Query 016469
Match_columns 389
No_of_seqs 182 out of 1257
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 07:08:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016469.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016469hhsearch_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-145 5E-150 1080.1 34.3 384 1-389 1-384 (390)
2 PRK04231 rpl3p 50S ribosomal p 100.0 6E-124 1E-128 917.3 31.9 334 3-370 1-337 (337)
3 TIGR03626 L3_arch archaeal rib 100.0 3E-121 6E-126 895.9 32.6 327 7-368 1-330 (330)
4 KOG0746 60S ribosomal protein 100.0 2E-120 4E-125 879.8 15.3 375 14-389 1-375 (384)
5 PF00297 Ribosomal_L3: Ribosom 100.0 3.6E-85 7.8E-90 629.9 16.7 259 50-343 1-263 (263)
6 COG0087 RplC Ribosomal protein 100.0 4.2E-69 9E-74 503.9 20.4 210 43-350 1-214 (218)
7 CHL00143 rpl3 ribosomal protei 100.0 5.3E-62 1.2E-66 454.4 21.7 202 43-345 2-206 (207)
8 PRK00001 rplC 50S ribosomal pr 100.0 1.7E-61 3.7E-66 451.6 21.8 203 43-348 2-208 (210)
9 TIGR03625 L3_bact 50S ribosoma 100.0 2.3E-61 4.9E-66 448.3 20.8 198 45-343 1-202 (202)
10 KOG3141 Mitochondrial/chloropl 100.0 5.2E-54 1.1E-58 412.5 19.0 224 41-367 60-288 (310)
11 KOG0746 60S ribosomal protein 75.1 1.2 2.6E-05 45.3 0.8 58 1-59 167-224 (384)
12 smart00739 KOW KOW (Kyprides, 33.1 59 0.0013 20.2 2.9 25 212-237 2-26 (28)
13 PTZ00486 apyrase Superfamily; 20.7 1.5E+02 0.0032 31.0 4.6 54 15-95 248-318 (352)
No 1
>PTZ00103 60S ribosomal protein L3; Provisional
Probab=100.00 E-value=2.5e-145 Score=1080.13 Aligned_cols=384 Identities=74% Similarity=1.231 Sum_probs=368.4
Q ss_pred CCCCCCCCCCCCCCCCccccccccCCCccccCCCCCCCCCceEeEeeeeeecceEEEeeccCCCCccCCCceEEEEEEEE
Q 016469 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIE 80 (389)
Q Consensus 1 M~hrk~~~PR~GSl~f~PrKRa~~~~~rirswP~~~~~~~~~l~gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE 80 (389)
|||||||+||||||||+|||||++++|||||||+||.+.+|+|+||+|||||||||+++||+|+|+++|+|+++||||||
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 99999999999999999999999999999999999976789999999999999999999999999999999999999999
Q ss_pred eCCeEEEEEEeEEecCCCceeeeEEecccCcHHHHhhhhcccccchhccccccccccccccchhHHHHHHHHhhcceeEE
Q 016469 81 TPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVI 160 (389)
Q Consensus 81 ~pP~~Vv~ir~y~~~~~g~~~~~~v~a~~i~~~~~rr~~k~~~~~~~~a~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~i 160 (389)
+|||+|+|+++|.+|++|+.+++||||++++++++|++||||++|+|+||+++.+.+.+ ..+++..++.|.++|++|
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 99999999999999999999999999999999999999999999999999998865422 145677777787889999
Q ss_pred EEEEeehhhhhcCccccCceEEEEEeCCCccccccccccccccceecccccccCCceEEEEEEeeeecceeeeEeeccCC
Q 016469 161 RVLAHTQIRKMKGLKQKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 240 (389)
Q Consensus 161 r~i~htqp~k~~gv~kkk~~l~E~~v~g~~~~~~~~~a~~~lG~~i~v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~ 240 (389)
|+|+||||++++ |+|||+|||||+|+|+++++++|||..+||++|+++|+|++||+|||+|+|||||||||||||||++
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 999999999876 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcCCCCCCCccCCCCCCCccCCCCCCCCCCCceeeeeeeEEEEEcCCcccCCcCcccccCCccccCCCCCCcceee
Q 016469 241 LPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEFDRTEKDITPMGGFPHYGV 320 (389)
Q Consensus 241 ~p~kth~~~R~~GsiG~~~P~rV~~g~~maGqmG~~~rT~~N~~I~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG~ 320 (389)
+|+++|++||++||||+|||+||+++++||||||||+||++||+||+|+.+ ++.++++|+||+++++|||+|||+|||+
T Consensus 237 ~p~ktH~~~RkvGsiG~w~P~RV~~~v~~aGQmG~h~rTe~Nk~I~rI~~~-~~~~~~~t~~~~~~~~ItP~GGF~hYG~ 315 (390)
T PTZ00103 237 LPRKTHRGLRKVACIGAWHPARVQYTVPRAGQHGYHHRTELNKKIYRIGVA-EDPNNATTEADLTEKTITPMGGFPHYGT 315 (390)
T ss_pred CCccccCCCCCCCccCCCCCCcccCCCccCcCCCCceEEEeccEEEEEcCC-CCcccccccccccccccccCCCccccce
Confidence 997799999999999999999999999999999999999999999999987 7788999999999999999999999999
Q ss_pred eeccEEEEeecccCCCCCEEEEEecccccchhhhccccceeEEecccccCcCCCCChHHHhhhccccCC
Q 016469 321 VNEDYLLIKGCCVGPKKRVVTLRQSLLKQTSRLALEEIKLKFIDTSSKFGHGRFQTTQEKAKYYGRLKA 389 (389)
Q Consensus 321 v~~~~i~vKGsVPG~~k~~v~ir~a~~~~~~~~~~~~~~i~~ist~Sk~G~g~fq~~~ek~~~~~~~k~ 389 (389)
|++||||||||||||++|+|+||++++++.+..++++|+|+||||+||+|||||||++||++|||+||+
T Consensus 316 V~~d~imiKGsVpGp~kr~v~lR~ai~~~~~~~~~~~~~lkfidtssk~ghgrfqt~~ek~~~~g~~k~ 384 (390)
T PTZ00103 316 VRNDFLMLKGCVVGPKKRVITLRKSLVPQTSRKALEKITLKFIDTSSKIGHGRFQTKEEKAKFYGPLKK 384 (390)
T ss_pred ecCCEEEEeccccCCCCceEEEehhhccccccccccccceeEeecccccCcccccChHHhhhhcchhhh
Confidence 999999999999999999999999999886557888999999999999999999999999999999985
No 2
>PRK04231 rpl3p 50S ribosomal protein L3P; Reviewed
Probab=100.00 E-value=6.4e-124 Score=917.27 Aligned_cols=334 Identities=43% Similarity=0.784 Sum_probs=313.8
Q ss_pred CCCCCCCCCCCCCCccccccccCCCccccCCCCCCCCCceEeEeeeeeecceEEEeeccCCCCccCCCceEEEEEEEEeC
Q 016469 3 HRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETP 82 (389)
Q Consensus 3 hrk~~~PR~GSl~f~PrKRa~~~~~rirswP~~~~~~~~~l~gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~p 82 (389)
|||||+||||||||+|||||++++|||||||+||. +|+|+||+|||||||||+++||+|+|+++|+|+++||||||+|
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 68999999999999999999999999999999974 8999999999999999999999999999999999999999999
Q ss_pred CeEEEEEEeEEecCCCceeeeEEecccCcHHHHhhhhcccccchhccccccccccccccchhHHHHHHHHhhcceeEEEE
Q 016469 83 PLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRV 162 (389)
Q Consensus 83 P~~Vv~ir~y~~~~~g~~~~~~v~a~~i~~~~~rr~~k~~~~~~~~a~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ir~ 162 (389)
||.|+|+|+|.+|+||+.+++||||+++++++.|+++++|++++++||. +++.+++. ++|++||+
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 9999999999999999999999999999999999999998777655542 22333432 78999999
Q ss_pred EEeehhhhhcCccccCceEEEEEeCCCccccccccccccccceecccccccCCceEEEEEEeeeecceeeeEeeccCCCC
Q 016469 163 LAHTQIRKMKGLKQKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLP 242 (389)
Q Consensus 163 i~htqp~k~~gv~kkk~~l~E~~v~g~~~~~~~~~a~~~lG~~i~v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~~p 242 (389)
|+||||++++||+||++||||++|+|++++++||||...+|++|+++|+|++||+|||+|+|||||||||||||||+++|
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 99999999888999999999999999999999999999999999998899999999999999999999999999999999
Q ss_pred CCCcC---CCCCCCccCCCCCCCccCCCCCCCCCCCceeeeeeeEEEEEcCCcccCCcCcccccCCccccCCCCCCccee
Q 016469 243 RKTHR---GLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEFDRTEKDITPMGGFPHYG 319 (389)
Q Consensus 243 ~kth~---~~R~~GsiG~~~P~rV~~g~~maGqmG~~~rT~~N~~I~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG 319 (389)
++|+ .||++||||+|+|+||||+++||||||||+||++||+|++|+++ + ++|||+|||+|||
T Consensus 224 -~~Hg~~~~~R~~GsiG~~~P~rV~~~~~maGqmG~~~rT~~N~~I~kI~~~-~-------------~~ItP~GGF~hYG 288 (337)
T PRK04231 224 -RKHKRRGGSRHIGTLGPWNPSRVMWTVPQAGQMGFHQRTEYNKRILKIGDD-G-------------DEITPKGGFLHYG 288 (337)
T ss_pred -CccCCCCCCCCCcccCCCCCCcccCCCccCCCCCCceEEEecCEEEEEcCC-c-------------cccccCCCccccc
Confidence 4543 69999999999999999999999999999999999999999976 3 5999999999999
Q ss_pred eeeccEEEEeecccCCCCCEEEEEecccccchhhhccccceeEEecccccC
Q 016469 320 VVNEDYLLIKGCCVGPKKRVVTLRQSLLKQTSRLALEEIKLKFIDTSSKFG 370 (389)
Q Consensus 320 ~v~~~~i~vKGsVPG~~k~~v~ir~a~~~~~~~~~~~~~~i~~ist~Sk~G 370 (389)
+|++||||||||||||++++|+||++++++. .++++|+|+||||+||||
T Consensus 289 ~V~~~~ilvKGsVPG~~kr~v~lr~air~~~--~~~~~p~i~yis~~SkqG 337 (337)
T PRK04231 289 LVRNDYVLIKGSVPGPAKRLIRLRPAIRPPE--PPVEAPEITYVSTESKQG 337 (337)
T ss_pred cccCCEEEEEecccCCCCceEEEehhhccCc--ccccCCcceEEeCcCcCC
Confidence 9999999999999999999999999999883 678899999999999998
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=2.6e-121 Score=895.91 Aligned_cols=327 Identities=41% Similarity=0.774 Sum_probs=304.5
Q ss_pred CCCCCCCCCCccccccccCCCccccCCCCCCCCCceEeEeeeeeecceEEEeeccCCCCccCCCceEEEEEEEEeCCeEE
Q 016469 7 EHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVV 86 (389)
Q Consensus 7 ~~PR~GSl~f~PrKRa~~~~~rirswP~~~~~~~~~l~gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~pP~~V 86 (389)
|+||||||||+|||||++++|||||||+|| .+|+|+||+|||||||||+++||+|+|+++|+|+++||||||+|||.|
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 799999999999999999999999999987 589999999999999999999999999999999999999999999999
Q ss_pred EEEEeEEecCCCceeeeEEecccCcHHHHhhhhcccccchhccccccccccccccchhHHHHHHHHhhcceeEEEEEEee
Q 016469 87 VGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRVLAHT 166 (389)
Q Consensus 87 v~ir~y~~~~~g~~~~~~v~a~~i~~~~~rr~~k~~~~~~~~a~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ir~i~ht 166 (389)
+|+++|.+|+||+++++||||+++++++.|++|+ +|++.. .++++..++.|.++|++||+|+||
T Consensus 79 ~gir~Y~~t~~Gl~~l~~vwa~~l~~e~~r~~~~-------------~k~~~~---~~~~~~~~~~l~~~~~~iRvi~~T 142 (330)
T TIGR03626 79 AAIRAYGKDPYGLKVLTEVWANNLDKELSRKITL-------------PKNYDV---EEKLEKIEELLENDADDVRLIVHT 142 (330)
T ss_pred EEEEEEEECCCCcEEEEEEeeccCcHHHhhcccc-------------ccccch---hhHHHHHHHHHhcCceEEEEEEEe
Confidence 9999999999999999999999999999998873 222221 024455566565669999999999
Q ss_pred hhhhhcCccccCceEEEEEeCCCccccccccccccccceecccccccCCceEEEEEEeeeecceeeeEeeccCCCCCCCc
Q 016469 167 QIRKMKGLKQKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH 246 (389)
Q Consensus 167 qp~k~~gv~kkk~~l~E~~v~g~~~~~~~~~a~~~lG~~i~v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~~p~kth 246 (389)
||++++||+|||+||||++|+|++++++||||..++|++|+++|+|++||+|||+|+|||||||||||||||+++| ++|
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 9998878999999999999999999999999999999999998899999999999999999999999999999999 444
Q ss_pred ---CCCCCCCccCCCCCCCccCCCCCCCCCCCceeeeeeeEEEEEcCCcccCCcCcccccCCccccCCCCCCcceeeeec
Q 016469 247 ---RGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEFDRTEKDITPMGGFPHYGVVNE 323 (389)
Q Consensus 247 ---~~~R~~GsiG~~~P~rV~~g~~maGqmG~~~rT~~N~~I~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG~v~~ 323 (389)
+.||++||||+|+|+|||||++||||||||+||++||+|++||++ + ++|||+|||+|||+|++
T Consensus 222 g~~~~~R~~GsiG~~~P~rV~~~~~maGqmG~~~rT~~N~~I~kI~~e-~-------------~~ItP~GGF~~YG~Vk~ 287 (330)
T TIGR03626 222 KRRKGGRHIGTLGPWTPSRVRWTVPQAGQMGYHQRTEYNKRILKIGED-G-------------DEITPKGGFVNYGLVRN 287 (330)
T ss_pred CCCCCCCCCcccCCCCCCcccCCcccCCCCCCceEEEecCEEEEEcCc-c-------------ccccccCCccccccccC
Confidence 578999999999999999999999999999999999999999977 3 58999999999999999
Q ss_pred cEEEEeecccCCCCCEEEEEecccccchhhhccccceeEEecccc
Q 016469 324 DYLLIKGCCVGPKKRVVTLRQSLLKQTSRLALEEIKLKFIDTSSK 368 (389)
Q Consensus 324 ~~i~vKGsVPG~~k~~v~ir~a~~~~~~~~~~~~~~i~~ist~Sk 368 (389)
||||||||||||++++|+||++++++. .+.++|+|+||||+||
T Consensus 288 ~~ilvKGsVPG~~~r~v~lr~a~~~~~--~~~~~p~i~yist~Sk 330 (330)
T TIGR03626 288 DYVLIKGSVPGPSKRLIRLRDAIRPPK--PPEGAPEITYISLESK 330 (330)
T ss_pred CEEEEEecCcCCCCceEEEehhhccCc--ccccCCcceEEeCCCC
Confidence 999999999999999999999999873 6778999999999997
No 4
>KOG0746 consensus 60S ribosomal protein L3 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.9e-120 Score=879.83 Aligned_cols=375 Identities=72% Similarity=1.206 Sum_probs=366.3
Q ss_pred CCCccccccccCCCccccCCCCCCCCCceEeEeeeeeecceEEEeeccCCCCccCCCceEEEEEEEEeCCeEEEEEEeEE
Q 016469 14 LGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYV 93 (389)
Q Consensus 14 l~f~PrKRa~~~~~rirswP~~~~~~~~~l~gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~pP~~Vv~ir~y~ 93 (389)
|||+|||||++|.++|++||+||.+++++|++|+|||||||||+++.|+|+|+.|++|++++|||||+|||+|+|+.+|.
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 ecCCCceeeeEEecccCcHHHHhhhhcccccchhccccccccccccccchhHHHHHHHHhhcceeEEEEEEeehhhhhcC
Q 016469 94 KTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRVLAHTQIRKMKG 173 (389)
Q Consensus 94 ~~~~g~~~~~~v~a~~i~~~~~rr~~k~~~~~~~~a~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ir~i~htqp~k~~g 173 (389)
++|.||+++.+|||+|||+|++||||+||++|+++||++|.+++..+.++..++.+|+.|++||++||+|+|||++++.
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 9999999999999999999999999999999999999999999866667788899999999999999999999999987
Q ss_pred ccccCceEEEEEeCCCccccccccccccccceecccccccCCceEEEEEEeeeecceeeeEeeccCCCCCCCcCCCCCCC
Q 016469 174 LKQKKAHLMEIQVNGGSVAQKVDFAYGFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHRGLRKVA 253 (389)
Q Consensus 174 v~kkk~~l~E~~v~g~~~~~~~~~a~~~lG~~i~v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~~p~kth~~~R~~G 253 (389)
+.|+|+||+|+||||+++++++|||...+.+++.++++|...|+||+||+|||+||+||+.|||.+.+|++||++.|+++
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 ccCCCCCCCccCCCCCCCCCCCceeeeeeeEEEEEcCCcccCCcCcccccCCccccCCCCCCcceeeeeccEEEEeeccc
Q 016469 254 CIGAWHPARVSFTVARAGQNGYHHRTEMNKKIYKLGKASQESHSAMTEFDRTEKDITPMGGFPHYGVVNEDYLLIKGCCV 333 (389)
Q Consensus 254 siG~~~P~rV~~g~~maGqmG~~~rT~~N~~I~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG~v~~~~i~vKGsVP 333 (389)
|||+|||+||.|++.+|||+|||+||+.|++||+|+..-...+|++||||++++.|||+|||+|||+|+|||+|+||||+
T Consensus 240 cigawhpa~V~~sVaRaGqkgyHhrTeiNkkiY~ig~g~~~~~nastdyDlt~k~itpmggf~hYG~V~ndfvM~kgcvv 319 (384)
T KOG0746|consen 240 CIGAWHPARVAFSVARAGQKGYHHRTEINKKIYRIGQGKLIKNNASTDYDLTEKSITPMGGFPHYGEVINDFVMLKGCVV 319 (384)
T ss_pred ecccccccceeeeeeccccccchhhhhhhhheeecccccccccccccCccccccccccCCCcceeeeeechheeeccccc
Confidence 99999999999999999999999999999999999985245899999999999999999999999999999999999999
Q ss_pred CCCCCEEEEEecccccchhhhccccceeEEecccccCcCCCCChHHHhhhccccCC
Q 016469 334 GPKKRVVTLRQSLLKQTSRLALEEIKLKFIDTSSKFGHGRFQTTQEKAKYYGRLKA 389 (389)
Q Consensus 334 G~~k~~v~ir~a~~~~~~~~~~~~~~i~~ist~Sk~G~g~fq~~~ek~~~~~~~k~ 389 (389)
|+++++++||+++..+.++.++++++++||||+|++|||||||.+||++||||||+
T Consensus 320 g~kKrv~TLrksll~qtkr~alE~i~lKfiDTtSkfGhgrFQT~~EKkAFmgpLkK 375 (384)
T KOG0746|consen 320 GPKKRVVTLRKSLLKQTKRRALEKIVLKFIDTTSKFGHGRFQTVEEKKAFMGPLKK 375 (384)
T ss_pred CccccccchhhhhhhhhhhhhhhcccceeeeeccccCCcccccHHHHHHHhhhHhh
Confidence 99999999999999998889999999999999999999999999999999999986
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=3.6e-85 Score=629.88 Aligned_cols=259 Identities=42% Similarity=0.758 Sum_probs=220.0
Q ss_pred eecceEEEeeccCCCCccCCCceEEEEEEEEeCCeEEEEEEeEEecCCCceeeeEEecccCcHHHHhhhhcccccchhcc
Q 016469 50 KAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCKSKKKA 129 (389)
Q Consensus 50 K~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~pP~~Vv~ir~y~~~~~g~~~~~~v~a~~i~~~~~rr~~k~~~~~~~~a 129 (389)
||||||||++||+|+|+++++|+++||||||+|||+|+++++|+.+++|+.+++++|++++++++.|+++++..
T Consensus 1 K~GMT~v~~~~~~~~s~~~~~g~~~pVTVle~~p~~V~~ir~~~~~~~G~~~~~~~~~~~~~~~~~r~~~~~~~------ 74 (263)
T PF00297_consen 1 KVGMTHVFMIDDRPGSPTEGKGVFVPVTVLEVPPCVVVGIRTYEDTNDGLKAVQEVWAEHISDDLKRRIYKNKD------ 74 (263)
T ss_dssp EEEEEEEEEEB-STTSTTTTSEEEEEEEEEEE--EEEEEEEEEEEETTEEEEEEEEESS--STHHHGTCTSTTS------
T ss_pred CCcceEEEEecCcCCCccCCCCEEEEEEEEEECCeEEEEEEeEecCCCcceeeEEEeccccccccceeeecccc------
Confidence 89999999999999999999999999999999999999999999999999999999999999999998874310
Q ss_pred ccccccccccccchhHHHHHHHHhhcceeEEEEEEeehhhhhcCccccCceEEEEEeCCCccccccccccccc--cceec
Q 016469 130 FTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRVLAHTQIRKMKGLKQKKAHLMEIQVNGGSVAQKVDFAYGFF--EKQIP 207 (389)
Q Consensus 130 ~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ir~i~htqp~k~~gv~kkk~~l~E~~v~g~~~~~~~~~a~~~l--G~~i~ 207 (389)
.+ ++++..++..+..+.++|+|+|||++.+. +.+|+++|+||+|++++++++||||...+ |++|+
T Consensus 75 --g~----------~a~~~~~~~~~~~~~~~~~~~~~~~~~~~-i~~~k~~i~E~~v~~~~~~~~~~~a~~~l~~G~~i~ 141 (263)
T PF00297_consen 75 --GY----------KAVQLGFGEKKEKRVSKRLLGHFQKAGVP-IPKKKPHIMEFRVSGGDVEEKLEYAKELLGVGKEIK 141 (263)
T ss_dssp --SC----------HCCEECCCHHCCSTSCCECCEEHHGGGSS-SS-CSSEEEEEECESSSHHHHHHHHHHHCSCSSEBS
T ss_pred --cc----------hhhhhhhhhccccccchhhhhcccccccc-hhhccceeEEecccccChhHhhhhhhhhcCccceee
Confidence 11 11111122334578899999999999864 88899999999999999999999986555 59999
Q ss_pred ccccccCCceEEEEEEeeeecceeeeEeeccCCCCCCCcC-C-CCCCCccCCCCCCCccCCCCCCCCCCCceeeeeeeEE
Q 016469 208 IDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR-G-LRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKI 285 (389)
Q Consensus 208 v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~~p~kth~-~-~R~~GsiG~~~P~rV~~g~~maGqmG~~~rT~~N~~I 285 (389)
++|+|++||+|||+|+|||||||||||||||+++| ++|+ + ||++||||+|+|+|||+|++||||||||+||++||+|
T Consensus 142 v~dvF~~Gq~VDV~gvTKGKGFqGv~KR~gf~~~p-~sHg~~~hR~~GsiG~~~PgrV~~g~kmaGqmG~~~rT~~Nl~I 220 (263)
T PF00297_consen 142 VNDVFKEGQYVDVIGVTKGKGFQGVMKRWGFKGGP-ASHGSSKHRKPGSIGAWTPGRVFKGKKMAGQMGNHRRTEQNLRI 220 (263)
T ss_dssp CCTTSSTTSEEEEEEEE-EEEEETHHHHCSS--S--SSSSSTTSSSSS-SSCSSSSSCGTTSTSSEEESSSEEEEEEEEE
T ss_pred hhheecccceEEEEEeecCccccccccccCCCccC-CCCCCcccCCCCcccccccceeecccccCccccceEEEecCcEE
Confidence 99999999999999999999999999999999999 5664 4 8999999999999999999999999999999999999
Q ss_pred EEEcCCcccCCcCcccccCCccccCCCCCCcceeeeeccEEEEeecccCCCCCEEEEE
Q 016469 286 YKLGKASQESHSAMTEFDRTEKDITPMGGFPHYGVVNEDYLLIKGCCVGPKKRVVTLR 343 (389)
Q Consensus 286 ~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG~v~~~~i~vKGsVPG~~k~~v~ir 343 (389)
++|+++ ++|||+|||+|||+|++||||||||||||++++|+||
T Consensus 221 ~~i~~~---------------~~i~p~ggf~~yG~v~~n~ilvKGsVPG~~~~~V~iR 263 (263)
T PF00297_consen 221 VKIDDD---------------KEINPKGGFKHYGLVENNLILVKGSVPGPKKRLVKIR 263 (263)
T ss_dssp EEEETS---------------SSSSSTT-BTTTB--TTTEEEEES-TSSSTTEEEEEE
T ss_pred EEeCCC---------------ccccCCCCceeEeeecCCEEEEeccccCCCCceEEeC
Confidence 999985 6899999999999999999999999999999999997
No 6
>COG0087 RplC Ribosomal protein L3 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.2e-69 Score=503.88 Aligned_cols=210 Identities=37% Similarity=0.586 Sum_probs=184.6
Q ss_pred EeEeeeeeecceEEEeeccCCCCccCCCceEEEEEEEEeCCeEEEEEEeEEecCCCceeeeEEecccCcHHHHhhhhccc
Q 016469 43 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNW 122 (389)
Q Consensus 43 l~gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~pP~~Vv~ir~y~~~~~g~~~~~~v~a~~i~~~~~rr~~k~~ 122 (389)
++||||||+||||||+++ ++.+||||||+|||+|+|+++|+.| |+. +.++|+++..
T Consensus 1 ~~G~~G~KvGMT~vf~~~----------g~~vPVTVie~~p~~V~~vkt~e~d--Gy~-a~qv~~~~~k----------- 56 (218)
T COG0087 1 MLGFLGYKVGMTHVFDER----------GISVPVTVIEVPPNVVVQVKTYETD--GYR-AVQVGAGDRK----------- 56 (218)
T ss_pred CcccceEeccceEEEccC----------CcEEEEEEEEcCCcEEEEEEecccC--CcE-EEEEeeccee-----------
Confidence 479999999999999996 7999999999999999999999977 555 5678876520
Q ss_pred ccchhccccccccccccccchhHHHHHHHHhhcceeEEEEEEeehhhhhcCccccCceEEEEEeCCCccccccccccccc
Q 016469 123 CKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRVLAHTQIRKMKGLKQKKAHLMEIQVNGGSVAQKVDFAYGFF 202 (389)
Q Consensus 123 ~~~~~~a~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ir~i~htqp~k~~gv~kkk~~l~E~~v~g~~~~~~~~~a~~~l 202 (389)
...+.|.+++|+++ +++ +|+++|+|||+++.+.++++ ++
T Consensus 57 ---------------------------------~~~~~k~~~g~~~k--~~~-~~k~~l~E~rv~~~~~~~~~-----e~ 95 (218)
T COG0087 57 ---------------------------------AKRVNKPLVGHFAK--AGV-KPKRHLAEFRVGGGDVAEKF-----EV 95 (218)
T ss_pred ---------------------------------eehhccceeeeecc--cCC-CCCCeEEEEEecCcccccee-----ch
Confidence 12234667788866 345 59999999999887655444 46
Q ss_pred cceecccccccCCceEEEEEEeeeecceeeeEeeccCCCCCCCcC---CCCCCCccCC-CCCCCccCCCCCCCCCCCcee
Q 016469 203 EKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR---GLRKVACIGA-WHPARVSFTVARAGQNGYHHR 278 (389)
Q Consensus 203 G~~i~v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~~p~kth~---~~R~~GsiG~-~~P~rV~~g~~maGqmG~~~r 278 (389)
|++|++ |+|++||+|||+|+||||||||+||||||+++| ++|+ .||++||||+ |+|+|||||++||||||||+|
T Consensus 96 g~ei~~-dvF~~g~~VDV~gvTKGKGF~G~~KR~gf~~~p-~sHg~~~~hR~~GSiG~~~~P~rV~~g~kmaG~mG~~~v 173 (218)
T COG0087 96 GQEITV-DVFKEGELVDVTGVTKGKGFQGVMKRWGFKGGP-ASHGSSLSHRRPGSIGQRQTPGRVFKGKKMAGHMGNERV 173 (218)
T ss_pred hhhhch-hhccCCCEEEEEEEecccccceeeeecccccCC-cccCCCccccCCcccCCCCCCCceeCCCccCccCCCceE
Confidence 788887 799999999999999999999999999999999 6774 4999999995 999999999999999999999
Q ss_pred eeeeeEEEEEcCCcccCCcCcccccCCccccCCCCCCcceeeeeccEEEEeecccCCCCCEEEEEecccccc
Q 016469 279 TEMNKKIYKLGKASQESHSAMTEFDRTEKDITPMGGFPHYGVVNEDYLLIKGCCVGPKKRVVTLRQSLLKQT 350 (389)
Q Consensus 279 T~~N~~I~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG~v~~~~i~vKGsVPG~~k~~v~ir~a~~~~~ 350 (389)
|+|||+|++||.+ +||||||||||||++++|+||+|+++..
T Consensus 174 TvqNl~Vv~id~e-------------------------------~~~ilVkGaVPG~~k~~v~vr~a~k~~~ 214 (218)
T COG0087 174 TVQNLEVVKVDVE-------------------------------NNLILVKGAVPGAKKRLVVVRPAVKAKK 214 (218)
T ss_pred EEEeeEEEEEcCC-------------------------------CCEEEEecccCCCCCceEEEehhhccCC
Confidence 9999999999998 9999999999999999999999999874
No 7
>CHL00143 rpl3 ribosomal protein L3; Validated
Probab=100.00 E-value=5.3e-62 Score=454.43 Aligned_cols=202 Identities=25% Similarity=0.339 Sum_probs=178.7
Q ss_pred EeEeeeeeecceEEEeeccCCCCccCCCceEEEEEEEEeCCeEEEEEEeEEecCCCceeeeEEecccCcHHHHhhhhccc
Q 016469 43 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNW 122 (389)
Q Consensus 43 l~gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~pP~~Vv~ir~y~~~~~g~~~~~~v~a~~i~~~~~rr~~k~~ 122 (389)
.+|+||+|+|||++|+++ |.++||||||+.||+|+++++-++|+|.+.+++.-+.. .
T Consensus 2 ~~glig~KiGMt~~f~~~----------G~~vpvTvl~~~~~~V~~~kt~e~dGY~avqvg~~~~~----------~--- 58 (207)
T CHL00143 2 SIGLLGTKIGMTQIFDET----------GNAIPVTILKVGPCVITQIKTLTTDGYNAIQIGYKQVS----------T--- 58 (207)
T ss_pred cceEEEEEccceEEECCC----------CCEEEEEEEEECCeEEEEEecCCCCCcEEEEEeeeecc----------c---
Confidence 579999999999999998 99999999999999999999999999988877722110 0
Q ss_pred ccchhccccccccccccccchhHHHHHHHHhhcceeEEEEEEeehhhhhcCccccCceEEEEEeCCCccccccccccccc
Q 016469 123 CKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRVLAHTQIRKMKGLKQKKAHLMEIQVNGGSVAQKVDFAYGFF 202 (389)
Q Consensus 123 ~~~~~~a~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ir~i~htqp~k~~gv~kkk~~l~E~~v~g~~~~~~~~~a~~~l 202 (389)
.+++| +..++| ++ +|++ ++++|.||+|... +.+++
T Consensus 59 --------k~~~K---------~~~G~f------------------~k-a~v~-p~r~l~Efrv~~~--------~~~~v 93 (207)
T CHL00143 59 --------KKLTK---------PQLGHL------------------QK-SNVP-PLKYLKEFRVKSS--------EEFEV 93 (207)
T ss_pred --------ccCCh---------hhcchh------------------HH-cCCC-cceEEEEEEcCCc--------ccCCC
Confidence 11332 234455 35 5896 8999999999753 45789
Q ss_pred cceecccccccCCceEEEEEEeeeecceeeeEeeccCCCCCCCcC--CCCCCCccCCC-CCCCccCCCCCCCCCCCceee
Q 016469 203 EKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR--GLRKVACIGAW-HPARVSFTVARAGQNGYHHRT 279 (389)
Q Consensus 203 G~~i~v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~~p~kth~--~~R~~GsiG~~-~P~rV~~g~~maGqmG~~~rT 279 (389)
|++|++ ++|++||+|||+|+|||||||||||||||+++| +||+ .||++||||++ +|+|||+|++||||||++++|
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 GQPLTV-DAFSVGQLVNVSGKSIGKGFAGLQKRHNFSRGP-MTHGSKNHRAPGSIGAGTTPGRVYPGKKMAGRLGNKKVT 171 (207)
T ss_pred CCEEEh-hhccCCCEEEEEEEecCCcceeeeEeeccCCCC-CccCCCCCCCCcccCCCCCCCeEcCCCccCCCCCCeeEE
Confidence 999999 589999999999999999999999999999999 7997 69999999995 799999999999999999999
Q ss_pred eeeeEEEEEcCCcccCCcCcccccCCccccCCCCCCcceeeeeccEEEEeecccCCCCCEEEEEec
Q 016469 280 EMNKKIYKLGKASQESHSAMTEFDRTEKDITPMGGFPHYGVVNEDYLLIKGCCVGPKKRVVTLRQS 345 (389)
Q Consensus 280 ~~N~~I~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG~v~~~~i~vKGsVPG~~k~~v~ir~a 345 (389)
++||+|++||.+ +|+|+||||||||++++|.|+++
T Consensus 172 v~nl~Vv~vd~e-------------------------------~nli~VkGsVPG~~g~~v~i~~~ 206 (207)
T CHL00143 172 IKNLKILKVDSE-------------------------------NNLLVLKGSVPGKPGNLLSISPS 206 (207)
T ss_pred EeccEEEEEeCC-------------------------------CCEEEEEecCcCCCCCEEEEEEC
Confidence 999999999999 99999999999999999999975
No 8
>PRK00001 rplC 50S ribosomal protein L3; Validated
Probab=100.00 E-value=1.7e-61 Score=451.60 Aligned_cols=203 Identities=29% Similarity=0.405 Sum_probs=178.6
Q ss_pred EeEeeeeeecceEEEeeccCCCCccCCCceEEEEEEEEeCCeEEEEEEeEEecCCCceeeeEEecccCcHHHHhhhhccc
Q 016469 43 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNW 122 (389)
Q Consensus 43 l~gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~pP~~Vv~ir~y~~~~~g~~~~~~v~a~~i~~~~~rr~~k~~ 122 (389)
++|+||+|+|||++|+++ |..+||||||++||+|+++++-++|+|.+.+++. .+.. .
T Consensus 2 ~~Glig~KiGMt~ifd~~----------G~~vpvTvl~v~~~~V~~~kt~e~dGY~avqvG~---~~~~-------~--- 58 (210)
T PRK00001 2 MKGILGKKVGMTQIFTED----------GESIPVTVIEAGPNVVTQVKTVEKDGYNAVQLGF---GDKK-------E--- 58 (210)
T ss_pred ccEEEEEEecceEEECCC----------CCEEEEEEEEecCcEEEEEeCCCCCCcEEEEEec---cccC-------c---
Confidence 689999999999999998 9999999999999999999999999998777761 1110 0
Q ss_pred ccchhccccccccccccccchhHHHHHHHHhhcceeEEEEEEeehhhhhcCccccCceEEEEEeCCCccccccccccccc
Q 016469 123 CKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRVLAHTQIRKMKGLKQKKAHLMEIQVNGGSVAQKVDFAYGFF 202 (389)
Q Consensus 123 ~~~~~~a~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ir~i~htqp~k~~gv~kkk~~l~E~~v~g~~~~~~~~~a~~~l 202 (389)
..++ ++..++| ++ +|++ ++++|.||+.. +.+.+
T Consensus 59 --------~~~~---------Kp~~G~f------------------~k-ag~~-pkr~l~Efr~~----------~~~~~ 91 (210)
T PRK00001 59 --------KRVN---------KPEAGHF------------------AK-AGVE-PKRHLREFRVV----------EEYEV 91 (210)
T ss_pred --------ccCC---------HHHhHHH------------------HH-cCCC-cceEEEEEccC----------CCCCC
Confidence 1133 2345555 35 5786 89999999931 45789
Q ss_pred cceecccccccCCceEEEEEEeeeecceeeeEeeccCCCCCCCcC---CCCCCCccCCC-CCCCccCCCCCCCCCCCcee
Q 016469 203 EKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR---GLRKVACIGAW-HPARVSFTVARAGQNGYHHR 278 (389)
Q Consensus 203 G~~i~v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~~p~kth~---~~R~~GsiG~~-~P~rV~~g~~maGqmG~~~r 278 (389)
|++|++ |+|++||+|||+|+||||||||+||||||+++| ++|+ .||++||||+| +|+|||+|++|||||||+++
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 GQEITV-DIFEAGQKVDVTGTSKGKGFAGVIKRHNFSGGP-ASHGNSRSHRRPGSIGARQTPGRVFKGKKMAGHMGNERV 169 (210)
T ss_pred CCEEee-hhccCCCEEEEEEEEcCCcceeceEecccCCCC-CcCCcCcCCcCCcccCCCCCCCeECCCcccCCCCCCeEE
Confidence 999999 699999999999999999999999999999999 8885 69999999995 69999999999999999999
Q ss_pred eeeeeEEEEEcCCcccCCcCcccccCCccccCCCCCCcceeeeeccEEEEeecccCCCCCEEEEEecccc
Q 016469 279 TEMNKKIYKLGKASQESHSAMTEFDRTEKDITPMGGFPHYGVVNEDYLLIKGCCVGPKKRVVTLRQSLLK 348 (389)
Q Consensus 279 T~~N~~I~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG~v~~~~i~vKGsVPG~~k~~v~ir~a~~~ 348 (389)
|++||+|++||.+ +|||+||||||||++++|.||++++.
T Consensus 170 T~~nl~V~~i~~~-------------------------------~nli~vkGsVPG~~~~~v~ir~a~k~ 208 (210)
T PRK00001 170 TVQNLEVVKVDAE-------------------------------RNLLLVKGAVPGAKGGLVIIKPAVKA 208 (210)
T ss_pred EEeCCEEEEEcCC-------------------------------CCEEEEEecCcCCCCCEEEEEeeeec
Confidence 9999999999998 99999999999999999999999874
No 9
>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=2.3e-61 Score=448.30 Aligned_cols=198 Identities=29% Similarity=0.401 Sum_probs=174.3
Q ss_pred EeeeeeecceEEEeeccCCCCccCCCceEEEEEEEEeCCeEEEEEEeEEecCCCceeeeEEecccCcHHHHhhhhccccc
Q 016469 45 AFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYVKTPRGLRSLCTVWAQHLNEEVRRRFYKNWCK 124 (389)
Q Consensus 45 gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~pP~~Vv~ir~y~~~~~g~~~~~~v~a~~i~~~~~rr~~k~~~~ 124 (389)
|+||+|+|||++|+++ |..+||||||++||+|+++++-++|+|.+.+++. .+. + .
T Consensus 1 Glig~KiGMt~if~~~----------G~~ipvTVl~v~~~~V~q~kt~e~dGY~AvqvG~---~~~-----~--~----- 55 (202)
T TIGR03625 1 GLLGKKVGMTQIFTED----------GKAVPVTVIEVGPNVVTQVKTVEKDGYSAVQLGF---GEK-----K--E----- 55 (202)
T ss_pred CccEEecceeEEECCC----------CcEEEEEEEEeCCcEEEEEeCCCCCCcEEEEEec---ccc-----c--c-----
Confidence 6899999999999998 9999999999999999999999999887777661 111 0 0
Q ss_pred chhccccccccccccccchhHHHHHHHHhhcceeEEEEEEeehhhhhcCccccCceEEEEEeCCCccccccccccccccc
Q 016469 125 SKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRVLAHTQIRKMKGLKQKKAHLMEIQVNGGSVAQKVDFAYGFFEK 204 (389)
Q Consensus 125 ~~~~a~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ir~i~htqp~k~~gv~kkk~~l~E~~v~g~~~~~~~~~a~~~lG~ 204 (389)
.+++ +++.++| ++ +|++ ++++|.||+|.+. +.+++|+
T Consensus 56 ------~~~~---------Kp~~G~f------------------~K-ag~~-pkr~l~Efrv~~~--------~~~~~G~ 92 (202)
T TIGR03625 56 ------KRVN---------KPEAGHF------------------AK-AGVE-PKRHLREFRVDDL--------EGYEVGD 92 (202)
T ss_pred ------ccCC---------hhhhhHH------------------HH-cCCC-cCcEEEEEEcCCc--------ccCCCCC
Confidence 1123 2344555 35 5886 8999999999764 4578999
Q ss_pred eecccccccCCceEEEEEEeeeecceeeeEeeccCCCCCCCcC---CCCCCCccCCC-CCCCccCCCCCCCCCCCceeee
Q 016469 205 QIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR---GLRKVACIGAW-HPARVSFTVARAGQNGYHHRTE 280 (389)
Q Consensus 205 ~i~v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~~p~kth~---~~R~~GsiG~~-~P~rV~~g~~maGqmG~~~rT~ 280 (389)
+|++ |+|++||+|||+|+||||||||+||||||+++| ++|+ .||++||||+| +|+|||+|++||||||++++|+
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 799999999999999999999999999999999 7885 69999999997 5999999999999999999999
Q ss_pred eeeEEEEEcCCcccCCcCcccccCCccccCCCCCCcceeeeeccEEEEeecccCCCCCEEEEE
Q 016469 281 MNKKIYKLGKASQESHSAMTEFDRTEKDITPMGGFPHYGVVNEDYLLIKGCCVGPKKRVVTLR 343 (389)
Q Consensus 281 ~N~~I~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG~v~~~~i~vKGsVPG~~k~~v~ir 343 (389)
+||+|++||++ +|||+||||||||++++|.||
T Consensus 171 ~Nl~V~~id~e-------------------------------~n~i~vkGsVPG~~~~~v~ir 202 (202)
T TIGR03625 171 QNLEVVKVDAE-------------------------------RNLLLVKGAVPGAKGSLVLIK 202 (202)
T ss_pred eccEEEEEcCC-------------------------------CCEEEEEecCcCCCCCEEEeC
Confidence 99999999998 999999999999999999986
No 10
>KOG3141 consensus Mitochondrial/chloroplast ribosomal protein L3 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.2e-54 Score=412.48 Aligned_cols=224 Identities=24% Similarity=0.282 Sum_probs=192.2
Q ss_pred ceEeEeeeeeecceEEEeeccCCCCccCCCceEEEEEEEEeCCeEEEEEEeEE-ecCCCceeeeEEecccCcHHHHhhhh
Q 016469 41 CRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPLVVVGVVGYV-KTPRGLRSLCTVWAQHLNEEVRRRFY 119 (389)
Q Consensus 41 ~~l~gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~pP~~Vv~ir~y~-~~~~g~~~~~~v~a~~i~~~~~rr~~ 119 (389)
..++|+|+.|+||+..|+++ |..+||||||+..|.|+.+++-+ .++|...+++ .+..+.
T Consensus 60 s~R~GvI~~K~GMmp~w~k~----------G~ri~~TiL~v~d~~Vi~~~t~E~~~g~~avqVG--------~g~~~p-- 119 (310)
T KOG3141|consen 60 SRRVGVIARKLGMMPLWDKD----------GERIPVTILQVDDNHVIKYITPEAKGGYFAVQVG--------YGTVKP-- 119 (310)
T ss_pred cccceeEEEeccCchhhccC----------CCEEEEEEEEEecceEEEEechhhcCCeEEEEec--------cccCCh--
Confidence 38999999999999999998 99999999999999999999988 7777555554 211110
Q ss_pred cccccchhccccccccccccccchhHHHHHHHHhhcceeEEEEEEeehhhhhcCccccCceEEEEEeCCCcccccccccc
Q 016469 120 KNWCKSKKKAFTKYTKKYETDDGKKDIQAQLEKMKKYCTVIRVLAHTQIRKMKGLKQKKAHLMEIQVNGGSVAQKVDFAY 199 (389)
Q Consensus 120 k~~~~~~~~a~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~ir~i~htqp~k~~gv~kkk~~l~E~~v~g~~~~~~~~~a~ 199 (389)
++++ ++..++| .. +|++ +|+||.||+|..+ |+
T Consensus 120 -----------~klt---------k~~~g~f------------------~~-~gv~-pK~~l~eF~Vt~~--------al 151 (310)
T KOG3141|consen 120 -----------KKLT---------KAELGHF------------------RS-AGVP-PKRHLREFRVTEE--------AL 151 (310)
T ss_pred -----------HHhh---------HHHHHHH------------------HH-cCCC-hhhhhheEeechh--------cc
Confidence 1122 2234555 34 5897 8999999999853 88
Q ss_pred ccccceecccccccCCceEEEEEEeeeecceeeeEeeccCCCCCCCcC---CCCCCCccCC-CCCCCccCCCCCCCCCCC
Q 016469 200 GFFEKQIPIDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTHR---GLRKVACIGA-WHPARVSFTVARAGQNGY 275 (389)
Q Consensus 200 ~~lG~~i~v~~vF~~G~~VDV~gvTKGKGFqGvvKRwgf~~~p~kth~---~~R~~GsiG~-~~P~rV~~g~~maGqmG~ 275 (389)
...|+.|.+ ++|.+||||||+|+|+||||||+||||||+++| +||+ +||++||+|+ .+|+|||+|++|||||||
T Consensus 152 ~~pGt~l~~-~hFk~GqyVDV~g~TigkGFqGvmKR~GFkG~p-asHG~sksHR~~GS~G~~~~pgRV~pGrKMpGhMG~ 229 (310)
T KOG3141|consen 152 LPPGTPLFA-RHFKPGQYVDVTGKTIGKGFQGVMKRHGFKGGP-ASHGTSKSHRRPGSIGQGTTPGRVWPGRKMPGHMGN 229 (310)
T ss_pred CCCCcccch-hhcCCCceEEEEeeEeccccccceeeccccCCc-cccCccccccCCccccCCCCCcccccCCcCCcccCc
Confidence 899999999 699999999999999999999999999999999 8996 6999999999 689999999999999999
Q ss_pred ceeeeeeeEEEEEcCCcccCCcCcccccCCccccCCCCCCcceeeeeccEEEEeecccCCCCCEEEEEecccccchhhhc
Q 016469 276 HHRTEMNKKIYKLGKASQESHSAMTEFDRTEKDITPMGGFPHYGVVNEDYLLIKGCCVGPKKRVVTLRQSLLKQTSRLAL 355 (389)
Q Consensus 276 ~~rT~~N~~I~kI~~~~~~~~~~~~~~d~~~~~i~p~GGf~~YG~v~~~~i~vKGsVPG~~k~~v~ir~a~~~~~~~~~~ 355 (389)
.+||++||+|++||.+ .|+|+||||||||++++|.|.|++.+.. +..
T Consensus 230 ~~rtik~LkV~kId~~-------------------------------~nvi~VkGsVpG~~g~~V~I~Da~~~~~--~i~ 276 (310)
T KOG3141|consen 230 EWRTIKGLKVWKIDTE-------------------------------LNVIWVKGSVPGPKGNLVKIKDAILPTV--DIP 276 (310)
T ss_pred ceEEEeeeEEEEEcCC-------------------------------ceEEEEecccCCCCCCEEEEEecccccC--Ccc
Confidence 9999999999999999 9999999999999999999999998875 566
Q ss_pred cccceeEEeccc
Q 016469 356 EEIKLKFIDTSS 367 (389)
Q Consensus 356 ~~~~i~~ist~S 367 (389)
++|-.+|.-+.-
T Consensus 277 k~pfpt~~~~~~ 288 (310)
T KOG3141|consen 277 KNPFPTYEGTID 288 (310)
T ss_pred cCCCCcccCCCC
Confidence 677666665443
No 11
>KOG0746 consensus 60S ribosomal protein L3 and related proteins [Translation, ribosomal structure and biogenesis]
Probab=75.12 E-value=1.2 Score=45.34 Aligned_cols=58 Identities=14% Similarity=0.073 Sum_probs=51.4
Q ss_pred CCCCCCCCCCCCCCCCccccccccCCCccccCCCCCCCCCceEeEeeeeeecceEEEee
Q 016469 1 MSHRKFEHPRHGSLGFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRD 59 (389)
Q Consensus 1 M~hrk~~~PR~GSl~f~PrKRa~~~~~rirswP~~~~~~~~~l~gfiGyK~GMThi~~~ 59 (389)
|.+++++.++.+++-++|+.|-++++|-..+|-+|+..+-+..+-+.|||.+-+. |..
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 5678999999999999999999999999999999998888899999999987554 444
No 12
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=33.10 E-value=59 Score=20.19 Aligned_cols=25 Identities=24% Similarity=0.313 Sum_probs=20.0
Q ss_pred ccCCceEEEEEEeeeecceeeeEeec
Q 016469 212 FQKDEMIDIIGVTKGKGYEGVVTRWG 237 (389)
Q Consensus 212 F~~G~~VDV~gvTKGKGFqGvvKRwg 237 (389)
|.+|+.|-|++ -.-+|+.|.|.++.
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 67899998887 55788899888754
No 13
>PTZ00486 apyrase Superfamily; Provisional
Probab=20.72 E-value=1.5e+02 Score=30.99 Aligned_cols=54 Identities=19% Similarity=0.243 Sum_probs=34.0
Q ss_pred CCccccccccCCCccccCCCCCCCCCceEeEeeeeeecceEEEeeccCCCCccCCCceEEEEEEEEeC------------
Q 016469 15 GFLPRKRASRHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETP------------ 82 (389)
Q Consensus 15 ~f~PrKRa~~~~~rirswP~~~~~~~~~l~gfiGyK~GMThi~~~dd~~~S~~~g~gv~~PVTVlE~p------------ 82 (389)
=|+||++|+..+- +.. -...|+..|+.-+ |-+.-+++++++
T Consensus 248 ~FlPRr~S~e~Yd--------e~~---------DE~~G~N~ii~~d----------e~F~~i~vi~i~~~~p~~GFSSfK 300 (352)
T PTZ00486 248 YFLPRRVSNEPYD--------EEK---------DEYRGSNYIIICD----------EDFQNPRVIKDPQYDPERGFSSIK 300 (352)
T ss_pred EEeccccCccccc--------chh---------hhhcCCcEEEEec----------ccccceEEEecCCCCCCccceeeE
Confidence 4899999988442 211 2266788887766 556666666654
Q ss_pred -----CeEEEEEEeEEec
Q 016469 83 -----PLVVVGVVGYVKT 95 (389)
Q Consensus 83 -----P~~Vv~ir~y~~~ 95 (389)
...++++++.|.+
T Consensus 301 FiP~td~~IvALKs~E~~ 318 (352)
T PTZ00486 301 FLPGNENIIVALKSVEVE 318 (352)
T ss_pred EcCCCCCEEEEEEEEEcC
Confidence 3566777776654
Done!