Query psy5756
Match_columns 360
No_of_seqs 203 out of 764
Neff 3.3
Searched_HMMs 46136
Date Fri Aug 16 17:13:58 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5756.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5756hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00069 60S ribosomal protein 100.0 2E-105 5E-110 761.8 22.1 243 45-288 1-245 (300)
2 KOG0875|consensus 100.0 6.5E-80 1.4E-84 576.6 13.4 216 45-289 1-217 (264)
3 PRK08569 rpl18p 50S ribosomal 100.0 1.1E-70 2.3E-75 499.9 14.3 183 55-288 2-185 (193)
4 COG0256 RplR Ribosomal protein 100.0 1.1E-37 2.4E-42 268.0 6.3 125 58-217 1-125 (125)
5 PF00861 Ribosomal_L18p: Ribos 100.0 4.6E-30 9.9E-35 216.7 7.4 119 70-217 1-119 (119)
6 CHL00139 rpl18 ribosomal prote 99.9 7.4E-28 1.6E-32 202.4 6.9 96 90-216 13-108 (109)
7 PRK05593 rplR 50S ribosomal pr 99.9 9.1E-27 2E-31 197.8 8.5 95 90-217 22-117 (117)
8 cd00432 Ribosomal_L18_L5e Ribo 99.9 1E-26 2.3E-31 190.3 7.7 95 90-215 9-103 (103)
9 TIGR00060 L18_bact ribosomal p 99.9 1.4E-25 3.1E-30 190.3 8.2 90 92-216 24-113 (114)
10 PTZ00032 60S ribosomal protein 99.9 1.2E-22 2.6E-27 187.2 6.5 100 81-216 99-210 (211)
11 PF14204 Ribosomal_L18_c: Ribo 99.7 7.4E-19 1.6E-23 145.5 -1.2 52 236-288 1-53 (94)
12 PTZ00090 40S ribosomal protein 94.3 0.21 4.6E-06 48.0 8.2 91 90-217 116-208 (233)
13 KOG3333|consensus 94.1 0.11 2.5E-06 48.0 5.9 61 93-156 61-121 (188)
14 PF00411 Ribosomal_S11: Riboso 90.2 2.1 4.6E-05 36.2 8.4 57 95-156 3-59 (110)
15 CHL00041 rps11 ribosomal prote 86.9 2.7 5.8E-05 36.2 6.9 67 85-156 6-72 (116)
16 PRK09607 rps11p 30S ribosomal 86.9 3.6 7.8E-05 36.7 7.9 58 94-156 11-69 (132)
17 PTZ00129 40S ribosomal protein 83.7 5.5 0.00012 36.3 7.7 99 95-226 31-144 (149)
18 TIGR03632 bact_S11 30S ribosom 83.6 6.5 0.00014 33.4 7.7 57 95-156 3-59 (108)
19 PRK05309 30S ribosomal protein 80.9 10 0.00023 33.2 8.2 61 91-156 16-76 (128)
20 TIGR03628 arch_S11P archaeal r 70.0 23 0.0005 30.9 7.3 58 95-156 5-62 (114)
21 KOG0408|consensus 55.2 49 0.0011 31.3 7.0 59 93-156 80-138 (190)
22 PRK05337 beta-hexosaminidase; 29.5 71 0.0015 32.0 4.1 66 139-230 96-173 (337)
23 COG0100 RpsK Ribosomal protein 26.9 2E+02 0.0043 25.9 6.0 58 95-159 21-79 (129)
24 PF04417 DUF501: Protein of un 21.3 48 0.001 29.5 1.1 60 247-311 48-117 (139)
No 1
>PTZ00069 60S ribosomal protein L5; Provisional
Probab=100.00 E-value=2.2e-105 Score=761.80 Aligned_cols=243 Identities=63% Similarity=1.064 Sum_probs=238.5
Q ss_pred cceEEEeeccCCcccccccccccccCCchHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEec
Q psy5756 45 MGFVKVVKNKQYFKRYQVKFKRRREGKTDYYARKRLIVQDKNKYNTPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYS 124 (360)
Q Consensus 45 M~fvKv~KnkaYfkRyqVKfRRRREGKTDY~~R~kLi~qdKnKyntpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS 124 (360)
|+||||+||+|||+||||||||||||||||++|++||.||||||||||||||||+||++|||||+.+.++||+|||||+|
T Consensus 1 M~fvKv~KnkaY~~ryqvkfRRRREGKTdY~~R~rLi~q~knKynspK~RlVVR~TN~~ii~Qiv~~~~~GD~vl~sA~S 80 (300)
T PTZ00069 1 MAFVKVVKNKAYFKRFQVKYRRRREGKTDYYARRRLILQDKNKYNSPKYRLVVRITNKDIICQIVYATIVGDKVLAAAYS 80 (300)
T ss_pred CCceeeeecccccccccchhhhhhcccccHHHHHHHHHccccccCCCCceEEEEEECCcEEEEEEEeecCCCEEEEEeeh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccccCCCcHHHHHHHHHHHHHHHHhhcCccccccccccccccceee-cccCCCCCceEEEEeecccccccCcee
Q psy5756 125 HELPKYGIKVGLTNYAAAYATGLLLARRLLKNLNLDRLYVGCTEVTGEEFSV-ESVDKGPGAFRCYLDVGLMKTSTGAKV 203 (360)
Q Consensus 125 ~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk~gld~~Y~G~~ev~ge~~~v-E~~dg~~~~f~avLDiGL~RtT~G~RV 203 (360)
+||++|||+++++|++|||+||+|+|+|+|++||||++|+|++|++|++|+| |+.|++++||+|||||||+|+|+|+||
T Consensus 81 ~eL~kyG~k~gl~N~~AAY~TGlL~arR~L~kl~ld~~y~G~~e~~g~~y~v~e~~~~~~rpf~a~LDiGL~rtt~G~RV 160 (300)
T PTZ00069 81 HELPRFGIPVGLTNYAAAYATGLLLARRLLKKLGLDKQFEGVKEADGEYYHVDEEDDEERRPFKAILDVGLARTTTGNRV 160 (300)
T ss_pred hhHhhcCcCCCCccHHHHHHHHHHHHHHHHHhhcccccccCcccccCcccccccccccCCCCceEEEeeccccCCCCcee
Confidence 9999999999999999999999999999999999999999999999999999 888999999999999999999999999
Q ss_pred EEeeccccccceecccCCcccCCCCCCCCCCCHHHHhhcccCCcHHHHHHHhcccCHHHHHHHHHHHHhCCCCCchh-hc
Q psy5756 204 FGAMKGAVDGGLNIPHSVKRFPGYDNESKDFNAEIHRKHIFGLHVAEYMRQLSEEDDEAFKRQFSERVGGWGTLSEQ-LG 282 (360)
Q Consensus 204 FAalKGAvDgGL~IPHsekrfPg~d~e~ke~naEvhr~rI~G~HVAdYm~~LkEEDee~YkkQFS~YiK~~~~~~~~-~~ 282 (360)
|||||||+||||+||||+++|||||.|+++||||+||+||+|+|||+||+.|+|||||+|++|||+||++ |+.|++ ++
T Consensus 161 FaalKGa~DgGl~IPhs~~rfpg~d~e~~~~dAe~hR~rI~G~HVa~Ym~~Lkeedee~yk~qFS~yik~-gl~~d~le~ 239 (300)
T PTZ00069 161 FGALKGAVDGGLHIPHSPNRFPGYSKEKDSYDAEVHRDRIFGKHVAEYMKQLKEEDPDKYKKQFSKYIKA-GVGPDSLED 239 (300)
T ss_pred eeehhcccccCcccCCCCCcCCCCCccccccChHHHHhhhcchhHHHHHHHhhhhChHHHHHHHHHHHHc-CCChhHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999 777777 48
Q ss_pred chhhhc
Q psy5756 283 MTKSSF 288 (360)
Q Consensus 283 m~~~~~ 288 (360)
||+++.
T Consensus 240 ~y~~ah 245 (300)
T PTZ00069 240 MYKKAH 245 (300)
T ss_pred HHHHHH
Confidence 998864
No 2
>KOG0875|consensus
Probab=100.00 E-value=6.5e-80 Score=576.61 Aligned_cols=216 Identities=69% Similarity=1.169 Sum_probs=210.5
Q ss_pred cceEEEeeccCCcccccccccccccCCchHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEec
Q psy5756 45 MGFVKVVKNKQYFKRYQVKFKRRREGKTDYYARKRLIVQDKNKYNTPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYS 124 (360)
Q Consensus 45 M~fvKv~KnkaYfkRyqVKfRRRREGKTDY~~R~kLi~qdKnKyntpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS 124 (360)
|+|||++|+++||+|||||||||||||||||+|++|+.||+||||+|++||+|+++|+.|+|||+++.++||.++++|+|
T Consensus 1 m~fvk~~k~~~y~kryqvk~rrrreGkTdy~arkrl~~qdknk~nt~kyR~ivr~~n~~iicqi~~~~i~gd~v~~~a~s 80 (264)
T KOG0875|consen 1 MGFVKVVKSKAYFKRYQVKFRRRREGKTDYYARKRLVVQDKNKYNTPKYRMIVRVINKDIICQIAYATIEGDVIVRAAYA 80 (264)
T ss_pred CcchheeccccccccccceEEEecCCCccHHHHHHHHhhcccccCCCceEEEEEEechhhHHHHHhheecceEEEEeecc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccccCCCcHHHHHHHHHHHHHHHHhhcCccccccccccccccceeecccCCCCCceEEEEeecccccccCceeE
Q psy5756 125 HELPKYGIKVGLTNYAAAYATGLLLARRLLKNLNLDRLYVGCTEVTGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVF 204 (360)
Q Consensus 125 ~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk~gld~~Y~G~~ev~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVF 204 (360)
+||++||++.|++|++|||+||+|||+|+|++||||++|+||+|++|++|++|++||+|++|+|+||+||+|||||+|||
T Consensus 81 ~elpkyg~~~GLtNyaAay~TglLLarR~l~~~gmD~~yeg~~e~~gde~~~e~idgq~~aFt~~Ld~GLaRtttg~kvF 160 (264)
T KOG0875|consen 81 HELPKYGVKVGLTNYAAAYCTGLLLACRLLKRFGMDKIYEGQVEVTGDEYNVESIDGQPGAFTCYLDAGLARTTTGNKVF 160 (264)
T ss_pred ccccccccccccchhHHHHhhHHHHHHHHHHHhCcccccccceeecCcccccccccCCCCCeEEEecccccccCCCceee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeccccccceecccCCcccCCCCCCCCCCCHHHHhhcccCCcHHHHHHHhcccCHHHHHHHHHHHHhCCCCCchhh-cc
Q psy5756 205 GAMKGAVDGGLNIPHSVKRFPGYDNESKDFNAEIHRKHIFGLHVAEYMRQLSEEDDEAFKRQFSERVGGWGTLSEQL-GM 283 (360)
Q Consensus 205 AalKGAvDgGL~IPHsekrfPg~d~e~ke~naEvhr~rI~G~HVAdYm~~LkEEDee~YkkQFS~YiK~~~~~~~~~-~m 283 (360)
||||||+||||.||||+++||| |.|+|||+|++|||+||+. |+.++++ +|
T Consensus 161 GAlkga~dGGL~IPHs~krFpG----------------------------l~e~d~e~y~~~fs~~i~~-g~~ad~i~~~ 211 (264)
T KOG0875|consen 161 GALKGAVDGGLSIPHSTKRFPG----------------------------LTEESEEKYKKEFSGYIAK-GVEADSIEGM 211 (264)
T ss_pred eeeehhcccceecCCccccCCC----------------------------ccccchhhhhHHHhhhhhc-cccHHHHHHH
Confidence 9999999999999999999999 8899999999999999999 6665555 99
Q ss_pred hhhhcc
Q psy5756 284 TKSSFK 289 (360)
Q Consensus 284 ~~~~~~ 289 (360)
|++++-
T Consensus 212 y~~aha 217 (264)
T KOG0875|consen 212 YKKAHA 217 (264)
T ss_pred HHHHHH
Confidence 999863
No 3
>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed
Probab=100.00 E-value=1.1e-70 Score=499.90 Aligned_cols=183 Identities=43% Similarity=0.657 Sum_probs=174.1
Q ss_pred CCcccccccccccccCCchHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCcccccccc
Q psy5756 55 QYFKRYQVKFKRRREGKTDYYARKRLIVQDKNKYNTPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKV 134 (360)
Q Consensus 55 aYfkRyqVKfRRRREGKTDY~~R~kLi~qdKnKyntpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~ 134 (360)
|-.+||||||||||||||||++|++|+.+++ ||||||+||+|||||||+++++||+|||||||+||+++||++
T Consensus 2 a~g~ry~v~~rRrRegkTdY~~R~rl~~~~k-------pRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~g~~~ 74 (193)
T PRK08569 2 ATGPRYKVPFRRRREGKTDYRKRLKLLLSGK-------PRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKYGWKG 74 (193)
T ss_pred CCCCccccceeccccccccHHHHHHHHhcCC-------CEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhccccC
Confidence 4579999999999999999999999999997 999999999999999998778899999999999999999999
Q ss_pred CCCcHHHHHHHHHHHHHHHHhhcCccccccccccccccceeecccCCCCCceEEEEeecccccccCceeEEeeccccccc
Q psy5756 135 GLTNYAAAYATGLLLARRLLKNLNLDRLYVGCTEVTGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFGAMKGAVDGG 214 (360)
Q Consensus 135 g~tN~aAAYltGlLlAkRALkk~gld~~Y~G~~ev~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFAalKGAvDgG 214 (360)
+++|++|||+||+|||+||+++ | +.+||||+|++++++||||||+||||+|+|
T Consensus 75 ~~~N~~AAy~vG~llA~ral~k--------G-------------------i~~vvfDrGg~~yh~gGRV~A~akgArd~G 127 (193)
T PRK08569 75 DTGNTPAAYLTGLLAGKKALKA--------G-------------------VEEAVLDIGLHRPTKGSRVFAALKGAIDAG 127 (193)
T ss_pred CCCCHHHHHHHHHHHHHHHHHC--------C-------------------CCEEEEecCCccccCCccHHHHHHHHHHcC
Confidence 9999999999999999999998 5 778999999999999999999999999999
Q ss_pred eecccCCcccCCCCCCCCCCCHHHHhhcccCCcHHHHHHHhcccCHHHHHHHHHHHHhCCCCCchhh-cchhhhc
Q psy5756 215 LNIPHSVKRFPGYDNESKDFNAEIHRKHIFGLHVAEYMRQLSEEDDEAFKRQFSERVGGWGTLSEQL-GMTKSSF 288 (360)
Q Consensus 215 L~IPHsekrfPg~d~e~ke~naEvhr~rI~G~HVAdYm~~LkEEDee~YkkQFS~YiK~~~~~~~~~-~m~~~~~ 288 (360)
|+||||+++|||+ +||+|+|||+||+.|+||| |++|||+||++ |++|+++ +||+++.
T Consensus 128 L~fPh~~~~~p~~-------------~ri~G~Hia~y~~~l~~e~---y~~~Fs~y~~~-g~~~~~l~~~~~~~~ 185 (193)
T PRK08569 128 LEIPHGEEVLPDE-------------DRIRGEHIAEYAESLKEEN---YKKQFSKYLER-GLDPEDLPEHFEEVK 185 (193)
T ss_pred CcCCCCCCcCCCc-------------cccccchHHHHHHHHhhhH---HHHHHHHHHhc-CCCHHHHHHHHHHHH
Confidence 9999999999997 7999999999999999988 99999999999 8888886 8998763
No 4
>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-37 Score=267.98 Aligned_cols=125 Identities=40% Similarity=0.531 Sum_probs=110.8
Q ss_pred ccccccccccccCCchHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCC
Q psy5756 58 KRYQVKFKRRREGKTDYYARKRLIVQDKNKYNTPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLT 137 (360)
Q Consensus 58 kRyqVKfRRRREGKTDY~~R~kLi~qdKnKyntpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~t 137 (360)
++|++++||+|+|||+|+.|.+|+ +++++||||||+||+|||||||++...+|.+++|+.+.||.++||+++++
T Consensus 1 ~~~~~~~rr~~~~kr~~r~R~kl~------g~~~rpRL~V~rSnkhi~aQiId~~~~~tla~aSt~~~~l~~~g~~~~~~ 74 (125)
T COG0256 1 PRYKVKFRRRRRGKRAYRIRKKLL------GTSGRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKYGKKGGGG 74 (125)
T ss_pred CccchhhHHHHHHhHHHHHHHhhc------cCCCCcEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHHhhcccCCCC
Confidence 589999999999999999999999 45789999999999999999999975444444444445555799999999
Q ss_pred cHHHHHHHHHHHHHHHHhhcCccccccccccccccceeecccCCCCCceEEEEeecccccccCceeEEeeccccccceec
Q psy5756 138 NYAAAYATGLLLARRLLKNLNLDRLYVGCTEVTGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFGAMKGAVDGGLNI 217 (360)
Q Consensus 138 N~aAAYltGlLlAkRALkk~gld~~Y~G~~ev~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFAalKGAvDgGL~I 217 (360)
|++|||+||+|+|+||+++ | +.++|||.|.+.+ |+||||+++||+|+||++
T Consensus 75 N~~aA~~vG~lia~ra~~k--------g-------------------i~~vVfdr~g~~y--hgRV~Ala~~AreaGL~f 125 (125)
T COG0256 75 NTEAAYLVGKLIAERALAK--------G-------------------IEEVVFDRGGYKY--HGRVAALADGAREAGLEF 125 (125)
T ss_pred CHHHHHHHHHHHHHHHHHc--------C-------------------CcEEEEcCCCCCc--chHHHHHHHHHHHcCcCC
Confidence 9999999999999999999 5 7789999999998 999999999999999985
No 5
>PF00861 Ribosomal_L18p: Ribosomal L18p/L5e family; InterPro: IPR005484 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 [, ]. This family includes L18 from bacteria and L5 from eukaryotes. The ribosomal 5S RNA is the only known rRNA species to bind a ribosomal protein before its assembly into the ribosomal subunits []. In eukaryotes, the 5S rRNA molecule binds one protein species, a 34kDa protein which has been implicated in the intracellular transport of 5 S rRNA, while in bacteria it binds two or three different protein species []. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_M 4A1C_M 4A1A_M 4A17_M 3IZR_Q 3O58_E 1S1I_E 3IZS_Q 3O5H_E 1KQS_M ....
Probab=99.96 E-value=4.6e-30 Score=216.70 Aligned_cols=119 Identities=35% Similarity=0.415 Sum_probs=95.5
Q ss_pred CCchHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHH
Q psy5756 70 GKTDYYARKRLIVQDKNKYNTPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLL 149 (360)
Q Consensus 70 GKTDY~~R~kLi~qdKnKyntpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLl 149 (360)
||++++.|+++..+++.+.++++|||+|++||+|||||||++...++.+.||+.+.+|+++||+.+++|++|||+||++|
T Consensus 1 ~k~~~~~~r~~~~r~~~~~~~~~~RL~V~~Snk~i~aQii~~~~~~~l~~aSt~~~~l~~~~~~~~~~n~~aa~~vG~ll 80 (119)
T PF00861_consen 1 KKKRRRRRRKLRIRRKIKGTAERPRLVVFRSNKHIYAQIIDDSKGGTLASASTLSKELKKYGWKGSTKNVEAAYLVGELL 80 (119)
T ss_dssp TSCHHHHHHHHHHHHHHHHTTSSEEEEEEEESSEEEEEEEECTTTEEEEEEEEETTTGGGTT-SSTTSSHHHHHHHHHHH
T ss_pred ChhHHHHHHHHHHHHHHhcCCCCCEEEEEeccCeEEEEEEeeCCCCeEEEEEecchhhhhhhhccCCCCEehHHHHHHHH
Confidence 34455555555555555566677999999999999999999865555555555555666789999999999999999999
Q ss_pred HHHHHhhcCccccccccccccccceeecccCCCCCceEEEEeecccccccCceeEEeeccccccceec
Q psy5756 150 ARRLLKNLNLDRLYVGCTEVTGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFGAMKGAVDGGLNI 217 (360)
Q Consensus 150 AkRALkk~gld~~Y~G~~ev~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFAalKGAvDgGL~I 217 (360)
|+||+++ | +..+++|.|..++ |+||+|+++||+|+||+|
T Consensus 81 a~ra~~~--------g-------------------i~~v~fdr~~~~y--~grv~a~~~~~re~Gl~f 119 (119)
T PF00861_consen 81 AKRALEK--------G-------------------IAKVVFDRGGYKY--HGRVKALADGAREGGLEF 119 (119)
T ss_dssp HHHHHHT--------T-------------------SSEEEECTSTSSS--SSHHHHHHHHHHHTTCB-
T ss_pred HHHHHHc--------C-------------------CcEEEEcCCCCcc--cHHHHHHHHHHHHcCCCC
Confidence 9999998 4 6778899888887 999999999999999986
No 6
>CHL00139 rpl18 ribosomal protein L18; Validated
Probab=99.94 E-value=7.4e-28 Score=202.43 Aligned_cols=96 Identities=22% Similarity=0.201 Sum_probs=90.1
Q ss_pred CCcceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhcCccccccccccc
Q psy5756 90 TPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKNLNLDRLYVGCTEV 169 (360)
Q Consensus 90 tpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk~gld~~Y~G~~ev 169 (360)
..+|||+|++||+|||||||++ . .++|||||||.|++.++|..+++|++|||+||++||+||+++ |
T Consensus 13 ~~rpRL~V~rSnkhiyaQvidd-~-~g~tlasaST~ek~~~~~~~~~~n~~aA~~vG~lla~ra~~~--------g---- 78 (109)
T CHL00139 13 AERPRLSVFRSNKHIYAQIIDD-T-NGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKK--------G---- 78 (109)
T ss_pred CCCCEEEEEEeCCeEEEEEEEC-C-CCCEEEEEecCchhhhccccCCCCHHHHHHHHHHHHHHHHHC--------C----
Confidence 4579999999999999999995 3 579999999999999999889999999999999999999998 4
Q ss_pred cccceeecccCCCCCceEEEEeecccccccCceeEEeecccccccee
Q psy5756 170 TGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFGAMKGAVDGGLN 216 (360)
Q Consensus 170 ~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFAalKGAvDgGL~ 216 (360)
+.+++||+|++++ ||||+|+++||+|+||+
T Consensus 79 ---------------i~~vvfDrgg~~y--hGrV~a~a~~are~GL~ 108 (109)
T CHL00139 79 ---------------ITKVVFDRGGKLY--HGRIKALAEAAREAGLQ 108 (109)
T ss_pred ---------------CCEEEEcCCCCcc--chHHHHHHHHHHHhCCC
Confidence 8889999999998 99999999999999996
No 7
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=99.94 E-value=9.1e-27 Score=197.81 Aligned_cols=95 Identities=29% Similarity=0.274 Sum_probs=88.7
Q ss_pred CCcceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCcc-ccccccCCCcHHHHHHHHHHHHHHHHhhcCcccccccccc
Q psy5756 90 TPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELP-KYGIKVGLTNYAAAYATGLLLARRLLKNLNLDRLYVGCTE 168 (360)
Q Consensus 90 tpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~-kyG~k~g~tN~aAAYltGlLlAkRALkk~gld~~Y~G~~e 168 (360)
+.+|||+|++||+|||||||++ ++|+|||||||.|++ +++|+ ++|++|||+||++||+|++++ |
T Consensus 22 ~~rpRL~V~~SnkhiyAQvidd--~~~~tl~saST~e~~~k~~~~--~~n~~aa~~vG~~la~ra~~~--------g--- 86 (117)
T PRK05593 22 AERPRLSVFRSNRHIYAQVIDD--VKGKTLASASTLEKDVRAGLK--GGNKEAAKKVGKLIAERAKAK--------G--- 86 (117)
T ss_pred CCCCEEEEEEeCCeEEEEEEEC--CCCEEEEEEecCcHhHhcccc--CCCHHHHHHHHHHHHHHHHHC--------C---
Confidence 5689999999999999999986 599999999999998 57886 799999999999999999998 4
Q ss_pred ccccceeecccCCCCCceEEEEeecccccccCceeEEeeccccccceec
Q psy5756 169 VTGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFGAMKGAVDGGLNI 217 (360)
Q Consensus 169 v~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFAalKGAvDgGL~I 217 (360)
+.+++||+|..++ |+||+|+++||+|+||+.
T Consensus 87 ----------------i~~vvfDrg~~~y--hGrV~a~a~~are~Gl~f 117 (117)
T PRK05593 87 ----------------IKQVVFDRGGYKY--HGRVKALADAAREAGLKF 117 (117)
T ss_pred ----------------CCEEEEcCCCCcc--cHHHHHHHHHHHHhCCCC
Confidence 8889999999999 999999999999999973
No 8
>cd00432 Ribosomal_L18_L5e Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA depends on the binding of L18 and L5 to 5S rRNA. L18/L5e is generally described as L18 in prokaryotes and archaea, and as L5e (or L5) in eukaryotes. In bacteria, the CP proteins L5, L18, and L25 are required for the ribosome to incorporate 5S rRNA into the large subunit, one of the last steps in ribosome assembly. In archaea, both L18 and L5 bind 5S rRNA; in eukaryotes, only the L18 homolog (L5e) binds 5S rRNA but a homolog to L5 is also identified.
Probab=99.93 E-value=1e-26 Score=190.26 Aligned_cols=95 Identities=38% Similarity=0.473 Sum_probs=90.0
Q ss_pred CCcceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhcCccccccccccc
Q psy5756 90 TPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKNLNLDRLYVGCTEV 169 (360)
Q Consensus 90 tpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk~gld~~Y~G~~ev 169 (360)
.++|||+|++||+|||||||++. +|+||++|||+|++.+++..+++|++|||+||.+||+|++++ |
T Consensus 9 ~~~~RL~v~~Sn~~i~aqvi~~~--~~~vl~sast~e~~~~~~~~~~~n~~aA~~vG~~la~r~~~~--------g---- 74 (103)
T cd00432 9 QERPRLVVRKSNKHIYAQIIDDS--GDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEK--------G---- 74 (103)
T ss_pred CCCCEEEEEEeCCEEEEEEEEeC--cCeEEEEEecCchhhcccccCCCcHHHHHHHHHHHHHHHHHC--------C----
Confidence 35799999999999999999984 999999999999998888889999999999999999999998 4
Q ss_pred cccceeecccCCCCCceEEEEeecccccccCceeEEeeccccccce
Q psy5756 170 TGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFGAMKGAVDGGL 215 (360)
Q Consensus 170 ~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFAalKGAvDgGL 215 (360)
+++++||+|+.++ |+||+|+++|++|+||
T Consensus 75 ---------------i~~vv~D~~~~~~--~grv~a~~~~~r~~Gl 103 (103)
T cd00432 75 ---------------IKKVVFDRGGYRY--HGRVKALAKGAREGGL 103 (103)
T ss_pred ---------------CCEEEEeCCCccc--ccHHHHHHHHHHHcCC
Confidence 8889999999999 9999999999999997
No 9
>TIGR00060 L18_bact ribosomal protein L18, bacterial type. The archaeal and eukaryotic type rpL18 is not detectable under this model.
Probab=99.92 E-value=1.4e-25 Score=190.33 Aligned_cols=90 Identities=31% Similarity=0.301 Sum_probs=84.3
Q ss_pred cceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhcCccccccccccccc
Q psy5756 92 KYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKNLNLDRLYVGCTEVTG 171 (360)
Q Consensus 92 KpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk~gld~~Y~G~~ev~g 171 (360)
+|||+|++||+|||||||++ ++|+|||||||.|++ ++ +++|++|||+||++||+||+++ |
T Consensus 24 rpRL~V~rSnk~iyaQiIdd--~~~~tlasaST~ek~-~~---~~~n~~aA~~vG~~la~ra~~~--------g------ 83 (114)
T TIGR00060 24 RPRLVVFRSNRHIYAQVIDD--SKSEVLASASTLEKK-LK---YTGNKDAAKKVGKLVAERLKEK--------G------ 83 (114)
T ss_pred CcEEEEEEeCCeEEEEEEEC--CCCEEEEEEecchhh-hc---CCCCHHHHHHHHHHHHHHHHHC--------C------
Confidence 89999999999999999986 599999999999986 22 6789999999999999999998 4
Q ss_pred cceeecccCCCCCceEEEEeecccccccCceeEEeecccccccee
Q psy5756 172 EEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFGAMKGAVDGGLN 216 (360)
Q Consensus 172 e~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFAalKGAvDgGL~ 216 (360)
+.+++||+|.+++ ||||.|+++||+|+||+
T Consensus 84 -------------i~~vvfDrgg~~Y--hGrv~A~a~~aRe~Gl~ 113 (114)
T TIGR00060 84 -------------IKDVVFDRGGYKY--HGRVAALAEAAREAGLN 113 (114)
T ss_pred -------------CCEEEEeCCCCcc--hHHHHHHHHHHHHhCCC
Confidence 8889999999999 99999999999999996
No 10
>PTZ00032 60S ribosomal protein L18; Provisional
Probab=99.87 E-value=1.2e-22 Score=187.16 Aligned_cols=100 Identities=24% Similarity=0.295 Sum_probs=88.9
Q ss_pred HHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCcccccccc------------CCCcHHHHHHHHHH
Q psy5756 81 IVQDKNKYNTPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKV------------GLTNYAAAYATGLL 148 (360)
Q Consensus 81 i~qdKnKyntpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~------------g~tN~aAAYltGlL 148 (360)
|.|+|. +|||+|++||+||||||||| ..+.|||||||.+....+..+ .++|++||+.||.+
T Consensus 99 i~~gkr-----rPRLsV~RSnkHIYAQIIDD--~~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~ 171 (211)
T PTZ00032 99 IIKGKR-----RPRLTLKNTNNQMYATIVDD--YTRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKL 171 (211)
T ss_pred HHcCCC-----cceEEEEecCCeEEEEEEEC--CCCCEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHH
Confidence 556764 69999999999999999997 489999999999987433222 57899999999999
Q ss_pred HHHHHHhhcCccccccccccccccceeecccCCCCCceEEEEeecccccccCceeEEeecccccccee
Q psy5756 149 LARRLLKNLNLDRLYVGCTEVTGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFGAMKGAVDGGLN 216 (360)
Q Consensus 149 lAkRALkk~gld~~Y~G~~ev~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFAalKGAvDgGL~ 216 (360)
||+||+++ | +.+++||+|.++| ||||.|++.||+++||.
T Consensus 172 IAerAl~k--------G-------------------I~kVvFDRgGy~Y--HGRVkALAdaARe~GLk 210 (211)
T PTZ00032 172 IGRKALSK--------G-------------------ISKVRFDRAHYKY--AGKVEALAEGARAVGLQ 210 (211)
T ss_pred HHHHHHHC--------C-------------------CCEEEEeCCCCee--hhHHHHHHHHHHHcCCC
Confidence 99999999 4 8899999999999 99999999999999996
No 11
>PF14204 Ribosomal_L18_c: Ribosomal L18 C-terminal region; PDB: 2ZKR_n 4A1E_M 4A1C_M 4A1A_M 4A17_M 3O58_E 1S1I_E 3IZS_Q 3O5H_E 3IZR_Q.
Probab=99.71 E-value=7.4e-19 Score=145.51 Aligned_cols=52 Identities=52% Similarity=0.798 Sum_probs=46.7
Q ss_pred HHHHhhcccCCcHHHHHHHhcccCHHHHHHHHHHHHhCCCCCchhh-cchhhhc
Q psy5756 236 AEIHRKHIFGLHVAEYMRQLSEEDDEAFKRQFSERVGGWGTLSEQL-GMTKSSF 288 (360)
Q Consensus 236 aEvhr~rI~G~HVAdYm~~LkEEDee~YkkQFS~YiK~~~~~~~~~-~m~~~~~ 288 (360)
||+||+||+|+|||+||+.|+|||||+|++|||+||++ |++|+++ +||+++.
T Consensus 1 Ae~hr~rI~G~HVaeYm~~L~eed~e~yk~qFs~yik~-gi~p~~le~~y~~~h 53 (94)
T PF14204_consen 1 AEVHRDRIFGGHVAEYMEELKEEDPEKYKRQFSKYIKK-GIEPDDLEEMYKKAH 53 (94)
T ss_dssp -HCHHHCSSSSHCHHHHHSCSSCSSSTCSHHHHHHHHH-HCSSSHHHHHHHHHH
T ss_pred ChHHHhCcCchhHHHHHHHHHhhCHHHHHHHHHHHHHC-CCChhHHHHHHHHHH
Confidence 79999999999999999999999999999999999999 6665555 9999875
No 12
>PTZ00090 40S ribosomal protein S11; Provisional
Probab=94.28 E-value=0.21 Score=48.03 Aligned_cols=91 Identities=16% Similarity=0.327 Sum_probs=66.5
Q ss_pred CCcceEEEEecCCcEEEEEEeeecCCCE-EEEEEecCCccccccccCCCcH-HHHHHHHHHHHHHHHhhcCccccccccc
Q psy5756 90 TPKYRLIVRFSNKDITCQVAYSRIEGDH-IICSAYSHELPKYGIKVGLTNY-AAAYATGLLLARRLLKNLNLDRLYVGCT 167 (360)
Q Consensus 90 tpKpRLVVrrSNrhIyAQIId~~~eGD~-tLaSAsS~EL~kyG~k~g~tN~-aAAYltGlLlAkRALkk~gld~~Y~G~~ 167 (360)
+.+.++||.-|-+++++||+|. .|+. ||+-+|+-... .++...++ -||+.++.-+|++|++. ||
T Consensus 116 ~~~f~~vI~aSfNNTIVTlTD~--~GNv~tl~WSSAG~~G---FKGsKKsTpfAAQ~aae~aakka~~~-GI-------- 181 (233)
T PTZ00090 116 TDRFMLVITTSKNNVHAQVVNK--SKNYKTVFGSFAGNVG---FRKKLQQSERCAYRIGENIAKKCRRL-GI-------- 181 (233)
T ss_pred CCcEEEEEEeccCcEEEEEEeC--CCCEEEEEEEcccccC---cccCccCCHHHHHHHHHHHHHHHHHc-CC--------
Confidence 4568999999999999999996 4775 78888876664 33344444 47889999999999875 33
Q ss_pred cccccceeecccCCCCCceEEEEeecccccccCceeEEeeccccccceec
Q psy5756 168 EVTGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFGAMKGAVDGGLNI 217 (360)
Q Consensus 168 ev~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFAalKGAvDgGL~I 217 (360)
+. +||=+..+ |+ .-+|+++...+||.|
T Consensus 182 ------------------k~--V~V~vKGp--Gg-REtALRaL~~~GLkI 208 (233)
T PTZ00090 182 ------------------FA--VDIKFRRI--MR-VETVLQAFYANGLQV 208 (233)
T ss_pred ------------------eE--EEEEEeCC--Ch-HHHHHHHHHHCCCEE
Confidence 22 34444444 54 678899999999876
No 13
>KOG3333|consensus
Probab=94.13 E-value=0.11 Score=47.95 Aligned_cols=61 Identities=21% Similarity=0.176 Sum_probs=52.0
Q ss_pred ceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhh
Q psy5756 93 YRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKN 156 (360)
Q Consensus 93 pRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk 156 (360)
+||-|-+|..|+-+-+... .|.|++||||.|.....---+++|+.|+--+|..||.|.|..
T Consensus 61 h~lev~~~~~hveg~v~H~---~~gvvvSAST~EwaIk~qLYst~dtsA~~niGRVLAqRCLqs 121 (188)
T KOG3333|consen 61 HRLEVIRTQHHVEGLVEHQ---NGGVVVSASTREWAIKKQLYSTRDTSACENIGRVLAQRCLQS 121 (188)
T ss_pred eEEEEeecccceeeeeeEe---cCCEEEEecccchHHHHHHhhccchHHHHHHHHHHHHHHHHh
Confidence 5899999999999999886 577888999999874322236789999999999999999998
No 14
>PF00411 Ribosomal_S11: Ribosomal protein S11; InterPro: IPR001971 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 S11 [] plays an essential role in selecting the correct tRNA in protein biosynthesis. It is located on the large lobe of the small ribosomal subunit. On the basis of sequence similarities, S11 belongs to a family of bacterial, archaeal and eukaryotic ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2YKR_K 3U5C_O 3O2Z_H 3IZB_K 3U5G_O 3O30_H 1S1H_K 3BBN_K 2XZN_K 2XZM_K ....
Probab=90.24 E-value=2.1 Score=36.24 Aligned_cols=57 Identities=11% Similarity=0.048 Sum_probs=43.9
Q ss_pred EEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhh
Q psy5756 95 LIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKN 156 (360)
Q Consensus 95 LVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk 156 (360)
+-|+-|.+++++.+.|. .+.+++++|+-.+.-.|-+ .....||+.++..++++|.+.
T Consensus 3 ihI~~s~NNt~vtlTd~---~G~~~~~~S~G~~gfK~~r--k~t~~Aa~~~a~~~~~~~~~~ 59 (110)
T PF00411_consen 3 IHIKSSFNNTIVTLTDL---KGNVLFWSSAGSLGFKGAR--KSTPYAAQQAAEKIAKKAKEL 59 (110)
T ss_dssp EEEEEESSEEEEEEEET---TSEEEEEEETTTSSTTTTC--GSSHHHHHHHHHHHHHHHHCT
T ss_pred EEEEecCCCEEEEEECC---CCCEEEEEecccccccccc--ccCHHHHHHHHHHHHHHHHHc
Confidence 45788999999999996 5778888888666433322 356788999999999999875
No 15
>CHL00041 rps11 ribosomal protein S11
Probab=86.91 E-value=2.7 Score=36.22 Aligned_cols=67 Identities=16% Similarity=0.083 Sum_probs=48.9
Q ss_pred CCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhh
Q psy5756 85 KNKYNTPKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKN 156 (360)
Q Consensus 85 KnKyntpKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk 156 (360)
|+|.+.+.--+-|+-|-+++++-+.|. .+.+++.+|+-.+...|-+ ....-||+.++.-++++|++.
T Consensus 6 ~~~~~~~~gi~hI~~t~NNTiiTlTd~---~G~~l~~~S~G~~gfKg~r--K~T~~Aa~~~a~~~~~~~~~~ 72 (116)
T CHL00041 6 KSKRKIPKGVIHIQASFNNTIVTVTDV---RGRVISWSSAGACGFKGAR--KGTPFAAQTAAENAIRTVIDQ 72 (116)
T ss_pred cccccceeEEEEEEcccCCEEEEEEcC---CCCEEEEEecCceeeCCCc--cCCHHHHHHHHHHHHHHHHHc
Confidence 445556666788999999999999986 3468998888766433322 233458888999999998875
No 16
>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed
Probab=86.89 E-value=3.6 Score=36.69 Aligned_cols=58 Identities=12% Similarity=-0.025 Sum_probs=44.0
Q ss_pred eEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcH-HHHHHHHHHHHHHHHhh
Q psy5756 94 RLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNY-AAAYATGLLLARRLLKN 156 (360)
Q Consensus 94 RLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~-aAAYltGlLlAkRALkk 156 (360)
=+-|+-|-+++++.|.|. .|..||+.+|+-...+.|-+ .++ -||..++.-+|+++++.
T Consensus 11 i~hI~as~NNTivtvTD~--~G~~~~~~~S~G~~g~kg~k---K~TpyAAq~aae~~~~~~~~~ 69 (132)
T PRK09607 11 IAHIYASFNNTIITITDL--TGAETIAKSSGGMVVKADRD---ESSPYAAMQAAEKAAEDAKEK 69 (132)
T ss_pred EEEEEcccCCeEEEEEcC--CCCEEEEEecCcceeeCCCc---cCCHHHHHHHHHHHHHHHHHc
Confidence 355777889999999995 47789998888766554432 334 37899999999999875
No 17
>PTZ00129 40S ribosomal protein S14; Provisional
Probab=83.71 E-value=5.5 Score=36.32 Aligned_cols=99 Identities=20% Similarity=0.194 Sum_probs=61.6
Q ss_pred EEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCC-CcHH-HHHHHHHHHHHHHHhhcCcccccccccccccc
Q psy5756 95 LIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGL-TNYA-AAYATGLLLARRLLKNLNLDRLYVGCTEVTGE 172 (360)
Q Consensus 95 LVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~-tN~a-AAYltGlLlAkRALkk~gld~~Y~G~~ev~ge 172 (360)
+-|+-|-+++++.|.|. .| .+++.+||--. |.++.. .+++ ||..+..-+|+++++. |
T Consensus 31 ~hI~as~NNTiItiTD~--~G-~~~~w~SsG~~---gfKg~r~KsTpyAAq~aa~~~a~k~~~~--------G------- 89 (149)
T PTZ00129 31 AHIFASFNDTFIHVTDL--SG-RETLVRVTGGM---KVKADRDESSPYAAMMAAQDVAARCKEL--------G------- 89 (149)
T ss_pred EEEEcccCCeEEEEEcc--cC-CEEEEEecCcc---eecccccCCCHHHHHHHHHHHHHHHHHc--------C-------
Confidence 55777888999999995 35 45555665444 333343 4443 7888889999998875 3
Q ss_pred ceeecccCCCCCceEEEEee---ccccc-ccCceeEEeeccccccceec---------ccCCcccCC
Q psy5756 173 EFSVESVDKGPGAFRCYLDV---GLMKT-STGAKVFGAMKGAVDGGLNI---------PHSVKRFPG 226 (360)
Q Consensus 173 ~~~vE~~dg~~~~f~avLDi---GL~Rt-T~G~RVFAalKGAvDgGL~I---------PHsekrfPg 226 (360)
+..+-+=+ |...+ ..|.==-+|+++...+||.| ||+--|-|+
T Consensus 90 ------------i~~v~V~vr~~gg~~~kg~GpGr~~airaL~~~glkI~~I~DvTPiPhNGcRppk 144 (149)
T PTZ00129 90 ------------INALHIKLRATGGVRTKTPGPGAQAALRALARAGLKIGRIEDVTPIPTDSTRRKG 144 (149)
T ss_pred ------------CeEEEEEEEecCCCCCCCCCCCHHHHHHHHHHCCCEEEEEEecCCCCCCCCCCCC
Confidence 22222222 22222 11222245788888899875 999888876
No 18
>TIGR03632 bact_S11 30S ribosomal protein S11. This model describes the bacterial 30S ribosomal protein S11. Cutoffs are set such that the model excludes archaeal and eukaryotic ribosomal proteins, but many chloroplast and mitochondrial equivalents of S11 are detected.
Probab=83.64 E-value=6.5 Score=33.36 Aligned_cols=57 Identities=12% Similarity=0.049 Sum_probs=41.9
Q ss_pred EEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhh
Q psy5756 95 LIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKN 156 (360)
Q Consensus 95 LVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk 156 (360)
+-|+-|.+++++-+.|. .|+ +++.+|+--+...|-. ....-||+.++..+++++++.
T Consensus 3 ~hI~~s~NNT~itlTd~--~g~-~~~~~S~G~~gfkg~r--k~t~~Aa~~~a~~~~~~~~~~ 59 (108)
T TIGR03632 3 AHIHATFNNTIVTITDP--QGN-VLSWASAGAVGFKGSK--KSTPYAAQLAAEDAAKKAKEF 59 (108)
T ss_pred EEEEccCCCEEEEEEcC--CCC-EEEEEecCceeeCCCc--cCCHHHHHHHHHHHHHHHHHc
Confidence 34778899999999996 355 8888887666443432 334667889999999999885
No 19
>PRK05309 30S ribosomal protein S11; Validated
Probab=80.92 E-value=10 Score=33.24 Aligned_cols=61 Identities=13% Similarity=0.038 Sum_probs=44.5
Q ss_pred CcceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhh
Q psy5756 91 PKYRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKN 156 (360)
Q Consensus 91 pKpRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk 156 (360)
+.--+-|+-|.+++++-+.|. .+.+++.+|+-.+...|-. ....-||+.++.-+++++++.
T Consensus 16 ~~gi~hI~~t~NNTiitlTd~---~G~~~~~~S~G~~gfKg~r--K~T~~Aa~~aa~~~~~~~~~~ 76 (128)
T PRK05309 16 PSGVAHIHATFNNTIVTITDR---QGNVISWASAGGLGFKGSR--KSTPYAAQVAAEDAAKKAKEH 76 (128)
T ss_pred ceeEEEEEccCCCEEEEEEcC---CCCEEEEEecCccEeCCCc--cCCHHHHHHHHHHHHHHHHHc
Confidence 345788999999999999995 3557787777655433322 234558899999999999875
No 20
>TIGR03628 arch_S11P archaeal ribosomal protein S11P. This model describes exclusively the archaeal ribosomal protein S11P. It excludes homologous ribosomal proteins S14 from eukaryotes and S11 from bacteria.
Probab=69.99 E-value=23 Score=30.88 Aligned_cols=58 Identities=12% Similarity=-0.024 Sum_probs=43.7
Q ss_pred EEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhh
Q psy5756 95 LIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKN 156 (360)
Q Consensus 95 LVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk 156 (360)
+-|+-|-+++++.|.|. .|..||+-+|+-...+.|-+ .+.--||..+..-+++++++.
T Consensus 5 ~hI~as~NNTiitvTD~--~G~~~~~~~S~G~~g~kg~k--k~TpyAAq~aa~~~~~~~~~~ 62 (114)
T TIGR03628 5 AHIYSSFNNTIITITDI--TGAETIARSSGGMVVKADRD--ESSPYAAMQAAGRAAEKAKER 62 (114)
T ss_pred EEEEccCCCeEEEEEcC--CCCEEEEEecCcceEeCCCc--cCCHHHHHHHHHHHHHHHHHc
Confidence 34677888999999995 48789999888777655533 123347888899999999975
No 21
>KOG0408|consensus
Probab=55.21 E-value=49 Score=31.32 Aligned_cols=59 Identities=15% Similarity=0.035 Sum_probs=38.4
Q ss_pred ceEEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhh
Q psy5756 93 YRLIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAAAYATGLLLARRLLKN 156 (360)
Q Consensus 93 pRLVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aAAYltGlLlAkRALkk 156 (360)
|=.-|+-|-++.++|+.|. .++++..+|-----..+-. .+++ -||..+|-.++.||..+
T Consensus 80 Pi~hIraS~NNTivtVtd~---kg~vi~~~ScgteGFrntr-kgT~-iAaQtaavaa~~r~v~~ 138 (190)
T KOG0408|consen 80 PIIHIRASFNNTIVTVTDV---KGEVISWSSCGTEGFRNTR-KGTP-IAAQTAAVAAIRRAVDQ 138 (190)
T ss_pred ceEEEEecCCCeEEEEEcc---CCcEEEEeecccccccccc-cCCc-hhHHHHHHHHHHHHHHh
Confidence 4466888999999999996 4666665554221111211 1234 45677888889999887
No 22
>PRK05337 beta-hexosaminidase; Provisional
Probab=29.47 E-value=71 Score=31.99 Aligned_cols=66 Identities=24% Similarity=0.364 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHhhcCccccccccccccccceeecccCCCCCceEEEEeecccccccCceeEE------------e
Q psy5756 139 YAAAYATGLLLARRLLKNLNLDRLYVGCTEVTGEEFSVESVDKGPGAFRCYLDVGLMKTSTGAKVFG------------A 206 (360)
Q Consensus 139 ~aAAYltGlLlAkRALkk~gld~~Y~G~~ev~ge~~~vE~~dg~~~~f~avLDiGL~RtT~G~RVFA------------a 206 (360)
.+.|+..|..+|+.+.+. |++-.| .-++|+.-...-.|+|-|+ .
T Consensus 96 ~~la~~~g~~~a~Elra~-Gin~~~-----------------------aPvlDv~~~~~~ig~RsfgeDp~lv~~~a~a~ 151 (337)
T PRK05337 96 LKLAEEAGWLMAAELRAC-GIDLSF-----------------------APVLDLDGISAVIGDRAFHRDPQVVAALASAF 151 (337)
T ss_pred HHHHHHHHHHHHHHHHHh-CCCccc-----------------------cCccCCCCCCCeeeccCCCCCHHHHHHHHHHH
Confidence 788999999999998765 554444 3456665111113455554 5
Q ss_pred eccccccceecccCCcccCCCCCC
Q psy5756 207 MKGAVDGGLNIPHSVKRFPGYDNE 230 (360)
Q Consensus 207 lKGAvDgGL~IPHsekrfPg~d~e 230 (360)
++|.-++| |-..-|-|||++.+
T Consensus 152 i~Glq~~g--v~~~~KHFpG~G~~ 173 (337)
T PRK05337 152 IDGMHAAG--MAATGKHFPGHGAV 173 (337)
T ss_pred HHHHHHCC--CEEEecccCCCCCC
Confidence 68888887 44667899998664
No 23
>COG0100 RpsK Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=26.87 E-value=2e+02 Score=25.94 Aligned_cols=58 Identities=14% Similarity=0.039 Sum_probs=36.8
Q ss_pred EEEEecCCcEEEEEEeeecCCCEEEEEEecCCccccccccCCCcHHH-HHHHHHHHHHHHHhhcCc
Q psy5756 95 LIVRFSNKDITCQVAYSRIEGDHIICSAYSHELPKYGIKVGLTNYAA-AYATGLLLARRLLKNLNL 159 (360)
Q Consensus 95 LVVrrSNrhIyAQIId~~~eGD~tLaSAsS~EL~kyG~k~g~tN~aA-AYltGlLlAkRALkk~gl 159 (360)
.=|+-|-++.+.-|.|. .+.+++.++|--+ |+++....+|. |-+.+..+|+.+++ .|+
T Consensus 21 ahI~asfNNTivtitD~---~Gn~i~wassG~~---gfk~~rk~tpyAA~~aa~~aa~~a~e-~Gi 79 (129)
T COG0100 21 AHIHASFNNTIVTITDL---TGNVIIWASSGGM---GFKGSRKSTPYAAQLAAEDAAKKAKE-HGI 79 (129)
T ss_pred EEEEcccCCcEEEecCC---CCCEEEEEecCCc---eEcCCCCCCHHHHHHHHHHHHHHHHH-hCc
Confidence 55777888888888775 5667777777665 44444455554 44555666666666 454
No 24
>PF04417 DUF501: Protein of unknown function (DUF501); InterPro: IPR007511 This is a family of uncharacterised bacterial proteins.
Probab=21.26 E-value=48 Score=29.55 Aligned_cols=60 Identities=25% Similarity=0.258 Sum_probs=38.1
Q ss_pred cHHHHHHHhcccCHH---HHHHHHHHHHhCC--CCCchhhcchhhhcccceEEEEEEeeec---Cc--cccchhc
Q psy5756 247 HVAEYMRQLSEEDDE---AFKRQFSERVGGW--GTLSEQLGMTKSSFKCEKLWIVYFCVGI---GE--NLACLHD 311 (360)
Q Consensus 247 HVAdYm~~LkEEDee---~YkkQFS~YiK~~--~~~~~~~~m~~~~~~~~~~~~~~~~~~~---~~--~~~~~~~ 311 (360)
-|++.-+.| ++|++ .|.+.=..|++.+ -+.+++.+++++.. .|-+..=+|| .. .+-|||=
T Consensus 48 ~i~~l~~~l-~~d~~l~~~~~~aH~~y~~~R~~ll~~~~~~~~~~~~----~~~~l~~~GiGGi~~~~~VKCLH~ 117 (139)
T PF04417_consen 48 GIAELEERL-AEDEELAEAYRRAHRRYAALRWSLLSEEEREFLERLG----WVPVLRDRGIGGIPDFKRVKCLHA 117 (139)
T ss_pred HHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHhhh----hHhhhcCCCcCCCCCCCCcchHHH
Confidence 555555555 45666 7777778888754 66667667777766 3434444444 44 7889883
Done!