Query 027864
Match_columns 217
No_of_seqs 169 out of 848
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 02:37:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027864.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027864hhsearch_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 8.3E-89 1.8E-93 609.2 18.8 211 1-211 1-213 (300)
2 KOG0875 60S ribosomal protein 100.0 1.6E-67 3.5E-72 462.6 12.2 209 1-209 1-210 (264)
3 PRK08569 rpl18p 50S ribosomal 100.0 1.1E-63 2.4E-68 426.8 15.2 155 11-211 2-156 (193)
4 COG0256 RplR Ribosomal protein 100.0 5.4E-41 1.2E-45 270.4 9.3 123 14-172 1-125 (125)
5 CHL00139 rpl18 ribosomal prote 100.0 1.3E-33 2.8E-38 222.9 7.9 106 32-171 3-108 (109)
6 PF00861 Ribosomal_L18p: Ribos 100.0 3.7E-33 8E-38 222.2 10.2 117 19-172 1-119 (119)
7 PRK05593 rplR 50S ribosomal pr 100.0 4.9E-33 1.1E-37 221.9 10.4 110 27-172 7-117 (117)
8 TIGR00060 L18_bact ribosomal p 100.0 9.8E-33 2.1E-37 219.5 10.9 108 29-172 7-114 (114)
9 cd00432 Ribosomal_L18_L5e Ribo 100.0 4.9E-30 1.1E-34 198.4 10.2 95 46-170 9-103 (103)
10 PTZ00032 60S ribosomal protein 100.0 4.7E-29 1E-33 214.7 9.1 100 37-171 99-210 (211)
11 PTZ00090 40S ribosomal protein 97.1 0.0057 1.2E-07 54.4 10.5 92 46-172 116-208 (233)
12 PF00411 Ribosomal_S11: Riboso 96.8 0.018 4E-07 45.4 9.9 96 51-181 3-107 (110)
13 KOG3333 Mitochondrial/chloropl 96.6 0.0054 1.2E-07 52.3 6.0 95 48-172 60-154 (188)
14 TIGR03632 bact_S11 30S ribosom 96.3 0.048 1E-06 43.0 9.5 95 51-180 3-106 (108)
15 PRK05309 30S ribosomal protein 96.0 0.095 2.1E-06 42.7 10.3 99 48-181 17-124 (128)
16 PRK09607 rps11p 30S ribosomal 95.9 0.12 2.6E-06 42.6 10.4 103 49-181 10-125 (132)
17 PTZ00129 40S ribosomal protein 95.6 0.19 4E-06 42.3 10.5 101 50-181 30-144 (149)
18 CHL00041 rps11 ribosomal prote 95.5 0.15 3.1E-06 40.9 9.3 96 43-173 8-103 (116)
19 TIGR03628 arch_S11P archaeal r 93.4 0.92 2E-05 36.5 9.3 92 51-172 5-100 (114)
20 COG0100 RpsK Ribosomal protein 90.3 2.3 5E-05 35.1 8.4 96 51-181 21-125 (129)
21 KOG0408 Mitochondrial/chloropl 80.7 12 0.00027 32.4 8.3 90 48-172 79-168 (190)
22 PF13069 DUF3933: Protein of u 37.1 9.3 0.0002 26.6 -0.4 15 58-76 3-17 (53)
23 PRK10713 2Fe-2S ferredoxin Yfa 37.1 24 0.00051 26.0 1.7 34 143-176 4-37 (84)
24 KOG0407 40S ribosomal protein 27.5 3.5E+02 0.0076 22.2 8.8 102 52-180 20-122 (139)
25 COG3566 Uncharacterized protei 22.7 40 0.00086 32.2 1.0 48 155-204 111-158 (379)
26 COG3908 Uncharacterized protei 21.0 2.9E+02 0.0062 20.9 5.0 40 42-85 3-42 (77)
27 CHL00134 petF ferredoxin; Vali 20.8 38 0.00082 25.8 0.3 17 159-175 25-41 (99)
No 1
>PTZ00069 60S ribosomal protein L5; Provisional
Probab=100.00 E-value=8.3e-89 Score=609.15 Aligned_cols=211 Identities=69% Similarity=1.077 Sum_probs=207.8
Q ss_pred CceeeeeccccccccccccccccccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEec
Q 027864 1 MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYA 80 (217)
Q Consensus 1 m~~~k~~kn~~y~~r~~vk~RRRregkTdY~~R~rli~~~k~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS 80 (217)
|+|+|++||+||||||||||||||||||||++|++|+.||+||||+|+||||||+||++|+|||+.+.++||.|||||+|
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 CCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCccccc-ccCCC-CCCcEEEEeecccccccCcch
Q 027864 81 HELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSV-EPTEN-RRPFRALLDVGLVKTTTGNRV 158 (217)
Q Consensus 81 ~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~~~-~~~~~-~~~~~~vlD~Gl~r~~~g~rV 158 (217)
+||+++||+++++|++|||+||+|+|+|+|++||||+.|+|+++++|++|++ |+.|+ ++||.|+||+||.|+++|+||
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 77775 999999999999999999999
Q ss_pred hhhhcccccCCccccCCccccCCCCCCcccCCHHhhhccccCchHHHHHHHHH
Q 027864 159 FGALKGALDGGLDIPHSEKRFAGFSKDSKQLDAEVHRKYIYCGHVAAYMRVSF 211 (217)
Q Consensus 159 ~a~~kGa~d~GL~iPh~~~~fp~~~~~~~~~~ae~~~~ri~G~hVadY~~~~~ 211 (217)
||+||||+||||+||||+++|||||.|+++||||+|++||+|+|||+||+.|.
T Consensus 161 FaalKGa~DgGl~IPhs~~rfpg~d~e~~~~dAe~hR~rI~G~HVa~Ym~~Lk 213 (300)
T PTZ00069 161 FGALKGAVDGGLHIPHSPNRFPGYSKEKDSYDAEVHRDRIFGKHVAEYMKQLK 213 (300)
T ss_pred eeehhcccccCcccCCCCCcCCCCCccccccChHHHHhhhcchhHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999884
No 2
>KOG0875 consensus 60S ribosomal protein L5 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.6e-67 Score=462.60 Aligned_cols=209 Identities=61% Similarity=0.980 Sum_probs=204.5
Q ss_pred CceeeeeccccccccccccccccccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEec
Q 027864 1 MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYA 80 (217)
Q Consensus 1 m~~~k~~kn~~y~~r~~vk~RRRregkTdY~~R~rli~~~k~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS 80 (217)
|+|+|++|+++||+||||||||||||||||++|+||+.||+||||+|++||+|+.+|+.|+|||+.+..+||.++|+|+|
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 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCcccccccCCC-CCCcEEEEeecccccccCcchh
Q 027864 81 HELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTEN-RRPFRALLDVGLVKTTTGNRVF 159 (217)
Q Consensus 81 ~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~~~~~~~~-~~~~~~vlD~Gl~r~~~g~rV~ 159 (217)
+|++++|++.|++|++|||+||+|||+|++++||||++|+|++|++||++++|++|+ |+||+|+||+||+|+|+|+|||
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 999999999999999999999999999999999999999999999999999999996 9999999999999999999999
Q ss_pred hhhcccccCCccccCCccccCCCCCCcccCCHHhhhccccCchHHHHHHH
Q 027864 160 GALKGALDGGLDIPHSEKRFAGFSKDSKQLDAEVHRKYIYCGHVAAYMRV 209 (217)
Q Consensus 160 a~~kGa~d~GL~iPh~~~~fp~~~~~~~~~~ae~~~~ri~G~hVadY~~~ 209 (217)
++||||+||||.||||+++|||+..++.+++.......|.++..+|=+..
T Consensus 161 GAlkga~dGGL~IPHs~krFpGl~e~d~e~y~~~fs~~i~~g~~ad~i~~ 210 (264)
T KOG0875|consen 161 GALKGAVDGGLSIPHSTKRFPGLTEESEEKYKKEFSGYIAKGVEADSIEG 210 (264)
T ss_pred eeeehhcccceecCCccccCCCccccchhhhhHHHhhhhhccccHHHHHH
Confidence 99999999999999999999999999999999999999999999886543
No 3
>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed
Probab=100.00 E-value=1.1e-63 Score=426.76 Aligned_cols=155 Identities=48% Similarity=0.701 Sum_probs=148.4
Q ss_pred cccccccccccccccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCcccccccc
Q 027864 11 AYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEV 90 (217)
Q Consensus 11 ~y~~r~~vk~RRRregkTdY~~R~rli~~~k~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~ 90 (217)
|..|||||||||||||||||++|+||+.++ +||||||+||+|||||||+++++||+|||||||+|++.+||..
T Consensus 2 a~g~ry~v~~rRrRegkTdY~~R~rl~~~~-------kpRLvV~rSNkhIyaQiI~~dd~gd~tLaSAsS~el~~~g~~~ 74 (193)
T PRK08569 2 ATGPRYKVPFRRRREGKTDYRKRLKLLLSG-------KPRLVVRKTNKHVIAQIVKYDPKGDRTLASAHSRELAKYGWKG 74 (193)
T ss_pred CCCCccccceeccccccccHHHHHHHHhcC-------CCEEEEEEeCCeEEEEEEEccCCCCEEEEEEecCchhhccccC
Confidence 468999999999999999999999999999 7999999999999999996556799999999999999999988
Q ss_pred CCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCc
Q 027864 91 GLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGL 170 (217)
Q Consensus 91 ~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL 170 (217)
+++|++|||+||+|||+||+++ ||++ ||||+|+++||+||||||+||||+|+||
T Consensus 75 ~~~N~~AAy~vG~llA~ral~k--------Gi~~------------------vvfDrGg~~yh~gGRV~A~akgArd~GL 128 (193)
T PRK08569 75 DTGNTPAAYLTGLLAGKKALKA--------GVEE------------------AVLDIGLHRPTKGSRVFAALKGAIDAGL 128 (193)
T ss_pred CCCCHHHHHHHHHHHHHHHHHC--------CCCE------------------EEEecCCccccCCccHHHHHHHHHHcCC
Confidence 8999999999999999999999 9999 9999999999999999999999999999
Q ss_pred cccCCccccCCCCCCcccCCHHhhhccccCchHHHHHHHHH
Q 027864 171 DIPHSEKRFAGFSKDSKQLDAEVHRKYIYCGHVAAYMRVSF 211 (217)
Q Consensus 171 ~iPh~~~~fp~~~~~~~~~~ae~~~~ri~G~hVadY~~~~~ 211 (217)
+|||||++|||+ +||+|+|||+||+.|.
T Consensus 129 ~fPh~~~~~p~~-------------~ri~G~Hia~y~~~l~ 156 (193)
T PRK08569 129 EIPHGEEVLPDE-------------DRIRGEHIAEYAESLK 156 (193)
T ss_pred cCCCCCCcCCCc-------------cccccchHHHHHHHHh
Confidence 999999999995 6999999999999874
No 4
>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.4e-41 Score=270.35 Aligned_cols=123 Identities=41% Similarity=0.556 Sum_probs=113.1
Q ss_pred ccccccccccccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCcc--ccccccC
Q 027864 14 KRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELP--RYGLEVG 91 (217)
Q Consensus 14 ~r~~vk~RRRregkTdY~~R~rli~~~k~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~--k~g~k~~ 91 (217)
++|++++||++++||+|+.|.+|. ++ +++|||+||+||+|||||||||. .+.||++|||++.+ +++|+.+
T Consensus 1 ~~~~~~~rr~~~~kr~~r~R~kl~--g~----~~rpRL~V~rSnkhi~aQiId~~--~~~tla~aSt~~~~l~~~g~~~~ 72 (125)
T COG0256 1 PRYKVKFRRRRRGKRAYRIRKKLL--GT----SGRPRLVVRRSNRHIYAQIIDDV--KGGTLASASTLSKELRKYGKKGG 72 (125)
T ss_pred CccchhhHHHHHHhHHHHHHHhhc--cC----CCCcEEEEEEeCCcEEEEEEEcC--CCceEEEEEcchHHHHhhcccCC
Confidence 589999999999999999999999 43 77999999999999999999986 56888888888665 5788878
Q ss_pred CCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCcc
Q 027864 92 LTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD 171 (217)
Q Consensus 92 ~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~ 171 (217)
++|++|||+||+|||+||+++ ||++ ||||+|++.|| |||||+||||+|+||+
T Consensus 73 ~~N~~aA~~vG~lia~ra~~k--------gi~~------------------vVfdr~g~~yh--gRV~Ala~~AreaGL~ 124 (125)
T COG0256 73 GGNTEAAYLVGKLIAERALAK--------GIEE------------------VVFDRGGYKYH--GRVAALADGAREAGLE 124 (125)
T ss_pred CCCHHHHHHHHHHHHHHHHHc--------CCcE------------------EEEcCCCCCcc--hHHHHHHHHHHHcCcC
Confidence 889999999999999999999 9999 99999999995 6999999999999998
Q ss_pred c
Q 027864 172 I 172 (217)
Q Consensus 172 i 172 (217)
+
T Consensus 125 f 125 (125)
T COG0256 125 F 125 (125)
T ss_pred C
Confidence 5
No 5
>CHL00139 rpl18 ribosomal protein L18; Validated
Probab=100.00 E-value=1.3e-33 Score=222.87 Aligned_cols=106 Identities=25% Similarity=0.238 Sum_probs=95.5
Q ss_pred HHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHh
Q 027864 32 ARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLK 111 (217)
Q Consensus 32 ~R~rli~~~k~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~ 111 (217)
.|.|..+.|+ +.+|||+|++||+|||||||||. .++|||||||+|++.+++..+++|++||++||++||+|+++
T Consensus 3 ~r~r~ki~g~----~~rpRL~V~rSnkhiyaQvidd~--~g~tlasaST~ek~~~~~~~~~~n~~aA~~vG~lla~ra~~ 76 (109)
T CHL00139 3 ERVRKKIKGT----AERPRLSVFRSNKHIYAQIIDDT--NGKTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLK 76 (109)
T ss_pred eeeeeeecCC----CCCCEEEEEEeCCeEEEEEEECC--CCCEEEEEecCchhhhccccCCCCHHHHHHHHHHHHHHHHH
Confidence 3555556665 66999999999999999999963 45999999999999888766789999999999999999999
Q ss_pred hhcccccccCcccccCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCcc
Q 027864 112 MLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD 171 (217)
Q Consensus 112 k~~~~~~y~Gi~e~~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~ 171 (217)
+ ||++ |+||+|+++|| |||+|+++||+|+||+
T Consensus 77 ~--------gi~~------------------vvfDrgg~~yh--GrV~a~a~~are~GL~ 108 (109)
T CHL00139 77 K--------GITK------------------VVFDRGGKLYH--GRIKALAEAAREAGLQ 108 (109)
T ss_pred C--------CCCE------------------EEEcCCCCccc--hHHHHHHHHHHHhCCC
Confidence 9 9999 99999999996 6999999999999996
No 6
>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=100.00 E-value=3.7e-33 Score=222.16 Aligned_cols=117 Identities=38% Similarity=0.408 Sum_probs=100.6
Q ss_pred cccccccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCcc--ccccccCCCcHH
Q 027864 19 KYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELP--RYGLEVGLTNYA 96 (217)
Q Consensus 19 k~RRRregkTdY~~R~rli~~~k~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~--k~g~k~~~~N~~ 96 (217)
+++++|+.|++|.+|+.+...+ +|||+|++||+||||||||+. .+.||++|||++.+ +++|+.+++|++
T Consensus 1 ~k~~~~~~r~~~~r~~~~~~~~-------~~RL~V~~Snk~i~aQii~~~--~~~~l~~aSt~~~~l~~~~~~~~~~n~~ 71 (119)
T PF00861_consen 1 KKKRRRRRRKLRIRRKIKGTAE-------RPRLVVFRSNKHIYAQIIDDS--KGGTLASASTLSKELKKYGWKGSTKNVE 71 (119)
T ss_dssp TSCHHHHHHHHHHHHHHHHTTS-------SEEEEEEEESSEEEEEEEECT--TTEEEEEEEEETTTGGGTT-SSTTSSHH
T ss_pred ChhHHHHHHHHHHHHHHhcCCC-------CCEEEEEeccCeEEEEEEeeC--CCCeEEEEEecchhhhhhhhccCCCCEe
Confidence 3567778888888888776655 899999999999999999985 45777777776554 668888889999
Q ss_pred HHHHHHHHHHHHHHhhhcccccccCcccccCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCccc
Q 027864 97 AAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (217)
Q Consensus 97 AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~i 172 (217)
||++||++||+||+++ ||.. ++||+|+++|| |||+|+++||+|+||+|
T Consensus 72 aa~~vG~lla~ra~~~--------gi~~------------------v~fdr~~~~y~--grv~a~~~~~re~Gl~f 119 (119)
T PF00861_consen 72 AAYLVGELLAKRALEK--------GIAK------------------VVFDRGGYKYH--GRVKALADGAREGGLEF 119 (119)
T ss_dssp HHHHHHHHHHHHHHHT--------TSSE------------------EEECTSTSSSS--SHHHHHHHHHHHTTCB-
T ss_pred hHHHHHHHHHHHHHHc--------CCcE------------------EEEcCCCCccc--HHHHHHHHHHHHcCCCC
Confidence 9999999999999999 9988 99999999995 69999999999999986
No 7
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=100.00 E-value=4.9e-33 Score=221.89 Aligned_cols=110 Identities=30% Similarity=0.288 Sum_probs=99.1
Q ss_pred chhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCcc-ccccccCCCcHHHHHHHHHHH
Q 027864 27 KTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELP-RYGLEVGLTNYAAAYCTGLLL 105 (217)
Q Consensus 27 kTdY~~R~rli~~~k~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~-k~g~k~~~~N~~AAy~vG~Ll 105 (217)
+..++.|.|..+.|+ +.+|||+|++||+||||||||| ++|+|||||||+|++ +.+|+ ++|++||++||++|
T Consensus 7 r~~r~~r~r~ki~g~----~~rpRL~V~~SnkhiyAQvidd--~~~~tl~saST~e~~~k~~~~--~~n~~aa~~vG~~l 78 (117)
T PRK05593 7 RLRRHRRVRKKISGT----AERPRLSVFRSNRHIYAQVIDD--VKGKTLASASTLEKDVRAGLK--GGNKEAAKKVGKLI 78 (117)
T ss_pred HHHHHHHHHHHhcCC----CCCCEEEEEEeCCeEEEEEEEC--CCCEEEEEEecCcHhHhcccc--CCCHHHHHHHHHHH
Confidence 335677888888886 6799999999999999999997 488999999999998 46775 78999999999999
Q ss_pred HHHHHhhhcccccccCcccccCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCccc
Q 027864 106 ARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (217)
Q Consensus 106 AkRal~k~~~~~~y~Gi~e~~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~i 172 (217)
|+|++++ ||++ ++||+|+++|| |||+|+|+||+|+||+.
T Consensus 79 a~ra~~~--------gi~~------------------vvfDrg~~~yh--GrV~a~a~~are~Gl~f 117 (117)
T PRK05593 79 AERAKAK--------GIKQ------------------VVFDRGGYKYH--GRVKALADAAREAGLKF 117 (117)
T ss_pred HHHHHHC--------CCCE------------------EEEcCCCCccc--HHHHHHHHHHHHhCCCC
Confidence 9999999 9999 99999999995 69999999999999973
No 8
>TIGR00060 L18_bact ribosomal protein L18, bacterial type. The archaeal and eukaryotic type rpL18 is not detectable under this model.
Probab=100.00 E-value=9.8e-33 Score=219.51 Aligned_cols=108 Identities=31% Similarity=0.285 Sum_probs=94.9
Q ss_pred hHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHH
Q 027864 29 DYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARR 108 (217)
Q Consensus 29 dY~~R~rli~~~k~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkR 108 (217)
..+.|.|..+.|+..| .+|||+||+||+||||||||| ++|+|||||||+|++.. +++|++||++||++||++
T Consensus 7 ~r~~r~r~ki~gt~~~--~rpRL~V~rSnk~iyaQiIdd--~~~~tlasaST~ek~~~----~~~n~~aA~~vG~~la~r 78 (114)
T TIGR00060 7 RRHKRIRRKLRETGEA--NRPRLVVFRSNRHIYAQVIDD--SKSEVLASASTLEKKLK----YTGNKDAAKKVGKLVAER 78 (114)
T ss_pred HHHHHHHHHhcCCCCC--CCcEEEEEEeCCeEEEEEEEC--CCCEEEEEEecchhhhc----CCCCHHHHHHHHHHHHHH
Confidence 4567777777775210 499999999999999999997 48899999999998632 578999999999999999
Q ss_pred HHhhhcccccccCcccccCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCccc
Q 027864 109 VLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (217)
Q Consensus 109 al~k~~~~~~y~Gi~e~~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~i 172 (217)
|+++ ||++ |+||+|+++|| |||+|+++||||+||+.
T Consensus 79 a~~~--------gi~~------------------vvfDrgg~~Yh--Grv~A~a~~aRe~Gl~F 114 (114)
T TIGR00060 79 LKEK--------GIKD------------------VVFDRGGYKYH--GRVAALAEAAREAGLNF 114 (114)
T ss_pred HHHC--------CCCE------------------EEEeCCCCcch--HHHHHHHHHHHHhCCCC
Confidence 9999 9999 99999999996 69999999999999973
No 9
>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=99.96 E-value=4.9e-30 Score=198.42 Aligned_cols=95 Identities=43% Similarity=0.497 Sum_probs=89.2
Q ss_pred CCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccc
Q 027864 46 TPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEA 125 (217)
Q Consensus 46 ~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~ 125 (217)
.++|||+|++||+||||||||+. +|+|||||||+|++.+++..+++|++||++||++||+|++++ |+++
T Consensus 9 ~~~~RL~v~~Sn~~i~aqvi~~~--~~~vl~sast~e~~~~~~~~~~~n~~aA~~vG~~la~r~~~~--------gi~~- 77 (103)
T cd00432 9 QERPRLVVRKSNKHIYAQIIDDS--GDKTLVSASTLELAIKGVLGSGNNVEAAYLVGRLLAKRALEK--------GIKK- 77 (103)
T ss_pred CCCCEEEEEEeCCEEEEEEEEeC--cCeEEEEEecCchhhcccccCCCcHHHHHHHHHHHHHHHHHC--------CCCE-
Confidence 34899999999999999999984 889999999999998777668899999999999999999999 9998
Q ss_pred cCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCc
Q 027864 126 TGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGL 170 (217)
Q Consensus 126 ~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL 170 (217)
++||+|+++| ||||+|+++|++|+||
T Consensus 78 -----------------vv~D~~~~~~--~grv~a~~~~~r~~Gl 103 (103)
T cd00432 78 -----------------VVFDRGGYRY--HGRVKALAKGAREGGL 103 (103)
T ss_pred -----------------EEEeCCCccc--ccHHHHHHHHHHHcCC
Confidence 9999999999 5799999999999997
No 10
>PTZ00032 60S ribosomal protein L18; Provisional
Probab=99.96 E-value=4.7e-29 Score=214.71 Aligned_cols=100 Identities=24% Similarity=0.222 Sum_probs=87.7
Q ss_pred HHhCCCCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCcccccc-c-----------cCCCcHHHHHHHHHH
Q 027864 37 INQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGL-E-----------VGLTNYAAAYCTGLL 104 (217)
Q Consensus 37 i~~~k~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~-k-----------~~~~N~~AAy~vG~L 104 (217)
|++|| -+|||+|++||+|||||||||. .++|||||||++++..+. . ..++|++||+.||.+
T Consensus 99 i~~gk-----rrPRLsV~RSnkHIYAQIIDD~--~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~ 171 (211)
T PTZ00032 99 IIKGK-----RRPRLTLKNTNNQMYATIVDDY--TRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKL 171 (211)
T ss_pred HHcCC-----CcceEEEEecCCeEEEEEEECC--CCCEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHH
Confidence 45564 4699999999999999999984 669999999998874332 1 146799999999999
Q ss_pred HHHHHHhhhcccccccCcccccCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCcc
Q 027864 105 LARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD 171 (217)
Q Consensus 105 lAkRal~k~~~~~~y~Gi~e~~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~ 171 (217)
||++|+++ ||++ |+||||+++|| |||.|+|+|||++||+
T Consensus 172 IAerAl~k--------GI~k------------------VvFDRgGy~YH--GRVkALAdaARe~GLk 210 (211)
T PTZ00032 172 IGRKALSK--------GISK------------------VRFDRAHYKYA--GKVEALAEGARAVGLQ 210 (211)
T ss_pred HHHHHHHC--------CCCE------------------EEEeCCCCeeh--hHHHHHHHHHHHcCCC
Confidence 99999999 9999 99999999996 5999999999999996
No 11
>PTZ00090 40S ribosomal protein S11; Provisional
Probab=97.11 E-value=0.0057 Score=54.37 Aligned_cols=92 Identities=15% Similarity=0.239 Sum_probs=69.4
Q ss_pred CCcceEEEEecCCcEEEEEEEeecCCCE-EEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCccc
Q 027864 46 TPKYRFVVRFTNKDITAQIISASIAGDI-VLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVE 124 (217)
Q Consensus 46 ~~kpRLvV~rSnkhIyaQIId~~~~Gd~-tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e 124 (217)
+++.++||.-|-+++++|+.|. .|.. ||+-+|+-.....|-+ ...--||+.+++-+|+++++. |+.+
T Consensus 116 ~~~f~~vI~aSfNNTIVTlTD~--~GNv~tl~WSSAG~~GFKGsK--KsTpfAAQ~aae~aakka~~~--------GIk~ 183 (233)
T PTZ00090 116 TDRFMLVITTSKNNVHAQVVNK--SKNYKTVFGSFAGNVGFRKKL--QQSERCAYRIGENIAKKCRRL--------GIFA 183 (233)
T ss_pred CCcEEEEEEeccCcEEEEEEeC--CCCEEEEEEEcccccCcccCc--cCCHHHHHHHHHHHHHHHHHc--------CCeE
Confidence 4578999999999999999995 4764 6888887766544433 234568999999999999999 9987
Q ss_pred ccCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCccc
Q 027864 125 ATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (217)
Q Consensus 125 ~~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~i 172 (217)
|. |+=.|. |+ .-+++++...+||+|
T Consensus 184 V~-----------------V~vKGp-----Gg-REtALRaL~~~GLkI 208 (233)
T PTZ00090 184 VD-----------------IKFRRI-----MR-VETVLQAFYANGLQV 208 (233)
T ss_pred EE-----------------EEEeCC-----Ch-HHHHHHHHHHCCCEE
Confidence 22 222332 23 688999999999983
No 12
>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=96.78 E-value=0.018 Score=45.35 Aligned_cols=96 Identities=22% Similarity=0.198 Sum_probs=67.1
Q ss_pred EEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCccc
Q 027864 51 FVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDY 130 (217)
Q Consensus 51 LvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~ 130 (217)
+-|+-|.++.++.+.|. .| .++++.|+-.+...+-. .....||+.++..+++++++. |++.|.
T Consensus 3 ihI~~s~NNt~vtlTd~--~G-~~~~~~S~G~~gfK~~r--k~t~~Aa~~~a~~~~~~~~~~--------gi~~v~---- 65 (110)
T PF00411_consen 3 IHIKSSFNNTIVTLTDL--KG-NVLFWSSAGSLGFKGAR--KSTPYAAQQAAEKIAKKAKEL--------GIKTVR---- 65 (110)
T ss_dssp EEEEEESSEEEEEEEET--TS-EEEEEEETTTSSTTTTC--GSSHHHHHHHHHHHHHHHHCT--------TEEEEE----
T ss_pred EEEEecCCCEEEEEECC--CC-CEEEEEecccccccccc--ccCHHHHHHHHHHHHHHHHHc--------CCeEEE----
Confidence 56889999999999995 35 88888888766543332 356789999999999999999 987611
Q ss_pred ccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCcc---------ccCCccccCC
Q 027864 131 SVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (217)
Q Consensus 131 ~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~---------iPh~~~~fp~ 181 (217)
+.| .| .+-||- +++++....||. |||+-.|-|.
T Consensus 66 ------------v~i-kG----~g~gr~-~~lk~l~~~gl~I~~I~D~T~iphnGcR~kK 107 (110)
T PF00411_consen 66 ------------VKI-KG----FGPGRE-AALKALKKSGLKIVSITDVTPIPHNGCRPKK 107 (110)
T ss_dssp ------------EEE-ES----SSTTHH-HHHHHHHHTTSEEEEEEEETT--SSSS--TT
T ss_pred ------------EEE-cC----CCccHH-HHHHHHHhcCCEEEEEEeecCCCCCCCCCCC
Confidence 333 44 222343 566888888987 6888777664
No 13
>KOG3333 consensus Mitochondrial/chloroplast ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=96.59 E-value=0.0054 Score=52.25 Aligned_cols=95 Identities=17% Similarity=0.110 Sum_probs=69.4
Q ss_pred cceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccC
Q 027864 48 KYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATG 127 (217)
Q Consensus 48 kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~ 127 (217)
-+||-|-+|..|+-+-+... .|.|++||||.|......-.+++|+.|+--+|..||+|.|+. ||....
T Consensus 60 wh~lev~~~~~hveg~v~H~---~~gvvvSAST~EwaIk~qLYst~dtsA~~niGRVLAqRCLqs--------GI~fm~- 127 (188)
T KOG3333|consen 60 WHRLEVIRTQHHVEGLVEHQ---NGGVVVSASTREWAIKKQLYSTRDTSACENIGRVLAQRCLQS--------GINFMV- 127 (188)
T ss_pred eeEEEEeecccceeeeeeEe---cCCEEEEecccchHHHHHHhhccchHHHHHHHHHHHHHHHHh--------Ccceec-
Confidence 46899999999999999886 357889999999874332236789999999999999999999 998621
Q ss_pred cccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCccc
Q 027864 128 EDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (217)
Q Consensus 128 ~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~i 172 (217)
-.-- .-...+....-+.++.-|+|+-.
T Consensus 128 -----------------~~~t-~ea~~~s~~q~l~~a~~e~Gv~l 154 (188)
T KOG3333|consen 128 -----------------YQPT-PEAAASSSMQRLQSAMTEGGVVL 154 (188)
T ss_pred -----------------cCCC-hhhccchHHHHHHHHHHhCCeee
Confidence 1100 00111334455777788899875
No 14
>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=96.30 E-value=0.048 Score=43.00 Aligned_cols=95 Identities=22% Similarity=0.186 Sum_probs=69.0
Q ss_pred EEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCccc
Q 027864 51 FVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDY 130 (217)
Q Consensus 51 LvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~ 130 (217)
+-|+-|.+++++-+.|. .| .+++.+|+-.+...|-. ....-||..+++.+++++++. |++.+.
T Consensus 3 ~hI~~s~NNT~itlTd~--~g-~~~~~~S~G~~gfkg~r--k~t~~Aa~~~a~~~~~~~~~~--------gi~~v~---- 65 (108)
T TIGR03632 3 AHIHATFNNTIVTITDP--QG-NVLSWASAGAVGFKGSK--KSTPYAAQLAAEDAAKKAKEF--------GMKTVD---- 65 (108)
T ss_pred EEEEccCCCEEEEEEcC--CC-CEEEEEecCceeeCCCc--cCCHHHHHHHHHHHHHHHHHc--------CCcEEE----
Confidence 46888999999999996 36 68888887665544432 345778999999999999999 988722
Q ss_pred ccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCcc---------ccCCccccC
Q 027864 131 SVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD---------IPHSEKRFA 180 (217)
Q Consensus 131 ~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~---------iPh~~~~fp 180 (217)
++| +|.-. || .+++++....||+ |||+-.|-|
T Consensus 66 ------------v~~-kG~G~----gr-~~~ir~l~~~glkI~~I~D~T~iphNGcR~~ 106 (108)
T TIGR03632 66 ------------VYV-KGPGA----GR-ESAIRALQAAGLEVTSIKDVTPIPHNGCRPP 106 (108)
T ss_pred ------------EEE-ECCCC----cH-HHHHHHHHHCCCEEEEEEEcCCCCCCCcCCC
Confidence 333 55421 33 5677888888987 588777766
No 15
>PRK05309 30S ribosomal protein S11; Validated
Probab=96.04 E-value=0.095 Score=42.68 Aligned_cols=99 Identities=21% Similarity=0.155 Sum_probs=72.1
Q ss_pred cceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccC
Q 027864 48 KYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATG 127 (217)
Q Consensus 48 kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~ 127 (217)
.--+-|+-|.+++++-+.|. .| .+|+.+|+-.....|-. ....-||..++..+++.+++. |+..+.
T Consensus 17 ~gi~hI~~t~NNTiitlTd~--~G-~~~~~~S~G~~gfKg~r--K~T~~Aa~~aa~~~~~~~~~~--------gi~~v~- 82 (128)
T PRK05309 17 SGVAHIHATFNNTIVTITDR--QG-NVISWASAGGLGFKGSR--KSTPYAAQVAAEDAAKKAKEH--------GMKTVE- 82 (128)
T ss_pred eeEEEEEccCCCEEEEEEcC--CC-CEEEEEecCccEeCCCc--cCCHHHHHHHHHHHHHHHHHc--------CCcEEE-
Confidence 45789999999999999995 35 78888887655443432 345669999999999999998 887622
Q ss_pred cccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCcc---------ccCCccccCC
Q 027864 128 EDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (217)
Q Consensus 128 ~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~---------iPh~~~~fp~ 181 (217)
++| .|.- -|| -+++++....||. |||+-.|-|.
T Consensus 83 ---------------v~i-kG~G----~Gr-~~air~L~~~glkI~~I~D~TpiphNGcR~~K 124 (128)
T PRK05309 83 ---------------VFV-KGPG----SGR-ESAIRALQAAGLEVTSIKDVTPIPHNGCRPPK 124 (128)
T ss_pred ---------------EEE-ECCC----CcH-HHHHHHHHHCCCEEEEEEEcCCCCCCCcCcCC
Confidence 333 5542 233 5667777778987 6888888775
No 16
>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed
Probab=95.94 E-value=0.12 Score=42.63 Aligned_cols=103 Identities=15% Similarity=0.060 Sum_probs=72.2
Q ss_pred ceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCc
Q 027864 49 YRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGE 128 (217)
Q Consensus 49 pRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~ 128 (217)
-=+-|+-|-++.++-|.|. .|..||+.+|+-...+.|-+ ...-=||..+++-+++++++. ||+.|.
T Consensus 10 gi~hI~as~NNTivtvTD~--~G~~~~~~~S~G~~g~kg~k--K~TpyAAq~aae~~~~~~~~~--------Gi~~v~-- 75 (132)
T PRK09607 10 GIAHIYASFNNTIITITDL--TGAETIAKSSGGMVVKADRD--ESSPYAAMQAAEKAAEDAKEK--------GITGVH-- 75 (132)
T ss_pred eEEEEEcccCCeEEEEEcC--CCCEEEEEecCcceeeCCCc--cCCHHHHHHHHHHHHHHHHHc--------CCcEEE--
Confidence 3467888999999999995 47679998887766555532 224458999999999999999 998722
Q ss_pred ccccccCCCCCCcEEEEeec--cccc--ccCcchhhhhcccccCCcc---------ccCCccccCC
Q 027864 129 DYSVEPTENRRPFRALLDVG--LVKT--TTGNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (217)
Q Consensus 129 ~~~~~~~~~~~~~~~vlD~G--l~r~--~~g~rV~a~~kGa~d~GL~---------iPh~~~~fp~ 181 (217)
|.=.| +... .+-|| -+++++...+||+ |||+-.|-|.
T Consensus 76 ---------------v~vkG~Ggn~~~~~G~Gr-~~airal~~~glkI~~I~DvTpiPhNGCRp~K 125 (132)
T PRK09607 76 ---------------IKVRAPGGNGQKSPGPGA-QAAIRALARAGLRIGRIEDVTPIPHDGTRPPG 125 (132)
T ss_pred ---------------EEEEecCCCCCcCCCCcH-HHHHHHHHHCCCEEEEEEEcCCCCCCCCCCCC
Confidence 22233 2222 22233 3466777788887 6999888886
No 17
>PTZ00129 40S ribosomal protein S14; Provisional
Probab=95.61 E-value=0.19 Score=42.33 Aligned_cols=101 Identities=19% Similarity=0.141 Sum_probs=69.5
Q ss_pred eEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCcc
Q 027864 50 RFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGED 129 (217)
Q Consensus 50 RLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~ 129 (217)
=+-|+-|-++.+..|.|. .| .+++.+|+-.....|-. ..+.--||..+++-+|+++++. ||+.
T Consensus 30 i~hI~as~NNTiItiTD~--~G-~~~~w~SsG~~gfKg~r-~KsTpyAAq~aa~~~a~k~~~~--------Gi~~----- 92 (149)
T PTZ00129 30 VAHIFASFNDTFIHVTDL--SG-RETLVRVTGGMKVKADR-DESSPYAAMMAAQDVAARCKEL--------GINA----- 92 (149)
T ss_pred EEEEEcccCCeEEEEEcc--cC-CEEEEEecCcceecccc-cCCCHHHHHHHHHHHHHHHHHc--------CCeE-----
Confidence 467888999999999995 46 66666776555433321 1223448899999999999999 9987
Q ss_pred cccccCCCCCCcEEEEee---ccccccc--CcchhhhhcccccCCcc---------ccCCccccCC
Q 027864 130 YSVEPTENRRPFRALLDV---GLVKTTT--GNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (217)
Q Consensus 130 ~~~~~~~~~~~~~~vlD~---Gl~r~~~--g~rV~a~~kGa~d~GL~---------iPh~~~~fp~ 181 (217)
+-+-+ |+....+ -|| -++++++..+||. |||+..|-|+
T Consensus 93 -------------v~V~vr~~gg~~~kg~GpGr-~~airaL~~~glkI~~I~DvTPiPhNGcRppk 144 (149)
T PTZ00129 93 -------------LHIKLRATGGVRTKTPGPGA-QAALRALARAGLKIGRIEDVTPIPTDSTRRKG 144 (149)
T ss_pred -------------EEEEEEecCCCCCCCCCCCH-HHHHHHHHHCCCEEEEEEecCCCCCCCCCCCC
Confidence 33333 4444433 122 3567888888987 7999988886
No 18
>CHL00041 rps11 ribosomal protein S11
Probab=95.54 E-value=0.15 Score=40.86 Aligned_cols=96 Identities=20% Similarity=0.147 Sum_probs=69.9
Q ss_pred CCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCc
Q 027864 43 KYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGH 122 (217)
Q Consensus 43 k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi 122 (217)
|.+.+.--+-|+-|.+++++-+.|. .| .+|+.+|+-.....|-. ....-||..++.-+++++++. |+
T Consensus 8 ~~~~~~gi~hI~~t~NNTiiTlTd~--~G-~~l~~~S~G~~gfKg~r--K~T~~Aa~~~a~~~~~~~~~~--------gi 74 (116)
T CHL00041 8 KRKIPKGVIHIQASFNNTIVTVTDV--RG-RVISWSSAGACGFKGAR--KGTPFAAQTAAENAIRTVIDQ--------GM 74 (116)
T ss_pred cccceeEEEEEEcccCCEEEEEEcC--CC-CEEEEEecCceeeCCCc--cCCHHHHHHHHHHHHHHHHHc--------CC
Confidence 3444455688999999999999996 35 79999988766544432 245679999999999999999 88
Q ss_pred ccccCcccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCcccc
Q 027864 123 VEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDIP 173 (217)
Q Consensus 123 ~e~~~~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~iP 173 (217)
+.+. ++| +|.- -|| .+++++....||.|-
T Consensus 75 ~~v~----------------I~i-kG~G----~Gr-~~~ir~l~~~glkI~ 103 (116)
T CHL00041 75 KRAE----------------VMI-KGPG----LGR-DTALRAIRRSGLKLS 103 (116)
T ss_pred cEEE----------------EEE-ECCC----CcH-HHHHHHHHHCCCEEE
Confidence 8722 444 5542 245 566788889999863
No 19
>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=93.43 E-value=0.92 Score=36.52 Aligned_cols=92 Identities=12% Similarity=0.011 Sum_probs=64.6
Q ss_pred EEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCccc
Q 027864 51 FVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDY 130 (217)
Q Consensus 51 LvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~ 130 (217)
+-|+-|-++.++-|.|. .|..||+-+|+-...+.|-+ .+.-=||..+.+-++++++++ |++.+.
T Consensus 5 ~hI~as~NNTiitvTD~--~G~~~~~~~S~G~~g~kg~k--k~TpyAAq~aa~~~~~~~~~~--------Gi~~v~---- 68 (114)
T TIGR03628 5 AHIYSSFNNTIITITDI--TGAETIARSSGGMVVKADRD--ESSPYAAMQAAGRAAEKAKER--------GITGLH---- 68 (114)
T ss_pred EEEEccCCCeEEEEEcC--CCCEEEEEecCcceEeCCCc--cCCHHHHHHHHHHHHHHHHHc--------CCcEEE----
Confidence 45788999999999995 47788998888776655543 234458899999999999999 998722
Q ss_pred ccccCCCCCCcEEEEeec--ccccc--cCcchhhhhcccccCCccc
Q 027864 131 SVEPTENRRPFRALLDVG--LVKTT--TGNRVFGALKGALDGGLDI 172 (217)
Q Consensus 131 ~~~~~~~~~~~~~vlD~G--l~r~~--~g~rV~a~~kGa~d~GL~i 172 (217)
|.=+| +.+.+ +-|| -+++++...+||+|
T Consensus 69 -------------v~ikG~gg~~~~~~G~Gr-~~air~l~~~glkI 100 (114)
T TIGR03628 69 -------------IKVRAPGGNGQKSPGPGA-QAAIRALARAGLRI 100 (114)
T ss_pred -------------EEEEecCCCCCCCCCCcH-HHHHHHHHHCCCEE
Confidence 23333 33333 2233 35678888889985
No 20
>COG0100 RpsK Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=90.25 E-value=2.3 Score=35.05 Aligned_cols=96 Identities=18% Similarity=0.117 Sum_probs=64.3
Q ss_pred EEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCccc
Q 027864 51 FVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDY 130 (217)
Q Consensus 51 LvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~ 130 (217)
.-|+.|-++.+.-|.|. +| .+|+.+||=.+-.++-. .+.--||...+..+|+.+++. ||+++.
T Consensus 21 ahI~asfNNTivtitD~--~G-n~i~wassG~~gfk~~r--k~tpyAA~~aa~~aa~~a~e~--------Gi~~v~---- 83 (129)
T COG0100 21 AHIHASFNNTIVTITDL--TG-NVIIWASSGGMGFKGSR--KSTPYAAQLAAEDAAKKAKEH--------GIKSVE---- 83 (129)
T ss_pred EEEEcccCCcEEEecCC--CC-CEEEEEecCCceEcCCC--CCCHHHHHHHHHHHHHHHHHh--------CccEEE----
Confidence 56778888888888885 35 88888888776544432 345567778888999999998 988722
Q ss_pred ccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCcc---------ccCCccccCC
Q 027864 131 SVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (217)
Q Consensus 131 ~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~---------iPh~~~~fp~ 181 (217)
++++= .+-|| -|+...+.-+||. |||+-.|=|+
T Consensus 84 ------------v~vkg-----pG~Gr-eaAiraL~~ag~~i~~I~DvTPiphnG~Rppk 125 (129)
T COG0100 84 ------------VKVKG-----PGPGR-EAAIRALAAAGLKITRIEDVTPIPHNGCRPPK 125 (129)
T ss_pred ------------EEEEC-----CCCcH-HHHHHHHHHccceEEEEEEcCCCCCCCCCCCC
Confidence 33332 11122 2344444466775 7999888885
No 21
>KOG0408 consensus Mitochondrial/chloroplast ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=80.73 E-value=12 Score=32.39 Aligned_cols=90 Identities=21% Similarity=0.160 Sum_probs=59.4
Q ss_pred cceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccC
Q 027864 48 KYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATG 127 (217)
Q Consensus 48 kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~ 127 (217)
-|=.-|+-|.++.++|+.|.. | .++..+|-----..+-. -++++ ||..+|-.++.+++++ |+..|.
T Consensus 79 iPi~hIraS~NNTivtVtd~k--g-~vi~~~ScgteGFrntr-kgT~i-AaQtaavaa~~r~v~~--------G~~~vr- 144 (190)
T KOG0408|consen 79 IPIIHIRASFNNTIVTVTDVK--G-EVISWSSCGTEGFRNTR-KGTPI-AAQTAAVAAIRRAVDQ--------GMQTVR- 144 (190)
T ss_pred cceEEEEecCCCeEEEEEccC--C-cEEEEeecccccccccc-cCCch-hHHHHHHHHHHHHHHh--------cceEEE-
Confidence 466678899999999999963 4 77776654322222222 13444 6778888999999999 987622
Q ss_pred cccccccCCCCCCcEEEEeecccccccCcchhhhhcccccCCccc
Q 027864 128 EDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (217)
Q Consensus 128 ~~~~~~~~~~~~~~~~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~i 172 (217)
|-=.|+- -|| -++++|.+-+||.|
T Consensus 145 ----------------V~VkGlG----pGR-msa~kgl~m~Gl~v 168 (190)
T KOG0408|consen 145 ----------------VRVKGLG----PGR-MSALKGLRMGGLLV 168 (190)
T ss_pred ----------------EEEecCC----ccH-HHHHhhhhhcceEE
Confidence 1222322 234 35789999999974
No 22
>PF13069 DUF3933: Protein of unknown function (DUF3933)
Probab=37.14 E-value=9.3 Score=26.60 Aligned_cols=15 Identities=40% Similarity=0.505 Sum_probs=10.8
Q ss_pred CcEEEEEEEeecCCCEEEE
Q 027864 58 KDITAQIISASIAGDIVLA 76 (217)
Q Consensus 58 khIyaQIId~~~~Gd~tLa 76 (217)
..++||||+ |++-|+
T Consensus 3 qyvicqii~----g~kyla 17 (53)
T PF13069_consen 3 QYVICQIID----GTKYLA 17 (53)
T ss_pred eEEEEEEec----CccHHH
Confidence 468999998 555554
No 23
>PRK10713 2Fe-2S ferredoxin YfaE; Provisional
Probab=37.12 E-value=24 Score=26.04 Aligned_cols=34 Identities=6% Similarity=-0.074 Sum_probs=21.1
Q ss_pred EEEeecccccccCcchhhhhcccccCCccccCCc
Q 027864 143 ALLDVGLVKTTTGNRVFGALKGALDGGLDIPHSE 176 (217)
Q Consensus 143 ~vlD~Gl~r~~~g~rV~a~~kGa~d~GL~iPh~~ 176 (217)
+.|+..+..+.-...=--++++|.++|+.|||+=
T Consensus 4 v~~~~~~~~~~~~~~~~tlL~a~~~~gi~~p~~C 37 (84)
T PRK10713 4 VTLRITGTQLLCQDEHPSLLAALESHNVAVEYQC 37 (84)
T ss_pred EEEEeCCcEEEecCCCCcHHHHHHHcCCCCCCCC
Confidence 4555555444321000248889999999999973
No 24
>KOG0407 consensus 40S ribosomal protein S14 [Translation, ribosomal structure and biogenesis]
Probab=27.47 E-value=3.5e+02 Score=22.24 Aligned_cols=102 Identities=16% Similarity=0.113 Sum_probs=64.3
Q ss_pred EEEecCCcEEEEEEEeecCCCEEEEEEecCCccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCcccc
Q 027864 52 VVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYS 131 (217)
Q Consensus 52 vV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k~g~k~~~~N~~AAy~vG~LlAkRal~k~~~~~~y~Gi~e~~~~~~~ 131 (217)
-|+-|-++.++.|.| .+|..||+-...--.-+..- ..++--||-+..+-+|.+.++. ||+.+-
T Consensus 20 hi~asfndtfvhitd--lsg~eti~rvtggmkvkadr--desspyaamlaaqdva~kck~~--------gi~alh----- 82 (139)
T KOG0407|consen 20 HIFASFNDTFVHVTD--LSGKETIVRVTGGMKVKADR--DESSPYAAMLAAQDVAAKCKEL--------GITALH----- 82 (139)
T ss_pred EEEeecccceEEEec--cCCceEEEEecCCeEEeccc--ccCChHHHHHHHHHHHHHHHhc--------CeeEEE-----
Confidence 356777888888888 46999998776532222111 2346678999999999999999 998511
Q ss_pred cccCCCCCCcEEEEeecccccccC-cchhhhhcccccCCccccCCccccC
Q 027864 132 VEPTENRRPFRALLDVGLVKTTTG-NRVFGALKGALDGGLDIPHSEKRFA 180 (217)
Q Consensus 132 ~~~~~~~~~~~~vlD~Gl~r~~~g-~rV~a~~kGa~d~GL~iPh~~~~fp 180 (217)
|+ +=-.|+.++.+- ----+++..+.-+|+.|---|++-|
T Consensus 83 ---------~k-lratgg~ktktpgpgaqsalralar~gmrigriedvtp 122 (139)
T KOG0407|consen 83 ---------IK-LRATGGTKTKTPGPGAQSALRALARSGMRIGRIEDVTP 122 (139)
T ss_pred ---------EE-EEecCCcccCCCCccHHHHHHHHHHhcceeeeeccccc
Confidence 00 112344433221 1123467777788998866666555
No 25
>COG3566 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.70 E-value=40 Score=32.19 Aligned_cols=48 Identities=19% Similarity=0.209 Sum_probs=42.6
Q ss_pred CcchhhhhcccccCCccccCCccccCCCCCCcccCCHHhhhccccCchHH
Q 027864 155 GNRVFGALKGALDGGLDIPHSEKRFAGFSKDSKQLDAEVHRKYIYCGHVA 204 (217)
Q Consensus 155 g~rV~a~~kGa~d~GL~iPh~~~~fp~~~~~~~~~~ae~~~~ri~G~hVa 204 (217)
+.-|..+++|-++-.+--..+...=||+..+...+|++ +.+|+|-|||
T Consensus 111 ~atIk~VqdGkrELS~Gy~~d~d~tp~~t~dgE~YDa~--q~~i~~NHlA 158 (379)
T COG3566 111 GATIKKVQDGKRELSGGYSADYDWTPGWTPDGEAYDAK--QIRIRGNHLA 158 (379)
T ss_pred HHHHHHHHhhhHHhccCcccccccCCCCCcCcccccce--ecceecceee
Confidence 56799999999998887778888999999888889998 8999999987
No 26
>COG3908 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.01 E-value=2.9e+02 Score=20.86 Aligned_cols=40 Identities=25% Similarity=0.333 Sum_probs=28.5
Q ss_pred CCCCCCcceEEEEecCCcEEEEEEEeecCCCEEEEEEecCCccc
Q 027864 42 NKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPR 85 (217)
Q Consensus 42 ~k~~~~kpRLvV~rSnkhIyaQIId~~~~Gd~tLasAsS~el~k 85 (217)
|.|..|..|..|-+-...= -|++.+ |..|+|+++....+.
T Consensus 3 nrfeg~~~~ea~iryldgd-f~vv~~---GsfV~CAVtgk~IPl 42 (77)
T COG3908 3 NRFEGPGSREAVIRYLDGD-FQVVSP---GSFVLCAVTGKPIPL 42 (77)
T ss_pred ccccCCCCceeEEEEecCc-eEEEcC---CcEEEEEecCCcccH
Confidence 5566777777766544332 388885 889999999887664
No 27
>CHL00134 petF ferredoxin; Validated
Probab=20.84 E-value=38 Score=25.83 Aligned_cols=17 Identities=35% Similarity=0.513 Sum_probs=15.3
Q ss_pred hhhhcccccCCccccCC
Q 027864 159 FGALKGALDGGLDIPHS 175 (217)
Q Consensus 159 ~a~~kGa~d~GL~iPh~ 175 (217)
.-++++|.++||.|||+
T Consensus 25 ~tLL~a~~~~Gi~i~~~ 41 (99)
T CHL00134 25 VYILDAAEEQGIDLPYS 41 (99)
T ss_pred CcHHHHHHHcCCCCCcC
Confidence 35899999999999998
Done!