Citrus Sinensis ID: 031693

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-----
Protein Sequence
MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE
Secondary Structure (PSIPRED)
cccHHHHHHcccccEEEEEEEccccccccccccccccccccHHHHHHHHHHHHcccccccccEEEEEEEEcccEEEEEEccccHHHHHHHHHccccccccccccEEEEEEHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcccEEEEccc
Secondary Structure Prediction (SSPRO)
cccHHHHHHcccEEEEEEEEEccccccccccccHHHccccccHHHHHHHHHHHHHccccccccEEEEEEEccccEEEEEcccHHHHHHHHHcccccccccccccEEEEEcHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHcccEEEcccc
Coil and Loop (DISEMBL)
MATLKEILTRRPVAATIrltvpaggarpappvgpalgQYRLNLMAFCKDFNArtqkykpetpmsvtitafkdntfeftvkspsvtWYLKKAagiesgssrpghvtasTVTLKHIYEIAKvkqsdpycqympleSICKSIIGTAATMGIKVVKELE
Flexible Loop (DISEMBL)
matlkeiltrrpvaatirltvpaggarpappVGPALGQYRLNLMAFCKDFNARtqkykpetpmSVTITAFKDNTFEFTVKSPSVTWYLKKAagiesgssrpghVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE
Low Complexity Region (SEG)
MATLKEILTRRPVAATIRLTVpaggarpappvgpalgQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE
Disordered region (IsUnstruct)
*******LTRRPVAATIRLTVPAGG*****PVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIE*******HVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV****
Disordered Region (DISOPRED)
*************AATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKA**************ASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE**
Disordered Region (DISEMBL)
MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE
Disordered Region (DISPRO)
**TLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKV*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	155	2.2.26 [Sep-21-2011]
Q9UTK2	144	54S ribosomal protein L19	yes	no	0.870	0.937	0.511	2e-34
Q9Y3B7	192	39S ribosomal protein L11	yes	no	0.935	0.755	0.466	1e-32
Q2YDI0	192	39S ribosomal protein L11	yes	no	0.935	0.755	0.466	2e-31
A7HWQ0	142	50S ribosomal protein L11	yes	no	0.864	0.943	0.492	2e-31
Q2RQU9	142	50S ribosomal protein L11	yes	no	0.864	0.943	0.477	3e-31
Q9VFJ2	196	39S ribosomal protein L11	yes	no	1.0	0.790	0.393	3e-31
Q7VRP3	146	50S ribosomal protein L11	yes	no	0.941	1.0	0.439	4e-31
O67758	145	50S ribosomal protein L11	yes	no	0.890	0.951	0.464	6e-31
A5ELP2	142	50S ribosomal protein L11	yes	no	0.890	0.971	0.464	1e-30
A4YSH5	142	50S ribosomal protein L11	yes	no	0.890	0.971	0.464	1e-30

>sp|Q9UTK2|RM19_SCHPO 54S ribosomal protein L19, mitochondrial OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=mrpl19 PE=3 SV=1

 Score =  144 bits (364), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 69/135 (51%), Positives = 89/135 (65%)

Query: 17  IRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFE 76
           I+L VPAG A P PP+GPALG   L  + FCK+FNART  + P TP+   IT     TF 
Sbjct: 9   IKLIVPAGKATPTPPIGPALGARGLKSIDFCKEFNARTAGWMPNTPVPCKITVTPQRTFT 68

Query: 77  FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESIC 136
           FT+ +P  +W + K   +E GSS P H     ++LKHIYEIAK+K +DP  Q + L S+C
Sbjct: 69  FTIHTPPTSWLISKTLDLEKGSSSPLHDIKGQLSLKHIYEIAKLKSTDPSLQGIELLSLC 128

Query: 137 KSIIGTAATMGIKVV 151
           KS+IGTA +MG+KVV
Sbjct: 129 KSVIGTAKSMGVKVV 143

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

>sp|Q9Y3B7|RM11_HUMAN 39S ribosomal protein L11, mitochondrial OS=Homo sapiens GN=MRPL11 PE=1 SV=1

 Score =  138 bits (348), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 69/148 (46%), Positives = 95/148 (64%), Gaps = 3/148 (2%)

Query: 10  RRP-VAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTIT 68
           R+P V   IR  V AG A P PP+GP LGQ  +++  FCK+FN RT+  K   P+   I 
Sbjct: 12  RKPEVGGVIRAIVRAGLAMPGPPLGPVLGQRGVSINQFCKEFNERTKDIKEGIPLPTKIL 71

Query: 69  AFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDP--Y 126
              D TFE  +  P+V+++LK AAGIE G+ + G   A  VTLKH+YEIA++K  D    
Sbjct: 72  VKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIARIKAQDEAFA 131

Query: 127 CQYMPLESICKSIIGTAATMGIKVVKEL 154
            Q +PL S+ +SIIG+A ++GI+VVK+L
Sbjct: 132 LQDVPLSSVVRSIIGSARSLGIRVVKDL 159

Homo sapiens (taxid: 9606)

>sp|Q2YDI0|RM11_BOVIN 39S ribosomal protein L11, mitochondrial OS=Bos taurus GN=MRPL11 PE=1 SV=2

 Score =  134 bits (338), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 69/148 (46%), Positives = 96/148 (64%), Gaps = 3/148 (2%)

Query: 10  RRPVA-ATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTIT 68
           R+P A   IR  + AG A P PP+GP LGQ  +++  FCK+FN +T+  K   P+   I 
Sbjct: 12  RKPEAEGVIRTILRAGQAMPGPPLGPILGQRGVSINQFCKEFNEKTKDIKEGIPLPTKIF 71

Query: 69  AFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVK-QSDPYC 127
              D TFE  +  P+V+++LK AAGIE G+   G   A  VTLKH+YEIA+VK Q D + 
Sbjct: 72  VKPDRTFEIKIGQPTVSYFLKAAAGIEKGARNTGKEVAGLVTLKHVYEIARVKAQDDAFA 131

Query: 128 -QYMPLESICKSIIGTAATMGIKVVKEL 154
            Q +PL S+ +SIIG+A ++GI+VVK+L
Sbjct: 132 LQDVPLSSVVRSIIGSARSLGIRVVKDL 159

Bos taurus (taxid: 9913)

>sp|A7HWQ0|RL11_PARL1 50S ribosomal protein L11 OS=Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966) GN=rplK PE=3 SV=1

 Score =  134 bits (337), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 67/136 (49%), Positives = 90/136 (66%), Gaps = 2/136 (1%)

Query: 17  IRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFE 76
           I+L VPAG A P+PP+GPALGQ  LN+M FCK FNA TQK +   P+ V ITAF D +F 
Sbjct: 9   IKLQVPAGAANPSPPIGPALGQRGLNIMEFCKAFNAATQKMEQGMPIPVVITAFSDRSFT 68

Query: 77  FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESIC 136
           F +K+P  +++LKKAA + SGS  PG  +A TVT+    EIA+ K +D       L+   
Sbjct: 69  FAMKTPPASYFLKKAAKVTSGSKTPGRASAGTVTVAQCREIAEAKMAD--LNANDLDQAT 126

Query: 137 KSIIGTAATMGIKVVK 152
           K I G+A +MG++VV+
Sbjct: 127 KIIAGSARSMGLQVVE 142

This protein binds directly to 23S ribosomal RNA.

Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966) (taxid: 402881)

>sp|Q2RQU9|RL11_RHORT 50S ribosomal protein L11 OS=Rhodospirillum rubrum (strain ATCC 11170 / NCIB 8255) GN=rplK PE=3 SV=1

 Score =  134 bits (336), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 65/136 (47%), Positives = 94/136 (69%), Gaps = 2/136 (1%)

Query: 17  IRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFE 76
           I+L VPAG A P+PP+GPALGQ  LN+M FCK FNA TQ  +P  P+ V ITA+ D TF 
Sbjct: 9   IKLQVPAGKANPSPPIGPALGQRGLNIMEFCKAFNAATQGLEPGMPIPVVITAYGDRTFT 68

Query: 77  FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESIC 136
           +  K+P +T++LKKAAGI  GS+ PG  +A TVT++ + +IA+ K  D       +E+  
Sbjct: 69  YITKTPPMTYFLKKAAGIGKGSTTPGKGSAGTVTMEQVRDIAEKKMPD--LNSPTIEAAV 126

Query: 137 KSIIGTAATMGIKVVK 152
           + ++G+A +MG++VV+
Sbjct: 127 QMVVGSARSMGLQVVE 142

This protein binds directly to 23S ribosomal RNA.

Rhodospirillum rubrum (strain ATCC 11170 / NCIB 8255) (taxid: 269796)

>sp|Q9VFJ2|RM11_DROME 39S ribosomal protein L11, mitochondrial OS=Drosophila melanogaster GN=mRpL11 PE=1 SV=1

 Score =  134 bits (336), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 61/155 (39%), Positives = 97/155 (62%)

Query: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPE 60
           + +LK+ + R    + ++  +PAG A   PP+GP LGQ  +N+ AFCKDFNA+T + K  
Sbjct: 8   LKSLKKTVERVTHTSKLKTNIPAGMAAAGPPLGPMLGQRAINIAAFCKDFNAKTAEMKEG 67

Query: 61  TPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKV 120
            P+   I+   D +++  +  P  T++LK+AAGI+ G+  PG   A  +TLKH+YEIA +
Sbjct: 68  VPLPCRISVNSDRSYDLAIHHPPATFFLKQAAGIQRGTMTPGKEVAGMITLKHLYEIAAI 127

Query: 121 KQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           K  DP    + ++ +C+ +I  A T GIKVV+E++
Sbjct: 128 KIQDPPNVLLTMQQMCEMLISIARTCGIKVVREID 162

Drosophila melanogaster (taxid: 7227)

>sp|Q7VRP3|RL11_BLOFL 50S ribosomal protein L11 OS=Blochmannia floridanus GN=rplK PE=3 SV=1

 Score =  133 bits (335), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 65/148 (43%), Positives = 96/148 (64%), Gaps = 2/148 (1%)

Query: 7   ILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVT 66
           ++ ++ V + I+L + A  A P+PP+GPALGQ  +N+M FCKDFN RT  ++    + V 
Sbjct: 1   MIVKKKVQSCIKLQIEARSATPSPPIGPALGQQGINIMKFCKDFNTRTADFEMGLILPVV 60

Query: 67  ITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPY 126
           IT + D +F F +K+P+  + LKKAAGI+SGS +P  V+   V +  IYEIAK+K  D  
Sbjct: 61  ITVYVDRSFSFVIKTPTAVFLLKKAAGIKSGSEKPKCVSVGKVLISQIYEIAKIKLID-- 118

Query: 127 CQYMPLESICKSIIGTAATMGIKVVKEL 154
              + LES  KSI+GTA ++G++V   L
Sbjct: 119 MTSLNLESASKSIMGTARSIGLEVEDNL 146

This protein binds directly to 23S ribosomal RNA.

Blochmannia floridanus (taxid: 203907)

>sp|O67758|RL11_AQUAE 50S ribosomal protein L11 OS=Aquifex aeolicus (strain VF5) GN=rplK PE=3 SV=1

 Score =  132 bits (333), Expect = 6e-31,   Method: Compositional matrix adjust.
 Identities = 65/140 (46%), Positives = 94/140 (67%), Gaps = 2/140 (1%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + V ATI L +PA  A PAPPVGPALGQ+ +N+M F K FNA ++ Y+P T + V IT +
Sbjct: 3   KKVVATIELMLPAQQASPAPPVGPALGQHGVNIMEFVKQFNAASRDYEPGTILPVVITVY 62

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
           +D +F F +K+P V++ LKKAAG+E GSS P  V    +T+K + EIAK+K  D      
Sbjct: 63  QDRSFTFIMKTPPVSYLLKKAAGVEKGSSDPKRVKVGKITVKQLEEIAKMKMKD--MNTR 120

Query: 131 PLESICKSIIGTAATMGIKV 150
            L++  +++ GTA +MGI++
Sbjct: 121 DLKAAMRTVAGTAKSMGIEI 140

This protein binds directly to 23S ribosomal RNA.

Aquifex aeolicus (strain VF5) (taxid: 224324)

>sp|A5ELP2|RL11_BRASB 50S ribosomal protein L11 OS=Bradyrhizobium sp. (strain BTAi1 / ATCC BAA-1182) GN=rplK PE=3 SV=1

 Score =  132 bits (331), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 65/140 (46%), Positives = 92/140 (65%), Gaps = 2/140 (1%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + V   ++L VPAG A P+PP+GPALGQ  LN+M FCK FNA+TQK +  TP+ V IT +
Sbjct: 3   KKVTGYLKLQVPAGAANPSPPIGPALGQRGLNIMEFCKAFNAQTQKEEKNTPIPVVITIY 62

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
            D +F F +K+P ++++LK+AA I+SGS  PG   A  VT   + EIA+ K  D  C   
Sbjct: 63  ADRSFTFEMKTPPMSYFLKQAAKIQSGSKAPGRDKAGKVTKAQVREIAEKKMKDLNCDS- 121

Query: 131 PLESICKSIIGTAATMGIKV 150
            +ES  K + G+A +MG++V
Sbjct: 122 -IESAMKMVEGSARSMGLEV 140

This protein binds directly to 23S ribosomal RNA.

Bradyrhizobium sp. (strain BTAi1 / ATCC BAA-1182) (taxid: 288000)

>sp|A4YSH5|RL11_BRASO 50S ribosomal protein L11 OS=Bradyrhizobium sp. (strain ORS278) GN=rplK PE=3 SV=1

 Score =  131 bits (330), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 65/140 (46%), Positives = 92/140 (65%), Gaps = 2/140 (1%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + V   ++L VPAG A P+PP+GPALGQ  LN+M FCK FNA+TQK +  TP+ V IT +
Sbjct: 3   KKVTGYLKLQVPAGAANPSPPIGPALGQRGLNIMEFCKAFNAQTQKEEKNTPIPVVITIY 62

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
            D +F F +K+P ++++LK+AA I+SGS  PG   A  VT   + EIA+ K  D  C   
Sbjct: 63  ADRSFTFEMKTPPMSFFLKQAAKIQSGSKAPGRDKAGKVTKAQVREIAEKKMKDLNCDS- 121

Query: 131 PLESICKSIIGTAATMGIKV 150
            +ES  K + G+A +MG++V
Sbjct: 122 -IESAMKMVEGSARSMGLEV 140

This protein binds directly to 23S ribosomal RNA.

Bradyrhizobium sp. (strain ORS278) (taxid: 114615)

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	155
449448846	155	PREDICTED: 54S ribosomal protein L19, mi	1.0	1.0	0.941	8e-82
224074271	155	predicted protein [Populus trichocarpa]	1.0	1.0	0.929	6e-81
255561439	155	50S robosomal protein L11, putative [Ric	1.0	1.0	0.929	1e-80
297802400	156	ribosomal protein L11 family protein [Ar	0.993	0.987	0.831	1e-74
15237029	155	mitochondrial ribosomal protein L11 [Ara	0.987	0.987	0.811	1e-72
225438448	155	PREDICTED: 60S ribosomal protein L19, mi	1.0	1.0	0.903	8e-72
116793592	155	unknown [Picea sitchensis]	1.0	1.0	0.806	3e-71
356567359	149	PREDICTED: 60S ribosomal protein L19, mi	0.935	0.973	0.834	3e-68
356540189	149	PREDICTED: 60S ribosomal protein L19, mi	0.935	0.973	0.827	6e-68
346466837	184	hypothetical protein [Amblyomma maculatu	0.993	0.836	0.824	3e-66

>gi|449448846|ref|XP_004142176.1| PREDICTED: 54S ribosomal protein L19, mitochondrial-like [Cucumis sativus] gi|449503431|ref|XP_004161999.1| PREDICTED: 54S ribosomal protein L19, mitochondrial-like [Cucumis sativus]

 Score =  307 bits (787), Expect = 8e-82,   Method: Compositional matrix adjust.
 Identities = 146/155 (94%), Positives = 152/155 (98%)

Query: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPE 60
           MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPE
Sbjct: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPE 60

Query: 61  TPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKV 120
           TPM+VTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHV AST+++KHIYEIAKV
Sbjct: 61  TPMAVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVVASTLSVKHIYEIAKV 120

Query: 121 KQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           KQSDPYCQYMPLESICKSIIGTA +MGIKV+ ELE
Sbjct: 121 KQSDPYCQYMPLESICKSIIGTANSMGIKVLNELE 155

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224074271|ref|XP_002304331.1| predicted protein [Populus trichocarpa] gi|118482503|gb|ABK93174.1| unknown [Populus trichocarpa] gi|222841763|gb|EEE79310.1| predicted protein [Populus trichocarpa]

 Score =  305 bits (780), Expect = 6e-81,   Method: Compositional matrix adjust.
 Identities = 144/155 (92%), Positives = 151/155 (97%)

Query: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPE 60
           MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKP+
Sbjct: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPD 60

Query: 61  TPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKV 120
           TPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAG+ESGS RPGH+ ASTVTLKH+YEIAKV
Sbjct: 61  TPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGVESGSGRPGHLEASTVTLKHVYEIAKV 120

Query: 121 KQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           KQSDPYCQYM LESICKSI+GTA TMGIKVVK+L+
Sbjct: 121 KQSDPYCQYMSLESICKSIMGTANTMGIKVVKDLD 155

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561439|ref|XP_002521730.1| 50S robosomal protein L11, putative [Ricinus communis] gi|223539121|gb|EEF40717.1| 50S robosomal protein L11, putative [Ricinus communis]

 Score =  303 bits (776), Expect = 1e-80,   Method: Compositional matrix adjust.
 Identities = 144/155 (92%), Positives = 150/155 (96%)

Query: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPE 60
           MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKP+
Sbjct: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPD 60

Query: 61  TPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKV 120
           TPM+VTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHV ASTVTLKH+YEIAKV
Sbjct: 61  TPMAVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVVASTVTLKHVYEIAKV 120

Query: 121 KQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           KQSDPYCQYM LESI KS+IGTA  MGIKVVK+L+
Sbjct: 121 KQSDPYCQYMSLESISKSVIGTANAMGIKVVKDLD 155

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297802400|ref|XP_002869084.1| ribosomal protein L11 family protein [Arabidopsis lyrata subsp. lyrata] gi|297314920|gb|EFH45343.1| ribosomal protein L11 family protein [Arabidopsis lyrata subsp. lyrata]

 Score =  284 bits (726), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 128/154 (83%), Positives = 148/154 (96%)

Query: 2   ATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPET 61
           A  KEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKP+T
Sbjct: 3   AAAKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPDT 62

Query: 62  PMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVK 121
           PM+VTITAFKDN+FEFTVKSP+V+WY+KKAAG++ GS+RPGH+T +T+++ H+YEIAKVK
Sbjct: 63  PMAVTITAFKDNSFEFTVKSPTVSWYIKKAAGVDKGSTRPGHLTVTTLSVGHVYEIAKVK 122

Query: 122 QSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           Q+DP+CQYMPLESICKSIIGTA +MGIK+VK+LE
Sbjct: 123 QTDPFCQYMPLESICKSIIGTANSMGIKIVKDLE 156

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15237029|ref|NP_195274.1| mitochondrial ribosomal protein L11 [Arabidopsis thaliana] gi|5830791|emb|CAB54877.1| ribosomal protein L11 homolog [Arabidopsis thaliana] gi|7270500|emb|CAB80265.1| ribosomal protein L11 homolog [Arabidopsis thaliana] gi|21618064|gb|AAM67114.1| ribosomal protein L11-like protein [Arabidopsis thaliana] gi|98961097|gb|ABF59032.1| At4g35490 [Arabidopsis thaliana] gi|110740709|dbj|BAE98455.1| ribosomal protein L11 homolog [Arabidopsis thaliana] gi|332661121|gb|AEE86521.1| mitochondrial ribosomal protein L11 [Arabidopsis thaliana]

 Score =  277 bits (708), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 125/154 (81%), Positives = 148/154 (96%), Gaps = 1/154 (0%)

Query: 2   ATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPET 61
           A  KEIL RRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKP+T
Sbjct: 3   AAAKEIL-RRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPDT 61

Query: 62  PMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVK 121
           PM+VTITAFKDN+FEFTVKSP+V+WY+KKAAG++ GS+RPGH++ +T++++H+YEIAKVK
Sbjct: 62  PMAVTITAFKDNSFEFTVKSPTVSWYIKKAAGVDKGSTRPGHLSVTTLSVRHVYEIAKVK 121

Query: 122 QSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           Q+DP+CQYMPLESICKSIIGTA +MGIK+V++LE
Sbjct: 122 QTDPFCQYMPLESICKSIIGTANSMGIKIVQDLE 155

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225438448|ref|XP_002277084.1| PREDICTED: 60S ribosomal protein L19, mitochondrial [Vitis vinifera] gi|147806139|emb|CAN70008.1| hypothetical protein VITISV_038751 [Vitis vinifera]

 Score =  274 bits (701), Expect = 8e-72,   Method: Compositional matrix adjust.
 Identities = 140/155 (90%), Positives = 149/155 (96%)

Query: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPE 60
           M++LKEILTRRPV+ATIRLTVPAG ARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKP+
Sbjct: 1   MSSLKEILTRRPVSATIRLTVPAGAARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPD 60

Query: 61  TPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKV 120
           TPM+VTITA+KDNTFEFTVKSPSVTWYLKKAAGIE GS RPGHV AS+VTLKHIYEIAKV
Sbjct: 61  TPMAVTITAYKDNTFEFTVKSPSVTWYLKKAAGIELGSGRPGHVVASSVTLKHIYEIAKV 120

Query: 121 KQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           KQSDPYCQYM LESICKSIIGTA TMGI+VVKEL+
Sbjct: 121 KQSDPYCQYMSLESICKSIIGTANTMGIQVVKELD 155

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116793592|gb|ABK26801.1| unknown [Picea sitchensis]

 Score =  272 bits (696), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 125/155 (80%), Positives = 141/155 (90%)

Query: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPE 60
           M++L+ ILTRRPVAATIR+ VPAG ARPAPPVGPALGQYRLNLM FCK+FNARTQ YKPE
Sbjct: 1   MSSLEAILTRRPVAATIRMVVPAGQARPAPPVGPALGQYRLNLMTFCKEFNARTQNYKPE 60

Query: 61  TPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKV 120
           TPMSV +TA+KDNTFEF VK+PSVTWYLKKAAGIESGS +PGH   +T++LKHIYEIAK+
Sbjct: 61  TPMSVLLTAYKDNTFEFIVKTPSVTWYLKKAAGIESGSGKPGHQVVATLSLKHIYEIAKI 120

Query: 121 KQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           KQSDPYCQYMPLES+CKSII TA TMGI+V KEL+
Sbjct: 121 KQSDPYCQYMPLESVCKSIISTARTMGIEVKKELD 155

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356567359|ref|XP_003551888.1| PREDICTED: 60S ribosomal protein L19, mitochondrial-like [Glycine max]

 Score =  262 bits (670), Expect = 3e-68,   Method: Compositional matrix adjust.
 Identities = 121/145 (83%), Positives = 137/145 (94%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + VAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYK ETPM+VTITA+
Sbjct: 5   KAVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKAETPMAVTITAY 64

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
           KDNTFEFTVKSP V+WYLKKAAG+ESGSSRPGHVTAS+++++H++EIAK KQSDPY Q M
Sbjct: 65  KDNTFEFTVKSPPVSWYLKKAAGVESGSSRPGHVTASSLSVRHVHEIAKAKQSDPYLQNM 124

Query: 131 PLESICKSIIGTAATMGIKVVKELE 155
           PLESI KSIIGTA +MGIK+VK+L+
Sbjct: 125 PLESISKSIIGTANSMGIKIVKDLD 149

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356540189|ref|XP_003538572.1| PREDICTED: 60S ribosomal protein L19, mitochondrial-like [Glycine max]

 Score =  261 bits (667), Expect = 6e-68,   Method: Compositional matrix adjust.
 Identities = 120/145 (82%), Positives = 136/145 (93%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + VAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYK +TPM+VTITA+
Sbjct: 5   KAVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKADTPMAVTITAY 64

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
           KDNTFEF VKSP V+WYLKKAAG+ESGSSRPGHVT+S+V+++H+YEIAK KQSDPY Q M
Sbjct: 65  KDNTFEFAVKSPPVSWYLKKAAGVESGSSRPGHVTSSSVSVRHVYEIAKAKQSDPYLQNM 124

Query: 131 PLESICKSIIGTAATMGIKVVKELE 155
           PLESI KSIIGTA +MGIK+VK+L+
Sbjct: 125 PLESISKSIIGTANSMGIKIVKDLD 149

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|346466837|gb|AEO33263.1| hypothetical protein [Amblyomma maculatum]

 Score =  256 bits (653), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 127/154 (82%), Positives = 142/154 (92%)

Query: 1   MATLKEILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPE 60
           M+ LKE + RRP++ATI+LTVPAG ARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKP+
Sbjct: 31  MSILKETVIRRPISATIKLTVPAGAARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPD 90

Query: 61  TPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKV 120
           TPM+VTITAFKDNTFEF VKSPS+TWYLK+AAGIESGS RPGHV  S++TL H+YEIAKV
Sbjct: 91  TPMAVTITAFKDNTFEFVVKSPSITWYLKRAAGIESGSGRPGHVVVSSITLTHVYEIAKV 150

Query: 121 KQSDPYCQYMPLESICKSIIGTAATMGIKVVKEL 154
           KQSDP CQYM LE+ICKSIIGTA TMGI+VVK+L
Sbjct: 151 KQSDPNCQYMSLEAICKSIIGTANTMGIQVVKDL 184

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

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	155
TAIR|locus:2117627	155	MRPL11 "mitochondrial ribosoma	0.987	0.987	0.707	2e-56
POMBASE|SPAC1486.07c	144	mrpl19 "mitochondrial ribosoma	0.716	0.770	0.486	9.7e-25
FB|FBgn0038234	196	mRpL11 "mitochondrial ribosoma	0.761	0.602	0.406	7.8e-23
UNIPROTKB|Q9Y3B7	192	MRPL11 "39S ribosomal protein	0.935	0.755	0.398	7.8e-23
UNIPROTKB|Q2YDI0	192	MRPL11 "39S ribosomal protein	0.754	0.609	0.453	1.3e-22
UNIPROTKB|F1RU54	192	MRPL11 "Uncharacterized protei	0.754	0.609	0.453	1.3e-22
UNIPROTKB|E2RBT1	192	MRPL11 "Uncharacterized protei	0.935	0.755	0.398	2.1e-22
RGD|1359665	203	mrpl11 "mitochondrial ribosoma	0.754	0.576	0.436	1.1e-21
UNIPROTKB|Q5XIE3	203	Mrpl11 "39S ribosomal protein	0.754	0.576	0.436	1.1e-21
MGI|MGI:2137215	192	Mrpl11 "mitochondrial ribosoma	0.754	0.609	0.436	3.9e-21

TAIR|locus:2117627 MRPL11 "mitochondrial ribosomal protein L11" [Arabidopsis thaliana (taxid:3702)]

 Score = 581 (209.6 bits), Expect = 2.0e-56, P = 2.0e-56
 Identities = 109/154 (70%), Positives = 132/154 (85%)

Query:     2 ATLKEILTRRPVAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPET 61
             A  KEIL RRPVAATIRLTV                QYRLNLMAFCKDFNARTQKYKP+T
Sbjct:     3 AAAKEIL-RRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPDT 61

Query:    62 PMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVK 121
             PM+VTITAFKDN+FEFTVKSP+V+WY+KKAAG++ GS+RPGH++ +T++++H+YEIAKVK
Sbjct:    62 PMAVTITAFKDNSFEFTVKSPTVSWYIKKAAGVDKGSTRPGHLSVTTLSVRHVYEIAKVK 121

Query:   122 QSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
             Q+DP+CQYMPLESICKSIIGTA +MGIK+V++LE
Sbjct:   122 QTDPFCQYMPLESICKSIIGTANSMGIKIVQDLE 155

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

GO:0005739 "mitochondrion" evidence=ISM

GO:0005840 "ribosome" evidence=ISS

GO:0006412 "translation" evidence=IEA

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

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0006354 "DNA-dependent transcription, elongation" evidence=RCA

GO:0006626 "protein targeting to mitochondrion" evidence=RCA

POMBASE|SPAC1486.07c mrpl19 "mitochondrial ribosomal protein subunit L19 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 282 (104.3 bits), Expect = 9.7e-25, P = 9.7e-25
 Identities = 54/111 (48%), Positives = 72/111 (64%)

Query:    41 LNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSR 100
             L  + FCK+FNART  + P TP+   IT     TF FT+ +P  +W + K   +E GSS 
Sbjct:    33 LKSIDFCKEFNARTAGWMPNTPVPCKITVTPQRTFTFTIHTPPTSWLISKTLDLEKGSSS 92

Query:   101 PGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV 151
             P H     ++LKHIYEIAK+K +DP  Q + L S+CKS+IGTA +MG+KVV
Sbjct:    93 PLHDIKGQLSLKHIYEIAKLKSTDPSLQGIELLSLCKSVIGTAKSMGVKVV 143

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

GO:0005737 "cytoplasm" evidence=IDA

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

GO:0006412 "translation" evidence=ISS

GO:0032543 "mitochondrial translation" evidence=NAS

FB|FBgn0038234 mRpL11 "mitochondrial ribosomal protein L11" [Drosophila melanogaster (taxid:7227)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 48/118 (40%), Positives = 75/118 (63%)

Query:    38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
             Q  +N+ AFCKDFNA+T + K   P+   I+   D +++  +  P  T++LK+AAGI+ G
Sbjct:    45 QRAINIAAFCKDFNAKTAEMKEGVPLPCRISVNSDRSYDLAIHHPPATFFLKQAAGIQRG 104

Query:    98 SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
             +  PG   A  +TLKH+YEIA +K  DP    + ++ +C+ +I  A T GIKVV+E++
Sbjct:   105 TMTPGKEVAGMITLKHLYEIAAIKIQDPPNVLLTMQQMCEMLISIARTCGIKVVREID 162

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

GO:0006412 "translation" evidence=ISS

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

UNIPROTKB|Q9Y3B7 MRPL11 "39S ribosomal protein L11, mitochondrial" [Homo sapiens (taxid:9606)]

 Score = 264 (98.0 bits), Expect = 7.8e-23, P = 7.8e-23
 Identities = 59/148 (39%), Positives = 86/148 (58%)

Query:    10 RRP-VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTIT 68
             R+P V   IR  V                Q  +++  FCK+FN RT+  K   P+   I 
Sbjct:    12 RKPEVGGVIRAIVRAGLAMPGPPLGPVLGQRGVSINQFCKEFNERTKDIKEGIPLPTKIL 71

Query:    69 AFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVK-QSDPYC 127
                D TFE  +  P+V+++LK AAGIE G+ + G   A  VTLKH+YEIA++K Q + + 
Sbjct:    72 VKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIARIKAQDEAFA 131

Query:   128 -QYMPLESICKSIIGTAATMGIKVVKEL 154
              Q +PL S+ +SIIG+A ++GI+VVK+L
Sbjct:   132 LQDVPLSSVVRSIIGSARSLGIRVVKDL 159

GO:0005761 "mitochondrial ribosome" evidence=NAS

GO:0006412 "translation" evidence=NAS

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

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|Q2YDI0 MRPL11 "39S ribosomal protein L11, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 54/119 (45%), Positives = 78/119 (65%)

Query:    38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
             Q  +++  FCK+FN +T+  K   P+   I    D TFE  +  P+V+++LK AAGIE G
Sbjct:    41 QRGVSINQFCKEFNEKTKDIKEGIPLPTKIFVKPDRTFEIKIGQPTVSYFLKAAAGIEKG 100

Query:    98 SSRPGHVTASTVTLKHIYEIAKVK-QSDPYC-QYMPLESICKSIIGTAATMGIKVVKEL 154
             +   G   A  VTLKH+YEIA+VK Q D +  Q +PL S+ +SIIG+A ++GI+VVK+L
Sbjct:   101 ARNTGKEVAGLVTLKHVYEIARVKAQDDAFALQDVPLSSVVRSIIGSARSLGIRVVKDL 159

GO:0005739 "mitochondrion" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|F1RU54 MRPL11 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 262 (97.3 bits), Expect = 1.3e-22, P = 1.3e-22
 Identities = 54/119 (45%), Positives = 78/119 (65%)

Query:    38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
             Q  +++  FCK+FN +T+  K   P+   I    D TFE  +  P+V+++LK AAGIE G
Sbjct:    41 QRGVSINQFCKEFNEKTKDIKEGIPLPTKIFVKPDRTFEIKIGQPTVSYFLKAAAGIEKG 100

Query:    98 SSRPGHVTASTVTLKHIYEIAKVK-QSDPYC-QYMPLESICKSIIGTAATMGIKVVKEL 154
             +   G   A  VTLKH+YEIA+VK Q D +  Q +PL S+ +SIIG+A ++GI+VVK+L
Sbjct:   101 ARHTGKEVAGLVTLKHVYEIARVKAQDDAFALQDVPLSSVVRSIIGSARSLGIRVVKDL 159

GO:0005739 "mitochondrion" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|E2RBT1 MRPL11 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 260 (96.6 bits), Expect = 2.1e-22, P = 2.1e-22
 Identities = 59/148 (39%), Positives = 86/148 (58%)

Query:    10 RRPVAA-TIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTIT 68
             R+P A   IR  V                Q  +++  FCK+FN +T+  K   P+   I 
Sbjct:    12 RKPEAGGVIRTIVRAGQAMTGPPLGPILGQRGVSINQFCKEFNEKTKDIKEGIPLPTKIF 71

Query:    69 AFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVK-QSDPYC 127
                D TFE  +  P+V+++LK AAGIE G+ + G   A  VTLKH+YEIA+VK Q + + 
Sbjct:    72 VKPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIAQVKAQDEAFA 131

Query:   128 -QYMPLESICKSIIGTAATMGIKVVKEL 154
              Q +PL S+ +SIIG+A ++GI+VVK+L
Sbjct:   132 LQDVPLSSVVRSIIGSARSLGIRVVKDL 159

GO:0005739 "mitochondrion" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

RGD|1359665 mrpl11 "mitochondrial ribosomal protein L11" [Rattus norvegicus (taxid:10116)]

 Score = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 52/119 (43%), Positives = 77/119 (64%)

Query:    38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
             Q  +++  FCK+FN +T+  K   P+   I    D TFE  +  P+++++LK AAGIE G
Sbjct:    41 QRGVSINQFCKEFNEKTKDIKEGIPLPTKIFIKPDRTFELKIGQPTISYFLKAAAGIEKG 100

Query:    98 SSRPGHVTASTVTLKHIYEIAKVKQSDPY--CQYMPLESICKSIIGTAATMGIKVVKEL 154
             + + G   A  V+LKH+YEIA+VK  D     Q +PL SI +SIIG+A ++GI+VVK+L
Sbjct:   101 ARQTGKEVAGLVSLKHVYEIARVKAKDEAFAMQDVPLSSIVRSIIGSARSLGIRVVKDL 159

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

GO:0005739 "mitochondrion" evidence=IEA;ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|Q5XIE3 Mrpl11 "39S ribosomal protein L11, mitochondrial" [Rattus norvegicus (taxid:10116)]

 Score = 253 (94.1 bits), Expect = 1.1e-21, P = 1.1e-21
 Identities = 52/119 (43%), Positives = 77/119 (64%)

Query:    38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
             Q  +++  FCK+FN +T+  K   P+   I    D TFE  +  P+++++LK AAGIE G
Sbjct:    41 QRGVSINQFCKEFNEKTKDIKEGIPLPTKIFIKPDRTFELKIGQPTISYFLKAAAGIEKG 100

Query:    98 SSRPGHVTASTVTLKHIYEIAKVKQSDPY--CQYMPLESICKSIIGTAATMGIKVVKEL 154
             + + G   A  V+LKH+YEIA+VK  D     Q +PL SI +SIIG+A ++GI+VVK+L
Sbjct:   101 ARQTGKEVAGLVSLKHVYEIARVKAKDEAFAMQDVPLSSIVRSIIGSARSLGIRVVKDL 159

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

MGI|MGI:2137215 Mrpl11 "mitochondrial ribosomal protein L11" [Mus musculus (taxid:10090)]

 Score = 248 (92.4 bits), Expect = 3.9e-21, P = 3.9e-21
 Identities = 52/119 (43%), Positives = 77/119 (64%)

Query:    38 QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
             Q  +++  FCK+FN +T+  K   P+   I    D TFE  +  P+V+++LK AAGIE G
Sbjct:    41 QRGVSINQFCKEFNEKTKDIKEGIPLPTKIFIKPDRTFELKIGQPTVSYFLKAAAGIEKG 100

Query:    98 SSRPGHVTASTVTLKHIYEIAKVK-QSDPYC-QYMPLESICKSIIGTAATMGIKVVKEL 154
             +   G   A  V+LKH+YEIA VK + D +  Q +PL S+ +SIIG+A ++GI+VVK+L
Sbjct:   101 ARHTGKEVAGLVSLKHVYEIACVKAKDDAFAMQDVPLSSVVRSIIGSARSLGIRVVKDL 159

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

GO:0005739 "mitochondrion" evidence=IDA

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q1QN48	RL11_NITHX	No assigned EC number	0.4436	0.9032	0.9859	yes	no
A7HWQ0	RL11_PARL1	No assigned EC number	0.4926	0.8645	0.9436	yes	no
Q0BKC0	RL11_FRATO	No assigned EC number	0.4265	0.9096	0.9791	yes	no
Q3BWZ5	RL11_XANC5	No assigned EC number	0.5	0.8903	0.9718	yes	no
Q134R3	RL11_RHOPS	No assigned EC number	0.45	0.8903	0.9718	yes	no
Q57CP4	RL11_BRUAB	No assigned EC number	0.4397	0.8967	0.9788	yes	no
B2S691	RL11_BRUA1	No assigned EC number	0.4397	0.8967	0.9788	yes	no
O67758	RL11_AQUAE	No assigned EC number	0.4642	0.8903	0.9517	yes	no
B0RU93	RL11_XANCB	No assigned EC number	0.5071	0.8903	0.9718	yes	no
C1DKK1	RL11_AZOVD	No assigned EC number	0.4857	0.8903	0.9650	yes	no
B1L939	RL11_THESQ	No assigned EC number	0.5106	0.8903	0.9787	yes	no
Q8YHQ1	RL11_BRUME	No assigned EC number	0.4397	0.8967	0.9788	yes	no
Q3SSY4	RL11_NITWN	No assigned EC number	0.4436	0.9032	0.9859	yes	no
P62441	RL11_RHOPA	No assigned EC number	0.4571	0.8903	0.9718	yes	no
A4IW95	RL11_FRATW	No assigned EC number	0.4265	0.9096	0.9791	yes	no
Q07KJ7	RL11_RHOP5	No assigned EC number	0.45	0.8903	0.9718	yes	no
Q8PNT4	RL11_XANAC	No assigned EC number	0.5	0.8903	0.9718	yes	no
C0RJL5	RL11_BRUMB	No assigned EC number	0.4397	0.8967	0.9788	yes	no
B9KBJ9	RL11_THENN	No assigned EC number	0.5106	0.8903	0.9787	yes	no
A4VHL9	RL11_PSEU5	No assigned EC number	0.4857	0.8903	0.9650	yes	no
A4YSH5	RL11_BRASO	No assigned EC number	0.4642	0.8903	0.9718	yes	no
A5ELP2	RL11_BRASB	No assigned EC number	0.4642	0.8903	0.9718	yes	no
Q4URC8	RL11_XANC8	No assigned EC number	0.5	0.8903	0.9718	yes	no
Q9UTK2	RM19_SCHPO	No assigned EC number	0.5111	0.8709	0.9375	yes	no
Q5NID6	RL11_FRATT	No assigned EC number	0.4265	0.9096	0.9791	yes	no
P29395	RL11_THEMA	No assigned EC number	0.5106	0.8903	0.9787	yes	no
Q2A1M3	RL11_FRATH	No assigned EC number	0.4265	0.9096	0.9791	yes	no
A8LLJ9	RL11_DINSH	No assigned EC number	0.45	0.8903	0.9787	yes	no
B3QC05	RL11_RHOPT	No assigned EC number	0.4571	0.8903	0.9718	yes	no
Q2YM11	RL11_BRUA2	No assigned EC number	0.4397	0.8967	0.9788	yes	no
A9M5R4	RL11_BRUC2	No assigned EC number	0.4397	0.8967	0.9788	yes	no
Q211C4	RL11_RHOPB	No assigned EC number	0.45	0.8903	0.9718	yes	no
Q8G065	RL11_BRUSU	No assigned EC number	0.4397	0.8967	0.9788	yes	no
Q2RQU9	RL11_RHORT	No assigned EC number	0.4779	0.8645	0.9436	yes	no
P60100	RL11_CHRVO	No assigned EC number	0.4714	0.8903	0.9650	yes	no
B6JER5	RL11_OLICO	No assigned EC number	0.45	0.8903	0.9718	yes	no
B0CH45	RL11_BRUSI	No assigned EC number	0.4397	0.8967	0.9788	yes	no
Q89J69	RL11_BRAJA	No assigned EC number	0.4642	0.8903	0.9718	yes	no
A0Q871	RL11_FRATN	No assigned EC number	0.4265	0.9096	0.9791	yes	no
Q8RTJ5	RL11_XANCP	No assigned EC number	0.5	0.8903	0.9718	yes	no
Q7VRP3	RL11_BLOFL	No assigned EC number	0.4391	0.9419	1.0	yes	no
Q1IFX7	RL11_PSEE4	No assigned EC number	0.4714	0.8903	0.9650	yes	no
B2SFD2	RL11_FRATM	No assigned EC number	0.4265	0.9096	0.9791	yes	no
A7NEC4	RL11_FRATF	No assigned EC number	0.4265	0.9096	0.9791	yes	no
Q2IXS8	RL11_RHOP2	No assigned EC number	0.4571	0.8903	0.9718	yes	no
Q14JT9	RL11_FRAT1	No assigned EC number	0.4265	0.9096	0.9791	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	eugene3.00030638	SubName- Full=Putative uncharacterized protein; (155 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	grail3.3183000301	Predicted protein (109 aa)	•			•			•		0.910
	gw1.16155.2.1	Predicted protein (206 aa)	•			•			•		0.867
	eugene3.00141000	hypothetical protein (227 aa)	•			•	•		•		0.852
	gw1.3183.1.1	Ribosomal protein L1 (149 aa)	•			•	•		•		0.829
	gw1.IV.3048.1	SubName- Full=Putative uncharacterized protein; (227 aa)	•			•			•		0.821
	fgenesh4_pm.C_LG_XIII000297	hypothetical protein (222 aa)	•			•	•		•		0.794
	eugene3.160500001	Predicted protein (113 aa)				•	•		•		0.788
	estExt_fgenesh4_pm.C_LG_IX0496	hypothetical protein (329 aa)	•			•	•		•		0.774
	gw1.II.2942.1	SubName- Full=Putative uncharacterized protein; (218 aa)	•			•	•		•		0.771
	eugene3.29520003	annotation not avaliable (742 aa)	•			•			•		0.763

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	155
TIGR01632	140	TIGR01632, L11_bact, 50S ribosomal protein L11	4e-64
cd00349	131	cd00349, Ribosomal_L11, Ribosomal protein L11	6e-61
smart00649	132	smart00649, RL11, Ribosomal protein L11/L12	4e-59
PRK00140	141	PRK00140, rplK, 50S ribosomal protein L11; Validat	4e-50
COG0080	141	COG0080, RplK, Ribosomal protein L11 [Translation,	1e-48
CHL00127	140	CHL00127, rpl11, ribosomal protein L11; Validated	1e-32
pfam00298	69	pfam00298, Ribosomal_L11, Ribosomal protein L11, R	4e-29
PRK01143	163	PRK01143, rpl11p, 50S ribosomal protein L11P; Vali	3e-23
pfam03946	59	pfam03946, Ribosomal_L11_N, Ribosomal protein L11,	8e-23
PRK14539	196	PRK14539, PRK14539, 50S ribosomal protein L11/unkn	2e-16
PTZ00321	342	PTZ00321, PTZ00321, ribosomal protein L11; Provisi	6e-16

>gnl|CDD|233500 TIGR01632, L11_bact, 50S ribosomal protein L11

 Score =  192 bits (489), Expect = 4e-64
 Identities = 69/142 (48%), Positives = 92/142 (64%), Gaps = 2/142 (1%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + +   I+L VPAG A PAPPVGPALGQ  +N+M FCK FNART  Y+P  P+ V IT +
Sbjct: 1   KKIVGIIKLQVPAGQANPAPPVGPALGQRGVNIMEFCKQFNARTADYEPGLPVPVVITVY 60

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
           +D +F F VK+P V++ LKKAAG+E GS  P       +T K + EIA++K SD      
Sbjct: 61  EDKSFTFIVKTPPVSYLLKKAAGVEKGSKNPKKEKVGKITRKQVREIAEIKMSD--LNTK 118

Query: 131 PLESICKSIIGTAATMGIKVVK 152
            +E+  K I GTA +MGI++V 
Sbjct: 119 DIEAAMKIIAGTAKSMGIEIVG 140

This model represents bacterial, chloroplast, and most mitochondrial forms of 50S ribosomal protein L11 [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 140

>gnl|CDD|100101 cd00349, Ribosomal_L11, Ribosomal protein L11

 Score =  183 bits (468), Expect = 6e-61
 Identities = 70/134 (52%), Positives = 88/134 (65%), Gaps = 3/134 (2%)

Query: 17  IRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFE 76
           I+L VPAG A PAPP+GPALGQ  +N+M FCK+FNART+ YK   P+ V IT + D +F 
Sbjct: 1   IKLQVPAGKASPAPPLGPALGQLGVNIMKFCKEFNARTKDYK-GLPVPVKITVYNDRSFT 59

Query: 77  FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESIC 136
           F VK+P  +  LKKAAGIE GS +P       +TL  +YEIAK+K  D       L+S  
Sbjct: 60  FEVKTPPASALLKKAAGIEKGSKKPNKEKVGNITLDQVYEIAKIKLPD--LNAKTLKSAV 117

Query: 137 KSIIGTAATMGIKV 150
           K I+GTA +MGI V
Sbjct: 118 KEILGTARSMGITV 131

Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal protein L12, which is distinct from the L12 involved in the formation of the L7/L12 stalk. The C-terminal domain (CTD) of L11 is essential for binding 23S rRNA, while the N-terminal domain (NTD) contains the binding site for the antibiotics thiostrepton and micrococcin. L11 and 23S rRNA form an essential part of the GTPase-associated region (GAR). Based on differences in the relative positions of the L11 NTD and CTD during the translational cycle, L11 is proposed to play a significant role in the binding of initiation factors, elongation factors, and release factors to the ribosome. Several factors, including the class I release factors RF1 and RF2, are known to interact directly with L11. In eukaryotes, L11 has been implicated in regulating the levels of ubiquinated p53 and MDM2 in the MDM2-p53 feedback loop, which is responsible for apoptosis in response to DNA damage. In bacteria, the "stringent response" to harsh conditions allows bacteria to survive, and ribosomes that lack L11 are deficient in stringent factor stimulation. Length = 131

>gnl|CDD|197819 smart00649, RL11, Ribosomal protein L11/L12

 Score =  179 bits (456), Expect = 4e-59
 Identities = 68/135 (50%), Positives = 89/135 (65%), Gaps = 3/135 (2%)

Query: 17  IRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFE 76
           I+L +PAG A PAPP+GPALGQ  +N+M FCK+FNART+  K   P+ V IT + D +F 
Sbjct: 1   IKLQIPAGKANPAPPLGPALGQLGINIMEFCKEFNARTKD-KKGLPIPVKITVYNDKSFT 59

Query: 77  FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESIC 136
           F +K+P  +  LKKAAGIE GS +PG      +TL  +YEIAK+K+ D       LE+  
Sbjct: 60  FILKTPPASALLKKAAGIEKGSKKPGKKKVGNITLDQVYEIAKIKRPD--LNAKDLEAAV 117

Query: 137 KSIIGTAATMGIKVV 151
           K I+GTA +MGI V 
Sbjct: 118 KEILGTARSMGITVE 132

Length = 132

>gnl|CDD|234661 PRK00140, rplK, 50S ribosomal protein L11; Validated

 Score =  156 bits (398), Expect = 4e-50
 Identities = 64/139 (46%), Positives = 82/139 (58%), Gaps = 3/139 (2%)

Query: 13  VAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           V   I+L +PAG A PAPPVGPALGQ  +N+M FCK FNARTQ  +   P+ V IT ++D
Sbjct: 5   VVGYIKLQIPAGKANPAPPVGPALGQRGVNIMEFCKAFNARTQD-QKGLPIPVVITVYED 63

Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F  K+P  +  LKKAAGIE GS  P       +T   + EIA+ K  D       +
Sbjct: 64  RSFTFITKTPPASVLLKKAAGIEKGSGEPNKEKVGKITRAQVREIAETKMPDLNAA--DI 121

Query: 133 ESICKSIIGTAATMGIKVV 151
           E+  + I GTA +MGI V 
Sbjct: 122 EAAMRMIAGTARSMGIVVE 140

Length = 141

>gnl|CDD|223158 COG0080, RplK, Ribosomal protein L11 [Translation, ribosomal structure and biogenesis]

 Score =  153 bits (388), Expect = 1e-48
 Identities = 67/139 (48%), Positives = 87/139 (62%), Gaps = 3/139 (2%)

Query: 13  VAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           V   I+L VPAG A P+PPVGPALGQ  +N+M FCK+FNA T+  K   P+ V IT ++D
Sbjct: 4   VVKIIKLQVPAGKANPSPPVGPALGQLGVNIMEFCKEFNAATKDEK-GLPVPVVITVYED 62

Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F VK+P  +  LKKAAGIE GS +P       +TL  + EIAK K  D   +   L
Sbjct: 63  RSFTFIVKTPPASALLKKAAGIEKGSGKPNKNKVGKLTLAQVREIAKTKMPDLNAK--DL 120

Query: 133 ESICKSIIGTAATMGIKVV 151
           E+  K I+GTA +MG+ V 
Sbjct: 121 EAAVKEILGTARSMGVTVE 139

Length = 141

>gnl|CDD|177049 CHL00127, rpl11, ribosomal protein L11; Validated

 Score =  112 bits (282), Expect = 1e-32
 Identities = 57/139 (41%), Positives = 82/139 (58%), Gaps = 3/139 (2%)

Query: 13  VAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
             A I+L +PAG A PAPPVGPALGQ+ +N+  FCK++NART+       + V I+ ++D
Sbjct: 5   KLAIIKLALPAGKATPAPPVGPALGQHGVNINLFCKEYNARTKDKI-GLIIPVEISVYED 63

Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            ++ F +K+P  +  L KAAGI+ GS  P      ++T+K + EIA++K  D       L
Sbjct: 64  KSYTFILKTPPASVLLAKAAGIKKGSGEPNKKKVGSITIKQLEEIAQIKLPDLNTI--SL 121

Query: 133 ESICKSIIGTAATMGIKVV 151
               K I GTA  MGI + 
Sbjct: 122 SKAIKIIEGTAKNMGISIK 140

Length = 140

>gnl|CDD|189492 pfam00298, Ribosomal_L11, Ribosomal protein L11, RNA binding domain

 Score =  100 bits (253), Expect = 4e-29
 Identities = 36/71 (50%), Positives = 46/71 (64%), Gaps = 2/71 (2%)

Query: 80  KSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSI 139
           K+P  ++ LKKAAGIE GS +PG      +TLK +YEIAK+K  D       LE+  K I
Sbjct: 1   KTPPASYLLKKAAGIEKGSGKPGKEKVGKITLKQVYEIAKIKMPDLNA--NDLEAAVKII 58

Query: 140 IGTAATMGIKV 150
           IGTA +MGI+V
Sbjct: 59  IGTARSMGIEV 69

Length = 69

>gnl|CDD|234908 PRK01143, rpl11p, 50S ribosomal protein L11P; Validated

 Score = 88.8 bits (221), Expect = 3e-23
 Identities = 43/141 (30%), Positives = 69/141 (48%), Gaps = 10/141 (7%)

Query: 14  AATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITA-FKD 72
              + + V  G A P PP+GPALG   LN+    ++ N +T+ +K    + V +      
Sbjct: 2   KKVVEVLVEGGKATPGPPLGPALGPLGLNVKQVVQEINEKTKDFK-GMQVPVKVIVDTDT 60

Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM-- 130
             FE  V  P  T  +KK  GIE GS  PGH     ++ + + +IA +K+ D     +  
Sbjct: 61  KKFEIEVGIPPTTALIKKELGIEKGSGEPGHEVVGNLSFEQVVKIAIMKKDD-----LLS 115

Query: 131 -PLESICKSIIGTAATMGIKV 150
             L++  K ++GT  +MG+ V
Sbjct: 116 YDLKAAVKEVLGTCVSMGVTV 136

Length = 163

>gnl|CDD|217808 pfam03946, Ribosomal_L11_N, Ribosomal protein L11, N-terminal domain

 Score = 84.9 bits (211), Expect = 8e-23
 Identities = 34/60 (56%), Positives = 43/60 (71%), Gaps = 1/60 (1%)

Query: 16 TIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTF 75
           I+L VPAG A PAPP+GPALGQ  +N+M FCK+FNA T+ YK   P+ V IT + D +F
Sbjct: 1  VIKLQVPAGKANPAPPLGPALGQLGVNIMEFCKEFNAATKDYK-GLPVPVKITVYNDRSF 59

The N-terminal domain of Ribosomal protein L11 adopts an alpha/beta fold and is followed by the RNA binding C-terminal domain. Length = 59

>gnl|CDD|184732 PRK14539, PRK14539, 50S ribosomal protein L11/unknown domain fusion protein; Provisional

 Score = 72.3 bits (177), Expect = 2e-16
 Identities = 48/143 (33%), Positives = 74/143 (51%), Gaps = 7/143 (4%)

Query: 8   LTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTI 67
           + ++ V    +L   AG A+P    GP+L    +N+  F K FN  T+    E P+ V I
Sbjct: 1   MAKKEVVKVAKLQFNAGQAKP----GPSLAGVGINMPEFTKQFNDATRDRGGE-PVPVQI 55

Query: 68  TAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYC 127
           T +KD +F+F + +   ++ +K+AA I+SGS+        T+TL  + EIAK K  D   
Sbjct: 56  TVYKDKSFDFKLFTAPASFKIKQAAKIKSGSANSKTTIVGTITLSQLEEIAKYKLPD--L 113

Query: 128 QYMPLESICKSIIGTAATMGIKV 150
               +E    +I GTA  MG+ V
Sbjct: 114 NTDDVEEAMHTIAGTAKNMGVLV 136

Length = 196

>gnl|CDD|240358 PTZ00321, PTZ00321, ribosomal protein L11; Provisional

 Score = 72.7 bits (178), Expect = 6e-16
 Identities = 44/140 (31%), Positives = 71/140 (50%), Gaps = 7/140 (5%)

Query: 18  RLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQ-KYKPETPMSVTITAFKDNTFE 76
           R  + AG A   PPVG    +  L  M F K FN RT+  +K +  + V I  + D ++ 
Sbjct: 54  RFFIKAGKAATGPPVGQEFSKLGLKAMDFAKSFNDRTKPHFKDDVELIVRIQVYFDKSYL 113

Query: 77  FTVKSPSVTWYLKKAAGIESGSSRP----GHVTASTVTLKHIYEIAKVKQ-SDPYCQYMP 131
           FT++ P   W++ +A   +   + P    GH  A  +TL+  YEIAK+K  S    +Y  
Sbjct: 114 FTIEPPPTAWFILRALRKKRRETGPVPLRGHYCA-LMTLEMAYEIAKMKPRSWGRPEYPL 172

Query: 132 LESICKSIIGTAATMGIKVV 151
           +E+  + ++G A  MG+  +
Sbjct: 173 IETRVRRVVGQARRMGVCFI 192

Length = 342

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	155
COG0080	141	RplK Ribosomal protein L11 [Translation, ribosomal	100.0
TIGR01632	140	L11_bact 50S ribosomal protein L11. This model rep	100.0
CHL00127	140	rpl11 ribosomal protein L11; Validated	100.0
PRK00140	141	rplK 50S ribosomal protein L11; Validated	100.0
PRK01143	163	rpl11p 50S ribosomal protein L11P; Validated	100.0
smart00649	132	RL11 Ribosomal protein L11/L12.	100.0
cd00349	131	Ribosomal_L11 Ribosomal protein L11. Ribosomal pro	100.0
PTZ00321	342	ribosomal protein L11; Provisional	100.0
PLN03072	166	60S ribosomal protein L12; Provisional	100.0
PRK14539	196	50S ribosomal protein L11/unknown domain fusion pr	100.0
KOG3257	168	consensus Mitochondrial/chloroplast ribosomal prot	100.0
PTZ00105	140	60S ribosomal protein L12; Provisional	100.0
KOG0886	167	consensus 40S ribosomal protein S2 [Translation, r	99.97
PF00298	69	Ribosomal_L11: Ribosomal protein L11, RNA binding	99.96
PF03946	60	Ribosomal_L11_N: Ribosomal protein L11, N-terminal	99.96

>COG0080 RplK Ribosomal protein L11 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=7.2e-63  Score=378.61  Aligned_cols=140  Identities=47%  Similarity=0.760  Sum_probs=135.3

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHH
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKK   90 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likk   90 (155)
                      +++.++|+|+++||+|+|+|||||+|||+|||+|+|||+||++|+++ +|++|||+||||+||||+|++++||+|+||+|
T Consensus         2 ~k~~~~ikl~v~aGkA~p~PpvGPALG~~Gvni~~f~k~fN~~T~~~-~G~~vPV~Itv~~drsftf~~ktPPas~LlkK   80 (141)
T COG0080           2 KKVVKIIKLQVPAGKANPSPPVGPALGQLGVNIMEFCKEFNAATKDE-KGLPVPVVITVYEDRSFTFIVKTPPASALLKK   80 (141)
T ss_pred             CccceEEEEEecccccCCCCCCCccccccCCCHHHHHHHHHHHhhcc-CCCeeeEEEEEEcCCcEEEEECCCCHHHHHHH
Confidence            34889999999999999999999999999999999999999999995 59999999999999999999999999999999


Q ss_pred             HhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           91 AAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        91 a~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      ++|+++||++|+++++|+||++||+|||++|++|++  +.+|++++|+|+||||||||+|++.
T Consensus        81 a~g~~~Gs~~p~k~~vG~lt~~qv~eIA~~K~~dl~--a~~l~aA~k~I~GTa~SMGv~Veg~  141 (141)
T COG0080          81 AAGIEKGSGKPNKNKVGKLTLAQVREIAKTKMPDLN--AKDLEAAVKEILGTARSMGVTVEGK  141 (141)
T ss_pred             HhCCCCCCCCCCcceeeeeeHHHHHHHHHHhhhhhh--hHHHHHHHHHHhhhhhhceEEeecC
Confidence            999999999999999999999999999999999965  8899999999999999999999974

>TIGR01632 L11_bact 50S ribosomal protein L11

Probab=100.00  E-value=1.2e-62  Score=379.05  Aligned_cols=140  Identities=49%  Similarity=0.828  Sum_probs=135.2

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHH
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKK   90 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likk   90 (155)
                      |++.++|+|+++||+|+|+|||||+|||+|||+|+||||||++|++|..|++|||+|+||+||+|+|++++||+||||+|
T Consensus         1 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gini~~f~k~fN~~T~~~~~G~~vpV~Itv~~drsf~~~v~~Pp~s~ll~k   80 (140)
T TIGR01632         1 KKIVGIIKLQVPAGQANPAPPVGPALGQRGVNIMEFCKQFNARTADYEPGLPVPVVITVYEDKSFTFIVKTPPVSYLLKK   80 (140)
T ss_pred             CceEEEEEEEEeccccCCCCCCcccccccCCCHHHHHHHHHHHHhhhcCCCeEEEEEEEeCCCeEEEEEcCCCHHHHHHH
Confidence            35789999999999999999999999999999999999999999996669999999999999999999999999999999


Q ss_pred             HhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEec
Q 031693           91 AAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVK  152 (155)
Q Consensus        91 a~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~  152 (155)
                      ++|+++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|++
T Consensus        81 aag~~~gs~~p~~~~~G~it~~qv~eIA~~K~~d~~--~~~l~~~vk~v~GTarSmGi~V~~  140 (140)
T TIGR01632        81 AAGVEKGSKNPKKEKVGKITRKQVREIAEIKMSDLN--TKDIEAAMKIIAGTAKSMGIEIVG  140 (140)
T ss_pred             HhCCCCCCCCCCCeEEeEecHHHHHHHHHHHHHHhC--cccHHHHHHHhheeHeeceEEEeC
Confidence            999999999999999999999999999999999965  889999999999999999999985

This model represents bacterial, chloroplast, and most mitochondrial forms of 50S ribosomal protein L11.

>CHL00127 rpl11 ribosomal protein L11; Validated

Probab=100.00  E-value=2.7e-61  Score=371.54  Aligned_cols=138  Identities=41%  Similarity=0.688  Sum_probs=133.5

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHH
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKK   90 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likk   90 (155)
                      |++.++|+|+++||+|+|+|||||+|||+|||+|+||||||++|++|+ |++|||+|+||+||+|+|++++||+||||+|
T Consensus         3 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gini~~f~k~fN~~T~~~~-g~~vpV~Itv~~drsf~~~v~~Pp~s~ll~k   81 (140)
T CHL00127          3 KKKLAIIKLALPAGKATPAPPVGPALGQHGVNINLFCKEYNARTKDKI-GLIIPVEISVYEDKSYTFILKTPPASVLLAK   81 (140)
T ss_pred             cccccEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHhhhcC-CCeEEEEEEEeCCceEEEEEcCCCHHHHHHH
Confidence            457889999999999999999999999999999999999999999985 9999999999999999999999999999999


Q ss_pred             HhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEe
Q 031693           91 AAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV  151 (155)
Q Consensus        91 a~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~  151 (155)
                      ++|+++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|.
T Consensus        82 a~gi~~gs~~p~~~~~G~it~~~v~eIA~~K~~d~~--~~~l~~~vk~v~GTa~SmGi~V~  140 (140)
T CHL00127         82 AAGIKKGSGEPNKKKVGSITIKQLEEIAQIKLPDLN--TISLSKAIKIIEGTAKNMGISIK  140 (140)
T ss_pred             HhCCCcCCCCCCCeecceecHHHHHHHHHHHhhhhc--cccHHHHHHHhHeeheeceEEeC
Confidence            999999999999999999999999999999999965  88999999999999999999984

>PRK00140 rplK 50S ribosomal protein L11; Validated

Probab=100.00  E-value=3.5e-61  Score=371.26  Aligned_cols=139  Identities=46%  Similarity=0.727  Sum_probs=134.9

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHH
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKK   90 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likk   90 (155)
                      |++.++|+|+++||+|+|+|||||+|||+|||+|+||||||++|++| .|++|||+|+||+||+|+|++++||+||||+|
T Consensus         3 k~~~~~ikl~v~aG~A~p~PplgP~LG~~Gini~~f~k~fN~~T~~~-~g~~vpV~i~v~~drsf~~~v~~Pp~s~ll~k   81 (141)
T PRK00140          3 KKVVGYIKLQIPAGKANPAPPVGPALGQRGVNIMEFCKAFNARTQDQ-KGLPIPVVITVYEDRSFTFITKTPPASVLLKK   81 (141)
T ss_pred             cccceEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHHhhc-CCCeEEEEEEEecCCeEEEEEcCCCHHHHHHH
Confidence            45788999999999999999999999999999999999999999999 59999999999999999999999999999999


Q ss_pred             HhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEec
Q 031693           91 AAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVK  152 (155)
Q Consensus        91 a~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~  152 (155)
                      ++|+++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+|||+||||+|++
T Consensus        82 ~~g~~~gs~~p~~~~vG~it~~~v~eIA~~K~~d~~--~~~l~~~vk~VlGTa~SmGi~V~g  141 (141)
T PRK00140         82 AAGIEKGSGEPNKEKVGKITRAQVREIAETKMPDLN--AADIEAAMRMIAGTARSMGIVVEG  141 (141)
T ss_pred             HhCCCCCCCCCCCeEEeeEcHHHHHHHHHHHHHhhC--CCcHHHHHHHhheeeeEeeEEEeC
Confidence            999999999999999999999999999999999965  889999999999999999999985

>PRK01143 rpl11p 50S ribosomal protein L11P; Validated

Probab=100.00  E-value=9.9e-60  Score=370.68  Aligned_cols=136  Identities=32%  Similarity=0.583  Sum_probs=132.6

Q ss_pred             eEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEe-cCCCeEEEEEeCCCHHHHHHHHhC
Q 031693           15 ATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITA-FKDNTFEFTVKSPSVTWYLKKAAG   93 (155)
Q Consensus        15 ~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v-~~drsf~~~v~~Ppts~likka~g   93 (155)
                      ++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++|++|+ |++|||+|+| |+||+|+|++++||+||||+|++|
T Consensus         3 ~~ikl~v~aG~A~p~PplGPaLG~~Gini~~f~k~fN~~T~~~~-g~~vpV~Itv~~~drsf~~~vk~Pp~s~ll~kaag   81 (163)
T PRK01143          3 KVVEVLVEGGKATPGPPLGPALGPLGLNVKQVVQEINEKTKDFK-GMQVPVKVIVDTDTKKFEIEVGIPPTTALIKKELG   81 (163)
T ss_pred             eEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHhhhcC-CCeEeEEEEEEeCCceEEEEECCCCHHHHHHHHhC
Confidence            68999999999999999999999999999999999999999995 9999999999 999999999999999999999999


Q ss_pred             CCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           94 IESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        94 ~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      +++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|+++
T Consensus        82 ~~kgs~~p~~~~vG~It~~qv~eIA~~K~~d~~--~~~l~~~vk~VlGTarSmGi~V~g~  139 (163)
T PRK01143         82 IEKGSGEPGHEVVGNLSFEQVVKIAIMKKDDLL--SYDLKAAVKEVLGTCVSMGVTVEGK  139 (163)
T ss_pred             CcCCCCCCCCceeeeecHHHHHHHHHHHhhhhc--cccHHHHHHHHHhhHhhceEEEecC
Confidence            999999999999999999999999999999966  8899999999999999999999875

>smart00649 RL11 Ribosomal protein L11/L12

Probab=100.00  E-value=7.3e-60  Score=360.40  Aligned_cols=132  Identities=52%  Similarity=0.903  Sum_probs=128.6

Q ss_pred             EEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHHHhCCCC
Q 031693           17 IRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIES   96 (155)
Q Consensus        17 ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likka~g~~~   96 (155)
                      |+|+|+||+|+|+|||||+|||+|||+|+||||||++|++|+ |++|||+|+||+||+|+|++++||+||||+|++|+++
T Consensus         1 ikl~v~aG~A~p~PplgP~LG~~Gini~~f~k~fN~~T~~~~-g~~vpV~I~v~~dksf~~~v~~P~~s~ll~k~~g~~k   79 (132)
T smart00649        1 IKLQIPAGKANPAPPLGPALGQLGINIMEFCKEFNARTKDKK-GLPIPVKITVYNDKSFTFIIKTPPASFLLKKAAGIEK   79 (132)
T ss_pred             CEEEEecCccCCCCCcccccccCCCCHHHHHHHHHHHHhhcC-CCeEeEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCC
Confidence            689999999999999999999999999999999999999975 9999999999999999999999999999999999999


Q ss_pred             CCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEe
Q 031693           97 GSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV  151 (155)
Q Consensus        97 gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~  151 (155)
                      ||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+|||+||||+|+
T Consensus        80 gs~~p~~~~~g~it~~~v~eIA~~K~~d~~--~~~l~~~~k~V~GTa~SmGi~V~  132 (132)
T smart00649       80 GSKKPGKKKVGNITLDQVYEIAKIKRPDLN--AKDLEAAVKEILGTARSMGITVE  132 (132)
T ss_pred             CCCCCCCeeeeEEcHHHHHHHHHHHHHHhc--chhHHHHHHHHHhhHhcceEEeC
Confidence            999999999999999999999999999955  88999999999999999999985

>cd00349 Ribosomal_L11 Ribosomal protein L11

Probab=100.00  E-value=3.8e-59  Score=356.05  Aligned_cols=131  Identities=53%  Similarity=0.881  Sum_probs=127.9

Q ss_pred             EEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHHHhCCCC
Q 031693           17 IRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIES   96 (155)
Q Consensus        17 ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likka~g~~~   96 (155)
                      |+|+|+||+|+|+|||||+|||+|||+|+|||+||++|++| .|++|||+|+||+||+|+|++++||+||||+|++|+++
T Consensus         1 ikl~v~aG~A~p~PplgP~LG~~Gin~~~f~k~fN~~T~~~-~g~~vpV~itv~~dksf~~~v~~Pp~s~ll~ka~g~~k   79 (131)
T cd00349           1 IKLQVPAGKASPAPPLGPALGQLGVNIMKFCKEFNARTKDY-KGLPVPVKITVYNDRSFTFEVKTPPASALLKKAAGIEK   79 (131)
T ss_pred             CEEEEecCccCCCCCcccccccCCCCHHHHHHHHHHHHhhc-CCCeEEEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCC
Confidence            58999999999999999999999999999999999999999 59999999999999999999999999999999999999


Q ss_pred             CCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEE
Q 031693           97 GSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKV  150 (155)
Q Consensus        97 gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V  150 (155)
                      ||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+|||+||||+|
T Consensus        80 gs~~~~~~~~g~it~~~v~eIA~~K~~dl~--~~~l~~~vk~v~GTa~SmGi~V  131 (131)
T cd00349          80 GSKKPNKEKVGNITLDQVYEIAKIKLPDLN--AKTLKSAVKEILGTARSMGITV  131 (131)
T ss_pred             CCCCCCCeeeeeecHHHHHHHHHHHHhhhc--chhHHHHHHHHHhhHhhCeEEC
Confidence            999999999999999999999999999955  8899999999999999999986

Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal protein L12, which is distinct from the L12 involved in the formation of the L7/L12 stalk. The C-terminal domain (CTD) of L11 is essential for binding 23S rRNA, while the N-terminal domain (NTD) contains the binding site for the antibiotics thiostrepton and micrococcin. L11 and 23S rRNA form an essential part of the GTPase-associated region (GAR). Based on differences in the relative positions of the L11 NTD and CTD during the translational cycle, L11 is proposed to play a significant role in the binding of initiation factors, elongation factors, and release factors to the ribosome. Several factors, including the class I release factors RF1 and RF2, are known to interact directly with L11. In eukaryotes, L11 has been im

>PTZ00321 ribosomal protein L11; Provisional

Probab=100.00  E-value=1.1e-58  Score=392.55  Aligned_cols=153  Identities=29%  Similarity=0.510  Sum_probs=143.3

Q ss_pred             ChhhHhhhhc-----cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhC-CCCCCceEEEEEecCCCe
Q 031693            1 MATLKEILTR-----RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQK-YKPETPMSVTITAFKDNT   74 (155)
Q Consensus         1 ~~~~~~~~~~-----k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~-~~~g~~vpV~i~v~~drs   74 (155)
                      |+++++|+..     |++.+.|||+|+||+|+|+|||||+|||+|||+|+|||+||++|++ |+.|++|||+|+||+|||
T Consensus        32 ~~~~~~~~~~~~~~~KkV~~~IKL~VpAGKAtPaPPVGPALGq~GVNImqFCKeFNerTK~~fk~GvpVPV~ITVy~DKS  111 (342)
T PTZ00321         32 MAKAKDIFAVPEFPGKRVLHNWRFFIKAGKAATGPPVGQEFSKLGLKAMDFAKSFNDRTKPHFKDDVELIVRIQVYFDKS  111 (342)
T ss_pred             HHhhhhcccCCCCCCCeeeEEEEEEEECCCcCCCCCCcccccccCCCHHHHHHHHHHHHHhhccCCCeEeEEEEEeCCCe
Confidence            4677888855     7899999999999999999999999999999999999999999997 788999999999999999


Q ss_pred             EEEEEeCCCHHHHHHHHhCCCCCCCCC--CC-eeeecccHHHHHHHHHhcccCCC-CCCCCHHHHHHHHHHhhhhcCeEE
Q 031693           75 FEFTVKSPSVTWYLKKAAGIESGSSRP--GH-VTASTVTLKHIYEIAKVKQSDPY-CQYMPLESICKSIIGTAATMGIKV  150 (155)
Q Consensus        75 f~~~v~~Ppts~likka~g~~~gs~~p--~~-~~vG~It~~~v~eIAk~K~~d~~-~~~~~l~~~~k~VlGTa~SmGi~V  150 (155)
                      |+|++++||+||||+|++|+++||++|  ++ +++|+||++||||||++|++|++ +++.+|+++||+|+|||+||||+|
T Consensus       112 F~F~IktPPtS~LLKKAAGI~KGS~~P~~~k~e~VG~ITlkQVyEIAkiK~~DLnal~~~~LesAvK~ViGTARSMGIkV  191 (342)
T PTZ00321        112 YLFTIEPPPTAWFILRALRKKRRETGPVPLRGHYCALMTLEMAYEIAKMKPRSWGRPEYPLIETRVRRVVGQARRMGVCF  191 (342)
T ss_pred             EEEEECCCCHHHHHHHHhCCCCCCCCCCCCCCceEEeccHHHHHHHHHHhhhccccccccCHHHHHHHHHhhHhcCeEEE
Confidence            999999999999999999999999999  33 89999999999999999999976 345799999999999999999999


Q ss_pred             ecc
Q 031693          151 VKE  153 (155)
Q Consensus       151 ~~~  153 (155)
                      ++.
T Consensus       192 eGK  194 (342)
T PTZ00321        192 IGV  194 (342)
T ss_pred             ecc
Confidence            974

>PLN03072 60S ribosomal protein L12; Provisional

Probab=100.00  E-value=4e-57  Score=356.58  Aligned_cols=134  Identities=22%  Similarity=0.313  Sum_probs=128.7

Q ss_pred             eEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhC-CCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHHHhC
Q 031693           15 ATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQK-YKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAG   93 (155)
Q Consensus        15 ~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~-~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likka~g   93 (155)
                      .+|+|+|+||+|+|+|||||+|||+|||+|+||++||++|++ |+ |++|||+|+||+ |||+|++ +||+|+||+|+||
T Consensus        11 ~~i~l~v~aG~A~P~PplGPaLG~~GvNi~~f~k~fN~~T~~~~~-G~~VpV~Itv~~-rsf~~~v-~Pp~s~LLkKa~g   87 (166)
T PLN03072         11 VEVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWK-GLRVTVKLTVQN-RQAKVSV-VPSAAALVIKALK   87 (166)
T ss_pred             EEEEEEEEcCccCCCCCCccccccCCCCHHHHHHHHHHHhhhhcC-CCeEEEEEEEEC-CeEEEEe-CCCHHHHHHHHhC
Confidence            389999999999999999999999999999999999999996 85 999999999997 9999999 9999999999999


Q ss_pred             CCCCCCC--CCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           94 IESGSSR--PGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        94 ~~~gs~~--p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      +++||++  |+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|+++
T Consensus        88 ~~kgs~~~~~~~~~vG~it~~qv~eIA~~K~~dl~--a~~l~~avk~VlGTarSmGi~V~gk  147 (166)
T PLN03072         88 EPERDRKKVKNIKHNGNISLDDVIEIAKIMRPRSM--AKELAGTVKEILGTCVSVGCTVDGK  147 (166)
T ss_pred             CCCCCCccCCCCeeeeeecHHHHHHHHHHHHHHhC--cccHHHHHHHhHheeeeCeEEEeCC
Confidence            9999998  78899999999999999999999965  8899999999999999999999985

>PRK14539 50S ribosomal protein L11/unknown domain fusion protein; Provisional

Probab=100.00  E-value=4.7e-57  Score=363.13  Aligned_cols=138  Identities=34%  Similarity=0.522  Sum_probs=131.1

Q ss_pred             hccceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHH
Q 031693            9 TRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYL   88 (155)
Q Consensus         9 ~~k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~li   88 (155)
                      ++|++.++|+|+|+||+|+|    ||+|||+|||+|+||++||++|++|. |++|||+|+||+||||+|++++||+||||
T Consensus         2 m~kki~~~Ikl~v~AGkA~P----GPaLG~~GVNi~~FcKefN~~Tk~~~-G~~VPV~ItV~~DRsf~f~vktPptS~LL   76 (196)
T PRK14539          2 AKKEVVKVAKLQFNAGQAKP----GPSLAGVGINMPEFTKQFNDATRDRG-GEPVPVQITVYKDKSFDFKLFTAPASFKI   76 (196)
T ss_pred             ccchhheEEEEEEECCccCC----CCcccccCCCHHHHHHHHHHHhhhcC-CceEEEEEEEecCCeEEEEEeCCCHHHHH
Confidence            44668899999999999999    56688999999999999999999984 99999999999999999999999999999


Q ss_pred             HHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           89 KKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        89 kka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      +|++|+++||++|+++++|+||++||||||++|++|++  +.+|+++||+|+||||||||+|++.
T Consensus        77 kKaagi~kGs~~p~k~~vG~Itl~qv~eIAk~K~~Dl~--~~~Le~avK~VlGTArSMGI~Veg~  139 (196)
T PRK14539         77 KQAAKIKSGSANSKTTIVGTITLSQLEEIAKYKLPDLN--TDDVEEAMHTIAGTAKNMGVLVEGY  139 (196)
T ss_pred             HHHhCCCCCCCCCCCeEEEEecHHHHHHHHHHHhhhhC--CCcHHHHHHHHHhhheeCeEEEEcc
Confidence            99999999999999999999999999999999999965  7899999999999999999999874

>KOG3257 consensus Mitochondrial/chloroplast ribosomal protein L11 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=3.8e-57  Score=352.12  Aligned_cols=147  Identities=55%  Similarity=0.898  Sum_probs=141.5

Q ss_pred             hhhccceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHH
Q 031693            7 ILTRRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTW   86 (155)
Q Consensus         7 ~~~~k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~   86 (155)
                      -+.+..+...+||.++||.|.|+||+||+|||+|+|+++||||||++|++|++|+|+|++||+.+||||+|++++||+||
T Consensus        12 ~~~k~~h~~~ikl~v~Ag~A~~~pp~gP~Lgqr~l~viafckefnarT~~~k~~vplp~kiTv~pDrsftf~iktPpts~   91 (168)
T KOG3257|consen   12 PISKLSHSASIKLIVKAGLAAPAPPLGPALGQRGLNVIAFCKEFNARTKKVKPGVPLPGKITVKPDRSFTFIIKTPPTSW   91 (168)
T ss_pred             ccccccceeEEEEeeccccccCCCCCCchhhhcchhHHHhchhhhhhhccccCCCccceeEeecCCCeEEEEecCCChHH
Confidence            34456678899999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           87 YLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        87 likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      ||+||||+++||.+|+++.+|.||++||||||++|.+|+++...+|+++||+|+|||+||||+|+..
T Consensus        92 lL~kAagv~KGs~~p~~~~vG~lTlkhvyeIAkiK~~D~~~q~~~lesi~rsiigtA~smGIkVvp~  158 (168)
T KOG3257|consen   92 LLKKAAGVEKGSKDPGQEKVGMLTLKHVYEIAKIKLPDPNLQCTTLESICRSIIGTARSMGIKVVPP  158 (168)
T ss_pred             HHHHHhCcccCCCCCcceeeeeEEHHHHHHHHHhhcCCcccccccHHHHHHHHHHHHHhCccccchh
Confidence            9999999999999999999999999999999999999999888999999999999999999999863

>PTZ00105 60S ribosomal protein L12; Provisional

Probab=100.00  E-value=1.8e-50  Score=311.45  Aligned_cols=119  Identities=18%  Similarity=0.291  Sum_probs=113.0

Q ss_pred             CCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHHHhCCCCCCCCCCCe--eee
Q 031693           30 PPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHV--TAS  107 (155)
Q Consensus        30 PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likka~g~~~gs~~p~~~--~vG  107 (155)
                      +||||+|||+|||+|+|||+||++|++|+ |++|||+|+|| ||||+|++ .||+|+||+|++|++.++.+++++  ++|
T Consensus         1 ~~lGPaLG~~GvNi~~fck~fN~~T~~~~-G~~vpV~Itv~-drsf~~~v-~Pp~s~ll~k~ag~~~~~~~~~~~~~~vG   77 (140)
T PTZ00105          1 SSLAPKVGPLGLSPKKVGDDIAKATKDWK-GLKVTVKLTVQ-NRQATVEV-VPTASSLLIKALKEPPRDRKKVKNIKHSG   77 (140)
T ss_pred             CCCccccccCCCCHHHHHHHHHHHHhhcC-CCeEEEEEEEE-CCEEEEEE-CCCHHHHHHHHhCCCCCCCCCCCcceeee
Confidence            68999999999999999999999999985 99999999999 89999999 599999999999988888888876  999


Q ss_pred             cccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693          108 TVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus       108 ~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      +||++||||||+.|++|++  +.+|+++||+|+||||||||+|+++
T Consensus        78 ~it~~qv~eIAk~K~~dl~--~~~l~~a~k~V~GTarSmGi~V~gk  121 (140)
T PTZ00105         78 NLTFDQVIKIARTMRPKSM--AKTFKGTVKEVLGTCVSIGCTVDGE  121 (140)
T ss_pred             EeeHHHHHHHHHHHHhhhC--CCcHHHHHHHHHhhheeeeEEEECC
Confidence            9999999999999999965  8899999999999999999999985

>KOG0886 consensus 40S ribosomal protein S2 [Translation, ribosomal structure and biogenesis]

Probab=99.97  E-value=8.7e-31  Score=202.06  Aligned_cols=136  Identities=21%  Similarity=0.291  Sum_probs=129.0

Q ss_pred             eeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHHHh
Q 031693           13 VAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAA   92 (155)
Q Consensus        13 ~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likka~   92 (155)
                      -..+|+|+|.||+...+..|+|.+||+|+.+..+.+++-++|++|+ |..+.|.++|+ ||...+++ .|++|.||+|+|
T Consensus        11 eiK~vylrc~GgEVgatsaLApKIgPLGLSpKkvGedIaKaT~dwK-gl~vtvkLtIq-nR~A~i~V-vpSasaLiIkaL   87 (167)
T KOG0886|consen   11 EIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGEDIAKATGDWK-GLRVTVKLTIQ-NRQAQIEV-VPSASALIIKAL   87 (167)
T ss_pred             ceEEEEEEeecCccccccccccccccccCCccccchHHHHhhcccc-cceEEEEEEec-CcccceEE-cccHHHHHHHHh
Confidence            3578999999999999999999999999999999999999999998 99999999998 99999999 899999999999


Q ss_pred             CCCCCCCCC--CCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           93 GIESGSSRP--GHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        93 g~~~gs~~p--~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      ++++++++.  +..|.|+|+|+++.+||+++.+.++  ++.|.+++++|+|||+|+||+|++.
T Consensus        88 KEPpRDRKk~knikh~Gni~~deiv~iar~mr~rS~--a~~l~gt~keilgt~~svgc~vDgk  148 (167)
T KOG0886|consen   88 KEPPRDRKKQKNIKHSGNITFDEIVEIARIMRPRSL--ARELSGTVKEILGTAQSVGCTVDGK  148 (167)
T ss_pred             cCCcchhhhhccccccCcccHHHHHHHHHHhhhHhh--hhhhhhhHHHHhchhhhcccccCCC
Confidence            999998765  4589999999999999999999887  7899999999999999999999975

>PF00298 Ribosomal_L11: Ribosomal protein L11, RNA binding domain; InterPro: IPR020783 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.96  E-value=5.4e-30  Score=176.42  Aligned_cols=69  Identities=61%  Similarity=0.900  Sum_probs=67.0

Q ss_pred             eCCCHHHHHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEE
Q 031693           80 KSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKV  150 (155)
Q Consensus        80 ~~Ppts~likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V  150 (155)
                      ++||+||||+|++|+++||++|+++.+|+||++||||||++|++|++  +.+|+++||+|+||||||||+|
T Consensus         1 K~Pp~s~llkkaagi~kGs~~p~~~~vG~it~~~i~eIAk~K~~d~~--~~~l~~~~k~v~Gta~SmGi~V   69 (69)
T PF00298_consen    1 KTPPTSWLLKKAAGIKKGSSKPGKEKVGTITLKQIYEIAKIKQKDLN--AKSLESAVKSVIGTARSMGIKV   69 (69)
T ss_dssp             SSSTHHHHHHHHHTTSSSSSSTTTSSSEEEEHHHHHHHHHHHTTTSS--SSSHHHHHHHHHHHHHTTTEEE
T ss_pred             CCCChHHHHHHHhCCCCCCCCCCCceeeeecHHHHHHHHHHhhcccc--cCCHHHHHHHHHHHHhcCceEC
Confidence            58999999999999999999999999999999999999999999975  8899999999999999999987

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 L11 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L11 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ], groups bacteria, plant chloroplast, red algal chloroplast, cyanelle and archaeabacterial L11; and mammalian, plant and yeast L12 (YL15). L11 is a protein of 140 to 165 amino-acid residues. In E. coli, the C-terminal half of L11 has been shown [] to be in an extended and loosely folded conformation and is likely to be buried within the ribosomal structure.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 1VQN_I 2OTJ_I 3G6E_I 3CME_I 1YIJ_I 1YI2_I 3G4S_I 3CMA_I 3I55_I 1VQ7_I ....

>PF03946 Ribosomal_L11_N: Ribosomal protein L11, N-terminal domain; InterPro: IPR020784 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.96  E-value=8.6e-30  Score=171.19  Aligned_cols=60  Identities=55%  Similarity=1.053  Sum_probs=58.0

Q ss_pred             EEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeE
Q 031693           16 TIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTF   75 (155)
Q Consensus        16 ~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf   75 (155)
                      +|||+|+||+|+|+|||||+|||+|||+|+||+|||++|++|++|++|||+|+||+||||
T Consensus         1 ~i~l~v~aG~A~p~pplgp~LG~~Gin~~~f~k~fN~~T~~~k~G~~v~V~i~v~~d~sf   60 (60)
T PF03946_consen    1 VIKLRVPAGKATPAPPLGPALGPLGINIKKFCKDFNKATKDYKPGIPVPVKITVYNDKSF   60 (60)
T ss_dssp             EEEEEEETTSSSSTTTSTHHHHTTTS-HHHHHHHHHHHTTTCTTSSEEEEEEEEETTSEE
T ss_pred             CEEEEEecCcccCCCCcCcccccCCCCHHHHHHHHHHHHhcccCCCEEEEEEEEeCCCCC
Confidence            589999999999999999999999999999999999999999999999999999999998

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 L11 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L11 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ], groups bacteria, plant chloroplast, red algal chloroplast, cyanelle and archaeabacterial L11; and mammalian, plant and yeast L12 (YL15). L11 is a protein of 140 to 165 amino-acid residues. In E. coli, the C-terminal half of L11 has been shown [] to be in an extended and loosely folded conformation and is likely to be buried within the ribosomal structure.; PDB: 2ZJQ_F 2ZJP_F 3CF5_F 2WRJ_K 2WH4_K 2WRL_K 3FIN_L 2X9U_K 3I8I_L 2XUX_K ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	155
2ftc_G	145	Structural Model For The Large Subunit Of The Mamma		1e-24
1eg0_K	140	Fitting Of Components With Known Structure Into An		3e-20
1mj1_L	141	Crystal Structure Of The Ribosome At 5.5 A Resoluti		3e-20
1jqm_A	139	Fitting Of L11 Protein And Elongation Factor G (Ef-		3e-20
1mms_A	140	Crystal Structure Of The Ribosomal Protein L11-Rna		3e-20
487d_L	133	Seven Ribosomal Proteins Fitted To A Cryo-Electron		2e-19
1r2w_A	141	Coordinates Of L11 With 58nts Of 23s Rrna Fitted In		8e-19
1p85_G	141	Real Space Refined Coordinates Of The 50s Subunit F		1e-17
1vs6_I	142	Crystal Structure Of The Bacterial Ribosome From Es		1e-17
2gya_G	139	Structure Of The 50s Subunit Of A Pre-Translocation		1e-17
3bbo_K	224	Homology Model For The Spinach Chloroplast 50s Subu		3e-16
2j03_K	147	Structure Of The Thermus Thermophilus 70s Ribosome		1e-15
3egv_B	146	Ribosomal Protein L11 Methyltransferase (Prma) In C		1e-15
3fin_L	138	T. Thermophilus 70s Ribosome In Complex With Mrna,		2e-15
3cjr_B	147	Ribosomal Protein L11 Methyltransferase (prma) In C		5e-15
3cjq_B	146	Ribosomal Protein L11 Methyltransferase (Prma) In C		6e-15
1pnu_G	143	Crystal Structure Of A Streptomycin Dependent Ribos		2e-14
1nkw_G	144	Crystal Structure Of The Large Ribosomal Subunit Fr		2e-14
1hc8_A	76	Crystal Structure Of A Conserved Ribosomal Protein-		2e-08
1y39_A	76	Co-Evolution Of Protein And Rna Structures Within A		2e-08
3j21_H	164	Promiscuous Behavior Of Proteins In Archaeal Riboso		4e-08
1aci_A	76	L11 Ribosomal Protein Rna Binding Domain, Nmr, 20 S		6e-08
1qa6_A	67	Crystal Structure Of A Conserved Ribosomal Protein-		5e-07
2otj_I	161	13-Deoxytedanolide Bound To The Large Subunit Of Ha		1e-06
1s72_I	162	Refined Crystal Structure Of The Haloarcula Marismo		1e-06

>pdb|2FTC|G Chain G, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 145

Iteration: 1
 Score =  108 bits (269), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 52/117 (44%), Positives = 75/117 (64%), Gaps = 2/117 (1%)
Query: 38  QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
           Q  +++  FCK+FN RT+  K   P+   I    D TFE  +  P+V+++LK AAGIE G
Sbjct: 29  QRGVSINQFCKEFNERTKDIKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAAAGIEKG 88
Query: 98  SSRPGHVTASTVTLKHIYEIAKVKQSDP--YCQYMPLESICKSIIGTAATMGIKVVK 152
           + + G   A  VTLKH+YEIA++K  D     Q +PL S+ +SIIG+A ++GI+VVK
Sbjct: 89  ARQTGKEVAGLVTLKHVYEIARIKAQDEAFALQDVPLSSVVRSIIGSARSLGIRVVK 145

>pdb|1MJ1|L Chain L, Fitting The Ternary Complex Of Ef-TuTRNAGTP AND RIBOSOMAL PROTEINS Into A 13 A Cryo-Em Map Of The Coli 70s Ribosome Length = 141

Iteration: 1
 Score = 94.0 bits (232), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 58/139 (41%), Positives = 74/139 (53%), Gaps = 3/139 (2%)
Query: 13  VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           VAA I+L +                Q+ +N+M FCK FNA T   K    + V IT ++D
Sbjct: 5   VAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYED 63
Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F +K+P  ++ LKKAAGIE GSS P       VT K I EIAK K  D       L
Sbjct: 64  KSFTFIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANS--L 121
Query: 133 ESICKSIIGTAATMGIKVV 151
           E+  K I GTA +MGI+VV
Sbjct: 122 EAAMKIIEGTAKSMGIEVV 140

>pdb|1JQM|A Chain A, Fitting Of L11 Protein And Elongation Factor G (Ef-G) In The Cryo-Em Map Of E. Coli 70s Ribosome Bound With Ef-G, Gdp And Fusidic Acid Length = 139

Iteration: 1
 Score = 94.0 bits (232), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 58/139 (41%), Positives = 74/139 (53%), Gaps = 3/139 (2%)
Query: 13  VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           VAA I+L +                Q+ +N+M FCK FNA T   K    + V IT ++D
Sbjct: 4   VAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYED 62
Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F +K+P  ++ LKKAAGIE GSS P       VT K I EIAK K  D       L
Sbjct: 63  KSFTFIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANS--L 120
Query: 133 ESICKSIIGTAATMGIKVV 151
           E+  K I GTA +MGI+VV
Sbjct: 121 EAAMKIIEGTAKSMGIEVV 139

>pdb|1MMS|A Chain A, Crystal Structure Of The Ribosomal Protein L11-Rna Complex Length = 140

Iteration: 1
 Score = 94.0 bits (232), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 58/139 (41%), Positives = 74/139 (53%), Gaps = 3/139 (2%)
Query: 13  VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           VAA I+L +                Q+ +N+M FCK FNA T   K    + V IT ++D
Sbjct: 4   VAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYED 62
Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F +K+P  ++ LKKAAGIE GSS P       VT K I EIAK K  D       L
Sbjct: 63  KSFTFIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPD--LNANSL 120
Query: 133 ESICKSIIGTAATMGIKVV 151
           E+  K I GTA +MGI+VV
Sbjct: 121 EAAMKIIEGTAKSMGIEVV 139

>pdb|487D|L Chain L, Seven Ribosomal Proteins Fitted To A Cryo-Electron Microscopic Map Of The Large 50s Subunit At 7.5 Angstroms Resolution Length = 133

Iteration: 1
 Score = 91.7 bits (226), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 53/114 (46%), Positives = 67/114 (58%), Gaps = 3/114 (2%)
Query: 38  QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
           Q+ +N+M FCK FNA T   K    + V IT ++D +F F +K+P  ++ LKKAAGIE G
Sbjct: 23  QHGVNIMEFCKRFNAETAD-KAGMILPVVITVYEDKSFTFIIKTPPASFLLKKAAGIEKG 81
Query: 98  SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV 151
           SS P       VT K I EIAK K  D       LE+  K I GTA +MGI+VV
Sbjct: 82  SSEPKRKIVGKVTRKQIEEIAKTKMPD--LNANSLEAAMKIIEGTAKSMGIEVV 133

>pdb|1R2W|A Chain A, Coordinates Of L11 With 58nts Of 23s Rrna Fitted Into The Cryo-Em Map Of The 70s Ribosome Length = 141

Iteration: 1
 Score = 89.4 bits (220), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 58/140 (41%), Positives = 74/140 (52%), Gaps = 4/140 (2%)
Query: 13  VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           VAA I+L +                Q+ +N+M FCK FNA T   K    + V IT ++D
Sbjct: 4   VAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYED 62
Query: 73  NTFEFTVKS-PSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMP 131
            +F F +K+ P  ++ LKKAAGIE GSS P       VT K I EIAK K  D       
Sbjct: 63  KSFTFIIKTEPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPD--LNANS 120
Query: 132 LESICKSIIGTAATMGIKVV 151
           LE+  K I GTA +MGI+VV
Sbjct: 121 LEAAMKIIEGTAKSMGIEVV 140

>pdb|1P85|G Chain G, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 141

Iteration: 1
 Score = 85.5 bits (210), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 48/138 (34%), Positives = 71/138 (51%), Gaps = 2/138 (1%)
Query: 13  VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           V A ++L V                Q  +N+M FCK FNA+T   +   P+ V IT + D
Sbjct: 4   VQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYAD 63
Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F  K+P     LKKAAGI+SGS +P       ++   + EIA+ K +D       +
Sbjct: 64  RSFTFVTKTPPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAAD--MTGADI 121
Query: 133 ESICKSIIGTAATMGIKV 150
           E++ +SI GTA +MG+ V
Sbjct: 122 EAMTRSIEGTARSMGLVV 139

>pdb|1VS6|I Chain I, Crystal Structure Of The Bacterial Ribosome From Escherichia Coli In Complex With The Antibiotic Kasugamyin At 3.5a Resolution. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes And Is Described In Remark 400. Length = 142

Iteration: 1
 Score = 85.5 bits (210), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 48/138 (34%), Positives = 71/138 (51%), Gaps = 2/138 (1%)
Query: 13  VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           V A ++L V                Q  +N+M FCK FNA+T   +   P+ V IT + D
Sbjct: 5   VQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYAD 64
Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F  K+P     LKKAAGI+SGS +P       ++   + EIA+ K +D       +
Sbjct: 65  RSFTFVTKTPPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAAD--MTGADI 122
Query: 133 ESICKSIIGTAATMGIKV 150
           E++ +SI GTA +MG+ V
Sbjct: 123 EAMTRSIEGTARSMGLVV 140

>pdb|2GYA|G Chain G, Structure Of The 50s Subunit Of A Pre-Translocational E. Coli Ribosome Obtained By Fitting Atomic Models For Rna And Protein Components Into Cryo-Em Map Emd-1056 Length = 139

Iteration: 1
 Score = 85.5 bits (210), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 48/138 (34%), Positives = 71/138 (51%), Gaps = 2/138 (1%)
Query: 13  VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           V A ++L V                Q  +N+M FCK FNA+T   +   P+ V IT + D
Sbjct: 3   VQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYAD 62
Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F  K+P     LKKAAGI+SGS +P       ++   + EIA+ K +D       +
Sbjct: 63  RSFTFVTKTPPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAAD--MTGADI 120
Query: 133 ESICKSIIGTAATMGIKV 150
           E++ +SI GTA +MG+ V
Sbjct: 121 EAMTRSIEGTARSMGLVV 138

>pdb|3BBO|K Chain K, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 224

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 46/110 (41%), Positives = 61/110 (55%), Gaps = 3/110 (2%)
Query: 41  LNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSR 100
           +N+MAFCKD+NART   KP   + V IT F D +F F +K+P  +  L KA+G E GS  
Sbjct: 104 VNIMAFCKDYNARTAD-KPGFVIPVEITVFDDKSFTFILKTPPASVLLLKASGAEKGSKD 162
Query: 101 PGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKV 150
           P       +T+  +  IA  K  D  C    +ES  + I GTAA MGI +
Sbjct: 163 PQMEKVGKITIDQLRGIATEKLPDLNCTT--IESAMRIIAGTAANMGIDI 210

>pdb|3EGV|B Chain B, Ribosomal Protein L11 Methyltransferase (Prma) In Complex With Trimethylated Ribosomal Protein L11 Length = 146

Iteration: 1
 Score = 78.6 bits (192), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 41/114 (35%), Positives = 64/114 (56%), Gaps = 3/114 (2%)
Query: 38  QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
           Q+  N+M F K FNA T     +  + V IT + D +F F  K+P  ++ ++KAAG+E G
Sbjct: 28  QHGANIMEFVKAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRKAAGLEKG 86
Query: 98  SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV 151
           + +PG      +T + + EIA  KQ  P      LE+  + I G+A +MG++VV
Sbjct: 87  AHKPGREKVGRITWEQVLEIA--KQKMPDLNTTDLEAAARMIAGSARSMGVEVV 138

>pdb|3FIN|L Chain L, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 50s Subunit Length = 138

Iteration: 1
 Score = 78.2 bits (191), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 41/114 (35%), Positives = 64/114 (56%), Gaps = 3/114 (2%)
Query: 38  QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
           Q+  N+M F K FNA T     +  + V IT + D +F F  K+P  ++ ++KAAG+E G
Sbjct: 28  QHGANIMEFVKAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRKAAGLEKG 86
Query: 98  SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV 151
           + +PG      +T + + EIAK K  D       LE+  + I G+A +MG++VV
Sbjct: 87  AHKPGREKVGRITWEQVLEIAKQKMPD--LNTTDLEAAARMIAGSARSMGVEVV 138

>pdb|3CJR|B Chain B, Ribosomal Protein L11 Methyltransferase (prma) In Complex With Ribosomal Protein L11 (k39a) And Inhibitor Sinefungin Length = 147

Iteration: 1
 Score = 76.6 bits (187), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 41/118 (34%), Positives = 64/118 (54%), Gaps = 3/118 (2%)
Query: 38  QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
           Q+  N+M F   FNA T     +  + V IT + D +F F  K+P  ++ ++KAAG+E G
Sbjct: 29  QHGANIMEFVAAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRKAAGLEKG 87
Query: 98  SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           + +PG      +T + + EIAK K  D       LE+  + I G+A +MG++VV   E
Sbjct: 88  AHKPGREKVGRITWEQVLEIAKQKMPD--LNTTDLEAAARMIAGSARSMGVEVVGAPE 143

>pdb|3CJQ|B Chain B, Ribosomal Protein L11 Methyltransferase (Prma) In Complex With Dimethylated Ribosomal Protein L11 In Space Group P212121 Length = 146

Iteration: 1
 Score = 76.6 bits (187), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 41/118 (34%), Positives = 64/118 (54%), Gaps = 3/118 (2%)
Query: 38  QYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESG 97
           Q+  N+M F   FNA T     +  + V IT + D +F F  K+P  ++ ++KAAG+E G
Sbjct: 28  QHGANIMEFVAAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRKAAGLEKG 86
Query: 98  SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE 155
           + +PG      +T + + EIAK K  D       LE+  + I G+A +MG++VV   E
Sbjct: 87  AHKPGREKVGRITWEQVLEIAKQKMPD--LNTTDLEAAARMIAGSARSMGVEVVGAPE 142

>pdb|1PNU|G Chain G, Crystal Structure Of A Streptomycin Dependent Ribosome From Escherichia Coli, 50s Subunit Of 70s Ribosome. This File, 1pnu, Contains Only Molecules Of The 50s Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site Trna Are In The Pdb File 1pns. Length = 143

Iteration: 1
 Score = 74.7 bits (182), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/138 (31%), Positives = 67/138 (48%), Gaps = 3/138 (2%)
Query: 13  VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           VA  ++L +                QY  N+M F K FNA+T   K +  + V IT + D
Sbjct: 4   VAGIVKLQLPAGKATPAPPVGPALGQYGANIMEFTKAFNAQTAD-KGDAIIPVEITIYAD 62
Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F  K+P +++ ++KAAGI  GSS P       +    + EIAK K  D       +
Sbjct: 63  RSFTFITKTPPMSYLIRKAAGIGKGSSTPNKAKVGKLNWDQVLEIAKTKMPD--LNAGSV 120
Query: 133 ESICKSIIGTAATMGIKV 150
           E+   ++ GTA +MG+ V
Sbjct: 121 EAAANTVAGTARSMGVTV 138

>pdb|1NKW|G Chain G, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 144

Iteration: 1
 Score = 74.7 bits (182), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/138 (31%), Positives = 67/138 (48%), Gaps = 3/138 (2%)
Query: 13  VAATIRLTVXXXXXXXXXXXXXXXXQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           VA  ++L +                QY  N+M F K FNA+T   K +  + V IT + D
Sbjct: 4   VAGIVKLQLPAGKATPAPPVGPALGQYGANIMEFTKAFNAQTAD-KGDAIIPVEITIYAD 62
Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +F F  K+P +++ ++KAAGI  GSS P       +    + EIAK K  D       +
Sbjct: 63  RSFTFITKTPPMSYLIRKAAGIGKGSSTPNKAKVGKLNWDQVLEIAKTKMPD--LNAGSV 120
Query: 133 ESICKSIIGTAATMGIKV 150
           E+   ++ GTA +MG+ V
Sbjct: 121 EAAANTVAGTARSMGVTV 138

>pdb|1HC8|A Chain A, Crystal Structure Of A Conserved Ribosomal Protein-Rna Complex Length = 76

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/76 (40%), Positives = 41/76 (53%), Gaps = 2/76 (2%)
Query: 75  FEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLES 134
           F F  K+P     LKKAAGIESGS  P     +T+    + EIA++K   P      +E+
Sbjct: 1   FTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKM--PDLNAASIEA 58
Query: 135 ICKSIIGTAATMGIKV 150
             + I GTA +MGI V
Sbjct: 59  AMRMIEGTARSMGIVV 74

>pdb|1Y39|A Chain A, Co-Evolution Of Protein And Rna Structures Within A Highly Conserved Ribosomal Domain Length = 76

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 31/76 (40%), Positives = 40/76 (52%), Gaps = 2/76 (2%)
Query: 75  FEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLES 134
           F F  K+P     LKKAAGIESGS  P     +T+    + EIA++K   P      +E+
Sbjct: 1   FTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKM--PDLNAASIEA 58
Query: 135 ICKSIIGTAATMGIKV 150
             + I GTA  MGI V
Sbjct: 59  AMRMIEGTARNMGIVV 74

>pdb|3J21|H Chain H, Promiscuous Behavior Of Proteins In Archaeal Ribosomes Revealed By Cryo-em: Implications For Evolution Of Eukaryotic Ribosomes (50s Ribosomal Proteins) Length = 164

Iteration: 1
 Score = 53.9 bits (128), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 33/113 (29%), Positives = 53/113 (46%), Gaps = 8/113 (7%)
Query: 41  LNLMAFCKDFNARTQKYKPETPMSVTITAFKD---NTFEFTVKSPSVTWYLKKAAGIESG 97
           LN+       N  T+ +     M V +    D     FE  V  P  +  +KK  G+E G
Sbjct: 30  LNVKQVVDKINEATKDF---AGMQVPVKIIVDPVTKQFEIEVGVPPTSQLIKKELGLEKG 86
Query: 98  SSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKV 150
           S  P H     +T++ + +IAK+K+       + L++  K +IGTA +MG+ V
Sbjct: 87  SGEPKHNIVGNLTMEQVIKIAKMKKDQMLA--LTLKAAAKEVIGTALSMGVTV 137

>pdb|1ACI|A Chain A, L11 Ribosomal Protein Rna Binding Domain, Nmr, 20 Structures Length = 76

Iteration: 1
 Score = 53.1 bits (126), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 30/74 (40%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 77  FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESIC 136
           F  K+P     LKKAAGIESGS  P     +T+    + EIA++K   P      +E+  
Sbjct: 3   FITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKM--PDLNAASIEAAM 60
Query: 137 KSIIGTAATMGIKV 150
           + I GTA +MGI V
Sbjct: 61  RMIEGTARSMGIVV 74

>pdb|1QA6|A Chain A, Crystal Structure Of A Conserved Ribosomal Protein-Rna Complex Length = 67

Iteration: 1
 Score = 50.1 bits (118), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 80  KSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSI 139
           K+P     LKKAAGIESGS  P     +T+    + EIA++K   P      +E+  + I
Sbjct: 1   KTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKM--PDLNAASIEAAMRMI 58
Query: 140 IGTAATMGI 148
            GTA +MGI
Sbjct: 59  EGTARSMGI 67

>pdb|2OTJ|I Chain I, 13-Deoxytedanolide Bound To The Large Subunit Of Haloarcula Marismortui Length = 161

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/113 (25%), Positives = 55/113 (48%), Gaps = 3/113 (2%)
Query: 41  LNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSR 100
           +++ A  ++ N +T  +   T + VT+    D +FE  V  P     +K  AG E+GS  
Sbjct: 28  VDVQAVVQEINDQTAAFD-GTEVPVTVKYDDDGSFEIEVGVPPTAELIKDEAGFETGSGE 86
Query: 101 PGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE 153
           P     + +++  + +IA+ K  D    Y  L +  K ++GT  ++G+ +  E
Sbjct: 87  PQEDFVADLSVDQVKQIAEQKHPD-LLSYD-LTNAAKEVVGTCTSLGVTIEGE 137

>pdb|1S72|I Chain I, Refined Crystal Structure Of The Haloarcula Marismortui Large Ribosomal Subunit At 2.4 Angstrom Resolution Length = 162

Iteration: 1
 Score = 48.9 bits (115), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/113 (25%), Positives = 55/113 (48%), Gaps = 3/113 (2%)
Query: 41  LNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGIESGSSR 100
           +++ A  ++ N +T  +   T + VT+    D +FE  V  P     +K  AG E+GS  
Sbjct: 29  VDVQAVVQEINDQTAAFD-GTEVPVTVKYDDDGSFEIEVGVPPTAELIKDEAGFETGSGE 87
Query: 101 PGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE 153
           P     + +++  + +IA+ K  D    Y  L +  K ++GT  ++G+ +  E
Sbjct: 88  PQEDFVADLSVDQVKQIAEQKHPD-LLSYD-LTNAAKEVVGTCTSLGVTIEGE 138

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	155
1vq8_I	162	50S ribosomal protein L11P; ribosome 50S, protein-	6e-53
3r8s_I	141	50S ribosomal protein L11; protein biosynthesis, R	2e-42
3egv_B	146	50S ribosomal protein L11, ribosomal protein L11 m	9e-42
2ftc_G	145	L11MT, MRP-L11, 39S ribosomal protein L11, mitocho	8e-40
3bbo_K	224	Ribosomal protein L11; large ribosomal subunit, sp	2e-39
1mms_A	140	Protein (ribosomal protein L11); RNA-protein compl	4e-39
3iz5_J	166	60S ribosomal protein L12 (L11P); eukaryotic ribos	7e-35
2zkr_i	165	60S ribosomal protein L12; protein-RNA complex, 60	2e-32
1hc8_A	76	Ribosomal protein L11; ribosome, ribosomal RNA, te	4e-26
1qa6_A	67	Ribosomal protein L11; ribosomal RNA, tertiary str	7e-23
3cjs_B	72	50S ribosomal protein L11, ribosomal protein L11 m	4e-21
1wib_A	92	60S ribosomal protein L12; N-terminal domain, stru	2e-06

>1vq8_I 50S ribosomal protein L11P; 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: a.4.7.1 PDB: 1vq4_I* 1vq5_I* 1vq6_I* 1vq7_I* 1s72_I* 1vq9_I* 1vqk_I* 1vql_I* 1vqm_I* 1vqn_I* 1vqo_I* 1vqp_I* 1yhq_I* 1yi2_I* 1yij_I* 1yit_I* 1yj9_I* 1yjn_I* 1yjw_I* 2otl_I* ... Length = 162

 Score =  164 bits (416), Expect = 6e-53
 Identities = 42/141 (29%), Positives = 71/141 (50%), Gaps = 3/141 (2%)

Query: 13  VAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
           +A TI + VP G A P PP+GP LG   +++ A  ++ N +T  +   T + VT+    D
Sbjct: 1   MAGTIEVLVPGGEANPGPPLGPELGPTPVDVQAVVQEINDQTAAF-DGTEVPVTVKYDDD 59

Query: 73  NTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPL 132
            +FE  V  P     +K  AG E+GS  P     + +++  + +IA+ K  D       L
Sbjct: 60  GSFEIEVGVPPTAELIKDEAGFETGSGEPQEDFVADLSVDQVKQIAEQKHPD--LLSYDL 117

Query: 133 ESICKSIIGTAATMGIKVVKE 153
            +  K ++GT  ++G+ +  E
Sbjct: 118 TNAAKEVVGTCTSLGVTIEGE 138

>3r8s_I 50S ribosomal protein L11; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_G 1p86_G 2awb_I 2aw4_I 2i2v_I 2j28_I 2i2t_I* 2qao_I* 2qba_I* 2qbc_I* 2qbe_I 2qbg_I 2qbi_I* 2qbk_I* 2qov_I 2qox_I 2qoz_I* 2qp1_I* 2rdo_I 2vhm_I ... Length = 141

 Score =  136 bits (344), Expect = 2e-42
 Identities = 60/141 (42%), Positives = 85/141 (60%), Gaps = 2/141 (1%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + V A ++L V AG A P+PPVGPALGQ  +N+M FCK FNA+T   +   P+ V IT +
Sbjct: 2   KKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVY 61

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
            D +F F  K+P     LKKAAGI+SGS +P       ++   + EIA+ K +D      
Sbjct: 62  ADRSFTFVTKTPPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMTG--A 119

Query: 131 PLESICKSIIGTAATMGIKVV 151
            +E++ +SI GTA +MG+ V 
Sbjct: 120 DIEAMTRSIEGTARSMGLVVE 140

>3egv_B 50S ribosomal protein L11, ribosomal protein L11 methyltransferase; post-translational modification, multiple methyltransferase; HET: SAH 4MM; 1.75A {Thermus thermophilus} SCOP: d.47.1.1 PDB: 2e34_A 2e35_A 2e36_A 2h8w_A 2hgj_L 2hgq_L 2hgu_L 2j01_K 2j03_K 2jl6_K 2jl8_K 2klm_A 2nxn_B 2wh2_K 2wh4_K 2wrj_K 2wrl_K 2x9s_K 2x9u_K 2xtg_K ... Length = 146

 Score =  135 bits (341), Expect = 9e-42
 Identities = 59/145 (40%), Positives = 85/145 (58%), Gaps = 3/145 (2%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + V A ++L +PAG A PAPPVGPALGQ+  N+M F K FNA T        + V IT +
Sbjct: 1   KKVVAVVKLQLPAGAATPAPPVGPALGQHGANIMEFVKAFNAATANMGDA-IVPVEITIY 59

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
            D +F F  K+P  ++ ++KAAG+E G+ +PG      +T + + EIAK K  D      
Sbjct: 60  ADRSFTFVTKTPPASYLIRKAAGLEKGAHKPGREKVGRITWEQVLEIAKQKMPDLNT--T 117

Query: 131 PLESICKSIIGTAATMGIKVVKELE 155
            LE+  + I G+A +MG++VV   E
Sbjct: 118 DLEAAARMIAGSARSMGVEVVGAPE 142

>2ftc_G L11MT, MRP-L11, 39S ribosomal protein L11, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_G Length = 145

 Score =  130 bits (327), Expect = 8e-40
 Identities = 66/145 (45%), Positives = 91/145 (62%), Gaps = 2/145 (1%)

Query: 10  RRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITA 69
           +  V   IR  V AG A P PP+GP LGQ  +++  FCK+FN RT+  K   P+   I  
Sbjct: 1   KPEVGGVIRAIVRAGLAMPGPPLGPVLGQRGVSINQFCKEFNERTKDIKEGIPLPTKILV 60

Query: 70  FKDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPY--C 127
             D TFE  +  P+V+++LK AAGIE G+ + G   A  VTLKH+YEIA++K  D     
Sbjct: 61  KPDRTFEIKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIARIKAQDEAFAL 120

Query: 128 QYMPLESICKSIIGTAATMGIKVVK 152
           Q +PL S+ +SIIG+A ++GI+VVK
Sbjct: 121 QDVPLSSVVRSIIGSARSLGIRVVK 145

>3bbo_K Ribosomal protein L11; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 224

 Score =  131 bits (331), Expect = 2e-39
 Identities = 61/144 (42%), Positives = 80/144 (55%), Gaps = 3/144 (2%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + V   I+L + AG A PAPPVGPALG   +N+MAFCKD+NART    P   + V IT F
Sbjct: 74  KKVIGVIKLALEAGKATPAPPVGPALGSKGVNIMAFCKDYNARTADK-PGFVIPVEITVF 132

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
            D +F F +K+P  +  L KA+G E GS  P       +T+  +  IA  K  D  C   
Sbjct: 133 DDKSFTFILKTPPASVLLLKASGAEKGSKDPQMEKVGKITIDQLRGIATEKLPDLNC--T 190

Query: 131 PLESICKSIIGTAATMGIKVVKEL 154
            +ES  + I GTAA MGI +   +
Sbjct: 191 TIESAMRIIAGTAANMGIDIDPPI 214

>1mms_A Protein (ribosomal protein L11); RNA-protein complex, RNA, ribosome, translocation, thiostrep; 2.57A {Thermotoga maritima} SCOP: a.4.7.1 d.47.1.1 PDB: 1mvr_L 1oln_A* 1giy_L 1mj1_L* 1ml5_l* 1yl3_L 2b66_K 2b9n_K 2b9p_K 2jq7_A* 2k3f_A 1eg0_K 1jqm_A 1jqs_A 1jqt_A 1r2w_A 1r2x_A 487d_L 1pn8_L 1pn7_L Length = 140

 Score =  128 bits (322), Expect = 4e-39
 Identities = 71/141 (50%), Positives = 88/141 (62%), Gaps = 3/141 (2%)

Query: 11  RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
           + VAA I+L +PAG A PAPPVGPALGQ+ +N+M FCK FNA T        + V IT +
Sbjct: 2   KKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAG-MILPVVITVY 60

Query: 71  KDNTFEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYM 130
           +D +F F +K+P  ++ LKKAAGIE GSS P       VT K I EIAK K  D      
Sbjct: 61  EDKSFTFIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNA--N 118

Query: 131 PLESICKSIIGTAATMGIKVV 151
            LE+  K I GTA +MGI+VV
Sbjct: 119 SLEAAMKIIEGTAKSMGIEVV 139

>2zkr_i 60S ribosomal protein L12; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 3izc_J 3izs_J 3j16_H* 3o5h_L 3jyw_K 1s1i_K Length = 165

 Score =  112 bits (280), Expect = 2e-32
 Identities = 26/137 (18%), Positives = 44/137 (32%), Gaps = 7/137 (5%)

Query: 16  TIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTF 75
            + L    G       + P +G   L+      D    T  +K    + +T+     N  
Sbjct: 12  VVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDWK---GLRITVKLTIQNRQ 68

Query: 76  EFTVKSPSVTWYLKKAAGIE--SGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLE 133
                 PS +  + KA          +     +  +T   I  IA+  +         L 
Sbjct: 69  AQIEVVPSASALIIKALKEPPRDRKKQKNIKHSGNITFDEIVNIARQMRHRSLA--RELS 126

Query: 134 SICKSIIGTAATMGIKV 150
              K I+GTA ++G  V
Sbjct: 127 GTIKEILGTAQSVGCNV 143

>1hc8_A Ribosomal protein L11; ribosome, ribosomal RNA, tertiary structure, RNA-protein; HET: GTP; 2.8A {Bacillus stearothermophilus} SCOP: a.4.7.1 PDB: 1y39_A* 1aci_A 1fow_A 1fox_A 1foy_A 2fow_A Length = 76

 Score = 93.4 bits (232), Expect = 4e-26
 Identities = 31/77 (40%), Positives = 41/77 (53%), Gaps = 2/77 (2%)

Query: 75  FEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLES 134
           F F  K+P     LKKAAGIESGS  P     +T+    + EIA++K  D       +E+
Sbjct: 1   FTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNA--ASIEA 58

Query: 135 ICKSIIGTAATMGIKVV 151
             + I GTA +MGI V 
Sbjct: 59  AMRMIEGTARSMGIVVE 75

>1qa6_A Ribosomal protein L11; ribosomal RNA, tertiary structur,E RNA-protein interaction, minor groove binding, antibiotic binding; 2.80A {Geobacillus stearothermophilus} SCOP: a.4.7.1 PDB: 1c04_C Length = 67

 Score = 84.8 bits (210), Expect = 7e-23
 Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 2/69 (2%)

Query: 80  KSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSI 139
           K+P     LKKAAGIESGS  P     +T+    + EIA++K  D       +E+  + I
Sbjct: 1   KTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNA--ASIEAAMRMI 58

Query: 140 IGTAATMGI 148
            GTA +MGI
Sbjct: 59  EGTARSMGI 67

>3cjs_B 50S ribosomal protein L11, ribosomal protein L11 methyltransferase; S-adenosyl-L-methionine dependent methyltransferase; 1.37A {Thermus thermophilus} SCOP: d.47.1.1 PDB: 3cju_B* 2bcw_A Length = 72

 Score = 80.4 bits (198), Expect = 4e-21
 Identities = 34/72 (47%), Positives = 44/72 (61%), Gaps = 1/72 (1%)

Query: 11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
          + V A ++L +PAG A PAPPVGPALGQ+  N+M F K FNA T        + V IT +
Sbjct: 2  KKVVAVVKLQLPAGKATPAPPVGPALGQHGANIMEFVKAFNAATANMGD-AIVPVEITIY 60

Query: 71 KDNTFEFTVKSP 82
           D +F F  K+P
Sbjct: 61 ADRSFTFVTKTP 72

>1wib_A 60S ribosomal protein L12; N-terminal domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, ribosome; NMR {Mus musculus} SCOP: d.47.1.1 Length = 92

 Score = 42.6 bits (100), Expect = 2e-06
 Identities = 14/79 (17%), Positives = 26/79 (32%), Gaps = 5/79 (6%)

Query: 16 TIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDN-T 74
           + L    G       + P +G   L+      D    T  +K    + +T+     N  
Sbjct: 18 VVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDWK---GLRITVKLTIQNRQ 74

Query: 75 FEFTVKSPSVTWYLKKAAG 93
           +  V  PS +     ++G
Sbjct: 75 AQIEV-VPSASALSGPSSG 92

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	155
1mms_A	140	Protein (ribosomal protein L11); RNA-protein compl	100.0
2ftc_G	145	L11MT, MRP-L11, 39S ribosomal protein L11, mitocho	100.0
3egv_B	146	50S ribosomal protein L11, ribosomal protein L11 m	100.0
1vq8_I	162	50S ribosomal protein L11P; ribosome 50S, protein-	100.0
3bbo_K	224	Ribosomal protein L11; large ribosomal subunit, sp	100.0
3r8s_I	141	50S ribosomal protein L11; protein biosynthesis, R	100.0
3j21_H	164	50S ribosomal protein L11P; archaea, archaeal, KIN	100.0
2zkr_i	165	60S ribosomal protein L12; protein-RNA complex, 60	100.0
3iz5_J	166	60S ribosomal protein L12 (L11P); eukaryotic ribos	100.0
1wib_A	92	60S ribosomal protein L12; N-terminal domain, stru	100.0
3cjs_B	72	50S ribosomal protein L11, ribosomal protein L11 m	100.0
1hc8_A	76	Ribosomal protein L11; ribosome, ribosomal RNA, te	100.0
1qa6_A	67	Ribosomal protein L11; ribosomal RNA, tertiary str	99.96

>1mms_A Protein (ribosomal protein L11); RNA-protein complex, RNA, ribosome, translocation, thiostrep; 2.57A {Thermotoga maritima} SCOP: a.4.7.1 d.47.1.1 PDB: 1mvr_L 1oln_A* 1giy_L 1mj1_L* 1ml5_l* 1yl3_L 2b66_K 2b9n_K 2b9p_K 2jq7_A* 2k3f_A 1eg0_K 1jqm_A 1jqs_A 1jqt_A 1r2w_A 1r2x_A 487d_L 1pn8_L 1pn7_L

Probab=100.00  E-value=4.6e-64  Score=385.76  Aligned_cols=139  Identities=51%  Similarity=0.757  Sum_probs=130.7

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHH
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKK   90 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likk   90 (155)
                      |++.++|+|+|+||+|+|+|||||+|||+|||+|+||||||++|++| .|++|||+||||+||||+|++++||+||||+|
T Consensus         2 k~~~~~ikL~v~aG~A~p~PplgPaLG~~Gvni~~fck~fN~~T~~~-~G~~ipV~itv~~drsf~f~vk~Ppas~Ll~k   80 (140)
T 1mms_A            2 KKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADK-AGMILPVVITVYEDKSFTFIIKTPPASFLLKK   80 (140)
T ss_dssp             -----CEEEEEETTCCCCTTTTTHHHHTTTCCHHHHHHHHHHHTTTS-CSSEEEEEEEECTTSCEEEEECCCCHHHHHHH
T ss_pred             CceEEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHhhhc-CCCeEEEEEEEcCCCeEEEEEcCCCHHHHHHH
Confidence            57889999999999999999999999999999999999999999999 49999999999999999999999999999999


Q ss_pred             HhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEec
Q 031693           91 AAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVK  152 (155)
Q Consensus        91 a~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~  152 (155)
                      |||+++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|++
T Consensus        81 a~g~~~gs~~p~k~~vG~it~~qi~eIA~~K~~dl~--a~~l~~a~k~I~GTArSmGi~V~g  140 (140)
T 1mms_A           81 AAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLN--ANSLEAAMKIIEGTAKSMGIEVVD  140 (140)
T ss_dssp             HHTCSSCCSSTTTSCCEEECHHHHHHHHHHHGGGCC--CSSHHHHHHHHHHHHTTTTEEEC-
T ss_pred             HhCCCCCCCCCCCeEeeeEcHHHHHHHHHHHHHhhc--cccHHHHHHHHHHHHHcCeeEeeC
Confidence            999999999999999999999999999999999965  889999999999999999999985

>2ftc_G L11MT, MRP-L11, 39S ribosomal protein L11, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_G

Probab=100.00  E-value=8.4e-64  Score=386.24  Aligned_cols=141  Identities=46%  Similarity=0.784  Sum_probs=135.5

Q ss_pred             ceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHHH
Q 031693           12 PVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKA   91 (155)
Q Consensus        12 ~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likka   91 (155)
                      .+.++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++|++|++|++|||+||||+||||+|++++||+||||+||
T Consensus         3 ~~~~~ikL~v~aG~A~p~PplgPaLG~~Gvni~~fck~fN~~T~~~~~G~~ipV~Itv~~drsf~f~vk~Ppas~Ll~ka   82 (145)
T 2ftc_G            3 EVGGVIRAIVRAGLAMPGPPLGPVLGQRGVSINQFCKEFNERTKDIKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKAA   82 (145)
T ss_pred             ceEEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHHhhhcCCCeEEEEEEEcCCCeEEEEEcCCCHHHHHHHH
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCC--CCHHHHHHHHHHhhhhcCeEEec
Q 031693           92 AGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQY--MPLESICKSIIGTAATMGIKVVK  152 (155)
Q Consensus        92 ~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~--~~l~~~~k~VlGTa~SmGi~V~~  152 (155)
                      ||+++||++|+++++|+||++||||||+.|++|+.+++  .+|+++||+|+||||||||+|++
T Consensus        83 ag~~~gs~~p~~~~vG~it~~qv~eIA~~K~~d~~l~a~~~~l~~a~k~I~GTArSmGi~V~~  145 (145)
T 2ftc_G           83 AGIEKGARQTGKEVAGLVTLKHVYEIARIKAQDEAFALQDVPLSSVVRSIIGSARSLGIRVVK  145 (145)
T ss_pred             hCCCCCCCCCCCcCcceEcHHHHHHHHHHhCcchhccCccCCHHHHHHHHHHHHhcCeEEEeC
Confidence            99999999999999999999999999999999844446  99999999999999999999984

>3egv_B 50S ribosomal protein L11, ribosomal protein L11 methyltransferase; post-translational modification, multiple methyltransferase; HET: SAH 4MM; 1.75A {Thermus thermophilus} SCOP: d.47.1.1 PDB: 2e34_A 2e35_A 2e36_A 2h8w_A 2hgj_L 2hgq_L 2hgu_L 2j01_K 2j03_K 2jl6_K 2jl8_K 2klm_A 2nxn_B 2wh2_K 2wh4_K 2wrj_K 2wrl_K 2x9s_K 2x9u_K 2xtg_K ...

Probab=100.00  E-value=6.5e-63  Score=381.58  Aligned_cols=140  Identities=41%  Similarity=0.717  Sum_probs=75.1

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHH
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKK   90 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likk   90 (155)
                      |++.++|+|+|+||+|+|+|||||+|||+|||+|+||+|||++|++|+ |++|||+||||+||||+|++++||+||||+|
T Consensus         1 k~~~~~ikL~v~aG~A~p~PplgPaLG~~Gvni~~f~k~fN~~T~~~~-G~~ipV~itv~~drsf~~~~~~Ppas~Ll~K   79 (146)
T 3egv_B            1 KKVVAVVKLQLPAGAATPAPPVGPALGQHGANIMEFVKAFNAATANMG-DAIVPVEITIYADRSFTFVTKTPPASYLIRK   79 (146)
T ss_dssp             CCEEEEEEEEEETTCCCSSTTHHHHHHTTTCCHHHHHHHHHHHTTTST-TCEEEEEEEEETTSCEEEEECCCCHHHHC--
T ss_pred             CceEEEEEEEEecccccCCCCcchhhcccCCCHHHHHHHHHHHhcccC-CCEeeEEEEEeCCCeEEEEEeCCCHHHHHHH
Confidence            578999999999999999999999999999999999999999999975 9999999999999999999999999999999


Q ss_pred             HhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           91 AAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        91 a~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      |||+++||++|+++++|+||++||||||++|++|++  +.+|+++||+|+||||||||+|+++
T Consensus        80 a~g~~~gs~~p~~~~vG~it~~qi~eIA~~K~~d~~--a~~l~~a~k~I~GTA~SmGi~V~g~  140 (146)
T 3egv_B           80 AAGLEKGAHKPGREKVGRITWEQVLEIAKQKMPDLN--TTDLEAAARMIAGSARSMGVEVVGA  140 (146)
T ss_dssp             ---------------------------------------------------------------
T ss_pred             hhCCCCCCCCCCCeeeeeecHHHHHHHHHHHhhhhc--ccCHHHHHHHhHhhhhcCeEEEECC
Confidence            999999999999999999999999999999999976  8899999999999999999999986

>1vq8_I 50S ribosomal protein L11P; 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: a.4.7.1 PDB: 1vq4_I* 1vq5_I* 1vq6_I* 1vq7_I* 1s72_I* 1vq9_I* 1vqk_I* 1vql_I* 1vqm_I* 1vqn_I* 1vqo_I* 1vqp_I* 1yhq_I* 1yi2_I* 1yij_I* 1yit_I* 1yj9_I* 1yjn_I* 1yjw_I* 2otl_I* ...

Probab=100.00  E-value=1.1e-61  Score=380.23  Aligned_cols=136  Identities=30%  Similarity=0.555  Sum_probs=68.6

Q ss_pred             eEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHHHhCC
Q 031693           15 ATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKAAGI   94 (155)
Q Consensus        15 ~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likka~g~   94 (155)
                      ++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++|++|+ |++|||+||||+||||+|++++||+||||+||||+
T Consensus         3 ~~ikL~v~aG~A~p~PplGPaLG~~Gvni~~fck~fN~~T~~~~-G~~ipV~Itv~~drsf~f~vk~Ppas~Ll~kaagi   81 (162)
T 1vq8_I            3 GTIEVLVPGGEANPGPPLGPELGPTPVDVQAVVQEINDQTAAFD-GTEVPVTVKYDDDGSFEIEVGVPPTAELIKDEAGF   81 (162)
T ss_dssp             -----------------------------------------------------------------CCCCHHHHHHHTTSC
T ss_pred             eEEEEEeecCccCCCCCcccccccCCCCHHHHHHHHHHHHhhcC-CCeEEEEEEEcCCCeEEEEEcCCCHHHHHHHHhCC
Confidence            67999999999999999999999999999999999999999996 99999999999999999999999999999999999


Q ss_pred             CCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           95 ESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        95 ~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      ++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|+++
T Consensus        82 ~kgs~~p~k~~vG~it~~qv~eIA~~K~~dl~--a~~l~~a~k~I~GTArSmGi~V~g~  138 (162)
T 1vq8_I           82 ETGSGEPQEDFVADLSVDQVKQIAEQKHPDLL--SYDLTNAAKEVVGTCTSLGVTIEGE  138 (162)
T ss_dssp             CSCCSSTTTSCCEEECHHHHHHHHHHTTTTCC--CSSHHHHHHHHHHHTTTTTEEEC--
T ss_pred             CCCCCCCCCceeeeeeHHHHHHHHHHHHHhhc--ccCHHHHHHHHHhhhHhCeEEEecc
Confidence            99999999999999999999999999999965  8899999999999999999999874

>3bbo_K Ribosomal protein L11; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1

Probab=100.00  E-value=1.4e-60  Score=388.42  Aligned_cols=141  Identities=42%  Similarity=0.650  Sum_probs=135.4

Q ss_pred             ccceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHH
Q 031693           10 RRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLK   89 (155)
Q Consensus        10 ~k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~lik   89 (155)
                      +|++.++|+|+|+||+|+|+|||||+|||+|||+|+||||||++|++|+ |++|||+||||+||+|+|++++||+||||+
T Consensus        73 akkv~~~IkL~v~aGkA~PaPPlGPaLG~~GVNim~FcK~fN~~T~d~~-Gl~IPV~ITV~~DRsf~f~vktPpaS~LLk  151 (224)
T 3bbo_K           73 AKKVIGVIKLALEAGKATPAPPVGPALGSKGVNIMAFCKDYNARTADKP-GFVIPVEITVFDDKSFTFILKTPPASVLLL  151 (224)
T ss_dssp             CCCCSSEEEECCBTTBCCCSTTTTTTTTTTSSCTTSSHHHHHHHGGGSC-SSBCCEEEEECSSSCEEEEECCCCTTHHHH
T ss_pred             ccceEEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHhcccC-CCeEEEEEEEccCCeEEEEecCCCHHHHHH
Confidence            3588999999999999999999999999999999999999999999976 999999999999999999999999999999


Q ss_pred             HHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           90 KAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        90 ka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      ||||+++||++|+++++|+||++||||||++|++|++  +.+|+++||+|+||||||||+|+++
T Consensus       152 KAagi~kGs~kp~~~~vG~IT~~qV~eIAk~K~~dl~--a~~Le~avK~IlGTArSMGi~V~g~  213 (224)
T 3bbo_K          152 KASGAEKGSKDPQMEKVGKITIDQLRGIATEKLPDLN--CTTIESAMRIIAGTAANMGIDIDPP  213 (224)
T ss_dssp             HHHTCSSCCSSTTTSCCEEECHHHHHHHHHHTCTTSC--CSSHHHHHHHHHHHHTTTTEEEC--
T ss_pred             HHhCCCCCCCCCCCceeeeecHHHHHHHHHHHHhhhc--CcCHHHHHHHHHHHHHhCeeEEeCC
Confidence            9999999999999999999999999999999999965  8899999999999999999999985

>3r8s_I 50S ribosomal protein L11; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_G 1p86_G 2awb_I 2aw4_I 2i2v_I 2j28_I 2i2t_I* 2qao_I* 2qba_I* 2qbc_I* 2qbe_I 2qbg_I 2qbi_I* 2qbk_I* 2qov_I 2qox_I 2qoz_I* 2qp1_I* 2rdo_I 2vhm_I ...

Probab=100.00  E-value=1e-64  Score=389.71  Aligned_cols=141  Identities=43%  Similarity=0.694  Sum_probs=137.2

Q ss_pred             ccceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHH
Q 031693           10 RRPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLK   89 (155)
Q Consensus        10 ~k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~lik   89 (155)
                      +|++.++|+|+|+||+|+|+|||||+|||+|||+|+||||||++|++|++|++|||+||||+||||+|++++||+||||+
T Consensus         1 akk~~~~ikl~v~aG~A~p~PplgPaLG~~Gvni~~f~k~fN~~T~~~k~G~~ipV~itv~~drsf~f~vk~Ppas~Ll~   80 (141)
T 3r8s_I            1 AKKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYADRSFTFVTKTPPAAVLLK   80 (141)
T ss_dssp             CCCCSCCCCCCSCSSSSSCTTTTCTTSSSSSCCSSSTTTTGGGTHHHHCSCSCCCBCCCCSSSSSCCCCBCCCCSSTTTT
T ss_pred             CceEEEEEEEEEecCccCCCCCcchhhccCCCCHHHHHHHHHHHHhcccCCCeEEEEEEEcCCCeEEEEEcCCCHHHHHH
Confidence            36789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEec
Q 031693           90 KAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVK  152 (155)
Q Consensus        90 ka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~  152 (155)
                      ||||+++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|++
T Consensus        81 ka~g~~~gs~~p~~~~vG~it~~qv~eIA~~K~~dl~--a~~l~~a~k~I~GTArSmGi~V~g  141 (141)
T 3r8s_I           81 KAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMT--GADIEAMTRSIEGTARSMGLVVED  141 (141)
T ss_dssp             SSSSCSSCCSSTTTSCCSCCCSSTTSTTTSCCSSCCS--CSCTTTTTTTSTTTSSSSCCCCCC
T ss_pred             HHhCCCCCCCCCCCcEeeEecHHHHHHHHHHHHhhhc--CcCHHHHHHHHHHhhhcceEEEeC
Confidence            9999999999999999999999999999999999965  889999999999999999999985

>3j21_H 50S ribosomal protein L11P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=8.1e-61  Score=375.93  Aligned_cols=136  Identities=31%  Similarity=0.549  Sum_probs=127.2

Q ss_pred             eEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEe-cCCCeEEEEEeCCCHHHHHHHHhC
Q 031693           15 ATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITA-FKDNTFEFTVKSPSVTWYLKKAAG   93 (155)
Q Consensus        15 ~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v-~~drsf~~~v~~Ppts~likka~g   93 (155)
                      ++|+|+|+||+|+|+|||||+|||+|||+|+||++||++|++|+ |++|||+||| |+||||+|++++||+||||+||||
T Consensus         4 ~~ikl~v~aG~A~p~PplgPaLG~~Gvni~~f~k~fN~~T~~~~-G~~IpV~ItV~~~dRsf~f~vk~Ppas~Ll~Ka~g   82 (164)
T 3j21_H            4 QVVEVLVEGGKATPGPPLGPAIGPLGLNVKQVVDKINEATKDFA-GMQVPVKIIVDPVTKQFEIEVGVPPTSQLIKKELG   82 (164)
T ss_dssp             SSSCEEEESSCCCCHHHHHHHCCCSSSCTTHHHHHHHHHHCCSS-CCEEEECBCCCTTTCCCCBCCSSSSSTTHHHHHHC
T ss_pred             eEEEEEEecCccCCCCCcchhhcccCCcHHHHHHHHHHHHhhcC-CCeeEEEEEEecCCceEEEEEcCCCHHHHHHHHhC
Confidence            46899999999999999999999999999999999999999997 9999999999 999999999999999999999999


Q ss_pred             CCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           94 IESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        94 ~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      +++||++|+++++|+||++||||||++|++|++  +.+|+++||+|+||||||||+|+++
T Consensus        83 ~~kgs~~p~k~~vG~it~~qi~eIA~~K~~dl~--a~~l~~a~k~I~GTArSmGi~V~g~  140 (164)
T 3j21_H           83 LEKGSGEPKHNIVGNLTMEQVIKIAKMKKDQML--ALTLKAAAKEVIGTALSMGVTVEGK  140 (164)
T ss_dssp             CCSCCSSTTTCCSCCCCHHHHHHHHHHHTTTTT--CCSHHHHHHHHHHHHHCCC------
T ss_pred             CCCCCCCCCCceeeeeeHHHHHHHHHHHHhhhc--ccCHHHHHHHHHHHhhcceEEEecc
Confidence            999999999999999999999999999999965  8899999999999999999999985

>2zkr_i 60S ribosomal protein L12; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} PDB: 3izc_J 3izs_J 3j16_H* 3o5h_L 3jyw_K 1s1i_K

Probab=100.00  E-value=1.7e-59  Score=368.72  Aligned_cols=138  Identities=20%  Similarity=0.268  Sum_probs=69.5

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHH
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKK   90 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likk   90 (155)
                      ..+.++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++|++|+ |++|||+||| +||||+|++ +||+||||+|
T Consensus         7 ~~~~~~ikL~v~aG~A~p~PplGPaLG~~Gvni~~fck~fN~~T~~~~-G~~ipV~Itv-~drsf~f~v-tPpas~Ll~k   83 (165)
T 2zkr_i            7 PNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDWK-GLRITVKLTI-QNRQAQIEV-VPSASALIIK   83 (165)
T ss_dssp             ------------------------------------------------------------------CCC-CCCHHHHHHH
T ss_pred             CCeeEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHHhhcC-CCeEEEEEEE-cCCeeeEEE-CCCHHHHHHH
Confidence            457889999999999999999999999999999999999999999996 9999999999 899999999 9999999999


Q ss_pred             HhCCCCCCC--CCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEecc
Q 031693           91 AAGIESGSS--RPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKE  153 (155)
Q Consensus        91 a~g~~~gs~--~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~  153 (155)
                      |||+++||+  +|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|++.
T Consensus        84 aag~~~gs~k~~p~~~~vG~it~~qv~eIA~~K~~dl~--a~~l~~a~k~I~GTArSmGi~V~g~  146 (165)
T 2zkr_i           84 ALKEPPRDRKKQKNIKHSGNITFDEIVNIARQMRHRSL--ARELSGTIKEILGTAQSVGCNVDGR  146 (165)
T ss_dssp             HHTCSSCCSSTTTCSSCSEEECHHHHHHHHHHHTTTCC--CSSHHHHHHHHHHHHHHHTEEEC--
T ss_pred             HhCCCCCCcccccCceEEeeEeHHHHHHHHHHHHHhhc--CccHHHHHHHHHHHHHhCeeEEeCC
Confidence            999999995  599999999999999999999999965  8899999999999999999999974

>1wib_A 60S ribosomal protein L12; N-terminal domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, ribosome; NMR {Mus musculus} SCOP: d.47.1.1

Probab=100.00  E-value=2.8e-36  Score=216.91  Aligned_cols=80  Identities=18%  Similarity=0.266  Sum_probs=77.3

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHH
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKK   90 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likk   90 (155)
                      .++.++|+|+|+||+|+|+|||||+|||+|||+|+||||||++|++|+ |++|||+|||| ||+|+|++ +||+|+||+|
T Consensus        13 p~~~~~ikL~v~aG~A~p~pplgPaLG~~Glni~~f~k~fn~~T~~~k-G~~ipV~itv~-drsf~~~v-~PpaS~Ll~k   89 (92)
T 1wib_A           13 PNEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDWK-GLRITVKLTIQ-NRQAQIEV-VPSASALSGP   89 (92)
T ss_dssp             SSSCEEEEEEEETTCCCCSSCSHHHHTTTCSCHHHHHHHHHHHTTTTT-TSEEEEEEEEE-TTEEECCB-CSCCCCCCCC
T ss_pred             CCeEEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHHhhcC-CCeEEEEEEEe-CCeeEEEE-cCCHHHHHHH
Confidence            468899999999999999999999999999999999999999999997 99999999999 99999999 9999999999


Q ss_pred             HhC
Q 031693           91 AAG   93 (155)
Q Consensus        91 a~g   93 (155)
                      ++|
T Consensus        90 ~~~   92 (92)
T 1wib_A           90 SSG   92 (92)
T ss_dssp             SCC
T ss_pred             hcC
Confidence            876

>3cjs_B 50S ribosomal protein L11, ribosomal protein L11 methyltransferase; S-adenosyl-L-methionine dependent methyltransferase; 1.37A {Thermus thermophilus} SCOP: d.47.1.1 PDB: 3cju_B* 2bcw_A

Probab=100.00  E-value=6.1e-35  Score=201.61  Aligned_cols=71  Identities=48%  Similarity=0.825  Sum_probs=69.1

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCC
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSP   82 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~P   82 (155)
                      |++.++|+|+++||+|+|+|||||+|||+|||+|+||||||++|++|+ |++|||+|+||+||||+|++++|
T Consensus         2 k~~~~~ikl~v~aG~A~p~PplgPaLG~~Gvni~~f~k~fN~~T~~~~-G~~ipV~Itv~~drsf~~~~ktP   72 (72)
T 3cjs_B            2 KKVVAVVKLQLPAGKATPAPPVGPALGQHGANIMEFVKAFNAATANMG-DAIVPVEITIYADRSFTFVTKTP   72 (72)
T ss_dssp             CCEEEEEEEEEETTCCCSSTTHHHHHHTTTCCHHHHHHHHHHHHGGGC-SCEEEEEEEEETTSCEEEEECCC
T ss_pred             cceEEEEEEEEecCccCCCCCccchhcccCCCHHHHHHHHHHHHhhcC-CCeEeEEEEEeCCCeEEEEEcCC
Confidence            578999999999999999999999999999999999999999999995 99999999999999999999987

>1hc8_A Ribosomal protein L11; ribosome, ribosomal RNA, tertiary structure, RNA-protein; HET: GTP; 2.8A {Bacillus stearothermophilus} SCOP: a.4.7.1 PDB: 1y39_A* 1aci_A 1fow_A 1fox_A 1foy_A 2fow_A

Probab=100.00  E-value=4e-34  Score=199.34  Aligned_cols=76  Identities=41%  Similarity=0.568  Sum_probs=72.2

Q ss_pred             EEEEEeCCCHHHHHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEec
Q 031693           75 FEFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVK  152 (155)
Q Consensus        75 f~~~v~~Ppts~likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~  152 (155)
                      |+|++++||+||||+||||+++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|++
T Consensus         1 f~f~~ktPpas~Ll~kaagi~kgs~~p~~~~vG~it~~qv~eIA~~K~~dl~--a~~l~~a~k~I~GTArSmGi~V~~   76 (76)
T 1hc8_A            1 FTFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLN--AASIEAAMRMIEGTARSMGIVVEN   76 (76)
T ss_dssp             -CCCCCCCCHHHHHHHHHTCSCCCSSTTTCCCEEECHHHHHHHHHHSGGGCC--CSSHHHHHHHHHHHHHHHTEEEC-
T ss_pred             CEEEEcCCCHHHHHHHHhCCCCCCCCCCCcEeeeecHHHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHcCeeEeeC
Confidence            7899999999999999999999999999999999999999999999999965  889999999999999999999985

>1qa6_A Ribosomal protein L11; ribosomal RNA, tertiary structur,E RNA-protein interaction, minor groove binding, antibiotic binding; 2.80A {Geobacillus stearothermophilus} SCOP: a.4.7.1 PDB: 1c04_C

Probab=99.96  E-value=4.9e-30  Score=174.83  Aligned_cols=67  Identities=42%  Similarity=0.575  Sum_probs=64.8

Q ss_pred             eCCCHHHHHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCe
Q 031693           80 KSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGI  148 (155)
Q Consensus        80 ~~Ppts~likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi  148 (155)
                      ++||+||||+||+|+++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||
T Consensus         1 ktPpas~Ll~kaagi~kgs~~p~~~~vG~it~~qv~eIA~~K~~dl~--a~~l~~a~k~I~GTArSmGi   67 (67)
T 1qa6_A            1 KTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLN--AASIEAAMRMIEGTARSMGI   67 (67)
T ss_dssp             CCSCHHHHHHHHHTCSCCCCTTSSCCCCCCTTTHHHHHHHHHGGGCC--CSSHHHHHHHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHhCCCCCCCCCCCcccceecHHHHHHHHHHHHHhhc--ccCHHHHHHHHHHHHHhcCC
Confidence            58999999999999999999999999999999999999999999965  88999999999999999997

---

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	155
d2gycg2	71	d.47.1.1 (G:2-72) Ribosomal protein L11, N-termina	8e-28
d3cjsb1	70	d.47.1.1 (B:1-70) Ribosomal protein L11, N-termina	7e-25
d1hc8a_	74	a.4.7.1 (A:) Ribosomal protein L11, C-terminal dom	7e-25
d1mmsa2	63	d.47.1.1 (A:8-70) Ribosomal protein L11, N-termina	2e-24
d1mmsa1	70	a.4.7.1 (A:71-140) Ribosomal protein L11, C-termin	6e-24
d3cjrb1	67	a.4.7.1 (B:71-137) Ribosomal protein L11, C-termin	1e-22
d2gycg1	68	a.4.7.1 (G:73-140) Ribosomal protein L11, C-termin	4e-22
d1vqoi1	70	a.4.7.1 (I:71-140) Ribosomal protein L11, C-termin	9e-22
d1wiba_	92	d.47.1.1 (A:) 60S ribosomal protein L12 {Mouse (Mu	4e-19

>d2gycg2 d.47.1.1 (G:2-72) Ribosomal protein L11, N-terminal domain {Escherichia coli [TaxId: 562]} Length = 71

class: Alpha and beta proteins (a+b)
fold: Ribosomal L11/L12e N-terminal domain
superfamily: Ribosomal L11/L12e N-terminal domain
family: Ribosomal L11/L12e N-terminal domain
domain: Ribosomal protein L11, N-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 96.3 bits (240), Expect = 8e-28
 Identities = 34/71 (47%), Positives = 46/71 (64%)

Query: 11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAF 70
          + V A ++L V AG A P+PPVGPALGQ  +N+M FCK FNA+T   +   P+ V IT +
Sbjct: 1  KKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVY 60

Query: 71 KDNTFEFTVKS 81
           D +F F  K+
Sbjct: 61 ADRSFTFVTKT 71

>d3cjsb1 d.47.1.1 (B:1-70) Ribosomal protein L11, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 70

class: Alpha and beta proteins (a+b)
fold: Ribosomal L11/L12e N-terminal domain
superfamily: Ribosomal L11/L12e N-terminal domain
family: Ribosomal L11/L12e N-terminal domain
domain: Ribosomal protein L11, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

 Score = 89.0 bits (221), Expect = 7e-25
 Identities = 33/68 (48%), Positives = 41/68 (60%), Gaps = 1/68 (1%)

Query: 13 VAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKD 72
          V A ++L +PAG A PAPPVGPALGQ+  N+M F K FNA T        + V IT + D
Sbjct: 4  VVAVVKLQLPAGKATPAPPVGPALGQHGANIMEFVKAFNAATANMGD-AIVPVEITIYAD 62

Query: 73 NTFEFTVK 80
           +F F  K
Sbjct: 63 RSFTFVTK 70

>d1hc8a_ a.4.7.1 (A:) Ribosomal protein L11, C-terminal domain {Bacillus stearothermophilus [TaxId: 1422]} Length = 74

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Bacillus stearothermophilus [TaxId: 1422]

 Score = 88.9 bits (221), Expect = 7e-25
 Identities = 30/74 (40%), Positives = 40/74 (54%), Gaps = 2/74 (2%)

Query: 77  FTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESIC 136
           F  K+P     LKKAAGIESGS  P     +T+    + EIA++K  D       +E+  
Sbjct: 2   FITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLNA--ASIEAAM 59

Query: 137 KSIIGTAATMGIKV 150
           + I GTA +MGI V
Sbjct: 60  RMIEGTARSMGIVV 73

>d1mmsa2 d.47.1.1 (A:8-70) Ribosomal protein L11, N-terminal domain {Thermotoga maritima [TaxId: 2336]} Length = 63

class: Alpha and beta proteins (a+b)
fold: Ribosomal L11/L12e N-terminal domain
superfamily: Ribosomal L11/L12e N-terminal domain
family: Ribosomal L11/L12e N-terminal domain
domain: Ribosomal protein L11, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 87.4 bits (217), Expect = 2e-24
 Identities = 33/63 (52%), Positives = 43/63 (68%), Gaps = 1/63 (1%)

Query: 17 IRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFE 76
          I+L +PAG A PAPPVGPALGQ+ +N+M FCK FNA T   K    + V IT ++D +F 
Sbjct: 2  IKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETAD-KAGMILPVVITVYEDKSFT 60

Query: 77 FTV 79
          F +
Sbjct: 61 FII 63

>d1mmsa1 a.4.7.1 (A:71-140) Ribosomal protein L11, C-terminal domain {Thermotoga maritima [TaxId: 2336]} Length = 70

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 86.6 bits (215), Expect = 6e-24
 Identities = 36/72 (50%), Positives = 42/72 (58%), Gaps = 2/72 (2%)

Query: 80  KSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSI 139
           K+P  ++ LKKAAGIE GSS P       VT K I EIAK K  D       LE+  K I
Sbjct: 1   KTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPD--LNANSLEAAMKII 58

Query: 140 IGTAATMGIKVV 151
            GTA +MGI+VV
Sbjct: 59  EGTAKSMGIEVV 70

>d3cjrb1 a.4.7.1 (B:71-137) Ribosomal protein L11, C-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 67

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Thermus thermophilus [TaxId: 274]

 Score = 83.1 bits (206), Expect = 1e-22
 Identities = 23/68 (33%), Positives = 39/68 (57%), Gaps = 2/68 (2%)

Query: 82  PSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIG 141
           P  ++ ++KAAG+E G+ +PG      +T + + EIAK K   P      LE+  + I G
Sbjct: 2   PPASYLIRKAAGLEKGAHKPGREKVGRITWEQVLEIAKQK--MPDLNTTDLEAAARMIAG 59

Query: 142 TAATMGIK 149
           +A +MG++
Sbjct: 60  SARSMGVE 67

>d2gycg1 a.4.7.1 (G:73-140) Ribosomal protein L11, C-terminal domain {Escherichia coli [TaxId: 562]} Length = 68

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Escherichia coli [TaxId: 562]

 Score = 81.6 bits (202), Expect = 4e-22
 Identities = 26/69 (37%), Positives = 39/69 (56%), Gaps = 2/69 (2%)

Query: 82  PSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIG 141
           P     LKKAAGI+SGS +P       ++   + EIA+ K +D       +E++ +SI G
Sbjct: 1   PPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMTG--ADIEAMTRSIEG 58

Query: 142 TAATMGIKV 150
           TA +MG+ V
Sbjct: 59  TARSMGLVV 67

>d1vqoi1 a.4.7.1 (I:71-140) Ribosomal protein L11, C-terminal domain {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 70

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 80.8 bits (200), Expect = 9e-22
 Identities = 17/69 (24%), Positives = 33/69 (47%), Gaps = 2/69 (2%)

Query: 82  PSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIG 141
           P     +K  AG E+GS  P     + +++  + +IA+ K  D       L +  K ++G
Sbjct: 3   PPTAELIKDEAGFETGSGEPQEDFVADLSVDQVKQIAEQKHPDLLS--YDLTNAAKEVVG 60

Query: 142 TAATMGIKV 150
           T  ++G+ +
Sbjct: 61  TCTSLGVTI 69

>d1wiba_ d.47.1.1 (A:) 60S ribosomal protein L12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 92

class: Alpha and beta proteins (a+b)
fold: Ribosomal L11/L12e N-terminal domain
superfamily: Ribosomal L11/L12e N-terminal domain
family: Ribosomal L11/L12e N-terminal domain
domain: 60S ribosomal protein L12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 74.8 bits (184), Expect = 4e-19
 Identities = 14/79 (17%), Positives = 27/79 (34%), Gaps = 5/79 (6%)

Query: 16 TIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYK-PETPMSVTITAFKDNT 74
           + L    G       + P +G   L+      D    T  +K     + +TI   ++  
Sbjct: 18 VVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDWKGLRITVKLTI---QNRQ 74

Query: 75 FEFTVKSPSVTWYLKKAAG 93
           +  V  PS +     ++G
Sbjct: 75 AQIEV-VPSASALSGPSSG 92

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	155
d3cjsb1	70	Ribosomal protein L11, N-terminal domain {Thermus	100.0
d2gycg2	71	Ribosomal protein L11, N-terminal domain {Escheric	100.0
d1mmsa2	63	Ribosomal protein L11, N-terminal domain {Thermoto	100.0
d1wiba_	92	60S ribosomal protein L12 {Mouse (Mus musculus) [T	99.98
d1hc8a_	74	Ribosomal protein L11, C-terminal domain {Bacillus	99.97
d1mmsa1	70	Ribosomal protein L11, C-terminal domain {Thermoto	99.97
d1vqoi1	70	Ribosomal protein L11, C-terminal domain {Archaeon	99.96
d1xbpg1	72	Ribosomal protein L11, C-terminal domain {Deinococ	99.96
d3cjrb1	67	Ribosomal protein L11, C-terminal domain {Thermus	99.95
d2gycg1	68	Ribosomal protein L11, C-terminal domain {Escheric	99.94

>d3cjsb1 d.47.1.1 (B:1-70) Ribosomal protein L11, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal L11/L12e N-terminal domain
superfamily: Ribosomal L11/L12e N-terminal domain
family: Ribosomal L11/L12e N-terminal domain
domain: Ribosomal protein L11, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=5.3e-35  Score=198.98  Aligned_cols=69  Identities=48%  Similarity=0.805  Sum_probs=66.3

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEe
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVK   80 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~   80 (155)
                      |++.++|||+++||+|+|+|||||+|||+|||+|+|||+||++|++++ |.+|||+|+||+||||+|+++
T Consensus         2 Kkv~~~ikl~v~aG~A~P~PPvGpaLG~~GiNi~~Fck~fN~~T~~~~-g~~vpv~Itv~~Drsf~f~iK   70 (70)
T d3cjsb1           2 KKVVAVVKLQLPAGKATPAPPVGPALGQHGANIMEFVKAFNAATANMG-DAIVPVEITIYADRSFTFVTK   70 (70)
T ss_dssp             CCEEEEEEEEEETTCCCSSTTHHHHHHTTTCCHHHHHHHHHHHHGGGC-SCEEEEEEEEETTSCEEEEEC
T ss_pred             cceeeEEEEEeecCCCCCCCCCcchhhhcCcCHHHHHHHHHHHHHhcC-CCceeeEEEEeCCCcEEEEeC
Confidence            568899999999999999999999999999999999999999999987 889999999999999999985

>d2gycg2 d.47.1.1 (G:2-72) Ribosomal protein L11, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal L11/L12e N-terminal domain
superfamily: Ribosomal L11/L12e N-terminal domain
family: Ribosomal L11/L12e N-terminal domain
domain: Ribosomal protein L11, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=5.6e-37  Score=209.30  Aligned_cols=71  Identities=48%  Similarity=0.862  Sum_probs=68.6

Q ss_pred             cceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeC
Q 031693           11 RPVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKS   81 (155)
Q Consensus        11 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~   81 (155)
                      |++.++|||+++||+|+|+|||||+|||+|||+|+|||+||++|++|+.|++|||+|+||+||||+|+++|
T Consensus         1 Kkv~~~ikl~i~aG~A~PaPPvGpaLG~~GiNi~~F~k~fN~~T~~~~~G~~vpV~Itv~~Drsf~f~ikT   71 (71)
T d2gycg2           1 KKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYADRSFTFVTKT   71 (71)
T ss_dssp             CCCCCCCCCCBCTTCCCSSSSTTTTTTSSSCCSSSSSTTTTTTSCSSCTTCCBCCBCCCCSSSCCCCBCCC
T ss_pred             CceeEEEEEEEecCCCCCCCCCcchhhhcCcCHHHHHHHHHHHhhccCCCCEEEEEEEEeCCCeEEEEEcC
Confidence            56889999999999999999999999999999999999999999999999999999999999999999975

>d1mmsa2 d.47.1.1 (A:8-70) Ribosomal protein L11, N-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal L11/L12e N-terminal domain
superfamily: Ribosomal L11/L12e N-terminal domain
family: Ribosomal L11/L12e N-terminal domain
domain: Ribosomal protein L11, N-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=100.00  E-value=8.6e-34  Score=189.45  Aligned_cols=62  Identities=52%  Similarity=0.930  Sum_probs=60.0

Q ss_pred             EEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEE
Q 031693           17 IRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTV   79 (155)
Q Consensus        17 ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v   79 (155)
                      |||+++||+|+|+|||||+|||+|||+|+|||+||++|+++ .|++|||+|+||+||||+|++
T Consensus         2 ikl~v~aG~A~p~PPvGpaLG~~GiNi~~F~k~fN~~Tk~~-~g~~vpV~I~v~~DrsF~f~i   63 (63)
T d1mmsa2           2 IKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADK-AGMILPVVITVYEDKSFTFII   63 (63)
T ss_dssp             EEEEEETTCCCCTTTTTHHHHTTTCCHHHHHHHHHHHTTTS-CSSEEEEEEEECTTSCEEEEE
T ss_pred             eEEEEecCCCCCCCCCcchhhhcCcCHHHHHHHHHHHhccc-CCCeEeEEEEEeCCCcEEEeC
Confidence            89999999999999999999999999999999999999995 599999999999999999986

>d1wiba_ d.47.1.1 (A:) 60S ribosomal protein L12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal L11/L12e N-terminal domain
superfamily: Ribosomal L11/L12e N-terminal domain
family: Ribosomal L11/L12e N-terminal domain
domain: 60S ribosomal protein L12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.98  E-value=2.2e-34  Score=205.21  Aligned_cols=79  Identities=18%  Similarity=0.273  Sum_probs=75.8

Q ss_pred             ceeeEEEEEeeccCCCCCCCCCcccCcCCCChhHHHHHHHHHhhCCCCCCceEEEEEecCCCeEEEEEeCCCHHHHHHHH
Q 031693           12 PVAATIRLTVPAGGARPAPPVGPALGQYRLNLMAFCKDFNARTQKYKPETPMSVTITAFKDNTFEFTVKSPSVTWYLKKA   91 (155)
Q Consensus        12 ~~~~~ikl~v~aG~A~p~PplGP~LG~~Gin~~~fck~fN~~T~~~~~g~~vpV~i~v~~drsf~~~v~~Ppts~likka   91 (155)
                      ..+++|+|+|+||+|+|+|||||+|||+|||+|+||+|||++|++|+ |++|||+|+|+ ||+|+|++ +||+|+||++|
T Consensus        14 ~~v~~Ikl~v~gG~A~p~PplgP~LGp~Gini~~f~k~fN~~T~~~k-G~~VpV~itV~-dRsf~i~V-~PpaS~L~~~a   90 (92)
T d1wiba_          14 NEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATGDWK-GLRITVKLTIQ-NRQAQIEV-VPSASALSGPS   90 (92)
T ss_dssp             SSCEEEEEEEETTCCCCSSCSHHHHTTTCSCHHHHHHHHHHHTTTTT-TSEEEEEEEEE-TTEEECCB-CSCCCCCCCCS
T ss_pred             CceEEEEEEEecCccCCCCCccccccccCCCHHHHHHHHHHhhhhcc-CCeEeEEEEEe-CceEEEEE-cCCHHHHHHHh
Confidence            35789999999999999999999999999999999999999999997 99999999996 99999999 89999999999


Q ss_pred             hC
Q 031693           92 AG   93 (155)
Q Consensus        92 ~g   93 (155)
                      +|
T Consensus        91 aG   92 (92)
T d1wiba_          91 SG   92 (92)
T ss_dssp             CC
T ss_pred             cC
Confidence            87

>d1hc8a_ a.4.7.1 (A:) Ribosomal protein L11, C-terminal domain {Bacillus stearothermophilus [TaxId: 1422]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.97  E-value=1.4e-32  Score=188.98  Aligned_cols=74  Identities=41%  Similarity=0.548  Sum_probs=70.7

Q ss_pred             EEEEeCCCHHHHHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEe
Q 031693           76 EFTVKSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV  151 (155)
Q Consensus        76 ~~~v~~Ppts~likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~  151 (155)
                      +|++++||+||||+|++|+++||++|+++++|+||++||||||++|++|++  +.+|+++||+|+||||||||+|+
T Consensus         1 TF~~ktPP~s~llkkaagi~kGs~~p~~~~vG~it~~qi~eIAk~K~~Dl~--~~~l~~a~k~v~GtArSMGI~Ve   74 (74)
T d1hc8a_           1 TFITKTPPAAVLLKKAAGIESGSGEPNRNKVATIKRDKVREIAELKMPDLN--AASIEAAMRMIEGTARSMGIVVE   74 (74)
T ss_dssp             CCCCCCCCHHHHHHHHHTCSCCCSSTTTCCCEEECHHHHHHHHHHSGGGCC--CSSHHHHHHHHHHHHHHHTEEEC
T ss_pred             CccccCCCHHHHHHHHHCCCcCcCCCCCeeeeEEcHHHHHHHHHHHHhhcC--CCCHHHHHHHHHhhHhhceEEeC
Confidence            468899999999999999999999999999999999999999999999955  88999999999999999999985

>d1mmsa1 a.4.7.1 (A:71-140) Ribosomal protein L11, C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.97  E-value=2.4e-31  Score=181.03  Aligned_cols=70  Identities=51%  Similarity=0.627  Sum_probs=67.5

Q ss_pred             eCCCHHHHHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEe
Q 031693           80 KSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV  151 (155)
Q Consensus        80 ~~Ppts~likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~  151 (155)
                      ++||+||||+|++|+++||++|+++.+|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|+
T Consensus         1 KtPP~s~likkaagi~kGs~~p~~~~vg~it~~qv~eIAk~K~~dl~--~~~l~~a~k~v~GtArSMGI~VV   70 (70)
T d1mmsa1           1 KTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLN--ANSLEAAMKIIEGTAKSMGIEVV   70 (70)
T ss_dssp             CCCCHHHHHHHHHTCSSCCSSTTTSCCEEECHHHHHHHHHHHGGGCC--CSSHHHHHHHHHHHHTTTTEEEC
T ss_pred             CCCCHHHHHHHHHCCCcCCCCCCCcccCeEcHHHHHHHHHHHhcccC--CCCHHHHHHHHHHhHhhCeeEeC
Confidence            68999999999999999999999999999999999999999999955  88999999999999999999996

>d1vqoi1 a.4.7.1 (I:71-140) Ribosomal protein L11, C-terminal domain {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=99.96  E-value=7.4e-31  Score=178.64  Aligned_cols=70  Identities=24%  Similarity=0.459  Sum_probs=67.2

Q ss_pred             eCCCHHHHHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEe
Q 031693           80 KSPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV  151 (155)
Q Consensus        80 ~~Ppts~likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~  151 (155)
                      .|||+||||+|++|+++||++|+++++|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|+
T Consensus         1 gtPp~s~ll~ka~gi~kGs~~p~~~~vg~it~~~i~eIAk~K~~dl~--~~~l~~~~k~V~GTa~SmGi~Ve   70 (70)
T d1vqoi1           1 GVPPTAELIKDEAGFETGSGEPQEDFVADLSVDQVKQIAEQKHPDLL--SYDLTNAAKEVVGTCTSLGVTIE   70 (70)
T ss_dssp             CCCCHHHHHHHHTCCSSCCSSTTTSCCEEECHHHHHHHHHHCTTTCC--CSSHHHHHHHHTTTSTTTTEEEC
T ss_pred             CCCCHHHHHHHHHCCCCCCCCCCCeeeeeeCHHHHHHHHHHHHHhcC--CCCHHHHHHHHHhhhhcceEEeC
Confidence            48999999999999999999999999999999999999999999965  88999999999999999999986

>d1xbpg1 a.4.7.1 (G:72-143) Ribosomal protein L11, C-terminal domain {Deinococcus radiodurans [TaxId: 1299]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=99.96  E-value=1.1e-30  Score=178.66  Aligned_cols=72  Identities=32%  Similarity=0.520  Sum_probs=68.9

Q ss_pred             CCHHHHHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEeccCC
Q 031693           82 PSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVVKELE  155 (155)
Q Consensus        82 Ppts~likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~~~~~  155 (155)
                      ||+||||+|++|+++||++|+++++|+||++||||||++|++|++  +.+|+++||+|+||||||||+|++..+
T Consensus         1 Pp~s~ll~kaagi~kGs~~p~~~~vG~it~~~i~eIAk~K~~dl~--~~~l~~~~k~V~GTa~SmGi~Veg~p~   72 (72)
T d1xbpg1           1 PPMSYLIRKAAGIGKGSSTPNKAKVGKLNWDQVLEIAKTKMPDLN--AGSVEAAANTVAGTARSMGVTVEGGPN   72 (72)
T ss_pred             CCHHHHHHHHHCcCcCCCCCCCchhcccCHHHHHHHHHHHHHhcC--CCCHHHHHHHHHhhheeceEEEecCCC
Confidence            899999999999999999999999999999999999999999965  889999999999999999999998653

>d3cjrb1 a.4.7.1 (B:71-137) Ribosomal protein L11, C-terminal domain {Thermus thermophilus [TaxId: 274]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.95  E-value=3.6e-30  Score=173.89  Aligned_cols=67  Identities=34%  Similarity=0.634  Sum_probs=45.7

Q ss_pred             CCCHHHHHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeE
Q 031693           81 SPSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIK  149 (155)
Q Consensus        81 ~Ppts~likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~  149 (155)
                      |||+||||+|+||+++||++|+++.+|+||++||||||++|++|++  +.+|+++||+|+||||||||+
T Consensus         1 TPP~s~llkkaagi~kGs~~p~~e~vG~it~~~i~eIAk~K~~dl~--~~~l~~a~k~v~GTArSmGIe   67 (67)
T d3cjrb1           1 TPPASYLIRKAAGLEKGAHKPGREKVGRITWEQVLEIAKQKMPDLN--TTDLEAAARMIAGSARSMGVE   67 (67)
T ss_dssp             CCCHHHHHC-------------------CCCSGGGTHHHHSTTTSC--CSCSSTTHHHHHHHHHTTTCC
T ss_pred             CCcHHHHHHHHHCCCcCCCCCCCcccceecHHHHHHHHHHHhhccc--CCCHHHHHHHHHHHhhhcccC
Confidence            7999999999999999999999999999999999999999999955  889999999999999999984

>d2gycg1 a.4.7.1 (G:73-140) Ribosomal protein L11, C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: DNA/RNA-binding 3-helical bundle
superfamily: Ribosomal protein L11, C-terminal domain
family: Ribosomal protein L11, C-terminal domain
domain: Ribosomal protein L11, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.94  E-value=4e-30  Score=174.10  Aligned_cols=68  Identities=38%  Similarity=0.540  Sum_probs=65.5

Q ss_pred             CCHHHHHHHHhCCCCCCCCCCCeeeecccHHHHHHHHHhcccCCCCCCCCHHHHHHHHHHhhhhcCeEEe
Q 031693           82 PSVTWYLKKAAGIESGSSRPGHVTASTVTLKHIYEIAKVKQSDPYCQYMPLESICKSIIGTAATMGIKVV  151 (155)
Q Consensus        82 Ppts~likka~g~~~gs~~p~~~~vG~It~~~v~eIAk~K~~d~~~~~~~l~~~~k~VlGTa~SmGi~V~  151 (155)
                      ||+||||+|++|+++||++|+++.+|+||++||||||+.|++|++  +.+|+++||+|+||||||||+|+
T Consensus         1 PP~s~llkkaagi~kGs~~p~~~~vg~it~~qv~eIAk~K~~dl~--~~~l~~a~k~V~GTArSMGI~Ve   68 (68)
T d2gycg1           1 PPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMT--GADIEAMTRSIEGTARSMGLVVE   68 (68)
T ss_dssp             CCSSTTTGGGSCSSSCCSSTTSSCCCCCCSHHHHSTTTTTTTTCC--CSSSHHHHTTTTTSSCSSSCCCC
T ss_pred             CCHHHHHHHHHCCCcCCCCCCCcEeeeecHHHHHHHHHHHhcccC--CCCHHHHHHHHHhhHhcceEEeC
Confidence            899999999999999999999999999999999999999999955  88999999999999999999875