Citrus Sinensis ID: 029153

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------20
Protein Sequence
MAASSSTAATLSWSSSSFFQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccEEEEEEcccccccEEEEEEcccccccccccEEEccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEEccccccEEEcccHHHHHHHHHHHccccccccccccccccccEEEEEEEEEcccEEEEEEEEEEEc
Secondary Structure Prediction (SSPRO)
ccccccHcccccccccccccccccccccccccccccccEEEEEHHHHHHHHHHHHHHHHHHHcccccEEEEccccHHHEccccccEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEccccccEEEEccHHHHHHHHHHHccccccccEEEcccHcHcccEEEEEEEcccEEEEEEEEEEcc
Coil and Loop (DISEMBL)
maassstaatlswssssffqtfgntvnesvklpdKRSALLVLAQKKAKKTRKIILKEDVAelgkkgqlldvkAGFYrnylhpmgkaqivTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFkvkrkggkgkqifGSVTAQDVVDIIKAQLQRDvdkkivdlpeireTGEYIAQLKLHPEVTARIRLNVFAN
Flexible Loop (DISEMBL)
maassstaatlswssssFFQTFGNTVNESVKLPDKRSALLVLAQkkakktrkiilkedvaelgkkgqllDVKAGFYrnylhpmgkaqivtpLLLKEMKMEEERIEAEKKRVKEEAQQLALIFEtvgafkvkrkggkgkqifgsvtaqDVVDIIKaqlqrdvdkkivdlpeiretgeyiaqlklhpevtaRIRLNVFAN
Low Complexity Region (SEG)
MaassstaatlswssssFFQTFGNTVNESVKLPDKRSallvlaqkkakktrkiilkEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLkemkmeeerieaekkrvkeeaQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN
Disordered region (IsUnstruct)
*****************FFQTFGNTVNE*VKL***RSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLK*********************QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVF**
Disordered Region (DISOPRED)
**********LSWSSSSFF*******************LLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLK**********************LALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN
Disordered Region (DISEMBL)
***********SWSSSSFFQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN
Disordered Region (DISPRO)
**********************************KRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAASSSTAATLSWSSSSFFQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLxxxxxxxxxxxxxxxxxxxxxxxxxxxxFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN
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	198	2.2.26 [Sep-21-2011]
P25864	197	50S ribosomal protein L9,	yes	no	0.984	0.989	0.719	7e-73
Q8L803	191	50S ribosomal protein L9,	N/A	no	0.939	0.973	0.607	2e-64
P11894	194	50S ribosomal protein L9,	N/A	no	0.904	0.922	0.731	1e-60
Q6JJ61	199	50S ribosomal protein L9,	N/A	no	0.858	0.854	0.788	6e-57
B7KAD1	152	50S ribosomal protein L9	yes	no	0.712	0.927	0.421	3e-28
B1XN09	152	50S ribosomal protein L9	yes	no	0.707	0.921	0.433	3e-27
B7JUZ9	152	50S ribosomal protein L9	yes	no	0.712	0.927	0.408	1e-25
Q7UZJ1	151	50S ribosomal protein L9	yes	no	0.717	0.940	0.404	4e-25
A2BTQ4	151	50S ribosomal protein L9	yes	no	0.717	0.940	0.404	5e-25
Q317W9	151	50S ribosomal protein L9	yes	no	0.717	0.940	0.397	5e-25

>sp|P25864|RK9_ARATH 50S ribosomal protein L9, chloroplastic OS=Arabidopsis thaliana GN=RPL9 PE=1 SV=1

 Score =  273 bits (697), Expect = 7e-73,   Method: Compositional matrix adjust.
 Identities = 141/196 (71%), Positives = 176/196 (89%), Gaps = 1/196 (0%)

Query: 4   SSSTAATLSWSSSSFF-QTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAEL 62
           +SSTA +LSWSSS  +  +F    NE++K+ ++R    V++QKKAKK RK+ILKEDV +L
Sbjct: 2   ASSTALSLSWSSSPCWSHSFNGGANETLKVSERRFNFEVVSQKKAKKLRKVILKEDVTDL 61

Query: 63  GKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIF 122
           GK+GQLLDVKAGF+RN+L P GKAQ++TPLLLKE+KME+ERIEAEK+RVKEEAQQLA++F
Sbjct: 62  GKQGQLLDVKAGFFRNFLLPTGKAQLMTPLLLKELKMEDERIEAEKQRVKEEAQQLAMVF 121

Query: 123 ETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLK 182
           +TVGAFKVKRKGGKGK IFGSVTAQD+VDIIK+QLQ+D+DK++V LPEIRETGEYIA+LK
Sbjct: 122 QTVGAFKVKRKGGKGKLIFGSVTAQDLVDIIKSQLQKDIDKRLVSLPEIRETGEYIAELK 181

Query: 183 LHPEVTARIRLNVFAN 198
           LHP+VTAR+++NVFAN
Sbjct: 182 LHPDVTARVKINVFAN 197

Binds to the 23S rRNA.
Arabidopsis thaliana (taxid: 3702)

>sp|Q8L803|RK9_WHEAT 50S ribosomal protein L9, chloroplastic OS=Triticum aestivum GN=RPL9 PE=2 SV=1

 Score =  245 bits (625), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 119/196 (60%), Positives = 162/196 (82%), Gaps = 10/196 (5%)

Query: 3   ASSSTAATLSWSSSSFFQTFGNTVNESVKLPDKRS-ALLVLAQKKAKKTRKIILKEDVAE 61
           AS S A+TL W++++F        +   +L  +R+ +L+++AQ + KK R++ILK+D+ E
Sbjct: 2   ASPSCASTLPWTAAAF--------SYPRRLQTRRAPSLVIVAQGRVKKYRQVILKDDIDE 53

Query: 62  L-GKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLAL 120
           + GKKG  + V+AGFYRN+L P GKA ++TP +LKEM++E+ERIEAEKKRVKEEAQQLA 
Sbjct: 54  ISGKKGDTMKVRAGFYRNFLLPKGKATLLTPDVLKEMQLEQERIEAEKKRVKEEAQQLAR 113

Query: 121 IFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQ 180
           +FET+GAFKV RKGGKGKQIFGSVTAQD+VDIIK+QL RDVDK++V++PEIRE GEY+A+
Sbjct: 114 VFETIGAFKVPRKGGKGKQIFGSVTAQDLVDIIKSQLNRDVDKRLVEVPEIREVGEYVAE 173

Query: 181 LKLHPEVTARIRLNVF 196
           +KLHP+VTA++RL V+
Sbjct: 174 IKLHPDVTAKVRLTVY 189

Binds to the 23S rRNA.

Triticum aestivum (taxid: 4565)

>sp|P11894|RK9_PEA 50S ribosomal protein L9, chloroplastic OS=Pisum sativum GN=RPL9 PE=2 SV=2

 Score =  232 bits (592), Expect = 1e-60,   Method: Compositional matrix adjust.
 Identities = 131/179 (73%), Positives = 155/179 (86%)

Query: 20  QTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNY 79
            +F   +    + P+K S  +V AQKK KKTRKIILKED+  +GKKG+LLDV+ GF+RN+
Sbjct: 16  HSFAANLKTCSQFPNKSSGFMVFAQKKTKKTRKIILKEDIVNVGKKGELLDVRVGFFRNF 75

Query: 80  LHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQ 139
           L P GKAQ+VTP +LKEMK+EEERIEAEK+RV EEAQQLAL FET GAFKVKRKGGKGKQ
Sbjct: 76  LFPSGKAQLVTPGVLKEMKIEEERIEAEKRRVLEEAQQLALFFETFGAFKVKRKGGKGKQ 135

Query: 140 IFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN 198
           IFGSVTAQD+VDIIKAQLQR+VDK+IV+LPEIRETGEYIA+LKLHP+VTA++R+NV AN
Sbjct: 136 IFGSVTAQDLVDIIKAQLQREVDKRIVNLPEIRETGEYIAELKLHPDVTAKVRVNVIAN 194

Binds to the 23S rRNA.

Pisum sativum (taxid: 3888)

>sp|Q6JJ61|RK9_IPOTF 50S ribosomal protein L9, chloroplastic OS=Ipomoea trifida GN=RPL9 PE=3 SV=1

 Score =  220 bits (560), Expect = 6e-57,   Method: Compositional matrix adjust.
 Identities = 134/170 (78%), Positives = 151/170 (88%)

Query: 29  SVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQI 88
           + KL ++ S   ++ QKK KK RKIILKEDV ELGKKGQL++V+AG+YRNYL PMG AQI
Sbjct: 30  TAKLVERTSNFTIVCQKKTKKIRKIILKEDVQELGKKGQLMNVRAGYYRNYLLPMGMAQI 89

Query: 89  VTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQD 148
           VTP LLKEMK+EEERIEAEKKRVKEEAQQLALIFETVG FKVKRKGGKGKQIFGSVTAQD
Sbjct: 90  VTPQLLKEMKIEEERIEAEKKRVKEEAQQLALIFETVGGFKVKRKGGKGKQIFGSVTAQD 149

Query: 149 VVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN 198
           +VDIIKAQLQR+VDK+IV LPEIRETG Y A+LKLHPEVTAR+++ V AN
Sbjct: 150 LVDIIKAQLQREVDKRIVSLPEIRETGAYTAELKLHPEVTARVQVIVSAN 199

Binds to the 23S rRNA.

Ipomoea trifida (taxid: 35884)

>sp|B7KAD1|RL9_CYAP7 50S ribosomal protein L9 OS=Cyanothece sp. (strain PCC 7424) GN=rplI PE=3 SV=1

 Score =  124 bits (312), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 62/147 (42%), Positives = 102/147 (69%), Gaps = 6/147 (4%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           +++L ++V +LGK G L++V  G+ RNYL P G A I TP +L+++   E+R E E++R+
Sbjct: 6   QVVLTKNVNKLGKSGDLVEVAPGYARNYLLPQGIANIATPGILRQV---EQRREKERQRL 62

Query: 112 ---KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDL 168
              ++EA+      +T+G F ++++ G+G+ IFG+VT Q+V D+IK    +++D++ + L
Sbjct: 63  LAERQEAEARKTALQTIGRFVIRKQVGEGEAIFGTVTTQEVADVIKENTSQEIDRRGITL 122

Query: 169 PEIRETGEYIAQLKLHPEVTARIRLNV 195
           PEI +TG Y AQ+KLHPEVTA I + V
Sbjct: 123 PEISKTGFYKAQVKLHPEVTAEIEIQV 149

Binds to the 23S rRNA.

Cyanothece sp. (strain PCC 7424) (taxid: 65393)

>sp|B1XN09|RL9_SYNP2 50S ribosomal protein L9 OS=Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) GN=rplI PE=3 SV=1

 Score =  121 bits (304), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 65/150 (43%), Positives = 102/150 (68%), Gaps = 10/150 (6%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           +++L +DV +LG  G L++V  G+ RNYL P G A + TP +L+++   E+R E E++R+
Sbjct: 6   QVVLNQDVRKLGNNGDLVEVAPGYARNYLLPQGIASLATPGILRQV---EQRREKERQRL 62

Query: 112 -----KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIV 166
                  EA+++AL  +TVG   ++++ G+  QIFG+VT QDV D IK +  +DVD++ +
Sbjct: 63  LAELQDAEARKVAL--KTVGKLIIRKQVGEENQIFGTVTTQDVADAIKERAGQDVDRRGI 120

Query: 167 DLPEIRETGEYIAQLKLHPEVTARIRLNVF 196
            LPEI +TG Y AQ+KLHPEVTA ++ +V 
Sbjct: 121 TLPEIGKTGSYEAQVKLHPEVTATVQFDVI 150

Binds to the 23S rRNA.

Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (taxid: 32049)

>sp|B7JUZ9|RL9_CYAP8 50S ribosomal protein L9 OS=Cyanothece sp. (strain PCC 8801) GN=rplI PE=3 SV=1

 Score =  116 bits (290), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 60/147 (40%), Positives = 97/147 (65%), Gaps = 6/147 (4%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           +I+L + + +LG+ G L++V  G+ RNYL P G   I TP +L+++   E+R E E +R+
Sbjct: 6   QIVLNKTINKLGQTGDLVEVAPGYARNYLIPQGMGVIATPGILRQV---EQRKEKEMQRL 62

Query: 112 ---KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDL 168
              K+ A+   +   T+G F ++++ G+G+ IFG+VT Q+V D I+A   ++VD++ + L
Sbjct: 63  LAEKQAAEARKVALSTIGRFTIRKQVGEGEAIFGTVTTQEVADAIQAATNQEVDRRGITL 122

Query: 169 PEIRETGEYIAQLKLHPEVTARIRLNV 195
           PEI +TG Y A +KLHPEVTA I + V
Sbjct: 123 PEISQTGFYKATVKLHPEVTAEIEIQV 149

Binds to the 23S rRNA.

Cyanothece sp. (strain PCC 8801) (taxid: 41431)

>sp|Q7UZJ1|RL9_PROMP 50S ribosomal protein L9 OS=Prochlorococcus marinus subsp. pastoris (strain CCMP1986 / MED4) GN=rplI PE=3 SV=1

 Score =  114 bits (285), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 59/146 (40%), Positives = 95/146 (65%), Gaps = 4/146 (2%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLK--EMKMEEERIEAEKK 109
           K++L E VA LG+ G +++V  G+ RN+L P GKA  VTP +LK  E K  +E+I AEK 
Sbjct: 6   KVVLTESVATLGRDGDVVEVAPGYARNFLLPFGKAANVTPSILKQIERKRAKEKIAAEK- 64

Query: 110 RVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLP 169
            VK+EA        T+G F +K++ G+   +FG+VT  DV + I+A  ++D+D++ + +P
Sbjct: 65  -VKQEAIDFKTALATIGRFTIKKQVGEDGVLFGTVTNGDVAEAIEAATKKDIDRRDITVP 123

Query: 170 EIRETGEYIAQLKLHPEVTARIRLNV 195
           +I   G ++A++KLH EV+A + + V
Sbjct: 124 DIHNLGSFVAKIKLHQEVSAEVNIEV 149

Binds to the 23S rRNA.

Prochlorococcus marinus subsp. pastoris (strain CCMP1986 / MED4) (taxid: 59919)

>sp|A2BTQ4|RL9_PROMS 50S ribosomal protein L9 OS=Prochlorococcus marinus (strain AS9601) GN=rplI PE=3 SV=1

 Score =  114 bits (285), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 59/146 (40%), Positives = 94/146 (64%), Gaps = 4/146 (2%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLK--EMKMEEERIEAEKK 109
           ++ L E +A LGK+G L+DV  G+ RN+L P GKA  VTP +LK  E K E+E+I A K 
Sbjct: 6   QVALTESIASLGKEGDLVDVAPGYARNFLLPYGKAMNVTPAVLKQIERKKEKEKIAAGK- 64

Query: 110 RVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLP 169
            +K+EA        T+G F +K++ G+   +FG+VT  DV + I+A  ++++D++ + +P
Sbjct: 65  -LKQEALDFQTALSTIGRFTIKKQVGEDGVLFGTVTNGDVAEAIEAATKKEIDRRNITVP 123

Query: 170 EIRETGEYIAQLKLHPEVTARIRLNV 195
           +I   G + A++KLHPEV A + + V
Sbjct: 124 DIHNLGAFTAKIKLHPEVNAEVNIEV 149

Binds to the 23S rRNA.

Prochlorococcus marinus (strain AS9601) (taxid: 146891)

>sp|Q317W9|RL9_PROM9 50S ribosomal protein L9 OS=Prochlorococcus marinus (strain MIT 9312) GN=rplI2 PE=3 SV=1

 Score =  114 bits (284), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 58/146 (39%), Positives = 95/146 (65%), Gaps = 4/146 (2%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLK--EMKMEEERIEAEKK 109
           K+ L E +A LGK+G L++V  G+ RN+L P GKA  VTP +LK  E K E+E+I A+K 
Sbjct: 6   KVALTESIASLGKEGDLVEVAPGYARNFLLPYGKAMNVTPAVLKQIERKKEKEKIAADK- 64

Query: 110 RVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLP 169
            +K+EA        T+G F +K++ G+   +FG+VT  DV + I+A  ++++D++ + +P
Sbjct: 65  -LKQEALDFQTALSTIGRFTIKKQVGEDGVLFGTVTNGDVAEAIEAATKKEIDRRNITVP 123

Query: 170 EIRETGEYIAQLKLHPEVTARIRLNV 195
           +I   G + A++KLHP+V A + + V
Sbjct: 124 DIHNLGSFTAKIKLHPDVNAEVNIEV 149

Binds to the 23S rRNA.

Prochlorococcus marinus (strain MIT 9312) (taxid: 74546)

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	198
224118434	198	predicted protein [Populus trichocarpa]	1.0	1.0	0.787	1e-77
351724247	197	uncharacterized protein LOC100500390 [Gl	0.888	0.893	0.806	2e-76
225436446	195	PREDICTED: 50S ribosomal protein L9, chl	0.979	0.994	0.819	3e-74
297815636	197	hypothetical protein ARALYDRAFT_484888 [	0.984	0.989	0.75	4e-74
15230544	197	50S ribosomal protein L9 [Arabidopsis th	0.984	0.989	0.719	4e-71
255565479	210	50S ribosomal protein L9, putative [Rici	0.989	0.933	0.712	2e-69
351723405	198	uncharacterized protein LOC100500279 [Gl	0.858	0.858	0.841	2e-68
226509700	194	50S ribosomal protein L9 [Zea mays] gi|1	0.964	0.984	0.632	3e-66
449459082	198	PREDICTED: 50S ribosomal protein L9, chl	0.979	0.979	0.761	7e-66
242066884	194	hypothetical protein SORBIDRAFT_04g03638	0.964	0.984	0.627	1e-64

>gi|224118434|ref|XP_002331481.1| predicted protein [Populus trichocarpa] gi|118488503|gb|ABK96065.1| unknown [Populus trichocarpa] gi|222873559|gb|EEF10690.1| predicted protein [Populus trichocarpa]

 Score =  295 bits (754), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 156/198 (78%), Positives = 176/198 (88%)

Query: 1   MAASSSTAATLSWSSSSFFQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVA 60
           MA+  + A TLS +SSS+   F    NE  K PDKR  +LVLAQKKAKKTRKIILKEDV 
Sbjct: 1   MASPFTAATTLSCTSSSWLHGFVGPTNEISKFPDKRIPMLVLAQKKAKKTRKIILKEDVT 60

Query: 61  ELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLAL 120
           +LGKKGQL+DVKAGFYRN+L P GKAQIVTP L+KEM+MEEERIEAEKKRVKEEAQQLAL
Sbjct: 61  DLGKKGQLVDVKAGFYRNFLLPTGKAQIVTPGLVKEMRMEEERIEAEKKRVKEEAQQLAL 120

Query: 121 IFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQ 180
           IFETVGAFKVKRKGGKG+QIFG+VTAQD+VDIIKAQ+QRDVDK+IV LP+IRETGEYIA+
Sbjct: 121 IFETVGAFKVKRKGGKGRQIFGTVTAQDLVDIIKAQIQRDVDKRIVSLPDIRETGEYIAE 180

Query: 181 LKLHPEVTARIRLNVFAN 198
           LKLHPEVTA++RLNV+AN
Sbjct: 181 LKLHPEVTAQVRLNVYAN 198

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351724247|ref|NP_001237307.1| uncharacterized protein LOC100500390 [Glycine max] gi|255630210|gb|ACU15460.1| unknown [Glycine max]

 Score =  290 bits (742), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 142/176 (80%), Positives = 160/176 (90%)

Query: 23  GNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHP 82
           GN+     + P+K +   V AQKKAKK RKIILKEDV ++GK+GQLLDV+AGF+RNYL P
Sbjct: 22  GNSKAPITQFPNKSARFSVFAQKKAKKLRKIILKEDVTDVGKQGQLLDVRAGFFRNYLLP 81

Query: 83  MGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFG 142
           MGKAQ+VTP LLKEMK+EEERIEAEK+RVKEEAQQLALIFETVGAFKVKRKGGKG QIFG
Sbjct: 82  MGKAQLVTPQLLKEMKIEEERIEAEKRRVKEEAQQLALIFETVGAFKVKRKGGKGNQIFG 141

Query: 143 SVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN 198
           SVTAQD+VDIIKAQLQR+VDK+IVDLPEIRETGEYIA+LKLHPEVTAR+R+NVFAN
Sbjct: 142 SVTAQDLVDIIKAQLQREVDKRIVDLPEIRETGEYIAELKLHPEVTARVRVNVFAN 197

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225436446|ref|XP_002274311.1| PREDICTED: 50S ribosomal protein L9, chloroplastic [Vitis vinifera]

 Score =  283 bits (724), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 159/194 (81%), Positives = 175/194 (90%)

Query: 5   SSTAATLSWSSSSFFQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGK 64
           +STAA LSWSSS++ QT  N  N+  K  D R   +V+AQKKAKK RKIILKEDVAELGK
Sbjct: 2   ASTAAALSWSSSTWLQTSVNNFNQPRKFSDNRMVFVVVAQKKAKKLRKIILKEDVAELGK 61

Query: 65  KGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFET 124
           KGQLLDVKAG+YRNYL PMG AQIVTPLLLKEM+MEEERIEAEKKRVKEEAQQ+AL+FET
Sbjct: 62  KGQLLDVKAGYYRNYLQPMGMAQIVTPLLLKEMRMEEERIEAEKKRVKEEAQQMALMFET 121

Query: 125 VGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLH 184
           VGAFKVKRKGGKGKQIFGSVTAQD+ DIIKAQLQRDVDK+IV LPEIRETGEY+A+LKLH
Sbjct: 122 VGAFKVKRKGGKGKQIFGSVTAQDLTDIIKAQLQRDVDKRIVSLPEIRETGEYVAELKLH 181

Query: 185 PEVTARIRLNVFAN 198
           PEVTAR+RLNV+AN
Sbjct: 182 PEVTARVRLNVYAN 195

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297815636|ref|XP_002875701.1| hypothetical protein ARALYDRAFT_484888 [Arabidopsis lyrata subsp. lyrata] gi|297321539|gb|EFH51960.1| hypothetical protein ARALYDRAFT_484888 [Arabidopsis lyrata subsp. lyrata]

 Score =  283 bits (723), Expect = 4e-74,   Method: Compositional matrix adjust.
 Identities = 147/196 (75%), Positives = 178/196 (90%), Gaps = 1/196 (0%)

Query: 4   SSSTAATLSWSSSSFF-QTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAEL 62
           +SSTA +LSWSSS  +  +F +  NE++K+ ++R    V++QKKAKK RK+ILKEDV +L
Sbjct: 2   ASSTALSLSWSSSPCWSHSFNSGANETLKVSERRFKFEVVSQKKAKKLRKVILKEDVTDL 61

Query: 63  GKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIF 122
           GK+GQLLDVKAGF+RN+L P GKAQ++TPLLLKE+KME+ERIEAEK+RVKEEAQQLAL+F
Sbjct: 62  GKQGQLLDVKAGFFRNFLLPTGKAQLMTPLLLKELKMEDERIEAEKQRVKEEAQQLALVF 121

Query: 123 ETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLK 182
           ETVGAFKVKRKGGKGKQIFGSVTAQD+VDIIKAQLQRD+DK++V LPEIRETGEYIA+LK
Sbjct: 122 ETVGAFKVKRKGGKGKQIFGSVTAQDLVDIIKAQLQRDIDKRLVSLPEIRETGEYIAELK 181

Query: 183 LHPEVTARIRLNVFAN 198
           LHP+VTAR+R+NVFAN
Sbjct: 182 LHPDVTARVRINVFAN 197

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15230544|ref|NP_190075.1| 50S ribosomal protein L9 [Arabidopsis thaliana] gi|133028|sp|P25864.1|RK9_ARATH RecName: Full=50S ribosomal protein L9, chloroplastic; AltName: Full=CL9; Flags: Precursor gi|189096132|pdb|3BBO|J Chain J, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome gi|16499|emb|CAA77480.1| plastid ribosomal protein CL9 [Arabidopsis thaliana] gi|16501|emb|CAA77594.1| Chloroplast ribosomal protein CL9 [Arabidopsis thaliana] gi|9798392|emb|CAC03539.1| RP19 gene for chloroplast ribosomal protein CL9 [Arabidopsis thaliana] gi|24030284|gb|AAN41314.1| putative RP19 gene for chloroplast ribosomal protein CL9 [Arabidopsis thaliana] gi|332644444|gb|AEE77965.1| 50S ribosomal protein L9 [Arabidopsis thaliana]

 Score =  273 bits (697), Expect = 4e-71,   Method: Compositional matrix adjust.
 Identities = 141/196 (71%), Positives = 176/196 (89%), Gaps = 1/196 (0%)

Query: 4   SSSTAATLSWSSSSFF-QTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAEL 62
           +SSTA +LSWSSS  +  +F    NE++K+ ++R    V++QKKAKK RK+ILKEDV +L
Sbjct: 2   ASSTALSLSWSSSPCWSHSFNGGANETLKVSERRFNFEVVSQKKAKKLRKVILKEDVTDL 61

Query: 63  GKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIF 122
           GK+GQLLDVKAGF+RN+L P GKAQ++TPLLLKE+KME+ERIEAEK+RVKEEAQQLA++F
Sbjct: 62  GKQGQLLDVKAGFFRNFLLPTGKAQLMTPLLLKELKMEDERIEAEKQRVKEEAQQLAMVF 121

Query: 123 ETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLK 182
           +TVGAFKVKRKGGKGK IFGSVTAQD+VDIIK+QLQ+D+DK++V LPEIRETGEYIA+LK
Sbjct: 122 QTVGAFKVKRKGGKGKLIFGSVTAQDLVDIIKSQLQKDIDKRLVSLPEIRETGEYIAELK 181

Query: 183 LHPEVTARIRLNVFAN 198
           LHP+VTAR+++NVFAN
Sbjct: 182 LHPDVTARVKINVFAN 197

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255565479|ref|XP_002523730.1| 50S ribosomal protein L9, putative [Ricinus communis] gi|223537034|gb|EEF38670.1| 50S ribosomal protein L9, putative [Ricinus communis]

 Score =  266 bits (681), Expect = 2e-69,   Method: Compositional matrix adjust.
 Identities = 149/209 (71%), Positives = 163/209 (77%), Gaps = 13/209 (6%)

Query: 3   ASSSTAATLSWSSSSFFQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAEL 62
           AS STAAT+SWSSSS+   F    N+  KLPDKR  ++V AQKKAKKT+KIILKEDV++L
Sbjct: 2   ASPSTAATISWSSSSWLHNFVGPTNKISKLPDKRMTMVVWAQKKAKKTKKIILKEDVSDL 61

Query: 63  GKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIF 122
           GKKGQLLDVKAGFYRNYL PMGKAQIVTP LLKEMK+E+ERIEAEKKRVKEEAQQLALIF
Sbjct: 62  GKKGQLLDVKAGFYRNYLLPMGKAQIVTPTLLKEMKVEQERIEAEKKRVKEEAQQLALIF 121

Query: 123 ETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQL-------------QRDVDKKIVDLP 169
           ETVGAFKVKRKGGK KQIF          I                   RDVDK+IV LP
Sbjct: 122 ETVGAFKVKRKGGKNKQIFXXHRQAHCAHIFSFHACAYLVVWFPLFINARDVDKRIVSLP 181

Query: 170 EIRETGEYIAQLKLHPEVTARIRLNVFAN 198
           EIRETGEYIA+LKLHPEVTAR+R+NVFAN
Sbjct: 182 EIRETGEYIAELKLHPEVTARVRVNVFAN 210

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|351723405|ref|NP_001235742.1| uncharacterized protein LOC100500279 [Glycine max] gi|255629919|gb|ACU15311.1| unknown [Glycine max]

 Score =  263 bits (673), Expect = 2e-68,   Method: Compositional matrix adjust.
 Identities = 143/170 (84%), Positives = 157/170 (92%)

Query: 29  SVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQI 88
           + + P+K     V AQKKAKK RKIILKEDVA +GK+GQLLDVKAGF+RNYL PMGKAQ+
Sbjct: 29  TTQFPNKNVRFSVFAQKKAKKLRKIILKEDVAYVGKQGQLLDVKAGFFRNYLLPMGKAQL 88

Query: 89  VTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQD 148
           VT  LLKEMK+EEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQD
Sbjct: 89  VTLQLLKEMKIEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQD 148

Query: 149 VVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN 198
           +VDIIKAQLQR+VDK+IVDLPEIRETGEYIA+LKLHPEVTAR+R+NVFAN
Sbjct: 149 LVDIIKAQLQREVDKRIVDLPEIRETGEYIAELKLHPEVTARVRVNVFAN 198

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226509700|ref|NP_001151379.1| 50S ribosomal protein L9 [Zea mays] gi|194703124|gb|ACF85646.1| unknown [Zea mays] gi|195646304|gb|ACG42620.1| 50S ribosomal protein L9 [Zea mays] gi|413939365|gb|AFW73916.1| 50S ribosomal protein L9 isoform 1 [Zea mays] gi|413939366|gb|AFW73917.1| 50S ribosomal protein L9 isoform 2 [Zea mays]

 Score =  256 bits (655), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 124/196 (63%), Positives = 162/196 (82%), Gaps = 5/196 (2%)

Query: 3   ASSSTAATLSWSSSSFFQ-TFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAE 61
           AS S A+TL W+ +S+ + + G  +  S + P    +L+++AQ K KK R++IL +D+ E
Sbjct: 2   ASLSCASTLPWTPASYPRPSAGRCLTASRRAP----SLVIVAQGKVKKYRQVILTDDIEE 57

Query: 62  LGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALI 121
           +GKKG  L V+AGFYRN+L P GKA ++TP +LKEM++E+ERIEAEKKRVKE+AQQLA +
Sbjct: 58  VGKKGDTLKVRAGFYRNFLLPKGKATLLTPEVLKEMQLEQERIEAEKKRVKEDAQQLARV 117

Query: 122 FETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQL 181
           FET+GAFK+ RKGGKGKQIFGSVTAQDVVDIIK+QL RDVDKK+V +PEIRE GEY+A++
Sbjct: 118 FETIGAFKLPRKGGKGKQIFGSVTAQDVVDIIKSQLNRDVDKKLVTVPEIREIGEYVAEI 177

Query: 182 KLHPEVTARIRLNVFA 197
           KLHP+VTAR+RLNV+A
Sbjct: 178 KLHPDVTARVRLNVYA 193

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449459082|ref|XP_004147275.1| PREDICTED: 50S ribosomal protein L9, chloroplastic-like [Cucumis sativus]

 Score =  255 bits (652), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 150/197 (76%), Positives = 173/197 (87%), Gaps = 3/197 (1%)

Query: 5   SSTAATLSWSSSSFFQTFGN---TVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAE 61
           +S    LSWSSS       N    + E+ K    R+A++V+AQKKA K+RKIILKEDVA+
Sbjct: 2   ASITTALSWSSSLLDMGLPNVAGNIEETAKFSYGRTAMVVVAQKKASKSRKIILKEDVAD 61

Query: 62  LGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALI 121
           LGKKGQL+DVKAG+YRNYL PMGKAQIVTP+LLKEM++EEERIEAEKKRV EEAQQLALI
Sbjct: 62  LGKKGQLIDVKAGYYRNYLFPMGKAQIVTPVLLKEMRIEEERIEAEKKRVIEEAQQLALI 121

Query: 122 FETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQL 181
           F+TVGAFKVKRKGGKGKQIFG+VTAQD+VDIIKAQLQRD+DK+IVDLPEIRETGEY+A+L
Sbjct: 122 FQTVGAFKVKRKGGKGKQIFGTVTAQDLVDIIKAQLQRDIDKRIVDLPEIRETGEYVAEL 181

Query: 182 KLHPEVTARIRLNVFAN 198
           KLHPEVTAR+R+NVFAN
Sbjct: 182 KLHPEVTARVRVNVFAN 198

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242066884|ref|XP_002454731.1| hypothetical protein SORBIDRAFT_04g036380 [Sorghum bicolor] gi|241934562|gb|EES07707.1| hypothetical protein SORBIDRAFT_04g036380 [Sorghum bicolor]

 Score =  251 bits (641), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 123/196 (62%), Positives = 159/196 (81%), Gaps = 5/196 (2%)

Query: 3   ASSSTAATLSWSS-SSFFQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAE 61
           AS S A+TL W+S SS   +    +  S + P    +L+++AQ K KK R++IL +D+  
Sbjct: 2   ASPSCASTLPWTSASSTRPSAERHLTASRRAP----SLVIVAQGKVKKYRQVILTDDIEA 57

Query: 62  LGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALI 121
           +GKKG  + V+AGFYRN+L P GKA ++TP +LKEM++E+ERIEAEKKRVKE+AQQLA +
Sbjct: 58  VGKKGDTMKVRAGFYRNFLLPKGKATLLTPEVLKEMQLEQERIEAEKKRVKEDAQQLARV 117

Query: 122 FETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQL 181
           FET+GAFK+ RKGGKGKQIFGSVTAQDVVDIIK+QL RDVDKK+V +PEIRE GEY+A++
Sbjct: 118 FETIGAFKIPRKGGKGKQIFGSVTAQDVVDIIKSQLNRDVDKKLVTVPEIREIGEYVAEI 177

Query: 182 KLHPEVTARIRLNVFA 197
           KLHP+VTAR+RLNV+A
Sbjct: 178 KLHPDVTARVRLNVYA 193

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

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	198
TAIR|locus:2082127	197	RPL9 "ribosomal protein L9" [A	0.898	0.903	0.567	5.2e-49
TIGR_CMR|CHY_0039	151	CHY_0039 "ribosomal protein L9	0.691	0.907	0.309	4.9e-14
UNIPROTKB|P66315	152	rplI "50S ribosomal protein L9	0.702	0.914	0.326	9.1e-13
TIGR_CMR|BA_5718	148	BA_5718 "ribosomal protein L9"	0.696	0.932	0.278	1.7e-11
TIGR_CMR|SO_3927	150	SO_3927 "ribosomal protein L9"	0.707	0.933	0.286	2.8e-11
UNIPROTKB|Q9KUY9	149	rplI "50S ribosomal protein L9	0.707	0.939	0.293	3.5e-11
TIGR_CMR|VC_0369	149	VC_0369 "ribosomal protein L9"	0.707	0.939	0.293	3.5e-11
TIGR_CMR|SPO_2283	200	SPO_2283 "ribosomal protein L9	0.691	0.685	0.292	4.5e-11
UNIPROTKB|P0A7R1	149	rplI "50S ribosomal subunit pr	0.707	0.939	0.293	5.8e-11
TIGR_CMR|CBU_0867	152	CBU_0867 "ribosomal protein L9	0.691	0.901	0.283	5.8e-11

TAIR|locus:2082127 RPL9 "ribosomal protein L9" [Arabidopsis thaliana (taxid:3702)]

 Score = 511 (184.9 bits), Expect = 5.2e-49, P = 5.2e-49
 Identities = 101/178 (56%), Positives = 127/178 (71%)

Query:    21 TFGNTVNESVKLPDKRSXXXXXXXXXXXXXXXXXXXEDVAELGKKGQLLDVKAGFYRNYL 80
             +F    NE++K+ ++R                    EDV +LGK+GQLLDVKAGF+RN+L
Sbjct:    20 SFNGGANETLKVSERRFNFEVVSQKKAKKLRKVILKEDVTDLGKQGQLLDVKAGFFRNFL 79

Query:    81 HPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQQLALIFETVGAFKVKRKGGKGKQI 140
              P GKAQ++TPLLL                     QQLA++F+TVGAFKVKRKGGKGK I
Sbjct:    80 LPTGKAQLMTPLLLKELKMEDERIEAEKQRVKEEAQQLAMVFQTVGAFKVKRKGGKGKLI 139

Query:   141 FGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN 198
             FGSVTAQD+VDIIK+QLQ+D+DK++V LPEIRETGEYIA+LKLHP+VTAR+++NVFAN
Sbjct:   140 FGSVTAQDLVDIIKSQLQKDIDKRLVSLPEIRETGEYIAELKLHPDVTARVKINVFAN 197

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

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA;ISS

GO:0006412 "translation" evidence=IEA;ISS;TAS

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0042254 "ribosome biogenesis" evidence=ISS

GO:0000311 "plastid large ribosomal subunit" evidence=TAS

GO:0009570 "chloroplast stroma" evidence=IDA

GO:0009941 "chloroplast envelope" evidence=IDA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

TIGR_CMR|CHY_0039 CHY_0039 "ribosomal protein L9" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 181 (68.8 bits), Expect = 4.9e-14, P = 4.9e-14
 Identities = 43/139 (30%), Positives = 74/139 (53%)

Query:    58 DVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQQ 117
             +V +LGKKG +++V  G+ RNYL   G A   T   L                     + 
Sbjct:     8 EVKKLGKKGDVVEVAEGYGRNYLIAKGLAVEATEGKLKELQQQKEAANRRKEKELQEARS 67

Query:   118 LALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGE 176
             LA   + +    +  KGG+  ++FG++T++D+ + ++   Q  +DK+ +DL E I+  G 
Sbjct:    68 LAEKLKNI-ELVLYGKGGENGKLFGAITSKDIAEALEKNYQIKIDKRKLDLKENIKALGV 126

Query:   177 YIAQLKLHPEVTARIRLNV 195
             Y  ++KLHPEVTA++++ V
Sbjct:   127 YTVEVKLHPEVTAKLKVAV 145

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

GO:0006412 "translation" evidence=ISS

UNIPROTKB|P66315 rplI "50S ribosomal protein L9" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 169 (64.5 bits), Expect = 9.1e-13, P = 9.1e-13
 Identities = 47/144 (32%), Positives = 67/144 (46%)

Query:    58 DVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQQ 117
             DV  LG  G  ++VK G+ RN+L P G A + +                          +
Sbjct:     8 DVDHLGSIGDTVEVKDGYGRNFLLPRGLAIVASRGAQKQADEIRRARETKSVRDLEHANE 67

Query:   118 LALIFETVG--AFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE--IRE 173
             +    E +G  A  VK     GK +FGSVTA DVV  IK     ++DK+IV LP+  I+ 
Sbjct:    68 IKAAIEALGPIALPVKTSADSGK-LFGSVTAADVVAAIKKAGGPNLDKRIVRLPKTHIKA 126

Query:   174 TGEYIAQLKLHPEVTARIRLNVFA 197
              G +   + LHPE+   + L+V A
Sbjct:   127 VGTHFVSVHLHPEIDVEVSLDVVA 150

GO:0005618 "cell wall" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

TIGR_CMR|BA_5718 BA_5718 "ribosomal protein L9" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 157 (60.3 bits), Expect = 1.7e-11, P = 1.7e-11
 Identities = 39/140 (27%), Positives = 71/140 (50%)

Query:    57 EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
             +DV   GKKG++ +V  G+  N+L   G A   T   +                     +
Sbjct:     7 KDVKGKGKKGEVKNVPDGYANNFLLKQGLAAEATNSSMKTLEAQKRKEEKDAAAELESAK 66

Query:   117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETG 175
             QL    E +   ++K K G+G ++FGS+T++ +VD ++   +  +DK+  ++ + IR  G
Sbjct:    67 QLKETLEKL-TVELKAKSGEGGRLFGSITSKQIVDAMQKSHKIKLDKRKFEMDDAIRALG 125

Query:   176 EYIAQLKLHPEVTARIRLNV 195
                  +KLHP+VTA ++++V
Sbjct:   126 YTNVTVKLHPQVTATVKVHV 145

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|SO_3927 SO_3927 "ribosomal protein L9" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 155 (59.6 bits), Expect = 2.8e-11, P = 2.8e-11
 Identities = 41/143 (28%), Positives = 67/143 (46%)

Query:    57 EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
             + +A LG  G  + VKAG+ RNYL P GKA +     +                      
Sbjct:     7 DKIANLGNLGDQVAVKAGYARNYLLPQGKAVVANESNVKVFEARRAELEAKLAADLAAAN 66

Query:   117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLP--EIRET 174
             Q A     + A  +  K G   ++FGSV  +D+ D + A    ++ K  V LP   +R T
Sbjct:    67 QRAEKIAALEAVVIASKAGDEGKLFGSVGNRDIADAVTAA-GVELAKSEVRLPLGALRTT 125

Query:   175 GEYIAQLKLHPEVTARIRLNVFA 197
             G++  +++LH EV A +++++ A
Sbjct:   126 GDFEVEVQLHTEVKAVVKVSIVA 148

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

GO:0006412 "translation" evidence=ISS

UNIPROTKB|Q9KUY9 rplI "50S ribosomal protein L9" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)]

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 42/143 (29%), Positives = 64/143 (44%)

Query:    57 EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
             + +  LG  G  ++VK+G+ RN+L P GKA + T   +                     Q
Sbjct:     7 DKIGNLGSLGDTVNVKSGYARNFLIPQGKAVMATKANVAMFESRRAELEAKVAEQLAAAQ 66

Query:   117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE--IRET 174
               A     + A  +  K G   ++FGS+  +D+ D I A   + V K  V LPE  +R  
Sbjct:    67 TRADQVNALEAVVIASKAGDEGKLFGSIGTRDIADAITAAGVK-VSKSEVRLPEGALRNV 125

Query:   175 GEYIAQLKLHPEVTARIRLNVFA 197
             G Y   ++LH EV A  ++ V A
Sbjct:   126 GAYEVSVQLHSEVFATAKVQVVA 148

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|VC_0369 VC_0369 "ribosomal protein L9" [Vibrio cholerae O1 biovar El Tor (taxid:686)]

 Score = 154 (59.3 bits), Expect = 3.5e-11, P = 3.5e-11
 Identities = 42/143 (29%), Positives = 64/143 (44%)

Query:    57 EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
             + +  LG  G  ++VK+G+ RN+L P GKA + T   +                     Q
Sbjct:     7 DKIGNLGSLGDTVNVKSGYARNFLIPQGKAVMATKANVAMFESRRAELEAKVAEQLAAAQ 66

Query:   117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE--IRET 174
               A     + A  +  K G   ++FGS+  +D+ D I A   + V K  V LPE  +R  
Sbjct:    67 TRADQVNALEAVVIASKAGDEGKLFGSIGTRDIADAITAAGVK-VSKSEVRLPEGALRNV 125

Query:   175 GEYIAQLKLHPEVTARIRLNVFA 197
             G Y   ++LH EV A  ++ V A
Sbjct:   126 GAYEVSVQLHSEVFATAKVQVVA 148

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|SPO_2283 SPO_2283 "ribosomal protein L9" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 153 (58.9 bits), Expect = 4.5e-11, P = 4.5e-11
 Identities = 41/140 (29%), Positives = 66/140 (47%)

Query:    57 EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
             E VA+LG+ G ++DVK+G+ RN+L P  KA + +   +                     +
Sbjct:     7 ERVAKLGQMGDVVDVKSGYARNFLLPQSKALVASDANIAQFEAQKAQLEARNLETKQEAE 66

Query:   117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDL-PEIRETG 175
              LA+  +    F V R       ++GSVT +D  +    +    VDKK + L   I++ G
Sbjct:    67 ALAVKLDGQ-QFVVIRSASDAGALYGSVTPRDAAEAA-TEAGFSVDKKQIALIAPIKDLG 124

Query:   176 EYIAQLKLHPEVTARIRLNV 195
              +   ++LHPEV   I LN+
Sbjct:   125 LHTVAVRLHPEVEVSINLNI 144

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

GO:0006412 "translation" evidence=ISS

GO:0042255 "ribosome assembly" evidence=ISS

UNIPROTKB|P0A7R1 rplI "50S ribosomal subunit protein L9" [Escherichia coli K-12 (taxid:83333)]

 Score = 152 (58.6 bits), Expect = 5.8e-11, P = 5.8e-11
 Identities = 42/143 (29%), Positives = 64/143 (44%)

Query:    57 EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
             + VA LG  G  ++VKAG+ RN+L P GKA   T   +                      
Sbjct:     7 DKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEAKLAEVLAAAN 66

Query:   117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE--IRET 174
               A     +    +  K G   ++FGS+  +D+ D + A    +V K  V LP   +R T
Sbjct:    67 ARAEKINALETVTIASKAGDEGKLFGSIGTRDIADAVTAA-GVEVAKSEVRLPNGVLRTT 125

Query:   175 GEYIAQLKLHPEVTARIRLNVFA 197
             GE+    ++H EV A++ +NV A
Sbjct:   126 GEHEVSFQVHSEVFAKVIVNVVA 148

GO:0006412 "translation" evidence=IEA

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

GO:0030529 "ribonucleoprotein complex" evidence=IEA

GO:0019843 "rRNA binding" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

TIGR_CMR|CBU_0867 CBU_0867 "ribosomal protein L9" [Coxiella burnetii RSA 493 (taxid:227377)]

 Score = 152 (58.6 bits), Expect = 5.8e-11, P = 5.8e-11
 Identities = 40/141 (28%), Positives = 67/141 (47%)

Query:    57 EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
             E VA LG  G  + VK G+ RN+L P+GKA   TP  +                     +
Sbjct:     7 EKVANLGNIGDQVVVKPGYARNFLLPLGKAVPATPEHIAEFEKQRAELEKAAAELLAKAK 66

Query:   117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE--IRET 174
               A   E   +FK+        ++FGS+  +++   I  +   +++K+ VDL +  IR+ 
Sbjct:    67 ARAKKLEDK-SFKITANASDEGRLFGSIGPREIAQAI-TEAGIEIEKREVDLSQGPIRQV 124

Query:   175 GEYIAQLKLHPEVTARIRLNV 195
             GEY   L+LH +V+  +++ V
Sbjct:   125 GEYEVPLRLHTDVSVNVKIEV 145

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

---

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)
Q6JJ61	RK9_IPOTF	No assigned EC number	0.7882	0.8585	0.8542	N/A	no
P25864	RK9_ARATH	No assigned EC number	0.7193	0.9848	0.9898	yes	no
Q8L803	RK9_WHEAT	No assigned EC number	0.6071	0.9393	0.9738	N/A	no
P11894	RK9_PEA	No assigned EC number	0.7318	0.9040	0.9226	N/A	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	198
PRK00137	147	PRK00137, rplI, 50S ribosomal protein L9; Reviewed	1e-37
COG0359	148	COG0359, RplI, Ribosomal protein L9 [Translation,	9e-34
CHL00160	153	CHL00160, rpl9, ribosomal protein L9; Provisional	2e-31
TIGR00158	148	TIGR00158, L9, ribosomal protein L9	1e-24
pfam03948	86	pfam03948, Ribosomal_L9_C, Ribosomal protein L9, C	4e-21
pfam01281	48	pfam01281, Ribosomal_L9_N, Ribosomal protein L9, N	8e-15
PRK14538	838	PRK14538, PRK14538, putative bifunctional signalin	4e-09

>gnl|CDD|234659 PRK00137, rplI, 50S ribosomal protein L9; Reviewed

 Score =  126 bits (320), Expect = 1e-37
 Identities = 61/145 (42%), Positives = 91/145 (62%), Gaps = 3/145 (2%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           K+IL EDV  LGKKG +++VK G+ RN+L P GKA   T   LK+++     +EA+    
Sbjct: 2   KVILLEDVKNLGKKGDVVEVKDGYARNFLIPQGKAVRATKGNLKQLEARRAELEAKAAEE 61

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE- 170
             EA+ LA   E +    +K K G+  ++FGSVT +D+ + +K Q   ++DK+ ++LP  
Sbjct: 62  LAEAEALAEKLEGL-TVTIKAKAGEDGKLFGSVTTKDIAEALKKQ-GIEIDKRKIELPGP 119

Query: 171 IRETGEYIAQLKLHPEVTARIRLNV 195
           I+  GEY   +KLHPEVTA I++NV
Sbjct: 120 IKTLGEYEVPVKLHPEVTATIKVNV 144

Length = 147

>gnl|CDD|223436 COG0359, RplI, Ribosomal protein L9 [Translation, ribosomal structure and biogenesis]

 Score =  117 bits (295), Expect = 9e-34
 Identities = 54/145 (37%), Positives = 86/145 (59%), Gaps = 3/145 (2%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           K+IL EDV  LGKKG +++VK G+ RN+L P G A   T   LK ++    ++E +    
Sbjct: 2   KVILLEDVKGLGKKGDIVEVKDGYARNFLIPKGLAVPATKGNLKLLEARRAKLEKKAAEE 61

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE- 170
             EA+ L    E     ++  K G+  ++FGSVT++D+ + +KA     +DK+ + LP  
Sbjct: 62  LAEAEALKEKLEG-KTVEIAVKAGEDGKLFGSVTSKDIAEALKAA-GFKLDKRKIRLPNG 119

Query: 171 IRETGEYIAQLKLHPEVTARIRLNV 195
           I+  GE+  ++KLH EVTA +++NV
Sbjct: 120 IKTLGEHEVEVKLHEEVTATVKVNV 144

Length = 148

>gnl|CDD|214378 CHL00160, rpl9, ribosomal protein L9; Provisional

 Score =  111 bits (278), Expect = 2e-31
 Identities = 57/150 (38%), Positives = 96/150 (64%)

Query: 46  KAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIE 105
            +KK  ++ILKE++ +LGK G ++ VK+G+ RNYL P   A++ T   LK+ KM ++ ++
Sbjct: 1   MSKKKIQVILKENIQKLGKSGTVIKVKSGYARNYLIPNKMAKVATQGSLKQQKMYQKILD 60

Query: 106 AEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKI 165
            + K  KE+  ++  + E +  F VK+K G+  QIFGSVT +++  IIK +   D++K+ 
Sbjct: 61  LKLKEAKEKCLKVKQLLEEIQKFSVKKKVGENNQIFGSVTEKEISQIIKNKTNIDLEKQN 120

Query: 166 VDLPEIRETGEYIAQLKLHPEVTARIRLNV 195
           ++LPEI+  G Y  ++KL  +V A I L +
Sbjct: 121 IELPEIKTIGIYNIEIKLTSDVKANINLQI 150

Length = 153

>gnl|CDD|129262 TIGR00158, L9, ribosomal protein L9

 Score = 93.6 bits (233), Expect = 1e-24
 Identities = 54/146 (36%), Positives = 87/146 (59%), Gaps = 4/146 (2%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           K+IL EDVA LGK+G +++VK G+ RN+L P G A   T   ++  +   +++E +    
Sbjct: 2   KVILLEDVANLGKRGDVVEVKDGYARNFLIPKGLAVPATKKNIEFFEARRKKLEEKLAAN 61

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE- 170
           K  A +L  + E  G   + +K G   ++FGS+T + + D +KA    D+DKK ++LP+ 
Sbjct: 62  KAAAARLKEVLEL-GTLTISKKVGDEGKLFGSITTKQIADALKAAGL-DLDKKKIELPDG 119

Query: 171 -IRETGEYIAQLKLHPEVTARIRLNV 195
            IR TGE+   +KLH EV A +++ V
Sbjct: 120 VIRTTGEHEVTIKLHEEVFAVLKVIV 145

Ribosomal protein L9 appears to be universal in, but restricted to, eubacteria and chloroplast [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 148

>gnl|CDD|146531 pfam03948, Ribosomal_L9_C, Ribosomal protein L9, C-terminal domain

 Score = 82.5 bits (205), Expect = 4e-21
 Identities = 36/85 (42%), Positives = 56/85 (65%), Gaps = 3/85 (3%)

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE- 170
             EA+ LA   E +    +K K G+  ++FGSVT +D+ + +KAQ   ++DKK ++LPE 
Sbjct: 1   LAEAEALAEKLEGLT-VTIKAKAGEDGKLFGSVTTKDIAEALKAQ-GIEIDKKKIELPEP 58

Query: 171 IRETGEYIAQLKLHPEVTARIRLNV 195
           I+  GEY  ++KLHP+VTA I++ V
Sbjct: 59  IKTLGEYEVEVKLHPDVTATIKVEV 83

Length = 86

>gnl|CDD|201708 pfam01281, Ribosomal_L9_N, Ribosomal protein L9, N-terminal domain

 Score = 65.2 bits (160), Expect = 8e-15
 Identities = 25/47 (53%), Positives = 33/47 (70%)

Query: 52 KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMK 98
          K+IL EDV  LGKKG +++VK G+ RN+L P G A   TP  LKE++
Sbjct: 2  KVILLEDVEGLGKKGDIVEVKPGYARNFLLPKGLAVYATPENLKELE 48

Length = 48

>gnl|CDD|173004 PRK14538, PRK14538, putative bifunctional signaling protein/50S ribosomal protein L9; Provisional

 Score = 54.8 bits (132), Expect = 4e-09
 Identities = 51/183 (27%), Positives = 82/183 (44%), Gaps = 8/183 (4%)

Query: 15  SSSFFQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAG 74
           +S+  Q  G  +            LL L  +K +K  +IIL  D+   GKK +++ V  G
Sbjct: 656 NSAATQIKGTNIKTVT---QTLKHLLKLEYEKGEKNMEIILLTDIKNKGKKHEIIKVNNG 712

Query: 75  FYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEE-AQQLALIFETVGAFKVKRK 133
            Y N+L    KA +     L ++K ++   E EKKR  E   ++L    +        + 
Sbjct: 713 -YGNFLIQNKKALLADKENLAKIKKKKIL-EQEKKRNHELLMKKLKSEIDNKKITLDIQL 770

Query: 134 GGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLP-EIRETGEYIAQLKLHPEVTARIR 192
           G KGK I+G +T + +V+         +D+K + L  EI   G Y   + L  ++ A   
Sbjct: 771 GPKGK-IYGKITLKQIVEEFHKIHNITIDRKKISLENEIISVGIYPVDVFLTDQIKATFF 829

Query: 193 LNV 195
           LNV
Sbjct: 830 LNV 832

Length = 838

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	198
CHL00160	153	rpl9 ribosomal protein L9; Provisional	100.0
TIGR00158	148	L9 ribosomal protein L9. Ribosomal protein L9 appe	100.0
PRK00137	147	rplI 50S ribosomal protein L9; Reviewed	100.0
COG0359	148	RplI Ribosomal protein L9 [Translation, ribosomal	100.0
PRK14538	838	putative bifunctional signaling protein/50S riboso	100.0
KOG4607	222	consensus Mitochondrial ribosomal protein L9 [Tran	100.0
PF03948	87	Ribosomal_L9_C: Ribosomal protein L9, C-terminal d	99.92
PF01281	48	Ribosomal_L9_N: Ribosomal protein L9, N-terminal d	99.91

>CHL00160 rpl9 ribosomal protein L9; Provisional

Probab=100.00  E-value=5.7e-53  Score=341.37  Aligned_cols=150  Identities=38%  Similarity=0.637  Sum_probs=144.7

Q ss_pred             CCceEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCe
Q 029153           48 KKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGA  127 (198)
Q Consensus        48 kk~mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~  127 (198)
                      +|+|+|||++||++||++||+|+|+||||||||||+|+|++||++|+++++.+++.+++++++.+++|+++++.|++++.
T Consensus         3 ~kkmkVIL~~dV~~LGk~Gdiv~Vk~GYaRNyLiP~glA~~AT~~n~~~~e~~~~~~~~~~~~~~~~a~~la~~l~~~~~   82 (153)
T CHL00160          3 KKKIQVILKENIQKLGKSGTVIKVKSGYARNYLIPNKMAKVATQGSLKQQKMYQKILDLKLKEAKEKCLKVKQLLEEIQK   82 (153)
T ss_pred             CceEEEEEcccccccCCCCCEEEEcCchHhhhhcccCchhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCce
Confidence            46799999999999999999999999999999999999999999999999999999999999999999999999999745


Q ss_pred             EEEEEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccCccceeeEEEEEEeCCCcEEEEEEEEee
Q 029153          128 FKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFA  197 (198)
Q Consensus       128 l~i~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~Ik~~G~y~V~V~L~~~v~a~i~v~V~~  197 (198)
                      ++|.+++|++|+||||||++||+++|++++|++||+++|.||+|+++|+|.|+|+||++|+|+++|+|++
T Consensus        83 ~~i~~k~ge~gklfGSVt~~dIa~~l~~~~g~~idk~~I~l~~Ik~~G~~~v~v~L~~~V~a~i~v~V~~  152 (153)
T CHL00160         83 FSVKKKVGENNQIFGSVTEKEISQIIKNKTNIDLEKQNIELPEIKTIGIYNIEIKLTSDVKANINLQILP  152 (153)
T ss_pred             EEEEEEeCCCCeEEcccCHHHHHHHHHHhhCCccccceeehhhccccEeEEEEEEecCCcEEEEEEEEEE
Confidence            9999999999999999999999999998899999999999988999999999999999999999999986

>TIGR00158 L9 ribosomal protein L9

Probab=100.00  E-value=2.1e-51  Score=330.66  Aligned_cols=145  Identities=37%  Similarity=0.574  Sum_probs=140.8

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeEEE
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKV  130 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l~i  130 (198)
                      |+|||++||++||++||+|+|++|||||||||+|+|++||++|+++++.+++.+++++++.+++|++++++|++. .++|
T Consensus         1 MkVIL~~dV~~lGk~GdiV~Vk~GYaRNyLiP~g~A~~aT~~nl~~~e~~~~~~~~~~~~~~~~a~~l~~~l~~~-~~~i   79 (148)
T TIGR00158         1 MKVILLEDVANLGKRGDVVEVKDGYARNFLIPKGLAVPATKKNIEFFEARRKKLEEKLAANKAAAARLKEVLELG-TLTI   79 (148)
T ss_pred             CeEEEcccccccCCCCCEEEEcccchhhhhcccCchhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc-EEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999997 7999


Q ss_pred             EEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC--ccceeeEEEEEEeCCCcEEEEEEEEee
Q 029153          131 KRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE--IRETGEYIAQLKLHPEVTARIRLNVFA  197 (198)
Q Consensus       131 ~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~--Ik~~G~y~V~V~L~~~v~a~i~v~V~~  197 (198)
                      .+++|++|+||||||++||+++|+++ |++||+++|.||+  |+++|+|+|+|+||++|+++|+|+|.+
T Consensus        80 ~~k~ge~gklfGSVt~~~I~~~l~~~-g~~idk~~I~l~~~~Ik~~G~y~v~i~L~~~V~a~i~v~V~~  147 (148)
T TIGR00158        80 SKKVGDEGKLFGSITTKQIADALKAA-GLDLDKKKIELPDGVIRTTGEHEVTIKLHEEVFAVLKVIVVP  147 (148)
T ss_pred             EEEeCCCCeEEEeECHHHHHHHHHHc-CCcccHhhEECCCCceeceEEEEEEEEEcCCcEEEEEEEEEE
Confidence            99999999999999999999999887 9999999999975  999999999999999999999999986

Ribosomal protein L9 appears to be universal in, but restricted to, eubacteria and chloroplast.

>PRK00137 rplI 50S ribosomal protein L9; Reviewed

Probab=100.00  E-value=1.6e-50  Score=325.24  Aligned_cols=146  Identities=42%  Similarity=0.669  Sum_probs=141.6

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeEEE
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKV  130 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l~i  130 (198)
                      |+|||++||+|||++||+|+|++|||||||||+|+|+|||++|+++++.+++..++++++.+++|+++++.|++. .|+|
T Consensus         1 mkVIL~~dv~~lGk~Gdiv~Vk~GYaRNyLiP~~lA~~aT~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~-~l~i   79 (147)
T PRK00137          1 MKVILLEDVKNLGKKGDVVEVKDGYARNFLIPQGKAVRATKGNLKQLEARRAELEAKAAEELAEAEALAEKLEGL-TVTI   79 (147)
T ss_pred             CeEEEcccccccCCCCCEEEEcCcchhhhhccCCceeeCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC-EEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999987 8999


Q ss_pred             EEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC-ccceeeEEEEEEeCCCcEEEEEEEEeeC
Q 029153          131 KRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPEVTARIRLNVFAN  198 (198)
Q Consensus       131 ~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~-Ik~~G~y~V~V~L~~~v~a~i~v~V~~~  198 (198)
                      .+++|++|++|||||++||+++|.++ |++||++.|.|++ |+++|+|+|+|+||++|+|+++|+|.+.
T Consensus        80 ~~k~g~~gklfGsVt~~~I~~~l~~~-g~~idk~~I~l~~~Ik~~G~y~v~i~L~~~v~a~l~v~V~~~  147 (147)
T PRK00137         80 KAKAGEDGKLFGSVTTKDIAEALKKQ-GIEIDKRKIELPGPIKTLGEYEVPVKLHPEVTATIKVNVVAE  147 (147)
T ss_pred             EEEcCCCCeEEeeeCHHHHHHHHHHc-CCccCHHHeECCCcccccEEEEEEEEECCCcEEEEEEEEEEC
Confidence            99999999999999999999999988 9999999999985 9999999999999999999999999863

>COG0359 RplI Ribosomal protein L9 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=2.8e-49  Score=317.40  Aligned_cols=145  Identities=38%  Similarity=0.571  Sum_probs=141.6

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeEEE
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKV  130 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l~i  130 (198)
                      |+|||++||.+||+.||+|+|++|||||||||+|+|+.||+.|++.++.++++++++.++++++|+.+++.|++. +++|
T Consensus         1 MkVILl~dV~~lGk~Gdiv~VkdGYarNfLiPkglAv~At~~n~~~~e~~r~~~e~~~~~~~~~a~~lk~~Le~~-~~~i   79 (148)
T COG0359           1 MKVILLEDVKGLGKKGDIVEVKDGYARNFLIPKGLAVPATKGNLKLLEARRAKLEKKAAEELAEAEALKEKLEGK-TVEI   79 (148)
T ss_pred             CeEEEecchhhcCCCCCEEEecchhhhhhhccccchhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc-eEEE
Confidence            999999999999999999999999999999999999999999999999999999999889999999999999995 8999


Q ss_pred             EEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC-ccceeeEEEEEEeCCCcEEEEEEEEee
Q 029153          131 KRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPEVTARIRLNVFA  197 (198)
Q Consensus       131 ~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~-Ik~~G~y~V~V~L~~~v~a~i~v~V~~  197 (198)
                      .+++|++|++|||||++||+++|.++ |++||+++|.+|+ |+++|+|+|+|+||++|+++++|+|.+
T Consensus        80 ~~kag~~GklfGSVt~~dIa~~l~~~-g~~idk~~i~l~~~ik~~G~~~V~vkLh~eV~a~v~v~V~~  146 (148)
T COG0359          80 AVKAGEDGKLFGSVTSKDIAEALKAA-GFKLDKRKIRLPNGIKTLGEHEVEVKLHEEVTATVKVNVVA  146 (148)
T ss_pred             EEEcCCCCceeccccHHHHHHHHHHc-CCCcchheeEcCchhhhcceeEEEEEecCceEEEEEEEEEe
Confidence            99999999999999999999999999 9999999999998 999999999999999999999999975

>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional

Probab=100.00  E-value=2.2e-41  Score=331.64  Aligned_cols=147  Identities=23%  Similarity=0.332  Sum_probs=142.3

Q ss_pred             CceEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeE
Q 029153           49 KTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAF  128 (198)
Q Consensus        49 k~mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l  128 (198)
                      ..|||||++||++||++||+|+|+|||| |||||+|+|++||++|+++++.+++++++++++.+++|++++++|+++ .+
T Consensus       687 ~~MkVIL~~dv~~lGk~Gdvv~Vk~GYa-NfLiP~~~A~~aT~~nlk~~e~~~~~~~~~~~~~~~~a~~l~~~l~~~-~~  764 (838)
T PRK14538        687 KNMEIILLTDIKNKGKKHEIIKVNNGYG-NFLIQNKKALLADKENLAKIKKKKILEQEKKRNHELLMKKLKSEIDNK-KI  764 (838)
T ss_pred             hhhhHHHHHHHHhcCCCCCEEEECCCch-hhhccCCchhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc-EE
Confidence            3699999999999999999999999999 999999999999999999999999999999999999999999999997 79


Q ss_pred             EEEEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC-ccceeeEEEEEEeCCCcEEEEEEEEee
Q 029153          129 KVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPEVTARIRLNVFA  197 (198)
Q Consensus       129 ~i~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~-Ik~~G~y~V~V~L~~~v~a~i~v~V~~  197 (198)
                      +|.+++|++|+||||||++||+++|++++|++||++.|.|++ ||++|+|.|+|+||++|+|+++|+|+.
T Consensus       765 ~i~~k~ge~gklfGSVt~~~I~~~l~~~~g~~idk~~I~l~~~Ik~~G~~~v~i~L~~~V~a~i~v~V~~  834 (838)
T PRK14538        765 TLDIQLGPKGKIYGKITLKQIVEEFHKIHNITIDRKKISLENEIISVGIYPVDVFLTDQIKATFFLNVIE  834 (838)
T ss_pred             EEEEEeCCCCeeeeccCHHHHHHHHHHhhCCccccceeeCCCcccccEEEEEEEEEcCCeEEEEEEEEEE
Confidence            999999999999999999999999999999999999999986 999999999999999999999999974

>KOG4607 consensus Mitochondrial ribosomal protein L9 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=7.9e-34  Score=237.90  Aligned_cols=192  Identities=40%  Similarity=0.570  Sum_probs=163.3

Q ss_pred             cccccccccccCcc-ccccCCCcccccccCCCceEEEEeeecccCCceEEEEccccccccCCCcEEEeCCcccccccccC
Q 029153            5 SSTAATLSWSSSSF-FQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPM   83 (198)
Q Consensus         5 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~a~kk~kk~mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~   83 (198)
                      +++++...|+.+.| ++.|.+. ..|++++++++-++.+++++.++.++|||++||+|||++||+|+|++||+||+|+|+
T Consensus         3 ~~~q~r~T~~~~r~~~~~l~~~-~np~~~~~~~y~lv~~~~~k~k~~levIL~~~Ve~lG~qGdvVsVk~g~~RN~Llp~   81 (222)
T KOG4607|consen    3 SSSQSRNTWRLSRCWSPELHKG-ANPNLKHERRYELVEFTQKKPKPNLEVILKTDVEKLGKQGDVVSVKRGYFRNFLLPK   81 (222)
T ss_pred             ccccccCeEEEEEeeccccCCC-CChhhHHHhhhhHhHhhhccCCcceeeeeehhhhhhcccCcEEEeecchhhhhcccc
Confidence            46788889998854 8888877 677776677789999999999999999999999999999999999999999999999


Q ss_pred             CceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEEEecCCCCceeeccCHHHHHHHHHHhcCCceec
Q 029153           84 GKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDK  163 (198)
Q Consensus        84 glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l~i~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk  163 (198)
                      |+|+|+||.|.+.+...+++....+.+..++++.++ .|.+........+.+.---.+|+|++++....+.+++.+.+|+
T Consensus        82 glAvy~tp~~~~~~k~~~~e~~~~k~~vk~e~k~V~-~lqt~v~~~~~~k~~kw~l~~~~V~~~l~~gv~~~~~t~~l~k  160 (222)
T KOG4607|consen   82 GLAVYNTPLNLKKYKLREQEEEAEKIRVKEEAKVVA-VLQTVVLFKVMNKGGKWKLNPNLVKASLRKGVIVAELTIKLDK  160 (222)
T ss_pred             cccccCChhhHHHHHHHHHHHHhhhhccHHHHHHHH-HHHhhhhhheeccCCceeecHHHHHHHHhcceEeccccccCcc
Confidence            999999999999998888888887788888888888 7877632333344443333568888888877777777889999


Q ss_pred             ceecccCccceeeEEEEEEeCCCcEEEEEEEEeeC
Q 029153          164 KIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN  198 (198)
Q Consensus       164 ~~I~l~~Ik~~G~y~V~V~L~~~v~a~i~v~V~~~  198 (198)
                      +.|+.|.++.-|+|.++|++|++.++.+...|..|
T Consensus       161 ~~vs~P~~k~e~~~~~~V~in~~~~vr~~~~v~~~  195 (222)
T KOG4607|consen  161 ELVSGPITKEEGEYICEVKINPDVTVRVKIRVTHN  195 (222)
T ss_pred             cccCCCcccccceEEEEEEECCcceEEeeeeeecc
Confidence            99999999999999999999999999999988754

>PF03948 Ribosomal_L9_C: Ribosomal protein L9, C-terminal domain; InterPro: IPR020069 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.92  E-value=6.2e-25  Score=162.52  Aligned_cols=85  Identities=47%  Similarity=0.777  Sum_probs=81.9

Q ss_pred             HHHHHHHHHHhccCCeEEEEEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC-ccceeeEEEEEEeCCCcEEE
Q 029153          112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPEVTAR  190 (198)
Q Consensus       112 ~~~a~~~~~~L~~~~~l~i~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~-Ik~~G~y~V~V~L~~~v~a~  190 (198)
                      +++|++++++|++. .|+|.+++|++|+||||||++||+++|++++|++||+++|.|++ ||++|+|.|+|+||++|+|+
T Consensus         1 k~~A~~l~~~l~~~-~l~i~~k~g~~gklfGSVt~~dIa~~l~~~~g~~Idk~~I~l~~~IK~~G~~~v~v~L~~~V~a~   79 (87)
T PF03948_consen    1 KAEAQALAEKLEGI-TLTIKRKAGENGKLFGSVTSKDIAKALKEQTGIEIDKKKIELPEPIKSLGEYEVKVKLHPEVSAK   79 (87)
T ss_dssp             HHHHHHHHHHHCSS-EEEEEECBSSCSSBSSEBSHHHHHHHHHHCCSSSSSSSSBCSSSTBESSEEEEEEEEEETTEEEE
T ss_pred             CHHHHHHHHHhcCC-EEEEEEEecCCcceecCcCHHHHHHHHHHhhCCeEeccEEECCCchhccEEEEEEEEeCCCeEEE
Confidence            47899999999998 79999999999999999999999999999999999999999998 99999999999999999999


Q ss_pred             EEEEEee
Q 029153          191 IRLNVFA  197 (198)
Q Consensus       191 i~v~V~~  197 (198)
                      |+|+|.+
T Consensus        80 i~v~V~~   86 (87)
T PF03948_consen   80 IKVNVVA   86 (87)
T ss_dssp             EEEEEEE
T ss_pred             EEEEEEe
Confidence            9999975

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 L9 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L9 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins grouped on the basis of sequence similarities [, ]. The crystal structure of Bacillus stearothermophilus L9 shows the 149-residue protein comprises two globular domains connected by a rigid linker []. Each domain contains an rRNA binding site, and the protein functions as a structural protein in the large subunit of the ribosome. The C-terminal domain consists of two loops, an alpha-helix and a three-stranded mixed parallel, anti-parallel beta-sheet packed against the central alpha-helix. The long central alpha-helix is exposed to solvent in the middle and participates in the hydrophobic cores of the two domains at both ends. ; PDB: 3D5B_I 3PYV_H 3F1H_I 3PYR_H 3MRZ_H 1VSP_G 3MS1_H 1VSA_G 3PYT_H 2WH4_I ....

>PF01281 Ribosomal_L9_N: Ribosomal protein L9, N-terminal domain; InterPro: IPR020070 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=99.91  E-value=1.4e-25  Score=149.08  Aligned_cols=48  Identities=48%  Similarity=0.774  Sum_probs=45.0

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhH
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMK   98 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~   98 (198)
                      |+|||++||+|||++||+|+|++|||||||+|+|+|+|||++|+++++
T Consensus         1 m~ViL~~dv~~lG~~Gdiv~V~~Gy~RN~L~p~~~A~~at~~~~~~~e   48 (48)
T PF01281_consen    1 MKVILLKDVPGLGKKGDIVEVKPGYARNFLIPQGLAVYATPENLKQLE   48 (48)
T ss_dssp             -EEEESSCCTTSBSTTEEEE-SHHHHHHTTTTTTSEEECSHHHHHHHH
T ss_pred             CEEEEcccccccCCCCCEEEEccceeeehccCCCceeeCCHHHHHhcC
Confidence            899999999999999999999999999999999999999999999875

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 L9 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L9 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins grouped on the basis of sequence similarities [, ]. The crystal structure of Bacillus stearothermophilus L9 shows the 149-residue protein comprises two globular domains connected by a rigid linker []. Each domain contains an rRNA binding site, and the protein functions as a structural protein in the large subunit of the ribosome. The C-terminal domain consists of two loops, an alpha-helix and a three-stranded mixed parallel, anti-parallel beta-sheet packed against the central alpha-helix. The long central alpha-helix is exposed to solvent in the middle and participates in the hydrophobic cores of the two domains at both ends. ; PDB: 3D5B_I 3PYV_H 3F1H_I 3PYR_H 3MRZ_H 1VSP_G 3MS1_H 1VSA_G 3PYT_H 2WH4_I ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	198
3bbo_J	197	Homology Model For The Spinach Chloroplast 50s Subu		5e-47
1nkw_F	146	Crystal Structure Of The Large Ribosomal Subunit Fr		2e-12
2hgj_K	148	Crystal Structure Of The 70s Thermus Thermophilus R		8e-12
3tve_K	146	Crystal Structure Analysis Of Ribosomal Decoding. T		8e-12
2v47_I	148	Structure Of The Ribosome Recycling Factor Bound To		8e-12
1vsa_G	148	Crystal Structure Of A 70s Ribosome-Trna Complex Re		9e-12
3fin_I	146	T. Thermophilus 70s Ribosome In Complex With Mrna,		2e-11
3uxq_I	148	The Structure Of Thermorubin In Complex With The 70		3e-11
3pyo_H	145	Crystal Structure Of A Complex Containing Domain 3		3e-11
1p85_F	149	Real Space Refined Coordinates Of The 50s Subunit F		5e-09
487d_K	149	Seven Ribosomal Proteins Fitted To A Cryo-Electron		4e-07

>pdb|3BBO|J Chain J, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 197

Iteration: 1
 Score =  183 bits (465), Expect = 5e-47,   Method: Compositional matrix adjust.
 Identities = 101/181 (55%), Positives = 128/181 (70%)
Query: 18  FFQTFGNTVNESVKLPDKRSXXXXXXXXXXXXXXXXXXXEDVAELGKKGQLLDVKAGFYR 77
           +  +F    NE++K+ ++R                    EDV +LGK+GQLLDVKAGF+R
Sbjct: 17  WSHSFNGGANETLKVSERRFNFEVVSQKKAKKLRKVILKEDVTDLGKQGQLLDVKAGFFR 76
Query: 78  NYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQQLALIFETVGAFKVKRKGGKG 137
           N+L P GKAQ++TPLLL                     QQLA++F+TVGAFKVKRKGGKG
Sbjct: 77  NFLLPTGKAQLMTPLLLKELKMEDERIEAEKQRVKEEAQQLAMVFQTVGAFKVKRKGGKG 136
Query: 138 KQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLKLHPEVTARIRLNVFA 197
           K IFGSVTAQD+VDIIK+QLQ+D+DK++V LPEIRETGEYIA+LKLHP+VTAR+++NVFA
Sbjct: 137 KLIFGSVTAQDLVDIIKSQLQKDIDKRLVSLPEIRETGEYIAELKLHPDVTARVKINVFA 196
Query: 198 N 198
           N
Sbjct: 197 N 197

>pdb|1NKW|F Chain F, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 146

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 47/139 (33%), Positives = 73/139 (52%), Gaps = 4/139 (2%)
Query: 60  AELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQQLA 119
           + LGK G+++ VK G+ RN+L P G A   T   +                     + LA
Sbjct: 9   SRLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIEKRQAQEKAVAEDLA 68
Query: 120 LIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYI 178
                V A ++  + G+GK I+G+VT QDV + +  QL  DVD++ +D+P+ ++E GEY 
Sbjct: 69  SRLNGV-AVELSVRAGEGK-IYGAVTHQDVANSLD-QLGFDVDRRKIDMPKTVKEVGEYD 125
Query: 179 AQLKLHPEVTARIRLNVFA 197
              + HPEVT  ++L V A
Sbjct: 126 IAYRAHPEVTIPMKLVVHA 144

>pdb|2HGJ|K Chain K, Crystal Structure Of The 70s Thermus Thermophilus Ribosome Showing How The 16s 3'-End Mimicks Mrna E And P Codons. This Entry 2hgj Contains 50s Ribosomal Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb Entry 2hgi. Length = 148

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 72/142 (50%), Gaps = 3/142 (2%)
Query: 57  EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
           E +  LG  GQ++DVK G+ RNYL P G A + T   L                     +
Sbjct: 7   EPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAERKAEAE 66
Query: 117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETG 175
           +L  I E +    +  + G+ K I+GSVTA+D+ + +  Q    +D K + L + I+E G
Sbjct: 67  RLKKILENL-TLTIPVRAGETK-IYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELG 124
Query: 176 EYIAQLKLHPEVTARIRLNVFA 197
           EY+   K HPEV  +++++V A
Sbjct: 125 EYVLTYKPHPEVPIQLKVSVVA 146

>pdb|3TVE|K Chain K, Crystal Structure Analysis Of Ribosomal Decoding. This Entry Contains The 50s Ribosomal Subunit Of The First 70s Molecule In The Asymmetric Unit For The Cognate Trna-Leu Complex Length = 146

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 72/142 (50%), Gaps = 3/142 (2%)
Query: 57  EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
           E +  LG  GQ++DVK G+ RNYL P G A + T   L                     +
Sbjct: 7   EPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAERKAEAE 66
Query: 117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETG 175
           +L  I E +    +  + G+ K I+GSVTA+D+ + +  Q    +D K + L + I+E G
Sbjct: 67  RLKEILENL-TLTIPVRAGETK-IYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELG 124
Query: 176 EYIAQLKLHPEVTARIRLNVFA 197
           EY+   K HPEV  +++++V A
Sbjct: 125 EYVLTYKPHPEVPIQLKVSVVA 146

>pdb|2V47|I Chain I, Structure Of The Ribosome Recycling Factor Bound To The Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And Trna-Fmet (Part 2 Of 4). This File Contains The 50s Subunit For Molecule 1. Length = 148

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 72/142 (50%), Gaps = 3/142 (2%)
Query: 57  EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
           E +  LG  GQ++DVK G+ RNYL P G A + T   L                     +
Sbjct: 7   EPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAERKAEAE 66
Query: 117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETG 175
           +L  I E +    +  + G+ K I+GSVTA+D+ + +  Q    +D K + L + I+E G
Sbjct: 67  RLKEILENL-TLTIPVRAGETK-IYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELG 124
Query: 176 EYIAQLKLHPEVTARIRLNVFA 197
           EY+   K HPEV  +++++V A
Sbjct: 125 EYVLTYKPHPEVPIQLKVSVVA 146

>pdb|1VSA|G Chain G, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals Functional Interactions And Rearrangements. This File, 1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome Subunit Is In The File 2ow8 Length = 148

Iteration: 1
 Score = 66.6 bits (161), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 46/142 (32%), Positives = 72/142 (50%), Gaps = 3/142 (2%)
Query: 57  EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
           E +  LG  GQ++DVK G+ RNYL P G A + T   L                     +
Sbjct: 7   EPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAERKAEAE 66
Query: 117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETG 175
           +L  I E +    +  + G+ K I+GSVTA+D+ + +  Q    +D K + L + I+E G
Sbjct: 67  RLKEILENL-TLTIPVRAGETK-IYGSVTAKDIAEALSRQHGITIDPKRLALEKPIKELG 124
Query: 176 EYIAQLKLHPEVTARIRLNVFA 197
           EY+   K HPEV  +++++V A
Sbjct: 125 EYVLTYKPHPEVPIQLKVSVVA 146

>pdb|3FIN|I Chain I, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A 6.4 A Cryo-Em Map. This File Contains The 50s Subunit Length = 146

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 45/141 (31%), Positives = 71/141 (50%), Gaps = 3/141 (2%)
Query: 57  EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
           E +  LG  GQ++DVK G+ RNYL P G A + T   L                     +
Sbjct: 7   EPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAERKAEAE 66
Query: 117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETG 175
           +L  I E +    +  + G+ K I+GSVTA+D+ + +  Q    +D K + L + I+E G
Sbjct: 67  RLKEILENL-TLTIPVRAGETK-IYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELG 124
Query: 176 EYIAQLKLHPEVTARIRLNVF 196
           EY+   K HPEV  +++++V 
Sbjct: 125 EYVLTYKPHPEVPIQLKVSVV 145

>pdb|3UXQ|I Chain I, The Structure Of Thermorubin In Complex With The 70s Ribosome From Thermus Thermophilus. This File Contains The 50s Subunit Of One 70s Ribosome. The Entire Crystal Structure Contains Two 70s Ribosomes. Length = 148

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/142 (31%), Positives = 72/142 (50%), Gaps = 3/142 (2%)
Query: 57  EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
           E +  LG  GQ++DVK G+ RNYL P G A + T   L                     +
Sbjct: 7   EPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAERKAEAE 66
Query: 117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETG 175
           +L  I E +    +  + G+ K I+GSVTA+D+ + +  Q    ++ K + L + I+E G
Sbjct: 67  RLKEILENL-TLTIPVRAGETK-IYGSVTAKDIAEALSRQHGVTIEPKRLALEKPIKELG 124
Query: 176 EYIAQLKLHPEVTARIRLNVFA 197
           EY+   K HPEV  +++++V A
Sbjct: 125 EYVLTYKPHPEVPIQLKVSVVA 146

>pdb|3PYO|H Chain H, Crystal Structure Of A Complex Containing Domain 3 From The Psiv Igr Ires Rna Bound To The 70s Ribosome. This File Contains The 50s Subunit Of The First 70s Ribosome. Length = 145

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 45/141 (31%), Positives = 71/141 (50%), Gaps = 3/141 (2%)
Query: 57  EDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQ 116
           E +  LG  GQ++DVK G+ RNYL P G A + T   L                     +
Sbjct: 7   EPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAERKAEAE 66
Query: 117 QLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETG 175
           +L  I E +    +  + G+ K I+GSVTA+D+ + +  Q    +D K + L + I+E G
Sbjct: 67  RLKEILENL-TLTIPVRAGETK-IYGSVTAKDIAEALSRQHGITIDPKRLALEKPIKELG 124
Query: 176 EYIAQLKLHPEVTARIRLNVF 196
           EY+   K HPEV  +++++V 
Sbjct: 125 EYVLTYKPHPEVPIQLKVSVV 145

>pdb|1P85|F Chain F, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 149

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 42/141 (29%), Positives = 63/141 (44%), Gaps = 3/141 (2%)
Query: 59  VAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQQL 118
           VA LG  G  ++VKAG+ RN+L P GKA   T   +                        
Sbjct: 9   VANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEAKLAEVLAAANAR 68
Query: 119 ALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE--IRETGE 176
           A     +    +  K G   ++FGS+  +D+ D + A    +V K  V LP   +R TGE
Sbjct: 69  AEKINALETVTIASKAGDEGKLFGSIGTRDIADAVTAA-GVEVAKSEVRLPNGVLRTTGE 127
Query: 177 YIAQLKLHPEVTARIRLNVFA 197
           +    ++H EV A++ +NV A
Sbjct: 128 HEVSFQVHSEVFAKVIVNVVA 148

>pdb|487D|K Chain K, Seven Ribosomal Proteins Fitted To A Cryo-Electron Microscopic Map Of The Large 50s Subunit At 7.5 Angstroms Resolution Length = 149

Iteration: 1
 Score = 51.2 bits (121), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 41/139 (29%), Positives = 70/139 (50%), Gaps = 2/139 (1%)
Query: 58  DVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLXXXXXXXXXXXXXXXXXXXXXQQ 117
           DV   GKKG++ +V  G+  N+L   G A   TP  L                     ++
Sbjct: 8   DVKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQKEQRQAAEELANAKK 67
Query: 118 LALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGE 176
           L    E +    +  K G+G ++FGS+T++ + + ++AQ    +DK+ ++L + IR  G 
Sbjct: 68  LKEQLEKL-TVTIPAKAGEGGRLFGSITSKQIAESLQAQHGLKLDKRKIELADAIRALGY 126
Query: 177 YIAQLKLHPEVTARIRLNV 195
               +KLHPEVTA ++++V
Sbjct: 127 TNVPVKLHPEVTATLKVHV 145

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	198
3bbo_J	197	Ribosomal protein L9; large ribosomal subunit, spi	1e-63
1div_A	149	Ribosomal protein L9; rRNA-binding; 2.60A {Geobaci	4e-40
3v2d_I	148	50S ribosomal protein L9; ribosome associated inhi	5e-40
3r8s_H	149	50S ribosomal protein L9; protein biosynthesis, RN	5e-40
1nkw_F	146	50S ribosomal protein L9; ribosome, large subunit,	2e-35
2hba_A	52	BL17, 50S ribosomal protein L9; NTL9, K12M, RNA bi	9e-11

>3bbo_J Ribosomal protein L9; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1 Length = 197

 Score =  194 bits (494), Expect = 1e-63
 Identities = 141/196 (71%), Positives = 176/196 (89%), Gaps = 1/196 (0%)

Query: 4   SSSTAATLSWSSS-SFFQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAEL 62
           +SSTA +LSWSSS  +  +F    NE++K+ ++R    V++QKKAKK RK+ILKEDV +L
Sbjct: 2   ASSTALSLSWSSSPCWSHSFNGGANETLKVSERRFNFEVVSQKKAKKLRKVILKEDVTDL 61

Query: 63  GKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIF 122
           GK+GQLLDVKAGF+RN+L P GKAQ++TPLLLKE+KME+ERIEAEK+RVKEEAQQLA++F
Sbjct: 62  GKQGQLLDVKAGFFRNFLLPTGKAQLMTPLLLKELKMEDERIEAEKQRVKEEAQQLAMVF 121

Query: 123 ETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPEIRETGEYIAQLK 182
           +TVGAFKVKRKGGKGK IFGSVTAQD+VDIIK+QLQ+D+DK++V LPEIRETGEYIA+LK
Sbjct: 122 QTVGAFKVKRKGGKGKLIFGSVTAQDLVDIIKSQLQKDIDKRLVSLPEIRETGEYIAELK 181

Query: 183 LHPEVTARIRLNVFAN 198
           LHP+VTAR+++NVFAN
Sbjct: 182 LHPDVTARVKINVFAN 197

>1div_A Ribosomal protein L9; rRNA-binding; 2.60A {Geobacillus stearothermophilus} SCOP: d.99.1.1 d.100.1.1 PDB: 1giy_K 1yl3_K 2b66_I 2b9n_I 2b9p_I 487d_K Length = 149

 Score =  133 bits (336), Expect = 4e-40
 Identities = 45/147 (30%), Positives = 84/147 (57%), Gaps = 2/147 (1%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           K+I  +DV   GKKG++ +V  G+  N+L   G A   TP  LK ++ ++++ + +    
Sbjct: 2   KVIFLKDVKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQKEQRQAAEE 61

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE- 170
              A++L    E +    +  K G+G ++FGS+T++ + + ++AQ    +DK+ ++L + 
Sbjct: 62  LANAKKLKEQLEKL-TVTIPAKAGEGGRLFGSITSKQIAESLQAQHGLKLDKRKIELADA 120

Query: 171 IRETGEYIAQLKLHPEVTARIRLNVFA 197
           IR  G     +KLHPEVTA ++++V  
Sbjct: 121 IRALGYTNVPVKLHPEVTATLKVHVTE 147

>3v2d_I 50S ribosomal protein L9; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2j03_I 2jl6_I 2jl8_I 2v47_I 2v49_I 2wdi_I 2wdj_I 2wdl_I 2wdn_I 2wh2_I 2x9s_I 2x9u_I 2xg0_I 2xg2_I 3hux_I 3huz_I 3i8f_K 3i8i_K 3i9c_K 3i9e_K ... Length = 148

 Score =  132 bits (335), Expect = 5e-40
 Identities = 52/145 (35%), Positives = 81/145 (55%), Gaps = 3/145 (2%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           K+IL E +  LG  GQ++DVK G+ RNYL P G A + T   LK ++             
Sbjct: 2   KVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAER 61

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE- 170
           K EA++L  I E +    +  + G+ K I+GSVTA+D+ + +  Q    +D K + L + 
Sbjct: 62  KAEAERLKEILENL-TLTIPVRAGETK-IYGSVTAKDIAEALSRQHGVTIDPKRLALEKP 119

Query: 171 IRETGEYIAQLKLHPEVTARIRLNV 195
           I+E GEY+   K HPEV  +++++V
Sbjct: 120 IKELGEYVLTYKPHPEVPIQLKVSV 144

>3r8s_H 50S ribosomal protein L9; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_F 1p86_F 1vs8_H 1vs6_H 2aw4_H 2awb_H 2gya_F 2gyc_F 1vt2_H 2i2v_H 2j28_H 2i2t_H* 2qao_H* 2qba_H* 2qbc_H* 2qbe_H 2qbg_H 2qbi_H* 2qbk_H* 2qov_H ... Length = 149

 Score =  132 bits (335), Expect = 5e-40
 Identities = 48/148 (32%), Positives = 76/148 (51%), Gaps = 3/148 (2%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           ++IL + VA LG  G  ++VKAG+ RN+L P GKA   T   ++  +     +EA+   V
Sbjct: 2   QVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEAKLAEV 61

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE- 170
              A   A     +    +  K G   ++FGS+  +D+ D + A    +V K  V LP  
Sbjct: 62  LAAANARAEKINALETVTIASKAGDEGKLFGSIGTRDIADAVTAA-GVEVAKSEVRLPNG 120

Query: 171 -IRETGEYIAQLKLHPEVTARIRLNVFA 197
            +R TGE+    ++H EV A++ +NV A
Sbjct: 121 VLRTTGEHEVSFQVHSEVFAKVIVNVVA 148

>1nkw_F 50S ribosomal protein L9; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB: 1nwx_F* 1nwy_F* 1sm1_F* 1xbp_F* 1pnu_F 1pny_F 1vor_I 1vou_I 1vow_I 1voy_I 1vp0_I Length = 146

 Score =  120 bits (304), Expect = 2e-35
 Identities = 53/147 (36%), Positives = 85/147 (57%), Gaps = 5/147 (3%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRV 111
           ++IL E    LGK G+++ VK G+ RN+L P G A   T   +K ++ +   IE  + + 
Sbjct: 2   QVILLEPS-RLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIEKRQAQE 60

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE- 170
           K  A+ LA     V A ++  + G+GK I+G+VT QDV + +      DVD++ +D+P+ 
Sbjct: 61  KAVAEDLASRLNGV-AVELSVRAGEGK-IYGAVTHQDVANSLDQL-GFDVDRRKIDMPKT 117

Query: 171 IRETGEYIAQLKLHPEVTARIRLNVFA 197
           ++E GEY    + HPEVT  ++L V A
Sbjct: 118 VKEVGEYDIAYRAHPEVTIPMKLVVHA 144

>2hba_A BL17, 50S ribosomal protein L9; NTL9, K12M, RNA binding protein; 1.25A {Geobacillus stearothermophilus} SCOP: d.100.1.1 PDB: 1cqu_A 2hbb_A 2hvf_A Length = 52

 Score = 54.2 bits (131), Expect = 9e-11
 Identities = 18/51 (35%), Positives = 31/51 (60%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEE 102
           K+I  +DV  +GKKG++ +V  G+  N+L   G A   TP  LK ++ +++
Sbjct: 2   KVIFLKDVKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQ 52

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	198
3bbo_J	197	Ribosomal protein L9; large ribosomal subunit, spi	100.0
1div_A	149	Ribosomal protein L9; rRNA-binding; 2.60A {Geobaci	100.0
1nkw_F	146	50S ribosomal protein L9; ribosome, large subunit,	100.0
3r8s_H	149	50S ribosomal protein L9; protein biosynthesis, RN	100.0
3v2d_I	148	50S ribosomal protein L9; ribosome associated inhi	100.0
2hba_A	52	BL17, 50S ribosomal protein L9; NTL9, K12M, RNA bi	99.94

>3bbo_J Ribosomal protein L9; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1

Probab=100.00  E-value=4.5e-66  Score=431.23  Aligned_cols=193  Identities=73%  Similarity=1.094  Sum_probs=143.0

Q ss_pred             ccccccccccCcc-ccccCCCcccccccCCCceEEEEeeecccCCceEEEEccccccccCCCcEEEeCCcccccccccCC
Q 029153            6 STAATLSWSSSSF-FQTFGNTVNESVKLPDKRSALLVLAQKKAKKTRKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMG   84 (198)
Q Consensus         6 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~a~kk~kk~mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~g   84 (198)
                      ||+++|||+|++| .++|.++.+++++++||+++++++++++++++|+|||++||+|||++||+|+|++|||||||||+|
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lvv~~~k~~~k~MkVILledV~~LGk~GdvV~Vk~GYARNfLiP~g   83 (197)
T 3bbo_J            4 STALSLSWSSSPCWSHSFNGGANETLKVSERRFNFEVVSQKKAKKLRKVILKEDVTDLGKQGQLLDVKAGFFRNFLLPTG   83 (197)
T ss_dssp             ----------------------------------------------CCCCCCSCSSSSCSSCCCSCCCSSSCCCCCTTTT
T ss_pred             hhhcccCCCcCcchhhccccCccccccCCCCceEEEEEeccccCCceEEEEcccccccCCCCCEEEEcCcceeehcccCC
Confidence            8999999999998 699999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeEEEEEecCCCCceeeccCHHHHHHHHHHhcCCceecc
Q 029153           85 KAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKK  164 (198)
Q Consensus        85 lA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l~i~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~  164 (198)
                      +|++||++|+++++.+++++++++++.+++|++++++|++.+.|+|.+++|++|+||||||++||+++|++++|++||++
T Consensus        84 lAv~AT~~nlk~~e~~~~~~e~~~~~~~~~A~~la~~L~~~~~v~i~~kaGe~GkLFGSVT~~dIa~al~~~~Gi~Idk~  163 (197)
T 3bbo_J           84 KAQLMTPLLLKELKMEDERIEAEKQRVKEEAQQLAMVFQTVGAFKVKRKGGKGKLIFGSVTAQDLVDIIKSQLQKDIDKR  163 (197)
T ss_dssp             CCCCCCHHHHHHHHTTTHHHHGGGTTTTHHHHTHHHHSSSCCCCBCCCCBCTTSSBSSCCSSHHHHGGGTSSSSCCCCST
T ss_pred             ceecCCHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhcCCceEEEEEEeCCCCcEecccCHHHHHHHHHHhhCCeeeee
Confidence            99999999999999999999998889999999999999996249999999999999999999999999999999999999


Q ss_pred             eecccCccceeeEEEEEEeCCCcEEEEEEEEeeC
Q 029153          165 IVDLPEIRETGEYIAQLKLHPEVTARIRLNVFAN  198 (198)
Q Consensus       165 ~I~l~~Ik~~G~y~V~V~L~~~v~a~i~v~V~~~  198 (198)
                      .|.||+||++|+|+|+|+||+||+++|+|+|.+|
T Consensus       164 ~I~L~~IK~lG~y~V~VkLh~eV~a~i~V~V~~~  197 (197)
T 3bbo_J          164 LVSLPEIRETGEYIAELKLHPDVTARVKINVFAN  197 (197)
T ss_dssp             TCCSCCCSSSSCEEECCCCBTTBCCCEEEBCCCC
T ss_pred             EEEeccccceEEEEEEEEECCCcEEEEEEEEEeC
Confidence            9999889999999999999999999999999875

>1div_A Ribosomal protein L9; rRNA-binding; 2.60A {Geobacillus stearothermophilus} SCOP: d.99.1.1 d.100.1.1 PDB: 1giy_K 1yl3_K 2b66_I 2b9n_I 2b9p_I 487d_K

Probab=100.00  E-value=1.7e-53  Score=342.11  Aligned_cols=146  Identities=31%  Similarity=0.522  Sum_probs=142.9

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeEEE
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKV  130 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l~i  130 (198)
                      |+|||++||++||++||+|+|++|||||||||+|+|++||++|+++++.+++++++++++.+++|++++++|++. .++|
T Consensus         1 MkVILl~dV~~LG~~GdvV~Vk~GYaRNfLiP~glA~~AT~~n~~~~e~~~~~~~~~~~~~~~~A~~~a~~L~~~-~v~i   79 (149)
T 1div_A            1 MKVIFLKDVKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQKEQRQAAEELANAKKLKEQLEKL-TVTI   79 (149)
T ss_dssp             CEEEECSBSSSBGGGTEEEECCTTHHHHTTTTTTSEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTC-CEEE
T ss_pred             CEEEEcccccccCCCCCEEEEcCCceeeeeccCCceecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-eEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999998 7999


Q ss_pred             EEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC-ccceeeEEEEEEeCCCcEEEEEEEEee
Q 029153          131 KRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPEVTARIRLNVFA  197 (198)
Q Consensus       131 ~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~-Ik~~G~y~V~V~L~~~v~a~i~v~V~~  197 (198)
                      .+++|++|+||||||++||+++|.+++|++||++.|.||+ ||++|+|+|+|+||++|+++|+|+|.+
T Consensus        80 ~~k~g~~gklfGSVt~~dIa~al~~~~g~~idk~~I~l~~~Ik~~G~~~v~vkLh~~V~a~i~v~V~~  147 (149)
T 1div_A           80 PAKAGEGGRLFGSITSKQIAESLQAQHGLKLDKRKIELADAIRALGYTNVPVKLHPEVTATLKVHVTE  147 (149)
T ss_dssp             EECBCGGGEEEEEECHHHHHHHHHHHHCCCCCGGGBCCCSCEEESEEEEEEEEEETTEEEEEEEEEEE
T ss_pred             EEEeCCCCcEEeecCHHHHHHHHHHhhCCeechheEECCCCccccEEEEEEEEECCCCEEEEEEEEEe
Confidence            9999999999999999999999999999999999999987 999999999999999999999999986

>1nkw_F 50S ribosomal protein L9; ribosome, large subunit, X- RAY structure, peptidyl-transferase, peptide bond formation; 3.10A {Deinococcus radiodurans} SCOP: i.1.1.2 PDB: 1nwx_F* 1nwy_F* 1sm1_F* 1xbp_F* 1pnu_F 1pny_F 1vor_I 1vou_I 1vow_I 1voy_I 1vp0_I

Probab=100.00  E-value=7e-52  Score=331.64  Aligned_cols=143  Identities=36%  Similarity=0.571  Sum_probs=139.9

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeEEE
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKV  130 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l~i  130 (198)
                      |+|||++| ++||++||+|+|++|||||||||+|+|++||++|+++++.+++++++++++.+++|++++++|++. .++|
T Consensus         1 MkVIL~~d-~~LG~~GdvV~Vk~GYaRNfLiP~glA~~AT~~n~~~~e~~~~~~~~~~~~~~~~A~~~a~~L~~~-~v~i   78 (146)
T 1nkw_F            1 MQVILLEP-SRLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIEKRQAQEKAVAEDLASRLNGV-AVEL   78 (146)
T ss_pred             CeEEEeec-CCCCCCCCEEEEcCcceehhcccCCceecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-EEEE
Confidence            89999999 999999999999999999999999999999999999999999999999999999999999999997 7999


Q ss_pred             EEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC-ccceeeEEEEEEeCCCcEEEEEEEEee
Q 029153          131 KRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPEVTARIRLNVFA  197 (198)
Q Consensus       131 ~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~-Ik~~G~y~V~V~L~~~v~a~i~v~V~~  197 (198)
                      .+++| +|+||||||++||+++|.++ |++||++.|.||+ |+++|+|+|+|+||++|+++|+|+|.+
T Consensus        79 ~~k~g-~gklfGSVt~~dIa~al~~~-g~~idk~~I~l~~~Ik~~G~~~v~vkLh~~V~a~i~v~V~~  144 (146)
T 1nkw_F           79 SVRAG-EGKIYGAVTHQDVANSLDQL-GFDVDRRKIDMPKTVKEVGEYDIAYRAHPEVTIPMKLVVHA  144 (146)
T ss_pred             EEEcC-CCceeeccCHHHHHHHHHHc-CCeechheEECCCcccccEEEEEEEEECCCCEEEEEEEEEe
Confidence            99999 99999999999999999999 9999999999987 999999999999999999999999986

>3r8s_H 50S ribosomal protein L9; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_F 1p86_F 1vs8_H 1vs6_H 2aw4_H 2awb_H 2gya_F 2gyc_F 1vt2_H 2i2v_H 2j28_H 2i2t_H* 2qao_H* 2qba_H* 2qbc_H* 2qbe_H 2qbg_H 2qbi_H* 2qbk_H* 2qov_H ...

Probab=100.00  E-value=9.7e-53  Score=337.63  Aligned_cols=146  Identities=33%  Similarity=0.501  Sum_probs=141.0

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeEEE
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKV  130 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l~i  130 (198)
                      |+|||++||++||++||+|+|++|||||||||+|+|++||++|+++++.+++++++++++.+++|++++++|++...++|
T Consensus         1 MkVIL~~dV~~LG~~GdvV~Vk~GYaRNfLiP~glA~~AT~~n~k~~e~~~~~~~~~~~~~~~~A~~~~~~L~~~~~v~i   80 (149)
T 3r8s_H            1 MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEAKLAEVLAAANARAEKINALETVTI   80 (149)
T ss_dssp             CCCEESSCCTTTCCSSCBCCCCHHHHTTTTSSSSSEECCCSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CeEEEecccccCCCCCCEEEEcCcceehhhccCCceeeCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcEEEE
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999536999


Q ss_pred             EEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC--ccceeeEEEEEEeCCCcEEEEEEEEee
Q 029153          131 KRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE--IRETGEYIAQLKLHPEVTARIRLNVFA  197 (198)
Q Consensus       131 ~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~--Ik~~G~y~V~V~L~~~v~a~i~v~V~~  197 (198)
                      .+++|++|+||||||++||+++|+++ |++||++.|.||+  ||++|+|+|+|+||++|+++|+|+|++
T Consensus        81 ~~k~g~~gklfGSVt~~dIa~al~~~-g~~idk~~I~l~~~pIk~~G~~~v~v~Lh~~V~a~i~v~V~~  148 (149)
T 3r8s_H           81 ASKAGDEGKLFGSIGTRDIADAVTAA-GVEVAKSEVRLPNGVLRTTGEHEVSFQVHSEVFAKVIVNVVA  148 (149)
T ss_dssp             EECBCTTSEEEEEECHHHHHHHHHTT-SCCCCTTSEECSSCCEEESEEEEEEECSSSSCCCCEEEEEEE
T ss_pred             EEEcCCCCceEcccCHHHHHHHHHHc-CCceehheEEcCCccccceEEEEEEEEECCCCEEEEEEEEEE
Confidence            99999999999999999999999988 9999999999974  999999999999999999999999986

>3v2d_I 50S ribosomal protein L9; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 2j03_I 2jl6_I 2jl8_I 2v47_I 2v49_I 2wdi_I 2wdj_I 2wdl_I 2wdn_I 2wh2_I 2x9s_I 2x9u_I 2xg0_I 2xg2_I 3hux_I 3huz_I 3i8f_K 3i8i_K 3i9c_K 3i9e_K ...

Probab=100.00  E-value=1.2e-52  Score=336.82  Aligned_cols=145  Identities=36%  Similarity=0.570  Sum_probs=141.4

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhccCCeEEE
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAEKKRVKEEAQQLALIFETVGAFKV  130 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~~~~~~~~~a~~~~~~L~~~~~l~i  130 (198)
                      |+|||++||+|||++||+|+|++|||||||||+|+|++||++|+++++.+++++++++++.+++|++++++|++. .++|
T Consensus         1 MkVILl~dV~~LG~~GdvV~Vk~GYaRNfLiP~g~A~~AT~~n~k~~e~~~~~~~~~~~~~~~~A~~~~~~L~~~-~v~i   79 (148)
T 3v2d_I            1 MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAERKAEAERLKEILENL-TLTI   79 (148)
T ss_dssp             CEEEESSCBTTTBSTTCEEECCHHHHHHTTGGGTSEEECCHHHHHHHHHHHHTHHHHHHHHHHHHHHHHHHSSSC-CEEE
T ss_pred             CeEEEccccccCCCCccEEEEcCCceehhhcccCchhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC-EEEE
Confidence            899999999999999999999999999999999999999999999999999999999999999999999999998 7999


Q ss_pred             EEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC-ccceeeEEEEEEeCCCcEEEEEEEEee
Q 029153          131 KRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPEVTARIRLNVFA  197 (198)
Q Consensus       131 ~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~-Ik~~G~y~V~V~L~~~v~a~i~v~V~~  197 (198)
                      .+++|++ +||||||++||+++|.+++|++||++.|.||+ ||++|+|+|+|+||++|+++|+|+|.+
T Consensus        80 ~~kag~~-kLfGSVt~~dIa~al~~~~g~~idk~~I~l~~pIk~~G~~~v~v~Lh~~V~a~i~v~V~~  146 (148)
T 3v2d_I           80 PVRAGET-KIYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYKPHPEVPIQLKVSVVA  146 (148)
T ss_dssp             ECCBSSS-SBSSCBCHHHHHHHHTTTTCCCCCTTSSCCSSCBCSCEEEEEECCSBTTBCCEEEEEEEC
T ss_pred             EEEcCCC-ccccccCHHHHHHHHHHhcCCCcchheEEcCchhhceEEEEEEEEECCCcEEEEEEEEEe
Confidence            9999999 99999999999999999889999999999997 999999999999999999999999985

>2hba_A BL17, 50S ribosomal protein L9; NTL9, K12M, RNA binding protein; 1.25A {Geobacillus stearothermophilus} SCOP: d.100.1.1 PDB: 1cqu_A 2hbb_A 2hvf_A

Probab=99.94  E-value=5.1e-28  Score=162.19  Aligned_cols=51  Identities=35%  Similarity=0.582  Sum_probs=49.3

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHH
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEE  101 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~  101 (198)
                      |+|||++||++||++||+|+|++|||||||||+|+|++||++|+++++.++
T Consensus         1 MkVIL~~dV~~lG~~Gdvv~V~~GYaRN~LiP~g~A~~AT~~n~~~~~~~~   51 (52)
T 2hba_A            1 MKVIFLKDVKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQK   51 (52)
T ss_dssp             CEEEESSCBTTTBCTTCEEECCHHHHHHTTTTTTSEEECCHHHHHHHHHHH
T ss_pred             CEEEEcccccccCcCCCEEEEcCCceehhhccCCceeeCCHHHHHHHHHhh
Confidence            899999999999999999999999999999999999999999999998765

---

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	198
d2gycf1	91	d.99.1.1 (F:59-149) Ribosomal protein L9 C-domain	2e-15
d2j01i1	91	d.99.1.1 (I:56-146) Ribosomal protein L9 C-domain	1e-14
d1diva1	94	d.99.1.1 (A:56-149) Ribosomal protein L9 C-domain	4e-13
d2gycf2	58	d.100.1.1 (F:1-58) Ribosomal protein L9 N-domain {	6e-13
d2j01i2	55	d.100.1.1 (I:1-55) Ribosomal protein L9 N-domain {	8e-12
d2hbaa1	52	d.100.1.1 (A:1-52) Ribosomal protein L9 N-domain {	7e-11

>d2gycf1 d.99.1.1 (F:59-149) Ribosomal protein L9 C-domain {Escherichia coli [TaxId: 562]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L9 C-domain
superfamily: Ribosomal protein L9 C-domain
family: Ribosomal protein L9 C-domain
domain: Ribosomal protein L9 C-domain
species: Escherichia coli [TaxId: 562]

 Score = 66.3 bits (162), Expect = 2e-15
 Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 3/89 (3%)

Query: 111 VKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE 170
           V   A   A     +    +  K G   ++FGS+  +D+ D + A    +V K  V LP 
Sbjct: 3   VLAAANARAEKINALETVTIASKAGDEGKLFGSIGTRDIADAVTAA-GVEVAKSEVRLPN 61

Query: 171 --IRETGEYIAQLKLHPEVTARIRLNVFA 197
             +R TGE+    ++H EV A++ +NV A
Sbjct: 62  GVLRTTGEHEVSFQVHSEVFAKVIVNVVA 90

>d2j01i1 d.99.1.1 (I:56-146) Ribosomal protein L9 C-domain {Thermus thermophilus [TaxId: 274]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L9 C-domain
superfamily: Ribosomal protein L9 C-domain
family: Ribosomal protein L9 C-domain
domain: Ribosomal protein L9 C-domain
species: Thermus thermophilus [TaxId: 274]

 Score = 64.5 bits (157), Expect = 1e-14
 Identities = 31/87 (35%), Positives = 51/87 (58%), Gaps = 3/87 (3%)

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLP-E 170
           K EA++L  I E +    +  + G+ K I+GSVTA+D+ + +  Q    +D K + L   
Sbjct: 7   KAEAERLKEILENL-TLTIPVRAGETK-IYGSVTAKDIAEALSRQHGVTIDPKRLALEKP 64

Query: 171 IRETGEYIAQLKLHPEVTARIRLNVFA 197
           I+E GEY+   K HPEV  +++++V A
Sbjct: 65  IKELGEYVLTYKPHPEVPIQLKVSVVA 91

>d1diva1 d.99.1.1 (A:56-149) Ribosomal protein L9 C-domain {Bacillus stearothermophilus [TaxId: 1422]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L9 C-domain
superfamily: Ribosomal protein L9 C-domain
family: Ribosomal protein L9 C-domain
domain: Ribosomal protein L9 C-domain
species: Bacillus stearothermophilus [TaxId: 1422]

 Score = 60.2 bits (146), Expect = 4e-13
 Identities = 27/85 (31%), Positives = 51/85 (60%), Gaps = 2/85 (2%)

Query: 112 KEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE- 170
              A++L    E +    +  K G+G ++FGS+T++ + + ++AQ    +DK+ ++L + 
Sbjct: 7   LANAKKLKEQLEKL-TVTIPAKAGEGGRLFGSITSKQIAESLQAQHGLKLDKRKIELADA 65

Query: 171 IRETGEYIAQLKLHPEVTARIRLNV 195
           IR  G     +KLHPEVTA ++++V
Sbjct: 66  IRALGYTNVPVKLHPEVTATLKVHV 90

>d2gycf2 d.100.1.1 (F:1-58) Ribosomal protein L9 N-domain {Escherichia coli [TaxId: 562]} Length = 58

class: Alpha and beta proteins (a+b)
fold: MbtH/L9 domain-like
superfamily: L9 N-domain-like
family: Ribosomal protein L9 N-domain
domain: Ribosomal protein L9 N-domain
species: Escherichia coli [TaxId: 562]

 Score = 58.8 bits (143), Expect = 6e-13
 Identities = 21/56 (37%), Positives = 33/56 (58%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAE 107
           ++IL + VA LG  G  ++VKAG+ RN+L P GKA   T   ++  +     +EA+
Sbjct: 2   QVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEAK 57

>d2j01i2 d.100.1.1 (I:1-55) Ribosomal protein L9 N-domain {Thermus thermophilus [TaxId: 274]} Length = 55

class: Alpha and beta proteins (a+b)
fold: MbtH/L9 domain-like
superfamily: L9 N-domain-like
family: Ribosomal protein L9 N-domain
domain: Ribosomal protein L9 N-domain
species: Thermus thermophilus [TaxId: 274]

 Score = 55.8 bits (135), Expect = 8e-12
 Identities = 26/56 (46%), Positives = 34/56 (60%), Gaps = 3/56 (5%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEAE 107
           K+IL E +  LG  GQ++DVK G+ RNYL P G A + T   LK +   E RI A+
Sbjct: 2   KVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKAL---EARIRAQ 54

>d2hbaa1 d.100.1.1 (A:1-52) Ribosomal protein L9 N-domain {Bacillus stearothermophilus [TaxId: 1422]} Length = 52

class: Alpha and beta proteins (a+b)
fold: MbtH/L9 domain-like
superfamily: L9 N-domain-like
family: Ribosomal protein L9 N-domain
domain: Ribosomal protein L9 N-domain
species: Bacillus stearothermophilus [TaxId: 1422]

 Score = 53.1 bits (128), Expect = 7e-11
 Identities = 18/51 (35%), Positives = 31/51 (60%)

Query: 52  KIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEE 102
           K+I  +DV  +GKKG++ +V  G+  N+L   G A   TP  LK ++ +++
Sbjct: 2   KVIFLKDVKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQ 52

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	198
d2gycf2	58	Ribosomal protein L9 N-domain {Escherichia coli [T	99.95
d2j01i2	55	Ribosomal protein L9 N-domain {Thermus thermophilu	99.94
d2hbaa1	52	Ribosomal protein L9 N-domain {Bacillus stearother	99.94
d1diva1	94	Ribosomal protein L9 C-domain {Bacillus stearother	99.92
d2gycf1	91	Ribosomal protein L9 C-domain {Escherichia coli [T	99.9
d2j01i1	91	Ribosomal protein L9 C-domain {Thermus thermophilu	99.88

>d2gycf2 d.100.1.1 (F:1-58) Ribosomal protein L9 N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: MbtH/L9 domain-like
superfamily: L9 N-domain-like
family: Ribosomal protein L9 N-domain
domain: Ribosomal protein L9 N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.95  E-value=1.3e-28  Score=166.98  Aligned_cols=56  Identities=38%  Similarity=0.567  Sum_probs=52.4

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHHHHHH
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEERIEA  106 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~~~e~  106 (198)
                      |+|||++||++||++||+|+|++|||||||||+|+|++||++|++.++.++++.++
T Consensus         1 MkVIL~~dv~~lG~~Gdvv~Vk~GyaRNyLiP~glA~~at~~n~~~~~~~~~~~e~   56 (58)
T d2gycf2           1 MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEA   56 (58)
T ss_dssp             CEEEECSSSSSCCCSCEEEECCTTTTTTTTTTTTSEEECCCHHHHHHHHHHHHHHH
T ss_pred             CeEEEccccccCCCCCCEEEEccchhHHHhccCCceecCCHHHHHHHHHHHHHHHh
Confidence            89999999999999999999999999999999999999999999999877765544

>d2j01i2 d.100.1.1 (I:1-55) Ribosomal protein L9 N-domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: MbtH/L9 domain-like
superfamily: L9 N-domain-like
family: Ribosomal protein L9 N-domain
domain: Ribosomal protein L9 N-domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.94  E-value=2.6e-28  Score=163.68  Aligned_cols=52  Identities=42%  Similarity=0.626  Sum_probs=49.2

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHHH
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEEE  102 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~~  102 (198)
                      |+|||++||++||++||||+|++|||||||||+|+|++||++|+++++.+++
T Consensus         1 MkVILl~dV~~lG~~Gdiv~Vk~GyaRN~LiP~~~A~~at~~nl~~~~~~~~   52 (55)
T d2j01i2           1 MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIR   52 (55)
T ss_dssp             CEEEECSCCSSSCSTTCEEECCHHHHHHTTTTTTSEEECCHHHHHHHHHHHH
T ss_pred             CEEEEccccccCCCCCCEEEEChhhHHHHhcccCchhhcCHHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999999999999875443

>d2hbaa1 d.100.1.1 (A:1-52) Ribosomal protein L9 N-domain {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a+b)
fold: MbtH/L9 domain-like
superfamily: L9 N-domain-like
family: Ribosomal protein L9 N-domain
domain: Ribosomal protein L9 N-domain
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.94  E-value=4.3e-28  Score=160.95  Aligned_cols=51  Identities=35%  Similarity=0.582  Sum_probs=49.1

Q ss_pred             eEEEEccccccccCCCcEEEeCCcccccccccCCceeccCHHHHHHhHHHH
Q 029153           51 RKIILKEDVAELGKKGQLLDVKAGFYRNYLHPMGKAQIVTPLLLKEMKMEE  101 (198)
Q Consensus        51 mkVIL~edV~~LGk~GdiV~Vk~GyARNfLiP~glA~~aT~~nlk~~~~~~  101 (198)
                      |+|||++||++||++||+|+|++|||||||||+|+|++||++|+++++.++
T Consensus         1 MkVIL~~dv~~lG~~GdiV~Vk~GyarN~LiP~g~A~~at~~n~~~~~~~k   51 (52)
T d2hbaa1           1 MKVIFLKDVKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQK   51 (52)
T ss_dssp             CEEEESSCBTTTBCTTCEEECCHHHHHHTTTTTTSEEECCHHHHHHHHHHH
T ss_pred             CEEEEcccccccCCCCCEEEEcccchhHhhccCCchhhCCHHHHHHHHHhh
Confidence            899999999999999999999999999999999999999999999987654

>d1diva1 d.99.1.1 (A:56-149) Ribosomal protein L9 C-domain {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L9 C-domain
superfamily: Ribosomal protein L9 C-domain
family: Ribosomal protein L9 C-domain
domain: Ribosomal protein L9 C-domain
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=99.92  E-value=1.7e-25  Score=164.87  Aligned_cols=89  Identities=30%  Similarity=0.524  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC-ccceeeEEEEEEeCCC
Q 029153          108 KKRVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPE  186 (198)
Q Consensus       108 ~~~~~~~a~~~~~~L~~~~~l~i~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~-Ik~~G~y~V~V~L~~~  186 (198)
                      .++++++|++++++|++. .|+|.+++|++|+||||||+.||+++|.+++|++||+++|.|++ ||++|+|.|+|+||++
T Consensus         3 ~~~~~~~A~~la~~L~~~-~i~i~~k~ge~GkLfGSVt~~dI~~~l~~~~g~~idk~~I~l~~~IK~~G~y~v~i~Lh~~   81 (94)
T d1diva1           3 AAEELANAKKLKEQLEKL-TVTIPAKAGEGGRLFGSITSKQIAESLQAQHGLKLDKRKIELADAIRALGYTNVPVKLHPE   81 (94)
T ss_dssp             HHHHHHHHHHHHHHHTTC-CEEEEECBCGGGEEEEEECHHHHHHHHHHHHCCCCCGGGBCCCSCEEESEEEEEEEEEETT
T ss_pred             HHHHHHHHHHHHHHhhCC-EEEEEEEECCCCeeEecccHHHHHHHHHHccCceecHHHhhccCchhhcEeEEEEEEecCC
Confidence            345668899999999998 79999999999999999999999999998889999999999997 9999999999999999


Q ss_pred             cEEEEEEEEee
Q 029153          187 VTARIRLNVFA  197 (198)
Q Consensus       187 v~a~i~v~V~~  197 (198)
                      |+|+|+|+|.+
T Consensus        82 V~a~i~v~V~~   92 (94)
T d1diva1          82 VTATLKVHVTE   92 (94)
T ss_dssp             EEEEEEEEEEE
T ss_pred             eEEEEEEEEEe
Confidence            99999999986

>d2gycf1 d.99.1.1 (F:59-149) Ribosomal protein L9 C-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L9 C-domain
superfamily: Ribosomal protein L9 C-domain
family: Ribosomal protein L9 C-domain
domain: Ribosomal protein L9 C-domain
species: Escherichia coli [TaxId: 562]

Probab=99.90  E-value=2.3e-24  Score=157.99  Aligned_cols=87  Identities=31%  Similarity=0.481  Sum_probs=81.6

Q ss_pred             HHHHHHHHHHHHhccCCeEEEEEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC--ccceeeEEEEEEeCCCc
Q 029153          110 RVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE--IRETGEYIAQLKLHPEV  187 (198)
Q Consensus       110 ~~~~~a~~~~~~L~~~~~l~i~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~--Ik~~G~y~V~V~L~~~v  187 (198)
                      +.++.|++++++|+++..++|.+++|++|+||||||++||+++|.++ |++||++.|.||+  ||++|+|+|+|+||++|
T Consensus         2 e~l~~A~~~a~kl~~~~~i~i~~kage~GkLfGSVt~~dI~~~l~~~-g~~Idk~~I~l~~~~IK~lG~y~v~i~Lh~~V   80 (91)
T d2gycf1           2 EVLAAANARAEKINALETVTIASKAGDEGKLFGSIGTRDIADAVTAA-GVEVAKSEVRLPNGVLRTTGEHEVSFQVHSEV   80 (91)
T ss_dssp             HHHHHHHHHHHHHTTTCCCEEEECEEETTEESSCCCHHHHHHHHTTT-TCCCCSTTSCCSSCCCCBSSEEEEEECSSSSC
T ss_pred             hHHHHHHHHHHHhcCCcEEEEEEEeCCCCeeeeecCHHHHHHHHHHc-CCcccHHHEECCCccccccEEEEEEEEEcCCE
Confidence            45688999999999974599999999999999999999999999987 9999999999985  99999999999999999


Q ss_pred             EEEEEEEEee
Q 029153          188 TARIRLNVFA  197 (198)
Q Consensus       188 ~a~i~v~V~~  197 (198)
                      +|+++|+|++
T Consensus        81 ~~~i~v~Vv~   90 (91)
T d2gycf1          81 FAKVIVNVVA   90 (91)
T ss_dssp             CEEEEEEEEE
T ss_pred             EEEEEEEEEE
Confidence            9999999986

>d2j01i1 d.99.1.1 (I:56-146) Ribosomal protein L9 C-domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a+b)
fold: Ribosomal protein L9 C-domain
superfamily: Ribosomal protein L9 C-domain
family: Ribosomal protein L9 C-domain
domain: Ribosomal protein L9 C-domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.88  E-value=4.4e-25  Score=161.75  Aligned_cols=86  Identities=35%  Similarity=0.607  Sum_probs=79.7

Q ss_pred             HHHHHHHHHHHHhccCCeEEEEEecCCCCceeeccCHHHHHHHHHHhcCCceecceecccC-ccceeeEEEEEEeCCCcE
Q 029153          110 RVKEEAQQLALIFETVGAFKVKRKGGKGKQIFGSVTAQDVVDIIKAQLQRDVDKKIVDLPE-IRETGEYIAQLKLHPEVT  188 (198)
Q Consensus       110 ~~~~~a~~~~~~L~~~~~l~i~~k~g~~gklfGSVt~~dI~~~l~~~~gi~Idk~~I~l~~-Ik~~G~y~V~V~L~~~v~  188 (198)
                      +.+++|++++++|++. .|+|.+++|+ |+||||||++||+++|.+++|++||+++|.|++ ||++|+|.|.|+||++|+
T Consensus         5 e~~~~A~~l~~~L~~~-~i~i~~k~~e-gkLfGSVt~~dIa~~l~~~~g~~Idk~~I~l~~~IK~~G~~~v~i~L~~~V~   82 (91)
T d2j01i1           5 ERKAEAERLKEILENL-TLTIPVRAGE-TKIYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYKPHPEVP   82 (91)
T ss_dssp             STTTTTHHHHHHHTTC-BCCCCCCBCS-SSBSSCCCHHHHHHHHHTTTCCCCCTTTTCCSSCCCSCEEEECCCSSSSCCC
T ss_pred             HHHHHHHHHHHHhcCC-EEEEEEEecC-CceecccCHHHHHHHHHhccCceechHHhhccccccceEEEEEEEEecCCEE
Confidence            3456789999999998 7999999995 899999999999999998889999999999986 999999999999999999


Q ss_pred             EEEEEEEee
Q 029153          189 ARIRLNVFA  197 (198)
Q Consensus       189 a~i~v~V~~  197 (198)
                      |+|+|+|++
T Consensus        83 a~i~v~VvA   91 (91)
T d2j01i1          83 IQLKVSVVA   91 (91)
T ss_dssp             CEEEECCC-
T ss_pred             EEEEEEEEC
Confidence            999999875