Psyllid ID: psy16477

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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--
Protein Sequence
MMKLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDSKITSIISAKFGHGRFQTPADKLAFMGYLKKDRIREEEKKASAASTAAGAASS
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHccccHHHccccEEEEEEEEEccccccHHHHHHHccccccEEEEEEccccHHHHHHHHHHHHccccccccccccccEEEEEEEEccccccccccEEcccccccEEEEEccccccEEEEcccccccccccccccHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHcEEEEEEcccHHHHHHHHccccccccEEEEEEEEccccHHHHHHHHHHHHHccccHHHHcccccEEEEEEEEcccccccEEEEEEEEEcccEEEEEcccccccccccHHHHHHHHcHcHHHHHHHHHHHHHcHccccccccc
Coil and Loop (DISEMBL)
MMKLLKKRQKKAHLMEIQlnggsvadrQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHleqpipvgqvfaqdemidcigvtkgkgfkgfvnssllfrdsKITSIISakfghgrfqtpadKLAFMGYLKKDRIREEEKKASAAStaagaass
Flexible Loop (DISEMBL)
MMKLLKKRQKKAHLMEIqlnggsvadrQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDSKITSIIsakfghgrfqtpadkLAFMGYLKKDRIREEekkasaastaagaass
Low Complexity Region (SEG)
MMKLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTkgkgfkgfVNSSLLFRDSKITSIISAKFGHGRFQTPADKLAFMGYLKKDRIREEEKKasaastaagaass
Disordered region (IsUnstruct)
***************EIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDSKITSIISAKFGHGRFQTPADKLAFMGYLK***********************
Disordered Region (DISOPRED)
MMKLLKK*****************ADRQHITVCLKLAHTEDLYGAHMKL***RQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFR**************GRFQTPADKLAFMGYLKKDRIREEEKKASA**********
Disordered Region (DISEMBL)
***********AHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDSKITSIISAKFGHGRFQTPADKLAFMGYLKKDRI*******************
Disordered Region (DISPRO)
*MKLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDSKITSIISAKFGHGRFQTPADKLAFMGYLKKDRIREEEKK*************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMKLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDSKITSIISAKFGHGRFQTPADKLAFMGYLKKDRIREEEKKASAASTAAGAASS
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	172	2.2.26 [Sep-21-2011]
O16797	416	60S ribosomal protein L3	yes	N/A	0.395	0.163	0.691	2e-24
P49149	402	60S ribosomal protein L3	N/A	N/A	0.412	0.176	0.649	3e-24
Q4R5Q0	403	60S ribosomal protein L3	N/A	N/A	0.465	0.198	0.593	7e-23
P39023	403	60S ribosomal protein L3	yes	N/A	0.465	0.198	0.593	8e-23
P27659	403	60S ribosomal protein L3	yes	N/A	0.465	0.198	0.593	9e-23
P21531	403	60S ribosomal protein L3	yes	N/A	0.465	0.198	0.593	9e-23
P39872	403	60S ribosomal protein L3	yes	N/A	0.465	0.198	0.581	1e-22
Q9NBK4	401	60S ribosomal protein L3	N/A	N/A	0.412	0.177	0.597	7e-21
P50880	401	60S ribosomal protein L3	no	N/A	0.412	0.177	0.584	1e-20
Q3SZ10	407	60S ribosomal protein L3-	no	N/A	0.517	0.218	0.494	6e-19

>sp|O16797|RL3_DROME 60S ribosomal protein L3 OS=Drosophila melanogaster GN=RpL3 PE=2 SV=3

 Score =  111 bits (277), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 47/68 (69%), Positives = 59/68 (86%)

Query: 45  AHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKG 104
           + ++L+K+RQKKAH+MEIQLNGGS+ DK+ WAR+HLE+PI V  VF QDEMIDC+GVTKG
Sbjct: 166 SQIRLIKQRQKKAHVMEIQLNGGSIEDKVKWAREHLEKPIQVSNVFGQDEMIDCVGVTKG 225

Query: 105 KGFKGFVN 112
           KGFKG  +
Sbjct: 226 KGFKGVTS 233

The L3 protein is a component of the large subunit of cytoplasmic ribosomes.
Drosophila melanogaster (taxid: 7227)

>sp|P49149|RL3_TOXCA 60S ribosomal protein L3 OS=Toxocara canis GN=RPL3 PE=2 SV=2

 Score =  110 bits (276), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 50/77 (64%), Positives = 64/77 (83%), Gaps = 6/77 (7%)

Query: 36  LAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEM 95
           +AHT+      MK++K R+KKAH+MEIQ+NGG+VA+K+ WAR+HLE+ +PV  VFAQDEM
Sbjct: 163 IAHTQ------MKVMKHREKKAHIMEIQINGGTVAEKVDWAREHLEKQVPVDSVFAQDEM 216

Query: 96  IDCIGVTKGKGFKGFVN 112
           IDCIGVTKGKGFKG  +
Sbjct: 217 IDCIGVTKGKGFKGVTS 233

The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Toxocara canis (taxid: 6265)

>sp|Q4R5Q0|RL3_MACFA 60S ribosomal protein L3 OS=Macaca fascicularis GN=RPL3 PE=2 SV=3

 Score =  106 bits (265), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 51/86 (59%), Positives = 65/86 (75%), Gaps = 6/86 (6%)

Query: 27  RQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV 86
           +++  V   +AHT+      M+LL  RQKKAHLMEIQ+NGG+VA+K+ WAR+ LEQ +PV
Sbjct: 154 KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEIQVNGGTVAEKLDWARERLEQQVPV 207

Query: 87  GQVFAQDEMIDCIGVTKGKGFKGFVN 112
            QVF QDEMID IGVTKGKG+KG  +
Sbjct: 208 NQVFGQDEMIDVIGVTKGKGYKGVTS 233

The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Macaca fascicularis (taxid: 9541)

>sp|P39023|RL3_HUMAN 60S ribosomal protein L3 OS=Homo sapiens GN=RPL3 PE=1 SV=2

 Score =  106 bits (264), Expect = 8e-23,   Method: Compositional matrix adjust.
 Identities = 51/86 (59%), Positives = 65/86 (75%), Gaps = 6/86 (6%)

Query: 27  RQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV 86
           +++  V   +AHT+      M+LL  RQKKAHLMEIQ+NGG+VA+K+ WAR+ LEQ +PV
Sbjct: 154 KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEIQVNGGTVAEKLDWARERLEQQVPV 207

Query: 87  GQVFAQDEMIDCIGVTKGKGFKGFVN 112
            QVF QDEMID IGVTKGKG+KG  +
Sbjct: 208 NQVFGQDEMIDVIGVTKGKGYKGVTS 233

The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Homo sapiens (taxid: 9606)

>sp|P27659|RL3_MOUSE 60S ribosomal protein L3 OS=Mus musculus GN=Rpl3 PE=2 SV=3

 Score =  106 bits (264), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 51/86 (59%), Positives = 65/86 (75%), Gaps = 6/86 (6%)

Query: 27  RQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV 86
           +++  V   +AHT+      M+LL  RQKKAHLMEIQ+NGG+VA+K+ WAR+ LEQ +PV
Sbjct: 154 KKYCQVIRIIAHTQ------MRLLPLRQKKAHLMEIQVNGGTVAEKLDWARERLEQQVPV 207

Query: 87  GQVFAQDEMIDCIGVTKGKGFKGFVN 112
            QVF QDEMID IGVTKGKG+KG  +
Sbjct: 208 NQVFGQDEMIDVIGVTKGKGYKGVTS 233

The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Mus musculus (taxid: 10090)

>sp|P21531|RL3_RAT 60S ribosomal protein L3 OS=Rattus norvegicus GN=Rpl3 PE=1 SV=3

 Score =  106 bits (264), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 51/86 (59%), Positives = 65/86 (75%), Gaps = 6/86 (6%)

Query: 27  RQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV 86
           +++  V   +AHT+      M+LL  RQKKAHLMEIQ+NGG+VA+K+ WAR+ LEQ +PV
Sbjct: 154 KKYCQVIRIIAHTQ------MRLLPLRQKKAHLMEIQVNGGTVAEKLDWARERLEQQVPV 207

Query: 87  GQVFAQDEMIDCIGVTKGKGFKGFVN 112
            QVF QDEMID IGVTKGKG+KG  +
Sbjct: 208 NQVFGQDEMIDVIGVTKGKGYKGVTS 233

The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Rattus norvegicus (taxid: 10116)

>sp|P39872|RL3_BOVIN 60S ribosomal protein L3 OS=Bos taurus GN=RPL3 PE=2 SV=2

 Score =  105 bits (263), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 50/86 (58%), Positives = 65/86 (75%), Gaps = 6/86 (6%)

Query: 27  RQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV 86
           +++  V   +AHT+      M+LL  RQKKAHLME+Q+NGG+VA+K+ WAR+ LEQ +PV
Sbjct: 154 KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEVQVNGGTVAEKLDWARERLEQQVPV 207

Query: 87  GQVFAQDEMIDCIGVTKGKGFKGFVN 112
            QVF QDEMID IGVTKGKG+KG  +
Sbjct: 208 SQVFGQDEMIDVIGVTKGKGYKGVTS 233

The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Bos taurus (taxid: 9913)

>sp|Q9NBK4|RL3_CAEBR 60S ribosomal protein L3 OS=Caenorhabditis briggsae GN=rpl-3 PE=3 SV=2

 Score = 99.8 bits (247), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 46/77 (59%), Positives = 60/77 (77%), Gaps = 6/77 (7%)

Query: 36  LAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEM 95
           +AHT+      MK+L++RQKKAHL+EIQ+NGG++  K+ WAR+HLE+ I V  VF+QDEM
Sbjct: 163 IAHTQ------MKILRRRQKKAHLVEIQINGGTIEQKVDWAREHLEKQIQVDTVFSQDEM 216

Query: 96  IDCIGVTKGKGFKGFVN 112
           ID IGVTKG GFKG  +
Sbjct: 217 IDTIGVTKGHGFKGVTS 233

The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Caenorhabditis briggsae (taxid: 6238)

>sp|P50880|RL3_CAEEL 60S ribosomal protein L3 OS=Caenorhabditis elegans GN=rpl-3 PE=2 SV=1

 Score = 99.4 bits (246), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 45/77 (58%), Positives = 60/77 (77%), Gaps = 6/77 (7%)

Query: 36  LAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEM 95
           +AHT+      MK+L++RQKKAHL+EIQ+NGG++  K+ WAR+HLE+ + V  VFAQDEM
Sbjct: 163 IAHTQ------MKILRRRQKKAHLVEIQVNGGTIEQKVDWAREHLEKQVQVDTVFAQDEM 216

Query: 96  IDCIGVTKGKGFKGFVN 112
           ID IGVT+G GFKG  +
Sbjct: 217 IDTIGVTRGHGFKGVTS 233

The L3 protein is a component of the large subunit of cytoplasmic ribosomes.

Caenorhabditis elegans (taxid: 6239)

>sp|Q3SZ10|RL3L_BOVIN 60S ribosomal protein L3-like OS=Bos taurus GN=RPL3L PE=2 SV=3

 Score = 93.6 bits (231), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 47/95 (49%), Positives = 65/95 (68%), Gaps = 6/95 (6%)

Query: 18  QLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWAR 77
           QL     A +++  V   + HT+      MKLL  RQKKAH+ME+QLNGG+VA+K+AWA+
Sbjct: 145 QLQKDFAAMKKYCKVIRVIVHTQ------MKLLPFRQKKAHIMEVQLNGGTVAEKVAWAQ 198

Query: 78  QHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVN 112
             LE+ +PV  VF+Q+E+ID I VTKG+G KG  +
Sbjct: 199 ARLEKQVPVHSVFSQNEIIDVIAVTKGRGIKGVTS 233

Bos taurus (taxid: 9913)

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	172
70909599	283	ribosomal protein L3e [Mycetophagus quad	0.412	0.250	0.727	9e-27
189240524	409	PREDICTED: similar to ribosomal protein	0.459	0.193	0.670	4e-26
264667433	414	ribosomal protein L3 [Chrysomela tremula	0.459	0.190	0.658	1e-25
70909601	410	ribosomal protein L3e [Scarabaeus latico	0.459	0.192	0.647	2e-25
112982798	413	ribosomal protein L3 [Bombyx mori] gi|54	0.459	0.191	0.647	2e-25
84095076	412	ribosomal protein L3 [Papilio xuthus]	0.459	0.191	0.647	2e-25
315115447	412	ribosomal protein L3 [Euphydryas aurinia	0.459	0.191	0.647	4e-25
18253047	413	ribosomal protein L3 [Spodoptera frugipe	0.459	0.191	0.635	4e-25
357623605	399	ribosomal protein L3 [Danaus plexippus]	0.459	0.197	0.635	4e-25
444706378	197	60S ribosomal protein L3 [Tupaia chinens	0.662	0.578	0.540	4e-25

>gi|70909599|emb|CAJ17225.1| ribosomal protein L3e [Mycetophagus quadripustulatus]

 Score =  124 bits (312), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 56/77 (72%), Positives = 67/77 (87%), Gaps = 6/77 (7%)

Query: 36  LAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEM 95
           +AHT+      MKLLK+RQKKAH+MEIQLNGGS+ADK+ WAR+HLE+PIP+ QVFAQDEM
Sbjct: 39  IAHTQ------MKLLKQRQKKAHIMEIQLNGGSIADKVQWAREHLEKPIPINQVFAQDEM 92

Query: 96  IDCIGVTKGKGFKGFVN 112
           IDCIGVTKGKG+KG  +
Sbjct: 93  IDCIGVTKGKGYKGVTS 109

Source: Mycetophagus quadripustulatus

Species: Mycetophagus quadripustulatus

Genus: Mycetophagus

Family: Mycetophagidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189240524|ref|XP_971875.2| PREDICTED: similar to ribosomal protein L3e [Tribolium castaneum] gi|270011378|gb|EFA07826.1| hypothetical protein TcasGA2_TC005395 [Tribolium castaneum]

 Score =  122 bits (306), Expect = 4e-26,   Method: Compositional matrix adjust.
 Identities = 57/85 (67%), Positives = 68/85 (80%), Gaps = 6/85 (7%)

Query: 28  QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVG 87
           ++  V   +AHT+      MKLL +RQKKAH+MEIQLNGGSV DK+ WAR+HLE+PIPV 
Sbjct: 155 KYCKVVRVIAHTQ------MKLLNQRQKKAHIMEIQLNGGSVVDKVQWAREHLEKPIPVA 208

Query: 88  QVFAQDEMIDCIGVTKGKGFKGFVN 112
           QVFAQDEMIDCIGVTKGKG+KG  +
Sbjct: 209 QVFAQDEMIDCIGVTKGKGYKGVTS 233

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|264667433|gb|ACY71302.1| ribosomal protein L3 [Chrysomela tremula]

 Score =  121 bits (303), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 56/85 (65%), Positives = 68/85 (80%), Gaps = 6/85 (7%)

Query: 28  QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVG 87
           ++  V   +AHT+      MKLLK+RQKKAH+MEIQLNGGS+ADK+AWAR H E+PIPV 
Sbjct: 155 KYCKVVRVIAHTQ------MKLLKQRQKKAHIMEIQLNGGSIADKVAWARAHFEKPIPVS 208

Query: 88  QVFAQDEMIDCIGVTKGKGFKGFVN 112
           +VFAQDEMIDCIGVTKG G+KG  +
Sbjct: 209 EVFAQDEMIDCIGVTKGHGYKGVTS 233

Source: Chrysomela tremula

Species: Chrysomela tremula

Genus: Chrysomela

Family: Chrysomelidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|70909601|emb|CAJ17226.1| ribosomal protein L3e [Scarabaeus laticollis]

 Score =  120 bits (301), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 55/85 (64%), Positives = 68/85 (80%), Gaps = 6/85 (7%)

Query: 28  QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVG 87
           ++  V   +AHT+      MKLLK+RQKKAH+MEIQLNGG++ DK+ WAR+HLE+PIPV 
Sbjct: 155 KYCKVVRVIAHTQ------MKLLKQRQKKAHIMEIQLNGGTIDDKVKWAREHLEKPIPVN 208

Query: 88  QVFAQDEMIDCIGVTKGKGFKGFVN 112
            VFAQDEMIDCIGVTKGKG+KG  +
Sbjct: 209 NVFAQDEMIDCIGVTKGKGYKGVTS 233

Source: Scarabaeus laticollis

Species: Scarabaeus laticollis

Genus: Scarabaeus

Family: Scarabaeidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|112982798|ref|NP_001037126.1| ribosomal protein L3 [Bombyx mori] gi|54609193|gb|AAV34812.1| ribosomal protein L3 [Bombyx mori]

 Score =  120 bits (301), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 55/85 (64%), Positives = 69/85 (81%), Gaps = 6/85 (7%)

Query: 28  QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVG 87
           ++ +V   +AHT+      MKLLK+RQKKAH+MEIQLNGG++ DK+ WAR+HLE+PIPV 
Sbjct: 155 RYCSVVRVIAHTQ------MKLLKQRQKKAHIMEIQLNGGTIEDKVKWAREHLEKPIPVD 208

Query: 88  QVFAQDEMIDCIGVTKGKGFKGFVN 112
            VFAQDEMIDCIGVTKGKG+KG  +
Sbjct: 209 SVFAQDEMIDCIGVTKGKGYKGVTS 233

Source: Bombyx mori

Species: Bombyx mori

Genus: Bombyx

Family: Bombycidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|84095076|dbj|BAE66653.1| ribosomal protein L3 [Papilio xuthus]

 Score =  120 bits (301), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 55/85 (64%), Positives = 69/85 (81%), Gaps = 6/85 (7%)

Query: 28  QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVG 87
           ++ +V   +AHT+      MKLLK+RQKKAH+MEIQLNGG++ DK+ WAR+HLE+PIPV 
Sbjct: 155 RYCSVIRVIAHTQ------MKLLKQRQKKAHIMEIQLNGGTIEDKVKWAREHLEKPIPVD 208

Query: 88  QVFAQDEMIDCIGVTKGKGFKGFVN 112
            VFAQDEMIDCIGVTKGKG+KG  +
Sbjct: 209 SVFAQDEMIDCIGVTKGKGYKGVTS 233

Source: Papilio xuthus

Species: Papilio xuthus

Genus: Papilio

Family: Papilionidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|315115447|gb|ADT80696.1| ribosomal protein L3 [Euphydryas aurinia]

 Score =  119 bits (299), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 55/85 (64%), Positives = 69/85 (81%), Gaps = 6/85 (7%)

Query: 28  QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVG 87
           ++ +V   +AHT+      MKLLK+RQKKAHLMEIQ+NGG+V DK+ WAR+HLE+PIP+ 
Sbjct: 155 RYCSVIRIIAHTQ------MKLLKQRQKKAHLMEIQVNGGTVDDKVKWAREHLEKPIPID 208

Query: 88  QVFAQDEMIDCIGVTKGKGFKGFVN 112
            VFAQDEMIDCIGVTKGKG+KG  +
Sbjct: 209 SVFAQDEMIDCIGVTKGKGYKGVTS 233

Source: Euphydryas aurinia

Species: Euphydryas aurinia

Genus: Euphydryas

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|18253047|gb|AAL62468.1| ribosomal protein L3 [Spodoptera frugiperda]

 Score =  119 bits (298), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 54/85 (63%), Positives = 69/85 (81%), Gaps = 6/85 (7%)

Query: 28  QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVG 87
           ++ +V   +AHT+      MKLLK+RQKKAH+MEIQ+NGG++ DK+ WAR+HLE+PIPV 
Sbjct: 155 RYCSVVRVIAHTQ------MKLLKQRQKKAHIMEIQVNGGTIEDKVKWAREHLEKPIPVD 208

Query: 88  QVFAQDEMIDCIGVTKGKGFKGFVN 112
            VFAQDEMIDCIGVTKGKG+KG  +
Sbjct: 209 SVFAQDEMIDCIGVTKGKGYKGVTS 233

Source: Spodoptera frugiperda

Species: Spodoptera frugiperda

Genus: Spodoptera

Family: Noctuidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|357623605|gb|EHJ74691.1| ribosomal protein L3 [Danaus plexippus]

 Score =  119 bits (298), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 54/85 (63%), Positives = 69/85 (81%), Gaps = 6/85 (7%)

Query: 28  QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVG 87
           ++ +V   +AHT+      MKLLK+RQKKAH+MEIQ+NGGS+ DK+ WAR+HLE+PIP+ 
Sbjct: 142 RYCSVIRVIAHTQ------MKLLKQRQKKAHIMEIQVNGGSIEDKVNWAREHLEKPIPID 195

Query: 88  QVFAQDEMIDCIGVTKGKGFKGFVN 112
            VFAQDEMIDCIGVTKGKG+KG  +
Sbjct: 196 SVFAQDEMIDCIGVTKGKGYKGVTS 220

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|444706378|gb|ELW47720.1| 60S ribosomal protein L3 [Tupaia chinensis]

 Score =  119 bits (298), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 66/122 (54%), Positives = 83/122 (68%), Gaps = 8/122 (6%)

Query: 36  LAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEM 95
           +AHT+      M+LL   QKKAHLMEIQ+NGG+VA+K+ W  + LEQ +PV QVF QDEM
Sbjct: 82  IAHTQ------MRLLPLCQKKAHLMEIQVNGGTVAEKLDWVLEQLEQRVPVNQVFGQDEM 135

Query: 96  IDCIGVTKGKGFKGFVNSSLLFRDSKITSIISAKFGHGRFQTPADKLAFMGYLKKDRIRE 155
           ID +GV KGKG++G +  +L   D K     S K GHG FQ+  +K AFMG L KDRI +
Sbjct: 136 IDAMGVIKGKGYRGTIRQALEKIDLKFIGTAS-KLGHGHFQSVEEKKAFMGPL-KDRIAK 193

Query: 156 EE 157
           EE
Sbjct: 194 EE 195

Source: Tupaia chinensis

Species: Tupaia chinensis

Genus: Tupaia

Family: Tupaiidae

Order: Scandentia

Class: Mammalia

Phylum: Chordata

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	172
FB|FBgn0020910	416	RpL3 "Ribosomal protein L3" [D	0.337	0.139	0.689	6.3e-31
UNIPROTKB|G5E9G0	351	RPL3 "60S ribosomal protein L3	0.534	0.262	0.5	1.6e-28
UNIPROTKB|P39023	403	RPL3 "60S ribosomal protein L3	0.534	0.228	0.5	6.6e-28
UNIPROTKB|F1SNY2	403	RPL3 "60S ribosomal protein L3	0.534	0.228	0.5	6.6e-28
UNIPROTKB|Q4R5Q0	403	RPL3 "60S ribosomal protein L3	0.534	0.228	0.5	6.6e-28
MGI|MGI:1351605	403	Rpl3 "ribosomal protein L3" [M	0.534	0.228	0.5	8.8e-28
RGD|735105	403	Rpl3 "ribosomal protein L3" [R	0.534	0.228	0.5	8.8e-28
UNIPROTKB|F1PLN2	403	RPL3 "Uncharacterized protein"	0.534	0.228	0.5	1.1e-27
UNIPROTKB|J9P6X5	403	RPL3 "Uncharacterized protein"	0.534	0.228	0.5	1.1e-27
UNIPROTKB|P39872	403	RPL3 "60S ribosomal protein L3	0.534	0.228	0.49	1.5e-27

FB|FBgn0020910 RpL3 "Ribosomal protein L3" [Drosophila melanogaster (taxid:7227)]

 Score = 231 (86.4 bits), Expect = 6.3e-31, Sum P(2) = 6.3e-31
 Identities = 40/58 (68%), Positives = 51/58 (87%)

Query:    45 AHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             + ++L+K+RQKKAH+MEIQLNGGS+ DK+ WAR+HLE+PI V  VF QDEMIDC+GVT
Sbjct:   166 SQIRLIKQRQKKAHVMEIQLNGGSIEDKVKWAREHLEKPIQVSNVFGQDEMIDCVGVT 223

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

GO:0006412 "translation" evidence=ISS;NAS

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

GO:0022626 "cytosolic ribosome" evidence=NAS

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0051297 "centrosome organization" evidence=IMP

GO:0051298 "centrosome duplication" evidence=IMP

UNIPROTKB|G5E9G0 RPL3 "60S ribosomal protein L3" [Homo sapiens (taxid:9606)]

 Score = 223 (83.6 bits), Expect = 1.6e-28, Sum P(2) = 1.6e-28
 Identities = 50/100 (50%), Positives = 68/100 (68%)

Query:     3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEI 62
             K  KK Q +    +++ +  S+  +++  V   +AHT+      M+LL  RQKKAHLMEI
Sbjct:    80 KYCKKWQDEDGKKQLEKDFSSM--KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEI 131

Query:    63 QLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVT
Sbjct:   132 QVNGGTVAEKLDWARERLEQQVPVNQVFGQDEMIDVIGVT 171

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

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|P39023 RPL3 "60S ribosomal protein L3" [Homo sapiens (taxid:9606)]

 Score = 223 (83.6 bits), Expect = 6.6e-28, Sum P(2) = 6.6e-28
 Identities = 50/100 (50%), Positives = 68/100 (68%)

Query:     3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEI 62
             K  KK Q +    +++ +  S+  +++  V   +AHT+      M+LL  RQKKAHLMEI
Sbjct:   132 KYCKKWQDEDGKKQLEKDFSSM--KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEI 183

Query:    63 QLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVT
Sbjct:   184 QVNGGTVAEKLDWARERLEQQVPVNQVFGQDEMIDVIGVT 223

GO:0006412 "translation" evidence=NAS;TAS

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

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

GO:0005730 "nucleolus" 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|F1SNY2 RPL3 "60S ribosomal protein L3" [Sus scrofa (taxid:9823)]

 Score = 223 (83.6 bits), Expect = 6.6e-28, Sum P(2) = 6.6e-28
 Identities = 50/100 (50%), Positives = 68/100 (68%)

Query:     3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEI 62
             K  KK Q +    +++ +  S+  +++  V   +AHT+      M+LL  RQKKAHLMEI
Sbjct:   132 KYCKKWQDEDGKKQLERDFSSM--KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEI 183

Query:    63 QLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVT
Sbjct:   184 QVNGGTVAEKLDWARERLEQQVPVNQVFGQDEMIDVIGVT 223

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

GO:0005730 "nucleolus" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|Q4R5Q0 RPL3 "60S ribosomal protein L3" [Macaca fascicularis (taxid:9541)]

 Score = 223 (83.6 bits), Expect = 6.6e-28, Sum P(2) = 6.6e-28
 Identities = 50/100 (50%), Positives = 68/100 (68%)

Query:     3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEI 62
             K  KK Q +    +++ +  S+  +++  V   +AHT+      M+LL  RQKKAHLMEI
Sbjct:   132 KYCKKWQDEDGKKQLEKDFSSM--KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEI 183

Query:    63 QLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVT
Sbjct:   184 QVNGGTVAEKLDWARERLEQQVPVNQVFGQDEMIDVIGVT 223

GO:0005730 "nucleolus" evidence=ISS

MGI|MGI:1351605 Rpl3 "ribosomal protein L3" [Mus musculus (taxid:10090)]

 Score = 222 (83.2 bits), Expect = 8.8e-28, Sum P(2) = 8.8e-28
 Identities = 50/100 (50%), Positives = 67/100 (67%)

Query:     3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEI 62
             K  KK Q      +++ +  S+  +++  V   +AHT+      M+LL  RQKKAHLMEI
Sbjct:   132 KYCKKWQDDTGKKQLEKDFNSM--KKYCQVIRIIAHTQ------MRLLPLRQKKAHLMEI 183

Query:    63 QLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVT
Sbjct:   184 QVNGGTVAEKLDWARERLEQQVPVNQVFGQDEMIDVIGVT 223

GO:0003674 "molecular_function" evidence=ND

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

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005730 "nucleolus" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

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

RGD|735105 Rpl3 "ribosomal protein L3" [Rattus norvegicus (taxid:10116)]

 Score = 222 (83.2 bits), Expect = 8.8e-28, Sum P(2) = 8.8e-28
 Identities = 50/100 (50%), Positives = 67/100 (67%)

Query:     3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEI 62
             K  KK Q      +++ +  S+  +++  V   +AHT+      M+LL  RQKKAHLMEI
Sbjct:   132 KYCKKWQDDTGKKQLEKDFNSM--KKYCQVIRIIAHTQ------MRLLPLRQKKAHLMEI 183

Query:    63 QLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVT
Sbjct:   184 QVNGGTVAEKLDWARERLEQQVPVNQVFGQDEMIDVIGVT 223

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

GO:0005730 "nucleolus" evidence=ISO;ISS

GO:0005737 "cytoplasm" evidence=ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

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

UNIPROTKB|F1PLN2 RPL3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 221 (82.9 bits), Expect = 1.1e-27, Sum P(2) = 1.1e-27
 Identities = 50/100 (50%), Positives = 67/100 (67%)

Query:     3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEI 62
             K  KK Q      +++ +  S+  +++  V   +AHT+      M+LL  RQKKAHLMEI
Sbjct:   132 KYCKKWQDDDGKKQLEKDFNSM--KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEI 183

Query:    63 QLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVT
Sbjct:   184 QVNGGTVAEKLDWARERLEQQVPVNQVFGQDEMIDVIGVT 223

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|J9P6X5 RPL3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 221 (82.9 bits), Expect = 1.1e-27, Sum P(2) = 1.1e-27
 Identities = 50/100 (50%), Positives = 67/100 (67%)

Query:     3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEI 62
             K  KK Q      +++ +  S+  +++  V   +AHT+      M+LL  RQKKAHLMEI
Sbjct:   132 KYCKKWQDDDGKKQLEKDFNSM--KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEI 183

Query:    63 QLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVT
Sbjct:   184 QVNGGTVAEKLDWARERLEQQVPVNQVFGQDEMIDVIGVT 223

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|P39872 RPL3 "60S ribosomal protein L3" [Bos taurus (taxid:9913)]

 Score = 220 (82.5 bits), Expect = 1.5e-27, Sum P(2) = 1.5e-27
 Identities = 49/100 (49%), Positives = 67/100 (67%)

Query:     3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEI 62
             K  KK Q      +++ +  S+  +++  V   +AHT+      M+LL  RQKKAHLME+
Sbjct:   132 KYCKKWQDADGKKQLERDFSSM--KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEV 183

Query:    63 QLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
             Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVT
Sbjct:   184 QVNGGTVAEKLDWARERLEQQVPVSQVFGQDEMIDVIGVT 223

GO:0005730 "nucleolus" evidence=ISS

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P35684	RL3_ORYSJ	No assigned EC number	0.5116	0.4709	0.2082	yes	N/A
P36584	RL3B_SCHPO	No assigned EC number	0.5060	0.4476	0.1984	yes	N/A
P39872	RL3_BOVIN	No assigned EC number	0.5813	0.4651	0.1985	yes	N/A
P39023	RL3_HUMAN	No assigned EC number	0.5930	0.4651	0.1985	yes	N/A
P40372	RL3A_SCHPO	No assigned EC number	0.5060	0.4476	0.1984	yes	N/A
P27659	RL3_MOUSE	No assigned EC number	0.5930	0.4651	0.1985	yes	N/A
P21531	RL3_RAT	No assigned EC number	0.5930	0.4651	0.1985	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	172
PTZ00103	390	PTZ00103, PTZ00103, 60S ribosomal protein L3; Prov	2e-26
PRK04231	337	PRK04231, rpl3p, 50S ribosomal protein L3P; Review	4e-13
pfam00297	199	pfam00297, Ribosomal_L3, Ribosomal protein L3	5e-13
TIGR03626	330	TIGR03626, L3_arch, archaeal ribosomal protein L3	4e-11
COG0087	218	COG0087, RplC, Ribosomal protein L3 [Translation,	1e-10
PTZ00103	390	PTZ00103, PTZ00103, 60S ribosomal protein L3; Prov	5e-06

>gnl|CDD|240267 PTZ00103, PTZ00103, 60S ribosomal protein L3; Provisional

 Score =  102 bits (256), Expect = 2e-26
 Identities = 43/85 (50%), Positives = 59/85 (69%), Gaps = 6/85 (7%)

Query: 27  RQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV 86
           +++ +V   +AHT+         L   QKKAH+MEIQ+NGGSVA+K+ +A+  LE+ +PV
Sbjct: 151 KKYCSVIRVIAHTQ------PSKLPLGQKKAHVMEIQVNGGSVAEKVDFAKSLLEKEVPV 204

Query: 87  GQVFAQDEMIDCIGVTKGKGFKGFV 111
             VF Q+EMID IGVTKG GF+G V
Sbjct: 205 DSVFQQNEMIDVIGVTKGHGFEGVV 229

Length = 390

>gnl|CDD|235260 PRK04231, rpl3p, 50S ribosomal protein L3P; Reviewed

 Score = 65.3 bits (160), Expect = 4e-13
 Identities = 25/58 (43%), Positives = 42/58 (72%)

Query: 54  QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFV 111
           +KK  +MEI++ GGSV +++ +A++ L + I +  VF + +++D I VTKGKGF+G V
Sbjct: 157 KKKPEIMEIRIGGGSVEERLEYAKELLGKEISISDVFKEGQLVDVIAVTKGKGFQGVV 214

Length = 337

>gnl|CDD|144036 pfam00297, Ribosomal_L3, Ribosomal protein L3

 Score = 63.9 bits (156), Expect = 5e-13
 Identities = 25/59 (42%), Positives = 33/59 (55%), Gaps = 12/59 (20%)

Query: 55  KKAHLMEIQLNGGSVADKIAWARQHLE--QPIPVGQVFAQDEMIDCIGVTKGKGFKGFV 111
            KAH+ME ++NGG          +  E  Q I V  VF + E +D  GVTKGKGF+G +
Sbjct: 71  PKAHVMEFRVNGG----------EEFEPGQTIAVSDVFREGEYVDVTGVTKGKGFQGVM 119

Length = 199

>gnl|CDD|234286 TIGR03626, L3_arch, archaeal ribosomal protein L3

 Score = 59.7 bits (145), Expect = 4e-11
 Identities = 26/57 (45%), Positives = 38/57 (66%)

Query: 55  KKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFV 111
           KK  +MEI++ GGSV ++  +A   L + I V  VF + +++D I VTKGKGF+G V
Sbjct: 153 KKPEIMEIRIGGGSVEERFEYALSILGKEISVSDVFKEGQLVDVIAVTKGKGFQGVV 209

This model describes exclusively the archaeal class of ribosomal protein L3. A separate model (TIGR03625) describes the bacterial/organelle form, and both belong to Pfam family pfam00297. Eukaryotic proteins are excluded from this model [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 330

>gnl|CDD|223165 COG0087, RplC, Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]

 Score = 57.6 bits (140), Expect = 1e-10
 Identities = 22/56 (39%), Positives = 32/56 (57%), Gaps = 6/56 (10%)

Query: 54  QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKG 109
           + K HL E ++ GG VA+K    ++          VF + E++D  GVTKGKGF+G
Sbjct: 74  KPKRHLAEFRVGGGDVAEKFEVGQEIT------VDVFKEGELVDVTGVTKGKGFQG 123

Length = 218

>gnl|CDD|240267 PTZ00103, PTZ00103, 60S ribosomal protein L3; Provisional

 Score = 45.1 bits (107), Expect = 5e-06
 Identities = 20/30 (66%), Positives = 22/30 (73%)

Query: 127 SAKFGHGRFQTPADKLAFMGYLKKDRIREE 156
           S+K GHGRFQT  +K  F G LKKDRIR E
Sbjct: 361 SSKIGHGRFQTKEEKAKFYGPLKKDRIRRE 390

Length = 390

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	172
PTZ00103	390	60S ribosomal protein L3; Provisional	100.0
KOG0746|consensus	384		100.0
TIGR03626	330	L3_arch archaeal ribosomal protein L3. This model	100.0
PRK04231	337	rpl3p 50S ribosomal protein L3P; Reviewed	100.0
PF00297	263	Ribosomal_L3: Ribosomal protein L3; InterPro: IPR0	99.95
COG0087	218	RplC Ribosomal protein L3 [Translation, ribosomal	99.88
TIGR03625	202	L3_bact 50S ribosomal protein L3, bacterial. This	99.85
PRK00001	210	rplC 50S ribosomal protein L3; Validated	99.84
CHL00143	207	rpl3 ribosomal protein L3; Validated	99.83
KOG3141|consensus	310		99.55

>PTZ00103 60S ribosomal protein L3; Provisional

Probab=100.00  E-value=3.3e-43  Score=314.99  Aligned_cols=96  Identities=45%  Similarity=0.604  Sum_probs=92.3

Q ss_pred             hhhhcccccccccceeEEEEEeeecccccccchhhhhccCcceEEEEecCCCChhhhhHHHhhhCCCeeeccccccCCCe
Q psy16477         16 EIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEM   95 (172)
Q Consensus        16 ~~~~~~~~~~~k~~~~virvi~hT~~~~g~q~~~lgl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~dvF~~Ge~   95 (172)
                      +..+++.+++|+++|++||||+||      ||.+++|+||||||||||||||+++++++||+++||++|+++|+|++||+
T Consensus       140 ~~~~~~~~~~l~k~~~~IRvi~hT------qp~~~~l~kKkp~imEiqv~GGsv~~k~d~a~~llgk~i~v~dvF~~ge~  213 (390)
T PTZ00103        140 KKAEERTLKRIKKYCSVIRVIAHT------QPSKLPLGQKKAHVMEIQVNGGSVAEKVDFAKSLLEKEVPVDSVFQQNEM  213 (390)
T ss_pred             hhhHHHHHHHHhhcccEEEEEEEc------chhhcCcCCcCccEEEEeecCCCHHHHHHHHHHHhcCeechhhhccCCCE
Confidence            457888889999999999999999      99998999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEecccccccceeecccc
Q psy16477         96 IDCIGVTKGKGFKGFVNSSLLF  117 (172)
Q Consensus        96 VDViGvTKGKGFqGvvKR~~F~  117 (172)
                      |||||+|||||||||||||||.
T Consensus       214 VDVigvTKGKGfqGvvKRwg~~  235 (390)
T PTZ00103        214 IDVIGVTKGHGFEGVVKRWGVT  235 (390)
T ss_pred             eeeEEEEcCCccccCeeccccC
Confidence            9999999999999999999976

>KOG0746|consensus

Probab=100.00  E-value=2.8e-42  Score=304.25  Aligned_cols=105  Identities=53%  Similarity=0.763  Sum_probs=100.8

Q ss_pred             hhhHHHHHHHhhhhhhhcccccccccceeEEEEEeeecccccccchhhhhccCcceEEEEecCCCChhhhhHHHhhhCCC
Q psy16477          3 KLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQ   82 (172)
Q Consensus         3 ~~~~~~~~k~~~~~~~~~~~~~~~k~~~~virvi~hT~~~~g~q~~~lgl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk   82 (172)
                      +.+++||+..  +.++++.++++|++||++||||+||      ||.+++++|||+||||||+|||+++++++||.+.+++
T Consensus       119 ~~~k~~~~~~--gk~~~~~~~~~~kky~~virv~aht------q~~~~~l~qkkahlmeiqvngGtia~KvdwA~~~lEk  190 (384)
T KOG0746|consen  119 KYCKKWQDED--GKKQLEKDFSSMKKYCQVIRVIAHT------QMRLLPLRQKKAHLMEIQVNGGTVAEKVDWARERLEK  190 (384)
T ss_pred             HHhhhhhhhh--cchhhHHHHHHHHhhhheeeeeeec------hhhhhhhhhhhhhheeeeecCCcHHHHhHHHHhhhhc
Confidence            5677888766  8899999999999999999999999      9999999999999999999999999999999999999


Q ss_pred             eeeccccccCCCeEEEEEEecccccccceeecc
Q psy16477         83 PIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSL  115 (172)
Q Consensus        83 ~I~v~dvF~~Ge~VDViGvTKGKGFqGvvKR~~  115 (172)
                      +|+++++|+++|||||||+|||+||+||+.||+
T Consensus       191 qv~v~~vF~qdemId~IgvtkGkGykGvt~rw~  223 (384)
T KOG0746|consen  191 QVPVNQVFGQDEMIDVIGVTKGKGYKGVTSRWH  223 (384)
T ss_pred             cCchhhccccccccceeeeeecccccccccccc
Confidence            999999999999999999999999999999987

>TIGR03626 L3_arch archaeal ribosomal protein L3

Probab=100.00  E-value=9.2e-36  Score=262.95  Aligned_cols=127  Identities=31%  Similarity=0.443  Sum_probs=110.8

Q ss_pred             hhhcccccccccceeEEEEEeeecccccccchhh-hhccCcceEEEEecCCCChhhhhHHHhhhCCCeeeccccccCCCe
Q psy16477         17 IQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLL-KKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEM   95 (172)
Q Consensus        17 ~~~~~~~~~~k~~~~virvi~hT~~~~g~q~~~l-gl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~dvF~~Ge~   95 (172)
                      .++++.++.++++|++||||+||      ||.++ +++|||||||||+||||++++++|||++++|++|+++|+|++||+
T Consensus       120 ~~~~~~~~~l~~~~~~iRvi~~T------qp~~~~~~~kKkp~imEi~v~Gg~i~~k~~~a~~~lG~~i~v~dvF~~Ge~  193 (330)
T TIGR03626       120 EKLEKIEELLENDADDVRLIVHT------QPKLVTGVPKKKPEIMEIRIGGGSVEERFEYALSILGKEISVSDVFKEGQL  193 (330)
T ss_pred             hHHHHHHHHHhcCceEEEEEEEe------ccccccCcccCCccEEEEeecCCCHHHHhHhhHhcCCcEEehhheecCCCE
Confidence            45677777788789999999999      99988 799999999999999999999999999999999999889999999


Q ss_pred             EEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         96 IDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        96 VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      |||+|+|||||||||||||||.+.. +++ +-..++.|. |++ +|.      ...++||++++
T Consensus       194 VDV~gvTKGKGfqGvvKRwg~~~~p~~hg~~~~~R~~GsiG~~-~P~rV~~~~~maGqmG~~~r  256 (330)
T TIGR03626       194 VDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRKGGRHIGTLGPW-TPSRVRWTVPQAGQMGYHQR  256 (330)
T ss_pred             EEEEEEEcCCccccCeeccccCCCCCccCCCCCCCCCcccCCC-CCCcccCCcccCCCCCCceE
Confidence            9999999999999999999999876 333 113456666 664 444      78899999885

This model describes exclusively the archaeal class of ribosomal protein L3. A separate model (TIGR03625) describes the bacterial/organelle form, and both belong to Pfam family pfam00297. Eukaryotic proteins are excluded from this model.

>PRK04231 rpl3p 50S ribosomal protein L3P; Reviewed

Probab=100.00  E-value=1e-34  Score=257.05  Aligned_cols=124  Identities=31%  Similarity=0.475  Sum_probs=107.5

Q ss_pred             hhcccccccccceeEEEEEeeecccccccchhh-hhccCcceEEEEecCCCChhhhhHHHhhhCCCeeeccccccCCCeE
Q psy16477         18 QLNGGSVADRQHITVCLKLAHTEDLYGAHMKLL-KKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMI   96 (172)
Q Consensus        18 ~~~~~~~~~k~~~~virvi~hT~~~~g~q~~~l-gl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~dvF~~Ge~V   96 (172)
                      +++.+++.  ++|++||+|+||      ||.++ ||+|||||||||+|+||++++++|||++++|++|+++|+|++||+|
T Consensus       128 ~~~~~~~~--~~~~~vR~i~~T------qp~~~~~l~kKkp~i~Ei~v~Gg~i~~k~~~a~~llG~~i~v~dvF~~Ge~V  199 (337)
T PRK04231        128 KLLKLLEE--GKIVDVRVIVHT------QPKLVTGVPKKKPEIMEIRIGGGSVEERLEYAKELLGKEISISDVFKEGQLV  199 (337)
T ss_pred             HHHHHhhc--CCeeEEEEEEEe------chhhccCCCCCCCCEEEEeecCCCHHHHHHHHHHhcCCccchhhhccCCCEE
Confidence            34444443  789999999999      99997 8999999999999999999999999999999999998899999999


Q ss_pred             EEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         97 DCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        97 DViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      ||+|+|||||||||||||||.+.. +++ +...++.|. |++ +|.      ...++||++++
T Consensus       200 DV~gvTKGKGfqGvvKRwg~~~~p~~Hg~~~~~R~~GsiG~~-~P~rV~~~~~maGqmG~~~r  261 (337)
T PRK04231        200 DVIAVTKGKGFQGVVKRWGVKLLPRKHKRRGGSRHIGTLGPW-NPSRVMWTVPQAGQMGFHQR  261 (337)
T ss_pred             EEEEEEeCCccccCeeccCcCCCCCccCCCCCCCCCcccCCC-CCCcccCCCccCCCCCCceE
Confidence            999999999999999999999876 333 223567777 775 555      78899999886

>PF00297 Ribosomal_L3: Ribosomal protein L3; InterPro: IPR000597 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.95  E-value=2.1e-29  Score=216.93  Aligned_cols=129  Identities=29%  Similarity=0.398  Sum_probs=107.9

Q ss_pred             hhhhhcccccccccceeEEEEEeeecccccccchhhhhccCcceEEEEecCCCChhhhhHHHhhhCC--CeeeccccccC
Q psy16477         15 MEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLE--QPIPVGQVFAQ   92 (172)
Q Consensus        15 ~~~~~~~~~~~~k~~~~virvi~hT~~~~g~q~~~lgl~qKK~~l~Eirv~gg~~~~k~e~a~~~lG--k~I~v~dvF~~   92 (172)
                      +...+...+..+++.+..+|+|+||      ++..+++++++++|+||+++++++++++|||.++++  ++|+++|+|.+
T Consensus        75 g~~a~~~~~~~~~~~~~~~~~~~~~------~~~~~~i~~~k~~i~E~~v~~~~~~~~~~~a~~~l~~G~~i~v~dvF~~  148 (263)
T PF00297_consen   75 GYKAVQLGFGEKKEKRVSKRLLGHF------QKAGVPIPKKKPHIMEFRVSGGDVEEKLEYAKELLGVGKEIKVNDVFKE  148 (263)
T ss_dssp             SCHCCEECCCHHCCSTSCCECCEEH------HGGGSSSS-CSSEEEEEECESSSHHHHHHHHHHHCSCSSEBSCCTTSST
T ss_pred             cchhhhhhhhhccccccchhhhhcc------cccccchhhccceeEEecccccChhHhhhhhhhhcCccceeehhheecc
Confidence            3444556666777889999999999      999999999999999999999999999999998887  99999999999


Q ss_pred             CCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchhh
Q psy16477         93 DEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKKD  151 (172)
Q Consensus        93 Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk~  151 (172)
                      ||+|||+|+|||||||||||||||.+.. +++ +. .++.|. |. ++|.      .-.++||++++.
T Consensus       149 Gq~VDV~gvTKGKGFqGv~KR~gf~~~p~sHg~~~-hR~~GsiG~-~~PgrV~~g~kmaGqmG~~~rT  214 (263)
T PF00297_consen  149 GQYVDVIGVTKGKGFQGVMKRWGFKGGPASHGSSK-HRKPGSIGA-WTPGRVFKGKKMAGQMGNHRRT  214 (263)
T ss_dssp             TSEEEEEEEE-EEEEETHHHHCSS--S-SSSSSTT-SSSSS-SSC-SSSSSCGTTSTSSEEESSSEEE
T ss_pred             cceEEEEEeecCccccccccccCCCccCCCCCCcc-cCCCCcccc-cccceeecccccCccccceEEE
Confidence            9999999999999999999999999986 555 32 688888 88 7886      678899988763

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L3 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L3 is known to bind to the 23S rRNA and may participate in the formation of the peptidyltransferase centre of the ribosome. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities includes bacterial, red algal, cyanelle, mammalian, yeast and Arabidopsis thaliana L3 proteins; archaeal Haloarcula marismortui HmaL3 (HL1), and yeast mitochondrial YmL9 [, , , ].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3UZ8_E 2X9U_E 3UZ1_E 3KNM_E 4ABS_E 2WDI_E 3UYG_E 4DHC_E 2J01_E 2Y11_E ....

>COG0087 RplC Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]

Probab=99.88  E-value=2.3e-23  Score=175.90  Aligned_cols=110  Identities=33%  Similarity=0.448  Sum_probs=88.5

Q ss_pred             cceeEEEEEeeecccccccchhhhhccCcceEEEEecCCCChhhhhHHHhhhCCCeeeccccccCCCeEEEEEEeccccc
Q psy16477         28 QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGF  107 (172)
Q Consensus        28 ~~~~virvi~hT~~~~g~q~~~lgl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~dvF~~Ge~VDViGvTKGKGF  107 (172)
                      +.+.++|.+++|      +++  ++.+++++|+|||+++.+..+.+||     |++|.+ |+|++||+|||+|+||||||
T Consensus        56 k~~~~~k~~~g~------~~k--~~~~~k~~l~E~rv~~~~~~~~~e~-----g~ei~~-dvF~~g~~VDV~gvTKGKGF  121 (218)
T COG0087          56 KAKRVNKPLVGH------FAK--AGVKPKRHLAEFRVGGGDVAEKFEV-----GQEITV-DVFKEGELVDVTGVTKGKGF  121 (218)
T ss_pred             eeehhccceeee------ecc--cCCCCCCeEEEEEecCccccceech-----hhhhch-hhccCCCEEEEEEEeccccc
Confidence            336678888888      888  5678999999999988776666765     566666 79999999999999999999


Q ss_pred             ccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchhh
Q psy16477        108 KGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKKD  151 (172)
Q Consensus       108 qGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk~  151 (172)
                      ||+||||||.++. +++ +...+..|. |.=|||.      .-.+.||.++..
T Consensus       122 ~G~~KR~gf~~~p~sHg~~~~hR~~GSiG~~~~P~rV~~g~kmaG~mG~~~vT  174 (218)
T COG0087         122 QGVMKRWGFKGGPASHGSSLSHRRPGSIGQRQTPGRVFKGKKMAGHMGNERVT  174 (218)
T ss_pred             ceeeeecccccCCcccCCCccccCCcccCCCCCCCceeCCCccCccCCCceEE
Confidence            9999999999986 555 335677777 7335666      778889987763

>TIGR03625 L3_bact 50S ribosomal protein L3, bacterial

Probab=99.85  E-value=1.3e-21  Score=163.68  Aligned_cols=112  Identities=25%  Similarity=0.309  Sum_probs=89.5

Q ss_pred             cceeEEEEEeeecccccccchhhhhccC--------------------cceEEEEecCCCChhhhhHHHhhhCCCeeecc
Q psy16477         28 QHITVCLKLAHTEDLYGAHMKLLKKRQK--------------------KAHLMEIQLNGGSVADKIAWARQHLEQPIPVG   87 (172)
Q Consensus        28 ~~~~virvi~hT~~~~g~q~~~lgl~qK--------------------K~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~   87 (172)
                      +.|.|+++.  |.+.+||...+||...+                    +++|.||++...+     ++   .+|++|++ 
T Consensus        28 ~~~~V~q~k--t~e~dGY~AvqvG~~~~~~~~~~Kp~~G~f~Kag~~pkr~l~Efrv~~~~-----~~---~~G~~l~v-   96 (202)
T TIGR03625        28 GPNVVTQVK--TVEKDGYSAVQLGFGEKKEKRVNKPEAGHFAKAGVEPKRHLREFRVDDLE-----GY---EVGDEITV-   96 (202)
T ss_pred             CCcEEEEEe--CCCCCCcEEEEEeccccccccCChhhhhHHHHcCCCcCcEEEEEEcCCcc-----cC---CCCCEEEe-
Confidence            568888875  55688998888766433                    2589999986521     34   59999999 


Q ss_pred             ccccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         88 QVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        88 dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      |+|.+||+|||+|+|||||||||||||||++++ +++ +...+..|. |..|+|.      .-.+.||..+.
T Consensus        97 ~~F~~G~~VDV~g~skGKGFqGvmKR~gf~g~~~sHG~s~~hR~~GSiG~~~~PgrV~kgkkm~G~mG~~~~  168 (202)
T TIGR03625        97 DIFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGPASHGNSKSHRAPGSIGQRQTPGRVFKGKKMAGHMGNERV  168 (202)
T ss_pred             eeecCCCEEEEEEEEcCCcceeceEecccCCCCcccCCCCCCCCCCccCCCCCCCeEcCCCccCCCcCCeeE
Confidence            799999999999999999999999999999987 666 345577888 9998887      56778887764

This model describes bacterial (and mitochondrial and chloroplast) class of ribosomal protein L3. A separate model describes the archaeal form, where both belong to Pfam family pfam00297. The name is phrased to meet the needs of bacterial genome annotation. Organellar forms typically will have transit peptides, N-terminal to the region modeled here.

>PRK00001 rplC 50S ribosomal protein L3; Validated

Probab=99.84  E-value=3.9e-21  Score=161.63  Aligned_cols=110  Identities=26%  Similarity=0.324  Sum_probs=88.6

Q ss_pred             cceeEEEEEeeecccccccchhhhhccC--------------------cceEEEEecCCCChhhhhHHHhhhCCCeeecc
Q psy16477         28 QHITVCLKLAHTEDLYGAHMKLLKKRQK--------------------KAHLMEIQLNGGSVADKIAWARQHLEQPIPVG   87 (172)
Q Consensus        28 ~~~~virvi~hT~~~~g~q~~~lgl~qK--------------------K~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~   87 (172)
                      +.|.|+++.  |.+.+||...++|...+                    +++|.||+.+.       +|   .+|++|++ 
T Consensus        31 ~~~~V~~~k--t~e~dGY~avqvG~~~~~~~~~~Kp~~G~f~kag~~pkr~l~Efr~~~-------~~---~~G~~l~v-   97 (210)
T PRK00001         31 GPNVVTQVK--TVEKDGYNAVQLGFGDKKEKRVNKPEAGHFAKAGVEPKRHLREFRVVE-------EY---EVGQEITV-   97 (210)
T ss_pred             cCcEEEEEe--CCCCCCcEEEEEeccccCcccCCHHHhHHHHHcCCCcceEEEEEccCC-------CC---CCCCEEee-
Confidence            568888876  45588999888876544                    36899999432       24   58999999 


Q ss_pred             ccccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         88 QVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        88 dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      |+|++||+|||+|+|||||||||||||||.++. +++ +...+..|. |..|||.      .-.+.||..+.
T Consensus        98 ~~F~~G~~VDV~g~tKGKGFqGvmKR~gf~g~p~sHG~s~~hR~~GSiG~~~~PgrV~kgkkmaG~mG~~~~  169 (210)
T PRK00001         98 DIFEAGQKVDVTGTSKGKGFAGVIKRHNFSGGPASHGNSRSHRRPGSIGARQTPGRVFKGKKMAGHMGNERV  169 (210)
T ss_pred             hhccCCCEEEEEEEEcCCcceeceEecccCCCCCcCCcCcCCcCCcccCCCCCCCeECCCcccCCCCCCeEE
Confidence            699999999999999999999999999999986 566 445677888 8888887      56778888764

>CHL00143 rpl3 ribosomal protein L3; Validated

Probab=99.83  E-value=6.5e-21  Score=160.00  Aligned_cols=112  Identities=21%  Similarity=0.252  Sum_probs=87.0

Q ss_pred             cceeEEEEEeeecccccccchhhhhccC--------------------cceEEEEecCCCChhhhhHHHhhhCCCeeecc
Q psy16477         28 QHITVCLKLAHTEDLYGAHMKLLKKRQK--------------------KAHLMEIQLNGGSVADKIAWARQHLEQPIPVG   87 (172)
Q Consensus        28 ~~~~virvi~hT~~~~g~q~~~lgl~qK--------------------K~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~   87 (172)
                      +.|.|+++.  |.+.+||...+||...+                    +++|.||++...  +   +|   .+|++|++ 
T Consensus        31 ~~~~V~~~k--t~e~dGY~avqvg~~~~~~k~~~K~~~G~f~ka~v~p~r~l~Efrv~~~--~---~~---~vG~~l~v-   99 (207)
T CHL00143         31 GPCVITQIK--TLTTDGYNAIQIGYKQVSTKKLTKPQLGHLQKSNVPPLKYLKEFRVKSS--E---EF---EVGQPLTV-   99 (207)
T ss_pred             CCeEEEEEe--cCCCCCcEEEEEeeeecccccCChhhcchhHHcCCCcceEEEEEEcCCc--c---cC---CCCCEEEh-
Confidence            568887765  55689999888765422                    367999998652  1   34   59999999 


Q ss_pred             ccccCCCeEEEEEEecccccccceeeccccCcc-cccccccccccC-cCCCChh------hhhcccccchh
Q psy16477         88 QVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KITSIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        88 dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      ++|.+||+|||+|+|||||||||||||||++++ ++++-..+..|. |.-|||.      .-.+.||..+.
T Consensus       100 ~~F~~Gq~VDV~g~sKGKGF~GvmKR~gF~g~pasHGs~~HR~~GSiG~~~~PgRV~kGkKMpG~mG~~~~  170 (207)
T CHL00143        100 DAFSVGQLVNVSGKSIGKGFAGLQKRHNFSRGPMTHGSKNHRAPGSIGAGTTPGRVYPGKKMAGRLGNKKV  170 (207)
T ss_pred             hhccCCCEEEEEEEecCCcceeeeEeeccCCCCCccCCCCCCCCcccCCCCCCCeEcCCCccCCCCCCeeE
Confidence            589999999999999999999999999999986 677435677787 8888887      34566776543

>KOG3141|consensus

Probab=99.55  E-value=2.7e-15  Score=131.60  Aligned_cols=75  Identities=27%  Similarity=0.338  Sum_probs=60.0

Q ss_pred             cceEEEEecCCCChhhhhHHHhhhCCCeeeccccccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-
Q psy16477         56 KAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-  132 (172)
Q Consensus        56 K~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-  132 (172)
                      |.||.||+|..        =|..-.|+.+.+ ++|.+||+|||+|+|+|||||||||||+|.|.. ++| +.+.+..|. 
T Consensus       138 K~~l~eF~Vt~--------~al~~pGt~l~~-~hFk~GqyVDV~g~TigkGFqGvmKR~GFkG~pasHG~sksHR~~GS~  208 (310)
T KOG3141|consen  138 KRHLREFRVTE--------EALLPPGTPLFA-RHFKPGQYVDVTGKTIGKGFQGVMKRHGFKGGPASHGTSKSHRRPGSI  208 (310)
T ss_pred             hhhhheEeech--------hccCCCCcccch-hhcCCCceEEEEeeEeccccccceeeccccCCccccCccccccCCccc
Confidence            36888998762        122247999999 599999999999999999999999999999986 777 456777777 


Q ss_pred             cCCCChh
Q psy16477        133 GRFQTPA  139 (172)
Q Consensus       133 G~fqT~~  139 (172)
                      |.=+|+.
T Consensus       209 G~~~~pg  215 (310)
T KOG3141|consen  209 GQGTTPG  215 (310)
T ss_pred             cCCCCCc
Confidence            6555554

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	172
2zkr_b	403	Structure Of A Mammalian Ribosomal 60s Subunit With		2e-19
2zkr_b	403	Structure Of A Mammalian Ribosomal 60s Subunit With		3e-06
3o58_C	387	Yeast 80s Ribosome. This Entry Consists Of The 60s		6e-14
3o58_C	387	Yeast 80s Ribosome. This Entry Consists Of The 60s		5e-05
1s1i_C	386	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		6e-14
1s1i_C	386	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		5e-05
3izs_C	388	Localization Of The Large Subunit Ribosomal Protein		7e-14
3izs_C	388	Localization Of The Large Subunit Ribosomal Protein		5e-05
3jyw_C	362	Structure Of The 60s Proteins For Eukaryotic Riboso		7e-14
3izr_C	389	Localization Of The Large Subunit Ribosomal Protein		4e-13
4a17_B	391	T.Thermophila 60s Ribosomal Subunit In Complex With		4e-12
3zf7_f	429	High-resolution Cryo-electron Microscopy Structure		6e-07

>pdb|2ZKR|BB Chain b, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 403

Iteration: 1
 Score = 91.7 bits (226), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 44/76 (57%), Positives = 57/76 (75%), Gaps = 6/76 (7%)
Query: 27  RQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV 86
           +++  V   +AHT+      M+LL  RQKKAHLME+Q+NGG+VA+K+ WAR+ LEQ +PV
Sbjct: 154 KKYCQVIRVIAHTQ------MRLLPLRQKKAHLMEVQVNGGTVAEKLDWARERLEQQVPV 207
Query: 87  GQVFAQDEMIDCIGVT 102
            QVF QDEMID IGVT
Sbjct: 208 SQVFGQDEMIDVIGVT 223

>pdb|2ZKR|BB Chain b, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 403

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/31 (70%), Positives = 26/31 (83%)
Query: 127 SAKFGHGRFQTPADKLAFMGYLKKDRIREEE 157
           ++KFGHGRFQT  +K AFMG LKKDRI +EE
Sbjct: 371 TSKFGHGRFQTVEEKKAFMGPLKKDRIAKEE 401

>pdb|3O58|C Chain C, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit Of The First 80s In The Asymmetric Unit. Length = 387

Iteration: 1
 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 31/49 (63%), Positives = 39/49 (79%)
Query: 54  QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
           QKKAHL EIQLNGGS+++K+ WAR+H E+ + V  VF Q+EMID I VT
Sbjct: 173 QKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVT 221

>pdb|3O58|C Chain C, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit Of The First 80s In The Asymmetric Unit. Length = 387

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 19/25 (76%), Positives = 22/25 (88%)
Query: 127 SAKFGHGRFQTPADKLAFMGYLKKD 151
           ++KFG GRFQTPA+K AFMG LKKD
Sbjct: 362 ASKFGKGRFQTPAEKHAFMGTLKKD 386

>pdb|1S1I|C Chain C, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h Length = 386

Iteration: 1
 Score = 73.2 bits (178), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 31/49 (63%), Positives = 39/49 (79%)
Query: 54  QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
           QKKAHL EIQLNGGS+++K+ WAR+H E+ + V  VF Q+EMID I VT
Sbjct: 172 QKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVT 220

>pdb|1S1I|C Chain C, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h Length = 386

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 19/25 (76%), Positives = 22/25 (88%)
Query: 127 SAKFGHGRFQTPADKLAFMGYLKKD 151
           ++KFG GRFQTPA+K AFMG LKKD
Sbjct: 361 ASKFGKGRFQTPAEKHAFMGTLKKD 385

>pdb|3IZS|C Chain C, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 388

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 31/49 (63%), Positives = 39/49 (79%)
Query: 54  QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
           QKKAHL EIQLNGGS+++K+ WAR+H E+ + V  VF Q+EMID I VT
Sbjct: 173 QKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVT 221

>pdb|3IZS|C Chain C, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 388

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 19/25 (76%), Positives = 22/25 (88%)
Query: 127 SAKFGHGRFQTPADKLAFMGYLKKD 151
           ++KFG GRFQTPA+K AFMG LKKD
Sbjct: 362 ASKFGKGRFQTPAEKHAFMGTLKKD 386

>pdb|3JYW|C Chain C, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 362

Iteration: 1
 Score = 73.2 bits (178), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 31/49 (63%), Positives = 39/49 (79%)
Query: 54  QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVT 102
           QKKAHL EIQLNGGS+++K+ WAR+H E+ + V  VF Q+EMID I VT
Sbjct: 169 QKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVT 217

>pdb|3IZR|C Chain C, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 389

Iteration: 1
 Score = 70.9 bits (172), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 37/76 (48%), Positives = 53/76 (69%), Gaps = 5/76 (6%)
Query: 27  RQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV 86
           +++ T+   +AHT+      MK LK  QKKAHLMEIQ+NGG++ADK+ +  +  E+ +PV
Sbjct: 154 KKYATIVRVIAHTQI---RKMKGLK--QKKAHLMEIQVNGGTIADKVDYGYKFFEKEVPV 208
Query: 87  GQVFAQDEMIDCIGVT 102
             VF +DEM+D IGVT
Sbjct: 209 EAVFQKDEMVDIIGVT 224

>pdb|4A17|B Chain B, T.Thermophila 60s Ribosomal Subunit In Complex With Initiation Factor 6. This File Contains 5s Rrna, 5.8s Rrna And Proteins Of Molecule 2. Length = 391

Iteration: 1
 Score = 67.4 bits (163), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 33/75 (44%), Positives = 52/75 (69%), Gaps = 6/75 (8%)
Query: 28  QHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVG 87
           ++ +V   +AHT      +M  L  RQKK H++EIQ+NGG VA+K+A+A+  LE+ + V 
Sbjct: 151 KYCSVVRVIAHT------NMSKLNLRQKKNHILEIQVNGGKVAEKVAFAKSLLEKEVKVD 204
Query: 88  QVFAQDEMIDCIGVT 102
            +FA++EM+D +GVT
Sbjct: 205 SIFAENEMLDVLGVT 219

>pdb|3ZF7|FF Chain f, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 429

Iteration: 1
 Score = 50.1 bits (118), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 28/63 (44%), Positives = 37/63 (58%), Gaps = 5/63 (7%)
Query: 45  AHMKLLKKRQ-----KKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCI 99
           AH +L K R      KKAH+ EIQ+NGG++A KI  A+  LE+ + +  VF Q E  D  
Sbjct: 164 AHTQLRKLRNNRVGVKKAHVSEIQINGGTIAQKIELAKSLLEKEVRIDSVFQQSEACDVC 223
Query: 100 GVT 102
            VT
Sbjct: 224 AVT 226

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	172
3iz5_C	389	60S ribosomal protein L3 (L3P); eukaryotic ribosom	1e-13
3iz5_C	389	60S ribosomal protein L3 (L3P); eukaryotic ribosom	4e-06
2zkr_b	403	60S ribosomal protein L3; protein-RNA complex, 60S	1e-12
2zkr_b	403	60S ribosomal protein L3; protein-RNA complex, 60S	6e-10
3u5e_B	387	60S ribosomal protein L3; translation, ribosome, r	3e-12
3u5e_B	387	60S ribosomal protein L3; translation, ribosome, r	2e-07
1vq8_B	338	50S ribosomal protein L3P; ribosome 50S, protein-p	8e-10
4a17_B	391	RPL3, ribosomal protein L3; eukaryotic ribosome, r	1e-09
4a17_B	391	RPL3, ribosomal protein L3; eukaryotic ribosome, r	6e-09

>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 403

 Score = 63.6 bits (154), Expect = 1e-12
 Identities = 55/111 (49%), Positives = 72/111 (64%), Gaps = 8/111 (7%)

Query: 1   MMKLLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLM 60
             K  KK Q      +++ +  S+    +  V   +AHT+      M+LL  RQKKAHLM
Sbjct: 130 FTKYCKKWQDADGKKQLERDFSSMKK--YCQVIRVIAHTQ------MRLLPLRQKKAHLM 181

Query: 61  EIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFV 111
           E+Q+NGG+VA+K+ WAR+ LEQ +PV QVF QDEMID IGVTKGKG+KG  
Sbjct: 182 EVQVNGGTVAEKLDWARERLEQQVPVSQVFGQDEMIDVIGVTKGKGYKGVT 232

>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 403

 Score = 55.9 bits (134), Expect = 6e-10
 Identities = 22/31 (70%), Positives = 26/31 (83%)

Query: 127 SAKFGHGRFQTPADKLAFMGYLKKDRIREEE 157
           ++KFGHGRFQT  +K AFMG LKKDRI +EE
Sbjct: 371 TSKFGHGRFQTVEEKKAFMGPLKKDRIAKEE 401

>3u5e_B 60S ribosomal protein L3; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3o5h_C 3o58_C 3u5i_B 3izc_C 3izs_C 1s1i_C 3jyw_C Length = 387

 Score = 62.9 bits (152), Expect = 3e-12
 Identities = 36/66 (54%), Positives = 47/66 (71%)

Query: 46  HMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGVTKGK 105
            ++     QKKAHL EIQLNGGS+++K+ WAR+H E+ + V  VF Q+EMID I VTKG 
Sbjct: 165 QIRKTPLAQKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDSVFEQNEMIDAIAVTKGH 224

Query: 106 GFKGFV 111
           GF+G  
Sbjct: 225 GFEGVT 230

>3u5e_B 60S ribosomal protein L3; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3o5h_C 3o58_C 3u5i_B 3izc_C 3izs_C 1s1i_C 3jyw_C Length = 387

 Score = 48.3 bits (114), Expect = 2e-07
 Identities = 19/25 (76%), Positives = 22/25 (88%)

Query: 127 SAKFGHGRFQTPADKLAFMGYLKKD 151
           ++KFG GRFQTPA+K AFMG LKKD
Sbjct: 362 ASKFGKGRFQTPAEKHAFMGTLKKD 386

>1vq8_B 50S ribosomal protein L3P; 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: b.43.3.2 PDB: 1vq4_B* 1vq5_B* 1vq6_B* 1vq7_B* 1s72_B* 1vq9_B* 1vqk_B* 1vql_B* 1vqm_B* 1vqn_B* 1vqo_B* 1vqp_B* 1yhq_B* 1yi2_B* 1yij_B* 1yit_B* 1yj9_B* 1yjn_B* 1yjw_B* 2otj_B* ... Length = 338

 Score = 55.4 bits (133), Expect = 8e-10
 Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 2/66 (3%)

Query: 48  KLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQP--IPVGQVFAQDEMIDCIGVTKGK 105
            +    +KK  +ME ++ GGSV+D++  A   +E      +  +F   E  D  GVTKGK
Sbjct: 151 AVPSVPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGK 210

Query: 106 GFKGFV 111
           G +G V
Sbjct: 211 GTQGPV 216

>4a17_B RPL3, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_B 4a1c_B 4a1e_B Length = 391

 Score = 54.8 bits (131), Expect = 1e-09
 Identities = 35/70 (50%), Positives = 52/70 (74%)

Query: 42  LYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMIDCIGV 101
           +   +M  L  RQKK H++EIQ+NGG VA+K+A+A+  LE+ + V  +FA++EM+D +GV
Sbjct: 159 IAHTNMSKLNLRQKKNHILEIQVNGGKVAEKVAFAKSLLEKEVKVDSIFAENEMLDVLGV 218

Query: 102 TKGKGFKGFV 111
           TKGKGF G +
Sbjct: 219 TKGKGFAGVI 228

>4a17_B RPL3, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_B 4a1c_B 4a1e_B Length = 391

 Score = 53.2 bits (127), Expect = 6e-09
 Identities = 12/32 (37%), Positives = 19/32 (59%)

Query: 127 SAKFGHGRFQTPADKLAFMGYLKKDRIREEEK 158
           S+K GHGRFQT  +K  F G  +  ++  + +
Sbjct: 360 SSKIGHGRFQTVEEKDKFFGRDRTKKVEAKSE 391

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	172
4a17_B	391	RPL3, ribosomal protein L3; eukaryotic ribosome, r	100.0
3u5e_B	387	60S ribosomal protein L3; translation, ribosome, r	100.0
3iz5_C	389	60S ribosomal protein L3 (L3P); eukaryotic ribosom	100.0
2zkr_b	403	60S ribosomal protein L3; protein-RNA complex, 60S	100.0
3j21_C	365	50S ribosomal protein L3P; archaea, archaeal, KINK	100.0
1vq8_B	338	50S ribosomal protein L3P; ribosome 50S, protein-p	99.97
3bbo_F	259	Ribosomal protein L3; large ribosomal subunit, spi	99.88
2zjr_B	211	50S ribosomal protein L3; ribosome, large ribosoma	99.86
2ftc_C	211	L3MT, MRP-L3, mitochondrial 39S ribosomal protein	99.85
3r8s_D	209	50S ribosomal protein L3; protein biosynthesis, RN	99.85
3v2d_E	206	50S ribosomal protein L3; ribosome associated inhi	99.85

>4a17_B RPL3, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_B 4a1c_B 4a1e_B

Probab=100.00  E-value=4.5e-46  Score=332.72  Aligned_cols=97  Identities=40%  Similarity=0.570  Sum_probs=93.6

Q ss_pred             hhhcccccccccceeEEEEEeeecccccccchhhhhccCcceEEEEecCCCChhhhhHHHhhhCCCeeeccccccCCCeE
Q psy16477         17 IQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQDEMI   96 (172)
Q Consensus        17 ~~~~~~~~~~k~~~~virvi~hT~~~~g~q~~~lgl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~dvF~~Ge~V   96 (172)
                      +++++++++|+++|+|||||+||      ||.+++|+||||||||||||||++++++|||+++||++|+|+|+|++||+|
T Consensus       140 ~~~~~~~~~~~k~~~viRvi~hT------qp~l~~l~qKK~~imEiqV~GGsv~~k~~~a~~~lg~~i~v~~vF~~ge~V  213 (391)
T 4a17_B          140 KAQDLLLKRIEKYCSVVRVIAHT------NMSKLNLRQKKNHILEIQVNGGKVAEKVAFAKSLLEKEVKVDSIFAENEML  213 (391)
T ss_dssp             HHHHHHHHHHHHHCSEEEEEEEE------CGGGSCSSCCCCEEEEEEEECSCHHHHHHHHHHHTTCEECHHHHCCTTCEE
T ss_pred             hHHHHHHHHhhhcccEEEEEEec------cccccCcCCCCceEEEEEecCCCHHHHHHHHHhhcCCEEehhHhcCCCCEE
Confidence            67889999999999999999999      999999999999999999999999999999999999999998899999999


Q ss_pred             EEEEEecccccccceeeccccCc
Q psy16477         97 DCIGVTKGKGFKGFVNSSLLFRD  119 (172)
Q Consensus        97 DViGvTKGKGFqGvvKR~~F~r~  119 (172)
                      ||+|+|||||||||||||||.+.
T Consensus       214 DV~gvTKGKGfqGvvKRwg~~~~  236 (391)
T 4a17_B          214 DVLGVTKGKGFAGVIKRFGVKHL  236 (391)
T ss_dssp             EEEEECCCCCEECHHHHHCCCCC
T ss_pred             EEEEEEeCcccceeeeecccCCC
Confidence            99999999999999999998764

>3u5e_B 60S ribosomal protein L3; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3o5h_C 3o58_C 3u5i_B 4b6a_B 3izc_C 3izs_C 1s1i_C 3jyw_C

Probab=100.00  E-value=1.4e-45  Score=329.28  Aligned_cols=105  Identities=39%  Similarity=0.557  Sum_probs=96.8

Q ss_pred             HHHHhhhhhhhcccccccccceeEEEEEeeecccccccchhhhhccCcceEEEEecCCCChhhhhHHHhhhCCCeeeccc
Q psy16477          9 QKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQ   88 (172)
Q Consensus         9 ~~k~~~~~~~~~~~~~~~k~~~~virvi~hT~~~~g~q~~~lgl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~d   88 (172)
                      .||.....+++++++++|+++|++||||+||      ||.+++|+||||||||||||||++++++|||++++|++|+|+|
T Consensus       134 ~kk~~~~~~~~~~~~~~~~k~~~viRvi~hT------qp~l~~l~qKK~~imEiqV~Ggsv~~k~~~a~~~lg~~i~v~~  207 (387)
T 3u5e_B          134 SAKYAQDGAGIERELARIKKYASVVRVLVHT------QIRKTPLAQKKAHLAEIQLNGGSISEKVDWAREHFEKTVAVDS  207 (387)
T ss_dssp             GGGGSSSSHHHHHHHHHHHHSCSEEEEEEEC------CGGGSSCSCCSCCEEEEECCSSCHHHHHHHHHHTTTCEECGGG
T ss_pred             cccccchhHHHHHHHHHhhhcccEEEEEEec------cccccCccccCceeEEEEecCCCHHHHHHHHHhccCCEechHH
Confidence            3343323377899999999999999999999      9999999999999999999999999999999999999999988


Q ss_pred             cccCCCeEEEEEEecccccccceeeccccCc
Q psy16477         89 VFAQDEMIDCIGVTKGKGFKGFVNSSLLFRD  119 (172)
Q Consensus        89 vF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~  119 (172)
                      +|++||+|||+|+|||||||||||||||.+.
T Consensus       208 vF~~ge~VDV~gvTKGKGfqGvvKRwg~~~~  238 (387)
T 3u5e_B          208 VFEQNEMIDAIAVTKGHGFEGVTHRWGTKKL  238 (387)
T ss_dssp             TCCTTCEEEEEEECCCCCEECHHHHHCCCCC
T ss_pred             hccCCCEEEEEEEEcCccceeeeeecccCCC
Confidence            9999999999999999999999999998764

>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=100.00  E-value=1.9e-44  Score=323.53  Aligned_cols=107  Identities=51%  Similarity=0.717  Sum_probs=98.4

Q ss_pred             hhHHHHHHHhhhhhhhcccccccccceeEEEEEeeecccccccchhhhhccCcceEEEEecCCCChhhhhHHHhhhCCCe
Q psy16477          4 LLKKRQKKAHLMEIQLNGGSVADRQHITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQP   83 (172)
Q Consensus         4 ~~~~~~~k~~~~~~~~~~~~~~~k~~~~virvi~hT~~~~g~q~~~lgl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~   83 (172)
                      +.+||++.  .+.++++++|+.|++||++||||+||      ||.+++++||++|||||||+|++++++++||++.+|++
T Consensus       133 ~~kk~~~~--~~~~~i~~~l~~~~k~~~~iRvi~hT------q~~~~~l~qkk~~l~E~~v~g~~~~~k~~~A~~~lg~~  204 (403)
T 2zkr_b          133 YCKKWQDA--DGKKQLERDFSSMKKYCQVIRVIAHT------QMRLLPLRQKKAHLMEVQVNGGTVAEKLDWARERLEQQ  204 (403)
T ss_dssp             CCCCCCCH--HHHHHHHHHHHHHSCCCSSCEEEEEC------CGGGSSCSCCCCCCEEEEBCSSSHHHHHHHHHHHHHSC
T ss_pred             cccccccc--hhhhhHHHHHHHhhccceEEEEEEEe------cccccccccCCCEEEEEEecCcchhhhhhhhhccCCcE
Confidence            33444444  47788999999999999999999999      99999999999999999999999999999999999999


Q ss_pred             eeccccccCCCeEEEEEEecccccccceeeccccC
Q psy16477         84 IPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFR  118 (172)
Q Consensus        84 I~v~dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r  118 (172)
                      |+|+|+|++||+|||+|+|||||||||||||||.+
T Consensus       205 i~v~~vF~~ge~VDV~gvTKGKGfqGvvkRwg~~~  239 (403)
T 2zkr_b          205 VPVSQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKK  239 (403)
T ss_dssp             BCSTTTCCSSCCCCEEEECCEEEEECHHHHHCCCC
T ss_pred             EchhhhccCCceEEEEEeecCCcceeceeecCcCC
Confidence            99988999999999999999999999999999754

>3j21_C 50S ribosomal protein L3P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=5.8e-37  Score=272.14  Aligned_cols=128  Identities=29%  Similarity=0.379  Sum_probs=115.0

Q ss_pred             hhhhhccccccccc--ceeEEEEEeeecccccccchhhhhccCcceEEEEecCCCChhhhhHHHhhhCCCeeeccccccC
Q psy16477         15 MEIQLNGGSVADRQ--HITVCLKLAHTEDLYGAHMKLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQVFAQ   92 (172)
Q Consensus        15 ~~~~~~~~~~~~k~--~~~virvi~hT~~~~g~q~~~lgl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~dvF~~   92 (172)
                      ..++++++|++|++  ||++||||+||      ||.+++| ||||||||||||||++++++|||++.+|++|+++|+|++
T Consensus       143 ~~~~~~~~~~~~~k~~~~~~iRvi~hT------qp~~~~l-qKK~~imEiqV~Ggsv~~k~~~a~~~lG~~i~v~~vF~~  215 (365)
T 3j21_C          143 MFEQKLGQLEDMIKEGEIVDVRAIVAT------QPWVIKL-KKKPEVMEYAIGGTSVEEKFNYIKEKLGKELRVGEVLKE  215 (365)
T ss_dssp             HHHHHHHHHHHHHTCTTEEEEEEEEEE------CCSSCSS-CCSCCEEEEEEECSSHHHHHHHHHHHTTCBCCHHHHCCT
T ss_pred             chhhHHHHHHHhhccCcceEEEEEEec------ccccccc-ccCccEEEEEecCCCHHHHHHHHHhhcCcEEechhccCC
Confidence            44678899999998  99999999999      9998899 999999999999999999999999999999999889999


Q ss_pred             CCeEEEEEEecccccccceeeccccCcc-cccccccccccC-cCCCChh------hhhcccccchhh
Q psy16477         93 DEMIDCIGVTKGKGFKGFVNSSLLFRDS-KITSIISAKFGH-GRFQTPA------DKLAFMGYLKKD  151 (172)
Q Consensus        93 Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~~~tssk~Gh-G~fqT~~------ek~~f~G~~kk~  151 (172)
                      ||+|||+|+|||||||||||||||.+.. ++++ ..++.|. |.+ +|.      ...++||+++..
T Consensus       216 ge~VDV~GvTKGKGFqGvvKRwgf~~~p~~hg~-~hR~~GsiG~~-~P~rV~~g~~maGqmG~~~rT  280 (365)
T 3j21_C          216 GELLDVIAVTKGKGTQGPVKRWGIKLRAHKDSK-GRRKVGSIGPW-HPARVMWTVPMAGQMGFHHRT  280 (365)
T ss_dssp             TCEEEEEEECCCCEEECHHHHHCCCCCSSCCSS-CSSCCCCSCCS-SSCSCCSSSCCCEEESSCEEE
T ss_pred             CCEEEEEEEeeccccccceeeccCCCCCCCCCC-CCCCCcccCCC-CCCcccCCCccCCccCcceeE
Confidence            9999999999999999999999999986 4443 3677777 875 776      778899988753

>1vq8_B 50S ribosomal protein L3P; 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: b.43.3.2 PDB: 1vq4_B* 1vq5_B* 1vq6_B* 1vq7_B* 1s72_B* 1vq9_B* 1vqk_B* 1vql_B* 1vqm_B* 1vqn_B* 1vqo_B* 1vqp_B* 1yhq_B* 1yi2_B* 1yij_B* 1yit_B* 1yj9_B* 1yjn_B* 1yjw_B* 2otj_B* ...

Probab=99.97  E-value=1.1e-31  Score=236.66  Aligned_cols=123  Identities=24%  Similarity=0.357  Sum_probs=106.7

Q ss_pred             cccccccc--ceeEEEEEeeecccccccchhh-hhccCcceEEEEecCCCChhhhhHHHhhhC--CCeeeccccccCCCe
Q psy16477         21 GGSVADRQ--HITVCLKLAHTEDLYGAHMKLL-KKRQKKAHLMEIQLNGGSVADKIAWARQHL--EQPIPVGQVFAQDEM   95 (172)
Q Consensus        21 ~~~~~~k~--~~~virvi~hT~~~~g~q~~~l-gl~qKK~~l~Eirv~gg~~~~k~e~a~~~l--Gk~I~v~dvF~~Ge~   95 (172)
                      ..+.++.+  +|++||+|+||      ||.++ |+++|++||+||+|++++++++++||.++|  |++|+++|+|++||+
T Consensus       127 ~~~~~~~~~~~~~~ir~i~~t------qp~k~agv~~kk~~l~E~rv~~~~~~~k~~~a~~~l~~G~~i~v~~vF~~Gq~  200 (338)
T 1vq8_B          127 EQIRDAHEAGDLGDLRLITHT------VPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEY  200 (338)
T ss_dssp             HHHHHHHHHTCEEEEEEEEEC------CGGGCTTSCCCSCCEEEEEEECSCHHHHHHHHHHHHHHTCEECSTTTCCTTCE
T ss_pred             HHHHhhhcccceeEEEEEEEe------ccccccCCCccCCEEEEEEecCcchhhhhhhhhhccCCCcEEchhhcccCCCc
Confidence            34444444  99999999999      99995 999999999999999999999999999999  999999889999999


Q ss_pred             EEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         96 IDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        96 VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      |||+|+|||||||||||||||.+.. +++ +...++.|. |++ +|.      .-.++||+++.
T Consensus       201 VDV~gvTKGKGFqGv~KRwgf~~~p~sHG~sk~hR~~GsiG~~-~P~RV~~g~kmaGqmG~~~r  263 (338)
T 1vq8_B          201 ADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPW-NPSRVRSTVPQQGQTGYHQR  263 (338)
T ss_dssp             EEEEEECCCCCEECHHHHHCCCCCCGGGGSSSCSSCCSCSCCS-SSSSCCTTSCCCEECSCCEE
T ss_pred             eeeEEEEeCCCceeeeeecCCCCCCcccCCCccCCCCcccCCC-CCCeeccCCcCCCCcCCceE
Confidence            9999999999999999999999986 455 445678888 874 665      55789998876

>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=99.88  E-value=4.1e-24  Score=182.99  Aligned_cols=113  Identities=25%  Similarity=0.359  Sum_probs=75.3

Q ss_pred             ceeEEEEEeeecccccccchhhhhc--------------------cCcceEEEEecCCCChhhhhHHHhhhCCCeeeccc
Q psy16477         29 HITVCLKLAHTEDLYGAHMKLLKKR--------------------QKKAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQ   88 (172)
Q Consensus        29 ~~~virvi~hT~~~~g~q~~~lgl~--------------------qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~d   88 (172)
                      .|.|| +-.+|.+.+||...+++..                    ++++||+||+++.  .+   +|   .+|++|++++
T Consensus        73 p~~Vv-~q~kt~e~dGy~Avqvg~~~~k~k~~tKp~~Ghf~kagv~~kr~l~Efrv~~--~~---~~---~~G~~i~v~~  143 (259)
T 3bbo_F           73 EGNIV-TQIKTEATDGYNAVQVGYRRVRDRKLTKPEMGHLEKSGIIPLRHLQEFRLQS--ID---GF---EVTQKLDFGE  143 (259)
T ss_dssp             ---------------------------CCSSCCHHHHTTCSSCCCCCSSCCCCCCSCC--CC---TT---TTCCCCSSCS
T ss_pred             CCEEE-EEEeecCCCCcEEEEEEEeeechhhCChhhhhhHHHcCCCCCcEEEEEecCC--hh---hc---ccccEeehhh
Confidence            46664 3457888899987776431                    4578999999974  23   35   7999999976


Q ss_pred             cccCCCeEEEEEEecccccccceeeccccCcc-cccccccccccC-cCCCChh------hhhcccccchh
Q psy16477         89 VFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KITSIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        89 vF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      ||++||+|||+|+|||||||||||||||.++. ++++-..++.|. |.+|+|.      .-.+.||..+.
T Consensus       144 vF~~Gq~VDV~G~TKGKGFqGv~KRwgf~g~p~sHGsk~hR~~GSiG~~~~PgRV~kGkkMaGqmG~~~~  213 (259)
T 3bbo_F          144 LFKEGDLVDVSGTTIGKGFQGGIKRHNFKRGQMTHGSKSHRQLGSIGAGTTPGRVYKGKKMPGRMGGTKR  213 (259)
T ss_dssp             SSCSSSCCCCCCBCCCCSSCCSSSSSCCCCCCSSSCSSTTTSCCCCSCSSCCTTTTTTSCCCCCCCCCBC
T ss_pred             eecCCCEEEEEEEecCCcceeeeeecCcCCCCCcCCCCCCCCCcccCCCCCCCcCcCCCccCCCCCCceE
Confidence            79999999999999999999999999999986 565546788888 9999987      44788998875

>2zjr_B 50S ribosomal protein L3; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.43.3.2 PDB: 1nwx_B* 1nwy_B* 1sm1_B* 1xbp_B* 2ogm_B* 2ogn_B* 2ogo_B* 2zjp_B* 2zjq_B 1nkw_B 3cf5_B* 3dll_B* 3pio_B* 3pip_B* 1pnu_B 1pny_B 1vor_E 1vou_E 1vow_E 1voy_E ...

Probab=99.86  E-value=1.3e-22  Score=169.23  Aligned_cols=107  Identities=21%  Similarity=0.234  Sum_probs=83.8

Q ss_pred             cceeEEEEEeeecccccccchh---------------------hhhccCcceEEEEecCCCChhhhhHHHhhhCCCeeec
Q psy16477         28 QHITVCLKLAHTEDLYGAHMKL---------------------LKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQPIPV   86 (172)
Q Consensus        28 ~~~~virvi~hT~~~~g~q~~~---------------------lgl~qKK~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v   86 (172)
                      ..|.|+.+..+..|  ||...+                     .+++ +++||+||++++            .+|++|++
T Consensus        29 ~p~~V~~~kt~~~d--gy~avqvg~~~~~~~~~tkp~~g~~~kagv~-~k~~l~Efrv~~------------~~G~~i~v   93 (211)
T 2zjr_B           29 GPCPIVQRKTAQTD--GYEAVQIGYAPKAERKVNKPMQGHFAKAGVA-PTRILREFRGFA------------PDGDSVNV   93 (211)
T ss_dssp             CCEEEEEEECTTTT--SSCEEEEECSCCCGGGCCHHHHHHHHTTTCC-CCSCEEEETTCC------------CSSEECST
T ss_pred             CCcEEEEEeceecC--CCcEEEEEEEEecccccChhhhhhHHHcCCC-CCcEEEEEEcCC------------cCCCEeEh
Confidence            45777777766544  443222                     2455 579999999875            59999999


Q ss_pred             cccccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         87 GQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        87 ~dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                       |+|++||+|||+|+|||||||||||||||.+++ +++ +...++.|. |.-|+|.      .-.+.||..+.
T Consensus        94 -~~F~~G~~VDV~g~tKGKGFqGv~KR~gf~~~p~sHG~s~~hR~~GsiG~~~~PgRV~kgkkmaG~mG~~~~  165 (211)
T 2zjr_B           94 -DIFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHMGMERV  165 (211)
T ss_dssp             -TTSCTTCEEEEEEECCEEEEECHHHHHCCCCCCSSSSCSSCSCSCCCCCCSSTTCSCCTTCCCCEEEECCEE
T ss_pred             -hhhcCCCceEEEEEEcCCcceeceeecCCCCCCcccCCCCCCCCCcccCCCCCCCcCcCCCccCCCCCCccE
Confidence             799999999999999999999999999999986 565 445678888 8767876      44778888765

>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus}

Probab=99.85  E-value=6.8e-22  Score=165.13  Aligned_cols=111  Identities=14%  Similarity=0.118  Sum_probs=86.5

Q ss_pred             cceeEEEEEeeecc--cccccchhhhhccC--------------------cceEEEEecCCCChhhhhHHHhhhCCCeee
Q psy16477         28 QHITVCLKLAHTED--LYGAHMKLLKKRQK--------------------KAHLMEIQLNGGSVADKIAWARQHLEQPIP   85 (172)
Q Consensus        28 ~~~~virvi~hT~~--~~g~q~~~lgl~qK--------------------K~~l~Eirv~gg~~~~k~e~a~~~lGk~I~   85 (172)
                      ..|.|+++.  |++  .+||...++|...+                    +++|+||++++.+     +|   .+|++|+
T Consensus        30 ~~~~V~q~k--t~e~~~dGY~Avqvg~~~~~~~~~~kp~~Ghf~kagv~pkr~l~Efrv~~~~-----~~---~~G~~l~   99 (211)
T 2ftc_C           30 QDCHVLKYT--SKENCNGKMATLSVGGKTVSRFRKATSILEFYRELGLPPKQTVKIFNITDNA-----AI---KPGTPLY   99 (211)
T ss_pred             cCCEEEEEE--ccccCCCCEEEEEEeeeecccccCChhHhhhHHHcCCCcccEEEEEEeCCCC-----cc---ccCCEEE
Confidence            467777774  444  68887666654222                    4689999997631     34   6999999


Q ss_pred             ccccccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         86 VGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        86 v~dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      + |+|++||+|||+|+|||||||||||||||.+++ +++ +...++.|. |.+ +|.      .-.+.||..+.
T Consensus       100 v-~~F~~Gq~VDV~g~sKGKGFqGv~KR~gf~~~p~sHG~s~~hR~~GSiG~~-~PgRV~kgkkmaG~mG~~~~  171 (211)
T 2ftc_C          100 A-AHFRPGQYVDVTAKTIGKGFQGVMKRWGFKGQPATHGQTKTHRRPGAVATG-DIGRVWPGTKMPGKMGNIYR  171 (211)
T ss_pred             h-HhccCCceEEEEEEEcCCcceeceeecCCCCCCcccCCCCCCCCCcccCCC-CCCeecCCcccCCCCCCeeE
Confidence            9 699999999999999999999999999999986 566 445677888 877 776      44788888765

>3r8s_D 50S ribosomal protein L3; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_B 1p86_B 1vs8_D 1vs6_D 2aw4_D 2awb_D 2gya_B 2gyc_B 1vt2_D 2i2v_D 2j28_D 2i2t_D* 2qao_D* 2qba_D* 2qbc_D* 2qbe_D 2qbg_D 2qbi_D* 2qbk_D* 2qov_D ...

Probab=99.85  E-value=3.8e-22  Score=166.51  Aligned_cols=112  Identities=26%  Similarity=0.293  Sum_probs=87.9

Q ss_pred             cceeEEEEEeeecccccccchhhhhccC--------------------cceEEEEecCCCChhhhhHHHhhhCCCeeecc
Q psy16477         28 QHITVCLKLAHTEDLYGAHMKLLKKRQK--------------------KAHLMEIQLNGGSVADKIAWARQHLEQPIPVG   87 (172)
Q Consensus        28 ~~~~virvi~hT~~~~g~q~~~lgl~qK--------------------K~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~   87 (172)
                      +.|.|+++.  |.+.+||...+||...+                    +++|.||++...  +   +|   .+|++|++ 
T Consensus        30 ~~~~V~q~k--t~e~dGY~Avqvg~g~~~~~~~~Kp~~Ghf~kagv~pkr~l~Efrv~~~--~---~~---~~G~~i~v-   98 (209)
T 3r8s_D           30 EANRVTQVK--DLANDGYRAIQVTTGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEG--E---EF---TVGQSISV-   98 (209)
T ss_dssp             CCEEEEEEE--CHHHHSSCEEEEEESCCCGGGSCHHHHHHHHHHTCCCCSEEEEEECCTT--C---CC---CTTCEECG-
T ss_pred             cCCEEEEEE--ccCCCCeEEEEEEEeecCcccCCHHHhhHHHHcCCCCCeEEEEEecCCc--c---cC---CCCCEEEe-
Confidence            467777764  66789998777655332                    468999998652  1   34   69999999 


Q ss_pred             ccccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         88 QVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        88 dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      |+|++||+|||+|+|||||||||||||||.+.+ +++ +...++.|. |.-|+|.      .-.+.||..+.
T Consensus        99 ~~F~~G~~VDV~g~sKGKGFqGv~KR~gf~~~p~sHG~s~~hR~~GsiG~~~~P~rV~kgkkmaG~mG~~~~  170 (209)
T 3r8s_D           99 ELFADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKGKKMAGQMGNERV  170 (209)
T ss_dssp             GGGGSCCEEEEEEECCCCCEECHHHHHCCCCCCSSTTCCSCSSSCCCCCCBTTBCSCCTTCCCSEECSSSEE
T ss_pred             eeEcCCCEEEEEEEEeccccceeeeEcCCCCCCcccCCCCCCCCCeeCCCCCCCCcCcCCCccCCCCCCccE
Confidence            799999999999999999999999999999986 566 345677777 7766776      56678888764

>3v2d_E 50S ribosomal protein L3; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_C 2hgj_E 2hgq_E 2hgu_E 1vsa_C 2j03_E 2jl6_E 2jl8_E 2v47_E 2v49_E 2wdi_E 2wdj_E 2wdl_E 2wdn_E 2wh2_E 2wh4_E 2wrj_E 2wrl_E 2wro_E 2wrr_E ...

Probab=99.85  E-value=6.4e-22  Score=164.83  Aligned_cols=108  Identities=21%  Similarity=0.231  Sum_probs=86.8

Q ss_pred             cceeEEEEEeeecccccccchhhhhccC--------------------cceEEEEecCCCChhhhhHHHhhhCCCeeecc
Q psy16477         28 QHITVCLKLAHTEDLYGAHMKLLKKRQK--------------------KAHLMEIQLNGGSVADKIAWARQHLEQPIPVG   87 (172)
Q Consensus        28 ~~~~virvi~hT~~~~g~q~~~lgl~qK--------------------K~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~   87 (172)
                      +.|.|+++.  |.+.+||...+||...+                    +++|.||++..            .+|++|++ 
T Consensus        29 ~~~~V~q~k--t~e~dGY~Avqvg~~~~~~~~~~kp~~Ghf~kagv~pkr~l~Efrv~~------------~~G~~i~v-   93 (206)
T 3v2d_E           29 GPCPVVQRR--TPEKDGYTAVQLGFLPQNPKRVNRPLKGHFAKAGVEPVRILREIRDFN------------PEGDTVTV-   93 (206)
T ss_dssp             CCEEEEEEE--CHHHHSSCEEEEEEEECCGGGCCHHHHHHHHTTCCCCEEEEEEEETCC------------CSSSEECG-
T ss_pred             cCCEEEEEE--ccCcCCeEEEEEEeccCCccCCCHHHhhhHHHcCCCcCeEEEEEECCC------------CCCCEEEe-
Confidence            568888765  56688998777665432                    37899999753            59999999 


Q ss_pred             ccccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         88 QVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        88 dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      |+|++||+|||+|+|||||||||||||||.+.+ +++ +...++.|. |.-|+|.      .-.+.||..+.
T Consensus        94 ~~F~~G~~VDV~g~sKGKGFqGv~KR~gf~~~p~tHG~s~~hR~~GsiG~~~~P~rV~kgkkmaG~mG~~~~  165 (206)
T 3v2d_E           94 EIFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGKKMAGHYGAERV  165 (206)
T ss_dssp             GGCCTTCEEEEEEECCCCCEECHHHHSCCCCCCSSTTCCSCTTCCCCCCCBTTBCSCCTTCCCCEECSSSEE
T ss_pred             eeecCCCEEEEEEEEeccccceeeeEcccCCCCcccCCCCCCCCCeeCCCCCCCCcCcCCCccCCCCCCccE
Confidence            799999999999999999999999999999986 566 556777887 7766776      56778888764

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	172
d1vqob1	337	b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon	9e-08

>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 337

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 48.1 bits (114), Expect = 9e-08
 Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 2/66 (3%)

Query: 48  KLLKKRQKKAHLMEIQLNGGSVADKIAWARQHLEQP--IPVGQVFAQDEMIDCIGVTKGK 105
            +    +KK  +ME ++ GGSV+D++  A   +E      +  +F   E  D  GVTKGK
Sbjct: 150 AVPSVPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGK 209

Query: 106 GFKGFV 111
           G +G V
Sbjct: 210 GTQGPV 215

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	172
d1vqob1	337	Ribosomal protein L3 {Archaeon Haloarcula marismor	99.95
d2zjrb1	205	Ribosomal protein L3 {Deinococcus radiodurans [Tax	99.77
d2gycb1	209	Ribosomal protein L3 {Escherichia coli [TaxId: 562	99.77
d2j01e1	205	Ribosomal protein L3 {Thermus thermophilus [TaxId:	99.74

>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.95  E-value=3.2e-29  Score=218.75  Aligned_cols=116  Identities=26%  Similarity=0.387  Sum_probs=102.5

Q ss_pred             cceeEEEEEeeecccccccchhh-hhccCcceEEEEecCCCChhhhhHHHhhhC--CCeeeccccccCCCeEEEEEEecc
Q psy16477         28 QHITVCLKLAHTEDLYGAHMKLL-KKRQKKAHLMEIQLNGGSVADKIAWARQHL--EQPIPVGQVFAQDEMIDCIGVTKG  104 (172)
Q Consensus        28 ~~~~virvi~hT~~~~g~q~~~l-gl~qKK~~l~Eirv~gg~~~~k~e~a~~~l--Gk~I~v~dvF~~Ge~VDViGvTKG  104 (172)
                      .+|.+||+|+||      ||..+ ++++|||||+|++|+|+++.++++|+.+.+  |++|+++|+|++||+|||+|+|||
T Consensus       135 ~~~~~vrvi~~t------qp~~~~~~~~KKp~v~E~~v~Gg~~~e~~~~~~~~~~~G~ei~v~dvF~~G~~VDV~g~TKG  208 (337)
T d1vqob1         135 GDLGDLRLITHT------VPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKG  208 (337)
T ss_dssp             TCEEEEEEEEEC------CGGGCTTSCCCSCCEEEEEEESSCHHHHHHHHHHHHHHTCEECGGGTCCTTCEEEEEEECCC
T ss_pred             cccceEEEEeee------ccccccccccccchheeeeccCCchhhhhhhhhhhhccccEEEeeheecCCCEEEEEEEecc
Confidence            368899999999      99987 799999999999999999999999998876  999999999999999999999999


Q ss_pred             cccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477        105 KGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus       105 KGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      ||||||||||||.++. +++ +...++.|. |.+ ||.      .-.++||..++
T Consensus       209 KGFqGvvKR~gf~~~p~sHg~~~~hR~~GsiG~~-~PgRV~kg~kmaGqmG~~~r  262 (337)
T d1vqob1         209 KGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPW-NPSRVRSTVPQQGQTGYHQR  262 (337)
T ss_dssp             CCEECHHHHHCCCCCCGGGGSSSCSSCCSCSCCS-SSSSCCTTSCCCEECSCCEE
T ss_pred             cccccceEeeeecccccccCCCccccCCcccCCC-CCCceecccccCCccCCccE
Confidence            9999999999999975 555 334677788 774 776      67788888775

>d2zjrb1 b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.77  E-value=1e-19  Score=148.81  Aligned_cols=108  Identities=21%  Similarity=0.238  Sum_probs=79.2

Q ss_pred             cceeEEEEEeeecccccccchhhhhccC--------------------cceEEEEecCCCChhhhhHHHhhhCCCeeecc
Q psy16477         28 QHITVCLKLAHTEDLYGAHMKLLKKRQK--------------------KAHLMEIQLNGGSVADKIAWARQHLEQPIPVG   87 (172)
Q Consensus        28 ~~~~virvi~hT~~~~g~q~~~lgl~qK--------------------K~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~   87 (172)
                      ..|.|+.+.  |.+.+||...+++...+                    ++++.|++...            ..|+++++ 
T Consensus        29 ~p~~V~~~k--t~ekdGY~avqvg~~~~~~k~~~K~~~g~~~k~~~~~~~~~~ef~~~~------------~~g~~~~~-   93 (205)
T d2zjrb1          29 GPCPIVQRK--TAQTDGYEAVQIGYAPKAERKVNKPMQGHFAKAGVAPTRILREFRGFA------------PDGDSVNV-   93 (205)
T ss_dssp             CCEEEEEEE--CTTTTSSCEEEEECSCCCGGGCCHHHHHHHHTTTCCCCSCEEEETTCC------------CSSEECST-
T ss_pred             CCCEEEEEE--eeccCCCeeeeecceeecccccccccccceeccccccceeeeeccccc------------cccceeee-
Confidence            346666665  55588888666654221                    24466665332            35788999 


Q ss_pred             ccccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         88 QVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        88 dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      |+|++||+|||+|+|||||||||||||||++++ +++ +...+..|. |..|+|.      .-.+.||..+.
T Consensus        94 ~~F~~G~~VDV~g~sKGKGFqGv~KR~gf~g~p~sHG~s~~hR~~GsiG~~~~PgRV~kGkkMaG~mG~~~~  165 (205)
T d2zjrb1          94 DIFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGKRMAGHMGMERV  165 (205)
T ss_dssp             TTSCTTCEEEEEEECCEEEEECHHHHHCCCCCCSSSSCSSCSCSCCCCCCSSTTCSCCTTCCCCEEEECCEE
T ss_pred             EeecCCCEEEEEEEeeccccccceEecccccCcccccCCccccccccccccCcCceEecCCccCCcccceEE
Confidence            699999999999999999999999999999986 566 445677787 8777876      34677777654

>d2gycb1 b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Escherichia coli [TaxId: 562]

Probab=99.77  E-value=4.4e-20  Score=150.24  Aligned_cols=111  Identities=26%  Similarity=0.282  Sum_probs=78.2

Q ss_pred             ceeEEEEEeeecccccccchhhhhccC--------------------cceEEEEecCCCChhhhhHHHhhhCCCeeeccc
Q psy16477         29 HITVCLKLAHTEDLYGAHMKLLKKRQK--------------------KAHLMEIQLNGGSVADKIAWARQHLEQPIPVGQ   88 (172)
Q Consensus        29 ~~~virvi~hT~~~~g~q~~~lgl~qK--------------------K~~l~Eirv~gg~~~~k~e~a~~~lGk~I~v~d   88 (172)
                      .|.|+.+..  .+.+||...+++...+                    +.++.|+++...     .++   .+|+++++ |
T Consensus        31 p~~V~~vkt--~~kdgy~a~~~~~~~~~~k~~~K~~~g~~~k~~~~~~~~~~e~~~~~~-----~~~---~~G~~~~~-~   99 (209)
T d2gycb1          31 ANRVTQVKD--LANDGYRAIQVTTGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEG-----EEF---TVGQSISV-E   99 (209)
T ss_dssp             CEECCCEEE--EEEETTEEEEEEEECSSCHHHHHHHHHHTTTTCEEEEECCCSSSCCST-----HHH---HTSEECHH-H
T ss_pred             CCEEEEEEe--eccCCcceeEecccccccccCChhHhcchhhhcccccceeeeecccch-----Hhh---ccCccccc-c
Confidence            465655544  4467777666544322                    235666665542     245   58999999 6


Q ss_pred             cccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccchh
Q psy16477         89 VFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLKK  150 (172)
Q Consensus        89 vF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~kk  150 (172)
                      +|++||+|||+|+|||||||||||||||++++ +++ +...+..|. |.-|||.      .-.++||.+.+
T Consensus       100 ~F~~Gq~VDV~g~TKGKGFqGv~KR~gf~g~~~sHg~~~~~r~~gs~g~~~~PgrV~~g~~maG~mG~~~~  170 (209)
T d2gycb1         100 LFADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKGKKMAGQMGNERV  170 (209)
T ss_dssp             HCCTTCEEEEEEECCCCCSCCSTTTTCCCCCCGGGTSSSCCSCCSCSSSSSSSCCCCSSSCCCCCCCCCEE
T ss_pred             eeecCceEEEEEEEeccccCCceeeeeecccCcccCCcceeccCccccccCcCCeEeeccccCCccCCceE
Confidence            99999999999999999999999999999985 555 333443454 5555665      67788888765

>d2j01e1 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Thermus thermophilus [TaxId: 274]

Probab=99.74  E-value=1e-19  Score=147.31  Aligned_cols=71  Identities=23%  Similarity=0.360  Sum_probs=58.3

Q ss_pred             hCCCeeeccccccCCCeEEEEEEecccccccceeeccccCcc-ccc-ccccccccC-cCCCChh------hhhcccccch
Q psy16477         79 HLEQPIPVGQVFAQDEMIDCIGVTKGKGFKGFVNSSLLFRDS-KIT-SIISAKFGH-GRFQTPA------DKLAFMGYLK  149 (172)
Q Consensus        79 ~lGk~I~v~dvF~~Ge~VDViGvTKGKGFqGvvKR~~F~r~~-~~~-~~tssk~Gh-G~fqT~~------ek~~f~G~~k  149 (172)
                      ..|++|++ |+|.+||+|||+|+|||||||||||||||++++ +++ +...+..|. |..|+|.      .-.+.||..+
T Consensus        86 ~~g~~l~~-~~F~~Gq~VdVtg~TkGKGFqGv~KR~gf~g~p~sHg~s~~hR~~Gs~g~~~~pgrV~~g~km~G~mG~~~  164 (205)
T d2j01e1          86 PEGDTVTV-EIFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKGKKMAGHYGAER  164 (205)
T ss_dssp             CCSSCBCS-TTCCTTCEECCEEECCCCCEECTTTSSCCCCCCSSSSCSSCSSCCCCCCCSTTTCSCCTTCCCSEECSSCE
T ss_pred             cccceeee-eEeeCCceEEEEEEEeccccCcceeecccccCccccCCcccccccccccccCcCceEEeecccCCccCCce
Confidence            45899999 699999999999999999999999999999986 566 344555666 7667775      6678888876


Q ss_pred             h
Q psy16477        150 K  150 (172)
Q Consensus       150 k  150 (172)
                      +
T Consensus       165 ~  165 (205)
T d2j01e1         165 V  165 (205)
T ss_dssp             E
T ss_pred             E
Confidence            5