Citrus Sinensis ID: 027812

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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-------200-------210-------22
Protein Sequence
MHWMAFTQHGRNALRQITKESSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHccccccccEEEEEcccccccEEEEEccccccccccccEEEccccccccccccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccEEEEEEccccccccccccccccccEEEcccHHHHHHHHHHHcccccccccccccccccccEEEEEEEEcccccccccEEEEEEEEEEEEEc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHcHHHHHHHHHcccccEEEcHHHHHHHccEEEEEEEEEEccHHHccccccEEEEccccHHHcHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEcccccEEEEccccHHHHHHHHHHHccccEccccEEcccHHHHccEEEEEEEcccccccccccEEEEEEEEEEcc
Coil and Loop (DISEMBL)
MHWMAFTQHGRNALRQITKessdrvlhhpllyscqgvryRRLEVILTTKVdklgkagetvkvapgyfrnhlmpkllavpnIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRrfpnieklrsreskdvpielrspvtKEELVAEVSRQLSisiepenlhlpsplsafgeyevpmrlpkaiplpegkvqwtlnvkvrgk
Flexible Loop (DISEMBL)
MHWMAFTQHGRNALRQITKessdrvlhhpllyscqgvryrRLEVILTtkvdklgkagetvkVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRricqpveeeevkvirksednmsREFEKAArrlenarlvlrrfpnieklrsreskdvpielrspvtkeeLVAEVSRQLSisiepenlhlpsPLSAFGEYEVPMRLPkaiplpegkvqwtlnvkvrgk
Low Complexity Region (SEG)
MHWMAFTQHGRNALRQITKESSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK
Disordered region (IsUnstruct)
**********************DRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPV******************************LVLR*****************************************************AFGEYEVPMRLPKAIPLPEGKVQWTLNV*****
Disordered Region (DISOPRED)
*HW*A**QHGRNALRQITK*****VLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLI*********************************RRLENARLVLRRFPNIEKLR****KDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRG*
Disordered Region (DISEMBL)
*********GRNALRQITKESSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK
Disordered Region (DISPRO)
*HWMAFTQHGRNALRQITKESSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRG*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MHWMAFTQHGRNALRQITKESSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK
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	218	2.2.26 [Sep-21-2011]
Q3A320	148	50S ribosomal protein L9	yes	no	0.605	0.891	0.282	3e-09
A1AM21	151	50S ribosomal protein L9	yes	no	0.605	0.874	0.303	4e-09
Q72GV5	148	50S ribosomal protein L9	yes	no	0.637	0.939	0.299	7e-09
Q5SLQ1	148	50S ribosomal protein L9	yes	no	0.637	0.939	0.293	1e-08
P27151	148	50S ribosomal protein L9	yes	no	0.637	0.939	0.293	2e-08
Q2RM68	150	50S ribosomal protein L9	yes	no	0.600	0.873	0.299	3e-08
Q01QR6	148	50S ribosomal protein L9	yes	no	0.614	0.905	0.304	4e-08
C4ZDL0	148	50S ribosomal protein L9	yes	no	0.596	0.878	0.284	4e-08
Q3AG23	151	50S ribosomal protein L9	yes	no	0.610	0.880	0.277	6e-08
Q9ZEA4	171	50S ribosomal protein L9	yes	no	0.610	0.777	0.309	7e-08

>sp|Q3A320|RL9_PELCD 50S ribosomal protein L9 OS=Pelobacter carbinolicus (strain DSM 2380 / Gra Bd 1) GN=rplI PE=3 SV=1

 Score = 62.0 bits (149), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 46/163 (28%), Positives = 78/163 (47%), Gaps = 31/163 (19%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIREQRRICQP 97
           +++IL   VD LG+ G+ VKV PGY RN L+P+  AV     NI++  H  R+     Q 
Sbjct: 1   MDIILMENVDGLGQIGDLVKVKPGYARNFLIPQKFAVEANTRNIKELEHQKRQLEHKAQK 60

Query: 98  VEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVT 157
           V +   +V++   + ++ EF  A R  ++ +L                          VT
Sbjct: 61  VLQAS-EVVKAQIEKVTCEF--ALRAGDDGKLF-----------------------GSVT 94

Query: 158 KEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAI 200
             E+ A+++    + ++ + + L  P+ A GEYEV ++LP  I
Sbjct: 95  SMEIQAKLAES-GVEVDRKKIQLDEPIKALGEYEVAVKLPAGI 136

Binds to the 23S rRNA.
Pelobacter carbinolicus (strain DSM 2380 / Gra Bd 1) (taxid: 338963)

>sp|A1AM21|RL9_PELPD 50S ribosomal protein L9 OS=Pelobacter propionicus (strain DSM 2379) GN=rplI PE=3 SV=1

 Score = 61.6 bits (148), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 47/155 (30%), Positives = 74/155 (47%), Gaps = 23/155 (14%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEE 101
           ++VIL   +D LG  G+ VKVAPGY RN+L+PK LAV   EK A  +   +R        
Sbjct: 1   MKVILKENIDTLGHIGDIVKVAPGYARNYLLPKGLAVEATEKNAKALEHVKR-------- 52

Query: 102 EVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEEL 161
                      M+   +K     + A+L+L +   I  +       V  +L   VT  E+
Sbjct: 53  ----------QMAYRKDKVT---QAAKLLLAKLEGIT-VELVHQAGVEGKLFGSVTNMEI 98

Query: 162 VAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRL 196
            A + ++  + I+ + + L  P+   GEY VP++L
Sbjct: 99  AAFL-KEKGVDIDRKKIALAEPIKQVGEYSVPVKL 132

Binds to the 23S rRNA.

Pelobacter propionicus (strain DSM 2379) (taxid: 338966)

>sp|Q72GV5|RL9_THET2 50S ribosomal protein L9 OS=Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) GN=rplI PE=1 SV=1

 Score = 60.8 bits (146), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 53/177 (29%), Positives = 86/177 (48%), Gaps = 38/177 (21%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60

Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+E    +E       LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSV 92

Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 213
           T +++   +SRQ  I+I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 93  TAKDIAEALSRQHGITIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

Binds to the 23S rRNA.

Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039) (taxid: 262724)

>sp|Q5SLQ1|RL9_THET8 50S ribosomal protein L9 OS=Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) GN=rplI PE=1 SV=1

 Score = 60.1 bits (144), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 52/177 (29%), Positives = 86/177 (48%), Gaps = 38/177 (21%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60

Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+E    +E       LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSV 92

Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 213
           T +++   +SRQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 93  TAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

Binds to the 23S rRNA. Extends more that 50 Angstroms beyond the surface of the 70S ribosome.

Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) (taxid: 300852)

>sp|P27151|RL9_THETH 50S ribosomal protein L9 OS=Thermus thermophilus GN=rplI PE=1 SV=3

 Score = 59.7 bits (143), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 52/177 (29%), Positives = 87/177 (49%), Gaps = 38/177 (21%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60

Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+      E E+  + LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKA------EAERLKKILENLTLTI-------PVRAGETK-----IYGSV 92

Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 213
           T +++   +SRQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 93  TAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

Binds to the 23S rRNA.

Thermus thermophilus (taxid: 274)

>sp|Q2RM68|RL9_MOOTA 50S ribosomal protein L9 OS=Moorella thermoacetica (strain ATCC 39073) GN=rplI PE=3 SV=1

 Score = 58.9 bits (141), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 47/157 (29%), Positives = 75/157 (47%), Gaps = 26/157 (16%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV-PNIEKFAHLIREQRRICQPVEE 100
           ++VILT  V KLG  G  V+V+ GY RN+L+P+ LAV     +   L  E++R       
Sbjct: 1   MKVILTADVAKLGNRGTLVEVSEGYARNYLLPRGLAVEATAGRLKELDLEKKR------- 53

Query: 101 EEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPN-IEKLRSRESKDVPIELRSPVTKE 159
                 R+ ++N         + LENAR    R    + K+ +R  +    +L   VT +
Sbjct: 54  ------REKKEN---------QELENARRQAARLDGAVVKITTRAGE--TGKLFGSVTNK 96

Query: 160 ELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRL 196
           E+   +     IS++   + L  P+ A G YEV ++L
Sbjct: 97  EIAEAIKNTFQISLDRRKIDLKEPIKALGSYEVTLKL 133

Binds to the 23S rRNA.

Moorella thermoacetica (strain ATCC 39073) (taxid: 264732)

>sp|Q01QR6|RL9_SOLUE 50S ribosomal protein L9 OS=Solibacter usitatus (strain Ellin6076) GN=rplI PE=3 SV=1

 Score = 58.2 bits (139), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 49/161 (30%), Positives = 77/161 (47%), Gaps = 27/161 (16%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEE 101
           +EVIL   ++ LG  G+ VKVAPGY RN L+PK +AV   E         R+I   VE+E
Sbjct: 1   MEVILREDIENLGTRGQLVKVAPGYARNFLLPKRMAVAATEA-------NRKI---VEQE 50

Query: 102 EVKVIRKSEDNMSREFEKAARRLEN--ARLVLRRFPNIEKLRSRESKDVPIELRSPVTKE 159
               +RK E  +  E E+ A+ +     R+  +   N +   S  SKD+   L +     
Sbjct: 51  RQAHLRK-ETKIKGEAEELAKIMTGVTVRISQKAGENDQLFGSVTSKDIADALTAQ---- 105

Query: 160 ELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAI 200
                     + +I+   + L  P+   GE+++P+RL K +
Sbjct: 106 ----------NYNIDRRKIQLDEPIKTLGEFKIPVRLYKDV 136

Binds to the 23S rRNA.

Solibacter usitatus (strain Ellin6076) (taxid: 234267)

>sp|C4ZDL0|RL9_EUBR3 50S ribosomal protein L9 OS=Eubacterium rectale (strain ATCC 33656 / VPI 0990) GN=rplI PE=3 SV=1

 Score = 58.2 bits (139), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 45/158 (28%), Positives = 74/158 (46%), Gaps = 28/158 (17%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEE 101
           ++VIL   V  LGK GE V V+ GY RN+++PK L V    K  + ++ Q +    V +E
Sbjct: 1   MKVILLQDVKPLGKKGEIVNVSDGYARNNIIPKKLGVEATPKNLNDLKLQNQHADKVAQE 60

Query: 102 EVKVIRKSEDNMSREFEKA---ARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTK 158
                          +E A   A+ +EN ++V+       KLRS E           ++ 
Sbjct: 61  --------------NYESALALAKVVENTKVVV-------KLRSGEGG----RTFGSIST 95

Query: 159 EELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRL 196
           +E+ A    Q  + ++ + + L   + A G YEVP++L
Sbjct: 96  KEISAAAKEQHGLELDKKKMQLNESIKALGNYEVPVKL 133

Binds to the 23S rRNA.

Eubacterium rectale (strain ATCC 33656 / VPI 0990) (taxid: 515619)

>sp|Q3AG23|RL9_CARHZ 50S ribosomal protein L9 OS=Carboxydothermus hydrogenoformans (strain Z-2901 / DSM 6008) GN=rplI PE=3 SV=1

 Score = 57.8 bits (138), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 43/155 (27%), Positives = 73/155 (47%), Gaps = 22/155 (14%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEE 101
           ++VIL T+V KLGK G+ V+VA GY RN+L+ K LAV   E     +++Q+      +E+
Sbjct: 1   MKVILLTEVKKLGKKGDVVEVAEGYGRNYLIAKGLAVEATEGKLKELQQQKEAANRRKEK 60

Query: 102 EVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEEL 161
           E                     L+ AR +  +  NIE +   +  +   +L   +T +++
Sbjct: 61  E---------------------LQEARSLAEKLKNIELVLYGKGGENG-KLFGAITSKDI 98

Query: 162 VAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRL 196
              + +   I I+   L L   + A G Y V ++L
Sbjct: 99  AEALEKNYQIKIDKRKLDLKENIKALGVYTVEVKL 133

Binds to the 23S rRNA.

Carboxydothermus hydrogenoformans (strain Z-2901 / DSM 6008) (taxid: 246194)

>sp|Q9ZEA4|RL9_RICPR 50S ribosomal protein L9 OS=Rickettsia prowazekii (strain Madrid E) GN=rplI PE=3 SV=1

 Score = 57.4 bits (137), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 48/155 (30%), Positives = 80/155 (51%), Gaps = 22/155 (14%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEE 101
           +EVIL   V KLGK G+ +KVA G+ RN+L+P+ LA+   +    LI +Q+       EE
Sbjct: 1   MEVILIKPVRKLGKIGDILKVADGFGRNYLLPQKLAIRATKSNKELIVKQKYEF----EE 56

Query: 102 EVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEEL 161
           + K +R+       E EK    +++ +LV  R         + S D   +L   VT +++
Sbjct: 57  KDKQVRE-------EVEKINTIIKDQQLVFIR---------QTSDDC--KLFGSVTNKDI 98

Query: 162 VAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRL 196
             ++S+ +S +I   N+ L   + + G Y V +RL
Sbjct: 99  ADKLSKNISYNISHSNIILDKQIKSTGIYTVEIRL 133

Binds to the 23S rRNA.

Rickettsia prowazekii (strain Madrid E) (taxid: 272947)

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	218
356558761	222	PREDICTED: 50S ribosomal protein L9-like	0.986	0.968	0.626	3e-76
255634861	222	unknown [Glycine max]	0.986	0.968	0.621	8e-76
356517474	222	PREDICTED: 50S ribosomal protein L9-like	0.986	0.968	0.621	1e-75
356571485	222	PREDICTED: 50S ribosomal protein L9-like	0.986	0.968	0.621	2e-75
388493818	222	unknown [Lotus japonicus]	0.986	0.968	0.626	8e-75
224118314	219	predicted protein [Populus trichocarpa]	0.981	0.977	0.659	3e-74
224146953	219	predicted protein [Populus trichocarpa]	0.981	0.977	0.654	5e-74
224115542	219	predicted protein [Populus trichocarpa]	0.981	0.977	0.654	7e-74
225455342	217	PREDICTED: 50S ribosomal protein L9 [Vit	0.977	0.981	0.657	5e-71
449456985	218	PREDICTED: 50S ribosomal protein L9-like	0.981	0.981	0.652	1e-70

>gi|356558761|ref|XP_003547671.1| PREDICTED: 50S ribosomal protein L9-like [Glycine max]

 Score =  290 bits (741), Expect = 3e-76,   Method: Compositional matrix adjust.
 Identities = 139/222 (62%), Positives = 182/222 (81%), Gaps = 7/222 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLYSCQGVRY-RRLEVILTTKVDKLGKAGET 59
           M + Q GR+ +RQI +    S D V+ +PLLY+ QG+RY R+L+VILTT +D LGKAG+T
Sbjct: 1   MGYLQFGRHGVRQIIRFRDASYDNVVVNPLLYASQGLRYKRKLQVILTTDIDNLGKAGDT 60

Query: 60  VKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEE---EEVKVIRKSEDNMSRE 116
           VKVAPGYFRNHLMPKLLA PNI+KFAHL+ EQR+I QP EE   E+V ++++S+++M +E
Sbjct: 61  VKVAPGYFRNHLMPKLLAFPNIDKFAHLLNEQRKIYQPTEEEKQEDVTLVKESKEDMMKE 120

Query: 117 FEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPE 176
           +EKAA RL+ A+LVLRR  N++K +SRESKD P+ELR PVTK+ LVAEVSRQ+ +++ P+
Sbjct: 121 YEKAALRLDKAKLVLRRLINVQKAKSRESKDDPLELRYPVTKDILVAEVSRQICVNVAPD 180

Query: 177 NLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           NLHLPSPL+  GEYEVP+RLP++IPLPEGKV W+L VK+R K
Sbjct: 181 NLHLPSPLATLGEYEVPLRLPRSIPLPEGKVNWSLKVKIRSK 222

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255634861|gb|ACU17789.1| unknown [Glycine max]

 Score =  288 bits (738), Expect = 8e-76,   Method: Compositional matrix adjust.
 Identities = 138/222 (62%), Positives = 184/222 (82%), Gaps = 7/222 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLYSCQGVRY-RRLEVILTTKVDKLGKAGET 59
           M + Q GR+++RQ+ +    S D V+ +PLLY+ QG+RY R+L+VILTT +DKLGKAG+T
Sbjct: 1   MGYLQFGRHSVRQVLRFRDASCDNVVVNPLLYASQGLRYKRKLQVILTTDIDKLGKAGDT 60

Query: 60  VKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEE---EEVKVIRKSEDNMSRE 116
           VKVAPGYFRNHLMPKLLA PNI+KFA+L+ EQR+I QP EE   E+V ++++S+++M +E
Sbjct: 61  VKVAPGYFRNHLMPKLLAFPNIDKFAYLLNEQRKIYQPTEEEKQEDVTLVKESKEDMMKE 120

Query: 117 FEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPE 176
           +EKAA RL+ A+LVLRR  N++K +SRESK+ P+ELR PVTK+ LVAEV+RQL +++ P+
Sbjct: 121 YEKAALRLDKAQLVLRRLINVQKAKSRESKEDPLELRYPVTKDTLVAEVARQLCVNVAPD 180

Query: 177 NLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           NLHLPSPLS  GEYEVP+R+P++IPLPEGKV W+L VKVR K
Sbjct: 181 NLHLPSPLSTLGEYEVPLRIPRSIPLPEGKVNWSLKVKVRSK 222

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517474|ref|XP_003527412.1| PREDICTED: 50S ribosomal protein L9-like isoform 1 [Glycine max] gi|356517476|ref|XP_003527413.1| PREDICTED: 50S ribosomal protein L9-like isoform 2 [Glycine max]

 Score =  288 bits (737), Expect = 1e-75,   Method: Compositional matrix adjust.
 Identities = 138/222 (62%), Positives = 183/222 (82%), Gaps = 7/222 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLYSCQGVRY-RRLEVILTTKVDKLGKAGET 59
           M + Q GR+ +RQ+ +    S D V+ +PLLY+ QG+RY R+L+VILTT +DKLGKAG+T
Sbjct: 1   MGYLQFGRHGVRQVLRFRDASCDNVVVNPLLYASQGLRYKRKLQVILTTDIDKLGKAGDT 60

Query: 60  VKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEE---EEVKVIRKSEDNMSRE 116
           VKVAPGYFRNHLMPKLLA PNI+KFA+L+ EQR+I QP EE   E+V ++++S+++M +E
Sbjct: 61  VKVAPGYFRNHLMPKLLAFPNIDKFAYLLNEQRKIYQPTEEEKQEDVTLVKESKEDMMKE 120

Query: 117 FEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPE 176
           +EKAA RL+ A+LVLRR  N++K +SRESK+ P+ELR PVTK+ LVAEV+RQL +++ P+
Sbjct: 121 YEKAALRLDKAQLVLRRLINVQKAKSRESKEDPLELRYPVTKDTLVAEVARQLCVNVAPD 180

Query: 177 NLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           NLHLPSPLS  GEYEVP+R+P++IPLPEGKV W+L VKVR K
Sbjct: 181 NLHLPSPLSTLGEYEVPLRIPRSIPLPEGKVNWSLKVKVRSK 222

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356571485|ref|XP_003553907.1| PREDICTED: 50S ribosomal protein L9-like [Glycine max]

 Score =  287 bits (734), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 138/222 (62%), Positives = 183/222 (82%), Gaps = 7/222 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLYSCQGVRY-RRLEVILTTKVDKLGKAGET 59
           M + Q GR+ ++QI +    S D V+ +PLLY+ QG+RY R+L+VILTT +DKLGKAG+T
Sbjct: 1   MGYLQFGRHGVKQIIRFRDASYDNVVVNPLLYASQGLRYKRKLQVILTTDIDKLGKAGDT 60

Query: 60  VKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEE---EEVKVIRKSEDNMSRE 116
           VKVAPGYFRNHLMPKLLA PNI+KFA+L+ EQR+I QP EE   E+V ++++S+++M +E
Sbjct: 61  VKVAPGYFRNHLMPKLLAFPNIDKFAYLLNEQRKIYQPTEEENQEDVTLVKESKEDMMKE 120

Query: 117 FEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPE 176
           +EKAA RL+ A+LVLRR  N++K +SRESK+ P+ELR PVTK+ LVAEV+RQL +++ P+
Sbjct: 121 YEKAALRLDKAKLVLRRLINVQKAKSRESKEDPLELRYPVTKDILVAEVARQLCVNVAPD 180

Query: 177 NLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           NLHLPSPLS  GEYEVP+RLP++IPLPEGKV W+L VK+R K
Sbjct: 181 NLHLPSPLSTLGEYEVPLRLPRSIPLPEGKVNWSLKVKIRSK 222

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388493818|gb|AFK34975.1| unknown [Lotus japonicus]

 Score =  285 bits (730), Expect = 8e-75,   Method: Compositional matrix adjust.
 Identities = 139/222 (62%), Positives = 182/222 (81%), Gaps = 7/222 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLYSCQGVRY-RRLEVILTTKVDKLGKAGET 59
           M + Q+GR  +RQI +    SS+  + +PLLY+ QG+RY R+L+VILTT +DKLGKAG+T
Sbjct: 1   MGYLQYGRLGVRQIIRFRDSSSNSAVVNPLLYASQGLRYNRKLQVILTTDIDKLGKAGDT 60

Query: 60  VKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEE---EEVKVIRKSEDNMSRE 116
           VKVAPGYFRNHLMPKLLAVPNI+KFA+L+ EQR+I QP EE   E+V V+++S++++ +E
Sbjct: 61  VKVAPGYFRNHLMPKLLAVPNIDKFAYLLTEQRKIYQPTEEEKQEDVTVVKESKEDLMKE 120

Query: 117 FEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPE 176
           +E AA RL+ A+LVLRR  +++K ++R SKD P+E+R PVTKE LVAEV+RQL ++I PE
Sbjct: 121 YEAAALRLDKAKLVLRRLIDVKKAKARASKDEPLEIRLPVTKEVLVAEVARQLCVNIAPE 180

Query: 177 NLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           NLHLPSPLS  GEYEVP+RLP++IPLPEGKV W+L VKVR K
Sbjct: 181 NLHLPSPLSTVGEYEVPLRLPRSIPLPEGKVNWSLQVKVRSK 222

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224118314|ref|XP_002317788.1| predicted protein [Populus trichocarpa] gi|222858461|gb|EEE96008.1| predicted protein [Populus trichocarpa]

 Score =  283 bits (724), Expect = 3e-74,   Method: Compositional matrix adjust.
 Identities = 145/220 (65%), Positives = 182/220 (82%), Gaps = 6/220 (2%)

Query: 4   MAFTQHGRNALRQI-----TKESSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGE 58
           MA  QH RNALR+I     + +SSD  +H PLLY+CQGVRY++LEVILTT ++KLGKAG+
Sbjct: 1   MACIQHSRNALRRIIAKETSLKSSDGAIH-PLLYACQGVRYKKLEVILTTSIEKLGKAGQ 59

Query: 59  TVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFE 118
           TVKVAPG+FRNHLMPKLLAVPNIEKFAHLIREQR+I QP EEEEVKV++++ ++  +E+E
Sbjct: 60  TVKVAPGHFRNHLMPKLLAVPNIEKFAHLIREQRKIYQPEEEEEVKVVKETMEDKMKEYE 119

Query: 119 KAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENL 178
            AA+R   ARL  R   N  K RSRESKD PIE+ SPVTK++++ EV+RQ ++ IEP+N+
Sbjct: 120 TAAKRFVKARLAFRVGINTAKFRSRESKDDPIEILSPVTKDDILKEVTRQFNVQIEPDNV 179

Query: 179 HLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           HLPSPL+A GE+EVP+R PK+IPLPEGKV+WTL VK+RGK
Sbjct: 180 HLPSPLTALGEFEVPLRFPKSIPLPEGKVKWTLQVKIRGK 219

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146953|ref|XP_002336372.1| predicted protein [Populus trichocarpa] gi|222834835|gb|EEE73284.1| predicted protein [Populus trichocarpa]

 Score =  283 bits (723), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 144/220 (65%), Positives = 183/220 (83%), Gaps = 6/220 (2%)

Query: 4   MAFTQHGRNALRQI-----TKESSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGE 58
           MA  QH RNALR+I     + +SSD  +H PLLY+CQGVRY++LEVILTT ++KLGKAG+
Sbjct: 1   MACIQHSRNALRRIIAKETSLKSSDGAIH-PLLYACQGVRYKKLEVILTTSIEKLGKAGQ 59

Query: 59  TVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFE 118
           TVKVAPG+FRNHLMPKLLAVPNIEKFAHLIREQR+I QP EEEEVKV++++ ++  +E+E
Sbjct: 60  TVKVAPGHFRNHLMPKLLAVPNIEKFAHLIREQRKIYQPEEEEEVKVVKETMEDKMKEYE 119

Query: 119 KAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENL 178
            AA+RL  ARL  R   N  K R+RESKD PIE+ SPVTK++++ EV+RQ ++ IEP+N+
Sbjct: 120 TAAKRLVKARLAFRVGINTAKFRARESKDDPIEILSPVTKDDILKEVTRQFNVQIEPDNV 179

Query: 179 HLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           HLPSPL+A GE+EVP+R PK+IP+PEGKV+WTL VK+RGK
Sbjct: 180 HLPSPLTALGEFEVPLRFPKSIPMPEGKVKWTLKVKIRGK 219

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224115542|ref|XP_002332160.1| predicted protein [Populus trichocarpa] gi|222875210|gb|EEF12341.1| predicted protein [Populus trichocarpa]

 Score =  282 bits (721), Expect = 7e-74,   Method: Compositional matrix adjust.
 Identities = 144/220 (65%), Positives = 182/220 (82%), Gaps = 6/220 (2%)

Query: 4   MAFTQHGRNALRQITKE-----SSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGE 58
           MA  QH RNALR+I  +     SSD  +H PLLY+CQGVRY++LEVILTT ++KLGKAG+
Sbjct: 1   MACIQHSRNALRRIVAKETNLKSSDGAIH-PLLYACQGVRYKKLEVILTTSIEKLGKAGQ 59

Query: 59  TVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFE 118
           TVKVAPG+FRNHLMPKLLAVPNIEKFAHLIREQR+I QP EEEEVKV++++ ++  +E+E
Sbjct: 60  TVKVAPGHFRNHLMPKLLAVPNIEKFAHLIREQRKIYQPEEEEEVKVVKETMEDKMKEYE 119

Query: 119 KAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENL 178
            AA+RL  A+L  R   N  K R+RESKD PIE+ SPVTK++++ EV+RQ ++ IEP+N+
Sbjct: 120 TAAKRLVKAQLAFRVGINTAKFRARESKDDPIEILSPVTKDDILKEVTRQFNVQIEPDNV 179

Query: 179 HLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           HLPSPL+A GE+EVP+R PK+IPLPEGKV+WTL VK+RGK
Sbjct: 180 HLPSPLTALGEFEVPLRFPKSIPLPEGKVKWTLKVKIRGK 219

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225455342|ref|XP_002276719.1| PREDICTED: 50S ribosomal protein L9 [Vitis vinifera] gi|302143920|emb|CBI23025.3| unnamed protein product [Vitis vinifera]

 Score =  273 bits (697), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 144/219 (65%), Positives = 178/219 (81%), Gaps = 6/219 (2%)

Query: 4   MAFTQHGRNALRQITKE----SSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGET 59
           MA+ Q+GRN LR I K+     SDRV++ PLLY CQGVRYR+LEVILTT +DKLGKAGET
Sbjct: 1   MAYMQYGRNILRHIVKDVGSQCSDRVVN-PLLYVCQGVRYRKLEVILTTNIDKLGKAGET 59

Query: 60  VKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEK 119
           VKVAPGYFRNHLMPKLLAVPNIEKFA+LI EQR++ QP E EEVK + ++E++  +E+  
Sbjct: 60  VKVAPGYFRNHLMPKLLAVPNIEKFAYLISEQRKLYQPEEVEEVKEVVETEEDKMKEYHT 119

Query: 120 AARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLH 179
           AA+RLE  R+  RRF   EK +    K  P+ELRSP+TK++LVAEV+RQLS+ +EPE+LH
Sbjct: 120 AAKRLETTRVAFRRFIKFEKGQPVR-KGEPLELRSPITKDDLVAEVARQLSVQVEPESLH 178

Query: 180 LPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           LPSPL+  GE+EVP+RLPK+IPLPEGKV+WTL VK+R K
Sbjct: 179 LPSPLTHVGEFEVPLRLPKSIPLPEGKVRWTLKVKIRCK 217

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449456985|ref|XP_004146229.1| PREDICTED: 50S ribosomal protein L9-like [Cucumis sativus] gi|449517603|ref|XP_004165835.1| PREDICTED: 50S ribosomal protein L9-like [Cucumis sativus]

 Score =  271 bits (693), Expect = 1e-70,   Method: Compositional matrix adjust.
 Identities = 143/219 (65%), Positives = 181/219 (82%), Gaps = 5/219 (2%)

Query: 4   MAFTQHGRNALRQITKES----SDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGET 59
           MA  Q+ RNALR I K++    SD+++  PLL+S QGVR+R+LEVILTT ++KLGKAGET
Sbjct: 1   MACIQYCRNALRNIIKDTKLHPSDQMMQ-PLLFSGQGVRHRKLEVILTTSIEKLGKAGET 59

Query: 60  VKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEK 119
           VKVAPGYFRNHLMPK+LAVPNIEK+A+LI+EQRRI QPVEEE VKV+  ++++  +E+EK
Sbjct: 60  VKVAPGYFRNHLMPKILAVPNIEKYAYLIKEQRRIYQPVEEEVVKVVTLTKEDKMKEYEK 119

Query: 120 AARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLH 179
           AARRL++ +LVLRR  + EK R+R +KD P+ L+S VT +++VAEV+RQ S+ I PENL+
Sbjct: 120 AARRLDSKQLVLRRLIDKEKFRTRAAKDEPLALQSSVTVDDIVAEVARQFSVQIAPENLN 179

Query: 180 LPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 218
           L SPLSA GEYEVP+R PK+IPLPEGKV WTL VKVR K
Sbjct: 180 LASPLSACGEYEVPLRFPKSIPLPEGKVYWTLKVKVRSK 218

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	218
TAIR|locus:2168377	221	AT5G53070 [Arabidopsis thalian	0.981	0.968	0.581	6.5e-67
TIGR_CMR|CHY_0039	151	CHY_0039 "ribosomal protein L9	0.614	0.887	0.284	1.4e-07
TIGR_CMR|GSU_0668	148	GSU_0668 "ribosomal protein L9	0.600	0.885	0.266	8.9e-07
TIGR_CMR|NSE_0060	160	NSE_0060 "ribosomal protein L9	0.371	0.506	0.289	2.2e-05
TIGR_CMR|CJE_0766	147	CJE_0766 "ribosomal protein L9	0.426	0.632	0.303	0.00011
TIGR_CMR|CBU_0867	152	CBU_0867 "ribosomal protein L9	0.610	0.875	0.289	0.00025
POMBASE|SPCC777.17c	101	SPCC777.17c "mitochondrial rib	0.206	0.445	0.416	0.00062

TAIR|locus:2168377 AT5G53070 [Arabidopsis thaliana (taxid:3702)]

 Score = 680 (244.4 bits), Expect = 6.5e-67, P = 6.5e-67
 Identities = 128/220 (58%), Positives = 172/220 (78%)

Query:     4 MAFTQHGRNALRQITKESS-----DRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGE 58
             MA+    RN +R +    +     +  +HHPLL++CQGVRYR+LEVILTT ++KLGKAGE
Sbjct:     1 MAYVGQSRNVIRHVVSRGTAYHKYENAIHHPLLFACQGVRYRKLEVILTTGIEKLGKAGE 60

Query:    59 TVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVE-EEEVKVIRKSEDNMSREF 117
             TVKVAPGYFRNHLMPKLLAVPNI+K+A+LIREQR++    E +EEVKV+ K+ +  ++E+
Sbjct:    61 TVKVAPGYFRNHLMPKLLAVPNIDKYAYLIREQRKMYNHEEVKEEVKVVHKTSEVQTKEY 120

Query:   118 EKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPEN 177
             EKAA+RL NA LVLR+  + EK ++R SKD   ++++P+TKEE+V+EV+RQL + I+P+N
Sbjct:   121 EKAAKRLANANLVLRKLVDKEKFKNRSSKDDKPDVQTPITKEEIVSEVARQLCVKIDPDN 180

Query:   178 LHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRG 217
             + L +PL  FGEYEVP++ PK IPLP+G VQW L VKVRG
Sbjct:   181 VVLAAPLETFGEYEVPLKFPKTIPLPQGTVQWILKVKVRG 220

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

GO:0009507 "chloroplast" evidence=ISM

GO:0042254 "ribosome biogenesis" evidence=ISS

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

 Score = 122 (48.0 bits), Expect = 1.4e-07, P = 1.4e-07
 Identities = 39/137 (28%), Positives = 67/137 (48%)

Query:    42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEE 101
             ++VIL T+V KLGK G+ V+VA GY RN+L+ K LAV   E     +++Q+      +E+
Sbjct:     1 MKVILLTEVKKLGKKGDVVEVAEGYGRNYLIAKGLAVEATEGKLKELQQQKEAANRRKEK 60

Query:   102 EVKVIRKSEDNMSR-EFEKAARRLENARLVLRRFPNIEKLRSRESK-DVPIELRSPVTKE 159
             E++  R   + +   E     +  EN +L      + +   + E    + I+ R    KE
Sbjct:    61 ELQEARSLAEKLKNIELVLYGKGGENGKL-FGAITSKDIAEALEKNYQIKIDKRKLDLKE 119

Query:   160 ELVAEVSRQLSISIEPE 176
              + A     + + + PE
Sbjct:   120 NIKALGVYTVEVKLHPE 136

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

GO:0006412 "translation" evidence=ISS

TIGR_CMR|GSU_0668 GSU_0668 "ribosomal protein L9" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 115 (45.5 bits), Expect = 8.9e-07, P = 8.9e-07
 Identities = 37/139 (26%), Positives = 65/139 (46%)

Query:    42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEE- 100
             ++VIL   V+ LG  G+ VKVAPGY RN+L+P+  A+   EK A  +   +R  +     
Sbjct:     1 MKVILKENVENLGHIGDIVKVAPGYARNYLIPRNFAIEATEKNAKALEHAKRQLEYKRNK 60

Query:   101 --EEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTK 158
               E+ +++    + +S      A   E  +L      N+E     +++ V I+ R  +  
Sbjct:    61 VLEQARLLVAKIEGLSLSISHQAG--EEGKL-FGSVTNMELAELLKAQGVEID-RKKIVL 116

Query:   159 EELVAEVSRQLSI-SIEPE 176
              E +  V    ++  + PE
Sbjct:   117 AEPIKHVGEFTAVVKVHPE 135

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" evidence=ISS

TIGR_CMR|NSE_0060 NSE_0060 "ribosomal protein L9" [Neorickettsia sennetsu str. Miyayama (taxid:222891)]

 Score = 80 (33.2 bits), Expect = 2.2e-05, Sum P(2) = 2.2e-05
 Identities = 24/83 (28%), Positives = 45/83 (54%)

Query:   110 EDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQL 169
             E++  +   + A  LE A  + + F  I+ L      +  + L   V+ +++VAE+S++ 
Sbjct:    48 ENSKEKLAAQQAAELETASELAKSFTEIDVLPIYAQAERGV-LFGAVSAKQVVAELSKK- 105

Query:   170 SISIEPENLHLPSPLSAFGEYEV 192
              I I  +N+ L +P+ A GE+EV
Sbjct:   106 GIEITTKNVVLGAPIKALGEHEV 128

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

GO:0006412 "translation" evidence=ISS

GO:0015934 "large ribosomal subunit" evidence=ISS

TIGR_CMR|CJE_0766 CJE_0766 "ribosomal protein L9" [Campylobacter jejuni RM1221 (taxid:195099)]

 Score = 77 (32.2 bits), Expect = 0.00011, Sum P(2) = 0.00011
 Identities = 30/99 (30%), Positives = 48/99 (48%)

Query:   104 KVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIE--LRSPVTKEEL 161
             +V+RK E +  +E E    R E A L   +   + K+    SK V     L   VTK+E+
Sbjct:    42 EVLRKYESDKKKEAENL--RFEIANLEKLK-EELSKITLEISKPVGANGSLFGGVTKDEI 98

Query:   162 VAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAI 200
                +  Q  I I+ ++L   + L + G +EV ++L  AI
Sbjct:    99 AHALKEQSHIEIDKKSLECDT-LKSLGIHEVSVKLGHAI 136

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

GO:0042254 "ribosome biogenesis" evidence=ISS

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

 Score = 103 (41.3 bits), Expect = 0.00025, P = 0.00025
 Identities = 44/152 (28%), Positives = 68/152 (44%)

Query:    42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKF-----------AH 86
             +++IL  KV  LG  G+ V V PGY RN L+P   AVP    +I +F           A 
Sbjct:     1 MKLILQEKVANLGNIGDQVVVKPGYARNFLLPLGKAVPATPEHIAEFEKQRAELEKAAAE 60

Query:    87 LIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESK 146
             L+ + +   + +E++  K+   + D   R F     R E A+ +      IEK R  +  
Sbjct:    61 LLAKAKARAKKLEDKSFKITANASDE-GRLFGSIGPR-EIAQAITEAGIEIEK-REVDLS 117

Query:   147 DVPI-ELRSPVTKEELVAEVSRQLSISIEPEN 177
               PI ++        L  +VS  + I + PEN
Sbjct:   118 QGPIRQVGEYEVPLRLHTDVSVNVKIEVAPEN 149

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

POMBASE|SPCC777.17c SPCC777.17c "mitochondrial ribosomal protein subunit L9 (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 90 (36.7 bits), Expect = 0.00062, P = 0.00062
 Identities = 20/48 (41%), Positives = 30/48 (62%)

Query:    45 ILTTKVDKLGKAGETVKVAPGYFRNHLMPK--LLAVPNIEKF-AHLIR 89
             +L  +V KLG+ G+ V V  GY+RN L PK   +AV  ++   AHL++
Sbjct:    44 LLNNEVSKLGRQGDVVSVTRGYYRNTLFPKKQAIAVDALKSMKAHLLQ 91


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.319   0.135   0.388    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      218       218   0.00091  112 3  11 22  0.38    33
                                                     32  0.39    36


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  7
  No. of states in DFA:  592 (63 KB)
  Total size of DFA:  164 KB (2097 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  24.69u 0.10s 24.79t   Elapsed:  00:00:01
  Total cpu time:  24.69u 0.10s 24.79t   Elapsed:  00:00:01
  Start:  Sat May 11 10:38:28 2013   End:  Sat May 11 10:38:29 2013

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

GO:0005739 "mitochondrion" evidence=IDA

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

GO:0032543 "mitochondrial translation" 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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	218
PRK00137	147	PRK00137, rplI, 50S ribosomal protein L9; Reviewed	8e-17
pfam01281	48	pfam01281, Ribosomal_L9_N, Ribosomal protein L9, N	6e-15
COG0359	148	COG0359, RplI, Ribosomal protein L9 [Translation,	8e-15
TIGR00158	148	TIGR00158, L9, ribosomal protein L9	8e-11
CHL00160	153	CHL00160, rpl9, ribosomal protein L9; Provisional	5e-07
PRK14538	838	PRK14538, PRK14538, putative bifunctional signalin	0.003

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

 Score = 73.6 bits (182), Expect = 8e-17
 Identities = 51/187 (27%), Positives = 78/187 (41%), Gaps = 58/187 (31%)

Query: 43  EVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIREQRRICQPV 98
           +VIL   V  LGK G+ V+V  GY RN L+P+  AV     N+++      E RR     
Sbjct: 2   KVILLEDVKNLGKKGDVVEVKDGYARNFLIPQGKAVRATKGNLKQL-----EARR----- 51

Query: 99  EEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSP--- 155
            E E                KAA  L  A  +       EKL     + + + +++    
Sbjct: 52  AELE---------------AKAAEELAEAEALA------EKL-----EGLTVTIKAKAGE 85

Query: 156 -------VTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQ 208
                  VT +++   + +Q  I I+   + LP P+   GEYEVP++L         +V 
Sbjct: 86  DGKLFGSVTTKDIAEALKKQ-GIEIDKRKIELPGPIKTLGEYEVPVKLHP-------EVT 137

Query: 209 WTLNVKV 215
            T+ V V
Sbjct: 138 ATIKVNV 144

Length = 147

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

 Score = 66.0 bits (162), Expect = 6e-15
 Identities = 22/48 (45%), Positives = 31/48 (64%), Gaps = 4/48 (8%)

Query: 42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFA 85
          ++VIL   V+ LGK G+ V+V PGY RN L+PK LAV     N+++  
Sbjct: 1  MKVILLEDVEGLGKKGDIVEVKPGYARNFLLPKGLAVYATPENLKELE 48

Length = 48

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

 Score = 68.4 bits (168), Expect = 8e-15
 Identities = 43/177 (24%), Positives = 72/177 (40%), Gaps = 38/177 (21%)

Query: 43  EVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIREQRRICQPV 98
           +VIL   V  LGK G+ V+V  GY RN L+PK LAVP    N++                
Sbjct: 2   KVILLEDVKGLGKKGDIVEVKDGYARNFLIPKGLAVPATKGNLKLL-------------- 47

Query: 99  EEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTK 158
            E     + K       E E    +LE   + +        +++ E      +L   VT 
Sbjct: 48  -EARRAKLEKKAAEELAEAEALKEKLEGKTVEI-------AVKAGEDG----KLFGSVTS 95

Query: 159 EELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 215
           +++   +       ++   + LP+ +   GE+EV ++L +       +V  T+ V V
Sbjct: 96  KDIAEALKAA-GFKLDKRKIRLPNGIKTLGEHEVEVKLHE-------EVTATVKVNV 144

Length = 148

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

 Score = 57.8 bits (140), Expect = 8e-11
 Identities = 46/179 (25%), Positives = 73/179 (40%), Gaps = 39/179 (21%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIREQRRICQP 97
           ++VIL   V  LGK G+ V+V  GY RN L+PK LAVP    NIE F     E RR    
Sbjct: 1   MKVILLEDVANLGKRGDVVEVKDGYARNFLIPKGLAVPATKKNIEFF-----EARRKKLE 55

Query: 98  VEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVT 157
            +    K              +    LE   L +         +  +      +L   +T
Sbjct: 56  EKLAANKAAAA----------RLKEVLELGTLTI-------SKKVGDEG----KLFGSIT 94

Query: 158 KEELVAEVSRQLSISIEPENLHLP-SPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 215
            ++ +A+  +   + ++ + + LP   +   GE+EV ++L         +V   L V V
Sbjct: 95  TKQ-IADALKAAGLDLDKKKIELPDGVIRTTGEHEVTIKL-------HEEVFAVLKVIV 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|214378 CHL00160, rpl9, ribosomal protein L9; Provisional

 Score = 47.5 bits (113), Expect = 5e-07
 Identities = 36/158 (22%), Positives = 67/158 (42%), Gaps = 24/158 (15%)

Query: 40  RRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMP-KLLAVPNIEKFAHLIREQRRICQPV 98
           ++++VIL   + KLGK+G  +KV  GY RN+L+P K+  V                    
Sbjct: 4   KKIQVILKENIQKLGKSGTVIKVKSGYARNYLIPNKMAKVATQGSLKQQ----------- 52

Query: 99  EEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTK 158
                    K    +     K A+  E    V +    I+K   ++      ++   VT+
Sbjct: 53  ---------KMYQKILDLKLKEAK--EKCLKVKQLLEEIQKFSVKKKVGENNQIFGSVTE 101

Query: 159 EELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRL 196
           +E+   +  + +I +E +N+ LP  +   G Y + ++L
Sbjct: 102 KEISQIIKNKTNIDLEKQNIELPE-IKTIGIYNIEIKL 138

Length = 153

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

 Score = 37.9 bits (88), Expect = 0.003
 Identities = 40/181 (22%), Positives = 76/181 (41%), Gaps = 46/181 (25%)

Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEE 101
           +E+IL T +   GK  E +KV  GY  N L+    A+      A             ++E
Sbjct: 689 MEIILLTDIKNKGKKHEIIKVNNGY-GNFLIQNKKAL-----LA-------------DKE 729

Query: 102 EVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSR-ESKDVPIELR------- 153
            +  I+K +     E EK                 ++KL+S  ++K + ++++       
Sbjct: 730 NLAKIKKKKI---LEQEKKRNHEL----------LMKKLKSEIDNKKITLDIQLGPKGKI 776

Query: 154 -SPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLN 212
              +T +++V E  +  +I+I+ + + L + + + G Y V + L   I     K  + LN
Sbjct: 777 YGKITLKQIVEEFHKIHNITIDRKKISLENEIISVGIYPVDVFLTDQI-----KATFFLN 831

Query: 213 V 213
           V
Sbjct: 832 V 832

Length = 838

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	218
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	99.9
PF01281	48	Ribosomal_L9_N: Ribosomal protein L9, N-terminal d	99.89
PF03948	87	Ribosomal_L9_C: Ribosomal protein L9, C-terminal d	99.88

>CHL00160 rpl9 ribosomal protein L9; Provisional

Probab=100.00  E-value=2.9e-47  Score=312.97  Aligned_cols=148  Identities=22%  Similarity=0.420  Sum_probs=132.0

Q ss_pred             cceEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhhhhhhHHHHHH
Q 027812           40 RRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEK  119 (218)
Q Consensus        40 kkmkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~  119 (218)
                      ++|+|||++||++||++||+|+|+||||||||||+|+|++||+.|++.++..++..+           +++++..++|++
T Consensus         4 kkmkVIL~~dV~~LGk~Gdiv~Vk~GYaRNyLiP~glA~~AT~~n~~~~e~~~~~~~-----------~~~~~~~~~a~~   72 (153)
T CHL00160          4 KKIQVILKENIQKLGKSGTVIKVKSGYARNYLIPNKMAKVATQGSLKQQKMYQKILD-----------LKLKEAKEKCLK   72 (153)
T ss_pred             ceEEEEEcccccccCCCCCEEEEcCchHhhhhcccCchhhCCHHHHHHHHHHHHHHH-----------HHHHHHHHHHHH
Confidence            569999999999999999999999999999999999999999999998887776421           233456778899


Q ss_pred             HHHHHhcC-ceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCC
Q 027812          120 AARRLENA-RLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPK  198 (218)
Q Consensus       120 ~~~kL~~~-~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~  198 (218)
                      ++++|++. .++|.++++++           |+||||||+.||+++|.+++|++||+++|.||+ |+++|+|.|+|+||+
T Consensus        73 la~~l~~~~~~~i~~k~ge~-----------gklfGSVt~~dIa~~l~~~~g~~idk~~I~l~~-Ik~~G~~~v~v~L~~  140 (153)
T CHL00160         73 VKQLLEEIQKFSVKKKVGEN-----------NQIFGSVTEKEISQIIKNKTNIDLEKQNIELPE-IKTIGIYNIEIKLTS  140 (153)
T ss_pred             HHHHhhCCceEEEEEEeCCC-----------CeEEcccCHHHHHHHHHHhhCCccccceeehhh-ccccEeEEEEEEecC
Confidence            99999998 58888777443           399999999999999988889999999999998 999999999999999


Q ss_pred             CCCCCCceEEEEEEEEEEe
Q 027812          199 AIPLPEGKVQWTLNVKVRG  217 (218)
Q Consensus       199 ~v~~p~~~~~~~l~V~V~~  217 (218)
                      +|       +++++|+|..
T Consensus       141 ~V-------~a~i~v~V~~  152 (153)
T CHL00160        141 DV-------KANINLQILP  152 (153)
T ss_pred             Cc-------EEEEEEEEEE
Confidence            98       7999999974

>TIGR00158 L9 ribosomal protein L9

Probab=100.00  E-value=7.3e-47  Score=309.20  Aligned_cols=146  Identities=27%  Similarity=0.398  Sum_probs=130.4

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhhhhhhHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAA  121 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~~~  121 (218)
                      |+|||++||+|||++||+|+|+||||||||||+|+|++||++|++.++.+++..+           +..++...+|++++
T Consensus         1 MkVIL~~dV~~lGk~GdiV~Vk~GYaRNyLiP~g~A~~aT~~nl~~~e~~~~~~~-----------~~~~~~~~~a~~l~   69 (148)
T TIGR00158         1 MKVILLEDVANLGKRGDVVEVKDGYARNFLIPKGLAVPATKKNIEFFEARRKKLE-----------EKLAANKAAAARLK   69 (148)
T ss_pred             CeEEEcccccccCCCCCEEEEcccchhhhhcccCchhhCCHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999999999998888776422           23345577888999


Q ss_pred             HHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCC-CccceeEEEEEEcCCCC
Q 027812          122 RRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSP-LSAFGEYEVPMRLPKAI  200 (218)
Q Consensus       122 ~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~p-Ik~~G~y~V~I~L~~~v  200 (218)
                      ++|++..++|.++++++           |+||||||++||+++|.++ |++||+++|.||+| |+++|+|+|+|+||++|
T Consensus        70 ~~l~~~~~~i~~k~ge~-----------gklfGSVt~~~I~~~l~~~-g~~idk~~I~l~~~~Ik~~G~y~v~i~L~~~V  137 (148)
T TIGR00158        70 EVLELGTLTISKKVGDE-----------GKLFGSITTKQIADALKAA-GLDLDKKKIELPDGVIRTTGEHEVTIKLHEEV  137 (148)
T ss_pred             HHhcCcEEEEEEEeCCC-----------CeEEEeECHHHHHHHHHHc-CCcccHhhEECCCCceeceEEEEEEEEEcCCc
Confidence            99999888888777443           3999999999999999865 99999999999986 99999999999999998


Q ss_pred             CCCCceEEEEEEEEEEe
Q 027812          201 PLPEGKVQWTLNVKVRG  217 (218)
Q Consensus       201 ~~p~~~~~~~l~V~V~~  217 (218)
                             +++++|+|..
T Consensus       138 -------~a~i~v~V~~  147 (148)
T TIGR00158       138 -------FAVLKVIVVP  147 (148)
T ss_pred             -------EEEEEEEEEE
Confidence                   7999999975

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=3.3e-46  Score=304.96  Aligned_cols=146  Identities=29%  Similarity=0.473  Sum_probs=131.8

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhhhhhhHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAA  121 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~~~  121 (218)
                      |+|||++||+|||++||+|+|+||||||||||+|+|+|||+++++.++.+++..           ++++++.+.+|++++
T Consensus         1 mkVIL~~dv~~lGk~Gdiv~Vk~GYaRNyLiP~~lA~~aT~~~~~~~~~~~~~~-----------~~~~~~~~~~a~~l~   69 (147)
T PRK00137          1 MKVILLEDVKNLGKKGDVVEVKDGYARNFLIPQGKAVRATKGNLKQLEARRAEL-----------EAKAAEELAEAEALA   69 (147)
T ss_pred             CeEEEcccccccCCCCCEEEEcCcchhhhhccCCceeeCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHH
Confidence            899999999999999999999999999999999999999999999888777542           223456688899999


Q ss_pred             HHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCCCCC
Q 027812          122 RRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIP  201 (218)
Q Consensus       122 ~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~~v~  201 (218)
                      +.|++..++|.++++++           |+||||||++||+++|.++ |++||+++|.||+||+++|+|.|+|+||++| 
T Consensus        70 ~~l~~~~l~i~~k~g~~-----------gklfGsVt~~~I~~~l~~~-g~~idk~~I~l~~~Ik~~G~y~v~i~L~~~v-  136 (147)
T PRK00137         70 EKLEGLTVTIKAKAGED-----------GKLFGSVTTKDIAEALKKQ-GIEIDKRKIELPGPIKTLGEYEVPVKLHPEV-  136 (147)
T ss_pred             HHhhCCEEEEEEEcCCC-----------CeEEeeeCHHHHHHHHHHc-CCccCHHHeECCCcccccEEEEEEEEECCCc-
Confidence            99999889888877433           3999999999999999877 9999999999999999999999999999998 


Q ss_pred             CCCceEEEEEEEEEEe
Q 027812          202 LPEGKVQWTLNVKVRG  217 (218)
Q Consensus       202 ~p~~~~~~~l~V~V~~  217 (218)
                            +++|+|+|..
T Consensus       137 ------~a~l~v~V~~  146 (147)
T PRK00137        137 ------TATIKVNVVA  146 (147)
T ss_pred             ------EEEEEEEEEE
Confidence                  7999999975

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

Probab=100.00  E-value=1.1e-44  Score=295.34  Aligned_cols=146  Identities=28%  Similarity=0.425  Sum_probs=131.4

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhhhhhhHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAA  121 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~~~  121 (218)
                      |+|||++||++||+.||+|+|++|||||||||+|+|++||+.|++.++.+++..           ++..++.+.+++.++
T Consensus         1 MkVILl~dV~~lGk~Gdiv~VkdGYarNfLiPkglAv~At~~n~~~~e~~r~~~-----------e~~~~~~~~~a~~lk   69 (148)
T COG0359           1 MKVILLEDVKGLGKKGDIVEVKDGYARNFLIPKGLAVPATKGNLKLLEARRAKL-----------EKKAAEELAEAEALK   69 (148)
T ss_pred             CeEEEecchhhcCCCCCEEEecchhhhhhhccccchhhCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999888866542           223455678899999


Q ss_pred             HHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCCCCC
Q 027812          122 RRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIP  201 (218)
Q Consensus       122 ~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~~v~  201 (218)
                      ++|+...++|.++++++           |+||||||++||++++.++ |++||++.|.+|++|+++|+|+|+|+||++| 
T Consensus        70 ~~Le~~~~~i~~kag~~-----------GklfGSVt~~dIa~~l~~~-g~~idk~~i~l~~~ik~~G~~~V~vkLh~eV-  136 (148)
T COG0359          70 EKLEGKTVEIAVKAGED-----------GKLFGSVTSKDIAEALKAA-GFKLDKRKIRLPNGIKTLGEHEVEVKLHEEV-  136 (148)
T ss_pred             HHhhCceEEEEEEcCCC-----------CceeccccHHHHHHHHHHc-CCCcchheeEcCchhhhcceeEEEEEecCce-
Confidence            99999778888877543           3999999999999999987 9999999999999999999999999999998 


Q ss_pred             CCCceEEEEEEEEEEe
Q 027812          202 LPEGKVQWTLNVKVRG  217 (218)
Q Consensus       202 ~p~~~~~~~l~V~V~~  217 (218)
                            +++++|.|..
T Consensus       137 ------~a~v~v~V~~  146 (148)
T COG0359         137 ------TATVKVNVVA  146 (148)
T ss_pred             ------EEEEEEEEEe
Confidence                  7999999975

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

Probab=100.00  E-value=1.5e-37  Score=309.96  Aligned_cols=146  Identities=22%  Similarity=0.308  Sum_probs=131.4

Q ss_pred             ceEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhhhhhhHHHHHHH
Q 027812           41 RLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKA  120 (218)
Q Consensus        41 kmkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~~  120 (218)
                      .|||||++||+|||++||+|+|+|||| |||||+|+|++||++|++.++.+++..           ++++++..++|+++
T Consensus       688 ~MkVIL~~dv~~lGk~Gdvv~Vk~GYa-NfLiP~~~A~~aT~~nlk~~e~~~~~~-----------~~~~~~~~~~a~~l  755 (838)
T PRK14538        688 NMEIILLTDIKNKGKKHEIIKVNNGYG-NFLIQNKKALLADKENLAKIKKKKILE-----------QEKKRNHELLMKKL  755 (838)
T ss_pred             hhhHHHHHHHHhcCCCCCEEEECCCch-hhhccCCchhhcCHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHH
Confidence            599999999999999999999999999 999999999999999999888877642           22345567788999


Q ss_pred             HHHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCCCC
Q 027812          121 ARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAI  200 (218)
Q Consensus       121 ~~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~~v  200 (218)
                      +++|++..+++.++++++           |+||||||++||+++|++++|++||++.|.||+|||++|+|.|+|+||++|
T Consensus       756 ~~~l~~~~~~i~~k~ge~-----------gklfGSVt~~~I~~~l~~~~g~~idk~~I~l~~~Ik~~G~~~v~i~L~~~V  824 (838)
T PRK14538        756 KSEIDNKKITLDIQLGPK-----------GKIYGKITLKQIVEEFHKIHNITIDRKKISLENEIISVGIYPVDVFLTDQI  824 (838)
T ss_pred             HHHhhCcEEEEEEEeCCC-----------CeeeeccCHHHHHHHHHHhhCCccccceeeCCCcccccEEEEEEEEEcCCe
Confidence            999999888888877544           399999999999999998899999999999999999999999999999998


Q ss_pred             CCCCceEEEEEEEEEE
Q 027812          201 PLPEGKVQWTLNVKVR  216 (218)
Q Consensus       201 ~~p~~~~~~~l~V~V~  216 (218)
                             +++++|+|.
T Consensus       825 -------~a~i~v~V~  833 (838)
T PRK14538        825 -------KATFFLNVI  833 (838)
T ss_pred             -------EEEEEEEEE
Confidence                   799999886

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

Probab=99.90  E-value=3.5e-24  Score=182.63  Aligned_cols=156  Identities=28%  Similarity=0.317  Sum_probs=116.7

Q ss_pred             ceeEeeccccccceEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhh
Q 027812           29 PLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRK  108 (218)
Q Consensus        29 ~l~~~~~~~~~kkmkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~  108 (218)
                      +|+..+++++++.++|||++||+|||++||+|+|++||+||+|+|+|+|+|+||.+...+...+..       .    . 
T Consensus        36 ~lv~~~~~k~k~~levIL~~~Ve~lG~qGdvVsVk~g~~RN~Llp~glAvy~tp~~~~~~k~~~~e-------~----~-  103 (222)
T KOG4607|consen   36 ELVEFTQKKPKPNLEVILKTDVEKLGKQGDVVSVKRGYFRNFLLPKGLAVYNTPLNLKKYKLREQE-------E----E-  103 (222)
T ss_pred             hHhHhhhccCCcceeeeeehhhhhhcccCcEEEeecchhhhhcccccccccCChhhHHHHHHHHHH-------H----H-
Confidence            899999999999999999999999999999999999999999999999999999986543333221       0    0 


Q ss_pred             hhhhhHHHHHHHHHHHhcCceEEEEeccccccccccCCCCCcee-eeccCHHHHHHHHHhhcCCcccCCcccCCCCCccc
Q 027812          109 SEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIEL-RSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAF  187 (218)
Q Consensus       109 ~~~~~~~~a~~~~~kL~~~~l~~~~~~~~~~~~~k~g~~~~~kl-fGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~  187 (218)
                      .+..+.++..+....|+...+.+.++.+..           ..| +|+|+++.....+.++.-+++|++.|..|. ++.-
T Consensus       104 ~~k~~vk~e~k~V~~lqt~v~~~~~~k~~k-----------w~l~~~~V~~~l~~gv~~~~~t~~l~k~~vs~P~-~k~e  171 (222)
T KOG4607|consen  104 AEKIRVKEEAKVVAVLQTVVLFKVMNKGGK-----------WKLNPNLVKASLRKGVIVAELTIKLDKELVSGPI-TKEE  171 (222)
T ss_pred             hhhhccHHHHHHHHHHHhhhhhheeccCCc-----------eeecHHHHHHHHhcceEeccccccCcccccCCCc-cccc
Confidence            012223333333346776666555554322           244 778888777777777777888999888885 7888


Q ss_pred             eeEEEEEEcCCCCCCCCceEEEEEEEEE
Q 027812          188 GEYEVPMRLPKAIPLPEGKVQWTLNVKV  215 (218)
Q Consensus       188 G~y~V~I~L~~~v~~p~~~~~~~l~V~V  215 (218)
                      |+|.+.|+++++.       ++-+...|
T Consensus       172 ~~~~~~V~in~~~-------~vr~~~~v  192 (222)
T KOG4607|consen  172 GEYICEVKINPDV-------TVRVKIRV  192 (222)
T ss_pred             ceEEEEEEECCcc-------eEEeeeee
Confidence            8999999999887       45555544

>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=99.89  E-value=2.3e-24  Score=145.35  Aligned_cols=47  Identities=43%  Similarity=0.634  Sum_probs=43.4

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLI   88 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~   88 (218)
                      |+|||++||+|||++||+|+|++|||||||+|+|+|+|||+++++.+
T Consensus         1 m~ViL~~dv~~lG~~Gdiv~V~~Gy~RN~L~p~~~A~~at~~~~~~~   47 (48)
T PF01281_consen    1 MKVILLKDVPGLGKKGDIVEVKPGYARNFLIPQGLAVYATPENLKQL   47 (48)
T ss_dssp             -EEEESSCCTTSBSTTEEEE-SHHHHHHTTTTTTSEEECSHHHHHHH
T ss_pred             CEEEEcccccccCCCCCEEEEccceeeehccCCCceeeCCHHHHHhc
Confidence            89999999999999999999999999999999999999999998765

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 ....

>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=99.88  E-value=1.5e-22  Score=152.11  Aligned_cols=85  Identities=27%  Similarity=0.469  Sum_probs=78.3

Q ss_pred             HHHHHHHHHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEE
Q 027812          115 REFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPM  194 (218)
Q Consensus       115 ~~a~~~~~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~V~I  194 (218)
                      ++|++++++|++..++|.++++++           |+||||||++||+++|.+++|++||+++|.||+|||++|+|.|+|
T Consensus         2 ~~A~~l~~~l~~~~l~i~~k~g~~-----------gklfGSVt~~dIa~~l~~~~g~~Idk~~I~l~~~IK~~G~~~v~v   70 (87)
T PF03948_consen    2 AEAQALAEKLEGITLTIKRKAGEN-----------GKLFGSVTSKDIAKALKEQTGIEIDKKKIELPEPIKSLGEYEVKV   70 (87)
T ss_dssp             HHHHHHHHHHCSSEEEEEECBSSC-----------SSBSSEBSHHHHHHHHHHCCSSSSSSSSBCSSSTBESSEEEEEEE
T ss_pred             HHHHHHHHHhcCCEEEEEEEecCC-----------cceecCcCHHHHHHHHHHhhCCeEeccEEECCCchhccEEEEEEE
Confidence            467789999999999999888544           399999999999999999999999999999999999999999999


Q ss_pred             EcCCCCCCCCceEEEEEEEEEEe
Q 027812          195 RLPKAIPLPEGKVQWTLNVKVRG  217 (218)
Q Consensus       195 ~L~~~v~~p~~~~~~~l~V~V~~  217 (218)
                      +||++|       .++++|.|..
T Consensus        71 ~L~~~V-------~a~i~v~V~~   86 (87)
T PF03948_consen   71 KLHPEV-------SAKIKVNVVA   86 (87)
T ss_dssp             EEETTE-------EEEEEEEEEE
T ss_pred             EeCCCe-------EEEEEEEEEe
Confidence            999998       7999999975

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	218
3uxq_I	148	The Structure Of Thermorubin In Complex With The 70		5e-10
1vsa_G	148	Crystal Structure Of A 70s Ribosome-Trna Complex Re		6e-10
3pyo_H	145	Crystal Structure Of A Complex Containing Domain 3		6e-10
3fin_I	146	T. Thermophilus 70s Ribosome In Complex With Mrna,		6e-10
3tve_K	146	Crystal Structure Analysis Of Ribosomal Decoding. T		9e-10
2v47_I	148	Structure Of The Ribosome Recycling Factor Bound To		9e-10
2hgj_K	148	Crystal Structure Of The 70s Thermus Thermophilus R		1e-09
1nkw_F	146	Crystal Structure Of The Large Ribosomal Subunit Fr		4e-05
1p85_F	149	Real Space Refined Coordinates Of The 50s Subunit F		5e-04

>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 = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 53/177 (29%), Positives = 86/177 (48%), Gaps = 38/177 (21%)
Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60
Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+E    +E       LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSV 92
Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 213
           T +++   +SRQ  ++IEP+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 93  TAKDIAEALSRQHGVTIEPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

>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 = 60.8 bits (146), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 53/177 (29%), Positives = 86/177 (48%), Gaps = 38/177 (21%)
Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60
Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+E    +E       LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSV 92
Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 213
           T +++   +SRQ  I+I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 93  TAKDIAEALSRQHGITIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

>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 = 60.8 bits (146), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 53/177 (29%), Positives = 86/177 (48%), Gaps = 38/177 (21%)
Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60
Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+E    +E       LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSV 92
Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 213
           T +++   +SRQ  I+I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 93  TAKDIAEALSRQHGITIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

>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 = 60.5 bits (145), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 53/179 (29%), Positives = 87/179 (48%), Gaps = 38/179 (21%)
Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60
Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+E    +E       LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSV 92
Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 215
           T +++   +SRQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V V
Sbjct: 93  TAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSVVV 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 = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 52/177 (29%), Positives = 86/177 (48%), Gaps = 38/177 (21%)
Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60
Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+E    +E       LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSV 92
Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 213
           T +++   +SRQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 93  TAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

>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 = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 52/177 (29%), Positives = 86/177 (48%), Gaps = 38/177 (21%)
Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60
Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+E    +E       LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSV 92
Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 213
           T +++   +SRQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 93  TAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 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 = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 52/177 (29%), Positives = 87/177 (49%), Gaps = 38/177 (21%)
Query: 42  LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIREQ-RRICQ 96
           ++VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +
Sbjct: 1   MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE 60
Query: 97  PVEEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPV 156
                     RK+      E E+  + LEN  L +        +R+ E+K     +   V
Sbjct: 61  ----------RKA------EAERLKKILENLTLTI-------PVRAGETK-----IYGSV 92
Query: 157 TKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 213
           T +++   +SRQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 93  TAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 40/152 (26%), Positives = 62/152 (40%), Gaps = 24/152 (15%)
Query: 52  KLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSED 111
           +LGK GE V V  GY RN L+P+ LAV         +  Q R  +  + +E  V      
Sbjct: 10  RLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIEKRQAQEKAV------ 63
Query: 112 NMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSI 171
                 E  A RL    + L        +R+ E K     +   VT ++ VA    QL  
Sbjct: 64  -----AEDLASRLNGVAVEL-------SVRAGEGK-----IYGAVTHQD-VANSLDQLGF 105
Query: 172 SIEPENLHLPSPLSAFGEYEVPMRLPKAIPLP 203
            ++   + +P  +   GEY++  R    + +P
Sbjct: 106 DVDRRKIDMPKTVKEVGEYDIAYRAHPEVTIP 137

>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 = 41.2 bits (95), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 23/47 (48%), Positives = 28/47 (59%), Gaps = 4/47 (8%)
Query: 42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKF 84
          ++VIL  KV  LG  G+ V V  GY RN L+P+  AVP    NIE F
Sbjct: 1  MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFF 47

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	218
3v2d_I	148	50S ribosomal protein L9; ribosome associated inhi	2e-19
1div_A	149	Ribosomal protein L9; rRNA-binding; 2.60A {Geobaci	3e-18
3bbo_J	197	Ribosomal protein L9; large ribosomal subunit, spi	2e-16
1nkw_F	146	50S ribosomal protein L9; ribosome, large subunit,	4e-15
3r8s_H	149	50S ribosomal protein L9; protein biosynthesis, RN	2e-14
2hba_A	52	BL17, 50S ribosomal protein L9; NTL9, K12M, RNA bi	2e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-04

>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 = 80.3 bits (199), Expect = 2e-19
 Identities = 47/177 (26%), Positives = 77/177 (43%), Gaps = 38/177 (21%)

Query: 43  EVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIREQRRICQPV 98
           +VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++       E R      
Sbjct: 2   KVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKAL-----EARI----- 51

Query: 99  EEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTK 158
             +  ++  +       E E+    LEN  L +         R+ E+K     +   VT 
Sbjct: 52  RAQAKRLAERKA-----EAERLKEILENLTLTIPV-------RAGETK-----IYGSVTA 94

Query: 159 EELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 215
           +++   +SRQ  ++I+P+ L L  P+   GEY +  +          +V   L V V
Sbjct: 95  KDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYKPHP-------EVPIQLKVSV 144

>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 = 76.8 bits (190), Expect = 3e-18
 Identities = 36/177 (20%), Positives = 67/177 (37%), Gaps = 37/177 (20%)

Query: 43  EVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIREQRRICQPV 98
           +VI    V   GK GE   VA GY  N L  + LA+     N++       E ++     
Sbjct: 2   KVIFLKDVKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKAL-----EAQK----- 51

Query: 99  EEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTK 158
           ++E+ +   +         +K   +LE   + +         ++ E       L   +T 
Sbjct: 52  QKEQRQAAEELA-----NAKKLKEQLEKLTVTIPA-------KAGEGG----RLFGSITS 95

Query: 159 EELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 215
           +++   +  Q  + ++   + L   + A G   VP++L         +V  TL V V
Sbjct: 96  KQIAESLQAQHGLKLDKRKIELADAIRALGYTNVPVKLHP-------EVTATLKVHV 145

>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 = 73.6 bits (181), Expect = 2e-16
 Identities = 41/213 (19%), Positives = 72/213 (33%), Gaps = 40/213 (18%)

Query: 7   TQHGRNALRQITKESSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGY 66
           +        +  K S  R          Q    +  +VIL   V  LGK G+ + V  G+
Sbjct: 18  SHSFNGGANETLKVSERRF---NFEVVSQKKAKKLRKVILKEDVTDLGKQGQLLDVKAGF 74

Query: 67  FRNHLMPKLLAVP----NIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAAR 122
           FRN L+P   A       +++      +        E  E +  R  E     E ++ A 
Sbjct: 75  FRNFLLPTGKAQLMTPLLLKEL-----KMED-----ERIEAEKQRVKE-----EAQQLAM 119

Query: 123 RLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPS 182
             +           +++   +        +   VT ++LV  +  QL   I+   + LP 
Sbjct: 120 VFQTVGAF-----KVKRKGGKGKL-----IFGSVTAQDLVDIIKSQLQKDIDKRLVSLP- 168

Query: 183 PLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 215
            +   GEY   ++L          V   + + V
Sbjct: 169 EIRETGEYIAELKLHP-------DVTARVKINV 194

>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 = 68.7 bits (169), Expect = 4e-15
 Identities = 43/177 (24%), Positives = 68/177 (38%), Gaps = 40/177 (22%)

Query: 43  EVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIREQRRICQPV 98
           +VIL     +LGK GE V V  GY RN L+P+ LAV     N++       E +      
Sbjct: 2   QVILLEPS-RLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTL-----EAQL----- 50

Query: 99  EEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTK 158
              E +  ++         E  A RL    + L         R+ E K     +   VT 
Sbjct: 51  RSIEKRQAQEKA-----VAEDLASRLNGVAVELSV-------RAGEGK-----IYGAVTH 93

Query: 159 EELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 215
           ++ VA    QL   ++   + +P  +   GEY++  R          +V   + + V
Sbjct: 94  QD-VANSLDQLGFDVDRRKIDMPKTVKEVGEYDIAYRAHP-------EVTIPMKLVV 142

>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 = 66.9 bits (164), Expect = 2e-14
 Identities = 47/178 (26%), Positives = 65/178 (36%), Gaps = 38/178 (21%)

Query: 43  EVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIREQRRICQPV 98
           +VIL  KV  LG  G+ V V  GY RN L+P+  AVP    NIE F     E RR     
Sbjct: 2   QVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFF-----EARR----- 51

Query: 99  EEEEVKVIRKSEDNMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTK 158
            E E K+               A ++     V      I      E K     L   +  
Sbjct: 52  AELEAKLAEVLA-----AANARAEKINALETV-----TIASKAGDEGK-----LFGSIGT 96

Query: 159 EELVAEVSRQLSISIEPENLHLP-SPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 215
            ++   V+    + +    + LP   L   GE+EV  ++       E  V   + V V
Sbjct: 97  RDIADAVTAA-GVEVAKSEVRLPNGVLRTTGEHEVSFQVH-----SE--VFAKVIVNV 146

>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 = 56.5 bits (137), Expect = 2e-11
 Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 4/46 (8%)

Query: 43 EVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKF 84
          +VI    V  +GK GE   VA GY  N L  + LA+     N++  
Sbjct: 2  KVIFLKDVKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKAL 47

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

 Score = 40.6 bits (94), Expect = 3e-04
 Identities = 25/175 (14%), Positives = 59/175 (33%), Gaps = 39/175 (22%)

Query: 14  LRQITKESSDRVLHHPLLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMP 73
           L    K  ++  LH  ++      +    + ++   +D              YF +H+  
Sbjct: 433 LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD-------------QYFYSHIGH 479

Query: 74  KLLAVPNIEKFAHLIRE--------QRRI--------CQPVEEEEVKVIRKSEDNMSREF 117
            L  + + E+   L R         +++I                ++ ++  +  +    
Sbjct: 480 HLKNIEHPERMT-LFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDND 538

Query: 118 EKAARRLENARLVLRRF-PNIEK--LRSRESKDVPIELRSPVTKEELVAEVSRQL 169
            K  R +      +  F P IE+  + S+ +  + I L +    E +  E  +Q+
Sbjct: 539 PKYERLVNA----ILDFLPKIEENLICSKYTDLLRIALMAE--DEAIFEEAHKQV 587

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	218
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
3v2d_I	148	50S ribosomal protein L9; ribosome associated inhi	100.0
3r8s_H	149	50S ribosomal protein L9; protein biosynthesis, RN	100.0
3bbo_J	197	Ribosomal protein L9; large ribosomal subunit, spi	100.0
2hba_A	52	BL17, 50S ribosomal protein L9; NTL9, K12M, RNA bi	99.93

>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=4.5e-49  Score=321.36  Aligned_cols=147  Identities=22%  Similarity=0.325  Sum_probs=134.5

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhhhhhhHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAA  121 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~~~  121 (218)
                      |+|||++||+|||+.||+|+|+||||||||||+|+|++||++|++.++.+++..           ++..++.+.+|++++
T Consensus         1 MkVILl~dV~~LG~~GdvV~Vk~GYaRNfLiP~glA~~AT~~n~~~~e~~~~~~-----------~~~~~~~~~~A~~~a   69 (149)
T 1div_A            1 MKVIFLKDVKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQKE-----------QRQAAEELANAKKLK   69 (149)
T ss_dssp             CEEEECSBSSSBGGGTEEEECCTTHHHHTTTTTTSEEECCHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHH
T ss_pred             CEEEEcccccccCCCCCEEEEcCCceeeeeccCCceecCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHH
Confidence            899999999999999999999999999999999999999999999988887652           223456688899999


Q ss_pred             HHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCCCCC
Q 027812          122 RRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIP  201 (218)
Q Consensus       122 ~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~~v~  201 (218)
                      ++|++..++|.++++++|           +||||||++||+++|.+++|++||++.|.||+||+++|+|+|+|+||++| 
T Consensus        70 ~~L~~~~v~i~~k~g~~g-----------klfGSVt~~dIa~al~~~~g~~idk~~I~l~~~Ik~~G~~~v~vkLh~~V-  137 (149)
T 1div_A           70 EQLEKLTVTIPAKAGEGG-----------RLFGSITSKQIAESLQAQHGLKLDKRKIELADAIRALGYTNVPVKLHPEV-  137 (149)
T ss_dssp             HHHTTCCEEEEECBCGGG-----------EEEEEECHHHHHHHHHHHHCCCCCGGGBCCCSCEEESEEEEEEEEEETTE-
T ss_pred             HHHcCCeEEEEEEeCCCC-----------cEEeecCHHHHHHHHHHhhCCeechheEECCCCccccEEEEEEEEECCCC-
Confidence            999999999988875543           99999999999999999899999999999999999999999999999988 


Q ss_pred             CCCceEEEEEEEEEEe
Q 027812          202 LPEGKVQWTLNVKVRG  217 (218)
Q Consensus       202 ~p~~~~~~~l~V~V~~  217 (218)
                            +++++|+|..
T Consensus       138 ------~a~i~v~V~~  147 (149)
T 1div_A          138 ------TATLKVHVTE  147 (149)
T ss_dssp             ------EEEEEEEEEE
T ss_pred             ------EEEEEEEEEe
Confidence                  7999999975

>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=1.1e-47  Score=312.21  Aligned_cols=144  Identities=25%  Similarity=0.416  Sum_probs=131.4

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhhhhhhHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAA  121 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~~~  121 (218)
                      |+|||++| +|||+.||+|+|+||||||||||+|+|++||++|++.++.+++..+           +..++.+.+|++++
T Consensus         1 MkVIL~~d-~~LG~~GdvV~Vk~GYaRNfLiP~glA~~AT~~n~~~~e~~~~~~~-----------~~~~~~~~~A~~~a   68 (146)
T 1nkw_F            1 MQVILLEP-SRLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIE-----------KRQAQEKAVAEDLA   68 (146)
T ss_pred             CeEEEeec-CCCCCCCCEEEEcCcceehhcccCCceecCCHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHH
Confidence            89999999 9999999999999999999999999999999999999888876522           23456678999999


Q ss_pred             HHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCCCCC
Q 027812          122 RRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIP  201 (218)
Q Consensus       122 ~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~~v~  201 (218)
                      ++|++..++|.++++ +           |+||||||++||+++|.++ |++||+++|.||+||+++|+|+|+|+||++| 
T Consensus        69 ~~L~~~~v~i~~k~g-~-----------gklfGSVt~~dIa~al~~~-g~~idk~~I~l~~~Ik~~G~~~v~vkLh~~V-  134 (146)
T 1nkw_F           69 SRLNGVAVELSVRAG-E-----------GKIYGAVTHQDVANSLDQL-GFDVDRRKIDMPKTVKEVGEYDIAYRAHPEV-  134 (146)
T ss_pred             HHhcCCEEEEEEEcC-C-----------CceeeccCHHHHHHHHHHc-CCeechheEECCCcccccEEEEEEEEECCCC-
Confidence            999999999888875 3           3999999999999999988 9999999999999999999999999999998 


Q ss_pred             CCCceEEEEEEEEEEe
Q 027812          202 LPEGKVQWTLNVKVRG  217 (218)
Q Consensus       202 ~p~~~~~~~l~V~V~~  217 (218)
                            +++++|+|..
T Consensus       135 ------~a~i~v~V~~  144 (146)
T 1nkw_F          135 ------TIPMKLVVHA  144 (146)
T ss_pred             ------EEEEEEEEEe
Confidence                  7999999975

>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=2.9e-48  Score=316.25  Aligned_cols=146  Identities=29%  Similarity=0.459  Sum_probs=131.9

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhhhhhhHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAA  121 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~~~  121 (218)
                      |+|||++||+|||+.||+|+|+||||||||||+|+|++||++|++.++.+++..           ++..++.+.+|++++
T Consensus         1 MkVILl~dV~~LG~~GdvV~Vk~GYaRNfLiP~g~A~~AT~~n~k~~e~~~~~~-----------~~~~~~~~~~A~~~~   69 (148)
T 3v2d_I            1 MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQ-----------AKRLAERKAEAERLK   69 (148)
T ss_dssp             CEEEESSCBTTTBSTTCEEECCHHHHHHTTGGGTSEEECCHHHHHHHHHHHHTH-----------HHHHHHHHHHHHHHH
T ss_pred             CeEEEccccccCCCCccEEEEcCCceehhhcccCchhhcCHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999998887642           223456688899999


Q ss_pred             HHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCCCCC
Q 027812          122 RRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIP  201 (218)
Q Consensus       122 ~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~~v~  201 (218)
                      ++|++..++|.+++         |+  + +||||||++||+++|.+++|++||++.|.||+|||++|+|+|+|+||++| 
T Consensus        70 ~~L~~~~v~i~~ka---------g~--~-kLfGSVt~~dIa~al~~~~g~~idk~~I~l~~pIk~~G~~~v~v~Lh~~V-  136 (148)
T 3v2d_I           70 EILENLTLTIPVRA---------GE--T-KIYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYKPHPEV-  136 (148)
T ss_dssp             HHSSSCCEEEECCB---------SS--S-SBSSCBCHHHHHHHHTTTTCCCCCTTSSCCSSCBCSCEEEEEECCSBTTB-
T ss_pred             HHHcCCEEEEEEEc---------CC--C-ccccccCHHHHHHHHHHhcCCCcchheEEcCchhhceEEEEEEEEECCCc-
Confidence            99999988887776         32  3 99999999999999998889999999999999999999999999999998 


Q ss_pred             CCCceEEEEEEEEEEe
Q 027812          202 LPEGKVQWTLNVKVRG  217 (218)
Q Consensus       202 ~p~~~~~~~l~V~V~~  217 (218)
                            +++++|+|..
T Consensus       137 ------~a~i~v~V~~  146 (148)
T 3v2d_I          137 ------PIQLKVSVVA  146 (148)
T ss_dssp             ------CCEEEEEEEC
T ss_pred             ------EEEEEEEEEe
Confidence                  6999999874

>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=3.6e-48  Score=316.07  Aligned_cols=146  Identities=23%  Similarity=0.348  Sum_probs=131.4

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhhhhhhHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKSEDNMSREFEKAA  121 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~~~  121 (218)
                      |+|||++||+|||+.||+|+|+||||||||||+|+|++||++|++.++.+++..           ++.+++.+.+|++++
T Consensus         1 MkVIL~~dV~~LG~~GdvV~Vk~GYaRNfLiP~glA~~AT~~n~k~~e~~~~~~-----------~~~~~~~~~~A~~~~   69 (149)
T 3r8s_H            1 MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAEL-----------EAKLAEVLAAANARA   69 (149)
T ss_dssp             CCCEESSCCTTTCCSSCBCCCCHHHHTTTTSSSSSEECCCSHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHH
T ss_pred             CeEEEecccccCCCCCCEEEEcCcceehhhccCCceeeCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHH
Confidence            899999999999999999999999999999999999999999999988877642           223456678899999


Q ss_pred             HHHhcC-ceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCC-CCccceeEEEEEEcCCC
Q 027812          122 RRLENA-RLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPS-PLSAFGEYEVPMRLPKA  199 (218)
Q Consensus       122 ~kL~~~-~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~-pIk~~G~y~V~I~L~~~  199 (218)
                      ++|++. .++|.++++++           |+||||||++||+++|.++ |++||++.|.||+ |||++|+|+|+|+||++
T Consensus        70 ~~L~~~~~v~i~~k~g~~-----------gklfGSVt~~dIa~al~~~-g~~idk~~I~l~~~pIk~~G~~~v~v~Lh~~  137 (149)
T 3r8s_H           70 EKINALETVTIASKAGDE-----------GKLFGSIGTRDIADAVTAA-GVEVAKSEVRLPNGVLRTTGEHEVSFQVHSE  137 (149)
T ss_dssp             HHHHTTCCEEEEECBCTT-----------SEEEEEECHHHHHHHHHTT-SCCCCTTSEECSSCCEEESEEEEEEECSSSS
T ss_pred             HHhcCCcEEEEEEEcCCC-----------CceEcccCHHHHHHHHHHc-CCceehheEEcCCccccceEEEEEEEEECCC
Confidence            999997 89988887543           3999999999999999876 9999999999996 99999999999999999


Q ss_pred             CCCCCceEEEEEEEEEEe
Q 027812          200 IPLPEGKVQWTLNVKVRG  217 (218)
Q Consensus       200 v~~p~~~~~~~l~V~V~~  217 (218)
                      |       +++++|+|..
T Consensus       138 V-------~a~i~v~V~~  148 (149)
T 3r8s_H          138 V-------FAKVIVNVVA  148 (149)
T ss_dssp             C-------CCCEEEEEEE
T ss_pred             C-------EEEEEEEEEE
Confidence            8       6999999874

>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=4.4e-49  Score=333.97  Aligned_cols=158  Identities=22%  Similarity=0.313  Sum_probs=129.4

Q ss_pred             eeEeeccccccceEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHHhcCCchHHHHHHHhhh
Q 027812           30 LLYSCQGVRYRRLEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRRICQPVEEEEVKVIRKS  109 (218)
Q Consensus        30 l~~~~~~~~~kkmkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~~~e~~~~~~~~  109 (218)
                      +++.++++++++|+|||++||+|||++||+|+|++|||||||||+|+|++||++|++.++.+++..           ++.
T Consensus        38 lvv~~~k~~~k~MkVILledV~~LGk~GdvV~Vk~GYARNfLiP~glAv~AT~~nlk~~e~~~~~~-----------e~~  106 (197)
T 3bbo_J           38 FEVVSQKKAKKLRKVILKEDVTDLGKQGQLLDVKAGFFRNFLLPTGKAQLMTPLLLKELKMEDERI-----------EAE  106 (197)
T ss_dssp             ------------CCCCCCSCSSSSCSSCCCSCCCSSSCCCCCTTTTCCCCCCHHHHHHHHTTTHHH-----------HGG
T ss_pred             EEEEeccccCCceEEEEcccccccCCCCCEEEEcCcceeehcccCCceecCCHHHHHHHHHhHHHH-----------HHH
Confidence            899999999999999999999999999999999999999999999999999999999887766542           223


Q ss_pred             hhhhHHHHHHHHHHHhcC-ceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccce
Q 027812          110 EDNMSREFEKAARRLENA-RLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFG  188 (218)
Q Consensus       110 ~~~~~~~a~~~~~kL~~~-~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G  188 (218)
                      +++.+.+|++++++|++. .++|.+++         |++  |+||||||++||+++|.+++|++||++.|.||+ ||++|
T Consensus       107 ~~~~~~~A~~la~~L~~~~~v~i~~ka---------Ge~--GkLFGSVT~~dIa~al~~~~Gi~Idk~~I~L~~-IK~lG  174 (197)
T 3bbo_J          107 KQRVKEEAQQLAMVFQTVGAFKVKRKG---------GKG--KLIFGSVTAQDLVDIIKSQLQKDIDKRLVSLPE-IRETG  174 (197)
T ss_dssp             GTTTTHHHHTHHHHSSSCCCCBCCCCB---------CTT--SSBSSCCSSHHHHGGGTSSSSCCCCSTTCCSCC-CSSSS
T ss_pred             HHHHHHHHHHHHHHhcCCceEEEEEEe---------CCC--CcEecccCHHHHHHHHHHhhCCeeeeeEEEecc-ccceE
Confidence            456688899999999998 57766555         443  399999999999999998899999999999985 99999


Q ss_pred             eEEEEEEcCCCCCCCCceEEEEEEEEEEe
Q 027812          189 EYEVPMRLPKAIPLPEGKVQWTLNVKVRG  217 (218)
Q Consensus       189 ~y~V~I~L~~~v~~p~~~~~~~l~V~V~~  217 (218)
                      +|+|+|+||++|       +++|+|+|..
T Consensus       175 ~y~V~VkLh~eV-------~a~i~V~V~~  196 (197)
T 3bbo_J          175 EYIAELKLHPDV-------TARVKINVFA  196 (197)
T ss_dssp             CEEECCCCBTTB-------CCCEEEBCCC
T ss_pred             EEEEEEEECCCc-------EEEEEEEEEe
Confidence            999999999998       6999998864

>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=99.93  E-value=9.3e-27  Score=158.36  Aligned_cols=51  Identities=31%  Similarity=0.462  Sum_probs=48.3

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQR   92 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~   92 (218)
                      |+|||++||+|||++||+|+|++|||||||||+|+|++||++|++.++.++
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            899999999999999999999999999999999999999999998776654

---

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	218
d2j01i2	55	d.100.1.1 (I:1-55) Ribosomal protein L9 N-domain {	4e-13
d2hbaa1	52	d.100.1.1 (A:1-52) Ribosomal protein L9 N-domain {	1e-12
d2gycf2	58	d.100.1.1 (F:1-58) Ribosomal protein L9 N-domain {	7e-12

>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 = 59.6 bits (145), Expect = 4e-13
 Identities = 22/53 (41%), Positives = 31/53 (58%), Gaps = 4/53 (7%)

Query: 43 EVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIREQ 91
          +VIL   ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q
Sbjct: 2  KVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQ 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 = 58.1 bits (141), Expect = 1e-12
 Identities = 16/51 (31%), Positives = 23/51 (45%)

Query: 43 EVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRR 93
          +VI    V  +GK GE   VA GY  N L  + LA+         +  Q++
Sbjct: 2  KVIFLKDVKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQ 52

>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 = 56.5 bits (137), Expect = 7e-12
 Identities = 21/52 (40%), Positives = 28/52 (53%)

Query: 42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRR 93
          ++VIL  KV  LG  G+ V V  GY RN L+P+  AVP  +K       +R 
Sbjct: 1  MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRA 52

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	218
d2j01i2	55	Ribosomal protein L9 N-domain {Thermus thermophilu	99.93
d2gycf2	58	Ribosomal protein L9 N-domain {Escherichia coli [T	99.92
d2hbaa1	52	Ribosomal protein L9 N-domain {Bacillus stearother	99.92
d1diva1	94	Ribosomal protein L9 C-domain {Bacillus stearother	99.89
d2j01i1	91	Ribosomal protein L9 C-domain {Thermus thermophilu	99.84
d2gycf1	91	Ribosomal protein L9 C-domain {Escherichia coli [T	99.84

>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=99.93  E-value=6e-27  Score=159.33  Aligned_cols=51  Identities=37%  Similarity=0.599  Sum_probs=48.2

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQR   92 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~   92 (218)
                      |+|||++||+|||++||||+|++|||||||||+|+|++||+++++.++.++
T Consensus         1 MkVILl~dV~~lG~~Gdiv~Vk~GyaRN~LiP~~~A~~at~~nl~~~~~~~   51 (55)
T d2j01i2           1 MKVILLEPLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARI   51 (55)
T ss_dssp             CEEEECSCCSSSCSTTCEEECCHHHHHHTTTTTTSEEECCHHHHHHHHHHH
T ss_pred             CEEEEccccccCCCCCCEEEEChhhHHHHhcccCchhhcCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999998776544

>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=99.92  E-value=6e-27  Score=161.09  Aligned_cols=52  Identities=40%  Similarity=0.636  Sum_probs=48.7

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQRR   93 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~   93 (218)
                      |+|||++||+|||++||+|+|+||||||||||+|+|++||+++++.++.+++
T Consensus         1 MkVIL~~dv~~lG~~Gdvv~Vk~GyaRNyLiP~glA~~at~~n~~~~~~~~~   52 (58)
T d2gycf2           1 MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRA   52 (58)
T ss_dssp             CEEEECSSSSSCCCSCEEEECCTTTTTTTTTTTTSEEECCCHHHHHHHHHHH
T ss_pred             CeEEEccccccCCCCCCEEEEccchhHHHhccCCceecCCHHHHHHHHHHHH
Confidence            8999999999999999999999999999999999999999999987766553

>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=99.92  E-value=6.4e-27  Score=157.56  Aligned_cols=51  Identities=31%  Similarity=0.462  Sum_probs=48.2

Q ss_pred             eEEEEeccccccCCCCceEEeCCCcccccccccCccccchHHHHHHHHHHH
Q 027812           42 LEVILTTKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIREQR   92 (218)
Q Consensus        42 mkVILlkdV~~LGk~GdiV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~   92 (218)
                      |+|||++||++||++||+|+|++|||||||||+|+|++||++|++.++.++
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            899999999999999999999999999999999999999999998776554

>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=99.89  E-value=4.3e-23  Score=154.29  Aligned_cols=88  Identities=18%  Similarity=0.292  Sum_probs=80.8

Q ss_pred             hhHHHHHHHHHHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEE
Q 027812          112 NMSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYE  191 (218)
Q Consensus       112 ~~~~~a~~~~~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~  191 (218)
                      +...+|++++++|++..++|.++++++|           +||||||+.||+++|.+++|++||+++|.||+|||++|+|.
T Consensus         5 ~~~~~A~~la~~L~~~~i~i~~k~ge~G-----------kLfGSVt~~dI~~~l~~~~g~~idk~~I~l~~~IK~~G~y~   73 (94)
T d1diva1           5 EELANAKKLKEQLEKLTVTIPAKAGEGG-----------RLFGSITSKQIAESLQAQHGLKLDKRKIELADAIRALGYTN   73 (94)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEECBCGGG-----------EEEEEECHHHHHHHHHHHHCCCCCGGGBCCCSCEEESEEEE
T ss_pred             HHHHHHHHHHHHhhCCEEEEEEEECCCC-----------eeEecccHHHHHHHHHHccCceecHHHhhccCchhhcEeEE
Confidence            4466888999999999999998886553           99999999999999988899999999999999999999999


Q ss_pred             EEEEcCCCCCCCCceEEEEEEEEEEe
Q 027812          192 VPMRLPKAIPLPEGKVQWTLNVKVRG  217 (218)
Q Consensus       192 V~I~L~~~v~~p~~~~~~~l~V~V~~  217 (218)
                      |+|+||++|       +++++|.|..
T Consensus        74 v~i~Lh~~V-------~a~i~v~V~~   92 (94)
T d1diva1          74 VPVKLHPEV-------TATLKVHVTE   92 (94)
T ss_dssp             EEEEEETTE-------EEEEEEEEEE
T ss_pred             EEEEecCCe-------EEEEEEEEEe
Confidence            999999998       7999999975

>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=99.84  E-value=8.3e-23  Score=151.87  Aligned_cols=85  Identities=26%  Similarity=0.417  Sum_probs=75.2

Q ss_pred             hHHHHHHHHHHHhcCceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEE
Q 027812          113 MSREFEKAARRLENARLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPSPLSAFGEYEV  192 (218)
Q Consensus       113 ~~~~a~~~~~kL~~~~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~pIk~~G~y~V  192 (218)
                      .+++|++++++|++..++|.+++         |+   |+||||||+.||+++|.++.|++||+++|.|++|||++|+|.|
T Consensus         6 ~~~~A~~l~~~L~~~~i~i~~k~---------~e---gkLfGSVt~~dIa~~l~~~~g~~Idk~~I~l~~~IK~~G~~~v   73 (91)
T d2j01i1           6 RKAEAERLKEILENLTLTIPVRA---------GE---TKIYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVL   73 (91)
T ss_dssp             TTTTTHHHHHHHTTCBCCCCCCB---------CS---SSBSSCCCHHHHHHHHHTTTCCCCCTTTTCCSSCCCSCEEEEC
T ss_pred             HHHHHHHHHHHhcCCEEEEEEEe---------cC---CceecccCHHHHHHHHHhccCceechHHhhccccccceEEEEE
Confidence            34567789999999988876665         32   3999999999999999988999999999999999999999999


Q ss_pred             EEEcCCCCCCCCceEEEEEEEEEE
Q 027812          193 PMRLPKAIPLPEGKVQWTLNVKVR  216 (218)
Q Consensus       193 ~I~L~~~v~~p~~~~~~~l~V~V~  216 (218)
                      +|+||++|       +++++|.|+
T Consensus        74 ~i~L~~~V-------~a~i~v~Vv   90 (91)
T d2j01i1          74 TYKPHPEV-------PIQLKVSVV   90 (91)
T ss_dssp             CCSSSSCC-------CCEEEECCC
T ss_pred             EEEecCCE-------EEEEEEEEE
Confidence            99999998       599999874

>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=99.84  E-value=2.6e-21  Score=143.78  Aligned_cols=86  Identities=15%  Similarity=0.244  Sum_probs=76.5

Q ss_pred             hHHHHHHHHHHHhcC-ceEEEEeccccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCC-CCccceeE
Q 027812          113 MSREFEKAARRLENA-RLVLRRFPNIEKLRSRESKDVPIELRSPVTKEELVAEVSRQLSISIEPENLHLPS-PLSAFGEY  190 (218)
Q Consensus       113 ~~~~a~~~~~kL~~~-~l~~~~~~~~~~~~~k~g~~~~~klfGSVT~~dI~~~L~~q~gi~Idk~~I~l~~-pIk~~G~y  190 (218)
                      .++.|++++++|++. .++|.++++++|           +||||||+.||+++|.++ |++||+++|.||+ |||++|+|
T Consensus         3 ~l~~A~~~a~kl~~~~~i~i~~kage~G-----------kLfGSVt~~dI~~~l~~~-g~~Idk~~I~l~~~~IK~lG~y   70 (91)
T d2gycf1           3 VLAAANARAEKINALETVTIASKAGDEG-----------KLFGSIGTRDIADAVTAA-GVEVAKSEVRLPNGVLRTTGEH   70 (91)
T ss_dssp             HHHHHHHHHHHHTTTCCCEEEECEEETT-----------EESSCCCHHHHHHHHTTT-TCCCCSTTSCCSSCCCCBSSEE
T ss_pred             HHHHHHHHHHHhcCCcEEEEEEEeCCCC-----------eeeeecCHHHHHHHHHHc-CCcccHHHEECCCccccccEEE
Confidence            356778899999997 589988885543           999999999999999976 9999999999987 79999999


Q ss_pred             EEEEEcCCCCCCCCceEEEEEEEEEEe
Q 027812          191 EVPMRLPKAIPLPEGKVQWTLNVKVRG  217 (218)
Q Consensus       191 ~V~I~L~~~v~~p~~~~~~~l~V~V~~  217 (218)
                      .|+|+||++|       +++++|.|..
T Consensus        71 ~v~i~Lh~~V-------~~~i~v~Vv~   90 (91)
T d2gycf1          71 EVSFQVHSEV-------FAKVIVNVVA   90 (91)
T ss_dssp             EEEECSSSSC-------CEEEEEEEEE
T ss_pred             EEEEEEcCCE-------EEEEEEEEEE
Confidence            9999999998       5999999874