Query 022470
Match_columns 296
No_of_seqs 214 out of 884
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 03:46:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022470.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022470hhsearch_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 9E-124 2E-128 870.5 28.4 291 1-291 1-295 (300)
2 KOG0875 60S ribosomal protein 100.0 4.5E-95 1E-99 663.8 18.8 262 1-291 1-263 (264)
3 PRK08569 rpl18p 50S ribosomal 100.0 1.1E-78 2.3E-83 541.9 16.3 191 11-250 2-192 (193)
4 COG0256 RplR Ribosomal protein 100.0 2.2E-39 4.7E-44 272.6 7.8 125 14-172 1-125 (125)
5 PF14204 Ribosomal_L18_c: Ribo 100.0 1.7E-37 3.7E-42 250.0 -0.4 93 191-283 1-94 (94)
6 PF00861 Ribosomal_L18p: Ribos 100.0 7.6E-32 1.6E-36 224.1 7.5 118 20-172 2-119 (119)
7 CHL00139 rpl18 ribosomal prote 100.0 1.6E-30 3.5E-35 214.3 5.8 96 46-171 13-108 (109)
8 PRK05593 rplR 50S ribosomal pr 100.0 8.2E-30 1.8E-34 212.4 8.7 108 29-172 9-117 (117)
9 TIGR00060 L18_bact ribosomal p 100.0 8.4E-29 1.8E-33 205.8 9.0 106 31-172 9-114 (114)
10 cd00432 Ribosomal_L18_L5e Ribo 99.9 3.4E-28 7.4E-33 196.4 8.3 95 46-170 9-103 (103)
11 PTZ00032 60S ribosomal protein 99.9 6.8E-25 1.5E-29 197.3 7.0 100 37-171 99-210 (211)
12 PTZ00090 40S ribosomal protein 96.4 0.015 3.2E-07 54.2 8.4 101 46-181 116-229 (233)
13 KOG3333 Mitochondrial/chloropl 95.6 0.027 5.9E-07 50.3 5.9 66 48-124 60-125 (188)
14 PF00411 Ribosomal_S11: Riboso 95.2 0.12 2.6E-06 42.8 8.1 96 51-181 3-107 (110)
15 PRK05309 30S ribosomal protein 95.0 0.17 3.7E-06 43.2 8.6 100 47-181 16-124 (128)
16 TIGR03632 bact_S11 30S ribosom 94.8 0.16 3.6E-06 41.9 7.8 96 51-181 3-107 (108)
17 PTZ00129 40S ribosomal protein 94.6 0.19 4.2E-06 44.3 8.1 99 50-181 30-144 (149)
18 CHL00041 rps11 ribosomal prote 93.6 0.35 7.5E-06 40.6 7.4 97 41-172 6-102 (116)
19 PRK09607 rps11p 30S ribosomal 93.5 0.57 1.2E-05 40.5 8.7 103 50-181 11-125 (132)
20 TIGR03628 arch_S11P archaeal r 86.2 4.2 9.1E-05 34.4 7.6 93 51-172 5-100 (114)
21 COG0100 RpsK Ribosomal protein 79.0 9.4 0.0002 33.1 7.1 61 51-124 21-81 (129)
22 KOG0408 Mitochondrial/chloropl 68.0 25 0.00053 32.1 7.3 97 48-180 79-185 (190)
23 PF14821 Thr_synth_N: Threonin 46.4 19 0.00041 28.0 2.6 60 161-242 18-78 (79)
24 PF08673 RsbU_N: Phosphoserine 37.7 60 0.0013 25.5 4.2 40 210-249 12-54 (77)
25 PRK10251 phosphopantetheinyltr 37.2 57 0.0012 30.1 4.6 62 96-172 50-111 (207)
26 PRK05337 beta-hexosaminidase; 37.0 38 0.00082 33.1 3.6 66 95-185 96-173 (337)
27 PF13069 DUF3933: Protein of u 33.3 12 0.00025 27.5 -0.4 9 58-66 3-11 (53)
28 PRK14083 HSP90 family protein; 29.5 27 0.00058 37.0 1.3 49 197-247 319-370 (601)
29 PRK05218 heat shock protein 90 27.4 49 0.0011 35.0 2.8 48 197-246 339-389 (613)
30 PF04282 DUF438: Family of unk 26.9 1.3E+02 0.0028 23.5 4.4 41 205-246 4-61 (71)
31 PRK10713 2Fe-2S ferredoxin Yfa 26.8 28 0.0006 27.0 0.6 16 161-176 22-37 (84)
32 cd04518 TBP_archaea archaeal T 24.2 3.5E+02 0.0076 24.2 7.2 57 42-116 29-86 (174)
33 COG2977 EntD Phosphopantethein 22.0 1.7E+02 0.0037 27.7 5.0 28 95-123 51-78 (228)
34 TIGR01795 CM_mono_cladeE monof 21.9 1.3E+02 0.0027 24.3 3.6 46 200-245 30-81 (94)
35 COG4939 Major membrane immunog 21.5 5.8E+02 0.012 22.6 7.7 105 100-236 6-113 (147)
36 PF06648 DUF1160: Protein of u 21.3 1.1E+02 0.0025 26.2 3.4 43 199-242 18-63 (122)
No 1
>PTZ00069 60S ribosomal protein L5; Provisional
Probab=100.00 E-value=8.8e-124 Score=870.46 Aligned_cols=291 Identities=65% Similarity=1.014 Sum_probs=281.6
Q ss_pred CcceeeecCccccccccccchhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEec
Q 022470 1 MAFVKAQKSKAYFKRFQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYA 80 (296)
Q Consensus 1 m~fvk~~knkay~~ryqvk~rRRRegKTdY~~R~rli~~dk~ky~s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS 80 (296)
|+||||+||+|||+||||||||||||||||++|++||.||||||||||||||||+||++||||||.+.++||+|||||+|
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-cCCC-CCCCceEEEeeCCCcccCCCce
Q 022470 81 HELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEATGEDYSV-EPAD-TRRPFRALLDVGLIKTTTGNRV 158 (296)
Q Consensus 81 ~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~~v-e~~~-~~~~f~~vlDiGl~r~t~G~RV 158 (296)
+||++|||++|++|++||||||+|+|+|+|++||||+.|+|++++||++|+| |+.+ +++||+|||||||+|+|+|+||
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 7766 6999999999999999999999
Q ss_pred eeeecccccCCccccCCCCccCCCCCCCCCCCHHHHhccccCccHHHHHHHhcccChHHHhhhhHHHHHcCCCcchHHHH
Q 022470 159 FGALKGALDGGLDIPHSDKRFAGFSKDGKQLDAEVHRKYIYGGHVAAYMSTLMEDEPEKYQSHFTEYIKKGIDADGLEAL 238 (296)
Q Consensus 159 faa~KGA~DgGL~IPh~~~~fpgy~~~~k~~~ae~~~~rI~G~hva~Ym~~L~eed~e~yk~qFs~yik~gi~~~~~e~~ 238 (296)
|||||||+||||+||||+++|||||.++++||||+|++||+|+|||+||++|+|||||+|++|||+||++||+||+||+|
T Consensus 161 FaalKGa~DgGl~IPhs~~rfpg~d~e~~~~dAe~hR~rI~G~HVa~Ym~~Lkeedee~yk~qFS~yik~gl~~d~le~~ 240 (300)
T PTZ00069 161 FGALKGAVDGGLHIPHSPNRFPGYSKEKDSYDAEVHRDRIFGKHVAEYMKQLKEEDPDKYKKQFSKYIKAGVGPDSLEDM 240 (300)
T ss_pred eeehhcccccCcccCCCCCcCCCCCccccccChHHHHhhhcchhHHHHHHHhhhhChHHHHHHHHHHHHcCCChhHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCCCCCCCCC--cccccccCCCCCCHHHHHHHHHHHHHHhhhcc
Q 022470 239 YKKVHAAIRADPTMKKSEKPA--PKEHKRYNLKKLTYEERKAKLVERLNALNSAV 291 (296)
Q Consensus 239 y~~~~~~I~~~p~~~~~~k~~--~~~~k~~~~~Klt~~qrk~rv~~k~~~~~~~~ 291 (296)
|++||++|++||++++++++. ...+|+|+.+|||++||++||++|++++.++.
T Consensus 241 y~~ah~~Ir~~P~~~~~~kk~~~~~~~Kr~~~~Klt~~qrk~rv~~k~a~~~~~~ 295 (300)
T PTZ00069 241 YKKAHAAIRANPSKVKKKKKKKKKVVHKKYKTKKLTGKQRKARVKAKKAQRRERL 295 (300)
T ss_pred HHHHHHHHHhCcCccCccccccccccccccccccCCHHHHHHHHHHHHHHHHHHH
Confidence 999999999999887665543 34678999999999999999999999988664
No 2
>KOG0875 consensus 60S ribosomal protein L5 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.5e-95 Score=663.80 Aligned_cols=262 Identities=66% Similarity=1.041 Sum_probs=255.1
Q ss_pred CcceeeecCccccccccccchhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEec
Q 022470 1 MAFVKAQKSKAYFKRFQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYA 80 (296)
Q Consensus 1 m~fvk~~knkay~~ryqvk~rRRRegKTdY~~R~rli~~dk~ky~s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS 80 (296)
|+|||++||++||+||||+|||||||||||++|++|+.||+||||+|++||+||+||+.|+|||+++.++||.|+|+|+|
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 cCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCcccccCccccccCCC-CCCCceEEEeeCCCcccCCCcee
Q 022470 81 HELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEATGEDYSVEPAD-TRRPFRALLDVGLIKTTTGNRVF 159 (296)
Q Consensus 81 ~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~~ve~~~-~~~~f~~vlDiGl~r~t~G~RVf 159 (296)
+||++||++.|++|++||||||+|||+|+|+.||||++|+|+++++|++|+||++| +|+||+|+||+||.|||||+|||
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 99999999999999999999999999999999999999999999999999999988 69999999999999999999999
Q ss_pred eeecccccCCccccCCCCccCCCCCCCCCCCHHHHhccccCccHHHHHHHhcccChHHHhhhhHHHHHcCCCcchHHHHH
Q 022470 160 GALKGALDGGLDIPHSDKRFAGFSKDGKQLDAEVHRKYIYGGHVAAYMSTLMEDEPEKYQSHFTEYIKKGIDADGLEALY 239 (296)
Q Consensus 160 aa~KGA~DgGL~IPh~~~~fpgy~~~~k~~~ae~~~~rI~G~hva~Ym~~L~eed~e~yk~qFs~yik~gi~~~~~e~~y 239 (296)
||||||+||||.||||+++||| |.|+|||+|++|||.||+.|++||+|++||
T Consensus 161 GAlkga~dGGL~IPHs~krFpG----------------------------l~e~d~e~y~~~fs~~i~~g~~ad~i~~~y 212 (264)
T KOG0875|consen 161 GALKGAVDGGLSIPHSTKRFPG----------------------------LTEESEEKYKKEFSGYIAKGVEADSIEGMY 212 (264)
T ss_pred eeeehhcccceecCCccccCCC----------------------------ccccchhhhhHHHhhhhhccccHHHHHHHH
Confidence 9999999999999999999999 789999999999999999999999999999
Q ss_pred HHHHHHHhcCCCCCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHHhhhcc
Q 022470 240 KKVHAAIRADPTMKKSEKPAPKEHKRYNLKKLTYEERKAKLVERLNALNSAV 291 (296)
Q Consensus 240 ~~~~~~I~~~p~~~~~~k~~~~~~k~~~~~Klt~~qrk~rv~~k~~~~~~~~ 291 (296)
++||++|++||+++++++.+ +.+|+|+.++||+|||++||+||+++++.++
T Consensus 213 ~~ahaaIra~p~~~k~~k~~-k~~k~~~~~klt~eerk~rv~~k~~~~~~~~ 263 (264)
T KOG0875|consen 213 KKAHAAIRADPSPKKTEKAA-KESKRYNAKKLTYEERKDQVAQKVAALLGAQ 263 (264)
T ss_pred HHHHHHhhcccCcccccccc-ccchhhccccCCHHHHHHHHHHHHHHhhccC
Confidence 99999999999999888744 4689999999999999999999999988654
No 3
>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed
Probab=100.00 E-value=1.1e-78 Score=541.85 Aligned_cols=191 Identities=45% Similarity=0.734 Sum_probs=185.1
Q ss_pred cccccccccchhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCcccccccc
Q 022470 11 AYFKRFQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEV 90 (296)
Q Consensus 11 ay~~ryqvk~rRRRegKTdY~~R~rli~~dk~ky~s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~ 90 (296)
|.++||||||||||||||||++|++||.++ +||||||+||+|||||||+++++||+|||||||+||+.+||.+
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 678999999999999999999999999998 6999999999999999998777999999999999999999999
Q ss_pred CCCcHHHHHHHHHHHHHHHHhhhcCCcccCCcccccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCc
Q 022470 91 GLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGL 170 (296)
Q Consensus 91 g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL 170 (296)
+++|++|||+||+|||+|||++ ||++ ||||+||++||+||||||+||||+|+||
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 9999999999999999999999 9997 9999999999999999999999999999
Q ss_pred cccCCCCccCCCCCCCCCCCHHHHhccccCccHHHHHHHhcccChHHHhhhhHHHHHcCCCcchHHHHHHHHHHHHhcCC
Q 022470 171 DIPHSDKRFAGFSKDGKQLDAEVHRKYIYGGHVAAYMSTLMEDEPEKYQSHFTEYIKKGIDADGLEALYKKVHAAIRADP 250 (296)
Q Consensus 171 ~IPh~~~~fpgy~~~~k~~~ae~~~~rI~G~hva~Ym~~L~eed~e~yk~qFs~yik~gi~~~~~e~~y~~~~~~I~~~p 250 (296)
+||||+++|||+ +||+|+|||+||+.|+||| |++|||+||++||+|++||+||++||++|++..
T Consensus 129 ~fPh~~~~~p~~-------------~ri~G~Hia~y~~~l~~e~---y~~~Fs~y~~~g~~~~~l~~~~~~~~~~i~~~~ 192 (193)
T PRK08569 129 EIPHGEEVLPDE-------------DRIRGEHIAEYAESLKEEN---YKKQFSKYLERGLDPEDLPEHFEEVKEKILEEY 192 (193)
T ss_pred cCCCCCCcCCCc-------------cccccchHHHHHHHHhhhH---HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhc
Confidence 999999999995 7999999999999999988 999999999999999999999999999999753
No 4
>COG0256 RplR Ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.2e-39 Score=272.59 Aligned_cols=125 Identities=38% Similarity=0.564 Sum_probs=113.8
Q ss_pred ccccccchhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCC
Q 022470 14 KRFQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLT 93 (296)
Q Consensus 14 ~ryqvk~rRRRegKTdY~~R~rli~~dk~ky~s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~ 93 (296)
++|++++||++++||+|+.|.+|+ + ++.+||||||+||+|||||||++...||.+++|+.+.+|.++||..+++
T Consensus 1 ~~~~~~~rr~~~~kr~~r~R~kl~--g----~~~rpRL~V~rSnkhi~aQiId~~~~~tla~aSt~~~~l~~~g~~~~~~ 74 (125)
T COG0256 1 PRYKVKFRRRRRGKRAYRIRKKLL--G----TSGRPRLVVRRSNRHIYAQIIDDVKGGTLASASTLSKELRKYGKKGGGG 74 (125)
T ss_pred CccchhhHHHHHHhHHHHHHHhhc--c----CCCCcEEEEEEeCCcEEEEEEEcCCCceEEEEEcchHHHHhhcccCCCC
Confidence 589999999999999999999999 3 4789999999999999999999976665555555555777899999999
Q ss_pred cHHHHHHHHHHHHHHHHhhhcCCcccCCcccccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCccc
Q 022470 94 NYAAAYCTGLLLARRVLKMLEMDDEYEGNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLDI 172 (296)
Q Consensus 94 N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~I 172 (296)
|++|||+||+|||+||+++ ||++ ||||+|.+.|| |||||+++||+|+||++
T Consensus 75 N~~aA~~vG~lia~ra~~k--------gi~~------------------vVfdr~g~~yh--gRV~Ala~~AreaGL~f 125 (125)
T COG0256 75 NTEAAYLVGKLIAERALAK--------GIEE------------------VVFDRGGYKYH--GRVAALADGAREAGLEF 125 (125)
T ss_pred CHHHHHHHHHHHHHHHHHc--------CCcE------------------EEEcCCCCCcc--hHHHHHHHHHHHcCcCC
Confidence 9999999999999999999 9997 99999999998 79999999999999986
No 5
>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=100.00 E-value=1.7e-37 Score=249.96 Aligned_cols=93 Identities=60% Similarity=0.963 Sum_probs=86.0
Q ss_pred HHHHhccccCccHHHHHHHhcccChHHHhhhhHHHHHcCCCcchHHHHHHHHHHHHhcCCCCCCCCCC-CcccccccCCC
Q 022470 191 AEVHRKYIYGGHVAAYMSTLMEDEPEKYQSHFTEYIKKGIDADGLEALYKKVHAAIRADPTMKKSEKP-APKEHKRYNLK 269 (296)
Q Consensus 191 ae~~~~rI~G~hva~Ym~~L~eed~e~yk~qFs~yik~gi~~~~~e~~y~~~~~~I~~~p~~~~~~k~-~~~~~k~~~~~ 269 (296)
||+|++||+|+|||+||+.|+|||||+|++|||+||++||+|++||+||++||++||+||++.+++++ ++..+|+|+++
T Consensus 1 Ae~hr~rI~G~HVaeYm~~L~eed~e~yk~qFs~yik~gi~p~~le~~y~~~h~~Ir~dP~~~~k~~k~~~~~~k~~~~~ 80 (94)
T PF14204_consen 1 AEVHRDRIFGGHVAEYMEELKEEDPEKYKRQFSKYIKKGIEPDDLEEMYKKAHAAIREDPSPKKKEKKEYKAEKKRYKPK 80 (94)
T ss_dssp -HCHHHCSSSSHCHHHHHSCSSCSSSTCSHHHHHHHHHHCSSSHHHHHHHHHHHCCCHSCCCCCCSTSSS-CHHHHHSCC
T ss_pred ChHHHhCcCchhHHHHHHHHHhhCHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHHhCcccccccccccchhhcccCcc
Confidence 79999999999999999999999999999999999999999999999999999999999999877754 44467999999
Q ss_pred CCCHHHHHHHHHHH
Q 022470 270 KLTYEERKAKLVER 283 (296)
Q Consensus 270 Klt~~qrk~rv~~k 283 (296)
|||++||++||+||
T Consensus 81 Klt~~eRk~rv~~K 94 (94)
T PF14204_consen 81 KLTLEERKARVKQK 94 (94)
T ss_dssp CCCHHHHCCHSCCC
T ss_pred cCCHHHHHHHHhcC
Confidence 99999999999875
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=99.97 E-value=7.6e-32 Score=224.14 Aligned_cols=118 Identities=35% Similarity=0.414 Sum_probs=101.2
Q ss_pred chhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHH
Q 022470 20 YKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAY 99 (296)
Q Consensus 20 ~rRRRegKTdY~~R~rli~~dk~ky~s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy 99 (296)
++++|+.|++|..|+.+.. +++|||+|++||+|||||||++...||.+.||+.+.+|+.+||+.+++|++|||
T Consensus 2 k~~~~~~r~~~~r~~~~~~-------~~~~RL~V~~Snk~i~aQii~~~~~~~l~~aSt~~~~l~~~~~~~~~~n~~aa~ 74 (119)
T PF00861_consen 2 KKRRRRRRKLRIRRKIKGT-------AERPRLVVFRSNKHIYAQIIDDSKGGTLASASTLSKELKKYGWKGSTKNVEAAY 74 (119)
T ss_dssp SCHHHHHHHHHHHHHHHHT-------TSSEEEEEEEESSEEEEEEEECTTTEEEEEEEEETTTGGGTT-SSTTSSHHHHH
T ss_pred hhHHHHHHHHHHHHHHhcC-------CCCCEEEEEeccCeEEEEEEeeCCCCeEEEEEecchhhhhhhhccCCCCEehHH
Confidence 5667777777777776655 448999999999999999999976666666666666788899999999999999
Q ss_pred HHHHHHHHHHHhhhcCCcccCCcccccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCccc
Q 022470 100 CTGLLLARRVLKMLEMDDEYEGNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLDI 172 (296)
Q Consensus 100 ~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~I 172 (296)
+||+|||+|++++ ||.. ++||+|.++|| |||+|+++||+|+||+|
T Consensus 75 ~vG~lla~ra~~~--------gi~~------------------v~fdr~~~~y~--grv~a~~~~~re~Gl~f 119 (119)
T PF00861_consen 75 LVGELLAKRALEK--------GIAK------------------VVFDRGGYKYH--GRVKALADGAREGGLEF 119 (119)
T ss_dssp HHHHHHHHHHHHT--------TSSE------------------EEECTSTSSSS--SHHHHHHHHHHHTTCB-
T ss_pred HHHHHHHHHHHHc--------CCcE------------------EEEcCCCCccc--HHHHHHHHHHHHcCCCC
Confidence 9999999999999 9986 99999999998 69999999999999986
No 7
>CHL00139 rpl18 ribosomal protein L18; Validated
Probab=99.96 E-value=1.6e-30 Score=214.34 Aligned_cols=96 Identities=26% Similarity=0.253 Sum_probs=90.7
Q ss_pred CCcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCcccc
Q 022470 46 TPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEA 125 (296)
Q Consensus 46 s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~ 125 (296)
+.+|||+|++||+|||||||++ ..| +|||||||.|+..++|..+++|++|||+||++||+|++++ ||++
T Consensus 13 ~~rpRL~V~rSnkhiyaQvidd-~~g-~tlasaST~ek~~~~~~~~~~n~~aA~~vG~lla~ra~~~--------gi~~- 81 (109)
T CHL00139 13 AERPRLSVFRSNKHIYAQIIDD-TNG-KTLVACSTLEPDVKSSLSSTSTCDASKLVGQKLAKKSLKK--------GITK- 81 (109)
T ss_pred CCCCEEEEEEeCCeEEEEEEEC-CCC-CEEEEEecCchhhhccccCCCCHHHHHHHHHHHHHHHHHC--------CCCE-
Confidence 5699999999999999999996 355 9999999999999999888999999999999999999999 9997
Q ss_pred cCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCcc
Q 022470 126 TGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLD 171 (296)
Q Consensus 126 ~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~ 171 (296)
|+||+|+++|| |||+|+++||+|+||+
T Consensus 82 -----------------vvfDrgg~~yh--GrV~a~a~~are~GL~ 108 (109)
T CHL00139 82 -----------------VVFDRGGKLYH--GRIKALAEAAREAGLQ 108 (109)
T ss_pred -----------------EEEcCCCCccc--hHHHHHHHHHHHhCCC
Confidence 99999999999 7999999999999996
No 8
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=99.96 E-value=8.2e-30 Score=212.43 Aligned_cols=108 Identities=30% Similarity=0.302 Sum_probs=96.5
Q ss_pred hHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCcc-ccccccCCCcHHHHHHHHHHHHH
Q 022470 29 DYRARIRLINQDKNKYNTPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELP-RYGLEVGLTNYAAAYCTGLLLAR 107 (296)
Q Consensus 29 dY~~R~rli~~dk~ky~s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~-~~g~k~g~~N~~AAy~tGlLlAk 107 (296)
..+.|.|..+.++ +.+|||+|++||+|||||||++ ++|+|||||||.|+. +++|+ ++|++|||+||.+||+
T Consensus 9 ~r~~r~r~ki~g~----~~rpRL~V~~SnkhiyAQvidd--~~~~tl~saST~e~~~k~~~~--~~n~~aa~~vG~~la~ 80 (117)
T PRK05593 9 RRHRRVRKKISGT----AERPRLSVFRSNRHIYAQVIDD--VKGKTLASASTLEKDVRAGLK--GGNKEAAKKVGKLIAE 80 (117)
T ss_pred HHHHHHHHHhcCC----CCCCEEEEEEeCCeEEEEEEEC--CCCEEEEEEecCcHhHhcccc--CCCHHHHHHHHHHHHH
Confidence 3455666666665 6799999999999999999987 588999999999998 57786 7899999999999999
Q ss_pred HHHhhhcCCcccCCcccccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCccc
Q 022470 108 RVLKMLEMDDEYEGNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLDI 172 (296)
Q Consensus 108 Ral~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~I 172 (296)
|++++ ||++ +|||+|+++|| |||+|+++||+|+||+.
T Consensus 81 ra~~~--------gi~~------------------vvfDrg~~~yh--GrV~a~a~~are~Gl~f 117 (117)
T PRK05593 81 RAKAK--------GIKQ------------------VVFDRGGYKYH--GRVKALADAAREAGLKF 117 (117)
T ss_pred HHHHC--------CCCE------------------EEEcCCCCccc--HHHHHHHHHHHHhCCCC
Confidence 99999 9997 99999999997 79999999999999973
No 9
>TIGR00060 L18_bact ribosomal protein L18, bacterial type. The archaeal and eukaryotic type rpL18 is not detectable under this model.
Probab=99.95 E-value=8.4e-29 Score=205.78 Aligned_cols=106 Identities=29% Similarity=0.306 Sum_probs=91.6
Q ss_pred HHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHH
Q 022470 31 RARIRLINQDKNKYNTPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVL 110 (296)
Q Consensus 31 ~~R~rli~~dk~ky~s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal 110 (296)
+.|.|-.+.++..| .+|||+|++||+||||||||+ ++|+|||||||.++. ++ +++|++|||+||++||++++
T Consensus 9 ~~r~r~ki~gt~~~--~rpRL~V~rSnk~iyaQiIdd--~~~~tlasaST~ek~-~~---~~~n~~aA~~vG~~la~ra~ 80 (114)
T TIGR00060 9 HKRIRRKLRETGEA--NRPRLVVFRSNRHIYAQVIDD--SKSEVLASASTLEKK-LK---YTGNKDAAKKVGKLVAERLK 80 (114)
T ss_pred HHHHHHHhcCCCCC--CCcEEEEEEeCCeEEEEEEEC--CCCEEEEEEecchhh-hc---CCCCHHHHHHHHHHHHHHHH
Confidence 44555555554111 489999999999999999987 588999999999986 32 67899999999999999999
Q ss_pred hhhcCCcccCCcccccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCccc
Q 022470 111 KMLEMDDEYEGNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLDI 172 (296)
Q Consensus 111 ~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~I 172 (296)
++ ||++ |+||+|+++|| |||+|+++||+|+||+.
T Consensus 81 ~~--------gi~~------------------vvfDrgg~~Yh--Grv~A~a~~aRe~Gl~F 114 (114)
T TIGR00060 81 EK--------GIKD------------------VVFDRGGYKYH--GRVAALAEAAREAGLNF 114 (114)
T ss_pred HC--------CCCE------------------EEEeCCCCcch--HHHHHHHHHHHHhCCCC
Confidence 99 9997 99999999998 69999999999999973
No 10
>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=99.95 E-value=3.4e-28 Score=196.40 Aligned_cols=95 Identities=40% Similarity=0.501 Sum_probs=90.2
Q ss_pred CCcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCcccc
Q 022470 46 TPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEA 125 (296)
Q Consensus 46 s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~ 125 (296)
.++|||+|++||+|||||||++. +|.|||+|||+|++.+++..+++|++|||+||.+||+|++++ |+++
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 45899999999999999999985 889999999999998888888999999999999999999999 9986
Q ss_pred cCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCc
Q 022470 126 TGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGL 170 (296)
Q Consensus 126 ~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL 170 (296)
++||+|++++| |||+|+++|++|+||
T Consensus 78 -----------------vv~D~~~~~~~--grv~a~~~~~r~~Gl 103 (103)
T cd00432 78 -----------------VVFDRGGYRYH--GRVKALAKGAREGGL 103 (103)
T ss_pred -----------------EEEeCCCcccc--cHHHHHHHHHHHcCC
Confidence 99999999995 899999999999997
No 11
>PTZ00032 60S ribosomal protein L18; Provisional
Probab=99.91 E-value=6.8e-25 Score=197.35 Aligned_cols=100 Identities=25% Similarity=0.224 Sum_probs=87.6
Q ss_pred HHhCCCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCcccccccc------------CCCcHHHHHHHHHH
Q 022470 37 INQDKNKYNTPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEV------------GLTNYAAAYCTGLL 104 (296)
Q Consensus 37 i~~dk~ky~s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~------------g~~N~~AAy~tGlL 104 (296)
|++|| -+|||+|++||+|||||||||. .| .|||||||.+....+..+ +++|++||+.+|.+
T Consensus 99 i~~gk-----rrPRLsV~RSnkHIYAQIIDD~-~~-~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~ 171 (211)
T PTZ00032 99 IIKGK-----RRPRLTLKNTNNQMYATIVDDY-TR-HVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKL 171 (211)
T ss_pred HHcCC-----CcceEEEEecCCeEEEEEEECC-CC-CEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHH
Confidence 45664 4799999999999999999984 45 999999999876433211 46799999999999
Q ss_pred HHHHHHhhhcCCcccCCcccccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCcc
Q 022470 105 LARRVLKMLEMDDEYEGNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLD 171 (296)
Q Consensus 105 lAkRal~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~ 171 (296)
||++|+++ ||++ |+||+|+++|| |||.|+++|||++||.
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 9997 99999999999 6999999999999996
No 12
>PTZ00090 40S ribosomal protein S11; Provisional
Probab=96.44 E-value=0.015 Score=54.18 Aligned_cols=101 Identities=17% Similarity=0.254 Sum_probs=75.2
Q ss_pred CCcceEEEEecCCcEEEEEEeeecCCCE-EEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCccc
Q 022470 46 TPKYRFVVRFTNKDIIAQIVSANIVGDS-VLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVE 124 (296)
Q Consensus 46 s~KpRLvVr~TNkhIiaQII~~~~~GD~-tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e 124 (296)
+.+.++||.-|-+++++||+|. .|+. ||+-+|+-.....|-+.+ .--||+.++.-+|+.+.+. |+..
T Consensus 116 ~~~f~~vI~aSfNNTIVTlTD~--~GNv~tl~WSSAG~~GFKGsKKs--TpfAAQ~aae~aakka~~~--------GIk~ 183 (233)
T PTZ00090 116 TDRFMLVITTSKNNVHAQVVNK--SKNYKTVFGSFAGNVGFRKKLQQ--SERCAYRIGENIAKKCRRL--------GIFA 183 (233)
T ss_pred CCcEEEEEEeccCcEEEEEEeC--CCCEEEEEEEcccccCcccCccC--CHHHHHHHHHHHHHHHHHc--------CCeE
Confidence 4589999999999999999996 6875 788888776654454332 3458899999999999999 9875
Q ss_pred ccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCcc---------ccCC---CCccCC
Q 022470 125 ATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLD---------IPHS---DKRFAG 181 (296)
Q Consensus 125 ~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~---------IPh~---~~~fpg 181 (296)
+||=+... |+ .-+|+++....||. |||+ --|-|-
T Consensus 184 --------------------V~V~vKGp--Gg-REtALRaL~~~GLkIt~I~DvTpiPHNG~NGCRPpK 229 (233)
T PTZ00090 184 --------------------VDIKFRRI--MR-VETVLQAFYANGLQVTQIIHEPRLPKCGLNAVKPRK 229 (233)
T ss_pred --------------------EEEEEeCC--Ch-HHHHHHHHHHCCCEEEEEEECCCCCcCCCCCCCCCC
Confidence 23333333 33 57889999999997 5884 366653
No 13
>KOG3333 consensus Mitochondrial/chloroplast ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=95.64 E-value=0.027 Score=50.30 Aligned_cols=66 Identities=21% Similarity=0.128 Sum_probs=54.9
Q ss_pred cceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCccc
Q 022470 48 KYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVE 124 (296)
Q Consensus 48 KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e 124 (296)
=+||-|-+|..|+..-+... +| -|+.||||.|.....-.-+++|+.|+--+|..||.|.|.. ||..
T Consensus 60 wh~lev~~~~~hveg~v~H~--~~-gvvvSAST~EwaIk~qLYst~dtsA~~niGRVLAqRCLqs--------GI~f 125 (188)
T KOG3333|consen 60 WHRLEVIRTQHHVEGLVEHQ--NG-GVVVSASTREWAIKKQLYSTRDTSACENIGRVLAQRCLQS--------GINF 125 (188)
T ss_pred eeEEEEeecccceeeeeeEe--cC-CEEEEecccchHHHHHHhhccchHHHHHHHHHHHHHHHHh--------Ccce
Confidence 36899999999999999886 34 7888999999763332346789999999999999999999 9974
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=95.23 E-value=0.12 Score=42.77 Aligned_cols=96 Identities=24% Similarity=0.234 Sum_probs=67.0
Q ss_pred EEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCcccccCccc
Q 022470 51 FVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEATGEDY 130 (296)
Q Consensus 51 LvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~ 130 (296)
+-|+-|.+++++.+.|. .| .++++.|+-.+...|-. .....||+.++.-+++++.+. |++.
T Consensus 3 ihI~~s~NNt~vtlTd~--~G-~~~~~~S~G~~gfK~~r--k~t~~Aa~~~a~~~~~~~~~~--------gi~~------ 63 (110)
T PF00411_consen 3 IHIKSSFNNTIVTLTDL--KG-NVLFWSSAGSLGFKGAR--KSTPYAAQQAAEKIAKKAKEL--------GIKT------ 63 (110)
T ss_dssp EEEEEESSEEEEEEEET--TS-EEEEEEETTTSSTTTTC--GSSHHHHHHHHHHHHHHHHCT--------TEEE------
T ss_pred EEEEecCCCEEEEEECC--CC-CEEEEEecccccccccc--ccCHHHHHHHHHHHHHHHHHc--------CCeE------
Confidence 56888999999999996 57 78888888766544433 346789999999999999998 8874
Q ss_pred cccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCcc---------ccCCCCccCC
Q 022470 131 SVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLD---------IPHSDKRFAG 181 (296)
Q Consensus 131 ~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (296)
+.++| .| .+-|| .+++++....||. |||+-.|-|.
T Consensus 64 ----------v~v~i-kG----~g~gr-~~~lk~l~~~gl~I~~I~D~T~iphnGcR~kK 107 (110)
T PF00411_consen 64 ----------VRVKI-KG----FGPGR-EAALKALKKSGLKIVSITDVTPIPHNGCRPKK 107 (110)
T ss_dssp ----------EEEEE-ES----SSTTH-HHHHHHHHHTTSEEEEEEEETT--SSSS--TT
T ss_pred ----------EEEEE-cC----CCccH-HHHHHHHHhcCCEEEEEEeecCCCCCCCCCCC
Confidence 12443 34 22234 3677888888986 6898877764
No 15
>PRK05309 30S ribosomal protein S11; Validated
Probab=94.98 E-value=0.17 Score=43.23 Aligned_cols=100 Identities=23% Similarity=0.200 Sum_probs=71.8
Q ss_pred CcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCccccc
Q 022470 47 PKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEAT 126 (296)
Q Consensus 47 ~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~ 126 (296)
+.--+-|+.|.+++++-+.|. .| .+|+.+|+-.+...|-. ....-||+.++.-+++.+++. |+..
T Consensus 16 ~~gi~hI~~t~NNTiitlTd~--~G-~~~~~~S~G~~gfKg~r--K~T~~Aa~~aa~~~~~~~~~~--------gi~~-- 80 (128)
T PRK05309 16 PSGVAHIHATFNNTIVTITDR--QG-NVISWASAGGLGFKGSR--KSTPYAAQVAAEDAAKKAKEH--------GMKT-- 80 (128)
T ss_pred ceeEEEEEccCCCEEEEEEcC--CC-CEEEEEecCccEeCCCc--cCCHHHHHHHHHHHHHHHHHc--------CCcE--
Confidence 346788999999999999995 57 67887777655444433 234559999999999999988 7764
Q ss_pred CccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCcc---------ccCCCCccCC
Q 022470 127 GEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLD---------IPHSDKRFAG 181 (296)
Q Consensus 127 g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (296)
+.++| .|+-. || -+++++....||. |||+-.|-|.
T Consensus 81 --------------v~v~i-kG~G~----Gr-~~air~L~~~glkI~~I~D~TpiphNGcR~~K 124 (128)
T PRK05309 81 --------------VEVFV-KGPGS----GR-ESAIRALQAAGLEVTSIKDVTPIPHNGCRPPK 124 (128)
T ss_pred --------------EEEEE-ECCCC----cH-HHHHHHHHHCCCEEEEEEEcCCCCCCCcCcCC
Confidence 12444 45421 34 5677777778886 6999888875
No 16
>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=94.80 E-value=0.16 Score=41.94 Aligned_cols=96 Identities=23% Similarity=0.204 Sum_probs=68.5
Q ss_pred EEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCcccccCccc
Q 022470 51 FVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEATGEDY 130 (296)
Q Consensus 51 LvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~ 130 (296)
+-|..|.+++++-+.|. .| .+++.+|+--+...|-. ....-||+.++..+++++++. |+..+
T Consensus 3 ~hI~~s~NNT~itlTd~--~g-~~~~~~S~G~~gfkg~r--k~t~~Aa~~~a~~~~~~~~~~--------gi~~v----- 64 (108)
T TIGR03632 3 AHIHATFNNTIVTITDP--QG-NVLSWASAGAVGFKGSK--KSTPYAAQLAAEDAAKKAKEF--------GMKTV----- 64 (108)
T ss_pred EEEEccCCCEEEEEEcC--CC-CEEEEEecCceeeCCCc--cCCHHHHHHHHHHHHHHHHHc--------CCcEE-----
Confidence 45788999999999996 57 48888877666544433 234667999999999999998 87751
Q ss_pred cccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCcc---------ccCCCCccCC
Q 022470 131 SVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLD---------IPHSDKRFAG 181 (296)
Q Consensus 131 ~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (296)
.++| .|+- . +| -+++++....||. |||+-.|.|.
T Consensus 65 -----------~v~~-kG~G---~-gr-~~~ir~l~~~glkI~~I~D~T~iphNGcR~~K 107 (108)
T TIGR03632 65 -----------DVYV-KGPG---A-GR-ESAIRALQAAGLEVTSIKDVTPIPHNGCRPPK 107 (108)
T ss_pred -----------EEEE-ECCC---C-cH-HHHHHHHHHCCCEEEEEEEcCCCCCCCcCCCC
Confidence 1444 4532 1 34 5677888888986 6888887763
No 17
>PTZ00129 40S ribosomal protein S14; Provisional
Probab=94.61 E-value=0.19 Score=44.31 Aligned_cols=99 Identities=18% Similarity=0.167 Sum_probs=68.1
Q ss_pred eEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCC-Cc-HHHHHHHHHHHHHHHHhhhcCCcccCCcccccC
Q 022470 50 RFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGL-TN-YAAAYCTGLLLARRVLKMLEMDDEYEGNVEATG 127 (296)
Q Consensus 50 RLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~-~N-~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g 127 (296)
=+-|+-|-++.++.|.|. .| .+++.+||--+...| .. .+ --||..+..-+|+++++. ||..
T Consensus 30 i~hI~as~NNTiItiTD~--~G-~~~~w~SsG~~gfKg---~r~KsTpyAAq~aa~~~a~k~~~~--------Gi~~--- 92 (149)
T PTZ00129 30 VAHIFASFNDTFIHVTDL--SG-RETLVRVTGGMKVKA---DRDESSPYAAMMAAQDVAARCKEL--------GINA--- 92 (149)
T ss_pred EEEEEcccCCeEEEEEcc--cC-CEEEEEecCcceecc---cccCCCHHHHHHHHHHHHHHHHHc--------CCeE---
Confidence 356778889999999995 58 556666665543333 22 23 347889999999999999 9886
Q ss_pred ccccccCCCCCCCceEEEee---CCCcccC--CCceeeeecccccCCcc---------ccCCCCccCC
Q 022470 128 EDYSVEPADTRRPFRALLDV---GLIKTTT--GNRVFGALKGALDGGLD---------IPHSDKRFAG 181 (296)
Q Consensus 128 ~~~~ve~~~~~~~f~~vlDi---Gl~r~t~--G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (296)
+-+=+ |+..+.+ -|| -+|+++...+||. |||+-.|-|+
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 3443332 123 4578888889986 7999999887
No 18
>CHL00041 rps11 ribosomal protein S11
Probab=93.56 E-value=0.35 Score=40.62 Aligned_cols=97 Identities=21% Similarity=0.156 Sum_probs=70.0
Q ss_pred CCCCCCCcceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccC
Q 022470 41 KNKYNTPKYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYE 120 (296)
Q Consensus 41 k~ky~s~KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~ 120 (296)
++|.+.+.--+-|+.|.+++++-+.|. .| .+|+.+|+-.+...|-. ....-||+.++.-+++++++.
T Consensus 6 ~~~~~~~~gi~hI~~t~NNTiiTlTd~--~G-~~l~~~S~G~~gfKg~r--K~T~~Aa~~~a~~~~~~~~~~-------- 72 (116)
T CHL00041 6 KSKRKIPKGVIHIQASFNNTIVTVTDV--RG-RVISWSSAGACGFKGAR--KGTPFAAQTAAENAIRTVIDQ-------- 72 (116)
T ss_pred cccccceeEEEEEEcccCCEEEEEEcC--CC-CEEEEEecCceeeCCCc--cCCHHHHHHHHHHHHHHHHHc--------
Confidence 455566666788999999999999996 57 68998888766544433 234568999999999999998
Q ss_pred CcccccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCccc
Q 022470 121 GNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLDI 172 (296)
Q Consensus 121 Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~I 172 (296)
|+.. +.++| .|.- =|| -+++++....||.|
T Consensus 73 gi~~----------------v~I~i-kG~G----~Gr-~~~ir~l~~~glkI 102 (116)
T CHL00041 73 GMKR----------------AEVMI-KGPG----LGR-DTALRAIRRSGLKL 102 (116)
T ss_pred CCcE----------------EEEEE-ECCC----CcH-HHHHHHHHHCCCEE
Confidence 8875 12444 5542 134 56678888899874
No 19
>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed
Probab=93.48 E-value=0.57 Score=40.54 Aligned_cols=103 Identities=17% Similarity=0.135 Sum_probs=71.3
Q ss_pred eEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCcccccCcc
Q 022470 50 RFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEATGED 129 (296)
Q Consensus 50 RLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~ 129 (296)
=+-|+-|-++.++-|.|. .|..||+.+|+-.....|-+. ..--||..++.-+++++++. |+..+.
T Consensus 11 i~hI~as~NNTivtvTD~--~G~~~~~~~S~G~~g~kg~kK--~TpyAAq~aae~~~~~~~~~--------Gi~~v~--- 75 (132)
T PRK09607 11 IAHIYASFNNTIITITDL--TGAETIAKSSGGMVVKADRDE--SSPYAAMQAAEKAAEDAKEK--------GITGVH--- 75 (132)
T ss_pred EEEEEcccCCeEEEEEcC--CCCEEEEEecCcceeeCCCcc--CCHHHHHHHHHHHHHHHHHc--------CCcEEE---
Confidence 466788999999999995 687799888877665555432 23448899999999999998 887511
Q ss_pred ccccCCCCCCCceEEEee-CCCcccC--CCceeeeecccccCCcc---------ccCCCCccCC
Q 022470 130 YSVEPADTRRPFRALLDV-GLIKTTT--GNRVFGALKGALDGGLD---------IPHSDKRFAG 181 (296)
Q Consensus 130 ~~ve~~~~~~~f~~vlDi-Gl~r~t~--G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (296)
+.+== |+..+++ -|| -+++++...+||. |||+-.|-|+
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 22211 2222221 233 3477888888986 6999999987
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=86.20 E-value=4.2 Score=34.40 Aligned_cols=93 Identities=14% Similarity=0.070 Sum_probs=63.4
Q ss_pred EEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCcccccCccc
Q 022470 51 FVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEATGEDY 130 (296)
Q Consensus 51 LvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~ 130 (296)
+-|+-|-++.++-|.|. .|..||+-+|+-.....|-+. ..--||..+..-+++++++. |+..+.
T Consensus 5 ~hI~as~NNTiitvTD~--~G~~~~~~~S~G~~g~kg~kk--~TpyAAq~aa~~~~~~~~~~--------Gi~~v~---- 68 (114)
T TIGR03628 5 AHIYSSFNNTIITITDI--TGAETIARSSGGMVVKADRDE--SSPYAAMQAAGRAAEKAKER--------GITGLH---- 68 (114)
T ss_pred EEEEccCCCeEEEEEcC--CCCEEEEEecCcceEeCCCcc--CCHHHHHHHHHHHHHHHHHc--------CCcEEE----
Confidence 45778889999999995 687889988887776555432 23447889999999999998 887511
Q ss_pred cccCCCCCCCceEEEe-eCCCcccC--CCceeeeecccccCCccc
Q 022470 131 SVEPADTRRPFRALLD-VGLIKTTT--GNRVFGALKGALDGGLDI 172 (296)
Q Consensus 131 ~ve~~~~~~~f~~vlD-iGl~r~t~--G~RVfaa~KGA~DgGL~I 172 (296)
+.|= .|+.++++ -|| -+++++...+||.|
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 2221 12333331 233 45778888889874
No 21
>COG0100 RpsK Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=79.03 E-value=9.4 Score=33.12 Aligned_cols=61 Identities=16% Similarity=0.068 Sum_probs=43.4
Q ss_pred EEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCccc
Q 022470 51 FVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVE 124 (296)
Q Consensus 51 LvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e 124 (296)
.-|+.|-++.++-|.|. .| .+|+.+||=-+-..|-. .+.--||.+.+..+|+.+++. |++.
T Consensus 21 ahI~asfNNTivtitD~--~G-n~i~wassG~~gfk~~r--k~tpyAA~~aa~~aa~~a~e~--------Gi~~ 81 (129)
T COG0100 21 AHIHASFNNTIVTITDL--TG-NVIIWASSGGMGFKGSR--KSTPYAAQLAAEDAAKKAKEH--------GIKS 81 (129)
T ss_pred EEEEcccCCcEEEecCC--CC-CEEEEEecCCceEcCCC--CCCHHHHHHHHHHHHHHHHHh--------CccE
Confidence 55677888888888874 67 77788888776544433 234456667788888889887 8875
No 22
>KOG0408 consensus Mitochondrial/chloroplast ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=68.01 E-value=25 Score=32.12 Aligned_cols=97 Identities=24% Similarity=0.212 Sum_probs=62.3
Q ss_pred cceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCCcccCCcccccC
Q 022470 48 KYRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDDEYEGNVEATG 127 (296)
Q Consensus 48 KpRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g 127 (296)
-|=.-|+-|-++.++|+.|. .| .+++.+|-----..+-.. +|+ -||..+|--++.++..+ |+..
T Consensus 79 iPi~hIraS~NNTivtVtd~--kg-~vi~~~ScgteGFrntrk-gT~-iAaQtaavaa~~r~v~~--------G~~~--- 142 (190)
T KOG0408|consen 79 IPIIHIRASFNNTIVTVTDV--KG-EVISWSSCGTEGFRNTRK-GTP-IAAQTAAVAAIRRAVDQ--------GMQT--- 142 (190)
T ss_pred cceEEEEecCCCeEEEEEcc--CC-cEEEEeeccccccccccc-CCc-hhHHHHHHHHHHHHHHh--------cceE---
Confidence 35567889999999999996 35 666655443211112221 234 46788899999999999 8874
Q ss_pred ccccccCCCCCCCceEEEe-eCCCcccCCCceeeeecccccCCcc---------ccCCCCccC
Q 022470 128 EDYSVEPADTRRPFRALLD-VGLIKTTTGNRVFGALKGALDGGLD---------IPHSDKRFA 180 (296)
Q Consensus 128 ~~~~ve~~~~~~~f~~vlD-iGl~r~t~G~RVfaa~KGA~DgGL~---------IPh~~~~fp 180 (296)
+=.- .||-. || -+||+|..-+||. +||+.-|=|
T Consensus 143 ---------------vrV~VkGlGp----GR-msa~kgl~m~Gl~vvsItD~Tp~~~ng~RPr 185 (190)
T KOG0408|consen 143 ---------------VRVRVKGLGP----GR-MSALKGLRMGGLLVVSITDNTPMPHNGCRPR 185 (190)
T ss_pred ---------------EEEEEecCCc----cH-HHHHhhhhhcceEEEEeecCCcCCCCCCCcc
Confidence 2111 22211 34 4689999999997 467665543
No 23
>PF14821 Thr_synth_N: Threonine synthase N terminus; PDB: 3V7N_A 1VB3_A 1KL7_A.
Probab=46.39 E-value=19 Score=28.01 Aligned_cols=60 Identities=23% Similarity=0.341 Sum_probs=31.3
Q ss_pred eecc-cccCCccccCCCCccCCCCCCCCCCCHHHHhccccCccHHHHHHHhcccChHHHhhhhHHHHHcCCCcchHHHHH
Q 022470 161 ALKG-ALDGGLDIPHSDKRFAGFSKDGKQLDAEVHRKYIYGGHVAAYMSTLMEDEPEKYQSHFTEYIKKGIDADGLEALY 239 (296)
Q Consensus 161 a~KG-A~DgGL~IPh~~~~fpgy~~~~k~~~ae~~~~rI~G~hva~Ym~~L~eed~e~yk~qFs~yik~gi~~~~~e~~y 239 (296)
+++| |-||||.||.. ||-.+ .+.+. .+.+..- +|.=..-++.|+...|++++|.++-
T Consensus 18 il~GlA~DGGLyvP~~---iP~l~-------~~~l~-~l~~~sy-----------~elA~~il~~f~~~di~~~~L~~ii 75 (79)
T PF14821_consen 18 ILQGLAPDGGLYVPEE---IPKLS-------KEELE-ELKNLSY-----------AELAFEILSPFLGDDIPEEELKEII 75 (79)
T ss_dssp HHH-SBTTSB-EEESS---------------HHHHH-HHTTS-H-----------HHHHHHHHHHHCCCCS-HHHHHHHH
T ss_pred HHhCCCCCCeeEecCc---CCCCC-------HHHHH-HHHCCCH-----------HHHHHHHHHHHHccCCCHHHHHHHH
Confidence 4445 67999999984 77643 22111 1122211 2333446777887789999999887
Q ss_pred HHH
Q 022470 240 KKV 242 (296)
Q Consensus 240 ~~~ 242 (296)
++|
T Consensus 76 ~~A 78 (79)
T PF14821_consen 76 EKA 78 (79)
T ss_dssp HHH
T ss_pred HHH
Confidence 765
No 24
>PF08673 RsbU_N: Phosphoserine phosphatase RsbU, N-terminal domain; InterPro: IPR014787 The phosphoserine phosphatase RsbU acts as a positive regulator of the general stress-response factor of Gram-positive organisms, sigma-B. RsbU dephosphorylates rsbV in response to environmental stress conveyed from the rsbXST module. The phosphatase activity of RsbU is stimulated during the stress response by associating with the RsbT kinase. This association leads to the induction of sigmaB activity. The N-terminal domain forms a helix-swapped dimer that is otherwise similar to the KaiA domain dimer. Deletions in the N-terminal domain are deleterious to the activity of RsbU. The C-terminal domain of RsbU is similar to the catalytic domains of PP2C-type phosphatases [].; PDB: 2J6Y_D 2J6Z_A 2J70_A 1W53_A.
Probab=37.66 E-value=60 Score=25.53 Aligned_cols=40 Identities=20% Similarity=0.366 Sum_probs=26.0
Q ss_pred hcccChHH-Hhh-hhHHH-HHcCCCcchHHHHHHHHHHHHhcC
Q 022470 210 LMEDEPEK-YQS-HFTEY-IKKGIDADGLEALYKKVHAAIRAD 249 (296)
Q Consensus 210 L~eed~e~-yk~-qFs~y-ik~gi~~~~~e~~y~~~~~~I~~~ 249 (296)
|...||.. |+- +||+. |+.+|.|++|-++.+++...+-.+
T Consensus 12 l~~~~E~~L~~~~~~~r~~i~~~I~PEeIv~iH~~~v~~l~~~ 54 (77)
T PF08673_consen 12 LETQDEQSLYQAQEFGRELIEKDISPEEIVEIHKSAVQELSPS 54 (77)
T ss_dssp HHH--HHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHH-TT
T ss_pred HhCCCHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHccc
Confidence 34455543 322 67774 689999999999999999988665
No 25
>PRK10251 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional
Probab=37.24 E-value=57 Score=30.11 Aligned_cols=62 Identities=19% Similarity=0.133 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcccCCcccccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCccc
Q 022470 96 AAAYCTGLLLARRVLKMLEMDDEYEGNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLDI 172 (296)
Q Consensus 96 ~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~I 172 (296)
-+-++.|.++|++||..||.... .++.+ .+.|.=- =++=+..+|+++.+.+++- ...-||+|
T Consensus 50 r~EflAgR~~A~~aL~~lg~~~~-~~~g~------------~r~P~wP-~gi~gSISHS~~~a~aav~-~~~VGIDI 111 (207)
T PRK10251 50 KAEHLAGRIAAVYALREYGYKCV-PAIGE------------LRQPVWP-AGVYGSISHCGTTALAVVS-RQPIGIDI 111 (207)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCC-CCcCC------------CCCccCC-CCceeCcccccCeEEEEEe-CCCcEEEe
Confidence 35578899999999999987652 23321 2222210 1233677888888877764 33456666
No 26
>PRK05337 beta-hexosaminidase; Provisional
Probab=37.00 E-value=38 Score=33.15 Aligned_cols=66 Identities=26% Similarity=0.392 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHHhhhcCCcccCCcccccCccccccCCCCCCCceEEEeeCCCcccCCCcee------------eee
Q 022470 95 YAAAYCTGLLLARRVLKMLEMDDEYEGNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVF------------GAL 162 (296)
Q Consensus 95 ~~AAy~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVf------------aa~ 162 (296)
.+.|+..|..+|+.+... ||.- -|--++|+.-...-.|+|-| |++
T Consensus 96 ~~la~~~g~~~a~Elra~--------Gin~---------------~~aPvlDv~~~~~~ig~RsfgeDp~lv~~~a~a~i 152 (337)
T PRK05337 96 LKLAEEAGWLMAAELRAC--------GIDL---------------SFAPVLDLDGISAVIGDRAFHRDPQVVAALASAFI 152 (337)
T ss_pred HHHHHHHHHHHHHHHHHh--------CCCc---------------cccCccCCCCCCCeeeccCCCCCHHHHHHHHHHHH
Confidence 788999999999998877 6642 12245555411011233444 478
Q ss_pred cccccCCccccCCCCccCCCCCC
Q 022470 163 KGALDGGLDIPHSDKRFAGFSKD 185 (296)
Q Consensus 163 KGA~DgGL~IPh~~~~fpgy~~~ 185 (296)
+|..++| |-..-|-|||++.+
T Consensus 153 ~Glq~~g--v~~~~KHFpG~G~~ 173 (337)
T PRK05337 153 DGMHAAG--MAATGKHFPGHGAV 173 (337)
T ss_pred HHHHHCC--CEEEecccCCCCCC
Confidence 8988888 45777899999764
No 27
>PF13069 DUF3933: Protein of unknown function (DUF3933)
Probab=33.32 E-value=12 Score=27.46 Aligned_cols=9 Identities=33% Similarity=0.615 Sum_probs=7.3
Q ss_pred CcEEEEEEe
Q 022470 58 KDIIAQIVS 66 (296)
Q Consensus 58 khIiaQII~ 66 (296)
..+|||||+
T Consensus 3 qyvicqii~ 11 (53)
T PF13069_consen 3 QYVICQIID 11 (53)
T ss_pred eEEEEEEec
Confidence 468999987
No 28
>PRK14083 HSP90 family protein; Provisional
Probab=29.50 E-value=27 Score=37.00 Aligned_cols=49 Identities=14% Similarity=0.205 Sum_probs=37.2
Q ss_pred cccCccHHHHHHHhcccChHHHhh---hhHHHHHcCCCcchHHHHHHHHHHHHh
Q 022470 197 YIYGGHVAAYMSTLMEDEPEKYQS---HFTEYIKKGIDADGLEALYKKVHAAIR 247 (296)
Q Consensus 197 rI~G~hva~Ym~~L~eed~e~yk~---qFs~yik~gi~~~~~e~~y~~~~~~I~ 247 (296)
+..|+-|.++.+.|.++|+++|.+ +|+.+||.|+--| .+.+++...-++
T Consensus 319 ~~i~kki~~~L~~la~~d~e~y~~f~~~~g~~lK~g~~~D--~~~~~~l~~lL~ 370 (601)
T PRK14083 319 EELGEAIRKWLIGLATTDPERLRRLLAVHHLGVKALASHD--DELLRLILPWLP 370 (601)
T ss_pred HHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHHHhcC--HHHHHHHHHhce
Confidence 457889999999999999999987 8899999998643 224444444443
No 29
>PRK05218 heat shock protein 90; Provisional
Probab=27.41 E-value=49 Score=35.00 Aligned_cols=48 Identities=23% Similarity=0.308 Sum_probs=36.8
Q ss_pred cccCccHHHHHHHhcccChHHHhh---hhHHHHHcCCCcchHHHHHHHHHHHH
Q 022470 197 YIYGGHVAAYMSTLMEDEPEKYQS---HFTEYIKKGIDADGLEALYKKVHAAI 246 (296)
Q Consensus 197 rI~G~hva~Ym~~L~eed~e~yk~---qFs~yik~gi~~~~~e~~y~~~~~~I 246 (296)
..+|.-|.++...|.++|+++|.+ +|+.+||.|+--|+ +++++...-+
T Consensus 339 ~~l~~kv~~~l~~la~~d~~~y~~f~~~~~~~lK~g~~~D~--~~~~~~~~lL 389 (613)
T PRK05218 339 KAITKKVLDELEKLAKNDREKYEKFWKEFGPVLKEGLYEDF--ANREKLAKLL 389 (613)
T ss_pred HHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHhhhhccH--HHHHHHHhhc
Confidence 457888999999999999999887 78889999987552 3455444443
No 30
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=26.92 E-value=1.3e+02 Score=23.54 Aligned_cols=41 Identities=27% Similarity=0.588 Sum_probs=27.0
Q ss_pred HHHHHh-cccChHHHhhhhHHH----------------HHcCCCcchHHHHHHHHHHHH
Q 022470 205 AYMSTL-MEDEPEKYQSHFTEY----------------IKKGIDADGLEALYKKVHAAI 246 (296)
Q Consensus 205 ~Ym~~L-~eed~e~yk~qFs~y----------------ik~gi~~~~~e~~y~~~~~~I 246 (296)
+|+..| .-+|+|.-+++|.+. |+.|+++++|..+. .+|+++
T Consensus 4 ~ii~~Lh~G~~~e~vk~~F~~~~~~Vs~~EI~~~Eq~Li~eG~~~eeiq~LC-dvH~~l 61 (71)
T PF04282_consen 4 EIIKRLHEGEDPEEVKEEFKKLFSDVSASEISAAEQELIQEGMPVEEIQKLC-DVHAAL 61 (71)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCCHHHHHHHh-HHHHHH
Confidence 555566 567888888888775 45577777776654 345444
No 31
>PRK10713 2Fe-2S ferredoxin YfaE; Provisional
Probab=26.84 E-value=28 Score=27.03 Aligned_cols=16 Identities=6% Similarity=-0.054 Sum_probs=14.0
Q ss_pred eecccccCCccccCCC
Q 022470 161 ALKGALDGGLDIPHSD 176 (296)
Q Consensus 161 a~KGA~DgGL~IPh~~ 176 (296)
+|..|.++|+.||||=
T Consensus 22 lL~a~~~~gi~~p~~C 37 (84)
T PRK10713 22 LLAALESHNVAVEYQC 37 (84)
T ss_pred HHHHHHHcCCCCCCCC
Confidence 6778999999999984
No 32
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=24.21 E-value=3.5e+02 Score=24.17 Aligned_cols=57 Identities=16% Similarity=0.239 Sum_probs=35.4
Q ss_pred CCCCCCc-ceEEEEecCCcEEEEEEeeecCCCEEEEEEeccCccccccccCCCcHHHHHHHHHHHHHHHHhhhcCC
Q 022470 42 NKYNTPK-YRFVVRFTNKDIIAQIVSANIVGDSVLAAAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMD 116 (296)
Q Consensus 42 ~ky~s~K-pRLvVr~TNkhIiaQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlAkRal~k~~l~ 116 (296)
.-||..+ |=|++|..+-...+-|..+ | +++|+ |.++.+.|......+++.+. ++|.+
T Consensus 29 ~eY~P~~fpgli~Rl~~Pk~t~lIF~S---G-Kiv~t-------------Gaks~~~a~~a~~~~~~~L~-~~g~~ 86 (174)
T cd04518 29 AEYNPDQFPGLVYRLEDPKIAALIFRS---G-KMVCT-------------GAKSVEDLHRAVKEIIKKLK-DYGIK 86 (174)
T ss_pred cEECCCcCcEEEEEccCCcEEEEEECC---C-eEEEE-------------ccCCHHHHHHHHHHHHHHHH-hcCCC
Confidence 4687766 5577777776677766653 6 66663 33456666666666666654 44443
No 33
>COG2977 EntD Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=21.98 E-value=1.7e+02 Score=27.75 Aligned_cols=28 Identities=21% Similarity=0.182 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHhhhcCCcccCCcc
Q 022470 95 YAAAYCTGLLLARRVLKMLEMDDEYEGNV 123 (296)
Q Consensus 95 ~~AAy~tGlLlAkRal~k~~l~~~y~Gi~ 123 (296)
--|.++.|..+|+.||..+| ...+-+..
T Consensus 51 RkaEflAgR~cA~~AL~~lg-~~~~Pi~~ 78 (228)
T COG2977 51 RKAEFLAGRICARQALRELG-VADVPILR 78 (228)
T ss_pred HHHHHHHHHHHHHHHHHHhC-CCCCCccc
Confidence 45678999999999999998 55454553
No 34
>TIGR01795 CM_mono_cladeE monofunctional chorismate mutase, alpha proteobacterial type. The alpha proteobacterial members are trusted because the pathways of CM are evident and there is only one plausible CM in the genome. In S. coelicolor, however, there is another aparrent monofunctional CM.
Probab=21.88 E-value=1.3e+02 Score=24.33 Aligned_cols=46 Identities=13% Similarity=0.253 Sum_probs=32.4
Q ss_pred CccHHHHHHH--hcccChHHHhhhhHHHHH----cCCCcchHHHHHHHHHHH
Q 022470 200 GGHVAAYMST--LMEDEPEKYQSHFTEYIK----KGIDADGLEALYKKVHAA 245 (296)
Q Consensus 200 G~hva~Ym~~--L~eed~e~yk~qFs~yik----~gi~~~~~e~~y~~~~~~ 245 (296)
...|+.|-.. +.=-||+.-+..+..+.. .|++|+-++.+|+.+|+.
T Consensus 30 ~~~ia~~K~~~~~~v~dp~Re~~vl~~~~~~a~~~gl~p~~~e~i~~~i~~e 81 (94)
T TIGR01795 30 TSQVGVLKANAGLAPADPAREDYQIARLRRLAIDAGLDPEFAEKFLNFIVTE 81 (94)
T ss_pred HHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
Confidence 3445555322 233567888888877755 499999999999999864
No 35
>COG4939 Major membrane immunogen, membrane-anchored lipoprotein [Function unknown]
Probab=21.49 E-value=5.8e+02 Score=22.63 Aligned_cols=105 Identities=13% Similarity=0.150 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHhhhcCCcccCCcccccCccccccCCCCCCCceEEEeeCCCcccCCCceeeeecccccCCccccCCCCcc
Q 022470 100 CTGLLLARRVLKMLEMDDEYEGNVEATGEDYSVEPADTRRPFRALLDVGLIKTTTGNRVFGALKGALDGGLDIPHSDKRF 179 (296)
Q Consensus 100 ~tGlLlAkRal~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlDiGl~r~t~G~RVfaa~KGA~DgGL~IPh~~~~f 179 (296)
++|.+++--+|..-|-.+.- ..+=.||++-..++...-.-.+.++-| +-.+|+|-++.=- --|.+
T Consensus 6 ~~~~~~~~~LL~aCg~sd~s-~~t~~dGtY~~~y~~fDd~gwk~f~~i----ti~dGKiv~~~yd-------y~~k~--- 70 (147)
T COG4939 6 LVGMIVALSLLTACGKSDFS-KMTFNDGTYQGHYESFDDHGWKAFVTI----TIQDGKIVACTYD-------YRDKK--- 70 (147)
T ss_pred hhHHHHHHHHHHHhcccccc-cccccCCceeeeeccccccCccceEEE----EEeCCEEEEEEee-------eecCC---
Confidence 35666666677665555422 223345655444443222222333322 3445666555422 22333
Q ss_pred CCCCCCCCCCCHHHHhccccCccHHHH---HHHhcccChHHHhhhhHHHHHcCCCcchHH
Q 022470 180 AGFSKDGKQLDAEVHRKYIYGGHVAAY---MSTLMEDEPEKYQSHFTEYIKKGIDADGLE 236 (296)
Q Consensus 180 pgy~~~~k~~~ae~~~~rI~G~hva~Y---m~~L~eed~e~yk~qFs~yik~gi~~~~~e 236 (296)
-+|.++. |+| |....---|+.|-++.+.-|-.+-+|++++
T Consensus 71 ----------------G~~Ks~D-Ady~~~mk~~~g~gp~~~f~~laD~Lve~q~p~~Vd 113 (147)
T COG4939 71 ----------------GNIKSDD-ADYAGEMKYMKGQGPVQGFSTLADKLVEVQDPNEVD 113 (147)
T ss_pred ----------------CCccccc-hhhHHHHHHhcccCHHHHHHHHHHHHHhcCCcccee
Confidence 3555555 677 666666778888888888777776666654
No 36
>PF06648 DUF1160: Protein of unknown function (DUF1160); InterPro: IPR010594 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf75; it is a family of uncharacterised viral proteins.
Probab=21.33 E-value=1.1e+02 Score=26.22 Aligned_cols=43 Identities=19% Similarity=0.408 Sum_probs=35.4
Q ss_pred cCccHHHHHHHhcccCh---HHHhhhhHHHHHcCCCcchHHHHHHHH
Q 022470 199 YGGHVAAYMSTLMEDEP---EKYQSHFTEYIKKGIDADGLEALYKKV 242 (296)
Q Consensus 199 ~G~hva~Ym~~L~eed~---e~yk~qFs~yik~gi~~~~~e~~y~~~ 242 (296)
.-.|+-+|++.|. .|+ +++.+-|..||...|+.++|=.++..+
T Consensus 18 v~~~l~~ylkel~-~d~tf~~Kl~~Il~mFl~~eid~e~~y~l~~~~ 63 (122)
T PF06648_consen 18 VNTHLKKYLKELE-RDETFLDKLIKILKMFLNDEIDVEDMYNLFGAV 63 (122)
T ss_pred HHHHHHHHHHHhc-cCchHHHHHHHHHHHHHhCCCCHHHHHHHHhcc
Confidence 4468899999998 444 577778999999999999998888755
Done!