Query 022045
Match_columns 303
No_of_seqs 155 out of 1104
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 07:36:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022045.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022045hhsearch_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-100 4E-105 733.3 25.6 298 1-303 1-312 (390)
2 PRK04231 rpl3p 50S ribosomal p 100.0 1.6E-92 3.4E-97 671.6 23.3 277 3-303 1-286 (337)
3 TIGR03626 L3_arch archaeal rib 100.0 1.5E-90 3.3E-95 655.8 24.1 263 7-303 1-281 (330)
4 KOG0746 60S ribosomal protein 100.0 1.4E-75 3.1E-80 547.3 12.9 289 14-303 1-303 (384)
5 PF00297 Ribosomal_L3: Ribosom 100.0 5.7E-74 1.2E-78 533.9 14.0 230 50-303 1-237 (263)
6 CHL00143 rpl3 ribosomal protei 100.0 9.4E-65 2E-69 456.6 17.7 177 43-276 2-183 (207)
7 TIGR03625 L3_bact 50S ribosoma 100.0 1.2E-63 2.5E-68 447.5 18.0 175 45-276 1-181 (202)
8 COG0087 RplC Ribosomal protein 100.0 3.8E-64 8.1E-69 454.1 14.1 182 43-276 1-186 (218)
9 PRK00001 rplC 50S ribosomal pr 100.0 8E-63 1.7E-67 444.6 18.3 176 42-276 1-182 (210)
10 KOG3141 Mitochondrial/chloropl 100.0 2.3E-56 5E-61 413.5 15.4 180 41-277 60-246 (310)
11 smart00739 KOW KOW (Kyprides, 48.6 22 0.00047 21.2 2.6 25 197-222 2-26 (28)
12 KOG0746 60S ribosomal protein 38.0 13 0.00028 36.6 0.6 58 1-59 167-224 (384)
13 COG1551 CsrA RNA-binding globa 23.1 2E+02 0.0044 22.4 4.7 35 46-97 3-38 (73)
14 KOG2500 Uncharacterized conser 21.0 1.6E+02 0.0034 27.9 4.4 66 127-216 106-173 (253)
No 1
>PTZ00103 60S ribosomal protein L3; Provisional
Probab=100.00 E-value=2e-100 Score=733.33 Aligned_cols=298 Identities=72% Similarity=1.225 Sum_probs=276.6
Q ss_pred CCCCCCCCCCCCCCCCccccccccCCCCccCCCCCCCCCCceeeeEeEEeecceEEEcccCCCCCcCCCCceEEeEEEEE
Q 022045 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIE 80 (303)
Q Consensus 1 m~~~k~~~pr~gsl~~~prkra~~~~p~~~~wP~~~~~~~~~~~G~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVle 80 (303)
|||||||+||||||||+|||||+++.|+|++||+||.+.+|+++||+|||+|||||+.+||+|+|+++|+++++||||||
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 99999999999999999999999999999999998866789999999999999999999999999999999999999999
Q ss_pred eCCeEEEEEeeeeeCCCCcccceeeccccchHHHHhhhhccccccccccccccccccccCCCcccCHHHHHHHhhhcccc
Q 022045 81 TPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVI 160 (303)
Q Consensus 81 v~p~~V~~i~~y~kt~~Gy~av~~~~~~~~~~~~~r~~~k~~~~~~~~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v 160 (303)
+||+.|++++||.+|+.|+.++.++|+++|++||.|++||+|+.+...+|..+..++.. ....+..++.+.+.+.+|
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 99999999999999999999999999999999999999999999999999876554211 123455566666555233
Q ss_pred c--------------CCCeEEEEEecCCCchhhhhhhhcccCccccccccccCCceEeEEEEeeccccccceEeeccCCC
Q 022045 161 R--------------KKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRL 226 (303)
Q Consensus 161 ~--------------~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF~~Gq~VDV~GvTKGKGFqGv~KR~gf~g~ 226 (303)
+ +|++|+|++|+|++++++++||...||++|+++|+|++||+|||+|+|||||||||||||||+++
T Consensus 158 Rvi~hTqp~~~~l~kKkp~imEiqv~GGsv~~k~d~a~~llgk~i~v~dvF~~ge~VDVigvTKGKGfqGvvKRwg~~~~ 237 (390)
T PTZ00103 158 RVIAHTQPSKLPLGQKKAHVMEIQVNGGSVAEKVDFAKSLLEKEVPVDSVFQQNEMIDVIGVTKGHGFEGVVKRWGVTRL 237 (390)
T ss_pred EEEEEcchhhcCcCCcCccEEEEeecCCCHHHHHHHHHHHhcCeechhhhccCCCEeeeEEEEcCCccccCeeccccCCC
Confidence 3 67899999999999999999999999999999889999999999999999999999999999999
Q ss_pred CCCCcCCCCCCccccCCCCCCcccCCcCCCCCCCeeeeeeceEEEEEccCccccCcccccccCCcccccCCCCCCCC
Q 022045 227 PRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEFDRSVYLLSSLMGSFSS 303 (303)
Q Consensus 227 p~ksH~~hR~~GSiG~~~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kId~~~~~~~~~~~~~~~~~~~i~~p~ggf~~ 303 (303)
|+++|+.||++||||+|+|+||++|++||||||||+||++||+|++|+.+ ++..+|+|++|++.++|| |+|||+|
T Consensus 238 p~ktH~~~RkvGsiG~w~P~RV~~~v~~aGQmG~h~rTe~Nk~I~rI~~~-~~~~~~~t~~~~~~~~It-P~GGF~h 312 (390)
T PTZ00103 238 PRKTHRGLRKVACIGAWHPARVQYTVPRAGQHGYHHRTELNKKIYRIGVA-EDPNNATTEADLTEKTIT-PMGGFPH 312 (390)
T ss_pred CccccCCCCCCCccCCCCCCcccCCCccCcCCCCceEEEeccEEEEEcCC-CCcccccccccccccccc-cCCCccc
Confidence 96699999999999999999999999999999999999999999999986 667799999999999999 9999997
No 2
>PRK04231 rpl3p 50S ribosomal protein L3P; Reviewed
Probab=100.00 E-value=1.6e-92 Score=671.63 Aligned_cols=277 Identities=42% Similarity=0.725 Sum_probs=242.6
Q ss_pred CCCCCCCCCCCCCCccccccccCCCCccCCCCCCCCCCceeeeEeEEeecceEEEcccCCCCCcCCCCceEEeEEEEEeC
Q 022045 3 HRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETP 82 (303)
Q Consensus 3 ~~k~~~pr~gsl~~~prkra~~~~p~~~~wP~~~~~~~~~~~G~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~ 82 (303)
|||+|+||||||||+|||||+++.|||++||++|. +|+++||+|||+|||||+++||+|+|+++|+++++||||||+|
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 78999999999999999999999999999999874 8999999999999999999999999999999999999999999
Q ss_pred CeEEEEEeeeeeCCCCcccceeeccccchHHHHhhhhcccccccccccccccccccc--CCCcc---cCHHHHHHHhh-h
Q 022045 83 PLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKYET--DDGKK---DIQAQLEKMKK-Y 156 (303)
Q Consensus 83 p~~V~~i~~y~kt~~Gy~av~~~~~~~~~~~~~r~~~k~~~~~~~~g~~~~~~k~~~--~~~~~---~~k~~~g~~~k-~ 156 (303)
|+.|+++|+|.+|+.|+.++.++|+++|++++.|+++++||.+...+|....+.... ....+ .+.|. + .
T Consensus 79 Pm~V~gir~Y~~~~~Gl~~~~evwa~~l~~~~~Rr~~~~~~~~~~~~~~~~~~~~~~~~~~~vR~i~~Tqp~-----~~~ 153 (337)
T PRK04231 79 PMRVAAIRAYEKDPYGLKVLTEVWAEDLDKELERRITLPKKDEKKKAFEKLLKLLEEGKIVDVRVIVHTQPK-----LVT 153 (337)
T ss_pred CeEEEEEEEEeECCCCcEEEEEEecccchHHHhhhccccccchhhHHHHHHHHHhhcCCeeEEEEEEEechh-----hcc
Confidence 999999999999999999999999999999999999988877654433211110000 00000 00000 1 0
Q ss_pred cccccCCCeEEEEEecCCCchhhhhhhhcccCccccccccccCCceEeEEEEeeccccccceEeeccCCCCCCCcC---C
Q 022045 157 CTVIRKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR---G 233 (303)
Q Consensus 157 ~~~v~~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF~~Gq~VDV~GvTKGKGFqGv~KR~gf~g~p~ksH~---~ 233 (303)
++. .+|++|+|++|+|++++++++||...+|++|+++|+|++||+|||+|+|||||||||||||||+++| ++|+ .
T Consensus 154 ~l~-kKkp~i~Ei~v~Gg~i~~k~~~a~~llG~~i~v~dvF~~Ge~VDV~gvTKGKGfqGvvKRwg~~~~p-~~Hg~~~~ 231 (337)
T PRK04231 154 GVP-KKKPEIMEIRIGGGSVEERLEYAKELLGKEISISDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLP-RKHKRRGG 231 (337)
T ss_pred CCC-CCCCCEEEEeecCCCHHHHHHHHHHhcCCccchhhhccCCCEEEEEEEEeCCccccCeeccCcCCCC-CccCCCCC
Confidence 111 2678999999999999999999999999999998899999999999999999999999999999999 6663 6
Q ss_pred CCCCccccCCCCCCcccCCcCCCCCCCeeeeeeceEEEEEccCccccCcccccccCCcccccCCCCCCCC
Q 022045 234 LRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEFDRSVYLLSSLMGSFSS 303 (303)
Q Consensus 234 hR~~GSiG~~~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kId~~~~~~~~~~~~~~~~~~~i~~p~ggf~~ 303 (303)
||++||||+|+|+|||+|++||||||||+||++||+|++||++ .++|| |+|||+|
T Consensus 232 ~R~~GsiG~~~P~rV~~~~~maGqmG~~~rT~~N~~I~kI~~~--------------~~~It-P~GGF~h 286 (337)
T PRK04231 232 SRHIGTLGPWNPSRVMWTVPQAGQMGFHQRTEYNKRILKIGDD--------------GDEIT-PKGGFLH 286 (337)
T ss_pred CCCCcccCCCCCCcccCCCccCCCCCCceEEEecCEEEEEcCC--------------ccccc-cCCCccc
Confidence 9999999999999999999999999999999999999999977 35999 9999997
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=1.5e-90 Score=655.78 Aligned_cols=263 Identities=40% Similarity=0.747 Sum_probs=235.2
Q ss_pred CCCCCCCCCCccccccccCCCCccCCCCCCCCCCceeeeEeEEeecceEEEcccCCCCCcCCCCceEEeEEEEEeCCeEE
Q 022045 7 EHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVV 86 (303)
Q Consensus 7 ~~pr~gsl~~~prkra~~~~p~~~~wP~~~~~~~~~~~G~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~p~~V 86 (303)
|+||||||||+|||||+++.|++++||++| .+|+++||+|||+|||||+.+||+|+|+++|+++++||||||+||+.|
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 799999999999999999999999999986 489999999999999999999999999999999999999999999999
Q ss_pred EEEeeeeeCCCCcccceeeccccchHHHHhhhhccccccccccccccccccccCCCcccCHHHHHHHhhhccccc-----
Q 022045 87 VGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIR----- 161 (303)
Q Consensus 87 ~~i~~y~kt~~Gy~av~~~~~~~~~~~~~r~~~k~~~~~~~~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v~----- 161 (303)
++++||.+|+.|+.++.++|+++|++||.|++++... +.. ....+.....+.+.+.+++
T Consensus 79 ~gir~Y~~t~~Gl~~l~~vwa~~l~~e~~r~~~~~k~------~~~----------~~~~~~~~~~l~~~~~~iRvi~~T 142 (330)
T TIGR03626 79 AAIRAYGKDPYGLKVLTEVWANNLDKELSRKITLPKN------YDV----------EEKLEKIEELLENDADDVRLIVHT 142 (330)
T ss_pred EEEEEEEECCCCcEEEEEEeeccCcHHHhhccccccc------cch----------hhHHHHHHHHHhcCceEEEEEEEe
Confidence 9999999999999999999999999999998864210 000 0112333333333122222
Q ss_pred ----------CCCeEEEEEecCCCchhhhhhhhcccCccccccccccCCceEeEEEEeeccccccceEeeccCCCCCCCc
Q 022045 162 ----------KKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH 231 (303)
Q Consensus 162 ----------~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF~~Gq~VDV~GvTKGKGFqGv~KR~gf~g~p~ksH 231 (303)
+|++|+|++|+|+++++++|||...+|++|+++|+|++||+|||+|+|||||||||||||||+++| ++|
T Consensus 143 qp~~~~~~~kKkp~imEi~v~Gg~i~~k~~~a~~~lG~~i~v~dvF~~Ge~VDV~gvTKGKGfqGvvKRwg~~~~p-~~h 221 (330)
T TIGR03626 143 QPKLVTGVPKKKPEIMEIRIGGGSVEERFEYALSILGKEISVSDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLP-RKH 221 (330)
T ss_pred ccccccCcccCCccEEEEeecCCCHHHHhHhhHhcCCcEEehhheecCCCEEEEEEEEcCCccccCeeccccCCCC-Ccc
Confidence 678999999999999999999999999999998899999999999999999999999999999999 555
Q ss_pred ---CCCCCCccccCCCCCCcccCCcCCCCCCCeeeeeeceEEEEEccCccccCcccccccCCcccccCCCCCCCC
Q 022045 232 ---RGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEFDRSVYLLSSLMGSFSS 303 (303)
Q Consensus 232 ---~~hR~~GSiG~~~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kId~~~~~~~~~~~~~~~~~~~i~~p~ggf~~ 303 (303)
+.||++||||+|+|+|||||++||||||||+||++||+|++||++ .++|| |+|||+|
T Consensus 222 g~~~~~R~~GsiG~~~P~rV~~~~~maGqmG~~~rT~~N~~I~kI~~e--------------~~~It-P~GGF~~ 281 (330)
T TIGR03626 222 KRRKGGRHIGTLGPWTPSRVRWTVPQAGQMGYHQRTEYNKRILKIGED--------------GDEIT-PKGGFVN 281 (330)
T ss_pred CCCCCCCCCcccCCCCCCcccCCcccCCCCCCceEEEecCEEEEEcCc--------------ccccc-ccCCccc
Confidence 578999999999999999999999999999999999999999987 35999 9999997
No 4
>KOG0746 consensus 60S ribosomal protein L3 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-75 Score=547.28 Aligned_cols=289 Identities=71% Similarity=1.198 Sum_probs=276.6
Q ss_pred CCCccccccccCCCCccCCCCCCCCCCceeeeEeEEeecceEEEcccCCCCCcCCCCceEEeEEEEEeCCeEEEEEeeee
Q 022045 14 LGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYV 93 (303)
Q Consensus 14 l~~~prkra~~~~p~~~~wP~~~~~~~~~~~G~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~p~~V~~i~~y~ 93 (303)
|||+|||||++|.+++++||+||.++|+.+++|||||+|||||..+.|+|||+.++.+++.+|||||+||++|++++||.
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 eCCCCcccceeeccccchHHHHhhhhccccccccccccccccccccCCCcccCHHHHHHHhhhccccc------------
Q 022045 94 KTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIR------------ 161 (303)
Q Consensus 94 kt~~Gy~av~~~~~~~~~~~~~r~~~k~~~~~~~~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v~------------ 161 (303)
+||.|+.++.++|++|||+||+||||+|||.+...+|..+.+++...+.++....++..++|++..|+
T Consensus 81 ~Tp~Glr~l~tv~A~hlSde~~Rrfyknw~kskkkaft~~~k~~~~~~gk~~~~~~~~~~kky~~virv~ahtq~~~~~l 160 (384)
T KOG0746|consen 81 ETPRGLRTLKTVWAEHLSDECKRRFYKNWHKSKKKAFTKYCKKWQDEDGKKQLEKDFSSMKKYCQVIRVIAHTQMRLLPL 160 (384)
T ss_pred ecCchHHHHHHHHHHHhhHHHHHHHHHhhhhhhhHHHHHHhhhhhhhhcchhhHHHHHHHHhhhheeeeeeechhhhhhh
Confidence 99999999999999999999999999999999999999998887665656777888888888876655
Q ss_pred --CCCeEEEEEecCCCchhhhhhhhcccCccccccccccCCceEeEEEEeeccccccceEeeccCCCCCCCcCCCCCCcc
Q 022045 162 --KKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVAC 239 (303)
Q Consensus 162 --~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF~~Gq~VDV~GvTKGKGFqGv~KR~gf~g~p~ksH~~hR~~GS 239 (303)
+|+||+|++|+++++.++++||...+.+++.++++|...|+|||+|+|||+||+||..|||.+.+|++||+..|++.|
T Consensus 161 ~qkkahlmeiqvngGtia~KvdwA~~~lEkqv~v~~vF~qdemId~IgvtkGkGykGvt~rw~tkklprkthrglrkvac 240 (384)
T KOG0746|consen 161 RQKKAHLMEIQVNGGTVAEKVDWARERLEKQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSRWHTKKLPRKTHRGLRKVAC 240 (384)
T ss_pred hhhhhhheeeeecCCcHHHHhHHHHhhhhccCchhhccccccccceeeeeecccccccccccccccCcchhcccchheee
Confidence 899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCcccCCcCCCCCCCeeeeeeceEEEEEccCccccCcccccccCCcccccCCCCCCCC
Q 022045 240 IGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEFDRSVYLLSSLMGSFSS 303 (303)
Q Consensus 240 iG~~~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kId~~~~~~~~~~~~~~~~~~~i~~p~ggf~~ 303 (303)
||+|+|+||.+.+.+|||+|||++|+.|++|++|+..-...+||+|||||+++.|+ |+|||+|
T Consensus 241 igawhpa~V~~sVaRaGqkgyHhrTeiNkkiY~ig~g~~~~~nastdyDlt~k~it-pmggf~h 303 (384)
T KOG0746|consen 241 IGAWHPARVAFSVARAGQKGYHHRTEINKKIYRIGQGKLIKNNASTDYDLTEKSIT-PMGGFPH 303 (384)
T ss_pred cccccccceeeeeeccccccchhhhhhhhheeecccccccccccccCccccccccc-cCCCcce
Confidence 99999999999999999999999999999999998842557899999999999999 9999987
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=5.7e-74 Score=533.95 Aligned_cols=230 Identities=39% Similarity=0.659 Sum_probs=202.4
Q ss_pred eecceEEEcccCCCCCcCCCCceEEeEEEEEeCCeEEEEEeeeeeCCCCcccceeeccccchHHHHhhhh--cccccccc
Q 022045 50 KAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFY--KNWCKSKK 127 (303)
Q Consensus 50 KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~p~~V~~i~~y~kt~~Gy~av~~~~~~~~~~~~~r~~~--k~~~~~~~ 127 (303)
|+||||||..||+++|+++++|+++||||||++||+|+|+++|.++.+||+|++++|++++++++.|+++ +++|.+.|
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 8999999999999999999999999999999999999999999999999999999999999999999874 77899999
Q ss_pred ccccccccccccCCCcccCHHHHHHHhhhcccc-cCCCeEEEEEecCCCchhhhhhhh--cccCccccccccccCCceEe
Q 022045 128 KAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVI-RKKAHLMEIQVNGGSVAQKVDFAY--GFFEKQIPIDAVFQKDEMID 204 (303)
Q Consensus 128 ~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v-~~k~~l~E~~v~~~~~~~~~~~a~--~~lG~~i~v~~vF~~Gq~VD 204 (303)
+++++.+++ ..++++++|++++++.+ .|+++|+||+|+++++++++|||. +.+|++|+++|+|++||+||
T Consensus 81 ~~~~~~~~~-------~~~~~~~~~~~~~~~~i~~~k~~i~E~~v~~~~~~~~~~~a~~~l~~G~~i~v~dvF~~Gq~VD 153 (263)
T PF00297_consen 81 LGFGEKKEK-------RVSKRLLGHFQKAGVPIPKKKPHIMEFRVSGGDVEEKLEYAKELLGVGKEIKVNDVFKEGQYVD 153 (263)
T ss_dssp ECCCHHCCS-------TSCCECCEEHHGGGSSSS-CSSEEEEEECESSSHHHHHHHHHHHCSCSSEBSCCTTSSTTSEEE
T ss_pred hhhhhcccc-------ccchhhhhcccccccchhhccceeEEecccccChhHhhhhhhhhcCccceeehhheecccceEE
Confidence 999877654 67799999999987532 289999999999999999999986 55569999988999999999
Q ss_pred EEEEeeccccccceEeeccCCCCCCCcC-C-CCCCccccCCCCCCcccCCcCCCCCCCeeeeeeceEEEEEccCccccCc
Q 022045 205 IIGVTKGKGYEGVVTRWGVTRLPRKTHR-G-LRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHS 282 (303)
Q Consensus 205 V~GvTKGKGFqGv~KR~gf~g~p~ksH~-~-hR~~GSiG~~~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kId~~~~~~~~ 282 (303)
|+|+|||||||||||||||+++| ++|+ + ||++||||+|+|+|||||++||||||||+||++||+|++||++
T Consensus 154 V~gvTKGKGFqGv~KR~gf~~~p-~sHg~~~hR~~GsiG~~~PgrV~~g~kmaGqmG~~~rT~~Nl~I~~i~~~------ 226 (263)
T PF00297_consen 154 VIGVTKGKGFQGVMKRWGFKGGP-ASHGSSKHRKPGSIGAWTPGRVFKGKKMAGQMGNHRRTEQNLRIVKIDDD------ 226 (263)
T ss_dssp EEEEE-EEEEETHHHHCSS--S--SSSSSTTSSSSS-SSCSSSSSCGTTSTSSEEESSSEEEEEEEEEEEEETS------
T ss_pred EEEeecCccccccccccCCCccC-CCCCCcccCCCCcccccccceeecccccCccccceEEEecCcEEEEeCCC------
Confidence 99999999999999999999999 7885 4 8999999999999999999999999999999999999999985
Q ss_pred ccccccCCcccccCCCCCCCC
Q 022045 283 AMTEFDRSVYLLSSLMGSFSS 303 (303)
Q Consensus 283 ~~~~~~~~~~~i~~p~ggf~~ 303 (303)
++|| |+|||+|
T Consensus 227 ---------~~i~-p~ggf~~ 237 (263)
T PF00297_consen 227 ---------KEIN-PKGGFKH 237 (263)
T ss_dssp ---------SSSS-STT-BTT
T ss_pred ---------cccc-CCCCcee
Confidence 5899 9999997
No 6
>CHL00143 rpl3 ribosomal protein L3; Validated
Probab=100.00 E-value=9.4e-65 Score=456.59 Aligned_cols=177 Identities=28% Similarity=0.376 Sum_probs=164.9
Q ss_pred eeeEeEEeecceEEEcccCCCCCcCCCCceEEeEEEEEeCCeEEEEEeeeeeCCC--CcccceeeccccchHHHHhhhhc
Q 022045 43 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPR--GLRSLCTVWAQHLNEEVRRRFYK 120 (303)
Q Consensus 43 ~~G~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~p~~V~~i~~y~kt~~--Gy~av~~~~~~~~~~~~~r~~~k 120 (303)
++|+||+|+||||+|++ +|.++||||||++||+|+|+ +|.+ ||+|+|
T Consensus 2 ~~glig~KiGMt~~f~~----------~G~~vpvTvl~~~~~~V~~~----kt~e~dGY~avq----------------- 50 (207)
T CHL00143 2 SIGLLGTKIGMTQIFDE----------TGNAIPVTILKVGPCVITQI----KTLTTDGYNAIQ----------------- 50 (207)
T ss_pred cceEEEEEccceEEECC----------CCCEEEEEEEEECCeEEEEE----ecCCCCCcEEEE-----------------
Confidence 57999999999999999 89999999999999999999 8875 888875
Q ss_pred cccccccccccccccccccCCCcccCHHHHHHHhhhcccccCCCeEEEEEecCCCchhhhhhhhcccCccccccccccCC
Q 022045 121 NWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKD 200 (303)
Q Consensus 121 ~~~~~~~~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v~~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF~~G 200 (303)
+||++.+++ ++++|++|||+|++++ |+++|.||++++. +.+++|++|++ ++|++|
T Consensus 51 -------vg~~~~~~k-------~~~K~~~G~f~ka~v~--p~r~l~Efrv~~~--------~~~~vG~~l~v-~~F~~G 105 (207)
T CHL00143 51 -------IGYKQVSTK-------KLTKPQLGHLQKSNVP--PLKYLKEFRVKSS--------EEFEVGQPLTV-DAFSVG 105 (207)
T ss_pred -------Eeeeecccc-------cCChhhcchhHHcCCC--cceEEEEEEcCCc--------ccCCCCCEEEh-hhccCC
Confidence 888877664 8999999999999976 9999999999753 44689999999 599999
Q ss_pred ceEeEEEEeeccccccceEeeccCCCCCCCcC--CCCCCccccCC-CCCCcccCCcCCCCCCCeeeeeeceEEEEEccC
Q 022045 201 EMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR--GLRKVACIGAW-HPARVSFTVARAGQNGYHHRTEMNKKIYKLGKA 276 (303)
Q Consensus 201 q~VDV~GvTKGKGFqGv~KR~gf~g~p~ksH~--~hR~~GSiG~~-~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kId~~ 276 (303)
|+|||+|+|||||||||||||||+++| +||+ .||++||||++ +|+|||||+|||||||++++|++||+|++||++
T Consensus 106 q~VDV~g~sKGKGF~GvmKR~gF~g~p-asHGs~~HR~~GSiG~~~~PgRV~kGkKMpG~mG~~~~Tv~nl~Vv~vd~e 183 (207)
T CHL00143 106 QLVNVSGKSIGKGFAGLQKRHNFSRGP-MTHGSKNHRAPGSIGAGTTPGRVYPGKKMAGRLGNKKVTIKNLKILKVDSE 183 (207)
T ss_pred CEEEEEEEecCCcceeeeEeeccCCCC-CccCCCCCCCCcccCCCCCCCeEcCCCccCCCCCCeeEEEeccEEEEEeCC
Confidence 999999999999999999999999999 8997 79999999999 799999999999999999999999999999988
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=1.2e-63 Score=447.45 Aligned_cols=175 Identities=29% Similarity=0.403 Sum_probs=162.9
Q ss_pred eEeEEeecceEEEcccCCCCCcCCCCceEEeEEEEEeCCeEEEEEeeeeeCCC--CcccceeeccccchHHHHhhhhccc
Q 022045 45 AFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPR--GLRSLCTVWAQHLNEEVRRRFYKNW 122 (303)
Q Consensus 45 G~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~p~~V~~i~~y~kt~~--Gy~av~~~~~~~~~~~~~r~~~k~~ 122 (303)
|+||+|+||||+|++ +|..+||||||++||+|+|+ +|.+ ||+|+|
T Consensus 1 Glig~KiGMt~if~~----------~G~~ipvTVl~v~~~~V~q~----kt~e~dGY~Avq------------------- 47 (202)
T TIGR03625 1 GLLGKKVGMTQIFTE----------DGKAVPVTVIEVGPNVVTQV----KTVEKDGYSAVQ------------------- 47 (202)
T ss_pred CccEEecceeEEECC----------CCcEEEEEEEEeCCcEEEEE----eCCCCCCcEEEE-------------------
Confidence 689999999999999 89999999999999999999 8875 888886
Q ss_pred cccccccccccccccccCCCcccCHHHHHHHhhhcccccCCCeEEEEEecCCCchhhhhhhhcccCccccccccccCCce
Q 022045 123 CKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEM 202 (303)
Q Consensus 123 ~~~~~~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v~~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF~~Gq~ 202 (303)
+||++.+++ ++++|++|||+|+++. |+++|.||++++. +.+++|++|++ |+|++||+
T Consensus 48 -----vG~~~~~~~-------~~~Kp~~G~f~Kag~~--pkr~l~Efrv~~~--------~~~~~G~~l~v-~~F~~G~~ 104 (202)
T TIGR03625 48 -----LGFGEKKEK-------RVNKPEAGHFAKAGVE--PKRHLREFRVDDL--------EGYEVGDEITV-DIFEAGQK 104 (202)
T ss_pred -----Eeccccccc-------cCChhhhhHHHHcCCC--cCcEEEEEEcCCc--------ccCCCCCEEEe-eeecCCCE
Confidence 888776654 7999999999999976 9999999999753 34689999999 79999999
Q ss_pred EeEEEEeeccccccceEeeccCCCCCCCcC---CCCCCccccCC-CCCCcccCCcCCCCCCCeeeeeeceEEEEEccC
Q 022045 203 IDIIGVTKGKGYEGVVTRWGVTRLPRKTHR---GLRKVACIGAW-HPARVSFTVARAGQNGYHHRTEMNKKIYKLGKA 276 (303)
Q Consensus 203 VDV~GvTKGKGFqGv~KR~gf~g~p~ksH~---~hR~~GSiG~~-~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kId~~ 276 (303)
|||+|+|||||||||||||||+++| +||+ .||++||||+| +|+|||||+|||||||++++|++||+|++||++
T Consensus 105 VDV~g~skGKGFqGvmKR~gf~g~~-~sHG~s~~hR~~GSiG~~~~PgrV~kgkkm~G~mG~~~~T~~Nl~V~~id~e 181 (202)
T TIGR03625 105 VDVTGTSKGKGFAGVMKRHNFSGGP-ASHGNSKSHRAPGSIGQRQTPGRVFKGKKMAGHMGNERVTVQNLEVVKVDAE 181 (202)
T ss_pred EEEEEEEcCCcceeceEecccCCCC-cccCCCCCCCCCCccCCCCCCCeEcCCCccCCCcCCeeEEEeccEEEEEcCC
Confidence 9999999999999999999999999 8885 69999999999 799999999999999999999999999999988
No 8
>COG0087 RplC Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.8e-64 Score=454.06 Aligned_cols=182 Identities=36% Similarity=0.561 Sum_probs=161.8
Q ss_pred eeeEeEEeecceEEEcccCCCCCcCCCCceEEeEEEEEeCCeEEEEEeeeeeCCCCcccceeeccccchHHHHhhhhccc
Q 022045 43 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNW 122 (303)
Q Consensus 43 ~~G~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~p~~V~~i~~y~kt~~Gy~av~~~~~~~~~~~~~r~~~k~~ 122 (303)
++||||+|+||||||++ +++.+||||||++||+|+|++.|. +. ||.|+|
T Consensus 1 ~~G~~G~KvGMT~vf~~----------~g~~vPVTVie~~p~~V~~vkt~e-~d-Gy~a~q------------------- 49 (218)
T COG0087 1 MLGFLGYKVGMTHVFDE----------RGISVPVTVIEVPPNVVVQVKTYE-TD-GYRAVQ------------------- 49 (218)
T ss_pred CcccceEeccceEEEcc----------CCcEEEEEEEEcCCcEEEEEEecc-cC-CcEEEE-------------------
Confidence 46999999999999999 789999999999999999999886 33 999875
Q ss_pred cccccccccccccccccCCCcccCHHHHHHHhhhcccccCCCeEEEEEecCCCchhhhhhhhcccCccccccccccCCce
Q 022045 123 CKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEM 202 (303)
Q Consensus 123 ~~~~~~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v~~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF~~Gq~ 202 (303)
++|++.+. ++.++++++||+|+... |+++|+||++++.+..++ +++|++|++ |+|++||+
T Consensus 50 -----v~~~~~k~-------~~~~k~~~g~~~k~~~~--~k~~l~E~rv~~~~~~~~-----~e~g~ei~~-dvF~~g~~ 109 (218)
T COG0087 50 -----VGAGDRKA-------KRVNKPLVGHFAKAGVK--PKRHLAEFRVGGGDVAEK-----FEVGQEITV-DVFKEGEL 109 (218)
T ss_pred -----Eeecceee-------ehhccceeeeecccCCC--CCCeEEEEEecCccccce-----echhhhhch-hhccCCCE
Confidence 45554433 26789999999997765 999999999988665433 456899998 79999999
Q ss_pred EeEEEEeeccccccceEeeccCCCCCCCcC---CCCCCccccC-CCCCCcccCCcCCCCCCCeeeeeeceEEEEEccC
Q 022045 203 IDIIGVTKGKGYEGVVTRWGVTRLPRKTHR---GLRKVACIGA-WHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKA 276 (303)
Q Consensus 203 VDV~GvTKGKGFqGv~KR~gf~g~p~ksH~---~hR~~GSiG~-~~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kId~~ 276 (303)
|||+|+||||||||+||||||+++| ++|+ .||++||||+ |+|+|||||++||||||+|+||+|||+|++||.+
T Consensus 110 VDV~gvTKGKGF~G~~KR~gf~~~p-~sHg~~~~hR~~GSiG~~~~P~rV~~g~kmaG~mG~~~vTvqNl~Vv~id~e 186 (218)
T COG0087 110 VDVTGVTKGKGFQGVMKRWGFKGGP-ASHGSSLSHRRPGSIGQRQTPGRVFKGKKMAGHMGNERVTVQNLEVVKVDVE 186 (218)
T ss_pred EEEEEEecccccceeeeecccccCC-cccCCCccccCCcccCCCCCCCceeCCCccCccCCCceEEEEeeEEEEEcCC
Confidence 9999999999999999999999999 7885 5999999995 6999999999999999999999999999999987
No 9
>PRK00001 rplC 50S ribosomal protein L3; Validated
Probab=100.00 E-value=8e-63 Score=444.62 Aligned_cols=176 Identities=30% Similarity=0.415 Sum_probs=162.7
Q ss_pred eeeeEeEEeecceEEEcccCCCCCcCCCCceEEeEEEEEeCCeEEEEEeeeeeCCC--CcccceeeccccchHHHHhhhh
Q 022045 42 RLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPR--GLRSLCTVWAQHLNEEVRRRFY 119 (303)
Q Consensus 42 ~~~G~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~p~~V~~i~~y~kt~~--Gy~av~~~~~~~~~~~~~r~~~ 119 (303)
+++|+||+|+||||+|++ +|.++||||||++||+|+|+ +|.+ ||+|+|
T Consensus 1 m~~Glig~KiGMt~ifd~----------~G~~vpvTvl~v~~~~V~~~----kt~e~dGY~avq---------------- 50 (210)
T PRK00001 1 MMKGILGKKVGMTQIFTE----------DGESIPVTVIEAGPNVVTQV----KTVEKDGYNAVQ---------------- 50 (210)
T ss_pred CccEEEEEEecceEEECC----------CCCEEEEEEEEecCcEEEEE----eCCCCCCcEEEE----------------
Confidence 367999999999999999 89999999999999999999 8875 888885
Q ss_pred ccccccccccccccccccccCCCcccCHHHHHHHhhhcccccCCCeEEEEEecCCCchhhhhhhhcccCccccccccccC
Q 022045 120 KNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQK 199 (303)
Q Consensus 120 k~~~~~~~~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v~~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF~~ 199 (303)
+||++.+++ ++++|++|||+|++++ |+++|.||+. . +.+++|++|++ ++|++
T Consensus 51 --------vG~~~~~~~-------~~~Kp~~G~f~kag~~--pkr~l~Efr~-~---------~~~~~G~~l~v-~~F~~ 102 (210)
T PRK00001 51 --------LGFGDKKEK-------RVNKPEAGHFAKAGVE--PKRHLREFRV-V---------EEYEVGQEITV-DIFEA 102 (210)
T ss_pred --------EeccccCcc-------cCCHHHhHHHHHcCCC--cceEEEEEcc-C---------CCCCCCCEEee-hhccC
Confidence 888877654 7999999999999976 9999999993 1 34689999999 69999
Q ss_pred CceEeEEEEeeccccccceEeeccCCCCCCCcC---CCCCCccccCC-CCCCcccCCcCCCCCCCeeeeeeceEEEEEcc
Q 022045 200 DEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR---GLRKVACIGAW-HPARVSFTVARAGQNGYHHRTEMNKKIYKLGK 275 (303)
Q Consensus 200 Gq~VDV~GvTKGKGFqGv~KR~gf~g~p~ksH~---~hR~~GSiG~~-~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kId~ 275 (303)
||+|||+|+|||||||||||||||+++| +||+ .||++||||++ +|+|||||++||||||++++|++||+|++||+
T Consensus 103 G~~VDV~g~tKGKGFqGvmKR~gf~g~p-~sHG~s~~hR~~GSiG~~~~PgrV~kgkkmaG~mG~~~~T~~nl~V~~i~~ 181 (210)
T PRK00001 103 GQKVDVTGTSKGKGFAGVIKRHNFSGGP-ASHGNSRSHRRPGSIGARQTPGRVFKGKKMAGHMGNERVTVQNLEVVKVDA 181 (210)
T ss_pred CCEEEEEEEEcCCcceeceEecccCCCC-CcCCcCcCCcCCcccCCCCCCCeECCCcccCCCCCCeEEEEeCCEEEEEcC
Confidence 9999999999999999999999999999 8985 79999999998 79999999999999999999999999999998
Q ss_pred C
Q 022045 276 A 276 (303)
Q Consensus 276 ~ 276 (303)
+
T Consensus 182 ~ 182 (210)
T PRK00001 182 E 182 (210)
T ss_pred C
Confidence 7
No 10
>KOG3141 consensus Mitochondrial/chloroplast ribosomal protein L3 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.3e-56 Score=413.46 Aligned_cols=180 Identities=26% Similarity=0.318 Sum_probs=167.4
Q ss_pred ceeeeEeEEeecceEEEcccCCCCCcCCCCceEEeEEEEEeCCeEEEEEeeeeeCCC---CcccceeeccccchHHHHhh
Q 022045 41 CRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPR---GLRSLCTVWAQHLNEEVRRR 117 (303)
Q Consensus 41 ~~~~G~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~p~~V~~i~~y~kt~~---Gy~av~~~~~~~~~~~~~r~ 117 (303)
.+++|+|+.|+||+.+|++ +|..+||||||+..|+|+.+ .+++ ||.|+|
T Consensus 60 s~R~GvI~~K~GMmp~w~k----------~G~ri~~TiL~v~d~~Vi~~----~t~E~~~g~~avq-------------- 111 (310)
T KOG3141|consen 60 SRRVGVIARKLGMMPLWDK----------DGERIPVTILQVDDNHVIKY----ITPEAKGGYFAVQ-------------- 111 (310)
T ss_pred cccceeEEEeccCchhhcc----------CCCEEEEEEEEEecceEEEE----echhhcCCeEEEE--------------
Confidence 5899999999999999999 89999999999999999999 6765 777775
Q ss_pred hhccccccccccccccccccccCCCcccCHHHHHHHhhhcccccCCCeEEEEEecCCCchhhhhhhhcccCccccccccc
Q 022045 118 FYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVF 197 (303)
Q Consensus 118 ~~k~~~~~~~~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v~~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF 197 (303)
||++..+.+ +++++++|||.++++. ||++|.||+|..+ |++.+|+.|.+ ++|
T Consensus 112 ----------VG~g~~~p~-------kltk~~~g~f~~~gv~--pK~~l~eF~Vt~~--------al~~pGt~l~~-~hF 163 (310)
T KOG3141|consen 112 ----------VGYGTVKPK-------KLTKAELGHFRSAGVP--PKRHLREFRVTEE--------ALLPPGTPLFA-RHF 163 (310)
T ss_pred ----------eccccCChH-------HhhHHHHHHHHHcCCC--hhhhhheEeechh--------ccCCCCcccch-hhc
Confidence 888777654 8999999999999865 9999999999842 88899999999 599
Q ss_pred cCCceEeEEEEeeccccccceEeeccCCCCCCCcC---CCCCCccccCC-CCCCcccCCcCCCCCCCeeeeeeceEEEEE
Q 022045 198 QKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR---GLRKVACIGAW-HPARVSFTVARAGQNGYHHRTEMNKKIYKL 273 (303)
Q Consensus 198 ~~Gq~VDV~GvTKGKGFqGv~KR~gf~g~p~ksH~---~hR~~GSiG~~-~PgrV~kgkkmaGqmG~~~rT~~Nl~I~kI 273 (303)
++||||||+|+|+||||||+||||||+|+| +||+ .||++||||+. +|||||||+|||||||+.+||++||+|++|
T Consensus 164 k~GqyVDV~g~TigkGFqGvmKR~GFkG~p-asHG~sksHR~~GS~G~~~~pgRV~pGrKMpGhMG~~~rtik~LkV~kI 242 (310)
T KOG3141|consen 164 KPGQYVDVTGKTIGKGFQGVMKRHGFKGGP-ASHGTSKSHRRPGSIGQGTTPGRVWPGRKMPGHMGNEWRTIKGLKVWKI 242 (310)
T ss_pred CCCceEEEEeeEeccccccceeeccccCCc-cccCccccccCCccccCCCCCcccccCCcCCcccCcceEEEeeeEEEEE
Confidence 999999999999999999999999999999 9996 69999999998 899999999999999999999999999999
Q ss_pred ccCc
Q 022045 274 GKAS 277 (303)
Q Consensus 274 d~~~ 277 (303)
|.++
T Consensus 243 d~~~ 246 (310)
T KOG3141|consen 243 DTEL 246 (310)
T ss_pred cCCc
Confidence 9986
No 11
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=48.60 E-value=22 Score=21.19 Aligned_cols=25 Identities=24% Similarity=0.313 Sum_probs=20.4
Q ss_pred ccCCceEeEEEEeeccccccceEeec
Q 022045 197 FQKDEMIDIIGVTKGKGYEGVVTRWG 222 (303)
Q Consensus 197 F~~Gq~VDV~GvTKGKGFqGv~KR~g 222 (303)
|++|+.|-|++ -.-+|+.|.|.++.
T Consensus 2 ~~~G~~V~I~~-G~~~g~~g~i~~i~ 26 (28)
T smart00739 2 FEVGDTVRVIA-GPFKGKVGKVLEVD 26 (28)
T ss_pred CCCCCEEEEeE-CCCCCcEEEEEEEc
Confidence 77899998888 55788899888764
No 12
>KOG0746 consensus 60S ribosomal protein L3 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=38.05 E-value=13 Score=36.61 Aligned_cols=58 Identities=14% Similarity=0.073 Sum_probs=46.4
Q ss_pred CCCCCCCCCCCCCCCCccccccccCCCCccCCCCCCCCCCceeeeEeEEeecceEEEcc
Q 022045 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRD 59 (303)
Q Consensus 1 m~~~k~~~pr~gsl~~~prkra~~~~p~~~~wP~~~~~~~~~~~G~iG~KvGMT~i~~~ 59 (303)
|.|++++.++.++.-+||+.|-++++|-...|-+|+-..-+..+=..|||-+-++ |..
T Consensus 167 lmeiqvngGtia~KvdwA~~~lEkqv~v~~vF~qdemId~IgvtkGkGykGvt~r-w~t 224 (384)
T KOG0746|consen 167 LMEIQVNGGTVAEKVDWARERLEKQVPVNQVFGQDEMIDVIGVTKGKGYKGVTSR-WHT 224 (384)
T ss_pred heeeeecCCcHHHHhHHHHhhhhccCchhhccccccccceeeeeecccccccccc-ccc
Confidence 4677999999999999999999999999999999875444555556788766444 443
No 13
>COG1551 CsrA RNA-binding global regulator CsrA [Signal transduction mechanisms]
Probab=23.10 E-value=2e+02 Score=22.40 Aligned_cols=35 Identities=23% Similarity=0.444 Sum_probs=26.6
Q ss_pred EeEEeecceEEEcccCCCCCcCCCCceEEeEEEEEeCCeEE-EEEeeeeeCCC
Q 022045 46 FLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVV-VGVVGYVKTPR 97 (303)
Q Consensus 46 ~iG~KvGMT~i~~~~d~~~s~~~g~g~~~PVTVlev~p~~V-~~i~~y~kt~~ 97 (303)
+|.+|+|=+=+..+ -+-+|||++.-++| +++ +.|.
T Consensus 3 ILsRk~~Esi~Igd-------------dI~itVl~i~gnqVkiGi----~APk 38 (73)
T COG1551 3 ILSRKVGESIMIGD-------------DIEITVLSIKGNQVKIGI----NAPK 38 (73)
T ss_pred eEEeecCceEEecC-------------CeEEEEEEEcCCeEEEee----cCCh
Confidence 46778887765543 48899999999998 888 6664
No 14
>KOG2500 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.99 E-value=1.6e+02 Score=27.95 Aligned_cols=66 Identities=20% Similarity=0.148 Sum_probs=39.2
Q ss_pred cccccccccccccCCCcccCHHHHHHHhhhcccccCCCeEEEEEecCCCchhhhhhhhcccCccccccccccCCceEeEE
Q 022045 127 KKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDII 206 (303)
Q Consensus 127 ~~g~~~~~~k~~~~~~~~~~k~~~g~~~k~~~~v~~k~~l~E~~v~~~~~~~~~~~a~~~lG~~i~v~~vF~~Gq~VDV~ 206 (303)
.+||++... +...+-++..||+= + +....+ |-. . -....+..|++. |++||.|.+-
T Consensus 106 GlGF~eR~d------afDfnvaLqDHfky--v--~~~~e~-ek~--e---------q~~d~~pslDlg--FKEGeTIkin 161 (253)
T KOG2500|consen 106 GLGFGERGD------AFDFNVALQDHFKY--V--KRQKEA-EKQ--E---------QHYDAGPSLDLG--FKEGETIKIN 161 (253)
T ss_pred eeccccccc------ccchhhhHHHHHHH--H--HHHHHH-Hhh--h---------cccCCCcccccc--ccCCcEEEEE
Confidence 477776553 35677888888852 1 111111 110 0 123468888875 9999988663
Q ss_pred -E-Eeecccccc
Q 022045 207 -G-VTKGKGYEG 216 (303)
Q Consensus 207 -G-vTKGKGFqG 216 (303)
+ +||++|=.+
T Consensus 162 ikn~tkk~g~~s 173 (253)
T KOG2500|consen 162 IKNITKKKGAAS 173 (253)
T ss_pred eecccccccccc
Confidence 3 578887666
Done!