Psyllid ID: psy451

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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-------230-------240-------250-------260-------270-------280-------290------
Protein Sequence
MALNHNLRLALSNCNRILSRKSNIFETPFLFGCSEVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC
Secondary Structure (PSIPRED)
cccccccHHcccccccEEccccccccccEEEccEEEEEEEEccccccccccccccccccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccEEEEEEEEEcccccccccccEEEEEEEEEcccEEEEEEccccccccccccccccccccEEEEEEccccccccccHHHccHHHHcccccccEEEEEEccccccccccccEEEcccccccEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHcHHHHccccccEcccccccccEEEEEcccccccccccccccEEEEEccccccHHHccHHHHHHHHHHHHcHcccHHHHHcccccccccccccccccccccccccEEEEEEEccccEEEcccccEEEEEEEEEcccEEEEEEcccccccccccccccccccEEEEEEEccccccccccccHHHHHHHcccccccEEEEEEEccccccccccEEEEEEEccccEEEEEEEEcccccHHHEHHccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MALNHNLRLALSNCNRilsrksnifetpflfgCSEVINIRqkkvwirpprvkyplwFLQKERAEYIENLTRNNKAFIEEVVhdqcgapavksgietyntplkieplqpleittsskrtgligkiigqyplwmkngekCRTTLVQVVDNHiikyippeefkpnrkpyrgepkrklgcllvgaesgdpslytkeycglfknsgvppkkklcrfiitpdamlppgtpltaahfrprefldvrgltvdrgfqgvmkrwgfkgmpathgvtkshrrggciasgagkarvypggvlqrglkc
Flexible Loop (DISEMBL)
MALNHNLRLALSNCNRILSRKSNIFETPFLFGCSEVINirqkkvwirpprvkyplWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETyntplkieplqpleittsskrtglIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIikyippeefkpnrkpyrgePKRKLGCLLVGAESGDPSLYTKEYCGlfknsgvppkKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMkrwgfkgmpathgvtkshrrggciasgagkarvypggvlqrglkc
Low Complexity Region (SEG)
MALNHNLRLALSNCNRILSRKSNIFETPFLFGCSEVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC
Disordered region (IsUnstruct)
******LRLALSNCNRILSRKSNIFETPFLFGCSEVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPP****************KLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGV*******
Disordered Region (DISOPRED)
******LRLALSNCNRILSRKSNIFETPFLFGCSEVINIR*******PPRVKYPLWFLQKERAEYIENLTRNNKAFIE*VV**********************************KRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHG*TKS***G*****GAGKARVYPGGVLQRGLK*
Disordered Region (DISEMBL)
MALNHNLRLALSNCNRILSRKSNIFETPFLFGCSEVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC
Disordered Region (DISPRO)
*ALNHNLRLALSNCNRILSRKSNIFETPFLFGCSEVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFK***************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALNHNLRLALSNCNRILSRKSNIFETPFLFGCSEVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC
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	296	2.2.26 [Sep-21-2011]
P18665	347	39S ribosomal protein L3,	yes	N/A	0.706	0.602	0.404	3e-40
Q3ZBX6	348	39S ribosomal protein L3,	yes	N/A	0.695	0.591	0.399	4e-40
Q99N95	348	39S ribosomal protein L3,	yes	N/A	0.706	0.600	0.404	6e-39
P09001	348	39S ribosomal protein L3,	yes	N/A	0.712	0.606	0.394	5e-37
P49404	403	Putative 39S ribosomal pr	yes	N/A	0.716	0.526	0.333	3e-28
Q9LRN8	324	50S ribosomal protein L3-	yes	N/A	0.557	0.509	0.382	1e-25
B6IRQ6	235	50S ribosomal protein L3	yes	N/A	0.489	0.617	0.348	2e-19
Q2W2J1	229	50S ribosomal protein L3	yes	N/A	0.533	0.689	0.321	4e-19
A0L5X3	214	50S ribosomal protein L3	yes	N/A	0.527	0.728	0.337	5e-19
B1ZLK4	246	50S ribosomal protein L3	yes	N/A	0.489	0.589	0.341	5e-19

>sp|P18665|RM03_RAT 39S ribosomal protein L3, mitochondrial OS=Rattus norvegicus GN=Mrpl3 PE=3 SV=1

 Score =  165 bits (418), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 93/230 (40%), Positives = 133/230 (57%), Gaps = 21/230 (9%)

Query: 60  KERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEP--LQPLEITTSSKR 117
           K    + E+L+  N +F++++V D+      K+ + +   PLK EP  L P E    S R
Sbjct: 44  KSSTWWDEHLSEENVSFVKQLVSDEN-----KAQLTSLLNPLKDEPWPLHPWE--PGSSR 96

Query: 118 TGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCL 177
            GLI   +G  PLW K+G+K   TL+QV D H++KY P E+              K   L
Sbjct: 97  VGLIALKLGMMPLWTKDGQKHAVTLLQVQDCHVLKYTPKEDHN-----------GKTATL 145

Query: 178 LVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLD 237
            VG ++G            +++ G+PPK+    F +T +A++  GTPL AAHFRP +++D
Sbjct: 146 TVGGKTGSRLYKANSILEFYRDLGLPPKQTTKIFHVTDNAVIKQGTPLYAAHFRPGQYVD 205

Query: 238 VRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           V   T+ +GFQGVMKRWGFKG PA+HG TK+HRR G I++G   ARV+PG
Sbjct: 206 VTAKTIGKGFQGVMKRWGFKGQPASHGQTKTHRRPGAISTG-DIARVWPG 254

Rattus norvegicus (taxid: 10116)

>sp|Q3ZBX6|RM03_BOVIN 39S ribosomal protein L3, mitochondrial OS=Bos taurus GN=MRPL3 PE=1 SV=1

 Score =  165 bits (417), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 89/223 (39%), Positives = 129/223 (57%), Gaps = 17/223 (7%)

Query: 65  YIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKI 124
           + E+L+  N +F++++V D+  A          + P  I P +P      S R GL+   
Sbjct: 49  WDEHLSEENVSFVKQLVSDENKAQLASKLCPLKDEPWPIHPWEP-----GSSRVGLVALK 103

Query: 125 IGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESG 184
           +G  PLW K+G+K   TL+QV D H++KY P E               K+  L VG ++ 
Sbjct: 104 LGMMPLWTKDGKKHVVTLLQVQDCHVLKYTPKENHN-----------GKMAALTVGGKTV 152

Query: 185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
                +      ++  G+PPK+K+  F +T +A++ PGTPL AAHFRP +++DV   T+ 
Sbjct: 153 SRFHKSTSILEFYQELGLPPKQKIKMFNVTDNAVIKPGTPLYAAHFRPGQYVDVTAKTIG 212

Query: 245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           +GFQGVMKRWGFKG PATHG TK+HRR G I++G   ARV+PG
Sbjct: 213 KGFQGVMKRWGFKGQPATHGQTKTHRRPGAISTG-DVARVWPG 254

Bos taurus (taxid: 9913)

>sp|Q99N95|RM03_MOUSE 39S ribosomal protein L3, mitochondrial OS=Mus musculus GN=Mrpl3 PE=2 SV=1

 Score =  161 bits (407), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 93/230 (40%), Positives = 134/230 (58%), Gaps = 21/230 (9%)

Query: 60  KERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEP--LQPLEITTSSKR 117
           K    + E+L+  N +F++++V D+      K+ + +   PLK EP  L P E    S R
Sbjct: 44  KSSTWWDEHLSEENLSFVKQLVSDEN-----KTQLTSKLNPLKDEPWPLHPWE--PGSFR 96

Query: 118 TGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCL 177
            GLI   +G  PLW K+G+K   TL+QV D H++KY P E+              K+  L
Sbjct: 97  VGLIALKLGMMPLWTKDGQKHAVTLLQVQDCHVLKYTPKEDHN-----------GKIAAL 145

Query: 178 LVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLD 237
            VG ++             +++ G+PPK+    F +T +A++ PGTPL AAHFRP +++D
Sbjct: 146 TVGGKTVSRFYKPDSRLEFYRDLGLPPKQIHKIFHVTDNAVIKPGTPLYAAHFRPGQYVD 205

Query: 238 VRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           V   T+ +GFQGVMKRWGFKG PA+HG TK+HRR G I++G   ARV+PG
Sbjct: 206 VTAKTIGKGFQGVMKRWGFKGQPASHGQTKTHRRPGAISTG-DIARVWPG 254

Mus musculus (taxid: 10090)

>sp|P09001|RM03_HUMAN 39S ribosomal protein L3, mitochondrial OS=Homo sapiens GN=MRPL3 PE=1 SV=1

 Score =  154 bits (390), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 90/228 (39%), Positives = 124/228 (54%), Gaps = 17/228 (7%)

Query: 60  KERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTG 119
           K    + E+L+  N  FI+++V D+  A          + P  I P +P      S R G
Sbjct: 44  KSGTWWDEHLSEENVPFIKQLVSDEDKAQLASKLCPLKDEPWPIHPWEP-----GSFRVG 98

Query: 120 LIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLV 179
           LI   +G  PLW K+G+K   TL+QV D H++KY   E               K+  L V
Sbjct: 99  LIALKLGMMPLWTKDGQKHVVTLLQVQDCHVLKYTSKENCN-----------GKMATLSV 147

Query: 180 GAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVR 239
           G ++             ++  G+PPK+ +  F IT +A + PGTPL AAHFRP +++DV 
Sbjct: 148 GGKTVSRFRKATSILEFYRELGLPPKQTVKIFNITDNAAIKPGTPLYAAHFRPGQYVDVT 207

Query: 240 GLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             T+ +GFQGVMKRWGFKG PATHG TK+HRR G +A+G    RV+PG
Sbjct: 208 AKTIGKGFQGVMKRWGFKGQPATHGQTKTHRRPGAVATGD-IGRVWPG 254

Homo sapiens (taxid: 9606)

>sp|P49404|RM03_CAEEL Putative 39S ribosomal protein L3, mitochondrial OS=Caenorhabditis elegans GN=C26E6.6 PE=3 SV=3

 Score =  125 bits (315), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 74/222 (33%), Positives = 119/222 (53%), Gaps = 10/222 (4%)

Query: 69  LTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQY 128
           +++  K  +E V+  +  A +  +   +  T + +     ++I  SS+R GL+ + IG  
Sbjct: 59  ISQGTKNLLETVIEKETLAASTIAFQNSQETNVSV-----VDIPDSSRRVGLVVRKIGML 113

Query: 129 PLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLL---VGAESGD 185
           P W   G +   T+++V +NH++    PE +  +    + +   + G +    VGA + D
Sbjct: 114 PQWTNEGNRILCTVLEVDENHVVSITSPEAWYKSSAVGKRKAFNRHGPMWRVTVGAGNDD 173

Query: 186 PSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDR 245
           P+ YT  Y   F  +G+P K+KL  F++T DA+   G PL A HF   +++   G T+D 
Sbjct: 174 PTKYTLGYRRQFVRAGIPVKEKLGCFLVTEDALPSAGQPLDARHFGVGQYVTATGKTIDW 233

Query: 246 GFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           GFQG M RWG +G P T   TKSHRR G + S  G AR++PG
Sbjct: 234 GFQGGMHRWGMRGQP-TRRTTKSHRRIGSVGS-VGDARIWPG 273

Caenorhabditis elegans (taxid: 6239)

>sp|Q9LRN8|RK3B_ARATH 50S ribosomal protein L3-2, chloroplastic OS=Arabidopsis thaliana GN=RPL3B PE=2 SV=1

 Score =  117 bits (292), Expect = 1e-25,   Method: Compositional matrix adjust.
 Identities = 68/178 (38%), Positives = 95/178 (53%), Gaps = 13/178 (7%)

Query: 110 EITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGE 169
           E+++ SKRTG+I    G   LW K G++   +++ V DN I+  +   E           
Sbjct: 69  EMSSRSKRTGIIAVKCGMTALWDKWGKRIPISILWVDDN-IVSQVKTVE----------- 116

Query: 170 PKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAH 229
            K  +  L +G     P   +K   G F+  GVP K+KL  F +T DA+LP GT L   H
Sbjct: 117 -KEGIFALQIGCGQKKPKHLSKAVVGHFRAQGVPLKRKLREFPVTEDALLPVGTSLGVRH 175

Query: 230 FRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           F P +++DV G+T  +GFQG MKR GF GMPA+HG + SHR GG         +V+ G
Sbjct: 176 FVPGQYVDVTGITRGKGFQGCMKRHGFSGMPASHGASLSHRSGGSTGQRDAPGKVFKG 233

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Arabidopsis thaliana (taxid: 3702)

>sp|B6IRQ6|RL3_RHOCS 50S ribosomal protein L3 OS=Rhodospirillum centenum (strain ATCC 51521 / SW) GN=rplC PE=3 SV=1

 Score = 97.1 bits (240), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 55/158 (34%), Positives = 79/158 (50%), Gaps = 13/158 (8%)

Query: 117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGC 176
           R+GLI + +G   ++   GE    T++++    ++               R E +     
Sbjct: 2   RSGLIAQKLGMTRVFTDEGEHVPVTVLKLDQVQVV-------------AQRTEDRDGYTA 48

Query: 177 LLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFL 236
           L +GA         K     F  + V PKKKL  F +TPDA++  G  +TA HF P +F+
Sbjct: 49  LQLGAGKAKVKNVAKAQREQFARAKVEPKKKLVEFRVTPDALIEVGAEITADHFVPGQFV 108

Query: 237 DVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGC 274
           DV G T+ RGF G M+RW F G+ ATHGV+ SHR  G 
Sbjct: 109 DVTGTTIGRGFTGPMRRWNFGGLRATHGVSVSHRSHGS 146

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Rhodospirillum centenum (strain ATCC 51521 / SW) (taxid: 414684)

>sp|Q2W2J1|RL3_MAGSA 50S ribosomal protein L3 OS=Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) GN=rplC PE=3 SV=1

 Score = 95.5 bits (236), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 55/171 (32%), Positives = 86/171 (50%), Gaps = 13/171 (7%)

Query: 117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGC 176
           R+GLI + +G   ++ ++G     T+++V    ++               R   K     
Sbjct: 2   RSGLIAQKVGMTRIFTEDGTHVPVTVLKVDTCQVVST-------------RSVEKDGYVA 48

Query: 177 LLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFL 236
           + +GA +      +K     F  + V PKKKL  F + P+ +L  GT L+AAHF P +++
Sbjct: 49  VQLGAGTAKVKNVSKPARANFAKAKVEPKKKLVEFRVAPENLLEVGTELSAAHFIPGQYV 108

Query: 237 DVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           DV G T+ +GF G MKRW F+G+ ATHGV+ SHR  G         +V+ G
Sbjct: 109 DVTGTTIGKGFAGGMKRWNFRGLEATHGVSVSHRSHGSTGQRQDPGKVFKG 159

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) (taxid: 342108)

>sp|A0L5X3|RL3_MAGSM 50S ribosomal protein L3 OS=Magnetococcus sp. (strain MC-1) GN=rplC PE=3 SV=1

 Score = 95.5 bits (236), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 57/169 (33%), Positives = 83/169 (49%), Gaps = 13/169 (7%)

Query: 117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGC 176
           R+GLIG+ +G   ++ ++G++   TLVQ+    ++     E+   N              
Sbjct: 2   RSGLIGRKLGMSQMFTEDGQRIPVTLVQLGPCAVVAKRSDEQDGYN-------------A 48

Query: 177 LLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFL 236
           + +G E   PS  +K   G +  + V P++ L  F ++       G  LTA  F    F+
Sbjct: 49  VQLGFEEAKPSRLSKTVRGQYAKANVTPRRVLREFRVSNPESYEVGQELTAEQFAVDSFV 108

Query: 237 DVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVY 285
           DV G TV +GF GVMKRWGF+G  A+HG  K HR GG I       RVY
Sbjct: 109 DVTGKTVGKGFAGVMKRWGFRGGRASHGAHKVHRSGGSIGQCQTPGRVY 157

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Magnetococcus sp. (strain MC-1) (taxid: 156889)

>sp|B1ZLK4|RL3_METPB 50S ribosomal protein L3 OS=Methylobacterium populi (strain ATCC BAA-705 / NCIMB 13946 / BJ001) GN=rplC PE=3 SV=1

 Score = 95.1 bits (235), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 54/158 (34%), Positives = 79/158 (50%), Gaps = 13/158 (8%)

Query: 117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGC 176
           R+G+I + +G   ++   GE    T++Q+    ++              +R   K     
Sbjct: 2   RSGVIARKVGMTRVFTDAGEHVPVTVLQIDQCQVV-------------AHRTTEKDGYVA 48

Query: 177 LLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFL 236
           L VG         ++   G F  + V PKKKL  F ++ DA++P G  +TA HF P +F+
Sbjct: 49  LQVGVGKAKVKNVSQAERGRFAVAKVEPKKKLAEFRVSEDALIPVGAEITADHFIPGQFV 108

Query: 237 DVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGC 274
           DV G T  +GF G MKRW F G+ ATHGV+ SHR  G 
Sbjct: 109 DVTGTTTGKGFAGGMKRWNFGGLRATHGVSISHRSIGS 146

One of the primary rRNA binding proteins, it binds directly near the 3'-end of the 23S rRNA, where it nucleates assembly of the 50S subunit.

Methylobacterium populi (strain ATCC BAA-705 / NCIMB 13946 / BJ001) (taxid: 441620)

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	296
239790528	375	ACYPI003905 [Acyrthosiphon pisum]	0.898	0.709	0.547	2e-80
157134546	372	Mitochondrial 39S ribosomal protein L3 [	0.871	0.693	0.531	2e-75
195425857	375	GK10341 [Drosophila willistoni] gi|19415	0.854	0.674	0.538	2e-71
158296418	373	AGAP000857-PA [Anopheles gambiae str. PE	0.851	0.675	0.539	3e-71
307194194	348	39S ribosomal protein L3, mitochondrial	0.817	0.695	0.561	5e-71
195398797	372	GJ15729 [Drosophila virilis] gi|19415043	0.844	0.672	0.558	8e-71
340718066	367	PREDICTED: 39S ribosomal protein L3, mit	0.790	0.637	0.545	3e-70
350420889	367	PREDICTED: 39S ribosomal protein L3, mit	0.790	0.637	0.55	4e-70
195059563	373	GH17642 [Drosophila grimshawi] gi|193896	0.827	0.656	0.536	4e-69
312375540	1032	hypothetical protein AND_14042 [Anophele	0.851	0.244	0.527	4e-69

>gi|239790528|dbj|BAH71819.1| ACYPI003905 [Acyrthosiphon pisum]

 Score =  305 bits (780), Expect = 2e-80,   Method: Compositional matrix adjust.
 Identities = 151/276 (54%), Positives = 196/276 (71%), Gaps = 10/276 (3%)

Query: 21  KSNIFETP----FLFGCSEVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAF 76
           K  +F+ P      FG   V+  R     +R PR+KYPLW+LQ+ERA+  + LT +N+AF
Sbjct: 6   KRTVFDLPSSFRITFGGPMVLQSRTAHN-VRAPRIKYPLWYLQRERAKDDQQLTGDNRAF 64

Query: 77  IEEVVHDQCGAPAVKSGIETYN--TPLKIEPLQPLEITTSSK--RTGLIGKIIGQYPLWM 132
           ++E VHD+ G PAV  GI TY+  +PL  + ++ L +  + K  RTGLI + +G YP+W+
Sbjct: 65  VKEAVHDKFGMPAVIHGISTYDVRSPLSEDSVECLNVEWNPKLQRTGLIARKLGNYPMWL 124

Query: 133 KNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYR-GEPKRKLGCLLVGAESGDPSLYTK 191
            NG+   +TL+QV+DNH+IKYIPP EF P RKPY     K+ LGCLLVGAES DP  +TK
Sbjct: 125 DNGKSVLSTLLQVIDNHVIKYIPPGEFNPPRKPYSCPNHKKPLGCLLVGAESADPQYFTK 184

Query: 192 EYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVM 251
           +YCGLF   G+ PKK L RF+++P+A L PGTPL A+HFRP +F+DVRG T+DRGFQGVM
Sbjct: 185 QYCGLFYREGMMPKKYLGRFMVSPEAALQPGTPLLASHFRPGDFIDVRGKTIDRGFQGVM 244

Query: 252 KRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           KR GF GMPATHGVTKSHRRGG +  G  K R++PG
Sbjct: 245 KRHGFHGMPATHGVTKSHRRGGNVGHGGEKGRIFPG 280

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157134546|ref|XP_001656360.1| Mitochondrial 39S ribosomal protein L3 [Aedes aegypti] gi|108870456|gb|EAT34681.1| AAEL013116-PA [Aedes aegypti]

 Score =  288 bits (738), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 142/267 (53%), Positives = 194/267 (72%), Gaps = 9/267 (3%)

Query: 26  ETPFLFGCSEVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQC 85
           +T FL G ++  N    K ++  PR++ P+WF++KER  + E LT  N +F++EV+HD+ 
Sbjct: 14  QTTFLTGLNQTRN----KNYLNRPRLRNPIWFVRKERTVHDEMLTPENTSFVKEVLHDKF 69

Query: 86  GAPAVKSGIETYNTP----LKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTT 141
           G PA+  G+ T++      ++ E L  ++     KRTG+I + IGQYPLWMK+G K RTT
Sbjct: 70  GPPALIKGVLTFDQSNQSLIRTEELPAVQWRPGLKRTGVIARKIGQYPLWMKDGTKIRTT 129

Query: 142 LVQVVDNHIIKYIPPEEFKPNRKPYRGEP-KRKLGCLLVGAESGDPSLYTKEYCGLFKNS 200
           L+QV+DNH++KYIPP EF P  +P + +  K   GCLLVGA+S DPS++TKEYCGLFK+S
Sbjct: 130 LLQVIDNHVVKYIPPAEFNPPLEPRQKKNWKNPYGCLLVGAQSQDPSIFTKEYCGLFKDS 189

Query: 201 GVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMP 260
           GV PK+ LCRFI++P+A L PGTPL   HF+  +++DVRG TVD GFQGV+KR GFKGMP
Sbjct: 190 GVLPKQHLCRFIVSPEAQLLPGTPLNVTHFKVGDYVDVRGKTVDHGFQGVVKRHGFKGMP 249

Query: 261 ATHGVTKSHRRGGCIASGAGKARVYPG 287
           A+HGVTK+HR+ G I +G  KARV+PG
Sbjct: 250 ASHGVTKTHRKPGNIGAGGEKARVWPG 276

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195425857|ref|XP_002061179.1| GK10341 [Drosophila willistoni] gi|194157264|gb|EDW72165.1| GK10341 [Drosophila willistoni]

 Score =  275 bits (702), Expect = 2e-71,   Method: Compositional matrix adjust.
 Identities = 140/260 (53%), Positives = 185/260 (71%), Gaps = 7/260 (2%)

Query: 33  CSEVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKS 92
           C  V  +R+K    RP R++ P WFL+KER++  + +T  N+ F++EVVH+  G+PA+  
Sbjct: 23  CVLVTQVREKGHLSRP-RLRNPHWFLRKERSQTDDYVTAENRNFVKEVVHETYGSPALIK 81

Query: 93  GIETYNTPLKIEPLQPLEI-----TTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVD 147
           G++TY   L   P++   +     T   +R G+I + IGQYPLW+KNGE+ RTTL+Q+VD
Sbjct: 82  GVQTYEQKLIRTPIEKPSVDAEPWTPKVRRCGVIARKIGQYPLWLKNGERVRTTLLQIVD 141

Query: 148 NHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKK 207
           NH+IKY PPEE++P+ +P       K GCLLVGAES +P+L TKEYCG+F++SGV PKK 
Sbjct: 142 NHVIKYTPPEEYQPSHRP-SVHNLHKYGCLLVGAESTNPALLTKEYCGIFRDSGVMPKKN 200

Query: 208 LCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTK 267
           + RFI++P A L PGTPL   HFR  EF+DVRG TVD GFQGV+KR GFKGMPA+HGVTK
Sbjct: 201 VARFIVSPQAALAPGTPLNVGHFRVGEFVDVRGKTVDHGFQGVVKRHGFKGMPASHGVTK 260

Query: 268 SHRRGGCIASGAGKARVYPG 287
           +HRR G I  G  K RV+PG
Sbjct: 261 THRRAGNIGGGGEKGRVWPG 280

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158296418|ref|XP_316827.4| AGAP000857-PA [Anopheles gambiae str. PEST] gi|157015287|gb|EAA12062.4| AGAP000857-PA [Anopheles gambiae str. PEST]

 Score =  274 bits (701), Expect = 3e-71,   Method: Compositional matrix adjust.
 Identities = 137/254 (53%), Positives = 178/254 (70%), Gaps = 2/254 (0%)

Query: 35  EVINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGI 94
            +I +R K  ++  PR++ P+WF++K R  + E  T +N AF+ EV  +   + A +S  
Sbjct: 19  SIIPVRSKN-YLNRPRLRNPVWFVKKTRTLHNEQFTEDNTAFLNEVKRETILSAAQRSQS 77

Query: 95  ETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYI 154
                    +  Q  +     KRTG+I K IGQYPLW K+G+K RTTL+Q+VDN ++KYI
Sbjct: 78  NLLKLAHGEQNGQLAQWAPGLKRTGVIAKKIGQYPLWTKDGQKIRTTLLQIVDNEVVKYI 137

Query: 155 PPEEFKPNRKPYRGEPKRK-LGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFII 213
           PPEE++P ++P +    RK  GCLLVGAE GDPSL+TKEY GLF  SGV PKK LCRFI+
Sbjct: 138 PPEEYRPAQEPRQSRNWRKPYGCLLVGAEHGDPSLFTKEYAGLFHESGVLPKKHLCRFIV 197

Query: 214 TPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGG 273
           +P+A LP GT LT +HFR  +F+DVRGLTVDRGFQGV+KR GFKGMP +HGVTK+HRR G
Sbjct: 198 SPEAQLPSGTALTVSHFRVGDFVDVRGLTVDRGFQGVVKRHGFKGMPKSHGVTKTHRRPG 257

Query: 274 CIASGAGKARVYPG 287
            I +G  KARV+PG
Sbjct: 258 NIGAGGNKARVWPG 271

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307194194|gb|EFN76611.1| 39S ribosomal protein L3, mitochondrial [Harpegnathos saltator]

 Score =  273 bits (699), Expect = 5e-71,   Method: Compositional matrix adjust.
 Identities = 141/251 (56%), Positives = 182/251 (72%), Gaps = 9/251 (3%)

Query: 40  RQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNT 99
           R K++ I  P+ ++P W  + +R  Y E LT +NK F++EV+ D+ G P    G+    +
Sbjct: 7   RSKRIGI--PKYRHPEWLPKPQRVRYEEQLTEDNKEFLQEVIQDKYGLPHADLGMNL--S 62

Query: 100 PLKIEPLQPL-EITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEE 158
           PLK++P++P+ +     KRTGLI K IG YPLW+K+G K  +TL+QVVDN ++KYIPPEE
Sbjct: 63  PLKLDPIEPITKWKPGLKRTGLIAKKIGVYPLWLKDGTKVYSTLLQVVDNEVVKYIPPEE 122

Query: 159 FKP--NRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPD 216
           F P   +KP   + KR+LGCL+VGA + +P L TKEY G+FK+SGV PK  L RFII+P+
Sbjct: 123 FYPVIGKKPI--QIKRRLGCLVVGAGNINPQLVTKEYSGIFKDSGVMPKLVLRRFIISPE 180

Query: 217 AMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIA 276
           A L PGTPL A HF+P E +D+RG T+DRGFQGVMKRWGFKGMPATHGVTK+HRR G I 
Sbjct: 181 AALQPGTPLFATHFKPGEVVDIRGKTIDRGFQGVMKRWGFKGMPATHGVTKTHRRPGNIG 240

Query: 277 SGAGKARVYPG 287
           SG  KARV PG
Sbjct: 241 SGGQKARVMPG 251

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195398797|ref|XP_002058007.1| GJ15729 [Drosophila virilis] gi|194150431|gb|EDW66115.1| GJ15729 [Drosophila virilis]

 Score =  273 bits (697), Expect = 8e-71,   Method: Compositional matrix adjust.
 Identities = 143/256 (55%), Positives = 186/256 (72%), Gaps = 6/256 (2%)

Query: 36  VINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIE 95
           V  +R+K    RP R++ P WF++KER +  + +T  N++FI+EVVHD  G PA+  GI+
Sbjct: 25  VTQVREKGHLSRP-RLRNPYWFIRKERTQTDDLVTGENRSFIKEVVHDTYGKPALIKGIQ 83

Query: 96  TYNTPLKIE-PLQPLEI---TTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHII 151
           TY     I+ P+ P +I   T + +R GLI + IGQYPLW+KNGE+ RTTL+QVVDNH++
Sbjct: 84  TYEQKQLIKTPVAPTDIEPWTPAVRRCGLIARKIGQYPLWLKNGERVRTTLLQVVDNHVV 143

Query: 152 KYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRF 211
           KYIPP E+ P ++P R +   + GC+LVGAES +P+L TKEYCG+F++SGV P K L RF
Sbjct: 144 KYIPPGEYTPAQRP-RVKHLDRYGCVLVGAESTNPALLTKEYCGIFRDSGVMPTKNLARF 202

Query: 212 IITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRR 271
           I++P A L PGTPL   HFR  EF+DVRG TVD GFQGV+KR GFKGMPA+HGVTK+HRR
Sbjct: 203 IVSPQAALAPGTPLNVGHFRVGEFVDVRGKTVDHGFQGVVKRHGFKGMPASHGVTKTHRR 262

Query: 272 GGCIASGAGKARVYPG 287
            G I  G  K RV+PG
Sbjct: 263 PGNIGGGGEKGRVWPG 278

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340718066|ref|XP_003397493.1| PREDICTED: 39S ribosomal protein L3, mitochondrial-like [Bombus terrestris]

 Score =  271 bits (693), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 131/240 (54%), Positives = 168/240 (70%), Gaps = 6/240 (2%)

Query: 48  PPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQ 107
           PP+ ++P W  +  R  Y E L+  NK F+ E +    G       ++   +PL  E +Q
Sbjct: 37  PPKKRHPEWLPKPTRTRYNEELSPENKEFLSEFISANNGL------LDVQKSPLNTELVQ 90

Query: 108 PLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYR 167
               T  SKRTGLIGK IG YP+W+KNG+K  TTL+Q+VDN ++KY+PPEEF P ++   
Sbjct: 91  SATWTPGSKRTGLIGKKIGVYPMWLKNGKKVTTTLIQIVDNEVVKYMPPEEFNPVKRTKH 150

Query: 168 GEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTA 227
            +PK K GCL++GA + DP L TKEY G+F  +GV PKK L RF+++P+A L PGTPL A
Sbjct: 151 LQPKVKNGCLVLGAVNIDPQLLTKEYYGIFNAAGVTPKKTLMRFVVSPNAALQPGTPLCA 210

Query: 228 AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           AHF+P EF+D+RG T+DRGFQGVMKRWGFKGMPA+HGVTK+HRR G I SG  KARV PG
Sbjct: 211 AHFKPGEFIDIRGKTIDRGFQGVMKRWGFKGMPASHGVTKTHRRPGNIGSGGTKARVMPG 270

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350420889|ref|XP_003492662.1| PREDICTED: 39S ribosomal protein L3, mitochondrial-like [Bombus impatiens]

 Score =  270 bits (691), Expect = 4e-70,   Method: Compositional matrix adjust.
 Identities = 132/240 (55%), Positives = 168/240 (70%), Gaps = 6/240 (2%)

Query: 48  PPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQ 107
           PP+ ++P W  +  R  Y E L+  NK F+ E V    G   V+       +PL  E +Q
Sbjct: 37  PPKKRHPQWLPKPTRIRYNEELSPENKEFLSEFVSANNGLLGVQK------SPLNTELVQ 90

Query: 108 PLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYR 167
               T  SKRTGLIGK IG YP+W+KNG+K  TTL+Q+VDN ++KY+PPE+F P ++   
Sbjct: 91  SATWTPGSKRTGLIGKKIGVYPMWLKNGKKVTTTLIQIVDNEVVKYMPPEQFNPVKRTKH 150

Query: 168 GEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTA 227
            +PK K GCL++GA + DP L TKEY G+F  +GV PKK L RF+++P+A L PGTPL A
Sbjct: 151 LQPKVKNGCLVLGAVNIDPQLLTKEYYGIFNEAGVTPKKTLMRFVVSPNAALQPGTPLCA 210

Query: 228 AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           AHF+P EF+D+RG T+DRGFQGVMKRWGFKGMPA+HGVTK+HRR G I SG  KARV PG
Sbjct: 211 AHFKPGEFIDIRGKTIDRGFQGVMKRWGFKGMPASHGVTKTHRRPGNIGSGGTKARVMPG 270

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195059563|ref|XP_001995662.1| GH17642 [Drosophila grimshawi] gi|193896448|gb|EDV95314.1| GH17642 [Drosophila grimshawi]

 Score =  267 bits (683), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 140/261 (53%), Positives = 178/261 (68%), Gaps = 16/261 (6%)

Query: 36  VINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIE 95
           +  +R+K    RP R++ P WF++++R    + +T  N+ FI+EVVHD  G PA+  G +
Sbjct: 25  ITQVREKGHLSRP-RLRNPYWFIRQQRTRTDDLVTGENRTFIKEVVHDTYGVPALIKGTQ 83

Query: 96  TYN---------TPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVV 146
           TY           P   EP  P     + +R GLI + IGQYPLW+KNGE+ RTTL+QVV
Sbjct: 84  TYEQKQLIKTTEAPTDAEPWTP-----AVRRCGLIARKIGQYPLWLKNGERVRTTLLQVV 138

Query: 147 DNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKK 206
           DNH+IKYIPPEE++P ++P       K GC+LVGAE  +P+L TKEYCGLF++SGV PKK
Sbjct: 139 DNHVIKYIPPEEYRPTQRP-NVHHLNKYGCVLVGAECTNPALLTKEYCGLFRDSGVMPKK 197

Query: 207 KLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVT 266
            L RFI++P A L  GTPL   HFR  EF+DVRG TVD GFQGV+KR GFKGMPA+HGVT
Sbjct: 198 NLARFIVSPQAALAAGTPLNVGHFRVGEFVDVRGKTVDHGFQGVVKRHGFKGMPASHGVT 257

Query: 267 KSHRRGGCIASGAGKARVYPG 287
           K+HRR G I  G  K RV+PG
Sbjct: 258 KTHRRAGNIGGGGEKGRVWPG 278

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312375540|gb|EFR22896.1| hypothetical protein AND_14042 [Anopheles darlingi]

 Score =  267 bits (682), Expect = 4e-69,   Method: Compositional matrix adjust.
 Identities = 134/254 (52%), Positives = 180/254 (70%), Gaps = 2/254 (0%)

Query: 36  VINIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIE 95
           ++N  + K ++  PR++ P+WF++K R  + E  T+ N AF+ EV  +   A A ++   
Sbjct: 677 IVNPARSKNYLNRPRLRNPVWFVKKTRTLHDEQFTQENSAFLGEVRRETVQAAADRNQAN 736

Query: 96  TYNTPLKIEPLQPL-EITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYI 154
                   E   P+ E     KRTG+I K IGQYPLW +NG K RTTL+Q+V+N ++KYI
Sbjct: 737 LLQLRTGGEEAGPVAEWAPGLKRTGVIAKKIGQYPLWTRNGTKIRTTLLQIVENEVVKYI 796

Query: 155 PPEEFKPNRKP-YRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFII 213
           PPEE++P ++P  R   +R  GCLLVGAE+GDPSL+TKEY GLF+++GV PK+ LCRF++
Sbjct: 797 PPEEYRPAQEPRQRRNWRRPYGCLLVGAENGDPSLFTKEYAGLFQHTGVLPKQHLCRFLV 856

Query: 214 TPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGG 273
           +P+A LPPGT LT  HFR  +++DVRG TVDRGFQGV+KR GFKGMP THGVTK+HRR G
Sbjct: 857 SPEAQLPPGTALTVDHFRVGDYVDVRGKTVDRGFQGVVKRHGFKGMPKTHGVTKTHRRPG 916

Query: 274 CIASGAGKARVYPG 287
            I +G  KARV+PG
Sbjct: 917 NIGAGGQKARVWPG 930

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	296
FB|FBgn0030686	362	mRpL3 "mitochondrial ribosomal	0.851	0.696	0.524	9.4e-66
ZFIN|ZDB-GENE-030131-8227	345	mrpl3 "mitochondrial ribosomal	0.692	0.594	0.398	3.3e-40
UNIPROTKB|Q3ZBX6	348	MRPL3 "39S ribosomal protein L	0.682	0.580	0.417	2.9e-39
RGD|1306391	347	Mrpl3 "mitochondrial ribosomal	0.682	0.582	0.417	9.9e-39
UNIPROTKB|P18665	347	Mrpl3 "39S ribosomal protein L	0.682	0.582	0.417	9.9e-39
UNIPROTKB|E2R429	348	MRPL3 "Uncharacterized protein	0.682	0.580	0.417	2.1e-38
UNIPROTKB|F1RX24	399	LOC100156322 "Uncharacterized	0.682	0.506	0.412	2.6e-38
UNIPROTKB|K7GPJ6	348	LOC100156322 "Uncharacterized	0.682	0.580	0.412	2.6e-38
MGI|MGI:2137204	348	Mrpl3 "mitochondrial ribosomal	0.682	0.580	0.417	7e-38
UNIPROTKB|F1NVG6	348	MRPL3 "Uncharacterized protein	0.689	0.586	0.393	2.1e-36

FB|FBgn0030686 mRpL3 "mitochondrial ribosomal protein L3" [Drosophila melanogaster (taxid:7227)]

 Score = 669 (240.6 bits), Expect = 9.4e-66, P = 9.4e-66
 Identities = 137/261 (52%), Positives = 176/261 (67%)

Query:    30 LFGCSEVI--NIRQKKVWIRPPRVKYPLWFLQKERAEYIENLTRNNKAFIEEVVHDQCGA 87
             L G S V+   +R K    RP R++ P WFL+KE  +Y + +T  NK F+ EV  +  G 
Sbjct:    14 LSGNSSVLVTQVRDKGHLSRP-RLRNPQWFLRKEITKYNDLMTAENKQFVNEVGTNNFGV 72

Query:    88 PAV-KSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVV 146
             P V K  +     P   E +     T + +R G+I + IGQYPLW+KNGE+ RTTL+Q+V
Sbjct:    73 PVVIKDCLVKTAGPTANEAVW----TPNLRRCGVIARKIGQYPLWLKNGERIRTTLLQIV 128

Query:   147 DNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKK 206
             DNH+IKYIPPEE+ P + P       K GC+LVG+E+ +P+L TKEY G+F+NSGV PKK
Sbjct:   129 DNHVIKYIPPEEYLPAQVPTVAN-LHKRGCILVGSETTNPALLTKEYAGIFRNSGVLPKK 187

Query:   207 KLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVT 266
              L RFI++P+A L PGTPL   HFR  +F+DVRG TVD GFQGV+KR GFKGMPA+HGVT
Sbjct:   188 NLARFIVSPEAQLAPGTPLNVNHFRVGDFVDVRGKTVDHGFQGVVKRHGFKGMPASHGVT 247

Query:   267 KSHRRGGCIASGAGKARVYPG 287
             K+HRR G I  G  K RV+PG
Sbjct:   248 KTHRRAGNIGGGGEKGRVWPG 268

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

GO:0006412 "translation" evidence=ISS

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

GO:0005763 "mitochondrial small ribosomal subunit" evidence=ISS

ZFIN|ZDB-GENE-030131-8227 mrpl3 "mitochondrial ribosomal protein L3" [Danio rerio (taxid:7955)]

 Score = 428 (155.7 bits), Expect = 3.3e-40, P = 3.3e-40
 Identities = 88/221 (39%), Positives = 133/221 (60%)

Query:    67 ENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIG 126
             E+LT +N +F++++  ++      K  +     PLK EP    E    S+R GL+   +G
Sbjct:    51 EHLTEDNASFLKKLTAEEYDQ-MTKDRLN----PLKDEPWPRHEWVEGSRRVGLVAIKLG 105

Query:   127 QYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDP 186
               P+W K+GE+   T++QV D H++K++  E+       Y G        L+VG ++  P
Sbjct:   106 MMPVWSKSGERHVVTMLQVKDCHVVKHLSKED-------YNGHTS----ALVVGGKNVSP 154

Query:   187 SLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRG 246
                   Y  +F+N+G+PPK+KL  F +T +A++ PGTPL AAHFRP +++DV   T+ +G
Sbjct:   155 FHRPVGYLEIFQNAGIPPKQKLTTFCVTDNAIIKPGTPLYAAHFRPGQYVDVTAKTIGKG 214

Query:   247 FQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             FQGVMKRWGFKG PA+HG TK+HRR G +  G   A+V+ G
Sbjct:   215 FQGVMKRWGFKGQPASHGQTKTHRRPGALGPGGDPAKVFKG 255

GO:0005622 "intracellular" evidence=IEA

GO:0005840 "ribosome" evidence=IEA

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

GO:0006412 "translation" evidence=IEA

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|Q3ZBX6 MRPL3 "39S ribosomal protein L3, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 419 (152.6 bits), Expect = 2.9e-39, P = 2.9e-39
 Identities = 93/223 (41%), Positives = 135/223 (60%)

Query:    67 ENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEP--LQPLEITTSSKRTGLIGKI 124
             E+L+  N +F++++V D+      K+ + +   PLK EP  + P E    S R GL+   
Sbjct:    51 EHLSEENVSFVKQLVSDEN-----KAQLASKLCPLKDEPWPIHPWE--PGSSRVGLVALK 103

Query:   125 IGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESG 184
             +G  PLW K+G+K   TL+QV D H++KY P E        + G    K+  L VG ++ 
Sbjct:   104 LGMMPLWTKDGKKHVVTLLQVQDCHVLKYTPKEN-------HNG----KMAALTVGGKTV 152

Query:   185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
                  +      ++  G+PPK+K+  F +T +A++ PGTPL AAHFRP +++DV   T+ 
Sbjct:   153 SRFHKSTSILEFYQELGLPPKQKIKMFNVTDNAVIKPGTPLYAAHFRPGQYVDVTAKTIG 212

Query:   245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             +GFQGVMKRWGFKG PATHG TK+HRR G I++G   ARV+PG
Sbjct:   213 KGFQGVMKRWGFKGQPATHGQTKTHRRPGAISTG-DVARVWPG 254

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

GO:0006412 "translation" evidence=IEA

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

RGD|1306391 Mrpl3 "mitochondrial ribosomal protein L3" [Rattus norvegicus (taxid:10116)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 93/223 (41%), Positives = 133/223 (59%)

Query:    67 ENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEP--LQPLEITTSSKRTGLIGKI 124
             E+L+  N +F++++V D+      K+ + +   PLK EP  L P E    S R GLI   
Sbjct:    51 EHLSEENVSFVKQLVSDEN-----KAQLTSLLNPLKDEPWPLHPWE--PGSSRVGLIALK 103

Query:   125 IGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESG 184
             +G  PLW K+G+K   TL+QV D H++KY P E+       + G    K   L VG ++G
Sbjct:   104 LGMMPLWTKDGQKHAVTLLQVQDCHVLKYTPKED-------HNG----KTATLTVGGKTG 152

Query:   185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
                         +++ G+PPK+    F +T +A++  GTPL AAHFRP +++DV   T+ 
Sbjct:   153 SRLYKANSILEFYRDLGLPPKQTTKIFHVTDNAVIKQGTPLYAAHFRPGQYVDVTAKTIG 212

Query:   245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             +GFQGVMKRWGFKG PA+HG TK+HRR G I++G   ARV+PG
Sbjct:   213 KGFQGVMKRWGFKGQPASHGQTKTHRRPGAISTG-DIARVWPG 254

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

GO:0005739 "mitochondrion" evidence=ISO

GO:0005762 "mitochondrial large ribosomal subunit" evidence=IEA;ISO;ISS

GO:0006412 "translation" evidence=IEA

UNIPROTKB|P18665 Mrpl3 "39S ribosomal protein L3, mitochondrial" [Rattus norvegicus (taxid:10116)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 93/223 (41%), Positives = 133/223 (59%)

Query:    67 ENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEP--LQPLEITTSSKRTGLIGKI 124
             E+L+  N +F++++V D+      K+ + +   PLK EP  L P E    S R GLI   
Sbjct:    51 EHLSEENVSFVKQLVSDEN-----KAQLTSLLNPLKDEPWPLHPWE--PGSSRVGLIALK 103

Query:   125 IGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESG 184
             +G  PLW K+G+K   TL+QV D H++KY P E+       + G    K   L VG ++G
Sbjct:   104 LGMMPLWTKDGQKHAVTLLQVQDCHVLKYTPKED-------HNG----KTATLTVGGKTG 152

Query:   185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
                         +++ G+PPK+    F +T +A++  GTPL AAHFRP +++DV   T+ 
Sbjct:   153 SRLYKANSILEFYRDLGLPPKQTTKIFHVTDNAVIKQGTPLYAAHFRPGQYVDVTAKTIG 212

Query:   245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             +GFQGVMKRWGFKG PA+HG TK+HRR G I++G   ARV+PG
Sbjct:   213 KGFQGVMKRWGFKGQPASHGQTKTHRRPGAISTG-DIARVWPG 254

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

GO:0006412 "translation" evidence=IEA

UNIPROTKB|E2R429 MRPL3 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 411 (149.7 bits), Expect = 2.1e-38, P = 2.1e-38
 Identities = 93/223 (41%), Positives = 133/223 (59%)

Query:    67 ENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEP--LQPLEITTSSKRTGLIGKI 124
             E+L+  N  F++++  D+      K+ + +   PLK EP  L P E    S R GLI   
Sbjct:    51 EHLSEENVTFVKQLASDEN-----KAQLASKLCPLKDEPWPLHPWE--PGSSRVGLIALK 103

Query:   125 IGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESG 184
             +G  PLW K+G++   TL+QV D H++KY P E        + G    K+  L VG ++ 
Sbjct:   104 LGMMPLWTKDGKRHVVTLLQVQDCHVLKYTPKEN-------HNG----KMAALTVGGKTV 152

Query:   185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
                  +      ++  G+PPK+K+  F +T +A++ PGTPL AAHFRP +++DV   T+ 
Sbjct:   153 SRFHKSTSVLEFYQELGLPPKQKVKIFHVTDNAVIKPGTPLYAAHFRPGQYVDVTAKTIG 212

Query:   245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             +GFQGVMKRWGFKG PATHG TK+HRR G I++G   ARV+PG
Sbjct:   213 KGFQGVMKRWGFKGQPATHGQTKTHRRPGAISTG-DVARVWPG 254

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

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|F1RX24 LOC100156322 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 410 (149.4 bits), Expect = 2.6e-38, P = 2.6e-38
 Identities = 92/223 (41%), Positives = 134/223 (60%)

Query:    67 ENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEP--LQPLEITTSSKRTGLIGKI 124
             E+L+  N  F++++V D+      K+ + +   PLK EP  + P E    S R GLI   
Sbjct:   102 EHLSEENVPFVKQLVSDEN-----KAQLASKLCPLKDEPWPIHPWE--PGSSRVGLIALK 154

Query:   125 IGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESG 184
             +G  PLW K+G+K   TL+QV D H++KY P E        + G    ++  L VG ++ 
Sbjct:   155 LGMMPLWTKDGQKHVVTLLQVQDCHVLKYTPKEN-------HNG----RMAALTVGGKTV 203

Query:   185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
                  +      ++  G+PPK+K+  F +T +A++ PGTPL AAHFRP +++DV   T+ 
Sbjct:   204 SHFHKSASILEFYQELGLPPKQKVKIFNVTENAVIKPGTPLYAAHFRPGQYVDVTAKTIG 263

Query:   245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             +GFQGVM+RWGFKG PATHG TK+HRR G I++G   ARV+PG
Sbjct:   264 KGFQGVMRRWGFKGQPATHGQTKTHRRPGAISTG-DVARVWPG 305

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

GO:0006412 "translation" evidence=IEA

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

UNIPROTKB|K7GPJ6 LOC100156322 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 410 (149.4 bits), Expect = 2.6e-38, P = 2.6e-38
 Identities = 92/223 (41%), Positives = 134/223 (60%)

Query:    67 ENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEP--LQPLEITTSSKRTGLIGKI 124
             E+L+  N  F++++V D+      K+ + +   PLK EP  + P E    S R GLI   
Sbjct:    51 EHLSEENVPFVKQLVSDEN-----KAQLASKLCPLKDEPWPIHPWE--PGSSRVGLIALK 103

Query:   125 IGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESG 184
             +G  PLW K+G+K   TL+QV D H++KY P E        + G    ++  L VG ++ 
Sbjct:   104 LGMMPLWTKDGQKHVVTLLQVQDCHVLKYTPKEN-------HNG----RMAALTVGGKTV 152

Query:   185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
                  +      ++  G+PPK+K+  F +T +A++ PGTPL AAHFRP +++DV   T+ 
Sbjct:   153 SHFHKSASILEFYQELGLPPKQKVKIFNVTENAVIKPGTPLYAAHFRPGQYVDVTAKTIG 212

Query:   245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             +GFQGVM+RWGFKG PATHG TK+HRR G I++G   ARV+PG
Sbjct:   213 KGFQGVMRRWGFKGQPATHGQTKTHRRPGAISTG-DVARVWPG 254

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=IEA

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

MGI|MGI:2137204 Mrpl3 "mitochondrial ribosomal protein L3" [Mus musculus (taxid:10090)]

 Score = 406 (148.0 bits), Expect = 7.0e-38, P = 7.0e-38
 Identities = 93/223 (41%), Positives = 134/223 (60%)

Query:    67 ENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEP--LQPLEITTSSKRTGLIGKI 124
             E+L+  N +F++++V D+      K+ + +   PLK EP  L P E    S R GLI   
Sbjct:    51 EHLSEENLSFVKQLVSDEN-----KTQLTSKLNPLKDEPWPLHPWE--PGSFRVGLIALK 103

Query:   125 IGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESG 184
             +G  PLW K+G+K   TL+QV D H++KY P E+       + G    K+  L VG ++ 
Sbjct:   104 LGMMPLWTKDGQKHAVTLLQVQDCHVLKYTPKED-------HNG----KIAALTVGGKTV 152

Query:   185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
                         +++ G+PPK+    F +T +A++ PGTPL AAHFRP +++DV   T+ 
Sbjct:   153 SRFYKPDSRLEFYRDLGLPPKQIHKIFHVTDNAVIKPGTPLYAAHFRPGQYVDVTAKTIG 212

Query:   245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             +GFQGVMKRWGFKG PA+HG TK+HRR G I++G   ARV+PG
Sbjct:   213 KGFQGVMKRWGFKGQPASHGQTKTHRRPGAISTG-DIARVWPG 254

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

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

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

GO:0005840 "ribosome" evidence=IEA

GO:0006412 "translation" evidence=ISO

GO:0030529 "ribonucleoprotein complex" evidence=IEA

UNIPROTKB|F1NVG6 MRPL3 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 392 (143.0 bits), Expect = 2.1e-36, P = 2.1e-36
 Identities = 87/221 (39%), Positives = 127/221 (57%)

Query:    67 ENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIG 126
             E+L+  N  F+ +   ++  A            PLK EP    E    S R G++   +G
Sbjct:    52 EHLSEENVQFLRKAAAEEYRAQTASK-----LCPLKDEPWPLNEWKPDSVRVGVVAVKLG 106

Query:   127 QYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDP 186
               P+W K+G+K   TL++V D H++KY+  E+         G    KL   LVG ++  P
Sbjct:   107 MMPIWTKSGKKHAVTLLKVQDCHVLKYVSKED--------SGGKTAKL---LVGGKNVSP 155

Query:   187 SLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRG 246
                ++    +F+ +GVP K+K+  F +T DA++ PGTPL AAHFRP + +DV   T+ +G
Sbjct:   156 FSKSEAEMEIFREAGVPRKQKVTTFNVTDDAIIKPGTPLYAAHFRPGQIVDVTAKTIGKG 215

Query:   247 FQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
             FQGVMKRWGFKG PA+HG TK+HRR G I++    +RV+PG
Sbjct:   216 FQGVMKRWGFKGQPASHGQTKTHRRPGAISTNK-VSRVFPG 255

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

GO:0006412 "translation" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
P09001	RM03_HUMAN	No assigned EC number	0.3947	0.7128	0.6063	yes	N/A
P18665	RM03_RAT	No assigned EC number	0.4043	0.7060	0.6023	yes	N/A
Q99N95	RM03_MOUSE	No assigned EC number	0.4043	0.7060	0.6005	yes	N/A
P31334	RM09_YEAST	No assigned EC number	0.3004	0.6351	0.6988	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	296
TIGR03625	202	TIGR03625, L3_bact, 50S ribosomal protein L3, bact	2e-31
PRK00001	210	PRK00001, rplC, 50S ribosomal protein L3; Validate	2e-28
COG0087	218	COG0087, RplC, Ribosomal protein L3 [Translation,	2e-27
pfam00297	199	pfam00297, Ribosomal_L3, Ribosomal protein L3	3e-22
CHL00143	207	CHL00143, rpl3, ribosomal protein L3; Validated	1e-15
PRK04231	337	PRK04231, rpl3p, 50S ribosomal protein L3P; Review	8e-07
TIGR03626	330	TIGR03626, L3_arch, archaeal ribosomal protein L3	1e-06
PTZ00103	390	PTZ00103, PTZ00103, 60S ribosomal protein L3; Prov	7e-04

>gnl|CDD|234285 TIGR03625, L3_bact, 50S ribosomal protein L3, bacterial

 Score =  116 bits (292), Expect = 2e-31
 Identities = 49/169 (28%), Positives = 75/169 (44%), Gaps = 13/169 (7%)

Query: 119 GLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLL 178
           GL+GK +G   ++ ++G+    T+++V  N + +    E     +  Y          + 
Sbjct: 1   GLLGKKVGMTQIFTEDGKAVPVTVIEVGPNVVTQVKTVE-----KDGYSA--------VQ 47

Query: 179 VGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDV 238
           +G          K   G F  +GV PK+ L  F +        G  +T   F   + +DV
Sbjct: 48  LGFGEKKEKRVNKPEAGHFAKAGVEPKRHLREFRVDDLEGYEVGDEITVDIFEAGQKVDV 107

Query: 239 RGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
            G +  +GF GVMKR  F G PA+HG +KSHR  G I       RV+ G
Sbjct: 108 TGTSKGKGFAGVMKRHNFSGGPASHGNSKSHRAPGSIGQRQTPGRVFKG 156

This model describes bacterial (and mitochondrial and chloroplast) class of ribosomal protein L3. A separate model describes the archaeal form, where both belong to Pfam family pfam00297. The name is phrased to meet the needs of bacterial genome annotation. Organellar forms typically will have transit peptides, N-terminal to the region modeled here. Length = 202

>gnl|CDD|234564 PRK00001, rplC, 50S ribosomal protein L3; Validated

 Score =  107 bits (271), Expect = 2e-28
 Identities = 48/173 (27%), Positives = 75/173 (43%), Gaps = 19/173 (10%)

Query: 117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLG- 175
             G++GK +G   ++ ++GE    T+++   N + +    E               K G 
Sbjct: 2   MKGILGKKVGMTQIFTEDGESIPVTVIEAGPNVVTQVKTVE---------------KDGY 46

Query: 176 -CLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPRE 234
             + +G          K   G F  +GV PK+ L  F          G  +T   F   +
Sbjct: 47  NAVQLGFGDKKEKRVNKPEAGHFAKAGVEPKRHLREF--RVVEEYEVGQEITVDIFEAGQ 104

Query: 235 FLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
            +DV G +  +GF GV+KR  F G PA+HG ++SHRR G I +     RV+ G
Sbjct: 105 KVDVTGTSKGKGFAGVIKRHNFSGGPASHGNSRSHRRPGSIGARQTPGRVFKG 157

Length = 210

>gnl|CDD|223165 COG0087, RplC, Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]

 Score =  105 bits (265), Expect = 2e-27
 Identities = 53/174 (30%), Positives = 77/174 (44%), Gaps = 16/174 (9%)

Query: 117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGC 176
             G +G  +G   ++ + G     T+++V  N +++              +         
Sbjct: 1   MLGFLGYKVGMTHVFDERGISVPVTVIEVPPNVVVQV-------------KTYETDGYRA 47

Query: 177 LLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFII---TPDAMLPPGTPLTAAHFRPR 233
           + VGA         K   G F  +GV PK+ L  F +           G  +T   F+  
Sbjct: 48  VQVGAGDRKAKRVNKPLVGHFAKAGVKPKRHLAEFRVGGGDVAEKFEVGQEITVDVFKEG 107

Query: 234 EFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           E +DV G+T  +GFQGVMKRWGFKG PA+HG + SHRR G I       RV+ G
Sbjct: 108 ELVDVTGVTKGKGFQGVMKRWGFKGGPASHGSSLSHRRPGSIGQRQTPGRVFKG 161

Length = 218

>gnl|CDD|144036 pfam00297, Ribosomal_L3, Ribosomal protein L3

 Score = 91.2 bits (227), Expect = 3e-22
 Identities = 47/166 (28%), Positives = 69/166 (41%), Gaps = 17/166 (10%)

Query: 125 IGQYPLWMKNGEKCR-TTLVQVVDNHIIKYIPPEEFKPNRKPY-RGEPKRKLGCLLVGAE 182
            G   ++ +        T+++V    +++    EE     K    G    K   +     
Sbjct: 2   AGMTHIFTEKKGVLEPVTVIEVPPMVVVQVKTYEETNDGYKAIQVGLESIKKYRV----- 56

Query: 183 SGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTA-AHFRPREFLDVRGL 241
                   K   G  +  G PPK  +  F +       PG  +     FR  E++DV G+
Sbjct: 57  -------VKRVLGHTQKRGTPPKAHVMEFRVNGGEEFEPGQTIAVSDVFREGEYVDVTGV 109

Query: 242 TVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           T  +GFQGVMKRWGFK +P  HG    HR+ G I +     RV+PG
Sbjct: 110 TKGKGFQGVMKRWGFKRLPRKHG-RGYHRKPGSIGAWH-PGRVFPG 153

Length = 199

>gnl|CDD|177065 CHL00143, rpl3, ribosomal protein L3; Validated

 Score = 73.9 bits (182), Expect = 1e-15
 Identities = 39/111 (35%), Positives = 54/111 (48%), Gaps = 1/111 (0%)

Query: 177 LLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFL 236
           + +G +       TK   G  + S VPP K L  F +        G PLT   F   + +
Sbjct: 49  IQIGYKQVSTKKLTKPQLGHLQKSNVPPLKYLKEFRVKSSEEFEVGQPLTVDAFSVGQLV 108

Query: 237 DVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           +V G ++ +GF G+ KR  F   P THG +K+HR  G I +G    RVYPG
Sbjct: 109 NVSGKSIGKGFAGLQKRHNFSRGPMTHG-SKNHRAPGSIGAGTTPGRVYPG 158

Length = 207

>gnl|CDD|235260 PRK04231, rpl3p, 50S ribosomal protein L3P; Reviewed

 Score = 49.5 bits (119), Expect = 8e-07
 Identities = 18/46 (39%), Positives = 26/46 (56%)

Query: 230 FRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCI 275
           F+  + +DV  +T  +GFQGV+KRWG K +P  H      R  G +
Sbjct: 193 FKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRGGSRHIGTL 238

Length = 337

>gnl|CDD|234286 TIGR03626, L3_arch, archaeal ribosomal protein L3

 Score = 48.9 bits (117), Expect = 1e-06
 Identities = 19/46 (41%), Positives = 27/46 (58%)

Query: 230 FRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCI 275
           F+  + +DV  +T  +GFQGV+KRWG K +P  H   K  R  G +
Sbjct: 188 FKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRKGGRHIGTL 233

This model describes exclusively the archaeal class of ribosomal protein L3. A separate model (TIGR03625) describes the bacterial/organelle form, and both belong to Pfam family pfam00297. Eukaryotic proteins are excluded from this model [Protein synthesis, Ribosomal proteins: synthesis and modification]. Length = 330

>gnl|CDD|240267 PTZ00103, PTZ00103, 60S ribosomal protein L3; Provisional

 Score = 40.5 bits (95), Expect = 7e-04
 Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 4/49 (8%)

Query: 230 FRPREFLDVRGLTVDRGFQGVMKRWGFKGMP-ATHGVTKSHRRGGCIAS 277
           F+  E +DV G+T   GF+GV+KRWG   +P  TH   +  R+  CI +
Sbjct: 208 FQQNEMIDVIGVTKGHGFEGVVKRWGVTRLPRKTH---RGLRKVACIGA 253

Length = 390

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	296
KOG3141|consensus	310		100.0
CHL00143	207	rpl3 ribosomal protein L3; Validated	100.0
TIGR03625	202	L3_bact 50S ribosomal protein L3, bacterial. This	100.0
PRK00001	210	rplC 50S ribosomal protein L3; Validated	100.0
COG0087	218	RplC Ribosomal protein L3 [Translation, ribosomal	100.0
PF00297	263	Ribosomal_L3: Ribosomal protein L3; InterPro: IPR0	100.0
PRK04231	337	rpl3p 50S ribosomal protein L3P; Reviewed	100.0
TIGR03626	330	L3_arch archaeal ribosomal protein L3. This model	100.0
PTZ00103	390	60S ribosomal protein L3; Provisional	100.0
KOG0746|consensus	384		99.54

>KOG3141|consensus

Probab=100.00  E-value=2e-80  Score=576.67  Aligned_cols=223  Identities=43%  Similarity=0.697  Sum_probs=214.2

Q ss_pred             eeeeeccccccccChhHHHHHHHHHHhhcCCccccccccccCCCCCCCCCCCCCCCCCCceeeeeEEEeecceeecCCCc
Q psy451           57 FLQKERAEYIENLTRNNKAFIEEVVHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGE  136 (296)
Q Consensus        57 ~~~k~~~~~~e~lt~en~~fl~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~w~~~s~r~GlIg~KiGMt~i~~~~G~  136 (296)
                      +..++.+++++.+|.+|+.||++++.++...++.+.     .++++++++....|.|+|+|+||||+|+|||++||+||+
T Consensus         7 ~~~~s~~k~~~~~s~~n~~li~~~~~~~~~~~~~~~-----l~~~~~~~~~~~v~~p~s~R~GvI~~K~GMmp~w~k~G~   81 (310)
T KOG3141|consen    7 PVMASASKSVSRPSLENKTLIRTSISDETLAPAKSI-----LLLLKEEPNARKVWIPSSRRVGVIARKLGMMPLWDKDGE   81 (310)
T ss_pred             ceeccchhhhccccccChhhhhhhhcCcccCcchhh-----hccCcCcccccccccCCcccceeEEEeccCchhhccCCC
Confidence            456788899999999999999999999988876443     678889999999999999999999999999999999999


Q ss_pred             EEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcchHHhcCCCCCceEEEEEeCCC
Q psy451          137 KCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPD  216 (296)
Q Consensus       137 ~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~F~kaGv~pKr~L~EFrVs~~  216 (296)
                      +||||||||++|||++|+|+|+            ++||.|||||++..+++++||+|+|||+++|++||+||+||+|+++
T Consensus        82 ri~~TiL~v~d~~Vi~~~t~E~------------~~g~~avqVG~g~~~p~kltk~~~g~f~~~gv~pK~~l~eF~Vt~~  149 (310)
T KOG3141|consen   82 RIPVTILQVDDNHVIKYITPEA------------KGGYFAVQVGYGTVKPKKLTKAELGHFRSAGVPPKRHLREFRVTEE  149 (310)
T ss_pred             EEEEEEEEEecceEEEEechhh------------cCCeEEEEeccccCChHHhhHHHHHHHHHcCCChhhhhheEeechh
Confidence            9999999999999999999995            7999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451          217 AMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       217 a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~  296 (296)
                      +.+++||+|+++||++||||||+|+|+|||||||||||||+|||||||+||+||++||||++++|||||||+|||||||.
T Consensus       150 al~~pGt~l~~~hFk~GqyVDV~g~TigkGFqGvmKR~GFkG~pasHG~sksHR~~GS~G~~~~pgRV~pGrKMpGhMG~  229 (310)
T KOG3141|consen  150 ALLPPGTPLFARHFKPGQYVDVTGKTIGKGFQGVMKRHGFKGGPASHGTSKSHRRPGSIGQGTTPGRVWPGRKMPGHMGN  229 (310)
T ss_pred             ccCCCCcccchhhcCCCceEEEEeeEeccccccceeeccccCCccccCccccccCCccccCCCCCcccccCCcCCcccCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999994

>CHL00143 rpl3 ribosomal protein L3; Validated

Probab=100.00  E-value=1.2e-72  Score=508.06  Aligned_cols=167  Identities=29%  Similarity=0.485  Sum_probs=163.1

Q ss_pred             ceeeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcc
Q psy451          116 KRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCG  195 (296)
Q Consensus       116 ~r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G  195 (296)
                      +++||||+|+||||+||+||.+||||||||+||+|++++|.|             +|||+|+|||+++.++++++||++|
T Consensus         1 m~~glig~KiGMt~~f~~~G~~vpvTvl~~~~~~V~~~kt~e-------------~dGY~avqvg~~~~~~k~~~K~~~G   67 (207)
T CHL00143          1 MSIGLLGTKIGMTQIFDETGNAIPVTILKVGPCVITQIKTLT-------------TDGYNAIQIGYKQVSTKKLTKPQLG   67 (207)
T ss_pred             CcceEEEEEccceEEECCCCCEEEEEEEEECCeEEEEEecCC-------------CCCcEEEEEeeeecccccCChhhcc
Confidence            368999999999999999999999999999999999999999             8999999999999999999999999


Q ss_pred             hHHhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCccc
Q psy451          196 LFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCI  275 (296)
Q Consensus       196 ~F~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSI  275 (296)
                      ||+|+|++|+++|+||+|++++.+++|++|+|+||++||+|||+|+|||||||||||||||+|+||||| |++||+||||
T Consensus        68 ~f~ka~v~p~r~l~Efrv~~~~~~~vG~~l~v~~F~~Gq~VDV~g~sKGKGF~GvmKR~gF~g~pasHG-s~~HR~~GSi  146 (207)
T CHL00143         68 HLQKSNVPPLKYLKEFRVKSSEEFEVGQPLTVDAFSVGQLVNVSGKSIGKGFAGLQKRHNFSRGPMTHG-SKNHRAPGSI  146 (207)
T ss_pred             hhHHcCCCcceEEEEEEcCCcccCCCCCEEEhhhccCCCEEEEEEEecCCcceeeeEeeccCCCCCccC-CCCCCCCccc
Confidence            999999999999999999998889999999999999999999999999999999999999999999999 5599999999


Q ss_pred             CCCCCCCcccCCCcCCCCCCC
Q psy451          276 ASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       276 G~~~~PgRV~pGkKMpG~mG~  296 (296)
                      |++++|+|||||||||||||.
T Consensus       147 G~~~~PgRV~kGkKMpG~mG~  167 (207)
T CHL00143        147 GAGTTPGRVYPGKKMAGRLGN  167 (207)
T ss_pred             CCCCCCCeEcCCCccCCCCCC
Confidence            999999999999999999995

>TIGR03625 L3_bact 50S ribosomal protein L3, bacterial

Probab=100.00  E-value=3.2e-71  Score=496.95  Aligned_cols=165  Identities=30%  Similarity=0.481  Sum_probs=162.8

Q ss_pred             eeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcchHH
Q psy451          119 GLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFK  198 (296)
Q Consensus       119 GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~F~  198 (296)
                      ||||+||||||+||++|++||||||||+||+|+|++|.|             +|||+|||||+++.+++++|||++|||+
T Consensus         1 Glig~KiGMt~if~~~G~~ipvTVl~v~~~~V~q~kt~e-------------~dGY~AvqvG~~~~~~~~~~Kp~~G~f~   67 (202)
T TIGR03625         1 GLLGKKVGMTQIFTEDGKAVPVTVIEVGPNVVTQVKTVE-------------KDGYSAVQLGFGEKKEKRVNKPEAGHFA   67 (202)
T ss_pred             CccEEecceeEEECCCCcEEEEEEEEeCCcEEEEEeCCC-------------CCCcEEEEEeccccccccCChhhhhHHH
Confidence            799999999999999999999999999999999999999             8999999999999999999999999999


Q ss_pred             hcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCC
Q psy451          199 NSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASG  278 (296)
Q Consensus       199 kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~  278 (296)
                      |+|++||++|+||++++++.+++|++|+|+||++||+|||+|+|||||||||||||||+|+|+|||+|++||++||||++
T Consensus        68 Kag~~pkr~l~Efrv~~~~~~~~G~~l~v~~F~~G~~VDV~g~skGKGFqGvmKR~gf~g~~~sHG~s~~hR~~GSiG~~  147 (202)
T TIGR03625        68 KAGVEPKRHLREFRVDDLEGYEVGDEITVDIFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGPASHGNSKSHRAPGSIGQR  147 (202)
T ss_pred             HcCCCcCcEEEEEEcCCcccCCCCCEEEeeeecCCCEEEEEEEEcCCcceeceEecccCCCCcccCCCCCCCCCCccCCC
Confidence            99999999999999999889999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCcccCCCcCCCCCCC
Q psy451          279 AGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       279 ~~PgRV~pGkKMpG~mG~  296 (296)
                      ++|+|||||+|||||||.
T Consensus       148 ~~PgrV~kgkkm~G~mG~  165 (202)
T TIGR03625       148 QTPGRVFKGKKMAGHMGN  165 (202)
T ss_pred             CCCCeEcCCCccCCCcCC
Confidence            999999999999999995

This model describes bacterial (and mitochondrial and chloroplast) class of ribosomal protein L3. A separate model describes the archaeal form, where both belong to Pfam family pfam00297. The name is phrased to meet the needs of bacterial genome annotation. Organellar forms typically will have transit peptides, N-terminal to the region modeled here.

>PRK00001 rplC 50S ribosomal protein L3; Validated

Probab=100.00  E-value=2.1e-70  Score=494.24  Aligned_cols=166  Identities=28%  Similarity=0.472  Sum_probs=162.0

Q ss_pred             ceeeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcc
Q psy451          116 KRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCG  195 (296)
Q Consensus       116 ~r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G  195 (296)
                      +|+||||+||||||+||++|++||||||||+||+|++++|.|             +|||+|||||+++.+++++|||++|
T Consensus         1 m~~Glig~KiGMt~ifd~~G~~vpvTvl~v~~~~V~~~kt~e-------------~dGY~avqvG~~~~~~~~~~Kp~~G   67 (210)
T PRK00001          1 MMKGILGKKVGMTQIFTEDGESIPVTVIEAGPNVVTQVKTVE-------------KDGYNAVQLGFGDKKEKRVNKPEAG   67 (210)
T ss_pred             CccEEEEEEecceEEECCCCCEEEEEEEEecCcEEEEEeCCC-------------CCCcEEEEEeccccCcccCCHHHhH
Confidence            478999999999999999999999999999999999999999             8999999999999999999999999


Q ss_pred             hHHhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCccc
Q psy451          196 LFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCI  275 (296)
Q Consensus       196 ~F~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSI  275 (296)
                      ||+|+|++|+++|+||+  +++.+++|++|+|+||++||+|||+|+|||||||||||||||+|+|+|||+|++||++|||
T Consensus        68 ~f~kag~~pkr~l~Efr--~~~~~~~G~~l~v~~F~~G~~VDV~g~tKGKGFqGvmKR~gf~g~p~sHG~s~~hR~~GSi  145 (210)
T PRK00001         68 HFAKAGVEPKRHLREFR--VVEEYEVGQEITVDIFEAGQKVDVTGTSKGKGFAGVIKRHNFSGGPASHGNSRSHRRPGSI  145 (210)
T ss_pred             HHHHcCCCcceEEEEEc--cCCCCCCCCEEeehhccCCCEEEEEEEEcCCcceeceEecccCCCCCcCCcCcCCcCCccc
Confidence            99999999999999999  4567999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCCcccCCCcCCCCCCC
Q psy451          276 ASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       276 G~~~~PgRV~pGkKMpG~mG~  296 (296)
                      |++++|+|||||+|||||||.
T Consensus       146 G~~~~PgrV~kgkkmaG~mG~  166 (210)
T PRK00001        146 GARQTPGRVFKGKKMAGHMGN  166 (210)
T ss_pred             CCCCCCCeECCCcccCCCCCC
Confidence            999999999999999999995

>COG0087 RplC Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]

Probab=100.00  E-value=8.3e-62  Score=439.82  Aligned_cols=167  Identities=32%  Similarity=0.553  Sum_probs=161.6

Q ss_pred             eeeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcch
Q psy451          117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGL  196 (296)
Q Consensus       117 r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~  196 (296)
                      +.||||+|+|||++|+++|..+|||||+++||.|++++|.|             +|||.|+|||+++.+.+.++||+.||
T Consensus         1 ~~G~~G~KvGMT~vf~~~g~~vPVTVie~~p~~V~~vkt~e-------------~dGy~a~qv~~~~~k~~~~~k~~~g~   67 (218)
T COG0087           1 MLGFLGYKVGMTHVFDERGISVPVTVIEVPPNVVVQVKTYE-------------TDGYRAVQVGAGDRKAKRVNKPLVGH   67 (218)
T ss_pred             CcccceEeccceEEEccCCcEEEEEEEEcCCcEEEEEEecc-------------cCCcEEEEEeecceeeehhccceeee
Confidence            36999999999999999999999999999999999999999             89999999999999999999999999


Q ss_pred             HHhcCCCCCceEEEEEeCCCC---CCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCc
Q psy451          197 FKNSGVPPKKKLCRFIITPDA---MLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGG  273 (296)
Q Consensus       197 F~kaGv~pKr~L~EFrVs~~a---~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpG  273 (296)
                      |+|+++.|+++|+||++++.+   .+++|++|.+++|++||+|||+|+||||||||+||||||+++|+|||++.+||++|
T Consensus        68 ~~k~~~~~k~~l~E~rv~~~~~~~~~e~g~ei~~dvF~~g~~VDV~gvTKGKGF~G~~KR~gf~~~p~sHg~~~~hR~~G  147 (218)
T COG0087          68 FAKAGVKPKRHLAEFRVGGGDVAEKFEVGQEITVDVFKEGELVDVTGVTKGKGFQGVMKRWGFKGGPASHGSSLSHRRPG  147 (218)
T ss_pred             ecccCCCCCCeEEEEEecCccccceechhhhhchhhccCCCEEEEEEEecccccceeeeecccccCCcccCCCccccCCc
Confidence            999999999999999998753   48999999999999999999999999999999999999999999999998999999


Q ss_pred             ccCCCCCCCcccCCCcCCCCCCC
Q psy451          274 CIASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       274 SIG~~~~PgRV~pGkKMpG~mG~  296 (296)
                      |||+..+|+|||||+|||||||+
T Consensus       148 SiG~~~~P~rV~~g~kmaG~mG~  170 (218)
T COG0087         148 SIGQRQTPGRVFKGKKMAGHMGN  170 (218)
T ss_pred             ccCCCCCCCceeCCCccCccCCC
Confidence            99999999999999999999996

>PF00297 Ribosomal_L3: Ribosomal protein L3; InterPro: IPR000597 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=100.00  E-value=1e-54  Score=403.76  Aligned_cols=171  Identities=27%  Similarity=0.481  Sum_probs=147.9

Q ss_pred             Eeecceee---------cCC-CcEEEeeEEEecCeEEEEEeCCCC-----------CCCCCC----CCCCCCCCCcceEE
Q psy451          124 IIGQYPLW---------MKN-GEKCRTTLVQVVDNHIIKYIPPEE-----------FKPNRK----PYRGEPKRKLGCLL  178 (296)
Q Consensus       124 KiGMt~i~---------~~~-G~~vpvTVLqv~pn~Vv~~kt~E~-----------~~~~~~----~~~~~~kdgY~avq  178 (296)
                      |+||||+|         +++ |..+||||||++||.|+++++.|+           |.....    .+....+|||.|+|
T Consensus         1 K~GMT~v~~~~~~~~s~~~~~g~~~pVTVle~~p~~V~~ir~~~~~~~G~~~~~~~~~~~~~~~~~r~~~~~~~g~~a~~   80 (263)
T PF00297_consen    1 KVGMTHVFMIDDRPGSPTEGKGVFVPVTVLEVPPCVVVGIRTYEDTNDGLKAVQEVWAEHISDDLKRRIYKNKDGYKAVQ   80 (263)
T ss_dssp             EEEEEEEEEEB-STTSTTTTSEEEEEEEEEEE--EEEEEEEEEEEETTEEEEEEEEESS--STHHHGTCTSTTSSCHCCE
T ss_pred             CCcceEEEEecCcCCCccCCCCEEEEEEEEEECCeEEEEEEeEecCCCcceeeEEEeccccccccceeeecccccchhhh
Confidence            89999999         776 999999999999999999999882           111000    01122389999999


Q ss_pred             EeccccCCCcCChhhcchHHhcCCC---CCceEEEEEeCCC----------CCCCCCCeeec-ccCCCCCeeEEEEEeee
Q psy451          179 VGAESGDPSLYTKEYCGLFKNSGVP---PKKKLCRFIITPD----------AMLPPGTPLTA-AHFRPREFLDVRGLTVD  244 (296)
Q Consensus       179 VG~~~~~~~~~tKp~~G~F~kaGv~---pKr~L~EFrVs~~----------a~l~~Gt~L~a-~hF~~Gq~VDV~G~TkG  244 (296)
                      +|+++.++...+++.++||++++++   |+++|+||+|+++          +.|.+|++|++ ++|++||+|||+|+|||
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~i~E~~v~~~~~~~~~~~a~~~l~~G~~i~v~dvF~~Gq~VDV~gvTKG  160 (263)
T PF00297_consen   81 LGFGEKKEKRVSKRLLGHFQKAGVPIPKKKPHIMEFRVSGGDVEEKLEYAKELLGVGKEIKVNDVFKEGQYVDVIGVTKG  160 (263)
T ss_dssp             ECCCHHCCSTSCCECCEEHHGGGSSSS-CSSEEEEEECESSSHHHHHHHHHHHCSCSSEBSCCTTSSTTSEEEEEEEE-E
T ss_pred             hhhhhccccccchhhhhcccccccchhhccceeEEecccccChhHhhhhhhhhcCccceeehhheecccceEEEEEeecC
Confidence            9999999999999999999999999   9999999999988          67999999999 89999999999999999


Q ss_pred             eccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451          245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       245 KGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~  296 (296)
                      ||||||||||||+++|+|||+++ ||++||||+ .+|+|||||+|||||||+
T Consensus       161 KGFqGv~KR~gf~~~p~sHg~~~-hR~~GsiG~-~~PgrV~~g~kmaGqmG~  210 (263)
T PF00297_consen  161 KGFQGVMKRWGFKGGPASHGSSK-HRKPGSIGA-WTPGRVFKGKKMAGQMGN  210 (263)
T ss_dssp             EEEETHHHHCSS--S-SSSSSTT-SSSSS-SSC-SSSSSCGTTSTSSEEESS
T ss_pred             ccccccccccCCCccCCCCCCcc-cCCCCcccc-cccceeecccccCccccc
Confidence            99999999999999999999988 999999999 789999999999999995

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 L3 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L3 is known to bind to the 23S rRNA and may participate in the formation of the peptidyltransferase centre of the ribosome. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities includes bacterial, red algal, cyanelle, mammalian, yeast and Arabidopsis thaliana L3 proteins; archaeal Haloarcula marismortui HmaL3 (HL1), and yeast mitochondrial YmL9 [, , , ].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3UZ8_E 2X9U_E 3UZ1_E 3KNM_E 4ABS_E 2WDI_E 3UYG_E 4DHC_E 2J01_E 2Y11_E ....

>PRK04231 rpl3p 50S ribosomal protein L3P; Reviewed

Probab=100.00  E-value=4.9e-38  Score=299.64  Aligned_cols=176  Identities=23%  Similarity=0.260  Sum_probs=132.6

Q ss_pred             CCCCCCCCCCCceeeeeEEEeecceeecCCCc----------EEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCc
Q psy451          105 PLQPLEITTSSKRTGLIGKIIGQYPLWMKNGE----------KCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKL  174 (296)
Q Consensus       105 ~~~~~~w~~~s~r~GlIg~KiGMt~i~~~~G~----------~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY  174 (296)
                      .||...+.|  ...|++|+|.|||++...|..          ..||||||++|..|+.+.-..             ++.|
T Consensus        29 swP~~d~~p--~l~~F~GyKaGMTHv~~~ddrp~S~~~gkEi~~~VTviEtPPm~V~gir~Y~-------------~~~~   93 (337)
T PRK04231         29 SWPEIDGEP--KLLGFAGYKAGMTHVIMIDDRPNSPTEGKEIFVPVTVLETPPMRVAAIRAYE-------------KDPY   93 (337)
T ss_pred             cccCCCCCc--ceeEeeeeccCCeEEEEecCCCCCccCCCeEEEeEEEEeCCCeEEEEEEEEe-------------ECCC
Confidence            355444433  789999999999999987653          799999999999999987555             2222


Q ss_pred             ceEEEec---cccC---CCcCChh-------------------hc--------chHHh-cCCCCCc-eEEEEEeCCCC--
Q psy451          175 GCLLVGA---ESGD---PSLYTKE-------------------YC--------GLFKN-SGVPPKK-KLCRFIITPDA--  217 (296)
Q Consensus       175 ~avqVG~---~~~~---~~~~tKp-------------------~~--------G~F~k-aGv~pKr-~L~EFrVs~~a--  217 (296)
                      +--.++.   ++.+   ..+++++                   ++        -+=++ .|++-|+ +|.|++|...+  
T Consensus        94 Gl~~~~evwa~~l~~~~~Rr~~~~~~~~~~~~~~~~~~~~~~~~~~~vR~i~~Tqp~~~~~l~kKkp~i~Ei~v~Gg~i~  173 (337)
T PRK04231         94 GLKVLTEVWAEDLDKELERRITLPKKDEKKKAFEKLLKLLEEGKIVDVRVIVHTQPKLVTGVPKKKPEIMEIRIGGGSVE  173 (337)
T ss_pred             CcEEEEEEecccchHHHhhhccccccchhhHHHHHHHHHhhcCCeeEEEEEEEechhhccCCCCCCCCEEEEeecCCCHH
Confidence            2111221   1110   0111111                   00        00012 3677765 99999998742  


Q ss_pred             ------CCCCCCeeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcC
Q psy451          218 ------MLPPGTPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVL  290 (296)
Q Consensus       218 ------~l~~Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKM  290 (296)
                            .-.+|++|++ ++|++||+|||+|+|||||||||||||||+++|++||.++.||++||||++ +|+|||+|++|
T Consensus       174 ~k~~~a~~llG~~i~v~dvF~~Ge~VDV~gvTKGKGfqGvvKRwg~~~~p~~Hg~~~~~R~~GsiG~~-~P~rV~~~~~m  252 (337)
T PRK04231        174 ERLEYAKELLGKEISISDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRGGSRHIGTLGPW-NPSRVMWTVPQ  252 (337)
T ss_pred             HHHHHHHHhcCCccchhhhccCCCEEEEEEEEeCCccccCeeccCcCCCCCccCCCCCCCCCcccCCC-CCCcccCCCcc
Confidence                  1147999999 689999999999999999999999999999999999999999999999986 69999999999


Q ss_pred             CCCCCC
Q psy451          291 QRGLKC  296 (296)
Q Consensus       291 pG~mG~  296 (296)
                      |||||+
T Consensus       253 aGqmG~  258 (337)
T PRK04231        253 AGQMGF  258 (337)
T ss_pred             CCCCCC
Confidence            999996

>TIGR03626 L3_arch archaeal ribosomal protein L3

Probab=100.00  E-value=6.4e-38  Score=297.96  Aligned_cols=167  Identities=24%  Similarity=0.295  Sum_probs=127.8

Q ss_pred             ceeeeeEEEeecceeecCCC----------cEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEe---cc
Q psy451          116 KRTGLIGKIIGQYPLWMKNG----------EKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVG---AE  182 (296)
Q Consensus       116 ~r~GlIg~KiGMt~i~~~~G----------~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG---~~  182 (296)
                      ...|++|+|.|||+|...|.          ...||||||++|..|+.+.-..+             +.|+--.++   ++
T Consensus        34 ~l~~F~GyKaGMTHvv~~~drp~S~~~gkEv~~~VTviEtPPm~v~gir~Y~~-------------t~~Gl~~l~~vwa~  100 (330)
T TIGR03626        34 KLQGFAGYKAGMTHVIMVDDRKNSPTEGKEISVPVTVLEAPPLRVAAIRAYGK-------------DPYGLKVLTEVWAN  100 (330)
T ss_pred             eeeeeeeeccCCeEEEEecCCCCCCcCCCeEEeeeEEEecCCeEEEEEEEEEE-------------CCCCcEEEEEEeec
Confidence            68899999999999988654          47899999999999999875441             222211111   11


Q ss_pred             ccCC---CcCChhh-----------cchH---------------Hh-cCCCCCc-eEEEEEeCCCC--------CCCCCC
Q psy451          183 SGDP---SLYTKEY-----------CGLF---------------KN-SGVPPKK-KLCRFIITPDA--------MLPPGT  223 (296)
Q Consensus       183 ~~~~---~~~tKp~-----------~G~F---------------~k-aGv~pKr-~L~EFrVs~~a--------~l~~Gt  223 (296)
                      +.+.   .+++++.           ...+               ++ +|++-|+ +|.|++|...+        .-.+|+
T Consensus       101 ~l~~e~~r~~~~~k~~~~~~~~~~~~~~l~~~~~~iRvi~~Tqp~~~~~~~kKkp~imEi~v~Gg~i~~k~~~a~~~lG~  180 (330)
T TIGR03626       101 NLDKELSRKITLPKNYDVEEKLEKIEELLENDADDVRLIVHTQPKLVTGVPKKKPEIMEIRIGGGSVEERFEYALSILGK  180 (330)
T ss_pred             cCcHHHhhccccccccchhhHHHHHHHHHhcCceEEEEEEEeccccccCcccCCccEEEEeecCCCHHHHhHhhHhcCCc
Confidence            1110   0111110           0000               12 3677765 99999998743        125799


Q ss_pred             eeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451          224 PLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       224 ~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~  296 (296)
                      +|++ ++|++||+|||+|+|||||||||||||||+++|++||+++.||++||||++ +|+|||+|++||||||+
T Consensus       181 ~i~v~dvF~~Ge~VDV~gvTKGKGfqGvvKRwg~~~~p~~hg~~~~~R~~GsiG~~-~P~rV~~~~~maGqmG~  253 (330)
T TIGR03626       181 EISVSDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKRRKGGRHIGTLGPW-TPSRVRWTVPQAGQMGY  253 (330)
T ss_pred             EEehhheecCCCEEEEEEEEcCCccccCeeccccCCCCCccCCCCCCCCCcccCCC-CCCcccCCcccCCCCCC
Confidence            9999 579999999999999999999999999999999999999999999999987 69999999999999996

This model describes exclusively the archaeal class of ribosomal protein L3. A separate model (TIGR03625) describes the bacterial/organelle form, and both belong to Pfam family pfam00297. Eukaryotic proteins are excluded from this model.

>PTZ00103 60S ribosomal protein L3; Provisional

Probab=100.00  E-value=3.3e-34  Score=276.74  Aligned_cols=186  Identities=19%  Similarity=0.202  Sum_probs=127.4

Q ss_pred             CCCCCCCCCCceeeeeEEEeecceeecCCC----------cEEEeeEEEecCeEEEEEeCCCCC-CCCCCC---------
Q psy451          106 LQPLEITTSSKRTGLIGKIIGQYPLWMKNG----------EKCRTTLVQVVDNHIIKYIPPEEF-KPNRKP---------  165 (296)
Q Consensus       106 ~~~~~w~~~s~r~GlIg~KiGMt~i~~~~G----------~~vpvTVLqv~pn~Vv~~kt~E~~-~~~~~~---------  165 (296)
                      ||.....+....+|++|+|.|||+|...+-          ...||||||++|..|+.+.-..+- ++....         
T Consensus        32 wP~dd~~~~p~L~aF~GyKAGMTHvv~~~drp~S~~~~kEv~~~VTIiEtPPm~V~GirgY~~tp~Gl~~l~~vwA~~l~  111 (390)
T PTZ00103         32 FPKDDPTQPPHLTAFMGYKAGMTHIVRDVDRPGSKLHKKEVVEAVTIIEAPPMVVVGIVGYRETPRGLRALTTVWAHHLS  111 (390)
T ss_pred             CCCcCCCCCceEeeeeeeccCCeEEEEecCCCCCCcCCCeEEeeeEEEeCCCeEEEEEEEEEECCCCcEEeEEEeeccCc
Confidence            444444333468999999999999987654          479999999999999988744410 000000         


Q ss_pred             ----CCCCCCCCcceEEEeccccCCCc----CChh-------hc--------chHHhcCCCCCc-eEEEEEeCCCCC---
Q psy451          166 ----YRGEPKRKLGCLLVGAESGDPSL----YTKE-------YC--------GLFKNSGVPPKK-KLCRFIITPDAM---  218 (296)
Q Consensus       166 ----~~~~~kdgY~avqVG~~~~~~~~----~tKp-------~~--------G~F~kaGv~pKr-~L~EFrVs~~a~---  218 (296)
                          |... ++-|.+-.-+|...+.++    ..+.       ++        -+-++..++-|+ +|.|++|.....   
T Consensus       112 ~e~~rr~y-k~~~~s~k~af~k~~~~~~~~~~~~~~~~~l~k~~~~IRvi~hTqp~~~~l~kKkp~imEiqv~GGsv~~k  190 (390)
T PTZ00103        112 DEFRRRFY-KNWYKSKKKAFTKYKKFAATKKAEERTLKRIKKYCSVIRVIAHTQPSKLPLGQKKAHVMEIQVNGGSVAEK  190 (390)
T ss_pred             HHHhhhhc-cccchhhhhhhhhhhhhhcchhhHHHHHHHHhhcccEEEEEEEcchhhcCcCCcCccEEEEeecCCCHHHH
Confidence                0000 111111111111100000    0000       11        000122355554 999999987531   


Q ss_pred             -----CCCCCeeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCC-CCCCCCCcCCCcccCCCCCCCcccCCCcCC
Q psy451          219 -----LPPGTPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPA-THGVTKSHRRGGCIASGAGKARVYPGGVLQ  291 (296)
Q Consensus       219 -----l~~Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPa-SHG~sK~HRrpGSIG~~~~PgRV~pGkKMp  291 (296)
                           =.+|++|++ ++|++||+|||+|+|||||||||||||||+++|+ |||   .||++||||+| +|+||++|++||
T Consensus       191 ~d~a~~llgk~i~v~dvF~~ge~VDVigvTKGKGfqGvvKRwg~~~~p~ktH~---~~RkvGsiG~w-~P~RV~~~v~~a  266 (390)
T PTZ00103        191 VDFAKSLLEKEVPVDSVFQQNEMIDVIGVTKGHGFEGVVKRWGVTRLPRKTHR---GLRKVACIGAW-HPARVQYTVPRA  266 (390)
T ss_pred             HHHHHHHhcCeechhhhccCCCEeeeEEEEcCCccccCeeccccCCCCccccC---CCCCCCccCCC-CCCcccCCCccC
Confidence                 146999999 7999999999999999999999999999999996 999   59999999998 699999999999


Q ss_pred             CCCCC
Q psy451          292 RGLKC  296 (296)
Q Consensus       292 G~mG~  296 (296)
                      ||||+
T Consensus       267 GQmG~  271 (390)
T PTZ00103        267 GQHGY  271 (390)
T ss_pred             cCCCC
Confidence            99995

>KOG0746|consensus

Probab=99.54  E-value=5.9e-15  Score=140.80  Aligned_cols=176  Identities=20%  Similarity=0.211  Sum_probs=117.1

Q ss_pred             ceeeeeEEEeecceeecC---CC-------cEEEeeEEEecCeEEEEEeCCCC----CCCC----------CCCCCCCCC
Q psy451          116 KRTGLIGKIIGQYPLWMK---NG-------EKCRTTLVQVVDNHIIKYIPPEE----FKPN----------RKPYRGEPK  171 (296)
Q Consensus       116 ~r~GlIg~KiGMt~i~~~---~G-------~~vpvTVLqv~pn~Vv~~kt~E~----~~~~----------~~~~~~~~k  171 (296)
                      ..+++||+|.|||+|..+   -|       ..-+||||+.+|..|+.+.-..+    ....          ...|... +
T Consensus        29 hlT~FlgYKAGMThivRe~drpgsK~~kkEv~eAVTi~etPpmvVvgvvgyv~Tp~Glr~l~tv~A~hlSde~~Rrfy-k  107 (384)
T KOG0746|consen   29 HLTAFLGYKAGMTHIVREVDRPGSKVNKKEVVEAVTIVETPPMVVVGIVGYVETPRGLRTLKTVWAEHLSDECKRRFY-K  107 (384)
T ss_pred             eEeeeecccccceeeehhhcCcccccchhhheeeEEEeccCCEEEEEEeeeeecCchHHHHHHHHHHHhhHHHHHHHH-H
Confidence            467999999999999865   23       46799999999999998753321    1100          0001011 2


Q ss_pred             CCcceEEEeccccCC--------CcCC------hhhcc--------hHHhcCC-CCCceEEEEEeCCCCC--------CC
Q psy451          172 RKLGCLLVGAESGDP--------SLYT------KEYCG--------LFKNSGV-PPKKKLCRFIITPDAM--------LP  220 (296)
Q Consensus       172 dgY~avqVG~~~~~~--------~~~t------Kp~~G--------~F~kaGv-~pKr~L~EFrVs~~a~--------l~  220 (296)
                      |.|.+-.-++.....        +.+.      |.|+-        +.+..-+ .-|.||+|++|+....        -.
T Consensus       108 nw~kskkkaft~~~k~~~~~~gk~~~~~~~~~~kky~~virv~ahtq~~~~~l~qkkahlmeiqvngGtia~KvdwA~~~  187 (384)
T KOG0746|consen  108 NWHKSKKKAFTKYCKKWQDEDGKKQLEKDFSSMKKYCQVIRVIAHTQMRLLPLRQKKAHLMEIQVNGGTVAEKVDWARER  187 (384)
T ss_pred             hhhhhhhHHHHHHhhhhhhhhcchhhHHHHHHHHhhhheeeeeeechhhhhhhhhhhhhheeeeecCCcHHHHhHHHHhh
Confidence            222211100000000        0000      11110        0011111 2368999999987642        13


Q ss_pred             CCCeeecc-cCCCCCeeEEEEEeeeeccccceeeeccCCCC-CCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451          221 PGTPLTAA-HFRPREFLDVRGLTVDRGFQGVMKRWGFKGMP-ATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       221 ~Gt~L~a~-hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgP-aSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~  296 (296)
                      ..+++.++ .|...+.+||+|.|+|+||.||..|||-+..| .||.   .-|...|||+|. |+||-...-+|||+|.
T Consensus       188 lEkqv~v~~vF~qdemId~IgvtkGkGykGvt~rw~tkklprkthr---glrkvacigawh-pa~V~~sVaRaGqkgy  261 (384)
T KOG0746|consen  188 LEKQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHR---GLRKVACIGAWH-PARVAFSVARAGQKGY  261 (384)
T ss_pred             hhccCchhhccccccccceeeeeecccccccccccccccCcchhcc---cchheeeccccc-ccceeeeeeccccccc
Confidence            56777774 89999999999999999999999999999999 5664   689999999997 8999999999999984

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	296
2ftc_C	211	Structural Model For The Large Subunit Of The Mamma		4e-34
2j01_E	206	Structure Of The Thermus Thermophilus 70s Ribosome		3e-11
3pyo_D	204	Crystal Structure Of A Complex Containing Domain 3		3e-11
3fin_E	205	T. Thermophilus 70s Ribosome In Complex With Mrna,		4e-11
1pnu_B	205	Crystal Structure Of A Streptomycin Dependent Ribos		3e-10
1nkw_B	211	Crystal Structure Of The Large Ribosomal Subunit Fr		3e-10
1p85_B	209	Real Space Refined Coordinates Of The 50s Subunit F		5e-10
3bbo_F	259	Homology Model For The Spinach Chloroplast 50s Subu		5e-08

>pdb|2FTC|C Chain C, Structural Model For The Large Subunit Of The Mammalian Mitochondrial Ribosome Length = 211

Iteration: 1
 Score =  141 bits (356), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 76/171 (44%), Positives = 101/171 (59%), Gaps = 12/171 (7%)
Query: 117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGC 176
           R GLI   +G  PLW K+G+K   TL+QV D H++KY   E               K+  
Sbjct: 1   RVGLIALKLGMMPLWTKDGQKHVVTLLQVQDCHVLKYTSKENCNG-----------KMAT 49
Query: 177 LLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFL 236
           L VG ++             ++  G+PPK+ +  F IT +A + PGTPL AAHFRP +++
Sbjct: 50  LSVGGKTVSRFRKATSILEFYRELGLPPKQTVKIFNITDNAAIKPGTPLYAAHFRPGQYV 109
Query: 237 DVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           DV   T+ +GFQGVMKRWGFKG PATHG TK+HRR G +A+G    RV+PG
Sbjct: 110 DVTAKTIGKGFQGVMKRWGFKGQPATHGQTKTHRRPGAVATGD-IGRVWPG 159

>pdb|2J01|E Chain E, Structure Of The Thermus Thermophilus 70s Ribosome Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4). This File Contains The 50s Subunit From Molecule I. Length = 206

Iteration: 1
 Score = 65.5 bits (158), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 39/103 (37%), Positives = 49/103 (47%), Gaps = 4/103 (3%)
Query: 185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
           +P    +   G F  +GV P     R +       P G  +T   F+P E +DV G +  
Sbjct: 55  NPKRVNRPLKGHFAKAGVEP----VRILREIRDFNPEGDTVTVEIFKPGERVDVTGTSKG 110
Query: 245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           RGF GVMKRW F G P +HG  K HR  G I +     RVY G
Sbjct: 111 RGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKG 153

>pdb|3PYO|D Chain D, 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 = 204

Iteration: 1
 Score = 65.5 bits (158), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 39/103 (37%), Positives = 49/103 (47%), Gaps = 4/103 (3%)
Query: 185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
           +P    +   G F  +GV P     R +       P G  +T   F+P E +DV G +  
Sbjct: 55  NPKRVNRPLKGHFAKAGVEP----VRILREIRDFNPEGDTVTVEIFKPGERVDVTGTSKG 110
Query: 245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           RGF GVMKRW F G P +HG  K HR  G I +     RVY G
Sbjct: 111 RGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKG 153

>pdb|3FIN|E Chain E, 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 = 205

Iteration: 1
 Score = 65.5 bits (158), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 39/103 (37%), Positives = 49/103 (47%), Gaps = 4/103 (3%)
Query: 185 DPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVD 244
           +P    +   G F  +GV P     R +       P G  +T   F+P E +DV G +  
Sbjct: 55  NPKRVNRPLKGHFAKAGVEP----VRILREIRDFNPEGDTVTVEIFKPGERVDVTGTSKG 110
Query: 245 RGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           RGF GVMKRW F G P +HG  K HR  G I +     RVY G
Sbjct: 111 RGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKG 153

>pdb|1PNU|B Chain B, Crystal Structure Of A Streptomycin Dependent Ribosome From Escherichia Coli, 50s Subunit Of 70s Ribosome. This File, 1pnu, Contains Only Molecules Of The 50s Ribosomal Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site Trna Are In The Pdb File 1pns. Length = 205

Iteration: 1
 Score = 62.4 bits (150), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/97 (39%), Positives = 45/97 (46%), Gaps = 4/97 (4%)
Query: 191 KEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGV 250
           K   G F  +GV P + L  F        P G  +    F   E +D  G +  +G QGV
Sbjct: 61  KPMQGHFAKAGVAPTRILREF----RGFAPDGDSVNVDIFAEGEKIDATGTSKGKGTQGV 116
Query: 251 MKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           MKRW F G PA+HG  K HRR G I       RVY G
Sbjct: 117 MKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKG 153

>pdb|1NKW|B Chain B, Crystal Structure Of The Large Ribosomal Subunit From Deinococcus Radiodurans Length = 211

Iteration: 1
 Score = 62.4 bits (150), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 38/97 (39%), Positives = 45/97 (46%), Gaps = 4/97 (4%)
Query: 191 KEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGV 250
           K   G F  +GV P + L  F        P G  +    F   E +D  G +  +G QGV
Sbjct: 61  KPMQGHFAKAGVAPTRILREF----RGFAPDGDSVNVDIFAEGEKIDATGTSKGKGTQGV 116
Query: 251 MKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           MKRW F G PA+HG  K HRR G I       RVY G
Sbjct: 117 MKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKG 153

>pdb|1P85|B Chain B, Real Space Refined Coordinates Of The 50s Subunit Fitted Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp State Of E. Coli 70s Ribosome Length = 209

Iteration: 1
 Score = 61.6 bits (148), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 42/171 (24%), Positives = 74/171 (43%), Gaps = 17/171 (9%)
Query: 119 GLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHI--IKYIPPEEFKPNRKPYRGEPKRKLGC 176
           GL+GK +G   ++ ++G     T+++V  N +  +K +  + ++                
Sbjct: 3   GLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLANDGYR---------------A 47
Query: 177 LLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFL 236
           + V   +   +  TK   G F  +GV   + L  F +        G  ++   F   + +
Sbjct: 48  IQVTTGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVELFADVKKV 107
Query: 237 DVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           DV G +  +GF G +KRW F+   ATHG + SHR  G I       +V+ G
Sbjct: 108 DVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKG 158

>pdb|3BBO|F Chain F, Homology Model For The Spinach Chloroplast 50s Subunit Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome Length = 259

Iteration: 1
 Score = 55.1 bits (131), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 36/99 (36%), Positives = 49/99 (49%), Gaps = 2/99 (2%)
Query: 190 TKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAH-FRPREFLDVRGLTVDRGFQ 248
           TK   G  + SG+ P + L  F +           L     F+  + +DV G T+ +GFQ
Sbjct: 104 TKPEMGHLEKSGIIPLRHLQEFRLQSIDGFEVTQKLDFGELFKEGDLVDVSGTTIGKGFQ 163
Query: 249 GVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           G +KR  FK    THG +KSHR+ G I +G    RVY G
Sbjct: 164 GGIKRHNFKRGQMTHG-SKSHRQLGSIGAGTTPGRVYKG 201

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	296
2ftc_C	211	L3MT, MRP-L3, mitochondrial 39S ribosomal protein	2e-52
3r8s_D	209	50S ribosomal protein L3; protein biosynthesis, RN	1e-36
3bbo_F	259	Ribosomal protein L3; large ribosomal subunit, spi	1e-33
2zjr_B	211	50S ribosomal protein L3; ribosome, large ribosoma	3e-32
3v2d_E	206	50S ribosomal protein L3; ribosome associated inhi	4e-30
1vq8_B	338	50S ribosomal protein L3P; ribosome 50S, protein-p	7e-17
3u5e_B	387	60S ribosomal protein L3; translation, ribosome, r	9e-13
2zkr_b	403	60S ribosomal protein L3; protein-RNA complex, 60S	9e-12
3iz5_C	389	60S ribosomal protein L3 (L3P); eukaryotic ribosom	2e-11
4a17_B	391	RPL3, ribosomal protein L3; eukaryotic ribosome, r	2e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07

>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} Length = 211

 Score =  169 bits (431), Expect = 2e-52
 Identities = 76/171 (44%), Positives = 101/171 (59%), Gaps = 12/171 (7%)

Query: 117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGC 176
           R GLI   +G  PLW K+G+K   TL+QV D H++KY   E               K+  
Sbjct: 1   RVGLIALKLGMMPLWTKDGQKHVVTLLQVQDCHVLKYTSKENCN-----G------KMAT 49

Query: 177 LLVGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFL 236
           L VG ++             ++  G+PPK+ +  F IT +A + PGTPL AAHFRP +++
Sbjct: 50  LSVGGKTVSRFRKATSILEFYRELGLPPKQTVKIFNITDNAAIKPGTPLYAAHFRPGQYV 109

Query: 237 DVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           DV   T+ +GFQGVMKRWGFKG PATHG TK+HRR G +A+G    RV+PG
Sbjct: 110 DVTAKTIGKGFQGVMKRWGFKGQPATHGQTKTHRRPGAVATGDI-GRVWPG 159

>3r8s_D 50S ribosomal protein L3; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_B 1p86_B 1vs8_D 1vs6_D 2aw4_D 2awb_D 2gya_B 2gyc_B 1vt2_D 2i2v_D 2j28_D 2i2t_D* 2qao_D* 2qba_D* 2qbc_D* 2qbe_D 2qbg_D 2qbi_D* 2qbk_D* 2qov_D ... Length = 209

 Score =  128 bits (325), Expect = 1e-36
 Identities = 43/169 (25%), Positives = 71/169 (42%), Gaps = 13/169 (7%)

Query: 119 GLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLL 178
           GL+GK +G   ++ ++G     T+++V  N + +             YR         + 
Sbjct: 3   GLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLA-----NDGYRA--------IQ 49

Query: 179 VGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDV 238
           V   +   +  TK   G F  +GV   + L  F +        G  ++   F   + +DV
Sbjct: 50  VTTGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVELFADVKKVDV 109

Query: 239 RGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
            G +  +GF G +KRW F+   ATHG + SHR  G I       +V+ G
Sbjct: 110 TGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKG 158

>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} Length = 259

 Score =  122 bits (308), Expect = 1e-33
 Identities = 49/208 (23%), Positives = 80/208 (38%), Gaps = 15/208 (7%)

Query: 81  VHDQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRT 140
           +            ++T + P  +   +     +     G++   +G    + ++G     
Sbjct: 8   LRSPFLHRLPLRALKT-HKPTSLHISKSSISASLEAGVGVMATKLGMMSFFEESGTVVPV 66

Query: 141 TLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNS 200
           T+V   + +I+  I  E        Y          + VG         TK   G  + S
Sbjct: 67  TVVGFREGNIVTQIKTEA----TDGYNA--------VQVGYRRVRDRKLTKPEMGHLEKS 114

Query: 201 GVPPKKKLCRFIITPDAMLPPGTPLTAA-HFRPREFLDVRGLTVDRGFQGVMKRWGFKGM 259
           G+ P + L  F +           L     F+  + +DV G T+ +GFQG +KR  FK  
Sbjct: 115 GIIPLRHLQEFRLQSIDGFEVTQKLDFGELFKEGDLVDVSGTTIGKGFQGGIKRHNFKRG 174

Query: 260 PATHGVTKSHRRGGCIASGAGKARVYPG 287
             THG +KSHR+ G I +G    RVY G
Sbjct: 175 QMTHG-SKSHRQLGSIGAGTTPGRVYKG 201

>2zjr_B 50S ribosomal protein L3; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.43.3.2 PDB: 1nwx_B* 1nwy_B* 1sm1_B* 1xbp_B* 2ogm_B* 2ogn_B* 2ogo_B* 2zjp_B* 2zjq_B 1nkw_B 3cf5_B* 3dll_B* 3pio_B* 3pip_B* 1pnu_B 1pny_B 1vor_E 1vou_E 1vow_E 1voy_E ... Length = 211

 Score =  117 bits (296), Expect = 3e-32
 Identities = 50/169 (29%), Positives = 66/169 (39%), Gaps = 18/169 (10%)

Query: 119 GLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLL 178
           G++G  IG   +W KN      T+V      I++    +        Y          + 
Sbjct: 3   GILGTKIGMTQIW-KNDRAIPVTVVLAGPCPIVQRKTAQ-----TDGYEA--------VQ 48

Query: 179 VGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDV 238
           +G          K   G F  +GV P + L  F        P G  +    F   E +D 
Sbjct: 49  IGYAPKAERKVNKPMQGHFAKAGVAPTRILREF----RGFAPDGDSVNVDIFAEGEKIDA 104

Query: 239 RGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
            G +  +G QGVMKRW F G PA+HG  K HRR G I       RVY G
Sbjct: 105 TGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKG 153

>3v2d_E 50S ribosomal protein L3; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_C 2hgj_E 2hgq_E 2hgu_E 1vsa_C 2j03_E 2jl6_E 2jl8_E 2v47_E 2v49_E 2wdi_E 2wdj_E 2wdl_E 2wdn_E 2wh2_E 2wh4_E 2wrj_E 2wrl_E 2wro_E 2wrr_E ... Length = 206

 Score =  111 bits (281), Expect = 4e-30
 Identities = 40/109 (36%), Positives = 51/109 (46%), Gaps = 4/109 (3%)

Query: 179 VGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDV 238
           +G    +P    +   G F  +GV P + L           P G  +T   F+P E +DV
Sbjct: 49  LGFLPQNPKRVNRPLKGHFAKAGVEPVRILREI----RDFNPEGDTVTVEIFKPGERVDV 104

Query: 239 RGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
            G +  RGF GVMKRW F G P +HG  K HR  G I +     RVY G
Sbjct: 105 TGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKG 153

>1vq8_B 50S ribosomal protein L3P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.43.3.2 PDB: 1vq4_B* 1vq5_B* 1vq6_B* 1vq7_B* 1s72_B* 1vq9_B* 1vqk_B* 1vql_B* 1vqm_B* 1vqn_B* 1vqo_B* 1vqp_B* 1yhq_B* 1yi2_B* 1yij_B* 1yit_B* 1yj9_B* 1yjn_B* 1yjw_B* 2otj_B* ... Length = 338

 Score = 78.5 bits (193), Expect = 7e-17
 Identities = 26/141 (18%), Positives = 42/141 (29%), Gaps = 10/141 (7%)

Query: 153 YIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGVPPKKKL---- 208
            +P +      +    +          G               + K      + ++    
Sbjct: 115 DVPEDHDPDAAEEQIRDAHEAGDL---GDLRLITHTVPDAVPSVPKKKPDVMETRVGGGS 171

Query: 209 --CRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVT 266
              R     D +   G       FR  E+ DV G+T  +G QG +KRWG +     H   
Sbjct: 172 VSDRLDHALDIVEDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQ 231

Query: 267 KSHRRGGCIASGAGKARVYPG 287
              RR G +      +RV   
Sbjct: 232 GWRRRIGNLGPWNP-SRVRST 251

>3u5e_B 60S ribosomal protein L3; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3o5h_C 3o58_C 3u5i_B 3izc_C 3izs_C 1s1i_C 3jyw_C Length = 387

 Score = 66.8 bits (162), Expect = 9e-13
 Identities = 32/212 (15%), Positives = 61/212 (28%), Gaps = 16/212 (7%)

Query: 83  DQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQY---PLWMKNGEKCR 139
           D+ G+   K  +    T +   P+  + +    + T    + +       L  +   +  
Sbjct: 61  DRPGSKFHKREVVEAVTVVDTPPVVVVGVVGYVE-TPRGLRSLTTVWAEHLSDEVKRRFY 119

Query: 140 TTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYT----KEYCG 195
               +       KY                  +K   ++                K +  
Sbjct: 120 KNWYKSKKKAFTKYSAKYAQDGAGIERELARIKKYASVVRVLVHTQIRKTPLAQKKAHLA 179

Query: 196 LFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWG 255
             + +G    +K+              T    + F   E +D   +T   GF+GV  RWG
Sbjct: 180 EIQLNGGSISEKV-----DWAREHFEKTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHRWG 234

Query: 256 FKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
            K +P      +  R+  CI +    A V   
Sbjct: 235 TKKLPRKTH--RGLRKVACIGAW-HPAHVMWS 263

>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris} Length = 403

 Score = 64.0 bits (155), Expect = 9e-12
 Identities = 33/215 (15%), Positives = 66/215 (30%), Gaps = 20/215 (9%)

Query: 83  DQCGAPAVKSGIETYNTPLKIEPLQPLEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTL 142
           D+ G+   K  +    T ++  P+  + I    + T    +            ++C+   
Sbjct: 61  DRPGSKVNKKEVVEAVTIVETPPMVIVGIVGYVE-TPRGLRTFKTI-FAEHISDECKRRF 118

Query: 143 VQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLFKNSGV 202
            +       K       K      + + +R    +    +      +T+      +   +
Sbjct: 119 YKNWHKSKKKAFTKYCKKWQDADGKKQLERDFSSMKKYCQVIRVIAHTQ-----MRLLPL 173

Query: 203 PPKKKLC----------RFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMK 252
             KK                +             +  F   E +DV G+T  +G++GV  
Sbjct: 174 RQKKAHLMEVQVNGGTVAEKLDWARERLEQQVPVSQVFGQDEMIDVIGVTKGKGYKGVTS 233

Query: 253 RWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           RW  K +P      +  R+  CI +    ARV   
Sbjct: 234 RWHTKKLP--RKTHRGLRKVACIGAW-HPARVAFS 265

>4a17_B RPL3, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_B 4a1c_B 4a1e_B Length = 391

 Score = 60.2 bits (145), Expect = 2e-10
 Identities = 23/93 (24%), Positives = 36/93 (38%), Gaps = 5/93 (5%)

Query: 195 GLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRW 254
                  V   K   +        L        + F   E LDV G+T  +GF GV+KR+
Sbjct: 174 NHILEIQVNGGKVAEKVAFAKS--LLEKEVKVDSIFAENEMLDVLGVTKGKGFAGVIKRF 231

Query: 255 GFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           G K +       + +R+ GCI +    +R+   
Sbjct: 232 GVKHLQ--KKTHRGYRKVGCIGAWHP-SRIRFT 261

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

 Score = 50.2 bits (119), Expect = 4e-07
 Identities = 44/333 (13%), Positives = 83/333 (24%), Gaps = 118/333 (35%)

Query: 4   NHNLRLALS----NCNRILSRKSNIFETPFL--FGCSEVINIRQ--------KKVWIRPP 49
           +H++             ILS    +FE  F+  F C +V ++ +          + +   
Sbjct: 4   HHHMDFETGEHQYQYKDILS----VFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKD 59

Query: 50  ---RVKYPLWFLQKERAE----YIENLTRNNKAFIEEVVHDQCGAPAVKSGI------ET 96
                    W L  ++ E    ++E + R N  F+   +  +   P++ + +        
Sbjct: 60  AVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119

Query: 97  YNTPLKIEPLQPLEITTSSK----RTGL----------------IGK------------I 124
           YN     +      ++        R  L                 GK            +
Sbjct: 120 YNDN---QVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176

Query: 125 IGQYP---LWMKNGEKCRTTLV---------QVVDNHIIKYIPPEEFKPNRKPYRGEPKR 172
             +      W+          V         Q+  N   +       K      + E +R
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236

Query: 173 KLG------CLLVGAESGDPSL---YTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGT 223
            L       CLLV        L      +    F  S        C+ ++T        T
Sbjct: 237 LLKSKPYENCLLV--------LLNVQNAKAWNAFNLS--------CKILLT--------T 272

Query: 224 PLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGF 256
                  R ++  D                   
Sbjct: 273 -------RFKQVTDFLSAATTTHISLDHHSMTL 298

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	296
2ftc_C	211	L3MT, MRP-L3, mitochondrial 39S ribosomal protein	100.0
3r8s_D	209	50S ribosomal protein L3; protein biosynthesis, RN	100.0
3v2d_E	206	50S ribosomal protein L3; ribosome associated inhi	100.0
2zjr_B	211	50S ribosomal protein L3; ribosome, large ribosoma	100.0
3bbo_F	259	Ribosomal protein L3; large ribosomal subunit, spi	100.0
1vq8_B	338	50S ribosomal protein L3P; ribosome 50S, protein-p	100.0
2zkr_b	403	60S ribosomal protein L3; protein-RNA complex, 60S	100.0
3j21_C	365	50S ribosomal protein L3P; archaea, archaeal, KINK	100.0
3u5e_B	387	60S ribosomal protein L3; translation, ribosome, r	100.0
4a17_B	391	RPL3, ribosomal protein L3; eukaryotic ribosome, r	100.0
3iz5_C	389	60S ribosomal protein L3 (L3P); eukaryotic ribosom	100.0

>2ftc_C L3MT, MRP-L3, mitochondrial 39S ribosomal protein L3; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus}

Probab=100.00  E-value=1.2e-72  Score=507.87  Aligned_cols=168  Identities=45%  Similarity=0.801  Sum_probs=164.1

Q ss_pred             eeeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcch
Q psy451          117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGL  196 (296)
Q Consensus       117 r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~  196 (296)
                      |+||||+||||||+||+||++|||||||++||+|+|++|.|+|           +|||+|||||+++.+++++|||++||
T Consensus         1 R~Gllg~KiGMt~if~~~G~~ipvTVl~~~~~~V~q~kt~e~~-----------~dGY~Avqvg~~~~~~~~~~kp~~Gh   69 (211)
T 2ftc_C            1 RVGLIALKLGMMPLWTKDGQKHVVTLLQVQDCHVLKYTSKENC-----------NGKMATLSVGGKTVSRFRKATSILEF   69 (211)
T ss_pred             CceEEEEEcceEEEECCCCcEEEEEEEEEcCCEEEEEEccccC-----------CCCEEEEEEeeeecccccCChhHhhh
Confidence            6899999999999999999999999999999999999999943           59999999999999999999999999


Q ss_pred             HHhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccC
Q psy451          197 FKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIA  276 (296)
Q Consensus       197 F~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG  276 (296)
                      |+|||++||++|+||++++++.+++|++|+|++|++||+|||+|+|||||||||||||||+|+|+|||+|++||+|||||
T Consensus        70 f~kagv~pkr~l~Efrv~~~~~~~~G~~l~v~~F~~Gq~VDV~g~sKGKGFqGv~KR~gf~~~p~sHG~s~~hR~~GSiG  149 (211)
T 2ftc_C           70 YRELGLPPKQTVKIFNITDNAAIKPGTPLYAAHFRPGQYVDVTAKTIGKGFQGVMKRWGFKGQPATHGQTKTHRRPGAVA  149 (211)
T ss_pred             HHHcCCCcccEEEEEEeCCCCccccCCEEEhHhccCCceEEEEEEEcCCcceeceeecCCCCCCcccCCCCCCCCCcccC
Confidence            99999999999999999998999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCcccCCCcCCCCCCC
Q psy451          277 SGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       277 ~~~~PgRV~pGkKMpG~mG~  296 (296)
                      ++ +|+|||||+|||||||+
T Consensus       150 ~~-~PgRV~kgkkmaG~mG~  168 (211)
T 2ftc_C          150 TG-DIGRVWPGTKMPGKMGN  168 (211)
T ss_pred             CC-CCCeecCCcccCCCCCC
Confidence            99 99999999999999995

>3r8s_D 50S ribosomal protein L3; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_B 1p86_B 1vs8_D 1vs6_D 2aw4_D 2awb_D 2gya_B 2gyc_B 1vt2_D 2i2v_D 2j28_D 2i2t_D* 2qao_D* 2qba_D* 2qbc_D* 2qbe_D 2qbg_D 2qbi_D* 2qbk_D* 2qov_D ...

Probab=100.00  E-value=2.9e-72  Score=504.42  Aligned_cols=167  Identities=25%  Similarity=0.430  Sum_probs=164.0

Q ss_pred             eeeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcch
Q psy451          117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGL  196 (296)
Q Consensus       117 r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~  196 (296)
                      +.||||+||||||+||+||++|||||||++||+|+|++|.|             +|||+|||||+++.+++++|||++||
T Consensus         1 m~Glig~KiGMt~if~~~G~~ipvTVl~~~~~~V~q~kt~e-------------~dGY~Avqvg~g~~~~~~~~Kp~~Gh   67 (209)
T 3r8s_D            1 MIGLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLA-------------NDGYRAIQVTTGAKKANRVTKPEAGH   67 (209)
T ss_dssp             CCCEEEEEEEEEEEECTTCCEEEEEEEECCCEEEEEEECHH-------------HHSSCEEEEEESCCCGGGSCHHHHHH
T ss_pred             CcEEEEEEeceeEEECCCCcEEEEEEEEecCCEEEEEEccC-------------CCCeEEEEEEEeecCcccCCHHHhhH
Confidence            36999999999999999999999999999999999999999             89999999999999999999999999


Q ss_pred             HHhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccC
Q psy451          197 FKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIA  276 (296)
Q Consensus       197 F~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG  276 (296)
                      |+|||++||++|+||++++++.|++|++|+|++|++||+|||+|+|||||||||||||||+++|+|||+|++||+|||||
T Consensus        68 f~kagv~pkr~l~Efrv~~~~~~~~G~~i~v~~F~~G~~VDV~g~sKGKGFqGv~KR~gf~~~p~sHG~s~~hR~~GsiG  147 (209)
T 3r8s_D           68 FAKAGVEAGRGLWEFRLAEGEEFTVGQSISVELFADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIG  147 (209)
T ss_dssp             HHHHTCCCCSEEEEEECCTTCCCCTTCEECGGGGGSCCEEEEEEECCCCCEECHHHHHCCCCCCSSTTCCSCSSSCCCCC
T ss_pred             HHHcCCCCCeEEEEEecCCcccCCCCCEEEeeeEcCCCEEEEEEEEeccccceeeeEcCCCCCCcccCCCCCCCCCeeCC
Confidence            99999999999999999998999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCcccCCCcCCCCCCC
Q psy451          277 SGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       277 ~~~~PgRV~pGkKMpG~mG~  296 (296)
                      ++++|+|||||+|||||||+
T Consensus       148 ~~~~P~rV~kgkkmaG~mG~  167 (209)
T 3r8s_D          148 QNQTPGKVFKGKKMAGQMGN  167 (209)
T ss_dssp             CBTTBCSCCTTCCCSEECSS
T ss_pred             CCCCCCcCcCCCccCCCCCC
Confidence            99999999999999999995

>3v2d_E 50S ribosomal protein L3; ribosome associated inhibitor A, RAIA, protein Y, stress RES stationary phase, ribosome hibernation, ribosome; 2.70A {Thermus thermophilus} PDB: 1vsp_C 2hgj_E 2hgq_E 2hgu_E 1vsa_C 2j03_E 2jl6_E 2jl8_E 2v47_E 2v49_E 2wdi_E 2wdj_E 2wdl_E 2wdn_E 2wh2_E 2wh4_E 2wrj_E 2wrl_E 2wro_E 2wrr_E ...

Probab=100.00  E-value=5.3e-70  Score=488.83  Aligned_cols=161  Identities=29%  Similarity=0.509  Sum_probs=157.9

Q ss_pred             eeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcchH
Q psy451          118 TGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLF  197 (296)
Q Consensus       118 ~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~F  197 (296)
                      .||||+||||||+||+ |++|||||||++||+|+|++|.|             +|||+|||||+++.+++++|||++|||
T Consensus         2 ~Gllg~KiGMt~if~~-G~~ipvTVi~~~~~~V~q~kt~e-------------~dGY~Avqvg~~~~~~~~~~kp~~Ghf   67 (206)
T 3v2d_E            2 KGILGVKVGMTRIFRD-DRAVPVTVILAGPCPVVQRRTPE-------------KDGYTAVQLGFLPQNPKRVNRPLKGHF   67 (206)
T ss_dssp             CEEEEEEEEEEEEESS-SCEEEEEEEECCCEEEEEEECHH-------------HHSSCEEEEEEEECCGGGCCHHHHHHH
T ss_pred             ceEEEEEccceeEEcC-CCEEEEEEEEecCCEEEEEEccC-------------cCCeEEEEEEeccCCccCCCHHHhhhH
Confidence            5999999999999999 99999999999999999999999             899999999999999999999999999


Q ss_pred             HhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCC
Q psy451          198 KNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIAS  277 (296)
Q Consensus       198 ~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~  277 (296)
                      +|||++|+++|+||++++    ++|++|+|++|++||+|||+|+|||||||||||||||+++|+|||+|++||+|||||+
T Consensus        68 ~kagv~pkr~l~Efrv~~----~~G~~i~v~~F~~G~~VDV~g~sKGKGFqGv~KR~gf~~~p~tHG~s~~hR~~GsiG~  143 (206)
T 3v2d_E           68 AKAGVEPVRILREIRDFN----PEGDTVTVEIFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGN  143 (206)
T ss_dssp             HTTCCCCEEEEEEEETCC----CSSSEECGGGCCTTCEEEEEEECCCCCEECHHHHSCCCCCCSSTTCCSCTTCCCCCCC
T ss_pred             HHcCCCcCeEEEEEECCC----CCCCEEEeeeecCCCEEEEEEEEeccccceeeeEcccCCCCcccCCCCCCCCCeeCCC
Confidence            999999999999999975    8999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcccCCCcCCCCCCC
Q psy451          278 GAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       278 ~~~PgRV~pGkKMpG~mG~  296 (296)
                      +++|+|||||+|||||||+
T Consensus       144 ~~~P~rV~kgkkmaG~mG~  162 (206)
T 3v2d_E          144 RKTPGRVYKGKKMAGHYGA  162 (206)
T ss_dssp             BTTBCSCCTTCCCCEECSS
T ss_pred             CCCCCcCcCCCccCCCCCC
Confidence            9999999999999999995

>2zjr_B 50S ribosomal protein L3; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: b.43.3.2 PDB: 1nwx_B* 1nwy_B* 1sm1_B* 1xbp_B* 2ogm_B* 2ogn_B* 2ogo_B* 2zjp_B* 2zjq_B 1nkw_B 3cf5_B* 3dll_B* 3pio_B* 3pip_B* 1pnu_B 1pny_B 1vor_E 1vou_E 1vow_E 1voy_E ...

Probab=100.00  E-value=4.7e-66  Score=465.36  Aligned_cols=161  Identities=29%  Similarity=0.482  Sum_probs=157.5

Q ss_pred             eeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcchH
Q psy451          118 TGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLF  197 (296)
Q Consensus       118 ~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~F  197 (296)
                      +||||+|+||||||++ |..+||||||++||+|+++++.|             +|||+|+|||+++.+++++|||++|||
T Consensus         2 ~g~lg~K~GMT~i~~~-g~~~pVTVie~~p~~V~~~kt~~-------------~dgy~avqvg~~~~~~~~~tkp~~g~~   67 (211)
T 2zjr_B            2 KGILGTKIGMTQIWKN-DRAIPVTVVLAGPCPIVQRKTAQ-------------TDGYEAVQIGYAPKAERKVNKPMQGHF   67 (211)
T ss_dssp             CEEEEEEEEEEEEEET-TEEEEEEEEECCCEEEEEEECTT-------------TTSSCEEEEECSCCCGGGCCHHHHHHH
T ss_pred             eeEeEEecCcEeEEeC-CCEEEEEEEEeCCcEEEEEecee-------------cCCCcEEEEEEEEecccccChhhhhhH
Confidence            5999999999999999 99999999999999999999999             899999999999999999999999999


Q ss_pred             HhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCC
Q psy451          198 KNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIAS  277 (296)
Q Consensus       198 ~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~  277 (296)
                      +|+|++||++|+||+|++    ++|++|+|++|++||+|||+|+|||||||||||||||+++|+|||+|++||++||||+
T Consensus        68 ~kagv~~k~~l~Efrv~~----~~G~~i~v~~F~~G~~VDV~g~tKGKGFqGv~KR~gf~~~p~sHG~s~~hR~~GsiG~  143 (211)
T 2zjr_B           68 AKAGVAPTRILREFRGFA----PDGDSVNVDIFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQ  143 (211)
T ss_dssp             HTTTCCCCSCEEEETTCC----CSSEECSTTTSCTTCEEEEEEECCEEEEECHHHHHCCCCCCSSSSCSSCSCSCCCCCC
T ss_pred             HHcCCCCCcEEEEEEcCC----cCCCEeEhhhhcCCCceEEEEEEcCCcceeceeecCCCCCCcccCCCCCCCCCcccCC
Confidence            999999999999999965    8999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcccCCCcCCCCCCC
Q psy451          278 GAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       278 ~~~PgRV~pGkKMpG~mG~  296 (296)
                      +++|+|||||+|||||||+
T Consensus       144 ~~~PgRV~kgkkmaG~mG~  162 (211)
T 2zjr_B          144 RKTPGRVYKGKRMAGHMGM  162 (211)
T ss_dssp             SSTTCSCCTTCCCCEEEEC
T ss_pred             CCCCCcCcCCCccCCCCCC
Confidence            9999999999999999995

>3bbo_F Ribosomal protein L3; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}

Probab=100.00  E-value=1.3e-66  Score=480.69  Aligned_cols=172  Identities=26%  Similarity=0.393  Sum_probs=108.8

Q ss_pred             CCCCCCCceeeeeEEEeecceeecCCCcEEEeeEEEecCeEE-EEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCC
Q psy451          109 LEITTSSKRTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHI-IKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPS  187 (296)
Q Consensus       109 ~~w~~~s~r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~V-v~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~  187 (296)
                      ..|.+  .|+||||+|+||||||++||..+||||||++||+| ++++|.|             .|||.|+|||+++.+++
T Consensus        37 ~~~~~--~~~G~lG~K~GMT~if~e~G~~vPVTVle~~p~~Vv~q~kt~e-------------~dGy~Avqvg~~~~k~k  101 (259)
T 3bbo_F           37 SASLE--AGVGVMATKLGMMSFFEESGTVVPVTVVGFREGNIVTQIKTEA-------------TDGYNAVQVGYRRVRDR  101 (259)
T ss_dssp             -----------------------------------------------------------------------------CCS
T ss_pred             ccccc--ceeEEEEEecCcEEEEccCCeEEEEEEEEECCCEEEEEEeecC-------------CCCcEEEEEEEeeechh
Confidence            34544  78999999999999999999999999999999999 8999888             89999999999999999


Q ss_pred             cCChhhcchHHhcCCCCCceEEEEEeCCCCCCCCCCeeeccc-CCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCC
Q psy451          188 LYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAH-FRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVT  266 (296)
Q Consensus       188 ~~tKp~~G~F~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~h-F~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~s  266 (296)
                      ++|||+.|||+|+|++||++|+||+|++++++++|++|+|++ |++||+|||+|+|||||||||||||||+|+|+||| |
T Consensus       102 ~~tKp~~Ghf~kagv~~kr~l~Efrv~~~~~~~~G~~i~v~~vF~~Gq~VDV~G~TKGKGFqGv~KRwgf~g~p~sHG-s  180 (259)
T 3bbo_F          102 KLTKPEMGHLEKSGIIPLRHLQEFRLQSIDGFEVTQKLDFGELFKEGDLVDVSGTTIGKGFQGGIKRHNFKRGQMTHG-S  180 (259)
T ss_dssp             SCCHHHHTTCSSCCCCCSSCCCCCCSCCCCTTTTCCCCSSCSSSCSSSCCCCCCBCCCCSSCCSSSSSCCCCCCSSSC-S
T ss_pred             hCChhhhhhHHHcCCCCCcEEEEEecCChhhcccccEeehhheecCCCEEEEEEEecCCcceeeeeecCcCCCCCcCC-C
Confidence            999999999999999999999999999888899999999997 99999999999999999999999999999999999 8


Q ss_pred             CCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451          267 KSHRRGGCIASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       267 K~HRrpGSIG~~~~PgRV~pGkKMpG~mG~  296 (296)
                      ++||++||||+|++|+|||||+|||||||+
T Consensus       181 k~hR~~GSiG~~~~PgRV~kGkkMaGqmG~  210 (259)
T 3bbo_F          181 KSHRQLGSIGAGTTPGRVYKGKKMPGRMGG  210 (259)
T ss_dssp             STTTSCCCCSCSSCCTTTTTTSCCCCCCCC
T ss_pred             CCCCCCcccCCCCCCCcCcCCCccCCCCCC
Confidence            999999999999999999999999999995

>1vq8_B 50S ribosomal protein L3P; ribosome 50S, protein-protein complex, RNA-RNA complex, PROT complex, peptidyl transferase reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A {Haloarcula marismortui} SCOP: b.43.3.2 PDB: 1vq4_B* 1vq5_B* 1vq6_B* 1vq7_B* 1s72_B* 1vq9_B* 1vqk_B* 1vql_B* 1vqm_B* 1vqn_B* 1vqo_B* 1vqp_B* 1yhq_B* 1yi2_B* 1yij_B* 1yit_B* 1yj9_B* 1yjn_B* 1yjw_B* 2otj_B* ...

Probab=100.00  E-value=2.5e-56  Score=425.25  Aligned_cols=166  Identities=21%  Similarity=0.218  Sum_probs=151.9

Q ss_pred             ceeeeeEEEeecceeecCCCc----------EEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEecc---
Q psy451          116 KRTGLIGKIIGQYPLWMKNGE----------KCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAE---  182 (296)
Q Consensus       116 ~r~GlIg~KiGMt~i~~~~G~----------~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~---  182 (296)
                      .++||||+|+|||+||++||.          .+||||||++||+|+++++.|             +|||+ +|+|++   
T Consensus        38 ~l~g~lG~K~GMT~i~~~~g~~~s~~~gke~~vpVTVie~~p~~V~~vk~~~-------------~dgy~-lq~~~~v~a  103 (338)
T 1vq8_B           38 GVQGFAGYKAGMTHVVLVNDEPNSPREGMEETVPVTVIETPPMRAVALRAYE-------------DTPYG-QRPLTEVWT  103 (338)
T ss_dssp             EECCEEEEEEEEEEEEEECCCTTCTTTTSEEEEEEEEEECCCEEEEEEEEEE-------------EETTE-EEEEEEEEC
T ss_pred             eEEEEEEEecCCEEEEeECCccCCccCCceeEEEEEEEEeCCcEEEEEEeee-------------ccCce-eEeeeeEec
Confidence            688999999999999999997          999999999999999999999             89999 999987   


Q ss_pred             ----ccCCCcCChhhc-------chHH--------------------h-cCCCC-CceEEEEEeCCCC-----C-----C
Q psy451          183 ----SGDPSLYTKEYC-------GLFK--------------------N-SGVPP-KKKLCRFIITPDA-----M-----L  219 (296)
Q Consensus       183 ----~~~~~~~tKp~~-------G~F~--------------------k-aGv~p-Kr~L~EFrVs~~a-----~-----l  219 (296)
                          +..+++++||+.       |||+                    + +|+++ |++|+||+|++.+     +     +
T Consensus       104 ~~~~~~~~r~~~kp~~~~~~~~~~~~~~~~~~~~~~~ir~i~~tqp~k~agv~~kk~~l~E~rv~~~~~~~k~~~a~~~l  183 (338)
T 1vq8_B          104 DEFHSELDRTLDVPEDHDPDAAEEQIRDAHEAGDLGDLRLITHTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIV  183 (338)
T ss_dssp             SCCCTTGGGTSCCCSSCCHHHHHHHHHHHHHHTCEEEEEEEEECCGGGCTTSCCCSCCEEEEEEECSCHHHHHHHHHHHH
T ss_pred             cccchhhcccccccccccchhhHHHHHhhhcccceeEEEEEEEeccccccCCCccCCEEEEEEecCcchhhhhhhhhhcc
Confidence                334577888876       7887                    6 79996 8999999998654     2     3


Q ss_pred             CCCCeeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451          220 PPGTPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       220 ~~Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~  296 (296)
                      ++|++|+| ++|.+||+|||+|+|||||||||||||||+++|+|||+|++||++||||+ .+|+|||||++||||||+
T Consensus       184 ~~G~~i~v~~vF~~Gq~VDV~gvTKGKGFqGv~KRwgf~~~p~sHG~sk~hR~~GsiG~-~~P~RV~~g~kmaGqmG~  260 (338)
T 1vq8_B          184 EDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGP-WNPSRVRSTVPQQGQTGY  260 (338)
T ss_dssp             HHTCEECSTTTCCTTCEEEEEEECCCCCEECHHHHHCCCCCCGGGGSSSCSSCCSCSCC-SSSSSCCTTSCCCEECSC
T ss_pred             CCCcEEchhhcccCCCceeeEEEEeCCCceeeeeecCCCCCCcccCCCccCCCCcccCC-CCCCeeccCCcCCCCcCC
Confidence            55999999 79999999999999999999999999999999999999999999999996 569999999999999996

>2zkr_b 60S ribosomal protein L3; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}

Probab=100.00  E-value=1.5e-46  Score=363.63  Aligned_cols=159  Identities=20%  Similarity=0.218  Sum_probs=135.1

Q ss_pred             ceeeeeEEEeecceeecCC----------CcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEecc---
Q psy451          116 KRTGLIGKIIGQYPLWMKN----------GEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAE---  182 (296)
Q Consensus       116 ~r~GlIg~KiGMt~i~~~~----------G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~---  182 (296)
                      .++|++|+|+|||+||+++          |.++||||||++||+|++++                  ||.+++.|..   
T Consensus        42 ~ltgflGyKaGMThi~~~~drpgS~~~~kev~~pVTVlEtpP~~Vvgvr------------------GY~~~~~Gl~~~~  103 (403)
T 2zkr_b           42 HLTAFLGYKAGMTHIVREVDRPGSKVNKKEVVEAVTIVETPPMVIVGIV------------------GYVETPRGLRTFK  103 (403)
T ss_dssp             GGGSCEEEEEEEEEEEEECCCTTSTTCSCEEEEEEEEEECCCBEEEEEE------------------EEEEETTEEEEEE
T ss_pred             eeeEEEEEccCCeEEEeeccCCCCccCCCceEEEEEEEEcCCCEEEEEE------------------eEEEecCCcccce
Confidence            6899999999999999999          89999999999999999996                  6666665543   


Q ss_pred             ccCCCcCC----------------hhhcchHHh----------------------------------cCCC-CCceEEEE
Q psy451          183 SGDPSLYT----------------KEYCGLFKN----------------------------------SGVP-PKKKLCRF  211 (296)
Q Consensus       183 ~~~~~~~t----------------Kp~~G~F~k----------------------------------aGv~-pKr~L~EF  211 (296)
                      ++-..+++                |+..++|++                                  ++++ +|++|+||
T Consensus       104 ~vwa~~ls~e~~Rr~~kn~~~~~kk~~~~~~kk~~~~~~~~~i~~~l~~~~k~~~~iRvi~hTq~~~~~l~qkk~~l~E~  183 (403)
T 2zkr_b          104 TIFAEHISDECKRRFYKNWHKSKKKAFTKYCKKWQDADGKKQLERDFSSMKKYCQVIRVIAHTQMRLLPLRQKKAHLMEV  183 (403)
T ss_dssp             EEECSCCCGGGGCCCCCCSSCCSCCCCCCCCCCCCCHHHHHHHHHHHHHHSCCCSSCEEEEECCGGGSSCSCCCCCCEEE
T ss_pred             EEeeccCChHHhhhhhcccccchhhhhhhcccccccchhhhhHHHHHHHhhccceEEEEEEEecccccccccCCCEEEEE
Confidence            11111111                444555543                                  5888 89999999


Q ss_pred             EeCCCC-----CC---CCCCeeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCC-CCCCCCCcCCCcccCCCCCC
Q psy451          212 IITPDA-----ML---PPGTPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPA-THGVTKSHRRGGCIASGAGK  281 (296)
Q Consensus       212 rVs~~a-----~l---~~Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPa-SHG~sK~HRrpGSIG~~~~P  281 (296)
                      +|++.+     ++   .+|++|+| ++|.+||+|||+|+|||||||||||||||+++|+ ||   +.||++||||++ +|
T Consensus       184 ~v~g~~~~~k~~~A~~~lg~~i~v~~vF~~ge~VDV~gvTKGKGfqGvvkRwg~~~~p~ktH---~~hR~~GsiG~~-~P  259 (403)
T 2zkr_b          184 QVNGGTVAEKLDWARERLEQQVPVSQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTH---RGLRKVACIGAW-HP  259 (403)
T ss_dssp             EBCSSSHHHHHHHHHHHHHSCBCSTTTCCSSCCCCEEEECCEEEEECHHHHHCCCCCCSSTT---TTTTCCSCSSCS-SS
T ss_pred             EecCcchhhhhhhhhccCCcEEchhhhccCCceEEEEEeecCCcceeceeecCcCCCCcccc---cccCCCcccCCC-CC
Confidence            998755     35   89999999 7999999999999999999999999999999997 99   579999999954 79


Q ss_pred             CcccCCCcCCCCCCC
Q psy451          282 ARVYPGGVLQRGLKC  296 (296)
Q Consensus       282 gRV~pGkKMpG~mG~  296 (296)
                      +|||+|++||||||+
T Consensus       260 ~RV~~g~~maGqmG~  274 (403)
T 2zkr_b          260 ARVAFSVARAGQKGY  274 (403)
T ss_dssp             CSCCTTSCCCEEEEC
T ss_pred             CeECCCCcCCCCCCc
Confidence            999999999999995

>3j21_C 50S ribosomal protein L3P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}

Probab=100.00  E-value=1e-36  Score=291.44  Aligned_cols=166  Identities=19%  Similarity=0.169  Sum_probs=124.6

Q ss_pred             CceeeeeEEEeecceeecCCC---------cEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEe---cc
Q psy451          115 SKRTGLIGKIIGQYPLWMKNG---------EKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVG---AE  182 (296)
Q Consensus       115 s~r~GlIg~KiGMt~i~~~~G---------~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG---~~  182 (296)
                      ...+|++|+|.|||+|..++.         ...||||||.+|-.|+.+.-..+             +.|+--.++   ++
T Consensus        36 ~~L~~F~GYKAGMTHiv~~~drpgS~~~kEv~~~VTivEtPPm~vvgi~gY~~-------------tp~Gl~~~~~vwa~  102 (365)
T 3j21_C           36 VRMLGFAGYKAGMTHILMIDDEPGLTNGKEIFMPVTIIETPPLRVFGIRAYRM-------------GYLGLETATEVIVP  102 (365)
T ss_dssp             SEECCEEEEEEEEEEEEEESCSCSSCSSSEEEEEEEEEECCCEEEEEEEEEEE-------------CSSSEEEEEEECCC
T ss_pred             ceeeeeeeeccCCeEEEEEcCCCCCcCCCEeeeeeEEEeCCCeEEEEEEEEee-------------cCCCceeEEEEccc
Confidence            368899999999999998764         38899999999999998763221             111100000   11


Q ss_pred             ccC--------------------C---C---cCCh-----------hhcchHHh-----------------cCCCCCceE
Q psy451          183 SGD--------------------P---S---LYTK-----------EYCGLFKN-----------------SGVPPKKKL  208 (296)
Q Consensus       183 ~~~--------------------~---~---~~tK-----------p~~G~F~k-----------------aGv~pKr~L  208 (296)
                      ..+                    +   +   .+.+           ..+..+++                 .++.-|.+|
T Consensus       103 ~l~~~~~~~~y~~~~~k~~~~~~~e~~Rr~~~~~k~~~~~~~~~~~~~~~~~~k~~~~~~iRvi~hTqp~~~~lqKK~~i  182 (365)
T 3j21_C          103 DFPLDNYPAKERKGKPKPKMTFYKLLERRIATLPKNYTQEMFEQKLGQLEDMIKEGEIVDVRAIVATQPWVIKLKKKPEV  182 (365)
T ss_dssp             CCCCCSCCCCCSSSCCCCCCCSCSHHHHSSCCCCSCHHHHHHHHHHHHHHHHHTCTTEEEEEEEEEECCSSCSSCCSCCE
T ss_pred             cccchhhccccccccccccccchhhhhhhhhcccccccccchhhHHHHHHHhhccCcceEEEEEEeccccccccccCccE
Confidence            111                    0   0   0010           01111112                 456556899


Q ss_pred             EEEEeCCCC--------CCCCCCeeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCCC
Q psy451          209 CRFIITPDA--------MLPPGTPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGA  279 (296)
Q Consensus       209 ~EFrVs~~a--------~l~~Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~  279 (296)
                      +|++|+...        .-.+|++|+| ++|.+||+|||+|+|||||||||||||||+++|++||.  .||++||||++ 
T Consensus       183 mEiqV~Ggsv~~k~~~a~~~lG~~i~v~~vF~~ge~VDV~GvTKGKGFqGvvKRwgf~~~p~~hg~--~hR~~GsiG~~-  259 (365)
T 3j21_C          183 MEYAIGGTSVEEKFNYIKEKLGKELRVGEVLKEGELLDVIAVTKGKGTQGPVKRWGIKLRAHKDSK--GRRKVGSIGPW-  259 (365)
T ss_dssp             EEEEEECSSHHHHHHHHHHHTTCBCCHHHHCCTTCEEEEEEECCCCEEECHHHHHCCCCCSSCCSS--CSSCCCCSCCS-
T ss_pred             EEEEecCCCHHHHHHHHHhhcCcEEechhccCCCCEEEEEEEeeccccccceeeccCCCCCCCCCC--CCCCCcccCCC-
Confidence            999998753        1268999999 69999999999999999999999999999999999995  49999999997 


Q ss_pred             CCCcccCCCcCCCCCCC
Q psy451          280 GKARVYPGGVLQRGLKC  296 (296)
Q Consensus       280 ~PgRV~pGkKMpG~mG~  296 (296)
                      +|+|||+|++||||||+
T Consensus       260 ~P~rV~~g~~maGqmG~  276 (365)
T 3j21_C          260 HPARVMWTVPMAGQMGF  276 (365)
T ss_dssp             SSCSCCSSSCCCEEESS
T ss_pred             CCCcccCCCccCCccCc
Confidence            89999999999999995

>3u5e_B 60S ribosomal protein L3; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 3o5h_C 3o58_C 3u5i_B 4b6a_B 3izc_C 3izs_C 1s1i_C 3jyw_C

Probab=100.00  E-value=6.4e-35  Score=280.78  Aligned_cols=176  Identities=17%  Similarity=0.157  Sum_probs=123.5

Q ss_pred             ceeeeeEEEeecceeecCCC----------cEEEeeEEEecCeEEEEEeCCCC-----------CCCCCCC---CCCCCC
Q psy451          116 KRTGLIGKIIGQYPLWMKNG----------EKCRTTLVQVVDNHIIKYIPPEE-----------FKPNRKP---YRGEPK  171 (296)
Q Consensus       116 ~r~GlIg~KiGMt~i~~~~G----------~~vpvTVLqv~pn~Vv~~kt~E~-----------~~~~~~~---~~~~~k  171 (296)
                      ..+|++|+|.|||+|..++.          ...||||||++|..|+.+.-..+           |....+.   |... +
T Consensus        42 ~L~aF~GYKAGMTHiv~~~drpgS~~~~kEvv~~VTivEtPPm~vvgi~gY~~tp~Gl~~~~~vwa~~l~~e~~Rr~~-k  120 (387)
T 3u5e_B           42 ALTSFLGYKAGMTTIVRDLDRPGSKFHKREVVEAVTVVDTPPVVVVGVVGYVETPRGLRSLTTVWAEHLSDEVKRRFY-K  120 (387)
T ss_dssp             CCSEEEEEEEEEEEEEEECCCTTSTTTTSEEEEEEEEEECCCEEEEEEEEEEEETTEEEEEEEEECSCCCHHHHGGGC-S
T ss_pred             eeeeeeeeccCCeEEEEEccCCCCCcCCCEeeeeeEEEecCCeEEEEEEEEeecCCCceeEEEEcccccCHHHhhhhh-c
Confidence            47899999999999996643          38999999999999997763321           0000000   0000 1


Q ss_pred             CCcceEEEeccccCCCcC--ChhhcchH------------------HhcCCCC-CceEEEEEeCCCC--------CCCCC
Q psy451          172 RKLGCLLVGAESGDPSLY--TKEYCGLF------------------KNSGVPP-KKKLCRFIITPDA--------MLPPG  222 (296)
Q Consensus       172 dgY~avqVG~~~~~~~~~--tKp~~G~F------------------~kaGv~p-Kr~L~EFrVs~~a--------~l~~G  222 (296)
                      +.|.+-.-++.....+.-  .+.....|                  ...+++- |.+|+|++|+...        .-.+|
T Consensus       121 nw~~skkkaftk~~kk~~~~~~~~~~~~~~~~k~~~viRvi~hTqp~l~~l~qKK~~imEiqV~Ggsv~~k~~~a~~~lg  200 (387)
T 3u5e_B          121 NWYKSKKKAFTKYSAKYAQDGAGIERELARIKKYASVVRVLVHTQIRKTPLAQKKAHLAEIQLNGGSISEKVDWAREHFE  200 (387)
T ss_dssp             CTTTSCCCTTTTTGGGGSSSSHHHHHHHHHHHHSCSEEEEEEECCGGGSSCSCCSCCEEEEECCSSCHHHHHHHHHHTTT
T ss_pred             ccchhhhhhhhhhcccccchhHHHHHHHHHhhhcccEEEEEEeccccccCccccCceeEEEEecCCCHHHHHHHHHhccC
Confidence            222211111100000000  01111111                  1345655 5899999998753        12689


Q ss_pred             Ceeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCC-CCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451          223 TPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMP-ATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       223 t~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgP-aSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~  296 (296)
                      ++|+| ++|.+||+|||+|+|||||||||||||||+++| +||+   .||++||||+ .+|+|||+|++||||||+
T Consensus       201 ~~i~v~~vF~~ge~VDV~gvTKGKGfqGvvKRwg~~~~p~ktH~---~~R~~GsiG~-~~P~rV~~g~~maGqmG~  272 (387)
T 3u5e_B          201 KTVAVDSVFEQNEMIDAIAVTKGHGFEGVTHRWGTKKLPRKTHR---GLRKVACIGA-WHPAHVMWSVARAGQRGY  272 (387)
T ss_dssp             CEECGGGTCCTTCEEEEEEECCCCCEECHHHHHCCCCCCTTCTT---CSSSCSCCCC-SSSSSCCTTSCCCEECSC
T ss_pred             CEechHHhccCCCEEEEEEEEcCccceeeeeecccCCCCccccC---CCCCCcccCC-CCCCcccCCCccCCCCCC
Confidence            99999 699999999999999999999999999999999 8997   6999999999 579999999999999996

>4a17_B RPL3, ribosomal protein L3; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_B 4a1c_B 4a1e_B

Probab=100.00  E-value=1.6e-34  Score=278.30  Aligned_cols=164  Identities=21%  Similarity=0.239  Sum_probs=122.8

Q ss_pred             ceeeeeEEEeecceeecCCC----------cEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEe---cc
Q psy451          116 KRTGLIGKIIGQYPLWMKNG----------EKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVG---AE  182 (296)
Q Consensus       116 ~r~GlIg~KiGMt~i~~~~G----------~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG---~~  182 (296)
                      ..+|++|+|.|||+|..++.          ...||||||++|..|+.+.-..             .+.|+--.++   ++
T Consensus        42 ~L~aF~GYKAGMTHiv~~~drpgS~~~~kEv~~~VTivEtPPm~vvgi~gY~-------------~tp~Gl~~~~~vwa~  108 (391)
T 4a17_B           42 HLTAFTGFKAGMTHILREVDRSGSRHNKKEVVEAVTVIECPPMTIVGVVGYI-------------DTPRGLRALTTVWAK  108 (391)
T ss_dssp             EECEEEEEEEEEEEEEEECCCTTSTTTTSEEEEEEEEEECCCEEEEEEEEEE-------------EETTEEEEEEEEECS
T ss_pred             eEeeeeeeccCCeEEEEEccCCCCCcCCCEeeeeeEEEeCCCeEEEEEEEEe-------------ecCCCceeEEEEccc
Confidence            67899999999999996643          3899999999999999876333             1112111111   11


Q ss_pred             ccCC---------------CcCCh--------hhcchH------------------HhcCCCC-CceEEEEEeCCCCC--
Q psy451          183 SGDP---------------SLYTK--------EYCGLF------------------KNSGVPP-KKKLCRFIITPDAM--  218 (296)
Q Consensus       183 ~~~~---------------~~~tK--------p~~G~F------------------~kaGv~p-Kr~L~EFrVs~~a~--  218 (296)
                      ..++               +.+|+        .....|                  ...+++- |.+|+|++|+....  
T Consensus       109 ~l~~e~~Rr~~knw~~skkkaftk~~kk~~~~~~~~~~~~~~k~~~viRvi~hTqp~l~~l~qKK~~imEiqV~GGsv~~  188 (391)
T 4a17_B          109 TIDNNTKKRFYKNWANSNKKAFTHHEKNFDQKAQDLLLKRIEKYCSVVRVIAHTNMSKLNLRQKKNHILEIQVNGGKVAE  188 (391)
T ss_dssp             CCCHHHHGGGCSCSTTSCCCTTHHHHHTCCHHHHHHHHHHHHHHCSEEEEEEEECGGGSCSSCCCCEEEEEEEECSCHHH
T ss_pred             ccCHHHhhhhcccccccchhhhhhhhhhcchhHHHHHHHHhhhcccEEEEEEeccccccCcCCCCceEEEEEecCCCHHH
Confidence            1100               00111        000011                  1345655 58999999987531  


Q ss_pred             ------CCCCCeeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCC-CCCCCCCCcCCCcccCCCCCCCcccCCCcC
Q psy451          219 ------LPPGTPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMP-ATHGVTKSHRRGGCIASGAGKARVYPGGVL  290 (296)
Q Consensus       219 ------l~~Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgP-aSHG~sK~HRrpGSIG~~~~PgRV~pGkKM  290 (296)
                            -.+|++|+| ++|.+||+|||+|+|||||||||||||||+++| +||+   .||++||||+ .+|+|||+|++|
T Consensus       189 k~~~a~~~lg~~i~v~~vF~~ge~VDV~gvTKGKGfqGvvKRwg~~~~p~ktH~---~~R~~GsiG~-~~P~rV~~g~~m  264 (391)
T 4a17_B          189 KVAFAKSLLEKEVKVDSIFAENEMLDVLGVTKGKGFAGVIKRFGVKHLQKKTHR---GYRKVGCIGA-WHPSRIRFTVPR  264 (391)
T ss_dssp             HHHHHHHHTTCEECHHHHCCTTCEEEEEEECCCCCEECHHHHHCCCCCCTTCSS---CSSSCSCSCC-SSSSSCCTTSCC
T ss_pred             HHHHHHhhcCCEEehhHhcCCCCEEEEEEEEeCcccceeeeecccCCCCccccc---CCCCCcccCC-CCCCcccCCCcc
Confidence                  147999999 699999999999999999999999999999999 8997   6999999999 479999999999


Q ss_pred             CCCCCC
Q psy451          291 QRGLKC  296 (296)
Q Consensus       291 pG~mG~  296 (296)
                      |||||+
T Consensus       265 aGqmG~  270 (391)
T 4a17_B          265 AGQLGY  270 (391)
T ss_dssp             CEECSC
T ss_pred             CCCCCC
Confidence            999996

---

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	296
d2zjrb1	205	b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococc	3e-26
d2gycb1	209	b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherich	2e-25
d2j01e1	205	b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus t	9e-22
d1vqob1	337	b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon	2e-09

>d2zjrb1 b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococcus radiodurans [TaxId: 1299]} Length = 205

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Deinococcus radiodurans [TaxId: 1299]

 Score =  100 bits (250), Expect = 3e-26
 Identities = 47/170 (27%), Positives = 61/170 (35%), Gaps = 18/170 (10%)

Query: 119 GLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLL 178
           G++G  IG   +W  N      T+V      I++    +            PK       
Sbjct: 3   GILGTKIGMTQIWK-NDRAIPVTVVLAGPCPIVQRKTAQTDGYEAVQIGYAPKA------ 55

Query: 179 VGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDV 238
                       K   G F  +GV P + L  F             +    F   E +D 
Sbjct: 56  -------ERKVNKPMQGHFAKAGVAPTRILREFRGFAPDG----DSVNVDIFAEGEKIDA 104

Query: 239 RGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGG 288
            G +  +G QGVMKRW F G PA+HG  K HRR G I       RVY G 
Sbjct: 105 TGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQRKTPGRVYKGK 154

>d2gycb1 b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherichia coli [TaxId: 562]} Length = 209

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Escherichia coli [TaxId: 562]

 Score = 98.6 bits (245), Expect = 2e-25
 Identities = 41/169 (24%), Positives = 69/169 (40%), Gaps = 13/169 (7%)

Query: 119 GLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLL 178
           GL+GK +G   ++ ++G     T+++V  N + +                        + 
Sbjct: 3   GLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLA-------------NDGYRAIQ 49

Query: 179 VGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDV 238
           V   +   +  TK   G F  +GV   + L  F +        G  ++   F   + +DV
Sbjct: 50  VTTGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVELFADVKKVDV 109

Query: 239 RGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
            G +  +GF G +KRW F+   ATHG + SHR  G I       +V+ G
Sbjct: 110 TGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKG 158

>d2j01e1 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus thermophilus [TaxId: 274]} Length = 205

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Thermus thermophilus [TaxId: 274]

 Score = 88.6 bits (219), Expect = 9e-22
 Identities = 45/169 (26%), Positives = 68/169 (40%), Gaps = 18/169 (10%)

Query: 119 GLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLL 178
           G++G  +G   ++  +      T++      +++   PE             K     + 
Sbjct: 3   GILGVKVGMTRIFR-DDRAVPVTVILAGPCPVVQRRTPE-------------KDGYTAVQ 48

Query: 179 VGAESGDPSLYTKEYCGLFKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDV 238
           +G    +P    +   G F  +GV P + L                +T   F+P E +DV
Sbjct: 49  LGFLPQNPKRVNRPLKGHFAKAGVEPVRILREIRDFNPEG----DTVTVEIFKPGERVDV 104

Query: 239 RGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
            G +  RGF GVMKRW F G P +HG  K HR  G I +     RVY G
Sbjct: 105 TGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGNRKTPGRVYKG 153

>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon Haloarcula marismortui [TaxId: 2238]} Length = 337

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Archaeon Haloarcula marismortui [TaxId: 2238]

 Score = 55.4 bits (133), Expect = 2e-09
 Identities = 35/168 (20%), Positives = 51/168 (30%), Gaps = 15/168 (8%)

Query: 133 KNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPS-LYTK 191
           +  E        + +         E  +    P   +P      +    E+GD   L   
Sbjct: 85  RAYEDTPYGQRPLTEV-WTDEFHSELDRTLDVPEDHDPDAAEEQIRDAHEAGDLGDLRLI 143

Query: 192 EYCGLFKNSGVPPKKKLC------------RFIITPDAMLPPGTPLTAAHFRPREFLDVR 239
            +        VP KK               R     D +   G       FR  E+ DV 
Sbjct: 144 THTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIVEDGGEHAMNDIFRAGEYADVA 203

Query: 240 GLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPG 287
           G+T  +G QG +KRWG +     H      RR G +      +RV   
Sbjct: 204 GVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPW-NPSRVRST 250

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	296
d2zjrb1	205	Ribosomal protein L3 {Deinococcus radiodurans [Tax	100.0
d2j01e1	205	Ribosomal protein L3 {Thermus thermophilus [TaxId:	100.0
d2gycb1	209	Ribosomal protein L3 {Escherichia coli [TaxId: 562	100.0
d1vqob1	337	Ribosomal protein L3 {Archaeon Haloarcula marismor	100.0

>d2zjrb1 b.43.3.2 (B:1-205) Ribosomal protein L3 {Deinococcus radiodurans [TaxId: 1299]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Deinococcus radiodurans [TaxId: 1299]

Probab=100.00  E-value=2.7e-65  Score=456.27  Aligned_cols=161  Identities=30%  Similarity=0.485  Sum_probs=155.6

Q ss_pred             eeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcchH
Q psy451          118 TGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLF  197 (296)
Q Consensus       118 ~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~F  197 (296)
                      .||||+|+||||+|| +|.+|||||||++||+|++++|.|             +|||+|+|||+++.++++++||+.|||
T Consensus         2 ~Glig~KiGMT~i~~-~g~~vpVTVle~~p~~V~~~kt~e-------------kdGY~avqvg~~~~~~k~~~K~~~g~~   67 (205)
T d2zjrb1           2 KGILGTKIGMTQIWK-NDRAIPVTVVLAGPCPIVQRKTAQ-------------TDGYEAVQIGYAPKAERKVNKPMQGHF   67 (205)
T ss_dssp             CEEEEEEEEEEEEEE-TTEEEEEEEEECCCEEEEEEECTT-------------TTSSCEEEEECSCCCGGGCCHHHHHHH
T ss_pred             ceEEEEeccceeEEe-CCCEEEEEEEEeCCCEEEEEEeec-------------cCCCeeeeecceeecccccccccccce
Confidence            599999999999998 589999999999999999999999             899999999999999999999999999


Q ss_pred             HhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCC
Q psy451          198 KNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIAS  277 (296)
Q Consensus       198 ~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~  277 (296)
                      +|++++|++++.||++.    +..|++|++++|++||+|||+|+|||||||||||||||+|+|+|||++++||+|||||+
T Consensus        68 ~k~~~~~~~~~~ef~~~----~~~g~~~~~~~F~~G~~VDV~g~sKGKGFqGv~KR~gf~g~p~sHG~s~~hR~~GsiG~  143 (205)
T d2zjrb1          68 AKAGVAPTRILREFRGF----APDGDSVNVDIFAEGEKIDATGTSKGKGTQGVMKRWNFAGGPASHGSKKWHRRPGSIGQ  143 (205)
T ss_dssp             HTTTCCCCSCEEEETTC----CCSSEECSTTTSCTTCEEEEEEECCEEEEECHHHHHCCCCCCSSSSCSSCSCSCCCCCC
T ss_pred             eccccccceeeeecccc----ccccceeeeEeecCCCEEEEEEEeeccccccceEecccccCcccccCCccccccccccc
Confidence            99999999999999853    46799999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcccCCCcCCCCCCC
Q psy451          278 GAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       278 ~~~PgRV~pGkKMpG~mG~  296 (296)
                      +++|+|||||+|||||||+
T Consensus       144 ~~~PgRV~kGkkMaG~mG~  162 (205)
T d2zjrb1         144 RKTPGRVYKGKRMAGHMGM  162 (205)
T ss_dssp             SSTTCSCCTTCCCCEEEEC
T ss_pred             cCcCceEecCCccCCcccc
Confidence            9999999999999999995

>d2j01e1 b.43.3.2 (E:1-205) Ribosomal protein L3 {Thermus thermophilus [TaxId: 274]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Thermus thermophilus [TaxId: 274]

Probab=100.00  E-value=7.4e-63  Score=438.19  Aligned_cols=161  Identities=29%  Similarity=0.516  Sum_probs=155.3

Q ss_pred             eeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcchH
Q psy451          118 TGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGLF  197 (296)
Q Consensus       118 ~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~F  197 (296)
                      .||||+|+|||++|| ||..+||||||++||+|++++|.|             +|||+|+|+|+++.++.+++++..++|
T Consensus         2 ~GliG~KiGMT~i~~-~g~~vpVTVlev~p~~Vv~vkt~e-------------kdgy~avqlg~~~~~~~~~~k~~~g~~   67 (205)
T d2j01e1           2 KGILGVKVGMTRIFR-DDRAVPVTVILAGPCPVVQRRTPE-------------KDGYTAVQLGFLPQNPKRVNRPLKGHF   67 (205)
T ss_dssp             CCCEEEEEEEEEEEE-TTEEEEEEEEEECCBCCCCBCCTT-------------TTSSCCBCCCCCCCCCSTTCSCCCCCS
T ss_pred             ceEEEEecCCeeEEe-CCCEEEEEEEEeCCCEEEEEEeec-------------cCCCcceeeeeeeeccccccccccccc
Confidence            499999999999998 789999999999999999999999             899999999999999999999999999


Q ss_pred             HhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCC
Q psy451          198 KNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIAS  277 (296)
Q Consensus       198 ~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~  277 (296)
                      +++++.+++++.||+.    .+.+|++|+++||++||+|||+|+|||||||||||||||+|+|+|||+|++||+|||||+
T Consensus        68 ~k~~~~~~~~~~e~~~----~~~~g~~l~~~~F~~Gq~VdVtg~TkGKGFqGv~KR~gf~g~p~sHg~s~~hR~~Gs~g~  143 (205)
T d2j01e1          68 AKAGVEPVRILREIRD----FNPEGDTVTVEIFKPGERVDVTGTSKGRGFAGVMKRWNFAGGPDSHGAHKIHRHPGSIGN  143 (205)
T ss_dssp             GGGSSCCSSCCCCCTT----CCCCSSCBCSTTCCTTCEECCEEECCCCCEECTTTSSCCCCCCSSSSCSSCSSCCCCCCC
T ss_pred             ccccccccceeeeeec----cccccceeeeeEeeCCceEEEEEEEeccccCcceeecccccCccccCCcccccccccccc
Confidence            9999999999999973    456799999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCcccCCCcCCCCCCC
Q psy451          278 GAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       278 ~~~PgRV~pGkKMpG~mG~  296 (296)
                      +++|+|||||+|||||||+
T Consensus       144 ~~~pgrV~~g~km~G~mG~  162 (205)
T d2j01e1         144 RKTPGRVYKGKKMAGHYGA  162 (205)
T ss_dssp             STTTCSCCTTCCCSEECSS
T ss_pred             cCcCceEEeecccCCccCC
Confidence            9999999999999999996

>d2gycb1 b.43.3.2 (B:1-209) Ribosomal protein L3 {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Escherichia coli [TaxId: 562]

Probab=100.00  E-value=5.9e-64  Score=447.08  Aligned_cols=167  Identities=25%  Similarity=0.430  Sum_probs=163.6

Q ss_pred             eeeeeEEEeecceeecCCCcEEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEeccccCCCcCChhhcch
Q psy451          117 RTGLIGKIIGQYPLWMKNGEKCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESGDPSLYTKEYCGL  196 (296)
Q Consensus       117 r~GlIg~KiGMt~i~~~~G~~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~~~~~~tKp~~G~  196 (296)
                      +.||||+|+|||++||+||+++||||||++||+|++++|.|             +|||+|+|+|+++.++++++||.+|+
T Consensus         1 m~Glig~KiGMT~v~~~~G~~vpVTVle~~p~~V~~vkt~~-------------kdgy~a~~~~~~~~~~k~~~K~~~g~   67 (209)
T d2gycb1           1 MIGLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLA-------------NDGYRAIQVTTGAKKANRVTKPEAGH   67 (209)
T ss_dssp             CCCCEEEEEEEEECCCSSSCCCEEEEEECCCEECCCEEEEE-------------EETTEEEEEEEECSSCHHHHHHHHHH
T ss_pred             CceEeEEecCCceEECCCCcEEEEEEEEeCCCEEEEEEeec-------------cCCcceeEecccccccccCChhHhcc
Confidence            36999999999999999999999999999999999999999             89999999999999999999999999


Q ss_pred             HHhcCCCCCceEEEEEeCCCCCCCCCCeeecccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccC
Q psy451          197 FKNSGVPPKKKLCRFIITPDAMLPPGTPLTAAHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIA  276 (296)
Q Consensus       197 F~kaGv~pKr~L~EFrVs~~a~l~~Gt~L~a~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG  276 (296)
                      |++++++|++++.||++++++++++|+++++++|++||+|||+|+|||||||||||||||+|+|+|||+++.||++||+|
T Consensus        68 ~~k~~~~~~~~~~e~~~~~~~~~~~G~~~~~~~F~~Gq~VDV~g~TKGKGFqGv~KR~gf~g~~~sHg~~~~~r~~gs~g  147 (209)
T d2gycb1          68 FAKAGVEAGRGLWEFRLAEGEEFTVGQSISVELFADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIG  147 (209)
T ss_dssp             TTTTCEEEEECCCSSSCCSTHHHHTSEECHHHHCCTTCEEEEEEECCCCCSCCSTTTTCCCCCCGGGTSSSCCSCCSCSS
T ss_pred             hhhhcccccceeeeecccchHhhccCcccccceeecCceEEEEEEEeccccCCceeeeeecccCcccCCcceeccCcccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCcccCCCcCCCCCCC
Q psy451          277 SGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       277 ~~~~PgRV~pGkKMpG~mG~  296 (296)
                      ++.+|+|||||+|||||||+
T Consensus       148 ~~~~PgrV~~g~~maG~mG~  167 (209)
T d2gycb1         148 QNQTPGKVFKGKKMAGQMGN  167 (209)
T ss_dssp             SSSSSCCCCSSSCCCCCCCC
T ss_pred             ccCcCCeEeeccccCCccCC
Confidence            99999999999999999996

>d1vqob1 b.43.3.2 (B:1-337) Ribosomal protein L3 {Archaeon Haloarcula marismortui [TaxId: 2238]}

class: All beta proteins
fold: Reductase/isomerase/elongation factor common domain
superfamily: Translation proteins
family: Ribosomal protein L3
domain: Ribosomal protein L3
species: Archaeon Haloarcula marismortui [TaxId: 2238]

Probab=100.00  E-value=3.4e-53  Score=401.44  Aligned_cols=168  Identities=20%  Similarity=0.208  Sum_probs=145.5

Q ss_pred             CceeeeeEEEeecceeecCCCc----------EEEeeEEEecCeEEEEEeCCCCCCCCCCCCCCCCCCCcceEEEecccc
Q psy451          115 SKRTGLIGKIIGQYPLWMKNGE----------KCRTTLVQVVDNHIIKYIPPEEFKPNRKPYRGEPKRKLGCLLVGAESG  184 (296)
Q Consensus       115 s~r~GlIg~KiGMt~i~~~~G~----------~vpvTVLqv~pn~Vv~~kt~E~~~~~~~~~~~~~kdgY~avqVG~~~~  184 (296)
                      ....||||+|+||||||++||+          .+||||||++||+|++++|.|             +|||+|+|||+...
T Consensus        36 ~~~~G~iG~KvGMT~v~~~d~~~~S~~~gk~i~vPVTVIe~~p~~V~~vkt~e-------------~dgy~a~qlg~~~~  102 (337)
T d1vqob1          36 PGVQGFAGYKAGMTHVVLVNDEPNSPREGMEETVPVTVIETPPMRAVALRAYE-------------DTPYGQRPLTEVWT  102 (337)
T ss_dssp             CEECCEEEEEEEEEEEEEECCCTTSTTTTSEEEEEEEEEECCCEEEEEEEEEE-------------EETTEEEEEEEEEC
T ss_pred             cceEEEEEEccCceEEEEeCCCcCCcccCceeEeeeEEEEcCCceEEEEEEEe-------------cCCCceEEEEEEEc
Confidence            4678999999999999999995          899999999999999999999             89999999997543


Q ss_pred             C------CCcCChhhcchHHh----------------------------cCCCC-CceEEEEEeCCCC----------CC
Q psy451          185 D------PSLYTKEYCGLFKN----------------------------SGVPP-KKKLCRFIITPDA----------ML  219 (296)
Q Consensus       185 ~------~~~~tKp~~G~F~k----------------------------aGv~p-Kr~L~EFrVs~~a----------~l  219 (296)
                      +      .+.++++..+++++                            .+++. |.+|.||+|+...          .+
T Consensus       103 ~~~~~~~~r~~~~~~~~~~k~~~~~~k~~~~~~~~~~vrvi~~tqp~~~~~~~~KKp~v~E~~v~Gg~~~e~~~~~~~~~  182 (337)
T d1vqob1         103 DEFHSELDRTLDVPEDHDPDAAEEQIRDAHEAGDLGDLRLITHTVPDAVPSVPKKKPDVMETRVGGGSVSDRLDHALDIV  182 (337)
T ss_dssp             SCCCTTGGGTSCCCSSCCHHHHHHHHHHHHHHTCEEEEEEEEECCGGGCTTSCCCSCCEEEEEEESSCHHHHHHHHHHHH
T ss_pred             cccchhhhcccchhhccchhhcchhhhhhhhhcccceEEEEeeeccccccccccccchheeeeccCCchhhhhhhhhhhh
Confidence            2      23455555444433                            23444 5789999997532          35


Q ss_pred             CCCCeeec-ccCCCCCeeEEEEEeeeeccccceeeeccCCCCCCCCCCCCcCCCcccCCCCCCCcccCCCcCCCCCCC
Q psy451          220 PPGTPLTA-AHFRPREFLDVRGLTVDRGFQGVMKRWGFKGMPATHGVTKSHRRGGCIASGAGKARVYPGGVLQRGLKC  296 (296)
Q Consensus       220 ~~Gt~L~a-~hF~~Gq~VDV~G~TkGKGFqGVmKRwGFkGgPaSHG~sK~HRrpGSIG~~~~PgRV~pGkKMpG~mG~  296 (296)
                      ++|++|.+ ++|++||+|||+|+|||||||||||||||+++|+|||++++||++||||++ +|+|||||++||||||+
T Consensus       183 ~~G~ei~v~dvF~~G~~VDV~g~TKGKGFqGvvKR~gf~~~p~sHg~~~~hR~~GsiG~~-~PgRV~kg~kmaGqmG~  259 (337)
T d1vqob1         183 EDGGEHAMNDIFRAGEYADVAGVTKGKGTQGPVKRWGVQKRKGKHARQGWRRRIGNLGPW-NPSRVRSTVPQQGQTGY  259 (337)
T ss_dssp             HHTCEECGGGTCCTTCEEEEEEECCCCCEECHHHHHCCCCCCGGGGSSSCSSCCSCSCCS-SSSSCCTTSCCCEECSC
T ss_pred             ccccEEEeeheecCCCEEEEEEEecccccccceEeeeecccccccCCCccccCCcccCCC-CCCceecccccCCccCC
Confidence            78999998 589999999999999999999999999999999999999999999999997 69999999999999996