Citrus Sinensis ID: 031086

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160------
Protein Sequence
MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD
Secondary Structure (PSIPRED)
cccccccccEEEEEEEEEccccccccccccccccccccHHHHHHHHHHHHHccccccEEEEEEEEEccccEEEEEccHHHHHHHHcccccccccccccccEEEcccHHHHHHHHHHcccccccccHHHHHHHHHHcccEEcEEEcccccHHHHHHHHccEEccccc
Secondary Structure Prediction (SSPRO)
cccccccccEEEEEEEEcccccccccccccccccccccHHHHHHHHHHHHHHHccccEEEEEEEEEccEEEEEEcccHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHHcHHEccEEEccccHHHHHHHHHcccEEcccc
Coil and Loop (DISEMBL)
mppkfdpsqvVDVYVRVTggevgaasslapkigplglspkkiGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKALKeperdrkktknikhngnitLDDVIEIAKvmrprsmakdlsGTVKEILGTCVsvgctvdgkdprdlqqeitdgdveipld
Flexible Loop (DISEMBL)
mppkfdpsqvVDVYVRVTGGevgaasslapkigplglspkkiGEDIAKEtakdwkglrVTVKLtvqnrqakvavvpsaAALVIKalkeperdrkktknikhngnitlddvIEIAKVMRPRSMAKDLSGTVKEILGTCVSVgctvdgkdprdlqqeitdgdveipld
Low Complexity Region (SEG)
MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD
Disordered region (IsUnstruct)
*********VVDVYVRVTGGEVGAASSLAPKIGPLGL****IGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKAL**************HNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD*********************
Disordered Region (DISOPRED)
*****DPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALV********************GNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPL*
Disordered Region (DISEMBL)
********QVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD
Disordered Region (DISPRO)
*PPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNI*HNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEI***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD
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	166	2.2.26 [Sep-21-2011]
O50003	166	60S ribosomal protein L12	N/A	no	1.0	1.0	0.921	8e-84
Q9FF52	166	60S ribosomal protein L12	yes	no	0.987	0.987	0.896	8e-82
P50883	166	60S ribosomal protein L12	no	no	0.987	0.987	0.890	1e-81
Q9LFH5	166	60S ribosomal protein L12	yes	no	0.987	0.987	0.884	2e-81
O75000	165	60S ribosomal protein L12	yes	no	0.981	0.987	0.719	3e-66
P50884	157	60S ribosomal protein L12	N/A	no	0.933	0.987	0.8	3e-65
P23358	165	60S ribosomal protein L12	yes	no	0.981	0.987	0.701	1e-63
P35979	165	60S ribosomal protein L12	yes	no	0.981	0.987	0.701	3e-63
P61866	165	60S ribosomal protein L12	yes	no	0.981	0.987	0.689	4e-63
P61865	165	60S ribosomal protein L12	N/A	no	0.981	0.987	0.689	4e-63

>sp|O50003|RL12_PRUAR 60S ribosomal protein L12 OS=Prunus armeniaca GN=RPL12 PE=2 SV=1

 Score =  308 bits (790), Expect = 8e-84,   Method: Compositional matrix adjust.
 Identities = 153/166 (92%), Positives = 162/166 (97%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETA DWKGLRVT
Sbjct: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETANDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV+VVPSAAALVIKALKEPERDRKKTKNIKH+G+I+LDDVIEIAK+M+ R
Sbjct: 61  VKLTVQNRQAKVSVVPSAAALVIKALKEPERDRKKTKNIKHSGHISLDDVIEIAKIMKHR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAK+L+GTVKEIL TCVSVGCTVDGKDP+DLQQEI DGDVEIPLD
Sbjct: 121 SMAKELAGTVKEILRTCVSVGCTVDGKDPKDLQQEIADGDVEIPLD 166

This protein binds directly to 26S ribosomal RNA.
Prunus armeniaca (taxid: 36596)

>sp|Q9FF52|RL123_ARATH 60S ribosomal protein L12-3 OS=Arabidopsis thaliana GN=RPL12C PE=2 SV=1

 Score =  302 bits (773), Expect = 8e-82,   Method: Compositional matrix adjust.
 Identities = 147/164 (89%), Positives = 158/164 (96%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPK DPSQ+VDVYVRVTGGEVGAASSLAPKIGPLGL+PKKIGEDIAKETAK+WKGLRVT
Sbjct: 1   MPPKLDPSQIVDVYVRVTGGEVGAASSLAPKIGPLGLAPKKIGEDIAKETAKEWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKK KNIKHNGNI+ DDVIEIAK+MRPR
Sbjct: 61  VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKVKNIKHNGNISFDDVIEIAKIMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           S+AK+LSGTVKEILGTCVSVGCTVDGKDP+DLQ+EI  GD++IP
Sbjct: 121 SIAKELSGTVKEILGTCVSVGCTVDGKDPKDLQEEINSGDIDIP 164

Binds directly to 26S ribosomal RNA.

Arabidopsis thaliana (taxid: 3702)

>sp|P50883|RL121_ARATH 60S ribosomal protein L12-1 OS=Arabidopsis thaliana GN=RPL12A PE=1 SV=2

 Score =  301 bits (771), Expect = 1e-81,   Method: Compositional matrix adjust.
 Identities = 146/164 (89%), Positives = 158/164 (96%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPK DPSQ+VDVYVRVTGGEVGAASSLAPKIGPLGL+PKKIGEDIAKETAK+WKGLRVT
Sbjct: 1   MPPKLDPSQIVDVYVRVTGGEVGAASSLAPKIGPLGLAPKKIGEDIAKETAKEWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKK KNIKHNGNI+ DDV EIA++MRPR
Sbjct: 61  VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKVKNIKHNGNISFDDVTEIARIMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           S+AK+LSGTV+EILGTCVSVGCTVDGKDP+D+QQEI DG+VEIP
Sbjct: 121 SIAKELSGTVREILGTCVSVGCTVDGKDPKDIQQEIQDGEVEIP 164

Binds directly to 26S ribosomal RNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFH5|RL122_ARATH 60S ribosomal protein L12-2 OS=Arabidopsis thaliana GN=RPL12B PE=1 SV=1

 Score =  300 bits (769), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 145/164 (88%), Positives = 158/164 (96%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPK DPSQ+VDVYVRVTGGEVGAASSLAPKIGPLGL+PKKIGEDIAKETAK+WKGLRVT
Sbjct: 1   MPPKLDPSQIVDVYVRVTGGEVGAASSLAPKIGPLGLAPKKIGEDIAKETAKEWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKK KNIKHNGNI+ DDV EIA++MRPR
Sbjct: 61  VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKVKNIKHNGNISFDDVTEIARIMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           S+AK+LSGTV+EILGTCVSVGCTVDGKDP+DLQQEI +G++EIP
Sbjct: 121 SIAKELSGTVREILGTCVSVGCTVDGKDPKDLQQEIQEGEIEIP 164

Binds directly to 26S ribosomal RNA.

Arabidopsis thaliana (taxid: 3702)

>sp|O75000|RL12_SCHPO 60S ribosomal protein L12 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpl1201 PE=1 SV=1

 Score =  250 bits (639), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 118/164 (71%), Positives = 145/164 (88%), Gaps = 1/164 (0%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDP++V  +++R  GGEV   S+LAPKIGPLGLSPKK+GEDIAK T KDWKGLRVT
Sbjct: 1   MPPKFDPNEVKTIFMRAVGGEVAGGSTLAPKIGPLGLSPKKVGEDIAKAT-KDWKGLRVT 59

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLT+QNRQA V+VVPSA+ALVIKALKEP RDRKK KN+ H+GN++LD++IE+A+ MR +
Sbjct: 60  VKLTIQNRQAAVSVVPSASALVIKALKEPARDRKKDKNVAHSGNVSLDEIIEVARTMRFK 119

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           S+AK+LSGTVKEILGT  SVGCTVDGK+P D+Q+EI +G++EIP
Sbjct: 120 SLAKELSGTVKEILGTAFSVGCTVDGKNPHDVQKEIDNGEIEIP 163

This protein binds directly to 26S ribosomal RNA.

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

>sp|P50884|RL12_CHLRE 60S ribosomal protein L12 (Fragment) OS=Chlamydomonas reinhardtii GN=RPL12 PE=2 SV=1

 Score =  247 bits (630), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 124/155 (80%), Positives = 137/155 (88%)

Query: 10  VVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQ 69
           VV+V VRVTGGEVG ASSLAPKIGPLGLSPKKIGEDIAKET KDWKGLR+TVKLTVQNRQ
Sbjct: 1   VVEVCVRVTGGEVGDASSLAPKIGPLGLSPKKIGEDIAKETLKDWKGLRITVKLTVQNRQ 60

Query: 70  AKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGT 129
           AK++V+PSAAALVIKALKEP RDRKK KNIKH G++T+ D+IEIA+VMRPRS AKDL+  
Sbjct: 61  AKISVIPSAAALVIKALKEPARDRKKEKNIKHTGSVTMSDIIEIARVMRPRSCAKDLANG 120

Query: 130 VKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
            KEILGT VSVGC VDGKDPRD+   I DG +EIP
Sbjct: 121 CKEILGTAVSVGCKVDGKDPRDVISAIDDGAIEIP 155

This protein binds directly to 26S ribosomal RNA.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|P23358|RL12_RAT 60S ribosomal protein L12 OS=Rattus norvegicus GN=Rpl12 PE=2 SV=1

 Score =  242 bits (617), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 115/164 (70%), Positives = 139/164 (84%), Gaps = 1/164 (0%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDP+++  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+T
Sbjct: 1   MPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATG-DWKGLRIT 59

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLT+QNRQA++ VVPSA+AL+IKALKEP RDRKK KNIKHNGNIT D+++ IA+ MR R
Sbjct: 60  VKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHNGNITFDEIVNIARQMRHR 119

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           S+A++LSGT+KEILGT  SVGC VDG+ P D+  +I  G VE P
Sbjct: 120 SLARELSGTIKEILGTAQSVGCNVDGRHPHDIIDDINSGAVECP 163

Binds directly to 26S ribosomal RNA.

Rattus norvegicus (taxid: 10116)

>sp|P35979|RL12_MOUSE 60S ribosomal protein L12 OS=Mus musculus GN=Rpl12 PE=1 SV=2

 Score =  240 bits (612), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 115/164 (70%), Positives = 139/164 (84%), Gaps = 1/164 (0%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDP++V  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+T
Sbjct: 1   MPPKFDPNEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATG-DWKGLRIT 59

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLT+QNRQA++ VVPSA+AL+IKALKEP RDRKK KNIKH+GNIT D+++ IA+ MR R
Sbjct: 60  VKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHSGNITFDEIVNIARQMRHR 119

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           S+A++LSGT+KEILGT  SVGC VDG+ P D+  +I  G VE P
Sbjct: 120 SLARELSGTIKEILGTAQSVGCNVDGRHPHDIIDDINSGAVECP 163

Binds directly to 26S ribosomal RNA.

Mus musculus (taxid: 10090)

>sp|P61866|RL12_CAEEL 60S ribosomal protein L12 OS=Caenorhabditis elegans GN=rpl-12 PE=3 SV=1

 Score =  239 bits (611), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 113/164 (68%), Positives = 141/164 (85%), Gaps = 1/164 (0%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDP+++  VY+R  GGEVGA S+LAPK+GPLGLSPKKIGEDIAK T +DWKGL+VT
Sbjct: 1   MPPKFDPTEIKIVYLRCVGGEVGATSALAPKVGPLGLSPKKIGEDIAKAT-QDWKGLKVT 59

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
            KLT+QNR AK+ VVPSAA+L++K LKEP RDRKK KN+KHNG++T+D +I+IA++MRPR
Sbjct: 60  CKLTIQNRVAKIDVVPSAASLIVKELKEPPRDRKKVKNVKHNGDLTVDTIIKIARIMRPR 119

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           SMAK L GTVKEILGT  SVGCT+DG+ P D+ + I +G++EIP
Sbjct: 120 SMAKKLEGTVKEILGTAQSVGCTIDGQHPHDIIESIANGEIEIP 163

Binds directly to 26S ribosomal RNA.

Caenorhabditis elegans (taxid: 6239)

>sp|P61865|RL12_CAEBR 60S ribosomal protein L12 OS=Caenorhabditis briggsae GN=rpl-12 PE=3 SV=1

 Score =  239 bits (611), Expect = 4e-63,   Method: Compositional matrix adjust.
 Identities = 113/164 (68%), Positives = 141/164 (85%), Gaps = 1/164 (0%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDP+++  VY+R  GGEVGA S+LAPK+GPLGLSPKKIGEDIAK T +DWKGL+VT
Sbjct: 1   MPPKFDPTEIKIVYLRCVGGEVGATSALAPKVGPLGLSPKKIGEDIAKAT-QDWKGLKVT 59

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
            KLT+QNR AK+ VVPSAA+L++K LKEP RDRKK KN+KHNG++T+D +I+IA++MRPR
Sbjct: 60  CKLTIQNRVAKIDVVPSAASLIVKELKEPPRDRKKVKNVKHNGDLTVDTIIKIARIMRPR 119

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           SMAK L GTVKEILGT  SVGCT+DG+ P D+ + I +G++EIP
Sbjct: 120 SMAKKLEGTVKEILGTAQSVGCTIDGQHPHDIIESIANGEIEIP 163

Binds directly to 26S ribosomal RNA.

Caenorhabditis briggsae (taxid: 6238)

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	166
359478349	166	PREDICTED: 60S ribosomal protein L12-lik	1.0	1.0	0.963	2e-86
225439982	166	PREDICTED: 60S ribosomal protein L12 [Vi	1.0	1.0	0.957	9e-86
359806180	166	uncharacterized protein LOC100811654 [Gl	1.0	1.0	0.945	9e-86
255578850	166	60S ribosomal protein L12, putative [Ric	1.0	1.0	0.957	1e-85
225449052	166	PREDICTED: 60S ribosomal protein L12 [Vi	1.0	1.0	0.951	2e-85
313586509	166	60S ribosomal protein L12A [Hevea brasil	1.0	1.0	0.951	3e-85
255557008	166	60S ribosomal protein L12, putative [Ric	1.0	1.0	0.957	3e-85
356548248	166	PREDICTED: 60S ribosomal protein L12-lik	0.993	0.993	0.939	2e-84
418730035	166	60S ribosomal protein L12 [Solanum tuber	1.0	1.0	0.945	2e-84
351723915	166	uncharacterized protein LOC100527860 [Gl	1.0	1.0	0.933	3e-84

>gi|359478349|ref|XP_003632111.1| PREDICTED: 60S ribosomal protein L12-like [Vitis vinifera]

 Score =  322 bits (826), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 160/166 (96%), Positives = 165/166 (99%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV+VVPSAAALVIKALKEPERDRKKTKNIKHNGNI+LDDVIEIAK+MRPR
Sbjct: 61  VKLTVQNRQAKVSVVPSAAALVIKALKEPERDRKKTKNIKHNGNISLDDVIEIAKIMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAKDLSG+VKEILGTCVSVGCTVDGKDP+DLQQEI DGDVEIPLD
Sbjct: 121 SMAKDLSGSVKEILGTCVSVGCTVDGKDPKDLQQEIADGDVEIPLD 166

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225439982|ref|XP_002281255.1| PREDICTED: 60S ribosomal protein L12 [Vitis vinifera] gi|147835636|emb|CAN66258.1| hypothetical protein VITISV_001237 [Vitis vinifera]

 Score =  320 bits (821), Expect = 9e-86,   Method: Compositional matrix adjust.
 Identities = 159/166 (95%), Positives = 164/166 (98%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV+VVPSAAALVIKALKEPERDRKKTKNIKHNGNI+LDDVIEIAK+MRPR
Sbjct: 61  VKLTVQNRQAKVSVVPSAAALVIKALKEPERDRKKTKNIKHNGNISLDDVIEIAKIMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAKDLSG+VKEILGTCVSVGCTVDGKDP+DLQQEI DGDVEIP D
Sbjct: 121 SMAKDLSGSVKEILGTCVSVGCTVDGKDPKDLQQEIADGDVEIPQD 166

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359806180|ref|NP_001240945.1| uncharacterized protein LOC100811654 [Glycine max] gi|255647178|gb|ACU24057.1| unknown [Glycine max]

 Score =  320 bits (821), Expect = 9e-86,   Method: Compositional matrix adjust.
 Identities = 157/166 (94%), Positives = 165/166 (99%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQ+VDV+VRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKFDPSQIVDVFVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKKTKNIKHNGNI+LDDVIEIA+VMRPR
Sbjct: 61  VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKTKNIKHNGNISLDDVIEIARVMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAKDLSG++KEILGTCVSVGCTVDGKDP+DLQQEITDGDVE+PLD
Sbjct: 121 SMAKDLSGSIKEILGTCVSVGCTVDGKDPKDLQQEITDGDVEVPLD 166

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255578850|ref|XP_002530279.1| 60S ribosomal protein L12, putative [Ricinus communis] gi|223530177|gb|EEF32086.1| 60S ribosomal protein L12, putative [Ricinus communis]

 Score =  320 bits (820), Expect = 1e-85,   Method: Compositional matrix adjust.
 Identities = 159/166 (95%), Positives = 165/166 (99%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQVVDV+VRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKFDPSQVVDVFVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKKTKNIKH+GNI+LDDVIEIAKVM+PR
Sbjct: 61  VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKTKNIKHSGNISLDDVIEIAKVMKPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAKDLSGTVKEILGTCVSVGCTVDGKDP+DLQQEITDGDVE+PLD
Sbjct: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPKDLQQEITDGDVEVPLD 166

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449052|ref|XP_002274407.1| PREDICTED: 60S ribosomal protein L12 [Vitis vinifera] gi|147785001|emb|CAN75443.1| hypothetical protein VITISV_019658 [Vitis vinifera]

 Score =  319 bits (818), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 158/166 (95%), Positives = 164/166 (98%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV+VVPSAAALVIK+LKEPERDRKKTKNIKHNGNI+LDDVIEIA+VMRPR
Sbjct: 61  VKLTVQNRQAKVSVVPSAAALVIKSLKEPERDRKKTKNIKHNGNISLDDVIEIARVMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAKDLSGTVKEILGTCVSVGCTVDGKDP+DLQQEI DGDVE+P D
Sbjct: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPKDLQQEIADGDVEVPED 166

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|313586509|gb|ADR71265.1| 60S ribosomal protein L12A [Hevea brasiliensis]

 Score =  319 bits (817), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 158/166 (95%), Positives = 165/166 (99%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQVVDV+VRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKFDPSQVVDVFVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKKTKNIKH+GNI+LDDVIEIAKVMRPR
Sbjct: 61  VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKTKNIKHSGNISLDDVIEIAKVMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAKDLSGTVKEILGTCVSVGCTVDGK+P+DLQQEITDG+VE+PLD
Sbjct: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKNPKDLQQEITDGEVEVPLD 166

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255557008|ref|XP_002519537.1| 60S ribosomal protein L12, putative [Ricinus communis] gi|223541400|gb|EEF42951.1| 60S ribosomal protein L12, putative [Ricinus communis]

 Score =  319 bits (817), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 159/166 (95%), Positives = 164/166 (98%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKKTKNIKH+GNI+LD+VIEIAKVM+PR
Sbjct: 61  VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKTKNIKHSGNISLDNVIEIAKVMKPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAKDLSGTVKEILGTCVSVGCTVD KDP+DLQQEITDGDVEIPLD
Sbjct: 121 SMAKDLSGTVKEILGTCVSVGCTVDSKDPKDLQQEITDGDVEIPLD 166

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356548248|ref|XP_003542515.1| PREDICTED: 60S ribosomal protein L12-like [Glycine max]

 Score =  316 bits (810), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 155/165 (93%), Positives = 163/165 (98%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQVVDV+VRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKFDPSQVVDVFVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKKTKNIKHNGNI+LDDV+EIA+VM PR
Sbjct: 61  VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKTKNIKHNGNISLDDVVEIARVMSPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPL 165
           SMAKDLSGT+KEILGTCVSVGCTVDGKDP+DLQQEI+DGDVE+PL
Sbjct: 121 SMAKDLSGTIKEILGTCVSVGCTVDGKDPKDLQQEISDGDVEVPL 165

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|418730035|gb|AFX66983.1| 60S ribosomal protein L12 [Solanum tuberosum]

 Score =  316 bits (810), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 157/166 (94%), Positives = 164/166 (98%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQVV+V+VRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKET+KDWKGLRVT
Sbjct: 1   MPPKFDPSQVVEVFVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETSKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV+VVPSAAALVIKALKEPERDRKKTKNIKHNGNI+LDDVIEIAKVM+ R
Sbjct: 61  VKLTVQNRQAKVSVVPSAAALVIKALKEPERDRKKTKNIKHNGNISLDDVIEIAKVMQSR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAKDLSGTVKEILGTCVSVGCTVDGKDP+DLQQEITDGDVEIP D
Sbjct: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPKDLQQEITDGDVEIPQD 166

Source: Solanum tuberosum

Species: Solanum tuberosum

Genus: Solanum

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723915|ref|NP_001238575.1| uncharacterized protein LOC100527860 [Glycine max] gi|255633392|gb|ACU17053.1| unknown [Glycine max]

 Score =  316 bits (809), Expect = 3e-84,   Method: Compositional matrix adjust.
 Identities = 155/166 (93%), Positives = 164/166 (98%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDPSQ+VDV+VRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKFDPSQIVDVFVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTV NRQAKV VVPSAAALVIKALKEPERDRKKTKNIKHNGNI+LDDVIEIA+VMRPR
Sbjct: 61  VKLTVPNRQAKVTVVPSAAALVIKALKEPERDRKKTKNIKHNGNISLDDVIEIARVMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
           SMAKDLSG++KEILGTCVSVGCTVDGKDP+DLQQEI+DGDVE+PLD
Sbjct: 121 SMAKDLSGSIKEILGTCVSVGCTVDGKDPKDLQQEISDGDVEVPLD 166

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

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	166
TAIR|locus:2175841	166	AT5G60670 [Arabidopsis thalian	0.987	0.987	0.896	3.1e-76
TAIR|locus:2061753	166	AT2G37190 [Arabidopsis thalian	0.987	0.987	0.890	1e-75
TAIR|locus:2084036	166	AT3G53430 [Arabidopsis thalian	0.987	0.987	0.884	2.1e-75
POMBASE|SPCC16C4.13c	165	rpl1201 "60S ribosomal protein	0.981	0.987	0.719	6.2e-62
POMBASE|SPCC31H12.04c	165	rpl1202 "60S ribosomal protein	0.981	0.987	0.719	6.2e-62
WB|WBGene00004424	165	rpl-12 [Caenorhabditis elegans	0.981	0.987	0.689	3.9e-60
FB|FBgn0034968	165	RpL12 "Ribosomal protein L12"	0.993	1.0	0.692	5e-60
RGD|1565106	165	Rpl12 "ribosomal protein L12"	0.981	0.987	0.701	5e-60
RGD|1595128	191	LOC685320 "similar to 60S ribo	0.981	0.853	0.701	5e-60
UNIPROTKB|P23358	165	Rpl12 "60S ribosomal protein L	0.981	0.987	0.701	5e-60

TAIR|locus:2175841 AT5G60670 [Arabidopsis thaliana (taxid:3702)]

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 147/164 (89%), Positives = 158/164 (96%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPK DPSQ+VDVYVRVTGGEVGAASSLAPKIGPLGL+PKKIGEDIAKETAK+WKGLRVT
Sbjct:     1 MPPKLDPSQIVDVYVRVTGGEVGAASSLAPKIGPLGLAPKKIGEDIAKETAKEWKGLRVT 60

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
             VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKK KNIKHNGNI+ DDVIEIAK+MRPR
Sbjct:    61 VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKVKNIKHNGNISFDDVIEIAKIMRPR 120

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
             S+AK+LSGTVKEILGTCVSVGCTVDGKDP+DLQ+EI  GD++IP
Sbjct:   121 SIAKELSGTVKEILGTCVSVGCTVDGKDPKDLQEEINSGDIDIP 164

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

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA

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

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0005829 "cytosol" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=RCA

TAIR|locus:2061753 AT2G37190 [Arabidopsis thaliana (taxid:3702)]

 Score = 763 (273.6 bits), Expect = 1.0e-75, P = 1.0e-75
 Identities = 146/164 (89%), Positives = 158/164 (96%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPK DPSQ+VDVYVRVTGGEVGAASSLAPKIGPLGL+PKKIGEDIAKETAK+WKGLRVT
Sbjct:     1 MPPKLDPSQIVDVYVRVTGGEVGAASSLAPKIGPLGLAPKKIGEDIAKETAKEWKGLRVT 60

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
             VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKK KNIKHNGNI+ DDV EIA++MRPR
Sbjct:    61 VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKVKNIKHNGNISFDDVTEIARIMRPR 120

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
             S+AK+LSGTV+EILGTCVSVGCTVDGKDP+D+QQEI DG+VEIP
Sbjct:   121 SIAKELSGTVREILGTCVSVGCTVDGKDPKDIQQEIQDGEVEIP 164

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

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA

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

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0005634 "nucleus" evidence=IDA

GO:0009409 "response to cold" evidence=IEP

GO:0005730 "nucleolus" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0022626 "cytosolic ribosome" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0008270 "zinc ion binding" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

TAIR|locus:2084036 AT3G53430 [Arabidopsis thaliana (taxid:3702)]

 Score = 760 (272.6 bits), Expect = 2.1e-75, P = 2.1e-75
 Identities = 145/164 (88%), Positives = 158/164 (96%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPK DPSQ+VDVYVRVTGGEVGAASSLAPKIGPLGL+PKKIGEDIAKETAK+WKGLRVT
Sbjct:     1 MPPKLDPSQIVDVYVRVTGGEVGAASSLAPKIGPLGLAPKKIGEDIAKETAKEWKGLRVT 60

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
             VKLTVQNRQAKV VVPSAAALVIKALKEPERDRKK KNIKHNGNI+ DDV EIA++MRPR
Sbjct:    61 VKLTVQNRQAKVTVVPSAAALVIKALKEPERDRKKVKNIKHNGNISFDDVTEIARIMRPR 120

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
             S+AK+LSGTV+EILGTCVSVGCTVDGKDP+DLQQEI +G++EIP
Sbjct:   121 SIAKELSGTVREILGTCVSVGCTVDGKDPKDLQQEIQEGEIEIP 164

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

GO:0005737 "cytoplasm" evidence=ISM

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA

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

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0016020 "membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0005829 "cytosol" evidence=RCA

GO:0005794 "Golgi apparatus" evidence=RCA

GO:0001510 "RNA methylation" evidence=RCA

POMBASE|SPCC16C4.13c rpl1201 "60S ribosomal protein L12.1/L12A" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 633 (227.9 bits), Expect = 6.2e-62, P = 6.2e-62
 Identities = 118/164 (71%), Positives = 145/164 (88%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPKFDP++V  +++R  GGEV   S+LAPKIGPLGLSPKK+GEDIAK T KDWKGLRVT
Sbjct:     1 MPPKFDPNEVKTIFMRAVGGEVAGGSTLAPKIGPLGLSPKKVGEDIAKAT-KDWKGLRVT 59

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
             VKLT+QNRQA V+VVPSA+ALVIKALKEP RDRKK KN+ H+GN++LD++IE+A+ MR +
Sbjct:    60 VKLTIQNRQAAVSVVPSASALVIKALKEPARDRKKDKNVAHSGNVSLDEIIEVARTMRFK 119

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
             S+AK+LSGTVKEILGT  SVGCTVDGK+P D+Q+EI +G++EIP
Sbjct:   120 SLAKELSGTVKEILGTAFSVGCTVDGKNPHDVQKEIDNGEIEIP 163

GO:0000027 "ribosomal large subunit assembly" evidence=ISO

GO:0002181 "cytoplasmic translation" evidence=NAS

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005730 "nucleolus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006412 "translation" evidence=ISO

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

POMBASE|SPCC31H12.04c rpl1202 "60S ribosomal protein L12.1/L12A" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 633 (227.9 bits), Expect = 6.2e-62, P = 6.2e-62
 Identities = 118/164 (71%), Positives = 145/164 (88%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPKFDP++V  +++R  GGEV   S+LAPKIGPLGLSPKK+GEDIAK T KDWKGLRVT
Sbjct:     1 MPPKFDPNEVKTIFMRAVGGEVAGGSTLAPKIGPLGLSPKKVGEDIAKAT-KDWKGLRVT 59

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
             VKLT+QNRQA V+VVPSA+ALVIKALKEP RDRKK KN+ H+GN++LD++IE+A+ MR +
Sbjct:    60 VKLTIQNRQAAVSVVPSASALVIKALKEPARDRKKDKNVAHSGNVSLDEIIEVARTMRFK 119

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
             S+AK+LSGTVKEILGT  SVGCTVDGK+P D+Q+EI +G++EIP
Sbjct:   120 SLAKELSGTVKEILGTAFSVGCTVDGKNPHDVQKEIDNGEIEIP 163

GO:0000027 "ribosomal large subunit assembly" evidence=ISO

GO:0002181 "cytoplasmic translation" evidence=NAS

GO:0003674 "molecular_function" evidence=ND

GO:0005829 "cytosol" evidence=IDA

GO:0006412 "translation" evidence=ISO

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

WB|WBGene00004424 rpl-12 [Caenorhabditis elegans (taxid:6239)]

 Score = 616 (221.9 bits), Expect = 3.9e-60, P = 3.9e-60
 Identities = 113/164 (68%), Positives = 141/164 (85%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPKFDP+++  VY+R  GGEVGA S+LAPK+GPLGLSPKKIGEDIAK T +DWKGL+VT
Sbjct:     1 MPPKFDPTEIKIVYLRCVGGEVGATSALAPKVGPLGLSPKKIGEDIAKAT-QDWKGLKVT 59

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
              KLT+QNR AK+ VVPSAA+L++K LKEP RDRKK KN+KHNG++T+D +I+IA++MRPR
Sbjct:    60 CKLTIQNRVAKIDVVPSAASLIVKELKEPPRDRKKVKNVKHNGDLTVDTIIKIARIMRPR 119

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
             SMAK L GTVKEILGT  SVGCT+DG+ P D+ + I +G++EIP
Sbjct:   120 SMAKKLEGTVKEILGTAQSVGCTIDGQHPHDIIESIANGEIEIP 163

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

GO:0000003 "reproduction" evidence=IMP

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

GO:0002119 "nematode larval development" evidence=IMP

GO:0006898 "receptor-mediated endocytosis" evidence=IMP

GO:0032940 "secretion by cell" evidence=IMP

GO:0006915 "apoptotic process" evidence=IMP

FB|FBgn0034968 RpL12 "Ribosomal protein L12" [Drosophila melanogaster (taxid:7227)]

 Score = 615 (221.5 bits), Expect = 5.0e-60, P = 5.0e-60
 Identities = 115/166 (69%), Positives = 141/166 (84%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPKFDP++V  VY+R  GGEVGA SSLAPKIGPLGLSPKKIG+DIAK T+ DWKGL++T
Sbjct:     1 MPPKFDPTEVKLVYLRCVGGEVGATSSLAPKIGPLGLSPKKIGDDIAKATS-DWKGLKIT 59

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
             V LT+QNRQA ++VVPSAA+L+IKALKEP RDRKK KNIKH+GNI  +D++ IA+VMRPR
Sbjct:    60 VCLTIQNRQAAISVVPSAASLIIKALKEPPRDRKKQKNIKHSGNIGFEDILAIARVMRPR 119

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166
             SMA++L GT KE+LGT  SVGCTVDGK P D+  E+ +G +E+P +
Sbjct:   120 SMARELKGTCKEVLGTAQSVGCTVDGKHPHDVIDELNEGSIEVPAE 165

GO:0006412 "translation" evidence=ISS

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

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

GO:0005811 "lipid particle" evidence=IDA

GO:0005840 "ribosome" evidence=IDA

GO:0000022 "mitotic spindle elongation" evidence=IMP

RGD|1565106 Rpl12 "ribosomal protein L12" [Rattus norvegicus (taxid:10116)]

 Score = 615 (221.5 bits), Expect = 5.0e-60, P = 5.0e-60
 Identities = 115/164 (70%), Positives = 139/164 (84%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPKFDP+++  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+T
Sbjct:     1 MPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATG-DWKGLRIT 59

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
             VKLT+QNRQA++ VVPSA+AL+IKALKEP RDRKK KNIKHNGNIT D+++ IA+ MR R
Sbjct:    60 VKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHNGNITFDEIVNIARQMRHR 119

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
             S+A++LSGT+KEILGT  SVGC VDG+ P D+  +I  G VE P
Sbjct:   120 SLARELSGTIKEILGTAQSVGCNVDGRHPHDIIDDINSGAVECP 163

GO:0003723 "RNA binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISO

GO:0005730 "nucleolus" evidence=ISO

GO:0005737 "cytoplasm" evidence=ISO

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

RGD|1595128 LOC685320 "similar to 60S ribosomal protein L12" [Rattus norvegicus (taxid:10116)]

 Score = 615 (221.5 bits), Expect = 5.0e-60, P = 5.0e-60
 Identities = 115/164 (70%), Positives = 139/164 (84%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPKFDP+++  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+T
Sbjct:    27 MPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATG-DWKGLRIT 85

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
             VKLT+QNRQA++ VVPSA+AL+IKALKEP RDRKK KNIKHNGNIT D+++ IA+ MR R
Sbjct:    86 VKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHNGNITFDEIVNIARQMRHR 145

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
             S+A++LSGT+KEILGT  SVGC VDG+ P D+  +I  G VE P
Sbjct:   146 SLARELSGTIKEILGTAQSVGCNVDGRHPHDIIDDINSGAVECP 189

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

UNIPROTKB|P23358 Rpl12 "60S ribosomal protein L12" [Rattus norvegicus (taxid:10116)]

 Score = 615 (221.5 bits), Expect = 5.0e-60, P = 5.0e-60
 Identities = 115/164 (70%), Positives = 139/164 (84%)

Query:     1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
             MPPKFDP+++  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+T
Sbjct:     1 MPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATG-DWKGLRIT 59

Query:    61 VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
             VKLT+QNRQA++ VVPSA+AL+IKALKEP RDRKK KNIKHNGNIT D+++ IA+ MR R
Sbjct:    60 VKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHNGNITFDEIVNIARQMRHR 119

Query:   121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
             S+A++LSGT+KEILGT  SVGC VDG+ P D+  +I  G VE P
Sbjct:   120 SLARELSGTIKEILGTAQSVGCNVDGRHPHDIIDDINSGAVECP 163

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" 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)
Q46EU7	RL11_METBF	No assigned EC number	0.3377	0.8554	0.8819	yes	no
P62445	RL11_METMP	No assigned EC number	0.3647	0.8855	0.9245	yes	no
O57779	RL11_PYRHO	No assigned EC number	0.4038	0.8674	0.8780	yes	no
A2STU0	RL11_METLZ	No assigned EC number	0.36	0.8734	0.9235	yes	no
O29712	RL11_ARCFU	No assigned EC number	0.3860	0.9096	0.9617	yes	no
A9A582	RL11_NITMS	No assigned EC number	0.3287	0.8433	0.8805	yes	no
P30050	RL12_HUMAN	No assigned EC number	0.6951	0.9819	0.9878	yes	no
O50003	RL12_PRUAR	No assigned EC number	0.9216	1.0	1.0	N/A	no
Q54J50	RL12_DICDI	No assigned EC number	0.6441	0.9759	0.9759	yes	no
C3MXH2	RL11_SULIM	No assigned EC number	0.3419	0.8493	0.8294	yes	no
P54030	RL11_METJA	No assigned EC number	0.3910	0.8313	0.8571	yes	no
C5A426	RL11_THEGJ	No assigned EC number	0.3821	0.8674	0.8727	yes	no
Q5JH34	RL11_PYRKO	No assigned EC number	0.3797	0.8734	0.8787	yes	no
A6UVR5	RL11_META3	No assigned EC number	0.3481	0.9036	0.9375	yes	no
C3MR83	RL11_SULIL	No assigned EC number	0.3419	0.8493	0.8294	yes	no
O75000	RL12_SCHPO	No assigned EC number	0.7195	0.9819	0.9878	yes	no
Q9V2S3	RL11_PYRAB	No assigned EC number	0.4038	0.8674	0.8780	yes	no
A2BN63	RL11_HYPBU	No assigned EC number	0.3881	0.8554	0.8452	yes	no
E2RR58	RL12_CANFA	No assigned EC number	0.6951	0.9819	0.9878	yes	no
Q8TZK0	RL11_PYRFU	No assigned EC number	0.4050	0.8795	0.8902	yes	no
Q9LFH5	RL122_ARATH	No assigned EC number	0.8841	0.9879	0.9879	yes	no
C3N7D9	RL11_SULIY	No assigned EC number	0.3419	0.8493	0.8294	yes	no
A4FW91	RL11_METM5	No assigned EC number	0.3636	0.8493	0.8867	yes	no
A9A9N0	RL11_METM6	No assigned EC number	0.3566	0.8975	0.9371	yes	no
Q0W049	RL11_UNCMA	No assigned EC number	0.3557	0.8674	0.9113	yes	no
P61284	RL12_BOVIN	No assigned EC number	0.6951	0.9819	0.9878	yes	no
Q2FQ31	RL11_METHJ	No assigned EC number	0.36	0.8614	0.9050	yes	no
O27715	RL11_METTH	No assigned EC number	0.3533	0.8674	0.9	yes	no
P35979	RL12_MOUSE	No assigned EC number	0.7012	0.9819	0.9878	yes	no
P50883	RL121_ARATH	No assigned EC number	0.8902	0.9879	0.9879	no	no
A4YH87	RL11_METS5	No assigned EC number	0.3896	0.8433	0.8333	yes	no
P50884	RL12_CHLRE	No assigned EC number	0.8	0.9337	0.9872	N/A	no
Q97BN1	RL11_THEVO	No assigned EC number	0.3461	0.8975	0.9430	yes	no
B8GIY2	RL11_METPE	No assigned EC number	0.3489	0.8674	0.9113	yes	no
P0CX54	RL12B_YEAST	No assigned EC number	0.6341	0.9819	0.9878	yes	no
Q9HL70	RL11_THEAC	No assigned EC number	0.3525	0.8975	0.9551	yes	no
Q6L1Y0	RL11_PICTO	No assigned EC number	0.3481	0.9096	0.9741	yes	no
P0CX53	RL12A_YEAST	No assigned EC number	0.6341	0.9819	0.9878	yes	no
Q9FF52	RL123_ARATH	No assigned EC number	0.8963	0.9879	0.9879	yes	no
A6VH19	RL11_METM7	No assigned EC number	0.3566	0.8975	0.9371	yes	no
Q6QMZ7	RL12_CHILA	No assigned EC number	0.6890	0.9819	0.9878	N/A	no
P23358	RL12_RAT	No assigned EC number	0.7012	0.9819	0.9878	yes	no
Q8SR84	RL12_ENCCU	No assigned EC number	0.5359	0.9036	0.9036	yes	no
A3CSJ5	RL11_METMJ	No assigned EC number	0.3571	0.8734	0.9177	yes	no
A6UQ78	RL11_METVS	No assigned EC number	0.3821	0.8975	0.9371	yes	no
B6YSX7	RL11_THEON	No assigned EC number	0.4012	0.8674	0.8834	yes	no
Q9C285	RL12_NEUCR	No assigned EC number	0.6646	0.9819	0.9878	N/A	no
Q8TX52	RL11_METKA	No assigned EC number	0.3533	0.8795	0.8795	yes	no
P61865	RL12_CAEBR	No assigned EC number	0.6890	0.9819	0.9878	N/A	no
P61866	RL12_CAEEL	No assigned EC number	0.6890	0.9819	0.9878	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

Fail to connect to STRING server

---

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	166
PLN03072	166	PLN03072, PLN03072, 60S ribosomal protein L12; Pro	1e-106
PTZ00105	140	PTZ00105, PTZ00105, 60S ribosomal protein L12; Pro	6e-79
cd00349	131	cd00349, Ribosomal_L11, Ribosomal protein L11	2e-51
smart00649	132	smart00649, RL11, Ribosomal protein L11/L12	2e-48
COG0080	141	COG0080, RplK, Ribosomal protein L11 [Translation,	6e-37
PRK01143	163	PRK01143, rpl11p, 50S ribosomal protein L11P; Vali	6e-30
pfam03946	59	pfam03946, Ribosomal_L11_N, Ribosomal protein L11,	1e-15
pfam00298	69	pfam00298, Ribosomal_L11, Ribosomal protein L11, R	4e-15
TIGR01632	140	TIGR01632, L11_bact, 50S ribosomal protein L11	3e-04

>gnl|CDD|178621 PLN03072, PLN03072, 60S ribosomal protein L12; Provisional

 Score =  301 bits (772), Expect = e-106
 Identities = 153/164 (93%), Positives = 161/164 (98%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPK DPSQVV+VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKLDPSQVVEVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV+VVPSAAALVIKALKEPERDRKK KNIKHNGNI+LDDVIEIAK+MRPR
Sbjct: 61  VKLTVQNRQAKVSVVPSAAALVIKALKEPERDRKKVKNIKHNGNISLDDVIEIAKIMRPR 120

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           SMAK+L+GTVKEILGTCVSVGCTVDGKDP+DLQQEI DG+VEIP
Sbjct: 121 SMAKELAGTVKEILGTCVSVGCTVDGKDPKDLQQEIDDGEVEIP 164

Length = 166

>gnl|CDD|240269 PTZ00105, PTZ00105, 60S ribosomal protein L12; Provisional

 Score =  230 bits (588), Expect = 6e-79
 Identities = 101/139 (72%), Positives = 125/139 (89%), Gaps = 1/139 (0%)

Query: 26  SSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKA 85
           SSLAPK+GPLGLSPKK+G+DIAK T KDWKGL+VTVKLTVQNRQA V VVP+A++L+IKA
Sbjct: 1   SSLAPKVGPLGLSPKKVGDDIAKAT-KDWKGLKVTVKLTVQNRQATVEVVPTASSLLIKA 59

Query: 86  LKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD 145
           LKEP RDRKK KNIKH+GN+T D VI+IA+ MRP+SMAK   GTVKE+LGTCVS+GCTVD
Sbjct: 60  LKEPPRDRKKVKNIKHSGNLTFDQVIKIARTMRPKSMAKTFKGTVKEVLGTCVSIGCTVD 119

Query: 146 GKDPRDLQQEITDGDVEIP 164
           G+ PRD+Q++I +G++++P
Sbjct: 120 GESPRDIQEKINNGEIKVP 138

Length = 140

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

 Score =  160 bits (407), Expect = 2e-51
 Identities = 59/134 (44%), Positives = 76/134 (56%), Gaps = 5/134 (3%)

Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQN-RQAK 71
           + ++V  G+   A  L P +G LG++  K  ++    T KD+KGL V VK+TV N R   
Sbjct: 1   IKLQVPAGKASPAPPLGPALGQLGVNIMKFCKEFNART-KDYKGLPVPVKITVYNDRSFT 59

Query: 72  VAVV-PSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTV 130
             V  P A+AL+ KA    E+  KK  N +  GNITLD V EIAK+  P   AK L   V
Sbjct: 60  FEVKTPPASALLKKA-AGIEKGSKK-PNKEKVGNITLDQVYEIAKIKLPDLNAKTLKSAV 117

Query: 131 KEILGTCVSVGCTV 144
           KEILGT  S+G TV
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 =  153 bits (388), Expect = 2e-48
 Identities = 55/135 (40%), Positives = 77/135 (57%), Gaps = 5/135 (3%)

Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQ--A 70
           + +++  G+   A  L P +G LG++  +  ++    T KD KGL + VK+TV N +   
Sbjct: 1   IKLQIPAGKANPAPPLGPALGQLGINIMEFCKEFNART-KDKKGLPIPVKITVYNDKSFT 59

Query: 71  KVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTV 130
            +   P A+AL+ KA    +  +K  K  K  GNITLD V EIAK+ RP   AKDL   V
Sbjct: 60  FILKTPPASALLKKAAGIEKGSKKPGK--KKVGNITLDQVYEIAKIKRPDLNAKDLEAAV 117

Query: 131 KEILGTCVSVGCTVD 145
           KEILGT  S+G TV+
Sbjct: 118 KEILGTARSMGITVE 132

Length = 132

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

 Score =  123 bits (312), Expect = 6e-37
 Identities = 53/137 (38%), Positives = 74/137 (54%), Gaps = 5/137 (3%)

Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTV-QNRQAK 71
           + ++V  G+   +  + P +G LG++  +  ++    T KD KGL V V +TV ++R   
Sbjct: 8   IKLQVPAGKANPSPPVGPALGQLGVNIMEFCKEFNAAT-KDEKGLPVPVVITVYEDRSFT 66

Query: 72  VAV-VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTV 130
             V  P A+AL+ KA    +   K  KN    G +TL  V EIAK   P   AKDL   V
Sbjct: 67  FIVKTPPASALLKKAAGIEKGSGKPNKN--KVGKLTLAQVREIAKTKMPDLNAKDLEAAV 124

Query: 131 KEILGTCVSVGCTVDGK 147
           KEILGT  S+G TV+GK
Sbjct: 125 KEILGTARSMGVTVEGK 141

Length = 141

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

 Score =  106 bits (267), Expect = 6e-30
 Identities = 55/153 (35%), Positives = 92/153 (60%), Gaps = 10/153 (6%)

Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKV 72
           V V V GG+      L P +GPLGL+ K++ ++I ++T KD+KG++V VK+ V     K 
Sbjct: 5   VEVLVEGGKATPGPPLGPALGPLGLNVKQVVQEINEKT-KDFKGMQVPVKVIVDTDTKKF 63

Query: 73  AV---VPSAAALVIKAL--KEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLS 127
            +   +P   AL+ K L  ++   +          GN++ + V++IA + +   ++ DL 
Sbjct: 64  EIEVGIPPTTALIKKELGIEKGSGEPGHEVV----GNLSFEQVVKIAIMKKDDLLSYDLK 119

Query: 128 GTVKEILGTCVSVGCTVDGKDPRDLQQEITDGD 160
             VKE+LGTCVS+G TV+GKDP+++Q+E+ +G 
Sbjct: 120 AAVKEVLGTCVSMGVTVEGKDPKEVQKEVDEGK 152

Length = 163

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

 Score = 67.1 bits (165), Expect = 1e-15
 Identities = 20/59 (33%), Positives = 34/59 (57%), Gaps = 1/59 (1%)

Query: 13 VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAK 71
          + ++V  G+   A  L P +G LG++  +  ++    T KD+KGL V VK+TV N ++ 
Sbjct: 2  IKLQVPAGKANPAPPLGPALGQLGVNIMEFCKEFNAAT-KDYKGLPVPVKITVYNDRSF 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|189492 pfam00298, Ribosomal_L11, Ribosomal protein L11, RNA binding domain

 Score = 65.9 bits (162), Expect = 4e-15
 Identities = 29/70 (41%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 75  VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEIL 134
            P A+ L+ KA    E+   K    K  G ITL  V EIAK+  P   A DL   VK I+
Sbjct: 2   TPPASYLLKKAAGI-EKGSGKPGKEK-VGKITLKQVYEIAKIKMPDLNANDLEAAVKIII 59

Query: 135 GTCVSVGCTV 144
           GT  S+G  V
Sbjct: 60  GTARSMGIEV 69

Length = 69

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

 Score = 38.5 bits (90), Expect = 3e-04
 Identities = 41/132 (31%), Positives = 57/132 (43%), Gaps = 12/132 (9%)

Query: 23  GAASSLAPKIGP-LGLSPKKIGE---DIAKETAKDWKGLRVTVKLTVQNRQAKVAVV--P 76
              ++ AP +GP LG     I E        TA    GL V V +TV   ++   +V  P
Sbjct: 13  AGQANPAPPVGPALGQRGVNIMEFCKQFNARTADYEPGLPVPVVITVYEDKSFTFIVKTP 72

Query: 77  SAAALVIKALKEPERDRKKTKNIKHN--GNITLDDVIEIAKVMRPRSMAKDLSGTVKEIL 134
             + L+ KA        K +KN K    G IT   V EIA++       KD+   +K I 
Sbjct: 73  PVSYLLKKAAGV----EKGSKNPKKEKVGKITRKQVREIAEIKMSDLNTKDIEAAMKIIA 128

Query: 135 GTCVSVGCTVDG 146
           GT  S+G  + G
Sbjct: 129 GTAKSMGIEIVG 140

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	166
PLN03072	166	60S ribosomal protein L12; Provisional	100.0
PRK01143	163	rpl11p 50S ribosomal protein L11P; Validated	100.0
PTZ00105	140	60S ribosomal protein L12; Provisional	100.0
COG0080	141	RplK Ribosomal protein L11 [Translation, ribosomal	100.0
TIGR01632	140	L11_bact 50S ribosomal protein L11. This model rep	100.0
PRK00140	141	rplK 50S ribosomal protein L11; Validated	100.0
CHL00127	140	rpl11 ribosomal protein L11; Validated	100.0
smart00649	132	RL11 Ribosomal protein L11/L12.	100.0
cd00349	131	Ribosomal_L11 Ribosomal protein L11. Ribosomal pro	100.0
PRK14539	196	50S ribosomal protein L11/unknown domain fusion pr	100.0
PTZ00321	342	ribosomal protein L11; Provisional	100.0
KOG3257	168	consensus Mitochondrial/chloroplast ribosomal prot	100.0
KOG0886	167	consensus 40S ribosomal protein S2 [Translation, r	100.0
PF03946	60	Ribosomal_L11_N: Ribosomal protein L11, N-terminal	99.95
PF00298	69	Ribosomal_L11: Ribosomal protein L11, RNA binding	99.95

>PLN03072 60S ribosomal protein L12; Provisional

Probab=100.00  E-value=1.6e-69  Score=433.14  Aligned_cols=165  Identities=91%  Similarity=1.323  Sum_probs=159.9

Q ss_pred             CCCCCCCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcc-cCCceeEEEEEEecCceEEEEeCCHH
Q 031086            1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKD-WKGLRVTVKLTVQNRQAKVAVVPSAA   79 (166)
Q Consensus         1 m~~k~~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~-~~g~~vpV~Itv~drsf~~~v~Ppts   79 (166)
                      ||||+|++...+|+|+|+||+|+|+|||||+|||+|||+|+||++||++| ++ |.|++|||+||||+|||+|+++||+|
T Consensus         1 m~~~~~~~~~~~i~l~v~aG~A~P~PplGPaLG~~GvNi~~f~k~fN~~T-~~~~~G~~VpV~Itv~~rsf~~~v~Pp~s   79 (166)
T PLN03072          1 MPPKLDPSQVVEVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKET-AKDWKGLRVTVKLTVQNRQAKVSVVPSAA   79 (166)
T ss_pred             CCCCCCCCccEEEEEEEEcCccCCCCCCccccccCCCCHHHHHHHHHHHh-hhhcCCCeEEEEEEEECCeEEEEeCCCHH
Confidence            99999999999999999999999999999999999999999999999999 75 99999999999999999998899999


Q ss_pred             HHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhCc
Q 031086           80 ALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDG  159 (166)
Q Consensus        80 ~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~G  159 (166)
                      +||+|+||+.+|+++++++.+++|+||++||||||+.|++||++.+|+++||+|+||||||||+|+++||+|++++||+|
T Consensus        80 ~LLkKa~g~~kgs~~~~~~~~~vG~it~~qv~eIA~~K~~dl~a~~l~~avk~VlGTarSmGi~V~gk~pkev~~~i~~G  159 (166)
T PLN03072         80 ALVIKALKEPERDRKKVKNIKHNGNISLDDVIEIAKIMRPRSMAKELAGTVKEILGTCVSVGCTVDGKDPKDLQQEIDDG  159 (166)
T ss_pred             HHHHHHhCCCCCCCccCCCCeeeeeecHHHHHHHHHHHHHHhCcccHHHHHHHhHheeeeCeEEEeCCCHHHHHHHHhCC
Confidence            99999999999988865566899999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeccCC
Q 031086          160 DVEIPLD  166 (166)
Q Consensus       160 ~~~~~~~  166 (166)
                      +|+||++
T Consensus       160 ~~~~p~~  166 (166)
T PLN03072        160 EVEIPEA  166 (166)
T ss_pred             CeeCCCC
Confidence            9999986

>PRK01143 rpl11p 50S ribosomal protein L11P; Validated

Probab=100.00  E-value=5.9e-64  Score=400.17  Aligned_cols=149  Identities=37%  Similarity=0.674  Sum_probs=145.7

Q ss_pred             EEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEE-e-cCceEEEE-eCCHHHHHHHHhC
Q 031086           11 VDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTV-Q-NRQAKVAV-VPSAAALVIKALK   87 (166)
Q Consensus        11 ~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv-~-drsf~~~v-~Ppts~llkka~g   87 (166)
                      ++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|.|++|||+||| | ||||+|++ +||+||||+|++|
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 KVVEVLVEGGKATPGPPLGPALGPLGLNVKQVVQEINEKT-KDFKGMQVPVKVIVDTDTKKFEIEVGIPPTTALIKKELG   81 (163)
T ss_pred             eEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHh-hhcCCCeEeEEEEEEeCCceEEEEECCCCHHHHHHHHhC
Confidence            5899999999999999999999999999999999999999 99999999999999 8 99999999 9999999999999


Q ss_pred             CCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhCceee
Q 031086           88 EPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVE  162 (166)
Q Consensus        88 ~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~G~~~  162 (166)
                      +.+|++++++  +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|+++||+||+++||+|+|+
T Consensus        82 ~~kgs~~p~~--~~vG~It~~qv~eIA~~K~~d~~~~~l~~~vk~VlGTarSmGi~V~g~~pkev~~~i~~g~~~  154 (163)
T PRK01143         82 IEKGSGEPGH--EVVGNLSFEQVVKIAIMKKDDLLSYDLKAAVKEVLGTCVSMGVTVEGKDPKEVQKEVDEGKYD  154 (163)
T ss_pred             CcCCCCCCCC--ceeeeecHHHHHHHHHHHhhhhccccHHHHHHHHHhhHhhceEEEecCCHHHHHHHcCcccHH
Confidence            9999998887  689999999999999999999999999999999999999999999999999999999999986

>PTZ00105 60S ribosomal protein L12; Provisional

Probab=100.00  E-value=8.5e-61  Score=373.90  Aligned_cols=140  Identities=72%  Similarity=1.180  Sum_probs=134.2

Q ss_pred             CCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEecCceEEEEeCCHHHHHHHHhCCCCcCccCccCcceeEee
Q 031086           26 SSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNI  105 (166)
Q Consensus        26 PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~drsf~~~v~Ppts~llkka~g~~~~~~~~~~~~~~~G~i  105 (166)
                      ++|||+|||+|||+|+|||+||++| ++|+|++|||+||||||||+|++.||+|+||+|++|+..++++++++++++|+|
T Consensus         1 ~~lGPaLG~~GvNi~~fck~fN~~T-~~~~G~~vpV~Itv~drsf~~~v~Pp~s~ll~k~ag~~~~~~~~~~~~~~vG~i   79 (140)
T PTZ00105          1 SSLAPKVGPLGLSPKKVGDDIAKAT-KDWKGLKVTVKLTVQNRQATVEVVPTASSLLIKALKEPPRDRKKVKNIKHSGNL   79 (140)
T ss_pred             CCCccccccCCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEECCEEEEEECCCHHHHHHHHhCCCCCCCCCCCcceeeeEe
Confidence            5899999999999999999999999 899999999999999999999889999999999999888887777644589999


Q ss_pred             eHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhCceeeccCC
Q 031086          106 TLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD  166 (166)
Q Consensus       106 tl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~G~~~~~~~  166 (166)
                      |++||||||+.|++||++.+|+++||+|+||||||||+|+++||+|++++||+|+||||++
T Consensus        80 t~~qv~eIAk~K~~dl~~~~l~~a~k~V~GTarSmGi~V~gk~pkev~~~i~~G~~~~p~~  140 (140)
T PTZ00105         80 TFDQVIKIARTMRPKSMAKTFKGTVKEVLGTCVSIGCTVDGESPRDIQEKINNGEIKVPES  140 (140)
T ss_pred             eHHHHHHHHHHHHhhhCCCcHHHHHHHHHhhheeeeEEEECCCHHHHHHHHhCCCccCCCC
Confidence            9999999999999999999999999999999999999999999999999999999999985

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

Probab=100.00  E-value=3.9e-60  Score=368.72  Aligned_cols=138  Identities=38%  Similarity=0.509  Sum_probs=134.0

Q ss_pred             CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086            7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK   84 (166)
Q Consensus         7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk   84 (166)
                      ++.+++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++++|++|||+|||| ||||+|++ +||+|+||+|
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 KKVVKIIKLQVPAGKANPSPPVGPALGQLGVNIMEFCKEFNAAT-KDEKGLPVPVVITVYEDRSFTFIVKTPPASALLKK   80 (141)
T ss_pred             CccceEEEEEecccccCCCCCCCccccccCCCHHHHHHHHHHHh-hccCCCeeeEEEEEEcCCcEEEEECCCCHHHHHHH
Confidence            34789999999999999999999999999999999999999999 899999999999999 99999999 9999999999


Q ss_pred             HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCC
Q 031086           85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGK  147 (166)
Q Consensus        85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~  147 (166)
                      ++|+.+|++++++  +++|+||++||+|||+.|++||++.+|++++|+|+||||||||+|+++
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 AAGIEKGSGKPNK--NKVGKLTLAQVREIAKTKMPDLNAKDLEAAVKEILGTARSMGVTVEGK  141 (141)
T ss_pred             HhCCCCCCCCCCc--ceeeeeeHHHHHHHHHHhhhhhhhHHHHHHHHHHhhhhhhceEEeecC
Confidence            9999999999987  799999999999999999999999999999999999999999999974

>TIGR01632 L11_bact 50S ribosomal protein L11

Probab=100.00  E-value=7.6e-60  Score=368.54  Aligned_cols=136  Identities=27%  Similarity=0.369  Sum_probs=132.0

Q ss_pred             CceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcc-cCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086            8 SQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKD-WKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK   84 (166)
Q Consensus         8 ~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~-~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk   84 (166)
                      ++.++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++ |+|++|||+|+|| ||+|+|++ +||+||||+|
T Consensus         2 ~~~~~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         2 KIVGIIKLQVPAGQANPAPPVGPALGQRGVNIMEFCKQFNART-ADYEPGLPVPVVITVYEDKSFTFIVKTPPVSYLLKK   80 (140)
T ss_pred             ceEEEEEEEEeccccCCCCCCcccccccCCCHHHHHHHHHHHH-hhhcCCCeEEEEEEEeCCCeEEEEEcCCCHHHHHHH
Confidence            4688999999999999999999999999999999999999999 88 7999999999999 99999999 9999999999


Q ss_pred             HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086           85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG  146 (166)
Q Consensus        85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~  146 (166)
                      ++|+.+|++++++  +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|++
T Consensus        81 aag~~~gs~~p~~--~~~G~it~~qv~eIA~~K~~d~~~~~l~~~vk~v~GTarSmGi~V~~  140 (140)
T TIGR01632        81 AAGVEKGSKNPKK--EKVGKITRKQVREIAEIKMSDLNTKDIEAAMKIIAGTAKSMGIEIVG  140 (140)
T ss_pred             HhCCCCCCCCCCC--eEEeEecHHHHHHHHHHHHHHhCcccHHHHHHHhheeHeeceEEEeC
Confidence            9999999999988  68999999999999999999999999999999999999999999975

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

>PRK00140 rplK 50S ribosomal protein L11; Validated

Probab=100.00  E-value=7.4e-59  Score=363.32  Aligned_cols=137  Identities=28%  Similarity=0.397  Sum_probs=132.9

Q ss_pred             CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086            7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK   84 (166)
Q Consensus         7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk   84 (166)
                      ++..++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|+|++|||+|+|| ||+|+|++ +||+||||+|
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 KKVVGYIKLQIPAGKANPAPPVGPALGQRGVNIMEFCKAFNART-QDQKGLPIPVVITVYEDRSFTFITKTPPASVLLKK   81 (141)
T ss_pred             cccceEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEecCCeEEEEEcCCCHHHHHHH
Confidence            45788999999999999999999999999999999999999999 999999999999999 99999999 9999999999


Q ss_pred             HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086           85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG  146 (166)
Q Consensus        85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~  146 (166)
                      ++|+.+|++++++  +++|+||++||||||+.|++|+++.+|+++||+|+|||+||||+|++
T Consensus        82 ~~g~~~gs~~p~~--~~vG~it~~~v~eIA~~K~~d~~~~~l~~~vk~VlGTa~SmGi~V~g  141 (141)
T PRK00140         82 AAGIEKGSGEPNK--EKVGKITRAQVREIAETKMPDLNAADIEAAMRMIAGTARSMGIVVEG  141 (141)
T ss_pred             HhCCCCCCCCCCC--eEEeeEcHHHHHHHHHHHHHhhCCCcHHHHHHHhheeeeEeeEEEeC
Confidence            9999999999988  79999999999999999999999999999999999999999999985

>CHL00127 rpl11 ribosomal protein L11; Validated

Probab=100.00  E-value=1.7e-58  Score=360.90  Aligned_cols=136  Identities=24%  Similarity=0.376  Sum_probs=131.2

Q ss_pred             CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086            7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK   84 (166)
Q Consensus         7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk   84 (166)
                      ++..++|+|+|+||+|+|+|||||+|||+|||+|+||+|||++| ++|.|++|||+|+|| ||+|+|++ +||+||||+|
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 KKKLAIIKLALPAGKATPAPPVGPALGQHGVNINLFCKEYNART-KDKIGLIIPVEISVYEDKSYTFILKTPPASVLLAK   81 (140)
T ss_pred             cccccEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHh-hhcCCCeEEEEEEEeCCceEEEEEcCCCHHHHHHH
Confidence            44678999999999999999999999999999999999999999 999999999999999 89999999 9999999999


Q ss_pred             HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEec
Q 031086           85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD  145 (166)
Q Consensus        85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~  145 (166)
                      ++|+.+|+..+++  +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|.
T Consensus        82 a~gi~~gs~~p~~--~~~G~it~~~v~eIA~~K~~d~~~~~l~~~vk~v~GTa~SmGi~V~  140 (140)
T CHL00127         82 AAGIKKGSGEPNK--KKVGSITIKQLEEIAQIKLPDLNTISLSKAIKIIEGTAKNMGISIK  140 (140)
T ss_pred             HhCCCcCCCCCCC--eecceecHHHHHHHHHHHhhhhccccHHHHHHHhHeeheeceEEeC
Confidence            9999999988877  7999999999999999999999999999999999999999999983

>smart00649 RL11 Ribosomal protein L11/L12

Probab=100.00  E-value=1e-57  Score=353.41  Aligned_cols=130  Identities=41%  Similarity=0.594  Sum_probs=127.2

Q ss_pred             EEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHHHhCCCC
Q 031086           13 VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIKALKEPE   90 (166)
Q Consensus        13 ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkka~g~~~   90 (166)
                      |+|+|+||+|+|+|||||+|||+|||+|+||++||++| ++|+|++|||+|+|| ||||+|++ +||+||||+|++|+.+
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 IKLQIPAGKANPAPPLGPALGQLGINIMEFCKEFNART-KDKKGLPIPVKITVYNDKSFTFIIKTPPASFLLKKAAGIEK   79 (132)
T ss_pred             CEEEEecCccCCCCCcccccccCCCCHHHHHHHHHHHH-hhcCCCeEeEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCC
Confidence            58999999999999999999999999999999999999 889999999999999 99999999 9999999999999999


Q ss_pred             cCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEec
Q 031086           91 RDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD  145 (166)
Q Consensus        91 ~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~  145 (166)
                      |++++++  +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|+
T Consensus        80 gs~~p~~--~~~g~it~~~v~eIA~~K~~d~~~~~l~~~~k~V~GTa~SmGi~V~  132 (132)
T smart00649       80 GSKKPGK--KKVGNITLDQVYEIAKIKRPDLNAKDLEAAVKEILGTARSMGITVE  132 (132)
T ss_pred             CCCCCCC--eeeeEEcHHHHHHHHHHHHHHhcchhHHHHHHHHHhhHhcceEEeC
Confidence            9999988  7999999999999999999999999999999999999999999986

>cd00349 Ribosomal_L11 Ribosomal protein L11

Probab=100.00  E-value=9e-57  Score=347.71  Aligned_cols=129  Identities=43%  Similarity=0.604  Sum_probs=125.5

Q ss_pred             EEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHHHhCCCC
Q 031086           13 VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIKALKEPE   90 (166)
Q Consensus        13 ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkka~g~~~   90 (166)
                      |+|+|+||+|+|+|||||+|||+|||+|+||++||++| ++|+|++|||+|+|| ||+|+|++ +||+||||+|++|+.+
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 IKLQVPAGKASPAPPLGPALGQLGVNIMKFCKEFNART-KDYKGLPVPVKITVYNDRSFTFEVKTPPASALLKKAAGIEK   79 (131)
T ss_pred             CEEEEecCccCCCCCcccccccCCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCC
Confidence            58999999999999999999999999999999999999 899999999999999 99999999 9999999999999999


Q ss_pred             cCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEe
Q 031086           91 RDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTV  144 (166)
Q Consensus        91 ~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V  144 (166)
                      |+.++++  +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|
T Consensus        80 gs~~~~~--~~~g~it~~~v~eIA~~K~~dl~~~~l~~~vk~v~GTa~SmGi~V  131 (131)
T cd00349          80 GSKKPNK--EKVGNITLDQVYEIAKIKLPDLNAKTLKSAVKEILGTARSMGITV  131 (131)
T ss_pred             CCCCCCC--eeeeeecHHHHHHHHHHHHhhhcchhHHHHHHHHHhhHhhCeEEC
Confidence            9988876  799999999999999999999999999999999999999999986

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

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

Probab=100.00  E-value=7e-55  Score=355.54  Aligned_cols=135  Identities=23%  Similarity=0.330  Sum_probs=129.1

Q ss_pred             CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086            7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK   84 (166)
Q Consensus         7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk   84 (166)
                      ++..++|+|+|+||+|+|    ||+|||+|||+|+||++||++| ++|.|++|||+|||| ||||+|++ +||+||||+|
T Consensus         4 kki~~~Ikl~v~AGkA~P----GPaLG~~GVNi~~FcKefN~~T-k~~~G~~VPV~ItV~~DRsf~f~vktPptS~LLkK   78 (196)
T PRK14539          4 KEVVKVAKLQFNAGQAKP----GPSLAGVGINMPEFTKQFNDAT-RDRGGEPVPVQITVYKDKSFDFKLFTAPASFKIKQ   78 (196)
T ss_pred             chhheEEEEEEECCccCC----CCcccccCCCHHHHHHHHHHHh-hhcCCceEEEEEEEecCCeEEEEEeCCCHHHHHHH
Confidence            356889999999999999    5568899999999999999999 899999999999999 89999999 9999999999


Q ss_pred             HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCC
Q 031086           85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKD  148 (166)
Q Consensus        85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~  148 (166)
                      ++|+.+|+++|++  +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|+++|
T Consensus        79 aagi~kGs~~p~k--~~vG~Itl~qv~eIAk~K~~Dl~~~~Le~avK~VlGTArSMGI~Veg~d  140 (196)
T PRK14539         79 AAKIKSGSANSKT--TIVGTITLSQLEEIAKYKLPDLNTDDVEEAMHTIAGTAKNMGVLVEGYD  140 (196)
T ss_pred             HhCCCCCCCCCCC--eEEEEecHHHHHHHHHHHhhhhCCCcHHHHHHHHHhhheeCeEEEEccc
Confidence            9999999999988  6899999999999999999999999999999999999999999999976

>PTZ00321 ribosomal protein L11; Provisional

Probab=100.00  E-value=1.5e-54  Score=372.53  Aligned_cols=142  Identities=17%  Similarity=0.274  Sum_probs=132.2

Q ss_pred             CCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcc-c-CCceeEEEEEEe-cCceEEEE-eCCHHHH
Q 031086            6 DPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKD-W-KGLRVTVKLTVQ-NRQAKVAV-VPSAAAL   81 (166)
Q Consensus         6 ~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~-~-~g~~vpV~Itv~-drsf~~~v-~Ppts~l   81 (166)
                      .|++.+.|||+|+||+|+|+|||||+|||+|||||+|||+||++| ++ | .|++|||+|+|| ||||+|++ +||+|||
T Consensus        46 ~KkV~~~IKL~VpAGKAtPaPPVGPALGq~GVNImqFCKeFNerT-K~~fk~GvpVPV~ITVy~DKSF~F~IktPPtS~L  124 (342)
T PTZ00321         46 GKRVLHNWRFFIKAGKAATGPPVGQEFSKLGLKAMDFAKSFNDRT-KPHFKDDVELIVRIQVYFDKSYLFTIEPPPTAWF  124 (342)
T ss_pred             CCeeeEEEEEEEECCCcCCCCCCcccccccCCCHHHHHHHHHHHH-HhhccCCCeEeEEEEEeCCCeEEEEECCCCHHHH
Confidence            367899999999999999999999999999999999999999999 76 5 799999999999 99999999 9999999


Q ss_pred             HHHHhCCCCcCccCccCc-ceeEeeeHHHHHHHHHHhcccCCC---CChhhhhhhhhhcccceeeEecCCC
Q 031086           82 VIKALKEPERDRKKTKNI-KHNGNITLDDVIEIAKVMRPRSMA---KDLSGTVKEILGTCVSVGCTVDGKD  148 (166)
Q Consensus        82 lkka~g~~~~~~~~~~~~-~~~G~itl~~v~eIAk~K~~d~~~---~~l~~~~k~VlGTa~SmGi~V~~~~  148 (166)
                      |+|++|+.+|+.+++++- +++|+||++||||||++|++|+++   .+|+++||+|+|||+||||+|+++|
T Consensus       125 LKKAAGI~KGS~~P~~~k~e~VG~ITlkQVyEIAkiK~~DLnal~~~~LesAvK~ViGTARSMGIkVeGKD  195 (342)
T PTZ00321        125 ILRALRKKRRETGPVPLRGHYCALMTLEMAYEIAKMKPRSWGRPEYPLIETRVRRVVGQARRMGVCFIGVD  195 (342)
T ss_pred             HHHHhCCCCCCCCCCCCCCceEEeccHHHHHHHHHHhhhccccccccCHHHHHHHHHhhHhcCeEEEeccc
Confidence            999999999988874321 689999999999999999999775   7999999999999999999999864

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

Probab=100.00  E-value=3.7e-51  Score=323.16  Aligned_cols=136  Identities=26%  Similarity=0.379  Sum_probs=130.1

Q ss_pred             CceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhccc-CCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086            8 SQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDW-KGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK   84 (166)
Q Consensus         8 ~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~-~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk   84 (166)
                      .....+||.++||.|.|+||+||+|||+|+|+++||||||++| ++| +|+|+|++||+. ||||+|++ +||+||||+|
T Consensus        17 ~h~~~ikl~v~Ag~A~~~pp~gP~Lgqr~l~viafckefnarT-~~~k~~vplp~kiTv~pDrsftf~iktPpts~lL~k   95 (168)
T KOG3257|consen   17 SHSASIKLIVKAGLAAPAPPLGPALGQRGLNVIAFCKEFNART-KKVKPGVPLPGKITVKPDRSFTFIIKTPPTSWLLKK   95 (168)
T ss_pred             cceeEEEEeeccccccCCCCCCchhhhcchhHHHhchhhhhhh-ccccCCCccceeEeecCCCeEEEEecCCChHHHHHH
Confidence            3466899999999999999999999999999999999999999 886 799999999999 99999999 9999999999


Q ss_pred             HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCC--CCChhhhhhhhhhcccceeeEecC
Q 031086           85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSM--AKDLSGTVKEILGTCVSVGCTVDG  146 (166)
Q Consensus        85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~--~~~l~~~~k~VlGTa~SmGi~V~~  146 (166)
                      |||+.+|+..|++  +.+|.||++||||||++|.+|.+  ..+|+++||+|+|||+||||+|+.
T Consensus        96 Aagv~KGs~~p~~--~~vG~lTlkhvyeIAkiK~~D~~~q~~~lesi~rsiigtA~smGIkVvp  157 (168)
T KOG3257|consen   96 AAGVEKGSKDPGQ--EKVGMLTLKHVYEIAKIKLPDPNLQCTTLESICRSIIGTARSMGIKVVP  157 (168)
T ss_pred             HhCcccCCCCCcc--eeeeeEEHHHHHHHHHhhcCCcccccccHHHHHHHHHHHHHhCccccch
Confidence            9999999999987  79999999999999999999966  899999999999999999999987

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

Probab=100.00  E-value=6e-44  Score=278.97  Aligned_cols=165  Identities=74%  Similarity=1.191  Sum_probs=161.5

Q ss_pred             CCC--CCCCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEecCceEEEEeCCH
Q 031086            1 MPP--KFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSA   78 (166)
Q Consensus         1 m~~--k~~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~drsf~~~v~Ppt   78 (166)
                      ||+  |||++++++++|++.||+...+..|+|.+||+|+.+..+.+++.++| +||+|+.|+|.++|+||...+++.|++
T Consensus         1 mp~~pkfdP~eiK~vylrc~GgEVgatsaLApKIgPLGLSpKkvGedIaKaT-~dwKgl~vtvkLtIqnR~A~i~VvpSa   79 (167)
T KOG0886|consen    1 MPPKPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGEDIAKAT-GDWKGLRVTVKLTIQNRQAQIEVVPSA   79 (167)
T ss_pred             CCCCCCCCccceEEEEEEeecCccccccccccccccccCCccccchHHHHhh-cccccceEEEEEEecCcccceEEcccH
Confidence            455  59999999999999999999999999999999999999999999999 999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhC
Q 031086           79 AALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITD  158 (166)
Q Consensus        79 s~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~  158 (166)
                      |.||+|+++++++++++.+|+.|+|+|+++++.+||++..+.+.++.|.+++++|+|||+|+||+|+|++|++++++||+
T Consensus        80 saLiIkaLKEPpRDRKk~knikh~Gni~~deiv~iar~mr~rS~a~~l~gt~keilgt~~svgc~vDgk~Phdi~~~i~~  159 (167)
T KOG0886|consen   80 SALIIKALKEPPRDRKKQKNIKHSGNITFDEIVEIARIMRPRSLARELSGTVKEILGTAQSVGCTVDGKHPHDIIDEINA  159 (167)
T ss_pred             HHHHHHHhcCCcchhhhhccccccCcccHHHHHHHHHHhhhHhhhhhhhhhHHHHhchhhhcccccCCCChHHHHhhhcC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeeccCC
Q 031086          159 GDVEIPLD  166 (166)
Q Consensus       159 G~~~~~~~  166 (166)
                      |+++||++
T Consensus       160 Geie~P~~  167 (167)
T KOG0886|consen  160 GEIEIPAN  167 (167)
T ss_pred             CceeCCCC
Confidence            99999985

>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=99.95  E-value=4.1e-28  Score=165.35  Aligned_cols=58  Identities=41%  Similarity=0.693  Sum_probs=55.4

Q ss_pred             EEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccC-CceeEEEEEEe-cCce
Q 031086           12 DVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWK-GLRVTVKLTVQ-NRQA   70 (166)
Q Consensus        12 ~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~-g~~vpV~Itv~-drsf   70 (166)
                      +|||+|+||+|+|+|||||+|||+|||+++||+|||++| ++|+ |++|||+|+|| ||||
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 VIKLRVPAGKATPAPPLGPALGPLGINIKKFCKDFNKAT-KDYKPGIPVPVKITVYNDKSF   60 (60)
T ss_dssp             EEEEEEETTSSSSTTTSTHHHHTTTS-HHHHHHHHHHHT-TTCTTSSEEEEEEEEETTSEE
T ss_pred             CEEEEEecCcccCCCCcCcccccCCCCHHHHHHHHHHHH-hcccCCCEEEEEEEEeCCCCC
Confidence            589999999999999999999999999999999999999 9987 99999999999 9998

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 ....

>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=99.95  E-value=6.4e-28  Score=168.44  Aligned_cols=68  Identities=35%  Similarity=0.450  Sum_probs=65.8

Q ss_pred             eCCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEe
Q 031086           75 VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTV  144 (166)
Q Consensus        75 ~Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V  144 (166)
                      +||+||||+|++|+.+|+.+|++  +++|+||++||||||++|++|+++.+|+++||+|+||||||||+|
T Consensus         2 ~Pp~s~llkkaagi~kGs~~p~~--~~vG~it~~~i~eIAk~K~~d~~~~~l~~~~k~v~Gta~SmGi~V   69 (69)
T PF00298_consen    2 TPPTSWLLKKAAGIKKGSSKPGK--EKVGTITLKQIYEIAKIKQKDLNAKSLESAVKSVIGTARSMGIKV   69 (69)
T ss_dssp             SSTHHHHHHHHHTTSSSSSSTTT--SSSEEEEHHHHHHHHHHHTTTSSSSSHHHHHHHHHHHHHTTTEEE
T ss_pred             CCChHHHHHHHhCCCCCCCCCCC--ceeeeecHHHHHHHHHHhhcccccCCHHHHHHHHHHHHhcCceEC
Confidence            69999999999999999999988  679999999999999999999999999999999999999999987

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 ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	166
3izr_J	166	Localization Of The Large Subunit Ribosomal Protein		3e-83
2zkr_i	165	Structure Of A Mammalian Ribosomal 60s Subunit With		4e-64
3izs_J	165	Localization Of The Large Subunit Ribosomal Protein		3e-57
3zf7_M	164	High-resolution Cryo-electron Microscopy Structure		3e-52
3jyw_K	138	Structure Of The 60s Proteins For Eukaryotic Riboso		1e-47
1s1i_K	131	Structure Of The Ribosomal 80s-Eef2-Sordarin Comple		6e-46
1wib_A	92	Solution Structure Of The N-Terminal Domain From Mo		8e-30
3j21_H	164	Promiscuous Behavior Of Proteins In Archaeal Riboso		3e-21
1s72_I	162	Refined Crystal Structure Of The Haloarcula Marismo		4e-11
2otj_I	161	13-Deoxytedanolide Bound To The Large Subunit Of Ha		4e-11

>pdb|3IZR|J Chain J, Localization Of The Large Subunit Ribosomal Proteins Into A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s Ribosome Length = 166

Iteration: 1
 Score =  303 bits (777), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 148/164 (90%), Positives = 161/164 (98%)
Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPK DP+QVVDV+VRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT
Sbjct: 1   MPPKLDPTQVVDVFVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLTVQNRQAKV+VVPSAAALVIKALKEPERDRKK KNIKH+GNI+LDDVIEIA++MR R
Sbjct: 61  VKLTVQNRQAKVSVVPSAAALVIKALKEPERDRKKVKNIKHSGNISLDDVIEIARIMRNR 120
Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           SMAK+++GTVKEILGTCVSVGCTVDGKDP+DLQQEI+DG+VEIP
Sbjct: 121 SMAKEMAGTVKEILGTCVSVGCTVDGKDPKDLQQEISDGEVEIP 164

>pdb|2ZKR|II Chain i, Structure Of A Mammalian Ribosomal 60s Subunit Within An 80s Complex Obtained By Docking Homology Models Of The Rna And Proteins Into An 8.7 A Cryo-Em Map Length = 165

Iteration: 1
 Score =  239 bits (611), Expect = 4e-64,   Method: Compositional matrix adjust.
 Identities = 114/164 (69%), Positives = 139/164 (84%), Gaps = 1/164 (0%)
Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDP+++  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+T
Sbjct: 1   MPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATG-DWKGLRIT 59
Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLT+QNRQA++ VVPSA+AL+IKALKEP RDRKK KNIKH+GNIT D+++ IA+ MR R
Sbjct: 60  VKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHSGNITFDEIVNIARQMRHR 119
Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           S+A++LSGT+KEILGT  SVGC VDG+ P D+  +I  G VE P
Sbjct: 120 SLARELSGTIKEILGTAQSVGCNVDGRHPHDIIDDINSGAVECP 163

>pdb|3IZS|J Chain J, Localization Of The Large Subunit Ribosomal Proteins Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae Translating 80s Ribosome Length = 165

Iteration: 1
 Score =  216 bits (551), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 104/164 (63%), Positives = 134/164 (81%), Gaps = 1/164 (0%)
Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDP++V  +Y+R  GGEVGA+++LAPKIGPLGLSPKK+GEDIAK T K++KG++VT
Sbjct: 1   MPPKFDPNEVKYLYLRAVGGEVGASAALAPKIGPLGLSPKKVGEDIAKAT-KEFKGIKVT 59
Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           V+L +QNRQA  +VVPSA++LVI ALKEP RDRKK KN+KH+GNI LD++IEIA+ MR +
Sbjct: 60  VQLKIQNRQAAASVVPSASSLVITALKEPPRDRKKDKNVKHSGNIQLDEIIEIARQMRDK 119
Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           S  + L+   KEILGT  SVGC VD K+P D+ + I  G++EIP
Sbjct: 120 SFGRTLASVTKEILGTAQSVGCRVDFKNPHDIIEGINAGEIEIP 163

>pdb|3ZF7|M Chain M, High-resolution Cryo-electron Microscopy Structure Of The Trypanosoma Brucei Ribosome Length = 164

Iteration: 1
 Score =  200 bits (509), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 96/164 (58%), Positives = 125/164 (76%), Gaps = 1/164 (0%)
Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDP+Q + V VR  GGEV A +SLAPK+GPLGL+ KKIGEDIAK T KDWKGL+VT
Sbjct: 1   MPPKFDPNQEITVVVRAVGGEVPATASLAPKVGPLGLNAKKIGEDIAKST-KDWKGLKVT 59
Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
            +L V+NR A V V PS A+ +I+ALKEP RDRKK KNIKH+GNI   ++++IAK   P 
Sbjct: 60  CQLRVKNRVATVVVTPSVASRLIRALKEPPRDRKKVKNIKHDGNIAFSEILKIAKESAPN 119
Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           SM   +   V E+LGT VS+GCT+DG+ PR +Q+++ +G +++P
Sbjct: 120 SMGASMKSVVMEVLGTAVSIGCTIDGEHPRAIQEKVQEGKLKVP 163

>pdb|3JYW|K Chain K, Structure Of The 60s Proteins For Eukaryotic Ribosome Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome At 8.9a Resolution Length = 138

Iteration: 1
 Score =  185 bits (469), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 90/139 (64%), Positives = 115/139 (82%), Gaps = 1/139 (0%)
Query: 7   PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ 66
           P++V  +Y+R  GGEVGA+++LAPKIGPLGLSPKK+GEDIAK T K++KG++VTV+L +Q
Sbjct: 1   PNEVKYLYLRAVGGEVGASAALAPKIGPLGLSPKKVGEDIAKAT-KEFKGIKVTVQLKIQ 59
Query: 67  NRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDL 126
           NRQA  +VVPSA++LVI ALKEP RDRKK KN+KH+GNI LD++IEIA+ MR +S  + L
Sbjct: 60  NRQAAASVVPSASSLVITALKEPPRDRKKDKNVKHSGNIQLDEIIEIARQMRDKSFGRTL 119
Query: 127 SGTVKEILGTCVSVGCTVD 145
           +   KEILGT  SVGC VD
Sbjct: 120 ASVTKEILGTAQSVGCRVD 138

>pdb|1S1I|K Chain K, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From Yeast Obtained By Docking Atomic Models For Rna And Protein Components Into A 11.7 A Cryo-Em Map. This File, 1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is In File 1s1h Length = 131

Iteration: 1
 Score =  179 bits (454), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 87/132 (65%), Positives = 110/132 (83%), Gaps = 1/132 (0%)
Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKV 72
           +Y+R  GGEVGA+++LAPKIGPLGLSPKK+GEDIAK T K++KG++VTV+L +QNRQA  
Sbjct: 1   LYLRAVGGEVGASAALAPKIGPLGLSPKKVGEDIAKAT-KEFKGIKVTVQLKIQNRQAAA 59
Query: 73  AVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKE 132
           +VVPSA++LVI ALKEP RDRKK KN+KH+GNI LD++IEIA+ MR +S  + L+   KE
Sbjct: 60  SVVPSASSLVITALKEPPRDRKKDKNVKHSGNIQLDEIIEIARQMRDKSFGRTLASVTKE 119
Query: 133 ILGTCVSVGCTV 144
           ILGT  SVGC V
Sbjct: 120 ILGTAQSVGCRV 131

>pdb|1WIB|A Chain A, Solution Structure Of The N-Terminal Domain From Mouse Hypothetical Protein Bab22488 Length = 92

Iteration: 1
 Score =  125 bits (315), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 61/80 (76%), Positives = 72/80 (90%), Gaps = 1/80 (1%)
Query: 2  PPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTV 61
          PPKFDP++V  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+TV
Sbjct: 8  PPKFDPNEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKATG-DWKGLRITV 66
Query: 62 KLTVQNRQAKVAVVPSAAAL 81
          KLT+QNRQA++ VVPSA+AL
Sbjct: 67 KLTIQNRQAQIEVVPSASAL 86

>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 = 97.4 bits (241), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 64/158 (40%), Positives = 97/158 (61%), Gaps = 12/158 (7%)
Query: 7   PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ 66
           P QVV+V V   GG+      L P IGPLGL+ K++ + I  E  KD+ G++V VK+ V 
Sbjct: 2   PKQVVEVLVE--GGKATPGPPLGPAIGPLGLNVKQVVDKI-NEATKDFAGMQVPVKIIVD 58
Query: 67  --NRQAKVAV-VPSAAALVIKALKEPERDRKKTKNIKHN--GNITLDDVIEIAKVMRPRS 121
              +Q ++ V VP  + L+ K L       K +   KHN  GN+T++ VI+IAK+ + + 
Sbjct: 59  PVTKQFEIEVGVPPTSQLIKKEL----GLEKGSGEPKHNIVGNLTMEQVIKIAKMKKDQM 114
Query: 122 MAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDG 159
           +A  L    KE++GT +S+G TV+GKDPR++Q+EI +G
Sbjct: 115 LALTLKAAAKEVIGTALSMGVTVEGKDPREVQKEIDEG 152

>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 = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 82/152 (53%), Gaps = 5/152 (3%)
Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAK-DWKGLRVTVKLTVQ-NRQA 70
           + V V GGE      L P++GP  +  + + ++I  +TA  D   + VTVK     + + 
Sbjct: 5   IEVLVPGGEANPGPPLGPELGPTPVDVQAVVQEINDQTAAFDGTEVPVTVKYDDDGSFEI 64
Query: 71  KVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTV 130
           +V V P+A  +  +A  E      +   +    ++++D V +IA+   P  ++ DL+   
Sbjct: 65  EVGVPPTAELIKDEAGFETGSGEPQEDFV---ADLSVDQVKQIAEQKHPDLLSYDLTNAA 121
Query: 131 KEILGTCVSVGCTVDGKDPRDLQQEITDGDVE 162
           KE++GTC S+G T++G++PR+ ++ I  G+ +
Sbjct: 122 KEVVGTCTSLGVTIEGENPREFKERIDAGEYD 153

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

Iteration: 1
 Score = 63.9 bits (154), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 43/152 (28%), Positives = 81/152 (53%), Gaps = 5/152 (3%)
Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAK-DWKGLRVTVKLTVQNR-QA 70
           + V V GGE      L P++GP  +  + + ++I  +TA  D   + VTVK       + 
Sbjct: 4   IEVLVPGGEANPGPPLGPELGPTPVDVQAVVQEINDQTAAFDGTEVPVTVKYDDDGSFEI 63
Query: 71  KVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTV 130
           +V V P+A  +  +A  E      +   +    ++++D V +IA+   P  ++ DL+   
Sbjct: 64  EVGVPPTAELIKDEAGFETGSGEPQEDFV---ADLSVDQVKQIAEQKHPDLLSYDLTNAA 120
Query: 131 KEILGTCVSVGCTVDGKDPRDLQQEITDGDVE 162
           KE++GTC S+G T++G++PR+ ++ I  G+ +
Sbjct: 121 KEVVGTCTSLGVTIEGENPREFKERIDAGEYD 152

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	166
3iz5_J	166	60S ribosomal protein L12 (L11P); eukaryotic ribos	2e-57
2zkr_i	165	60S ribosomal protein L12; protein-RNA complex, 60	3e-53
1vq8_I	162	50S ribosomal protein L11P; ribosome 50S, protein-	3e-49
3bbo_K	224	Ribosomal protein L11; large ribosomal subunit, sp	3e-38
1wib_A	92	60S ribosomal protein L12; N-terminal domain, stru	5e-36
3egv_B	146	50S ribosomal protein L11, ribosomal protein L11 m	6e-32
3r8s_I	141	50S ribosomal protein L11; protein biosynthesis, R	5e-29
1mms_A	140	Protein (ribosomal protein L11); RNA-protein compl	3e-27
2ftc_G	145	L11MT, MRP-L11, 39S ribosomal protein L11, mitocho	7e-23
1hc8_A	76	Ribosomal protein L11; ribosome, ribosomal RNA, te	3e-09
1qa6_A	67	Ribosomal protein L11; ribosomal RNA, tertiary str	8e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-06

>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 =  165 bits (419), Expect = 3e-53
 Identities = 114/164 (69%), Positives = 139/164 (84%), Gaps = 1/164 (0%)

Query: 1   MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           MPPKFDP+++  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+T
Sbjct: 1   MPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKAT-GDWKGLRIT 59

Query: 61  VKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR 120
           VKLT+QNRQA++ VVPSA+AL+IKALKEP RDRKK KNIKH+GNIT D+++ IA+ MR R
Sbjct: 60  VKLTIQNRQAQIEVVPSASALIIKALKEPPRDRKKQKNIKHSGNITFDEIVNIARQMRHR 119

Query: 121 SMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP 164
           S+A++LSGT+KEILGT  SVGC VDG+ P D+  +I  G VE P
Sbjct: 120 SLARELSGTIKEILGTAQSVGCNVDGRHPHDIIDDINSGAVECP 163

>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 =  155 bits (393), Expect = 3e-49
 Identities = 40/153 (26%), Positives = 80/153 (52%), Gaps = 7/153 (4%)

Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQA-- 70
           + V V GGE      L P++GP  +  + + ++I  +T   + G  V V +   +  +  
Sbjct: 5   IEVLVPGGEANPGPPLGPELGPTPVDVQAVVQEINDQT-AAFDGTEVPVTVKYDDDGSFE 63

Query: 71  -KVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGT 129
            +V V P+A  +  +A  E      +   +    ++++D V +IA+   P  ++ DL+  
Sbjct: 64  IEVGVPPTAELIKDEAGFETGSGEPQEDFV---ADLSVDQVKQIAEQKHPDLLSYDLTNA 120

Query: 130 VKEILGTCVSVGCTVDGKDPRDLQQEITDGDVE 162
            KE++GTC S+G T++G++PR+ ++ I  G+ +
Sbjct: 121 AKEVVGTCTSLGVTIEGENPREFKERIDAGEYD 153

>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 =  129 bits (325), Expect = 3e-38
 Identities = 32/158 (20%), Positives = 66/158 (41%), Gaps = 3/158 (1%)

Query: 1   MPPKFDPSQVVD--VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLR 58
           M PK   ++ V   + + +  G+   A  + P +G  G++     +D    T  D  G  
Sbjct: 66  MAPKPGKAKKVIGVIKLALEAGKATPAPPVGPALGSKGVNIMAFCKDYNART-ADKPGFV 124

Query: 59  VTVKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMR 118
           + V++TV + ++   ++ +  A V+           K   ++  G IT+D +  IA    
Sbjct: 125 IPVEITVFDDKSFTFILKTPPASVLLLKASGAEKGSKDPQMEKVGKITIDQLRGIATEKL 184

Query: 119 PRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEI 156
           P      +   ++ I GT  ++G  +D       ++E+
Sbjct: 185 PDLNCTTIESAMRIIAGTAANMGIDIDPPILVKKKKEV 222

>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 =  119 bits (299), Expect = 5e-36
 Identities = 61/86 (70%), Positives = 73/86 (84%), Gaps = 1/86 (1%)

Query: 1  MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           PPKFDP++V  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+T
Sbjct: 7  GPPKFDPNEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKAT-GDWKGLRIT 65

Query: 61 VKLTVQNRQAKVAVVPSAAALVIKAL 86
          VKLT+QNRQA++ VVPSA+AL   + 
Sbjct: 66 VKLTIQNRQAQIEVVPSASALSGPSS 91

>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 =  110 bits (277), Expect = 6e-32
 Identities = 29/137 (21%), Positives = 51/137 (37%), Gaps = 1/137 (0%)

Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKV 72
           V +++  G    A  + P +G  G +  +  +     T  +     V V++T+   ++  
Sbjct: 7   VKLQLPAGAATPAPPVGPALGQHGANIMEFVKAFNAAT-ANMGDAIVPVEITIYADRSFT 65

Query: 73  AVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKE 132
            V  +  A  +                +  G IT + V+EIAK   P     DL    + 
Sbjct: 66  FVTKTPPASYLIRKAAGLEKGAHKPGREKVGRITWEQVLEIAKQKMPDLNTTDLEAAARM 125

Query: 133 ILGTCVSVGCTVDGKDP 149
           I G+  S+G  V G   
Sbjct: 126 IAGSARSMGVEVVGAPE 142

>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 =  103 bits (257), Expect = 5e-29
 Identities = 29/133 (21%), Positives = 53/133 (39%)

Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKV 72
           V ++V  G    +  + P +G  G++  +  +    +T    KGL + V +TV   ++  
Sbjct: 8   VKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYADRSFT 67

Query: 73  AVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKE 132
            V  +  A V+       +      N    G I+   + EIA+         D+    + 
Sbjct: 68  FVTKTPPAAVLLKKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMTGADIEAMTRS 127

Query: 133 ILGTCVSVGCTVD 145
           I GT  S+G  V+
Sbjct: 128 IEGTARSMGLVVE 140

>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 = 98.7 bits (245), Expect = 3e-27
 Identities = 30/133 (22%), Positives = 54/133 (40%), Gaps = 1/133 (0%)

Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKV 72
           + +++  G+   A  + P +G  G++  +  +    ET  D  G+ + V +TV   ++  
Sbjct: 8   IKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAET-ADKAGMILPVVITVYEDKSFT 66

Query: 73  AVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKE 132
            ++ +  A  +                K  G +T   + EIAK   P   A  L   +K 
Sbjct: 67  FIIKTPPASFLLKKAAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKI 126

Query: 133 ILGTCVSVGCTVD 145
           I GT  S+G  V 
Sbjct: 127 IEGTAKSMGIEVV 139

>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 = 87.6 bits (216), Expect = 7e-23
 Identities = 26/137 (18%), Positives = 49/137 (35%), Gaps = 4/137 (2%)

Query: 13  VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKV 72
           +   V  G       L P +G  G+S  +  ++  + T    +G+ +  K+ V+  +   
Sbjct: 8   IRAIVRAGLAMPGPPLGPVLGQRGVSINQFCKEFNERTKDIKEGIPLPTKILVKPDRTFE 67

Query: 73  AVVPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKV----MRPRSMAKDLSG 128
             +                   +    +  G +TL  V EIA++             LS 
Sbjct: 68  IKIGQPTVSYFLKAAAGIEKGARQTGKEVAGLVTLKHVYEIARIKAQDEAFALQDVPLSS 127

Query: 129 TVKEILGTCVSVGCTVD 145
            V+ I+G+  S+G  V 
Sbjct: 128 VVRSIIGSARSLGIRVV 144

>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 = 50.2 bits (120), Expect = 3e-09
 Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 2/70 (2%)

Query: 76  PSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILG 135
           P AA L+ KA        +  +N      I  D V EIA++  P   A  +   ++ I G
Sbjct: 8   PPAAVLLKKAAGIESGSGEPNRNK--VATIKRDKVREIAELKMPDLNAASIEAAMRMIEG 65

Query: 136 TCVSVGCTVD 145
           T  S+G  V+
Sbjct: 66  TARSMGIVVE 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 = 40.9 bits (96), Expect = 8e-06
 Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 2/66 (3%)

Query: 76  PSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILG 135
           P AA L+ KA        +  +N      I  D V EIA++  P   A  +   ++ I G
Sbjct: 3   PPAAVLLKKAAGIESGSGEPNRNKVAT--IKRDKVREIAELKMPDLNAASIEAAMRMIEG 60

Query: 136 TCVSVG 141
           T  S+G
Sbjct: 61  TARSMG 66

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 43.7 bits (102), Expect = 9e-06
 Identities = 25/170 (14%), Positives = 49/170 (28%), Gaps = 32/170 (18%)

Query: 5   FDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLT 64
             P +V  + ++                 P  LS   I E I ++    W   +      
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS--IIAESI-RDGLATWDNWK-----H 349

Query: 65  VQNRQAKVAVVPSAAALVIKALKEPERDRK---------KTKNIKHN------GNITLDD 109
           V   +    +  S   L      EP   RK          + +I          ++   D
Sbjct: 350 VNCDKLTTIIESSLNVL------EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSD 403

Query: 110 VIEIAKVMRPRSMA-KDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITD 158
           V+ +   +   S+  K    +   I    + +   ++ +    L + I D
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE--YALHRSIVD 451

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	166
3iz5_J	166	60S ribosomal protein L12 (L11P); eukaryotic ribos	100.0
2zkr_i	165	60S ribosomal protein L12; protein-RNA complex, 60	100.0
1vq8_I	162	50S ribosomal protein L11P; ribosome 50S, protein-	100.0
3j21_H	164	50S ribosomal protein L11P; archaea, archaeal, KIN	100.0
1mms_A	140	Protein (ribosomal protein L11); RNA-protein compl	100.0
3bbo_K	224	Ribosomal protein L11; large ribosomal subunit, sp	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
3r8s_I	141	50S ribosomal protein L11; protein biosynthesis, R	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	99.98
1hc8_A	76	Ribosomal protein L11; ribosome, ribosomal RNA, te	99.97
1qa6_A	67	Ribosomal protein L11; ribosomal RNA, tertiary str	99.94

>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=5.9e-71  Score=439.92  Aligned_cols=165  Identities=69%  Similarity=1.131  Sum_probs=70.4

Q ss_pred             CCCCCCCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEecCceEEEEeCCHHH
Q 031086            1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAA   80 (166)
Q Consensus         1 m~~k~~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~drsf~~~v~Ppts~   80 (166)
                      ||||||++++++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|+|++|||+|||.||||+|+++||+||
T Consensus         1 m~~k~~~~~~~~ikL~v~aG~A~p~PplGPaLG~~Gvni~~fck~fN~~T-~~~~G~~ipV~Itv~drsf~f~vtPpas~   79 (165)
T 2zkr_i            1 MPPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKAT-GDWKGLRITVKLTIQNRQAQIEVVPSASA   79 (165)
T ss_dssp             -----------------------------------------------------------------------CCCCCCHHH
T ss_pred             CCCCCCCCeeEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEcCCeeeEEECCCHHH
Confidence            89999999999999999999999999999999999999999999999999 99999999999999999999999999999


Q ss_pred             HHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhCce
Q 031086           81 LVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGD  160 (166)
Q Consensus        81 llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~G~  160 (166)
                      ||+||||+.+|++++..|.+++|+||++||||||+.|++||++.+|+++||+|+||||||||+|+++||+||+++||+|+
T Consensus        80 Ll~kaag~~~gs~k~~p~~~~vG~it~~qv~eIA~~K~~dl~a~~l~~a~k~I~GTArSmGi~V~g~~P~ev~~~I~~G~  159 (165)
T 2zkr_i           80 LIIKALKEPPRDRKKQKNIKHSGNITFDEIVNIARQMRHRSLARELSGTIKEILGTAQSVGCNVDGRHPHDIIDDINSGA  159 (165)
T ss_dssp             HHHHHHTCSSCCSSTTTCSSCSEEECHHHHHHHHHHHTTTCCCSSHHHHHHHHHHHHHHHTEEEC---------------
T ss_pred             HHHHHhCCCCCCcccccCceEEeeEeHHHHHHHHHHHHHhhcCccHHHHHHHHHHHHHhCeeEEeCCCHHHHHHHHhCCC
Confidence            99999999999977444558999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeccCC
Q 031086          161 VEIPLD  166 (166)
Q Consensus       161 ~~~~~~  166 (166)
                      ||||++
T Consensus       160 ~~~p~~  165 (165)
T 2zkr_i          160 VECPAS  165 (165)
T ss_dssp             ------
T ss_pred             eeCCCC
Confidence            999985

>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=2.7e-65  Score=406.25  Aligned_cols=149  Identities=26%  Similarity=0.529  Sum_probs=66.4

Q ss_pred             EEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHHHhCC
Q 031086           11 VDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIKALKE   88 (166)
Q Consensus        11 ~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkka~g~   88 (166)
                      ++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|+|++|||+|||| ||||+|++ +||+||||+||||+
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 GTIEVLVPGGEANPGPPLGPELGPTPVDVQAVVQEINDQT-AAFDGTEVPVTVKYDDDGSFEIEVGVPPTAELIKDEAGF   81 (162)
T ss_dssp             -----------------------------------------------------------------CCCCHHHHHHHTTSC
T ss_pred             eEEEEEeecCccCCCCCcccccccCCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEcCCCeEEEEEcCCCHHHHHHHHhCC
Confidence            5799999999999999999999999999999999999999 999999999999999 99999999 99999999999998


Q ss_pred             CCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhCceee
Q 031086           89 PERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVE  162 (166)
Q Consensus        89 ~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~G~~~  162 (166)
                      .+|++.+++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||+|++++|+|++++||+|+|+
T Consensus        82 ~kgs~~p~k--~~vG~it~~qv~eIA~~K~~dl~a~~l~~a~k~I~GTArSmGi~V~g~~p~~vi~~I~~g~~~  153 (162)
T 1vq8_I           82 ETGSGEPQE--DFVADLSVDQVKQIAEQKHPDLLSYDLTNAAKEVVGTCTSLGVTIEGENPREFKERIDAGEYD  153 (162)
T ss_dssp             CSCCSSTTT--SCCEEECHHHHHHHHHHTTTTCCCSSHHHHHHHHHHHTTTTTEEEC-----------------
T ss_pred             CCCCCCCCC--ceeeeeeHHHHHHHHHHHHHhhcccCHHHHHHHHHhhhHhCeEEEeccCHHHHHHhcChhhHH
Confidence            888877776  799999999999999999999999999999999999999999999999999999999999996

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

Probab=100.00  E-value=1.1e-64  Score=403.53  Aligned_cols=151  Identities=38%  Similarity=0.622  Sum_probs=124.0

Q ss_pred             EEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEE-e-cCceEEEE-eCCHHHHHHHHhC
Q 031086           11 VDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTV-Q-NRQAKVAV-VPSAAALVIKALK   87 (166)
Q Consensus        11 ~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv-~-drsf~~~v-~Ppts~llkka~g   87 (166)
                      .+|+|+|+||+|+|+|||||+|||+|||+|+||++||++| ++|+|++|||+||| | ||||+|++ +||+||||+||||
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 QVVEVLVEGGKATPGPPLGPAIGPLGLNVKQVVDKINEAT-KDFAGMQVPVKIIVDPVTKQFEIEVGVPPTSQLIKKELG   82 (164)
T ss_dssp             SSSCEEEESSCCCCHHHHHHHCCCSSSCTTHHHHHHHHHH-CCSSCCEEEECBCCCTTTCCCCBCCSSSSSTTHHHHHHC
T ss_pred             eEEEEEEecCccCCCCCcchhhcccCCcHHHHHHHHHHHH-hhcCCCeeEEEEEEecCCceEEEEEcCCCHHHHHHHHhC
Confidence            4789999999999999999999999999999999999999 99999999999999 8 99999999 9999999999999


Q ss_pred             CCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhCceeecc
Q 031086           88 EPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIP  164 (166)
Q Consensus        88 ~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~G~~~~~  164 (166)
                      +.+|++.+++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||+|+|++|+|++++||+|+||-.
T Consensus        83 ~~kgs~~p~k--~~vG~it~~qi~eIA~~K~~dl~a~~l~~a~k~I~GTArSmGi~V~g~~p~~v~~~i~~G~~~~~  157 (164)
T 3j21_H           83 LEKGSGEPKH--NIVGNLTMEQVIKIAKMKKDQMLALTLKAAAKEVIGTALSMGVTVEGKDPREVQKEIDEGVYDEL  157 (164)
T ss_dssp             CCSCCSSTTT--CCSCCCCHHHHHHHHHHHTTTTTCCSHHHHHHHHHHHHHCCC-----------------------
T ss_pred             CCCCCCCCCC--ceeeeeeHHHHHHHHHHHHhhhcccCHHHHHHHHHHHhhcceEEEeccCHHHHHHHhccccHHHH
Confidence            9888887776  79999999999999999999999999999999999999999999999999999999999999753

>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=2.9e-61  Score=375.42  Aligned_cols=137  Identities=25%  Similarity=0.343  Sum_probs=129.2

Q ss_pred             CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086            7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK   84 (166)
Q Consensus         7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk   84 (166)
                      +++.++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|+|++|||+|||| ||||+|++ +||+||||+|
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 KKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAET-ADKAGMILPVVITVYEDKSFTFIIKTPPASFLLKK   80 (140)
T ss_dssp             -----CEEEEEETTCCCCTTTTTHHHHTTTCCHHHHHHHHHHHT-TTSCSSEEEEEEEECTTSCEEEEECCCCHHHHHHH
T ss_pred             CceEEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHh-hhcCCCeEEEEEEEcCCCeEEEEEcCCCHHHHHHH
Confidence            46788999999999999999999999999999999999999999 999999999999999 99999999 9999999999


Q ss_pred             HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086           85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG  146 (166)
Q Consensus        85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~  146 (166)
                      |||+++|++++++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||+|++
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 AAGIEKGSSEPKR--KIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAKSMGIEVVD  140 (140)
T ss_dssp             HHTCSSCCSSTTT--SCCEEECHHHHHHHHHHHGGGCCCSSHHHHHHHHHHHHTTTTEEEC-
T ss_pred             HhCCCCCCCCCCC--eEeeeEcHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHcCeeEeeC
Confidence            9999999999987  69999999999999999999999999999999999999999999985

>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=2.6e-61  Score=398.24  Aligned_cols=152  Identities=22%  Similarity=0.335  Sum_probs=138.3

Q ss_pred             CCCCCCC--CceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eC
Q 031086            1 MPPKFDP--SQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VP   76 (166)
Q Consensus         1 m~~k~~~--~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~P   76 (166)
                      ||||+++  +++++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|+|++|||+|||| ||+|+|++ +|
T Consensus        66 M~pk~~~akkv~~~IkL~v~aGkA~PaPPlGPaLG~~GVNim~FcK~fN~~T-~d~~Gl~IPV~ITV~~DRsf~f~vktP  144 (224)
T 3bbo_K           66 MAPKPGKAKKVIGVIKLALEAGKATPAPPVGPALGSKGVNIMAFCKDYNART-ADKPGFVIPVEITVFDDKSFTFILKTP  144 (224)
T ss_dssp             -CCSCCCCCCCSSEEEECCBTTBCCCSTTTTTTTTTTSSCTTSSHHHHHHHG-GGSCSSBCCEEEEECSSSCEEEEECCC
T ss_pred             cCCCCCCccceEEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHh-cccCCCeEEEEEEEccCCeEEEEecCC
Confidence            8999887  8999999999999999999999999999999999999999999 899999999999999 99999999 99


Q ss_pred             CHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHh
Q 031086           77 SAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQE  155 (166)
Q Consensus        77 pts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~  155 (166)
                      |+||||+||||+++|++++++  +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|++++|++--++
T Consensus       145 paS~LLkKAagi~kGs~kp~~--~~vG~IT~~qV~eIAk~K~~dl~a~~Le~avK~IlGTArSMGi~V~g~~p~~~~~~  221 (224)
T 3bbo_K          145 PASVLLLKASGAEKGSKDPQM--EKVGKITIDQLRGIATEKLPDLNCTTIESAMRIIAGTAANMGIDIDPPILVKKKKE  221 (224)
T ss_dssp             CTTHHHHHHHTCSSCCSSTTT--SCCEEECHHHHHHHHHHTCTTSCCSSHHHHHHHHHHHHTTTTEEEC----------
T ss_pred             CHHHHHHHHhCCCCCCCCCCC--ceeeeecHHHHHHHHHHHHhhhcCcCHHHHHHHHHHHHHhCeeEEeCCCCChhhcc
Confidence            999999999999999999877  79999999999999999999999999999999999999999999999998875544

>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=1.3e-59  Score=367.89  Aligned_cols=136  Identities=25%  Similarity=0.345  Sum_probs=130.8

Q ss_pred             CceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccC-CceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086            8 SQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWK-GLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK   84 (166)
Q Consensus         8 ~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~-g~~vpV~Itv~-drsf~~~v-~Ppts~llkk   84 (166)
                      ...++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|. |++|||+|||| ||||+|++ +||+||||+|
T Consensus         3 ~~~~~ikL~v~aG~A~p~PplgPaLG~~Gvni~~fck~fN~~T-~~~~~G~~ipV~Itv~~drsf~f~vk~Ppas~Ll~k   81 (145)
T 2ftc_G            3 EVGGVIRAIVRAGLAMPGPPLGPVLGQRGVSINQFCKEFNERT-KDIKEGIPLPTKILVKPDRTFEIKIGQPTVSYFLKA   81 (145)
T ss_pred             ceEEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHH-hhhcCCCeEEEEEEEcCCCeEEEEEcCCCHHHHHHH
Confidence            3578999999999999999999999999999999999999999 9986 99999999999 99999999 9999999999


Q ss_pred             HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhccc--CCC--CChhhhhhhhhhcccceeeEecC
Q 031086           85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPR--SMA--KDLSGTVKEILGTCVSVGCTVDG  146 (166)
Q Consensus        85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d--~~~--~~l~~~~k~VlGTa~SmGi~V~~  146 (166)
                      |||+.+|++++++  +++|+||++||||||+.|++|  |++  .+|+++||+|+||||||||+|++
T Consensus        82 aag~~~gs~~p~~--~~vG~it~~qv~eIA~~K~~d~~l~a~~~~l~~a~k~I~GTArSmGi~V~~  145 (145)
T 2ftc_G           82 AAGIEKGARQTGK--EVAGLVTLKHVYEIARIKAQDEAFALQDVPLSSVVRSIIGSARSLGIRVVK  145 (145)
T ss_pred             HhCCCCCCCCCCC--cCcceEcHHHHHHHHHHhCcchhccCccCCHHHHHHHHHHHHhcCeEEEeC
Confidence            9999999999977  799999999999999999997  999  99999999999999999999974

>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=6.9e-61  Score=375.47  Aligned_cols=141  Identities=25%  Similarity=0.331  Sum_probs=73.1

Q ss_pred             CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086            7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK   84 (166)
Q Consensus         7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk   84 (166)
                      +++.++|+|+|+||+|+|+|||||+|||+|||+|+||++||++| ++|+|++|||+|||| ||||+|++ +||+||||+|
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 KKVVAVVKLQLPAGAATPAPPVGPALGQHGANIMEFVKAFNAAT-ANMGDAIVPVEITIYADRSFTFVTKTPPASYLIRK   79 (146)
T ss_dssp             CCEEEEEEEEEETTCCCSSTTHHHHHHTTTCCHHHHHHHHHHHT-TTSTTCEEEEEEEEETTSCEEEEECCCCHHHHC--
T ss_pred             CceEEEEEEEEecccccCCCCcchhhcccCCCHHHHHHHHHHHh-cccCCCEeeEEEEEeCCCeEEEEEeCCCHHHHHHH
Confidence            46889999999999999999999999999999999999999999 899999999999999 99999988 9999999999


Q ss_pred             HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChH
Q 031086           85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPR  150 (166)
Q Consensus        85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~  150 (166)
                      |||+++|+..+++  +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|++.||.
T Consensus        80 a~g~~~gs~~p~~--~~vG~it~~qi~eIA~~K~~d~~a~~l~~a~k~I~GTA~SmGi~V~g~~~~  143 (146)
T 3egv_B           80 AAGLEKGAHKPGR--EKVGRITWEQVLEIAKQKMPDLNTTDLEAAARMIAGSARSMGVEVVGAPEV  143 (146)
T ss_dssp             ------------------------------------------------------------------
T ss_pred             hhCCCCCCCCCCC--eeeeeecHHHHHHHHHHHhhhhcccCHHHHHHHhHhhhhcCeEEEECCCcC
Confidence            9999999877765  799999999999999999999999999999999999999999999998875

>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=7.9e-61  Score=373.26  Aligned_cols=137  Identities=24%  Similarity=0.338  Sum_probs=132.5

Q ss_pred             CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccC-CceeEEEEEEe-cCceEEEE-eCCHHHHHH
Q 031086            7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWK-GLRVTVKLTVQ-NRQAKVAV-VPSAAALVI   83 (166)
Q Consensus         7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~-g~~vpV~Itv~-drsf~~~v-~Ppts~llk   83 (166)
                      +++.++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|. |++|||+|||| ||||+|++ +||+||||+
T Consensus         2 kk~~~~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            2 KKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKT-DSIEKGLPIPVVITVYADRSFTFVTKTPPAAVLLK   80 (141)
T ss_dssp             CCCSCCCCCCSCSSSSSCTTTTCTTSSSSSCCSSSTTTTGGGTH-HHHCSCSCCCBCCCCSSSSSCCCCBCCCCSSTTTT
T ss_pred             ceEEEEEEEEEecCccCCCCCcchhhccCCCCHHHHHHHHHHHH-hcccCCCeEEEEEEEcCCCeEEEEEcCCCHHHHHH
Confidence            57888999999999999999999999999999999999999999 9975 99999999999 99999999 999999999


Q ss_pred             HHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086           84 KALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG  146 (166)
Q Consensus        84 ka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~  146 (166)
                      ||||+++|+++|++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||+|+|
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 KAAGIKSGSGKPNK--DKVGKISRAQLQEIAQTKAADMTGADIEAMTRSIEGTARSMGLVVED  141 (141)
T ss_dssp             SSSSCSSCCSSTTT--SCCSCCCSSTTSTTTSCCSSCCSCSCTTTTTTTSTTTSSSSCCCCCC
T ss_pred             HHhCCCCCCCCCCC--cEeeEecHHHHHHHHHHHHhhhcCcCHHHHHHHHHHhhhcceEEEeC
Confidence            99999999998866  79999999999999999999999999999999999999999999986

>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=1.8e-39  Score=236.77  Aligned_cols=86  Identities=71%  Similarity=1.090  Sum_probs=84.5

Q ss_pred             CCCCCCCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEecCceEEEEeCCHHH
Q 031086            1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAA   80 (166)
Q Consensus         1 m~~k~~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~drsf~~~v~Ppts~   80 (166)
                      ||||+|++++++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|+|++|||+||||||||+|+++||+|+
T Consensus         7 M~pk~~p~~~~~ikL~v~aG~A~p~pplgPaLG~~Glni~~f~k~fn~~T-~~~kG~~ipV~itv~drsf~~~v~PpaS~   85 (92)
T 1wib_A            7 GPPKFDPNEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKAT-GDWKGLRITVKLTIQNRQAQIEVVPSASA   85 (92)
T ss_dssp             CCCCCCSSSCEEEEEEEETTCCCCSSCSHHHHTTTCSCHHHHHHHHHHHT-TTTTTSEEEEEEEEETTEEECCBCSCCCC
T ss_pred             CCCCCCCCeEEEEEEEEecCcccCCCCccccccccCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEeCCeeEEEEcCCHHH
Confidence            89999999999999999999999999999999999999999999999999 99999999999999999999999999999


Q ss_pred             HHHHHhC
Q 031086           81 LVIKALK   87 (166)
Q Consensus        81 llkka~g   87 (166)
                      ||+|++|
T Consensus        86 Ll~k~~~   92 (92)
T 1wib_A           86 LSGPSSG   92 (92)
T ss_dssp             CCCCSCC
T ss_pred             HHHHhcC
Confidence            9999876

>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=99.98  E-value=4.2e-33  Score=195.12  Aligned_cols=69  Identities=19%  Similarity=0.298  Sum_probs=66.9

Q ss_pred             CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eC
Q 031086            7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VP   76 (166)
Q Consensus         7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~P   76 (166)
                      +++.++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|+|++|||+|||| ||||+|++ +|
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 KKVVAVVKLQLPAGKATPAPPVGPALGQHGANIMEFVKAFNAAT-ANMGDAIVPVEITIYADRSFTFVTKTP   72 (72)
T ss_dssp             CCEEEEEEEEEETTCCCSSTTHHHHHHTTTCCHHHHHHHHHHHH-GGGCSCEEEEEEEEETTSCEEEEECCC
T ss_pred             cceEEEEEEEEecCccCCCCCccchhcccCCCHHHHHHHHHHHH-hhcCCCeEeEEEEEeCCCeEEEEEcCC
Confidence            47889999999999999999999999999999999999999999 999999999999999 99999999 76

>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=99.97  E-value=6.2e-32  Score=190.94  Aligned_cols=75  Identities=27%  Similarity=0.317  Sum_probs=71.0

Q ss_pred             eEEEE-eCCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086           70 AKVAV-VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG  146 (166)
Q Consensus        70 f~~~v-~Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~  146 (166)
                      |+|++ +||+||||+||||+++|+++|++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||+|++
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 FTFITKTPPAAVLLKKAAGIESGSGEPNR--NKVATIKRDKVREIAELKMPDLNAASIEAAMRMIEGTARSMGIVVEN   76 (76)
T ss_dssp             -CCCCCCCCHHHHHHHHHTCSCCCSSTTT--CCCEEECHHHHHHHHHHSGGGCCCSSHHHHHHHHHHHHHHHTEEEC-
T ss_pred             CEEEEcCCCHHHHHHHHhCCCCCCCCCCC--cEeeeecHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCeeEeeC
Confidence            78999 99999999999999999999877  69999999999999999999999999999999999999999999985

>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=99.94  E-value=3.8e-28  Score=167.79  Aligned_cols=66  Identities=29%  Similarity=0.342  Sum_probs=63.9

Q ss_pred             eCCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceee
Q 031086           75 VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGC  142 (166)
Q Consensus        75 ~Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi  142 (166)
                      +||+||||+||||+++|+++|++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||
T Consensus         2 tPpas~Ll~kaagi~kgs~~p~~--~~vG~it~~qv~eIA~~K~~dl~a~~l~~a~k~I~GTArSmGi   67 (67)
T 1qa6_A            2 TPPAAVLLKKAAGIESGSGEPNR--NKVATIKRDKVREIAELKMPDLNAASIEAAMRMIEGTARSMGI   67 (67)
T ss_dssp             CSCHHHHHHHHHTCSCCCCTTSS--CCCCCCTTTHHHHHHHHHGGGCCCSSHHHHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHhCCCCCCCCCCC--cccceecHHHHHHHHHHHHHhhcccCHHHHHHHHHHHHHhcCC
Confidence            69999999999999999998877  6999999999999999999999999999999999999999997

---

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	166
d1wiba_	92	d.47.1.1 (A:) 60S ribosomal protein L12 {Mouse (Mu	2e-27
d1vqoi1	70	a.4.7.1 (I:71-140) Ribosomal protein L11, C-termin	7e-19
d1hc8a_	74	a.4.7.1 (A:) Ribosomal protein L11, C-terminal dom	9e-09
d2gycg1	68	a.4.7.1 (G:73-140) Ribosomal protein L11, C-termin	4e-07
d3cjrb1	67	a.4.7.1 (B:71-137) Ribosomal protein L11, C-termin	2e-06
d1mmsa1	70	a.4.7.1 (A:71-140) Ribosomal protein L11, C-termin	4e-06

>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 = 96.4 bits (240), Expect = 2e-27
 Identities = 61/85 (71%), Positives = 73/85 (85%), Gaps = 1/85 (1%)

Query: 1  MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVT 60
           PPKFDP++V  VY+R TGGEVGA S+LAPKIGPLGLSPKK+G+DIAK T  DWKGLR+T
Sbjct: 7  GPPKFDPNEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKAT-GDWKGLRIT 65

Query: 61 VKLTVQNRQAKVAVVPSAAALVIKA 85
          VKLT+QNRQA++ VVPSA+AL   +
Sbjct: 66 VKLTIQNRQAQIEVVPSASALSGPS 90

>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 = 73.8 bits (182), Expect = 7e-19
 Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 2/71 (2%)

Query: 75  VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEIL 134
           VP  A L+                     ++++D V +IA+   P  ++ DL+   KE++
Sbjct: 2   VPPTAELIKDEAGFE--TGSGEPQEDFVADLSVDQVKQIAEQKHPDLLSYDLTNAAKEVV 59

Query: 135 GTCVSVGCTVD 145
           GTC S+G T++
Sbjct: 60  GTCTSLGVTIE 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 = 47.6 bits (114), Expect = 9e-09
 Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 2/70 (2%)

Query: 76  PSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILG 135
           P AA L+ KA        +  +N      I  D V EIA++  P   A  +   ++ I G
Sbjct: 7   PPAAVLLKKAAGIESGSGEPNRNK--VATIKRDKVREIAELKMPDLNAASIEAAMRMIEG 64

Query: 136 TCVSVGCTVD 145
           T  S+G  V+
Sbjct: 65  TARSMGIVVE 74

>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 = 43.0 bits (102), Expect = 4e-07
 Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 6/72 (8%)

Query: 76  PSAAALVIKA--LKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEI 133
           P AA L+ KA  +K       K K     G I+   + EIA+         D+    + I
Sbjct: 1   PPAAVLLKKAAGIKSGSGKPNKDKV----GKISRAQLQEIAQTKAADMTGADIEAMTRSI 56

Query: 134 LGTCVSVGCTVD 145
            GT  S+G  V+
Sbjct: 57  EGTARSMGLVVE 68

>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 = 41.1 bits (97), Expect = 2e-06
 Identities = 21/66 (31%), Positives = 30/66 (45%), Gaps = 2/66 (3%)

Query: 76  PSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILG 135
           P A+ L+ KA    +   K  +     G IT + V+EIAK   P     DL    + I G
Sbjct: 2   PPASYLIRKAAGLEKGAHKPGREK--VGRITWEQVLEIAKQKMPDLNTTDLEAAARMIAG 59

Query: 136 TCVSVG 141
           +  S+G
Sbjct: 60  SARSMG 65

>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 = 40.4 bits (95), Expect = 4e-06
 Identities = 22/69 (31%), Positives = 29/69 (42%), Gaps = 2/69 (2%)

Query: 76  PSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILG 135
           P A+ L+ KA    +         K  G +T   + EIAK   P   A  L   +K I G
Sbjct: 3   PPASFLLKKAAGIEKG--SSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEG 60

Query: 136 TCVSVGCTV 144
           T  S+G  V
Sbjct: 61  TAKSMGIEV 69

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	166
d1wiba_	92	60S ribosomal protein L12 {Mouse (Mus musculus) [T	100.0
d3cjsb1	70	Ribosomal protein L11, N-terminal domain {Thermus	100.0
d1mmsa2	63	Ribosomal protein L11, N-terminal domain {Thermoto	99.97
d2gycg2	71	Ribosomal protein L11, N-terminal domain {Escheric	99.97
d1hc8a_	74	Ribosomal protein L11, C-terminal domain {Bacillus	99.96
d1vqoi1	70	Ribosomal protein L11, C-terminal domain {Archaeon	99.95
d1xbpg1	72	Ribosomal protein L11, C-terminal domain {Deinococ	99.95
d1mmsa1	70	Ribosomal protein L11, C-terminal domain {Thermoto	99.95
d2gycg1	68	Ribosomal protein L11, C-terminal domain {Escheric	99.93
d3cjrb1	67	Ribosomal protein L11, C-terminal domain {Thermus	99.93

>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=100.00  E-value=5.1e-38  Score=227.30  Aligned_cols=85  Identities=72%  Similarity=1.117  Sum_probs=83.5

Q ss_pred             CCCCCCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEecCceEEEEeCCHHHH
Q 031086            2 PPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAAL   81 (166)
Q Consensus         2 ~~k~~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~drsf~~~v~Ppts~l   81 (166)
                      |||+|++++++|+|+|+||+|+|+|||||+|||+|||+|+||++||++| ++|+|++|||+|||+||+|+|+++||+|+|
T Consensus         8 ppK~dp~~v~~Ikl~v~gG~A~p~PplgP~LGp~Gini~~f~k~fN~~T-~~~kG~~VpV~itV~dRsf~i~V~PpaS~L   86 (92)
T d1wiba_           8 PPKFDPNEVKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGDDIAKAT-GDWKGLRITVKLTIQNRQAQIEVVPSASAL   86 (92)
T ss_dssp             CCCCCSSSCEEEEEEEETTCCCCSSCSHHHHTTTCSCHHHHHHHHHHHT-TTTTTSEEEEEEEEETTEEECCBCSCCCCC
T ss_pred             CCCCCCCceEEEEEEEecCccCCCCCccccccccCCCHHHHHHHHHHhh-hhccCCeEeEEEEEeCceEEEEEcCCHHHH
Confidence            7899999999999999999999999999999999999999999999999 999999999999999999999999999999


Q ss_pred             HHHHhC
Q 031086           82 VIKALK   87 (166)
Q Consensus        82 lkka~g   87 (166)
                      |++|+|
T Consensus        87 ~~~aaG   92 (92)
T d1wiba_          87 SGPSSG   92 (92)
T ss_dssp             CCCSCC
T ss_pred             HHHhcC
Confidence            999987

>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=1.1e-33  Score=195.20  Aligned_cols=68  Identities=18%  Similarity=0.250  Sum_probs=65.8

Q ss_pred             CCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE
Q 031086            6 DPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV   74 (166)
Q Consensus         6 ~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v   74 (166)
                      |+++.++|||+|+||+|+|+|||||+|||+|||+|+||++||++| +++.|.+|||+|+|| ||||+|++
T Consensus         1 mKkv~~~ikl~v~aG~A~P~PPvGpaLG~~GiNi~~Fck~fN~~T-~~~~g~~vpv~Itv~~Drsf~f~i   69 (70)
T d3cjsb1           1 MKKVVAVVKLQLPAGKATPAPPVGPALGQHGANIMEFVKAFNAAT-ANMGDAIVPVEITIYADRSFTFVT   69 (70)
T ss_dssp             CCCEEEEEEEEEETTCCCSSTTHHHHHHTTTCCHHHHHHHHHHHH-GGGCSCEEEEEEEEETTSCEEEEE
T ss_pred             CcceeeEEEEEeecCCCCCCCCCcchhhhcCcCHHHHHHHHHHHH-HhcCCCceeeEEEEeCCCcEEEEe
Confidence            478899999999999999999999999999999999999999999 999999999999999 99999986

>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=99.97  E-value=5.1e-33  Score=188.32  Aligned_cols=61  Identities=20%  Similarity=0.383  Sum_probs=59.6

Q ss_pred             EEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE
Q 031086           13 VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV   74 (166)
Q Consensus        13 ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v   74 (166)
                      |||+|+||+|+|+|||||+|||+|||+|+|||+||++| +++.|++|||+|+|| ||||+|++
T Consensus         2 ikl~v~aG~A~p~PPvGpaLG~~GiNi~~F~k~fN~~T-k~~~g~~vpV~I~v~~DrsF~f~i   63 (63)
T d1mmsa2           2 IKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAET-ADKAGMILPVVITVYEDKSFTFII   63 (63)
T ss_dssp             EEEEEETTCCCCTTTTTHHHHTTTCCHHHHHHHHHHHT-TTSCSSEEEEEEEECTTSCEEEEE
T ss_pred             eEEEEecCCCCCCCCCcchhhhcCcCHHHHHHHHHHHh-cccCCCeEeEEEEEeCCCcEEEeC
Confidence            79999999999999999999999999999999999999 899999999999999 99999985

>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=99.97  E-value=5.6e-34  Score=197.17  Aligned_cols=67  Identities=21%  Similarity=0.334  Sum_probs=63.7

Q ss_pred             CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhccc-CCceeEEEEEEe-cCceEEEE
Q 031086            7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDW-KGLRVTVKLTVQ-NRQAKVAV   74 (166)
Q Consensus         7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~-~g~~vpV~Itv~-drsf~~~v   74 (166)
                      |++.++|||+|+||+|+|+|||||+|||+|||||+||++||++| +++ .|++|||+|+|| ||||+|++
T Consensus         1 Kkv~~~ikl~i~aG~A~PaPPvGpaLG~~GiNi~~F~k~fN~~T-~~~~~G~~vpV~Itv~~Drsf~f~i   69 (71)
T d2gycg2           1 KKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKT-DSIEKGLPIPVVITVYADRSFTFVT   69 (71)
T ss_dssp             CCCCCCCCCCBCTTCCCSSSSTTTTTTSSSCCSSSSSTTTTTTS-CSSCTTCCBCCBCCCCSSSCCCCBC
T ss_pred             CceeEEEEEEEecCCCCCCCCCcchhhhcCcCHHHHHHHHHHHh-hccCCCCEEEEEEEEeCCCeEEEEE
Confidence            46788999999999999999999999999999999999999999 886 699999999999 99999986

>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=99.96  E-value=2.9e-30  Score=179.85  Aligned_cols=73  Identities=27%  Similarity=0.334  Sum_probs=69.8

Q ss_pred             EEEE-eCCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEec
Q 031086           71 KVAV-VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD  145 (166)
Q Consensus        71 ~~~v-~Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~  145 (166)
                      +|++ +||+||||+|++|+.+|+..|++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||+|+
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 TFITKTPPAAVLLKKAAGIESGSGEPNR--NKVATIKRDKVREIAELKMPDLNAASIEAAMRMIEGTARSMGIVVE   74 (74)
T ss_dssp             CCCCCCCCHHHHHHHHHTCSCCCSSTTT--CCCEEECHHHHHHHHHHSGGGCCCSSHHHHHHHHHHHHHHHTEEEC
T ss_pred             CccccCCCHHHHHHHHHCCCcCcCCCCC--eeeeEEcHHHHHHHHHHHHhhcCCCCHHHHHHHHHhhHhhceEEeC
Confidence            3677 99999999999999999999988  7999999999999999999999999999999999999999999986

>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=99.95  E-value=2.3e-29  Score=173.62  Aligned_cols=69  Identities=28%  Similarity=0.502  Sum_probs=66.8

Q ss_pred             eCCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEec
Q 031086           75 VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD  145 (166)
Q Consensus        75 ~Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~  145 (166)
                      +||+||||+|++|+.+|+..+++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||+|+
T Consensus         2 tPp~s~ll~ka~gi~kGs~~p~~--~~vg~it~~~i~eIAk~K~~dl~~~~l~~~~k~V~GTa~SmGi~Ve   70 (70)
T d1vqoi1           2 VPPTAELIKDEAGFETGSGEPQE--DFVADLSVDQVKQIAEQKHPDLLSYDLTNAAKEVVGTCTSLGVTIE   70 (70)
T ss_dssp             CCCHHHHHHHHTCCSSCCSSTTT--SCCEEECHHHHHHHHHHCTTTCCCSSHHHHHHHHTTTSTTTTEEEC
T ss_pred             CCCHHHHHHHHHCCCCCCCCCCC--eeeeeeCHHHHHHHHHHHHHhcCCCCHHHHHHHHHhhhhcceEEeC
Confidence            69999999999999999999988  6999999999999999999999999999999999999999999986

>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=99.95  E-value=2.1e-29  Score=174.68  Aligned_cols=71  Identities=30%  Similarity=0.403  Sum_probs=68.4

Q ss_pred             CCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCC
Q 031086           76 PSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKD  148 (166)
Q Consensus        76 Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~  148 (166)
                      ||+||||+|++|+.+|+..+++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||+|+|++
T Consensus         1 Pp~s~ll~kaagi~kGs~~p~~--~~vG~it~~~i~eIAk~K~~dl~~~~l~~~~k~V~GTa~SmGi~Veg~p   71 (72)
T d1xbpg1           1 PPMSYLIRKAAGIGKGSSTPNK--AKVGKLNWDQVLEIAKTKMPDLNAGSVEAAANTVAGTARSMGVTVEGGP   71 (72)
T ss_pred             CCHHHHHHHHHCcCcCCCCCCC--chhcccCHHHHHHHHHHHHHhcCCCCHHHHHHHHHhhheeceEEEecCC
Confidence            9999999999999999988887  7999999999999999999999999999999999999999999999965

>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=99.95  E-value=3.7e-29  Score=172.57  Aligned_cols=69  Identities=32%  Similarity=0.346  Sum_probs=66.8

Q ss_pred             eCCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEec
Q 031086           75 VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD  145 (166)
Q Consensus        75 ~Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~  145 (166)
                      +||+||||+|++|+.+|+..|++  +.+|+||++||||||+.|++||++.+|+++||+|+||||||||+|+
T Consensus         2 tPP~s~likkaagi~kGs~~p~~--~~vg~it~~qv~eIAk~K~~dl~~~~l~~a~k~v~GtArSMGI~VV   70 (70)
T d1mmsa1           2 TPPASFLLKKAAGIEKGSSEPKR--KIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAKSMGIEVV   70 (70)
T ss_dssp             CCCHHHHHHHHHTCSSCCSSTTT--SCCEEECHHHHHHHHHHHGGGCCCSSHHHHHHHHHHHHTTTTEEEC
T ss_pred             CCCHHHHHHHHHCCCcCCCCCCC--cccCeEcHHHHHHHHHHHhcccCCCCHHHHHHHHHHhHhhCeeEeC
Confidence            79999999999999999999988  7899999999999999999999999999999999999999999985

>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=99.93  E-value=8.3e-29  Score=169.95  Aligned_cols=68  Identities=29%  Similarity=0.362  Sum_probs=65.9

Q ss_pred             CCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEec
Q 031086           76 PSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD  145 (166)
Q Consensus        76 Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~  145 (166)
                      ||+||||+|++|+.+|+..|++  +++|+||++||||||+.|++||++.+|+++||+|+||||||||+|+
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 PPAAVLLKKAAGIKSGSGKPNK--DKVGKISRAQLQEIAQTKAADMTGADIEAMTRSIEGTARSMGLVVE   68 (68)
T ss_dssp             CCSSTTTGGGSCSSSCCSSTTS--SCCCCCCSHHHHSTTTTTTTTCCCSSSHHHHTTTTTSSCSSSCCCC
T ss_pred             CCHHHHHHHHHCCCcCCCCCCC--cEeeeecHHHHHHHHHHHhcccCCCCHHHHHHHHHhhHhcceEEeC
Confidence            9999999999999999998988  7999999999999999999999999999999999999999999985

>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=99.93  E-value=1.5e-28  Score=168.17  Aligned_cols=67  Identities=31%  Similarity=0.417  Sum_probs=47.0

Q ss_pred             eCCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeE
Q 031086           75 VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCT  143 (166)
Q Consensus        75 ~Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~  143 (166)
                      |||+||||+|+||+.+|+.+|++  +++|+||++||||||++|++||++.+|+++||+|+||||||||+
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 TPPASYLIRKAAGLEKGAHKPGR--EKVGRITWEQVLEIAKQKMPDLNTTDLEAAARMIAGSARSMGVE   67 (67)
T ss_dssp             CCCHHHHHC---------------------CCCSGGGTHHHHSTTTSCCSCSSTTHHHHHHHHHTTTCC
T ss_pred             CCcHHHHHHHHHCCCcCCCCCCC--cccceecHHHHHHHHHHHhhcccCCCHHHHHHHHHHHhhhcccC
Confidence            79999999999999999999988  79999999999999999999999999999999999999999985