Query 022424
Match_columns 297
No_of_seqs 234 out of 899
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 03:26:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022424.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022424hhsearch_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 1E-123 2E-128 870.4 28.3 291 1-291 1-295 (300)
2 KOG0875 60S ribosomal protein 100.0 2.9E-95 6E-100 665.3 18.8 263 1-292 1-264 (264)
3 PRK08569 rpl18p 50S ribosomal 100.0 8.9E-79 1.9E-83 542.6 16.1 191 11-250 2-192 (193)
4 COG0256 RplR Ribosomal protein 100.0 1.8E-39 3.9E-44 273.2 7.5 125 14-172 1-125 (125)
5 PF14204 Ribosomal_L18_c: Ribo 100.0 1.4E-37 3E-42 250.6 -1.2 93 191-283 1-94 (94)
6 PF00861 Ribosomal_L18p: Ribos 100.0 5.9E-32 1.3E-36 224.9 7.2 118 20-172 2-119 (119)
7 CHL00139 rpl18 ribosomal prote 100.0 8E-31 1.7E-35 216.3 5.4 97 46-172 13-109 (109)
8 PRK05593 rplR 50S ribosomal pr 100.0 4.5E-30 9.7E-35 214.1 8.3 107 30-172 10-117 (117)
9 TIGR00060 L18_bact ribosomal p 100.0 3.9E-29 8.4E-34 207.9 8.6 106 31-172 9-114 (114)
10 cd00432 Ribosomal_L18_L5e Ribo 99.9 2.2E-28 4.9E-33 197.6 7.9 95 46-170 9-103 (103)
11 PTZ00032 60S ribosomal protein 99.9 3.8E-25 8.3E-30 199.0 6.8 96 47-172 104-211 (211)
12 PTZ00090 40S ribosomal protein 96.1 0.023 4.9E-07 53.0 7.7 100 46-180 116-228 (233)
13 KOG3333 Mitochondrial/chloropl 96.0 0.017 3.6E-07 51.6 5.9 66 48-124 60-125 (188)
14 PF00411 Ribosomal_S11: Riboso 95.2 0.1 2.3E-06 43.1 7.8 96 51-181 3-107 (110)
15 PRK05309 30S ribosomal protein 94.9 0.16 3.5E-06 43.3 8.2 100 47-181 16-124 (128)
16 TIGR03632 bact_S11 30S ribosom 94.8 0.14 3E-06 42.4 7.4 96 51-181 3-107 (108)
17 PTZ00129 40S ribosomal protein 94.0 0.25 5.4E-06 43.6 7.6 99 50-181 30-144 (149)
18 CHL00041 rps11 ribosomal prote 93.5 0.32 6.9E-06 40.9 7.1 97 41-172 6-102 (116)
19 PRK09607 rps11p 30S ribosomal 92.6 0.71 1.5E-05 40.0 8.1 103 50-181 11-125 (132)
20 TIGR03628 arch_S11P archaeal r 84.8 4.5 9.8E-05 34.2 7.2 93 51-172 5-100 (114)
21 COG0100 RpsK Ribosomal protein 77.0 10 0.00022 32.9 6.8 61 51-124 21-81 (129)
22 KOG0408 Mitochondrial/chloropl 72.3 14 0.00029 33.7 6.6 89 48-172 79-168 (190)
23 PF14821 Thr_synth_N: Threonin 67.6 9 0.00019 29.8 4.0 60 161-242 18-78 (79)
24 PRK05337 beta-hexosaminidase; 37.6 32 0.00069 33.7 3.2 66 95-185 96-173 (337)
25 PRK10251 phosphopantetheinyltr 37.4 55 0.0012 30.2 4.5 62 96-172 50-111 (207)
26 PF13069 DUF3933: Protein of u 35.2 11 0.00023 27.7 -0.4 9 58-66 3-11 (53)
27 PF08673 RsbU_N: Phosphoserine 29.7 96 0.0021 24.4 4.1 40 210-249 12-54 (77)
28 PF04282 DUF438: Family of unk 29.3 1.1E+02 0.0024 23.9 4.4 42 204-246 3-61 (71)
29 PRK14083 HSP90 family protein; 28.7 31 0.00067 36.6 1.6 49 197-247 319-370 (601)
30 PRK05218 heat shock protein 90 26.6 55 0.0012 34.6 3.0 48 197-246 339-389 (613)
31 cd04518 TBP_archaea archaeal T 26.3 2.9E+02 0.0062 24.8 7.1 57 42-116 29-86 (174)
32 PRK10713 2Fe-2S ferredoxin Yfa 25.5 27 0.00059 27.1 0.4 16 161-176 22-37 (84)
33 PF06648 DUF1160: Protein of u 22.6 1.1E+02 0.0023 26.4 3.5 43 199-242 18-63 (122)
34 COG2977 EntD Phosphopantethein 22.4 1.6E+02 0.0034 28.0 4.8 29 94-123 50-78 (228)
35 PF00452 Bcl-2: Apoptosis regu 21.7 1.6E+02 0.0035 22.9 4.2 41 210-250 4-46 (101)
36 TIGR01795 CM_mono_cladeE monof 21.6 1.3E+02 0.0028 24.3 3.6 46 200-245 30-81 (94)
37 PF13450 NAD_binding_8: NAD(P) 21.2 2.7E+02 0.0058 20.6 5.0 49 100-181 6-54 (68)
No 1
>PTZ00069 60S ribosomal protein L5; Provisional
Probab=100.00 E-value=1e-123 Score=870.38 Aligned_cols=291 Identities=63% Similarity=0.997 Sum_probs=281.6
Q ss_pred CcceeeecCccccccccccchhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEec
Q 022424 1 MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYA 80 (297)
Q Consensus 1 m~fvk~~knkay~~ryqvk~rRRRegkTdY~~R~rli~qdknky~s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS 80 (297)
|+||||+||+|||+||||||||||||||||++|++||.||+||||||+||||||+||++||||||.+.++||+|||||+|
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 022424 81 HELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSV-EPTE-NRRPFRALLDVGLVKTTTGNRV 158 (297)
Q Consensus 81 ~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~~v-e~~~-~~~~f~~vlD~Gl~r~t~G~RV 158 (297)
+||++|||++|++|++||||||+|+|+|+|++||||+.|+|++++||++|+| |+.+ +++||+|||||||+|+|+|+||
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 022424 159 FGALKGALDGGLDIPHSEKRFAGFSKDSKQLDAEVHRKYIYCGHVAAYMRTLMEDEPEKYQSHFCEYIKRGIEADNLEEL 238 (297)
Q Consensus 159 faa~KGA~DgGL~IPh~~~~fpgy~~e~k~~~ae~~~~ri~G~hVa~Ym~~L~eed~e~yk~qFS~yik~gi~~~~ie~~ 238 (297)
|||||||+||||+||||+++|||||.|+++||||+|++||+|+|||+||++|+|||||+|++|||+||++||+||+||+|
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 022424 239 YKKVHAAIRADPNQKKSEKKP--PAEHKRYNLKKLTYEERKARLVERLKALNAAE 291 (297)
Q Consensus 239 y~~~~~~I~~~p~~~~~~k~~--~~~~k~~~~~Klt~~qrk~rv~~k~~~~~~~~ 291 (297)
|++||++|++||++++++++. ...+|+|+.+|||++||++||++|++++.+..
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 24678999999999999999999999987653
No 2
>KOG0875 consensus 60S ribosomal protein L5 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.9e-95 Score=665.29 Aligned_cols=263 Identities=64% Similarity=1.035 Sum_probs=255.9
Q ss_pred CcceeeecCccccccccccchhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEec
Q 022424 1 MAFAKAQKSKAYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYA 80 (297)
Q Consensus 1 m~fvk~~knkay~~ryqvk~rRRRegkTdY~~R~rli~qdknky~s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS 80 (297)
|+|||++||++||+||||+|||||||||||++|++|+.||+||||+|++||+|++||+.|+|||+++.++||.|+|+|+|
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 022424 81 HELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTE-NRRPFRALLDVGLVKTTTGNRVF 159 (297)
Q Consensus 81 ~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~~ve~~~-~~~~f~~vlD~Gl~r~t~G~RVf 159 (297)
+||++||++.|++|++||||||+|||+|+|+.||||++|+|+++++|++|+||++| +|+||+|+||+||+|||+|+|||
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 022424 160 GALKGALDGGLDIPHSEKRFAGFSKDSKQLDAEVHRKYIYCGHVAAYMRTLMEDEPEKYQSHFCEYIKRGIEADNLEELY 239 (297)
Q Consensus 160 aa~KGA~DgGL~IPh~~~~fpgy~~e~k~~~ae~~~~ri~G~hVa~Ym~~L~eed~e~yk~qFS~yik~gi~~~~ie~~y 239 (297)
||||||+||||.||||+++||| |.|+|||+|++|||.||+.|++||+|++||
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 HHHHHHHhcCCCCCcCCCCCCcccccCCCCCCCHHHHHHHHHHHHHHHhhccC
Q 022424 240 KKVHAAIRADPNQKKSEKKPPAEHKRYNLKKLTYEERKARLVERLKALNAAED 292 (297)
Q Consensus 240 ~~~~~~I~~~p~~~~~~k~~~~~~k~~~~~Klt~~qrk~rv~~k~~~~~~~~~ 292 (297)
++||++|++||+++++++.+ +.+|+|+.+|||++||++||+||+++++.++|
T Consensus 213 ~~ahaaIra~p~~~k~~k~~-k~~k~~~~~klt~eerk~rv~~k~~~~~~~~~ 264 (264)
T KOG0875|consen 213 KKAHAAIRADPSPKKTEKAA-KESKRYNAKKLTYEERKDQVAQKVAALLGAQE 264 (264)
T ss_pred HHHHHHhhcccCcccccccc-ccchhhccccCCHHHHHHHHHHHHHHhhccCC
Confidence 99999999999999888844 46899999999999999999999999987653
No 3
>PRK08569 rpl18p 50S ribosomal protein L18P; Reviewed
Probab=100.00 E-value=8.9e-79 Score=542.61 Aligned_cols=191 Identities=45% Similarity=0.722 Sum_probs=185.2
Q ss_pred cccccccccchhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEeccccccccccc
Q 022424 11 AYFKRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEV 90 (297)
Q Consensus 11 ay~~ryqvk~rRRRegkTdY~~R~rli~qdknky~s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~ 90 (297)
|.++||||||||||||||||++|++|+.++ +||||||+||+|||||||+++++||+|||||||+||+.+||.+
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 578999999999999999999999999998 7999999999999999998777999999999999999999999
Q ss_pred CCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCc
Q 022424 91 GLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGL 170 (297)
Q Consensus 91 g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL 170 (297)
+++|++|||+||+|||+|||++ ||++ ||||+||++||+||||||+|+||+|+||
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 9998 9999999999999999999999999999
Q ss_pred cccCCCcccCCCCCCcccCCHHhhhcccccccHHHHHHHhcccChHHHHhhHHHHHHcCCCcchHHHHHHHHHHHHhcCC
Q 022424 171 DIPHSEKRFAGFSKDSKQLDAEVHRKYIYCGHVAAYMRTLMEDEPEKYQSHFCEYIKRGIEADNLEELYKKVHAAIRADP 250 (297)
Q Consensus 171 ~IPh~~~~fpgy~~e~k~~~ae~~~~ri~G~hVa~Ym~~L~eed~e~yk~qFS~yik~gi~~~~ie~~y~~~~~~I~~~p 250 (297)
+||||+++|||+ +||+|+|||+||+.|+||| |++|||+||++||+|++||+||++||++|++..
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=1.8e-39 Score=273.17 Aligned_cols=125 Identities=41% Similarity=0.600 Sum_probs=112.8
Q ss_pred ccccccchhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCC
Q 022424 14 KRYQVKYKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLT 93 (297)
Q Consensus 14 ~ryqvk~rRRRegkTdY~~R~rli~qdknky~s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~ 93 (297)
++|++++||++++||+|+.|.+|+ + ++++||||||+||+|||||||++...||.+++|+.+.||.++||+.+++
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 4789999999999999999999975555555555555666799998999
Q ss_pred cHHHHHHHHHHHHHHHHhhhcccccccCcccccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccc
Q 022424 94 NYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (297)
Q Consensus 94 N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~I 172 (297)
|++|||+||+|||+||+++ ||++ ||||+|++.|| |||||+++||+|+||+|
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 9998 99999999999 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=1.4e-37 Score=250.59 Aligned_cols=93 Identities=63% Similarity=0.983 Sum_probs=86.0
Q ss_pred HHhhhcccccccHHHHHHHhcccChHHHHhhHHHHHHcCCCcchHHHHHHHHHHHHhcCCCCCcCCCC-CCcccccCCCC
Q 022424 191 AEVHRKYIYCGHVAAYMRTLMEDEPEKYQSHFCEYIKRGIEADNLEELYKKVHAAIRADPNQKKSEKK-PPAEHKRYNLK 269 (297)
Q Consensus 191 ae~~~~ri~G~hVa~Ym~~L~eed~e~yk~qFS~yik~gi~~~~ie~~y~~~~~~I~~~p~~~~~~k~-~~~~~k~~~~~ 269 (297)
||+|++||||+|||+||+.|+|||||+|++|||+||++||+|++||+||++||++||+||++++++++ ++..+|+|+++
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 79999999999999999999999999999999999999999999999999999999999999887754 44457999999
Q ss_pred CCCHHHHHHHHHHH
Q 022424 270 KLTYEERKARLVER 283 (297)
Q Consensus 270 Klt~~qrk~rv~~k 283 (297)
|||++||++||+||
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=5.9e-32 Score=224.88 Aligned_cols=118 Identities=37% Similarity=0.445 Sum_probs=100.6
Q ss_pred chhhccCchhHHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHH
Q 022424 20 YKRRREGKTDYRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAY 99 (297)
Q Consensus 20 ~rRRRegkTdY~~R~rli~qdknky~s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy 99 (297)
++++|+.||+|..|+.+.. +++|||+|++||+|||||||++...|+.++||+.+.+|+.+||+.+++|++|||
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 5666777777777776655 448999999999999999999975565556666666777889999999999999
Q ss_pred HHHHHHHHHHHhhhcccccccCcccccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccc
Q 022424 100 CTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (297)
Q Consensus 100 ~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~I 172 (297)
+||+|||+|++++ ||.. ++||+|.++|| |||+|+++||+|+||+|
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 9987 99999999998 69999999999999986
No 7
>CHL00139 rpl18 ribosomal protein L18; Validated
Probab=99.96 E-value=8e-31 Score=216.27 Aligned_cols=97 Identities=26% Similarity=0.251 Sum_probs=91.2
Q ss_pred CCcceEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccc
Q 022424 46 TPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEA 125 (297)
Q Consensus 46 s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~ 125 (297)
+.+|||+|++||+|||||||++ ..| +|||||||.|+..++|..+++|++||++||++||+|++++ ||++
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 9999999999998898888999999999999999999999 9998
Q ss_pred cCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccc
Q 022424 126 TGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (297)
Q Consensus 126 ~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~I 172 (297)
|+||+|+++|| |||+|+++||+|+||+.
T Consensus 82 -----------------vvfDrgg~~yh--GrV~a~a~~are~GL~f 109 (109)
T CHL00139 82 -----------------VVFDRGGKLYH--GRIKALAEAAREAGLQF 109 (109)
T ss_pred -----------------EEEcCCCCccc--hHHHHHHHHHHHhCCCC
Confidence 99999999999 79999999999999973
No 8
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=99.96 E-value=4.5e-30 Score=214.10 Aligned_cols=107 Identities=31% Similarity=0.292 Sum_probs=95.9
Q ss_pred HHHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEeccccc-ccccccCCCcHHHHHHHHHHHHHH
Q 022424 30 YRARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELP-RYGLEVGLTNYAAAYCTGLLLARR 108 (297)
Q Consensus 30 Y~~R~rli~qdknky~s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~-~~g~k~g~~N~~AAy~tGlLlA~R 108 (297)
.+.|.|..+.++ +.+|||+|++||+|||||||++ ++++|||||||.|+. +++|+ ++|++|||+||++||+|
T Consensus 10 r~~r~r~ki~g~----~~rpRL~V~~SnkhiyAQvidd--~~~~tl~saST~e~~~k~~~~--~~n~~aa~~vG~~la~r 81 (117)
T PRK05593 10 RHRRVRKKISGT----AERPRLSVFRSNRHIYAQVIDD--VKGKTLASASTLEKDVRAGLK--GGNKEAAKKVGKLIAER 81 (117)
T ss_pred HHHHHHHHhcCC----CCCCEEEEEEeCCeEEEEEEEC--CCCEEEEEEecCcHhHhcccc--CCCHHHHHHHHHHHHHH
Confidence 445555555664 6699999999999999999987 588999999999998 57786 78999999999999999
Q ss_pred HHhhhcccccccCcccccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccc
Q 022424 109 VLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (297)
Q Consensus 109 al~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~I 172 (297)
++++ ||++ ++||+|+++|| |||+|+++||+|+||++
T Consensus 82 a~~~--------gi~~------------------vvfDrg~~~yh--GrV~a~a~~are~Gl~f 117 (117)
T PRK05593 82 AKAK--------GIKQ------------------VVFDRGGYKYH--GRVKALADAAREAGLKF 117 (117)
T ss_pred HHHC--------CCCE------------------EEEcCCCCccc--HHHHHHHHHHHHhCCCC
Confidence 9999 9998 99999999997 79999999999999974
No 9
>TIGR00060 L18_bact ribosomal protein L18, bacterial type. The archaeal and eukaryotic type rpL18 is not detectable under this model.
Probab=99.96 E-value=3.9e-29 Score=207.85 Aligned_cols=106 Identities=31% Similarity=0.307 Sum_probs=91.5
Q ss_pred HHHHHHHHhCCCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHH
Q 022424 31 RARIRLINQDKNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVL 110 (297)
Q Consensus 31 ~~R~rli~qdknky~s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral 110 (297)
+.|.+-.+.++..| .+|||+|++||+||||||||+ ++|+|||||||.|+. ++ +++|++|||+||++||++++
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 34555555554111 489999999999999999987 588999999999986 32 67899999999999999999
Q ss_pred hhhcccccccCcccccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccc
Q 022424 111 KMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (297)
Q Consensus 111 ~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~I 172 (297)
++ ||++ |+||+|+++|| |||+|+++||+|+||++
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 9998 99999999998 69999999999999974
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=2.2e-28 Score=197.59 Aligned_cols=95 Identities=43% Similarity=0.501 Sum_probs=90.3
Q ss_pred CCcceEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccc
Q 022424 46 TPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEA 125 (297)
Q Consensus 46 s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~ 125 (297)
.++|||+|++||+|||||||++. +|+|||||||+|++.+++..+++|++|||+||.+||+|++++ |+++
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 889999999999998888788999999999999999999999 9988
Q ss_pred cCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCc
Q 022424 126 TGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGL 170 (297)
Q Consensus 126 ~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL 170 (297)
++||+|++++| |||+|+++|++|+||
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=3.8e-25 Score=199.03 Aligned_cols=96 Identities=23% Similarity=0.199 Sum_probs=85.6
Q ss_pred CcceEEEEecCCcEEEEEEeeccCCCEEEEEEeccccccccccc------------CCCcHHHHHHHHHHHHHHHHhhhc
Q 022424 47 PKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEV------------GLTNYAAAYCTGLLLARRVLKMLE 114 (297)
Q Consensus 47 ~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~------------g~~N~~AAy~tGlLlA~Ral~k~~ 114 (297)
-+|||+|++||+|||||||||. ..+|||||||.+....+... .++|++||+.+|.+||++|+++
T Consensus 104 rrPRLsV~RSnkHIYAQIIDD~--~~~TLasaSTlek~l~~~~~~~~~~~~n~~~~~g~nieaA~~VGk~IAerAl~k-- 179 (211)
T PTZ00032 104 RRPRLTLKNTNNQMYATIVDDY--TRHVLCFSCTNFKYLSHIFGTYPTKTTNRVRNNGGTIKAAYELGKLIGRKALSK-- 179 (211)
T ss_pred CcceEEEEecCCeEEEEEEECC--CCCEEEEecCCCHHHHhhhcccccccccccccCCCcHHHHHHHHHHHHHHHHHC--
Confidence 4799999999999999999984 55999999999876433211 4689999999999999999999
Q ss_pred ccccccCcccccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccc
Q 022424 115 MDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (297)
Q Consensus 115 l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~I 172 (297)
||++ |+||+|+++|| |||.|+++|||++||..
T Consensus 180 ------GI~k------------------VvFDRgGy~YH--GRVkALAdaARe~GLkF 211 (211)
T PTZ00032 180 ------GISK------------------VRFDRAHYKYA--GKVEALAEGARAVGLQF 211 (211)
T ss_pred ------CCCE------------------EEEeCCCCeeh--hHHHHHHHHHHHcCCCC
Confidence 9998 99999999999 69999999999999963
No 12
>PTZ00090 40S ribosomal protein S11; Provisional
Probab=96.10 E-value=0.023 Score=53.02 Aligned_cols=100 Identities=16% Similarity=0.281 Sum_probs=74.1
Q ss_pred CCcceEEEEecCCcEEEEEEeeccCCCE-EEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCccc
Q 022424 46 TPKYRFVVRFTNKDITAQIISASIAGDI-VLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVE 124 (297)
Q Consensus 46 s~KpRLvVrrTNkhI~aQII~~~~~GD~-tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e 124 (297)
+.+.++||.-|-+++++||+|. .|.. ||+-+|+-.....|-+.+ ---||+.++.-+|+.+++. |+..
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 5865 788888776654444322 3447899999999999999 9976
Q ss_pred ccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCcc---------ccCC---CcccC
Q 022424 125 ATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD---------IPHS---EKRFA 180 (297)
Q Consensus 125 ~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~---------IPh~---~~~fp 180 (297)
+||=+... |+ .-+|+++....||. |||+ --|-|
T Consensus 184 --------------------V~V~vKGp--Gg-REtALRaL~~~GLkIt~I~DvTpiPHNG~NGCRPp 228 (233)
T PTZ00090 184 --------------------VDIKFRRI--MR-VETVLQAFYANGLQVTQIIHEPRLPKCGLNAVKPR 228 (233)
T ss_pred --------------------EEEEEeCC--Ch-HHHHHHHHHHCCCEEEEEEECCCCCcCCCCCCCCC
Confidence 23333333 33 57889999999997 5883 36655
No 13
>KOG3333 consensus Mitochondrial/chloroplast ribosomal protein L18 [Translation, ribosomal structure and biogenesis]
Probab=95.96 E-value=0.017 Score=51.64 Aligned_cols=66 Identities=23% Similarity=0.130 Sum_probs=55.1
Q ss_pred cceEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCccc
Q 022424 48 KYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVE 124 (297)
Q Consensus 48 KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e 124 (297)
=+||-|-+|..|+-.-+... +| .|+.||||.|.....-.-+++|+.|+--+|..||.|.|+. ||..
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 46899999999999999886 34 7888999999863322236789999999999999999999 9975
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=0.1 Score=43.11 Aligned_cols=96 Identities=23% Similarity=0.208 Sum_probs=66.7
Q ss_pred EEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCccc
Q 022424 51 FVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDY 130 (297)
Q Consensus 51 LvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~ 130 (297)
+-|+-|.+++++.+.|. .| .++++.|+-.+...|-. -....||+.++..+++++.+. |++.
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 47 88888888766543433 346688999999999999998 8875
Q ss_pred cccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCcc---------ccCCCcccCC
Q 022424 131 SVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (297)
Q Consensus 131 ~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (297)
+.++| .| .+-|| .+++++....||. |||+-.|-|.
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 12343 34 22234 3677888888986 6898877764
No 15
>PRK05309 30S ribosomal protein S11; Validated
Probab=94.86 E-value=0.16 Score=43.35 Aligned_cols=100 Identities=22% Similarity=0.180 Sum_probs=71.6
Q ss_pred CcceEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCccccc
Q 022424 47 PKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEAT 126 (297)
Q Consensus 47 ~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~ 126 (297)
+.--+-|+-|.+++++-+.|. .| .+|+.+|+-.+...|-. -...-||+.++.-+++.+++. |+..+
T Consensus 16 ~~gi~hI~~t~NNTiitlTd~--~G-~~~~~~S~G~~gfKg~r--K~T~~Aa~~aa~~~~~~~~~~--------gi~~v- 81 (128)
T PRK05309 16 PSGVAHIHATFNNTIVTITDR--QG-NVISWASAGGLGFKGSR--KSTPYAAQVAAEDAAKKAKEH--------GMKTV- 81 (128)
T ss_pred ceeEEEEEccCCCEEEEEEcC--CC-CEEEEEecCccEeCCCc--cCCHHHHHHHHHHHHHHHHHc--------CCcEE-
Confidence 346788999999999999996 57 67888877655444433 234558999999999999988 87651
Q ss_pred CccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCcc---------ccCCCcccCC
Q 022424 127 GEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (297)
Q Consensus 127 g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (297)
.++| .|+- =|| -+++++....||. |||+-.|-|.
T Consensus 82 ---------------~v~i-kG~G----~Gr-~~air~L~~~glkI~~I~D~TpiphNGcR~~K 124 (128)
T PRK05309 82 ---------------EVFV-KGPG----SGR-ESAIRALQAAGLEVTSIKDVTPIPHNGCRPPK 124 (128)
T ss_pred ---------------EEEE-ECCC----CcH-HHHHHHHHHCCCEEEEEEEcCCCCCCCcCcCC
Confidence 2444 4532 133 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=94.83 E-value=0.14 Score=42.43 Aligned_cols=96 Identities=22% Similarity=0.184 Sum_probs=68.2
Q ss_pred EEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCccc
Q 022424 51 FVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDY 130 (297)
Q Consensus 51 LvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~ 130 (297)
+-|+-|.+++++-+.|. .| .+++.+|+-.+...|-. ....-||+.++..+++++++. |+..+.
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 45788999999999996 47 58888887766544433 234566899999999999998 887611
Q ss_pred cccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCcc---------ccCCCcccCC
Q 022424 131 SVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (297)
Q Consensus 131 ~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (297)
++| .|+- . || -+++++....||. |||+-.|-|.
T Consensus 66 ------------v~~-kG~G---~-gr-~~~ir~l~~~glkI~~I~D~T~iphNGcR~~K 107 (108)
T TIGR03632 66 ------------VYV-KGPG---A-GR-ESAIRALQAAGLEVTSIKDVTPIPHNGCRPPK 107 (108)
T ss_pred ------------EEE-ECCC---C-cH-HHHHHHHHHCCCEEEEEEEcCCCCCCCcCCCC
Confidence 444 4432 1 33 4577888888986 6888877763
No 17
>PTZ00129 40S ribosomal protein S14; Provisional
Probab=94.04 E-value=0.25 Score=43.62 Aligned_cols=99 Identities=19% Similarity=0.152 Sum_probs=67.8
Q ss_pred eEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCC-Cc-HHHHHHHHHHHHHHHHhhhcccccccCcccccC
Q 022424 50 RFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGL-TN-YAAAYCTGLLLARRVLKMLEMDAEYEGHVEATG 127 (297)
Q Consensus 50 RLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~-~N-~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g 127 (297)
=+-|+-|-++.++.|.|. .| .+|+.+||--+...| .. .+ --||..+..-+|+++++. ||..
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 356778889999999996 57 566666665543333 22 23 337888999999999999 9886
Q ss_pred ccccccCCCCCCCceEEEee---cCCcccC--CCceEeeecccccCCcc---------ccCCCcccCC
Q 022424 128 EDYSVEPTENRRPFRALLDV---GLVKTTT--GNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (297)
Q Consensus 128 ~~~~ve~~~~~~~f~~vlD~---Gl~r~t~--G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (297)
+-+=+ |+..+.+ -|| -+++++...+||. |||+-.|-|+
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 4443332 123 3578888889986 6999999887
No 18
>CHL00041 rps11 ribosomal protein S11
Probab=93.51 E-value=0.32 Score=40.86 Aligned_cols=97 Identities=21% Similarity=0.160 Sum_probs=69.8
Q ss_pred CCCCCCCcceEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhccccccc
Q 022424 41 KNKYNTPKYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYE 120 (297)
Q Consensus 41 knky~s~KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~ 120 (297)
++|.+.+.--+-|+.|.+++++-+.|. .| .+|+.+|+-.+...|-. ....-||+.++.-+++++++.
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 445556666788999999999999996 47 68998888766544433 223568899999999999998
Q ss_pred CcccccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccc
Q 022424 121 GHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (297)
Q Consensus 121 Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~I 172 (297)
|+..+ .++| .|.- =|| -+++++....||.|
T Consensus 73 gi~~v----------------~I~i-kG~G----~Gr-~~~ir~l~~~glkI 102 (116)
T CHL00041 73 GMKRA----------------EVMI-KGPG----LGR-DTALRAIRRSGLKL 102 (116)
T ss_pred CCcEE----------------EEEE-ECCC----CcH-HHHHHHHHHCCCEE
Confidence 88762 2444 5542 144 56678888889874
No 19
>PRK09607 rps11p 30S ribosomal protein S11P; Reviewed
Probab=92.62 E-value=0.71 Score=40.00 Aligned_cols=103 Identities=16% Similarity=0.114 Sum_probs=71.1
Q ss_pred eEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCcc
Q 022424 50 RFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGED 129 (297)
Q Consensus 50 RLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~ 129 (297)
=+-|+-|-++.++-|.|. .|..||+.+|+-.....|-+. ..--||..++.-+++++++. ||+.+.
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 466788899999999996 587799988887665555432 22347899999999999998 887611
Q ss_pred ccccCCCCCCCceEEEee-cCCcccC--CCceEeeecccccCCcc---------ccCCCcccCC
Q 022424 130 YSVEPTENRRPFRALLDV-GLVKTTT--GNRVFGALKGALDGGLD---------IPHSEKRFAG 181 (297)
Q Consensus 130 ~~ve~~~~~~~f~~vlD~-Gl~r~t~--G~RVfaa~KGA~DgGL~---------IPh~~~~fpg 181 (297)
+.+== |+..+++ -|| -+++++...+||. |||+--|-|+
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 223 3477888888986 6999999887
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=84.79 E-value=4.5 Score=34.22 Aligned_cols=93 Identities=13% Similarity=0.049 Sum_probs=63.2
Q ss_pred EEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCcccccCccc
Q 022424 51 FVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDY 130 (297)
Q Consensus 51 LvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~ 130 (297)
+-|+-|-++.++-|.|. .|..||+-+|+-.....|-+. ..--||..+..-+++++++. |+..+.
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 45778889999999985 587889988887776555432 23347888899999999998 887611
Q ss_pred cccCCCCCCCceEEEe-ecCCcccC--CCceEeeecccccCCccc
Q 022424 131 SVEPTENRRPFRALLD-VGLVKTTT--GNRVFGALKGALDGGLDI 172 (297)
Q Consensus 131 ~ve~~~~~~~f~~vlD-~Gl~r~t~--G~RVfaa~KGA~DgGL~I 172 (297)
+.|= .|+..+++ -|| -+++++....||.|
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 13333331 233 35778888889874
No 21
>COG0100 RpsK Ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=77.03 E-value=10 Score=32.89 Aligned_cols=61 Identities=15% Similarity=0.028 Sum_probs=43.3
Q ss_pred EEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCccc
Q 022424 51 FVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVE 124 (297)
Q Consensus 51 LvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e 124 (297)
.-|+-|-++.++-|.|. .| .+|+.+||--+-..|-. .+.--||-..+..+|+.+++. ||++
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 45667778888888775 57 78888888777544433 234456667788888899998 8876
No 22
>KOG0408 consensus Mitochondrial/chloroplast ribosomal protein S11 [Translation, ribosomal structure and biogenesis]
Probab=72.28 E-value=14 Score=33.74 Aligned_cols=89 Identities=20% Similarity=0.184 Sum_probs=57.8
Q ss_pred cceEEEEecCCcEEEEEEeeccCCCEEEEEEeccccc-ccccccCCCcHHHHHHHHHHHHHHHHhhhcccccccCccccc
Q 022424 48 KYRFVVRFTNKDITAQIISASIAGDIVLASAYAHELP-RYGLEVGLTNYAAAYCTGLLLARRVLKMLEMDAEYEGHVEAT 126 (297)
Q Consensus 48 KpRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~-~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~ 126 (297)
-|=.-|+-|-++.++|+.|.. | .++..+|- -++ ..+-. -+|++ ||..+|-.++.++..+ |+..+-
T Consensus 79 iPi~hIraS~NNTivtVtd~k--g-~vi~~~Sc-gteGFrntr-kgT~i-AaQtaavaa~~r~v~~--------G~~~vr 144 (190)
T KOG0408|consen 79 IPIIHIRASFNNTIVTVTDVK--G-EVISWSSC-GTEGFRNTR-KGTPI-AAQTAAVAAIRRAVDQ--------GMQTVR 144 (190)
T ss_pred cceEEEEecCCCeEEEEEccC--C-cEEEEeec-ccccccccc-cCCch-hHHHHHHHHHHHHHHh--------cceEEE
Confidence 355678899999999999974 5 66665544 333 22222 23455 6678888999999999 987511
Q ss_pred CccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccc
Q 022424 127 GEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (297)
Q Consensus 127 g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~I 172 (297)
- .|=-.|+ || -++|+|.+-+||.|
T Consensus 145 -------V--------~VkGlGp------GR-msa~kgl~m~Gl~v 168 (190)
T KOG0408|consen 145 -------V--------RVKGLGP------GR-MSALKGLRMGGLLV 168 (190)
T ss_pred -------E--------EEecCCc------cH-HHHHhhhhhcceEE
Confidence 0 1111222 34 45899999999974
No 23
>PF14821 Thr_synth_N: Threonine synthase N terminus; PDB: 3V7N_A 1VB3_A 1KL7_A.
Probab=67.58 E-value=9 Score=29.84 Aligned_cols=60 Identities=25% Similarity=0.338 Sum_probs=31.7
Q ss_pred eecc-cccCCccccCCCcccCCCCCCcccCCHHhhhcccccccHHHHHHHhcccChHHHHhhHHHHHHcCCCcchHHHHH
Q 022424 161 ALKG-ALDGGLDIPHSEKRFAGFSKDSKQLDAEVHRKYIYCGHVAAYMRTLMEDEPEKYQSHFCEYIKRGIEADNLEELY 239 (297)
Q Consensus 161 a~KG-A~DgGL~IPh~~~~fpgy~~e~k~~~ae~~~~ri~G~hVa~Ym~~L~eed~e~yk~qFS~yik~gi~~~~ie~~y 239 (297)
+++| |-||||.||.. ||-.+ .+.+. .+.+.. -+|.=..-++.|+...|++++|.++-
T Consensus 18 il~GlA~DGGLyvP~~---iP~l~-------~~~l~-~l~~~s-----------y~elA~~il~~f~~~di~~~~L~~ii 75 (79)
T PF14821_consen 18 ILQGLAPDGGLYVPEE---IPKLS-------KEELE-ELKNLS-----------YAELAFEILSPFLGDDIPEEELKEII 75 (79)
T ss_dssp HHH-SBTTSB-EEESS---------------HHHHH-HHTTS------------HHHHHHHHHHHHCCCCS-HHHHHHHH
T ss_pred HHhCCCCCCeeEecCc---CCCCC-------HHHHH-HHHCCC-----------HHHHHHHHHHHHHccCCCHHHHHHHH
Confidence 4445 67999999984 77643 22111 111221 13344456778887789999998887
Q ss_pred HHH
Q 022424 240 KKV 242 (297)
Q Consensus 240 ~~~ 242 (297)
++|
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
>PRK05337 beta-hexosaminidase; Provisional
Probab=37.62 E-value=32 Score=33.69 Aligned_cols=66 Identities=24% Similarity=0.386 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHhhhcccccccCcccccCccccccCCCCCCCceEEEeecCCcccCCCceE------------eee
Q 022424 95 YAAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVF------------GAL 162 (297)
Q Consensus 95 ~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVf------------aa~ 162 (297)
.+.|+..|..+|+.+... ||.- -|--++|+.-...-.|+|-| |++
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 788999999999998887 6642 12245555411011233444 478
Q ss_pred cccccCCccccCCCcccCCCCCC
Q 022424 163 KGALDGGLDIPHSEKRFAGFSKD 185 (297)
Q Consensus 163 KGA~DgGL~IPh~~~~fpgy~~e 185 (297)
+|..++| |-..-|-|||++.+
T Consensus 153 ~Glq~~g--v~~~~KHFpG~G~~ 173 (337)
T PRK05337 153 DGMHAAG--MAATGKHFPGHGAV 173 (337)
T ss_pred HHHHHCC--CEEEecccCCCCCC
Confidence 8888888 45777899999764
No 25
>PRK10251 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex; Provisional
Probab=37.42 E-value=55 Score=30.20 Aligned_cols=62 Identities=19% Similarity=0.152 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHhhhcccccccCcccccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccc
Q 022424 96 AAAYCTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDI 172 (297)
Q Consensus 96 ~AAy~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~I 172 (297)
-+-++.|.++|++||..||.... .++.+ ++.|.-- =++=+..+|+++.+.+++- ...-||+|
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 35578899999999999887652 23211 2233211 1233677899888877764 33456666
No 26
>PF13069 DUF3933: Protein of unknown function (DUF3933)
Probab=35.25 E-value=11 Score=27.70 Aligned_cols=9 Identities=33% Similarity=0.479 Sum_probs=7.4
Q ss_pred CcEEEEEEe
Q 022424 58 KDITAQIIS 66 (297)
Q Consensus 58 khI~aQII~ 66 (297)
..+|||||+
T Consensus 3 qyvicqii~ 11 (53)
T PF13069_consen 3 QYVICQIID 11 (53)
T ss_pred eEEEEEEec
Confidence 468999987
No 27
>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=29.67 E-value=96 Score=24.40 Aligned_cols=40 Identities=20% Similarity=0.388 Sum_probs=25.9
Q ss_pred hcccChHH-HH-hhHHHH-HHcCCCcchHHHHHHHHHHHHhcC
Q 022424 210 LMEDEPEK-YQ-SHFCEY-IKRGIEADNLEELYKKVHAAIRAD 249 (297)
Q Consensus 210 L~eed~e~-yk-~qFS~y-ik~gi~~~~ie~~y~~~~~~I~~~ 249 (297)
|...||.. |+ .+||+. |+.+|.|++|-++.+++...+-.+
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 34445543 32 267774 689999999999999999998666
No 28
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=29.27 E-value=1.1e+02 Score=23.92 Aligned_cols=42 Identities=26% Similarity=0.589 Sum_probs=27.3
Q ss_pred HHHHHHh-cccChHHHHhhHHHH----------------HHcCCCcchHHHHHHHHHHHH
Q 022424 204 AAYMRTL-MEDEPEKYQSHFCEY----------------IKRGIEADNLEELYKKVHAAI 246 (297)
Q Consensus 204 a~Ym~~L-~eed~e~yk~qFS~y----------------ik~gi~~~~ie~~y~~~~~~I 246 (297)
-+|+..| ..+|+|.-+++|.+. |+.|+++++|..+. .+|+++
T Consensus 3 K~ii~~Lh~G~~~e~vk~~F~~~~~~Vs~~EI~~~Eq~Li~eG~~~eeiq~LC-dvH~~l 61 (71)
T PF04282_consen 3 KEIIKRLHEGEDPEEVKEEFKKLFSDVSASEISAAEQELIQEGMPVEEIQKLC-DVHAAL 61 (71)
T ss_pred HHHHHHHhCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCCHHHHHHHh-HHHHHH
Confidence 3566666 567888888888775 45577777776654 244444
No 29
>PRK14083 HSP90 family protein; Provisional
Probab=28.71 E-value=31 Score=36.56 Aligned_cols=49 Identities=14% Similarity=0.156 Sum_probs=36.8
Q ss_pred ccccccHHHHHHHhcccChHHHHh---hHHHHHHcCCCcchHHHHHHHHHHHHh
Q 022424 197 YIYCGHVAAYMRTLMEDEPEKYQS---HFCEYIKRGIEADNLEELYKKVHAAIR 247 (297)
Q Consensus 197 ri~G~hVa~Ym~~L~eed~e~yk~---qFS~yik~gi~~~~ie~~y~~~~~~I~ 247 (297)
+..|+-|.++.+.|.++|+++|.+ +|+.+||.|+--| .+.+++...-++
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 457889999999999999999886 8889999998644 224444444443
No 30
>PRK05218 heat shock protein 90; Provisional
Probab=26.60 E-value=55 Score=34.62 Aligned_cols=48 Identities=21% Similarity=0.301 Sum_probs=36.4
Q ss_pred ccccccHHHHHHHhcccChHHHHh---hHHHHHHcCCCcchHHHHHHHHHHHH
Q 022424 197 YIYCGHVAAYMRTLMEDEPEKYQS---HFCEYIKRGIEADNLEELYKKVHAAI 246 (297)
Q Consensus 197 ri~G~hVa~Ym~~L~eed~e~yk~---qFS~yik~gi~~~~ie~~y~~~~~~I 246 (297)
..+|.-|.+++..|.++|+++|.+ +|+.+||.|+--|. +++++...-+
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 457888999999999999998876 78889999987552 3444444443
No 31
>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=26.31 E-value=2.9e+02 Score=24.76 Aligned_cols=57 Identities=16% Similarity=0.245 Sum_probs=34.5
Q ss_pred CCCCCCc-ceEEEEecCCcEEEEEEeeccCCCEEEEEEecccccccccccCCCcHHHHHHHHHHHHHHHHhhhccc
Q 022424 42 NKYNTPK-YRFVVRFTNKDITAQIISASIAGDIVLASAYAHELPRYGLEVGLTNYAAAYCTGLLLARRVLKMLEMD 116 (297)
Q Consensus 42 nky~s~K-pRLvVrrTNkhI~aQII~~~~~GD~tLasAsS~EL~~~g~k~g~~N~~AAy~tGlLlA~Ral~k~~l~ 116 (297)
.-||..+ |=|++|..+-...+-|..+ | +++|+ |.++.+.|......+++.+. ++|.+
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 4788877 4477777666666666553 6 66663 33455666666666666654 44433
No 32
>PRK10713 2Fe-2S ferredoxin YfaE; Provisional
Probab=25.53 E-value=27 Score=27.09 Aligned_cols=16 Identities=6% Similarity=-0.049 Sum_probs=14.0
Q ss_pred eecccccCCccccCCC
Q 022424 161 ALKGALDGGLDIPHSE 176 (297)
Q Consensus 161 a~KGA~DgGL~IPh~~ 176 (297)
+|..|.+.|+.||||=
T Consensus 22 lL~a~~~~gi~~p~~C 37 (84)
T PRK10713 22 LLAALESHNVAVEYQC 37 (84)
T ss_pred HHHHHHHcCCCCCCCC
Confidence 6778999999999984
No 33
>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=22.58 E-value=1.1e+02 Score=26.40 Aligned_cols=43 Identities=16% Similarity=0.393 Sum_probs=35.5
Q ss_pred ccccHHHHHHHhcccCh---HHHHhhHHHHHHcCCCcchHHHHHHHH
Q 022424 199 YCGHVAAYMRTLMEDEP---EKYQSHFCEYIKRGIEADNLEELYKKV 242 (297)
Q Consensus 199 ~G~hVa~Ym~~L~eed~---e~yk~qFS~yik~gi~~~~ie~~y~~~ 242 (297)
.-.|+.+|++.|. .|+ +++.+-|..||...|+.+.|=.++..+
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 677888999999999999998888755
No 34
>COG2977 EntD Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.42 E-value=1.6e+02 Score=28.02 Aligned_cols=29 Identities=24% Similarity=0.228 Sum_probs=21.9
Q ss_pred cHHHHHHHHHHHHHHHHhhhcccccccCcc
Q 022424 94 NYAAAYCTGLLLARRVLKMLEMDAEYEGHV 123 (297)
Q Consensus 94 N~~AAy~tGlLlA~Ral~k~~l~~~y~Gi~ 123 (297)
.--|.++.|..+|+.||..+| ...+-+..
T Consensus 50 KRkaEflAgR~cA~~AL~~lg-~~~~Pi~~ 78 (228)
T COG2977 50 KRKAEFLAGRICARQALRELG-VADVPILR 78 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHhC-CCCCCccc
Confidence 345677999999999999998 55454553
No 35
>PF00452 Bcl-2: Apoptosis regulator proteins, Bcl-2 family; InterPro: IPR000712 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Active cell suicide (apoptosis) is induced by events such as growth factor withdrawal and toxins. It is controlled by regulators, which have either an inhibitory effect on programmed cell death (anti-apoptotic) or block the protective effect of inhibitors (pro-apoptotic) [, ]. Many viruses have found a way of countering defensive apoptosis by encoding their own anti-apoptosis genes preventing their target-cells from dying too soon. All proteins belonging to the Bcl-2 family [] contain either a BH1, BH2, BH3, or BH4 domain. All anti-apoptotic proteins contain BH1 and BH2 domains, some of them contain an additional N-terminal BH4 domain (Bcl-2, Bcl-x(L), Bcl-w), which is never seen in pro-apoptotic proteins, except for Bcl-x(S). On the other hand, all pro-apoptotic proteins contain a BH3 domain (except for Bad) necessary for dimerisation with other proteins of Bcl-2 family and crucial for their killing activity, some of them also contain BH1 and BH2 domains (Bax, Bak). The BH3 domain is also present in some anti-apoptotic protein, such as Bcl-2 or Bcl-x(L). Proteins that are known to contain these domains include vertebrate Bcl-2 (alpha and beta isoforms) and Bcl-x (isoforms (Bcl-x(L) and Bcl-x(S)); mammalian proteins Bax and Bak; mouse protein Bid; Xenopus laevis proteins Xr1 and Xr11; human induced myeloid leukemia cell differentiation protein MCL1 and Caenorhabditis elegans protein ced-9.; GO: 0042981 regulation of apoptosis; PDB: 2WH6_A 1K3K_A 1AF3_A 3PK1_B 2K7W_A 1F16_A 3PL7_C 2VM6_A 3I1H_A 3MQP_A ....
Probab=21.72 E-value=1.6e+02 Score=22.88 Aligned_cols=41 Identities=22% Similarity=0.419 Sum_probs=32.7
Q ss_pred hcccChHHHHhhHHHHHHc-CC-CcchHHHHHHHHHHHHhcCC
Q 022424 210 LMEDEPEKYQSHFCEYIKR-GI-EADNLEELYKKVHAAIRADP 250 (297)
Q Consensus 210 L~eed~e~yk~qFS~yik~-gi-~~~~ie~~y~~~~~~I~~~p 250 (297)
+-+|=+..|...|++.+.. .+ +|++..+.|.++-+.|-+|+
T Consensus 4 i~~~~e~~~~~~f~~~~~~l~~~~~~~~~~~f~~v~~~lf~d~ 46 (101)
T PF00452_consen 4 IADELERKYEDFFENMLNQLNINTPDNAYETFNEVAEELFEDG 46 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCSSSTTTHHHHHHHHHHHHTTTS
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHhccC
Confidence 3334467888899998884 56 78889999999999999883
No 36
>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=21.58 E-value=1.3e+02 Score=24.28 Aligned_cols=46 Identities=11% Similarity=0.255 Sum_probs=32.4
Q ss_pred cccHHHHHHH--hcccChHHHHhhHHHHHH----cCCCcchHHHHHHHHHHH
Q 022424 200 CGHVAAYMRT--LMEDEPEKYQSHFCEYIK----RGIEADNLEELYKKVHAA 245 (297)
Q Consensus 200 G~hVa~Ym~~--L~eed~e~yk~qFS~yik----~gi~~~~ie~~y~~~~~~ 245 (297)
...|+.|-.. +.=-||+.-...+.++.. .|++|+-++.+|+.+|+.
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 222478888888888765 499999999999999864
No 37
>PF13450 NAD_binding_8: NAD(P)-binding Rossmann-like domain; PDB: 3KA7_A 1V0J_D 3INR_B 3KYB_B 3GF4_A 2BI8_A 3INT_B 1WAM_A 2BI7_A 3MJ4_G ....
Probab=21.21 E-value=2.7e+02 Score=20.56 Aligned_cols=49 Identities=18% Similarity=0.159 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhhhcccccccCcccccCccccccCCCCCCCceEEEeecCCcccCCCceEeeecccccCCccccCCCccc
Q 022424 100 CTGLLLARRVLKMLEMDAEYEGHVEATGEDYSVEPTENRRPFRALLDVGLVKTTTGNRVFGALKGALDGGLDIPHSEKRF 179 (297)
Q Consensus 100 ~tGlLlA~Ral~k~~l~~~y~Gi~e~~g~~~~ve~~~~~~~f~~vlD~Gl~r~t~G~RVfaa~KGA~DgGL~IPh~~~~f 179 (297)
+.|+.+|..+.+. |.+= .|||.. .+-||++...-. .|..++++...|
T Consensus 6 ~sGl~aA~~L~~~--------g~~v------------------~v~E~~---~~~GG~~~~~~~----~g~~~d~g~~~~ 52 (68)
T PF13450_consen 6 ISGLAAAYYLAKA--------GYRV------------------TVFEKN---DRLGGRARSFRI----PGYRFDLGAHYF 52 (68)
T ss_dssp HHHHHHHHHHHHT--------TSEE------------------EEEESS---SSSSGGGCEEEE----TTEEEETSS-SE
T ss_pred HHHHHHHHHHHHC--------CCcE------------------EEEecC---cccCcceeEEEE----CCEEEeeccEEE
Confidence 4588888888777 7653 788855 233455544433 568888888777
Q ss_pred CC
Q 022424 180 AG 181 (297)
Q Consensus 180 pg 181 (297)
.+
T Consensus 53 ~~ 54 (68)
T PF13450_consen 53 FP 54 (68)
T ss_dssp EE
T ss_pred eC
Confidence 65
Done!