Psyllid ID: psy10269

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------11
Protein Sequence
MGPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD
Secondary Structure (PSIPRED)
ccHHHHHHHHHccccccccHHHHHHHHHHHccccccccHHHHHHHHccccHHHHHHHHccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEEEccccEEcccHHHHHHHHHHcccccccccHHHHHHHHccccHHHHEEEccccccccccccccccccccccccccHHHHHHHHccccccccccccccccc
Coil and Loop (DISEMBL)
MGPKCALFLHMSyivgsedgEKIQTVLKAAgvevepywpgLFAKALEGVNVKELISnvgsgagagpaaaAPAAAQAAAPAAAEAKEdkkkkeesdegsdddmgfglfd
Flexible Loop (DISEMBL)
MGPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAPAAAeakedkkkkeesdegsdddmgfglfd
Low Complexity Region (SEG)
MGPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVgsgagagpaaaapaaaqaaapaaaeakedkkkkeesdegsdddMGFGLFD
Disordered region (IsUnstruct)
****CALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELI*****************************************************
Disordered Region (DISOPRED)
*GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV*******************************************MGFGLFD
Disordered Region (DISEMBL)
MGPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSG***************************************DMGFGLFD
Disordered Region (DISPRO)
*GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGS*********************************************LF*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD
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	108	2.2.26 [Sep-21-2011]
P08570	112	60S acidic ribosomal prot	yes	N/A	0.916	0.883	0.682	2e-19
O01359	112	60S acidic ribosomal prot	N/A	N/A	0.814	0.785	0.640	4e-15
P91913	111	60S acidic ribosomal prot	yes	N/A	0.805	0.783	0.730	1e-13
P49148	110	60S acidic ribosomal prot	N/A	N/A	0.898	0.881	0.5	2e-12
P05386	114	60S acidic ribosomal prot	yes	N/A	0.935	0.885	0.480	1e-11
Q56K14	114	60S acidic ribosomal prot	yes	N/A	0.935	0.885	0.480	1e-11
O23095	113	60S acidic ribosomal prot	no	N/A	0.824	0.787	0.561	1e-11
Q8LEQ0	113	60S acidic ribosomal prot	no	N/A	0.814	0.778	0.545	4e-11
P18660	114	60S acidic ribosomal prot	yes	N/A	0.935	0.885	0.5	7e-11
P19944	114	60S acidic ribosomal prot	yes	N/A	0.935	0.885	0.480	7e-11

>sp|P08570|RLA1_DROME 60S acidic ribosomal protein P1 OS=Drosophila melanogaster GN=RpLP1 PE=1 SV=2

 Score = 94.4 bits (233), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 71/104 (68%), Positives = 83/104 (79%), Gaps = 5/104 (4%)

Query: 9   LHMSYIVGSED----GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGA 64
           ++ S I+  +D    GEKI T+LKAA VEVEPYWPGLFAKALEG+NVK+LI+N+GSG GA
Sbjct: 10  VYASLILVDDDVAVTGEKINTILKAANVEVEPYWPGLFAKALEGINVKDLITNIGSGVGA 69

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
            PA  A  AA AAAPAA   KE+KKK+EESD+ SDDDMGFGLFD
Sbjct: 70  APAGGAAPAAAAAAPAAESKKEEKKKEEESDQ-SDDDMGFGLFD 112

Plays an important role in the elongation step of protein synthesis.
Drosophila melanogaster (taxid: 7227)

>sp|O01359|RLA1_OSCBR 60S acidic ribosomal protein P1 OS=Oscheius brevesophaga GN=rpl-21 PE=3 SV=1

 Score = 79.7 bits (195), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 57/89 (64%), Positives = 66/89 (74%), Gaps = 1/89 (1%)

Query: 20  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAP 79
           G+KI T+LKAA +E EP+WPGLFAKALEGV+VK LI++V SGA AGPA AA AA    AP
Sbjct: 25  GDKIATLLKAANIEFEPFWPGLFAKALEGVDVKNLITSVSSGASAGPAQAAAAAPAGGAP 84

Query: 80  AAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           AAA   E K+ +    E SDDDMGFGL D
Sbjct: 85  AAAAPAESKEGRRSQGE-SDDDMGFGLLD 112

Plays an important role in the elongation step of protein synthesis.

Oscheius brevesophaga (taxid: 57871)

>sp|P91913|RLA1_CAEEL 60S acidic ribosomal protein P1 OS=Caenorhabditis elegans GN=rla-1 PE=3 SV=2

 Score = 75.5 bits (184), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 65/89 (73%), Positives = 71/89 (79%), Gaps = 2/89 (2%)

Query: 20  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAP 79
           GEKI T+LKAA VE EPYWPGLFAKALEGV+VK LI++V SGAG+GPA AA AAA AA  
Sbjct: 25  GEKIATLLKAANVEFEPYWPGLFAKALEGVDVKNLITSVSSGAGSGPAPAAAAAAPAAGG 84

Query: 80  AAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           AA  A+   KKKEE  E SDDDMGFGLFD
Sbjct: 85  AAPAAE--TKKKEEPKEESDDDMGFGLFD 111

Plays an important role in the elongation step of protein synthesis.

Caenorhabditis elegans (taxid: 6239)

>sp|P49148|RLA1_ALTAL 60S acidic ribosomal protein P1 OS=Alternaria alternata GN=ALTA12 PE=1 SV=1

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 54/108 (50%), Positives = 70/108 (64%), Gaps = 11/108 (10%)

Query: 9   LHMSY--IVGSEDG-----EKIQTVLKAAGVE-VEPYWPGLFAKALEGVNVKELISNVGS 60
           L  SY  ++ ++DG     +K+Q+++KAA +E VEP W  LFAKALEG +VK+L+ NVGS
Sbjct: 6   LATSYAALILADDGVDITADKLQSLIKAAKIEEVEPIWTTLFAKALEGKDVKDLLLNVGS 65

Query: 61  GAGAGPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           G GA P    P A      AA  A   ++KKEE  E SD+DMGFGLFD
Sbjct: 66  GGGAAP---LPEALLLRWRAADAAPAAEEKKEEEKEESDEDMGFGLFD 110

Plays an important role in the elongation step of protein synthesis.

Alternaria alternata (taxid: 5599)

>sp|P05386|RLA1_HUMAN 60S acidic ribosomal protein P1 OS=Homo sapiens GN=RPLP1 PE=1 SV=1

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/104 (48%), Positives = 61/104 (58%), Gaps = 3/104 (2%)

Query: 6   ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV-GSGAGA 64
           AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV   G   
Sbjct: 13  ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNVGAGGPAP 70

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
              AA       +  AA   ++  + K+E  E SDDDMGFGLFD
Sbjct: 71  AAGAAPAGGPAPSTAAAPAEEKKVEAKKEESEESDDDMGFGLFD 114

Plays an important role in the elongation step of protein synthesis.

Homo sapiens (taxid: 9606)

>sp|Q56K14|RLA1_BOVIN 60S acidic ribosomal protein P1 OS=Bos taurus GN=RPLP1 PE=3 SV=1

 Score = 68.6 bits (166), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/104 (48%), Positives = 61/104 (58%), Gaps = 3/104 (2%)

Query: 6   ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV-GSGAGA 64
           AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV   G   
Sbjct: 13  ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNVGAGGPAP 70

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
              AA       +  AA   ++  + K+E  E SDDDMGFGLFD
Sbjct: 71  AAGAAPAGGPAPSTAAAPAEEKKVEAKKEESEESDDDMGFGLFD 114

Plays an important role in the elongation step of protein synthesis.

Bos taurus (taxid: 9913)

>sp|O23095|RLA12_ARATH 60S acidic ribosomal protein P1-2 OS=Arabidopsis thaliana GN=RPP1B PE=1 SV=2

 Score = 68.2 bits (165), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 50/89 (56%), Positives = 61/89 (68%)

Query: 20  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAP 79
            +KI T++KAAGVE+E YWP LFAK  E  NV +LI NVG+G G G A  + AA  AA  
Sbjct: 25  SDKIATLVKAAGVEIESYWPMLFAKMAEKRNVTDLIMNVGAGGGGGGAPVSAAAPAAAGG 84

Query: 80  AAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           AAA A   ++KK+E  E SD D+GFGLFD
Sbjct: 85  AAAAAPAKEEKKDEPAEESDGDLGFGLFD 113

Plays an important role in the elongation step of protein synthesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LEQ0|RLA13_ARATH 60S acidic ribosomal protein P1-3 OS=Arabidopsis thaliana GN=RPP1C PE=1 SV=2

 Score = 66.6 bits (161), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 48/88 (54%), Positives = 58/88 (65%)

Query: 21  EKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAPA 80
           +KI T++KAAGV +E YWP LFAK  E  NV +LI NVG+G G G   AA A A     A
Sbjct: 26  DKIATLVKAAGVTIESYWPMLFAKMAEKRNVTDLIMNVGAGGGGGAPVAAAAPAAGGGAA 85

Query: 81  AAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           AA    ++KKK+E  E SD D+GFGLFD
Sbjct: 86  AAAPAAEEKKKDEPAEESDGDLGFGLFD 113

Plays an important role in the elongation step of protein synthesis.

Arabidopsis thaliana (taxid: 3702)

>sp|P18660|RLA1_CHICK 60S acidic ribosomal protein P1 OS=Gallus gallus GN=RPLP1 PE=3 SV=1

 Score = 65.9 bits (159), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 52/104 (50%), Positives = 66/104 (63%), Gaps = 3/104 (2%)

Query: 6   ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV-GSGAGA 64
           AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  +++  LI NV   G   
Sbjct: 13  ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANIDIGSLICNVGAGGGAP 70

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
             AA A  AA A   AA   ++ +++K+E  E SDDDMGFGLFD
Sbjct: 71  AAAAPAGGAAPAGGGAAPAEEKKEEEKKEESEESDDDMGFGLFD 114

Plays an important role in the elongation step of protein synthesis.

Gallus gallus (taxid: 9031)

>sp|P19944|RLA1_RAT 60S acidic ribosomal protein P1 OS=Rattus norvegicus GN=Rplp1 PE=3 SV=1

 Score = 65.9 bits (159), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 50/104 (48%), Positives = 62/104 (59%), Gaps = 3/104 (2%)

Query: 6   ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV-GSGAGA 64
           AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV   G   
Sbjct: 13  ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNVGAGGPAP 70

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
              AA       +A AA   ++  + K+E  E S+DDMGFGLFD
Sbjct: 71  AAGAAPAGGPAPSAAAAPAEEKKVEAKKEESEESEDDMGFGLFD 114

Plays an important role in the elongation step of protein synthesis.

Rattus norvegicus (taxid: 10116)

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	108
110671420	113	putative 60S acidic ribosomal protein P1	0.824	0.787	1.0	3e-41
195437586	113	GK24637 [Drosophila willistoni] gi|19416	0.925	0.884	0.673	3e-19
4239713	111	acidic ribosomal protein [Ceratitis capi	0.796	0.774	0.611	3e-18
195388324	112	GJ17775 [Drosophila virilis] gi|19414928	0.916	0.883	0.673	8e-18
17136320	112	ribosomal protein LP1, isoform A [Drosop	0.916	0.883	0.682	8e-18
340730119	111	PREDICTED: 60S acidic ribosomal protein	0.805	0.783	0.651	9e-18
297591983	111	60S acidic ribosomal protein P1 [Apis me	0.805	0.783	0.685	1e-17
344190594	116	ribosomal protein P1 [Dipetalogaster max	0.824	0.767	0.698	3e-17
195118268	112	GI21657 [Drosophila mojavensis] gi|19391	0.916	0.883	0.682	3e-17
8476	112	unnamed protein product [Drosophila mela	0.916	0.883	0.673	3e-17

>gi|110671420|gb|ABG81961.1| putative 60S acidic ribosomal protein P1 [Diaphorina citri]

 Score =  172 bits (435), Expect = 3e-41,   Method: Compositional matrix adjust.
 Identities = 89/89 (100%), Positives = 89/89 (100%)

Query: 20  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAP 79
           GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAP
Sbjct: 25  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAP 84

Query: 80  AAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           AAAEAKEDKKKKEESDEGSDDDMGFGLFD
Sbjct: 85  AAAEAKEDKKKKEESDEGSDDDMGFGLFD 113

Source: Diaphorina citri

Species: Diaphorina citri

Genus: Diaphorina

Family: Psyllidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195437586|ref|XP_002066721.1| GK24637 [Drosophila willistoni] gi|194162806|gb|EDW77707.1| GK24637 [Drosophila willistoni]

 Score = 99.0 bits (245), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 70/104 (67%), Positives = 82/104 (78%), Gaps = 4/104 (3%)

Query: 9   LHMSYIVGSED----GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGA 64
           ++ S I+  +D    GEKI T+LKAA VEVEPYWPGLFAKALEGVNVK+LI+N+GSG GA
Sbjct: 10  VYASLILVDDDVAVTGEKISTILKAANVEVEPYWPGLFAKALEGVNVKDLITNIGSGVGA 69

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
            PA  A A A AAAPA  EAK+++KKKEE  + SDDDMGFGLFD
Sbjct: 70  APAGGAAAPAAAAAPAGGEAKKEEKKKEEESDVSDDDMGFGLFD 113

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|4239713|emb|CAA72658.1| acidic ribosomal protein [Ceratitis capitata]

 Score = 95.5 bits (236), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 55/90 (61%), Positives = 68/90 (75%), Gaps = 4/90 (4%)

Query: 20  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAG-AGPAAAAPAAAQAAA 78
           GEKI T+LKAA V+VEPYWPGLFAKALEG+NVK+LI+N+GSG G A P+   PA   AA 
Sbjct: 25  GEKITTILKAASVDVEPYWPGLFAKALEGINVKDLITNIGSGVGAAAPSGGLPAGGDAAP 84

Query: 79  PAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
             A + ++ K+++ E    SDDDMGFGLFD
Sbjct: 85  AEAKKEEKKKEEEPEE---SDDDMGFGLFD 111

Source: Ceratitis capitata

Species: Ceratitis capitata

Genus: Ceratitis

Family: Tephritidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195388324|ref|XP_002052830.1| GJ17775 [Drosophila virilis] gi|194149287|gb|EDW64985.1| GJ17775 [Drosophila virilis]

 Score = 94.4 bits (233), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 70/104 (67%), Positives = 81/104 (77%), Gaps = 5/104 (4%)

Query: 9   LHMSYIVGSED----GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGA 64
           ++ S I+  +D    GEKI T+LKAA VEVEPYWPGLFAKALEG+NVK+LI+N+GSG GA
Sbjct: 10  VYASLILVDDDVAVTGEKISTILKAANVEVEPYWPGLFAKALEGINVKDLITNIGSGVGA 69

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
            PA  A A A A APAA   KE+KKK+EESD  SDDDMGFGLFD
Sbjct: 70  APAGGAAAPAAADAPAAEAKKEEKKKEEESDV-SDDDMGFGLFD 112

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17136320|ref|NP_476630.1| ribosomal protein LP1, isoform A [Drosophila melanogaster] gi|442624965|ref|NP_001259822.1| ribosomal protein LP1, isoform B [Drosophila melanogaster] gi|194853475|ref|XP_001968169.1| GG24717 [Drosophila erecta] gi|195350097|ref|XP_002041578.1| GM16740 [Drosophila sechellia] gi|195575543|ref|XP_002077637.1| GD23023 [Drosophila simulans] gi|1350780|sp|P08570.2|RLA1_DROME RecName: Full=60S acidic ribosomal protein P1; AltName: Full=Acidic ribosomal protein RPA2; AltName: Full=RP21C gi|386060|gb|AAB26902.1| acidic ribosomal protein rpA2 [Drosophila melanogaster] gi|7296207|gb|AAF51499.1| ribosomal protein LP1, isoform A [Drosophila melanogaster] gi|17861586|gb|AAL39270.1| GH13422p [Drosophila melanogaster] gi|190660036|gb|EDV57228.1| GG24717 [Drosophila erecta] gi|194123351|gb|EDW45394.1| GM16740 [Drosophila sechellia] gi|194189646|gb|EDX03222.1| GD23023 [Drosophila simulans] gi|440213070|gb|AGB92359.1| ribosomal protein LP1, isoform B [Drosophila melanogaster]

 Score = 94.4 bits (233), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 71/104 (68%), Positives = 83/104 (79%), Gaps = 5/104 (4%)

Query: 9   LHMSYIVGSED----GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGA 64
           ++ S I+  +D    GEKI T+LKAA VEVEPYWPGLFAKALEG+NVK+LI+N+GSG GA
Sbjct: 10  VYASLILVDDDVAVTGEKINTILKAANVEVEPYWPGLFAKALEGINVKDLITNIGSGVGA 69

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
            PA  A  AA AAAPAA   KE+KKK+EESD+ SDDDMGFGLFD
Sbjct: 70  APAGGAAPAAAAAAPAAESKKEEKKKEEESDQ-SDDDMGFGLFD 112

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340730119|ref|XP_003403334.1| PREDICTED: 60S acidic ribosomal protein P1-like [Bombus terrestris]

 Score = 94.0 bits (232), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 58/89 (65%), Positives = 72/89 (80%), Gaps = 2/89 (2%)

Query: 20  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAP 79
           GEKIQT+LKAA V+VE YWPGLFAKALEGVN+KELI+ +GSG G+ PAA A AAA A+  
Sbjct: 25  GEKIQTILKAAAVDVESYWPGLFAKALEGVNIKELITKIGSGVGSAPAAPAAAAAPASTE 84

Query: 80  AAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           +A + ++ K++ EE +  SDDDMGFGLFD
Sbjct: 85  SAPKEEKKKEEPEEQE--SDDDMGFGLFD 111

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|297591983|ref|NP_001172073.1| 60S acidic ribosomal protein P1 [Apis mellifera] gi|380017668|ref|XP_003692769.1| PREDICTED: 60S acidic ribosomal protein P1-like isoform 1 [Apis florea] gi|380017670|ref|XP_003692770.1| PREDICTED: 60S acidic ribosomal protein P1-like isoform 2 [Apis florea] gi|380017672|ref|XP_003692771.1| PREDICTED: 60S acidic ribosomal protein P1-like isoform 3 [Apis florea] gi|380017674|ref|XP_003692772.1| PREDICTED: 60S acidic ribosomal protein P1-like isoform 4 [Apis florea]

 Score = 94.0 bits (232), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 61/89 (68%), Positives = 71/89 (79%), Gaps = 2/89 (2%)

Query: 20  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAP 79
           GEKIQT+LKAA V+VE YWPGLFAKALEGVN+KELI+N+GSG G  PAAA  AAA A+  
Sbjct: 25  GEKIQTILKAANVDVESYWPGLFAKALEGVNIKELITNIGSGVGKAPAAAPAAAAPASTE 84

Query: 80  AAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           +A   +  +KKKEE +  SDDDMGFGLFD
Sbjct: 85  SAPAKE--EKKKEEPEPESDDDMGFGLFD 111

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|344190594|gb|AEM97978.1| ribosomal protein P1 [Dipetalogaster maximus]

 Score = 92.4 bits (228), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 65/93 (69%), Positives = 76/93 (81%), Gaps = 4/93 (4%)

Query: 20  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAG----AGPAAAAPAAAQ 75
           GEKIQT+LKAA V+VEPYWPGLFAKALEG+NVKELI+N+GSG G    AG A AA  A  
Sbjct: 24  GEKIQTILKAASVDVEPYWPGLFAKALEGINVKELITNIGSGVGAAPAAGSAPAAAPADA 83

Query: 76  AAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           AAAPA ++ K+++KKK ES+  SDDDMGFGLFD
Sbjct: 84  AAAPAGSDKKKEEKKKVESEPESDDDMGFGLFD 116

Source: Dipetalogaster maximus

Species: Dipetalogaster maximus

Genus: Dipetalogaster

Family: Reduviidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195118268|ref|XP_002003662.1| GI21657 [Drosophila mojavensis] gi|193914237|gb|EDW13104.1| GI21657 [Drosophila mojavensis]

 Score = 92.4 bits (228), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 71/104 (68%), Positives = 82/104 (78%), Gaps = 5/104 (4%)

Query: 9   LHMSYIVGSED----GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGA 64
           ++ S I+  +D    GEKI T+LKAA VEVEPYWPGLFAKALEG+NVK+LI+N+GSG GA
Sbjct: 10  VYASLILVDDDVAVTGEKISTILKAANVEVEPYWPGLFAKALEGINVKDLITNIGSGVGA 69

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
            PA  A A A AAAPAA   KE+KKK+EESD  SDDDMGFGLFD
Sbjct: 70  APAGGAAAPAAAAAPAAESKKEEKKKEEESDV-SDDDMGFGLFD 112

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|8476|emb|CAA68557.1| unnamed protein product [Drosophila melanogaster]

 Score = 92.4 bits (228), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 70/104 (67%), Positives = 82/104 (78%), Gaps = 5/104 (4%)

Query: 9   LHMSYIVGSED----GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGA 64
           ++ S I+  +D    GEKI T+LKAA VEVEPYWPGLFAKALE +NVK+LI+N+GSG GA
Sbjct: 10  VYASLILVDDDVAVTGEKINTILKAANVEVEPYWPGLFAKALEAINVKDLITNIGSGVGA 69

Query: 65  GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
            PA  A  AA AAAPAA   KE+KKK+EESD+ SDDDMGFGLFD
Sbjct: 70  APAGGAAPAAAAAAPAAESKKEEKKKEEESDQ-SDDDMGFGLFD 112

Source: Drosophila melanogaster

Species: Drosophila melanogaster

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	108
FB|FBgn0002593	112	RpLP1 "Ribosomal protein LP1"	0.537	0.517	0.603	2e-16
WB|WBGene00004409	111	rla-1 [Caenorhabditis elegans	0.361	0.351	0.794	1.9e-14
UNIPROTKB|Q56K14	114	RPLP1 "60S acidic ribosomal pr	0.472	0.447	0.584	2.6e-13
UNIPROTKB|P05386	114	RPLP1 "60S acidic ribosomal pr	0.472	0.447	0.584	2.6e-13
UNIPROTKB|F1SIT7	114	LOC100523874 "Uncharacterized	0.472	0.447	0.584	2.6e-13
MGI|MGI:1927099	114	Rplp1 "ribosomal protein, larg	0.472	0.447	0.584	2.6e-13
RGD|621774	114	Rplp1 "ribosomal protein, larg	0.472	0.447	0.584	2.6e-13
UNIPROTKB|E1BCL5	114	E1BCL5 "Uncharacterized protei	0.472	0.447	0.584	4.2e-13
UNIPROTKB|F1RJQ9	114	LOC100153492 "Uncharacterized	0.472	0.447	0.584	5.3e-13
UNIPROTKB|P18660	114	RPLP1 "60S acidic ribosomal pr	0.472	0.447	0.547	1.1e-12

FB|FBgn0002593 RpLP1 "Ribosomal protein LP1" [Drosophila melanogaster (taxid:7227)]

 Score = 178 (67.7 bits), Expect = 2.0e-16, Sum P(2) = 2.0e-16
 Identities = 38/63 (60%), Positives = 47/63 (74%)

Query:     1 MGPKCALF-LHMSYIVGSED----GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELI 55
             M  K  L  ++ S I+  +D    GEKI T+LKAA VEVEPYWPGLFAKALEG+NVK+LI
Sbjct:     1 MSTKAELACVYASLILVDDDVAVTGEKINTILKAANVEVEPYWPGLFAKALEGINVKDLI 60

Query:    56 SNV 58
             +N+
Sbjct:    61 TNI 63

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

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISS;NAS

GO:0006412 "translation" evidence=ISS

GO:0006414 "translational elongation" evidence=IEA;NAS

GO:0005840 "ribosome" evidence=IDA

GO:0005811 "lipid particle" evidence=IDA

WB|WBGene00004409 rla-1 [Caenorhabditis elegans (taxid:6239)]

 Score = 159 (61.0 bits), Expect = 1.9e-14, Sum P(2) = 1.9e-14
 Identities = 31/39 (79%), Positives = 35/39 (89%)

Query:    20 GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
             GEKI T+LKAA VE EPYWPGLFAKALEGV+VK LI++V
Sbjct:    25 GEKIATLLKAANVEFEPYWPGLFAKALEGVDVKNLITSV 63

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006414 "translational elongation" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0009792 "embryo development ending in birth or egg hatching" evidence=IMP

UNIPROTKB|Q56K14 RPLP1 "60S acidic ribosomal protein P1" [Bos taurus (taxid:9913)]

 Score = 148 (57.2 bits), Expect = 2.6e-13, Sum P(2) = 2.6e-13
 Identities = 31/53 (58%), Positives = 37/53 (69%)

Query:     6 ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
             AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV
Sbjct:    13 ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNV 63

GO:0022625 "cytosolic large ribosomal subunit" evidence=IEA

GO:0006414 "translational elongation" evidence=IEA

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

UNIPROTKB|P05386 RPLP1 "60S acidic ribosomal protein P1" [Homo sapiens (taxid:9606)]

 Score = 148 (57.2 bits), Expect = 2.6e-13, Sum P(2) = 2.6e-13
 Identities = 31/53 (58%), Positives = 37/53 (69%)

Query:     6 ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
             AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV
Sbjct:    13 ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNV 63

GO:0005515 "protein binding" evidence=IPI

GO:0006412 "translation" evidence=NAS;TAS

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

GO:0022625 "cytosolic large ribosomal subunit" evidence=IDA

GO:0003723 "RNA binding" evidence=TAS

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

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F1SIT7 LOC100523874 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 148 (57.2 bits), Expect = 2.6e-13, Sum P(2) = 2.6e-13
 Identities = 31/53 (58%), Positives = 37/53 (69%)

Query:     6 ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
             AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV
Sbjct:    13 ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNV 63

GO:0006414 "translational elongation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

MGI|MGI:1927099 Rplp1 "ribosomal protein, large, P1" [Mus musculus (taxid:10090)]

 Score = 148 (57.2 bits), Expect = 2.6e-13, Sum P(2) = 2.6e-13
 Identities = 31/53 (58%), Positives = 37/53 (69%)

Query:     6 ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
             AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV
Sbjct:    13 ALILHDDEVTVTED--KINALIKAAGVSVEPFWPGLFAKALANVNIGSLICNV 63

GO:0003674 "molecular_function" evidence=ND

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006414 "translational elongation" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

RGD|621774 Rplp1 "ribosomal protein, large, P1" [Rattus norvegicus (taxid:10116)]

 Score = 148 (57.2 bits), Expect = 2.6e-13, Sum P(2) = 2.6e-13
 Identities = 31/53 (58%), Positives = 37/53 (69%)

Query:     6 ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
             AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV
Sbjct:    13 ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNV 63

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

GO:0005737 "cytoplasm" evidence=ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006414 "translational elongation" evidence=IEA

GO:0022625 "cytosolic large ribosomal subunit" evidence=ISO

UNIPROTKB|E1BCL5 E1BCL5 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 146 (56.5 bits), Expect = 4.2e-13, Sum P(2) = 4.2e-13
 Identities = 31/53 (58%), Positives = 36/53 (67%)

Query:     6 ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
             AL LH   +   ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV
Sbjct:    13 ALILHDDEVTVMED--KINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNV 63

GO:0006414 "translational elongation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

UNIPROTKB|F1RJQ9 LOC100153492 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 151 (58.2 bits), Expect = 5.3e-13, Sum P(2) = 5.3e-13
 Identities = 31/53 (58%), Positives = 38/53 (71%)

Query:     6 ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
             AL LH + +   ED  KI  ++KAAGV+VEP+WPGLFAKAL  VN+  LI NV
Sbjct:    13 ALILHNNEVTVQED--KINALIKAAGVDVEPFWPGLFAKALANVNIGSLICNV 63

GO:0006414 "translational elongation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

UNIPROTKB|P18660 RPLP1 "60S acidic ribosomal protein P1" [Gallus gallus (taxid:9031)]

 Score = 142 (55.0 bits), Expect = 1.1e-12, Sum P(2) = 1.1e-12
 Identities = 29/53 (54%), Positives = 37/53 (69%)

Query:     6 ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
             AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  +++  LI NV
Sbjct:    13 ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANIDIGSLICNV 63

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

GO:0006414 "translational elongation" evidence=IEA

GO:0022625 "cytosolic large 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)
P05386	RLA1_HUMAN	No assigned EC number	0.4807	0.9351	0.8859	yes	N/A
P08570	RLA1_DROME	No assigned EC number	0.6826	0.9166	0.8839	yes	N/A
P17476	RLA1_SCHPO	No assigned EC number	0.5168	0.7962	0.7889	yes	N/A
P18660	RLA1_CHICK	No assigned EC number	0.5	0.9351	0.8859	yes	N/A
P22684	RLA1_DICDI	No assigned EC number	0.5	0.7962	0.7610	yes	N/A
O44010	RLA2_LEIBR	No assigned EC number	0.4534	0.7777	0.8	yes	N/A
Q56K14	RLA1_BOVIN	No assigned EC number	0.4807	0.9351	0.8859	yes	N/A
P05318	RLA1_YEAST	No assigned EC number	0.4606	0.7777	0.7924	yes	N/A
P91913	RLA1_CAEEL	No assigned EC number	0.7303	0.8055	0.7837	yes	N/A
P19944	RLA1_RAT	No assigned EC number	0.4807	0.9351	0.8859	yes	N/A
P52855	RLA1_MAIZE	No assigned EC number	0.54	0.8518	0.8440	N/A	N/A
Q9HGV0	RLA1_ASPFU	No assigned EC number	0.5648	0.9074	0.8828	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	108
cd05831	103	cd05831, Ribosomal_P1, Ribosomal protein P1	9e-31
pfam00428	88	pfam00428, Ribosomal_60s, 60s Acidic ribosomal pro	3e-19
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	1e-15
cd05833	109	cd05833, Ribosomal_P2, Ribosomal protein P2	8e-15
cd04411	105	cd04411, Ribosomal_P1_P2_L12p, Ribosomal protein P	1e-14
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	2e-10
PLN00138	113	PLN00138, PLN00138, large subunit ribosomal protei	4e-09
PTZ00373	112	PTZ00373, PTZ00373, 60S Acidic ribosomal protein P	6e-09
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	2e-08
PTZ00135	310	PTZ00135, PTZ00135, 60S acidic ribosomal protein P	2e-07
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	1e-06
PTZ00240	323	PTZ00240, PTZ00240, 60S ribosomal protein P0; Prov	8e-05
PRK05704	407	PRK05704, PRK05704, dihydrolipoamide succinyltrans	2e-04

>gnl|CDD|100109 cd05831, Ribosomal_P1, Ribosomal protein P1

 Score =  104 bits (262), Expect = 9e-31
 Identities = 57/88 (64%), Positives = 67/88 (76%), Gaps = 4/88 (4%)

Query: 20  GEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAP 79
            + I  +LKAAGV VEPYWPGLFAKALEG ++K+L+SNVG G G     AAPAAA AAA 
Sbjct: 20  ADNINALLKAAGVNVEPYWPGLFAKALEGKDIKDLLSNVGGGGG----GAAPAAAAAAAA 75

Query: 80  AAAEAKEDKKKKEESDEGSDDDMGFGLF 107
           AAA   + ++KKEE +E SDDDMGFGLF
Sbjct: 76  AAAAEAKKEEKKEEEEEESDDDMGFGLF 103

This subfamily represents the eukaryotic large ribosomal protein P1. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P1 is located in the L12 stalk, with proteins P2, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers) and bacteria may have four or six copies (two or three homodimers), depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2A, and P2B, which form P1A/P2B and P1B/P2A heterodimers. Some plant species have a third P-protein, called P3, which is not homologous to P1 and P2. In humans, P1 and P2 are strongly autoimmunogenic. They play a significant role in the etiology and pathogenesis of systemic lupus erythema (SLE). In addition, the ribosome-inactivating protein trichosanthin (TCS) interacts with human P0, P1, and P2, with its primary binding site located in the C-terminal region of P2. TCS inactivates the ribosome by depurinating a specific adenine in the sarcin-ricin loop of 28S rRNA. Length = 103

>gnl|CDD|215914 pfam00428, Ribosomal_60s, 60s Acidic ribosomal protein

 Score = 75.0 bits (185), Expect = 3e-19
 Identities = 49/87 (56%), Positives = 57/87 (65%), Gaps = 3/87 (3%)

Query: 21  EKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAPA 80
             I+ VLKAAG EVE     L  K LEG N+KELI+N  +   A  AAAA A   AAA A
Sbjct: 5   ADIKHVLKAAGKEVEAERLELLVKFLEGKNIKELIANGSAKLSAAAAAAAAA---AAAAA 61

Query: 81  AAEAKEDKKKKEESDEGSDDDMGFGLF 107
           AA A E++KK+EE +E  DDDMGFGLF
Sbjct: 62  AAAAAEEEKKEEEEEEEEDDDMGFGLF 88

This family includes archaebacterial L12, eukaryotic P0, P1 and P2. Length = 88

>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

 Score = 66.3 bits (162), Expect = 1e-15
 Identities = 45/92 (48%), Positives = 59/92 (64%), Gaps = 2/92 (2%)

Query: 19  DGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAA 78
             + +++VL+AAGVEVE         ALEGV++ E+I N      A  AA A AAA A A
Sbjct: 18  TEDNLKSVLEAAGVEVEEARAKALVAALEGVDIDEVIKNAAEAPAAAAAAGAAAAAAAGA 77

Query: 79  PAAAEA--KEDKKKKEESDEGSDDDMGFGLFD 108
            AAAEA   E+++K+EE++E SDDDM FGLF 
Sbjct: 78  EAAAEADEAEEEEKEEEAEEESDDDMLFGLFG 109

Length = 109

>gnl|CDD|100111 cd05833, Ribosomal_P2, Ribosomal protein P2

 Score = 64.2 bits (157), Expect = 8e-15
 Identities = 45/89 (50%), Positives = 55/89 (61%), Gaps = 5/89 (5%)

Query: 23  IQTVLKAAGVEVEPYWPGLFAKALEGVNVKELI---SNVGSGAGAGPAAAAPAAAQAAAP 79
           ++ +L + GVEV+          LEG +V+ELI       +   AG   AAPAAA AAA 
Sbjct: 23  VKKILGSVGVEVDDEKLNKVISELEGKDVEELIAAGKEKLASVPAGAGGAAPAAAAAAAA 82

Query: 80  AAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           AAA  KE  +KKEES+E SDDDMGFGLFD
Sbjct: 83  AAAAKKE--EKKEESEEESDDDMGFGLFD 109

This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2A, and P2B, which form P1A/P2B and P1B/P2A heterodimers. Some plants have a third P-protein, called P3, which is not homologous to P1 and P2. In humans, P1 and P2 are strongly autoimmunogenic. They play a significant role in the etiology and pathogenesis of systemic lupus erythema (SLE). In addition, the ribosome-inactivating protein trichosanthin (TCS) interacts with human P0, P1, and P2, with its primary binding site in the C-terminal region of P2. TCS inactivates the ribosome by depurinating a specific adenine in the sarcin-ricin loop of 28S rRNA. Length = 109

>gnl|CDD|100108 cd04411, Ribosomal_P1_P2_L12p, Ribosomal protein P1, P2, and L12p

 Score = 63.8 bits (155), Expect = 1e-14
 Identities = 40/86 (46%), Positives = 51/86 (59%), Gaps = 1/86 (1%)

Query: 22  KIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAPAA 81
           KI+ +L AAG E+EP    LF  AL G N+ E+IS       +  AAAA  AA AAA A 
Sbjct: 21  KIKELLSAAGAEIEPERVKLFLSALNGKNIDEVISKGKELMSSQAAAAAAPAATAAATAE 80

Query: 82  AEAKEDKKKKEESDEGSDDDMGFGLF 107
              K ++ K+EE +E  D+D GFGLF
Sbjct: 81  PAEKAEEAKEEEEEE-EDEDFGFGLF 105

Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have two copies each of P1 and P2 (two heterodimers). Bacteria may have four or six copies (two or three homodimers), depending on the species. As in bacteria, the stalk is crucial for binding of initiation, elongation, and release factors in eukaryotes and archaea. Length = 105

>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed

 Score = 53.0 bits (128), Expect = 2e-10
 Identities = 38/86 (44%), Positives = 54/86 (62%), Gaps = 4/86 (4%)

Query: 21  EKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAPA 80
           + ++ VL+AAGVEV+         ALE VN++E I      A A P AAA AAA AAA A
Sbjct: 20  DNLKKVLEAAGVEVDEARVKALVAALEDVNIEEAIKK----AAAAPVAAAAAAAAAAAAA 75

Query: 81  AAEAKEDKKKKEESDEGSDDDMGFGL 106
           AAE K++++++EE  E S+++   GL
Sbjct: 76  AAEEKKEEEEEEEEKEESEEEAAAGL 101

Length = 106

>gnl|CDD|165706 PLN00138, PLN00138, large subunit ribosomal protein LP2; Provisional

 Score = 49.7 bits (118), Expect = 4e-09
 Identities = 39/95 (41%), Positives = 53/95 (55%), Gaps = 9/95 (9%)

Query: 21  EKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELIS-------NVGSGAGAGPAAAAPAA 73
           E ++ +L + G + +     L    ++G ++ ELI+       +V SG G   AAAA  A
Sbjct: 21  EDLKDILGSVGADADDDRIELLLSEVKGKDITELIASGREKLASVPSGGGVAVAAAAAPA 80

Query: 74  AQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           A  AA  AAEAK  K++K E  E SDDDMGF LFD
Sbjct: 81  AGGAAAPAAEAK--KEEKVEEKEESDDDMGFSLFD 113

Length = 113

>gnl|CDD|185582 PTZ00373, PTZ00373, 60S Acidic ribosomal protein P2; Provisional

 Score = 49.1 bits (117), Expect = 6e-09
 Identities = 39/95 (41%), Positives = 54/95 (56%), Gaps = 12/95 (12%)

Query: 21  EKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELIS-------NVGSGAGAGPAAAAPAA 73
           ++++ VL A   +VE      F K+LEG    ELI+       N+G G  A  A   PAA
Sbjct: 23  KEVKNVLSAVNADVEDDVLDNFFKSLEGKTPHELIAAGMKKLQNIGGGVAAAAA---PAA 79

Query: 74  AQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
             A A A AEAK+++KK+EE +E  +DD+GF LF 
Sbjct: 80  GAATAGAKAEAKKEEKKEEEEEE--EDDLGFSLFG 112

Length = 112

>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P

 Score = 47.7 bits (114), Expect = 2e-08
 Identities = 36/85 (42%), Positives = 52/85 (61%), Gaps = 4/85 (4%)

Query: 19  DGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAA 78
           + E ++ VL+AAGVEV+         ALEGVN++E I      A A P AAA AAA AAA
Sbjct: 18  NEENLKAVLEAAGVEVDEARVKALVAALEGVNIEEAIKK----AAAAPVAAAAAAAAAAA 73

Query: 79  PAAAEAKEDKKKKEESDEGSDDDMG 103
            A  E +E+++++EE +E  ++ M 
Sbjct: 74  AAEEEEEEEEEEEEEEEESEEEAMA 98

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome. Length = 105

>gnl|CDD|240285 PTZ00135, PTZ00135, 60S acidic ribosomal protein P0; Provisional

 Score = 47.3 bits (113), Expect = 2e-07
 Identities = 26/55 (47%), Positives = 30/55 (54%), Gaps = 5/55 (9%)

Query: 54  LISNVGSGAGAGPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD 108
           L   +        AAAA AAA  AA AAA A     ++EE +E   DDMGFGLFD
Sbjct: 261 LAEKIKEALANPSAAAAAAAA--AAAAAAAAAAAPAEEEEEEE---DDMGFGLFD 310

Length = 310

>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p

 Score = 43.3 bits (102), Expect = 1e-06
 Identities = 34/83 (40%), Positives = 47/83 (56%), Gaps = 2/83 (2%)

Query: 21  EKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPAAAAPAAAQAAAPA 80
           E ++ VL+AAG+EV+         ALE VN+ E I      A A  AA A AAA AA   
Sbjct: 20  ENLKKVLEAAGIEVDEARVKALVAALEEVNIDEAIKKAAVAAAA--AAPAAAAAAAAEEK 77

Query: 81  AAEAKEDKKKKEESDEGSDDDMG 103
           A E +E+KKK+EE +E  ++ + 
Sbjct: 78  AEEKEEEKKKEEEKEEEEEEALA 100

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly interact with rRNA. Archaeal L12p is believed to function in a similar fashion. However, hybrid ribosomes containing the large subunit from E. coli with an archaeal stalk are able to bind archaeal and eukaryotic elongation factors but not bacterial elongation factors. In several mesophilic and thermophilic archaeal species, the binding of 23S rRNA to protein L11 and to the L10/L12p pentameric complex was found to be temperature-dependent and cooperative. Length = 106

>gnl|CDD|140267 PTZ00240, PTZ00240, 60S ribosomal protein P0; Provisional

 Score = 39.6 bits (92), Expect = 8e-05
 Identities = 21/47 (44%), Positives = 24/47 (51%), Gaps = 7/47 (14%)

Query: 59  GSGAGAGPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFG 105
           G   G G AAA  AAA  AA +AA        KEE +E  +DD G G
Sbjct: 281 GLLGGGGSAAAEAAAAAPAAASAA-------AKEEEEESDEDDFGMG 320

Length = 323

>gnl|CDD|235571 PRK05704, PRK05704, dihydrolipoamide succinyltransferase; Validated

 Score = 38.3 bits (90), Expect = 2e-04
 Identities = 21/50 (42%), Positives = 30/50 (60%)

Query: 49  VNVKELISNVGSGAGAGPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGS 98
           V V +++  +  GA AG AAAA AAA AAA A A+A+     ++ +D  S
Sbjct: 67  VTVGQVLGRIDEGAAAGAAAAAAAAAAAAAAAPAQAQAAAAAEQSNDALS 116

Length = 407

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	108
cd05831	103	Ribosomal_P1 Ribosomal protein P1. This subfamily	99.97
cd04411	105	Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and	99.96
KOG1762|consensus	114		99.96
cd05833	109	Ribosomal_P2 Ribosomal protein P2. This subfamily	99.95
PTZ00373	112	60S Acidic ribosomal protein P2; Provisional	99.95
PLN00138	113	large subunit ribosomal protein LP2; Provisional	99.95
KOG3449|consensus	112		99.92
COG2058	109	RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Tr	99.9
PRK06402	106	rpl12p 50S ribosomal protein L12P; Reviewed	99.89
PF00428	88	Ribosomal_60s: 60s Acidic ribosomal protein; Inter	99.84
TIGR03685	105	L21P_arch 50S ribosomal protein L12P. This model r	99.81
cd05832	106	Ribosomal_L12p Ribosomal protein L12p. This subfam	99.8
PTZ00135	310	60S acidic ribosomal protein P0; Provisional	99.62
PTZ00240	323	60S ribosomal protein P0; Provisional	99.18
cd04411	105	Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and	97.08
PRK04019	330	rplP0 acidic ribosomal protein P0; Validated	95.85
KOG3449|consensus	112		94.43
cd05833	109	Ribosomal_P2 Ribosomal protein P2. This subfamily	94.15
PRK06402	106	rpl12p 50S ribosomal protein L12P; Reviewed	92.96
COG2058	109	RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Tr	92.14
PTZ00240	323	60S ribosomal protein P0; Provisional	90.05
PRK04019	330	rplP0 acidic ribosomal protein P0; Validated	89.95
KOG0815|consensus	245		88.56

>cd05831 Ribosomal_P1 Ribosomal protein P1

Probab=99.97  E-value=1.1e-30  Score=175.51  Aligned_cols=99  Identities=66%  Similarity=0.989  Sum_probs=76.0

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCCCCCc-ccccccchhhhcccch
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGA-GPAAAAPAAAQAAAPA   80 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a~~~~-a~~a~~~~~~~~~~~~   80 (108)
                      .+||+|||||+++  +||++||++||+++|++|+++|+.+|++.|+||+|++||+++++++++ +|++++++++  ++  
T Consensus         4 c~yAaLiL~d~~~--~~Tae~I~~ilkAaGveve~~~~~~f~~~L~gk~i~elIa~~~~~~~~aap~a~~a~~~--~~--   77 (103)
T cd05831           4 CTYAALILHDDGI--EITADNINALLKAAGVNVEPYWPGLFAKALEGKDIKDLLSNVGGGGGGAAPAAAAAAAA--AA--   77 (103)
T ss_pred             HHHHHHHHccCCC--CCCHHHHHHHHHHcCCcccHHHHHHHHHHHcCCCHHHHhhccccccccccccccccccc--cc--
Confidence            3699999999999  999999999999999999999999999999999999999998765433 3332221111  11  


Q ss_pred             hhhhhhhhhhccccccccccCCCCCCC
Q psy10269         81 AAEAKEDKKKKEESDEGSDDDMGFGLF  107 (108)
Q Consensus        81 a~~~~~~~~~k~eeeeE~d~dmgfgLF  107 (108)
                      .++++++ ++|+|++||+|+|||||||
T Consensus        78 ~~~~~~~-~kk~e~eee~d~dmgfglF  103 (103)
T cd05831          78 AAEAKKE-EKKEEEEEESDDDMGFGLF  103 (103)
T ss_pred             cccchhh-hcccccccccccccccccC
Confidence            1111233 4456666778999999999

This subfamily represents the eukaryotic large ribosomal protein P1. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P1 is located in the L12 stalk, with proteins P2, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers) and bacteria may have four or six copies (two or three homodimers), depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2A, and

>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p

Probab=99.96  E-value=4.1e-30  Score=173.32  Aligned_cols=96  Identities=42%  Similarity=0.582  Sum_probs=72.8

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCC-------CCCcccccccchhh
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGS-------GAGAGPAAAAPAAA   74 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a-------~~~~a~~a~~~~~~   74 (108)
                      |.||.|||++.+.  +||+++|++||+++|++|+++|+.+|++.|+|++|++||++...       +|+ +++++    +
T Consensus         3 ~v~A~Lll~~~g~--~~ta~~I~~IL~aaGveVe~~~~~~~~~aLaGk~V~eli~~g~~kl~~~~~~~~-a~~~a----~   75 (105)
T cd04411           3 YVAAYLLLHKGGK--ELTEDKIKELLSAAGAEIEPERVKLFLSALNGKNIDEVISKGKELMSSQAAAAA-APAAT----A   75 (105)
T ss_pred             HHHHHHHHHhcCC--CCCHHHHHHHHHHcCCCcCHHHHHHHHHHHcCCCHHHHHHHHHhhccCCCCccc-ccccc----c
Confidence            7899999999998  89999999999999999999999999999999999999997532       221 11111    1


Q ss_pred             hcccchhhhhhhhhhhccccccccccCCCCCCC
Q psy10269         75 QAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLF  107 (108)
Q Consensus        75 ~~~~~~a~~~~~~~~~k~eeeeE~d~dmgfgLF  107 (108)
                      ++++  ++.++++ ++|+|++||||||||||||
T Consensus        76 ~~~~--~~~~~~~-e~k~ee~eE~dddmgf~LF  105 (105)
T cd04411          76 AATA--EPAEKAE-EAKEEEEEEEDEDFGFGLF  105 (105)
T ss_pred             cccc--cchhhhh-hhhcccccccccccCcccC
Confidence            1111  1111233 4455666888999999999

Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain

>KOG1762|consensus

Probab=99.96  E-value=5.3e-30  Score=173.33  Aligned_cols=104  Identities=63%  Similarity=0.909  Sum_probs=80.6

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCCCCCcccc-cccchhhhcccch
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGAGPA-AAAPAAAQAAAPA   80 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a~~~~a~~-a~~~~~~~~~~~~   80 (108)
                      .+|++|||+|+++  .+|.++|+++++++|++|+++||.+|+++|.+++|.+||+++++++++.++ +++++++++++++
T Consensus         9 c~yaalIL~d~~i--~it~dki~tl~kaa~v~ve~~Wp~lfakale~vni~~li~n~gag~~a~a~~~~~~~~aa~~~~a   86 (114)
T KOG1762|consen    9 CSYAALILHDDEI--EVTADKINTLTKAAGVNVEPYWPGLFAKALEGVNIKELICNVGAGGGALAAGAAAAGGAAAAGGA   86 (114)
T ss_pred             Hhhhhhhccccce--eeehhhhhhHHHhccCcccccchhHHHHHhccCChHHHHHhcccCCccCCCcccccccccccccc
Confidence            4799999999999  999999999999999999999999999999999999999999876544321 1222222122211


Q ss_pred             hh-hhhhhhhhccccccccccCCCCCCCC
Q psy10269         81 AA-EAKEDKKKKEESDEGSDDDMGFGLFD  108 (108)
Q Consensus        81 a~-~~~~~~~~k~eeeeE~d~dmgfgLFd  108 (108)
                      ++ +++++ +.|+|+.||+||||||||||
T Consensus        87 A~~~Ekk~-eak~EeseesddDmgfGLfd  114 (114)
T KOG1762|consen   87 AAAEEKKE-EAKKEESEESDDDMGFGLFD  114 (114)
T ss_pred             ccchHHHH-HhhhhhhcccccccccCCCC
Confidence            22 22333 55777789999999999998

>cd05833 Ribosomal_P2 Ribosomal protein P2

Probab=99.95  E-value=9.6e-29  Score=167.61  Aligned_cols=100  Identities=44%  Similarity=0.536  Sum_probs=66.1

Q ss_pred             ccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCC--CC--Ccccccccchhhhccc
Q psy10269          3 PKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGS--GA--GAGPAAAAPAAAQAAA   78 (108)
Q Consensus         3 ~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a--~~--~~a~~a~~~~~~~~~~   78 (108)
                      .|..+.|..+.   +||++||++||+++|++|+++|+.+|++.|+||+|++||++...  ++  +++.++++++++ +++
T Consensus         6 AylL~~l~g~~---~pTa~dI~~IL~AaGveVe~~~~~lf~~~L~GKdi~eLIa~g~~kl~s~~~~~~~aa~a~~~-~a~   81 (109)
T cd05833           6 AYLLAVLGGNA---SPSAADVKKILGSVGVEVDDEKLNKVISELEGKDVEELIAAGKEKLASVPAGAGGAAPAAAA-AAA   81 (109)
T ss_pred             HHHHHHHcCCC---CCCHHHHHHHHHHcCCCccHHHHHHHHHHHcCCCHHHHHHHhHhhhcCCCcccccccccccc-ccc
Confidence            34555555554   89999999999999999999999999999999999999997433  11  011111111111 111


Q ss_pred             chhhhhhhhhhhccccccccccCCCCCCCC
Q psy10269         79 PAAAEAKEDKKKKEESDEGSDDDMGFGLFD  108 (108)
Q Consensus        79 ~~a~~~~~~~~~k~eeeeE~d~dmgfgLFd  108 (108)
                       ++++++++ ++|+|++||+|+||||||||
T Consensus        82 -aa~~~~~e-~kkee~eee~ddDmGf~LFd  109 (109)
T cd05833          82 -AAAAAKKE-EKKEESEEESDDDMGFGLFD  109 (109)
T ss_pred             -cccchhhh-hhccCCccccccccCCCCCC
Confidence             11111233 34445555669999999998

This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2

>PTZ00373 60S Acidic ribosomal protein P2; Provisional

Probab=99.95  E-value=1.4e-28  Score=167.34  Aligned_cols=100  Identities=33%  Similarity=0.453  Sum_probs=67.3

Q ss_pred             ccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHh----c-CCCCCcccccccchhhhcc
Q psy10269          3 PKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISN----V-GSGAGAGPAAAAPAAAQAA   77 (108)
Q Consensus         3 ~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~----~-~a~~~~a~~a~~~~~~~~~   77 (108)
                      .|..+.|..++   +||++||++||+++|++|+++|+.+|++.|+||+|++||++    + +.||+++++++++++++++
T Consensus         8 AYlL~~lgG~~---~pTaddI~kIL~AaGveVd~~~~~l~~~~L~GKdI~ELIa~G~~kl~svgg~~~aa~a~a~~~~~~   84 (112)
T PTZ00373          8 AYLMCVLGGNE---NPTKKEVKNVLSAVNADVEDDVLDNFFKSLEGKTPHELIAAGMKKLQNIGGGVAAAAAPAAGAATA   84 (112)
T ss_pred             HHHHHHHcCCC---CCCHHHHHHHHHHcCCCccHHHHHHHHHHHcCCCHHHHHHHhHHHHhcccCccccccccccccccc
Confidence            35555555555   79999999999999999999999999999999999999984    1 1133221111111111011


Q ss_pred             cchhhhhhhhhhhccccccccccCCCCCCCC
Q psy10269         78 APAAAEAKEDKKKKEESDEGSDDDMGFGLFD  108 (108)
Q Consensus        78 ~~~a~~~~~~~~~k~eeeeE~d~dmgfgLFd  108 (108)
                      .+ +++ +++ ++|+||+|||||||||||||
T Consensus        85 ~~-~~~-~~~-e~k~ee~ee~ddDmgf~LFd  112 (112)
T PTZ00373         85 GA-KAE-AKK-EEKKEEEEEEEDDLGFSLFG  112 (112)
T ss_pred             cc-chh-hhh-hhcccccccccccccccccC
Confidence            11 112 233 44566678889999999998

>PLN00138 large subunit ribosomal protein LP2; Provisional

Probab=99.95  E-value=5.1e-28  Score=164.94  Aligned_cols=100  Identities=38%  Similarity=0.529  Sum_probs=69.7

Q ss_pred             ccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHh-------cCCCCCcccccccch-hh
Q psy10269          3 PKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISN-------VGSGAGAGPAAAAPA-AA   74 (108)
Q Consensus         3 ~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~-------~~a~~~~a~~a~~~~-~~   74 (108)
                      .|..+.|..++   .||+++|++||+++|++|+++|+++|++.|+||+|++||++       ++++|++++++++++ ++
T Consensus         6 Ayll~~l~g~~---~pta~dI~~IL~AaGvevd~~~~~~f~~~L~gK~i~eLIa~G~~kl~sv~~gg~aa~a~a~a~~~~   82 (113)
T PLN00138          6 AYLLAVLGGNT---CPSAEDLKDILGSVGADADDDRIELLLSEVKGKDITELIASGREKLASVPSGGGVAVAAAAAPAAG   82 (113)
T ss_pred             HHHHHHhcCCC---CCCHHHHHHHHHHcCCcccHHHHHHHHHHHcCCCHHHHHHhchhccccCCCCCccccccccccccc
Confidence            35556666655   89999999999999999999999999999999999999964       666554322111111 11


Q ss_pred             hcccchhhhhhhhhhhccccccccccCCCCCCCC
Q psy10269         75 QAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD  108 (108)
Q Consensus        75 ~~~~~~a~~~~~~~~~k~eeeeE~d~dmgfgLFd  108 (108)
                      +++.+ +++ +++ ++|+|++||+|+||||||||
T Consensus        83 ~~~~~-~~~-~~~-e~k~e~eeE~ddDmGfgLFd  113 (113)
T PLN00138         83 GAAAP-AAE-AKK-EEKVEEKEESDDDMGFSLFD  113 (113)
T ss_pred             ccccc-ccc-hhh-hhhccccccccccccccccC
Confidence            01111 111 222 34456667889999999998

>KOG3449|consensus

Probab=99.92  E-value=1.1e-25  Score=151.53  Aligned_cols=98  Identities=38%  Similarity=0.542  Sum_probs=69.7

Q ss_pred             cchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHh-------cCCCCCccccccc-chhhh
Q psy10269          4 KCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISN-------VGSGAGAGPAAAA-PAAAQ   75 (108)
Q Consensus         4 ~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~-------~~a~~~~a~~a~~-~~~~~   75 (108)
                      |--+.|..+.   .++..+|++||.++|++++..|+++|++.|+||+|.+||+.       +++||+++.++++ +++++
T Consensus         7 YLL~~lgGn~---~psa~DikkIl~sVG~E~d~e~i~~visel~GK~i~ElIA~G~eklAsvpsGGa~~aaa~~aaggaa   83 (112)
T KOG3449|consen    7 YLLAVLGGNA---SPSASDIKKILESVGAEIDDERINLVLSELKGKDIEELIAAGREKLASVPSGGAVAAAAAPAAGGAA   83 (112)
T ss_pred             HHHHHhcCCC---CCCHHHHHHHHHHhCcccCHHHHHHHHHHhcCCCHHHHHHHhHHHHhcCCCCCccccccCcCCCCCc
Confidence            3334444444   89999999999999999999999999999999999999984       6777663222222 11111


Q ss_pred             cccchhhhhhhhhhhccccccccccCCCCCCCC
Q psy10269         76 AAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD  108 (108)
Q Consensus        76 ~~~~~a~~~~~~~~~k~eeeeE~d~dmgfgLFd  108 (108)
                      +++   +...++ ++|+||+||+||||||+|||
T Consensus        84 ~aa---~~a~~~-e~keEe~eesddDmgf~lFd  112 (112)
T KOG3449|consen   84 GAA---PAAAKE-EEKEEEKEESDDDMGFGLFD  112 (112)
T ss_pred             cCC---ccchhh-hhhhhhcccccccccccccC
Confidence            121   121233 44556668999999999998

>COG2058 RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

Probab=99.90  E-value=1.6e-24  Score=145.63  Aligned_cols=104  Identities=44%  Similarity=0.569  Sum_probs=73.3

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCCCC-Ccc--cccccchhhhccc
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGA-GAG--PAAAAPAAAQAAA   78 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a~~-~~a--~~a~~~~~~~~~~   78 (108)
                      |.|+.|+||-.+.  +||++||.+|++++|++|++.|.+.|+++|+|+||+++|.+....- +++  +++++++++++.+
T Consensus         3 Yi~a~llL~~agk--ei~e~~l~~vl~aaGveve~~r~k~lvaaLeg~~idE~i~~~~~~~~a~a~a~aaaa~~A~~~~a   80 (109)
T COG2058           3 YIYAYLLLHLAGK--EITEDNLKSVLEAAGVEVEEARAKALVAALEGVDIDEVIKNAAEAPAAAAAAGAAAAAAAGAEAA   80 (109)
T ss_pred             HHHHHHHHHHccC--cCCHHHHHHHHHHcCCCccHHHHHHHHHHhcCCCHHHHHHHhcccccccCCcccccccccccccc
Confidence            7899999999998  9999999999999999999999999999999999999999854321 111  1111110111111


Q ss_pred             chhhhhhhhhhhccccccccccCCCCCCCC
Q psy10269         79 PAAAEAKEDKKKKEESDEGSDDDMGFGLFD  108 (108)
Q Consensus        79 ~~a~~~~~~~~~k~eeeeE~d~dmgfgLFd  108 (108)
                      ....+++++ +++++.+||+++||||+|||
T Consensus        81 ~~~~ea~eE-e~eEe~~EE~~~~~lf~LF~  109 (109)
T COG2058          81 AEADEAEEE-EKEEEAEEESDDDMLFGLFG  109 (109)
T ss_pred             cchhhHHHH-HhhhchhhcccccchhhccC
Confidence            001011222 23455667888999999998

>PRK06402 rpl12p 50S ribosomal protein L12P; Reviewed

Probab=99.89  E-value=4.6e-24  Score=143.88  Aligned_cols=57  Identities=33%  Similarity=0.397  Sum_probs=54.8

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCC
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGS   60 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a   60 (108)
                      |.||+|||++.+.  +||++||++||+++|++|+++|+++|+++|+|++|++||.+.++
T Consensus         3 yiyAaLLL~~~g~--~it~e~I~~IL~AAGveVee~~~k~~v~aL~GkdIeElI~~a~~   59 (106)
T PRK06402          3 YIYAALLLHSAGK--EINEDNLKKVLEAAGVEVDEARVKALVAALEDVNIEEAIKKAAA   59 (106)
T ss_pred             HHHHHHHHHhcCC--CCCHHHHHHHHHHcCCCccHHHHHHHHHHHcCCCHHHHHHhccc
Confidence            7899999999999  99999999999999999999999999999999999999988654

>PF00428 Ribosomal_60s: 60s Acidic ribosomal protein; InterPro: IPR001813 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.84  E-value=5.9e-23  Score=134.20  Aligned_cols=86  Identities=64%  Similarity=0.878  Sum_probs=56.4

Q ss_pred             CCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCCCCCc-ccccccchhhhcccchhhhhhhhhhhccccc
Q psy10269         17 SEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGAGA-GPAAAAPAAAQAAAPAAAEAKEDKKKKEESD   95 (108)
Q Consensus        17 ~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a~~~~-a~~a~~~~~~~~~~~~a~~~~~~~~~k~eee   95 (108)
                      .||.++|.+||+++|++|+++|+.+|++.|++++|++||++++.++++ ++++++++++  .+ ++++ +++ ++|++++
T Consensus         1 ~pT~~~i~~vl~aag~~v~~~~~~~~~~~l~~~~i~~li~~~~~~~~~~aaa~aaa~aa--~~-~a~a-~~e-~kkEeee   75 (88)
T PF00428_consen    1 EPTAENIKKVLKAAGVEVEAIWLELFAKALEGKDIKELIANGSAGMAAAAAAAAAAAAA--AA-AAAA-AEE-EKKEEEE   75 (88)
T ss_dssp             S-SCCCHHHHHHHHTHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHTTSSHHH--HH-HHHH-HST-THHHHT-
T ss_pred             CCCHHHHHHHHHHhCCchhHHHHHHHHHHHcCCcHHHHHhccccccccccccccccccc--cc-cccc-chh-ccccccc
Confidence            478999999999999999999999999999999999999987654221 1111111111  11 1111 222 2222222


Q ss_pred             -cccccCCCCCCC
Q psy10269         96 -EGSDDDMGFGLF  107 (108)
Q Consensus        96 -eE~d~dmgfgLF  107 (108)
                       ||+|+|||||||
T Consensus        76 eEEed~dmGf~LF   88 (88)
T PF00428_consen   76 EEEEDDDMGFGLF   88 (88)
T ss_dssp             -SS-SSSSSTTTT
T ss_pred             ccccccccCcCCC
Confidence             688999999999

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The 60S acidic ribosomal protein plays an important role in the elongation step of protein synthesis. This family includes archaebacterial L12, eukaryotic P0, P1 and P2 []. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Alt a 6, Alt a 12, Cla h 3, Cla h 4 and Cla h 12.; GO: 0003735 structural constituent of ribosome, 0006414 translational elongation, 0005622 intracellular, 0005840 ribosome; PDB: 3A1Y_C 3N2D_B 2LBF_A 3IZS_t 3IZR_t 1S4J_A 2JDL_C 2W1O_B 1S4H_A 2ZKR_g.

>TIGR03685 L21P_arch 50S ribosomal protein L12P

Probab=99.81  E-value=1.8e-20  Score=126.37  Aligned_cols=57  Identities=37%  Similarity=0.443  Sum_probs=54.6

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCC
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGS   60 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a   60 (108)
                      |.||+|||++.++  +||.++|++||+++|++|+++|+.+|++.|+|++|.++|.++..
T Consensus         3 yvyA~Lll~~~g~--~iT~e~I~~IL~AAGv~ve~~~~~~la~~L~gk~i~eli~~~~~   59 (105)
T TIGR03685         3 YIYAALLLHSAGK--EINEENLKAVLEAAGVEVDEARVKALVAALEGVNIEEAIKKAAA   59 (105)
T ss_pred             HHHHHHHHHhcCC--CCCHHHHHHHHHHhCCcccHHHHHHHHHHHcCCCHHHHHHhhhc
Confidence            7899999999999  99999999999999999999999999999999999999987653

This model represents the L12P protein of the large (50S) subunit of the archaeal ribosome.

>cd05832 Ribosomal_L12p Ribosomal protein L12p

Probab=99.80  E-value=3.6e-20  Score=124.98  Aligned_cols=57  Identities=33%  Similarity=0.385  Sum_probs=54.8

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCC
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGS   60 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a   60 (108)
                      |.||+|||++.+.  +||.++|++||+++|++|+++|+.+|++.|+|++|+++|.+++.
T Consensus         3 yvyAaLLL~~~G~--eITae~I~~IL~AAGveVd~~~~~ala~aL~gkdIeElIa~~~~   59 (106)
T cd05832           3 YIYAALLLHYAGK--EINEENLKKVLEAAGIEVDEARVKALVAALEEVNIDEAIKKAAV   59 (106)
T ss_pred             HHHHHHHHHhcCC--CCCHHHHHHHHHHhCCcccHHHHHHHHHHHcCCCHHHHHHhccc
Confidence            7899999999999  99999999999999999999999999999999999999998754

This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly intera

>PTZ00135 60S acidic ribosomal protein P0; Provisional

Probab=99.62  E-value=5.4e-17  Score=126.81  Aligned_cols=95  Identities=33%  Similarity=0.409  Sum_probs=66.1

Q ss_pred             CccchhhcccCCCcCCCCH--HHHHHHHHHhCCcccCchhHHHHHHhcCC---------------CHHHHHHhcCCCCCc
Q psy10269          2 GPKCALFLHMSYIVGSEDG--EKIQTVLKAAGVEVEPYWPGLFAKALEGV---------------NVKELISNVGSGAGA   64 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~--e~I~~vl~aaG~~v~~~~~~~f~~alkgk---------------~i~~li~~~~a~~~~   64 (108)
                      |+-..|.++++++.+.+..  .+|.+|+.++|++|.++|+|+|+++|++.               +++..++++++..+ 
T Consensus       199 ~~~~vL~i~~e~~~~~~~~~~~~i~als~aag~pt~~s~p~~ia~a~k~~~a~a~~~~~~~~~~~~~~~~~a~~~~~~~-  277 (310)
T PTZ00135        199 YDAKVLDITDEDIVAKFQEGVQNVAAISLAAGYPTEASAPHSILNAFKNLAAIGLESGFTFPLAEKIKEALANPSAAAA-  277 (310)
T ss_pred             eCHHHcCCCHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHhhcCCCChhhHHHHHhhcCchhhcc-
Confidence            3444577777777666665  89999999999999999999999999998               45555566665543 


Q ss_pred             ccccccchhhhcccchhhhhhhhhhhccccccccccCCCCCCCC
Q psy10269         65 GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD  108 (108)
Q Consensus        65 a~~a~~~~~~~~~~~~a~~~~~~~~~k~eeeeE~d~dmgfgLFd  108 (108)
                      +|+++ + +   ++  + + + + ++++|||||||+||||||||
T Consensus       278 ~~~~~-~-~---~~--~-~-~-~-~~~~~~~ee~~~~~g~~lf~  310 (310)
T PTZ00135        278 AAAAA-A-A---AA--A-A-A-A-AAPAEEEEEEEDDMGFGLFD  310 (310)
T ss_pred             Ccccc-C-c---cc--c-c-c-c-ccccccccCcchhccccCCC
Confidence            22211 1 1   11  1 1 1 2 33456778889999999998

>PTZ00240 60S ribosomal protein P0; Provisional

Probab=99.18  E-value=4e-12  Score=100.05  Aligned_cols=48  Identities=8%  Similarity=0.059  Sum_probs=39.1

Q ss_pred             CccchhhcccCCCcCCCCH--HHHHHHHHHhCCcccCchhHHHHHHhcCC
Q psy10269          2 GPKCALFLHMSYIVGSEDG--EKIQTVLKAAGVEVEPYWPGLFAKALEGV   49 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~--e~I~~vl~aaG~~v~~~~~~~f~~alkgk   49 (108)
                      |+-..|.|+++++.+.+..  .++.++...+|+++..+.+|++++++++.
T Consensus       206 ~~~~vL~i~~e~~~~~~~~a~~~~~~lsl~~~~pt~~si~~~i~~a~~~~  255 (323)
T PTZ00240        206 FTREDLSMTEDVVEKMLMEGLSNVAAMSLGAGIPTAATIGPMLVDAFKNL  255 (323)
T ss_pred             cCHHHcCCCHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHH
Confidence            3344566777766666664  78999999999999999999999999987

>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p

Probab=97.08  E-value=0.00065  Score=45.82  Aligned_cols=28  Identities=18%  Similarity=0.310  Sum_probs=23.4

Q ss_pred             hcccCCCcCCCCHHHHHHHHHH-hCCcccCc
Q psy10269          8 FLHMSYIVGSEDGEKIQTVLKA-AGVEVEPY   37 (108)
Q Consensus         8 iL~d~~~~~~it~e~I~~vl~a-aG~~v~~~   37 (108)
                      ||+..++  +++.+++..++++ .|.+++.-
T Consensus        25 IL~aaGv--eVe~~~~~~~~~aLaGk~V~el   53 (105)
T cd04411          25 LLSAAGA--EIEPERVKLFLSALNGKNIDEV   53 (105)
T ss_pred             HHHHcCC--CcCHHHHHHHHHHHcCCCHHHH
Confidence            6788888  9999999999999 77776543

Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain

>PRK04019 rplP0 acidic ribosomal protein P0; Validated

Probab=95.85  E-value=0.0095  Score=47.13  Aligned_cols=38  Identities=18%  Similarity=0.244  Sum_probs=20.6

Q ss_pred             HHHHHHHHHhCCcccCchhHHHHHH----------hcC-CCHHHHHHhc
Q psy10269         21 EKIQTVLKAAGVEVEPYWPGLFAKA----------LEG-VNVKELISNV   58 (108)
Q Consensus        21 e~I~~vl~aaG~~v~~~~~~~f~~a----------lkg-k~i~~li~~~   58 (108)
                      .+..+|...+|+++.....+++.++          +.+ .++.+-|.+.
T Consensus       243 ~~a~aLa~~~~~~t~e~~~~il~kA~~~~~ala~~~~~~~~~~~~~~~~  291 (330)
T PRK04019        243 REAKALAVEAGIVTPETADDILSKAVAQALALAAALADKDALDEELKEV  291 (330)
T ss_pred             HHHHHHHHHcCCCChhhHHHHHHHHHHHHHHHHHHhcCcccccHHHHhh
Confidence            3444455555565555555555444          455 5666666554

>KOG3449|consensus

Probab=94.43  E-value=0.1  Score=35.53  Aligned_cols=42  Identities=19%  Similarity=0.014  Sum_probs=28.3

Q ss_pred             hcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCH
Q psy10269          8 FLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNV   51 (108)
Q Consensus         8 iL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i   51 (108)
                      ||..-++  ++..+.|+.|++.+..+....++..=...|..+..
T Consensus        26 Il~sVG~--E~d~e~i~~visel~GK~i~ElIA~G~eklAsvps   67 (112)
T KOG3449|consen   26 ILESVGA--EIDDERINLVLSELKGKDIEELIAAGREKLASVPS   67 (112)
T ss_pred             HHHHhCc--ccCHHHHHHHHHHhcCCCHHHHHHHhHHHHhcCCC
Confidence            4555567  88999999999999988555555443334444433

>cd05833 Ribosomal_P2 Ribosomal protein P2

Probab=94.15  E-value=0.098  Score=35.47  Aligned_cols=31  Identities=16%  Similarity=0.058  Sum_probs=21.4

Q ss_pred             hcccCCCcCCCCHHHHHHHHHHhCCcccCchhH
Q psy10269          8 FLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPG   40 (108)
Q Consensus         8 iL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~   40 (108)
                      ||...++  ++....+..+++.........++.
T Consensus        26 IL~AaGv--eVe~~~~~lf~~~L~GKdi~eLIa   56 (109)
T cd05833          26 ILGSVGV--EVDDEKLNKVISELEGKDVEELIA   56 (109)
T ss_pred             HHHHcCC--CccHHHHHHHHHHHcCCCHHHHHH
Confidence            4555677  888899999999886654443333

This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2

>PRK06402 rpl12p 50S ribosomal protein L12P; Reviewed

Probab=92.96  E-value=0.067  Score=36.20  Aligned_cols=13  Identities=15%  Similarity=0.404  Sum_probs=6.8

Q ss_pred             CCCHHHHHHHHHH
Q psy10269         17 SEDGEKIQTVLKA   29 (108)
Q Consensus        17 ~it~e~I~~vl~a   29 (108)
                      ++....++.++++
T Consensus        32 eVee~~~k~~v~a   44 (106)
T PRK06402         32 EVDEARVKALVAA   44 (106)
T ss_pred             CccHHHHHHHHHH
Confidence            4555555555555

>COG2058 RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Translation, ribosomal structure and biogenesis]

Probab=92.14  E-value=0.062  Score=36.50  Aligned_cols=32  Identities=25%  Similarity=0.235  Sum_probs=18.6

Q ss_pred             HHHHhCCcccCchhHHHHHHh----cCCCHHHHHHh
Q psy10269         26 VLKAAGVEVEPYWPGLFAKAL----EGVNVKELISN   57 (108)
Q Consensus        26 vl~aaG~~v~~~~~~~f~~al----kgk~i~~li~~   57 (108)
                      +|..+|-++...-+..+.++.    ....++.|++.
T Consensus         9 lL~~agkei~e~~l~~vl~aaGveve~~r~k~lvaa   44 (109)
T COG2058           9 LLHLAGKEITEDNLKSVLEAAGVEVEEARAKALVAA   44 (109)
T ss_pred             HHHHccCcCCHHHHHHHHHHcCCCccHHHHHHHHHH
Confidence            566677777777777666543    22244555554

>PTZ00240 60S ribosomal protein P0; Provisional

Probab=90.05  E-value=0.52  Score=37.51  Aligned_cols=17  Identities=59%  Similarity=1.122  Sum_probs=13.2

Q ss_pred             ccccccccccCCCCC-CC
Q psy10269         91 KEESDEGSDDDMGFG-LF  107 (108)
Q Consensus        91 k~eeeeE~d~dmgfg-LF  107 (108)
                      ++|+|||+|+||||| ||
T Consensus       306 ~~~~~e~~~~d~~~~~~~  323 (323)
T PTZ00240        306 KEEEEESDEDDFGMGALF  323 (323)
T ss_pred             ccCCccCcccccCccccC
Confidence            356677888999998 66

>PRK04019 rplP0 acidic ribosomal protein P0; Validated

Probab=89.95  E-value=0.077  Score=42.00  Aligned_cols=29  Identities=14%  Similarity=0.076  Sum_probs=22.7

Q ss_pred             HHHHHHHHHhCCcccCchhHHHHHHhcCC
Q psy10269         21 EKIQTVLKAAGVEVEPYWPGLFAKALEGV   49 (108)
Q Consensus        21 e~I~~vl~aaG~~v~~~~~~~f~~alkgk   49 (108)
                      .+..+|...+++++....++++.+++++.
T Consensus       217 ~~a~~Ls~~~~~pt~~tl~~~i~kA~~~a  245 (330)
T PRK04019        217 QNAFNLAVNAAYPTPETLETLIQKAFREA  245 (330)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence            34444455559999999999999999877

>KOG0815|consensus

Probab=88.56  E-value=0.1  Score=39.70  Aligned_cols=42  Identities=19%  Similarity=0.092  Sum_probs=32.8

Q ss_pred             chhhcccCCCcCCCCH--HHHHHHHHHhCCcccCchhHHHHHHh
Q psy10269          5 CALFLHMSYIVGSEDG--EKIQTVLKAAGVEVEPYWPGLFAKAL   46 (108)
Q Consensus         5 aaLiL~d~~~~~~it~--e~I~~vl~aaG~~v~~~~~~~f~~al   46 (108)
                      -.|+++++++.+++-+  .+|.+++.++|+++.++.+|.|++++
T Consensus       202 evLDiteE~l~~~f~~~vs~va~~sL~~~ypt~asv~h~~~n~~  245 (245)
T KOG0815|consen  202 EVLDITEEDLFSKFLSGVSNVASVSLAAGYPTLASVPHSFINAY  245 (245)
T ss_pred             hhcCCcHHHHHHHHHHHHHHHHHHHHhcCCCcccccchhhhhcC
Confidence            3566666665444444  78999999999999999999999864

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	108
2lbf_A	69	Solution Structure Of The Dimerization Domain Of Hu		1e-10
3izr_t	110	Localization Of The Large Subunit Ribosomal Protein		9e-08
3izs_t	106	Localization Of The Large Subunit Ribosomal Protein		3e-04

>pdb|2LBF|A Chain A, Solution Structure Of The Dimerization Domain Of Human Ribosomal Protein P1P2 HETERODIMER Length = 69

Iteration: 1
 Score = 61.6 bits (148), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 31/53 (58%), Positives = 37/53 (69%), Gaps = 2/53 (3%)
Query: 6  ALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
          AL LH   +  +ED  KI  ++KAAGV VEP+WPGLFAKAL  VN+  LI NV
Sbjct: 13 ALILHDDEVTVTED--KINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNV 63

>pdb|3IZR|TT Chain t, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 110

Iteration: 1
 Score = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 30/58 (51%), Positives = 37/58 (63%), Gaps = 12/58 (20%)
Query: 6  ALFLHMSYIVGSEDG-----EKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV 58
          AL LH       +DG     EKI TV+KAAG++VE YWP LFAK LE  +V +LI +V
Sbjct: 12 ALILH-------DDGIPITSEKIATVVKAAGIKVEAYWPALFAKLLEKRSVDDLILSV 62

>pdb|3IZS|TT Chain t, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 106

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/53 (45%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 5  CALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISN 57
           AL L  S I  S   EK+ T+  AA V  E  W  +FAKAL+G N+K+L+ N
Sbjct: 10 AALILADSEIEIS--SEKLLTLTNAANVPDENIWADIFAKALDGQNLKDLLVN 60

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	108
3iz5_t	110	60S acidic ribosomal protein P11 - P1 (L12P); euka	100.0
3izc_t	106	60S acidic ribosomal protein RPP11 (P1); eukaryoti	100.0
3izc_v	106	60S acidic ribosomal protein (P2); eukaryotic ribo	99.97
3iz5_v	113	60S acidic ribosomal protein P21 - P2 (L12P); euka	99.97
2lbf_A	69	60S acidic ribosomal protein P1; ribosome, stalk,	99.8
3a1y_A	58	50S ribosomal protein P1 (L12P); stalk, helix SPIN	99.72
3iz5_s	319	60S acidic ribosomal protein P0 (L10P); eukaryotic	99.68
2zkr_g	317	60S acidic ribosomal protein P0; protein-RNA compl	99.67
2lbf_B	70	60S acidic ribosomal protein P2; ribosome, stalk,	99.67
3u5i_q	312	A0, L10E, 60S acidic ribosomal protein P0; transla	99.65
3j21_k	339	Acidic ribosomal protein P0 homolog; archaea, arch	97.45
1vq8_G	348	Acidic ribosomal protein P0 homolog; ribosome 50S,	96.91
3iz5_t	110	60S acidic ribosomal protein P11 - P1 (L12P); euka	86.01

>2lbf_A 60S acidic ribosomal protein P1; ribosome, stalk, P1/P2; NMR {Homo sapiens}

Probab=99.80  E-value=2e-20  Score=116.75  Aligned_cols=59  Identities=53%  Similarity=0.865  Sum_probs=56.1

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhcCCCC
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNVGSGA   62 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~~a~~   62 (108)
                      |+||+|+|++.+.  +||+++|++|++++|++|+++|+.+|+++|+||+|++||+++++|+
T Consensus         9 ~~YAAllL~~~g~--~~ta~~I~~il~AaGveve~~~~~lf~~aL~gk~I~elI~~~g~g~   67 (69)
T 2lbf_A            9 CIYSALILHDDEV--TVTEDKINALIKAAGVNVEPFWPGLFAKALANVNIGSLICNVGAGG   67 (69)
T ss_dssp             HHHHHHHHHHHTC--CCCHHHHHHHHHHHTCCCCTHHHHHHHHHTTTSCGGGGGTTTTCCC
T ss_pred             HHHHHHHHHcCCC--CCCHHHHHHHHHHcCCCccHHHHHHHHHHHCCCCHHHHHHhccCCC
Confidence            6899999999987  9999999999999999999999999999999999999999987664

>3a1y_A 50S ribosomal protein P1 (L12P); stalk, helix SPIN, ribonucleoprotein; 2.13A {Pyrococcus horikoshii}

Probab=99.72  E-value=2.7e-18  Score=103.83  Aligned_cols=55  Identities=38%  Similarity=0.427  Sum_probs=53.0

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhc
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV   58 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~   58 (108)
                      |.||+|+|++.+.  +||+++|++|++++|++|+++|+.+|+++|+||+|++||++.
T Consensus         3 ~~yAallL~~~g~--~~t~~~I~~il~aaGveve~~~~~~~~~~L~gk~i~elI~~~   57 (58)
T 3a1y_A            3 YVYAALLLHSVGK--EINEENLKAVLQAAGVEPEEARIKALVAALEGVNIDEVIEKA   57 (58)
T ss_dssp             HHHHHHHHHHTTC--CCCHHHHHHHHHHTTCCCCHHHHHHHHHHHSSCCHHHHHHHH
T ss_pred             HHHHHHHHHhCCC--CCCHHHHHHHHHHcCCCccHHHHHHHHHHHCCCCHHHHHHcc
Confidence            6899999999998  999999999999999999999999999999999999999864

>2zkr_g 60S acidic ribosomal protein P0; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=99.67  E-value=1.1e-18  Score=135.51  Aligned_cols=101  Identities=29%  Similarity=0.294  Sum_probs=23.1

Q ss_pred             CccchhhcccCCCcCCCCH--HHHHHHHHHhCCcccCchhHHHHHHhcCC---------------CHHHHHHhcCCCCCc
Q psy10269          2 GPKCALFLHMSYIVGSEDG--EKIQTVLKAAGVEVEPYWPGLFAKALEGV---------------NVKELISNVGSGAGA   64 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~--e~I~~vl~aaG~~v~~~~~~~f~~alkgk---------------~i~~li~~~~a~~~~   64 (108)
                      |+=..|.|+++++.+.+..  .++.+|+..+|+++..++||++++++++.               +|+++|.++++++++
T Consensus       199 ~~~~~L~i~~e~~~~~~~~~~~~~~~lsl~~~~pt~~s~~~~i~~a~~~~~ala~~~~~~~~ea~~vk~~l~~~~~~~~a  278 (317)
T 2zkr_g          199 YNPEVLDITEETLHSRFLEGVRNVASVCLQIGYPTVASVPHSIINGYKRVLALSVETDYTFPLAEKVKAFLADPSAFVAA  278 (317)
T ss_dssp             --------------------------------------------------------------CHHHHHTTTHHHHHHHHH
T ss_pred             cchHhccCCHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHhhcccChhhhhhHHHHHhccCccccc
Confidence            3445688898888888877  89999999999999999999999999876               778999999876543


Q ss_pred             -ccccccchhhhcccchhhhhhhhhhhccccccccccCCCCCCCC
Q psy10269         65 -GPAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD  108 (108)
Q Consensus        65 -a~~a~~~~~~~~~~~~a~~~~~~~~~k~eeeeE~d~dmgfgLFd  108 (108)
                       ++++++++++  +   +++++++ ++++||+||+||||||||||
T Consensus       279 ~a~~a~~~~~~--~---~~~~~~~-~~~~ee~ee~d~d~gf~lfd  317 (317)
T 2zkr_g          279 APVAAATTAAP--A---AAAAPAK-VEAKEESEESDEDMGFGLFD  317 (317)
T ss_dssp             HHHHTTSSHHH--H---HHHHHHS-TTHHHHTSSCC---------
T ss_pred             ccccccccccc--c---ccccccc-ccccCCccccccccCcCCCC
Confidence             2222211111  1   1111233 44556778899999999998

>2lbf_B 60S acidic ribosomal protein P2; ribosome, stalk, P1/P2; NMR {Homo sapiens} PDB: 2w1o_A

Probab=99.67  E-value=4.8e-17  Score=101.65  Aligned_cols=56  Identities=18%  Similarity=0.255  Sum_probs=52.3

Q ss_pred             CccchhhcccCCCcCCCCHHHHHHHHHHhCCcccCchhHHHHHHhcCCCHHHHHHhc
Q psy10269          2 GPKCALFLHMSYIVGSEDGEKIQTVLKAAGVEVEPYWPGLFAKALEGVNVKELISNV   58 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~e~I~~vl~aaG~~v~~~~~~~f~~alkgk~i~~li~~~   58 (108)
                      |.||+|+|++++. .+||+++|++|++++|++|+++|+.+|+++|+||+|++||++.
T Consensus         4 yvyA~Lll~~~g~-~~~ta~~I~~il~aaGvevd~~~~~~~~~aL~gk~i~elIa~g   59 (70)
T 2lbf_B            4 YVASYLLAALGGN-SSPSAKDIKKILDSVGIEADDDRLNKVISELNGKNIEDVIAQG   59 (70)
T ss_dssp             THHHHHHHHHHTC-SSCCHHHHHHHHHTTTCCCCTTHHHHHHHHHSSCCHHHHHTTC
T ss_pred             HHHHHHHHHhCCC-CCCCHHHHHHHHHHcCCCccHHHHHHHHHHHcCCCHHHHHHHH
Confidence            8899999999872 4799999999999999999999999999999999999999863

>3u5i_q A0, L10E, 60S acidic ribosomal protein P0; translation, ribosome, ribosomal R ribosomal protein, STM1; 3.00A {Saccharomyces cerevisiae} PDB: 4b6a_q 3izc_s 3izs_s 3j16_G* 3o5h_M 3jyw_8

Probab=99.65  E-value=3.2e-18  Score=132.65  Aligned_cols=98  Identities=27%  Similarity=0.367  Sum_probs=13.8

Q ss_pred             ccchhhcccCCCcCCCCH--HHHHHHHHHhCCcccCchhHHHHHHhcCC---------------CHHHHHHhcCCCCCcc
Q psy10269          3 PKCALFLHMSYIVGSEDG--EKIQTVLKAAGVEVEPYWPGLFAKALEGV---------------NVKELISNVGSGAGAG   65 (108)
Q Consensus         3 ~~aaLiL~d~~~~~~it~--e~I~~vl~aaG~~v~~~~~~~f~~alkgk---------------~i~~li~~~~a~~~~a   65 (108)
                      +=-.|.|+++++.+.+..  .++.+|+..+|+++..+.||++++++++.               .++++|++++++++++
T Consensus       198 ~~~~L~i~~e~~~~~~~~~~~~~~~lsl~~~ypt~~s~~~~i~~a~k~~~a~a~~~~~~~~~~~~ik~~la~p~a~a~aa  277 (312)
T 3u5i_q          198 PXXXXXXXXXXXXXXXXXXXXXXXSISLAIGYPTLPSVGHTLINNYKDLLAVAIAASYHYPEIEDLVDRIENPEKYAAAA  277 (312)
T ss_dssp             CSTTTSCCSSTTTHHHHHHHTTCC--------------------------------------------------------
T ss_pred             ccccccccccccccccccchhhHhhhHHhhCCCcHHHHHHHHHHHHHHHHHHHHhhcccCccchhHHHHHhChhhhhccc
Confidence            334577777776555544  67889999999999999999999999987               7889999999887665


Q ss_pred             cccccchhhhcccchhhhhhhhhhhccccccccccCCCCCCCC
Q psy10269         66 PAAAAPAAAQAAAPAAAEAKEDKKKKEESDEGSDDDMGFGLFD  108 (108)
Q Consensus        66 ~~a~~~~~~~~~~~~a~~~~~~~~~k~eeeeE~d~dmgfgLFd  108 (108)
                      +++++++ +  +   +++ +++ ++++|++|||||||||||||
T Consensus       278 ~~a~~~~-~--~---~~~-~~~-~~~~e~~ee~d~d~gf~lfd  312 (312)
T 3u5i_q          278 PAATSAA-S--G---DAA-PAE-EAAAEEEEESDDDMGFGLFD  312 (312)
T ss_dssp             -------------------------------------------
T ss_pred             ccccccc-c--c---ccc-ccc-cccccccccccccCCCCCCC
Confidence            5433221 1  1   111 223 44556778899999999998

>3j21_k Acidic ribosomal protein P0 homolog; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=97.45  E-value=4.9e-06  Score=64.87  Aligned_cols=45  Identities=9%  Similarity=-0.037  Sum_probs=7.8

Q ss_pred             chhhcccCCCcCCCCH--HHHHHHHHHhCCcccCchhHHHHHHhcCC
Q psy10269          5 CALFLHMSYIVGSEDG--EKIQTVLKAAGVEVEPYWPGLFAKALEGV   49 (108)
Q Consensus         5 aaLiL~d~~~~~~it~--e~I~~vl~aaG~~v~~~~~~~f~~alkgk   49 (108)
                      -.|.|+++++.+.+..  .++.+|+..+||++..+.+|++++++++.
T Consensus       204 ~~L~i~~e~~~~~~~~a~~~a~~lsl~~~ypT~~svp~~i~~a~k~~  250 (339)
T 3j21_k          204 DVLAIDESEYINMLQKAYMHAFNLAVNIAYPTPQTIEAIIQKAFLNA  250 (339)
T ss_dssp             HHHCCCHHHHHHHC---------------------------------
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence            3456666655555555  78899999999999999999999999987

>1vq8_G Acidic ribosomal protein P0 homolog; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: j.84.1.1 PDB: 1k73_I* 1k8a_I* 1k9m_I* 1kc8_I* 1kd1_I* 1kqs_G* 1m1k_I* 1m90_I* 1n8r_I* 1nji_I* 1q7y_I* 1q81_I* 1q82_I* 1q86_I* 1qvf_G 1qvg_G 1s72_G* 1vq4_G* 1vq5_G* 1vq6_G* ...

Probab=96.91  E-value=0.00014  Score=56.95  Aligned_cols=48  Identities=8%  Similarity=-0.046  Sum_probs=0.0

Q ss_pred             CccchhhcccCCCcCCCCH--HHHHHHHHHhCCcccCchhHHHHHHhcCC
Q psy10269          2 GPKCALFLHMSYIVGSEDG--EKIQTVLKAAGVEVEPYWPGLFAKALEGV   49 (108)
Q Consensus         2 ~~~aaLiL~d~~~~~~it~--e~I~~vl~aaG~~v~~~~~~~f~~alkgk   49 (108)
                      |+=-.|.|+++++.+.+..  .++.+|+..+|+|+..+.||++++++++.
T Consensus       203 ~~~~vL~i~~e~~~~~~~~~~~~~~~lsl~~~ypt~~s~~~~i~~a~~~~  252 (348)
T 1vq8_G          203 FEPEELELDIDEYRSDIQAAAGRAFNLSVNADYPTATTAPTMLQSDRGNA  252 (348)
T ss_dssp             --------------------------------------------------
T ss_pred             cCHHHccCCHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHH
Confidence            3445688888888888877  88999999999999999999999999887

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00