Query gi|254780147|ref|YP_003064560.1| 50S ribosomal protein L11 [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 142
No_of_seqs 113 out of 1395
Neff 5.5
Searched_HMMs 39220
Date Sun May 22 16:02:51 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780147.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01632 L11_bact ribosomal p 100.0 0 0 427.8 12.1 140 3-142 1-144 (144)
2 PRK00140 rplK 50S ribosomal pr 100.0 0 0 381.9 16.0 142 1-142 1-142 (142)
3 CHL00127 rpl11 ribosomal prote 100.0 0 0 372.8 15.1 140 1-141 1-140 (140)
4 COG0080 RplK Ribosomal protein 100.0 0 0 361.7 14.0 140 2-142 1-140 (141)
5 PRK01143 rpl11p 50S ribosomal 100.0 0 0 356.0 14.5 135 7-142 3-138 (163)
6 smart00649 RL11 Ribosomal prot 100.0 0 0 351.4 13.9 132 9-141 1-132 (132)
7 cd00349 Ribosomal_L11 Ribosoma 100.0 0 0 344.1 13.5 131 9-140 1-131 (131)
8 KOG3257 consensus 100.0 0 0 312.8 11.6 137 5-141 18-156 (168)
9 PTZ00105 60S ribosomal protein 100.0 0 0 298.9 14.5 134 6-142 10-145 (164)
10 KOG0886 consensus 99.9 1E-25 2.6E-30 172.7 8.5 133 6-141 12-146 (167)
11 pfam00298 Ribosomal_L11 Riboso 99.9 1.5E-24 3.9E-29 165.7 7.1 69 72-140 1-69 (69)
12 PTZ00321 ribosomal protein L11 99.9 7.3E-24 1.9E-28 161.7 6.1 139 3-141 47-192 (342)
13 pfam03946 Ribosomal_L11_N Ribo 99.9 2.9E-23 7.4E-28 158.2 5.5 59 8-67 1-59 (59)
14 TIGR01169 rplA_bact ribosomal 77.7 0.82 2.1E-05 25.7 0.7 31 23-53 124-158 (227)
15 pfam00687 Ribosomal_L1 Ribosom 60.3 7.3 0.00019 20.1 2.4 17 66-82 92-108 (203)
16 PRK05424 rplA 50S ribosomal pr 57.6 10 0.00025 19.3 2.7 17 66-82 110-126 (232)
17 COG0081 RplA Ribosomal protein 57.3 11 0.00027 19.2 2.8 47 23-72 127-177 (228)
18 pfam00416 Ribosomal_S13 Riboso 54.6 19 0.00048 17.7 3.8 58 73-136 24-81 (106)
19 CHL00129 rpl1 ribosomal protei 49.2 19 0.0005 17.6 3.1 17 66-82 109-125 (229)
20 TIGR01122 ilvE_I branched-chai 43.4 21 0.00054 17.4 2.6 13 100-112 213-226 (302)
21 COG4953 PbpC Membrane carboxyp 37.8 20 0.00051 17.6 1.7 73 10-88 418-490 (733)
22 TIGR03631 bact_S13 30S ribosom 35.2 39 0.001 15.8 3.7 53 73-131 24-77 (113)
23 PTZ00225 60S ribosomal protein 34.4 29 0.00074 16.6 2.1 11 24-34 121-131 (214)
24 KOG0455 consensus 32.1 41 0.0011 15.7 2.6 40 99-141 193-239 (364)
25 CHL00137 rps13 ribosomal prote 31.3 46 0.0012 15.4 4.1 64 68-138 22-86 (122)
26 pfam09175 DUF1944 Domain of un 28.1 52 0.0013 15.1 4.1 54 24-79 105-158 (165)
27 TIGR01933 hflK HflK protein; I 24.5 29 0.00073 16.6 0.7 79 53-142 83-161 (285)
28 PTZ00134 40S ribosomal protein 24.2 62 0.0016 14.7 3.7 41 67-114 34-74 (154)
29 cd02395 SF1_like-KH Splicing f 24.1 57 0.0015 14.9 2.2 93 10-112 3-115 (120)
30 pfam08634 Pet127 Mitochondrial 23.7 63 0.0016 14.6 2.3 55 31-85 43-99 (274)
31 pfam09687 P_fal_TIGR01639 Prot 23.2 61 0.0016 14.7 2.2 38 98-135 7-44 (61)
32 KOG0967 consensus 23.2 65 0.0016 14.6 3.4 70 17-86 337-415 (714)
33 TIGR02909 spore_YkwD uncharact 22.9 52 0.0013 15.1 1.7 17 104-120 28-44 (129)
34 cd04902 ACT_3PGDH-xct C-termin 22.7 51 0.0013 15.2 1.7 16 23-38 15-30 (73)
35 COG0051 RpsJ Ribosomal protein 21.2 11 0.00029 19.0 -1.9 29 35-63 18-50 (104)
No 1
>TIGR01632 L11_bact ribosomal protein L11; InterPro: IPR006519 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 of 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 L11 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L11 is known to bind directly to the 23S rRNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities , groups bacterial, chloroplast, cyanelle, and most mitochondrial forms of ribosomal protein L11. L11 is a protein of 140 to 165 amino-acid residues. In E. coli, the C-terminal half of L11 has been shown to be in an extended and loosely folded conformation and is likely to be buried within the ribosomal structure. This entry represents the bacterial, chloroplast and mitochondrial forms. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome.
Probab=100.00 E-value=0 Score=427.85 Aligned_cols=140 Identities=55% Similarity=0.955 Sum_probs=138.6
Q ss_pred CCEEEEEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHHHH
Q ss_conf 42368999999445566897044686642999899999999997754379751389998389529999859748999996
Q gi|254780147|r 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFLKK 82 (142)
Q Consensus 3 k~v~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~likk 82 (142)
|+|.++|||+|+||+|+|+||+||+|||+|||+|+||||||++|++|+.|++|||.||||+||||+|++++||+||||||
T Consensus 1 K~i~~~IKL~~~AG~A~PsPPvGPALG~~GvNim~FCK~FNarT~~~~~G~~~PV~ITvY~DkSF~F~~KtPPvs~lLKK 80 (144)
T TIGR01632 1 KKIVGIIKLQVPAGQANPSPPVGPALGQRGVNIMEFCKEFNARTKDYEKGLPLPVVITVYEDKSFTFIVKTPPVSVLLKK 80 (144)
T ss_pred CCEEEEEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCEEEEEECCCCHHHHHHH
T ss_conf 94168898730043568532887031025788655567899861268899733448888538405888448876899999
Q ss_pred HCCCCCCCCCCCCC--EEEEECHHHHHHHHHHHHHH--CCCCCHHHHHHHHHHHEEECCEEEEC
Q ss_conf 33766678899963--01012599999999998854--06787899999977430214528939
Q gi|254780147|r 83 EVGIKSGSKLPGKE--SCGSITRENIRKIAQLKMQD--MGAIDIEGAMRMVEGSACSMGISVVD 142 (142)
Q Consensus 83 ~~g~~kgs~~p~~~--~~g~it~~~i~eIAk~K~~d--~~~~~l~~~vk~VlGTa~SmGi~V~~ 142 (142)
++|+++||++|+++ .||.||++||+|||+.|+.| ||+.++|+++|+|.||||||||+||+
T Consensus 81 a~G~ekGS~~P~~~~m~VG~it~~q~~eIA~~K~~D~~ln~~~~EaA~k~I~GtAkSMGi~v~~ 144 (144)
T TIGR01632 81 AAGIEKGSKNPKKETMKVGKITRKQVREIAEIKMSDERLNTKDLEAAMKIIAGTAKSMGIEVVG 144 (144)
T ss_pred HHCCHHCCCCCCCEEEEEEEECHHHHHHHHHHHCCCCCCCHHCHHHHHHHHCCCCCCCCEEECC
T ss_conf 8321000278997058872012788899998616898888102553154300000218615259
No 2
>PRK00140 rplK 50S ribosomal protein L11; Validated
Probab=100.00 E-value=0 Score=381.87 Aligned_cols=142 Identities=58% Similarity=0.936 Sum_probs=140.2
Q ss_pred CCCCEEEEEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHH
Q ss_conf 98423689999994455668970446866429998999999999977543797513899983895299998597489999
Q gi|254780147|r 1 MAKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFL 80 (142)
Q Consensus 1 M~k~v~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~li 80 (142)
|+|++++++||+|+||+|+|+|||||+|||+|||||+||++||++|+++..|++|||+|++|+||||+|++++||+||||
T Consensus 1 MaKkv~~~ikl~i~aG~A~p~PPvGpaLG~~GiNi~~F~k~fN~~T~~~~~g~~vpV~Itv~~Dksf~f~iktPp~s~ll 80 (142)
T PRK00140 1 MAKKVVGYIKLQIPAGKANPSPPVGPALGQRGVNIMEFCKAFNARTQDQEKGLPIPVVITVYADRSFTFITKTPPASVLL 80 (142)
T ss_pred CCCCEEEEEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCEEEEEECCCCHHHHH
T ss_conf 98431279999974577789999873113469899999999999886157998075899993897199998188668999
Q ss_pred HHHCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEECCEEEEC
Q ss_conf 96337666788999630101259999999999885406787899999977430214528939
Q gi|254780147|r 81 KKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISVVD 142 (142)
Q Consensus 81 kk~~g~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~SmGi~V~~ 142 (142)
++++|+++||++|+++++|+||++|+||||+.|++||++.+|+++||+|+||||||||+||-
T Consensus 81 kkaagi~kGs~~p~~~~vg~it~~qv~eIAk~K~~dl~~~~l~~a~k~v~GTArSMGI~VeG 142 (142)
T PRK00140 81 KKAAGIEKGSGEPNKEKVGKITRAQVREIAETKMPDLNAADIEAAMRMIEGTARSMGIEVEG 142 (142)
T ss_pred HHHHCCCCCCCCCCCEEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCEEEEEC
T ss_conf 99867665778999827655419999999999876518889999999988237205579869
No 3
>CHL00127 rpl11 ribosomal protein L11; Validated
Probab=100.00 E-value=0 Score=372.78 Aligned_cols=140 Identities=46% Similarity=0.819 Sum_probs=138.2
Q ss_pred CCCCEEEEEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHH
Q ss_conf 98423689999994455668970446866429998999999999977543797513899983895299998597489999
Q gi|254780147|r 1 MAKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFL 80 (142)
Q Consensus 1 M~k~v~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~li 80 (142)
|+|+++++|||+++||+|+|+|||||+|||+|||+|+||++||++|+++ .|++|||+|+||+||||+|++++||+||||
T Consensus 1 MaKkv~~~ikl~v~aG~A~p~PPvGpaLG~~GvNi~~Fck~fN~~T~~~-~G~~vpV~Itv~~Drsf~~~ik~Pp~s~ll 79 (140)
T CHL00127 1 MAKKKLAIIKLALPAGKATPAPPVGPALGQHGVNINLFCKEYNARTADK-NGLIIPVEIIVYEDKSYTFILKTPPASVLL 79 (140)
T ss_pred CCCCEEEEEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHC-CCCEEEEEEEEECCCCEEEEEECCCHHHHH
T ss_conf 9842357999985167778999986311346979999999999987444-898255899997699689999388679999
Q ss_pred HHHCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEECCEEEE
Q ss_conf 9633766678899963010125999999999988540678789999997743021452893
Q gi|254780147|r 81 KKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISVV 141 (142)
Q Consensus 81 kk~~g~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~SmGi~V~ 141 (142)
++++|+++||++|+++++|+||++|+||||+.|++||++.+++++||+|+||||||||+||
T Consensus 80 kkaagi~kGs~~p~~~~vg~it~~qi~eIAk~K~~dl~~~~l~~a~k~v~GtarSMGI~Ve 140 (140)
T CHL00127 80 AKAAGITKGSGVPNKKKVGSITIKQLEEIAKIKLPDLNTISIKKAMKIIEGTAKNMGISIK 140 (140)
T ss_pred HHHHCCCCCCCCCCCEEEEEECHHHHHHHHHHHHHHHCCCCHHHHHHHHHEEHEECEEEEC
T ss_conf 9986243367799980776525999999999865541788899998962334602648959
No 4
>COG0080 RplK Ribosomal protein L11 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=0 Score=361.69 Aligned_cols=140 Identities=50% Similarity=0.870 Sum_probs=136.5
Q ss_pred CCCEEEEEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHHH
Q ss_conf 84236899999944556689704468664299989999999999775437975138999838952999985974899999
Q gi|254780147|r 2 AKVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFLK 81 (142)
Q Consensus 2 ~k~v~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~lik 81 (142)
+++++++|+|+++||+|+|+|||||+|||+|||+|+||++||++|++++ |++|||+|+||+||+|+|++++||+|+||+
T Consensus 1 a~k~~~~ikl~v~aGkA~p~PpvGPALG~~Gvni~~f~k~fN~~T~~~~-G~~vPV~Itv~~drsftf~vktPPas~Llk 79 (141)
T COG0080 1 AKKVVKIIKLQVPAGKANPSPPVGPALGQLGVNIMEFCKEFNAATKDEK-GLPVPVVITVYEDRSFTFIVKTPPASALLK 79 (141)
T ss_pred CCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCC-CCEEEEEEEEECCCCEEEEECCCCHHHHHH
T ss_conf 9762169999832665689999874312348788999999999841369-984417999974872799977998799999
Q ss_pred HHCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEECCEEEEC
Q ss_conf 6337666788999630101259999999999885406787899999977430214528939
Q gi|254780147|r 82 KEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISVVD 142 (142)
Q Consensus 82 k~~g~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~SmGi~V~~ 142 (142)
+++|+++||++|+++++|+||++|++|||+.|++||+++++++++|+|+||||||||+||+
T Consensus 80 Ka~g~~~Gs~~p~k~~vG~lt~~qv~eIA~~K~~dl~a~~l~aA~k~I~GTa~SMGv~Veg 140 (141)
T COG0080 80 KAAGIEKGSGKPNKNKVGKLTLAQVREIAKTKMPDLNAKDLEAAVKEILGTARSMGVTVEG 140 (141)
T ss_pred HHHCCCCCCCCCCCCEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCEEEEEC
T ss_conf 9868998899977543510429999999998643012677999999986124324478636
No 5
>PRK01143 rpl11p 50S ribosomal protein L11P; Validated
Probab=100.00 E-value=0 Score=355.99 Aligned_cols=135 Identities=36% Similarity=0.676 Sum_probs=132.3
Q ss_pred EEEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECC-CEEEEEECCCCHHHHHHHHCC
Q ss_conf 8999999445566897044686642999899999999997754379751389998389-529999859748999996337
Q gi|254780147|r 7 RIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKD-KSFTFTMSQPPVSFFLKKEVG 85 (142)
Q Consensus 7 ~~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~d-ksf~~~i~~P~~s~likk~~g 85 (142)
++|||+|+||+|+|+|||||+|||+|||+|+||++||++|++|+ |++|||+|++|.| |+|+|.+++||+||||++++|
T Consensus 3 kvikl~v~aG~A~P~PplGpaLG~~Gvni~~f~k~fN~~T~~~~-G~~Vpv~Itv~~d~rsf~~~v~~Pp~s~llkkaag 81 (163)
T PRK01143 3 KTIEVLVEGGKATPGPPLGPALGPLGLNVQQVVKEINEKTKDFK-GMQVPVKIIVDPDTKKFEIEVGVPPTTALLKKELG 81 (163)
T ss_pred EEEEEEECCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC-CCCCCEEEEEECCCCEEEEEECCCCHHHHHHHHHC
T ss_conf 18999822676589998751014679898999999999987536-98442599994589779999748975899999857
Q ss_pred CCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEECCEEEEC
Q ss_conf 666788999630101259999999999885406787899999977430214528939
Q gi|254780147|r 86 IKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISVVD 142 (142)
Q Consensus 86 ~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~SmGi~V~~ 142 (142)
+++||++|+++++|+||++|+||||+.|++||++++|+++||+|+||||||||+||.
T Consensus 82 i~kgs~~p~~~~vG~is~~qv~eIAk~K~~dl~~~~l~~a~k~V~GTarSmGi~VeG 138 (163)
T PRK01143 82 IEKGSGEPGHEKVGNLSIEQVIKIAIMKKPDLLAYDLKAAVKEVLGTCVSMGVTVEG 138 (163)
T ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCEEEEEC
T ss_conf 665566999807462379999999998573547899999999999876135489857
No 6
>smart00649 RL11 Ribosomal protein L11/L12.
Probab=100.00 E-value=0 Score=351.36 Aligned_cols=132 Identities=54% Similarity=0.935 Sum_probs=129.8
Q ss_pred EEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHHHHHCCCCC
Q ss_conf 99999445566897044686642999899999999997754379751389998389529999859748999996337666
Q gi|254780147|r 9 VKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKS 88 (142)
Q Consensus 9 ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~likk~~g~~k 88 (142)
|||+++||+|+|+|||||+|||+|||+|+||+|||++|++| .|++|||+|++|+||||+|++++||+||||++++|+++
T Consensus 1 ikl~i~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~-~g~~vpv~I~v~~dksf~~~i~~Pp~s~likka~gi~k 79 (132)
T smart00649 1 IKLQIPAGKANPAPPLGPALGQLGINIMEFCKEFNARTKDK-KGLPIPVKITVYNDKSFTFIIKTPPASFLLKKAAGIEK 79 (132)
T ss_pred CEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCC-CCCEEEEEEEEECCCCEEEEEECCCHHHHHHHHHCCCC
T ss_conf 96998557637999865001568989899999999986124-89866699999769837999948976999999867756
Q ss_pred CCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEECCEEEE
Q ss_conf 78899963010125999999999988540678789999997743021452893
Q gi|254780147|r 89 GSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISVV 141 (142)
Q Consensus 89 gs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~SmGi~V~ 141 (142)
||++|+++++|+||++|+||||+.|++||++.+|+++||+|+||||||||+||
T Consensus 80 gs~~p~~~~~g~It~~qv~eIAk~K~~dl~~~~l~~~~k~V~GTarSmGi~Ve 132 (132)
T smart00649 80 GSKKPGKKKVGNITLDQVYEIAKIKRPDLNAKDLEAAVKEILGTARSMGITVE 132 (132)
T ss_pred CCCCCCCEEEEEECHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCEEEEC
T ss_conf 78899986840471999999999998775678899999998821612648939
No 7
>cd00349 Ribosomal_L11 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal protein L12, which is distinct from the L12 involved in the formation of the L7/L12 stalk. The C-terminal domain (CTD) of L11 is essential for binding 23S rRNA, while the N-terminal domain (NTD) contains the binding site for the antibiotics thiostrepton and micrococcin. L11 and 23S rRNA form an essential part of the GTPase-associated region (GAR). Based on differences in the relative positions of the L11 NTD and CTD during the translational cycle, L11 is proposed to play a significant role in the binding of initiation factors, elongation factors, and release factors to the ribosome. Several factors, including the class I release factors RF1 and RF2, are known to interact directly with L11. In eukaryotes, L11 has been im
Probab=100.00 E-value=0 Score=344.05 Aligned_cols=131 Identities=48% Similarity=0.893 Sum_probs=129.0
Q ss_pred EEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHHHHHCCCCC
Q ss_conf 99999445566897044686642999899999999997754379751389998389529999859748999996337666
Q gi|254780147|r 9 VKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKS 88 (142)
Q Consensus 9 ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~likk~~g~~k 88 (142)
+||+++||+|+|+|||||+|||+|||+|+||++||++|++|+ |++|||+|++|+||+|+|++++||+||||++++|+++
T Consensus 1 ikl~i~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~-g~~vpV~Itv~~drsf~~~v~~Pp~s~likkaag~~k 79 (131)
T cd00349 1 IKLQVPAGKASPAPPLGPALGQLGVNIMKFCKEFNARTKDYK-GLPVPVKITVYNDRSFTFEVKTPPASALLKKAAGIEK 79 (131)
T ss_pred CEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC-CCEEEEEEEEECCCCEEEEEECCCHHHHHHHHHCCCC
T ss_conf 968985576479998751014679899999999999873358-9767799999818967999937976999999856677
Q ss_pred CCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEECCEEE
Q ss_conf 7889996301012599999999998854067878999999774302145289
Q gi|254780147|r 89 GSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISV 140 (142)
Q Consensus 89 gs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~SmGi~V 140 (142)
||++|+++++|+||++|+||||+.|++|+++.+|+++||+|+||||||||+|
T Consensus 80 gs~~p~~~~~g~it~~qv~eIAk~K~~dl~~~~l~~~vk~V~GTa~SmGi~V 131 (131)
T cd00349 80 GSKKPNKEKVGNITLDQVYEIAKIKLPDLNAKTLKSAVKEILGTARSMGITV 131 (131)
T ss_pred CCCCCCCEEECEEEHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCEEC
T ss_conf 8789877474206099999999998776478889999999883361381699
No 8
>KOG3257 consensus
Probab=100.00 E-value=0 Score=312.77 Aligned_cols=137 Identities=44% Similarity=0.804 Sum_probs=133.7
Q ss_pred EEEEEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHHHHHC
Q ss_conf 36899999944556689704468664299989999999999775437975138999838952999985974899999633
Q gi|254780147|r 5 VSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFLKKEV 84 (142)
Q Consensus 5 v~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~likk~~ 84 (142)
....+||.++||.|.|+||+||+|||+|||+++||+|||++|++|++|+|+|++||+..||||+|++++||+||||++++
T Consensus 18 h~~~ikl~v~Ag~A~~~pp~gP~Lgqr~l~viafckefnarT~~~k~~vplp~kiTv~pDrsftf~iktPpts~lL~kAa 97 (168)
T KOG3257 18 HSASIKLIVKAGLAAPAPPLGPALGQRGLNVIAFCKEFNARTKKVKPGVPLPGKITVKPDRSFTFIIKTPPTSWLLKKAA 97 (168)
T ss_pred CEEEEEEEECCCCCCCCCCCCCHHHHCCHHHHHHCHHHHHHHCCCCCCCCCCEEEEECCCCEEEEEECCCCHHHHHHHHH
T ss_conf 10489986036654679998833331300697734444133315357975443676268872789964897489999876
Q ss_pred CCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCC--CCCHHHHHHHHHHHEEECCEEEE
Q ss_conf 7666788999630101259999999999885406--78789999997743021452893
Q gi|254780147|r 85 GIKSGSKLPGKESCGSITRENIRKIAQLKMQDMG--AIDIEGAMRMVEGSACSMGISVV 141 (142)
Q Consensus 85 g~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d~~--~~~l~~~vk~VlGTa~SmGi~V~ 141 (142)
|++|||..|+++.+|.||++|+||||+.|.+|.+ ..+++++||+|+|||+||||.|+
T Consensus 98 gv~KGs~~p~~~~vG~lTlkhvyeIAkiK~~D~~~q~~~lesi~rsiigtA~smGIkVv 156 (168)
T KOG3257 98 GVEKGSKDPGQEKVGMLTLKHVYEIAKIKLPDPNLQCTTLESICRSIIGTARSMGIKVV 156 (168)
T ss_pred CCCCCCCCCCCEEEEEEEHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCC
T ss_conf 74657899765044467799999999753689543543199999999988873761205
No 9
>PTZ00105 60S ribosomal protein L12; Provisional
Probab=100.00 E-value=0 Score=298.88 Aligned_cols=134 Identities=21% Similarity=0.314 Sum_probs=124.6
Q ss_pred EEEEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHHHHHCC
Q ss_conf 68999999445566897044686642999899999999997754379751389998389529999859748999996337
Q gi|254780147|r 6 SRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVG 85 (142)
Q Consensus 6 ~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~likk~~g 85 (142)
+.+|+||+.||+|+|+|||||+|||+|||+|+||++||++|++|+ |++|||+|++ +||++++++ +||+|.||+++++
T Consensus 10 ~~~i~l~v~GG~a~p~pplgPaLGplGlni~~v~~~in~~T~d~k-G~~VpV~i~v-~~r~~~~~v-~Pp~saLliK~l~ 86 (164)
T PTZ00105 10 EIYVYIRVVGGEVGATSSLAPKLGPLGLNPKKVGDDIAKETKDWK-GIKVTVKLRV-QNRQATVEV-VPSASSLLIKALK 86 (164)
T ss_pred EEEEEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC-CCEEEEEEEE-ECCCEEEEE-CCCHHHHHHHHHC
T ss_conf 699999985275189997763336679898999999999986238-9676689999-578325898-5984999999837
Q ss_pred C--CCCCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEECCEEEEC
Q ss_conf 6--66788999630101259999999999885406787899999977430214528939
Q gi|254780147|r 86 I--KSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISVVD 142 (142)
Q Consensus 86 ~--~kgs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~SmGi~V~~ 142 (142)
. +.+++.++..|+|+||++|+.+||+.|++||++++|++++|+|+||||||||+|+.
T Consensus 87 ~~~~~~~k~~~v~~~Gnlt~eqv~~IAk~k~~~l~a~~l~~avKeVlGTa~SmG~tVeG 145 (164)
T PTZ00105 87 EPPRDRKKVKNIKHNGNLTFEQVIKIAKEMREKSMAKTFKGTVKEVLGTAQSIGCTVDG 145 (164)
T ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCEEEEEEECC
T ss_conf 77777788787655675289999999999776524620777799876002372688549
No 10
>KOG0886 consensus
Probab=99.93 E-value=1e-25 Score=172.66 Aligned_cols=133 Identities=21% Similarity=0.320 Sum_probs=121.8
Q ss_pred EEEEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHHHHHCC
Q ss_conf 68999999445566897044686642999899999999997754379751389998389529999859748999996337
Q gi|254780147|r 6 SRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVG 85 (142)
Q Consensus 6 ~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~likk~~g 85 (142)
+++++|++.||+...+..|+|..||+|+.++++++|+.++|++|+ |+++.|.+++.+ |...+++ .|++|.||.+++.
T Consensus 12 iK~vylrc~GgEVgatsaLApKIgPLGLSpKkvGedIaKaT~dwK-gl~vtvkLtIqn-R~A~i~V-vpSasaLiIkaLK 88 (167)
T KOG0886 12 IKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGEDIAKATGDWK-GLRVTVKLTIQN-RQAQIEV-VPSASALIIKALK 88 (167)
T ss_pred EEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCC-CCEEEEEEEECC-CCCCEEE-CCCHHHHHHHHHC
T ss_conf 389999863574354000265446665680001068987632434-635899887527-4130587-5407889999731
Q ss_pred CCCCC--CCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEECCEEEE
Q ss_conf 66678--899963010125999999999988540678789999997743021452893
Q gi|254780147|r 86 IKSGS--KLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISVV 141 (142)
Q Consensus 86 ~~kgs--~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~SmGi~V~ 141 (142)
...+. ++.+..|.|+|+|+++.+||+..++.+.++++.+++++++|||+|+||+|.
T Consensus 89 EPpRDRKk~knikh~Gni~~deiv~iar~mr~rS~a~~l~gt~keilgt~~svgc~vD 146 (167)
T KOG0886 89 EPPRDRKKQKNIKHSGNITFDEIVEIARIMRPRSLARELSGTVKEILGTAQSVGCTVD 146 (167)
T ss_pred CCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf 7970044422434367531788988998760276664320559998531553131367
No 11
>pfam00298 Ribosomal_L11 Ribosomal protein L11, RNA binding domain.
Probab=99.91 E-value=1.5e-24 Score=165.71 Aligned_cols=69 Identities=48% Similarity=0.796 Sum_probs=67.7
Q ss_pred CCCCHHHHHHHHCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEECCEEE
Q ss_conf 597489999963376667889996301012599999999998854067878999999774302145289
Q gi|254780147|r 72 SQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSMGISV 140 (142)
Q Consensus 72 ~~P~~s~likk~~g~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~SmGi~V 140 (142)
++||+||||++++|+++||++|+++.+|+||++|+||||+.|++|+++.+|+++||+|+||||||||+|
T Consensus 1 ktPp~s~ll~kaagi~kGs~~p~~~~vG~it~~qv~eIAk~K~~dl~~~~l~~~~k~V~GTa~SmGi~V 69 (69)
T pfam00298 1 KTPPASYLLKKAAGIEKGSGKPGKEKVGKITLKQVYEIAKIKMPDLNANDLEAAVKIIIGTARSMGIEV 69 (69)
T ss_pred CCCCHHHHHHHHHCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCEEC
T ss_conf 979789999999785867899999141235799999999998765179899999999998886073589
No 12
>PTZ00321 ribosomal protein L11; Provisional
Probab=99.89 E-value=7.3e-24 Score=161.71 Aligned_cols=139 Identities=30% Similarity=0.502 Sum_probs=122.0
Q ss_pred CCEEEEEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHH-HHHCCCCCEEEEEEECCCEEEEEECCCCHHHHHH
Q ss_conf 423689999994455668970446866429998999999999977-5437975138999838952999985974899999
Q gi|254780147|r 3 KVVSRIVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATE-GMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFLK 81 (142)
Q Consensus 3 k~v~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~-~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~lik 81 (142)
|.|...-+.-|.||+|..|||+||.+..+|+..|+|.|.||++|+ +|+.++.+.|.|.||-|+||.|.|..||+.|||+
T Consensus 47 k~vlhnwrffikagkaatgppvgqefsklglkamdfak~fndrtkphfkddvelivriqvyfdksylf~ieppptawfil 126 (342)
T PTZ00321 47 KRVLHNWRFFIKAGKAATGPPVGQEFSKLGLKAMDFAKSFNDRTKPHFKDDVELIVRIQVYFDKSYLFTIEPPPTAWFIL 126 (342)
T ss_pred CHHHHHHHHHHHCCCCCCCCCCHHHHHHHCHHHHHHHHHHCCCCCCCCCCCEEEEEEEEEEEECCEEEEECCCCHHHHHH
T ss_conf 10444234554216545799820667772435767888733356865434512689999997042479716996289999
Q ss_pred HHCCCCCCCCCC---CCCEEEEECHHHHHHHHHHHHHHCCC---CCHHHHHHHHHHHEEECCEEEE
Q ss_conf 633766678899---96301012599999999998854067---8789999997743021452893
Q gi|254780147|r 82 KEVGIKSGSKLP---GKESCGSITRENIRKIAQLKMQDMGA---IDIEGAMRMVEGSACSMGISVV 141 (142)
Q Consensus 82 k~~g~~kgs~~p---~~~~~g~it~~~i~eIAk~K~~d~~~---~~l~~~vk~VlGTa~SmGi~V~ 141 (142)
+++..+.+...| .-..++-+|++..||||+.|...+.. -.++..|+.|+|.||.||+.+.
T Consensus 127 ralrkkr~etgpv~lrg~yca~mtlem~yeiakmk~~~wgr~eyp~ie~rvrrvvgqarrmgv~~i 192 (342)
T PTZ00321 127 RALRKKRRETGPVPLRGHYCALMTLEMAYEIAKMKPRSWGRPEYPLIETRVRRVVGQARRMGVCFI 192 (342)
T ss_pred HHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHCEEEEE
T ss_conf 999985166787112452466868999999985075456898875288999999877653204799
No 13
>pfam03946 Ribosomal_L11_N Ribosomal protein L11, N-terminal domain. The N-terminal domain of Ribosomal protein L11 adopts an alpha/beta fold and is followed by the RNA binding C-terminal domain.
Probab=99.88 E-value=2.9e-23 Score=158.20 Aligned_cols=59 Identities=54% Similarity=1.133 Sum_probs=57.3
Q ss_pred EEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEE
Q ss_conf 999999445566897044686642999899999999997754379751389998389529
Q gi|254780147|r 8 IVKLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSF 67 (142)
Q Consensus 8 ~ikl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf 67 (142)
++||+++||+|+|+|||||+|||+|||+|+||++||++|++|+ |++|||+|++|+||||
T Consensus 1 vikl~v~gG~A~p~pplgp~LG~~Gini~~f~k~fN~~T~~~~-g~~vpv~i~v~~d~sf 59 (59)
T pfam03946 1 VIKLQVPAGKANPAPPLGPALGQLGVNIMEFCKEFNAATKDYK-GLPVPVKITVYNDRSF 59 (59)
T ss_pred CEEEEEECCCCCCCCCCCHHHCCCCCCHHHHHHHHHHHHHHCC-CCEEEEEEEEECCCCC
T ss_conf 9899973677779998760121159899999999987533408-9367689999179999
No 14
>TIGR01169 rplA_bact ribosomal protein L1; InterPro: IPR005878 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 of 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 L1 is the largest protein from the large ribosomal subunit. In Escherichia coli, L1 is known to bind to the 23S rRNA. This model describe s bacterial and chloroplast ribosomal protein L1. Most mitochondrial L1 sequences are sufficiently divergent to be the contained in a different entry (IPR005879 from INTERPRO).; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit.
Probab=77.73 E-value=0.82 Score=25.73 Aligned_cols=31 Identities=19% Similarity=0.295 Sum_probs=25.9
Q ss_pred HHHHHHHHCCCC--HH--HHHHHHHHHHHHHHCCC
Q ss_conf 044686642999--89--99999999977543797
Q gi|254780147|r 23 PVGPAIGQAGIP--IM--AFCKAFNAATEGMEKGI 53 (142)
Q Consensus 23 plGp~LG~~Gin--i~--~f~k~fN~~T~~~~~g~ 53 (142)
.||+.|||+||= |+ -|..|..++-+++|.|-
T Consensus 124 kLG~iLGPRGLMPNPK~GTVT~dva~Av~~~K~G~ 158 (227)
T TIGR01169 124 KLGRILGPRGLMPNPKTGTVTADVAKAVKEAKKGR 158 (227)
T ss_pred HHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHCCC
T ss_conf 33100478884753596652243799999872795
No 15
>pfam00687 Ribosomal_L1 Ribosomal protein L1p/L10e family. This family includes prokaryotic L1 and eukaryotic L10.
Probab=60.29 E-value=7.3 Score=20.13 Aligned_cols=17 Identities=18% Similarity=0.268 Sum_probs=11.0
Q ss_pred EEEEEECCCCHHHHHHH
Q ss_conf 29999859748999996
Q gi|254780147|r 66 SFTFTMSQPPVSFFLKK 82 (142)
Q Consensus 66 sf~~~i~~P~~s~likk 82 (142)
.|++.+-+|..--.|.+
T Consensus 92 ~fd~~ia~~~~m~~l~k 108 (203)
T pfam00687 92 DFDVFIATPDMMPQVGK 108 (203)
T ss_pred CCCEEEECHHHHHHHHH
T ss_conf 56689985899999998
No 16
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=57.58 E-value=10 Score=19.34 Aligned_cols=17 Identities=18% Similarity=0.393 Sum_probs=7.1
Q ss_pred EEEEEECCCCHHHHHHH
Q ss_conf 29999859748999996
Q gi|254780147|r 66 SFTFTMSQPPVSFFLKK 82 (142)
Q Consensus 66 sf~~~i~~P~~s~likk 82 (142)
.|++.+-+|..--.|.+
T Consensus 110 ~fD~~iAtp~~m~~l~k 126 (232)
T PRK05424 110 DFDVVIATPDMMAVVGK 126 (232)
T ss_pred CCCEEEECHHHHHHHHH
T ss_conf 47777736889999999
No 17
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=57.33 E-value=11 Score=19.19 Aligned_cols=47 Identities=17% Similarity=0.290 Sum_probs=23.4
Q ss_pred HHHHHHHHCCC--CHHH--HHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEEC
Q ss_conf 04468664299--9899--99999999775437975138999838952999985
Q gi|254780147|r 23 PVGPAIGQAGI--PIMA--FCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMS 72 (142)
Q Consensus 23 plGp~LG~~Gi--ni~~--f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~ 72 (142)
.|||.|||+|+ |+.- +..|+.++-++++.|. |+....+.-.+.+.|+
T Consensus 127 ~LG~vLGPRGlMPnPk~gTvt~Dv~~av~~~K~g~---v~~R~dk~g~ih~~iG 177 (228)
T COG0081 127 KLGKVLGPRGLMPNPKTGTVTDDVAKAVEELKKGT---VEFRADKAGVIHVPIG 177 (228)
T ss_pred HHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHCCC---EEEEECCCCEEEEEEC
T ss_conf 98554177878999877887768999999975674---7999779865888752
No 18
>pfam00416 Ribosomal_S13 Ribosomal protein S13/S18. This family includes ribosomal protein S13 from prokaryotes and S18 from eukaryotes.
Probab=54.60 E-value=19 Score=17.70 Aligned_cols=58 Identities=16% Similarity=0.185 Sum_probs=43.7
Q ss_pred CCCHHHHHHHHCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEEC
Q ss_conf 9748999996337666788999630101259999999999885406787899999977430214
Q gi|254780147|r 73 QPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACSM 136 (142)
Q Consensus 73 ~P~~s~likk~~g~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~Sm 136 (142)
.+..|..|-+.+|++. ...+|++|.+|+..|.+.-..-+...+|+..+++=+---+.+
T Consensus 24 G~~~A~~Ic~~lgi~~------~~k~~~Lt~~qi~~l~~~i~~~~i~~dL~~~~~~~I~rl~~i 81 (106)
T pfam00416 24 GRRKANQILKKAGVDK------DKRVGELTEEEIDRIRDIISNYVVENDLRRKIRNDIERLKKI 81 (106)
T ss_pred CHHHHHHHHHHCCCCC------CCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH
T ss_conf 8999999999919597------757154999999999999975200478999999989999874
No 19
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=49.23 E-value=19 Score=17.62 Aligned_cols=17 Identities=18% Similarity=0.342 Sum_probs=7.9
Q ss_pred EEEEEECCCCHHHHHHH
Q ss_conf 29999859748999996
Q gi|254780147|r 66 SFTFTMSQPPVSFFLKK 82 (142)
Q Consensus 66 sf~~~i~~P~~s~likk 82 (142)
.|++.+-+|..--.+-+
T Consensus 109 ~fD~~iAtp~~M~~l~k 125 (229)
T CHL00129 109 DFDLLIATPDMMPKIAK 125 (229)
T ss_pred CCCEEEECCHHHHHHHH
T ss_conf 45468766178999999
No 20
>TIGR01122 ilvE_I branched-chain amino acid aminotransferase; InterPro: IPR005785 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped into subfamilies. One of these, called class-IV, currently consists of proteins of about 270 to 415 amino-acid residues that share a few regions of sequence similarity. Surprisingly, the best conserved region does not include the lysine residue to which the pyridoxal-phosphate group is known to be attached, in ilvE, but is located some 40 residues at the C-terminus side of the PlP-lysine. Among the class IV aminotransferases are two phylogenetically separable groups of branched-chain amino acid aminotransferase (IlvE) (2.6.1.42 from EC). The last common ancestor of the two lineages appears also to have given rise to a family of D-amino acid aminotransferases (DAAT). This model represents the IlvE family more strongly similar to the DAAT family. ; GO: 0004084 branched-chain-amino-acid transaminase activity, 0009081 branched chain family amino acid metabolic process.
Probab=43.36 E-value=21 Score=17.41 Aligned_cols=13 Identities=31% Similarity=0.501 Sum_probs=11.0
Q ss_pred EECHHHHHHHHH-H
Q ss_conf 125999999999-9
Q gi|254780147|r 100 SITRENIRKIAQ-L 112 (142)
Q Consensus 100 ~it~~~i~eIAk-~ 112 (142)
-||.+.|++||+ .
T Consensus 213 GITRd~VitlA~ke 226 (302)
T TIGR01122 213 GITRDTVITLAKKE 226 (302)
T ss_pred CCCHHHHHHHHHHC
T ss_conf 88888999998510
No 21
>COG4953 PbpC Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]
Probab=37.79 E-value=20 Score=17.56 Aligned_cols=73 Identities=19% Similarity=0.274 Sum_probs=58.8
Q ss_pred EEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHHHHHHCCCCC
Q ss_conf 9999445566897044686642999899999999997754379751389998389529999859748999996337666
Q gi|254780147|r 10 KLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKS 88 (142)
Q Consensus 10 kl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~likk~~g~~k 88 (142)
+|..+.+. +|-|+=.||-.|++.-+..+-|-..-. .|..-|..-+..+|+.-+..+.+|.++|++..-+.-..
T Consensus 418 ~L~~P~~~---~~GLsLiLGg~gi~L~dLa~lYa~lAn---~G~~~~L~~~~~~~~~~~~~l~s~~Aaw~i~dIl~~~~ 490 (733)
T COG4953 418 HLYLPEGA---APGLSLILGGAGITLEDLAQLYAALAN---QGKAGPLRDTLDDDPLTERTLLSPGAAWQILDILSDVA 490 (733)
T ss_pred CCCCCCCC---CCCEEEEECCCCCCHHHHHHHHHHHHC---CCCEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf 87789766---887258855776649999999999861---89431043467878887863568602799999985047
No 22
>TIGR03631 bact_S13 30S ribosomal protein S13. This model describes bacterial ribosomal protein S13, to the exclusion of the homologous archaeal S13P and eukaryotic ribosomal protein S18. This model identifies some (but not all) instances of chloroplast and mitochondrial S13, which is of bacterial type.
Probab=35.23 E-value=39 Score=15.81 Aligned_cols=53 Identities=11% Similarity=0.088 Sum_probs=39.1
Q ss_pred CCCHHHHHHHHCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHH-CCCCCHHHHHHHHHH
Q ss_conf 97489999963376667889996301012599999999998854-067878999999774
Q gi|254780147|r 73 QPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQD-MGAIDIEGAMRMVEG 131 (142)
Q Consensus 73 ~P~~s~likk~~g~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d-~~~~~l~~~vk~VlG 131 (142)
.+..|.-|-+.+|++. ...+|++|-+|+..|.+.-..+ .-..+|+..+++=+-
T Consensus 24 G~~~A~~Ic~~lgId~------~~k~g~Ls~~qi~~I~~~I~~~~~i~~dL~~~~~~dI~ 77 (113)
T TIGR03631 24 GRTRARKILEKAGIDP------DKRVKDLTEEELNAIREEIEAKYKVEGDLRREVSLNIK 77 (113)
T ss_pred CHHHHHHHHHHCCCCC------CCCHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf 8999999999929998------77864499999999999998257440689999999999
No 23
>PTZ00225 60S ribosomal protein L10a; Provisional
Probab=34.37 E-value=29 Score=16.61 Aligned_cols=11 Identities=36% Similarity=0.588 Sum_probs=4.2
Q ss_pred HHHHHHHCCCC
Q ss_conf 44686642999
Q gi|254780147|r 24 VGPAIGQAGIP 34 (142)
Q Consensus 24 lGp~LG~~Gin 34 (142)
|||.|||+|-+
T Consensus 121 LGp~Lg~~gK~ 131 (214)
T PTZ00225 121 VGPHMHRMGKF 131 (214)
T ss_pred HCCCCCCCCCC
T ss_conf 27446778998
No 24
>KOG0455 consensus
Probab=32.09 E-value=41 Score=15.69 Aligned_cols=40 Identities=20% Similarity=0.379 Sum_probs=27.7
Q ss_pred EEECHHHHHHHHHHH-------HHHCCCCCHHHHHHHHHHHEEECCEEEE
Q ss_conf 012599999999998-------8540678789999997743021452893
Q gi|254780147|r 99 GSITRENIRKIAQLK-------MQDMGAIDIEGAMRMVEGSACSMGISVV 141 (142)
Q Consensus 99 g~it~~~i~eIAk~K-------~~d~~~~~l~~~vk~VlGTa~SmGi~V~ 141 (142)
|+++|.|+.++||.- +.|+|..|..--+-+ -+|=.|+.||
T Consensus 193 ~~~sfsdvVk~AKklGYTEPDPRDDLnGmDVARKvtI---l~Ri~Gv~ve 239 (364)
T KOG0455 193 GTLSFSDVVKAAKKLGYTEPDPRDDLNGMDVARKVTI---LARILGVRVE 239 (364)
T ss_pred CCCCHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHH---HHHHCCCEEE
T ss_conf 7565999999999728999996423465113444323---1132051563
No 25
>CHL00137 rps13 ribosomal protein S13; Validated
Probab=31.33 E-value=46 Score=15.42 Aligned_cols=64 Identities=13% Similarity=0.083 Sum_probs=44.8
Q ss_pred EEEECCCCHHHHHHHHCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHH-CCCCCHHHHHHHHHHHEEECCE
Q ss_conf 9998597489999963376667889996301012599999999998854-0678789999997743021452
Q gi|254780147|r 68 TFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQD-MGAIDIEGAMRMVEGSACSMGI 138 (142)
Q Consensus 68 ~~~i~~P~~s~likk~~g~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d-~~~~~l~~~vk~VlGTa~SmGi 138 (142)
.+=| .+..|..|-+.+|++. ...+++||-+|+..|.+.-..+ ....+|+-.+.+=+--.+.++|
T Consensus 22 I~GI-G~~~A~~Ic~~lgi~~------~~k~~~Ls~~qi~~i~~~i~~~~~ie~dLr~~~~~dI~rl~~I~s 86 (122)
T CHL00137 22 IYGI-GLTSAKKILEKANIDP------DTRTKDLTDEQIVSIRQIIEENYQVEGDLRRFESMNIKRLMEINC 86 (122)
T ss_pred HCCC-CHHHHHHHHHHCCCCC------CCCCCCCCHHHHHHHHHHHHHCCEECHHHHHHHHHHHHHHHHHCC
T ss_conf 0061-8999999999849898------855262999999999999984765222789999998999988560
No 26
>pfam09175 DUF1944 Domain of unknown function (DUF1944). Members of this family adopt a structure consisting of several large open beta-sheets. Their exact function has not, as yet, been determined.
Probab=28.07 E-value=52 Score=15.09 Aligned_cols=54 Identities=19% Similarity=0.311 Sum_probs=38.4
Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCEEEEEECCCCHHHH
Q ss_conf 44686642999899999999997754379751389998389529999859748999
Q gi|254780147|r 24 VGPAIGQAGIPIMAFCKAFNAATEGMEKGIPIPTTVTCYKDKSFTFTMSQPPVSFF 79 (142)
Q Consensus 24 lGp~LG~~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v~~dksf~~~i~~P~~s~l 79 (142)
.|-.+..| |+...|--.|+..-.. .+.-.+.+.+.+-++||+++++++|..+..
T Consensus 105 y~k~~~~y-IPg~A~~~G~~~~~~~-N~~~qis~tva~tS~rt~dviiK~P~~T~Y 158 (165)
T pfam09175 105 YAKRVSEY-IPGAAFLLGFSQKKEK-NPERQISLTVAATSPRTLDVIIKTPKRTLY 158 (165)
T ss_pred HHHHHHHH-CCCHHHHHCCCHHHHC-CCHHEEEEEEEECCCCEEEEEEECCCEEEE
T ss_conf 99999976-8337877033265404-843649999998899808899976870003
No 27
>TIGR01933 hflK HflK protein; InterPro: IPR010201 The accumulation of abnormal membrane proteins is something which must be avoided in order to maintain cell viability. In Escherichia coli, the membrane-bound, ATP-dependent protease FtsH plays a central role in the degradation of these abnormal proteins . Known substrates of this protease include several lambda bacteriophage proteins, the heat-shock transcription factor sigma-32, and the unassembled form of the membrane protein SecY. While FtsH is active as a protease on its own, in vivo it forms a complex with a membrane-bound HflKC heterodimer. HflKC has a generally inhibitory effect on the protease activity of FtsH, though the mechanism of this inhibition is not known. The HflK and HflC polypeptides are paralogous, and often encoded by tandem genes within bacterial genomes. This entry represents the HflK subunit of the HflKC heterodimer.; GO: 0005515 protein binding, 0016021 integral to membrane.
Probab=24.46 E-value=29 Score=16.62 Aligned_cols=79 Identities=14% Similarity=0.245 Sum_probs=50.9
Q ss_pred CCCEEEEEEECCCEEEEEECCCCHHHHHHHHCCCCCCCCCCCCCEEEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf 75138999838952999985974899999633766678899963010125999999999988540678789999997743
Q gi|254780147|r 53 IPIPTTVTCYKDKSFTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGS 132 (142)
Q Consensus 53 ~~v~V~i~v~~dksf~~~i~~P~~s~likk~~g~~kgs~~p~~~~~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGT 132 (142)
+.+.|...|.+.++|.|.+..|--..-|++++.- .-+..+|.-++++|..=-+.....-....|+..++
T Consensus 83 V~~~VQY~I~DP~~ylf~V~~~~rr~sl~~at~S------alr~~iG~~~~~~iLt~gR~~i~~~~~~~l~~~i~----- 151 (285)
T TIGR01933 83 VELNVQYRITDPAKYLFSVENPERRDSLRQATDS------ALREVIGDSSMDSILTEGRSQIREDTKERLNEIID----- 151 (285)
T ss_pred EEEEEEEEEECHHHHCCCCCCCHHHHHHHHHHHH------HHHHHHCCCHHHHHHCCCCHHHHHHHHHHHHHHHH-----
T ss_conf 7656666653637751367684255699999999------98654062026787366716788999999999874-----
Q ss_pred EEECCEEEEC
Q ss_conf 0214528939
Q gi|254780147|r 133 ACSMGISVVD 142 (142)
Q Consensus 133 a~SmGi~V~~ 142 (142)
...|||.|.+
T Consensus 152 ~Y~~Gi~v~~ 161 (285)
T TIGR01933 152 NYDLGITVVD 161 (285)
T ss_pred HCCCCEEEEE
T ss_conf 2038637986
No 28
>PTZ00134 40S ribosomal protein S18; Provisional
Probab=24.23 E-value=62 Score=14.67 Aligned_cols=41 Identities=20% Similarity=0.287 Sum_probs=31.8
Q ss_pred EEEEECCCCHHHHHHHHCCCCCCCCCCCCCEEEEECHHHHHHHHHHHH
Q ss_conf 999985974899999633766678899963010125999999999988
Q gi|254780147|r 67 FTFTMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQLKM 114 (142)
Q Consensus 67 f~~~i~~P~~s~likk~~g~~kgs~~p~~~~~g~it~~~i~eIAk~K~ 114 (142)
+.+=| .+.+|..|.+.+|++. ...+|.||-+|+-+|.....
T Consensus 34 ~I~GI-G~~~A~~Ic~~~gid~------~~r~g~Lteeei~~i~~~I~ 74 (154)
T PTZ00134 34 AIKGI-GRRFATVVCKQAGVDV------TKRAGELTQEEINKIVAIIS 74 (154)
T ss_pred EECCC-CHHHHHHHHHHCCCCC------CCCCCCCCHHHHHHHHHHHC
T ss_conf 22064-8999999999809894------54216499999999999972
No 29
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=24.13 E-value=57 Score=14.85 Aligned_cols=93 Identities=17% Similarity=0.178 Sum_probs=48.9
Q ss_pred EEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHH--------H------------HHCCCCCEEEEEEECCCEEEE
Q ss_conf 99994455668970446866429998999999999977--------5------------437975138999838952999
Q gi|254780147|r 10 KLQIESGSAKPSPPVGPAIGQAGIPIMAFCKAFNAATE--------G------------MEKGIPIPTTVTCYKDKSFTF 69 (142)
Q Consensus 10 kl~v~aG~A~p~PplGp~LG~~Gini~~f~k~fN~~T~--------~------------~~~g~~v~V~i~v~~dksf~~ 69 (142)
|+.||--+------+|-.|||+|-+.+...++.+.+-. + .....++.|.|++..+-
T Consensus 3 Kv~IPv~~yP~~Nfvg~ilGprG~t~k~l~~~t~~~i~irG~GS~Kd~~~e~~~~~~~~~hl~epLHVlI~a~~~~---- 78 (120)
T cd02395 3 KVYIPVKQYPKYNFVGLILGPRGNTLKQLEKETGAKISIRGKGSMKDGKKEEELRGPKYAHLNEPLHVLITAETPP---- 78 (120)
T ss_pred EEECCCCCCCCCCEEEEEECCCCCHHHHHHHHHCCEEEEEECCCCCCCCCHHHCCCCCCCCCCCCCEEEEEECCCH----
T ss_conf 6752655589988567887798506999999879879997178766765354436899855689977999953988----
Q ss_pred EECCCCHHHHHHHHCCCCCCCCCCCCCEEEEECHHHHHHHHHH
Q ss_conf 9859748999996337666788999630101259999999999
Q gi|254780147|r 70 TMSQPPVSFFLKKEVGIKSGSKLPGKESCGSITRENIRKIAQL 112 (142)
Q Consensus 70 ~i~~P~~s~likk~~g~~kgs~~p~~~~~g~it~~~i~eIAk~ 112 (142)
.....-+..+|.+.+..- .|. .--.+..+|+.|.|..
T Consensus 79 ~e~~~~a~~~i~~ll~p~----~p~--~~delKr~QLrELA~l 115 (120)
T cd02395 79 EEALAKAVEAIEELLKPA----IEG--GNDELKREQLRELALL 115 (120)
T ss_pred HHHHHHHHHHHHHHHCCC----CCC--CCCHHHHHHHHHHHHH
T ss_conf 999999999999981789----987--5469999999999997
No 30
>pfam08634 Pet127 Mitochondrial protein Pet127. Pet127 has been implicated in mitochondrial RNA stability and/or processing and is localized to the mitochondrial membrane.
Probab=23.70 E-value=63 Score=14.63 Aligned_cols=55 Identities=15% Similarity=0.326 Sum_probs=44.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHCCCCCEEEEEE--ECCCEEEEEECCCCHHHHHHHHCC
Q ss_conf 2999899999999997754379751389998--389529999859748999996337
Q gi|254780147|r 31 AGIPIMAFCKAFNAATEGMEKGIPIPTTVTC--YKDKSFTFTMSQPPVSFFLKKEVG 85 (142)
Q Consensus 31 ~Gini~~f~k~fN~~T~~~~~g~~v~V~i~v--~~dksf~~~i~~P~~s~likk~~g 85 (142)
+++|.-.|.+.|...+..|-.+.+.|+-+.. ++|..|.+.-.....+..|+-.+|
T Consensus 43 r~~n~~~lS~~f~~~~~~ft~~~r~P~s~~L~~~~~~vYaIdsDk~~d~~~iLs~lG 99 (274)
T pfam08634 43 RPLNTSSLSKPFPPKKSNFTRSARLPSSVILRRYKDGIYAIDSDKSADREIILSNLG 99 (274)
T ss_pred CCCCHHHHHHCCCCCCCCCCHHCCCCEEEEEEECCCCEEEEECCCCCCHHHHHHHHH
T ss_conf 888825640146855677540003660468885589669865798767889999888
No 31
>pfam09687 P_fal_TIGR01639 Protein of unknown function (P_fal_TIGR01639). These sequences contain a conserved sequence region of about 60 amino acids found in over 40 predicted proteins of Plasmodium falciparum. It is not currently found elsewhere, even in closely related Plasmodium species. No member of this family has been functionally characterized.
Probab=23.24 E-value=61 Score=14.69 Aligned_cols=38 Identities=13% Similarity=0.049 Sum_probs=31.9
Q ss_pred EEEECHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHEEE
Q ss_conf 10125999999999988540678789999997743021
Q gi|254780147|r 98 CGSITRENIRKIAQLKMQDMGAIDIEGAMRMVEGSACS 135 (142)
Q Consensus 98 ~g~it~~~i~eIAk~K~~d~~~~~l~~~vk~VlGTa~S 135 (142)
.-++|.+++++|-.-..+..-..+|..+=..++|.|+.
T Consensus 7 Skqlt~eeL~~VL~sL~E~p~~edl~nIWnh~lgi~ke 44 (61)
T pfam09687 7 SKQLTKEELYDVLNSLEECPPNEDLYNIWNHTLGIAKE 44 (61)
T ss_pred HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
T ss_conf 79830999999998886299377899999999978886
No 32
>KOG0967 consensus
Probab=23.24 E-value=65 Score=14.55 Aligned_cols=70 Identities=16% Similarity=0.131 Sum_probs=54.1
Q ss_pred CCCCCCHHHHHHHHCCCCHHHHHHHHHHHHH--HH-HCCCCCEEE------EEEECCCEEEEEECCCCHHHHHHHHCCC
Q ss_conf 5668970446866429998999999999977--54-379751389------9983895299998597489999963376
Q gi|254780147|r 17 SAKPSPPVGPAIGQAGIPIMAFCKAFNAATE--GM-EKGIPIPTT------VTCYKDKSFTFTMSQPPVSFFLKKEVGI 86 (142)
Q Consensus 17 ~A~p~PplGp~LG~~Gini~~f~k~fN~~T~--~~-~~g~~v~V~------i~v~~dksf~~~i~~P~~s~likk~~g~ 86 (142)
+-+||=|+.|.|+.--=++.+|-+.|.+++- +| .+|.+..+. +.||...+-..+.+.|-....+.+....
T Consensus 337 ~l~PGIPlKPMLAkpTK~i~evl~rf~~~~FTCEyKYDGeRAQIH~~edG~v~IfSRN~E~~T~kYPDi~~~~~~~~kp 415 (714)
T KOG0967 337 KLTPGIPLKPMLAKPTKGIQEVLERFQDKAFTCEYKYDGERAQIHKLEDGTVEIFSRNSENNTGKYPDIIEVISKLKKP 415 (714)
T ss_pred CCCCCCCCCCHHCCCCHHHHHHHHHHHCCEEEEEEECCCEEEEEEECCCCCEEEEECCCCCCCCCCCCHHHHHHHHHCC
T ss_conf 6579987740003752109999998537516888630760225687268858998336533566585399998875277
No 33
>TIGR02909 spore_YkwD uncharacterized protein, YkwD family; InterPro: IPR014258 This entry represents a subgroup of the SCP-like extracellular domain which is found only in bacteria capable of endospore formation. Proteins in this entry include YkwD of Bacillus subtilis. This domain is generally found at the C-terminal region of these proteins, while the N-terminal region sometimes contains a domain homologous to the spore coat assembly protein SafA (IPR014248 from INTERPRO)..
Probab=22.95 E-value=52 Score=15.13 Aligned_cols=17 Identities=41% Similarity=0.528 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHCCCC
Q ss_conf 99999999988540678
Q gi|254780147|r 104 ENIRKIAQLKMQDMGAI 120 (142)
Q Consensus 104 ~~i~eIAk~K~~d~~~~ 120 (142)
.+|..+||.|.+||.-+
T Consensus 28 ~~L~~vARlKs~DM~d~ 44 (129)
T TIGR02909 28 EELSKVARLKSEDMIDK 44 (129)
T ss_pred HHHHHHHHHHHHHHHCC
T ss_conf 47788863746851007
No 34
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=22.72 E-value=51 Score=15.15 Aligned_cols=16 Identities=44% Similarity=0.777 Sum_probs=14.4
Q ss_pred HHHHHHHHCCCCHHHH
Q ss_conf 0446866429998999
Q gi|254780147|r 23 PVGPAIGQAGIPIMAF 38 (142)
Q Consensus 23 plGp~LG~~Gini~~f 38 (142)
.+|..||..||||..|
T Consensus 15 ~v~~~Lg~~~INIa~m 30 (73)
T cd04902 15 KVGTILGEAGINIAGM 30 (73)
T ss_pred HHHHHHHHCCCCHHHH
T ss_conf 9999998709778884
No 35
>COG0051 RpsJ Ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=21.19 E-value=11 Score=19.01 Aligned_cols=29 Identities=17% Similarity=0.386 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHH----HHCCCCCEEEEEEEC
Q ss_conf 89999999999775----437975138999838
Q gi|254780147|r 35 IMAFCKAFNAATEG----MEKGIPIPTTVTCYK 63 (142)
Q Consensus 35 i~~f~k~fN~~T~~----~~~g~~v~V~i~v~~ 63 (142)
+-++|++|-+.-+. .+.-+|+|.++..+.
T Consensus 18 LD~~~~~Ive~akrtg~~v~GPiPLPTk~~~~t 50 (104)
T COG0051 18 LDQVCREIVETAKRTGADVKGPIPLPTKRERVT 50 (104)
T ss_pred HHHHHHHHHHHHHHHCCEEECCCCCCCCEEEEE
T ss_conf 999999999999972980338856997128999
Done!