Query 038172
Match_columns 323
No_of_seqs 224 out of 1285
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 08:19:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038172.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038172hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00103 60S ribosomal protein 100.0 2E-122 4E-127 896.2 27.4 298 21-323 1-298 (390)
2 PRK04231 rpl3p 50S ribosomal p 100.0 2E-112 4E-117 817.4 26.5 280 23-319 1-282 (337)
3 TIGR03626 L3_arch archaeal rib 100.0 2E-110 5E-115 800.0 26.5 275 27-319 1-277 (330)
4 KOG0746 60S ribosomal protein 100.0 1E-109 3E-114 786.8 12.0 289 34-323 1-289 (384)
5 PF00297 Ribosomal_L3: Ribosom 100.0 2.2E-75 4.7E-80 548.9 18.7 228 70-319 1-233 (263)
6 COG0087 RplC Ribosomal protein 100.0 6.7E-63 1.4E-67 451.4 15.1 186 63-314 1-189 (218)
7 TIGR03625 L3_bact 50S ribosoma 100.0 1.7E-56 3.7E-61 406.0 16.7 180 65-314 1-184 (202)
8 CHL00143 rpl3 ribosomal protei 100.0 2.1E-56 4.6E-61 407.1 16.4 182 63-314 2-186 (207)
9 PRK00001 rplC 50S ribosomal pr 100.0 2.8E-56 6.1E-61 406.9 16.8 180 63-314 2-185 (210)
10 KOG3141 Mitochondrial/chloropl 100.0 5.2E-45 1.1E-49 342.6 15.3 185 61-314 60-248 (310)
11 KOG0746 60S ribosomal protein 88.0 0.19 4.2E-06 49.6 0.7 55 21-75 167-221 (384)
12 smart00739 KOW KOW (Kyprides, 36.9 41 0.00089 20.3 2.6 24 232-256 2-25 (28)
13 PF08262 Lem_TRP: Leucophaea m 20.4 39 0.00084 17.3 0.2 6 247-252 4-9 (10)
No 1
>PTZ00103 60S ribosomal protein L3; Provisional
Probab=100.00 E-value=1.7e-122 Score=896.21 Aligned_cols=298 Identities=73% Similarity=1.221 Sum_probs=284.8
Q ss_pred cCCCCCCCCCCCCCCcCCcccccccCCccccCCCCCCCCCceeeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEE
Q 038172 21 MSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIE 100 (323)
Q Consensus 21 mshrkf~~PR~GSl~f~PrKRa~~~~~~vrs~P~~~~~~~~~l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE 100 (323)
|||||||+||||||||+|||||++++|+|||||+||.+.+|||+||+|||||||||+++||+|+|+++||||++||||||
T Consensus 1 MshRk~~~PR~GSLgf~PRKRa~~~~~rvrswP~dd~~~~p~L~aF~GyKAGMTHvv~~~drp~S~~~~kEv~~~VTIiE 80 (390)
T PTZ00103 1 MSHRKFEHPRHGSLGFLPRKRCRRHRGRIRSFPKDDPTQPPHLTAFMGYKAGMTHIVRDVDRPGSKLHKKEVVEAVTIIE 80 (390)
T ss_pred CCCCCCCCCCCCcCCcCCccccccCCCCcccCCCcCCCCCceEeeeeeeccCCeEEEEecCCCCCCcCCCeEEeeeEEEe
Confidence 99999999999999999999999999999999999987889999999999999999999999999999999999999999
Q ss_pred eCCeEEEEEEeeeeCCCCcccceEEeccccchhHhhhhccccchhhhhhchhcccccccccchhhhHHHHHHhhccceEE
Q 038172 101 TPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVV 180 (323)
Q Consensus 101 ~pP~~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~i 180 (323)
||||+|+|+|||.+||+||++|+||||+||++||+||||||||+|+++||+++.+++++ .+++++.++.|+++|++|
T Consensus 81 tPPm~V~GirgY~~tp~Gl~~l~~vwA~~l~~e~~rr~yk~~~~s~k~af~k~~~~~~~---~~~~~~~~~~l~k~~~~I 157 (390)
T PTZ00103 81 APPMVVVGIVGYRETPRGLRALTTVWAHHLSDEFRRRFYKNWYKSKKKAFTKYKKFAAT---KKAEERTLKRIKKYCSVI 157 (390)
T ss_pred CCCeEEEEEEEEEECCCCcEEeEEEeeccCcHHHhhhhccccchhhhhhhhhhhhhhcc---hhhHHHHHHHHhhcccEE
Confidence 99999999999999999999999999999999999999999999999999998765432 245678888888999999
Q ss_pred EeehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhcCCCcccCcccccCCCceEEEEEEecccccccceeeeccCC
Q 038172 181 RVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 260 (323)
Q Consensus 181 rvi~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~lGk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~ 260 (323)
|||+||||++++ |+||||||||||||||+++++||||+++||++|+++|||++||+|||||+|||||||||||||||++
T Consensus 158 Rvi~hTqp~~~~-l~kKkp~imEiqv~GGsv~~k~d~a~~llgk~i~v~dvF~~ge~VDVigvTKGKGfqGvvKRwg~~~ 236 (390)
T PTZ00103 158 RVIAHTQPSKLP-LGQKKAHVMEIQVNGGSVAEKVDFAKSLLEKEVPVDSVFQQNEMIDVIGVTKGHGFEGVVKRWGVTR 236 (390)
T ss_pred EEEEEcchhhcC-cCCcCccEEEEeecCCCHHHHHHHHHHHhcCeechhhhccCCCEeeeEEEEcCCccccCeeccccCC
Confidence 999999999998 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCccccCCCCCCccCCCCCCCCCCCceEEEeeeEEEEEcCCCCccCCCCCCCC
Q 038172 261 LPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGITEFD 323 (323)
Q Consensus 261 ~prkthk~~RkvGsiG~~~P~rV~~~v~~aGQmG~h~rTe~NkrI~kIg~~~~~~~~~~t~~d 323 (323)
+|+++|++||++||||+|||+||+|+++||||||||+|||+||+||+||.+.+. .+++|+||
T Consensus 237 ~p~ktH~~~RkvGsiG~w~P~RV~~~v~~aGQmG~h~rTe~Nk~I~rI~~~~~~-~~~~t~~~ 298 (390)
T PTZ00103 237 LPRKTHRGLRKVACIGAWHPARVQYTVPRAGQHGYHHRTELNKKIYRIGVAEDP-NNATTEAD 298 (390)
T ss_pred CCccccCCCCCCCccCCCCCCcccCCCccCcCCCCceEEEeccEEEEEcCCCCc-cccccccc
Confidence 998899999999999999999999999999999999999999999999986544 57777776
No 2
>PRK04231 rpl3p 50S ribosomal protein L3P; Reviewed
Probab=100.00 E-value=1.7e-112 Score=817.40 Aligned_cols=280 Identities=43% Similarity=0.757 Sum_probs=264.1
Q ss_pred CCCCCCCCCCCCCcCCcccccccCCccccCCCCCCCCCceeeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEEeC
Q 038172 23 HRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETP 102 (323)
Q Consensus 23 hrkf~~PR~GSl~f~PrKRa~~~~~~vrs~P~~~~~~~~~l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE~p 102 (323)
|||||+||||||||+|||||++++|+|||||+||. +|+|+||+|||||||||+++||||+|+++|||+++||||||||
T Consensus 1 ~~k~~~PRrGSlgf~PRKRa~~~~prirswP~~d~--~p~l~~F~GyKaGMTHv~~~ddrp~S~~~gkEi~~~VTviEtP 78 (337)
T PRK04231 1 MRKIHRPRRGSLAFSPRKRAKSIVPRIRSWPEIDG--EPKLLGFAGYKAGMTHVIMIDDRPNSPTEGKEIFVPVTVLETP 78 (337)
T ss_pred CCCCCCCCcCcCCcCCccccccCCCCcccccCCCC--CcceeEeeeeccCCeEEEEecCCCCCccCCCeEEEeEEEEeCC
Confidence 69999999999999999999999999999999984 8999999999999999999999999999999999999999999
Q ss_pred CeEEEEEEeeeeCCCCcccceEEeccccchhHhhhhccccchhhhhhchhcccccccccchhhhHHHHHHhhccceEEEe
Q 038172 103 PMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRV 182 (323)
Q Consensus 103 P~~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~irv 182 (323)
||+|+|+|||.+|++||++++||||++|++|+.||||++||.+.+.+|. +++++++. ++|++|||
T Consensus 79 Pm~V~gir~Y~~~~~Gl~~~~evwa~~l~~~~~Rr~~~~~~~~~~~~~~-------------~~~~~~~~--~~~~~vR~ 143 (337)
T PRK04231 79 PMRVAAIRAYEKDPYGLKVLTEVWAEDLDKELERRITLPKKDEKKKAFE-------------KLLKLLEE--GKIVDVRV 143 (337)
T ss_pred CeEEEEEEEEeECCCCcEEEEEEecccchHHHhhhccccccchhhHHHH-------------HHHHHhhc--CCeeEEEE
Confidence 9999999999999999999999999999999999999999988866663 12334432 68999999
Q ss_pred ehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhcCCCcccCcccccCCCceEEEEEEecccccccceeeeccCCCC
Q 038172 183 LAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLP 262 (323)
Q Consensus 183 i~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~lGk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~~p 262 (323)
|+||||++++||+|||||||||||||++++++||||+++||++|+++|+|++||+|||+|+|||||||||||||||+++|
T Consensus 144 i~~Tqp~~~~~l~kKkp~i~Ei~v~Gg~i~~k~~~a~~llG~~i~v~dvF~~Ge~VDV~gvTKGKGfqGvvKRwg~~~~p 223 (337)
T PRK04231 144 IVHTQPKLVTGVPKKKPEIMEIRIGGGSVEERLEYAKELLGKEISISDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLP 223 (337)
T ss_pred EEEechhhccCCCCCCCCEEEEeecCCCHHHHHHHHHHhcCCccchhhhccCCCEEEEEEEEeCCccccCeeccCcCCCC
Confidence 99999999877999999999999999999999999999999999998899999999999999999999999999999999
Q ss_pred CCCC--CCCCCCccccCCCCCCccCCCCCCCCCCCceEEEeeeEEEEEcCCCCccCCCC
Q 038172 263 RKTH--RGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGI 319 (323)
Q Consensus 263 rkth--k~~RkvGsiG~~~P~rV~~~v~~aGQmG~h~rTe~NkrI~kIg~~~~~~~~~~ 319 (323)
++|+ ++||++||||+|||+||+|+++||||||||+|||+||+||+||++.++|||..
T Consensus 224 ~~Hg~~~~~R~~GsiG~~~P~rV~~~~~maGqmG~~~rT~~N~~I~kI~~~~~~ItP~G 282 (337)
T PRK04231 224 RKHKRRGGSRHIGTLGPWNPSRVMWTVPQAGQMGFHQRTEYNKRILKIGDDGDEITPKG 282 (337)
T ss_pred CccCCCCCCCCCcccCCCCCCcccCCCccCCCCCCceEEEecCEEEEEcCCccccccCC
Confidence 7554 36999999999999999999999999999999999999999999888899863
No 3
>TIGR03626 L3_arch archaeal ribosomal protein L3. 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.
Probab=100.00 E-value=2.3e-110 Score=800.03 Aligned_cols=275 Identities=41% Similarity=0.769 Sum_probs=256.8
Q ss_pred CCCCCCCCCcCCcccccccCCccccCCCCCCCCCceeeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEEeCCeEE
Q 038172 27 EHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMV 106 (323)
Q Consensus 27 ~~PR~GSl~f~PrKRa~~~~~~vrs~P~~~~~~~~~l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE~pP~~V 106 (323)
|+||||||||+|||||++++|+|||||+|| .+|||+||+|||||||||+++||||+|+++|||+++||||||||||+|
T Consensus 1 ~~PR~GSlgf~PRKRa~~~~~rirswP~~d--~~~~l~~F~GyKaGMTHvv~~~drp~S~~~gkEv~~~VTviEtPPm~v 78 (330)
T TIGR03626 1 HRPRRGSLAFSPRKRAKRIVPRIRSWPEVD--GEPKLQGFAGYKAGMTHVIMVDDRKNSPTEGKEISVPVTVLEAPPLRV 78 (330)
T ss_pred CCCCcccCCcCCccccccCCCCcccccCCC--CCceeeeeeeeccCCeEEEEecCCCCCCcCCCeEEeeeEEEecCCeEE
Confidence 689999999999999999999999999987 589999999999999999999999999999999999999999999999
Q ss_pred EEEEeeeeCCCCcccceEEeccccchhHhhhhccccchhhhhhchhcccccccccchhhhHHHHHHhhccceEEEeehhh
Q 038172 107 VGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHT 186 (323)
Q Consensus 107 vgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~irvi~~t 186 (323)
+|+|||.+||+||++++||||++|++||+|+||+ . ++++.+ +++++.++.|+++|++||||+||
T Consensus 79 ~gir~Y~~t~~Gl~~l~~vwa~~l~~e~~r~~~~----------~---k~~~~~---~~~~~~~~~l~~~~~~iRvi~~T 142 (330)
T TIGR03626 79 AAIRAYGKDPYGLKVLTEVWANNLDKELSRKITL----------P---KNYDVE---EKLEKIEELLENDADDVRLIVHT 142 (330)
T ss_pred EEEEEEEECCCCcEEEEEEeeccCcHHHhhcccc----------c---cccchh---hHHHHHHHHHhcCceEEEEEEEe
Confidence 9999999999999999999999999999999984 1 222221 34566677777789999999999
Q ss_pred hhhhccCcccCCceEEEEEecCCcchhhhhhhhcCCCcccCcccccCCCceEEEEEEecccccccceeeeccCCCCCCC-
Q 038172 187 QIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKT- 265 (323)
Q Consensus 187 q~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~lGk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~~prkt- 265 (323)
||++++||+|||||||||||||++++++||||+++||++|+++|+|++||+|||+|+|||||||||||||||+++|++|
T Consensus 143 qp~~~~~~~kKkp~imEi~v~Gg~i~~k~~~a~~~lG~~i~v~dvF~~Ge~VDV~gvTKGKGfqGvvKRwg~~~~p~~hg 222 (330)
T TIGR03626 143 QPKLVTGVPKKKPEIMEIRIGGGSVEERFEYALSILGKEISVSDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHK 222 (330)
T ss_pred ccccccCcccCCccEEEEeecCCCHHHHhHhhHhcCCcEEehhheecCCCEEEEEEEEcCCccccCeeccccCCCCCccC
Confidence 9999877999999999999999999999999999999999999999999999999999999999999999999999754
Q ss_pred -CCCCCCCccccCCCCCCccCCCCCCCCCCCceEEEeeeEEEEEcCCCCccCCCC
Q 038172 266 -HRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGI 319 (323)
Q Consensus 266 -hk~~RkvGsiG~~~P~rV~~~v~~aGQmG~h~rTe~NkrI~kIg~~~~~~~~~~ 319 (323)
|+.||++||||+|||+||+|+++||||||||+|||+||+||+||+++++|||..
T Consensus 223 ~~~~~R~~GsiG~~~P~rV~~~~~maGqmG~~~rT~~N~~I~kI~~e~~~ItP~G 277 (330)
T TIGR03626 223 RRKGGRHIGTLGPWTPSRVRWTVPQAGQMGYHQRTEYNKRILKIGEDGDEITPKG 277 (330)
T ss_pred CCCCCCCCcccCCCCCCcccCCcccCCCCCCceEEEecCEEEEEcCccccccccC
Confidence 478999999999999999999999999999999999999999999888888863
No 4
>KOG0746 consensus 60S ribosomal protein L3 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-109 Score=786.79 Aligned_cols=289 Identities=71% Similarity=1.213 Sum_probs=286.2
Q ss_pred CCcCCcccccccCCccccCCCCCCCCCceeeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEEeCCeEEEEEEeee
Q 038172 34 LGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYV 113 (323)
Q Consensus 34 l~f~PrKRa~~~~~~vrs~P~~~~~~~~~l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE~pP~~Vvgi~gY~ 113 (323)
|||||||||++|+|++++||+||+|+|+|||+|||||||||||+++.|||||+.+++|++++|||||+|||+|+|++||.
T Consensus 1 l~F~P~kRs~r~rgkvkafPkDD~skpvhlT~FlgYKAGMThivRe~drpgsK~~kkEv~eAVTi~etPpmvVvgvvgyv 80 (384)
T KOG0746|consen 1 LGFLPRKRSSRHRGKVKAFPKDDPSKPVHLTAFLGYKAGMTHIVREVDRPGSKVNKKEVVEAVTIVETPPMVVVGIVGYV 80 (384)
T ss_pred CCCCccchhhhhccccccCCCCCCCCceeEeeeecccccceeeehhhcCcccccchhhheeeEEEeccCCEEEEEEeeee
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eCCCCcccceEEeccccchhHhhhhccccchhhhhhchhcccccccccchhhhHHHHHHhhccceEEEeehhhhhhhccC
Q 038172 114 KTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKG 193 (323)
Q Consensus 114 kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~irvi~~tq~~k~~g 193 (323)
+||.||++|.+|||+||||||+||||+|||+|+++||++|+++|++++++++++++++.|++||++||||+|||+++++
T Consensus 81 ~Tp~Glr~l~tv~A~hlSde~~Rrfyknw~kskkkaft~~~k~~~~~~gk~~~~~~~~~~kky~~virv~ahtq~~~~~- 159 (384)
T KOG0746|consen 81 ETPRGLRTLKTVWAEHLSDECKRRFYKNWHKSKKKAFTKYCKKWQDEDGKKQLEKDFSSMKKYCQVIRVIAHTQMRLLP- 159 (384)
T ss_pred ecCchHHHHHHHHHHHhhHHHHHHHHHhhhhhhhHHHHHHhhhhhhhhcchhhHHHHHHHHhhhheeeeeeechhhhhh-
Confidence 9999999999999999999999999999999999999999999988888899999999999999999999999999999
Q ss_pred cccCCceEEEEEecCCcchhhhhhhhcCCCcccCcccccCCCceEEEEEEecccccccceeeeccCCCCCCCCCCCCCCc
Q 038172 194 LKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVA 273 (323)
Q Consensus 194 l~~kk~~i~Ei~V~gg~~~~~~~~a~~~lGk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~~prkthk~~RkvG 273 (323)
+.|||+||||||||||+++++++||.+.|++++.++++|+++|+||+||+|||+||+||++|||++.||||||+++|+|+
T Consensus 160 l~qkkahlmeiqvngGtia~KvdwA~~~lEkqv~v~~vF~qdemId~IgvtkGkGykGvt~rw~tkklprkthrglrkva 239 (384)
T KOG0746|consen 160 LRQKKAHLMEIQVNGGTVAEKVDWARERLEKQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVA 239 (384)
T ss_pred hhhhhhhheeeeecCCcHHHHhHHHHhhhhccCchhhccccccccceeeeeecccccccccccccccCcchhcccchhee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCccCCCCCCCCCCCceEEEeeeEEEEEcCCCCccCCCCCCCC
Q 038172 274 CIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGITEFD 323 (323)
Q Consensus 274 siG~~~P~rV~~~v~~aGQmG~h~rTe~NkrI~kIg~~~~~~~~~~t~~d 323 (323)
|||+|||++|.|+|.+|||+|||+|||.|++||+|+....+.||||||||
T Consensus 240 cigawhpa~V~~sVaRaGqkgyHhrTeiNkkiY~ig~g~~~~~nastdyD 289 (384)
T KOG0746|consen 240 CIGAWHPARVAFSVARAGQKGYHHRTEINKKIYRIGQGKLIKNNASTDYD 289 (384)
T ss_pred ecccccccceeeeeeccccccchhhhhhhhheeecccccccccccccCcc
Confidence 99999999999999999999999999999999999999888999999999
No 5
>PF00297 Ribosomal_L3: Ribosomal protein L3; InterPro: IPR000597 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. 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 ....
Probab=100.00 E-value=2.2e-75 Score=548.91 Aligned_cols=228 Identities=39% Similarity=0.668 Sum_probs=202.4
Q ss_pred eecceEEEeccCCCCCcCCCCcEEEeeEEEEeCCeEEEEEEeeeeCCCCcccceEEeccccchhHhhhhc--cccchhhh
Q 038172 70 KAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFY--KNWCKSKK 147 (323)
Q Consensus 70 KaGMThv~~~ddr~~s~~~~kev~~pVTVlE~pP~~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~--k~~y~s~~ 147 (323)
||||||||++||+|+|+++++|+++||||||+|||+|+|+++|.++++||++++++|++++++++.|+|+ +|+|+++|
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 8999999999999999999999999999999999999999999999999999999999999999999998 78999998
Q ss_pred hhchhcccccccccchhhhHHHHHHhhccceEEEeehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhcCCC--cc
Q 038172 148 KAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFE--KQ 225 (323)
Q Consensus 148 ~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~irvi~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~lG--k~ 225 (323)
+++.... +.+.++|+|+|+++..++ +++|+++|+||+|+++++++++|||.+.|+ ++
T Consensus 81 ~~~~~~~--------------------~~~~~~~~~~~~~~~~~~-i~~~k~~i~E~~v~~~~~~~~~~~a~~~l~~G~~ 139 (263)
T PF00297_consen 81 LGFGEKK--------------------EKRVSKRLLGHFQKAGVP-IPKKKPHIMEFRVSGGDVEEKLEYAKELLGVGKE 139 (263)
T ss_dssp ECCCHHC--------------------CSTSCCECCEEHHGGGSS-SS-CSSEEEEEECESSSHHHHHHHHHHHCSCSSE
T ss_pred hhhhhcc--------------------ccccchhhhhcccccccc-hhhccceeEEecccccChhHhhhhhhhhcCccce
Confidence 8876321 356788999999999988 999999999999999999999999999987 99
Q ss_pred cCcccccCCCceEEEEEEecccccccceeeeccCCCCCCCCCC-CCCCccccCCCCCCccCCCCCCCCCCCceEEEeeeE
Q 038172 226 IPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRG-LRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKK 304 (323)
Q Consensus 226 i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~~prkthk~-~RkvGsiG~~~P~rV~~~v~~aGQmG~h~rTe~Nkr 304 (323)
|+++|+|++||+|||+|+|||||||||||||||+++|++|..+ ||++||||+|+|+||+||++||||||||+||++||+
T Consensus 140 i~v~dvF~~Gq~VDV~gvTKGKGFqGv~KR~gf~~~p~sHg~~~hR~~GsiG~~~PgrV~~g~kmaGqmG~~~rT~~Nl~ 219 (263)
T PF00297_consen 140 IKVNDVFKEGQYVDVIGVTKGKGFQGVMKRWGFKGGPASHGSSKHRKPGSIGAWTPGRVFKGKKMAGQMGNHRRTEQNLR 219 (263)
T ss_dssp BSCCTTSSTTSEEEEEEEE-EEEEETHHHHCSS--S-SSSSSTTSSSSS-SSCSSSSSCGTTSTSSEEESSSEEEEEEEE
T ss_pred eehhheecccceEEEEEeecCccccccccccCCCccCCCCCCcccCCCCcccccccceeecccccCccccceEEEecCcE
Confidence 9998899999999999999999999999999999999654444 999999999999999999999999999999999999
Q ss_pred EEEEcCCCCccCCCC
Q 038172 305 VYKLGKGGQESHTGI 319 (323)
Q Consensus 305 I~kIg~~~~~~~~~~ 319 (323)
|++|+++ .+|||..
T Consensus 220 I~~i~~~-~~i~p~g 233 (263)
T PF00297_consen 220 IVKIDDD-KEINPKG 233 (263)
T ss_dssp EEEEETS-SSSSSTT
T ss_pred EEEeCCC-ccccCCC
Confidence 9999994 6667764
No 6
>COG0087 RplC Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.7e-63 Score=451.42 Aligned_cols=186 Identities=34% Similarity=0.522 Sum_probs=157.8
Q ss_pred eeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEEeCCeEEEEEEeeeeCCCCcccceEEeccccchhHhhhhcccc
Q 038172 63 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNW 142 (323)
Q Consensus 63 l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE~pP~~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~ 142 (323)
++||+|||+||||||++++ +++||||||+|||+|+|++.|. +|+
T Consensus 1 ~~G~~G~KvGMT~vf~~~g----------~~vPVTVie~~p~~V~~vkt~e--------------------------~dG 44 (218)
T COG0087 1 MLGFLGYKVGMTHVFDERG----------ISVPVTVIEVPPNVVVQVKTYE--------------------------TDG 44 (218)
T ss_pred CcccceEeccceEEEccCC----------cEEEEEEEEcCCcEEEEEEecc--------------------------cCC
Confidence 4799999999999999977 9999999999999999997665 555
Q ss_pred chhhhhhchhcccccccccchhhhHHHHHHhhccceEEEeehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhcCC
Q 038172 143 CKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFF 222 (323)
Q Consensus 143 y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~irvi~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~l 222 (323)
|++.|+++.... .+.+.|+|++++++ + +.+|+++|+|||+++.+.++++| +
T Consensus 45 y~a~qv~~~~~k---------------------~~~~~k~~~g~~~k--~-~~~~k~~l~E~rv~~~~~~~~~e-----~ 95 (218)
T COG0087 45 YRAVQVGAGDRK---------------------AKRVNKPLVGHFAK--A-GVKPKRHLAEFRVGGGDVAEKFE-----V 95 (218)
T ss_pred cEEEEEeeccee---------------------eehhccceeeeecc--c-CCCCCCeEEEEEecCccccceec-----h
Confidence 666666665311 13345667767666 3 34589999999999988878899 4
Q ss_pred CcccCcccccCCCceEEEEEEecccccccceeeeccCCCCCCCCC--CCCCCcccc-CCCCCCccCCCCCCCCCCCceEE
Q 038172 223 EKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR--GLRKVACIG-AWHPARVSFTVARAGQNGYHHRT 299 (323)
Q Consensus 223 Gk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~~prkthk--~~RkvGsiG-~~~P~rV~~~v~~aGQmG~h~rT 299 (323)
|++|.++ +|++||+|||+|+||||||||+||||||+++|++|.. .||++|||| +|||+|||||++||||||||+||
T Consensus 96 g~ei~~d-vF~~g~~VDV~gvTKGKGF~G~~KR~gf~~~p~sHg~~~~hR~~GSiG~~~~P~rV~~g~kmaG~mG~~~vT 174 (218)
T COG0087 96 GQEITVD-VFKEGELVDVTGVTKGKGFQGVMKRWGFKGGPASHGSSLSHRRPGSIGQRQTPGRVFKGKKMAGHMGNERVT 174 (218)
T ss_pred hhhhchh-hccCCCEEEEEEEecccccceeeeecccccCCcccCCCccccCCcccCCCCCCCceeCCCccCccCCCceEE
Confidence 6666664 9999999999999999999999999999999964444 499999999 69999999999999999999999
Q ss_pred EeeeEEEEEcCCCCc
Q 038172 300 EMNKKVYKLGKGGQE 314 (323)
Q Consensus 300 e~NkrI~kIg~~~~~ 314 (323)
++||+|++||.+.+.
T Consensus 175 vqNl~Vv~id~e~~~ 189 (218)
T COG0087 175 VQNLEVVKVDVENNL 189 (218)
T ss_pred EEeeEEEEEcCCCCE
Confidence 999999999988764
No 7
>TIGR03625 L3_bact 50S ribosomal protein L3, bacterial. 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.
Probab=100.00 E-value=1.7e-56 Score=406.04 Aligned_cols=180 Identities=29% Similarity=0.413 Sum_probs=161.9
Q ss_pred eeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEEeCCeEEEEEEeeeeCCCCcccceEEeccccchhHhhhhccccch
Q 038172 65 AFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCK 144 (323)
Q Consensus 65 gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE~pP~~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~y~ 144 (323)
|+||+|+|||++|+++| ..+||||||+.||+|+++ +|.+ +|+|+
T Consensus 1 Glig~KiGMt~if~~~G----------~~ipvTVl~v~~~~V~q~----kt~e----------------------~dGY~ 44 (202)
T TIGR03625 1 GLLGKKVGMTQIFTEDG----------KAVPVTVIEVGPNVVTQV----KTVE----------------------KDGYS 44 (202)
T ss_pred CccEEecceeEEECCCC----------cEEEEEEEEeCCcEEEEE----eCCC----------------------CCCcE
Confidence 68999999999999999 899999999999999999 9999 99999
Q ss_pred hhhhhchhcccccccccchhhhHHHHHHhhccceEEEeehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhcCCCc
Q 038172 145 SKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEK 224 (323)
Q Consensus 145 s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~irvi~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~lGk 224 (323)
|+|+||...+. +++++++. +||++++ ++ ++++|.||++...+ .++ +|+
T Consensus 45 AvqvG~~~~~~--------~~~~Kp~~--------------G~f~Kag-~~-pkr~l~Efrv~~~~---~~~-----~G~ 92 (202)
T TIGR03625 45 AVQLGFGEKKE--------KRVNKPEA--------------GHFAKAG-VE-PKRHLREFRVDDLE---GYE-----VGD 92 (202)
T ss_pred EEEEecccccc--------ccCChhhh--------------hHHHHcC-CC-cCcEEEEEEcCCcc---cCC-----CCC
Confidence 99999985432 34454444 4999987 88 69999999997532 355 999
Q ss_pred ccCcccccCCCceEEEEEEecccccccceeeeccCCCCCCCC---CCCCCCccccCC-CCCCccCCCCCCCCCCCceEEE
Q 038172 225 QIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH---RGLRKVACIGAW-HPARVSFTVARAGQNGYHHRTE 300 (323)
Q Consensus 225 ~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~~prkth---k~~RkvGsiG~~-~P~rV~~~v~~aGQmG~h~rTe 300 (323)
+|++ |+|.+||+|||+|+|||||||||||||||+++| ++| +.||++||||+| +|+|||++++||||||++++|+
T Consensus 93 ~l~v-~~F~~G~~VDV~g~skGKGFqGvmKR~gf~g~~-~sHG~s~~hR~~GSiG~~~~PgrV~kgkkm~G~mG~~~~T~ 170 (202)
T TIGR03625 93 EITV-DIFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGP-ASHGNSKSHRAPGSIGQRQTPGRVFKGKKMAGHMGNERVTV 170 (202)
T ss_pred EEEe-eeecCCCEEEEEEEEcCCcceeceEecccCCCC-cccCCCCCCCCCCccCCCCCCCeEcCCCccCCCcCCeeEEE
Confidence 9999 599999999999999999999999999999999 676 579999999999 5999999999999999999999
Q ss_pred eeeEEEEEcCCCCc
Q 038172 301 MNKKVYKLGKGGQE 314 (323)
Q Consensus 301 ~NkrI~kIg~~~~~ 314 (323)
+||+|++||.+.+.
T Consensus 171 ~Nl~V~~id~e~n~ 184 (202)
T TIGR03625 171 QNLEVVKVDAERNL 184 (202)
T ss_pred eccEEEEEcCCCCE
Confidence 99999999988775
No 8
>CHL00143 rpl3 ribosomal protein L3; Validated
Probab=100.00 E-value=2.1e-56 Score=407.11 Aligned_cols=182 Identities=26% Similarity=0.388 Sum_probs=164.6
Q ss_pred eeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEEeCCeEEEEEEeeeeCCCCcccceEEeccccchhHhhhhcccc
Q 038172 63 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNW 142 (323)
Q Consensus 63 l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE~pP~~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~ 142 (323)
.+|+||+|+|||++|+++| .++||||||+.||+|+++ +|.+ +|+
T Consensus 2 ~~glig~KiGMt~~f~~~G----------~~vpvTvl~~~~~~V~~~----kt~e----------------------~dG 45 (207)
T CHL00143 2 SIGLLGTKIGMTQIFDETG----------NAIPVTILKVGPCVITQI----KTLT----------------------TDG 45 (207)
T ss_pred cceEEEEEccceEEECCCC----------CEEEEEEEEECCeEEEEE----ecCC----------------------CCC
Confidence 4799999999999999999 899999999999999999 9999 999
Q ss_pred chhhhhhchhcccccccccchhhhHHHHHHhhccceEEEeehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhcCC
Q 038172 143 CKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFF 222 (323)
Q Consensus 143 y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~irvi~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~l 222 (323)
|+|+|+||...++ +.++++.. +||++++ ++ ++++|.||+|... +.++ +
T Consensus 46 Y~avqvg~~~~~~--------k~~~K~~~--------------G~f~ka~-v~-p~r~l~Efrv~~~---~~~~-----v 93 (207)
T CHL00143 46 YNAIQIGYKQVST--------KKLTKPQL--------------GHLQKSN-VP-PLKYLKEFRVKSS---EEFE-----V 93 (207)
T ss_pred cEEEEEeeeeccc--------ccCChhhc--------------chhHHcC-CC-cceEEEEEEcCCc---ccCC-----C
Confidence 9999999986542 34454444 5999987 88 7999999999753 2365 9
Q ss_pred CcccCcccccCCCceEEEEEEecccccccceeeeccCCCCCCCC--CCCCCCccccCC-CCCCccCCCCCCCCCCCceEE
Q 038172 223 EKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH--RGLRKVACIGAW-HPARVSFTVARAGQNGYHHRT 299 (323)
Q Consensus 223 Gk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~~prkth--k~~RkvGsiG~~-~P~rV~~~v~~aGQmG~h~rT 299 (323)
|++|+++ +|++||+|||+|+|||||||||||||||+++| +|| +.||++||||++ +|+|||+|++||||||++++|
T Consensus 94 G~~l~v~-~F~~Gq~VDV~g~sKGKGF~GvmKR~gF~g~p-asHGs~~HR~~GSiG~~~~PgRV~kGkKMpG~mG~~~~T 171 (207)
T CHL00143 94 GQPLTVD-AFSVGQLVNVSGKSIGKGFAGLQKRHNFSRGP-MTHGSKNHRAPGSIGAGTTPGRVYPGKKMAGRLGNKKVT 171 (207)
T ss_pred CCEEEhh-hccCCCEEEEEEEecCCcceeeeEeeccCCCC-CccCCCCCCCCcccCCCCCCCeEcCCCccCCCCCCeeEE
Confidence 9999997 89999999999999999999999999999999 688 579999999998 799999999999999999999
Q ss_pred EeeeEEEEEcCCCCc
Q 038172 300 EMNKKVYKLGKGGQE 314 (323)
Q Consensus 300 e~NkrI~kIg~~~~~ 314 (323)
++||+|++||.+.|.
T Consensus 172 v~nl~Vv~vd~e~nl 186 (207)
T CHL00143 172 IKNLKILKVDSENNL 186 (207)
T ss_pred EeccEEEEEeCCCCE
Confidence 999999999998875
No 9
>PRK00001 rplC 50S ribosomal protein L3; Validated
Probab=100.00 E-value=2.8e-56 Score=406.88 Aligned_cols=180 Identities=31% Similarity=0.454 Sum_probs=161.9
Q ss_pred eeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEEeCCeEEEEEEeeeeCCCCcccceEEeccccchhHhhhhcccc
Q 038172 63 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNW 142 (323)
Q Consensus 63 l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE~pP~~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k~~ 142 (323)
++|+||+|+|||++|+++| ..+||||||+.||+|+++ +|.+ +|+
T Consensus 2 ~~Glig~KiGMt~ifd~~G----------~~vpvTvl~v~~~~V~~~----kt~e----------------------~dG 45 (210)
T PRK00001 2 MKGILGKKVGMTQIFTEDG----------ESIPVTVIEAGPNVVTQV----KTVE----------------------KDG 45 (210)
T ss_pred ccEEEEEEecceEEECCCC----------CEEEEEEEEecCcEEEEE----eCCC----------------------CCC
Confidence 5799999999999999999 899999999999999999 9999 999
Q ss_pred chhhhhhchhcccccccccchhhhHHHHHHhhccceEEEeehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhcCC
Q 038172 143 CKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFF 222 (323)
Q Consensus 143 y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~irvi~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~~l 222 (323)
|+|+|+||.+.+. +.++++.. +||++++ ++ ++++|.||+.. +.++ +
T Consensus 46 Y~avqvG~~~~~~--------~~~~Kp~~--------------G~f~kag-~~-pkr~l~Efr~~-----~~~~-----~ 91 (210)
T PRK00001 46 YNAVQLGFGDKKE--------KRVNKPEA--------------GHFAKAG-VE-PKRHLREFRVV-----EEYE-----V 91 (210)
T ss_pred cEEEEEeccccCc--------ccCCHHHh--------------HHHHHcC-CC-cceEEEEEccC-----CCCC-----C
Confidence 9999999986542 34454444 4999987 87 78999999932 2365 8
Q ss_pred CcccCcccccCCCceEEEEEEecccccccceeeeccCCCCCCCC---CCCCCCccccCC-CCCCccCCCCCCCCCCCceE
Q 038172 223 EKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH---RGLRKVACIGAW-HPARVSFTVARAGQNGYHHR 298 (323)
Q Consensus 223 Gk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~~prkth---k~~RkvGsiG~~-~P~rV~~~v~~aGQmG~h~r 298 (323)
|++|+++ +|++||+|||+|+|||||||||||||||+++| ++| +.||++||||+| +|+||++|++|||||||+++
T Consensus 92 G~~l~v~-~F~~G~~VDV~g~tKGKGFqGvmKR~gf~g~p-~sHG~s~~hR~~GSiG~~~~PgrV~kgkkmaG~mG~~~~ 169 (210)
T PRK00001 92 GQEITVD-IFEAGQKVDVTGTSKGKGFAGVIKRHNFSGGP-ASHGNSRSHRRPGSIGARQTPGRVFKGKKMAGHMGNERV 169 (210)
T ss_pred CCEEeeh-hccCCCEEEEEEEEcCCcceeceEecccCCCC-CcCCcCcCCcCCcccCCCCCCCeECCCcccCCCCCCeEE
Confidence 9999995 99999999999999999999999999999999 677 579999999997 69999999999999999999
Q ss_pred EEeeeEEEEEcCCCCc
Q 038172 299 TEMNKKVYKLGKGGQE 314 (323)
Q Consensus 299 Te~NkrI~kIg~~~~~ 314 (323)
|++||+|++||.+.+.
T Consensus 170 T~~nl~V~~i~~~~nl 185 (210)
T PRK00001 170 TVQNLEVVKVDAERNL 185 (210)
T ss_pred EEeCCEEEEEcCCCCE
Confidence 9999999999988775
No 10
>KOG3141 consensus Mitochondrial/chloroplast ribosomal protein L3 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.2e-45 Score=342.56 Aligned_cols=185 Identities=24% Similarity=0.283 Sum_probs=163.8
Q ss_pred ceeeeeeEEeecceEEEeccCCCCCcCCCCcEEEeeEEEEeCCeEEEEEEeeeeCCCCcccceEEeccccchhHhhhhcc
Q 038172 61 CRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYK 140 (323)
Q Consensus 61 ~~l~gf~GyKaGMThv~~~ddr~~s~~~~kev~~pVTVlE~pP~~Vvgi~gY~kt~~Gl~~~~~vwa~~l~~~~~Rr~~k 140 (323)
...+|+|+.|.||+..|++|| ..+||||||+..|.|+.+ .|++ -+
T Consensus 60 s~R~GvI~~K~GMmp~w~k~G----------~ri~~TiL~v~d~~Vi~~----~t~E---------------------~~ 104 (310)
T KOG3141|consen 60 SRRVGVIARKLGMMPLWDKDG----------ERIPVTILQVDDNHVIKY----ITPE---------------------AK 104 (310)
T ss_pred cccceeEEEeccCchhhccCC----------CEEEEEEEEEecceEEEE----echh---------------------hc
Confidence 488999999999999999998 899999999999999998 6776 18
Q ss_pred ccchhhhhhchhcccccccccchhhhHHHHHHhhccceEEEeehhhhhhhccCcccCCceEEEEEecCCcchhhhhhhhc
Q 038172 141 NWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYG 220 (323)
Q Consensus 141 ~~y~s~~~~~~~~~k~~~~~~~~k~~~~~l~~~~~~~~~irvi~~tq~~k~~gl~~kk~~i~Ei~V~gg~~~~~~~~a~~ 220 (323)
++|.++|+|+...+ .+++.+... +||+.++ ++ +|.||.||+|... |+.
T Consensus 105 ~g~~avqVG~g~~~--------p~kltk~~~--------------g~f~~~g-v~-pK~~l~eF~Vt~~--------al~ 152 (310)
T KOG3141|consen 105 GGYFAVQVGYGTVK--------PKKLTKAEL--------------GHFRSAG-VP-PKRHLREFRVTEE--------ALL 152 (310)
T ss_pred CCeEEEEeccccCC--------hHHhhHHHH--------------HHHHHcC-CC-hhhhhheEeechh--------ccC
Confidence 99999999998543 234454333 4999977 98 7999999999732 222
Q ss_pred CCCcccCcccccCCCceEEEEEEecccccccceeeeccCCCCCCCC---CCCCCCccccCC-CCCCccCCCCCCCCCCCc
Q 038172 221 FFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH---RGLRKVACIGAW-HPARVSFTVARAGQNGYH 296 (323)
Q Consensus 221 ~lGk~i~v~dvF~~Ge~VDVigvTKGKGFqGvvKRwG~~~~prkth---k~~RkvGsiG~~-~P~rV~~~v~~aGQmG~h 296 (323)
..|+.+.++ +|.+||||||+|+|+|||||||||||||+++| ++| +.||++||+|+. +|+||++|.+|||+||+.
T Consensus 153 ~pGt~l~~~-hFk~GqyVDV~g~TigkGFqGvmKR~GFkG~p-asHG~sksHR~~GS~G~~~~pgRV~pGrKMpGhMG~~ 230 (310)
T KOG3141|consen 153 PPGTPLFAR-HFKPGQYVDVTGKTIGKGFQGVMKRHGFKGGP-ASHGTSKSHRRPGSIGQGTTPGRVWPGRKMPGHMGNE 230 (310)
T ss_pred CCCcccchh-hcCCCceEEEEeeEeccccccceeeccccCCc-cccCccccccCCccccCCCCCcccccCCcCCcccCcc
Confidence 589999998 99999999999999999999999999999999 688 789999999996 999999999999999999
Q ss_pred eEEEeeeEEEEEcCCCCc
Q 038172 297 HRTEMNKKVYKLGKGGQE 314 (323)
Q Consensus 297 ~rTe~NkrI~kIg~~~~~ 314 (323)
+||++|++|++||.+.|.
T Consensus 231 ~rtik~LkV~kId~~~nv 248 (310)
T KOG3141|consen 231 WRTIKGLKVWKIDTELNV 248 (310)
T ss_pred eEEEeeeEEEEEcCCceE
Confidence 999999999999999875
No 11
>KOG0746 consensus 60S ribosomal protein L3 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=87.98 E-value=0.19 Score=49.65 Aligned_cols=55 Identities=15% Similarity=0.088 Sum_probs=51.6
Q ss_pred cCCCCCCCCCCCCCCcCCcccccccCCccccCCCCCCCCCceeeeeeEEeecceE
Q 038172 21 MSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTH 75 (323)
Q Consensus 21 mshrkf~~PR~GSl~f~PrKRa~~~~~~vrs~P~~~~~~~~~l~gf~GyKaGMTh 75 (323)
|+|++++.|+-+++-++|+.|-..++|...+|-+|+..+-++++-+.|||.+-+.
T Consensus 167 lmeiqvngGtia~KvdwA~~~lEkqv~v~~vF~qdemId~IgvtkGkGykGvt~r 221 (384)
T KOG0746|consen 167 LMEIQVNGGTVAEKVDWARERLEKQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSR 221 (384)
T ss_pred heeeeecCCcHHHHhHHHHhhhhccCchhhccccccccceeeeeecccccccccc
Confidence 8999999999999999999999999999999999998899999999999988443
No 12
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=36.94 E-value=41 Score=20.30 Aligned_cols=24 Identities=25% Similarity=0.325 Sum_probs=19.2
Q ss_pred cCCCceEEEEEEecccccccceeee
Q 038172 232 FQKDEMIDIIGVTKGKGYEGVVTRW 256 (323)
Q Consensus 232 F~~Ge~VDVigvTKGKGFqGvvKRw 256 (323)
|.+|+.|-|++ -.-+|+.|.|.+.
T Consensus 2 ~~~G~~V~I~~-G~~~g~~g~i~~i 25 (28)
T smart00739 2 FEVGDTVRVIA-GPFKGKVGKVLEV 25 (28)
T ss_pred CCCCCEEEEeE-CCCCCcEEEEEEE
Confidence 67899999888 5578888888765
No 13
>PF08262 Lem_TRP: Leucophaea maderae tachykinin-related peptide ; InterPro: IPR013206 These peptides are designated Leucophaea maderae (Madeira cockroach) tachykinin-related peptides (Lem TRPs). Some were isolated from the midgut of L. maderae, whereas others appear to be brain specific. The Lem TRPs of the brain are myotropic and induce increases in the amplitude and frequency of spontaneous contractions and tonus of hindgut muscle in L. maderae []. They were also isolated from brain-corpora, cardiaca-corpora, allata-suboesophageal ganglion extracts of Locusta migratoria (Migratory locust). They stimulate visceral muscle contractions of the oviduct and the foregut of L. migratoria [].
Probab=20.42 E-value=39 Score=17.31 Aligned_cols=6 Identities=33% Similarity=1.049 Sum_probs=4.1
Q ss_pred cccccc
Q 038172 247 KGYEGV 252 (323)
Q Consensus 247 KGFqGv 252 (323)
-||||+
T Consensus 4 mgf~g~ 9 (10)
T PF08262_consen 4 MGFHGM 9 (10)
T ss_pred cccccc
Confidence 478875
Done!