Query 031086
Match_columns 166
No_of_seqs 114 out of 1056
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 09:02:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031086.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031086hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03072 60S ribosomal protein 100.0 1.6E-69 3.4E-74 433.1 18.4 165 1-166 1-166 (166)
2 PRK01143 rpl11p 50S ribosomal 100.0 5.9E-64 1.3E-68 400.2 15.8 149 11-162 3-154 (163)
3 PTZ00105 60S ribosomal protein 100.0 8.5E-61 1.9E-65 373.9 15.5 140 26-166 1-140 (140)
4 COG0080 RplK Ribosomal protein 100.0 3.9E-60 8.4E-65 368.7 14.7 138 7-147 2-141 (141)
5 TIGR01632 L11_bact 50S ribosom 100.0 7.6E-60 1.7E-64 368.5 15.5 136 8-146 2-140 (140)
6 PRK00140 rplK 50S ribosomal pr 100.0 7.4E-59 1.6E-63 363.3 15.9 137 7-146 3-141 (141)
7 CHL00127 rpl11 ribosomal prote 100.0 1.7E-58 3.7E-63 360.9 15.2 136 7-145 3-140 (140)
8 smart00649 RL11 Ribosomal prot 100.0 1E-57 2.2E-62 353.4 13.8 130 13-145 1-132 (132)
9 cd00349 Ribosomal_L11 Ribosoma 100.0 9E-57 1.9E-61 347.7 13.5 129 13-144 1-131 (131)
10 PRK14539 50S ribosomal protein 100.0 7E-55 1.5E-59 355.5 15.5 135 7-148 4-140 (196)
11 PTZ00321 ribosomal protein L11 100.0 1.5E-54 3.3E-59 372.5 16.0 142 6-148 46-195 (342)
12 KOG3257 Mitochondrial/chloropl 100.0 3.7E-51 8.1E-56 323.2 11.9 136 8-146 17-157 (168)
13 KOG0886 40S ribosomal protein 100.0 6E-44 1.3E-48 279.0 12.8 165 1-166 1-167 (167)
14 PF03946 Ribosomal_L11_N: Ribo 99.9 4.1E-28 8.9E-33 165.3 6.4 58 12-70 1-60 (60)
15 PF00298 Ribosomal_L11: Riboso 99.9 6.4E-28 1.4E-32 168.4 6.9 68 75-144 2-69 (69)
16 PF05164 ZapA: Cell division p 50.3 17 0.00038 24.9 2.7 28 60-87 1-28 (89)
17 COG0051 RpsJ Ribosomal protein 42.9 4.6 9.9E-05 30.5 -1.3 32 115-146 7-38 (104)
18 COG5106 RPF2 Uncharacterized c 39.4 43 0.00093 29.3 3.9 66 55-120 191-288 (316)
19 PF03990 DUF348: Domain of unk 32.9 65 0.0014 19.8 3.0 29 60-89 1-30 (43)
20 cd02395 SF1_like-KH Splicing f 30.1 25 0.00054 26.7 0.9 35 14-48 3-37 (120)
21 PF13817 DDE_Tnp_IS66_C: IS66 27.5 29 0.00063 21.5 0.7 20 132-156 1-20 (39)
22 PF04316 FlgM: Anti-sigma-28 f 25.9 39 0.00086 22.0 1.2 17 148-164 29-45 (57)
23 COG1437 CyaB Adenylate cyclase 25.8 22 0.00048 29.2 -0.1 98 61-158 62-176 (178)
24 PF03978 Borrelia_REV: Borreli 25.6 53 0.0011 26.6 2.0 34 112-145 94-127 (160)
25 KOG1088 Uncharacterized conser 24.3 33 0.00071 26.7 0.6 11 155-165 93-103 (124)
26 PF10941 DUF2620: Protein of u 23.2 61 0.0013 25.0 1.9 61 101-161 5-96 (117)
27 TIGR01046 S10_Arc_S20_Euk ribo 22.8 17 0.00036 26.9 -1.2 32 115-146 4-35 (99)
28 PF12475 Amdo_NSP: Amdovirus n 21.9 49 0.0011 21.7 1.0 20 67-86 3-23 (48)
29 PHA02135 hypothetical protein 20.6 40 0.00086 25.7 0.4 19 41-60 32-50 (122)
30 CHL00135 rps10 ribosomal prote 20.5 20 0.00043 26.6 -1.2 32 115-146 10-41 (101)
31 COG4953 PbpC Membrane carboxyp 20.3 87 0.0019 31.0 2.7 69 13-87 417-487 (733)
32 KOG1588 RNA-binding protein Sa 20.2 1.7E+02 0.0037 25.4 4.2 98 8-117 89-209 (259)
No 1
>PLN03072 60S ribosomal protein L12; Provisional
Probab=100.00 E-value=1.6e-69 Score=433.14 Aligned_cols=165 Identities=91% Similarity=1.323 Sum_probs=159.9
Q ss_pred CCCCCCCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcc-cCCceeEEEEEEecCceEEEEeCCHH
Q 031086 1 MPPKFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKD-WKGLRVTVKLTVQNRQAKVAVVPSAA 79 (166)
Q Consensus 1 m~~k~~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~-~~g~~vpV~Itv~drsf~~~v~Ppts 79 (166)
||||+|++...+|+|+|+||+|+|+|||||+|||+|||+|+||++||++| ++ |.|++|||+||||+|||+|+++||+|
T Consensus 1 m~~~~~~~~~~~i~l~v~aG~A~P~PplGPaLG~~GvNi~~f~k~fN~~T-~~~~~G~~VpV~Itv~~rsf~~~v~Pp~s 79 (166)
T PLN03072 1 MPPKLDPSQVVEVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKET-AKDWKGLRVTVKLTVQNRQAKVSVVPSAA 79 (166)
T ss_pred CCCCCCCCccEEEEEEEEcCccCCCCCCccccccCCCCHHHHHHHHHHHh-hhhcCCCeEEEEEEEECCeEEEEeCCCHH
Confidence 99999999999999999999999999999999999999999999999999 75 99999999999999999998899999
Q ss_pred HHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhCc
Q 031086 80 ALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDG 159 (166)
Q Consensus 80 ~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~G 159 (166)
+||+|+||+.+|+++++++.+++|+||++||||||+.|++||++.+|+++||+|+||||||||+|+++||+|++++||+|
T Consensus 80 ~LLkKa~g~~kgs~~~~~~~~~vG~it~~qv~eIA~~K~~dl~a~~l~~avk~VlGTarSmGi~V~gk~pkev~~~i~~G 159 (166)
T PLN03072 80 ALVIKALKEPERDRKKVKNIKHNGNISLDDVIEIAKIMRPRSMAKELAGTVKEILGTCVSVGCTVDGKDPKDLQQEIDDG 159 (166)
T ss_pred HHHHHHhCCCCCCCccCCCCeeeeeecHHHHHHHHHHHHHHhCcccHHHHHHHhHheeeeCeEEEeCCCHHHHHHHHhCC
Confidence 99999999999988865566899999999999999999999999999999999999999999999999999999999999
Q ss_pred eeeccCC
Q 031086 160 DVEIPLD 166 (166)
Q Consensus 160 ~~~~~~~ 166 (166)
+|+||++
T Consensus 160 ~~~~p~~ 166 (166)
T PLN03072 160 EVEIPEA 166 (166)
T ss_pred CeeCCCC
Confidence 9999986
No 2
>PRK01143 rpl11p 50S ribosomal protein L11P; Validated
Probab=100.00 E-value=5.9e-64 Score=400.17 Aligned_cols=149 Identities=37% Similarity=0.674 Sum_probs=145.7
Q ss_pred EEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEE-e-cCceEEEE-eCCHHHHHHHHhC
Q 031086 11 VDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTV-Q-NRQAKVAV-VPSAAALVIKALK 87 (166)
Q Consensus 11 ~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv-~-drsf~~~v-~Ppts~llkka~g 87 (166)
++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|.|++|||+||| | ||||+|++ +||+||||+|++|
T Consensus 3 ~~ikl~v~aG~A~p~PplGPaLG~~Gini~~f~k~fN~~T-~~~~g~~vpV~Itv~~~drsf~~~vk~Pp~s~ll~kaag 81 (163)
T PRK01143 3 KVVEVLVEGGKATPGPPLGPALGPLGLNVKQVVQEINEKT-KDFKGMQVPVKVIVDTDTKKFEIEVGIPPTTALIKKELG 81 (163)
T ss_pred eEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHh-hhcCCCeEeEEEEEEeCCceEEEEECCCCHHHHHHHHhC
Confidence 5899999999999999999999999999999999999999 99999999999999 8 99999999 9999999999999
Q ss_pred CCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhCceee
Q 031086 88 EPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVE 162 (166)
Q Consensus 88 ~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~G~~~ 162 (166)
+.+|++++++ +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|+++||+||+++||+|+|+
T Consensus 82 ~~kgs~~p~~--~~vG~It~~qv~eIA~~K~~d~~~~~l~~~vk~VlGTarSmGi~V~g~~pkev~~~i~~g~~~ 154 (163)
T PRK01143 82 IEKGSGEPGH--EVVGNLSFEQVVKIAIMKKDDLLSYDLKAAVKEVLGTCVSMGVTVEGKDPKEVQKEVDEGKYD 154 (163)
T ss_pred CcCCCCCCCC--ceeeeecHHHHHHHHHHHhhhhccccHHHHHHHHHhhHhhceEEEecCCHHHHHHHcCcccHH
Confidence 9999998887 689999999999999999999999999999999999999999999999999999999999986
No 3
>PTZ00105 60S ribosomal protein L12; Provisional
Probab=100.00 E-value=8.5e-61 Score=373.90 Aligned_cols=140 Identities=72% Similarity=1.180 Sum_probs=134.2
Q ss_pred CCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEecCceEEEEeCCHHHHHHHHhCCCCcCccCccCcceeEee
Q 031086 26 SSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSAAALVIKALKEPERDRKKTKNIKHNGNI 105 (166)
Q Consensus 26 PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~drsf~~~v~Ppts~llkka~g~~~~~~~~~~~~~~~G~i 105 (166)
++|||+|||+|||+|+|||+||++| ++|+|++|||+||||||||+|++.||+|+||+|++|+..++++++++++++|+|
T Consensus 1 ~~lGPaLG~~GvNi~~fck~fN~~T-~~~~G~~vpV~Itv~drsf~~~v~Pp~s~ll~k~ag~~~~~~~~~~~~~~vG~i 79 (140)
T PTZ00105 1 SSLAPKVGPLGLSPKKVGDDIAKAT-KDWKGLKVTVKLTVQNRQATVEVVPTASSLLIKALKEPPRDRKKVKNIKHSGNL 79 (140)
T ss_pred CCCccccccCCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEECCEEEEEECCCHHHHHHHHhCCCCCCCCCCCcceeeeEe
Confidence 5899999999999999999999999 899999999999999999999889999999999999888887777644589999
Q ss_pred eHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhCceeeccCC
Q 031086 106 TLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITDGDVEIPLD 166 (166)
Q Consensus 106 tl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~G~~~~~~~ 166 (166)
|++||||||+.|++||++.+|+++||+|+||||||||+|+++||+|++++||+|+||||++
T Consensus 80 t~~qv~eIAk~K~~dl~~~~l~~a~k~V~GTarSmGi~V~gk~pkev~~~i~~G~~~~p~~ 140 (140)
T PTZ00105 80 TFDQVIKIARTMRPKSMAKTFKGTVKEVLGTCVSIGCTVDGESPRDIQEKINNGEIKVPES 140 (140)
T ss_pred eHHHHHHHHHHHHhhhCCCcHHHHHHHHHhhheeeeEEEECCCHHHHHHHHhCCCccCCCC
Confidence 9999999999999999999999999999999999999999999999999999999999985
No 4
>COG0080 RplK Ribosomal protein L11 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.9e-60 Score=368.72 Aligned_cols=138 Identities=38% Similarity=0.509 Sum_probs=134.0
Q ss_pred CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086 7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK 84 (166)
Q Consensus 7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk 84 (166)
++.+++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++++|++|||+|||| ||||+|++ +||+|+||+|
T Consensus 2 ~k~~~~ikl~v~aGkA~p~PpvGPALG~~Gvni~~f~k~fN~~T-~~~~G~~vPV~Itv~~drsftf~~ktPPas~LlkK 80 (141)
T COG0080 2 KKVVKIIKLQVPAGKANPSPPVGPALGQLGVNIMEFCKEFNAAT-KDEKGLPVPVVITVYEDRSFTFIVKTPPASALLKK 80 (141)
T ss_pred CccceEEEEEecccccCCCCCCCccccccCCCHHHHHHHHHHHh-hccCCCeeeEEEEEEcCCcEEEEECCCCHHHHHHH
Confidence 34789999999999999999999999999999999999999999 899999999999999 99999999 9999999999
Q ss_pred HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCC
Q 031086 85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGK 147 (166)
Q Consensus 85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~ 147 (166)
++|+.+|++++++ +++|+||++||+|||+.|++||++.+|++++|+|+||||||||+|+++
T Consensus 81 a~g~~~Gs~~p~k--~~vG~lt~~qv~eIA~~K~~dl~a~~l~aA~k~I~GTa~SMGv~Veg~ 141 (141)
T COG0080 81 AAGIEKGSGKPNK--NKVGKLTLAQVREIAKTKMPDLNAKDLEAAVKEILGTARSMGVTVEGK 141 (141)
T ss_pred HhCCCCCCCCCCc--ceeeeeeHHHHHHHHHHhhhhhhhHHHHHHHHHHhhhhhhceEEeecC
Confidence 9999999999987 799999999999999999999999999999999999999999999974
No 5
>TIGR01632 L11_bact 50S ribosomal protein L11. This model represents bacterial, chloroplast, and most mitochondrial forms of 50S ribosomal protein L11.
Probab=100.00 E-value=7.6e-60 Score=368.54 Aligned_cols=136 Identities=27% Similarity=0.369 Sum_probs=132.0
Q ss_pred CceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcc-cCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086 8 SQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKD-WKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK 84 (166)
Q Consensus 8 ~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~-~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk 84 (166)
++.++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++ |+|++|||+|+|| ||+|+|++ +||+||||+|
T Consensus 2 ~~~~~ikl~v~aG~A~p~PplGP~LG~~Gini~~f~k~fN~~T-~~~~~G~~vpV~Itv~~drsf~~~v~~Pp~s~ll~k 80 (140)
T TIGR01632 2 KIVGIIKLQVPAGQANPAPPVGPALGQRGVNIMEFCKQFNART-ADYEPGLPVPVVITVYEDKSFTFIVKTPPVSYLLKK 80 (140)
T ss_pred ceEEEEEEEEeccccCCCCCCcccccccCCCHHHHHHHHHHHH-hhhcCCCeEEEEEEEeCCCeEEEEEcCCCHHHHHHH
Confidence 4688999999999999999999999999999999999999999 88 7999999999999 99999999 9999999999
Q ss_pred HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086 85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG 146 (166)
Q Consensus 85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~ 146 (166)
++|+.+|++++++ +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|++
T Consensus 81 aag~~~gs~~p~~--~~~G~it~~qv~eIA~~K~~d~~~~~l~~~vk~v~GTarSmGi~V~~ 140 (140)
T TIGR01632 81 AAGVEKGSKNPKK--EKVGKITRKQVREIAEIKMSDLNTKDIEAAMKIIAGTAKSMGIEIVG 140 (140)
T ss_pred HhCCCCCCCCCCC--eEEeEecHHHHHHHHHHHHHHhCcccHHHHHHHhheeHeeceEEEeC
Confidence 9999999999988 68999999999999999999999999999999999999999999975
No 6
>PRK00140 rplK 50S ribosomal protein L11; Validated
Probab=100.00 E-value=7.4e-59 Score=363.32 Aligned_cols=137 Identities=28% Similarity=0.397 Sum_probs=132.9
Q ss_pred CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086 7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK 84 (166)
Q Consensus 7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk 84 (166)
++..++|+|+|+||+|+|+|||||+|||+|||+|+|||+||++| ++|+|++|||+|+|| ||+|+|++ +||+||||+|
T Consensus 3 k~~~~~ikl~v~aG~A~p~PplgP~LG~~Gini~~f~k~fN~~T-~~~~g~~vpV~i~v~~drsf~~~v~~Pp~s~ll~k 81 (141)
T PRK00140 3 KKVVGYIKLQIPAGKANPAPPVGPALGQRGVNIMEFCKAFNART-QDQKGLPIPVVITVYEDRSFTFITKTPPASVLLKK 81 (141)
T ss_pred cccceEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEecCCeEEEEEcCCCHHHHHHH
Confidence 45788999999999999999999999999999999999999999 999999999999999 99999999 9999999999
Q ss_pred HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086 85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG 146 (166)
Q Consensus 85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~ 146 (166)
++|+.+|++++++ +++|+||++||||||+.|++|+++.+|+++||+|+|||+||||+|++
T Consensus 82 ~~g~~~gs~~p~~--~~vG~it~~~v~eIA~~K~~d~~~~~l~~~vk~VlGTa~SmGi~V~g 141 (141)
T PRK00140 82 AAGIEKGSGEPNK--EKVGKITRAQVREIAETKMPDLNAADIEAAMRMIAGTARSMGIVVEG 141 (141)
T ss_pred HhCCCCCCCCCCC--eEEeeEcHHHHHHHHHHHHHhhCCCcHHHHHHHhheeeeEeeEEEeC
Confidence 9999999999988 79999999999999999999999999999999999999999999985
No 7
>CHL00127 rpl11 ribosomal protein L11; Validated
Probab=100.00 E-value=1.7e-58 Score=360.90 Aligned_cols=136 Identities=24% Similarity=0.376 Sum_probs=131.2
Q ss_pred CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086 7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK 84 (166)
Q Consensus 7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk 84 (166)
++..++|+|+|+||+|+|+|||||+|||+|||+|+||+|||++| ++|.|++|||+|+|| ||+|+|++ +||+||||+|
T Consensus 3 k~~~~~ikl~v~aG~A~p~PplGP~LG~~Gini~~f~k~fN~~T-~~~~g~~vpV~Itv~~drsf~~~v~~Pp~s~ll~k 81 (140)
T CHL00127 3 KKKLAIIKLALPAGKATPAPPVGPALGQHGVNINLFCKEYNART-KDKIGLIIPVEISVYEDKSYTFILKTPPASVLLAK 81 (140)
T ss_pred cccccEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHh-hhcCCCeEEEEEEEeCCceEEEEEcCCCHHHHHHH
Confidence 44678999999999999999999999999999999999999999 999999999999999 89999999 9999999999
Q ss_pred HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEec
Q 031086 85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD 145 (166)
Q Consensus 85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~ 145 (166)
++|+.+|+..+++ +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|.
T Consensus 82 a~gi~~gs~~p~~--~~~G~it~~~v~eIA~~K~~d~~~~~l~~~vk~v~GTa~SmGi~V~ 140 (140)
T CHL00127 82 AAGIKKGSGEPNK--KKVGSITIKQLEEIAQIKLPDLNTISLSKAIKIIEGTAKNMGISIK 140 (140)
T ss_pred HhCCCcCCCCCCC--eecceecHHHHHHHHHHHhhhhccccHHHHHHHhHeeheeceEEeC
Confidence 9999999988877 7999999999999999999999999999999999999999999983
No 8
>smart00649 RL11 Ribosomal protein L11/L12.
Probab=100.00 E-value=1e-57 Score=353.41 Aligned_cols=130 Identities=41% Similarity=0.594 Sum_probs=127.2
Q ss_pred EEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHHHhCCCC
Q 031086 13 VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIKALKEPE 90 (166)
Q Consensus 13 ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkka~g~~~ 90 (166)
|+|+|+||+|+|+|||||+|||+|||+|+||++||++| ++|+|++|||+|+|| ||||+|++ +||+||||+|++|+.+
T Consensus 1 ikl~v~aG~A~p~PplgP~LG~~Gini~~f~k~fN~~T-~~~~g~~vpV~I~v~~dksf~~~v~~P~~s~ll~k~~g~~k 79 (132)
T smart00649 1 IKLQIPAGKANPAPPLGPALGQLGINIMEFCKEFNART-KDKKGLPIPVKITVYNDKSFTFIIKTPPASFLLKKAAGIEK 79 (132)
T ss_pred CEEEEecCccCCCCCcccccccCCCCHHHHHHHHHHHH-hhcCCCeEeEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCC
Confidence 58999999999999999999999999999999999999 889999999999999 99999999 9999999999999999
Q ss_pred cCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEec
Q 031086 91 RDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD 145 (166)
Q Consensus 91 ~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~ 145 (166)
|++++++ +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|+
T Consensus 80 gs~~p~~--~~~g~it~~~v~eIA~~K~~d~~~~~l~~~~k~V~GTa~SmGi~V~ 132 (132)
T smart00649 80 GSKKPGK--KKVGNITLDQVYEIAKIKRPDLNAKDLEAAVKEILGTARSMGITVE 132 (132)
T ss_pred CCCCCCC--eeeeEEcHHHHHHHHHHHHHHhcchhHHHHHHHHHhhHhcceEEeC
Confidence 9999988 7999999999999999999999999999999999999999999986
No 9
>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=9e-57 Score=347.71 Aligned_cols=129 Identities=43% Similarity=0.604 Sum_probs=125.5
Q ss_pred EEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHHHhCCCC
Q 031086 13 VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIKALKEPE 90 (166)
Q Consensus 13 ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkka~g~~~ 90 (166)
|+|+|+||+|+|+|||||+|||+|||+|+||++||++| ++|+|++|||+|+|| ||+|+|++ +||+||||+|++|+.+
T Consensus 1 ikl~v~aG~A~p~PplgP~LG~~Gin~~~f~k~fN~~T-~~~~g~~vpV~itv~~dksf~~~v~~Pp~s~ll~ka~g~~k 79 (131)
T cd00349 1 IKLQVPAGKASPAPPLGPALGQLGVNIMKFCKEFNART-KDYKGLPVPVKITVYNDRSFTFEVKTPPASALLKKAAGIEK 79 (131)
T ss_pred CEEEEecCccCCCCCcccccccCCCCHHHHHHHHHHHH-hhcCCCeEEEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCC
Confidence 58999999999999999999999999999999999999 899999999999999 99999999 9999999999999999
Q ss_pred cCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEe
Q 031086 91 RDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTV 144 (166)
Q Consensus 91 ~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V 144 (166)
|+.++++ +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|
T Consensus 80 gs~~~~~--~~~g~it~~~v~eIA~~K~~dl~~~~l~~~vk~v~GTa~SmGi~V 131 (131)
T cd00349 80 GSKKPNK--EKVGNITLDQVYEIAKIKLPDLNAKTLKSAVKEILGTARSMGITV 131 (131)
T ss_pred CCCCCCC--eeeeeecHHHHHHHHHHHHhhhcchhHHHHHHHHHhhHhhCeEEC
Confidence 9988876 799999999999999999999999999999999999999999986
No 10
>PRK14539 50S ribosomal protein L11/unknown domain fusion protein; Provisional
Probab=100.00 E-value=7e-55 Score=355.54 Aligned_cols=135 Identities=23% Similarity=0.330 Sum_probs=129.1
Q ss_pred CCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086 7 PSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK 84 (166)
Q Consensus 7 ~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk 84 (166)
++..++|+|+|+||+|+| ||+|||+|||+|+||++||++| ++|.|++|||+|||| ||||+|++ +||+||||+|
T Consensus 4 kki~~~Ikl~v~AGkA~P----GPaLG~~GVNi~~FcKefN~~T-k~~~G~~VPV~ItV~~DRsf~f~vktPptS~LLkK 78 (196)
T PRK14539 4 KEVVKVAKLQFNAGQAKP----GPSLAGVGINMPEFTKQFNDAT-RDRGGEPVPVQITVYKDKSFDFKLFTAPASFKIKQ 78 (196)
T ss_pred chhheEEEEEEECCccCC----CCcccccCCCHHHHHHHHHHHh-hhcCCceEEEEEEEecCCeEEEEEeCCCHHHHHHH
Confidence 356889999999999999 5568899999999999999999 899999999999999 89999999 9999999999
Q ss_pred HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCC
Q 031086 85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKD 148 (166)
Q Consensus 85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~ 148 (166)
++|+.+|+++|++ +++|+||++||||||+.|++|+++.+|+++||+|+||||||||+|+++|
T Consensus 79 aagi~kGs~~p~k--~~vG~Itl~qv~eIAk~K~~Dl~~~~Le~avK~VlGTArSMGI~Veg~d 140 (196)
T PRK14539 79 AAKIKSGSANSKT--TIVGTITLSQLEEIAKYKLPDLNTDDVEEAMHTIAGTAKNMGVLVEGYD 140 (196)
T ss_pred HhCCCCCCCCCCC--eEEEEecHHHHHHHHHHHhhhhCCCcHHHHHHHHHhhheeCeEEEEccc
Confidence 9999999999988 6899999999999999999999999999999999999999999999976
No 11
>PTZ00321 ribosomal protein L11; Provisional
Probab=100.00 E-value=1.5e-54 Score=372.53 Aligned_cols=142 Identities=17% Similarity=0.274 Sum_probs=132.2
Q ss_pred CCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcc-c-CCceeEEEEEEe-cCceEEEE-eCCHHHH
Q 031086 6 DPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKD-W-KGLRVTVKLTVQ-NRQAKVAV-VPSAAAL 81 (166)
Q Consensus 6 ~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~-~-~g~~vpV~Itv~-drsf~~~v-~Ppts~l 81 (166)
.|++.+.|||+|+||+|+|+|||||+|||+|||||+|||+||++| ++ | .|++|||+|+|| ||||+|++ +||+|||
T Consensus 46 ~KkV~~~IKL~VpAGKAtPaPPVGPALGq~GVNImqFCKeFNerT-K~~fk~GvpVPV~ITVy~DKSF~F~IktPPtS~L 124 (342)
T PTZ00321 46 GKRVLHNWRFFIKAGKAATGPPVGQEFSKLGLKAMDFAKSFNDRT-KPHFKDDVELIVRIQVYFDKSYLFTIEPPPTAWF 124 (342)
T ss_pred CCeeeEEEEEEEECCCcCCCCCCcccccccCCCHHHHHHHHHHHH-HhhccCCCeEeEEEEEeCCCeEEEEECCCCHHHH
Confidence 367899999999999999999999999999999999999999999 76 5 799999999999 99999999 9999999
Q ss_pred HHHHhCCCCcCccCccCc-ceeEeeeHHHHHHHHHHhcccCCC---CChhhhhhhhhhcccceeeEecCCC
Q 031086 82 VIKALKEPERDRKKTKNI-KHNGNITLDDVIEIAKVMRPRSMA---KDLSGTVKEILGTCVSVGCTVDGKD 148 (166)
Q Consensus 82 lkka~g~~~~~~~~~~~~-~~~G~itl~~v~eIAk~K~~d~~~---~~l~~~~k~VlGTa~SmGi~V~~~~ 148 (166)
|+|++|+.+|+.+++++- +++|+||++||||||++|++|+++ .+|+++||+|+|||+||||+|+++|
T Consensus 125 LKKAAGI~KGS~~P~~~k~e~VG~ITlkQVyEIAkiK~~DLnal~~~~LesAvK~ViGTARSMGIkVeGKD 195 (342)
T PTZ00321 125 ILRALRKKRRETGPVPLRGHYCALMTLEMAYEIAKMKPRSWGRPEYPLIETRVRRVVGQARRMGVCFIGVD 195 (342)
T ss_pred HHHHhCCCCCCCCCCCCCCceEEeccHHHHHHHHHHhhhccccccccCHHHHHHHHHhhHhcCeEEEeccc
Confidence 999999999988874321 689999999999999999999775 7999999999999999999999864
No 12
>KOG3257 consensus Mitochondrial/chloroplast ribosomal protein L11 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.7e-51 Score=323.16 Aligned_cols=136 Identities=26% Similarity=0.379 Sum_probs=130.1
Q ss_pred CceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhccc-CCceeEEEEEEe-cCceEEEE-eCCHHHHHHH
Q 031086 8 SQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDW-KGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIK 84 (166)
Q Consensus 8 ~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~-~g~~vpV~Itv~-drsf~~~v-~Ppts~llkk 84 (166)
.....+||.++||.|.|+||+||+|||+|+|+++||||||++| ++| +|+|+|++||+. ||||+|++ +||+||||+|
T Consensus 17 ~h~~~ikl~v~Ag~A~~~pp~gP~Lgqr~l~viafckefnarT-~~~k~~vplp~kiTv~pDrsftf~iktPpts~lL~k 95 (168)
T KOG3257|consen 17 SHSASIKLIVKAGLAAPAPPLGPALGQRGLNVIAFCKEFNART-KKVKPGVPLPGKITVKPDRSFTFIIKTPPTSWLLKK 95 (168)
T ss_pred cceeEEEEeeccccccCCCCCCchhhhcchhHHHhchhhhhhh-ccccCCCccceeEeecCCCeEEEEecCCChHHHHHH
Confidence 3466899999999999999999999999999999999999999 886 799999999999 99999999 9999999999
Q ss_pred HhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCC--CCChhhhhhhhhhcccceeeEecC
Q 031086 85 ALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSM--AKDLSGTVKEILGTCVSVGCTVDG 146 (166)
Q Consensus 85 a~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~--~~~l~~~~k~VlGTa~SmGi~V~~ 146 (166)
|||+.+|+..|++ +.+|.||++||||||++|.+|.+ ..+|+++||+|+|||+||||+|+.
T Consensus 96 Aagv~KGs~~p~~--~~vG~lTlkhvyeIAkiK~~D~~~q~~~lesi~rsiigtA~smGIkVvp 157 (168)
T KOG3257|consen 96 AAGVEKGSKDPGQ--EKVGMLTLKHVYEIAKIKLPDPNLQCTTLESICRSIIGTARSMGIKVVP 157 (168)
T ss_pred HhCcccCCCCCcc--eeeeeEEHHHHHHHHHhhcCCcccccccHHHHHHHHHHHHHhCccccch
Confidence 9999999999987 79999999999999999999966 899999999999999999999987
No 13
>KOG0886 consensus 40S ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6e-44 Score=278.97 Aligned_cols=165 Identities=74% Similarity=1.191 Sum_probs=161.5
Q ss_pred CCC--CCCCCceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEecCceEEEEeCCH
Q 031086 1 MPP--KFDPSQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQNRQAKVAVVPSA 78 (166)
Q Consensus 1 m~~--k~~~~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~drsf~~~v~Ppt 78 (166)
||+ |||++++++++|++.||+...+..|+|.+||+|+.+..+.+++.++| +||+|+.|+|.++|+||...+++.|++
T Consensus 1 mp~~pkfdP~eiK~vylrc~GgEVgatsaLApKIgPLGLSpKkvGedIaKaT-~dwKgl~vtvkLtIqnR~A~i~VvpSa 79 (167)
T KOG0886|consen 1 MPPKPKFDPNEIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGEDIAKAT-GDWKGLRVTVKLTIQNRQAQIEVVPSA 79 (167)
T ss_pred CCCCCCCCccceEEEEEEeecCccccccccccccccccCCccccchHHHHhh-cccccceEEEEEEecCcccceEEcccH
Confidence 455 59999999999999999999999999999999999999999999999 999999999999999999999999999
Q ss_pred HHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEecCCChHhHHHhhhC
Q 031086 79 AALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITD 158 (166)
Q Consensus 79 s~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~ 158 (166)
|.||+|+++++++++++.+|+.|+|+|+++++.+||++..+.+.++.|.+++++|+|||+|+||+|+|++|++++++||+
T Consensus 80 saLiIkaLKEPpRDRKk~knikh~Gni~~deiv~iar~mr~rS~a~~l~gt~keilgt~~svgc~vDgk~Phdi~~~i~~ 159 (167)
T KOG0886|consen 80 SALIIKALKEPPRDRKKQKNIKHSGNITFDEIVEIARIMRPRSLARELSGTVKEILGTAQSVGCTVDGKHPHDIIDEINA 159 (167)
T ss_pred HHHHHHHhcCCcchhhhhccccccCcccHHHHHHHHHHhhhHhhhhhhhhhHHHHhchhhhcccccCCCChHHHHhhhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeeccCC
Q 031086 159 GDVEIPLD 166 (166)
Q Consensus 159 G~~~~~~~ 166 (166)
|+++||++
T Consensus 160 Geie~P~~ 167 (167)
T KOG0886|consen 160 GEIEIPAN 167 (167)
T ss_pred CceeCCCC
Confidence 99999985
No 14
>PF03946 Ribosomal_L11_N: Ribosomal protein L11, N-terminal domain; InterPro: IPR020784 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 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 bacteria, plant chloroplast, red algal chloroplast, cyanelle and archaeabacterial L11; and mammalian, plant and yeast L12 (YL15). 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.; PDB: 2ZJQ_F 2ZJP_F 3CF5_F 2WRJ_K 2WH4_K 2WRL_K 3FIN_L 2X9U_K 3I8I_L 2XUX_K ....
Probab=99.95 E-value=4.1e-28 Score=165.35 Aligned_cols=58 Identities=41% Similarity=0.693 Sum_probs=55.4
Q ss_pred EEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccC-CceeEEEEEEe-cCce
Q 031086 12 DVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWK-GLRVTVKLTVQ-NRQA 70 (166)
Q Consensus 12 ~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~-g~~vpV~Itv~-drsf 70 (166)
+|||+|+||+|+|+|||||+|||+|||+++||+|||++| ++|+ |++|||+|+|| ||||
T Consensus 1 ~i~l~v~aG~A~p~pplgp~LG~~Gin~~~f~k~fN~~T-~~~k~G~~v~V~i~v~~d~sf 60 (60)
T PF03946_consen 1 VIKLRVPAGKATPAPPLGPALGPLGINIKKFCKDFNKAT-KDYKPGIPVPVKITVYNDKSF 60 (60)
T ss_dssp EEEEEEETTSSSSTTTSTHHHHTTTS-HHHHHHHHHHHT-TTCTTSSEEEEEEEEETTSEE
T ss_pred CEEEEEecCcccCCCCcCcccccCCCCHHHHHHHHHHHH-hcccCCCEEEEEEEEeCCCCC
Confidence 589999999999999999999999999999999999999 9987 99999999999 9998
No 15
>PF00298 Ribosomal_L11: Ribosomal protein L11, RNA binding domain; InterPro: IPR020783 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 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 bacteria, plant chloroplast, red algal chloroplast, cyanelle and archaeabacterial L11; and mammalian, plant and yeast L12 (YL15). 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.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 1VQN_I 2OTJ_I 3G6E_I 3CME_I 1YIJ_I 1YI2_I 3G4S_I 3CMA_I 3I55_I 1VQ7_I ....
Probab=99.95 E-value=6.4e-28 Score=168.44 Aligned_cols=68 Identities=35% Similarity=0.450 Sum_probs=65.8
Q ss_pred eCCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHhcccCCCCChhhhhhhhhhcccceeeEe
Q 031086 75 VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTV 144 (166)
Q Consensus 75 ~Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V 144 (166)
+||+||||+|++|+.+|+.+|++ +++|+||++||||||++|++|+++.+|+++||+|+||||||||+|
T Consensus 2 ~Pp~s~llkkaagi~kGs~~p~~--~~vG~it~~~i~eIAk~K~~d~~~~~l~~~~k~v~Gta~SmGi~V 69 (69)
T PF00298_consen 2 TPPTSWLLKKAAGIKKGSSKPGK--EKVGTITLKQIYEIAKIKQKDLNAKSLESAVKSVIGTARSMGIKV 69 (69)
T ss_dssp SSTHHHHHHHHHTTSSSSSSTTT--SSSEEEEHHHHHHHHHHHTTTSSSSSHHHHHHHHHHHHHTTTEEE
T ss_pred CCChHHHHHHHhCCCCCCCCCCC--ceeeeecHHHHHHHHHHhhcccccCCHHHHHHHHHHHHhcCceEC
Confidence 69999999999999999999988 679999999999999999999999999999999999999999987
No 16
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=50.34 E-value=17 Score=24.94 Aligned_cols=28 Identities=21% Similarity=0.297 Sum_probs=23.9
Q ss_pred EEEEEEecCceEEEEeCCHHHHHHHHhC
Q 031086 60 TVKLTVQNRQAKVAVVPSAAALVIKALK 87 (166)
Q Consensus 60 pV~Itv~drsf~~~v~Ppts~llkka~g 87 (166)
.|+|+|.+++|.|.+++.--..+.+++.
T Consensus 1 ~V~v~I~G~~y~i~~~~~~ee~l~~~a~ 28 (89)
T PF05164_consen 1 QVKVTILGREYRIKCPDEDEEYLRKAAE 28 (89)
T ss_dssp -EEEEETTEEEEECETGCGHHHHHHHHH
T ss_pred CeEEEECCEEEEeecCCCCHHHHHHHHH
Confidence 3788999999999998888888888886
No 17
>COG0051 RpsJ Ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=42.93 E-value=4.6 Score=30.48 Aligned_cols=32 Identities=22% Similarity=0.280 Sum_probs=28.0
Q ss_pred HHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086 115 KVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG 146 (166)
Q Consensus 115 k~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~ 146 (166)
++++.......|+..|+.|.-||+.+|+.+-|
T Consensus 7 rI~L~s~d~~~LD~~~~~Ive~akrtg~~v~G 38 (104)
T COG0051 7 RIRLKSFDHRLLDQVCREIVETAKRTGADVKG 38 (104)
T ss_pred EEEEecCCHHHHHHHHHHHHHHHHHhCCeeeC
Confidence 45566677889999999999999999999987
No 18
>COG5106 RPF2 Uncharacterized conserved protein [Function unknown]
Probab=39.38 E-value=43 Score=29.32 Aligned_cols=66 Identities=20% Similarity=0.306 Sum_probs=42.5
Q ss_pred CCceeEEEE-EEe-cCc------------------eEEEE---eCCHHHHHHHHhCCCC-cCccCccCcc------eeEe
Q 031086 55 KGLRVTVKL-TVQ-NRQ------------------AKVAV---VPSAAALVIKALKEPE-RDRKKTKNIK------HNGN 104 (166)
Q Consensus 55 ~g~~vpV~I-tv~-drs------------------f~~~v---~Ppts~llkka~g~~~-~~~~~~~~~~------~~G~ 104 (166)
.+.|+|..+ .|| .++ .+|++ .|+.+.++++|+++++ ..++|.+|+. .+|.
T Consensus 191 d~~plp~v~fRVyk~k~~kt~~~lpr~elee~GPrldf~i~R~~~~s~d~~~ealkkPk~~e~KpkKNv~~di~gdkiGr 270 (316)
T COG5106 191 DTYPLPLVVFRVYKTKLLKTKTNLPRLELEECGPRLDFEIVRSYHCSDDLYKEALKKPKTQEPKPKKNVAKDIFGDKIGR 270 (316)
T ss_pred ccccccceeeeeeecccccccCCCCceehhhcccceeeEEEeecCCChHHHHHHhcCccccCCCcccchhhhhhhccccc
Confidence 467888555 787 452 34544 7999999999999987 5567766643 2566
Q ss_pred eeHH--HHHHHHHHhccc
Q 031086 105 ITLD--DVIEIAKVMRPR 120 (166)
Q Consensus 105 itl~--~v~eIAk~K~~d 120 (166)
|-++ ++-.+--.|+.-
T Consensus 271 iHidkQDLg~lqtrKmkG 288 (316)
T COG5106 271 IHIDKQDLGDLQTRKMKG 288 (316)
T ss_pred eeechhHhhhHHHHhhhc
Confidence 5443 445554444433
No 19
>PF03990 DUF348: Domain of unknown function (DUF348) ; InterPro: IPR007137 This domain normally occurs as tandem repeats; however it is found as a single copy in the Saccharomyces cerevisiae (Baker's yeast) DNA-binding nuclear protein YCR593 (P25357 from SWISSPROT).
Probab=32.86 E-value=65 Score=19.80 Aligned_cols=29 Identities=17% Similarity=0.220 Sum_probs=22.1
Q ss_pred EEEEEEecCceEEEE-eCCHHHHHHHHhCCC
Q 031086 60 TVKLTVQNRQAKVAV-VPSAAALVIKALKEP 89 (166)
Q Consensus 60 pV~Itv~drsf~~~v-~Ppts~llkka~g~~ 89 (166)
||.|++..++..+.. ..++..+|. .+|+.
T Consensus 1 ~Vtv~~dG~~~~v~T~a~tV~~~L~-~~gI~ 30 (43)
T PF03990_consen 1 PVTVTVDGKEKTVYTTASTVGDALK-ELGIT 30 (43)
T ss_pred CEEEEECCEEEEEEeCCCCHHHHHH-hCCCC
Confidence 578888888888877 777777775 56754
No 20
>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=30.13 E-value=25 Score=26.73 Aligned_cols=35 Identities=14% Similarity=0.177 Sum_probs=26.0
Q ss_pred EEEEeccccCCCCCCccccCCCCCChhhHHHHHHH
Q 031086 14 YVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAK 48 (166)
Q Consensus 14 kl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~ 48 (166)
|+.||.=+-+--.-+|-.|||.|-++.+.+++++.
T Consensus 3 ki~iP~~~~P~~N~IG~IIGPgG~tiK~i~~eTg~ 37 (120)
T cd02395 3 KVYIPVKQYPKYNFVGLILGPRGNTLKQLEKETGA 37 (120)
T ss_pred EEEcCcccCCCCCeeEEEECCCChHHHHHHHHHCC
Confidence 34555555444557899999999999999888763
No 21
>PF13817 DDE_Tnp_IS66_C: IS66 C-terminal element
Probab=27.53 E-value=29 Score=21.47 Aligned_cols=20 Identities=20% Similarity=0.526 Sum_probs=14.1
Q ss_pred hhhhcccceeeEecCCChHhHHHhh
Q 031086 132 EILGTCVSVGCTVDGKDPRDLQQEI 156 (166)
Q Consensus 132 ~VlGTa~SmGi~V~~~~p~e~~~~i 156 (166)
++++||+--|+ +|..|..++
T Consensus 1 SlieTcK~ngv-----~P~~yL~~v 20 (39)
T PF13817_consen 1 SLIETCKLNGV-----NPYAYLTDV 20 (39)
T ss_pred CHHHHHHHcCC-----CHHHHHHHH
Confidence 46888886665 677776654
No 22
>PF04316 FlgM: Anti-sigma-28 factor, FlgM; InterPro: IPR007412 FlgM binds and inhibits the activity of the transcription factor sigma 28. Inhibition of sigma 28 prevents the expression of genes from flagellar transcriptional class 3, which include genes for the filament and chemotaxis. Correctly assembled basal body-hook structures export FlgM, relieving inhibition of sigma 28 and allowing expression of class 3 genes. NMR studies show that free FlgM is mostly unfolded, which may facilitate its export. The C-terminal half of FlgM adopts a tertiary structure when it binds to sigma 28. All mutations in FlgM that prevent sigma 28 inhibition affect the C-terminal domain and is the region thought to constitute the binding domain. A minimal binding domain has been identified between Glu 64 and Arg 88 in Salmonella typhimurium (P26477 from SWISSPROT).The N-terminal portion remains unstructured and may be necessary for recognition by the export machinery [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0019861 flagellum; PDB: 1RP3_B 1SC5_B.
Probab=25.90 E-value=39 Score=22.04 Aligned_cols=17 Identities=12% Similarity=0.376 Sum_probs=10.4
Q ss_pred ChHhHHHhhhCceeecc
Q 031086 148 DPRDLQQEITDGDVEIP 164 (166)
Q Consensus 148 ~p~e~~~~i~~G~~~~~ 164 (166)
.-.++.+.|++|+|.|.
T Consensus 29 kV~~ik~~I~~G~Y~vd 45 (57)
T PF04316_consen 29 KVAEIKAAIASGTYKVD 45 (57)
T ss_dssp HHHHHHHHHHTT-----
T ss_pred HHHHHHHHHHcCCCCCC
Confidence 46789999999999875
No 23
>COG1437 CyaB Adenylate cyclase, class 2 (thermophilic) [Nucleotide transport and metabolism]
Probab=25.79 E-value=22 Score=29.19 Aligned_cols=98 Identities=23% Similarity=0.285 Sum_probs=64.7
Q ss_pred EEEEEe----cCc------eEEEE-eCCHHHHHHHHhCCCC-cCccCccCcceeE--eeeHHHHHHHHHHhc---ccCCC
Q 031086 61 VKLTVQ----NRQ------AKVAV-VPSAAALVIKALKEPE-RDRKKTKNIKHNG--NITLDDVIEIAKVMR---PRSMA 123 (166)
Q Consensus 61 V~Itv~----drs------f~~~v-~Ppts~llkka~g~~~-~~~~~~~~~~~~G--~itl~~v~eIAk~K~---~d~~~ 123 (166)
+.+|++ |+. +++++ -|+...-|.+.||... +.-++...+.+.| .|++++|-..-..-- ..-..
T Consensus 62 ~~lTYKgp~ld~~~k~r~E~E~~v~D~~~~~~il~~LGF~~~~~VkK~R~iY~~~~~~i~lD~VegLG~F~EIE~~~~d~ 141 (178)
T COG1437 62 VFLTYKGPKLDRESKTREEIEIEVSDVEKALEILKRLGFKEVAVVKKTREIYKVGNVTIELDAVEGLGDFLEIEVMVDDE 141 (178)
T ss_pred EEEEEecccccccccceeeEEEEeCCHHHHHHHHHHcCCceeeEEEEEEEEEeeCCEEEEEecccCCcccEEEEEecCCc
Confidence 667764 443 36667 7889999999999543 3333332223344 567777754222111 01244
Q ss_pred CChhhhhhhhhhcccceeeEecCCChHhHHHhhhC
Q 031086 124 KDLSGTVKEILGTCVSVGCTVDGKDPRDLQQEITD 158 (166)
Q Consensus 124 ~~l~~~~k~VlGTa~SmGi~V~~~~p~e~~~~i~~ 158 (166)
..+.++.+.+-..++++|+..++.-++.|+.-++.
T Consensus 142 ~e~~~~~~~~~~i~~~lGl~~~~~~r~sYlELl~~ 176 (178)
T COG1437 142 NEIDGAKEEIEEIARQLGLKEEDLERRSYLELLLE 176 (178)
T ss_pred hhhHHHHHHHHHHHHHhCCChhcccchhHHHHHhc
Confidence 66778889999999999999899899999887664
No 24
>PF03978 Borrelia_REV: Borrelia burgdorferi REV protein; InterPro: IPR007126 This family consists of several REV proteins from Borrelia burgdorferi (Lyme disease spirochete) and Borrelia garinii. The function of REV is unknown although it has been shown that the gene is induced during the ingesting of host blood suggesting a role in the metabolic activation of borreliae to adapt to physiological stimuli [].
Probab=25.58 E-value=53 Score=26.61 Aligned_cols=34 Identities=26% Similarity=0.154 Sum_probs=30.1
Q ss_pred HHHHHhcccCCCCChhhhhhhhhhcccceeeEec
Q 031086 112 EIAKVMRPRSMAKDLSGTVKEILGTCVSVGCTVD 145 (166)
Q Consensus 112 eIAk~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~ 145 (166)
+-|+.+..++...+.+..-..|.-+|+|.|++|.
T Consensus 94 KAak~~i~~~~d~d~~~~k~~Iw~eak~~Gv~vk 127 (160)
T PF03978_consen 94 KAAKQKIEGIQDKDQECAKAKIWTEAKLVGVTVK 127 (160)
T ss_pred HHHHHHhcchhhhhHHHHHHHHHHHHHhcCeeee
Confidence 3488888888888888889999999999999997
No 25
>KOG1088 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.32 E-value=33 Score=26.66 Aligned_cols=11 Identities=18% Similarity=0.631 Sum_probs=9.1
Q ss_pred hhhCceeeccC
Q 031086 155 EITDGDVEIPL 165 (166)
Q Consensus 155 ~i~~G~~~~~~ 165 (166)
+|.+|+..||+
T Consensus 93 ~v~EG~l~Cpe 103 (124)
T KOG1088|consen 93 DVIEGELVCPE 103 (124)
T ss_pred hhccceEecCC
Confidence 57789999987
No 26
>PF10941 DUF2620: Protein of unknown function DUF2620; InterPro: IPR021238 This is a bacterial family of proteins with unknown function.
Probab=23.18 E-value=61 Score=25.02 Aligned_cols=61 Identities=13% Similarity=0.413 Sum_probs=41.4
Q ss_pred eeEeeeHHHHHHHHHHhccc----CCCCChhhhhhhhh-------hc-------ccceeeEecC-------------CCh
Q 031086 101 HNGNITLDDVIEIAKVMRPR----SMAKDLSGTVKEIL-------GT-------CVSVGCTVDG-------------KDP 149 (166)
Q Consensus 101 ~~G~itl~~v~eIAk~K~~d----~~~~~l~~~~k~Vl-------GT-------a~SmGi~V~~-------------~~p 149 (166)
.-|.|.-+++.+..+...++ .-..||+++++.=- |+ |.+|-|-+.| .+.
T Consensus 5 igGql~K~ei~~~i~~~~~~~~ev~i~sDmeAAm~vK~G~aDYY~GACnTGgGgALamAIallG~~~C~Tvs~pg~~~~e 84 (117)
T PF10941_consen 5 IGGQLDKEEIAELIEKLGPGKVEVTIKSDMEAAMAVKSGQADYYLGACNTGGGGALAMAIALLGYGKCATVSMPGKIPSE 84 (117)
T ss_pred EccccCHHHHHHHHHHHCCCcEEEEEechHHHHHHhhcCCcCEeEeecCCCccHHHHHHHHHhCccceeEeecCCCCCCH
Confidence 45668888888888877766 34577888776532 33 3444333332 378
Q ss_pred HhHHHhhhCcee
Q 031086 150 RDLQQEITDGDV 161 (166)
Q Consensus 150 ~e~~~~i~~G~~ 161 (166)
+|+.+.|++|+.
T Consensus 85 eeI~~~v~~GK~ 96 (117)
T PF10941_consen 85 EEIRKEVAEGKK 96 (117)
T ss_pred HHHHHHHHcCCe
Confidence 999999999985
No 27
>TIGR01046 S10_Arc_S20_Euk ribosomal protein S10(archaeal)/S20(eukaryotic). its equivalents in eukaryotes.
Probab=22.84 E-value=17 Score=26.89 Aligned_cols=32 Identities=13% Similarity=0.243 Sum_probs=27.4
Q ss_pred HHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086 115 KVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG 146 (166)
Q Consensus 115 k~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~ 146 (166)
++++...+...|+.+|+.++-+|+.-|+.+.|
T Consensus 4 rI~L~S~d~~~Ld~~~~~I~~~ak~~g~~~~G 35 (99)
T TIGR01046 4 RIKLTSTNVRSLEKVCAQIKRIAEKTGVRMSG 35 (99)
T ss_pred EEEEEECCHHHHHHHHHHHHHHHHHcCCEEEC
Confidence 44556677788999999999999999999987
No 28
>PF12475 Amdo_NSP: Amdovirus non-structural protein ; InterPro: IPR020960 This domain family is found in viruses, and is approximately 50 amino acids in length. This family contains proteins of each of the three types of Amdovirus non-structural protein [].
Probab=21.86 E-value=49 Score=21.70 Aligned_cols=20 Identities=5% Similarity=-0.037 Sum_probs=13.7
Q ss_pred cCceEEEE-eCCHHHHHHHHh
Q 031086 67 NRQAKVAV-VPSAAALVIKAL 86 (166)
Q Consensus 67 drsf~~~v-~Ppts~llkka~ 86 (166)
|+.=+=.- +||.+|||++.-
T Consensus 3 Dkd~dPkd~t~sL~w~~k~~n 23 (48)
T PF12475_consen 3 DKDNDPKDVTKSLGWFLKTTN 23 (48)
T ss_pred CCCCCccccccchHHHHHHhh
Confidence 44444434 899999998764
No 29
>PHA02135 hypothetical protein
Probab=20.58 E-value=40 Score=25.70 Aligned_cols=19 Identities=21% Similarity=0.450 Sum_probs=15.1
Q ss_pred hHHHHHHHHhhcccCCceeE
Q 031086 41 KIGEDIAKETAKDWKGLRVT 60 (166)
Q Consensus 41 ~fck~fN~~T~~~~~g~~vp 60 (166)
.+.+.||+.| ++++|.-||
T Consensus 32 kvi~~fn~nt-~~~~~~~v~ 50 (122)
T PHA02135 32 KVISKFNDNT-SNYPGISVP 50 (122)
T ss_pred HHHHHhccCC-cCCCccccC
Confidence 4678999999 999886443
No 30
>CHL00135 rps10 ribosomal protein S10; Validated
Probab=20.53 E-value=20 Score=26.64 Aligned_cols=32 Identities=19% Similarity=0.209 Sum_probs=27.3
Q ss_pred HHhcccCCCCChhhhhhhhhhcccceeeEecC
Q 031086 115 KVMRPRSMAKDLSGTVKEILGTCVSVGCTVDG 146 (166)
Q Consensus 115 k~K~~d~~~~~l~~~~k~VlGTa~SmGi~V~~ 146 (166)
+++....+...|+.+|+.+.-+|+..|+.+.|
T Consensus 10 rI~LkS~d~~~L~~~~~~I~~~~k~~~~~~~G 41 (101)
T CHL00135 10 RIKLKSFNHELLNSSCKKIIDTASRTNATAVG 41 (101)
T ss_pred EEEEEECCHHHHHHHHHHHHHHHHHcCCeEeC
Confidence 44555677788999999999999999999887
No 31
>COG4953 PbpC Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]
Probab=20.32 E-value=87 Score=30.97 Aligned_cols=69 Identities=19% Similarity=0.254 Sum_probs=58.3
Q ss_pred EEEEEeccccCCCCCCccccCCCCCChhhHHHHHHHHhhcccCCceeEEEEEEe-cCceEEEE-eCCHHHHHHHHhC
Q 031086 13 VYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDWKGLRVTVKLTVQ-NRQAKVAV-VPSAAALVIKALK 87 (166)
Q Consensus 13 ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~~T~~~~~g~~vpV~Itv~-drsf~~~v-~Ppts~llkka~g 87 (166)
+.|..+.+. +|-|+=.||-.|++..|..+-|-..- ..|.+-|.+-+.. |+.-+-.+ .|.++|++...+.
T Consensus 417 ~~L~~P~~~---~~GLsLiLGg~gi~L~dLa~lYa~lA---n~G~~~~L~~~~~~~~~~~~~l~s~~Aaw~i~dIl~ 487 (733)
T COG4953 417 VHLYLPEGA---APGLSLILGGAGITLEDLAQLYAALA---NQGKAGPLRDTLDDDPLTERTLLSPGAAWQILDILS 487 (733)
T ss_pred CCCCCCCcc---CCCeeEEecCCcccHHHHHHHHHHHh---cCCceecccccCCCCCCCCccccCcchHHHHHHHHh
Confidence 366677776 46689999999999999999997665 4599999999998 78777877 9999999999885
No 32
>KOG1588 consensus RNA-binding protein Sam68 and related KH domain proteins [RNA processing and modification]
Probab=20.16 E-value=1.7e+02 Score=25.45 Aligned_cols=98 Identities=17% Similarity=0.142 Sum_probs=59.0
Q ss_pred CceEEEEEEEeccccCCCCCCccccCCCCCChhhHHHHHHH------------------Hhhc--ccC--CceeEEEEEE
Q 031086 8 SQVVDVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAK------------------ETAK--DWK--GLRVTVKLTV 65 (166)
Q Consensus 8 ~~~~~ikl~v~aG~A~p~PplGp~LG~~Gini~~fck~fN~------------------~T~~--~~~--g~~vpV~Itv 65 (166)
...-..|+.||-=+..-=-.||-.|||+|-.+.+++++--- .. . .|. ..++.|.|++
T Consensus 89 ~vk~~~Kv~vPv~~yP~fNFVGRILGPrGnSlkrLe~eTgCki~IrGrgSmrD~~KEE~lR-~~p~yeHL~epLHVlIe~ 167 (259)
T KOG1588|consen 89 PVKLTEKVLVPVKEYPKFNFVGRILGPRGNSLKRLEEETGCKIMIRGRGSMRDKAKEEELR-GDPGYEHLNEPLHVLIET 167 (259)
T ss_pred ceeEEEEEEeccCCCCCCccccccccCCcchHHHHHHHHCCeEEEecCCcccchHHHHHhh-cCcchHHhCCCcEEEEEE
Confidence 34556788888777666668999999999999999987521 11 1 122 4578888876
Q ss_pred ecCceEEEE-eCCHHHHHHHHhCCCCcCccCccCcceeEeeeHHHHHHHHHHh
Q 031086 66 QNRQAKVAV-VPSAAALVIKALKEPERDRKKTKNIKHNGNITLDDVIEIAKVM 117 (166)
Q Consensus 66 ~drsf~~~v-~Ppts~llkka~g~~~~~~~~~~~~~~~G~itl~~v~eIAk~K 117 (166)
.+-...... .--+-.-|++.| .| .+.+.+..+|+.|.|..=
T Consensus 168 ~~p~~ea~~rl~~AleeI~klL-------~P----~~e~~dk~~QL~ELa~ln 209 (259)
T KOG1588|consen 168 EAPPAEAYARLAYALEEIKKLL-------VP----DHEDEDKREQLRELAILN 209 (259)
T ss_pred eCCHHHHHHHHHHHHHHHHHhc-------CC----CCCCchHHHHHHHHhhcC
Confidence 521111111 111222233333 23 234566899999999853
Done!