Psyllid ID: psy2830

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180---
Protein Sequence
MVKLPRPNSANAEVYFGLILIPTSNPGLQSQAGGYLRIMRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWEARTNGKKELTEDTNPIRMGKKNIPRSQKWDS
Secondary Structure (PSIPRED)
cccccccccccHHHHHHHHHcccccccccccccccccccHHHHHHHHHHHcccccccHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHHHcccccccccccccccccccccHHHHHccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccEEEEEEEEEcccccHHHHHHcccHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHcHHHHcccccccHHHHHcccccccccccccHHHHHHHHHHHHcccccccccccccEEccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
mvklprpnsanaeVYFGLIliptsnpglqsqaggYLRIMRYVAAYLLAALggkenpaqgdVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEklasmpsgggavsasagaaapaaaaeegKKEEKKAEKkeesdasdddmgFGVWEARtngkkeltedtnpirmgkkniprsqkwds
Flexible Loop (DISEMBL)
mvklprpnsaNAEVYFGLILIPTSNPGLQSQAGGYLRIMRYVAAYLLAALggkenpaqGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAAPAaaaeegkkeekkaekkeesdasdddmgfgvweartngkkeltedtnpirmgkkniprsqkwds
Low Complexity Region (SEG)
MVKLPRPNSANAEVYFGLILIPTSNPGLQSQAGGYLRIMRYVaayllaalGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPsgggavsasagaaapaaaaeegkkeekkaekkeesdasdddMGFGVWEARTNGKKELTEDTNPIRMGKKNIPRSQKWDS
Disordered region (IsUnstruct)
***********AEVYFGLILIPTSNPGLQSQAGGYLRIMRYVAAYLLAALGGK*******VEKILSSVGIESDAEKLKIVLKELNGKNLEEII******************************************************************************************
Disordered Region (DISOPRED)
*************VYFGLILIPTSNPGLQSQAGGYLRIMRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLAS********************************************GFGVWEARTNGK****E********************
Disordered Region (DISEMBL)
MVKLPRPNSANAEVYFGLILIPTSNPGLQSQAGGYLRIMRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLA*******************************************DMGFGVWEARTNGKKELTEDTNPIRMGKKN*********
Disordered Region (DISPRO)
**KLPRPNSANAEVYFGLILIPTSNPGLQSQAGGYLRIMRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSG****************************************GFGVW****NGKKELTEDTNPIRMGK***********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVKLPRPNSANAEVYFGLILIPTSNPGLQSQAGGYLRIMRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWEARTNGKKELTEDTNPIRMGKKNIPRSQKWDS
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	183	2.2.26 [Sep-21-2011]
P17478	110	60S acidic ribosomal prot	yes	N/A	0.601	1.0	0.473	4e-18
O61463	110	60S acidic ribosomal prot	N/A	N/A	0.601	1.0	0.5	8e-18
P05389	113	60S acidic ribosomal prot	yes	N/A	0.355	0.575	0.661	9e-18
Q96UQ7	110	60S acidic ribosomal prot	N/A	N/A	0.601	1.0	0.526	9e-18
O01725	116	60S acidic ribosomal prot	yes	N/A	0.622	0.982	0.525	1e-17
P08094	110	60S acidic ribosomal prot	no	N/A	0.377	0.627	0.536	1e-17
O24415	113	60S acidic ribosomal prot	N/A	N/A	0.617	1.0	0.464	2e-17
P02401	115	60S acidic ribosomal prot	yes	N/A	0.360	0.573	0.651	2e-17
O14317	110	60S acidic ribosomal prot	no	N/A	0.601	1.0	0.473	4e-17
P02399	111	60S acidic ribosomal prot	N/A	N/A	0.606	1.0	0.543	8e-17

>sp|P17478|RLA4_SCHPO 60S acidic ribosomal protein P2-beta OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpp202 PE=1 SV=1

 Score = 90.9 bits (224), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 54/114 (47%), Positives = 86/114 (75%), Gaps = 4/114 (3%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M+Y+AAYLL  +GGK++P+  D+E +LS+VGIE++AE+++ ++ ELNGKN+EE+IAAG E
Sbjct: 1   MKYLAAYLLLTVGGKQSPSASDIESVLSTVGIEAEAERVESLISELNGKNIEELIAAGNE 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL+++PS      A A  AA  AA  E     ++A+++E ++ SD+DMGFG+++
Sbjct: 61  KLSTVPS----AGAVATPAAGGAAGAEATSAAEEAKEEEAAEESDEDMGFGLFD 110

Plays an important role in the elongation step of protein synthesis.
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|O61463|RLA2_CRYST 60S acidic ribosomal protein P2 OS=Cryptochiton stelleri PE=3 SV=1

 Score = 90.1 bits (222), Expect = 8e-18,   Method: Compositional matrix adjust.
 Identities = 57/114 (50%), Positives = 78/114 (68%), Gaps = 4/114 (3%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAY+LA LGG E P++ D++KIL SVGIE + ++L  V+ EL GKNL+E+IA G++
Sbjct: 1   MRYVAAYMLATLGGNEKPSESDLKKILDSVGIEVEKDQLTKVINELKGKNLDEVIAEGEK 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KLAS+PS        A AA  A        E K+ +K+E  + SDDDMGFG+++
Sbjct: 61  KLASVPS----GGGVAAAAPAAGGGGADPAEAKEEKKEEPEEESDDDMGFGLFD 110

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

Cryptochiton stelleri (taxid: 6655)

>sp|P05389|RLA2_DROME 60S acidic ribosomal protein P2 OS=Drosophila melanogaster GN=RpLP2 PE=1 SV=1

 Score = 89.7 bits (221), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 43/65 (66%), Positives = 56/65 (86%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLA LGGK++PA  D+EKILSSVG+E DAE+L  V+KEL GK+++++I  G+E
Sbjct: 1   MRYVAAYLLAVLGGKDSPANSDLEKILSSVGVEVDAERLTKVIKELAGKSIDDLIKEGRE 60

Query: 99  KLASM 103
           KL+SM
Sbjct: 61  KLSSM 65

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

Drosophila melanogaster (taxid: 7227)

>sp|Q96UQ7|RLA2_RHOGU 60S acidic ribosomal protein P2 OS=Rhodotorula glutinis PE=1 SV=1

 Score = 89.7 bits (221), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 60/114 (52%), Positives = 85/114 (74%), Gaps = 4/114 (3%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M++VAAYLL    G  +P+  DV+K+L++  I++D E+L +++KEL GK++ E+IA G +
Sbjct: 1   MKHVAAYLLLVSAGNTSPSAEDVKKVLAAADIQADEERLSVLIKELEGKDVNEVIAEGSK 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KLAS+PSGG A +A+AG AA   AAEE K E+K AEK EE   SDDDMGFG+++
Sbjct: 61  KLASVPSGGAAPAAAAGGAAAGGAAEE-KAEDKPAEKDEE---SDDDMGFGLFD 110

Probable bifunctional protein. The phosphorylated protein plays an important role in the elongation step of protein synthesis (By similarity). The phosphopantetheinylated protein acts as an acyl carrier protein.

Rhodotorula glutinis (taxid: 5535)

>sp|O01725|RLA2_BRAFL 60S acidic ribosomal protein P2 OS=Branchiostoma floridae PE=3 SV=1

 Score = 89.4 bits (220), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 61/116 (52%), Positives = 85/116 (73%), Gaps = 2/116 (1%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLA LGG  NP+ GD++KIL SVGI+++ E+L  V+ EL GK++EE++AAG+ 
Sbjct: 1   MRYVAAYLLAVLGGNANPSAGDIKKILGSVGIDAEDERLNKVIGELKGKDIEEVMAAGRG 60

Query: 99  KLASMPS--GGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL+SMPS  G  A +   GAAA    A    +E+K+ +K+E  + SDDDMGFG+++
Sbjct: 61  KLSSMPSGGGVAAAAGGGGAAAGGGGAAPAAEEKKEEKKEESEEESDDDMGFGLFD 116

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

Branchiostoma floridae (taxid: 7739)

>sp|P08094|RLA2_SCHPO 60S acidic ribosomal protein P2-alpha OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpp201 PE=1 SV=1

 Score = 89.4 bits (220), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 37/69 (53%), Positives = 61/69 (88%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M+Y+AAYLL  +GGK++P+  D+E +LS+VGIE+++E+++ ++ ELNGK+++E+IAAG E
Sbjct: 1   MKYLAAYLLLTVGGKDSPSASDIESVLSTVGIEAESERIETLINELNGKDIDELIAAGNE 60

Query: 99  KLASMPSGG 107
           KLA++P+GG
Sbjct: 61  KLATVPTGG 69

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

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

>sp|O24415|RLA2B_MAIZE 60S acidic ribosomal protein P2B OS=Zea mays GN=RPP2B PE=1 SV=1

 Score = 89.0 bits (219), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 53/114 (46%), Positives = 79/114 (69%), Gaps = 1/114 (0%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M+ +AAYLLA LGG  +P   DV+ IL SVG E+D EKL+ +L EL  K++ E+IAAG+E
Sbjct: 1   MKVIAAYLLAVLGGNTSPTADDVKSILESVGAEADEEKLEFLLTELKDKDITEVIAAGRE 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           +L+S+PSGGGA+   A AA     A   ++ +K+ + +E+   SD+DMGF +++
Sbjct: 61  RLSSVPSGGGAIDMGAPAAVAGGGAAPAEEAKKEEKVEEKE-ESDEDMGFSLFD 113

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

Zea mays (taxid: 4577)

>sp|P02401|RLA2_RAT 60S acidic ribosomal protein P2 OS=Rattus norvegicus GN=Rplp2 PE=1 SV=2

 Score = 88.6 bits (218), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 43/66 (65%), Positives = 54/66 (81%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVA+YLLAALGG  NP+  D++KIL SVGIE+D E+L  V+ ELNGKN+E++IA G  
Sbjct: 1   MRYVASYLLAALGGNSNPSAKDIKKILDSVGIEADDERLNKVISELNGKNIEDVIAQGVG 60

Query: 99  KLASMP 104
           KLAS+P
Sbjct: 61  KLASVP 66

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

Rattus norvegicus (taxid: 10116)

>sp|O14317|RLA6_SCHPO 60S acidic ribosomal protein P2-C OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpp203 PE=1 SV=2

 Score = 87.8 bits (216), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 54/114 (47%), Positives = 84/114 (73%), Gaps = 4/114 (3%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M+Y+AAYLL  +GGK +P+  D+E +LS+VGIES++E+++ ++KEL+GK+++E+IAAG E
Sbjct: 1   MKYLAAYLLLTVGGKNSPSASDIESVLSTVGIESESERVEALIKELDGKDIDELIAAGNE 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KLA++PS      A+A AA  AA       EE   E+ +E + SD+DMGFG+++
Sbjct: 61  KLATVPS----GGAAAAAAPAAAGGAAPAAEEAAKEEAKEEEESDEDMGFGLFD 110

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

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

>sp|P02399|RLA2_ARTSA 60S acidic ribosomal protein P2 OS=Artemia salina PE=1 SV=1

 Score = 86.7 bits (213), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 62/114 (54%), Positives = 80/114 (70%), Gaps = 3/114 (2%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLAAL G  +P+  D+EKILSSVGIE +  +L+ V+ EL GK+LE +IA G+ 
Sbjct: 1   MRYVAAYLLAALSGNADPSTADIEKILSSVGIECNPSQLQKVMNELKGKDLEALIAEGQT 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KLASMP+     + +A A   A A     KE KK EKKEES+  D+DMGFG+++
Sbjct: 61  KLASMPT---GGAPAAAAGGAATAPAAEAKEAKKEEKKEESEEEDEDMGFGLFD 111

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

Artemia salina (taxid: 85549)

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	183
110671472	114	putative 60S acidic ribosomal protein P2	0.622	1.0	0.973	6e-32
198462065	114	GA27615 [Drosophila pseudoobscura pseudo	0.622	1.0	0.640	2e-31
195175652	114	GL20703 [Drosophila persimilis] gi|19410	0.622	1.0	0.622	8e-28
110765226	114	PREDICTED: 60S acidic ribosomal protein	0.622	1.0	0.587	2e-24
340728257	114	PREDICTED: 60S acidic ribosomal protein	0.622	1.0	0.614	4e-24
380013022	114	PREDICTED: 60S acidic ribosomal protein	0.622	1.0	0.578	5e-24
350403102	114	PREDICTED: 60S acidic ribosomal protein	0.622	1.0	0.605	2e-23
91085097	112	PREDICTED: similar to 60S acidic ribosom	0.612	1.0	0.692	2e-22
268567251	110	Hypothetical protein CBG08266 [Caenorhab	0.584	0.972	0.521	2e-22
307200349	111	60S acidic ribosomal protein P2 [Harpegn	0.606	1.0	0.535	4e-22

>gi|110671472|gb|ABG81987.1| putative 60S acidic ribosomal protein P2 [Diaphorina citri]

 Score =  142 bits (358), Expect = 6e-32,   Method: Compositional matrix adjust.
 Identities = 111/114 (97%), Positives = 114/114 (100%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE
Sbjct: 1   MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFG+++
Sbjct: 61  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGLFD 114

Source: Diaphorina citri

Species: Diaphorina citri

Genus: Diaphorina

Family: Psyllidae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|198462065|ref|XP_002135702.1| GA27615 [Drosophila pseudoobscura pseudoobscura] gi|198139754|gb|EDY70828.1| GA27615 [Drosophila pseudoobscura pseudoobscura]

 Score =  140 bits (353), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 73/114 (64%), Positives = 90/114 (78%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLA +GGKE PA  D+EKILSSVGIE D E+L  V+KEL+GK++E++I  G+E
Sbjct: 1   MRYVAAYLLAVIGGKEAPANADLEKILSSVGIEVDTERLSKVIKELDGKSIEDLIKEGRE 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL+SMP GGGAVSA+  A  PAA A   KKE  K EKKE+S++ DDDMGF ++E
Sbjct: 61  KLSSMPVGGGAVSAAPSAGTPAAPAGGDKKEASKDEKKEDSESEDDDMGFALFE 114

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195175652|ref|XP_002028544.1| GL20703 [Drosophila persimilis] gi|194104642|gb|EDW26685.1| GL20703 [Drosophila persimilis]

 Score =  128 bits (322), Expect = 8e-28,   Method: Compositional matrix adjust.
 Identities = 71/114 (62%), Positives = 88/114 (77%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLA +GGKE PA  D+EKILSSVGIE D E+L  V+KEL+GK++E++I  G+E
Sbjct: 1   MRYVAAYLLAVIGGKEAPANADLEKILSSVGIEVDTERLSKVIKELDGKSIEDLIKEGRE 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL+SMP GGG VSA+  A   AA A   KKE  K EKKE+S++ DDDMGF ++E
Sbjct: 61  KLSSMPVGGGTVSAAPSAGTAAAPAGGDKKEASKDEKKEDSESEDDDMGFALFE 114

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|110765226|ref|XP_001120364.1| PREDICTED: 60S acidic ribosomal protein P2 [Apis mellifera]

 Score =  117 bits (293), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 67/114 (58%), Positives = 85/114 (74%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLA LGGK +P Q D+EKILSSVGIE+D EKLK V+ ELNGK++EE+I+ G E
Sbjct: 1   MRYVAAYLLAVLGGKTSPNQNDIEKILSSVGIETDGEKLKKVIAELNGKSIEELISQGME 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL SMP GGG   ++  A      A   +K+E+K   KEES++ DDDMGFG+++
Sbjct: 61  KLLSMPVGGGVAVSADAAPVGGTTAPAEEKKEEKKPAKEESESEDDDMGFGLFD 114

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340728257|ref|XP_003402444.1| PREDICTED: 60S acidic ribosomal protein P2-like [Bombus terrestris] gi|346987827|gb|AEO51764.1| RPP2 [Bombus hypocrita]

 Score =  116 bits (290), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 70/114 (61%), Positives = 89/114 (78%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLA LGGK +P+Q D+EKILSSVGIE+D EKLK V+ ELNGK+++E+IA G E
Sbjct: 1   MRYVAAYLLATLGGKASPSQNDIEKILSSVGIEADTEKLKKVISELNGKSVDELIAQGME 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL SMP GGG   ++  A A  AAA   +K+E+K   KEES++ DDDMGFG+++
Sbjct: 61  KLLSMPVGGGVAVSADAAPAGGAAAPAEEKKEEKKPAKEESESEDDDMGFGLFD 114

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380013022|ref|XP_003690570.1| PREDICTED: 60S acidic ribosomal protein P2-like [Apis florea]

 Score =  115 bits (289), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 66/114 (57%), Positives = 84/114 (73%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLA LGGK +P Q D+EKILSSVGIE+D EKLK V+ ELNGK++EE+I+ G E
Sbjct: 1   MRYVAAYLLAVLGGKTSPNQNDIEKILSSVGIETDGEKLKKVIAELNGKSIEELISQGME 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL SMP GG    ++  A      A   +K+E+K   KEES++ DDDMGFG+++
Sbjct: 61  KLLSMPVGGSVAVSTDAAPVGGTTAPAEEKKEEKKPAKEESESEDDDMGFGLFD 114

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350403102|ref|XP_003486701.1| PREDICTED: 60S acidic ribosomal protein P2-like [Bombus impatiens]

 Score =  114 bits (285), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 69/114 (60%), Positives = 88/114 (77%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLA LGGK +P+Q D+EKILSSVGIE+D EKLK V+ ELNGK+++E+IA G E
Sbjct: 1   MRYVAAYLLATLGGKASPSQNDIEKILSSVGIEADTEKLKKVISELNGKSVDELIAQGME 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL SMP GG    ++  A A  AAA   +K+E+K   KEES++ DDDMGFG+++
Sbjct: 61  KLLSMPVGGAVAVSADAAPAGGAAAPAEEKKEEKKPAKEESESEDDDMGFGLFD 114

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91085097|ref|XP_967910.1| PREDICTED: similar to 60S acidic ribosomal protein P2 [Tribolium castaneum] gi|270008498|gb|EFA04946.1| hypothetical protein TcasGA2_TC015013 [Tribolium castaneum]

 Score =  110 bits (275), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 79/114 (69%), Positives = 95/114 (83%), Gaps = 2/114 (1%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAYLLA LGGK +PA GD+EKILSSVGIE D EKLK VL ELNGK++E++I+ G+E
Sbjct: 1   MRYVAAYLLAVLGGKASPASGDIEKILSSVGIEVDGEKLKKVLGELNGKSIEDLISQGRE 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL+SMP GG A + +A AAAPAAA E  KKE KK EKK+ESD+ DDDMGFG+++
Sbjct: 61  KLSSMPVGGAAAAPAAAAAAPAAAEE--KKESKKEEKKQESDSEDDDMGFGLFD 112

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|268567251|ref|XP_002639930.1| Hypothetical protein CBG08266 [Caenorhabditis briggsae]

 Score =  110 bits (275), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 61/117 (52%), Positives = 82/117 (70%), Gaps = 10/117 (8%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRY++AYLLA LGG  NP   D+E ILS+VG++++AE + +V+  L GKN+EE+IAAG  
Sbjct: 1   MRYISAYLLAVLGGNANPHADDIENILSAVGVDANAESVNLVVSGLEGKNIEELIAAGSA 60

Query: 99  KLASMPSGGGAVSASA---GAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KLA++  G GA S++A   G AAPAA  +  KKEE K E       SDDDMGFG+++
Sbjct: 61  KLATISGGVGAASSAAPVTGGAAPAADNKPAKKEEPKEE-------SDDDMGFGLFD 110

Source: Caenorhabditis briggsae

Species: Caenorhabditis briggsae

Genus: Caenorhabditis

Family: Rhabditidae

Order: Rhabditida

Class: Chromadorea

Phylum: Nematoda

Superkingdom: Eukaryota

>gi|307200349|gb|EFN80603.1| 60S acidic ribosomal protein P2 [Harpegnathos saltator]

 Score =  109 bits (273), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 61/114 (53%), Positives = 88/114 (77%), Gaps = 3/114 (2%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYVAAY+LA LGGK +P Q D+EK+LSSVGIE+D+EKLK V+ ELNGK ++E+I  G+E
Sbjct: 1   MRYVAAYVLAVLGGKASPRQNDIEKVLSSVGIETDSEKLKKVISELNGKPIDELITKGRE 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KL+SMP  GGAV+A+   A+ AA     ++++++ +  +E   S+DDMGFG+++
Sbjct: 61  KLSSMPV-GGAVAAAVILASDAAVII--EEKKEEKKPTKEESESEDDMGFGLFD 111

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

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	183
FB|FBgn0003274	113	RpLP2 "Ribosomal protein LP2"	0.360	0.584	0.560	3.3e-15
POMBASE|SPBC23G7.15c	110	rpp202 "60S acidic ribosomal p	0.360	0.6	0.484	1.1e-14
ZFIN|ZDB-GENE-070327-2	114	rplp2l "ribosomal protein, lar	0.622	1.0	0.350	1.1e-14
UNIPROTKB|E1BUZ5	115	RPLP2 "Uncharacterized protein	0.360	0.573	0.560	1.4e-14
RGD|1590791	115	LOC498555 "similar to 60S acid	0.360	0.573	0.545	3e-14
RGD|621775	115	Rplp2 "ribosomal protein, larg	0.360	0.573	0.545	3e-14
POMBASE|SPAC1071.08	110	rpp203 "60S acidic ribosomal p	0.360	0.6	0.469	4.9e-14
POMBASE|SPBP8B7.06	110	rpp201 "60S acidic ribosomal p	0.360	0.6	0.454	4.9e-14
RGD|2324107	115	LOC100362751 "ribosomal protei	0.360	0.573	0.530	7.9e-14
MGI|MGI:1914436	115	Rplp2 "ribosomal protein, larg	0.360	0.573	0.515	2.1e-13

FB|FBgn0003274 RpLP2 "Ribosomal protein LP2" [Drosophila melanogaster (taxid:7227)]

 Score = 192 (72.6 bits), Expect = 3.3e-15, P = 3.3e-15
 Identities = 37/66 (56%), Positives = 50/66 (75%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             MRYV        GGK++PA  D+EKILSSVG+E DAE+L  V+KEL GK+++++I  G+E
Sbjct:     1 MRYVAAYLLAVLGGKDSPANSDLEKILSSVGVEVDAERLTKVIKELAGKSIDDLIKEGRE 60

Query:    99 KLASMP 104
             KL+SMP
Sbjct:    61 KLSSMP 66

GO:0006412 "translation" evidence=ISS;NAS

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

GO:0022626 "cytosolic ribosome" evidence=ISS;NAS

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

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

GO:0005840 "ribosome" evidence=IDA

POMBASE|SPBC23G7.15c rpp202 "60S acidic ribosomal protein P2B subunit" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 187 (70.9 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 32/66 (48%), Positives = 52/66 (78%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             M+Y+        GGK++P+  D+E +LS+VGIE++AE+++ ++ ELNGKN+EE+IAAG E
Sbjct:     1 MKYLAAYLLLTVGGKQSPSASDIESVLSTVGIEAEAERVESLISELNGKNIEELIAAGNE 60

Query:    99 KLASMP 104
             KL+++P
Sbjct:    61 KLSTVP 66

GO:0002182 "cytoplasmic translational elongation" evidence=NAS

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

GO:0005829 "cytosol" evidence=IDA

GO:0006414 "translational elongation" evidence=ISO

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

ZFIN|ZDB-GENE-070327-2 rplp2l "ribosomal protein, large P2, like" [Danio rerio (taxid:7955)]

 Score = 187 (70.9 bits), Expect = 1.1e-14, P = 1.1e-14
 Identities = 40/114 (35%), Positives = 55/114 (48%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             MRYV        GGK++P+ GD++KIL SVGIE+D  ++  V+ ELNGKN+EE+IA G  
Sbjct:     1 MRYVAAYLLAALGGKDSPSTGDIKKILESVGIEADDVRMSKVVAELNGKNVEEVIAQGFS 60

Query:    99 KLASMPXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXMGFGVWE 152
             KLAS+P                                         MGFG+++
Sbjct:    61 KLASVPSGGAVAVSSAAAPSSGGSAAAPAAEEKKEEKKEESEESDDDMGFGLFD 114

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

GO:0006414 "translational elongation" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0009790 "embryo development" evidence=IMP

UNIPROTKB|E1BUZ5 RPLP2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 186 (70.5 bits), Expect = 1.4e-14, P = 1.4e-14
 Identities = 37/66 (56%), Positives = 46/66 (69%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             MRYV        GG E+P   D++KIL SVGIE+D E+L  V+ ELNGKN+E++IA G  
Sbjct:     1 MRYVAAYLLAVLGGNESPTSKDLKKILDSVGIETDDERLNKVISELNGKNIEDVIAQGNG 60

Query:    99 KLASMP 104
             KLASMP
Sbjct:    61 KLASMP 66

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

GO:0006414 "translational elongation" evidence=IEA

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

RGD|1590791 LOC498555 "similar to 60S acidic ribosomal protein P2" [Rattus norvegicus (taxid:10116)]

 Score = 183 (69.5 bits), Expect = 3.0e-14, P = 3.0e-14
 Identities = 36/66 (54%), Positives = 46/66 (69%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             MRYV        GG  NP+  D++KIL SVGIE+D E+L  V+ ELNGKN+E++IA G  
Sbjct:     1 MRYVASYLLAALGGNSNPSAKDIKKILDSVGIEADDERLNKVISELNGKNIEDVIAQGVG 60

Query:    99 KLASMP 104
             KLAS+P
Sbjct:    61 KLASVP 66

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

GO:0005840 "ribosome" evidence=IEA

GO:0006414 "translational elongation" evidence=IEA

RGD|621775 Rplp2 "ribosomal protein, large P2" [Rattus norvegicus (taxid:10116)]

 Score = 183 (69.5 bits), Expect = 3.0e-14, P = 3.0e-14
 Identities = 36/66 (54%), Positives = 46/66 (69%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             MRYV        GG  NP+  D++KIL SVGIE+D E+L  V+ ELNGKN+E++IA G  
Sbjct:     1 MRYVASYLLAALGGNSNPSAKDIKKILDSVGIEADDERLNKVISELNGKNIEDVIAQGVG 60

Query:    99 KLASMP 104
             KLAS+P
Sbjct:    61 KLASVP 66

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

GO:0005840 "ribosome" evidence=IEA

GO:0006414 "translational elongation" evidence=IEA

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

POMBASE|SPAC1071.08 rpp203 "60S acidic ribosomal protein P2C subunit" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 31/66 (46%), Positives = 52/66 (78%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             M+Y+        GGK +P+  D+E +LS+VGIES++E+++ ++KEL+GK+++E+IAAG E
Sbjct:     1 MKYLAAYLLLTVGGKNSPSASDIESVLSTVGIESESERVEALIKELDGKDIDELIAAGNE 60

Query:    99 KLASMP 104
             KLA++P
Sbjct:    61 KLATVP 66

GO:0002182 "cytoplasmic translational elongation" evidence=NAS

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

GO:0005829 "cytosol" evidence=IDA

GO:0006414 "translational elongation" evidence=ISO

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

POMBASE|SPBP8B7.06 rpp201 "60S acidic ribosomal protein P2A subunit (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 30/66 (45%), Positives = 52/66 (78%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             M+Y+        GGK++P+  D+E +LS+VGIE+++E+++ ++ ELNGK+++E+IAAG E
Sbjct:     1 MKYLAAYLLLTVGGKDSPSASDIESVLSTVGIEAESERIETLINELNGKDIDELIAAGNE 60

Query:    99 KLASMP 104
             KLA++P
Sbjct:    61 KLATVP 66

GO:0002182 "cytoplasmic translational elongation" evidence=NAS

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

GO:0005829 "cytosol" evidence=IDA

GO:0006414 "translational elongation" evidence=ISO

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

RGD|2324107 LOC100362751 "ribosomal protein P2-like" [Rattus norvegicus (taxid:10116)]

 Score = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 35/66 (53%), Positives = 46/66 (69%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             MRYV        GG  NP+  D++KIL SVGIE++ E+L  V+ ELNGKN+E++IA G  
Sbjct:     1 MRYVASYLLAALGGNSNPSAKDIKKILDSVGIEAEDERLNKVISELNGKNIEDVIAQGVG 60

Query:    99 KLASMP 104
             KLAS+P
Sbjct:    61 KLASVP 66

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

GO:0005840 "ribosome" evidence=IEA

GO:0006414 "translational elongation" evidence=IEA

MGI|MGI:1914436 Rplp2 "ribosomal protein, large P2" [Mus musculus (taxid:10090)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 34/66 (51%), Positives = 46/66 (69%)

Query:    39 MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
             MRYV        GG  +P+  D++KIL SVGIE+D ++L  V+ ELNGKN+E++IA G  
Sbjct:     1 MRYVASYLLAALGGNSSPSAKDIKKILDSVGIEADDDRLNKVISELNGKNIEDVIAQGVG 60

Query:    99 KLASMP 104
             KLAS+P
Sbjct:    61 KLASVP 66

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

---

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)
Q29315	RLA2_PIG	No assigned EC number	0.5739	0.6229	0.9913	yes	N/A
P42899	RLA2_BOVIN	No assigned EC number	0.6	0.6229	0.9913	yes	N/A
P05387	RLA2_HUMAN	No assigned EC number	0.6212	0.3606	0.5739	yes	N/A
P05389	RLA2_DROME	No assigned EC number	0.6615	0.3551	0.5752	yes	N/A
P17478	RLA4_SCHPO	No assigned EC number	0.4736	0.6010	1.0	yes	N/A
P99027	RLA2_MOUSE	No assigned EC number	0.6212	0.3606	0.5739	yes	N/A
Q9UUZ6	RLA2_ASPFU	No assigned EC number	0.4649	0.6065	1.0	yes	N/A
O01725	RLA2_BRAFL	No assigned EC number	0.5258	0.6229	0.9827	yes	N/A
Q9C3Z5	RLA2_PODAS	No assigned EC number	0.4649	0.6065	1.0	yes	N/A
P02401	RLA2_RAT	No assigned EC number	0.6515	0.3606	0.5739	yes	N/A
Q6X9Z5	RLA2_HORSE	No assigned EC number	0.6212	0.3606	0.5739	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	183
cd05833	109	cd05833, Ribosomal_P2, Ribosomal protein P2	7e-43
PLN00138	113	PLN00138, PLN00138, large subunit ribosomal protei	4e-27
PTZ00373	112	PTZ00373, PTZ00373, 60S Acidic ribosomal protein P	2e-22
COG2058	109	COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP	2e-18
cd04411	105	cd04411, Ribosomal_P1_P2_L12p, Ribosomal protein P	3e-18
pfam00428	88	pfam00428, Ribosomal_60s, 60s Acidic ribosomal pro	2e-16
cd05831	103	cd05831, Ribosomal_P1, Ribosomal protein P1	2e-11
PRK06402	106	PRK06402, rpl12p, 50S ribosomal protein L12P; Revi	1e-09
TIGR03685	105	TIGR03685, L12P_arch, 50S ribosomal protein L12P	1e-07
cd05832	106	cd05832, Ribosomal_L12p, Ribosomal protein L12p	2e-06
PTZ00135	310	PTZ00135, PTZ00135, 60S acidic ribosomal protein P	4e-05
PTZ00240	323	PTZ00240, PTZ00240, 60S ribosomal protein P0; Prov	2e-04

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

 Score =  138 bits (350), Expect = 7e-43
 Identities = 71/111 (63%), Positives = 85/111 (76%), Gaps = 5/111 (4%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M+YVAAYLLA LGG  +P+  DV+KIL SVG+E D EKL  V+ EL GK++EE+IAAGKE
Sbjct: 1   MKYVAAYLLAVLGGNASPSAADVKKILGSVGVEVDDEKLNKVISELEGKDVEELIAAGKE 60

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFG 149
           KLAS+P+G G  + +A AAA AAAA   KKEEKK E +EE   SDDDMGFG
Sbjct: 61  KLASVPAGAGGAAPAAAAAAAAAAAA--KKEEKKEESEEE---SDDDMGFG 106

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|165706 PLN00138, PLN00138, large subunit ribosomal protein LP2; Provisional

 Score = 98.6 bits (245), Expect = 4e-27
 Identities = 59/117 (50%), Positives = 84/117 (71%), Gaps = 7/117 (5%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M+ VAAYLLA LGG   P+  D++ IL SVG ++D ++++++L E+ GK++ E+IA+G+E
Sbjct: 1   MKVVAAYLLAVLGGNTCPSAEDLKDILGSVGADADDDRIELLLSEVKGKDITELIASGRE 60

Query: 99  KLASMPSGGG---AVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE 152
           KLAS+PSGGG   A +A+  A   AA A E KKEEK  EK+E    SDDDMGF +++
Sbjct: 61  KLASVPSGGGVAVAAAAAPAAGGAAAPAAEAKKEEKVEEKEE----SDDDMGFSLFD 113

Length = 113

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

 Score = 86.5 bits (214), Expect = 2e-22
 Identities = 51/113 (45%), Positives = 72/113 (63%), Gaps = 4/113 (3%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M+YVAAYL+  LGG ENP + +V+ +LS+V  + + + L    K L GK   E+IAAG +
Sbjct: 3   MKYVAAYLMCVLGGNENPTKKEVKNVLSAVNADVEDDVLDNFFKSLEGKTPHELIAAGMK 62

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFGVW 151
           KL ++  GGG  +A+A AA  A A    K E KK EKKEE +  +DD+GF ++
Sbjct: 63  KLQNI--GGGVAAAAAPAAGAATA--GAKAEAKKEEKKEEEEEEEDDLGFSLF 111

Length = 112

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

 Score = 75.9 bits (187), Expect = 2e-18
 Identities = 44/111 (39%), Positives = 69/111 (62%), Gaps = 5/111 (4%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M Y+ AYLL  L GKE   + +++ +L + G+E +  + K ++  L G +++E+I    E
Sbjct: 1   MEYIYAYLLLHLAGKE-ITEDNLKSVLEAAGVEVEEARAKALVAALEGVDIDEVIKNAAE 59

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFG 149
             A+  + G A +A+AGA A AA A+E ++EEK+ E +EE   SDDDM FG
Sbjct: 60  APAAAAAAGAAAAAAAGAEA-AAEADEAEEEEKEEEAEEE---SDDDMLFG 106

Length = 109

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

 Score = 75.4 bits (185), Expect = 3e-18
 Identities = 46/111 (41%), Positives = 68/111 (61%), Gaps = 8/111 (7%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M YVAAYLL   GGKE   +  ++++LS+ G E + E++K+ L  LNGKN++E+I+ GKE
Sbjct: 1   MEYVAAYLLLHKGGKE-LTEDKIKELLSAAGAEIEPERVKLFLSALNGKNIDEVISKGKE 59

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFG 149
            ++S  +   A +A+A A A  A   E  KEE++ E        D+D GFG
Sbjct: 60  LMSSQAAAAAAPAATAAATAEPAEKAEEAKEEEEEE-------EDEDFGFG 103

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|215914 pfam00428, Ribosomal_60s, 60s Acidic ribosomal protein

 Score = 70.3 bits (173), Expect = 2e-16
 Identities = 41/95 (43%), Positives = 63/95 (66%), Gaps = 9/95 (9%)

Query: 55  NPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASA 114
            P   D++ +L + G E +AE+L++++K L GKN++E+IA G  KL+       A +A+A
Sbjct: 1   EPTAADIKHVLKAAGKEVEAERLELLVKFLEGKNIKELIANGSAKLS------AAAAAAA 54

Query: 115 GAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFG 149
            AAA AAAA   ++E+K+ E++EE    DDDMGFG
Sbjct: 55  AAAAAAAAAAAAEEEKKEEEEEEE---EDDDMGFG 86

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

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

 Score = 57.7 bits (140), Expect = 2e-11
 Identities = 42/102 (41%), Positives = 54/102 (52%), Gaps = 26/102 (25%)

Query: 64  ILSSVGIESDAEKLKIVLKE----------------LNGKNLEEIIAAGKEKLASMPSGG 107
           IL   GIE  A+ +  +LK                 L GK+++++++           GG
Sbjct: 10  ILHDDGIEITADNINALLKAAGVNVEPYWPGLFAKALEGKDIKDLLSNVG------GGGG 63

Query: 108 GAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFG 149
           GA  A A AAA AAAA E KKEEKK E++EESD   DDMGFG
Sbjct: 64  GAAPA-AAAAAAAAAAAEAKKEEKKEEEEEESD---DDMGFG 101

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

 Score = 53.0 bits (128), Expect = 1e-09
 Identities = 36/105 (34%), Positives = 62/105 (59%), Gaps = 7/105 (6%)

Query: 39  MRYV-AAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGK 97
           M Y+ AA LL + G + N  + +++K+L + G+E D  ++K ++  L   N+EE I    
Sbjct: 1   MEYIYAALLLHSAGKEIN--EDNLKKVLEAAGVEVDEARVKALVAALEDVNIEEAI---- 54

Query: 98  EKLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDAS 142
           +K A+ P    A +A+A AAA A   +E ++EE++ E+ EE  A+
Sbjct: 55  KKAAAAPVAAAAAAAAAAAAAAAEEKKEEEEEEEEKEESEEEAAA 99

Length = 106

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

 Score = 47.7 bits (114), Expect = 1e-07
 Identities = 41/111 (36%), Positives = 65/111 (58%), Gaps = 10/111 (9%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M Y+ A LL    GKE   + +++ +L + G+E D  ++K ++  L G N+EE I    +
Sbjct: 1   MEYIYAALLLHSAGKE-INEENLKAVLEAAGVEVDEARVKALVAALEGVNIEEAI----K 55

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFG 149
           K A+ P     V+A+A AAA AAAAEE ++EE++ E++EE    +   G G
Sbjct: 56  KAAAAP-----VAAAAAAAAAAAAAEEEEEEEEEEEEEEEESEEEAMAGLG 101

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

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

 Score = 44.4 bits (105), Expect = 2e-06
 Identities = 36/100 (36%), Positives = 56/100 (56%), Gaps = 11/100 (11%)

Query: 39  MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M Y+ A LL    GKE   + +++K+L + GIE D  ++K ++  L   N++E I     
Sbjct: 1   MEYIYAALLLHYAGKEINEE-NLKKVLEAAGIEVDEARVKALVAALEEVNIDEAIK---- 55

Query: 99  KLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEE 138
                     A +A+A AAA AAAAEE  +E+++ +KKEE
Sbjct: 56  ------KAAVAAAAAAPAAAAAAAAEEKAEEKEEEKKKEE 89

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

 Score = 42.3 bits (100), Expect = 4e-05
 Identities = 18/38 (47%), Positives = 20/38 (52%), Gaps = 2/38 (5%)

Query: 112 ASAGAAAPAAAAEEGKKEEKKAEKKEESDASDDDMGFG 149
            SA AAA AAAA         A   EE +  +DDMGFG
Sbjct: 272 PSAAAAAAAAAAAA--AAAAAAAPAEEEEEEEDDMGFG 307

Length = 310

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

 Score = 40.3 bits (94), Expect = 2e-04
 Identities = 32/70 (45%), Positives = 39/70 (55%), Gaps = 14/70 (20%)

Query: 80  VLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAEKKEES 139
             +E NGK L E  AA +  L     GGG+ +A A AAAPAAA+   K+EE      EES
Sbjct: 265 EFEEHNGKELRE--AALEGLLG----GGGSAAAEAAAAAPAAASAAAKEEE------EES 312

Query: 140 DASDDDMGFG 149
           D  +DD G G
Sbjct: 313 D--EDDFGMG 320

Length = 323

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	183
PTZ00373	112	60S Acidic ribosomal protein P2; Provisional	100.0
PLN00138	113	large subunit ribosomal protein LP2; Provisional	100.0
cd05833	109	Ribosomal_P2 Ribosomal protein P2. This subfamily	100.0
KOG3449|consensus	112		100.0
cd04411	105	Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and	100.0
cd05831	103	Ribosomal_P1 Ribosomal protein P1. This subfamily	99.95
COG2058	109	RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Tr	99.95
KOG1762|consensus	114		99.93
PRK06402	106	rpl12p 50S ribosomal protein L12P; Reviewed	99.91
TIGR03685	105	L21P_arch 50S ribosomal protein L12P. This model r	99.85
PF00428	88	Ribosomal_60s: 60s Acidic ribosomal protein; Inter	99.85
cd05832	106	Ribosomal_L12p Ribosomal protein L12p. This subfam	99.85
PTZ00135	310	60S acidic ribosomal protein P0; Provisional	98.81
PTZ00240	323	60S ribosomal protein P0; Provisional	97.8
PRK04019	330	rplP0 acidic ribosomal protein P0; Validated	96.89
COG2058	109	RPP1A Ribosomal protein L12E/L44/L45/RPP1/RPP2 [Tr	96.48
KOG3449|consensus	112		94.55
cd04411	105	Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and	93.54
PRK06402	106	rpl12p 50S ribosomal protein L12P; Reviewed	88.98
TIGR03685	105	L21P_arch 50S ribosomal protein L12P. This model r	85.89
cd05833	109	Ribosomal_P2 Ribosomal protein P2. This subfamily	85.65
cd05831	103	Ribosomal_P1 Ribosomal protein P1. This subfamily	84.29
cd05832	106	Ribosomal_L12p Ribosomal protein L12p. This subfam	83.16
PTZ00373	112	60S Acidic ribosomal protein P2; Provisional	80.13

>PTZ00373 60S Acidic ribosomal protein P2; Provisional

Probab=100.00  E-value=3.4e-40  Score=255.93  Aligned_cols=111  Identities=45%  Similarity=0.753  Sum_probs=87.9

Q ss_pred             hhHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCCCccchhcccc
Q psy2830          38 IMRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAA  117 (183)
Q Consensus        38 ~M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG~aaaa~aaaa  117 (183)
                      +|||+|||||+.++||.+||++||++||+++|++|+++|+++|++.|+||||+|||++|++||+||  ||++++++++++
T Consensus         2 ~MkyvaAYlL~~lgG~~~pTaddI~kIL~AaGveVd~~~~~l~~~~L~GKdI~ELIa~G~~kl~sv--gg~~~aa~a~a~   79 (112)
T PTZ00373          2 AMKYVAAYLMCVLGGNENPTKKEVKNVLSAVNADVEDDVLDNFFKSLEGKTPHELIAAGMKKLQNI--GGGVAAAAAPAA   79 (112)
T ss_pred             chHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCCccHHHHHHHHHHHcCCCHHHHHHHhHHHHhcc--cCcccccccccc
Confidence            699999999999999999999999999999999999999999999999999999999999999999  333222112111


Q ss_pred             CccccccccchHHHHhhhhhccccccCCcCccccc
Q psy2830         118 APAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE  152 (183)
Q Consensus       118 a~A~~~aaaaa~~~eeek~EeeEEsDdDMGFgLFD  152 (183)
                      ++++  +++++++++++|+|++|||||||||||||
T Consensus        80 ~~~~--~~~~~~~~~e~k~ee~ee~ddDmgf~LFd  112 (112)
T PTZ00373         80 GAAT--AGAKAEAKKEEKKEEEEEEEDDLGFSLFG  112 (112)
T ss_pred             cccc--cccchhhhhhhcccccccccccccccccC
Confidence            1111  11222334445566777889999999997

>PLN00138 large subunit ribosomal protein LP2; Provisional

Probab=100.00  E-value=4.1e-39  Score=249.96  Aligned_cols=113  Identities=50%  Similarity=0.829  Sum_probs=90.2

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCCCccchhccccC
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAA  118 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG~aaaa~aaaaa  118 (183)
                      |||||||||+.++||++||++||++||+++|++|+++|+++|++.|+||+|+|||++|++||+++++||+++++++++++
T Consensus         1 mkyvaAyll~~l~g~~~pta~dI~~IL~AaGvevd~~~~~~f~~~L~gK~i~eLIa~G~~kl~sv~~gg~aa~a~a~a~~   80 (113)
T PLN00138          1 MKVVAAYLLAVLGGNTCPSAEDLKDILGSVGADADDDRIELLLSEVKGKDITELIASGREKLASVPSGGGVAVAAAAAPA   80 (113)
T ss_pred             ChHHHHHHHHHhcCCCCCCHHHHHHHHHHcCCcccHHHHHHHHHHHcCCCHHHHHHhchhccccCCCCCccccccccccc
Confidence            89999999999999999999999999999999999999999999999999999999999999999998764431121111


Q ss_pred             ccccccccchHHHHhhhhhccccccCCcCccccc
Q psy2830         119 PAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE  152 (183)
Q Consensus       119 ~A~~~aaaaa~~~eeek~EeeEEsDdDMGFgLFD  152 (183)
                      ++ +++.+++++++++|+|++||+||||||||||
T Consensus        81 ~~-~~~~~~~~~~~e~k~e~eeE~ddDmGfgLFd  113 (113)
T PLN00138         81 AG-GAAAPAAEAKKEEKVEEKEESDDDMGFSLFD  113 (113)
T ss_pred             cc-cccccccchhhhhhccccccccccccccccC
Confidence            11 1111122233444556667889999999997

>cd05833 Ribosomal_P2 Ribosomal protein P2

Probab=100.00  E-value=5e-38  Score=242.38  Aligned_cols=109  Identities=55%  Similarity=0.905  Sum_probs=86.7

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCCCccchhccccC
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAA  118 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG~aaaa~aaaaa  118 (183)
                      |||||||||++++||.+||++||++||+++|++|+++|+++|++.|+||||++||++|.+||++|++++++++++++  +
T Consensus         1 MkyvaAylL~~l~g~~~pTa~dI~~IL~AaGveVe~~~~~lf~~~L~GKdi~eLIa~g~~kl~s~~~~~~~aa~a~~--~   78 (109)
T cd05833           1 MKYVAAYLLAVLGGNASPSAADVKKILGSVGVEVDDEKLNKVISELEGKDVEELIAAGKEKLASVPAGAGGAAPAAA--A   78 (109)
T ss_pred             CHHHHHHHHHHHcCCCCCCHHHHHHHHHHcCCCccHHHHHHHHHHHcCCCHHHHHHHhHhhhcCCCccccccccccc--c
Confidence            89999999999999999999999999999999999999999999999999999999999999999854433221111  1


Q ss_pred             ccccccccchHHHHhhhhhccccccCCcCccccc
Q psy2830         119 PAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE  152 (183)
Q Consensus       119 ~A~~~aaaaa~~~eeek~EeeEEsDdDMGFgLFD  152 (183)
                      ++   +++++++++++|+|++||+||||||||||
T Consensus        79 ~a---~aa~~~~~e~kkee~eee~ddDmGf~LFd  109 (109)
T cd05833          79 AA---AAAAAAKKEEKKEESEEESDDDMGFGLFD  109 (109)
T ss_pred             cc---ccccchhhhhhccCCccccccccCCCCCC
Confidence            11   11122234445555666679999999998

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

>KOG3449|consensus

Probab=100.00  E-value=6.7e-38  Score=242.19  Aligned_cols=112  Identities=57%  Similarity=0.911  Sum_probs=92.5

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCCCccchhccccC
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAA  118 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG~aaaa~aaaaa  118 (183)
                      |||+|||||++++||.+|++.||++||.++|++++++|+++|++.|+||+|+|||++|++||+|||+||++++++++++.
T Consensus         1 MkyvaAYLL~~lgGn~~psa~DikkIl~sVG~E~d~e~i~~visel~GK~i~ElIA~G~eklAsvpsGGa~~aaa~~aag   80 (112)
T KOG3449|consen    1 MKYVAAYLLAVLGGNASPSASDIKKILESVGAEIDDERINLVLSELKGKDIEELIAAGREKLASVPSGGAVAAAAAPAAG   80 (112)
T ss_pred             ChHHHHHHHHHhcCCCCCCHHHHHHHHHHhCcccCHHHHHHHHHHhcCCCHHHHHHHhHHHHhcCCCCCccccccCcCCC
Confidence            89999999999999999999999999999999999999999999999999999999999999999999985432222222


Q ss_pred             ccccccccchHHHHhhhhhccccccCCcCccccc
Q psy2830         119 PAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE  152 (183)
Q Consensus       119 ~A~~~aaaaa~~~eeek~EeeEEsDdDMGFgLFD  152 (183)
                      ++++++  +..+++|+|+|++|||||||||+|||
T Consensus        81 gaa~aa--~~a~~~e~keEe~eesddDmgf~lFd  112 (112)
T KOG3449|consen   81 GAAGAA--PAAAKEEEKEEEKEESDDDMGFGLFD  112 (112)
T ss_pred             CCccCC--ccchhhhhhhhhcccccccccccccC
Confidence            222212  22224555666669999999999997

>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p

Probab=100.00  E-value=8.6e-35  Score=223.04  Aligned_cols=105  Identities=41%  Similarity=0.709  Sum_probs=86.6

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCCCccchhccccC
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAA  118 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG~aaaa~aaaaa  118 (183)
                      |+|++||||++++|+. ||++||++||+++|++|+++|+++|+++|+||+|++||++|.+||+++|+||++++  + +  
T Consensus         1 m~~v~A~Lll~~~g~~-~ta~~I~~IL~aaGveVe~~~~~~~~~aLaGk~V~eli~~g~~kl~~~~~~~~a~~--~-a--   74 (105)
T cd04411           1 MEYVAAYLLLHKGGKE-LTEDKIKELLSAAGAEIEPERVKLFLSALNGKNIDEVISKGKELMSSQAAAAAAPA--A-T--   74 (105)
T ss_pred             CHHHHHHHHHHhcCCC-CCHHHHHHHHHHcCCCcCHHHHHHHHHHHcCCCHHHHHHHHHhhccCCCCcccccc--c-c--
Confidence            7999999999999987 99999999999999999999999999999999999999999999999998765422  1 1  


Q ss_pred             ccccccccchHHHHhhhhhccccccCCcCcccc
Q psy2830         119 PAAAAEEGKKEEKKAEKKEESDASDDDMGFGVW  151 (183)
Q Consensus       119 ~A~~~aaaaa~~~eeek~EeeEEsDdDMGFgLF  151 (183)
                      ++++  ++++++++++|+|++||||||||||||
T Consensus        75 ~~~~--~~~~~~~~e~k~ee~eE~dddmgf~LF  105 (105)
T cd04411          75 AAAT--AEPAEKAEEAKEEEEEEEDEDFGFGLF  105 (105)
T ss_pred             cccc--ccchhhhhhhhcccccccccccCcccC
Confidence            1111  112233444556677888999999999

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

>cd05831 Ribosomal_P1 Ribosomal protein P1

Probab=99.95  E-value=3.7e-28  Score=185.65  Aligned_cols=101  Identities=29%  Similarity=0.517  Sum_probs=75.1

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCCCccchhccccC
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAA  118 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG~aaaa~aaaaa  118 (183)
                      .|.|||++|++  .+.+||++||++||+++|++|+++|+++|++.|+||+|++||++       ++++|+++++++++ +
T Consensus         3 ac~yAaLiL~d--~~~~~Tae~I~~ilkAaGveve~~~~~~f~~~L~gk~i~elIa~-------~~~~~~~aap~a~~-a   72 (103)
T cd05831           3 ACTYAALILHD--DGIEITADNINALLKAAGVNVEPYWPGLFAKALEGKDIKDLLSN-------VGGGGGGAAPAAAA-A   72 (103)
T ss_pred             HHHHHHHHHcc--CCCCCCHHHHHHHHHHcCCcccHHHHHHHHHHHcCCCHHHHhhc-------cccccccccccccc-c
Confidence            49999999999  56889999999999999999999999999999999999999974       44443322211111 1


Q ss_pred             ccccccccchHHHHhhhhhccccccCCcCcccc
Q psy2830         119 PAAAAEEGKKEEKKAEKKEESDASDDDMGFGVW  151 (183)
Q Consensus       119 ~A~~~aaaaa~~~eeek~EeeEEsDdDMGFgLF  151 (183)
                      ++ + ++.++++++++|+|++||+|||||||||
T Consensus        73 ~~-~-~~~~~~~~~~kk~e~eee~d~dmgfglF  103 (103)
T cd05831          73 AA-A-AAAAEAKKEEKKEEEEEESDDDMGFGLF  103 (103)
T ss_pred             cc-c-cccccchhhhcccccccccccccccccC
Confidence            11 1 1112233455566777778999999999

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

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

Probab=99.95  E-value=1.2e-27  Score=184.86  Aligned_cols=109  Identities=34%  Similarity=0.612  Sum_probs=84.3

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCCCccchhccccC
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAA  118 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG~aaaa~aaaaa  118 (183)
                      |+|++||+|++++|+ +||+++|++||+++|++|++.|++.|++.|+||||+|+|.++..++.+++.++++++++++  +
T Consensus         1 MeYi~a~llL~~agk-ei~e~~l~~vl~aaGveve~~r~k~lvaaLeg~~idE~i~~~~~~~~a~a~a~aaaa~~A~--~   77 (109)
T COG2058           1 MEYIYAYLLLHLAGK-EITEDNLKSVLEAAGVEVEEARAKALVAALEGVDIDEVIKNAAEAPAAAAAAGAAAAAAAG--A   77 (109)
T ss_pred             ChHHHHHHHHHHccC-cCCHHHHHHHHHHcCCCccHHHHHHHHHHhcCCCHHHHHHHhcccccccCCcccccccccc--c
Confidence            789999999999988 6999999999999999999999999999999999999999998888777665544331011  1


Q ss_pred             ccccccccchHHHHhhhhhccccccCCcCccccc
Q psy2830         119 PAAAAEEGKKEEKKAEKKEESDASDDDMGFGVWE  152 (183)
Q Consensus       119 ~A~~~aaaaa~~~eeek~EeeEEsDdDMGFgLFD  152 (183)
                      +++  +.+...++++++++.+||+|+||||+|||
T Consensus        78 ~~a--~~~~ea~eEe~eEe~~EE~~~~~lf~LF~  109 (109)
T COG2058          78 EAA--AEADEAEEEEKEEEAEEESDDDMLFGLFG  109 (109)
T ss_pred             ccc--cchhhHHHHHhhhchhhcccccchhhccC
Confidence            111  11012223334556678889999999997

>KOG1762|consensus

Probab=99.93  E-value=1.6e-26  Score=179.68  Aligned_cols=105  Identities=32%  Similarity=0.530  Sum_probs=82.3

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCCCccchhc-ccc
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASA-GAA  117 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG~aaaa~a-aaa  117 (183)
                      .|.|++++|++  ....+|.++|.+++|++|++|+++||.+|+++|.++||.+||+       ++++||+++++.+ +++
T Consensus         8 ac~yaalIL~d--~~i~it~dki~tl~kaa~v~ve~~Wp~lfakale~vni~~li~-------n~gag~~a~a~~~~~~~   78 (114)
T KOG1762|consen    8 ACSYAALILHD--DEIEVTADKINTLTKAAGVNVEPYWPGLFAKALEGVNIKELIC-------NVGAGGGALAAGAAAAG   78 (114)
T ss_pred             HHhhhhhhccc--cceeeehhhhhhHHHhccCcccccchhHHHHHhccCChHHHHH-------hcccCCccCCCcccccc
Confidence            59999999999  4478999999999999999999999999999999999999998       6777655543211 111


Q ss_pred             Cccc-cccccchHHHHhhhhhccccccCCcCccccc
Q psy2830         118 APAA-AAEEGKKEEKKAEKKEESDASDDDMGFGVWE  152 (183)
Q Consensus       118 a~A~-~~aaaaa~~~eeek~EeeEEsDdDMGFgLFD  152 (183)
                      .+++ ++++++++++++.|+|+.||+||||||||||
T Consensus        79 ~aa~~~~aA~~~Ekk~eak~EeseesddDmgfGLfd  114 (114)
T KOG1762|consen   79 GAAAAGGAAAAEEKKEEAKKEESEESDDDMGFGLFD  114 (114)
T ss_pred             ccccccccccchHHHHHhhhhhhcccccccccCCCC
Confidence            1221 1133345556667778889999999999997

>PRK06402 rpl12p 50S ribosomal protein L12P; Reviewed

Probab=99.91  E-value=1e-24  Score=168.12  Aligned_cols=55  Identities=33%  Similarity=0.555  Sum_probs=53.7

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHH
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIA   94 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa   94 (183)
                      |+|++||||++++|+ +||++||++||+++|++|+++|+++|+++|+|+||++||.
T Consensus         1 M~yiyAaLLL~~~g~-~it~e~I~~IL~AAGveVee~~~k~~v~aL~GkdIeElI~   55 (106)
T PRK06402          1 MEYIYAALLLHSAGK-EINEDNLKKVLEAAGVEVDEARVKALVAALEDVNIEEAIK   55 (106)
T ss_pred             CHHHHHHHHHHhcCC-CCCHHHHHHHHHHcCCCccHHHHHHHHHHHcCCCHHHHHH
Confidence            799999999999988 7999999999999999999999999999999999999997

>TIGR03685 L21P_arch 50S ribosomal protein L12P

Probab=99.85  E-value=1.6e-21  Score=149.87  Aligned_cols=56  Identities=32%  Similarity=0.555  Sum_probs=54.2

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHh
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAA   95 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~   95 (183)
                      |+|++||||++++|+ +||+++|++||+++||+|+++|+.+|++.|+|++|++||.+
T Consensus         1 M~yvyA~Lll~~~g~-~iT~e~I~~IL~AAGv~ve~~~~~~la~~L~gk~i~eli~~   56 (105)
T TIGR03685         1 MEYIYAALLLHSAGK-EINEENLKAVLEAAGVEVDEARVKALVAALEGVNIEEAIKK   56 (105)
T ss_pred             CHHHHHHHHHHhcCC-CCCHHHHHHHHHHhCCcccHHHHHHHHHHHcCCCHHHHHHh
Confidence            899999999999988 79999999999999999999999999999999999999973

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

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

Probab=99.85  E-value=1.2e-22  Score=149.91  Aligned_cols=87  Identities=38%  Similarity=0.661  Sum_probs=58.8

Q ss_pred             CCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCCCccchhccccCccccccccchHHHHhh
Q psy2830          55 NPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGGGAVSASAGAAAPAAAAEEGKKEEKKAE  134 (183)
Q Consensus        55 spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG~aaaa~aaaaa~A~~~aaaaa~~~eee  134 (183)
                      +||+++|.+||+++|++|+++|+.+|++.|+|++|++||+.+..+|...      ++  ++++++++. ++ ++++++++
T Consensus         1 ~pT~~~i~~vl~aag~~v~~~~~~~~~~~l~~~~i~~li~~~~~~~~~~------aa--a~aaa~aa~-~~-a~a~~e~k   70 (88)
T PF00428_consen    1 EPTAENIKKVLKAAGVEVEAIWLELFAKALEGKDIKELIANGSAGMAAA------AA--AAAAAAAAA-AA-AAAAEEEK   70 (88)
T ss_dssp             S-SCCCHHHHHHHHTHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHH------HH--HTTSSHHHH-HH-HHHHSTTH
T ss_pred             CCCHHHHHHHHHHhCCchhHHHHHHHHHHHcCCcHHHHHhccccccccc------cc--ccccccccc-cc-cccchhcc
Confidence            4899999999999999999999999999999999999999998887611      11  111011111 11 11112222


Q ss_pred             hhhc-cccccCCcCcccc
Q psy2830         135 KKEE-SDASDDDMGFGVW  151 (183)
Q Consensus       135 k~Ee-eEEsDdDMGFgLF  151 (183)
                      |+++ +||+|+|||||||
T Consensus        71 kEeeeeEEed~dmGf~LF   88 (88)
T PF00428_consen   71 KEEEEEEEEDDDMGFGLF   88 (88)
T ss_dssp             HHHT--SS-SSSSSTTTT
T ss_pred             cccccccccccccCcCCC
Confidence            2222 2688999999999

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.

>cd05832 Ribosomal_L12p Ribosomal protein L12p

Probab=99.85  E-value=1.7e-21  Score=150.24  Aligned_cols=56  Identities=32%  Similarity=0.545  Sum_probs=54.2

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHh
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAA   95 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~   95 (183)
                      |+|++||||++++|+ +||+++|++||+++|++|+++|+.+|++.|+|++|++||++
T Consensus         1 M~yvyAaLLL~~~G~-eITae~I~~IL~AAGveVd~~~~~ala~aL~gkdIeElIa~   56 (106)
T cd05832           1 MEYIYAALLLHYAGK-EINEENLKKVLEAAGIEVDEARVKALVAALEEVNIDEAIKK   56 (106)
T ss_pred             CHHHHHHHHHHhcCC-CCCHHHHHHHHHHhCCcccHHHHHHHHHHHcCCCHHHHHHh
Confidence            899999999999988 79999999999999999999999999999999999999974

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=98.81  E-value=3.5e-09  Score=94.35  Aligned_cols=27  Identities=19%  Similarity=0.318  Sum_probs=23.8

Q ss_pred             HHHHHHHHcCCCcCHHHHHHHHHHhCC
Q psy2830          60 DVEKILSSVGIESDAEKLKIVLKELNG   86 (183)
Q Consensus        60 dI~kVLkAaGveVe~~~~~lFakaL~G   86 (183)
                      +|.+|..++|+.++++|+.+|+++++.
T Consensus       221 ~i~als~aag~pt~~s~p~~ia~a~k~  247 (310)
T PTZ00135        221 NVAAISLAAGYPTEASAPHSILNAFKN  247 (310)
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            567888999999999999999998843

>PTZ00240 60S ribosomal protein P0; Provisional

Probab=97.80  E-value=3.1e-05  Score=69.91  Aligned_cols=17  Identities=41%  Similarity=0.980  Sum_probs=12.6

Q ss_pred             hhhccccccCCcCcc-cc
Q psy2830         135 KKEESDASDDDMGFG-VW  151 (183)
Q Consensus       135 k~EeeEEsDdDMGFg-LF  151 (183)
                      ++|+|||+||||||| ||
T Consensus       306 ~~~~~e~~~~d~~~~~~~  323 (323)
T PTZ00240        306 KEEEEESDEDDFGMGALF  323 (323)
T ss_pred             ccCCccCcccccCccccC
Confidence            356677888999996 54

>PRK04019 rplP0 acidic ribosomal protein P0; Validated

Probab=96.89  E-value=0.0022  Score=57.56  Aligned_cols=48  Identities=21%  Similarity=0.234  Sum_probs=36.5

Q ss_pred             HHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCC-CCHHHHHHh
Q psy2830          41 YVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNG-KNLEEIIAA   95 (183)
Q Consensus        41 ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~G-KdI~ELIa~   95 (183)
                      |--|+.|+.-.+  =||++.|..||..+     ......++..|.+ .++.+-|.+
T Consensus       242 ~~~a~aLa~~~~--~~t~e~~~~il~kA-----~~~~~ala~~~~~~~~~~~~~~~  290 (330)
T PRK04019        242 FREAKALAVEAG--IVTPETADDILSKA-----VAQALALAAALADKDALDEELKE  290 (330)
T ss_pred             HHHHHHHHHHcC--CCChhhHHHHHHHH-----HHHHHHHHHHhcCcccccHHHHh
Confidence            334555555442  48999999999998     5667789999999 999988874

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

Probab=96.48  E-value=0.0049  Score=48.32  Aligned_cols=27  Identities=37%  Similarity=0.519  Sum_probs=22.7

Q ss_pred             HHHHcCCCcCHHHHHHHHHHhCCCCHHH
Q psy2830          64 ILSSVGIESDAEKLKIVLKELNGKNLEE   91 (183)
Q Consensus        64 VLkAaGveVe~~~~~lFakaL~GKdI~E   91 (183)
                      +|..+|-++....++.+.++. |.+|++
T Consensus         9 lL~~agkei~e~~l~~vl~aa-Gveve~   35 (109)
T COG2058           9 LLHLAGKEITEDNLKSVLEAA-GVEVEE   35 (109)
T ss_pred             HHHHccCcCCHHHHHHHHHHc-CCCccH
Confidence            678899999999999988875 888775

>KOG3449|consensus

Probab=94.55  E-value=0.15  Score=40.30  Aligned_cols=24  Identities=13%  Similarity=0.108  Sum_probs=18.8

Q ss_pred             CCCCHHHHHHHHHHcCCCcCHHHH
Q psy2830          54 ENPAQGDVEKILSSVGIESDAEKL   77 (183)
Q Consensus        54 ~spTaedI~kVLkAaGveVe~~~~   77 (183)
                      .++..+.|++||+....+--.+.+
T Consensus        32 ~E~d~e~i~~visel~GK~i~ElI   55 (112)
T KOG3449|consen   32 AEIDDERINLVLSELKGKDIEELI   55 (112)
T ss_pred             cccCHHHHHHHHHHhcCCCHHHHH
Confidence            679999999999999886433333

>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p

Probab=93.54  E-value=0.2  Score=38.74  Aligned_cols=30  Identities=17%  Similarity=0.044  Sum_probs=22.6

Q ss_pred             CCCCHHHHHHHHHH-cCCCcCHHHHHHHHHHh
Q psy2830          54 ENPAQGDVEKILSS-VGIESDAEKLKIVLKEL   84 (183)
Q Consensus        54 ~spTaedI~kVLkA-aGveVe~~~~~lFakaL   84 (183)
                      .+++.+.+..++++ .|.+|+.-. ......|
T Consensus        31 veVe~~~~~~~~~aLaGk~V~eli-~~g~~kl   61 (105)
T cd04411          31 AEIEPERVKLFLSALNGKNIDEVI-SKGKELM   61 (105)
T ss_pred             CCcCHHHHHHHHHHHcCCCHHHHH-HHHHhhc
Confidence            57999999999999 888887654 3333334

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

>PRK06402 rpl12p 50S ribosomal protein L12P; Reviewed

Probab=88.98  E-value=0.75  Score=35.86  Aligned_cols=26  Identities=35%  Similarity=0.561  Sum_probs=13.1

Q ss_pred             HHHHcCCCcCHHHHHHHHHHhCCCCHH
Q psy2830          64 ILSSVGIESDAEKLKIVLKELNGKNLE   90 (183)
Q Consensus        64 VLkAaGveVe~~~~~lFakaL~GKdI~   90 (183)
                      ||.-.|.++...-++.++++. |.+|+
T Consensus         9 LL~~~g~~it~e~I~~IL~AA-GveVe   34 (106)
T PRK06402          9 LLHSAGKEINEDNLKKVLEAA-GVEVD   34 (106)
T ss_pred             HHHhcCCCCCHHHHHHHHHHc-CCCcc
Confidence            344455555555555555543 44444

>TIGR03685 L21P_arch 50S ribosomal protein L12P

Probab=85.89  E-value=1.7  Score=33.65  Aligned_cols=27  Identities=41%  Similarity=0.612  Sum_probs=17.7

Q ss_pred             HHHHcCCCcCHHHHHHHHHHhCCCCHHH
Q psy2830          64 ILSSVGIESDAEKLKIVLKELNGKNLEE   91 (183)
Q Consensus        64 VLkAaGveVe~~~~~lFakaL~GKdI~E   91 (183)
                      ||.-.|.++....++.++++- |.+|++
T Consensus         9 ll~~~g~~iT~e~I~~IL~AA-Gv~ve~   35 (105)
T TIGR03685         9 LLHSAGKEINEENLKAVLEAA-GVEVDE   35 (105)
T ss_pred             HHHhcCCCCCHHHHHHHHHHh-CCcccH
Confidence            456667777777777777764 555554

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

>cd05833 Ribosomal_P2 Ribosomal protein P2

Probab=85.65  E-value=2.8  Score=32.58  Aligned_cols=18  Identities=11%  Similarity=0.176  Sum_probs=10.9

Q ss_pred             CCCCHHHHHHHHHHcCCC
Q psy2830          54 ENPAQGDVEKILSSVGIE   71 (183)
Q Consensus        54 ~spTaedI~kVLkAaGve   71 (183)
                      .++..+.+..++++....
T Consensus        32 veVe~~~~~lf~~~L~GK   49 (109)
T cd05833          32 VEVDDEKLNKVISELEGK   49 (109)
T ss_pred             CCccHHHHHHHHHHHcCC
Confidence            356666666666666543

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

>cd05831 Ribosomal_P1 Ribosomal protein P1

Probab=84.29  E-value=2.4  Score=32.50  Aligned_cols=27  Identities=41%  Similarity=0.592  Sum_probs=21.7

Q ss_pred             HHHHcCCCcCHHHHHHHHHHhCCCCHHH
Q psy2830          64 ILSSVGIESDAEKLKIVLKELNGKNLEE   91 (183)
Q Consensus        64 VLkAaGveVe~~~~~lFakaL~GKdI~E   91 (183)
                      ||...|.++....+...+++. |.++++
T Consensus        10 iL~d~~~~~Tae~I~~ilkAa-Gveve~   36 (103)
T cd05831          10 ILHDDGIEITADNINALLKAA-GVNVEP   36 (103)
T ss_pred             HHccCCCCCCHHHHHHHHHHc-CCcccH
Confidence            678888999999999888875 677764

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

>cd05832 Ribosomal_L12p Ribosomal protein L12p

Probab=83.16  E-value=2.6  Score=32.91  Aligned_cols=27  Identities=37%  Similarity=0.540  Sum_probs=20.4

Q ss_pred             HHHHcCCCcCHHHHHHHHHHhCCCCHHH
Q psy2830          64 ILSSVGIESDAEKLKIVLKELNGKNLEE   91 (183)
Q Consensus        64 VLkAaGveVe~~~~~lFakaL~GKdI~E   91 (183)
                      ||...|.++....++.++++- |.++++
T Consensus         9 LL~~~G~eITae~I~~IL~AA-GveVd~   35 (106)
T cd05832           9 LLHYAGKEINEENLKKVLEAA-GIEVDE   35 (106)
T ss_pred             HHHhcCCCCCHHHHHHHHHHh-CCcccH
Confidence            567788888888888888864 666654

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

>PTZ00373 60S Acidic ribosomal protein P2; Provisional

Probab=80.13  E-value=0.95  Score=35.58  Aligned_cols=18  Identities=6%  Similarity=0.128  Sum_probs=14.6

Q ss_pred             CCCCHHHHHHHHHHcCCC
Q psy2830          54 ENPAQGDVEKILSSVGIE   71 (183)
Q Consensus        54 ~spTaedI~kVLkAaGve   71 (183)
                      .++..+.+..++++....
T Consensus        34 veVd~~~~~l~~~~L~GK   51 (112)
T PTZ00373         34 ADVEDDVLDNFFKSLEGK   51 (112)
T ss_pred             CCccHHHHHHHHHHHcCC
Confidence            568999999999988653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	183
2w1o_A	70	Nmr Structure Of Dimerization Domain Of Human Ribos		1e-12
3izr_v	113	Localization Of The Large Subunit Ribosomal Protein		2e-08
3izs_v	106	Localization Of The Large Subunit Ribosomal Protein		4e-04

>pdb|2W1O|A Chain A, Nmr Structure Of Dimerization Domain Of Human Ribosomal Protein P2 Length = 70

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 34/66 (51%), Positives = 46/66 (69%)
Query: 39  MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           MRYV        GG  +P+  D++KIL SVGIE+D ++L  V+ ELNGKN+E++IA G  
Sbjct: 2   MRYVASYLLAALGGNSSPSAKDIKKILDSVGIEADDDRLNKVISELNGKNIEDVIAQGIG 61
Query: 99  KLASMP 104
           KLAS+P
Sbjct: 62  KLASVP 67

>pdb|3IZR|VV Chain v, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 113

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 43/66 (65%)
Query: 39  MRYVXXXXXXXXGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKE 98
           M+++         G  +P+  D+  IL SVG E D EK++++L ++ GK++ E++AAG+E
Sbjct: 1   MKFIAAYLLAYLSGNASPSAEDLTSILESVGCEIDNEKMELMLSQVKGKDITELLAAGRE 60
Query: 99  KLASMP 104
           K A++P
Sbjct: 61  KFAAVP 66

>pdb|3IZS|VV Chain v, 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 = 40.8 bits (94), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 22/49 (44%), Positives = 32/49 (65%)
Query: 55  NPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASM 103
            P    ++ IL SVGIE + EK+  VL  L GK+++E+I  G EKLA++
Sbjct: 16  TPDATKIKAILESVGIEIEDEKVSSVLSALEGKSVDELITEGNEKLAAV 64
  Database: pdbaa

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	183
3iz5_v	113	60S acidic ribosomal protein P21 - P2 (L12P); euka	100.0
3izc_v	106	60S acidic ribosomal protein (P2); eukaryotic ribo	100.0
3iz5_t	110	60S acidic ribosomal protein P11 - P1 (L12P); euka	100.0
3izc_t	106	60S acidic ribosomal protein RPP11 (P1); eukaryoti	99.97
2lbf_B	70	60S acidic ribosomal protein P2; ribosome, stalk,	99.91
2lbf_A	69	60S acidic ribosomal protein P1; ribosome, stalk,	99.77
3a1y_A	58	50S ribosomal protein P1 (L12P); stalk, helix SPIN	99.74
2zkr_g	317	60S acidic ribosomal protein P0; protein-RNA compl	98.88
3iz5_s	319	60S acidic ribosomal protein P0 (L10P); eukaryotic	98.81
3u5i_q	312	A0, L10E, 60S acidic ribosomal protein P0; transla	98.73
3iz5_t	110	60S acidic ribosomal protein P11 - P1 (L12P); euka	93.78
3izc_t	106	60S acidic ribosomal protein RPP11 (P1); eukaryoti	93.46
3j21_k	339	Acidic ribosomal protein P0 homolog; archaea, arch	89.89

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

Probab=99.91  E-value=3.8e-25  Score=158.28  Aligned_cols=70  Identities=61%  Similarity=1.012  Sum_probs=67.9

Q ss_pred             hhHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHhhhhhhccCCCCC
Q psy2830          38 IMRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAAGKEKLASMPSGG  107 (183)
Q Consensus        38 ~M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~G~~KL~sv~sGG  107 (183)
                      +|+|++||||++++|+.+||++||++||+++|++||++|+++|+++|+||||+|||++|++||+|+|+||
T Consensus         1 ~M~yvyA~Lll~~~g~~~~ta~~I~~il~aaGvevd~~~~~~~~~aL~gk~i~elIa~g~~kl~s~p~gg   70 (70)
T 2lbf_B            1 AMRYVASYLLAALGGNSSPSAKDIKKILDSVGIEADDDRLNKVISELNGKNIEDVIAQGIGKLASVPAGG   70 (70)
T ss_dssp             CCCTHHHHHHHHHHTCSSCCHHHHHHHHHTTTCCCCTTHHHHHHHHHSSCCHHHHHTTCSSSCSSCCCCC
T ss_pred             CcHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCccHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCC
Confidence            4899999999999999889999999999999999999999999999999999999999999999999886

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

Probab=99.77  E-value=4.9e-19  Score=126.04  Aligned_cols=54  Identities=13%  Similarity=0.201  Sum_probs=51.3

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHH
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIA   94 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa   94 (183)
                      .|.||||+|++.|  .+||++||++||+++|++||++|+.+|+++|+||||+|||+
T Consensus         8 a~~YAAllL~~~g--~~~ta~~I~~il~AaGveve~~~~~lf~~aL~gk~I~elI~   61 (69)
T 2lbf_A            8 ACIYSALILHDDE--VTVTEDKINALIKAAGVNVEPFWPGLFAKALANVNIGSLIC   61 (69)
T ss_dssp             HHHHHHHHHHHHT--CCCCHHHHHHHHHHHTCCCCTHHHHHHHHHTTTSCGGGGGT
T ss_pred             HHHHHHHHHHcCC--CCCCHHHHHHHHHHcCCCccHHHHHHHHHHHCCCCHHHHHH
Confidence            3999999999985  47999999999999999999999999999999999999997

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

Probab=99.74  E-value=6.4e-18  Score=116.54  Aligned_cols=56  Identities=30%  Similarity=0.557  Sum_probs=48.8

Q ss_pred             hHHHHHHHHHHhCCCCCCCHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCCHHHHHHh
Q psy2830          39 MRYVAAYLLAALGGKENPAQGDVEKILSSVGIESDAEKLKIVLKELNGKNLEEIIAA   95 (183)
Q Consensus        39 M~ylAAylL~~lgGn~spTaedI~kVLkAaGveVe~~~~~lFakaL~GKdI~ELIa~   95 (183)
                      |+|++||+|++.+|+ +||++||++||+++|++||++|+.+|+++|+||||+|||++
T Consensus         1 m~~~yAallL~~~g~-~~t~~~I~~il~aaGveve~~~~~~~~~~L~gk~i~elI~~   56 (58)
T 3a1y_A            1 MEYVYAALLLHSVGK-EINEENLKAVLQAAGVEPEEARIKALVAALEGVNIDEVIEK   56 (58)
T ss_dssp             CHHHHHHHHHHHTTC-CCCHHHHHHHHHHTTCCCCHHHHHHHHHHHSSCCHHHHHHH
T ss_pred             CHHHHHHHHHHhCCC-CCCHHHHHHHHHHcCCCccHHHHHHHHHHHCCCCHHHHHHc
Confidence            566666555555655 79999999999999999999999999999999999999974

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

Probab=98.88  E-value=2e-11  Score=107.52  Aligned_cols=22  Identities=59%  Similarity=1.034  Sum_probs=9.1

Q ss_pred             HHhhhhhccccccCCcCccccc
Q psy2830         131 KKAEKKEESDASDDDMGFGVWE  152 (183)
Q Consensus       131 ~eeek~EeeEEsDdDMGFgLFD  152 (183)
                      ++++++||+|||||||||||||
T Consensus       296 ~~~~~~ee~ee~d~d~gf~lfd  317 (317)
T 2zkr_g          296 AKVEAKEESEESDEDMGFGLFD  317 (317)
T ss_dssp             HSTTHHHHTSSCC---------
T ss_pred             ccccccCCccccccccCcCCCC
Confidence            4455666778899999999997

>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=98.73  E-value=7.2e-10  Score=97.45  Aligned_cols=22  Identities=45%  Similarity=0.894  Sum_probs=0.0

Q ss_pred             HHhhhhhccccccCCcCccccc
Q psy2830         131 KKAEKKEESDASDDDMGFGVWE  152 (183)
Q Consensus       131 ~eeek~EeeEEsDdDMGFgLFD  152 (183)
                      ++++++|++|||||||||||||
T Consensus       291 ~~~~~~e~~ee~d~d~gf~lfd  312 (312)
T 3u5i_q          291 AEEAAAEEEEESDDDMGFGLFD  312 (312)
T ss_dssp             ----------------------
T ss_pred             cccccccccccccccCCCCCCC
Confidence            3445567778889999999997

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

Probab=89.89  E-value=0.06  Score=47.49  Aligned_cols=10  Identities=30%  Similarity=0.670  Sum_probs=0.0

Q ss_pred             CCHHHHHHHH
Q psy2830          56 PAQGDVEKIL   65 (183)
Q Consensus        56 pTaedI~kVL   65 (183)
                      ||.+-+..+|
T Consensus       234 pT~~svp~~i  243 (339)
T 3j21_k          234 PTPQTIEAII  243 (339)
T ss_dssp             ----------
T ss_pred             CCHHHHHHHH
Confidence            6666665554

---

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