Citrus Sinensis ID: 038179

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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-------220-
Protein Sequence
MHWMAFTQHGRNALRQITKESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK
Secondary Structure (PSIPRED)
ccHHHHHHHHHHHHHHHHHHHcHHHHcccHHHHHcccccEEEEEEEEccccccccccccccEEEccccccccccccccccccccHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEccccccEEEcccHHHHHHHHHHHcccccccccccccccccccEEEEEEEEccccccccccEEEEEEEEEEEEc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHccccHEHcHHHHHHcccEEEEEEEEEEcccccccHccccccEEEEccccHHHccccHHcccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHEEEEEEEEcccccccccccccEEEEccccHHHHHHHHHHHccccEccccEEccccHHHccEEEEEEEcccccccccccEEEEEEEEEEcc
Coil and Loop (DISEMBL)
MHWMAFTQHGRNALRQITKessdrvlhhpllfscqgvryrrwnldlltnqpkvdklgkagetvkvapgyfrnhlmpkllavpnIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLrsraskddpielrspvtKEELVAEVARQLSIsiepenlhlpsplsafgeyevpmrlpkaiplpegkvqwtlnvkvrgk
Flexible Loop (DISEMBL)
MHWMAFTQHGRNALRQITKESSDRVLHHPLLFSCQGVRYRRWNLDLLtnqpkvdklgkageTVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQrricqpveeekvkvirksednmsREFEKAARRLENARLVLrrfsnieklrsraskddpielrspvtkeELVAEVARQLSisiepenlhlpsPLSAFGEYEVPMRLPkaiplpegkvqwtlnvkvrgk
Low Complexity Region (SEG)
MHWMAFTQHGRNALRQITKESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK
Disordered region (IsUnstruct)
***********************RVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPV******************************LVLR***************************************************LSAFGEYEVPMRLPKAIPLPEGKVQWTLNV*****
Disordered Region (DISOPRED)
**W*A**QHGRNALRQITKE****VLHH*LLFSCQGVRYRRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRK*********************************LENARLVLRRFSNIEKLRS*ASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRG*
Disordered Region (DISEMBL)
*********GRNALRQITKESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK
Disordered Region (DISPRO)
*HWMAFTQHGRNALRQITKESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRG*
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
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Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MHWMAFTQHGRNALRQITKESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK
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	221	2.2.26 [Sep-21-2011]
Q3A320	148	50S ribosomal protein L9	yes	no	0.561	0.837	0.316	8e-09
A1AM21	151	50S ribosomal protein L9	yes	no	0.556	0.814	0.304	1e-07
Q9ZEA4	171	50S ribosomal protein L9	yes	no	0.565	0.730	0.299	1e-07
Q01QR6	148	50S ribosomal protein L9	yes	no	0.579	0.864	0.291	2e-07
A8GLX8	171	50S ribosomal protein L9	yes	no	0.565	0.730	0.326	2e-07
Q1XDF2	155	50S ribosomal protein L9,	N/A	no	0.561	0.8	0.277	3e-07
A8F0E7	171	50S ribosomal protein L9	yes	no	0.565	0.730	0.319	5e-07
Q68XR7	171	50S ribosomal protein L9	yes	no	0.565	0.730	0.299	6e-07
C4K161	171	50S ribosomal protein L9	yes	no	0.561	0.725	0.324	9e-07
Q92JK1	171	50S ribosomal protein L9	yes	no	0.561	0.725	0.324	1e-06

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

 Score = 60.5 bits (145), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 49/155 (31%), Positives = 77/155 (49%), Gaps = 31/155 (20%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
           VD LG+ G+ VKV PGY RN L+P        +KFA  +    R  + +E +K       
Sbjct: 9   VDGLGQIGDLVKVKPGYARNFLIP--------QKFA--VEANTRNIKELEHQK------- 51

Query: 113 EDNMSREFEKAARRLENARLVLRRFSNIEKLRS----RASKDDPIELRSPVTKEELVAEV 168
                R+ E  A+++  A  V++  + IEK+      RA  D   +L   VT  E+ A++
Sbjct: 52  -----RQLEHKAQKVLQASEVVK--AQIEKVTCEFALRAGDDG--KLFGSVTSMEIQAKL 102

Query: 169 ARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAI 203
           A    + ++ + + L  P+ A GEYEV ++LP  I
Sbjct: 103 AES-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 = 56.6 bits (135), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 45/148 (30%), Positives = 71/148 (47%), Gaps = 25/148 (16%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
           +D LG  G+ VKVAPGY RN+L+PK LAV   EK A  +   +R                
Sbjct: 9   IDTLGHIGDIVKVAPGYARNYLLPKGLAVEATEKNAKALEHVKR---------------- 52

Query: 113 EDNMSREFEKAARRLENARLVLRRFSNIE-KLRSRASKDDPIELRSPVTKEELVAEVARQ 171
              M+   +K  +    A+L+L +   I  +L  +A  +   +L   VT  E +A   ++
Sbjct: 53  --QMAYRKDKVTQA---AKLLLAKLEGITVELVHQAGVEG--KLFGSVTNME-IAAFLKE 104

Query: 172 LSISIEPENLHLPSPLSAFGEYEVPMRL 199
             + I+ + + L  P+   GEY VP++L
Sbjct: 105 KGVDIDRKKIALAEPIKQVGEYSVPVKL 132

Binds to the 23S rRNA.

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

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

 Score = 56.6 bits (135), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 44/147 (29%), Positives = 75/147 (51%), Gaps = 22/147 (14%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
           V KLGK G+ +KVA G+ RN+L+P+ LA+   +    LI KQ+       EEK K +R+ 
Sbjct: 9   VRKLGKIGDILKVADGFGRNYLLPQKLAIRATKSNKELIVKQKYEF----EEKDKQVRE- 63

Query: 113 EDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQL 172
                 E EK    +++ +LV  R ++           D  +L   VT +++  ++++ +
Sbjct: 64  ------EVEKINTIIKDQQLVFIRQTS-----------DDCKLFGSVTNKDIADKLSKNI 106

Query: 173 SISIEPENLHLPSPLSAFGEYEVPMRL 199
           S +I   N+ L   + + G Y V +RL
Sbjct: 107 SYNISHSNIILDKQIKSTGIYTVEIRL 133

Binds to the 23S rRNA.

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

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

 Score = 56.2 bits (134), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 44/151 (29%), Positives = 78/151 (51%), Gaps = 23/151 (15%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
           ++ LG  G+ VKVAPGY RN L+PK +AV   E         R+I   VE+E+   +RK 
Sbjct: 9   IENLGTRGQLVKVAPGYARNFLLPKRMAVAATE-------ANRKI---VEQERQAHLRK- 57

Query: 113 EDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQL 172
           E  +  E E+ A+ +    +         ++  +A ++D  +L   VT +++   +  Q 
Sbjct: 58  ETKIKGEAEELAKIMTGVTV---------RISQKAGEND--QLFGSVTSKDIADALTAQ- 105

Query: 173 SISIEPENLHLPSPLSAFGEYEVPMRLPKAI 203
           + +I+   + L  P+   GE+++P+RL K +
Sbjct: 106 NYNIDRRKIQLDEPIKTLGEFKIPVRLYKDV 136

Binds to the 23S rRNA.

Solibacter usitatus (strain Ellin6076) (taxid: 234267)

>sp|A8GLX8|RL9_RICAH 50S ribosomal protein L9 OS=Rickettsia akari (strain Hartford) GN=rplI PE=3 SV=1

 Score = 56.2 bits (134), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 48/147 (32%), Positives = 75/147 (51%), Gaps = 22/147 (14%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
           V KLGK G+ +KVA G+ RN+L+P+ LA+   E    LI KQ+       E K K IR+ 
Sbjct: 9   VRKLGKIGDMLKVADGFGRNYLLPQKLAIRATEPNKELIVKQKHEF----EAKDKQIRE- 63

Query: 113 EDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQL 172
                 E EK    +++ +LV  R         +AS D   +L   VT +E+  ++++ +
Sbjct: 64  ------EVEKINALIKDQKLVFIR---------QASDDG--KLFGSVTNKEIADKLSKNV 106

Query: 173 SISIEPENLHLPSPLSAFGEYEVPMRL 199
           S +I   N+ L   + + G Y V +RL
Sbjct: 107 SYNISHSNIILDKQIKSTGVYTVEIRL 133

Binds to the 23S rRNA.

Rickettsia akari (strain Hartford) (taxid: 293614)

>sp|Q1XDF2|RK9_PORYE 50S ribosomal protein L9, chloroplastic OS=Porphyra yezoensis GN=rpl9 PE=3 SV=1

 Score = 55.1 bits (131), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 41/148 (27%), Positives = 70/148 (47%), Gaps = 24/148 (16%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMP-KLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRK 111
           + KLGK+ + +KVA GY RN L+P K+ AV       + I KQ++    + EEK+K  + 
Sbjct: 14  IQKLGKSNDVIKVASGYARNFLIPNKMAAVA-----TNGILKQQKFYAAIREEKLKTAK- 67

Query: 112 SEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQ 171
                           ENA+ V +    I++        D   +   VT++E+   +   
Sbjct: 68  ----------------ENAKKVKQLLEEIQRFSVSKKTGDGHNIFGSVTEKEISQIIKNT 111

Query: 172 LSISIEPENLHLPSPLSAFGEYEVPMRL 199
            +I IE +++ LP  +   G Y+V ++L
Sbjct: 112 TNIDIEKQSISLPD-VKTIGIYDVEIKL 138

Binds to the 23S rRNA.

Porphyra yezoensis (taxid: 2788)

>sp|A8F0E7|RL9_RICM5 50S ribosomal protein L9 OS=Rickettsia massiliae (strain Mtu5) GN=rplI PE=3 SV=1

 Score = 54.7 bits (130), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 47/147 (31%), Positives = 73/147 (49%), Gaps = 22/147 (14%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
           V KLGK G+ +KVA G+ RN+L+P+ LA+   E    LI KQ+       E K K IR+ 
Sbjct: 9   VRKLGKIGDILKVADGFGRNYLLPQKLAIRATEPNKELIVKQKHEF----EAKDKQIRE- 63

Query: 113 EDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQL 172
                 E EK    +++ +LV            R + DD  +L   VT +E+  +++  +
Sbjct: 64  ------EVEKINALIKDQKLVF----------IRQTSDDG-KLFGSVTNKEIADKLSENV 106

Query: 173 SISIEPENLHLPSPLSAFGEYEVPMRL 199
           S +I   N+ L   + + G Y V +RL
Sbjct: 107 SYNISHSNIILDKQIKSTGIYTVEIRL 133

Binds to the 23S rRNA.

Rickettsia massiliae (strain Mtu5) (taxid: 416276)

>sp|Q68XR7|RL9_RICTY 50S ribosomal protein L9 OS=Rickettsia typhi (strain ATCC VR-144 / Wilmington) GN=rplI PE=3 SV=1

 Score = 54.3 bits (129), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 44/147 (29%), Positives = 73/147 (49%), Gaps = 22/147 (14%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
           V KLGK G+ +KVA G+ RN+L+P+ LA+   +    LI KQ+       E K K IR  
Sbjct: 9   VRKLGKIGDILKVANGFGRNYLLPQKLAIRATKSNKELIVKQKHEF----EAKDKQIRA- 63

Query: 113 EDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQL 172
                 E EK    +++ +LV  R ++           D  +L   VT +++  ++++ +
Sbjct: 64  ------EVEKINTLIKDQQLVFIRQTS-----------DDCKLFGSVTNKDIADKLSKNI 106

Query: 173 SISIEPENLHLPSPLSAFGEYEVPMRL 199
           S +I   N+ L   + + G Y V +RL
Sbjct: 107 SYNISHSNVILDKQIKSTGIYTVEIRL 133

Binds to the 23S rRNA.

Rickettsia typhi (strain ATCC VR-144 / Wilmington) (taxid: 257363)

>sp|C4K161|RL9_RICPU 50S ribosomal protein L9 OS=Rickettsia peacockii (strain Rustic) GN=rplI PE=3 SV=1

 Score = 53.9 bits (128), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 74/148 (50%), Gaps = 24/148 (16%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
           V KLGK G+ +KVA G+ RN+L+P+ LA+   E    LI KQ+       E K K IR+ 
Sbjct: 9   VRKLGKIGDILKVADGFGRNYLLPQKLAIRATEPNKELIVKQKHEF----EAKDKQIRE- 63

Query: 113 EDNMSREFEKAARRLENARLV-LRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQ 171
                 E EK    +++ +LV +R+ SN  K            L   VT +E+  +++  
Sbjct: 64  ------EVEKINALIKDQQLVFIRQTSNDGK------------LFGSVTNKEIADKLSEN 105

Query: 172 LSISIEPENLHLPSPLSAFGEYEVPMRL 199
           +S +I   N+ L   + + G Y V +RL
Sbjct: 106 ISYNISHSNIILDKQIKSTGIYTVEIRL 133

Binds to the 23S rRNA.

Rickettsia peacockii (strain Rustic) (taxid: 562019)

>sp|Q92JK1|RL9_RICCN 50S ribosomal protein L9 OS=Rickettsia conorii (strain ATCC VR-613 / Malish 7) GN=rplI PE=3 SV=1

 Score = 53.5 bits (127), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 48/148 (32%), Positives = 74/148 (50%), Gaps = 24/148 (16%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
           V KLGK G+ +KVA G+ RN+L+P+ LA+   E    LI KQ+       E K K IR+ 
Sbjct: 9   VRKLGKIGDILKVADGFGRNYLLPQKLAIRATEPNKELIVKQKHEF----EAKDKQIRE- 63

Query: 113 EDNMSREFEKAARRLENARLV-LRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQ 171
                 E EK    +++ +LV +R+ SN  K            L   VT +E+  +++  
Sbjct: 64  ------EVEKINALIKDQQLVFIRQTSNDGK------------LFGSVTNKEIADKLSEN 105

Query: 172 LSISIEPENLHLPSPLSAFGEYEVPMRL 199
           +S +I   N+ L   + + G Y V +RL
Sbjct: 106 ISYNISHSNIILDKQIKSTGIYTVEIRL 133

Binds to the 23S rRNA.

Rickettsia conorii (strain ATCC VR-613 / Malish 7) (taxid: 272944)

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	221
255634861	222	unknown [Glycine max]	0.977	0.972	0.598	3e-72
388493818	222	unknown [Lotus japonicus]	0.977	0.972	0.607	4e-72
356517474	222	PREDICTED: 50S ribosomal protein L9-like	0.977	0.972	0.598	4e-72
356558761	222	PREDICTED: 50S ribosomal protein L9-like	0.977	0.972	0.593	5e-72
356571485	222	PREDICTED: 50S ribosomal protein L9-like	0.977	0.972	0.593	2e-71
224118314	219	predicted protein [Populus trichocarpa]	0.968	0.977	0.614	6e-69
224146953	219	predicted protein [Populus trichocarpa]	0.968	0.977	0.609	8e-69
224115542	219	predicted protein [Populus trichocarpa]	0.968	0.977	0.609	1e-68
225455342	217	PREDICTED: 50S ribosomal protein L9 [Vit	0.963	0.981	0.621	1e-67
255561860	225	structural constituent of ribosome, puta	0.963	0.946	0.570	2e-67

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

 Score =  277 bits (708), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 134/224 (59%), Positives = 180/224 (80%), Gaps = 8/224 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAG 60
           M + Q GR+++RQ+ +    S D V+ +PLL++ QG+RY+R    +LT    +DKLGKAG
Sbjct: 1   MGYLQFGRHSVRQVLRFRDASCDNVVVNPLLYASQGLRYKRKLQVILTTD--IDKLGKAG 58

Query: 61  ETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEK---VKVIRKSEDNMS 117
           +TVKVAPGYFRNHLMPKLLA PNI+KFA+L+ +QR+I QP EEEK   V ++++S+++M 
Sbjct: 59  DTVKVAPGYFRNHLMPKLLAFPNIDKFAYLLNEQRKIYQPTEEEKQEDVTLVKESKEDMM 118

Query: 118 REFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIE 177
           +E+EKAA RL+ A+LVLRR  N++K +SR SK+DP+ELR PVTK+ LVAEVARQL +++ 
Sbjct: 119 KEYEKAALRLDKAQLVLRRLINVQKAKSRESKEDPLELRYPVTKDTLVAEVARQLCVNVA 178

Query: 178 PENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 221
           P+NLHLPSPLS  GEYEVP+R+P++IPLPEGKV W+L VKVR K
Sbjct: 179 PDNLHLPSPLSTLGEYEVPLRIPRSIPLPEGKVNWSLKVKVRSK 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 =  276 bits (707), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 136/224 (60%), Positives = 179/224 (79%), Gaps = 8/224 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAG 60
           M + Q+GR  +RQI +    SS+  + +PLL++ QG+RY R    +LT    +DKLGKAG
Sbjct: 1   MGYLQYGRLGVRQIIRFRDSSSNSAVVNPLLYASQGLRYNRKLQVILTTD--IDKLGKAG 58

Query: 61  ETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEK---VKVIRKSEDNMS 117
           +TVKVAPGYFRNHLMPKLLAVPNI+KFA+L+ +QR+I QP EEEK   V V+++S++++ 
Sbjct: 59  DTVKVAPGYFRNHLMPKLLAVPNIDKFAYLLTEQRKIYQPTEEEKQEDVTVVKESKEDLM 118

Query: 118 REFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIE 177
           +E+E AA RL+ A+LVLRR  +++K ++RASKD+P+E+R PVTKE LVAEVARQL ++I 
Sbjct: 119 KEYEAAALRLDKAKLVLRRLIDVKKAKARASKDEPLEIRLPVTKEVLVAEVARQLCVNIA 178

Query: 178 PENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 221
           PENLHLPSPLS  GEYEVP+RLP++IPLPEGKV W+L VKVR K
Sbjct: 179 PENLHLPSPLSTVGEYEVPLRLPRSIPLPEGKVNWSLQVKVRSK 222

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

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 =  276 bits (707), Expect = 4e-72,   Method: Compositional matrix adjust.
 Identities = 134/224 (59%), Positives = 179/224 (79%), Gaps = 8/224 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAG 60
           M + Q GR+ +RQ+ +    S D V+ +PLL++ QG+RY+R    +LT    +DKLGKAG
Sbjct: 1   MGYLQFGRHGVRQVLRFRDASCDNVVVNPLLYASQGLRYKRKLQVILTTD--IDKLGKAG 58

Query: 61  ETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEK---VKVIRKSEDNMS 117
           +TVKVAPGYFRNHLMPKLLA PNI+KFA+L+ +QR+I QP EEEK   V ++++S+++M 
Sbjct: 59  DTVKVAPGYFRNHLMPKLLAFPNIDKFAYLLNEQRKIYQPTEEEKQEDVTLVKESKEDMM 118

Query: 118 REFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIE 177
           +E+EKAA RL+ A+LVLRR  N++K +SR SK+DP+ELR PVTK+ LVAEVARQL +++ 
Sbjct: 119 KEYEKAALRLDKAQLVLRRLINVQKAKSRESKEDPLELRYPVTKDTLVAEVARQLCVNVA 178

Query: 178 PENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 221
           P+NLHLPSPLS  GEYEVP+R+P++IPLPEGKV W+L VKVR K
Sbjct: 179 PDNLHLPSPLSTLGEYEVPLRIPRSIPLPEGKVNWSLKVKVRSK 222

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  276 bits (705), Expect = 5e-72,   Method: Compositional matrix adjust.
 Identities = 133/224 (59%), Positives = 178/224 (79%), Gaps = 8/224 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAG 60
           M + Q GR+ +RQI +    S D V+ +PLL++ QG+RY+R    +LT    +D LGKAG
Sbjct: 1   MGYLQFGRHGVRQIIRFRDASYDNVVVNPLLYASQGLRYKRKLQVILTTD--IDNLGKAG 58

Query: 61  ETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEK---VKVIRKSEDNMS 117
           +TVKVAPGYFRNHLMPKLLA PNI+KFAHL+ +QR+I QP EEEK   V ++++S+++M 
Sbjct: 59  DTVKVAPGYFRNHLMPKLLAFPNIDKFAHLLNEQRKIYQPTEEEKQEDVTLVKESKEDMM 118

Query: 118 REFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIE 177
           +E+EKAA RL+ A+LVLRR  N++K +SR SKDDP+ELR PVTK+ LVAEV+RQ+ +++ 
Sbjct: 119 KEYEKAALRLDKAKLVLRRLINVQKAKSRESKDDPLELRYPVTKDILVAEVSRQICVNVA 178

Query: 178 PENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 221
           P+NLHLPSPL+  GEYEVP+RLP++IPLPEGKV W+L VK+R K
Sbjct: 179 PDNLHLPSPLATLGEYEVPLRLPRSIPLPEGKVNWSLKVKIRSK 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 =  274 bits (700), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 133/224 (59%), Positives = 178/224 (79%), Gaps = 8/224 (3%)

Query: 4   MAFTQHGRNALRQITK---ESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAG 60
           M + Q GR+ ++QI +    S D V+ +PLL++ QG+RY+R    +LT    +DKLGKAG
Sbjct: 1   MGYLQFGRHGVKQIIRFRDASYDNVVVNPLLYASQGLRYKRKLQVILTTD--IDKLGKAG 58

Query: 61  ETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEK---VKVIRKSEDNMS 117
           +TVKVAPGYFRNHLMPKLLA PNI+KFA+L+ +QR+I QP EEE    V ++++S+++M 
Sbjct: 59  DTVKVAPGYFRNHLMPKLLAFPNIDKFAYLLNEQRKIYQPTEEENQEDVTLVKESKEDMM 118

Query: 118 REFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIE 177
           +E+EKAA RL+ A+LVLRR  N++K +SR SK+DP+ELR PVTK+ LVAEVARQL +++ 
Sbjct: 119 KEYEKAALRLDKAKLVLRRLINVQKAKSRESKEDPLELRYPVTKDILVAEVARQLCVNVA 178

Query: 178 PENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 221
           P+NLHLPSPLS  GEYEVP+RLP++IPLPEGKV W+L VK+R K
Sbjct: 179 PDNLHLPSPLSTLGEYEVPLRLPRSIPLPEGKVNWSLKVKIRSK 222

Source: Glycine max

Species: Glycine max

Genus: Glycine

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 =  266 bits (679), Expect = 6e-69,   Method: Compositional matrix adjust.
 Identities = 137/223 (61%), Positives = 178/223 (79%), Gaps = 9/223 (4%)

Query: 4   MAFTQHGRNALRQI-----TKESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGK 58
           MA  QH RNALR+I     + +SSD  +H PLL++CQGVRY++  + L T+   ++KLGK
Sbjct: 1   MACIQHSRNALRRIIAKETSLKSSDGAIH-PLLYACQGVRYKKLEVILTTS---IEKLGK 56

Query: 59  AGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSR 118
           AG+TVKVAPG+FRNHLMPKLLAVPNIEKFAHLIR+QR+I QP EEE+VKV++++ ++  +
Sbjct: 57  AGQTVKVAPGHFRNHLMPKLLAVPNIEKFAHLIREQRKIYQPEEEEEVKVVKETMEDKMK 116

Query: 119 EFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEP 178
           E+E AA+R   ARL  R   N  K RSR SKDDPIE+ SPVTK++++ EV RQ ++ IEP
Sbjct: 117 EYETAAKRFVKARLAFRVGINTAKFRSRESKDDPIEILSPVTKDDILKEVTRQFNVQIEP 176

Query: 179 ENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 221
           +N+HLPSPL+A GE+EVP+R PK+IPLPEGKV+WTL VK+RGK
Sbjct: 177 DNVHLPSPLTALGEFEVPLRFPKSIPLPEGKVKWTLQVKIRGK 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 =  265 bits (678), Expect = 8e-69,   Method: Compositional matrix adjust.
 Identities = 136/223 (60%), Positives = 178/223 (79%), Gaps = 9/223 (4%)

Query: 4   MAFTQHGRNALRQITKE-----SSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGK 58
           MA  QH RNALR+I  +     SSD  +H PLL++CQGVRY++  + L T+   ++KLGK
Sbjct: 1   MACIQHSRNALRRIIAKETSLKSSDGAIH-PLLYACQGVRYKKLEVILTTS---IEKLGK 56

Query: 59  AGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSR 118
           AG+TVKVAPG+FRNHLMPKLLAVPNIEKFAHLIR+QR+I QP EEE+VKV++++ ++  +
Sbjct: 57  AGQTVKVAPGHFRNHLMPKLLAVPNIEKFAHLIREQRKIYQPEEEEEVKVVKETMEDKMK 116

Query: 119 EFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEP 178
           E+E AA+RL  ARL  R   N  K R+R SKDDPIE+ SPVTK++++ EV RQ ++ IEP
Sbjct: 117 EYETAAKRLVKARLAFRVGINTAKFRARESKDDPIEILSPVTKDDILKEVTRQFNVQIEP 176

Query: 179 ENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 221
           +N+HLPSPL+A GE+EVP+R PK+IP+PEGKV+WTL VK+RGK
Sbjct: 177 DNVHLPSPLTALGEFEVPLRFPKSIPMPEGKVKWTLKVKIRGK 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 =  265 bits (676), Expect = 1e-68,   Method: Compositional matrix adjust.
 Identities = 136/223 (60%), Positives = 178/223 (79%), Gaps = 9/223 (4%)

Query: 4   MAFTQHGRNALRQITKE-----SSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGK 58
           MA  QH RNALR+I  +     SSD  +H PLL++CQGVRY++  + L T+   ++KLGK
Sbjct: 1   MACIQHSRNALRRIVAKETNLKSSDGAIH-PLLYACQGVRYKKLEVILTTS---IEKLGK 56

Query: 59  AGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSR 118
           AG+TVKVAPG+FRNHLMPKLLAVPNIEKFAHLIR+QR+I QP EEE+VKV++++ ++  +
Sbjct: 57  AGQTVKVAPGHFRNHLMPKLLAVPNIEKFAHLIREQRKIYQPEEEEEVKVVKETMEDKMK 116

Query: 119 EFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEP 178
           E+E AA+RL  A+L  R   N  K R+R SKDDPIE+ SPVTK++++ EV RQ ++ IEP
Sbjct: 117 EYETAAKRLVKAQLAFRVGINTAKFRARESKDDPIEILSPVTKDDILKEVTRQFNVQIEP 176

Query: 179 ENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 221
           +N+HLPSPL+A GE+EVP+R PK+IPLPEGKV+WTL VK+RGK
Sbjct: 177 DNVHLPSPLTALGEFEVPLRFPKSIPLPEGKVKWTLKVKIRGK 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 =  261 bits (668), Expect = 1e-67,   Method: Compositional matrix adjust.
 Identities = 138/222 (62%), Positives = 176/222 (79%), Gaps = 9/222 (4%)

Query: 4   MAFTQHGRNALRQITKE----SSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGKA 59
           MA+ Q+GRN LR I K+     SDRV++ PLL+ CQGVRYR+  + L TN   +DKLGKA
Sbjct: 1   MAYMQYGRNILRHIVKDVGSQCSDRVVN-PLLYVCQGVRYRKLEVILTTN---IDKLGKA 56

Query: 60  GETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSRE 119
           GETVKVAPGYFRNHLMPKLLAVPNIEKFA+LI +QR++ QP E E+VK + ++E++  +E
Sbjct: 57  GETVKVAPGYFRNHLMPKLLAVPNIEKFAYLISEQRKLYQPEEVEEVKEVVETEEDKMKE 116

Query: 120 FEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPE 179
           +  AA+RLE  R+  RRF   EK +    K +P+ELRSP+TK++LVAEVARQLS+ +EPE
Sbjct: 117 YHTAAKRLETTRVAFRRFIKFEKGQP-VRKGEPLELRSPITKDDLVAEVARQLSVQVEPE 175

Query: 180 NLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRGK 221
           +LHLPSPL+  GE+EVP+RLPK+IPLPEGKV+WTL VK+R K
Sbjct: 176 SLHLPSPLTHVGEFEVPLRLPKSIPLPEGKVRWTLKVKIRCK 217

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255561860|ref|XP_002521939.1| structural constituent of ribosome, putative [Ricinus communis] gi|223538864|gb|EEF40463.1| structural constituent of ribosome, putative [Ricinus communis]

 Score =  261 bits (666), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 129/226 (57%), Positives = 172/226 (76%), Gaps = 13/226 (5%)

Query: 4   MAFTQHGRNALRQI--------TKESSDRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDK 55
           MA+ Q GRNALR I        +  S      HPL F+ QGVR+R+ ++ L TN   ++K
Sbjct: 1   MAYVQQGRNALRHIIIKEANLRSTSSQSHAAIHPLHFASQGVRFRKLDVILTTN---IEK 57

Query: 56  LGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDN 115
           LGKAGETVKVAPGYFRNHLMPKLLAVPNI+KFA+LIR+QR+I Q  EEE+V+V +++ ++
Sbjct: 58  LGKAGETVKVAPGYFRNHLMPKLLAVPNIDKFAYLIREQRKIYQHEEEEEVRVAKETVED 117

Query: 116 MSREFEKAARRLENARLV--LRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLS 173
           M +E+E A +RL NA+LV  L    N +K R+RA+KD+PIE+ SP+T +++V EVARQL+
Sbjct: 118 MMKEYETAVKRLSNAQLVCGLSLRINSQKFRARATKDEPIEILSPITTDDIVKEVARQLN 177

Query: 174 ISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVR 219
           + IEP+NLHLP+PL+ FGE+ V +R PK+IPLPEGKV WTL +K+R
Sbjct: 178 VLIEPDNLHLPAPLTTFGEHYVQLRFPKSIPLPEGKVSWTLKIKIR 223

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

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	221
TAIR|locus:2168377	221	AT5G53070 [Arabidopsis thalian	0.968	0.968	0.556	9.7e-64
TIGR_CMR|NSE_0060	160	NSE_0060 "ribosomal protein L9	0.366	0.506	0.289	2.5e-05
TIGR_CMR|GSU_0668	148	GSU_0668 "ribosomal protein L9	0.257	0.385	0.383	0.00025

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

 Score = 650 (233.9 bits), Expect = 9.7e-64, P = 9.7e-64
 Identities = 124/223 (55%), Positives = 170/223 (76%)

Query:     4 MAFTQHGRNALRQITKESS-----DRVLHHPLLFSCQGVRYRRWNLDLLTNQPKVDKLGK 58
             MA+    RN +R +    +     +  +HHPLLF+CQGVRYR+  + L T    ++KLGK
Sbjct:     1 MAYVGQSRNVIRHVVSRGTAYHKYENAIHHPLLFACQGVRYRKLEVILTTG---IEKLGK 57

Query:    59 AGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVE-EEKVKVIRKSEDNMS 117
             AGETVKVAPGYFRNHLMPKLLAVPNI+K+A+LIR+QR++    E +E+VKV+ K+ +  +
Sbjct:    58 AGETVKVAPGYFRNHLMPKLLAVPNIDKYAYLIREQRKMYNHEEVKEEVKVVHKTSEVQT 117

Query:   118 REFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIE 177
             +E+EKAA+RL NA LVLR+  + EK ++R+SKDD  ++++P+TKEE+V+EVARQL + I+
Sbjct:   118 KEYEKAAKRLANANLVLRKLVDKEKFKNRSSKDDKPDVQTPITKEEIVSEVARQLCVKID 177

Query:   178 PENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRG 220
             P+N+ L +PL  FGEYEVP++ PK IPLP+G VQW L VKVRG
Sbjct:   178 PDNVVLAAPLETFGEYEVPLKFPKTIPLPQGTVQWILKVKVRG 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|NSE_0060 NSE_0060 "ribosomal protein L9" [Neorickettsia sennetsu str. Miyayama (taxid:222891)]

 Score = 85 (35.0 bits), Expect = 2.5e-05, Sum P(2) = 2.5e-05
 Identities = 24/83 (28%), Positives = 47/83 (56%)

Query:   113 EDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQL 172
             E++  +   + A  LE A  + + F+ I+ L   A  +  + L   V+ +++VAE++++ 
Sbjct:    48 ENSKEKLAAQQAAELETASELAKSFTEIDVLPIYAQAERGV-LFGAVSAKQVVAELSKK- 105

Query:   173 SISIEPENLHLPSPLSAFGEYEV 195
              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|GSU_0668 GSU_0668 "ribosomal protein L9" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 102 (41.0 bits), Expect = 0.00025, P = 0.00025
 Identities = 23/60 (38%), Positives = 37/60 (61%)

Query:    53 VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKS 112
             V+ LG  G+ VKVAPGY RN+L+P+  A+   EK A  +   +R    +E ++ KV+ ++
Sbjct:     9 VENLGHIGDIVKVAPGYARNYLIPRNFAIEATEKNAKALEHAKR---QLEYKRNKVLEQA 65


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   0.394    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      221       221   0.00095  112 3  11 22  0.38    33
                                                     32  0.40    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:  3
  No. of states in DFA:  596 (63 KB)
  Total size of DFA:  172 KB (2101 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:  24.44u 0.09s 24.53t   Elapsed:  00:00:03
  Total cpu time:  24.44u 0.09s 24.53t   Elapsed:  00:00:03
  Start:  Mon May 20 17:09:35 2013   End:  Mon May 20 17:09:38 2013

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

GO:0006412 "translation" evidence=ISS

GO:0042254 "ribosome biogenesis" 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

Your Input: grail3.0031018701 hypothetical protein (219 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

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	221
PRK00137	147	PRK00137, rplI, 50S ribosomal protein L9; Reviewed	8e-16
COG0359	148	COG0359, RplI, Ribosomal protein L9 [Translation,	2e-13
pfam01281	48	pfam01281, Ribosomal_L9_N, Ribosomal protein L9, N	5e-11
TIGR00158	148	TIGR00158, L9, ribosomal protein L9	1e-09
CHL00160	153	CHL00160, rpl9, ribosomal protein L9; Provisional	4e-07

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

 Score = 71.3 bits (176), Expect = 8e-16
 Identities = 46/171 (26%), Positives = 76/171 (44%), Gaps = 38/171 (22%)

Query: 52  KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIRKQRRICQPVEEEKVK 107
            V  LGK G+ V+V  GY RN L+P+  AV     N+++     R +       E +  +
Sbjct: 8   DVKNLGKKGDVVEVKDGYARNFLIPQGKAVRATKGNLKQLEA-RRAEL------EAKAAE 60

Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
            +         E E  A +LE   + ++          +A +D   +L   VT ++ +AE
Sbjct: 61  EL--------AEAEALAEKLEGLTVTIKA---------KAGEDG--KLFGSVTTKD-IAE 100

Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
             ++  I I+   + LP P+   GEYEVP++L         +V  T+ V V
Sbjct: 101 ALKKQGIEIDKRKIELPGPIKTLGEYEVPVKLHP-------EVTATIKVNV 144

Length = 147

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

 Score = 64.5 bits (158), Expect = 2e-13
 Identities = 43/171 (25%), Positives = 71/171 (41%), Gaps = 38/171 (22%)

Query: 52  KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIRKQRRICQPVEEEKVK 107
            V  LGK G+ V+V  GY RN L+PK LAVP    N++                 E +  
Sbjct: 8   DVKGLGKKGDIVEVKDGYARNFLIPKGLAVPATKGNLKLL---------------EARRA 52

Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
            + K       E E    +LE   + +           +A +D   +L   VT ++ +AE
Sbjct: 53  KLEKKAAEELAEAEALKEKLEGKTVEIAV---------KAGEDG--KLFGSVTSKD-IAE 100

Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
             +     ++   + LP+ +   GE+EV ++L +       +V  T+ V V
Sbjct: 101 ALKAAGFKLDKRKIRLPNGIKTLGEHEVEVKLHE-------EVTATVKVNV 144

Length = 148

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

 Score = 55.6 bits (135), Expect = 5e-11
 Identities = 19/41 (46%), Positives = 26/41 (63%), Gaps = 4/41 (9%)

Query: 52 KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFA 88
           V+ LGK G+ V+V PGY RN L+PK LAV     N+++  
Sbjct: 8  DVEGLGKKGDIVEVKPGYARNFLLPKGLAVYATPENLKELE 48

Length = 48

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

 Score = 54.7 bits (132), Expect = 1e-09
 Identities = 43/172 (25%), Positives = 68/172 (39%), Gaps = 39/172 (22%)

Query: 52  KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIRKQRRICQPVEEEKVK 107
            V  LGK G+ V+V  GY RN L+PK LAVP    NIE F     + RR     +    K
Sbjct: 8   DVANLGKRGDVVEVKDGYARNFLIPKGLAVPATKKNIEFF-----EARRKKLEEKLAANK 62

Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
                         +    LE   L + +              D  +L   +T ++ +A+
Sbjct: 63  AAAA----------RLKEVLELGTLTISKKVG-----------DEGKLFGSITTKQ-IAD 100

Query: 168 VARQLSISIEPENLHLP-SPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
             +   + ++ + + LP   +   GE+EV ++L         +V   L V V
Sbjct: 101 ALKAAGLDLDKKKIELPDGVIRTTGEHEVTIKL-------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 = 4e-07
 Identities = 35/151 (23%), Positives = 67/151 (44%), Gaps = 30/151 (19%)

Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHL----IRKQRRICQPVEEEKVKV 108
           + KLGK+G  +KV  GY RN+L+P         K A +      KQ+++ Q + + K+K 
Sbjct: 14  IQKLGKSGTVIKVKSGYARNYLIPN--------KMAKVATQGSLKQQKMYQKILDLKLKE 65

Query: 109 IRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEV 168
            +                 E    V +    I+K   +    +  ++   VT++E+   +
Sbjct: 66  AK-----------------EKCLKVKQLLEEIQKFSVKKKVGENNQIFGSVTEKEISQII 108

Query: 169 ARQLSISIEPENLHLPSPLSAFGEYEVPMRL 199
             + +I +E +N+ LP  +   G Y + ++L
Sbjct: 109 KNKTNIDLEKQNIELPE-IKTIGIYNIEIKL 138

Length = 153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	221
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	99.88
PF03948	87	Ribosomal_L9_C: Ribosomal protein L9, C-terminal d	99.88
PF01281	48	Ribosomal_L9_N: Ribosomal protein L9, N-terminal d	99.88

>CHL00160 rpl9 ribosomal protein L9; Provisional

Probab=100.00  E-value=1.2e-46  Score=311.41  Aligned_cols=148  Identities=22%  Similarity=0.410  Sum_probs=133.5

Q ss_pred             eeeEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHhhhhhhhhHHH
Q 038179           40 RRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSRE  119 (221)
Q Consensus        40 kkmkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~~~e  119 (221)
                      ++|+|||++|   |++||++||+|+|+||||||||||+|+|++||++|++.++..++..           ++++++.+++
T Consensus         4 kkmkVIL~~d---V~~LGk~Gdiv~Vk~GYaRNyLiP~glA~~AT~~n~~~~e~~~~~~-----------~~~~~~~~~~   69 (153)
T CHL00160          4 KKIQVILKEN---IQKLGKSGTVIKVKSGYARNYLIPNKMAKVATQGSLKQQKMYQKIL-----------DLKLKEAKEK   69 (153)
T ss_pred             ceEEEEEccc---ccccCCCCCEEEEcCchHhhhhcccCchhhCCHHHHHHHHHHHHHH-----------HHHHHHHHHH
Confidence            6799999999   9999999999999999999999999999999999999988877642           2234466778


Q ss_pred             HHHHHHHhhcC-cEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEE
Q 038179          120 FEKAARRLENA-RLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMR  198 (221)
Q Consensus       120 a~~~~~kL~~~-~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~  198 (221)
                      |++++++|++. .++|.+++         |++|  +||||||+.||+++|.+++|++||+++|.||+ |+++|+|+|+|+
T Consensus        70 a~~la~~l~~~~~~~i~~k~---------ge~g--klfGSVt~~dIa~~l~~~~g~~idk~~I~l~~-Ik~~G~~~v~v~  137 (153)
T CHL00160         70 CLKVKQLLEEIQKFSVKKKV---------GENN--QIFGSVTEKEISQIIKNKTNIDLEKQNIELPE-IKTIGIYNIEIK  137 (153)
T ss_pred             HHHHHHHhhCCceEEEEEEe---------CCCC--eEEcccCHHHHHHHHHHhhCCccccceeehhh-ccccEeEEEEEE
Confidence            99999999998 58888776         4555  99999999999999998899999999999997 999999999999


Q ss_pred             cCCCCCCCCceEEEEEEEEEEe
Q 038179          199 LPKAIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       199 L~~~V~~p~~~v~~~l~V~V~~  220 (221)
                      ||++|       +++++|.|+.
T Consensus       138 L~~~V-------~a~i~v~V~~  152 (153)
T CHL00160        138 LTSDV-------KANINLQILP  152 (153)
T ss_pred             ecCCc-------EEEEEEEEEE
Confidence            99998       9999999974

>TIGR00158 L9 ribosomal protein L9

Probab=100.00  E-value=3.6e-46  Score=307.00  Aligned_cols=146  Identities=25%  Similarity=0.398  Sum_probs=131.7

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHhhhhhhhhHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFE  121 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~~~ea~  121 (221)
                      |+|||++|   |++||++||+|+|+||||||||||+|+|++||++|++.++.+++..           ++++++.+++|+
T Consensus         1 MkVIL~~d---V~~lGk~GdiV~Vk~GYaRNyLiP~g~A~~aT~~nl~~~e~~~~~~-----------~~~~~~~~~~a~   66 (148)
T TIGR00158         1 MKVILLED---VANLGKRGDVVEVKDGYARNFLIPKGLAVPATKKNIEFFEARRKKL-----------EEKLAANKAAAA   66 (148)
T ss_pred             CeEEEccc---ccccCCCCCEEEEcccchhhhhcccCchhhCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHH
Confidence            89999999   9999999999999999999999999999999999999988877642           223445678889


Q ss_pred             HHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCC-CccceeEEEEEEcC
Q 038179          122 KAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSP-LSAFGEYEVPMRLP  200 (221)
Q Consensus       122 ~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~p-Ik~~G~y~V~I~L~  200 (221)
                      +++++|++..++|.+++         |++|  +||||||++||+++|.++ |++||+++|.||+| |+++|+|+|+|+||
T Consensus        67 ~l~~~l~~~~~~i~~k~---------ge~g--klfGSVt~~~I~~~l~~~-g~~idk~~I~l~~~~Ik~~G~y~v~i~L~  134 (148)
T TIGR00158        67 RLKEVLELGTLTISKKV---------GDEG--KLFGSITTKQIADALKAA-GLDLDKKKIELPDGVIRTTGEHEVTIKLH  134 (148)
T ss_pred             HHHHHhcCcEEEEEEEe---------CCCC--eEEEeECHHHHHHHHHHc-CCcccHhhEECCCCceeceEEEEEEEEEc
Confidence            99999999999888776         4555  999999999999999876 99999999999986 99999999999999


Q ss_pred             CCCCCCCceEEEEEEEEEEe
Q 038179          201 KAIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       201 ~~V~~p~~~v~~~l~V~V~~  220 (221)
                      ++|       +++++|+|..
T Consensus       135 ~~V-------~a~i~v~V~~  147 (148)
T TIGR00158       135 EEV-------FAVLKVIVVP  147 (148)
T ss_pred             CCc-------EEEEEEEEEE
Confidence            998       9999999975

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

>PRK00137 rplI 50S ribosomal protein L9; Reviewed

Probab=100.00  E-value=1.4e-45  Score=303.01  Aligned_cols=146  Identities=29%  Similarity=0.482  Sum_probs=132.8

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHhhhhhhhhHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFE  121 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~~~ea~  121 (221)
                      |+|||++|   |++||++||+|+|+||||||||||+|+|+|||++|++.++..++..           ++++++.+++|+
T Consensus         1 mkVIL~~d---v~~lGk~Gdiv~Vk~GYaRNyLiP~~lA~~aT~~~~~~~~~~~~~~-----------~~~~~~~~~~a~   66 (147)
T PRK00137          1 MKVILLED---VKNLGKKGDVVEVKDGYARNFLIPQGKAVRATKGNLKQLEARRAEL-----------EAKAAEELAEAE   66 (147)
T ss_pred             CeEEEccc---ccccCCCCCEEEEcCcchhhhhccCCceeeCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHH
Confidence            89999999   9999999999999999999999999999999999999988877542           223456788899


Q ss_pred             HHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCC
Q 038179          122 KAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPK  201 (221)
Q Consensus       122 ~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~  201 (221)
                      ++++.|++..++|.+++         |++|  +||||||++||+++|.++ |++||+++|.||+||+++|+|+|+|+||+
T Consensus        67 ~l~~~l~~~~l~i~~k~---------g~~g--klfGsVt~~~I~~~l~~~-g~~idk~~I~l~~~Ik~~G~y~v~i~L~~  134 (147)
T PRK00137         67 ALAEKLEGLTVTIKAKA---------GEDG--KLFGSVTTKDIAEALKKQ-GIEIDKRKIELPGPIKTLGEYEVPVKLHP  134 (147)
T ss_pred             HHHHHhhCCEEEEEEEc---------CCCC--eEEeeeCHHHHHHHHHHc-CCccCHHHeECCCcccccEEEEEEEEECC
Confidence            99999999999998876         4455  999999999999999877 99999999999999999999999999999


Q ss_pred             CCCCCCceEEEEEEEEEEe
Q 038179          202 AIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       202 ~V~~p~~~v~~~l~V~V~~  220 (221)
                      +|       +++|+|+|..
T Consensus       135 ~v-------~a~l~v~V~~  146 (147)
T PRK00137        135 EV-------TATIKVNVVA  146 (147)
T ss_pred             Cc-------EEEEEEEEEE
Confidence            98       9999999975

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

Probab=100.00  E-value=2.9e-44  Score=295.17  Aligned_cols=146  Identities=28%  Similarity=0.433  Sum_probs=132.8

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHhhhhhhhhHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFE  121 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~~~ea~  121 (221)
                      |+|||++|   |++||+.||+|+|++|||||||||+|+|++||+.|++.++.++...           +++..+++++|+
T Consensus         1 MkVILl~d---V~~lGk~Gdiv~VkdGYarNfLiPkglAv~At~~n~~~~e~~r~~~-----------e~~~~~~~~~a~   66 (148)
T COG0359           1 MKVILLED---VKGLGKKGDIVEVKDGYARNFLIPKGLAVPATKGNLKLLEARRAKL-----------EKKAAEELAEAE   66 (148)
T ss_pred             CeEEEecc---hhhcCCCCCEEEecchhhhhhhccccchhhCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHH
Confidence            89999999   9999999999999999999999999999999999999999866531           233456678999


Q ss_pred             HHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCC
Q 038179          122 KAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPK  201 (221)
Q Consensus       122 ~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~  201 (221)
                      +++++|++..++|.+++         |++|  +||||||++||++++.++ |++||+++|.+|++|+++|+|+|+|+||+
T Consensus        67 ~lk~~Le~~~~~i~~ka---------g~~G--klfGSVt~~dIa~~l~~~-g~~idk~~i~l~~~ik~~G~~~V~vkLh~  134 (148)
T COG0359          67 ALKEKLEGKTVEIAVKA---------GEDG--KLFGSVTSKDIAEALKAA-GFKLDKRKIRLPNGIKTLGEHEVEVKLHE  134 (148)
T ss_pred             HHHHHhhCceEEEEEEc---------CCCC--ceeccccHHHHHHHHHHc-CCCcchheeEcCchhhhcceeEEEEEecC
Confidence            99999999778888776         4555  999999999999999988 99999999999999999999999999999


Q ss_pred             CCCCCCceEEEEEEEEEEe
Q 038179          202 AIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       202 ~V~~p~~~v~~~l~V~V~~  220 (221)
                      +|       +++++|.|.+
T Consensus       135 eV-------~a~v~v~V~~  146 (148)
T COG0359         135 EV-------TATVKVNVVA  146 (148)
T ss_pred             ce-------EEEEEEEEEe
Confidence            98       9999999975

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

Probab=100.00  E-value=4.6e-37  Score=307.98  Aligned_cols=146  Identities=22%  Similarity=0.308  Sum_probs=132.5

Q ss_pred             eeEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHhhhhhhhhHHHH
Q 038179           41 RWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREF  120 (221)
Q Consensus        41 kmkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~~~ea  120 (221)
                      .|||||++|   |++||++||+|+|+|||| |||||+|+|++||++|++.++.+++..           ++++++.+++|
T Consensus       688 ~MkVIL~~d---v~~lGk~Gdvv~Vk~GYa-NfLiP~~~A~~aT~~nlk~~e~~~~~~-----------~~~~~~~~~~a  752 (838)
T PRK14538        688 NMEIILLTD---IKNKGKKHEIIKVNNGYG-NFLIQNKKALLADKENLAKIKKKKILE-----------QEKKRNHELLM  752 (838)
T ss_pred             hhhHHHHHH---HHhcCCCCCEEEECCCch-hhhccCCchhhcCHHHHHHHHHHHHHH-----------HHHHHHHHHHH
Confidence            499999999   999999999999999999 999999999999999999988877642           23345667889


Q ss_pred             HHHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcC
Q 038179          121 EKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLP  200 (221)
Q Consensus       121 ~~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~  200 (221)
                      ++++++|++..++|.+++         |++|  +||||||++||+++|++++|++||++.|.||+|||++|+|.|+|+||
T Consensus       753 ~~l~~~l~~~~~~i~~k~---------ge~g--klfGSVt~~~I~~~l~~~~g~~idk~~I~l~~~Ik~~G~~~v~i~L~  821 (838)
T PRK14538        753 KKLKSEIDNKKITLDIQL---------GPKG--KIYGKITLKQIVEEFHKIHNITIDRKKISLENEIISVGIYPVDVFLT  821 (838)
T ss_pred             HHHHHHhhCcEEEEEEEe---------CCCC--eeeeccCHHHHHHHHHHhhCCccccceeeCCCcccccEEEEEEEEEc
Confidence            999999999988888776         4556  99999999999999998899999999999999999999999999999


Q ss_pred             CCCCCCCceEEEEEEEEEE
Q 038179          201 KAIPLPEGKVQWTLNVKVR  219 (221)
Q Consensus       201 ~~V~~p~~~v~~~l~V~V~  219 (221)
                      ++|       +++++|.|+
T Consensus       822 ~~V-------~a~i~v~V~  833 (838)
T PRK14538        822 DQI-------KATFFLNVI  833 (838)
T ss_pred             CCe-------EEEEEEEEE
Confidence            998       999999986

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

Probab=99.88  E-value=4.2e-23  Score=177.58  Aligned_cols=157  Identities=24%  Similarity=0.245  Sum_probs=116.7

Q ss_pred             ceeeeecceeeeeeEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHH
Q 038179           29 PLLFSCQGVRYRRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKV  108 (221)
Q Consensus        29 ~~~~~~~~~r~kkmkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~  108 (221)
                      +|+.-++++++..++|||++|   |++||++||+|+|++||+||+|+|+|+|+|+||.+.+.+...+..       +.  
T Consensus        36 ~lv~~~~~k~k~~levIL~~~---Ve~lG~qGdvVsVk~g~~RN~Llp~glAvy~tp~~~~~~k~~~~e-------~~--  103 (222)
T KOG4607|consen   36 ELVEFTQKKPKPNLEVILKTD---VEKLGKQGDVVSVKRGYFRNFLLPKGLAVYNTPLNLKKYKLREQE-------EE--  103 (222)
T ss_pred             hHhHhhhccCCcceeeeeehh---hhhhcccCcEEEeecchhhhhcccccccccCChhhHHHHHHHHHH-------HH--
Confidence            889999999999999999999   999999999999999999999999999999999996654433321       10  


Q ss_pred             hhhhhhhhHHHHHHHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCc
Q 038179          109 IRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLS  188 (221)
Q Consensus       109 ~~~~~~~~~~ea~~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk  188 (221)
                         .+..+..+..+....|....+.+.++.+...        -  -.+|+|+++.....+..++.+++|++.|+.|. ++
T Consensus       104 ---~~k~~vk~e~k~V~~lqt~v~~~~~~k~~kw--------~--l~~~~V~~~l~~gv~~~~~t~~l~k~~vs~P~-~k  169 (222)
T KOG4607|consen  104 ---AEKIRVKEEAKVVAVLQTVVLFKVMNKGGKW--------K--LNPNLVKASLRKGVIVAELTIKLDKELVSGPI-TK  169 (222)
T ss_pred             ---hhhhccHHHHHHHHHHHhhhhhheeccCCce--------e--ecHHHHHHHHhcceEeccccccCcccccCCCc-cc
Confidence               1122233334444478777776666543111        1  34577777777666666777888888888874 77


Q ss_pred             cceeEEEEEEcCCCCCCCCceEEEEEEEEE
Q 038179          189 AFGEYEVPMRLPKAIPLPEGKVQWTLNVKV  218 (221)
Q Consensus       189 ~~G~y~V~I~L~~~V~~p~~~v~~~l~V~V  218 (221)
                      .-|+|.+.|+++++.       ++-+...|
T Consensus       170 ~e~~~~~~V~in~~~-------~vr~~~~v  192 (222)
T KOG4607|consen  170 EEGEYICEVKINPDV-------TVRVKIRV  192 (222)
T ss_pred             ccceEEEEEEECCcc-------eEEeeeee
Confidence            777999999999876       55555544

>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=2.2e-22  Score=152.28  Aligned_cols=85  Identities=27%  Similarity=0.508  Sum_probs=78.8

Q ss_pred             HHHHHHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEE
Q 038179          118 REFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPM  197 (221)
Q Consensus       118 ~ea~~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~V~I  197 (221)
                      ++|++++++|++..++|.++++         ++|  +||||||++||+++|.+++|++||+++|.||+|||++|+|.|+|
T Consensus         2 ~~A~~l~~~l~~~~l~i~~k~g---------~~g--klfGSVt~~dIa~~l~~~~g~~Idk~~I~l~~~IK~~G~~~v~v   70 (87)
T PF03948_consen    2 AEAQALAEKLEGITLTIKRKAG---------ENG--KLFGSVTSKDIAKALKEQTGIEIDKKKIELPEPIKSLGEYEVKV   70 (87)
T ss_dssp             HHHHHHHHHHCSSEEEEEECBS---------SCS--SBSSEBSHHHHHHHHHHCCSSSSSSSSBCSSSTBESSEEEEEEE
T ss_pred             HHHHHHHHHhcCCEEEEEEEec---------CCc--ceecCcCHHHHHHHHHHhhCCeEeccEEECCCchhccEEEEEEE
Confidence            4688999999999999998764         455  99999999999999999999999999999999999999999999


Q ss_pred             EcCCCCCCCCceEEEEEEEEEEe
Q 038179          198 RLPKAIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       198 ~L~~~V~~p~~~v~~~l~V~V~~  220 (221)
                      +||++|       .++++|.|.+
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       9999999975

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L9 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L9 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins grouped on the basis of sequence similarities [, ]. The crystal structure of Bacillus stearothermophilus L9 shows the 149-residue protein comprises two globular domains connected by a rigid linker []. Each domain contains an rRNA binding site, and the protein functions as a structural protein in the large subunit of the ribosome. The C-terminal domain consists of two loops, an alpha-helix and a three-stranded mixed parallel, anti-parallel beta-sheet packed against the central alpha-helix. The long central alpha-helix is exposed to solvent in the middle and participates in the hydrophobic cores of the two domains at both ends. ; PDB: 3D5B_I 3PYV_H 3F1H_I 3PYR_H 3MRZ_H 1VSP_G 3MS1_H 1VSA_G 3PYT_H 2WH4_I ....

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

Probab=99.88  E-value=1.6e-23  Score=142.67  Aligned_cols=48  Identities=40%  Similarity=0.578  Sum_probs=44.2

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIR   92 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~   92 (221)
                      |+|||++|   |++||++||+|+|++|||||||+|+|+|+|||+++++.++
T Consensus         1 m~ViL~~d---v~~lG~~Gdiv~V~~Gy~RN~L~p~~~A~~at~~~~~~~e   48 (48)
T PF01281_consen    1 MKVILLKD---VPGLGKKGDIVEVKPGYARNFLIPQGLAVYATPENLKQLE   48 (48)
T ss_dssp             -EEEESSC---CTTSBSTTEEEE-SHHHHHHTTTTTTSEEECSHHHHHHHH
T ss_pred             CEEEEccc---ccccCCCCCEEEEccceeeehccCCCceeeCCHHHHHhcC
Confidence            89999999   9999999999999999999999999999999999998764

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	221
3uxq_I	148	The Structure Of Thermorubin In Complex With The 70		7e-08
1vsa_G	148	Crystal Structure Of A 70s Ribosome-Trna Complex Re		9e-08
3pyo_H	145	Crystal Structure Of A Complex Containing Domain 3		1e-07
3fin_I	146	T. Thermophilus 70s Ribosome In Complex With Mrna,		1e-07
2v47_I	148	Structure Of The Ribosome Recycling Factor Bound To		1e-07
3tve_K	146	Crystal Structure Analysis Of Ribosomal Decoding. T		2e-07
2hgj_K	148	Crystal Structure Of The 70s Thermus Thermophilus R		2e-07
1nkw_F	146	Crystal Structure Of The Large Ribosomal Subunit Fr		2e-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 = 53.9 bits (128), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
           ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +        
Sbjct: 9   LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
             RK+E    +E       LEN  L +        +R+  +K     +   VT +++   
Sbjct: 61  --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
           ++RQ  ++IEP+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 101 LSRQHGVTIEPKRLALEKPIKELGEYVLTYK-----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 = 53.5 bits (127), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
           ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +        
Sbjct: 9   LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
             RK+E    +E       LEN  L +        +R+  +K     +   VT +++   
Sbjct: 61  --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
           ++RQ  I+I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 101 LSRQHGITIDPKRLALEKPIKELGEYVLTYK-----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 = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
           ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +        
Sbjct: 9   LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
             RK+E    +E       LEN  L +        +R+  +K     +   VT +++   
Sbjct: 61  --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
           ++RQ  I+I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 101 LSRQHGITIDPKRLALEKPIKELGEYVLTYK-----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 = 53.5 bits (127), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 48/171 (28%), Positives = 81/171 (47%), Gaps = 38/171 (22%)
Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
           ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +        
Sbjct: 9   LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
             RK+E    +E       LEN  L +        +R+  +K     +   VT +++   
Sbjct: 61  --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
           ++RQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V V
Sbjct: 101 LSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSVVV 146

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
           ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +        
Sbjct: 9   LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
             RK+E    +E       LEN  L +        +R+  +K     +   VT +++   
Sbjct: 61  --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
           ++RQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 101 LSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

>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 = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 80/169 (47%), Gaps = 38/169 (22%)
Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
           ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +        
Sbjct: 9   LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
             RK+E    +E       LEN  L +        +R+  +K     +   VT +++   
Sbjct: 61  --RKAEAERLKEI------LENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
           ++RQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 101 LSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----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 = 52.0 bits (123), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 81/169 (47%), Gaps = 38/169 (22%)
Query: 53  VDKLGKAGETVKVAPGYFRNHLMPKLLAV----PNIEKFAHLIRKQ-RRICQPVEEEKVK 107
           ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q +R+ +        
Sbjct: 9   LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQAKRLAE-------- 60
Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
             RK+      E E+  + LEN  L +        +R+  +K     +   VT +++   
Sbjct: 61  --RKA------EAERLKKILENLTLTI-------PVRAGETK-----IYGSVTAKDIAEA 100
Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNV 216
           ++RQ  ++I+P+ L L  P+   GEY +  +     P PE  +Q  ++V
Sbjct: 101 LSRQHGVTIDPKRLALEKPIKELGEYVLTYK-----PHPEVPIQLKVSV 144

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 39/152 (25%), Positives = 62/152 (40%), Gaps = 24/152 (15%)
Query: 55  KLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSED 114
           +LGK GE V V  GY RN L+P+ LAV              R      E +++ I K + 
Sbjct: 10  RLGKTGEVVSVKDGYARNWLIPQGLAVSAT-----------RTNMKTLEAQLRSIEKRQA 58
Query: 115 NMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSI 174
                 E  A RL    +         +L  RA +    ++   VT ++ VA    QL  
Sbjct: 59  QEKAVAEDLASRLNGVAV---------ELSVRAGEG---KIYGAVTHQD-VANSLDQLGF 105
Query: 175 SIEPENLHLPSPLSAFGEYEVPMRLPKAIPLP 206
            ++   + +P  +   GEY++  R    + +P
Sbjct: 106 DVDRRKIDMPKTVKEVGEYDIAYRAHPEVTIP 137

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	221
1div_A	149	Ribosomal protein L9; rRNA-binding; 2.60A {Geobaci	2e-16
3v2d_I	148	50S ribosomal protein L9; ribosome associated inhi	2e-15
3bbo_J	197	Ribosomal protein L9; large ribosomal subunit, spi	5e-14
1nkw_F	146	50S ribosomal protein L9; ribosome, large subunit,	9e-14
3r8s_H	149	50S ribosomal protein L9; protein biosynthesis, RN	4e-13
2hba_A	52	BL17, 50S ribosomal protein L9; NTL9, K12M, RNA bi	2e-08

>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 = 72.2 bits (178), Expect = 2e-16
 Identities = 34/171 (19%), Positives = 63/171 (36%), Gaps = 37/171 (21%)

Query: 52  KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIRKQRRICQPVEEEKVK 107
            V   GK GE   VA GY  N L  + LA+     N++        Q++     +E++  
Sbjct: 8   DVKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEA----QKQ-----KEQRQA 58

Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
               +        +K   +LE   + +           +A +     L   +T +++   
Sbjct: 59  AEELA------NAKKLKEQLEKLTVTIPA---------KAGEGG--RLFGSITSKQIAES 101

Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
           +  Q  + ++   + L   + A G   VP++L         +V  TL V V
Sbjct: 102 LQAQHGLKLDKRKIELADAIRALGYTNVPVKLHP-------EVTATLKVHV 145

>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 = 69.5 bits (171), Expect = 2e-15
 Identities = 44/171 (25%), Positives = 73/171 (42%), Gaps = 38/171 (22%)

Query: 52  KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIRKQRRICQPVEEEKVK 107
            ++ LG  G+ V V PGY RN+L+P+ LAV     N++        + R      + K  
Sbjct: 8   PLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEA----RIR-----AQAKRL 58

Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
             RK+      E E+    LEN  L +           RA +    ++   VT +++   
Sbjct: 59  AERKA------EAERLKEILENLTLTIPV---------RAGET---KIYGSVTAKDIAEA 100

Query: 168 VARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
           ++RQ  ++I+P+ L L  P+   GEY +  +          +V   L V V
Sbjct: 101 LSRQHGVTIDPKRLALEKPIKELGEYVLTYKPHP-------EVPIQLKVSV 144

>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 = 67.0 bits (164), Expect = 5e-14
 Identities = 34/173 (19%), Positives = 61/173 (35%), Gaps = 41/173 (23%)

Query: 52  KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIRKQRRICQPVEEEKVK 107
            V  LGK G+ + V  G+FRN L+P   A       +++      ++             
Sbjct: 57  DVTDLGKQGQLLDVKAGFFRNFLLPTGKAQLMTPLLLKELKM-EDERIE----------- 104

Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIE--KLRSRASKDDPIELRSPVTKEELV 165
                         +  R  E A+ +   F  +   K++ +  K     +   VT ++LV
Sbjct: 105 -------------AEKQRVKEEAQQLAMVFQTVGAFKVKRKGGKGK--LIFGSVTAQDLV 149

Query: 166 AEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
             +  QL   I+   + LP  +   GEY   ++L          V   + + V
Sbjct: 150 DIIKSQLQKDIDKRLVSLP-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 = 64.9 bits (159), Expect = 9e-14
 Identities = 38/172 (22%), Positives = 63/172 (36%), Gaps = 41/172 (23%)

Query: 52  KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIRKQRRICQPVEEEKVK 107
           +  +LGK GE V V  GY RN L+P+ LAV     N++                E +   
Sbjct: 7   EPSRLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTL--------------EAQLRS 52

Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKL-RSRASKDDPIELRSPVTKEELVA 166
           + ++     +   E  A RL    + L   +   K+  +   +D              VA
Sbjct: 53  IEKRQAQEKA-VAEDLASRLNGVAVELSVRAGEGKIYGAVTHQD--------------VA 97

Query: 167 EVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
               QL   ++   + +P  +   GEY++  R       PE  V   + + V
Sbjct: 98  NSLDQLGFDVDRRKIDMPKTVKEVGEYDIAYRAH-----PE--VTIPMKLVV 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 = 63.4 bits (155), Expect = 4e-13
 Identities = 40/172 (23%), Positives = 63/172 (36%), Gaps = 38/172 (22%)

Query: 52  KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIRKQRRICQPVEEEKVK 107
           KV  LG  G+ V V  GY RN L+P+  AVP    NIE F    R +        E K+ 
Sbjct: 8   KVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEA-RRAEL-------EAKLA 59

Query: 108 VIRKSEDNMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAE 167
            +              A ++     V         + S+A  +   +L   +   + +A+
Sbjct: 60  EVLA-------AANARAEKINALETV--------TIASKAGDEG--KLFGSIGTRD-IAD 101

Query: 168 VARQLSISIEPENLHLP-SPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
                 + +    + LP   L   GE+EV  ++       E  V   + V V
Sbjct: 102 AVTAAGVEVAKSEVRLPNGVLRTTGEHEVSFQVH-----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 = 48.4 bits (116), Expect = 2e-08
 Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 4/40 (10%)

Query: 52 KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKF 87
           V  +GK GE   VA GY  N L  + LA+     N++  
Sbjct: 8  DVKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKAL 47

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	221
1div_A	149	Ribosomal protein L9; rRNA-binding; 2.60A {Geobaci	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
1nkw_F	146	50S ribosomal protein L9; ribosome, large subunit,	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	99.91

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

Probab=100.00  E-value=1.9e-48  Score=319.68  Aligned_cols=147  Identities=21%  Similarity=0.313  Sum_probs=134.8

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHhhhhhhhhHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFE  121 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~~~ea~  121 (221)
                      |+|||++|   |++||+.||+|+|+||||||||||+|+|++||++|++.++.+++..           +++..+.+++|+
T Consensus         1 MkVILl~d---V~~LG~~GdvV~Vk~GYaRNfLiP~glA~~AT~~n~~~~e~~~~~~-----------~~~~~~~~~~A~   66 (149)
T 1div_A            1 MKVIFLKD---VKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQKE-----------QRQAAEELANAK   66 (149)
T ss_dssp             CEEEECSB---SSSBGGGTEEEECCTTHHHHTTTTTTSEEECCHHHHHHHHHHHHHH-----------HHHHHHHHHHHH
T ss_pred             CEEEEccc---ccccCCCCCEEEEcCCceeeeeccCCceecCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHH
Confidence            89999999   9999999999999999999999999999999999999999877642           223456788899


Q ss_pred             HHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCC
Q 038179          122 KAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPK  201 (221)
Q Consensus       122 ~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~  201 (221)
                      +++++|++..++|.++++++         |  +||||||++||+++|.+++|++||++.|.||+||+++|+|+|+|+||+
T Consensus        67 ~~a~~L~~~~v~i~~k~g~~---------g--klfGSVt~~dIa~al~~~~g~~idk~~I~l~~~Ik~~G~~~v~vkLh~  135 (149)
T 1div_A           67 KLKEQLEKLTVTIPAKAGEG---------G--RLFGSITSKQIAESLQAQHGLKLDKRKIELADAIRALGYTNVPVKLHP  135 (149)
T ss_dssp             HHHHHHTTCCEEEEECBCGG---------G--EEEEEECHHHHHHHHHHHHCCCCCGGGBCCCSCEEESEEEEEEEEEET
T ss_pred             HHHHHHcCCeEEEEEEeCCC---------C--cEEeecCHHHHHHHHHHhhCCeechheEECCCCccccEEEEEEEEECC
Confidence            99999999999998876544         4  999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCceEEEEEEEEEEe
Q 038179          202 AIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       202 ~V~~p~~~v~~~l~V~V~~  220 (221)
                      +|       +++++|.|+.
T Consensus       136 ~V-------~a~i~v~V~~  147 (149)
T 1div_A          136 EV-------TATLKVHVTE  147 (149)
T ss_dssp             TE-------EEEEEEEEEE
T ss_pred             CC-------EEEEEEEEEe
Confidence            97       9999999975

>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=9.8e-48  Score=315.15  Aligned_cols=146  Identities=28%  Similarity=0.437  Sum_probs=132.8

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHhhhhhhhhHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFE  121 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~~~ea~  121 (221)
                      |+|||++|   |++||+.||+|+|+||||||||||+|+|++||++|++.++.+++..           ++++.+.+++|+
T Consensus         1 MkVILl~d---V~~LG~~GdvV~Vk~GYaRNfLiP~g~A~~AT~~n~k~~e~~~~~~-----------~~~~~~~~~~A~   66 (148)
T 3v2d_I            1 MKVILLEP---LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQ-----------AKRLAERKAEAE   66 (148)
T ss_dssp             CEEEESSC---BTTTBSTTCEEECCHHHHHHTTGGGTSEEECCHHHHHHHHHHHHTH-----------HHHHHHHHHHHH
T ss_pred             CeEEEccc---cccCCCCccEEEEcCCceehhhcccCchhhcCHHHHHHHHHHHHHH-----------HHHHHHHHHHHH
Confidence            89999999   9999999999999999999999999999999999999999877642           233456778999


Q ss_pred             HHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCC
Q 038179          122 KAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPK  201 (221)
Q Consensus       122 ~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~  201 (221)
                      +++++|++..++|.++++         +  + +||||||++||+++|.+++|++||++.|.||+||+++|+|+|+|+||+
T Consensus        67 ~~~~~L~~~~v~i~~kag---------~--~-kLfGSVt~~dIa~al~~~~g~~idk~~I~l~~pIk~~G~~~v~v~Lh~  134 (148)
T 3v2d_I           67 RLKEILENLTLTIPVRAG---------E--T-KIYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYVLTYKPHP  134 (148)
T ss_dssp             HHHHHSSSCCEEEECCBS---------S--S-SBSSCBCHHHHHHHHTTTTCCCCCTTSSCCSSCBCSCEEEEEECCSBT
T ss_pred             HHHHHHcCCEEEEEEEcC---------C--C-ccccccCHHHHHHHHHHhcCCCcchheEEcCchhhceEEEEEEEEECC
Confidence            999999999998887763         2  2 899999999999999988999999999999999999999999999999


Q ss_pred             CCCCCCceEEEEEEEEEEe
Q 038179          202 AIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       202 ~V~~p~~~v~~~l~V~V~~  220 (221)
                      +|       +++++|.|+.
T Consensus       135 ~V-------~a~i~v~V~~  146 (148)
T 3v2d_I          135 EV-------PIQLKVSVVA  146 (148)
T ss_dssp             TB-------CCEEEEEEEC
T ss_pred             Cc-------EEEEEEEEEe
Confidence            98       9999999874

>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=1.4e-47  Score=314.60  Aligned_cols=146  Identities=21%  Similarity=0.340  Sum_probs=132.3

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHhhhhhhhhHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFE  121 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~~~ea~  121 (221)
                      |+|||++|   |++||+.||+|+|+||||||||||+|+|++||++|++.++.+++..           ++++.+.+++|+
T Consensus         1 MkVIL~~d---V~~LG~~GdvV~Vk~GYaRNfLiP~glA~~AT~~n~k~~e~~~~~~-----------~~~~~~~~~~A~   66 (149)
T 3r8s_H            1 MQVILLDK---VANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAEL-----------EAKLAEVLAAAN   66 (149)
T ss_dssp             CCCEESSC---CTTTCCSSCBCCCCHHHHTTTTSSSSSEECCCSHHHHHHHHHHHHH-----------HHHHHHHHHHHH
T ss_pred             CeEEEecc---cccCCCCCCEEEEcCcceehhhccCCceeeCCHHHHHHHHHHHHHH-----------HHHHHHHHHHHH
Confidence            89999999   9999999999999999999999999999999999999999877642           223456678899


Q ss_pred             HHHHHhhcC-cEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCC-CCccceeEEEEEEc
Q 038179          122 KAARRLENA-RLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPS-PLSAFGEYEVPMRL  199 (221)
Q Consensus       122 ~~~~kL~~~-~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~-pIk~~G~y~V~I~L  199 (221)
                      +++++|++. .++|.+++         |++|  +||||||++||+++|.++ |++||++.|.||+ ||+++|+|+|+|+|
T Consensus        67 ~~~~~L~~~~~v~i~~k~---------g~~g--klfGSVt~~dIa~al~~~-g~~idk~~I~l~~~pIk~~G~~~v~v~L  134 (149)
T 3r8s_H           67 ARAEKINALETVTIASKA---------GDEG--KLFGSIGTRDIADAVTAA-GVEVAKSEVRLPNGVLRTTGEHEVSFQV  134 (149)
T ss_dssp             HHHHHHHTTCCEEEEECB---------CTTS--EEEEEECHHHHHHHHHTT-SCCCCTTSEECSSCCEEESEEEEEEECS
T ss_pred             HHHHHhcCCcEEEEEEEc---------CCCC--ceEcccCHHHHHHHHHHc-CCceehheEEcCCccccceEEEEEEEEE
Confidence            999999997 89998876         4555  999999999999999876 9999999999996 99999999999999


Q ss_pred             CCCCCCCCceEEEEEEEEEEe
Q 038179          200 PKAIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       200 ~~~V~~p~~~v~~~l~V~V~~  220 (221)
                      |++|       +++++|.|+.
T Consensus       135 h~~V-------~a~i~v~V~~  148 (149)
T 3r8s_H          135 HSEV-------FAKVIVNVVA  148 (149)
T ss_dssp             SSSC-------CCCEEEEEEE
T ss_pred             CCCC-------EEEEEEEEEE
Confidence            9998       9999999874

>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=1.5e-46  Score=307.55  Aligned_cols=144  Identities=24%  Similarity=0.402  Sum_probs=131.9

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHhhhhhhhhHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVIRKSEDNMSREFE  121 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~~~~~~~~~~ea~  121 (221)
                      |+|||++|    ++||+.||+|+|+||||||||||+|+|++||++|++.++.+++..+           ++..+.+++|+
T Consensus         1 MkVIL~~d----~~LG~~GdvV~Vk~GYaRNfLiP~glA~~AT~~n~~~~e~~~~~~~-----------~~~~~~~~~A~   65 (146)
T 1nkw_F            1 MQVILLEP----SRLGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIE-----------KRQAQEKAVAE   65 (146)
T ss_pred             CeEEEeec----CCCCCCCCEEEEcCcceehhcccCCceecCCHHHHHHHHHHHHHHH-----------HHHHHHHHHHH
Confidence            89999999    9999999999999999999999999999999999999998876521           23456778999


Q ss_pred             HHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEEEEEEcCC
Q 038179          122 KAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYEVPMRLPK  201 (221)
Q Consensus       122 ~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~V~I~L~~  201 (221)
                      +++++|++..++|.+++         | +|  +||||||++||+++|.++ |++||++.|.||+||+++|+|+|+|+||+
T Consensus        66 ~~a~~L~~~~v~i~~k~---------g-~g--klfGSVt~~dIa~al~~~-g~~idk~~I~l~~~Ik~~G~~~v~vkLh~  132 (146)
T 1nkw_F           66 DLASRLNGVAVELSVRA---------G-EG--KIYGAVTHQDVANSLDQL-GFDVDRRKIDMPKTVKEVGEYDIAYRAHP  132 (146)
T ss_pred             HHHHHhcCCEEEEEEEc---------C-CC--ceeeccCHHHHHHHHHHc-CCeechheEECCCcccccEEEEEEEEECC
Confidence            99999999999888876         4 45  999999999999999988 99999999999999999999999999999


Q ss_pred             CCCCCCceEEEEEEEEEEe
Q 038179          202 AIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       202 ~V~~p~~~v~~~l~V~V~~  220 (221)
                      +|       +++++|.|+.
T Consensus       133 ~V-------~a~i~v~V~~  144 (146)
T 1nkw_F          133 EV-------TIPMKLVVHA  144 (146)
T ss_pred             CC-------EEEEEEEEEe
Confidence            98       9999999975

>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=3e-48  Score=331.09  Aligned_cols=158  Identities=21%  Similarity=0.305  Sum_probs=131.0

Q ss_pred             eeeeecceeeeeeEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHHhcCchhHHHHHHh
Q 038179           30 LLFSCQGVRYRRWNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRRICQPVEEEKVKVI  109 (221)
Q Consensus        30 ~~~~~~~~r~kkmkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~~~~~~e~e~~~~~  109 (221)
                      |+..++++++++|+|||++|   |++||+.||+|+|+||||||||||+|+|++||++|++.++.+++..           
T Consensus        38 lvv~~~k~~~k~MkVILled---V~~LGk~GdvV~Vk~GYARNfLiP~glAv~AT~~nlk~~e~~~~~~-----------  103 (197)
T 3bbo_J           38 FEVVSQKKAKKLRKVILKED---VTDLGKQGQLLDVKAGFFRNFLLPTGKAQLMTPLLLKELKMEDERI-----------  103 (197)
T ss_dssp             ------------CCCCCCSC---SSSSCSSCCCSCCCSSSCCCCCTTTTCCCCCCHHHHHHHHTTTHHH-----------
T ss_pred             EEEEeccccCCceEEEEccc---ccccCCCCCEEEEcCcceeehcccCCceecCCHHHHHHHHHhHHHH-----------
Confidence            88899999999999999999   9999999999999999999999999999999999999888766542           


Q ss_pred             hhhhhhhHHHHHHHHHHhhcC-cEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCc
Q 038179          110 RKSEDNMSREFEKAARRLENA-RLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLS  188 (221)
Q Consensus       110 ~~~~~~~~~ea~~~~~kL~~~-~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk  188 (221)
                      ++++.+.+++|++++++|++. .++|.+++         |++|  +||||||++||+++|.+++|++||++.|.||+ |+
T Consensus       104 e~~~~~~~~~A~~la~~L~~~~~v~i~~ka---------Ge~G--kLFGSVT~~dIa~al~~~~Gi~Idk~~I~L~~-IK  171 (197)
T 3bbo_J          104 EAEKQRVKEEAQQLAMVFQTVGAFKVKRKG---------GKGK--LIFGSVTAQDLVDIIKSQLQKDIDKRLVSLPE-IR  171 (197)
T ss_dssp             HGGGTTTTHHHHTHHHHSSSCCCCBCCCCB---------CTTS--SBSSCCSSHHHHGGGTSSSSCCCCSTTCCSCC-CS
T ss_pred             HHHHHHHHHHHHHHHHHhcCCceEEEEEEe---------CCCC--cEecccCHHHHHHHHHHhhCCeeeeeEEEecc-cc
Confidence            233456788999999999998 58776554         5666  99999999999999998999999999999985 99


Q ss_pred             cceeEEEEEEcCCCCCCCCceEEEEEEEEEEe
Q 038179          189 AFGEYEVPMRLPKAIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       189 ~~G~y~V~I~L~~~V~~p~~~v~~~l~V~V~~  220 (221)
                      ++|+|+|+|+||++|       +++|+|.|+.
T Consensus       172 ~lG~y~V~VkLh~eV-------~a~i~V~V~~  196 (197)
T 3bbo_J          172 ETGEYIAELKLHPDV-------TARVKINVFA  196 (197)
T ss_dssp             SSSCEEECCCCBTTB-------CCCEEEBCCC
T ss_pred             ceEEEEEEEEECCCc-------EEEEEEEEEe
Confidence            999999999999998       8999998864

>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=99.91  E-value=6.9e-26  Score=155.57  Aligned_cols=51  Identities=29%  Similarity=0.417  Sum_probs=48.6

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQR   95 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~   95 (221)
                      |+|||++|   |++||++||+|+|++|||||||||+|+|++||++|++.++.++
T Consensus         1 MkVIL~~d---V~~lG~~Gdvv~V~~GYaRN~LiP~g~A~~AT~~n~~~~~~~~   51 (52)
T 2hba_A            1 MKVIFLKD---VKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQK   51 (52)
T ss_dssp             CEEEESSC---BTTTBCTTCEEECCHHHHHHTTTTTTSEEECCHHHHHHHHHHH
T ss_pred             CEEEEccc---ccccCcCCCEEEEcCCceehhhccCCceeeCCHHHHHHHHHhh
Confidence            89999999   9999999999999999999999999999999999999887654

---

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	221
d2j01i2	55	d.100.1.1 (I:1-55) Ribosomal protein L9 N-domain {	6e-10
d2hbaa1	52	d.100.1.1 (A:1-52) Ribosomal protein L9 N-domain {	3e-09
d2gycf2	58	d.100.1.1 (F:1-58) Ribosomal protein L9 N-domain {	7e-09
d1diva1	94	d.99.1.1 (A:56-149) Ribosomal protein L9 C-domain	4e-05

>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 = 51.1 bits (123), Expect = 6e-10
 Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 4/47 (8%)

Query: 52 KVDKLGKAGETVKVAPGYFRNHLMPKLLAVP----NIEKFAHLIRKQ 94
           ++ LG  G+ V V PGY RN+L+P+ LAV     N++     IR Q
Sbjct: 8  PLENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARIRAQ 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 = 49.2 bits (118), Expect = 3e-09
 Identities = 14/45 (31%), Positives = 20/45 (44%)

Query: 52 KVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRR 96
           V  +GK GE   VA GY  N L  + LA+         +  Q++
Sbjct: 8  DVKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQ 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 = 48.4 bits (116), Expect = 7e-09
 Identities = 18/45 (40%), Positives = 23/45 (51%)

Query: 52 KVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRR 96
          KV  LG  G+ V V  GY RN L+P+  AVP  +K       +R 
Sbjct: 8  KVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRA 52

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

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

 Score = 39.0 bits (91), Expect = 4e-05
 Identities = 20/98 (20%), Positives = 42/98 (42%), Gaps = 10/98 (10%)

Query: 122 KAARRLENARLVLRRFSNIE-KLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPEN 180
           +AA  L NA+ +  +   +   + ++A +     L   +T +++   +  Q  + ++   
Sbjct: 2   QAAEELANAKKLKEQLEKLTVTIPAKAGEGG--RLFGSITSKQIAESLQAQHGLKLDKRK 59

Query: 181 LHLPSPLSAFGEYEVPMRLPKAIPLPEGKVQWTLNVKV 218
           + L   + A G   VP++L         +V  TL V V
Sbjct: 60  IELADAIRALGYTNVPVKLHP-------EVTATLKVHV 90

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	221
d2j01i2	55	Ribosomal protein L9 N-domain {Thermus thermophilu	99.91
d2gycf2	58	Ribosomal protein L9 N-domain {Escherichia coli [T	99.91
d2hbaa1	52	Ribosomal protein L9 N-domain {Bacillus stearother	99.91
d1diva1	94	Ribosomal protein L9 C-domain {Bacillus stearother	99.88
d2j01i1	91	Ribosomal protein L9 C-domain {Thermus thermophilu	99.85
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=99.91  E-value=4.3e-26  Score=156.55  Aligned_cols=51  Identities=35%  Similarity=0.540  Sum_probs=48.3

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQR   95 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~   95 (221)
                      |+|||++|   |++||++||||+|++|||||||||+|+|++||++|++.++.++
T Consensus         1 MkVILl~d---V~~lG~~Gdiv~Vk~GyaRN~LiP~~~A~~at~~nl~~~~~~~   51 (55)
T d2j01i2           1 MKVILLEP---LENLGDVGQVVDVKPGYARNYLLPRGLAVLATESNLKALEARI   51 (55)
T ss_dssp             CEEEECSC---CSSSCSTTCEEECCHHHHHHTTTTTTSEEECCHHHHHHHHHHH
T ss_pred             CEEEEccc---cccCCCCCCEEEEChhhHHHHhcccCchhhcCHHHHHHHHHHH
Confidence            89999999   9999999999999999999999999999999999998876544

>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=99.91  E-value=4.9e-26  Score=157.96  Aligned_cols=52  Identities=37%  Similarity=0.561  Sum_probs=49.1

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQRR   96 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~~   96 (221)
                      |+|||++|   |++||++||||+|+||||||||||+|+|++||++|++.++.+++
T Consensus         1 MkVIL~~d---v~~lG~~Gdvv~Vk~GyaRNyLiP~glA~~at~~n~~~~~~~~~   52 (58)
T d2gycf2           1 MQVILLDK---VANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRA   52 (58)
T ss_dssp             CEEEECSS---SSSCCCSCEEEECCTTTTTTTTTTTTSEEECCCHHHHHHHHHHH
T ss_pred             CeEEEccc---cccCCCCCCEEEEccchhHHHhccCCceecCCHHHHHHHHHHHH
Confidence            89999999   99999999999999999999999999999999999998776553

>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=99.91  E-value=4.9e-26  Score=154.69  Aligned_cols=51  Identities=29%  Similarity=0.417  Sum_probs=48.4

Q ss_pred             eEEEEccCCccccCCCCCCceEEeCCceeeccccccCccccchHHHHHHHHHHH
Q 038179           42 WNLDLLTNQPKVDKLGKAGETVKVAPGYFRNHLMPKLLAVPNIEKFAHLIRKQR   95 (221)
Q Consensus        42 mkVILled~~~V~~LGk~GdvV~Vk~GYARNfLiP~glAv~at~~~~~~~~~~~   95 (221)
                      |+|||++|   |++||++||+|+|++|||||||||+|+|++||++|++.++.++
T Consensus         1 MkVIL~~d---v~~lG~~GdiV~Vk~GyarN~LiP~g~A~~at~~n~~~~~~~k   51 (52)
T d2hbaa1           1 MKVIFLKD---VKGMGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQK   51 (52)
T ss_dssp             CEEEESSC---BTTTBCTTCEEECCHHHHHHTTTTTTSEEECCHHHHHHHHHHH
T ss_pred             CEEEEccc---ccccCCCCCEEEEcccchhHhhccCCchhhCCHHHHHHHHHhh
Confidence            89999999   9999999999999999999999999999999999999877654

>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=99.88  E-value=4.9e-23  Score=154.98  Aligned_cols=88  Identities=18%  Similarity=0.298  Sum_probs=80.8

Q ss_pred             hhHHHHHHHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEE
Q 038179          115 NMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYE  194 (221)
Q Consensus       115 ~~~~ea~~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~  194 (221)
                      +.+++|+.++++|++..++|.++++++         |  +||||||+.||+++|..++|++||+++|.||+|||++|+|.
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 EELANAKKLKEQLEKLTVTIPAKAGEG---------G--RLFGSITSKQIAESLQAQHGLKLDKRKIELADAIRALGYTN   73 (94)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEECBCGG---------G--EEEEEECHHHHHHHHHHHHCCCCCGGGBCCCSCEEESEEEE
T ss_pred             HHHHHHHHHHHHhhCCEEEEEEEECCC---------C--eeEecccHHHHHHHHHHccCceecHHHhhccCchhhcEeEE
Confidence            456788999999999999999887544         4  99999999999999998899999999999999999999999


Q ss_pred             EEEEcCCCCCCCCceEEEEEEEEEEe
Q 038179          195 VPMRLPKAIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       195 V~I~L~~~V~~p~~~v~~~l~V~V~~  220 (221)
                      |+|+||++|       +++++|.|+.
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       9999999975

>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=99.85  E-value=5.5e-23  Score=153.88  Aligned_cols=86  Identities=24%  Similarity=0.417  Sum_probs=76.8

Q ss_pred             hhHHHHHHHHHHhhcCcEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCCCCccceeEE
Q 038179          115 NMSREFEKAARRLENARLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPSPLSAFGEYE  194 (221)
Q Consensus       115 ~~~~ea~~~~~kL~~~~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~pIk~~G~y~  194 (221)
                      +.+++|++++++|++..++|.+++         |+ |  +||||||+.||+++|.+++|++||+++|.|++|||++|+|+
T Consensus         5 e~~~~A~~l~~~L~~~~i~i~~k~---------~e-g--kLfGSVt~~dIa~~l~~~~g~~Idk~~I~l~~~IK~~G~~~   72 (91)
T d2j01i1           5 ERKAEAERLKEILENLTLTIPVRA---------GE-T--KIYGSVTAKDIAEALSRQHGVTIDPKRLALEKPIKELGEYV   72 (91)
T ss_dssp             STTTTTHHHHHHHTTCBCCCCCCB---------CS-S--SBSSCCCHHHHHHHHHTTTCCCCCTTTTCCSSCCCSCEEEE
T ss_pred             HHHHHHHHHHHHhcCCEEEEEEEe---------cC-C--ceecccCHHHHHHHHHhccCceechHHhhccccccceEEEE
Confidence            345567889999999999887765         42 4  99999999999999999899999999999999999999999


Q ss_pred             EEEEcCCCCCCCCceEEEEEEEEEE
Q 038179          195 VPMRLPKAIPLPEGKVQWTLNVKVR  219 (221)
Q Consensus       195 V~I~L~~~V~~p~~~v~~~l~V~V~  219 (221)
                      |+|+||++|       +++++|.|+
T Consensus        73 v~i~L~~~V-------~a~i~v~Vv   90 (91)
T d2j01i1          73 LTYKPHPEV-------PIQLKVSVV   90 (91)
T ss_dssp             CCCSSSSCC-------CCEEEECCC
T ss_pred             EEEEecCCE-------EEEEEEEEE
Confidence            999999998       899998875

>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=4.2e-21  Score=143.64  Aligned_cols=86  Identities=14%  Similarity=0.245  Sum_probs=76.8

Q ss_pred             hHHHHHHHHHHhhcC-cEEEEEeecccccccccCCCCCceeeeccCHHHHHHHHHhhcCCcccCCcccCCC-CCccceeE
Q 038179          116 MSREFEKAARRLENA-RLVLRRFSNIEKLRSRASKDDPIELRSPVTKEELVAEVARQLSISIEPENLHLPS-PLSAFGEY  193 (221)
Q Consensus       116 ~~~ea~~~~~kL~~~-~l~~~~~~~~~~i~~~~g~~g~~klfGsVT~~dI~~~l~~q~gi~Idk~~I~l~~-pIk~~G~y  193 (221)
                      .+++|++++++|+++ .++|.+++++         +|  +||||||++||+++|.++ |++||++.|.||+ |||++|+|
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 VLAAANARAEKINALETVTIASKAGD---------EG--KLFGSIGTRDIADAVTAA-GVEVAKSEVRLPNGVLRTTGEH   70 (91)
T ss_dssp             HHHHHHHHHHHHTTTCCCEEEECEEE---------TT--EESSCCCHHHHHHHHTTT-TCCCCSTTSCCSSCCCCBSSEE
T ss_pred             HHHHHHHHHHHhcCCcEEEEEEEeCC---------CC--eeeeecCHHHHHHHHHHc-CCcccHHHEECCCccccccEEE
Confidence            456788999999998 5999887754         44  999999999999999976 9999999999987 79999999


Q ss_pred             EEEEEcCCCCCCCCceEEEEEEEEEEe
Q 038179          194 EVPMRLPKAIPLPEGKVQWTLNVKVRG  220 (221)
Q Consensus       194 ~V~I~L~~~V~~p~~~v~~~l~V~V~~  220 (221)
                      +|+|+||++|       +++++|.|+.
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       8999999874