Psyllid ID: psy5246

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------12
Protein Sequence
MFAKKTTRLLSNNVTGAAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccHHHHHHHcccccccccccccccEEEEEEEEccccEEEEEEEccccEEEEEEcccHHHHHHccccccHHHHHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
cccHHHHHccccccccccccEEEccccHHHHHHHHHccccccEEccccccEEEEEEEEEcccEEEEEEEEccccEEEEEcccHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccEcc
Coil and Loop (DISEMBL)
mfakkttrllsnnvtgaagkcvhnknprnleRLRIarkpqgyhldrlgreYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT
Flexible Loop (DISEMBL)
mfakkttrllsnnvtgaagkcvhnknprnlerlriarkpqgyhldRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT
Low Complexity Region (SEG)
MFAKKTTRLLSNNVTGAAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT
Disordered region (IsUnstruct)
******************GKCVH******LERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETG*****
Disordered Region (DISOPRED)
*******************KCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT
Disordered Region (DISEMBL)
MFAKKTTRLLSNNVTGAAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT
Disordered Region (DISPRO)
MFAKKTTRLLSNNVTGAAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISE**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MFAKKTTRLLSNNVTGAAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT
Positional Conservation
no confident homologs detected

---

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	119	2.2.26 [Sep-21-2011]
Q9H0U6	180	39S ribosomal protein L18	yes	N/A	0.773	0.511	0.543	7e-24
Q3ZBR7	180	39S ribosomal protein L18	yes	N/A	0.773	0.511	0.543	3e-23
Q9CQL5	180	39S ribosomal protein L18	yes	N/A	0.773	0.511	0.543	5e-23
P34378	170	Uncharacterized protein D	yes	N/A	0.773	0.541	0.404	3e-12
A9KJH8	122	50S ribosomal protein L18	yes	N/A	0.470	0.459	0.421	1e-05
C6DG58	117	50S ribosomal protein L18	yes	N/A	0.504	0.512	0.377	3e-05
A1RED0	116	50S ribosomal protein L18	yes	N/A	0.504	0.517	0.316	6e-05
Q0I089	116	50S ribosomal protein L18	yes	N/A	0.504	0.517	0.316	6e-05
Q0HNS1	116	50S ribosomal protein L18	yes	N/A	0.504	0.517	0.316	6e-05
A4YBW7	116	50S ribosomal protein L18	yes	N/A	0.504	0.517	0.316	6e-05

>sp|Q9H0U6|RM18_HUMAN 39S ribosomal protein L18, mitochondrial OS=Homo sapiens GN=MRPL18 PE=1 SV=1

 Score =  108 bits (271), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 50/92 (54%), Positives = 64/92 (69%)

Query: 24  NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
           N+NPRNLE L +ARK +G+      RE+WH L    T+ H+   + H NG VVVSAST E
Sbjct: 50  NRNPRNLELLSVARKERGWRTVFPSREFWHRLRVIRTQHHVEALVEHQNGKVVVSASTRE 109

Query: 84  WALKKHLYNTNDICAYSNLARVLAQRCLETGI 115
           WA+KKHLY+T ++ A  ++ RVLAQRCLE GI
Sbjct: 110 WAIKKHLYSTRNVVACESIGRVLAQRCLEAGI 141

Together with thiosulfate sulfurtransferase (TST), acts as a mitochondrial import factor for the cytosolic 5S rRNA. The precursor form shows RNA chaperone activity; is able to fold the 5S rRNA into an import-competent conformation that is recognized by rhodanese (TST). Both the cytoplasmic and mitochondrial forms are able to bind to the helix IV-loop D in the gamma domain of the 5S rRNA.
Homo sapiens (taxid: 9606)

>sp|Q3ZBR7|RM18_BOVIN 39S ribosomal protein L18, mitochondrial OS=Bos taurus GN=MRPL18 PE=2 SV=1

 Score =  107 bits (266), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 50/92 (54%), Positives = 63/92 (68%)

Query: 24  NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
           N+NPRNLE L +ARK +G+      RE+WH L    ++ HI   + H NG VVVSAST E
Sbjct: 50  NRNPRNLELLAVARKERGWGTVWPSREFWHRLRVIRSQHHIEALVEHRNGQVVVSASTRE 109

Query: 84  WALKKHLYNTNDICAYSNLARVLAQRCLETGI 115
           WA+KKHLY+T  + A  ++ RVLAQRCLE GI
Sbjct: 110 WAIKKHLYSTKSVVACESVGRVLAQRCLEAGI 141

Together with thiosulfate sulfurtransferase (TST), acts as a mitochondrial import factor for the cytosolic 5S rRNA. The precursor form shows RNA chaperone activity; is able to fold the 5S rRNA into an import-competent conformation that is recognized by rhodanese (TST). Both the cytoplasmic and mitochondrial forms are able to bind to the helix IV-loop D in the gamma domain of the 5S rRNA.

Bos taurus (taxid: 9913)

>sp|Q9CQL5|RM18_MOUSE 39S ribosomal protein L18, mitochondrial OS=Mus musculus GN=Mrpl18 PE=2 SV=1

 Score =  106 bits (264), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 50/92 (54%), Positives = 64/92 (69%)

Query: 24  NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
           N+NPRNLE L +ARK +G+      RE+WH L    T+ H+   + H NG VVVSAST E
Sbjct: 50  NRNPRNLELLGVARKERGWATVWPNREFWHRLRVVKTQHHVEAFVEHLNGQVVVSASTRE 109

Query: 84  WALKKHLYNTNDICAYSNLARVLAQRCLETGI 115
           WA+KKHLY+T ++ A  ++ RVLAQRCLE GI
Sbjct: 110 WAIKKHLYSTRNVVACESIGRVLAQRCLEAGI 141

Together with thiosulfate sulfurtransferase (TST), acts as a mitochondrial import factor for the cytosolic 5S rRNA. The precursor form shows RNA chaperone activity; is able to fold the 5S rRNA into an import-competent conformation that is recognized by rhodanese (TST). Both the cytoplasmic and mitochondrial forms are able to bind to the helix IV-loop D in the gamma domain of the 5S rRNA.

Mus musculus (taxid: 10090)

>sp|P34378|YLM4_CAEEL Uncharacterized protein D2007.4 OS=Caenorhabditis elegans GN=D2007.4 PE=4 SV=1

 Score = 70.5 bits (171), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 38/94 (40%), Positives = 51/94 (54%), Gaps = 2/94 (2%)

Query: 24  NKNPRNLERLRIARKPQGYHL--DRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSAST 81
           N+NPRN E +       GY    DR  R Y + +     K H  G++VH    VV+SAST
Sbjct: 11  NRNPRNNELMGRQAPNTGYQFEKDRAARSYIYKVELVEGKSHREGRLVHYQDGVVISAST 70

Query: 82  NEWALKKHLYNTNDICAYSNLARVLAQRCLETGI 115
            E ++   LY+  D  A  N+ RVLA RCL++GI
Sbjct: 71  KEPSIASQLYSKTDTSAALNIGRVLALRCLQSGI 104

Caenorhabditis elegans (taxid: 6239)

>sp|A9KJH8|RL18_CLOPH 50S ribosomal protein L18 OS=Clostridium phytofermentans (strain ATCC 700394 / DSM 18823 / ISDg) GN=rplR PE=3 SV=1

 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/57 (42%), Positives = 36/57 (63%), Gaps = 1/57 (1%)

Query: 63  HITGQIVHNN-GNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           H+  QI+ +  GN +VSAST E  +K  L  TND+ A + L  V+A++ LE GI+ +
Sbjct: 39  HMYAQIIDDTVGNTLVSASTLEKGVKAELEKTNDVAAAAMLGTVIAKKALEKGITTV 95

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Clostridium phytofermentans (strain ATCC 700394 / DSM 18823 / ISDg) (taxid: 357809)

>sp|C6DG58|RL18_PECCP 50S ribosomal protein L18 OS=Pectobacterium carotovorum subsp. carotovorum (strain PC1) GN=rplR PE=3 SV=1

 Score = 47.4 bits (111), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 23/61 (37%), Positives = 40/61 (65%), Gaps = 1/61 (1%)

Query: 60  TKKHITGQIVHNNGN-VVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           T +HI  Q++  NG+ V+V+AST E A+ + L +T +  A S + + +A+R LE GI ++
Sbjct: 31  TPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKSTGNKDAASAIGKAIAERALEKGIKDV 90

Query: 119 T 119
           +
Sbjct: 91  S 91

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Pectobacterium carotovorum subsp. carotovorum (strain PC1) (taxid: 561230)

>sp|A1RED0|RL18_SHESW 50S ribosomal protein L18 OS=Shewanella sp. (strain W3-18-1) GN=rplR PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 37/60 (61%)

Query: 60  TKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           T +HI  Q+++    VV +AST E A+K+ L +T ++ A   + + +A+R +E G++ + 
Sbjct: 31  TPRHIYAQVINPEAQVVAAASTVEKAVKEQLKSTGNVDAAKAVGKFVAERAIEKGVTSVA 90

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Shewanella sp. (strain W3-18-1) (taxid: 351745)

>sp|Q0I089|RL18_SHESR 50S ribosomal protein L18 OS=Shewanella sp. (strain MR-7) GN=rplR PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 37/60 (61%)

Query: 60  TKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           T +HI  Q+++    VV +AST E A+K+ L +T ++ A   + + +A+R +E G++ + 
Sbjct: 31  TPRHIYAQVINPEAQVVAAASTVEKAVKEQLKSTGNVDAAKAVGKFVAERAIEKGVTSVA 90

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Shewanella sp. (strain MR-7) (taxid: 60481)

>sp|Q0HNS1|RL18_SHESM 50S ribosomal protein L18 OS=Shewanella sp. (strain MR-4) GN=rplR PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 37/60 (61%)

Query: 60  TKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           T +HI  Q+++    VV +AST E A+K+ L +T ++ A   + + +A+R +E G++ + 
Sbjct: 31  TPRHIYAQVINPEAQVVAAASTVEKAVKEQLKSTGNVDAAKAVGKFVAERAIEKGVTSVA 90

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Shewanella sp. (strain MR-4) (taxid: 60480)

>sp|A4YBW7|RL18_SHEPC 50S ribosomal protein L18 OS=Shewanella putrefaciens (strain CN-32 / ATCC BAA-453) GN=rplR PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 19/60 (31%), Positives = 37/60 (61%)

Query: 60  TKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           T +HI  Q+++    VV +AST E A+K+ L +T ++ A   + + +A+R +E G++ + 
Sbjct: 31  TPRHIYAQVINPEAQVVAAASTVEKAVKEQLKSTGNVDAAKAVGKFVAERAIEKGVTSVA 90

This is one of the proteins that binds and probably mediates the attachment of the 5S RNA into the large ribosomal subunit, where it forms part of the central protuberance.

Shewanella putrefaciens (strain CN-32 / ATCC BAA-453) (taxid: 319224)

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	119
195429900	183	GK21616 [Drosophila willistoni] gi|19415	0.966	0.628	0.530	2e-29
20129927	186	mitochondrial ribosomal protein L18 [Dro	0.865	0.553	0.563	3e-29
4733885	186	unknown [Drosophila melanogaster]	0.865	0.553	0.563	3e-29
38048461	186	similar to Drosophila melanogaster CG123	0.857	0.548	0.539	1e-28
195485219	186	mRpL18 [Drosophila yakuba] gi|194177101|	0.857	0.548	0.539	1e-28
195029191	186	GH21928 [Drosophila grimshawi] gi|193903	0.848	0.543	0.544	1e-28
195119764	188	GI19636 [Drosophila mojavensis] gi|19390	0.865	0.547	0.553	2e-28
195155173	195	GL16737 [Drosophila persimilis] gi|19845	0.823	0.502	0.571	3e-28
195402547	190	GJ15001 [Drosophila virilis] gi|19414073	0.848	0.531	0.554	3e-28
310769823	172	mitochondrial ribosomal protein L17 [Ant	0.798	0.552	0.568	5e-28

>gi|195429900|ref|XP_002062995.1| GK21616 [Drosophila willistoni] gi|194159080|gb|EDW73981.1| GK21616 [Drosophila willistoni]

 Score =  132 bits (333), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/115 (53%), Positives = 78/115 (67%)

Query: 5   KTTRLLSNNVTGAAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHI 64
           K   L S      AG    N+NPRNLERLRIA KP GYHL++ GR YWHTL   ++ +++
Sbjct: 16  KIKALTSQPSVNEAGNFATNRNPRNLERLRIAYKPVGYHLEKPGRSYWHTLEINSSGRYV 75

Query: 65  TGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           +  + H    V++SAST+EWA+K+ LY TND  AY NL RVLAQRCL  GI+E+T
Sbjct: 76  SADVKHFENGVILSASTSEWAIKQQLYKTNDTAAYVNLGRVLAQRCLRAGITEMT 130

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|20129927|ref|NP_610818.1| mitochondrial ribosomal protein L18 [Drosophila melanogaster] gi|7303403|gb|AAF58460.1| mitochondrial ribosomal protein L18 [Drosophila melanogaster] gi|21430134|gb|AAM50745.1| HL07956p [Drosophila melanogaster] gi|220950076|gb|ACL87581.1| mRpL18-PA [synthetic construct] gi|220959084|gb|ACL92085.1| mRpL18-PA [synthetic construct]

 Score =  132 bits (332), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 58/103 (56%), Positives = 79/103 (76%)

Query: 17  AAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVV 76
           A+ + V N+NPRNLERLRIA KP GYHL++ GR YWHTL   T+ ++++G + H     +
Sbjct: 25  ASTEYVINRNPRNLERLRIAYKPVGYHLEKPGRSYWHTLEINTSGRYVSGDVKHFENGTI 84

Query: 77  VSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           +SAST+EWA+K+ LY TND  A+ NL RVLAQRCL++GI+E+T
Sbjct: 85  LSASTSEWAIKQQLYKTNDTSAFVNLGRVLAQRCLQSGITEMT 127

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|4733885|gb|AAD28638.1| unknown [Drosophila melanogaster]

 Score =  132 bits (332), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 58/103 (56%), Positives = 79/103 (76%)

Query: 17  AAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVV 76
           A+ + V N+NPRNLERLRIA KP GYHL++ GR YWHTL   T+ ++++G + H     +
Sbjct: 25  ASTEYVINRNPRNLERLRIAYKPVGYHLEKPGRSYWHTLEINTSGRYVSGDVKHFENGTI 84

Query: 77  VSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           +SAST+EWA+K+ LY TND  A+ NL RVLAQRCL++GI+E+T
Sbjct: 85  LSASTSEWAIKQQLYKTNDTSAFVNLGRVLAQRCLQSGITEMT 127

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|38048461|gb|AAR10133.1| similar to Drosophila melanogaster CG12373, partial [Drosophila yakuba]

 Score =  130 bits (326), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 55/102 (53%), Positives = 77/102 (75%)

Query: 18  AGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVV 77
           + +CV N+NPRNLERLRIA KP GYHL++ GR YWHTL   ++ ++++  + H     ++
Sbjct: 26  SSECVINRNPRNLERLRIAYKPGGYHLEKPGRSYWHTLEINSSGRYVSADVKHFENGTIL 85

Query: 78  SASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           SAST+EWA+K+ LY TND  A+ NL RVLA RCL++GI+E+T
Sbjct: 86  SASTSEWAIKQQLYKTNDTAAFVNLGRVLAHRCLQSGITEMT 127

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195485219|ref|XP_002091000.1| mRpL18 [Drosophila yakuba] gi|194177101|gb|EDW90712.1| mRpL18 [Drosophila yakuba]

 Score =  130 bits (326), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 55/102 (53%), Positives = 77/102 (75%)

Query: 18  AGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVV 77
           + +CV N+NPRNLERLRIA KP GYHL++ GR YWHTL   ++ ++++  + H     ++
Sbjct: 26  SSECVINRNPRNLERLRIAYKPGGYHLEKPGRSYWHTLEINSSGRYVSADVKHFENGTIL 85

Query: 78  SASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           SAST+EWA+K+ LY TND  A+ NL RVLA RCL++GI+E+T
Sbjct: 86  SASTSEWAIKQQLYKTNDTAAFVNLGRVLAHRCLQSGITEMT 127

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195029191|ref|XP_001987458.1| GH21928 [Drosophila grimshawi] gi|193903458|gb|EDW02325.1| GH21928 [Drosophila grimshawi]

 Score =  130 bits (326), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 55/101 (54%), Positives = 74/101 (73%)

Query: 19  GKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVS 78
             CV N+NPRNLERLRIA KP GYHL++ GR +WHTL    + ++++  + H     ++S
Sbjct: 28  ASCVVNRNPRNLERLRIAYKPSGYHLEKPGRSFWHTLEINISGRYVSADVKHFENGTILS 87

Query: 79  ASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           AST+EWA+K+ LY TND  A+ NL RVLAQRCL+ GI+E+T
Sbjct: 88  ASTSEWAIKQQLYKTNDTSAFVNLGRVLAQRCLQAGITEMT 128

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195119764|ref|XP_002004399.1| GI19636 [Drosophila mojavensis] gi|193909467|gb|EDW08334.1| GI19636 [Drosophila mojavensis]

 Score =  129 bits (324), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 57/103 (55%), Positives = 75/103 (72%)

Query: 17  AAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVV 76
           A G  V N+NPRNLERLRI  KP GYHL++ GR YWHTL   T+ ++++  + H     +
Sbjct: 25  ADGNYVVNRNPRNLERLRIGYKPTGYHLEKPGRSYWHTLEINTSGRYVSADVKHFENGTI 84

Query: 77  VSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           +SAST+EWA+K+ LY TND  A+ NL RVLAQRCL+ GI+E+T
Sbjct: 85  LSASTSEWAIKQQLYKTNDTPAFVNLGRVLAQRCLQAGITEMT 127

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195155173|ref|XP_002018481.1| GL16737 [Drosophila persimilis] gi|198459121|ref|XP_001361264.2| GA11589 [Drosophila pseudoobscura pseudoobscura] gi|194114277|gb|EDW36320.1| GL16737 [Drosophila persimilis] gi|198136580|gb|EAL25842.2| GA11589 [Drosophila pseudoobscura pseudoobscura]

 Score =  129 bits (323), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 56/98 (57%), Positives = 74/98 (75%)

Query: 22  VHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSAST 81
           V N+NPRNLERLRIA KP GYHL++ GR YWHTL   T+ ++++  + H    V++SAST
Sbjct: 30  VVNRNPRNLERLRIAYKPSGYHLEKPGRSYWHTLEINTSGRYVSADVKHYENGVILSAST 89

Query: 82  NEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
            EWA+K+ LY TND  A+ NL RVLA RCL++GI+E+T
Sbjct: 90  AEWAIKQQLYKTNDTSAFVNLGRVLAHRCLQSGITEMT 127

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195402547|ref|XP_002059866.1| GJ15001 [Drosophila virilis] gi|194140732|gb|EDW57203.1| GJ15001 [Drosophila virilis]

 Score =  128 bits (322), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 56/101 (55%), Positives = 74/101 (73%)

Query: 19  GKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVS 78
           G  V N+NPRNLERLRIA KP GYHL++ GR YWHTL   T+ ++++  + H     ++S
Sbjct: 27  GNFVTNRNPRNLERLRIAYKPTGYHLEKPGRSYWHTLEINTSGRYVSADVKHFENGTILS 86

Query: 79  ASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
           AST+EWA+K+ LY T D  A+ NL RVLAQRCL+ GI+E+T
Sbjct: 87  ASTSEWAIKQQLYKTKDTSAFVNLGRVLAQRCLQAGITEMT 127

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|310769823|gb|ADP21469.1| mitochondrial ribosomal protein L17 [Antheraea yamamai]

 Score =  128 bits (321), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 54/95 (56%), Positives = 71/95 (74%)

Query: 24  NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
           N+NPRNLER+RIARKP GYHL + GR++WH L   T+ + +T Q++H     +V A T+E
Sbjct: 26  NRNPRNLERMRIARKPDGYHLGKPGRKFWHKLQLVTSNRTVTAQVIHFMNGPIVQAKTSE 85

Query: 84  WALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           WAL+K LY+  D CAY NL RV AQRCLE+GI+E+
Sbjct: 86  WALRKQLYSIMDTCAYINLGRVFAQRCLESGITEM 120

Source: Antheraea yamamai

Species: Antheraea yamamai

Genus: Antheraea

Family: Saturniidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	119
FB|FBgn0026741	186	mRpL18 "mitochondrial ribosoma	0.865	0.553	0.563	3.4e-29
UNIPROTKB|Q9H0U6	180	MRPL18 "39S ribosomal protein	0.781	0.516	0.537	1.4e-23
UNIPROTKB|J9P2G0	194	MRPL18 "Uncharacterized protei	0.781	0.479	0.526	3.8e-23
UNIPROTKB|F1SB64	180	MRPL18 "Uncharacterized protei	0.781	0.516	0.537	4.8e-23
MGI|MGI:1914931	180	Mrpl18 "mitochondrial ribosoma	0.781	0.516	0.537	6.1e-23
UNIPROTKB|Q3ZBR7	180	MRPL18 "39S ribosomal protein	0.781	0.516	0.537	7.8e-23
RGD|1306387	180	Mrpl18 "mitochondrial ribosoma	0.781	0.516	0.537	7.8e-23
UNIPROTKB|E1BVT7	183	MRPL18 "Uncharacterized protei	0.781	0.508	0.516	3.4e-22
ZFIN|ZDB-GENE-061013-632	191	zgc:153420 "zgc:153420" [Danio	0.798	0.497	0.385	6.2e-14
WB|WBGene00017044	170	mrpl-18 [Caenorhabditis elegan	0.773	0.541	0.404	1.2e-12

FB|FBgn0026741 mRpL18 "mitochondrial ribosomal protein L18" [Drosophila melanogaster (taxid:7227)]

 Score = 324 (119.1 bits), Expect = 3.4e-29, P = 3.4e-29
 Identities = 58/103 (56%), Positives = 79/103 (76%)

Query:    17 AAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVV 76
             A+ + V N+NPRNLERLRIA KP GYHL++ GR YWHTL   T+ ++++G + H     +
Sbjct:    25 ASTEYVINRNPRNLERLRIAYKPVGYHLEKPGRSYWHTLEINTSGRYVSGDVKHFENGTI 84

Query:    77 VSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT 119
             +SAST+EWA+K+ LY TND  A+ NL RVLAQRCL++GI+E+T
Sbjct:    85 LSASTSEWAIKQQLYKTNDTSAFVNLGRVLAQRCLQSGITEMT 127

GO:0005762 "mitochondrial large ribosomal subunit" evidence=ISS

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

GO:0032543 "mitochondrial translation" evidence=IC

UNIPROTKB|Q9H0U6 MRPL18 "39S ribosomal protein L18, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 271 (100.5 bits), Expect = 1.4e-23, P = 1.4e-23
 Identities = 50/93 (53%), Positives = 65/93 (69%)

Query:    24 NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
             N+NPRNLE L +ARK +G+      RE+WH L    T+ H+   + H NG VVVSAST E
Sbjct:    50 NRNPRNLELLSVARKERGWRTVFPSREFWHRLRVIRTQHHVEALVEHQNGKVVVSASTRE 109

Query:    84 WALKKHLYNTNDICAYSNLARVLAQRCLETGIS 116
             WA+KKHLY+T ++ A  ++ RVLAQRCLE GI+
Sbjct:   110 WAIKKHLYSTRNVVACESIGRVLAQRCLEAGIN 142

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

GO:0005761 "mitochondrial ribosome" evidence=NAS

GO:0006412 "translation" evidence=NAS

GO:0008097 "5S rRNA binding" evidence=IDA

GO:0035928 "rRNA import into mitochondrion" evidence=IDA

GO:0005739 "mitochondrion" evidence=IDA

UNIPROTKB|J9P2G0 MRPL18 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 267 (99.0 bits), Expect = 3.8e-23, P = 3.8e-23
 Identities = 49/93 (52%), Positives = 65/93 (69%)

Query:    24 NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
             N+NPRNLE L +ARK +G+      RE+WH L    T+ H+   + H NG VVVSAST E
Sbjct:    64 NRNPRNLELLGVARKERGWGTTWPSREFWHRLRVIKTQHHVEALVEHRNGKVVVSASTRE 123

Query:    84 WALKKHLYNTNDICAYSNLARVLAQRCLETGIS 116
             WA+KKHLY+T ++ A  ++ RVLA+RCLE GI+
Sbjct:   124 WAIKKHLYSTRNVVACESIGRVLAERCLEAGIN 156

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

UNIPROTKB|F1SB64 MRPL18 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 266 (98.7 bits), Expect = 4.8e-23, P = 4.8e-23
 Identities = 50/93 (53%), Positives = 65/93 (69%)

Query:    24 NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
             N+NPRNLE L +ARK +G+      RE+WH L    T+ HI   + H NG VVVSAST E
Sbjct:    50 NRNPRNLELLAVARKERGWGTVWPSREFWHRLRVIRTQHHIEALVEHRNGQVVVSASTRE 109

Query:    84 WALKKHLYNTNDICAYSNLARVLAQRCLETGIS 116
             WA+KKHLY+T ++ A  ++ RVLA+RCLE GI+
Sbjct:   110 WAIKKHLYSTRNVVACESVGRVLAERCLEAGIN 142

GO:0035928 "rRNA import into mitochondrion" evidence=IEA

GO:0008097 "5S rRNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

MGI|MGI:1914931 Mrpl18 "mitochondrial ribosomal protein L18" [Mus musculus (taxid:10090)]

 Score = 265 (98.3 bits), Expect = 6.1e-23, P = 6.1e-23
 Identities = 50/93 (53%), Positives = 65/93 (69%)

Query:    24 NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
             N+NPRNLE L +ARK +G+      RE+WH L    T+ H+   + H NG VVVSAST E
Sbjct:    50 NRNPRNLELLGVARKERGWATVWPNREFWHRLRVVKTQHHVEAFVEHLNGQVVVSASTRE 109

Query:    84 WALKKHLYNTNDICAYSNLARVLAQRCLETGIS 116
             WA+KKHLY+T ++ A  ++ RVLAQRCLE GI+
Sbjct:   110 WAIKKHLYSTRNVVACESIGRVLAQRCLEAGIN 142

GO:0003723 "RNA binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0005840 "ribosome" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0008097 "5S rRNA binding" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0035928 "rRNA import into mitochondrion" evidence=ISO

UNIPROTKB|Q3ZBR7 MRPL18 "39S ribosomal protein L18, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 50/93 (53%), Positives = 64/93 (68%)

Query:    24 NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
             N+NPRNLE L +ARK +G+      RE+WH L    ++ HI   + H NG VVVSAST E
Sbjct:    50 NRNPRNLELLAVARKERGWGTVWPSREFWHRLRVIRSQHHIEALVEHRNGQVVVSASTRE 109

Query:    84 WALKKHLYNTNDICAYSNLARVLAQRCLETGIS 116
             WA+KKHLY+T  + A  ++ RVLAQRCLE GI+
Sbjct:   110 WAIKKHLYSTKSVVACESVGRVLAQRCLEAGIN 142

GO:0008097 "5S rRNA binding" evidence=ISS

GO:0035928 "rRNA import into mitochondrion" evidence=ISS

GO:0005739 "mitochondrion" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

RGD|1306387 Mrpl18 "mitochondrial ribosomal protein L18" [Rattus norvegicus (taxid:10116)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 50/93 (53%), Positives = 65/93 (69%)

Query:    24 NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
             N+NPRNLE L +ARK +G+      RE+WH L    T+ H+   + H NG VVVSAST E
Sbjct:    50 NRNPRNLELLGVARKERGWATVWPNREFWHRLRVVKTQHHVEAFVEHLNGQVVVSASTRE 109

Query:    84 WALKKHLYNTNDICAYSNLARVLAQRCLETGIS 116
             WA+KKHLY+T ++ A  ++ RVLAQRCLE GI+
Sbjct:   110 WAIKKHLYSTRNVVACESVGRVLAQRCLEAGIN 142

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

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0008097 "5S rRNA binding" evidence=IEA;ISO

GO:0035928 "rRNA import into mitochondrion" evidence=IEA;ISO

UNIPROTKB|E1BVT7 MRPL18 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 258 (95.9 bits), Expect = 3.4e-22, P = 3.4e-22
 Identities = 48/93 (51%), Positives = 65/93 (69%)

Query:    24 NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNE 83
             N+NPRNLE+L +ARK +G+      RE+WH L    T+ ++   +  +NGNVV+SAST E
Sbjct:    52 NRNPRNLEQLALARKERGWKTTWPKREFWHRLRLERTQHYVEAFVERSNGNVVLSASTRE 111

Query:    84 WALKKHLYNTNDICAYSNLARVLAQRCLETGIS 116
             WA+KKHLY+   + A  NL RV+AQRCLE GI+
Sbjct:   112 WAIKKHLYSPTGVTACRNLGRVMAQRCLEAGIN 144

GO:0005739 "mitochondrion" evidence=IEA

GO:0008097 "5S rRNA binding" evidence=IEA

GO:0035928 "rRNA import into mitochondrion" evidence=IEA

ZFIN|ZDB-GENE-061013-632 zgc:153420 "zgc:153420" [Danio rerio (taxid:7955)]

 Score = 180 (68.4 bits), Expect = 6.2e-14, P = 6.2e-14
 Identities = 37/96 (38%), Positives = 58/96 (60%)

Query:    24 NKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVH-NNGNVVVSASTN 82
             N+NPRNLE++ +A K +G+      R+Y+H L    T+KH T ++   ++ + V+S ST 
Sbjct:    60 NRNPRNLEQMALAVKDRGWATVWPSRKYYHRLVLRRTQKHTTAEVYSCDSTDPVLSCSTT 119

Query:    83 EWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
             EWALK+ L +   + A   +  VLAQRC   GI+ +
Sbjct:   120 EWALKRQLGSMRSVAACRAVGEVLAQRCCGAGITRL 155

GO:0005840 "ribosome" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

WB|WBGene00017044 mrpl-18 [Caenorhabditis elegans (taxid:6239)]

 Score = 168 (64.2 bits), Expect = 1.2e-12, P = 1.2e-12
 Identities = 38/94 (40%), Positives = 51/94 (54%)

Query:    24 NKNPRNLERLRIARKPQGYHL--DRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSAST 81
             N+NPRN E +       GY    DR  R Y + +     K H  G++VH    VV+SAST
Sbjct:    11 NRNPRNNELMGRQAPNTGYQFEKDRAARSYIYKVELVEGKSHREGRLVHYQDGVVISAST 70

Query:    82 NEWALKKHLYNTNDICAYSNLARVLAQRCLETGI 115
              E ++   LY+  D  A  N+ RVLA RCL++GI
Sbjct:    71 KEPSIASQLYSKTDTSAALNIGRVLALRCLQSGI 104

GO:0040007 "growth" evidence=IMP

GO:0002119 "nematode larval development" evidence=IMP

GO:0040010 "positive regulation of growth rate" evidence=IMP

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

---

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)
Q3ZBR7	RM18_BOVIN	No assigned EC number	0.5434	0.7731	0.5111	yes	N/A
Q9CQL5	RM18_MOUSE	No assigned EC number	0.5434	0.7731	0.5111	yes	N/A
Q9H0U6	RM18_HUMAN	No assigned EC number	0.5434	0.7731	0.5111	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	119
cd00432	103	cd00432, Ribosomal_L18_L5e, Ribosomal L18/L5e: L18	6e-23
CHL00139	109	CHL00139, rpl18, ribosomal protein L18; Validated	0.002
PRK05593	117	PRK05593, rplR, 50S ribosomal protein L18; Reviewe	0.003

>gnl|CDD|238246 cd00432, Ribosomal_L18_L5e, Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit

 Score = 85.3 bits (212), Expect = 6e-23
 Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 1/78 (1%)

Query: 42  YHLDRLGREYWHTLYFTTTKKHITGQIVH-NNGNVVVSASTNEWALKKHLYNTNDICAYS 100
               RLG +    L    + KHI  QI+  +    +VSAST E A+K  L + N++ A  
Sbjct: 1   RRRKRLGTQERPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAY 60

Query: 101 NLARVLAQRCLETGISEI 118
            + R+LA+R LE GI ++
Sbjct: 61  LVGRLLAKRALEKGIKKV 78

L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified. Length = 103

>gnl|CDD|214373 CHL00139, rpl18, ribosomal protein L18; Validated

 Score = 34.6 bits (80), Expect = 0.002
 Identities = 20/58 (34%), Positives = 35/58 (60%), Gaps = 1/58 (1%)

Query: 62  KHITGQIVHN-NGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           KHI  QI+ + NG  +V+ ST E  +K  L +T+   A   + + LA++ L+ GI+++
Sbjct: 25  KHIYAQIIDDTNGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKKGITKV 82

Length = 109

>gnl|CDD|235524 PRK05593, rplR, 50S ribosomal protein L18; Reviewed

 Score = 34.7 bits (81), Expect = 0.003
 Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 4/59 (6%)

Query: 62  KHITGQIVH-NNGNVVVSASTNEWALKKHLYNTN-DICAYSNLARVLAQRCLETGISEI 118
           +HI  Q++    G  + SAST E  ++  L   N +      + +++A+R    GI ++
Sbjct: 34  RHIYAQVIDDVKGKTLASASTLEKDVRAGLKGGNKEAAKK--VGKLIAERAKAKGIKQV 90

Length = 117

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	119
PRK05593	117	rplR 50S ribosomal protein L18; Reviewed	99.96
CHL00139	109	rpl18 ribosomal protein L18; Validated	99.96
TIGR00060	114	L18_bact ribosomal protein L18, bacterial type. Th	99.96
COG0256	125	RplR Ribosomal protein L18 [Translation, ribosomal	99.95
KOG3333|consensus	188		99.94
PF00861	119	Ribosomal_L18p: Ribosomal L18p/L5e family; InterPr	99.93
cd00432	103	Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is	99.91
PTZ00032	211	60S ribosomal protein L18; Provisional	99.9
PRK08569	193	rpl18p 50S ribosomal protein L18P; Reviewed	99.86
PTZ00069	300	60S ribosomal protein L5; Provisional	98.99
PF00411	110	Ribosomal_S11: Ribosomal protein S11; InterPro: IP	97.02
TIGR03632	108	bact_S11 30S ribosomal protein S11. This model des	96.8
PTZ00090	233	40S ribosomal protein S11; Provisional	96.58
CHL00041	116	rps11 ribosomal protein S11	96.49
PRK05309	128	30S ribosomal protein S11; Validated	96.38
KOG0875|consensus	264		94.99
PTZ00129	149	40S ribosomal protein S14; Provisional	94.94
PRK09607	132	rps11p 30S ribosomal protein S11P; Reviewed	94.83
TIGR03628	114	arch_S11P archaeal ribosomal protein S11P. This mo	94.78
COG0100	129	RpsK Ribosomal protein S11 [Translation, ribosomal	91.15
KOG0408|consensus	190		81.29

>PRK05593 rplR 50S ribosomal protein L18; Reviewed

Probab=99.96  E-value=8e-30  Score=183.55  Aligned_cols=89  Identities=22%  Similarity=0.278  Sum_probs=82.2

Q ss_pred             chhHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHH
Q psy5246          27 PRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARV  105 (119)
Q Consensus        27 ~r~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~  105 (119)
                      .+++.|.+|+.|+|+++.|++++   |||+||+||+|||||||||++++ |+||||+|++++..+. ++|++||+.||++
T Consensus         2 ~~~~~r~~r~~r~r~ki~g~~~r---pRL~V~~SnkhiyAQvidd~~~~tl~saST~e~~~k~~~~-~~n~~aa~~vG~~   77 (117)
T PRK05593          2 DKKEARLRRHRRVRKKISGTAER---PRLSVFRSNRHIYAQVIDDVKGKTLASASTLEKDVRAGLK-GGNKEAAKKVGKL   77 (117)
T ss_pred             chHHHHHHHHHHHHHHhcCCCCC---CEEEEEEeCCeEEEEEEECCCCEEEEEEecCcHhHhcccc-CCCHHHHHHHHHH
Confidence            46677889999999999999999   99999999999999999999997 9999999999965544 8999999999999


Q ss_pred             HHHHHHhcCCceeC
Q psy5246         106 LAQRCLETGISEIT  119 (119)
Q Consensus       106 lAera~~~GI~~V~  119 (119)
                      ||++|+++||++|+
T Consensus        78 la~ra~~~gi~~vv   91 (117)
T PRK05593         78 IAERAKAKGIKQVV   91 (117)
T ss_pred             HHHHHHHCCCCEEE
Confidence            99999999999874

>CHL00139 rpl18 ribosomal protein L18; Validated

Probab=99.96  E-value=1.1e-29  Score=180.99  Aligned_cols=81  Identities=25%  Similarity=0.281  Sum_probs=77.2

Q ss_pred             hccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcC
Q psy5246          36 ARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETG  114 (119)
Q Consensus        36 ~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~G  114 (119)
                      +.|+|+++.|++++   |||+||+||+|||||||||.+|+ |+||||+|+++++++.+++|+++|+.||++||+||+++|
T Consensus         2 ~~r~r~ki~g~~~r---pRL~V~rSnkhiyaQvidd~~g~tlasaST~ek~~~~~~~~~~n~~aA~~vG~lla~ra~~~g   78 (109)
T CHL00139          2 RERVRKKIKGTAER---PRLSVFRSNKHIYAQIIDDTNGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKKG   78 (109)
T ss_pred             CeeeeeeecCCCCC---CEEEEEEeCCeEEEEEEECCCCCEEEEEecCchhhhccccCCCCHHHHHHHHHHHHHHHHHCC
Confidence            67899999999999   99999999999999999999997 999999999999988889999999999999999999999


Q ss_pred             CceeC
Q psy5246         115 ISEIT  119 (119)
Q Consensus       115 I~~V~  119 (119)
                      |++|+
T Consensus        79 i~~vv   83 (109)
T CHL00139         79 ITKVV   83 (109)
T ss_pred             CCEEE
Confidence            99874

>TIGR00060 L18_bact ribosomal protein L18, bacterial type

Probab=99.96  E-value=1.9e-29  Score=181.08  Aligned_cols=84  Identities=25%  Similarity=0.318  Sum_probs=77.7

Q ss_pred             hHHHHHHhccccccccccC--CCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHH
Q psy5246          29 NLERLRIARKPQGYHLDRL--GREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARV  105 (119)
Q Consensus        29 ~~~R~rr~~rir~k~~~~~--~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~  105 (119)
                      ++.|++|+.|+|+++.|++  ++   |||+||+||+|||||||||++++ |+||||+|++++    +++|+++|+.||++
T Consensus         2 ~~~r~~r~~r~r~ki~gt~~~~r---pRL~V~rSnk~iyaQiIdd~~~~tlasaST~ek~~~----~~~n~~aA~~vG~~   74 (114)
T TIGR00060         2 KSARIRRHKRIRRKLRETGEANR---PRLVVFRSNRHIYAQVIDDSKSEVLASASTLEKKLK----YTGNKDAAKKVGKL   74 (114)
T ss_pred             cHHHHHHHHHHHHHhcCCCCCCC---cEEEEEEeCCeEEEEEEECCCCEEEEEEecchhhhc----CCCCHHHHHHHHHH
Confidence            3557788999999999998  88   99999999999999999999997 999999999875    57899999999999


Q ss_pred             HHHHHHhcCCceeC
Q psy5246         106 LAQRCLETGISEIT  119 (119)
Q Consensus       106 lAera~~~GI~~V~  119 (119)
                      ||++|+++||++|+
T Consensus        75 la~ra~~~gi~~vv   88 (114)
T TIGR00060        75 VAERLKEKGIKDVV   88 (114)
T ss_pred             HHHHHHHCCCCEEE
Confidence            99999999999874

The archaeal and eukaryotic type rpL18 is not detectable under this model.

>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]

Probab=99.95  E-value=9.2e-28  Score=174.75  Aligned_cols=90  Identities=27%  Similarity=0.278  Sum_probs=82.1

Q ss_pred             chhHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhh--cccCCCCHHHHHHHH
Q psy5246          27 PRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKK--HLYNTNDICAYSNLA  103 (119)
Q Consensus        27 ~r~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~--~l~~~~n~~aA~~vG  103 (119)
                      .|+..+.+++.|+|.++.+++++   |||+||+||+|||||||||..+. |++|||.++++++  +...++|+++|++||
T Consensus         7 ~rr~~~~kr~~r~R~kl~g~~~r---pRL~V~rSnkhi~aQiId~~~~~tla~aSt~~~~l~~~g~~~~~~N~~aA~~vG   83 (125)
T COG0256           7 FRRRRRGKRAYRIRKKLLGTSGR---PRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKYGKKGGGGNTEAAYLVG   83 (125)
T ss_pred             hHHHHHHhHHHHHHHhhccCCCC---cEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHHhhcccCCCCCHHHHHHHH
Confidence            36678889999999999999999   99999999999999999999987 9999999999965  344568999999999


Q ss_pred             HHHHHHHHhcCCceeC
Q psy5246         104 RVLAQRCLETGISEIT  119 (119)
Q Consensus       104 ~~lAera~~~GI~~V~  119 (119)
                      +++|++|+++||++|+
T Consensus        84 ~lia~ra~~kgi~~vV   99 (125)
T COG0256          84 KLIAERALAKGIEEVV   99 (125)
T ss_pred             HHHHHHHHHcCCcEEE
Confidence            9999999999999985

>KOG3333|consensus

Probab=99.94  E-value=5.7e-27  Score=176.83  Aligned_cols=104  Identities=51%  Similarity=0.853  Sum_probs=100.9

Q ss_pred             ccccceeeccCchhHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCC
Q psy5246          16 GAAGKCVHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTND   95 (119)
Q Consensus        16 ~~~~~~~~nrn~r~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n   95 (119)
                      -++.|.|+||||||.|+++++.+.+||....|.|+|||+|.|.++.+|+.+-|.|.++|+++||||.||+|+.+|+++.|
T Consensus        24 ~a~a~~f~NRNPRNlEll~~a~k~~Gy~~ekp~Rsywh~lev~~~~~hveg~v~H~~~gvvvSAST~EwaIk~qLYst~d  103 (188)
T KOG3333|consen   24 EAVAPEFTNRNPRNLELLSVARKERGYRTEKPSRSYWHRLEVIRTQHHVEGLVEHQNGGVVVSASTREWAIKKQLYSTRD  103 (188)
T ss_pred             hhhchhhhcCCcchHHHHhhhccCccceecccchhheeEEEEeecccceeeeeeEecCCEEEEecccchHHHHHHhhccc
Confidence            46889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhcCCceeC
Q psy5246          96 ICAYSNLARVLAQRCLETGISEIT  119 (119)
Q Consensus        96 ~~aA~~vG~~lAera~~~GI~~V~  119 (119)
                      +.||..||++||+||++.||.+++
T Consensus       104 tsA~~niGRVLAqRCLqsGI~fm~  127 (188)
T KOG3333|consen  104 TSACENIGRVLAQRCLQSGINFMV  127 (188)
T ss_pred             hHHHHHHHHHHHHHHHHhCcceec
Confidence            999999999999999999999764

>PF00861 Ribosomal_L18p: Ribosomal L18p/L5e family; InterPro: IPR005484 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.93  E-value=9.8e-26  Score=161.93  Aligned_cols=87  Identities=29%  Similarity=0.264  Sum_probs=77.8

Q ss_pred             hHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcc--cCCCCHHHHHHHHHH
Q psy5246          29 NLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHL--YNTNDICAYSNLARV  105 (119)
Q Consensus        29 ~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l--~~~~n~~aA~~vG~~  105 (119)
                      +..+.+++.+++.+..+++++   |||+||+||+|||||||||..+. |++|||.+++++..+  .+++|+++|+.||++
T Consensus         3 ~~~~~~r~~~~r~~~~~~~~~---~RL~V~~Snk~i~aQii~~~~~~~l~~aSt~~~~l~~~~~~~~~~n~~aa~~vG~l   79 (119)
T PF00861_consen    3 KRRRRRRKLRIRRKIKGTAER---PRLVVFRSNKHIYAQIIDDSKGGTLASASTLSKELKKYGWKGSTKNVEAAYLVGEL   79 (119)
T ss_dssp             CHHHHHHHHHHHHHHHHTTSS---EEEEEEEESSEEEEEEEECTTTEEEEEEEEETTTGGGTT-SSTTSSHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCCCC---CEEEEEeccCeEEEEEEeeCCCCeEEEEEecchhhhhhhhccCCCCEehHHHHHHH
Confidence            445667777778888888888   99999999999999999999997 999999999998754  567899999999999


Q ss_pred             HHHHHHhcCCcee
Q psy5246         106 LAQRCLETGISEI  118 (119)
Q Consensus       106 lAera~~~GI~~V  118 (119)
                      ||++|+++||..|
T Consensus        80 la~ra~~~gi~~v   92 (119)
T PF00861_consen   80 LAKRALEKGIAKV   92 (119)
T ss_dssp             HHHHHHHTTSSEE
T ss_pred             HHHHHHHcCCcEE
Confidence            9999999999876

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes L18 from bacteria and L5 from eukaryotes. The ribosomal 5S RNA is the only known rRNA species to bind a ribosomal protein before its assembly into the ribosomal subunits []. In eukaryotes, the 5S rRNA molecule binds one protein species, a 34kDa protein which has been implicated in the intracellular transport of 5 S rRNA, while in bacteria it binds two or three different protein species []. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_M 4A1C_M 4A1A_M 4A17_M 3IZR_Q 3O58_E 1S1I_E 3IZS_Q 3O5H_E 1KQS_M ....

>cd00432 Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit

Probab=99.91  E-value=5.3e-24  Score=148.62  Aligned_cols=68  Identities=38%  Similarity=0.491  Sum_probs=64.6

Q ss_pred             eeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCceeC
Q psy5246          52 WHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT  119 (119)
Q Consensus        52 ~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V~  119 (119)
                      +|||+|++||+|||||||||.+++ |++|||.|+++++++++++|+++|+.||++||+||+++||++|+
T Consensus        11 ~~RL~v~~Sn~~i~aqvi~~~~~~vl~sast~e~~~~~~~~~~~n~~aA~~vG~~la~r~~~~gi~~vv   79 (103)
T cd00432          11 RPRLVVRKSNKHIYAQIIDDSGDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEKGIKKVV   79 (103)
T ss_pred             CCEEEEEEeCCEEEEEEEEeCcCeEEEEEecCchhhcccccCCCcHHHHHHHHHHHHHHHHHCCCCEEE
Confidence            399999999999999999999886 99999999999998889999999999999999999999999874

L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.

>PTZ00032 60S ribosomal protein L18; Provisional

Probab=99.90  E-value=1.3e-23  Score=163.35  Aligned_cols=67  Identities=22%  Similarity=0.274  Sum_probs=62.9

Q ss_pred             eEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhccc------------CCCCHHHHHHHHHHHHHHHHhcCCceeC
Q psy5246          53 HTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLY------------NTNDICAYSNLARVLAQRCLETGISEIT  119 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~------------~~~n~~aA~~vG~~lAera~~~GI~~V~  119 (119)
                      |||+|||||+|||||||||.+|+ ||||||+++++++.+.            .++|+++|+.||++||++|+++||++|+
T Consensus       106 PRLsV~RSnkHIYAQIIDD~~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~IAerAl~kGI~kVv  185 (211)
T PTZ00032        106 PRLTLKNTNNQMYATIVDDYTRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKLIGRKALSKGISKVR  185 (211)
T ss_pred             ceEEEEecCCeEEEEEEECCCCCEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHHHHHHHHHCCCCEEE
Confidence            99999999999999999999997 9999999999977554            5789999999999999999999999985

>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed

Probab=99.86  E-value=1.7e-21  Score=150.66  Aligned_cols=70  Identities=26%  Similarity=0.301  Sum_probs=65.2

Q ss_pred             CCCcceeEEEEEecCCcEEEEEE--ECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCceeC
Q psy5246          47 LGREYWHTLYFTTTKKHITGQIV--HNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT  119 (119)
Q Consensus        47 ~~r~~~pRL~V~rSnkhiyAQlI--dd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V~  119 (119)
                      .++   |||+|++||+|||||||  ||++++ |+||||+|++.+++..+++|++||+.||.+||+||+++||++|+
T Consensus        30 ~~k---pRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~g~~~~~~N~~AAy~vG~llA~ral~kGi~~vv  102 (193)
T PRK08569         30 SGK---PRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKYGWKGDTGNTPAAYLTGLLAGKKALKAGVEEAV  102 (193)
T ss_pred             cCC---CEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhccccCCCCCHHHHHHHHHHHHHHHHHCCCCEEE
Confidence            456   99999999999999999  888887 99999999999888778899999999999999999999999874

>PTZ00069 60S ribosomal protein L5; Provisional

Probab=98.99  E-value=2.3e-09  Score=87.72  Aligned_cols=61  Identities=25%  Similarity=0.184  Sum_probs=54.7

Q ss_pred             eEEEEEecCCcEEEEEEE-C-CCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhc
Q psy5246          53 HTLYFTTTKKHITGQIVH-N-NGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLET  113 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlId-d-~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~  113 (119)
                      |||+|..||++|.|||+. . ++.+ |++|+|.|+.-.++..+.+|.+||+..|.++|.|++++
T Consensus        49 ~RlVVR~TN~~ii~Qiv~~~~~GD~vl~sA~S~eL~kyG~k~gl~N~~AAY~TGlL~arR~L~k  112 (300)
T PTZ00069         49 YRLVVRITNKDIICQIVYATIVGDKVLAAAYSHELPRFGIPVGLTNYAAAYATGLLLARRLLKK  112 (300)
T ss_pred             ceEEEEEECCcEEEEEEEeecCCCEEEEEeehhhHhhcCcCCCCccHHHHHHHHHHHHHHHHHh
Confidence            999999999999999998 3 3445 99999999876777677899999999999999999998

>PF00411 Ribosomal_S11: Ribosomal protein S11; InterPro: IPR001971 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.02  E-value=0.0037  Score=44.27  Aligned_cols=62  Identities=18%  Similarity=0.232  Sum_probs=53.4

Q ss_pred             EEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          55 LYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        55 L~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      +.|+-|.+++.+.|.|..+.++.+.|+-...+++.  ......||..+++.++++|++.||..|
T Consensus         3 ihI~~s~NNt~vtlTd~~G~~~~~~S~G~~gfK~~--rk~t~~Aa~~~a~~~~~~~~~~gi~~v   64 (110)
T PF00411_consen    3 IHIKSSFNNTIVTLTDLKGNVLFWSSAGSLGFKGA--RKSTPYAAQQAAEKIAKKAKELGIKTV   64 (110)
T ss_dssp             EEEEEESSEEEEEEEETTSEEEEEEETTTSSTTTT--CGSSHHHHHHHHHHHHHHHHCTTEEEE
T ss_pred             EEEEecCCCEEEEEECCCCCEEEEEeccccccccc--cccCHHHHHHHHHHHHHHHHHcCCeEE
Confidence            67899999999999998877888888877777654  356889999999999999999999876

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 S11 [] plays an essential role in selecting the correct tRNA in protein biosynthesis. It is located on the large lobe of the small ribosomal subunit. On the basis of sequence similarities, S11 belongs to a family of bacterial, archaeal and eukaryotic ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2YKR_K 3U5C_O 3O2Z_H 3IZB_K 3U5G_O 3O30_H 1S1H_K 3BBN_K 2XZN_K 2XZM_K ....

>TIGR03632 bact_S11 30S ribosomal protein S11

Probab=96.80  E-value=0.01  Score=42.04  Aligned_cols=62  Identities=21%  Similarity=0.162  Sum_probs=51.9

Q ss_pred             EEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          55 LYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        55 L~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      +.|+-|.+++...|.|..+.+++.+|+-...+++.  .....-||..+++.++++|++.||..|
T Consensus         3 ~hI~~s~NNT~itlTd~~g~~~~~~S~G~~gfkg~--rk~t~~Aa~~~a~~~~~~~~~~gi~~v   64 (108)
T TIGR03632         3 AHIHATFNNTIVTITDPQGNVLSWASAGAVGFKGS--KKSTPYAAQLAAEDAAKKAKEFGMKTV   64 (108)
T ss_pred             EEEEccCCCEEEEEEcCCCCEEEEEecCceeeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEE
Confidence            67899999999999999777777777766666653  356788999999999999999999876

This model describes the bacterial 30S ribosomal protein S11. Cutoffs are set such that the model excludes archaeal and eukaryotic ribosomal proteins, but many chloroplast and mitochondrial equivalents of S11 are detected.

>PTZ00090 40S ribosomal protein S11; Provisional

Probab=96.58  E-value=0.02  Score=45.80  Aligned_cols=64  Identities=20%  Similarity=0.327  Sum_probs=52.6

Q ss_pred             eEEEEEecCCcEEEEEEECCCCe--EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          53 HTLYFTTTKKHITGQIVHNNGNV--VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~~g~--L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      -+|+|.-|-+++.++|.|..+.+  |+-+|+-...+++.  ..+.-=||+.+++.+|+.|++.||.+|
T Consensus       119 f~~vI~aSfNNTIVTlTD~~GNv~tl~WSSAG~~GFKGs--KKsTpfAAQ~aae~aakka~~~GIk~V  184 (233)
T PTZ00090        119 FMLVITTSKNNVHAQVVNKSKNYKTVFGSFAGNVGFRKK--LQQSERCAYRIGENIAKKCRRLGIFAV  184 (233)
T ss_pred             EEEEEEeccCcEEEEEEeCCCCEEEEEEEcccccCcccC--ccCCHHHHHHHHHHHHHHHHHcCCeEE
Confidence            57999999999999999999995  66656555556543  245678999999999999999999876

>CHL00041 rps11 ribosomal protein S11

Probab=96.49  E-value=0.022  Score=40.90  Aligned_cols=64  Identities=11%  Similarity=0.135  Sum_probs=54.1

Q ss_pred             eEEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          53 HTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      =-+.|+-|.+++...|.|..+.+|+.+|.-...+++.  .....-||..+++.+++.|++.||..|
T Consensus        14 gi~hI~~t~NNTiiTlTd~~G~~l~~~S~G~~gfKg~--rK~T~~Aa~~~a~~~~~~~~~~gi~~v   77 (116)
T CHL00041         14 GVIHIQASFNNTIVTVTDVRGRVISWSSAGACGFKGA--RKGTPFAAQTAAENAIRTVIDQGMKRA   77 (116)
T ss_pred             EEEEEEcccCCEEEEEEcCCCCEEEEEecCceeeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEE
Confidence            3789999999999999998876788888776667654  346778999999999999999999876

>PRK05309 30S ribosomal protein S11; Validated

Probab=96.38  E-value=0.033  Score=40.68  Aligned_cols=64  Identities=20%  Similarity=0.180  Sum_probs=53.5

Q ss_pred             eEEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          53 HTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      ..+.|+-|.++....|.|..+.+++.+|.-...+++.  ..+...||..+++.+++.|++.||..|
T Consensus        18 gi~hI~~t~NNTiitlTd~~G~~~~~~S~G~~gfKg~--rK~T~~Aa~~aa~~~~~~~~~~gi~~v   81 (128)
T PRK05309         18 GVAHIHATFNNTIVTITDRQGNVISWASAGGLGFKGS--RKSTPYAAQVAAEDAAKKAKEHGMKTV   81 (128)
T ss_pred             eEEEEEccCCCEEEEEEcCCCCEEEEEecCccEeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEE
Confidence            4899999999999999998777777777665566553  356788999999999999999999876

>KOG0875|consensus

Probab=94.99  E-value=0.031  Score=45.41  Aligned_cols=65  Identities=22%  Similarity=0.133  Sum_probs=52.1

Q ss_pred             eEEEEEecCCcEEEEEEE-CCCC-e-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHh-cCCce
Q psy5246          53 HTLYFTTTKKHITGQIVH-NNGN-V-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLE-TGISE  117 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlId-d~~g-~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~-~GI~~  117 (119)
                      +||.|..+|+.|.+||+- .-+| + +++|.+.|..-.+......|-.||+..|.+||.|+++ .|.++
T Consensus        49 yR~ivr~~n~~iicqi~~~~i~gd~v~~~a~s~elpkyg~~~GLtNyaAay~TglLLarR~l~~~gmD~  117 (264)
T KOG0875|consen   49 YRMIVRVINKDIICQIAYATIEGDVIVRAAYAHELPKYGVKVGLTNYAAAYCTGLLLACRLLKRFGMDK  117 (264)
T ss_pred             eEEEEEEechhhHHHHHhheecceEEEEeeccccccccccccccchhHHHHhhHHHHHHHHHHHhCccc
Confidence            899999999999999998 3344 5 8888888766554444568999999999999999986 55443

>PTZ00129 40S ribosomal protein S14; Provisional

Probab=94.94  E-value=0.19  Score=37.92  Aligned_cols=65  Identities=17%  Similarity=0.148  Sum_probs=51.8

Q ss_pred             eEEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          53 HTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      --+.|+-|-++....|.|..+.+++.+|+-...+++.. ..+.-=||...++.+|++|++.||..|
T Consensus        29 Gi~hI~as~NNTiItiTD~~G~~~~w~SsG~~gfKg~r-~KsTpyAAq~aa~~~a~k~~~~Gi~~v   93 (149)
T PTZ00129         29 GVAHIFASFNDTFIHVTDLSGRETLVRVTGGMKVKADR-DESSPYAAMMAAQDVAARCKELGINAL   93 (149)
T ss_pred             EEEEEEcccCCeEEEEEcccCCEEEEEecCcceecccc-cCCCHHHHHHHHHHHHHHHHHcCCeEE
Confidence            57899999999999999988888777776665665431 123456899999999999999999876

>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed

Probab=94.83  E-value=0.2  Score=37.08  Aligned_cols=64  Identities=14%  Similarity=0.085  Sum_probs=49.8

Q ss_pred             eEEEEEecCCcEEEEEEECCCC-eEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          53 HTLYFTTTKKHITGQIVHNNGN-VVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~~g-~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      --+.|+-|-++....|.|..+. +|+.+|.-...+++.  ..+.-=||...++.++++|++.||..|
T Consensus        10 gi~hI~as~NNTivtvTD~~G~~~~~~~S~G~~g~kg~--kK~TpyAAq~aae~~~~~~~~~Gi~~v   74 (132)
T PRK09607         10 GIAHIYASFNNTIITITDLTGAETIAKSSGGMVVKADR--DESSPYAAMQAAEKAAEDAKEKGITGV   74 (132)
T ss_pred             eEEEEEcccCCeEEEEEcCCCCEEEEEecCcceeeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEE
Confidence            5789999999999999998876 466666554444321  234556899999999999999999876

>TIGR03628 arch_S11P archaeal ribosomal protein S11P

Probab=94.78  E-value=0.22  Score=35.93  Aligned_cols=63  Identities=14%  Similarity=0.092  Sum_probs=48.9

Q ss_pred             EEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          54 TLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        54 RL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      -+.|+-|-++....|.|..+.. |+-+|+-...+++.  ..+.-=||...++.++++|++.||..|
T Consensus         4 i~hI~as~NNTiitvTD~~G~~~~~~~S~G~~g~kg~--kk~TpyAAq~aa~~~~~~~~~~Gi~~v   67 (114)
T TIGR03628         4 IAHIYSSFNNTIITITDITGAETIARSSGGMVVKADR--DESSPYAAMQAAGRAAEKAKERGITGL   67 (114)
T ss_pred             EEEEEccCCCeEEEEEcCCCCEEEEEecCcceEeCCC--ccCCHHHHHHHHHHHHHHHHHcCCcEE
Confidence            4678889999999999888765 77766655544432  234567899999999999999999876

This model describes exclusively the archaeal ribosomal protein S11P. It excludes homologous ribosomal proteins S14 from eukaryotes and S11 from bacteria.

>COG0100 RpsK Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]

Probab=91.15  E-value=1.3  Score=32.80  Aligned_cols=63  Identities=21%  Similarity=0.183  Sum_probs=48.6

Q ss_pred             EEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          54 TLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        54 RL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      -..|+.|-++....+-|..+..+..+|+=...+++.-  .+.--||...++..|+.+++.||..|
T Consensus        20 vahI~asfNNTivtitD~~Gn~i~wassG~~gfk~~r--k~tpyAA~~aa~~aa~~a~e~Gi~~v   82 (129)
T COG0100          20 VAHIHASFNNTIVTITDLTGNVIIWASSGGMGFKGSR--KSTPYAAQLAAEDAAKKAKEHGIKSV   82 (129)
T ss_pred             eEEEEcccCCcEEEecCCCCCEEEEEecCCceEcCCC--CCCHHHHHHHHHHHHHHHHHhCccEE
Confidence            3566677777666666666667889898877776542  46777889999999999999999876

>KOG0408|consensus

Probab=81.29  E-value=10  Score=29.49  Aligned_cols=65  Identities=11%  Similarity=0.152  Sum_probs=50.0

Q ss_pred             eeEEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          52 WHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        52 ~pRL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      +|-+.|.-|-++...||.|..+-++.++|----.+++.  ..+.--||...|-..+.++.+.|+..|
T Consensus        79 iPi~hIraS~NNTivtVtd~kg~vi~~~ScgteGFrnt--rkgT~iAaQtaavaa~~r~v~~G~~~v  143 (190)
T KOG0408|consen   79 IPIIHIRASFNNTIVTVTDVKGEVISWSSCGTEGFRNT--RKGTPIAAQTAAVAAIRRAVDQGMQTV  143 (190)
T ss_pred             cceEEEEecCCCeEEEEEccCCcEEEEeeccccccccc--ccCCchhHHHHHHHHHHHHHHhcceEE
Confidence            48899999999999999988777666655544456653  234566788888889999999998765

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	119
3r8s_O	116	50S ribosomal protein L18; protein biosynthesis, R	9e-08
1vq8_N	187	50S ribosomal protein L18P; ribosome 50S, protein-	6e-06
1ovy_A	120	50S ribosomal protein L18; ribosome; NMR {Geobacil	3e-05
3v2d_S	112	50S ribosomal protein L18; ribosome associated inh	6e-05
3bbo_Q	161	Ribosomal protein L18; large ribosomal subunit, sp	1e-04
2zjr_L	114	50S ribosomal protein L18; ribosome, large ribosom	3e-04

>3r8s_O 50S ribosomal protein L18; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_O 2wwq_O 3oat_O* 3oas_O* 3ofd_O 3ofc_O 3ofr_O* 3ofz_O* 3og0_O 3ofq_O 3r8t_O 3i1n_O 1p85_M 1p86_M 1vs8_O 1vs6_O 2aw4_O 2awb_O 1vt2_O 2i2v_O ... Length = 116

 Score = 46.0 bits (110), Expect = 9e-08
 Identities = 21/60 (35%), Positives = 36/60 (60%), Gaps = 1/60 (1%)

Query: 60  TKKHITGQIV-HNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           T +HI  Q++  N   V+V+AST E A+ + L  T +  A + + + +A+R LE GI ++
Sbjct: 30  TPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAVAERALEKGIKDV 89

>1vq8_N 50S ribosomal protein L18P; 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: c.55.4.1 PDB: 1vq4_N* 1vq5_N* 1vq6_N* 1vq7_N* 1s72_N* 1vq9_N* 1vqk_N* 1vql_N* 1vqm_N* 1vqn_N* 1vqo_N* 1vqp_N* 1yhq_N* 1yi2_N* 1yij_N* 1yit_N* 1yj9_N* 1yjn_N* 1yjw_N* 2otj_N* ... Length = 187

 Score = 42.1 bits (99), Expect = 6e-06
 Identities = 13/62 (20%), Positives = 26/62 (41%), Gaps = 3/62 (4%)

Query: 60  TKKHITGQIVH---NNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGIS 116
           + KH+  Q+V    N  + + SA +++ A       T ++ +      +   R  E G+ 
Sbjct: 40  SNKHVRAQLVTLGPNGDDTLASAHSSDLAEYGWEAPTGNMPSAYLTGLLAGLRAQEAGVE 99

Query: 117 EI 118
           E 
Sbjct: 100 EA 101

>1ovy_A 50S ribosomal protein L18; ribosome; NMR {Geobacillus stearothermophilus} SCOP: c.55.4.1 Length = 120

 Score = 39.5 bits (93), Expect = 3e-05
 Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 3/58 (5%)

Query: 62  KHITGQIVH-NNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           KHI  QI+       +VSAST +        +TN+I A   +  ++A+R LE GI ++
Sbjct: 38  KHIYAQIIDDTKSATIVSASTLDKEFGLD--STNNIEAAKKVGELVAKRALEKGIKQV 93

>3v2d_S 50S ribosomal protein L18; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_M 2hgj_R 2hgq_R 2hgu_R 1vsa_M 2j03_S 2jl6_S 2jl8_S 2v47_S 2v49_S 2wdi_S 2wdj_S 2wdl_S 2wdn_S 2wh2_S 2wh4_S 2wrj_S 2wrl_S 2wro_S 2wrr_S ... Length = 112

 Score = 38.3 bits (90), Expect = 6e-05
 Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 6/58 (10%)

Query: 62  KHITGQIVH-NNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           KHI  QI+    G  +VSAS+    LK      N       + R LA++ L  GI ++
Sbjct: 33  KHIYAQIIDDEKGVTLVSASSLALKLKG-----NKTEVARQVGRALAEKALALGIKQV 85

>3bbo_Q Ribosomal protein L18; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 161

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 16/60 (26%), Positives = 33/60 (55%), Gaps = 3/60 (5%)

Query: 62  KHITGQIVH-NNGNVVVSASTNEWALKKHLY--NTNDICAYSNLARVLAQRCLETGISEI 118
           KH+  Q++  +  + + SAST + ++ + L   ++  I     +  V+A  CLE GI+++
Sbjct: 75  KHLYVQVIDDSKMHTLASASTMQKSISEELDYSSSPTIEVAKKVGEVIASACLEKGITKV 134

>2zjr_L 50S ribosomal protein L18; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.55.4.1 PDB: 1sm1_M* 2zjp_L* 2zjq_L 1nkw_M 3cf5_L* 3dll_L* 3pio_L* 3pip_L* 1nwy_M* 1nwx_M* 1xbp_M* 1pnu_M 1pny_M 1vor_P 1vou_P 1vow_P 1voy_P 1vp0_P Length = 114

 Score = 36.4 bits (85), Expect = 3e-04
 Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 7/58 (12%)

Query: 62  KHITGQIVH-NNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           KHI  QI+  + G  + +AS+      K   + N     + + + LA    E GI ++
Sbjct: 36  KHIYAQIIDDSRGQTLAAASSAA---LK---SGNKTDTAAAVGKALAAAAAEKGIKQV 87

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	119
3bbo_Q	161	Ribosomal protein L18; large ribosomal subunit, sp	100.0
1ovy_A	120	50S ribosomal protein L18; ribosome; NMR {Geobacil	99.97
3r8s_O	116	50S ribosomal protein L18; protein biosynthesis, R	99.97
3v2d_S	112	50S ribosomal protein L18; ribosome associated inh	99.96
2zjr_L	114	50S ribosomal protein L18; ribosome, large ribosom	99.94
1vq8_N	187	50S ribosomal protein L18P; ribosome 50S, protein-	99.87
3j21_O	203	50S ribosomal protein L18P; archaea, archaeal, KIN	99.86
4a17_M	301	RPL5, 60S ribosomal protein L5; eukaryotic ribosom	99.79
3u5e_D	297	60S ribosomal protein L5; translation, ribosome, r	99.79
2zkr_n	297	60S ribosomal protein L5; protein-RNA complex, 60S	99.72
3iz5_Q	304	60S ribosomal protein L5 (L18P); eukaryotic riboso	99.58
2vqe_K	129	30S ribosomal protein S11, 30S ribosomal protein S	96.94
3r8n_K	117	30S ribosomal protein S11; protein biosynthesis, R	96.58
3j20_M	137	30S ribosomal protein S11P; archaea, archaeal, KIN	96.49
3bbn_K	140	Ribosomal protein S11; small ribosomal subunit, sp	96.38
2xzm_K	151	RPS14E; ribosome, translation; 3.93A {Tetrahymena	96.07
3u5c_O	137	RP59A, 40S ribosomal protein S14-A; translation, r	95.08

>3bbo_Q Ribosomal protein L18; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=2.9e-34  Score=215.30  Aligned_cols=99  Identities=20%  Similarity=0.251  Sum_probs=87.9

Q ss_pred             ccceeec-cCchhHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhccc--CC
Q psy5246          18 AGKCVHN-KNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLY--NT   93 (119)
Q Consensus        18 ~~~~~~n-rn~r~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~--~~   93 (119)
                      +.|++.+ .|||+++|++|++|+|+++.|++++   |||+||+||+|||||||||++|+ |+||||+|+++++.++  ++
T Consensus        33 ~~~~~~~~~~~k~~~R~rR~~RiR~ki~gt~~r---PRL~V~rSnkhIyAQvIdd~~g~tLasASTlek~lk~~l~~g~~  109 (161)
T 3bbo_Q           33 SFPIIEAKAKTRREDRTARHVRIRKKVEGTPER---PRLCVFRSNKHLYVQVIDDSKMHTLASASTMQKSISEELDYSSS  109 (161)
T ss_dssp             -------CCCCCCCCGGGTSCCSCSGGGGSSSC---CCCEEEECSSCEEEEEECCTTSCEEEEEEHHHHHHHHCCTTCCS
T ss_pred             ceeeEeeccCchHHHHHHHHHHHHHhhccCCCC---CEEEEEecCCeEEEEEEECCCCEEEEEEeCCcHHHHhhccccCC
Confidence            7778888 9999999999999999999999999   99999999999999999999997 9999999999987665  68


Q ss_pred             CCHHHHHHHHHHHHHHHHhcCCceeC
Q psy5246          94 NDICAYSNLARVLAQRCLETGISEIT  119 (119)
Q Consensus        94 ~n~~aA~~vG~~lAera~~~GI~~V~  119 (119)
                      +|+++|+.||++||+||+++||++|+
T Consensus       110 ~n~~AA~~VG~liAeRA~e~GI~~Vv  135 (161)
T 3bbo_Q          110 PTIEVAKKVGEVIASACLEKGITKVA  135 (161)
T ss_dssp             SSHHHHHHHHHHSSSHHHHTSSCCCC
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCCEEE
Confidence            99999999999999999999999985

>1ovy_A 50S ribosomal protein L18; ribosome; NMR {Geobacillus stearothermophilus} SCOP: c.55.4.1

Probab=99.97  E-value=3.5e-32  Score=195.68  Aligned_cols=93  Identities=29%  Similarity=0.350  Sum_probs=66.4

Q ss_pred             eeccCchhHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHH
Q psy5246          22 VHNKNPRNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYS  100 (119)
Q Consensus        22 ~~nrn~r~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~  100 (119)
                      |.|+..|++.|.+|++|+|+++.|++++   |||+||+||+|||||||||++|+ |+||||+|++++  +.+++|++||+
T Consensus         1 ~~~~~~~~~~r~~r~~R~r~ki~gt~~r---pRL~V~rSnkhIyAQiidd~~~~tl~sAsT~e~~~~--~~~~~n~~AA~   75 (120)
T 1ovy_A            1 MITKVDRNAVRKKRHARIRKKIFGTTER---PRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFG--LDSTNNIEAAK   75 (120)
T ss_dssp             -----------------------CCSSC---CSEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTC--SSCTTSHHHHH
T ss_pred             CcchhhHHHHHHHHHHHHHHHhcCCCCC---CEEEEEEeCCeEEEEEEEcCCCEEEEEEecCchhhC--cCCCCcHHHHH
Confidence            3566667888999999999999999999   99999999999999999999997 999999999986  56789999999


Q ss_pred             HHHHHHHHHHHhcCCceeC
Q psy5246         101 NLARVLAQRCLETGISEIT  119 (119)
Q Consensus       101 ~vG~~lAera~~~GI~~V~  119 (119)
                      .||++||+||+++||++|+
T Consensus        76 ~vG~llA~Ral~~GI~~vv   94 (120)
T 1ovy_A           76 KVGELVAKRALEKGIKQVV   94 (120)
T ss_dssp             HHHHHHHHHHHHHSSSCCC
T ss_pred             HHHHHHHHHHHHCCCCEEE
Confidence            9999999999999999875

>3r8s_O 50S ribosomal protein L18; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 3fik_O 3j19_O 2wwq_O 3oat_O* 3oas_O* 3ofd_O 3ofc_O 3ofr_O* 3ofz_O* 3og0_O 3ofq_O 3r8t_O 3i1n_O 1p85_M 1p86_M 1vs8_O 1vs6_O 2aw4_O 2awb_O 1vt2_O ...

Probab=99.97  E-value=5.1e-32  Score=193.66  Aligned_cols=88  Identities=31%  Similarity=0.446  Sum_probs=83.0

Q ss_pred             hhHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHH
Q psy5246          28 RNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVL  106 (119)
Q Consensus        28 r~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~l  106 (119)
                      |+..|++|+.|+|.++.+ +++   |||+||+||+|||||||||++|+ |+||||+|+++++++.+++|++||+.||++|
T Consensus         2 ~~~~r~~r~~r~R~ki~~-~~r---pRL~V~rSnkhIyAQiidd~~g~tlasAST~e~~~~~~~~~~~n~~AA~~vG~ll   77 (116)
T 3r8s_O            2 KKSARIRRATRARRKLQE-LGA---TRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAV   77 (116)
T ss_dssp             HHHHHHHHHHHHHHHHHT-TTC---CEEEEEECSSCEEEEEECTTSSCEEEECCSSSHHHHTTCSCSSSHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhcc-CCC---CEEEEEEeCCEEEEEEEEcCCCeEEEEEeeCchhhccccCCCCCHHHHHHHHHHH
Confidence            567899999999999999 777   99999999999999999999996 9999999999999888899999999999999


Q ss_pred             HHHHHhcCCceeC
Q psy5246         107 AQRCLETGISEIT  119 (119)
Q Consensus       107 Aera~~~GI~~V~  119 (119)
                      |+||+++||++|+
T Consensus        78 A~Ral~~GI~~vv   90 (116)
T 3r8s_O           78 AERALEKGIKDVS   90 (116)
T ss_dssp             HHHHHTTTCCCCE
T ss_pred             HHHHHHCCCCEEE
Confidence            9999999999874

>3v2d_S 50S ribosomal protein L18; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_M 2hgj_R 2hgq_R 2hgu_R 1vsa_M 2j03_S 2jl6_S 2jl8_S 2v47_S 2v49_S 2wdi_S 2wdj_S 2wdl_S 2wdn_S 2wh2_S 2wh4_S 2wrj_S 2wrl_S 2wro_S 2wrr_S ...

Probab=99.96  E-value=1.1e-30  Score=186.05  Aligned_cols=83  Identities=28%  Similarity=0.274  Sum_probs=77.6

Q ss_pred             hhHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHH
Q psy5246          28 RNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVL  106 (119)
Q Consensus        28 r~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~l  106 (119)
                      |++.|++|+.|+|+++.|++ +   |||+||+||+|||||||||++|+ |+||||+|++++     ++|+++|+.||++|
T Consensus         3 ~~~~r~~r~~r~r~ki~gt~-r---pRL~V~rSnkhiyAQiidd~~~~tlasAsT~e~~~k-----~~n~~AA~~vG~ll   73 (112)
T 3v2d_S            3 RLTAYERRKFRVRNRIKRTG-R---LRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-----GNKTEVARQVGRAL   73 (112)
T ss_dssp             CCCHHHHHHHHHHHHHHHTC-C---CEEEEEECSSCEEEEEEETTTTEEEEEEETTTTTCC-----CCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhcCCC-C---CEEEEEEeCCeEEEEEEecCCCeEEEEEEecchhcc-----CCCHHHHHHHHHHH
Confidence            45678899999999999998 8   99999999999999999999997 999999999874     68999999999999


Q ss_pred             HHHHHhcCCceeC
Q psy5246         107 AQRCLETGISEIT  119 (119)
Q Consensus       107 Aera~~~GI~~V~  119 (119)
                      |+||+++||++|+
T Consensus        74 A~ra~~~GI~~vv   86 (112)
T 3v2d_S           74 AEKALALGIKQVA   86 (112)
T ss_dssp             HHHHHTTTCCBCE
T ss_pred             HHHHHHCCCCEEE
Confidence            9999999999874

>2zjr_L 50S ribosomal protein L18; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: c.55.4.1 PDB: 1sm1_M* 2zjp_L* 2zjq_L 1nkw_M 3cf5_L* 3dll_L* 3pio_L* 3pip_L* 1nwy_M* 1nwx_M* 1xbp_M* 1pnu_M 1pny_M 1vor_P 1vou_P 1vow_P 1voy_P 1vp0_P

Probab=99.94  E-value=2.7e-29  Score=179.32  Aligned_cols=82  Identities=22%  Similarity=0.284  Sum_probs=72.6

Q ss_pred             hHHHHHHhcccccccccc---CCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHH
Q psy5246          29 NLERLRIARKPQGYHLDR---LGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLAR  104 (119)
Q Consensus        29 ~~~R~rr~~rir~k~~~~---~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~  104 (119)
                      ++.|.+|+.|+|+++.|+   +++   |||+||+||+|||||||||++|+ |+||||+|  +    ++++|+++|+.||+
T Consensus         3 ~~~r~~r~~r~r~ki~gt~~~~~r---pRL~V~rSnkhIyAQiidd~~~~tl~sAST~e--l----~~~~n~~AA~~vG~   73 (114)
T 2zjr_L            3 TATTIRRKLRTRRKVRTTTAASGR---LRLSVYRSSKHIYAQIIDDSRGQTLAAASSAA--L----KSGNKTDTAAAVGK   73 (114)
T ss_dssp             -----CHHHHHHHHHHSCSTTTCS---EEECCCTTSSCCCCCEEETTTTEECCCCCSCS--C----CTTCSSSSHHHHHH
T ss_pred             hHHHHHHHHHHHhhhccccCCCCC---CEEEEEEeCCeEEEEEEEcCCCEEEEEEEchH--h----cCCCCHHHHHHHHH
Confidence            457889999999999999   898   99999999999999999999997 99999999  4    35789999999999


Q ss_pred             HHHHHHHhcCCceeC
Q psy5246         105 VLAQRCLETGISEIT  119 (119)
Q Consensus       105 ~lAera~~~GI~~V~  119 (119)
                      +||+||+++||++|+
T Consensus        74 llA~Ral~~GI~~vv   88 (114)
T 2zjr_L           74 ALAAAAAEKGIKQVV   88 (114)
T ss_dssp             HHHHHHHTTCCCCCE
T ss_pred             HHHHHHHHCCCCEEE
Confidence            999999999999874

>1vq8_N 50S ribosomal protein L18P; 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: c.55.4.1 PDB: 1vq4_N* 1vq5_N* 1vq6_N* 1vq7_N* 1s72_N* 1vq9_N* 1vqk_N* 1vql_N* 1vqm_N* 1vqn_N* 1vqo_N* 1vqp_N* 1yhq_N* 1yi2_N* 1yij_N* 1yit_N* 1yj9_N* 1yjn_N* 1yjw_N* 2otj_N* ...

Probab=99.87  E-value=2.7e-22  Score=153.35  Aligned_cols=69  Identities=23%  Similarity=0.292  Sum_probs=62.7

Q ss_pred             CCCcceeEEEEEecCCcEEEEEE--ECCCCe-EEEEEcchHHhhhcc-cCCCCHHHHHHHHHHHHHHHHhcCCceeC
Q psy5246          47 LGREYWHTLYFTTTKKHITGQIV--HNNGNV-VVSASTNEWALKKHL-YNTNDICAYSNLARVLAQRCLETGISEIT  119 (119)
Q Consensus        47 ~~r~~~pRL~V~rSnkhiyAQlI--dd~~g~-L~sAST~e~~ik~~l-~~~~n~~aA~~vG~~lAera~~~GI~~V~  119 (119)
                      +++   |||+||+||+|||||||  ||++|+ |+||||+|++ +..+ .+++|++||+.||++||+||+++||++|+
T Consensus        30 ~~r---pRL~V~rSnkhIyAQII~~dd~~~~tlasAsT~e~~-k~~~k~~~~N~~AA~~vG~llA~Ral~kGI~~vv  102 (187)
T 1vq8_N           30 SGK---PRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLA-EYGWEAPTGNMPSAYLTGLLAGLRAQEAGVEEAV  102 (187)
T ss_dssp             TCS---CEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGG-GGTCCSCSSSHHHHHHHHHHHHHHHHHTTCCBCE
T ss_pred             cCC---CEEEEEEeCCcEEEEEEEecCCCCEEEEEEEccchh-ccccccCCCcHHHHHHHHHHHHHHHHHCCCCEEE
Confidence            567   99999999999999999  999997 9999999998 5444 46799999999999999999999999874

>3j21_O 50S ribosomal protein L18P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=99.86  E-value=4e-23  Score=159.66  Aligned_cols=86  Identities=19%  Similarity=0.182  Sum_probs=69.3

Q ss_pred             hhHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEE--CCCCe-EEEEEcchHHh-hhcccCCCCHHHHHHHH
Q psy5246          28 RNLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVH--NNGNV-VVSASTNEWAL-KKHLYNTNDICAYSNLA  103 (119)
Q Consensus        28 r~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlId--d~~g~-L~sAST~e~~i-k~~l~~~~n~~aA~~vG  103 (119)
                      |.+.+..++.|.|..+.   ++   |||+||+||+||||||||  |++|+ |+||||.|+++ .++..+++|++||+.||
T Consensus        14 Rregkt~y~~R~rl~~~---~k---pRL~V~rSnkhIyAQIId~d~~g~~tLasAST~El~lk~g~~~~~~N~~AA~~vG   87 (203)
T 3j21_O           14 RREGKTNYRKRLKLLKS---GK---PRLVVRKSLNHHIAQIIVYDPKGDRTLVSAHTRELIRDFGWKGHCGNTPSAYLLG   87 (203)
T ss_dssp             HHHTCCCHHHHHHHHTT---CC---CEEEEEECSSCEEEEEEECCTTSCEEEEEECSTTTSSSSSCCSCTTSHHHHHHHH
T ss_pred             HHHHhHHHHHHHHHHhc---CC---CEEEEEEeCCeEEEEEEEecCCCCeEEEEEEccchhhhhcccCCCCcHHHHHHHH
Confidence            33434445555554343   36   999999999999999998  77777 99999999986 34446789999999999


Q ss_pred             HHHHHHHHhcCCceeC
Q psy5246         104 RVLAQRCLETGISEIT  119 (119)
Q Consensus       104 ~~lAera~~~GI~~V~  119 (119)
                      ++||+||+++||++|+
T Consensus        88 ~llA~Ral~kGI~~vv  103 (203)
T 3j21_O           88 LLIGYKAKQAGIEEAI  103 (203)
T ss_dssp             HHSSSSTTSSCCCCCE
T ss_pred             HHHHHHHHhCCCCEEE
Confidence            9999999999999874

>4a17_M RPL5, 60S ribosomal protein L5; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_M 4a1c_M 4a1e_M

Probab=99.79  E-value=2.4e-19  Score=144.93  Aligned_cols=66  Identities=21%  Similarity=0.162  Sum_probs=59.3

Q ss_pred             eEEEEEecCCcEEEEEEEC--CCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhc--------CCcee
Q psy5246          53 HTLYFTTTKKHITGQIVHN--NGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLET--------GISEI  118 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd--~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~--------GI~~V  118 (119)
                      |||+||+||+|||||||||  ++++ ||||||+|++..++..+++|++||+.||.+||+||+++        |+++|
T Consensus        49 pRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~~~g~k~~~~N~~AAy~vG~LiAeRAl~k~~~d~~y~G~~e~  125 (301)
T 4a17_M           49 YRLVARATNTRIIAQIVYATLKCDRVLCAADSYELKRFGVSTGLASYAAAYATGLLLARRLLKQIGLDTVYAGQTKV  125 (301)
T ss_dssp             EEEEEEECSSCEEEEEEEECSSCEEEEEEEETTHHHHTTCCSCTTSHHHHHHHHHHHHHHHHHHHTCTTTCCCCSSC
T ss_pred             ceEEEEEcCCeEEEEEeecCCCCCEEEEEEeeccchhccccCCCCcHHHHHHHHHHHHHHHHHhcCCcccccCcccc
Confidence            9999999999999999998  4556 99999999987665456889999999999999999999        88864

>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3u5i_D 4b6a_D 3izc_Q 3izs_Q 3o58_E 3o5h_E 3jyw_E 1s1i_E

Probab=99.79  E-value=5.3e-19  Score=142.74  Aligned_cols=66  Identities=24%  Similarity=0.298  Sum_probs=59.2

Q ss_pred             eEEEEEecCCcEEEEEEEC--CCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhc--------CCcee
Q psy5246          53 HTLYFTTTKKHITGQIVHN--NGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLET--------GISEI  118 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd--~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~--------GI~~V  118 (119)
                      |||+||+||+|||||||||  ++++ ||||||+|++..++...++|++||+.||.+||+||+++        |+++|
T Consensus        49 pRLvV~rSNrhIyAQIIdd~~~Gd~tLaSASS~El~k~g~k~~~~N~~AAy~vG~LiAeRAl~k~~ld~~y~G~~e~  125 (297)
T 3u5e_D           49 YRLVVRFTNKDIICQIISSTITGDVVLAAAYSHELPRYGITHGLTNWAAAYATGLLIARRTLQKLGLDETYKGVEEV  125 (297)
T ss_dssp             CEEEEEEETTEEEEEEEECCTTCCEEEEEEEGGGGGGGTCCSCTTSHHHHHHHHHHHHHHHHHHTSTTSSCCCCSSC
T ss_pred             ceEEEEEcCCeEEEEEeecCCCCCEEEEEEeecchhhcccCCCCCcHHHHHHHHHHHHHHHHHhhCCcccccCcccc
Confidence            9999999999999999998  5666 99999999986654446789999999999999999999        88774

>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=99.72  E-value=1.6e-17  Score=134.02  Aligned_cols=61  Identities=20%  Similarity=0.175  Sum_probs=54.1

Q ss_pred             eEEEEEecCCcEEEEEEECC--CCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhc
Q psy5246          53 HTLYFTTTKKHITGQIVHNN--GNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLET  113 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~--~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~  113 (119)
                      |||+|++||+|||||||||.  +++ ||||||.|+.-.++..+++|.+||+.+|.+||+||+++
T Consensus        49 pRLvVrrSNk~I~aQII~~~~~gd~tLasAsS~El~kyg~k~g~tN~aAAy~tGlLlArRal~k  112 (297)
T 2zkr_n           49 YRMIVRVTNRDIICQIAYARIEGDMIVCARYAHELPKYGVKVGLTNYAAAYCTGLLLARRLLNR  112 (297)
T ss_dssp             EEEEEEEETTEEEEEEEECCSSSCEEEEEEEGGGGGGTCCCSCSSSHHHHHHHHHHHHHHHHCC
T ss_pred             ceEEEEEecCcEEEEEEeccCCCCEEEEEeecCcccccccccCCCcHHHHHHHHHHHHHHHHHh
Confidence            99999999999999999977  887 99999999882223235789999999999999999998

>2vqe_K 30S ribosomal protein S11, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: c.55.4.1 PDB: 1gix_N* 1hnw_K* 1hnx_K* 1hnz_K* 1hr0_K 1ibk_K* 1ibl_K* 1ibm_K 1j5e_K 1jgo_N* 1jgp_N* 1jgq_N* 1ml5_N* 1n32_K* 1n33_K* 1n34_K 1n36_K 1xmo_K* 1xmq_K* 1xnq_K* ...

Probab=96.94  E-value=0.0031  Score=45.18  Aligned_cols=64  Identities=16%  Similarity=0.154  Sum_probs=55.5

Q ss_pred             eEEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          53 HTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      +.+.|+-|-++....|.|..+.++..+|+-...+++.  ..+.-.||..+++.+|++|++.||..|
T Consensus        17 gi~hI~as~NNTivtiTd~~G~~~~~~SaG~~gfKg~--rk~tp~AA~~aa~~~~~~~~~~Gi~~v   80 (129)
T 2vqe_K           17 GRAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGS--RKGTPYAAQLAALDAAKKAMAYGMQSV   80 (129)
T ss_dssp             EEEEEEECSSCEEEEEECTTSCEEEECCTTTTTCCSG--GGGSHHHHHHHHHHHHHHHHTTTCCEE
T ss_pred             eEEEEEecCCCEEEEEEcCCCCEEEEEeccceeEcCC--CcCCHHHHHHHHHHHHHHHHHhCCeEE
Confidence            8999999999999999998877788888777667654  246889999999999999999999876

>3j20_M 30S ribosomal protein S11P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=96.49  E-value=0.018  Score=41.63  Aligned_cols=66  Identities=18%  Similarity=0.138  Sum_probs=54.3

Q ss_pred             ceeEEEEEecCCcEEEEEEECCCC-eEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          51 YWHTLYFTTTKKHITGQIVHNNGN-VVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        51 ~~pRL~V~rSnkhiyAQlIdd~~g-~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      -+.-+.|+-|-++....|.|..+. +|+.+|.-...+++.  ..+.--||...++.+|++|++.||..|
T Consensus        13 ~~gi~hI~asfNNTivtiTD~~G~~~i~~~S~G~~gfkg~--~ksTp~AA~~aa~~~~~~a~e~Gi~~v   79 (137)
T 3j20_M           13 KWGIAHIYSSFNNTIIHITDITGAETISRWSGGMVVKADR--DEPSPYAAMLAARRAAEEALEKGIVGV   79 (137)
T ss_dssp             EEEEEEEEECSSCEEEEEEESSSCSEEEEEEGGGTCSCTT--TSSSHHHHHHHHHHHHHHHHHHTEEEE
T ss_pred             cceEEEEEcCCCCEEEEEEcCCCCEEEEEEccceeeecCC--ccCCHHHHHHHHHHHHHHHHHcCCeEE
Confidence            468999999999999999998886 587777765555432  246778999999999999999999876

>3bbn_K Ribosomal protein S11; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1

Probab=96.38  E-value=0.0037  Score=45.48  Aligned_cols=64  Identities=14%  Similarity=0.132  Sum_probs=55.8

Q ss_pred             eEEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          53 HTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      +.+.|+-|.++....|.|..+.+++.+|+-...+++.  ..+.-.||..+++.++++|++.||..|
T Consensus        30 gi~hI~as~NNTivtiTD~~G~~i~~~SaG~~GfKg~--rksTp~AA~~aa~~~~~~a~e~Gi~~v   93 (140)
T 3bbn_K           30 GVIHVQASFNNTIVTVTDVRGRVVSWASAGTCGFRGT--KRGTPFAAQTAAGNAIRTVVEQGMQRA   93 (140)
T ss_dssp             CEEEEEECSSCEEEEEECSSSCEEEEEETTTSSCCTT--SCSSHHHHHHHHTSGGGTSTTTCCCEE
T ss_pred             eEEEEEecCCCEEEEEEcCCCCEEEEEeccceeEccc--ccCCHHHHHHHHHHHHHHHHHhCCeEE
Confidence            7999999999999999998887788888877667654  357889999999999999999999876

>2xzm_K RPS14E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_K 3j0o_K 3j0l_K 2zkq_k 3iz6_K 3jyv_K*

Probab=96.07  E-value=0.016  Score=42.54  Aligned_cols=66  Identities=15%  Similarity=0.119  Sum_probs=51.2

Q ss_pred             eeEEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          52 WHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        52 ~pRL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      |+.+.|+-|-++....|.|..+..+.+.||-...+++. ...+.--||...++.+|++|++.||..|
T Consensus        28 ~gi~hI~asfNNTiVtiTD~~G~~~~~~ssgg~~~k~~-r~ksTpyAAq~aa~~~a~~a~e~Gi~~v   93 (151)
T 2xzm_K           28 FGVCHIMATWNDTFIHVTDLSGRETLVRVTGGMKVKAD-REESSPYAAMQAAIDVVNRCKELKINAL   93 (151)
T ss_dssp             EEEEEEEBCSSCBCCEEECTTCCSEEEECCHHHHCSSG-GGGSCHHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             eeEEEEEccCCCEEEEEECCCCCEEEEEecCcceEeCC-CCcCCHHHHHHHHHHHHHHHHHcCCeEE
Confidence            58999999999999999998877644445544444332 1245778999999999999999999876

>3u5c_O RP59A, 40S ribosomal protein S14-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_K 3o30_H 3o2z_H 3u5g_O 1s1h_K 3jyv_K*

Probab=95.08  E-value=0.018  Score=41.72  Aligned_cols=66  Identities=15%  Similarity=0.190  Sum_probs=51.9

Q ss_pred             eeEEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          52 WHTLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        52 ~pRL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      +.-+.|+-|-++....|.|..+..+...|+-...+++.- ..+.--||...++.+|++|++.||..|
T Consensus        14 ~gi~hI~asfNNTivtvTD~~G~~~~~~ssG~~gfKg~r-~ksTpyAAq~aa~~~a~~a~e~Gi~~v   79 (137)
T 3u5c_O           14 FGVARIYASFNDTFVHVTDLSGKETIARVTGGMKVKADR-DESSPYAAMLAAQDVAAKCKEVGITAV   79 (137)
T ss_dssp             EEECCEEEETTEEEECCEETTSSSCCCCCBTTTTSCCST-TTTCHHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             eEEEEEEccCCCEEEEEEcCCCCEEEEEeCCCcEEeCCc-ccCCHHHHHHHHHHHHHHHHHcCCeEE
Confidence            478889999999999999988876555555544565421 135778999999999999999999876

---

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	119
d2gycm1	113	c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {E	1e-04
d2j01s1	86	c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {	0.001
d1ovya_	97	c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacill	0.001

>d2gycm1 c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {Escherichia coli [TaxId: 562]} Length = 113

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Escherichia coli [TaxId: 562]

 Score = 36.8 bits (85), Expect = 1e-04
 Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 1/68 (1%)

Query: 53  HTLYFTTTKKHITGQIVH-NNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCL 111
             L    T +HI  Q++  N   V+V+AST E A+ + L  T +  A + + + +A+R L
Sbjct: 22  TRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAVAERAL 81

Query: 112 ETGISEIT 119
           E GI +++
Sbjct: 82  EKGIKDVS 89

>d2j01s1 c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {Thermus thermophilus [TaxId: 274]} Length = 86

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Thermus thermophilus [TaxId: 274]

 Score = 33.5 bits (77), Expect = 0.001
 Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 6/60 (10%)

Query: 60  TKKHITGQIVH-NNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           + KHI  QI+    G  +VSAS+    LK +            + R LA++ L  GI ++
Sbjct: 9   SLKHIYAQIIDDEKGVTLVSASSLALKLKGN-----KTEVARQVGRALAEKALALGIKQV 63

>d1ovya_ c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacillus stearothermophilus [TaxId: 1422]} Length = 97

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Bacillus stearothermophilus [TaxId: 1422]

 Score = 33.3 bits (76), Expect = 0.001
 Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 3/61 (4%)

Query: 60  TKKHITGQIVH-NNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI 118
           + KHI  QI+       +VSAST +        N  +      +  ++A+R LE GI ++
Sbjct: 13  SNKHIYAQIIDDTKSATIVSASTLDKEFGLDSTNNIEAAKK--VGELVAKRALEKGIKQV 70

Query: 119 T 119
            
Sbjct: 71  V 71

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	119
d2gycm1	113	Ribosomal protein L18 (L18p) {Escherichia coli [Ta	99.96
d1ovya_	97	Ribosomal protein L18 (L18p) {Bacillus stearotherm	99.92
d2j01s1	86	Ribosomal protein L18 (L18p) {Thermus thermophilus	99.9
d2zjrl1	104	Ribosomal protein L18 (L18p) {Deinococcus radiodur	99.9
d1vqon1	186	Ribosomal protein L18 (L18p) {Archaeon Haloarcula	99.84
d2uubk1	119	Ribosomal protein S11 {Thermus thermophilus [TaxId	96.85
d2qalk1	117	Ribosomal protein S11 {Escherichia coli [TaxId: 56	96.55

>d2gycm1 c.55.4.1 (M:3-115) Ribosomal protein L18 (L18p) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Escherichia coli [TaxId: 562]

Probab=99.96  E-value=1.1e-30  Score=184.38  Aligned_cols=87  Identities=29%  Similarity=0.375  Sum_probs=81.3

Q ss_pred             hHHHHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHH
Q psy5246          29 NLERLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLA  107 (119)
Q Consensus        29 ~~~R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lA  107 (119)
                      +..|++|+.|+|.++.++. +   |||+||+||+|||||||||.++. |+||||+|++++.+++.++|+++|+.||++||
T Consensus         2 ~~~r~rR~~R~R~ki~~~~-~---pRL~V~rSnkhiyaQiIdd~~~~tl~saST~~k~~~~~~~~~~n~~aA~~vG~~la   77 (113)
T d2gycm1           2 KSARIRRATRARRKLQELG-A---TRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAVA   77 (113)
T ss_dssp             CCCHHHHTTCSCSTTTTTT-C---CCCBEEECSSCEEEEEEETTTTEEEEEEETTGGGGTSCCSCSSSHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhccCC-C---CeEEEEEeCCcEEEEEEEccCCcEEEEeeehhhhhhhhcCCCcchHHHHHHHHHHH
Confidence            4568899999999998875 4   99999999999999999999997 99999999999998888999999999999999


Q ss_pred             HHHHhcCCceeC
Q psy5246         108 QRCLETGISEIT  119 (119)
Q Consensus       108 era~~~GI~~V~  119 (119)
                      ++|+++||++|+
T Consensus        78 ~ra~~~gI~~vv   89 (113)
T d2gycm1          78 ERALEKGIKDVS   89 (113)
T ss_dssp             HHHHHHTCCCCC
T ss_pred             HHHHHCCCCEEE
Confidence            999999999985

>d1ovya_ c.55.4.1 (A:) Ribosomal protein L18 (L18p) {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.92  E-value=4.2e-26  Score=156.79  Aligned_cols=70  Identities=31%  Similarity=0.411  Sum_probs=64.4

Q ss_pred             ccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCceeC
Q psy5246          45 DRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT  119 (119)
Q Consensus        45 ~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V~  119 (119)
                      |+++|   |||+||+||+|||||||||..|. |+++||++++++.  ...+|+++|++||++||++|+++||++|+
T Consensus         1 gt~~r---pRL~V~kSnkhiyaQlIdd~~~~tl~s~St~~k~~~~--~~~~n~~aA~~vG~~~a~kak~~gi~~vv   71 (97)
T d1ovya_           1 GTTER---PRLSVFRSNKHIYAQIIDDTKSATIVSASTLDKEFGL--DSTNNIEAAKKVGELVAKRALEKGIKQVV   71 (97)
T ss_dssp             CCSSC---CSEEEEEETTEEEEEEECCSSCCCEEEESTTSTTTCS--SCTTSHHHHHHHHHHHHHHHHHHSSSCCC
T ss_pred             CCCCC---CEEEEEEeCCeEEEEEEEcCCCeEEEEecchhhhhcc--cccCcHHHHHHHHHHHHHHHHHcCCCEEE
Confidence            67888   99999999999999999999997 9999999999864  34679999999999999999999999875

>d2j01s1 c.55.4.1 (S:23-108) Ribosomal protein L18 (L18p) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Thermus thermophilus [TaxId: 274]

Probab=99.90  E-value=4.7e-25  Score=148.89  Aligned_cols=62  Identities=32%  Similarity=0.414  Sum_probs=58.5

Q ss_pred             eEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCceeC
Q psy5246          53 HTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT  119 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V~  119 (119)
                      |||+|||||+|||||||||.+|+ |+|+||++++++     ++|+++|+.||++||++|+++||++|+
T Consensus         2 ~RL~V~rSnk~iyaQiIDd~~~~tl~s~St~~k~~k-----~~~~~~A~~vG~~la~~ak~~gI~~v~   64 (86)
T d2j01s1           2 LRLSVFRSLKHIYAQIIDDEKGVTLVSASSLALKLK-----GNKTEVARQVGRALAEKALALGIKQVA   64 (86)
T ss_dssp             CEEECCBCSSCBCEEEEETTTTEEEEEECSTTTCCC-----SCHHHHHHHHHHHHHHHHHHTSCCCCB
T ss_pred             cEEEEEEcCCeEEEEEEEcCCCeEEEEEeccchhhc-----CCCHHHHHHHHHHHHHHHHHCCCCEEE
Confidence            99999999999999999999998 999999999875     468999999999999999999999884

>d2zjrl1 c.55.4.1 (L:8-111) Ribosomal protein L18 (L18p) {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.90  E-value=8e-26  Score=157.20  Aligned_cols=78  Identities=26%  Similarity=0.351  Sum_probs=67.0

Q ss_pred             HHHHhccccccccccCCCcceeEEEEEecCCcEEEEEEECCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHH
Q psy5246          32 RLRIARKPQGYHLDRLGREYWHTLYFTTTKKHITGQIVHNNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRC  110 (119)
Q Consensus        32 R~rr~~rir~k~~~~~~r~~~pRL~V~rSnkhiyAQlIdd~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera  110 (119)
                      ++|+++++|+.. +..++   |||+|||||+|||||||||++|. |+|+||.+++      .++|+++|..||++||++|
T Consensus         3 ~~R~r~k~r~~~-~~~~r---pRL~V~rSnkhiyaQiIDd~~~~tl~s~St~~~~------~~~~~~~a~~vG~~ia~~a   72 (104)
T d2zjrl1           3 KLRTRRKVRTTT-AASGR---LRLSVYRSSKHIYAQIIDDSRGQTLAAASSAALK------SGNKTDTAAAVGKALAAAA   72 (104)
T ss_dssp             HHHHHHHHHSCS-TTTCS---EEECCCTTSSCCCCCEEETTTTEECCCCCSCSCC------TTCSSSSHHHHHHHHHHHH
T ss_pred             hHHHHHHHhccc-ccCCC---cEEEEEEccCeeEEEEEecCCCeEEEeecccccc------ccchhhHHHHHHHHHHHHH
Confidence            455666677633 55678   99999999999999999999997 9999998764      3568999999999999999


Q ss_pred             HhcCCceeC
Q psy5246         111 LETGISEIT  119 (119)
Q Consensus       111 ~~~GI~~V~  119 (119)
                      +++||++|+
T Consensus        73 ~~kgi~~v~   81 (104)
T d2zjrl1          73 AEKGIKQVV   81 (104)
T ss_dssp             HTTCCCCCE
T ss_pred             HHCCCCEEE
Confidence            999999874

>d1vqon1 c.55.4.1 (N:1-186) Ribosomal protein L18 (L18p) {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein L18 (L18p)
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.84  E-value=2.4e-21  Score=146.25  Aligned_cols=67  Identities=22%  Similarity=0.238  Sum_probs=61.9

Q ss_pred             eEEEEEecCCcEEEEEEE--CCCCe-EEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCceeC
Q psy5246          53 HTLYFTTTKKHITGQIVH--NNGNV-VVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEIT  119 (119)
Q Consensus        53 pRL~V~rSnkhiyAQlId--d~~g~-L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V~  119 (119)
                      |||+||+||+|||||||+  |.+++ |+||||.|+..+++..+++|++||+.+|.+||++|+++||++|+
T Consensus        32 pRLvVrrSNk~IyaQII~~d~~gd~vlaSAsS~el~k~g~k~~~~N~~AAy~~G~liA~ra~~~gi~~vv  101 (186)
T d1vqon1          32 PRLVARKSNKHVRAQLVTLGPNGDDTLASAHSSDLAEYGWEAPTGNMPSAYLTGLLAGLRAQEAGVEEAV  101 (186)
T ss_dssp             CEEEEEECSSCEEEEEEECCTTSCEEEEEEESGGGGGGSCCSCSSSHHHHHHHHHHHHHHHHHTTCCBCE
T ss_pred             CeEEEEEeCCceEEEEEEecCCCCEEEEEEecchhhhhccccCccHHHHHHHhHHHHHHHHHhhcccceE
Confidence            999999999999999995  66676 99999999998888778899999999999999999999999874

>d2uubk1 c.55.4.1 (K:11-129) Ribosomal protein S11 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein S11
species: Thermus thermophilus [TaxId: 274]

Probab=96.85  E-value=0.0024  Score=43.27  Aligned_cols=63  Identities=16%  Similarity=0.164  Sum_probs=53.1

Q ss_pred             EEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          54 TLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        54 RL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      .+.|+-|.+++...|.|..+.+|..+|+-...+++.  ....-.||..+++.+++++++.||..|
T Consensus         8 ivhI~~t~NNT~itlTD~~Gn~i~~~S~G~~gfkg~--rk~t~~Aa~~~a~~~~~k~~~~g~~~v   70 (119)
T d2uubk1           8 RAYIHASYNNTIVTITDPDGNPITWSSGGVIGYKGS--RKGTPYAAQLAALDAAKKAMAYGMQSV   70 (119)
T ss_dssp             EEEEEECSSCEEEEEECTTSCEEEEEETTTSSCCSG--GGGSHHHHHHHHHHHHHHHHTTTCCEE
T ss_pred             EEEEEeccCCEEEEEECCCCCEEEEEecccceeccc--cccchhHHHHHHHHHHHHHHHcCCcEE
Confidence            789999999999999998887787777766556543  346788999999999999999999876

>d2qalk1 c.55.4.1 (K:12-128) Ribosomal protein S11 {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Translational machinery components
family: Ribosomal protein L18 and S11
domain: Ribosomal protein S11
species: Escherichia coli [TaxId: 562]

Probab=96.55  E-value=0.0028  Score=42.85  Aligned_cols=63  Identities=16%  Similarity=0.096  Sum_probs=52.1

Q ss_pred             EEEEEecCCcEEEEEEECCCCeEEEEEcchHHhhhcccCCCCHHHHHHHHHHHHHHHHhcCCcee
Q psy5246          54 TLYFTTTKKHITGQIVHNNGNVVVSASTNEWALKKHLYNTNDICAYSNLARVLAQRCLETGISEI  118 (119)
Q Consensus        54 RL~V~rSnkhiyAQlIdd~~g~L~sAST~e~~ik~~l~~~~n~~aA~~vG~~lAera~~~GI~~V  118 (119)
                      .+.|+-|.+++...|.|..+.++...|+-...+++.-  .+.-.||..+++.++++|++.||..|
T Consensus         8 i~hI~~t~NNTiitlTD~~G~~~~~~S~G~~gfkg~~--K~t~~Aa~~~a~~~~~~~~~~gi~~v   70 (117)
T d2qalk1           8 VAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSR--KSTPFAAQVAAERCADAVKEYGIKNL   70 (117)
T ss_dssp             EEEEECCSSCCEEEEEETTSCEEEEEETTTSSCCHHH--HTSHHHHHHHHHHHHHHHGGGTCCEE
T ss_pred             EEEEEecCCCEEEEEECCCCCEEEEEecccccccccc--ccchHHHHHHHHHHHHHHHHcCCcEE
Confidence            6889999999999999877777777777666565432  35778999999999999999999876