGKPHTVPCK-------VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDD 206

Query: 67  CYTSARGSTGTLGNFGEC--NTQHETSSYTETQCMQVLVSSHFPISESLNTISE 118
           CYTSARG T TLGNF +   +   +T SY      +  V +  P  E  + +++
Sbjct: 207 CYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWKETVFTKSPYQEFTDHLAK 260

Ictalurus punctatus (taxid: 7998)

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

 Score =  103 bits (256), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 55/107 (51%), Positives = 67/107 (62%), Gaps = 9/107 (8%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+D
Sbjct: 169 YWGNKIGKPHTVPCK-------VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDD 221

Query: 67  CYTSARGSTGTLGNFGEC--NTQHETSSYTETQCMQVLVSSHFPISE 111
           CYTSARG T TLGNF +   +   +T SY      +  V +  P  E
Sbjct: 222 CYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWKETVFTKSPYQE 268

Bos taurus (taxid: 9913)

>sp|P51403|RS2_CAEEL 40S ribosomal protein S2 OS=Caenorhabditis elegans GN=rps-2 PE=3 SV=1

 Score =  102 bits (255), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 50/88 (56%), Positives = 60/88 (68%), Gaps = 7/88 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKC SV VRLIPAPRGTGIV APVPKKLL MAGIED
Sbjct: 165 YWGNKIGLPHTVPCK-------VTGKCASVMVRLIPAPRGTGIVSAPVPKKLLHMAGIED 217

Query: 67  CYTSARGSTGTLGNFGECNTQHETSSYT 94
           CYT+A+GST TLGNF +        +Y+
Sbjct: 218 CYTAAKGSTATLGNFAKATYAALQRTYS 245

Caenorhabditis elegans (taxid: 6239)

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

 Score =  102 bits (254), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 50/88 (56%), Positives = 61/88 (69%), Gaps = 7/88 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+D
Sbjct: 109 YWGNKIGKPHTVPCK-------VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDD 161

Query: 67  CYTSARGSTGTLGNFGECNTQHETSSYT 94
           CYTSARG T TLGNF +      + +Y+
Sbjct: 162 CYTSARGCTATLGNFAKATFDAISKTYS 189

Cricetulus griseus (taxid: 10029)

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

 Score =  101 bits (251), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 50/75 (66%), Positives = 56/75 (74%), Gaps = 7/75 (9%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSV VRLIPAPRGTGIV APVPKKLL MAGI+D
Sbjct: 155 YWGNKIGKPHTVPCK-------VTGKCGSVLVRLIPAPRGTGIVSAPVPKKLLAMAGIDD 207

Query: 67  CYTSARGSTGTLGNF 81
           CYTSARG T TLGNF
Sbjct: 208 CYTSARGQTATLGNF 222

Urechis caupo (taxid: 6431)

>sp|O74892|RS2_SCHPO 40S ribosomal protein S2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rps2 PE=1 SV=1

 Score = 90.5 bits (223), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 40/53 (75%), Positives = 46/53 (86%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
           V+GKCGSV VRL+PAPRG G+V APV K+ LQ+AGIEDCYT +RGST TLGNF
Sbjct: 157 VSGKCGSVTVRLVPAPRGAGLVAAPVTKRFLQLAGIEDCYTQSRGSTKTLGNF 209

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

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	123
110671482	273	putative ribosomal protein S2 [Diaphorin	0.658	0.296	0.647	2e-24
242019605	275	40S ribosomal protein S2, putative [Pedi	0.658	0.294	0.647	3e-24
344190580	239	40S ribosomal protein S2, putative [Dipe	0.853	0.439	0.535	3e-24
355428408	209	hypothetical protein, partial [Triatoma	0.853	0.502	0.535	4e-24
50344454	138	S2e ribosomal protein [Julodis onopordi]	0.650	0.579	0.632	6e-23
91081061	278	PREDICTED: similar to ribosomal protein	0.658	0.291	0.625	7e-23
307195510	278	40S ribosomal protein S2 [Harpegnathos s	0.853	0.377	0.526	9e-23
389032457	155	40S ribosomal protein S2/30S ribosomal p	0.658	0.522	0.625	1e-22
307181222	297	40S ribosomal protein S2 [Camponotus flo	0.658	0.272	0.625	1e-22
62083451	285	ribosomal protein S2 [Lysiphlebus testac	0.853	0.368	0.517	1e-22

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

 Score =  115 bits (289), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 57/88 (64%), Positives = 64/88 (72%), Gaps = 7/88 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED
Sbjct: 156 YWGNKIGKPHTVPCK-------VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 208

Query: 67  CYTSARGSTGTLGNFGECNTQHETSSYT 94
           CYTSARGSTGTLGNF +        +Y 
Sbjct: 209 CYTSARGSTGTLGNFAKATYAAIAKTYA 236

Source: Diaphorina citri

Species: Diaphorina citri

Genus: Diaphorina

Family: Psyllidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242019605|ref|XP_002430250.1| 40S ribosomal protein S2, putative [Pediculus humanus corporis] gi|212515357|gb|EEB17512.1| 40S ribosomal protein S2, putative [Pediculus humanus corporis]

 Score =  115 bits (288), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 57/88 (64%), Positives = 64/88 (72%), Gaps = 7/88 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED
Sbjct: 155 YWGNKIGKPHTVPCK-------VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 207

Query: 67  CYTSARGSTGTLGNFGECNTQHETSSYT 94
           CYTSARGSTGTLGNF +        +Y 
Sbjct: 208 CYTSARGSTGTLGNFAKATYAAIAKTYA 235

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|344190580|gb|AEM97964.1| 40S ribosomal protein S2, putative [Dipetalogaster maximus]

 Score =  115 bits (288), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 61/114 (53%), Positives = 76/114 (66%), Gaps = 9/114 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED
Sbjct: 120 YWGNKIGKPHTVPCK-------VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 172

Query: 67  CYTSARGSTGTLGNFGECNTQ--HETSSYTETQCMQVLVSSHFPISESLNTISE 118
           CYTSARGSTGTLGNF +       +T +Y      + +  +  P SE  + +++
Sbjct: 173 CYTSARGSTGTLGNFAKATYAAIAKTYAYLTPDLWRDVPLTKPPYSEFADHLAK 226

Source: Dipetalogaster maximus

Species: Dipetalogaster maximus

Genus: Dipetalogaster

Family: Reduviidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|355428408|gb|AER92520.1| hypothetical protein, partial [Triatoma rubida]

 Score =  115 bits (288), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 61/114 (53%), Positives = 76/114 (66%), Gaps = 9/114 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED
Sbjct: 90  YWGNKIGKPHTVPCK-------VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 142

Query: 67  CYTSARGSTGTLGNFGECNTQ--HETSSYTETQCMQVLVSSHFPISESLNTISE 118
           CYTSARGSTGTLGNF +       +T +Y      + +  +  P SE  + +++
Sbjct: 143 CYTSARGSTGTLGNFAKATYAAIAKTYAYLTPDLWRDVPLTKPPYSEFADHLAK 196

Source: Triatoma rubida

Species: Triatoma rubida

Genus: Triatoma

Family: Reduviidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|50344454|emb|CAH04313.1| S2e ribosomal protein [Julodis onopordi]

 Score =  111 bits (277), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 55/87 (63%), Positives = 62/87 (71%), Gaps = 7/87 (8%)

Query: 7  FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
          +WG+ +     + C+       VTGKCGSV VRLIPAPRGTGIV APVPKKLLQMAGIED
Sbjct: 17 YWGNKIGKPHTVPCK-------VTGKCGSVAVRLIPAPRGTGIVSAPVPKKLLQMAGIED 69

Query: 67 CYTSARGSTGTLGNFGECNTQHETSSY 93
          CYTSARGSTGTLGNF +        +Y
Sbjct: 70 CYTSARGSTGTLGNFAKATYAAIAKTY 96

Source: Julodis onopordi

Species: Julodis onopordi

Genus: Julodis

Family: Buprestidae

Order: Coleoptera

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 =  110 bits (276), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 55/88 (62%), Positives = 62/88 (70%), Gaps = 7/88 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSV VRLIPAPRGTGIV APVPKKLLQMAGIED
Sbjct: 157 YWGNKIGKPHTVPCK-------VTGKCGSVTVRLIPAPRGTGIVSAPVPKKLLQMAGIED 209

Query: 67  CYTSARGSTGTLGNFGECNTQHETSSYT 94
           CYTSARGSTGTLGNF +        +Y 
Sbjct: 210 CYTSARGSTGTLGNFAKATYAAIAKTYA 237

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307195510|gb|EFN77396.1| 40S ribosomal protein S2 [Harpegnathos saltator]

 Score =  110 bits (276), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 60/114 (52%), Positives = 72/114 (63%), Gaps = 9/114 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSVQVRLIPAPRGTGIV APVPKKLLQMAGIED
Sbjct: 160 YWGNKIGKPHTVPCK-------VTGKCGSVQVRLIPAPRGTGIVSAPVPKKLLQMAGIED 212

Query: 67  CYTSARGSTGTLGNFGECNTQ--HETSSYTETQCMQVLVSSHFPISESLNTISE 118
           CYTSARGST TLGNF +       +T +Y      +    S  P  E  + +S+
Sbjct: 213 CYTSARGSTCTLGNFAKATYAAIAKTYAYLTPDLWKEQALSKAPYQEFADFLSK 266

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|389032457|gb|AFK82365.1| 40S ribosomal protein S2/30S ribosomal protein S5, partial [Ctenocephalides felis]

 Score =  110 bits (275), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 55/88 (62%), Positives = 63/88 (71%), Gaps = 7/88 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSV VRLIPAPRGTGIV APVPKKLLQMAGIED
Sbjct: 36  YWGNKIGKPHTVPCK-------VTGKCGSVAVRLIPAPRGTGIVSAPVPKKLLQMAGIED 88

Query: 67  CYTSARGSTGTLGNFGECNTQHETSSYT 94
           CYTSARGSTGTLGNF +        +Y+
Sbjct: 89  CYTSARGSTGTLGNFAKATYAAIAKTYS 116

Source: Ctenocephalides felis

Species: Ctenocephalides felis

Genus: Ctenocephalides

Family: Pulicidae

Order: Siphonaptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307181222|gb|EFN68919.1| 40S ribosomal protein S2 [Camponotus floridanus]

 Score =  110 bits (275), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 55/88 (62%), Positives = 62/88 (70%), Gaps = 7/88 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSVQVRLIPAPRGTGIV APVPKKLLQMAGIED
Sbjct: 179 YWGNKIGKPHTVPCK-------VTGKCGSVQVRLIPAPRGTGIVSAPVPKKLLQMAGIED 231

Query: 67  CYTSARGSTGTLGNFGECNTQHETSSYT 94
           CYTSARGST TLGNF +        +Y 
Sbjct: 232 CYTSARGSTCTLGNFAKATYAAIAKTYA 259

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|62083451|gb|AAX62450.1| ribosomal protein S2 [Lysiphlebus testaceipes]

 Score =  110 bits (274), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 59/114 (51%), Positives = 73/114 (64%), Gaps = 9/114 (7%)

Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSVQVRLIPAPRGTGIV APVPKKLLQMAGIED
Sbjct: 164 YWGNKIGKPHTVPCK-------VTGKCGSVQVRLIPAPRGTGIVSAPVPKKLLQMAGIED 216

Query: 67  CYTSARGSTGTLGNFGECNTQ--HETSSYTETQCMQVLVSSHFPISESLNTISE 118
           CYTSARGST TLGNF +       +T +Y      + +  +  P  E  + +S+
Sbjct: 217 CYTSARGSTCTLGNFAKATYAAIAKTYAYLTPDLWKDMPLTETPYQEHADWLSK 270

Source: Lysiphlebus testaceipes

Species: Lysiphlebus testaceipes

Genus: Lysiphlebus

Family: Braconidae

Order: Hymenoptera

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	123
FB|FBgn0004867	267	RpS2 "Ribosomal protein S2" [D	0.447	0.205	0.909	2.1e-22
UNIPROTKB|E9PT76	223	E9PT76 "Uncharacterized protei	0.861	0.475	0.508	1.5e-21
UNIPROTKB|I3L404	155	RPS2 "40S ribosomal protein S2	0.471	0.374	0.827	1.9e-21
UNIPROTKB|E9PSQ6	221	LOC100359960 "Protein LOC10035	0.723	0.402	0.6	2.4e-21
UNIPROTKB|E1C4M0	286	E1C4M0 "Uncharacterized protei	0.674	0.290	0.611	4.9e-21
UNIPROTKB|O18789	293	RPS2 "40S ribosomal protein S2	0.674	0.283	0.611	4.9e-21
UNIPROTKB|E2QWY6	293	LOC608162 "Uncharacterized pro	0.674	0.283	0.611	4.9e-21
UNIPROTKB|E9PM36	209	RPS2 "40S ribosomal protein S2	0.439	0.258	0.870	4.9e-21
UNIPROTKB|E9PQD7	235	RPS2 "40S ribosomal protein S2	0.674	0.353	0.611	4.9e-21
UNIPROTKB|H0YEN5	195	RPS2 "40S ribosomal protein S2	0.674	0.425	0.611	4.9e-21

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

 Score = 260 (96.6 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 50/55 (90%), Positives = 51/55 (92%)

Query:    29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGE 83
             VTGKCGSV VRLIPAPRGTGIV APVPKKLL MAGIEDCYTSARGSTGTLGNF +
Sbjct:   167 VTGKCGSVSVRLIPAPRGTGIVSAPVPKKLLTMAGIEDCYTSARGSTGTLGNFAK 221

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|E9PT76 E9PT76 "Uncharacterized protein" [Rattus norvegicus (taxid:10116)]

 Score = 252 (93.8 bits), Expect = 1.5e-21, P = 1.5e-21
 Identities = 57/112 (50%), Positives = 71/112 (63%)

Query:     7 FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
             +WG+ +     + C+     + VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+D
Sbjct:    97 YWGNKIGKPHTVPCK-----VAVTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDD 151

Query:    67 CYTSARGSTGTLGNFGECNTQHETSSYTE-TQCMQVLVSSHFPISESLNTIS 117
             CYTSARG T TLGNF +      + +Y+  T   + L S    I  SL  +S
Sbjct:   152 CYTSARGCTATLGNFAKATFDAISKTYSYLTPSGKRLCSPSLLIRNSLTILS 203

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|I3L404 RPS2 "40S ribosomal protein S2" [Homo sapiens (taxid:9606)]

 Score = 251 (93.4 bits), Expect = 1.9e-21, P = 1.9e-21
 Identities = 48/58 (82%), Positives = 51/58 (87%)

Query:    29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNT 86
             VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+DCYTSARG T TLGNFG  +T
Sbjct:    95 VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFGRWST 152

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|E9PSQ6 LOC100359960 "Protein LOC100359960" [Rattus norvegicus (taxid:10116)]

 Score = 250 (93.1 bits), Expect = 2.4e-21, P = 2.4e-21
 Identities = 54/90 (60%), Positives = 62/90 (68%)

Query:    29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQH 88
             VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+DCYTSARG T TLGNF +     
Sbjct:   112 VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDA 171

Query:    89 ETSSYTE-TQCMQVLVSSHFPISESLNTIS 117
              + +Y+  T   + L S    I  SL  +S
Sbjct:   172 ISKTYSYLTPSGKRLCSPSLLIRNSLTILS 201

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

 Score = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 52/85 (61%), Positives = 58/85 (68%)

Query:    29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQ- 87
             VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+DCYTSARG T TLGNF +     
Sbjct:   177 VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDA 236

Query:    88 -HETSSYTETQCMQVLVSSHFPISE 111
               +T SY      +  V +  P  E
Sbjct:   237 ISKTYSYLTPDLWKETVFTKSPYQE 261

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 = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 52/85 (61%), Positives = 58/85 (68%)

Query:    29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQ- 87
             VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+DCYTSARG T TLGNF +     
Sbjct:   184 VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDA 243

Query:    88 -HETSSYTETQCMQVLVSSHFPISE 111
               +T SY      +  V +  P  E
Sbjct:   244 ISKTYSYLTPDLWKETVFTKSPYQE 268

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 = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 52/85 (61%), Positives = 58/85 (68%)

Query:    29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQ- 87
             VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+DCYTSARG T TLGNF +     
Sbjct:   184 VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDA 243

Query:    88 -HETSSYTETQCMQVLVSSHFPISE 111
               +T SY      +  V +  P  E
Sbjct:   244 ISKTYSYLTPDLWKETVFTKSPYQE 268

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|E9PM36 RPS2 "40S ribosomal protein S2" [Homo sapiens (taxid:9606)]

 Score = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 47/54 (87%), Positives = 49/54 (90%)

Query:    29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFG 82
             VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+DCYTSARG T TLGNFG
Sbjct:   154 VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFG 207

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|E9PQD7 RPS2 "40S ribosomal protein S2" [Homo sapiens (taxid:9606)]

 Score = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 52/85 (61%), Positives = 58/85 (68%)

Query:    29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQ- 87
             VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+DCYTSARG T TLGNF +     
Sbjct:   126 VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDA 185

Query:    88 -HETSSYTETQCMQVLVSSHFPISE 111
               +T SY      +  V +  P  E
Sbjct:   186 ISKTYSYLTPDLWKETVFTKSPYQE 210

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|H0YEN5 RPS2 "40S ribosomal protein S2" [Homo sapiens (taxid:9606)]

 Score = 247 (92.0 bits), Expect = 4.9e-21, P = 4.9e-21
 Identities = 52/85 (61%), Positives = 58/85 (68%)

Query:    29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECNTQ- 87
             VTG+CGSV VRLIPAPRGTGIV APVPKKLL MAGI+DCYTSARG T TLGNF +     
Sbjct:    86 VTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDA 145

Query:    88 -HETSSYTETQCMQVLVSSHFPISE 111
               +T SY      +  V +  P  E
Sbjct:   146 ISKTYSYLTPDLWKETVFTKSPYQE 170

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)
A3MU88	RS5_PYRCJ	No assigned EC number	0.5178	0.4552	0.2772	yes	N/A
A9A9P4	RS5_METM6	No assigned EC number	0.5185	0.4390	0.2358	yes	N/A
P27952	RS2_RAT	No assigned EC number	0.5140	0.7967	0.3344	yes	N/A
A6UWV8	RS5_META3	No assigned EC number	0.5294	0.4146	0.2307	yes	N/A
A1RU37	RS5_PYRIL	No assigned EC number	0.5178	0.4552	0.2772	yes	N/A
Q8L8Y0	RS21_ARATH	No assigned EC number	0.5733	0.5528	0.2394	yes	N/A
O18789	RS2_BOVIN	No assigned EC number	0.5140	0.7967	0.3344	yes	N/A
A6VH05	RS5_METM7	No assigned EC number	0.5185	0.4390	0.2358	yes	N/A
P25444	RS2_MOUSE	No assigned EC number	0.5140	0.7967	0.3344	yes	N/A
P25443	RS2_YEAST	No assigned EC number	0.6	0.5284	0.2559	yes	N/A
P27685	RS2_DICDI	No assigned EC number	0.7735	0.4308	0.2	yes	N/A
C3NH89	RS5_SULIN	No assigned EC number	0.5087	0.4634	0.2663	yes	N/A
A4YCY6	RS5_METS5	No assigned EC number	0.5087	0.4634	0.2663	yes	N/A
O74892	RS2_SCHPO	No assigned EC number	0.7547	0.4308	0.2094	yes	N/A
Q9UX87	RS5_SULSO	No assigned EC number	0.5087	0.4634	0.2663	yes	N/A
P15880	RS2_HUMAN	No assigned EC number	0.5140	0.7967	0.3344	yes	N/A
Q975K0	RS5_SULTO	No assigned EC number	0.5438	0.4634	0.2663	yes	N/A
P31009	RS2_DROME	No assigned EC number	0.6136	0.6585	0.3033	yes	N/A
O05641	RS5_SULAC	No assigned EC number	0.5087	0.4634	0.2663	yes	N/A
Q93VB8	RS22_ARATH	No assigned EC number	0.5733	0.5528	0.2394	yes	N/A
P51403	RS2_CAEEL	No assigned EC number	0.5681	0.6585	0.2977	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	123
PTZ00070	257	PTZ00070, PTZ00070, 40S ribosomal protein S2; Prov	4e-33
TIGR01020	212	TIGR01020, rpsE_arch, ribosomal protein S5(archaea	2e-27
PRK04044	211	PRK04044, rps5p, 30S ribosomal protein S5P; Review	5e-21
pfam03719	74	pfam03719, Ribosomal_S5_C, Ribosomal protein S5, C	2e-20
COG0098	181	COG0098, RpsE, Ribosomal protein S5 [Translation,	9e-18
PRK00550	168	PRK00550, rpsE, 30S ribosomal protein S5; Validate	2e-06
TIGR01021	154	TIGR01021, rpsE_bact, ribosomal protein S5, bacter	5e-06

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

 Score =  115 bits (291), Expect = 4e-33
 Identities = 39/53 (73%), Positives = 46/53 (86%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
           VTGKCGSV+VRL+PAPRGTGIV AP PKK+L+ AG+ED +TS+RG T T GNF
Sbjct: 162 VTGKCGSVRVRLVPAPRGTGIVAAPTPKKILEFAGVEDVFTSSRGKTRTRGNF 214

Length = 257

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

 Score = 99.9 bits (249), Expect = 2e-27
 Identities = 34/53 (64%), Positives = 41/53 (77%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
           VTGKCGSV+VRLIPAPRG G+V   V KK+L++AGI+D +T  RG T T  NF
Sbjct: 134 VTGKCGSVRVRLIPAPRGLGLVAGDVAKKVLRLAGIDDVWTQTRGETRTTVNF 186

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 = 83.0 bits (206), Expect = 5e-21
 Identities = 30/53 (56%), Positives = 37/53 (69%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
           VTGK GSV+V L PAPRG G+V   V KK+L++AGI+D +T   G T T  NF
Sbjct: 134 VTGKAGSVEVTLKPAPRGLGLVAGDVAKKVLELAGIKDVWTRTFGETRTTVNF 186

Length = 211

>gnl|CDD|190724 pfam03719, Ribosomal_S5_C, Ribosomal protein S5, C-terminal domain

 Score = 78.2 bits (194), Expect = 2e-20
 Identities = 24/53 (45%), Positives = 33/53 (62%), Gaps = 1/53 (1%)

Query: 29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
          VTGK G+V+V L PAPRGTGI+     + +L++AGI+D    + GS     N 
Sbjct: 1  VTGKFGAVKVLLKPAPRGTGIIAGGAVRAVLELAGIKDVLAKSLGSR-NPINV 52

Length = 74

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

 Score = 74.1 bits (183), Expect = 9e-18
 Identities = 22/53 (41%), Positives = 31/53 (58%), Gaps = 1/53 (1%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
           V GK G+V+V L PAP GTGI+     + +L++AGI+D    + GS     N 
Sbjct: 99  VIGKHGAVKVLLKPAPEGTGIIAGGAVRAVLELAGIKDVLAKSLGSR-NPINV 150

Length = 181

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

 Score = 43.9 bits (105), Expect = 2e-06
 Identities = 19/48 (39%), Positives = 30/48 (62%), Gaps = 2/48 (4%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIV-GAPVPKKLLQMAGIEDCYTSARGST 75
           V GK G+ +V L PA  GTG++ G  V + +L++AG++D    + GS 
Sbjct: 87  VIGKFGAAKVLLKPASEGTGVIAGGAV-RAVLELAGVKDVLAKSLGSN 133

Length = 168

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

 Score = 42.7 bits (101), Expect = 5e-06
 Identities = 18/49 (36%), Positives = 30/49 (61%), Gaps = 2/49 (4%)

Query: 28  IVTGKCGSVQVRLIPAPRGTGIV-GAPVPKKLLQMAGIEDCYTSARGST 75
            V G+ G+ +V L PA  GTG++ G  V + +L++AG++D    + GS 
Sbjct: 75  EVIGRSGAAKVLLKPASPGTGVIAGGAV-RAILELAGVKDILAKSLGSN 122

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	123
PTZ00070	257	40S ribosomal protein S2; Provisional	100.0
TIGR01020	212	rpsE_arch ribosomal protein S5(archaeal type)/S2(e	99.97
COG0098	181	RpsE Ribosomal protein S5 [Translation, ribosomal	99.96
KOG0877|consensus	213		99.96
PRK04044	211	rps5p 30S ribosomal protein S5P; Reviewed	99.96
TIGR01021	154	rpsE_bact ribosomal protein S5, bacterial/organell	99.92
PRK00550	168	rpsE 30S ribosomal protein S5; Validated	99.91
PF03719	74	Ribosomal_S5_C: Ribosomal protein S5, C-terminal d	99.91
CHL00138	143	rps5 ribosomal protein S5; Validated	99.82
KOG2646|consensus	396		98.14

>PTZ00070 40S ribosomal protein S2; Provisional

Probab=100.00  E-value=5.1e-41  Score=273.57  Aligned_cols=103  Identities=44%  Similarity=0.686  Sum_probs=99.6

Q ss_pred             CceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccc
Q psy12294         16 GILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSY   93 (123)
Q Consensus        16 g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~   93 (123)
                      |+++++||||||+|+|||||++|+|+|||+|+||||++++|+|||+|||+|||||++|||++++|++|||  ||+++|+|
T Consensus       149 ~~~~g~~hTIp~~V~GK~GSv~V~L~PAP~GtGivAg~~vk~VLelAGIkDv~tks~GsTrt~~N~aKATf~AL~~t~~~  228 (257)
T PTZ00070        149 GNKIGEPHTVPMKVTGKCGSVRVRLVPAPRGTGIVAAPTPKKILEFAGVEDVFTSSRGKTRTRGNFLKATFYALRKTYGF  228 (257)
T ss_pred             cccCCCCCCeeeeEEEEeCeEEEEEEeCCCCccEEeCcHHHHHHHHcCccceeeecccCCCChHHHHHHHHHHHHHHhcc
Confidence            3568899999999999999999999999999999999999999999999999999999998888999999  99999999


Q ss_pred             cCchhhhhcccccCchHHHHHHHHH
Q psy12294         94 TETQCMQVLVSSHFPISESLNTISE  118 (123)
Q Consensus        94 ~tP~~w~~~~~~~~P~~e~~d~~~~  118 (123)
                      +|||+|++..++++|||||+|+|++
T Consensus       229 ~tp~~w~~~~~~~~p~~~~~~~l~~  253 (257)
T PTZ00070        229 LTPDLWKETELSRSPYDEHSEFLAE  253 (257)
T ss_pred             cCHhHccccccCCCchHHHHHHHhh
Confidence            9999999999999999999999976

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

Probab=99.97  E-value=1.5e-31  Score=213.24  Aligned_cols=87  Identities=41%  Similarity=0.615  Sum_probs=81.8

Q ss_pred             ceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eeccccccc
Q psy12294         17 ILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYT   94 (123)
Q Consensus        17 ~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~   94 (123)
                      +.++++|||||+|+|||||++|.|+|||+|+||+|++++|+|||+|||+||+||++|||++..|++|||  ||++++ |+
T Consensus       122 ~~~~~~hTIp~~v~Gk~gs~~V~L~PAP~GtGliag~~~r~ilelAGIkDv~tk~~Gstrn~~N~~kAtf~AL~~~~-~~  200 (212)
T TIGR01020       122 CGCGRPHSVPFKVTGKCGSVRVRLIPAPRGLGLVAGDVAKKVLRLAGIDDVWTQTRGETRTTVNFAKATFDALKKTY-YV  200 (212)
T ss_pred             ccCCCCCcEeEEEEEEEccEEEEEEeCCCCCceecCcHHHHHHHHcCccceeeeccCCCCChhHHHHHHHHHHHhcc-cc
Confidence            456889999999999999999999999999999999999999999999999999999997677999999  999999 99


Q ss_pred             Cchhhhhccc
Q psy12294         95 ETQCMQVLVS  104 (123)
Q Consensus        95 tP~~w~~~~~  104 (123)
                      +|++|++..+
T Consensus       201 ~~~~~~~~~~  210 (212)
T TIGR01020       201 TPDLWAEERL  210 (212)
T ss_pred             Ccchhccccc
Confidence            9999987654

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

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

Probab=99.96  E-value=1.1e-30  Score=204.31  Aligned_cols=88  Identities=25%  Similarity=0.374  Sum_probs=80.3

Q ss_pred             ceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eeccccccc
Q psy12294         17 ILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYT   94 (123)
Q Consensus        17 ~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~   94 (123)
                      .++.++|||||+|.||||+++|+|+|||+|||||||+++|+|||+|||+||||||+||+|++ |++|||  ||+++   +
T Consensus        87 V~~~~~~Tiph~v~Gk~g~~~V~L~PA~~GtGiiAGg~~r~vlelAGi~Dv~tks~GS~n~~-N~vrAt~~aL~~~---~  162 (181)
T COG0098          87 VPRGNGHTIPHEVIGKHGAVKVLLKPAPEGTGIIAGGAVRAVLELAGIKDVLAKSLGSRNPI-NVVRATFDALKKL---R  162 (181)
T ss_pred             EecCCCceeeeEEEEEECcEEEEEEECCCCceEEeCcHHHHHHHHcCchhhhhhccCCCChh-HHHHHHHHHHHHc---c
Confidence            45678999999999999999999999999999999999999999999999999999988876 999999  99954   6


Q ss_pred             CchhhhhcccccCc
Q psy12294         95 ETQCMQVLVSSHFP  108 (123)
Q Consensus        95 tP~~w~~~~~~~~P  108 (123)
                      +|++|.+.+-...+
T Consensus       163 ~p~~ia~~Rg~~~~  176 (181)
T COG0098         163 TPEDVAAKRGKKVE  176 (181)
T ss_pred             CHHHHHHHcCCcch
Confidence            99999888766544

>KOG0877|consensus

Probab=99.96  E-value=3.6e-31  Score=210.63  Aligned_cols=93  Identities=55%  Similarity=0.803  Sum_probs=90.2

Q ss_pred             cCceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eeccccc
Q psy12294         15 SGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSS   92 (123)
Q Consensus        15 ~g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~   92 (123)
                      -||+|++|||+||+++|+||++.|+|.|||||||||+++++|++|+||||+||+++++|||++++|++||+  |+.++|+
T Consensus       119 w~~~~g~pHt~~~kvtg~~~svlv~l~papRgtGivs~p~~kkll~mAGi~d~~t~~~G~t~tl~n~~ka~~~a~~~ty~  198 (213)
T KOG0877|consen  119 WGNKIGKPHTVPCKVTGDCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKATFDAISKTYS  198 (213)
T ss_pred             cccccCCCccccCcccccCCcceEEEeecCCCCceeeccccHHHHHhccccccchhhcccchhhccHHHHHHHHHHhhhh
Confidence            35999999999999999999999999999999999999999999999999999999999999999999999  9999999


Q ss_pred             ccCchhhhhcccccC
Q psy12294         93 YTETQCMQVLVSSHF  107 (123)
Q Consensus        93 ~~tP~~w~~~~~~~~  107 (123)
                      |+|||+|++++++++
T Consensus       199 ~ltp~~w~e~~~~~~  213 (213)
T KOG0877|consen  199 YLTPDLWKETVFTKS  213 (213)
T ss_pred             hhChhhccccccccC
Confidence            999999999998764

>PRK04044 rps5p 30S ribosomal protein S5P; Reviewed

Probab=99.96  E-value=1.7e-30  Score=206.97  Aligned_cols=86  Identities=36%  Similarity=0.470  Sum_probs=80.6

Q ss_pred             eecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccC
Q psy12294         18 LFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTE   95 (123)
Q Consensus        18 ~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~t   95 (123)
                      ...++|||||+|+|||||++|.|+|||+|+||+|++.+|+|||+|||+||++|++|||++..|++|||  ||++++++++
T Consensus       123 ~~~~~~TI~h~v~gk~gs~~V~l~Pap~GtGiiag~~vr~vlelaGIkDv~aK~~Gstrn~~N~vkAt~~AL~~~~~~~~  202 (211)
T PRK04044        123 GCGEPHSVPFKVTGKAGSVEVTLKPAPRGLGLVAGDVAKKVLELAGIKDVWTRTFGETRTTVNFAKATFNALKNTYKVRT  202 (211)
T ss_pred             cCCCCCcCCeEEEEEEccEEEEEEECCCCCeEEECcHHHHHHHHcCcceEEEEccCCCCChhHHHHHHHHHHHHHHcccC
Confidence            35678999999999999999999999999999999999999999999999999999985566999999  9999999999


Q ss_pred             chhhhhcc
Q psy12294         96 TQCMQVLV  103 (123)
Q Consensus        96 P~~w~~~~  103 (123)
                      |++|.+..
T Consensus       203 p~~~~~~~  210 (211)
T PRK04044        203 PPDWAEKR  210 (211)
T ss_pred             HHHHHhhc
Confidence            99998753

>TIGR01021 rpsE_bact ribosomal protein S5, bacterial/organelle type

Probab=99.92  E-value=6.7e-26  Score=172.79  Aligned_cols=77  Identities=22%  Similarity=0.380  Sum_probs=70.9

Q ss_pred             eecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccC
Q psy12294         18 LFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTE   95 (123)
Q Consensus        18 ~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~t   95 (123)
                      ++.++ ||||+++|||||++|.|+|||+|+||+|++.+|+|||+|||+||++|++||+|++ |++|||  ||++++   |
T Consensus        66 ~~~~~-Ti~~~v~gk~gs~~V~l~Pap~G~Gi~a~~~~~~il~laGI~Dv~~k~~Gs~n~~-n~vkAt~~aL~~~~---s  140 (154)
T TIGR01021        66 PLTKG-TIPHEVIGVSGAAKVLLKPASPGTGVIAGGAVRAILELAGVKDILAKSLGSNNPI-NVVRATFDALLKLK---S  140 (154)
T ss_pred             ecCCC-ccceEEEEEECcEEEEEEECCCCCceEeCcHHHHHHHHcCcceEEEEccCCCChH-HHHHHHHHHHHcCC---C
Confidence            34555 9999999999999999999999999999999999999999999999999999887 999999  999976   6


Q ss_pred             chhh
Q psy12294         96 TQCM   99 (123)
Q Consensus        96 P~~w   99 (123)
                      |+..
T Consensus       141 ~~~i  144 (154)
T TIGR01021       141 PEDV  144 (154)
T ss_pred             HHHH
Confidence            6654

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=99.91  E-value=2e-25  Score=172.36  Aligned_cols=77  Identities=23%  Similarity=0.398  Sum_probs=71.5

Q ss_pred             CCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccCchhh
Q psy12294         22 HKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTETQCM   99 (123)
Q Consensus        22 ~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~tP~~w   99 (123)
                      +|||||++.|||||++|.|+|||+|+||+|++.+|+|||+|||+||++|++||+|++ |++|||  ||++++   ||+..
T Consensus        80 ~~Ti~~~v~gk~gs~kV~l~Pap~G~Gl~a~~~i~~il~laGI~dv~~k~~Gs~n~~-n~vkA~~~aL~~~~---s~~~i  155 (168)
T PRK00550         80 GGTIPHEVIGKFGAAKVLLKPASEGTGVIAGGAVRAVLELAGVKDVLAKSLGSNNPI-NVVRATFDALKQLR---SPEEV  155 (168)
T ss_pred             CCccceeEEEEEceEEEEEEeCCCCCceEeChHHHHHHHHcCccceeeeccCCCChH-HHHHHHHHHHHhCC---CHHHH
Confidence            899999999999999999999999999999999999999999999999999999876 999999  999987   77654


Q ss_pred             hhc
Q psy12294        100 QVL  102 (123)
Q Consensus       100 ~~~  102 (123)
                      .+.
T Consensus       156 a~~  158 (168)
T PRK00550        156 AAK  158 (168)
T ss_pred             HHH
Confidence            443

>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=99.91  E-value=4.9e-25  Score=150.18  Aligned_cols=63  Identities=40%  Similarity=0.670  Sum_probs=60.2

Q ss_pred             EEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eeccccc
Q psy12294         29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSS   92 (123)
Q Consensus        29 v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~   92 (123)
                      |+||||+++|.|+|||+|+||+|++.+|+|||+|||+||++|++||+|++ |++|||  ||+++++
T Consensus         1 V~gk~g~~~V~l~Pap~G~Gl~a~~~vr~il~laGI~Dv~~K~~Gs~n~~-n~v~A~~~aL~~~~s   65 (74)
T PF03719_consen    1 VTGKFGATKVFLKPAPPGTGLVAGGAVRAILELAGIKDVYAKSRGSRNPI-NVVKATFKALKNQRS   65 (74)
T ss_dssp             EEEEETTEEEEEEESCTTSCEESSHHHHHHHHHTTESSEEEEEESBSSHH-HHHHHHHHHHHTSCS
T ss_pred             CEEEEeeEEEEEEeCCCCcceeechhHHHHHHhcccccEEeeccCCCChh-hHHHHHHHHHHhcCC
Confidence            78999999999999999999999999999999999999999999988765 999999  9999983

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 ....

>CHL00138 rps5 ribosomal protein S5; Validated

Probab=99.82  E-value=2.5e-20  Score=141.10  Aligned_cols=56  Identities=23%  Similarity=0.446  Sum_probs=53.8

Q ss_pred             eecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCC
Q psy12294         18 LFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARG   73 (123)
Q Consensus        18 ~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~G   73 (123)
                      ++.++|||||+|+|||||++|.|+|||+|+||+|++.+|+|||+|||+||++|++|
T Consensus        88 ~~~~~~TI~~~v~gk~gs~~V~l~Pap~G~Gi~a~~~i~~vlelaGI~Dv~aK~~G  143 (143)
T CHL00138         88 PLTKSNSIPHNITGIFGAAKVILRPSAPGSGVIAGGSVRIVLELAGIKNILAKQLG  143 (143)
T ss_pred             EcCCCCeEeeEEEEEEeeEEEEEEECCCCCcEEECcHHHHHHHHcCcceeEeeecC
Confidence            45688999999999999999999999999999999999999999999999999987

>KOG2646|consensus

Probab=98.14  E-value=4.7e-07  Score=78.17  Aligned_cols=75  Identities=19%  Similarity=0.261  Sum_probs=69.3

Q ss_pred             CceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccc
Q psy12294         16 GILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETS   91 (123)
Q Consensus        16 g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~   91 (123)
                      ++.--+.+||-+++.-+|-.+++.|+-+|+|-|+-..+...+|++.+||+|++.|..||.|-+ |+++|+  ||.++.
T Consensus       247 ~ieRyE~rTiygDi~~r~~~~~l~mk~rp~GfGLrcn~il~kIC~~~GIKDis~kv~GsrN~m-~i~k~~~e~l~~qe  323 (396)
T KOG2646|consen  247 YIERYERRTIYGDIDDRFHEVRLDMKSRPDGFGLRCNPILIKICECAGIKDISGKVKGSRNEM-NITKAAFEALALQE  323 (396)
T ss_pred             ccccccCccccccchhhhhhhhhhhhhCCCcccccccHHHHHHHHHhccccccceeeccchHH-HHHHHHHHHHhhhh
Confidence            366677899999999999999999999999999999999999999999999999999999866 999999  877765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	123
2zkq_e	179	Structure Of A Mammalian Ribosomal 40s Subunit With		4e-22
3iz6_E	274	Localization Of The Small Subunit Ribosomal Protein		2e-19
3zey_P	266	High-resolution Cryo-electron Microscopy Structure		4e-18
2xzm_E	296	Crystal Structure Of The Eukaryotic 40s Ribosomal S		7e-18
3izb_E	254	Localization Of The Small Subunit Ribosomal Protein		1e-15
1s1h_E	149	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		3e-15
3jyv_E	162	Structure Of The 40s Rrna And Proteins And PE TRNA		3e-15
3j20_F	236	Promiscuous Behavior Of Proteins In Archaeal Riboso		1e-09

>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 = 99.4 bits (246), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 54/107 (50%), Positives = 66/107 (61%), Gaps = 9/107 (8%)
Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTG+ GSV VRLIPAPRGTGIV APVPKKLL MAGI+D
Sbjct: 77  YWGNKIGKPHTVPCK-------VTGRSGSVPVRLIPAPRGTGIVSAPVPKKLLMMAGIDD 129
Query: 67  CYTSARGSTGTLGNFGEC--NTQHETSSYTETQCMQVLVSSHFPISE 111
           CYTSARG T TLGNF +   +   +T SY      +  V +  P  E
Sbjct: 130 CYTSARGCTATLGNFAKATFDAISKTYSYLTPDLWKETVFTKSPYQE 176

>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 = 90.9 bits (224), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 44/75 (58%), Positives = 55/75 (73%), Gaps = 7/75 (9%)
Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +     + C+       VTGKCGSV VR++PAPRG+GIV A VPKK+LQ AGIED
Sbjct: 152 YWGNKIGQPHTVPCK-------VTGKCGSVTVRMVPAPRGSGIVAARVPKKVLQFAGIED 204
Query: 67  CYTSARGSTGTLGNF 81
            +TS+RGST TLGNF
Sbjct: 205 VFTSSRGSTKTLGNF 219

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

Iteration: 1
 Score = 86.3 bits (212), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 40/53 (75%), Positives = 44/53 (83%)
Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
           VTGKCGSV VRLIPAPRG GIV APVPKK+L+ AG+ED YTS+ G T T GNF
Sbjct: 168 VTGKCGSVAVRLIPAPRGAGIVAAPVPKKILEFAGVEDVYTSSCGKTRTRGNF 220

>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 = 85.5 bits (210), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 38/75 (50%), Positives = 54/75 (72%), Gaps = 7/75 (9%)
Query: 7   FWGHLMVTSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIED 66
           +WG+ +  +  +  +       +TGK GSV++RL+PAPRGTGIV AP+PKK+LQ AG++D
Sbjct: 144 YWGNKIANAHTIPQK-------ITGKSGSVRIRLVPAPRGTGIVAAPIPKKVLQFAGVQD 196
Query: 67  CYTSARGSTGTLGNF 81
            YTS++G T T GNF
Sbjct: 197 IYTSSQGCTRTRGNF 211

>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 = 77.8 bits (190), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 39/65 (60%), Positives = 44/65 (67%)
Query: 16  GILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGST 75
           G    Q   L    TGKCGSV VRLIPAPRG+GIV +P  KKLLQ+AG+ED YT + G T
Sbjct: 145 GTNLGQPHSLATKTTGKCGSVTVRLIPAPRGSGIVASPAVKKLLQLAGVEDVYTQSNGKT 204
Query: 76  GTLGN 80
            TL N
Sbjct: 205 RTLEN 209

>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 = 77.0 bits (188), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 36/51 (70%), Positives = 41/51 (80%)
Query: 30  TGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGN 80
           TGKCGSV VRLIPAPRG+GIV +P  KKLLQ+AG+ED YT + G T TL N
Sbjct: 85  TGKCGSVTVRLIPAPRGSGIVASPAVKKLLQLAGVEDVYTQSNGKTRTLEN 135

>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 = 76.6 bits (187), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 39/65 (60%), Positives = 44/65 (67%)
Query: 16  GILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGST 75
           G    Q   L    TGKCGSV VRLIPAPRG+GIV +P  KKLLQ+AG+ED YT + G T
Sbjct: 71  GTNLGQPHSLATKTTGKCGSVTVRLIPAPRGSGIVASPAVKKLLQLAGVEDVYTQSNGKT 130
Query: 76  GTLGN 80
            TL N
Sbjct: 131 RTLEN 135

>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 = 58.5 bits (140), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 28/56 (50%), Positives = 38/56 (67%)
Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGEC 84
           V GK GSV+VRLIP PRG G+V   V KK+L++AG++D ++   G T T  NF + 
Sbjct: 145 VEGKEGSVRVRLIPGPRGLGLVIGDVGKKILRLAGVQDVWSQTFGETRTTVNFAKA 200

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	123
3u5c_C	254	Guanine nucleotide-binding protein subunit beta-L	8e-29
2xzm_E	296	Ribosomal protein S5 containing protein; ribosome,	1e-28
3iz6_E	274	40S ribosomal protein S2 (S5P); eukaryotic ribosom	3e-28
3i1m_E	167	30S ribosomal protein S5; ribosome structure, prot	3e-06
3r8n_E	150	30S ribosomal protein S5; protein biosynthesis, RN	3e-06
1pkp_A	150	Ribosomal protein S5; 2.80A {Geobacillus stearothe	4e-06
3bbn_E	308	Ribosomal protein S5; small ribosomal subunit, spi	4e-06
2vqe_E	162	30S ribosomal protein S5; tRNA-binding, rRNA-bindi	5e-06

>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 =  104 bits (260), Expect = 8e-29
 Identities = 36/53 (67%), Positives = 41/53 (77%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
            TGKCGSV VRLIPAPRG+GIV +P  KKLLQ+AG+ED YT + G T TL N 
Sbjct: 158 TTGKCGSVTVRLIPAPRGSGIVASPAVKKLLQLAGVEDVYTQSNGKTRTLENT 210

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

 Score =  104 bits (260), Expect = 1e-28
 Identities = 36/53 (67%), Positives = 46/53 (86%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
           +TGK GSV++RL+PAPRGTGIV AP+PKK+LQ AG++D YTS++G T T GNF
Sbjct: 159 ITGKSGSVRIRLVPAPRGTGIVAAPIPKKVLQFAGVQDIYTSSQGCTRTRGNF 211

>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 =  103 bits (257), Expect = 3e-28
 Identities = 41/53 (77%), Positives = 47/53 (88%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNF 81
           VTGKCGSV VR++PAPRG+GIV A VPKK+LQ AGIED +TS+RGST TLGNF
Sbjct: 167 VTGKCGSVTVRMVPAPRGSGIVAARVPKKVLQFAGIEDVFTSSRGSTKTLGNF 219

>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 = 42.9 bits (102), Expect = 3e-06
 Identities = 17/48 (35%), Positives = 27/48 (56%), Gaps = 2/48 (4%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIV-GAPVPKKLLQMAGIEDCYTSARGST 75
           V G     +V + PA  GTGI+ G  + + +L++AG+ +    A GST
Sbjct: 85  VKGVHTGSRVFMQPASEGTGIIAGGAM-RAVLEVAGVHNVLAKAYGST 131

>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 = 42.1 bits (100), Expect = 4e-06
 Identities = 18/48 (37%), Positives = 29/48 (60%), Gaps = 2/48 (4%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIV-GAPVPKKLLQMAGIEDCYTSARGST 75
           V G  G+ ++ L PA  GTG++ G P  + +L++AGI D  + + GS 
Sbjct: 85  VIGHFGAGEIILKPASEGTGVIAGGPA-RAVLELAGISDILSKSIGSN 131

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

 Score = 43.3 bits (102), Expect = 4e-06
 Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 2/48 (4%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIV-GAPVPKKLLQMAGIEDCYTSARGST 75
                G+ +V L PA  GTG++ G  V + +L+MAG+E+      GS 
Sbjct: 227 NEADYGAARVMLRPAAPGTGVIAGGAV-RTVLEMAGVENALGKQLGSN 273

>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 = 42.1 bits (100), Expect = 5e-06
 Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 2/48 (4%)

Query: 29  VTGKCGSVQVRLIPAPRGTGIV-GAPVPKKLLQMAGIEDCYTSARGST 75
           +  + G+ ++ L PA  GTG++ GA   + +L++AG+ D  T   GS 
Sbjct: 80  IEVEFGASKIVLKPAAPGTGVIAGAVP-RAILELAGVTDILTKELGSR 126

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	123
3u5c_C	254	Guanine nucleotide-binding protein subunit beta-L	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
3j20_F	236	30S ribosomal protein S5P; archaea, archaeal, KINK	99.96
3r8n_E	150	30S ribosomal protein S5; protein biosynthesis, RN	99.95
3i1m_E	167	30S ribosomal protein S5; ribosome structure, prot	99.95
1pkp_A	150	Ribosomal protein S5; 2.80A {Geobacillus stearothe	99.95
2vqe_E	162	30S ribosomal protein S5; tRNA-binding, rRNA-bindi	99.94
3bbn_E	308	Ribosomal protein S5; small ribosomal subunit, spi	99.94

>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=2.2e-43  Score=285.98  Aligned_cols=105  Identities=39%  Similarity=0.528  Sum_probs=100.9

Q ss_pred             hcCceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccc
Q psy12294         14 TSGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETS   91 (123)
Q Consensus        14 ~~g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~   91 (123)
                      |-|++++++|||||+|+|||||++|+|+|||+||||||++++|+|||+|||+||+||++|||++++|++|||  ||+++|
T Consensus       143 yWg~~~g~~hTIp~~V~Gk~Gs~~V~L~PAp~GtGIiag~~~r~vLelAGI~Dv~tks~Gst~t~~N~vKATf~AL~kty  222 (254)
T 3u5c_C          143 YWGTNLGQPHSLATKTTGKCGSVTVRLIPAPRGSGIVASPAVKKLLQLAGVEDVYTQSNGKTRTLENTLKAAFVAIGNTY  222 (254)
T ss_dssp             CSSSCCSSCCEESSCEEEEETTEEEEEEECCTTCCEESCHHHHHHHHHTTCCCEEEEEESCTTCHHHHHHHHHHHHHGGG
T ss_pred             cccccCCCCcceeeEEEeeecceEEEEecCCCCcCeecCcHHHHHHHhcCcceEEEEccccCCChHHHHHHHHHHHHhhh
Confidence            346889999999999999999999999999999999999999999999999999999999999888999999  999999


Q ss_pred             cccCchhhhhcccccCchHHHHH-HHHH
Q psy12294         92 SYTETQCMQVLVSSHFPISESLN-TISE  118 (123)
Q Consensus        92 ~~~tP~~w~~~~~~~~P~~e~~d-~~~~  118 (123)
                      +|+|||+|+++.|+++|||||+| +|.+
T Consensus       223 s~ltPdlw~e~~~~~~p~~e~~d~~l~~  250 (254)
T 3u5c_C          223 GFLTPNLWAEQPLPVSPLDIYSDEASAQ  250 (254)
T ss_dssp             GCCCGGGCSCCCCCCCHHHHTTTTSSCC
T ss_pred             cccCHHHhhhcccCCCcchhhhhHHhhh
Confidence            99999999999999999999999 8753

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

Probab=100.00  E-value=5.3e-41  Score=276.67  Aligned_cols=104  Identities=38%  Similarity=0.608  Sum_probs=99.7

Q ss_pred             CceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccc
Q psy12294         16 GILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSY   93 (123)
Q Consensus        16 g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~   93 (123)
                      |++++++|||||+|+|||||++|+|+|||+||||||++++|+||++|||+||+||++|||++++||+|||  ||+++|+|
T Consensus       146 en~~g~~hTIph~V~Gk~Gs~~V~L~PAP~GTGIiAg~~~r~VLelAGI~Dv~tKs~G~S~n~~N~vKATf~AL~k~~s~  225 (296)
T 2xzm_E          146 GNKIANAHTIPQKITGKSGSVRIRLVPAPRGTGIVAAPIPKKVLQFAGVQDIYTSSQGCTRTRGNFLKATYYALANTYRY  225 (296)
T ss_dssp             SSCCSSCCBCSSCEEEEETTEEEEEECCCSSCCCBSCHHHHHHHHTTTCCCCEEEEESCCSCHHHHHHHHHHHHHHHHHS
T ss_pred             cccCCCCCeeeEEEEEEECcEEEEEEECCCCcceecCcHHHHHHHhcCcCeEEEEcccCCCCccchhHHHHHHHHHHhcc
Confidence            4668899999999999999999999999999999999999999999999999999999777788999999  99999999


Q ss_pred             cCchhhhhcccccCchHHHHHHHHHH
Q psy12294         94 TETQCMQVLVSSHFPISESLNTISEI  119 (123)
Q Consensus        94 ~tP~~w~~~~~~~~P~~e~~d~~~~~  119 (123)
                      +||++|++++|+++|||||+|+|.+-
T Consensus       226 ~TPdlw~e~~~~~~p~~e~~d~l~~~  251 (296)
T 2xzm_E          226 LTPDFWGKPEDNELPFETFSEFLHTK  251 (296)
T ss_dssp             CCTTTCSBCCCCCCHHHHHTTGGGST
T ss_pred             cCHHHHhhcccCCChHHHHHHHHhhh
Confidence            99999999999999999999999763

>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=4.5e-43  Score=286.59  Aligned_cols=105  Identities=44%  Similarity=0.627  Sum_probs=101.6

Q ss_pred             cCceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eeccccc
Q psy12294         15 SGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSS   92 (123)
Q Consensus        15 ~g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~   92 (123)
                      -|++++++|||||+|+|||||++|+|+|||+||||||++++|+||++|||+||+||++|||++++||+|||  ||+++|+
T Consensus       153 Wg~~~g~~hTIph~V~Gk~Gs~~V~L~PAP~GTGIiag~~~r~vLelAGI~Dv~tks~Gst~~~~N~vKATf~AL~ktys  232 (274)
T 3iz6_E          153 WGNKIGQPHTVPCKVTGKCGSVTVRMVPAPRGSGIVAARVPKKVLQFAGIEDVFTSSRGSTKTLGNFVKATFDCLMKTYG  232 (274)
T ss_dssp             CCCCEEESSHHHHHHHHHHHHHSSCBCCCBCSSSCBSSCEECCCSSCEEEEESSSCCCSHHHHHHHHHTCSSCEEEEESC
T ss_pred             ccccCCCCcccceEEEEEEcCEEEEEeeCCCCcCeecCcHHHHHHhhcCcceEEEEccccCCChhhhHHHHHHHHHhhhc
Confidence            46899999999999999999999999999999999999999999999999999999999998888999999  9999999


Q ss_pred             ccCchhhhhcccccCchHHHHHHHHHH
Q psy12294         93 YTETQCMQVLVSSHFPISESLNTISEI  119 (123)
Q Consensus        93 ~~tP~~w~~~~~~~~P~~e~~d~~~~~  119 (123)
                      |+|||+|++++|+++|||||+|||.+-
T Consensus       233 ~ltPdlw~e~~~~~~p~~e~~d~l~~~  259 (274)
T 3iz6_E          233 FLTPDFWRDTKFVKSPFQEYTDLLAKP  259 (274)
T ss_dssp             CCHHHHHHHHHHHSSCCCCHHHHHHCC
T ss_pred             ccChHHhhhcccCCCchhhHHHHHhhc
Confidence            999999999999999999999999763

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

Probab=99.96  E-value=1.1e-31  Score=215.58  Aligned_cols=84  Identities=35%  Similarity=0.472  Sum_probs=81.0

Q ss_pred             cCceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eeccccc
Q psy12294         15 SGILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSS   92 (123)
Q Consensus        15 ~g~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~   92 (123)
                      -|++++++|||||+|+|||||++|+|+|||+||||||++++|+||++|||+||+||++|||++++||+|||  ||+++++
T Consensus       131 W~~~~g~~hTIp~~V~Gk~Gs~~V~L~PAp~GtGIiag~~~r~vLelAGI~Dv~tks~Gst~n~~N~vKATf~AL~k~~s  210 (236)
T 3j20_F          131 WECRCRRPHSVPFAVEGKEGSVRVRLIPGPRGLGLVIGDVGKKILRLAGVQDVWSQTFGETRTTVNFAKAVFNALYNTNR  210 (236)
T ss_dssp             SSSCCSSCCBCSSCEEEEETTEEEEEECCCSSCCCBSCHHHHHHHHHHTCCCCEEEEESCCSCHHHHHHHHHHHHHHHHH
T ss_pred             ccccCCCCCceeeEEEEEECCEEEEEEcCCCcCCcccCcHHHHHHHhCCcceEEEEcccCCCCHHHHHHHHHHHHHhccc
Confidence            46899999999999999999999999999999999999999999999999999999999998888999999  9999999


Q ss_pred             ccCchh
Q psy12294         93 YTETQC   98 (123)
Q Consensus        93 ~~tP~~   98 (123)
                      |++++.
T Consensus       211 ~~t~~~  216 (236)
T 3j20_F          211 VAISPE  216 (236)
T ss_dssp             SCCTTT
T ss_pred             ccChHH
Confidence            999776

>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=99.95  E-value=2.7e-29  Score=192.79  Aligned_cols=75  Identities=24%  Similarity=0.341  Sum_probs=70.9

Q ss_pred             CCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccCchh
Q psy12294         21 QHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTETQC   98 (123)
Q Consensus        21 ~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~tP~~   98 (123)
                      ++|||||+|+|||||++|+|+|||+||||||++++|+|||+|||+||+||++||||+ +|++|||  ||++++   ||+.
T Consensus        77 ~~~Tip~~v~gk~gs~~V~l~Pap~GtGiia~~~~r~vl~~aGI~Dv~tk~~Gstn~-~N~vkAtf~aL~~~~---s~~~  152 (167)
T 3i1m_E           77 NNGTLQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVHNVLAKAYGSTNP-INVVRATIDGLENMN---SPEM  152 (167)
T ss_dssp             BTTBCSSCEEEEETTEEEEEECCCCSSSCBCCSSSSSHHHHHTCCSCEEEEEECCCH-HHHHHHTHHHHHSCC---CSTT
T ss_pred             CCCeeeeEeeeeeccEEEEEEcCCCccceecCcHHHHHHHhCCcceEEEEeccCCCh-hHHHHHHHHHHHhcC---CHHH
Confidence            689999999999999999999999999999999999999999999999999999995 6999999  999998   6654


Q ss_pred             h
Q psy12294         99 M   99 (123)
Q Consensus        99 w   99 (123)
                      .
T Consensus       153 v  153 (167)
T 3i1m_E          153 V  153 (167)
T ss_dssp             T
T ss_pred             H
Confidence            3

>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=99.95  E-value=7.4e-29  Score=187.50  Aligned_cols=68  Identities=25%  Similarity=0.432  Sum_probs=66.2

Q ss_pred             CeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccc
Q psy12294         23 KVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETS   91 (123)
Q Consensus        23 ~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~   91 (123)
                      |||||+|+|||||++|+|+|||+||||||++++|+|||+|||+||++|++||+|++ |++|||  ||++++
T Consensus        79 ~Tip~~v~gk~gs~~V~l~Pap~GtGiia~~~~r~vl~~aGI~Dv~tk~~Gs~n~~-N~vkAt~~aL~~~~  148 (150)
T 1pkp_A           79 TTIPHEVIGHFGAGEIILKPASEGTGVIAGGPARAVLELAGISDILSKSIGSNTPI-NMVRATFDGLKQLK  148 (150)
T ss_dssp             TBCSSCEEEEETTEEEEEEECCTTCCEESCHHHHHHHHHHTCCSEEEEECSCCSHH-HHHHHHHHHHHHCC
T ss_pred             ceeeEEEEEEECCEEEEEEECCCCCccccCcHHHHHHHhcCcceEEEEecCCCChh-HHHHHHHHHHHhcc
Confidence            99999999999999999999999999999999999999999999999999999765 999999  999987

>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=99.94  E-value=2.1e-28  Score=187.11  Aligned_cols=74  Identities=23%  Similarity=0.428  Sum_probs=69.4

Q ss_pred             CCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccCchhh
Q psy12294         22 HKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTETQCM   99 (123)
Q Consensus        22 ~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~tP~~w   99 (123)
                      +|||||+|+|||||++|+|+|||+||||||++++|+|||+|||+||++|++||+|++ |++|||  ||++++   +|+..
T Consensus        73 ~~TIp~~v~gk~gs~~V~l~Pap~GtGiiag~~~r~vl~~aGI~Dv~tk~~Gs~n~~-N~vkAt~~aL~~~~---s~~~v  148 (162)
T 2vqe_E           73 NGTIPHEIEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAGVTDILTKELGSRNPI-NIAYATMEALRQLR---TKADV  148 (162)
T ss_dssp             TTSCSSCEEEEETTEEEEEEECCTTSCEESCHHHHHHHHTTTCCSEEEEEEECCCHH-HHHHHHHHHHHHCC---CHHHH
T ss_pred             CCcccEEEEEEeCcEEEEEEECCCCcceecCcHHHHHHHhcCccceEEEecCCCCcc-hHHHHHHHHHHhcC---CHHHH
Confidence            489999999999999999999999999999999999999999999999999998765 999999  999997   66553

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

Probab=99.94  E-value=7.1e-28  Score=199.49  Aligned_cols=76  Identities=22%  Similarity=0.379  Sum_probs=72.2

Q ss_pred             ceecCCCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccc
Q psy12294         17 ILFCQHKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSY   93 (123)
Q Consensus        17 ~~i~~~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~   93 (123)
                      .++.++|||||+|+|||||++|+|+|||+|||||||+++|+|||+|||+||++|++||+|++ |++|||  ||++++++
T Consensus       215 V~r~~~hTIph~V~Gk~Gs~~V~L~PAP~GTGIiAg~~vr~VLelAGIkDv~tKs~GStn~l-N~vKATf~AL~k~~s~  292 (308)
T 3bbn_E          215 VPMTKYLTFPHRNEADYGAARVMLRPAAPGTGVIAGGAVRTVLEMAGVENALGKQLGSNNAL-NNARATIVAVQTMRQF  292 (308)
T ss_dssp             CCCCSSSBCSSCEEEEETTEEEEEEECCTTCCEECCTTTHHHHTTTTCCBEEEEEEECCCTT-TTTTHHHHHHHTCCCH
T ss_pred             EecCCCcccceEEEEEEeeEEEEEEECCCCCceecCcHHHHHHHhcCcceEEEeccCCCCch-hHHHHHHHHHHhcCCH
Confidence            35678999999999999999999999999999999999999999999999999999999988 999999  99999844

---

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	123
d2uube1	81	d.14.1.1 (E:74-154) Ribosomal protein S5, C-termin	5e-16
d1pkpa1	71	d.14.1.1 (A:78-148) Ribosomal protein S5, C-termin	2e-15
d2qale1	81	d.14.1.1 (E:78-158) Ribosomal protein S5, C-termin	2e-15

>d2uube1 d.14.1.1 (E:74-154) Ribosomal protein S5, C-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 81

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]

 Score = 65.5 bits (160), Expect = 5e-16
 Identities = 16/50 (32%), Positives = 29/50 (58%)

Query: 29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTL 78
          +  + G+ ++ L PA  GTG++   VP+ +L++AG+ D  T   GS   +
Sbjct: 7  IEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAGVTDILTKELGSRNPI 56

>d1pkpa1 d.14.1.1 (A:78-148) Ribosomal protein S5, C-terminal domain {Bacillus stearothermophilus [TaxId: 1422]} Length = 71

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]

 Score = 64.0 bits (156), Expect = 2e-15
 Identities = 16/50 (32%), Positives = 28/50 (56%)

Query: 29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTL 78
          V G  G+ ++ L PA  GTG++     + +L++AGI D  + + GS   +
Sbjct: 8  VIGHFGAGEIILKPASEGTGVIAGGPARAVLELAGISDILSKSIGSNTPI 57

>d2qale1 d.14.1.1 (E:78-158) Ribosomal protein S5, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 81

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]

 Score = 64.0 bits (156), Expect = 2e-15
 Identities = 16/50 (32%), Positives = 26/50 (52%)

Query: 29 VTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTL 78
          V G     +V + PA  GTGI+     + +L++AG+ +    A GST  +
Sbjct: 7  VKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVHNVLAKAYGSTNPI 56

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	123
d1pkpa1	71	Ribosomal protein S5, C-terminal domain {Bacillus	99.96
d2uube1	81	Ribosomal protein S5, C-terminal domain {Thermus t	99.96
d2qale1	81	Ribosomal protein S5, C-terminal domain {Escherich	99.96

>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=99.96  E-value=1.6e-31  Score=179.26  Aligned_cols=69  Identities=25%  Similarity=0.419  Sum_probs=65.9

Q ss_pred             CCeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccc
Q psy12294         22 HKVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETS   91 (123)
Q Consensus        22 ~~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~   91 (123)
                      .+||||+|.|||||++|.|+|||+|+||+|++++|+|||+|||+||++|++||+|++ |++|||  ||++++
T Consensus         1 G~TIph~v~gk~gs~~V~l~PAp~GtGliag~~vr~il~laGIkDv~aK~~Gs~n~~-N~~kAt~~aL~~l~   71 (71)
T d1pkpa1           1 GTTIPHEVIGHFGAGEIILKPASEGTGVIAGGPARAVLELAGISDILSKSIGSNTPI-NMVRATFDGLKQLK   71 (71)
T ss_dssp             TTBCSSCEEEEETTEEEEEEECCTTCCEESCHHHHHHHHHHTCCSEEEEECSCCSHH-HHHHHHHHHHHHCC
T ss_pred             CCeeeEEEEEEECeEEEEEEECCCCCccccCHHHHHHHHHcCccceeeecCCCCCHH-HHHHHHHHHHHhcC
Confidence            379999999999999999999999999999999999999999999999999999887 999999  998863

>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=99.96  E-value=1.9e-31  Score=182.85  Aligned_cols=75  Identities=23%  Similarity=0.415  Sum_probs=70.1

Q ss_pred             CeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccCchhhh
Q psy12294         23 KVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTETQCMQ  100 (123)
Q Consensus        23 ~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~tP~~w~  100 (123)
                      +||||+|+|||||++|+|+|||+|+||+|++++|+|||+|||+||++|++||+|++ |++|||  ||++++   ||++..
T Consensus         1 gTIph~v~gk~gs~kV~l~PAp~GtGliag~~vr~ilelaGIkDi~~K~~GS~N~~-N~vkAt~~aL~~~~---t~~~va   76 (81)
T d2uube1           1 GTIPHEIEVEFGASKIVLKPAAPGTGVIAGAVPRAILELAGVTDILTKELGSRNPI-NIAYATMEALRQLR---TKADVE   76 (81)
T ss_dssp             TBCSSCEEEEETTEEEEEEECCTTCCEECCHHHHHHHHHTTCCSEEEEEEECCCHH-HHHHHHHHHHHHCC---CHHHHH
T ss_pred             CccceEEEEEECcEEEEEEECCCCCcccccHHHHHHHHHhCcchhhhhcCCCCCHH-HHHHHHHHHHHhCC---CHHHHH
Confidence            59999999999999999999999999999999999999999999999999999876 999999  999987   777654


Q ss_pred             h
Q psy12294        101 V  101 (123)
Q Consensus       101 ~  101 (123)
                      +
T Consensus        77 ~   77 (81)
T d2uube1          77 R   77 (81)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.96  E-value=3.7e-31  Score=181.25  Aligned_cols=76  Identities=24%  Similarity=0.350  Sum_probs=71.0

Q ss_pred             CeeeEEEEEEecceEEEeecCCCcceEeeCChhHHHHHhcCCceeeeccCCCCCCcccchhcc--eecccccccCchhhh
Q psy12294         23 KVLGLIVTGKCGSVQVRLIPAPRGTGIVGAPVPKKLLQMAGIEDCYTSARGSTGTLGNFGECN--TQHETSSYTETQCMQ  100 (123)
Q Consensus        23 ~TIph~v~Gk~gs~~V~L~PAp~GtGIVAg~~~r~VlelAGIkDv~tks~Gstnt~~N~~kAT--AL~~~~~~~tP~~w~  100 (123)
                      +||||+|+||||+++|+|+|||+|+||||++++|+|||+|||+||++|++||+|++ |++|||  ||++++   ||+++-
T Consensus         1 gTIph~v~gk~gs~kV~l~PAp~GtGliag~~vr~ilelaGI~Dv~~K~~GS~n~~-N~vkAt~~aL~~~~---t~~~iA   76 (81)
T d2qale1           1 GTLQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVHNVLAKAYGSTNPI-NVVRATIDGLENMN---SPEMVA   76 (81)
T ss_dssp             TBCSSCBCCEETTEEEEBCBCCTTSCEECCHHHHHHHHHHTCCSEECEEEECCCHH-HHHHHHHHHHTTCC---CHHHHH
T ss_pred             CcccEEEEEEECcEEEEEEECCCCCccccCHHHHHHHHHcCcceeEeEcCCCCCHH-HHHHHHHHHHHcCC---CHHHHH
Confidence            59999999999999999999999999999999999999999999999999999876 999999  999985   887765


Q ss_pred             hc
Q psy12294        101 VL  102 (123)
Q Consensus       101 ~~  102 (123)
                      +.
T Consensus        77 ~~   78 (81)
T d2qale1          77 AK   78 (81)
T ss_dssp             HH
T ss_pred             HH
Confidence            43