Query psy39
Match_columns 195
No_of_seqs 103 out of 1017
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 20:16:18 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy39.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/39hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK01143 rpl11p 50S ribosomal 100.0 2.5E-61 5.5E-66 396.2 16.2 151 20-173 3-162 (163)
2 TIGR01632 L11_bact 50S ribosom 100.0 2.3E-59 5.1E-64 376.4 15.2 136 20-157 5-140 (140)
3 COG0080 RplK Ribosomal protein 100.0 8.3E-59 1.8E-63 371.9 15.0 135 20-157 6-140 (141)
4 CHL00127 rpl11 ribosomal prote 100.0 4.3E-58 9.4E-63 369.1 14.8 134 20-156 7-140 (140)
5 PRK00140 rplK 50S ribosomal pr 100.0 4.7E-58 1E-62 369.2 15.0 135 20-157 7-141 (141)
6 PRK14539 50S ribosomal protein 100.0 2.8E-57 6.2E-62 380.4 18.9 153 20-185 8-160 (196)
7 smart00649 RL11 Ribosomal prot 100.0 3.8E-57 8.2E-62 360.3 14.3 132 22-156 1-132 (132)
8 cd00349 Ribosomal_L11 Ribosoma 100.0 9.8E-57 2.1E-61 357.5 14.0 131 22-155 1-131 (131)
9 KOG3257|consensus 100.0 9.3E-57 2E-61 365.5 13.7 154 1-157 1-157 (168)
10 PTZ00321 ribosomal protein L11 100.0 2E-55 4.3E-60 389.2 20.3 163 16-178 46-224 (342)
11 PLN03072 60S ribosomal protein 100.0 5.7E-56 1.2E-60 365.3 13.1 141 20-165 11-162 (166)
12 PTZ00105 60S ribosomal protein 100.0 5.5E-50 1.2E-54 322.1 11.6 126 35-165 1-136 (140)
13 PF00298 Ribosomal_L11: Riboso 100.0 9.7E-29 2.1E-33 177.6 8.0 69 85-155 1-69 (69)
14 KOG0886|consensus 99.9 8.5E-28 1.8E-32 193.8 9.3 135 18-157 11-147 (167)
15 PF03946 Ribosomal_L11_N: Ribo 99.9 5.6E-28 1.2E-32 169.5 6.1 60 21-80 1-60 (60)
16 KOG0455|consensus 89.0 2.8 6.1E-05 38.1 8.6 121 44-195 151-292 (364)
17 cd03407 Band_7_4 A subgroup of 81.8 16 0.00034 31.6 9.7 52 109-170 95-151 (262)
18 cd03401 Band_7_prohibitin Band 55.0 71 0.0015 25.7 7.4 77 109-195 104-191 (196)
19 PF03990 DUF348: Domain of unk 43.5 70 0.0015 20.3 4.5 35 69-105 1-35 (43)
20 PRK05424 rplA 50S ribosomal pr 41.2 27 0.00058 30.3 3.0 30 36-65 125-158 (230)
21 PF12848 ABC_tran_2: ABC trans 40.2 47 0.001 23.4 3.7 25 160-184 11-35 (85)
22 PLN00122 serine/threonine prot 38.1 83 0.0018 26.4 5.3 31 157-188 124-154 (170)
23 cd03404 Band_7_HflK Band_7_Hfl 37.6 1.2E+02 0.0026 25.9 6.4 20 150-169 159-183 (266)
24 PF03978 Borrelia_REV: Borreli 37.6 1.4E+02 0.003 25.1 6.4 50 120-171 93-144 (160)
25 COG4953 PbpC Membrane carboxyp 36.6 40 0.00086 34.3 3.6 75 22-102 417-491 (733)
26 cd06562 GH20_HexA_HexB-like Be 36.5 2.2E+02 0.0048 25.8 8.3 87 49-172 17-104 (348)
27 cd02395 SF1_like-KH Splicing f 33.8 37 0.00079 26.7 2.4 35 24-58 4-38 (120)
28 COG0051 RpsJ Ribosomal protein 32.6 20 0.00044 27.9 0.8 25 132-156 13-37 (104)
29 CHL00129 rpl1 ribosomal protei 32.6 34 0.00073 29.8 2.2 30 36-65 125-158 (229)
30 PF04431 Pec_lyase_N: Pectate 31.7 62 0.0014 22.5 3.0 19 162-180 3-21 (56)
31 PHA00729 NTP-binding motif con 30.9 3.6E+02 0.0078 23.5 8.5 94 78-184 118-214 (226)
32 COG4816 EutL Ethanolamine util 30.7 1.2E+02 0.0027 26.2 5.2 75 26-104 69-147 (219)
33 PRK10930 FtsH protease regulat 28.0 1.6E+02 0.0034 28.0 6.0 13 109-121 194-206 (419)
34 PHA01929 putative scaffolding 25.9 1.8E+02 0.0039 26.6 5.6 39 133-171 228-282 (306)
35 PF05164 ZapA: Cell division p 25.2 90 0.0019 22.0 3.1 27 69-97 1-27 (89)
36 PF13184 KH_5: NusA-like KH do 22.5 48 0.001 23.5 1.1 34 22-56 5-38 (69)
37 PF08671 SinI: Anti-repressor 22.5 68 0.0015 19.6 1.6 21 143-169 7-27 (30)
38 cd04770 HTH_HMRTR Helix-Turn-H 22.0 2.3E+02 0.0051 21.3 5.0 63 112-186 40-102 (123)
39 cd00225 API3 Ascaris pepsin in 21.8 2.8E+02 0.0061 23.2 5.6 20 149-168 10-40 (159)
40 COG0081 RplA Ribosomal protein 21.8 64 0.0014 28.4 2.0 45 37-84 128-176 (228)
41 cd04782 HTH_BltR Helix-Turn-He 21.7 1.6E+02 0.0034 21.7 3.9 57 114-184 39-95 (97)
42 PRK04053 rps13p 30S ribosomal 21.3 1.8E+02 0.004 23.8 4.5 37 86-128 34-70 (149)
43 TIGR02612 mob_myst_A mobile my 20.8 1.9E+02 0.0041 23.6 4.5 60 111-171 64-135 (150)
44 cd03405 Band_7_HflC Band_7_Hfl 20.0 3.8E+02 0.0082 22.3 6.3 22 147-168 132-158 (242)
No 1
>PRK01143 rpl11p 50S ribosomal protein L11P; Validated
Probab=100.00 E-value=2.5e-61 Score=396.21 Aligned_cols=151 Identities=31% Similarity=0.653 Sum_probs=146.8
Q ss_pred eEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEE-cCCCceEEEEeCCCHHHHHHHHhC
Q psy39 20 RMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKV-NPDRSYKLIIHKPPTSYYLKQAAG 98 (195)
Q Consensus 20 ~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v-~~Drsf~~~i~~Ppts~Likkaag 98 (195)
++|+|+|+||+|+|+|||||+|||+|||+|+||++||++|++| .|++|||+|+| |+||+|+|++++||+||||+|++|
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 KVVEVLVEGGKATPGPPLGPALGPLGLNVKQVVQEINEKTKDF-KGMQVPVKVIVDTDTKKFEIEVGIPPTTALIKKELG 81 (163)
T ss_pred eEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHhhhc-CCCeEeEEEEEEeCCceEEEEECCCCHHHHHHHHhC
Confidence 5799999999999999999999999999999999999999999 79999999999 999999999999999999999999
Q ss_pred CCCCCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEe--------ccCChHHHHHHHHH
Q psy39 99 MAKGVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVV--------DKLDAEEYQQFLEE 170 (195)
Q Consensus 99 i~kgs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~--------~~id~gey~~~l~~ 170 (195)
+++||++|+++++|+||++||||||+.|++| +++.+|+++||+|+||||||||+|+ ++||+|+||+||++
T Consensus 82 ~~kgs~~p~~~~vG~It~~qv~eIA~~K~~d--~~~~~l~~~vk~VlGTarSmGi~V~g~~pkev~~~i~~g~~~~~~~~ 159 (163)
T PRK01143 82 IEKGSGEPGHEVVGNLSFEQVVKIAIMKKDD--LLSYDLKAAVKEVLGTCVSMGVTVEGKDPKEVQKEVDEGKYDDLLAK 159 (163)
T ss_pred CcCCCCCCCCceeeeecHHHHHHHHHHHhhh--hccccHHHHHHHHHhhHhhceEEEecCCHHHHHHHcCcccHHHHHHH
Confidence 9999999999999999999999999999999 7899999999999999999999994 78999999999999
Q ss_pred HHH
Q psy39 171 RKI 173 (195)
Q Consensus 171 ~~~ 173 (195)
||+
T Consensus 160 ~~~ 162 (163)
T PRK01143 160 YEK 162 (163)
T ss_pred hhc
Confidence 864
No 2
>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=2.3e-59 Score=376.41 Aligned_cols=136 Identities=48% Similarity=0.858 Sum_probs=133.1
Q ss_pred eEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCC
Q psy39 20 RMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGM 99 (195)
Q Consensus 20 ~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi 99 (195)
++|+|+|+||+|+|+|||||+|||+|||+|+||++||++|++|.+|++|||+|+||+||+|+|++++||+||||+|++|+
T Consensus 5 ~~ikl~v~aG~A~p~PplGP~LG~~Gini~~f~k~fN~~T~~~~~G~~vpV~Itv~~drsf~~~v~~Pp~s~ll~kaag~ 84 (140)
T TIGR01632 5 GIIKLQVPAGQANPAPPVGPALGQRGVNIMEFCKQFNARTADYEPGLPVPVVITVYEDKSFTFIVKTPPVSYLLKKAAGV 84 (140)
T ss_pred EEEEEEEeccccCCCCCCcccccccCCCHHHHHHHHHHHHhhhcCCCeEEEEEEEeCCCeEEEEEcCCCHHHHHHHHhCC
Confidence 89999999999999999999999999999999999999999966899999999999999999999999999999999999
Q ss_pred CCCCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEec
Q psy39 100 AKGVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVVD 157 (195)
Q Consensus 100 ~kgs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~~ 157 (195)
++||++|+++++|+||++||||||++|++| +++.+|+++||+|+||||||||+|++
T Consensus 85 ~~gs~~p~~~~~G~it~~qv~eIA~~K~~d--~~~~~l~~~vk~v~GTarSmGi~V~~ 140 (140)
T TIGR01632 85 EKGSKNPKKEKVGKITRKQVREIAEIKMSD--LNTKDIEAAMKIIAGTAKSMGIEIVG 140 (140)
T ss_pred CCCCCCCCCeEEeEecHHHHHHHHHHHHHH--hCcccHHHHHHHhheeHeeceEEEeC
Confidence 999999999999999999999999999999 88999999999999999999999964
No 3
>COG0080 RplK Ribosomal protein L11 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.3e-59 Score=371.89 Aligned_cols=135 Identities=49% Similarity=0.841 Sum_probs=133.1
Q ss_pred eEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCC
Q psy39 20 RMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGM 99 (195)
Q Consensus 20 ~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi 99 (195)
.+|+|+++||+|+|+|||||+|||+|||+|+|||+||++|+++ +|++|||.|+||+||||+|++++||+|+||+|++|+
T Consensus 6 ~~ikl~v~aGkA~p~PpvGPALG~~Gvni~~f~k~fN~~T~~~-~G~~vPV~Itv~~drsftf~~ktPPas~LlkKa~g~ 84 (141)
T COG0080 6 KIIKLQVPAGKANPSPPVGPALGQLGVNIMEFCKEFNAATKDE-KGLPVPVVITVYEDRSFTFIVKTPPASALLKKAAGI 84 (141)
T ss_pred eEEEEEecccccCCCCCCCccccccCCCHHHHHHHHHHHhhcc-CCCeeeEEEEEEcCCcEEEEECCCCHHHHHHHHhCC
Confidence 8999999999999999999999999999999999999999996 899999999999999999999999999999999999
Q ss_pred CCCCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEec
Q psy39 100 AKGVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVVD 157 (195)
Q Consensus 100 ~kgs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~~ 157 (195)
++||++|+++++|+||++||+|||+.|++| |++.+|++++|+|+||||||||+|++
T Consensus 85 ~~Gs~~p~k~~vG~lt~~qv~eIA~~K~~d--l~a~~l~aA~k~I~GTa~SMGv~Veg 140 (141)
T COG0080 85 EKGSGKPNKNKVGKLTLAQVREIAKTKMPD--LNAKDLEAAVKEILGTARSMGVTVEG 140 (141)
T ss_pred CCCCCCCCcceeeeeeHHHHHHHHHHhhhh--hhhHHHHHHHHHHhhhhhhceEEeec
Confidence 999999999999999999999999999999 88999999999999999999999986
No 4
>CHL00127 rpl11 ribosomal protein L11; Validated
Probab=100.00 E-value=4.3e-58 Score=369.06 Aligned_cols=134 Identities=43% Similarity=0.764 Sum_probs=131.7
Q ss_pred eEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCC
Q psy39 20 RMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGM 99 (195)
Q Consensus 20 ~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi 99 (195)
.+|+|+++||+|+|+|||||+|||+|||+|+||++||++|++| .|++|||+|+||+||+|+|++++||+||||+|++|+
T Consensus 7 ~~ikl~v~aG~A~p~PplGP~LG~~Gini~~f~k~fN~~T~~~-~g~~vpV~Itv~~drsf~~~v~~Pp~s~ll~ka~gi 85 (140)
T CHL00127 7 AIIKLALPAGKATPAPPVGPALGQHGVNINLFCKEYNARTKDK-IGLIIPVEISVYEDKSYTFILKTPPASVLLAKAAGI 85 (140)
T ss_pred cEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHhhhc-CCCeEEEEEEEeCCceEEEEEcCCCHHHHHHHHhCC
Confidence 7999999999999999999999999999999999999999998 799999999999999999999999999999999999
Q ss_pred CCCCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEe
Q psy39 100 AKGVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVV 156 (195)
Q Consensus 100 ~kgs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~ 156 (195)
++||++|+++++|+||++||||||+.|++| +++.+|+++||+|+||||||||+|.
T Consensus 86 ~~gs~~p~~~~~G~it~~~v~eIA~~K~~d--~~~~~l~~~vk~v~GTa~SmGi~V~ 140 (140)
T CHL00127 86 KKGSGEPNKKKVGSITIKQLEEIAQIKLPD--LNTISLSKAIKIIEGTAKNMGISIK 140 (140)
T ss_pred CcCCCCCCCeecceecHHHHHHHHHHHhhh--hccccHHHHHHHhHeeheeceEEeC
Confidence 999999999999999999999999999999 8899999999999999999999983
No 5
>PRK00140 rplK 50S ribosomal protein L11; Validated
Probab=100.00 E-value=4.7e-58 Score=369.18 Aligned_cols=135 Identities=47% Similarity=0.794 Sum_probs=132.7
Q ss_pred eEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCC
Q psy39 20 RMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGM 99 (195)
Q Consensus 20 ~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi 99 (195)
++|+|+++||+|+|+|||||+|||+|||+|+||++||++|++| +|++|||+|+||+||+|+|++++||+||||++++|+
T Consensus 7 ~~ikl~v~aG~A~p~PplgP~LG~~Gini~~f~k~fN~~T~~~-~g~~vpV~i~v~~drsf~~~v~~Pp~s~ll~k~~g~ 85 (141)
T PRK00140 7 GYIKLQIPAGKANPAPPVGPALGQRGVNIMEFCKAFNARTQDQ-KGLPIPVVITVYEDRSFTFITKTPPASVLLKKAAGI 85 (141)
T ss_pred eEEEEEEecCccCCCCCCcccccccCCCHHHHHHHHHHHHhhc-CCCeEEEEEEEecCCeEEEEEcCCCHHHHHHHHhCC
Confidence 7899999999999999999999999999999999999999999 899999999999999999999999999999999999
Q ss_pred CCCCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEec
Q psy39 100 AKGVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVVD 157 (195)
Q Consensus 100 ~kgs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~~ 157 (195)
++||++|+++++|+||++||||||+.|++| +++.+|+++||+|+|||+||||+|++
T Consensus 86 ~~gs~~p~~~~vG~it~~~v~eIA~~K~~d--~~~~~l~~~vk~VlGTa~SmGi~V~g 141 (141)
T PRK00140 86 EKGSGEPNKEKVGKITRAQVREIAETKMPD--LNAADIEAAMRMIAGTARSMGIVVEG 141 (141)
T ss_pred CCCCCCCCCeEEeeEcHHHHHHHHHHHHHh--hCCCcHHHHHHHhheeeeEeeEEEeC
Confidence 999999999999999999999999999999 88999999999999999999999974
No 6
>PRK14539 50S ribosomal protein L11/unknown domain fusion protein; Provisional
Probab=100.00 E-value=2.8e-57 Score=380.43 Aligned_cols=153 Identities=31% Similarity=0.541 Sum_probs=144.8
Q ss_pred eEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCC
Q psy39 20 RMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGM 99 (195)
Q Consensus 20 ~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi 99 (195)
++|+|+|+||+|+| ||.|||+|||+|+||++||++|++| .|+||||+|+||+||+|+|++++||+||||+|++|+
T Consensus 8 ~~Ikl~v~AGkA~P----GPaLG~~GVNi~~FcKefN~~Tk~~-~G~~VPV~ItV~~DRsf~f~vktPptS~LLkKaagi 82 (196)
T PRK14539 8 KVAKLQFNAGQAKP----GPSLAGVGINMPEFTKQFNDATRDR-GGEPVPVQITVYKDKSFDFKLFTAPASFKIKQAAKI 82 (196)
T ss_pred eEEEEEEECCccCC----CCcccccCCCHHHHHHHHHHHhhhc-CCceEEEEEEEecCCeEEEEEeCCCHHHHHHHHhCC
Confidence 89999999999999 5567899999999999999999998 899999999999999999999999999999999999
Q ss_pred CCCCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEeccCChHHHHHHHHHHHHHHHHHH
Q psy39 100 AKGVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVVDKLDAEEYQQFLEERKIIVAEQK 179 (195)
Q Consensus 100 ~kgs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~~~id~gey~~~l~~~~~~~~~~~ 179 (195)
++||++|+++++|+||++||||||++|++| +++.+|+++||+|+||||||||+|++ ||+|+++|+++..+..
T Consensus 83 ~kGs~~p~k~~vG~Itl~qv~eIAk~K~~D--l~~~~Le~avK~VlGTArSMGI~Veg------~d~~~~~~~~~~~~~~ 154 (196)
T PRK14539 83 KSGSANSKTTIVGTITLSQLEEIAKYKLPD--LNTDDVEEAMHTIAGTAKNMGVLVEG------YDDVVKAKEEAKAAAK 154 (196)
T ss_pred CCCCCCCCCeEEEEecHHHHHHHHHHHhhh--hCCCcHHHHHHHHHhhheeCeEEEEc------ccHHHHhHHHHHHHHH
Confidence 999999999999999999999999999999 78999999999999999999999964 9999999999988777
Q ss_pred HHHHHH
Q psy39 180 KELEEA 185 (195)
Q Consensus 180 ~~~~~~ 185 (195)
+++.++
T Consensus 155 ~~~~~~ 160 (196)
T PRK14539 155 AAALAK 160 (196)
T ss_pred HHHHHH
Confidence 665553
No 7
>smart00649 RL11 Ribosomal protein L11/L12.
Probab=100.00 E-value=3.8e-57 Score=360.30 Aligned_cols=132 Identities=52% Similarity=0.948 Sum_probs=129.4
Q ss_pred EEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCCCC
Q psy39 22 IRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGMAK 101 (195)
Q Consensus 22 ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi~k 101 (195)
|+|+|+||+|+|+|||||+|||+|||+|+||++||++|++| .|++|||+|+||+||+|+|++++||+||||++++|+++
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 IKLQIPAGKANPAPPLGPALGQLGINIMEFCKEFNARTKDK-KGLPIPVKITVYNDKSFTFIIKTPPASFLLKKAAGIEK 79 (132)
T ss_pred CEEEEecCccCCCCCcccccccCCCCHHHHHHHHHHHHhhc-CCCeEeEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCC
Confidence 58999999999999999999999999999999999999998 79999999999999999999999999999999999999
Q ss_pred CCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEe
Q psy39 102 GVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVV 156 (195)
Q Consensus 102 gs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~ 156 (195)
||++|+++++|+||++||||||++|++| +++.+|+++||+|+|||+||||+|+
T Consensus 80 gs~~p~~~~~g~it~~~v~eIA~~K~~d--~~~~~l~~~~k~V~GTa~SmGi~V~ 132 (132)
T smart00649 80 GSKKPGKKKVGNITLDQVYEIAKIKRPD--LNAKDLEAAVKEILGTARSMGITVE 132 (132)
T ss_pred CCCCCCCeeeeEEcHHHHHHHHHHHHHH--hcchhHHHHHHHHHhhHhcceEEeC
Confidence 9999999999999999999999999999 8899999999999999999999985
No 8
>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=9.8e-57 Score=357.51 Aligned_cols=131 Identities=53% Similarity=0.919 Sum_probs=128.9
Q ss_pred EEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCCCC
Q psy39 22 IRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGMAK 101 (195)
Q Consensus 22 ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi~k 101 (195)
|+|+|+||+|+|+|||||+|||+|||+|+||++||++|++| +|++|||+|+||+||+|+|++++||+||||+|++|+++
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 IKLQVPAGKASPAPPLGPALGQLGVNIMKFCKEFNARTKDY-KGLPVPVKITVYNDRSFTFEVKTPPASALLKKAAGIEK 79 (131)
T ss_pred CEEEEecCccCCCCCcccccccCCCCHHHHHHHHHHHHhhc-CCCeEEEEEEEeCCCeEEEEEcCCCHHHHHHHHhCCCC
Confidence 58999999999999999999999999999999999999999 89999999999999999999999999999999999999
Q ss_pred CCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEE
Q psy39 102 GVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEV 155 (195)
Q Consensus 102 gs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V 155 (195)
|+++|+++++|+||++||||||+.|++| +++.+|+++||+|+|||+||||+|
T Consensus 80 gs~~~~~~~~g~it~~~v~eIA~~K~~d--l~~~~l~~~vk~v~GTa~SmGi~V 131 (131)
T cd00349 80 GSKKPNKEKVGNITLDQVYEIAKIKLPD--LNAKTLKSAVKEILGTARSMGITV 131 (131)
T ss_pred CCCCCCCeeeeeecHHHHHHHHHHHHhh--hcchhHHHHHHHHHhhHhhCeEEC
Confidence 9999999999999999999999999999 889999999999999999999986
No 9
>KOG3257|consensus
Probab=100.00 E-value=9.3e-57 Score=365.49 Aligned_cols=154 Identities=54% Similarity=0.965 Sum_probs=144.0
Q ss_pred CcccchhhHHhhhhhhcce---eEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCC
Q psy39 1 MSKAGKVFSKNVKKAVDNF---RMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPD 77 (195)
Q Consensus 1 m~~~~~~~~~~~~k~~kkv---~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~D 77 (195)
||+++.. . + +++..++ ..+|+.++||.|.|+||+||+|||+|+|+++||++||++|++|++|+|+|++|+|.+|
T Consensus 1 ~Sk~~~~-~-~-~~~~~k~~h~~~ikl~v~Ag~A~~~pp~gP~Lgqr~l~viafckefnarT~~~k~~vplp~kiTv~pD 77 (168)
T KOG3257|consen 1 LSKLASA-T-S-KHPISKLSHSASIKLIVKAGLAAPAPPLGPALGQRGLNVIAFCKEFNARTKKVKPGVPLPGKITVKPD 77 (168)
T ss_pred Cchhhhh-h-c-cCccccccceeEEEEeeccccccCCCCCCchhhhcchhHHHhchhhhhhhccccCCCccceeEeecCC
Confidence 5665552 1 1 4555555 8899999999999999999999999999999999999999999999999999999999
Q ss_pred CceEEEEeCCCHHHHHHHHhCCCCCCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEec
Q psy39 78 RSYKLIIHKPPTSYYLKQAAGMAKGVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVVD 157 (195)
Q Consensus 78 rsf~~~i~~Ppts~Likkaagi~kgs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~~ 157 (195)
|||+|++++||+||||+||||+++|+.+|+++.+|.||++||||||++|.+|+++...+|+++||+|+|||+||||.|+.
T Consensus 78 rsftf~iktPpts~lL~kAagv~KGs~~p~~~~vG~lTlkhvyeIAkiK~~D~~~q~~~lesi~rsiigtA~smGIkVvp 157 (168)
T KOG3257|consen 78 RSFTFIIKTPPTSWLLKKAAGVEKGSKDPGQEKVGMLTLKHVYEIAKIKLPDPNLQCTTLESICRSIIGTARSMGIKVVP 157 (168)
T ss_pred CeEEEEecCCChHHHHHHHhCcccCCCCCcceeeeeEEHHHHHHHHHhhcCCcccccccHHHHHHHHHHHHHhCccccch
Confidence 99999999999999999999999999999999999999999999999999999888999999999999999999999887
No 10
>PTZ00321 ribosomal protein L11; Provisional
Probab=100.00 E-value=2e-55 Score=389.16 Aligned_cols=163 Identities=30% Similarity=0.472 Sum_probs=147.2
Q ss_pred hcce-eEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhC-ccCCCCeeEEEEEcCCCceEEEEeCCCHHHHH
Q psy39 16 VDNF-RMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKD-LKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYL 93 (195)
Q Consensus 16 ~kkv-~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~-~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Li 93 (195)
-|+| +.|+|+|+||+|+|+|||||+|||+|||||+|||+||++|++ |+.|++|||+|+||+||||+|+|++||+||||
T Consensus 46 ~KkV~~~IKL~VpAGKAtPaPPVGPALGq~GVNImqFCKeFNerTK~~fk~GvpVPV~ITVy~DKSF~F~IktPPtS~LL 125 (342)
T PTZ00321 46 GKRVLHNWRFFIKAGKAATGPPVGQEFSKLGLKAMDFAKSFNDRTKPHFKDDVELIVRIQVYFDKSYLFTIEPPPTAWFI 125 (342)
T ss_pred CCeeeEEEEEEEECCCcCCCCCCcccccccCCCHHHHHHHHHHHHHhhccCCCeEeEEEEEeCCCeEEEEECCCCHHHHH
Confidence 5666 999999999999999999999999999999999999999998 78899999999999999999999999999999
Q ss_pred HHHhCCCCCCCCC--CC-eeeccccHHHHHHHHHHhccCcc-cccccHHHHHHHHHHhhhccCeEEe----------ccC
Q psy39 94 KQAAGMAKGVMKP--GK-EIGGKLTLKHIYEIAKIKSEDSA-FECETLEYICTSVIGSARSVGIEVV----------DKL 159 (195)
Q Consensus 94 kkaagi~kgs~~p--~~-~~~G~Itl~~v~eIAk~K~~d~~-l~~~~l~~~vk~VlGTArSMGi~V~----------~~i 159 (195)
+|++|+++||+.| ++ +++|+||++||||||++|++|++ +++.+|+++||+|+|||+||||+|+ +++
T Consensus 126 KKAAGI~KGS~~P~~~k~e~VG~ITlkQVyEIAkiK~~DLnal~~~~LesAvK~ViGTARSMGIkVeGKD~~~~~~~~~~ 205 (342)
T PTZ00321 126 LRALRKKRRETGPVPLRGHYCALMTLEMAYEIAKMKPRSWGRPEYPLIETRVRRVVGQARRMGVCFIGVDTPHSSPVKGM 205 (342)
T ss_pred HHHhCCCCCCCCCCCCCCceEEeccHHHHHHHHHHhhhccccccccCHHHHHHHHHhhHhcCeEEEecccCCCCCccccc
Confidence 9999999999999 33 89999999999999999999954 2357999999999999999999995 567
Q ss_pred ChHHHHHHHHHHHHHHHHH
Q psy39 160 DAEEYQQFLEERKIIVAEQ 178 (195)
Q Consensus 160 d~gey~~~l~~~~~~~~~~ 178 (195)
.+.+|.+-.+.|...--.|
T Consensus 206 ~~~~~~~~~~~~~~~~~~~ 224 (342)
T PTZ00321 206 TEKQYAEESERYRAMHMEQ 224 (342)
T ss_pred cHHHHHHHHHHHHHHHHHH
Confidence 7888887776554443333
No 11
>PLN03072 60S ribosomal protein L12; Provisional
Probab=100.00 E-value=5.7e-56 Score=365.35 Aligned_cols=141 Identities=21% Similarity=0.335 Sum_probs=134.2
Q ss_pred eEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhC-ccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhC
Q psy39 20 RMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKD-LKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAG 98 (195)
Q Consensus 20 ~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~-~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaag 98 (195)
.+|+|+|+||+|+|+|||||+|||+|||+|+||++||++|++ | .|++|||+|+||+ |+|+|++ +||+|+||+|++|
T Consensus 11 ~~i~l~v~aG~A~P~PplGPaLG~~GvNi~~f~k~fN~~T~~~~-~G~~VpV~Itv~~-rsf~~~v-~Pp~s~LLkKa~g 87 (166)
T PLN03072 11 VEVYVRVTGGEVGAASSLAPKIGPLGLSPKKIGEDIAKETAKDW-KGLRVTVKLTVQN-RQAKVSV-VPSAAALVIKALK 87 (166)
T ss_pred EEEEEEEEcCccCCCCCCccccccCCCCHHHHHHHHHHHhhhhc-CCCeEEEEEEEEC-CeEEEEe-CCCHHHHHHHHhC
Confidence 589999999999999999999999999999999999999996 8 7999999999996 9999999 9999999999999
Q ss_pred CCCCCCC--CCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEe--------ccCChHHHH
Q psy39 99 MAKGVMK--PGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVV--------DKLDAEEYQ 165 (195)
Q Consensus 99 i~kgs~~--p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~--------~~id~gey~ 165 (195)
+++||++ |+++++|+||++||||||+.|++| +++.+|+++||+|+||||||||+|+ ++||+|+||
T Consensus 88 ~~kgs~~~~~~~~~vG~it~~qv~eIA~~K~~d--l~a~~l~~avk~VlGTarSmGi~V~gk~pkev~~~i~~G~~~ 162 (166)
T PLN03072 88 EPERDRKKVKNIKHNGNISLDDVIEIAKIMRPR--SMAKELAGTVKEILGTCVSVGCTVDGKDPKDLQQEIDDGEVE 162 (166)
T ss_pred CCCCCCccCCCCeeeeeecHHHHHHHHHHHHHH--hCcccHHHHHHHhHheeeeCeEEEeCCCHHHHHHHHhCCCee
Confidence 9999998 678999999999999999999999 8899999999999999999999997 457777765
No 12
>PTZ00105 60S ribosomal protein L12; Provisional
Probab=100.00 E-value=5.5e-50 Score=322.09 Aligned_cols=126 Identities=25% Similarity=0.367 Sum_probs=118.8
Q ss_pred CCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCCCCCCCCCCCe--eec
Q psy39 35 PPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGMAKGVMKPGKE--IGG 112 (195)
Q Consensus 35 PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi~kgs~~p~~~--~~G 112 (195)
|||||+|||+|||+|+||++||++|++| +|++|||+|+|| ||+|+|.+ .||+|+||+|++|+..++..++++ ++|
T Consensus 1 ~~lGPaLG~~GvNi~~fck~fN~~T~~~-~G~~vpV~Itv~-drsf~~~v-~Pp~s~ll~k~ag~~~~~~~~~~~~~~vG 77 (140)
T PTZ00105 1 SSLAPKVGPLGLSPKKVGDDIAKATKDW-KGLKVTVKLTVQ-NRQATVEV-VPTASSLLIKALKEPPRDRKKVKNIKHSG 77 (140)
T ss_pred CCCccccccCCCCHHHHHHHHHHHHhhc-CCCeEEEEEEEE-CCEEEEEE-CCCHHHHHHHHhCCCCCCCCCCCcceeee
Confidence 6899999999999999999999999999 799999999999 99999999 599999999999998888888876 999
Q ss_pred cccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEe--------ccCChHHHH
Q psy39 113 KLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVV--------DKLDAEEYQ 165 (195)
Q Consensus 113 ~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~--------~~id~gey~ 165 (195)
+||++||||||+.|++| +++.+|+++||+|+||||||||+|+ ++||+|+||
T Consensus 78 ~it~~qv~eIAk~K~~d--l~~~~l~~a~k~V~GTarSmGi~V~gk~pkev~~~i~~G~~~ 136 (140)
T PTZ00105 78 NLTFDQVIKIARTMRPK--SMAKTFKGTVKEVLGTCVSIGCTVDGESPRDIQEKINNGEIK 136 (140)
T ss_pred EeeHHHHHHHHHHHHhh--hCCCcHHHHHHHHHhhheeeeEEEECCCHHHHHHHHhCCCcc
Confidence 99999999999999999 8899999999999999999999997 467777776
No 13
>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=9.7e-29 Score=177.58 Aligned_cols=69 Identities=59% Similarity=0.901 Sum_probs=67.2
Q ss_pred eCCCHHHHHHHHhCCCCCCCCCCCeeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEE
Q psy39 85 HKPPTSYYLKQAAGMAKGVMKPGKEIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEV 155 (195)
Q Consensus 85 ~~Ppts~Likkaagi~kgs~~p~~~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V 155 (195)
++||+||||+|++|+++||++|+++.+|+||++||||||++|++| +++.+|+++|++|+|||+||||+|
T Consensus 1 K~Pp~s~llkkaagi~kGs~~p~~~~vG~it~~~i~eIAk~K~~d--~~~~~l~~~~k~v~Gta~SmGi~V 69 (69)
T PF00298_consen 1 KTPPTSWLLKKAAGIKKGSSKPGKEKVGTITLKQIYEIAKIKQKD--LNAKSLESAVKSVIGTARSMGIKV 69 (69)
T ss_dssp SSSTHHHHHHHHHTTSSSSSSTTTSSSEEEEHHHHHHHHHHHTTT--SSSSSHHHHHHHHHHHHHTTTEEE
T ss_pred CCCChHHHHHHHhCCCCCCCCCCCceeeeecHHHHHHHHHHhhcc--cccCCHHHHHHHHHHHHhcCceEC
Confidence 589999999999999999999999999999999999999999999 689999999999999999999987
No 14
>KOG0886|consensus
Probab=99.95 E-value=8.5e-28 Score=193.83 Aligned_cols=135 Identities=22% Similarity=0.350 Sum_probs=128.4
Q ss_pred ceeEEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHh
Q psy39 18 NFRMIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAA 97 (195)
Q Consensus 18 kv~~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaa 97 (195)
++.+++|++.||+...+..|+|..||+|+.+..+..++-++|++| +|..|.|.++|+ ||...++| .|++|.||.|++
T Consensus 11 eiK~vylrc~GgEVgatsaLApKIgPLGLSpKkvGedIaKaT~dw-Kgl~vtvkLtIq-nR~A~i~V-vpSasaLiIkaL 87 (167)
T KOG0886|consen 11 EIKVVYLRCTGGEVGATSALAPKIGPLGLSPKKVGEDIAKATGDW-KGLRVTVKLTIQ-NRQAQIEV-VPSASALIIKAL 87 (167)
T ss_pred ceEEEEEEeecCccccccccccccccccCCccccchHHHHhhccc-ccceEEEEEEec-CcccceEE-cccHHHHHHHHh
Confidence 458999999999999999999999999999999999999999999 699999999998 99999999 799999999999
Q ss_pred CCCCCCCCCCC--eeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEec
Q psy39 98 GMAKGVMKPGK--EIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVVD 157 (195)
Q Consensus 98 gi~kgs~~p~~--~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~~ 157 (195)
..+.++++..+ .|+|+|+|+++.+||++..+. +.++.|.+++++|+|||+|+||+|++
T Consensus 88 KEPpRDRKk~knikh~Gni~~deiv~iar~mr~r--S~a~~l~gt~keilgt~~svgc~vDg 147 (167)
T KOG0886|consen 88 KEPPRDRKKQKNIKHSGNITFDEIVEIARIMRPR--SLARELSGTVKEILGTAQSVGCTVDG 147 (167)
T ss_pred cCCcchhhhhccccccCcccHHHHHHHHHHhhhH--hhhhhhhhhHHHHhchhhhcccccCC
Confidence 99999997755 899999999999999999986 88999999999999999999999974
No 15
>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=5.6e-28 Score=169.49 Aligned_cols=60 Identities=55% Similarity=1.088 Sum_probs=57.7
Q ss_pred EEEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCce
Q psy39 21 MIRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSY 80 (195)
Q Consensus 21 ~ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf 80 (195)
+|+|+|+||+|+|+|||||+|||+|||+++||++||++|++|+.|++|||+|+||+||||
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 VIKLRVPAGKATPAPPLGPALGPLGINIKKFCKDFNKATKDYKPGIPVPVKITVYNDKSF 60 (60)
T ss_dssp EEEEEEETTSSSSTTTSTHHHHTTTS-HHHHHHHHHHHTTTCTTSSEEEEEEEEETTSEE
T ss_pred CEEEEEecCcccCCCCcCcccccCCCCHHHHHHHHHHHHhcccCCCEEEEEEEEeCCCCC
Confidence 589999999999999999999999999999999999999999889999999999999998
No 16
>KOG0455|consensus
Probab=89.04 E-value=2.8 Score=38.12 Aligned_cols=121 Identities=24% Similarity=0.309 Sum_probs=70.6
Q ss_pred CCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCCCCCCCCCCCeeeccccHHHHHHHH
Q psy39 44 RGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGMAKGVMKPGKEIGGKLTLKHIYEIA 123 (195)
Q Consensus 44 ~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi~kgs~~p~~~~~G~Itl~~v~eIA 123 (195)
.|+++..|.+++ +.-|.+|.=..-++ +-+.||.. ..+- .++| |+++|.||.++|
T Consensus 151 AGLPiIs~L~ei------I~tGDev~kIeGif----------SGTLsYif-ne~s----~gk~-----~~~sfsdvVk~A 204 (364)
T KOG0455|consen 151 AGLPIISSLNEI------ISTGDEVHKIEGIF----------SGTLSYIF-NELS----DGKP-----GTLSFSDVVKAA 204 (364)
T ss_pred CCchhHHHHHHH------HhcCCceeEEEEEe----------eccHHHHH-HHhh----cCCC-----CcccHHHHHHHH
Confidence 588888887776 33466665433333 33445444 3332 3444 799999999999
Q ss_pred HHh---ccCc--ccccccHHHHHHHHHHhhhccCeEEe-------ccCChHH------HHHHHH---HHHHHHHHHHHHH
Q psy39 124 KIK---SEDS--AFECETLEYICTSVIGSARSVGIEVV-------DKLDAEE------YQQFLE---ERKIIVAEQKKEL 182 (195)
Q Consensus 124 k~K---~~d~--~l~~~~l~~~vk~VlGTArSMGi~V~-------~~id~ge------y~~~l~---~~~~~~~~~~~~~ 182 (195)
+.- .+|| .++..|. .|-+.=-+|-.|+.|+ ..+-|++ -|+||. ++....++..+
T Consensus 205 KklGYTEPDPRDDLnGmDV---ARKvtIl~Ri~Gv~ves~~Sfpv~SLiPepl~s~~sadeFL~gl~~~D~~~~~~~k-- 279 (364)
T KOG0455|consen 205 KKLGYTEPDPRDDLNGMDV---ARKVTILARILGVRVESMDSFPVESLIPEPLPSLMSADEFLHGLVKLDQNIEERVK-- 279 (364)
T ss_pred HHcCCCCCCcccccccchh---hhhhhhhhhhccceeecccccchhhcCCccccccccHHHHHhhhhhhhhhHHHHHH--
Confidence 973 2332 2555553 4555555788999996 2222222 466665 33332222222
Q ss_pred HHHHHHhhhhhcC
Q psy39 183 EEAKEAKMLRTSG 195 (195)
Q Consensus 183 ~~~~~~~~~~~~~ 195 (195)
|++.+.|++|+.|
T Consensus 280 eA~~egkVlRfvg 292 (364)
T KOG0455|consen 280 EASSEGKVLRFVG 292 (364)
T ss_pred HhhccCcEEEEEE
Confidence 4577889999876
No 17
>cd03407 Band_7_4 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Microdomains formed from flotillin proteins may in addition be dynamic units with their own regulatory functions. Flotillins have been implicated in signal transduction, vesicle trafficking, cytoskeleton rearrangement and are known to interact with a variety of proteins. Stomatin interacts with and regulates members of the degenerin/epithelia Na+ channel family in mechanosensory cells of Caenorhabditis elegans and vertebrate neurons and participates in trafficking of Glut1 glucose transporters. Prohibitin may act as a chaperone for the stabilization of mitochondrial proteins. Prokaryotic H
Probab=81.82 E-value=16 Score=31.62 Aligned_cols=52 Identities=23% Similarity=0.307 Sum_probs=30.1
Q ss_pred eeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEe----ccCC-hHHHHHHHHH
Q psy39 109 EIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVV----DKLD-AEEYQQFLEE 170 (195)
Q Consensus 109 ~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~----~~id-~gey~~~l~~ 170 (195)
..+|+.++++++. ... .-...+...+ --.....||.|+ ++++ |.++.+-+++
T Consensus 95 ~vig~~~l~eil~----~R~---~I~~~i~~~l---~~~l~~~GI~V~~v~I~~i~~p~~v~~A~~~ 151 (262)
T cd03407 95 ARIPKLTLDELFE----QKD---EIAKAVEEEL---REAMSRYGFEIVATLITDIDPDAEVKRAMNE 151 (262)
T ss_pred HHhcCccHHHHHh----hHH---HHHHHHHHHH---HHHHHhcCcEEEEEEEEecCCCHHHHHHHHH
Confidence 5689999999984 111 1122233333 334556799996 4555 5666666654
No 18
>cd03401 Band_7_prohibitin Band_7_prohibitin. A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup group includes proteins similar to prohibitin (a lipid raft-associated integral membrane protein). Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. These microdomains in addition to being stable scaffolds may also be also dynamic units with their own regulatory functions. Prohibitin is a mitochondrial inner-membrane protein which may act as a chaperone for the stabilization of mitochondrial proteins. Human prohibitin forms a heter-oligomeric complex with Bap-37 (prohibitin 2, a band 7 domain carrying homologue). This complex may protect non-assembled membrane proteins against proteolysis by the m-AAA protease. Prohibitin and Bap-37 yeast homologues have been implicated in yeast longevity and, in the maintenance of mitochondrial morphology.
Probab=54.96 E-value=71 Score=25.75 Aligned_cols=77 Identities=17% Similarity=0.260 Sum_probs=38.4
Q ss_pred eeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEe----ccCC-hHHHHHHHHHH------HHHHHH
Q psy39 109 EIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVV----DKLD-AEEYQQFLEER------KIIVAE 177 (195)
Q Consensus 109 ~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~----~~id-~gey~~~l~~~------~~~~~~ 177 (195)
..+|..|+++++. -+... ...+...++ -.+..+|+.|+ ++++ |.+|.+-++++ ++..+.
T Consensus 104 ~vi~~~~~~ei~~-~R~~i------~~~i~~~l~---~~l~~~Gi~i~~v~i~~i~~p~~~~~ai~~k~~a~q~~~~a~~ 173 (196)
T cd03401 104 AVVAQFTAEELIT-QREEV------SALIREALT---ERAKDFGIILDDVSITHLTFSKEFTKAVEAKQVAQQEAERAKF 173 (196)
T ss_pred HHHccCCHHHHHh-hHHHH------HHHHHHHHH---HHHHhCCeEEEEEEEEeccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4467778777774 11111 122222233 33456999995 3433 45565555422 222222
Q ss_pred HHHHHHHHHHHhhhhhcC
Q psy39 178 QKKELEEAKEAKMLRTSG 195 (195)
Q Consensus 178 ~~~~~~~~~~~~~~~~~~ 195 (195)
+.++++.++++++.++.|
T Consensus 174 ~~~~a~~ea~~~~~~A~g 191 (196)
T cd03401 174 VVEKAEQEKQAAVIRAEG 191 (196)
T ss_pred HHHHHHHHHHHHHHHhhh
Confidence 334445566667666654
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=43.52 E-value=70 Score=20.30 Aligned_cols=35 Identities=14% Similarity=0.268 Sum_probs=27.2
Q ss_pred eEEEEEcCCCceEEEEeCCCHHHHHHHHhCCCCCCCC
Q psy39 69 PTRIKVNPDRSYKLIIHKPPTSYYLKQAAGMAKGVMK 105 (195)
Q Consensus 69 pV~I~v~~Drsf~~~i~~Ppts~Likkaagi~kgs~~ 105 (195)
||.|++. .++..+....+++..+| +.+||.-+..+
T Consensus 1 ~Vtv~~d-G~~~~v~T~a~tV~~~L-~~~gI~l~~~D 35 (43)
T PF03990_consen 1 PVTVTVD-GKEKTVYTTASTVGDAL-KELGITLGEED 35 (43)
T ss_pred CEEEEEC-CEEEEEEeCCCCHHHHH-HhCCCCCCCCC
Confidence 5777774 78889998888888888 77888876553
No 20
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=41.24 E-value=27 Score=30.35 Aligned_cols=30 Identities=33% Similarity=0.498 Sum_probs=19.6
Q ss_pred CCCCCcCCCCCchhH----HHHHHHHHhhCccCC
Q psy39 36 PLGPTLGERGVNIAT----FCKDFNEKTKDLKEG 65 (195)
Q Consensus 36 plGP~LG~~GIni~~----fck~fN~~Tk~~~~G 65 (195)
+||+.|||+|+=+.- ++.++-+.-..++.|
T Consensus 125 ~Lg~iLGPrGlMP~pk~gTv~~di~~~I~~~k~g 158 (230)
T PRK05424 125 KLGRILGPRGLMPNPKTGTVTMDVAKAVKEAKAG 158 (230)
T ss_pred HhccccccccCCCCCCCCCcchhHHHHHHHHhcC
Confidence 499999999953222 445666666666555
No 21
>PF12848 ABC_tran_2: ABC transporter
Probab=40.23 E-value=47 Score=23.39 Aligned_cols=25 Identities=20% Similarity=0.417 Sum_probs=18.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHHH
Q psy39 160 DAEEYQQFLEERKIIVAEQKKELEE 184 (195)
Q Consensus 160 d~gey~~~l~~~~~~~~~~~~~~~~ 184 (195)
=+|-|+.|++.+++..+.+..+.+.
T Consensus 11 Y~GnY~~y~~~k~~~~~~~~~~~~~ 35 (85)
T PF12848_consen 11 YPGNYSDYLEQKEERRERQERQYEK 35 (85)
T ss_pred eCCCHHHHHHHHHHHHHHHHHhHHH
Confidence 3588999999888877766665433
No 22
>PLN00122 serine/threonine protein phosphatase 2A; Provisional
Probab=38.11 E-value=83 Score=26.37 Aligned_cols=31 Identities=29% Similarity=0.373 Sum_probs=23.0
Q ss_pred ccCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy39 157 DKLDAEEYQQFLEERKIIVAEQKKELEEAKEA 188 (195)
Q Consensus 157 ~~id~gey~~~l~~~~~~~~~~~~~~~~~~~~ 188 (195)
-|+|++-||+...++++...++.+. +++++.
T Consensus 124 ~emD~~LF~ec~~~~ke~~~~~~~~-~~~r~~ 154 (170)
T PLN00122 124 SEMDPELFEECLRKFEEDEAKAKEV-EEKREA 154 (170)
T ss_pred HHhCHHHHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence 4899999999999988876666555 444443
No 23
>cd03404 Band_7_HflK Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflK is an integral membrane protein which may localize to the plasma membrane. HflK associates with another band 7 family member (HflC) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=37.57 E-value=1.2e+02 Score=25.92 Aligned_cols=20 Identities=40% Similarity=0.637 Sum_probs=11.9
Q ss_pred ccCeEEe----ccCC-hHHHHHHHH
Q psy39 150 SVGIEVV----DKLD-AEEYQQFLE 169 (195)
Q Consensus 150 SMGi~V~----~~id-~gey~~~l~ 169 (195)
.+|+.|+ ++++ |.++.+-++
T Consensus 159 ~~Gi~v~~v~i~~i~~p~~i~~a~~ 183 (266)
T cd03404 159 KAGIEIVGVNLQDADPPEEVQDAFD 183 (266)
T ss_pred CCCeEEEEEEEEeCCCCHHHHHHHH
Confidence 4699995 4554 444555553
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=37.55 E-value=1.4e+02 Score=25.06 Aligned_cols=50 Identities=18% Similarity=0.177 Sum_probs=36.6
Q ss_pred HHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEe--ccCChHHHHHHHHHH
Q psy39 120 YEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVV--DKLDAEEYQQFLEER 171 (195)
Q Consensus 120 ~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~--~~id~gey~~~l~~~ 171 (195)
.+-|+.+..+ +...+.+..-..|..+|+|+|++|. ++-..+.-++..+++
T Consensus 93 LKAak~~i~~--~~d~d~~~~k~~Iw~eak~~Gv~vk~~~s~~t~~g~~~sk~a 144 (160)
T PF03978_consen 93 LKAAKQKIEG--IQDKDQECAKAKIWTEAKLVGVTVKFSGSNTTGKGDEMSKDA 144 (160)
T ss_pred HHHHHHHhcc--hhhhhHHHHHHHHHHHHHhcCeeeeecccccCccHHHhHHHH
Confidence 3447888776 6677778788899999999999995 555555556555444
No 25
>COG4953 PbpC Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]
Probab=36.55 E-value=40 Score=34.27 Aligned_cols=75 Identities=16% Similarity=0.304 Sum_probs=61.7
Q ss_pred EEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCCCC
Q psy39 22 IRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGMAK 101 (195)
Q Consensus 22 ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi~k 101 (195)
+.|..+.|. +|-|+=.||-.|++..|.++-|-....+ |.+-|.+-+..+|+.-+-.+-+|.++|++...+.-..
T Consensus 417 ~~L~~P~~~---~~GLsLiLGg~gi~L~dLa~lYa~lAn~---G~~~~L~~~~~~~~~~~~~l~s~~Aaw~i~dIl~~~~ 490 (733)
T COG4953 417 VHLYLPEGA---APGLSLILGGAGITLEDLAQLYAALANQ---GKAGPLRDTLDDDPLTERTLLSPGAAWQILDILSDVA 490 (733)
T ss_pred CCCCCCCcc---CCCeeEEecCCcccHHHHHHHHHHHhcC---CceecccccCCCCCCCCccccCcchHHHHHHHHhccC
Confidence 467778777 3668999999999999999999777644 9999999999878777777779999999998875443
Q ss_pred C
Q psy39 102 G 102 (195)
Q Consensus 102 g 102 (195)
.
T Consensus 491 ~ 491 (733)
T COG4953 491 R 491 (733)
T ss_pred C
Confidence 3
No 26
>cd06562 GH20_HexA_HexB-like Beta-N-acetylhexosaminidases catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides. The hexA and hexB genes encode the alpha- and beta-subunits of the two major beta-N-acetylhexosaminidase isoenzymes, N-acetyl-beta-D-hexosaminidase A (HexA) and beta-N-acetylhexosaminidase B (HexB). Both the alpha and the beta catalytic subunits have a TIM-barrel fold and belong to the glycosyl hydrolase family 20 (GH20). The HexA enzyme is a heterodimer containing one alpha and one beta subunit while the HexB enzyme is a homodimer containing two beta-subunits. Hexosaminidase mutations cause an inability to properly hydrolyze certain sphingolipids which accumulate in lysosomes within the brain, resulting in the lipid storage disorders Tay-Sachs and Sandhoff. Mutations in the alpha subunit cause in a deficiency in the HexA enzyme and result in
Probab=36.51 E-value=2.2e+02 Score=25.81 Aligned_cols=87 Identities=20% Similarity=0.201 Sum_probs=49.9
Q ss_pred hHHHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEEeCCCHHHHHHHHhCCCCCCCCCCCeeeccccHHHHHHHHHHhcc
Q psy39 49 ATFCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLIIHKPPTSYYLKQAAGMAKGVMKPGKEIGGKLTLKHIYEIAKIKSE 128 (195)
Q Consensus 49 ~~fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i~~Ppts~Likkaagi~kgs~~p~~~~~G~Itl~~v~eIAk~K~~ 128 (195)
++..+++=+.-+.++-.. ..+.+.+|-+|.+++..=|- |- ..|+..+ .|-.|.+++.||-+.
T Consensus 17 ~~~ik~~Id~ma~~KlN~---lh~HltDd~~~rle~~~~P~--Lt------~~ga~~~----~~~YT~~di~eiv~y--- 78 (348)
T cd06562 17 VDSIKRTIDAMAYNKLNV---LHWHITDSQSFPLESPSYPE--LS------KKGAYSP----SEVYTPEDVKEIVEY--- 78 (348)
T ss_pred HHHHHHHHHHHHHhCCcE---EEEeEEcCCCceEeeCCCch--hh------hccCcCC----CceECHHHHHHHHHH---
Confidence 456666666666654332 46666788999999854332 21 2233222 356676666666543
Q ss_pred CcccccccHHHHHHHHHHhhhccCeEEeccCC-hHHHHHHHHHHH
Q psy39 129 DSAFECETLEYICTSVIGSARSVGIEVVDKLD-AEEYQQFLEERK 172 (195)
Q Consensus 129 d~~l~~~~l~~~vk~VlGTArSMGi~V~~~id-~gey~~~l~~~~ 172 (195)
|+..||+|+-+|| ||.-..++..+.
T Consensus 79 -------------------A~~rgI~vIPEID~PGH~~a~~~~~p 104 (348)
T cd06562 79 -------------------ARLRGIRVIPEIDTPGHTGSWGQGYP 104 (348)
T ss_pred -------------------HHHcCCEEEEeccCchhhHHHHHhCh
Confidence 5566666666665 455555555443
No 27
>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=33.84 E-value=37 Score=26.67 Aligned_cols=35 Identities=26% Similarity=0.291 Sum_probs=25.6
Q ss_pred EEeecccCCCCCCCCCCcCCCCCchhHHHHHHHHH
Q psy39 24 TNIPAGLASPGPPLGPTLGERGVNIATFCKDFNEK 58 (195)
Q Consensus 24 l~v~aGkA~p~PplGP~LG~~GIni~~fck~fN~~ 58 (195)
+.||.=+-.--.-+|-.|||.|-++.+.+++++.+
T Consensus 4 i~iP~~~~P~~N~IG~IIGPgG~tiK~i~~eTg~k 38 (120)
T cd02395 4 VYIPVKQYPKYNFVGLILGPRGNTLKQLEKETGAK 38 (120)
T ss_pred EEcCcccCCCCCeeEEEECCCChHHHHHHHHHCCE
Confidence 44444444334568999999999999999998533
No 28
>COG0051 RpsJ Ribosomal protein S10 [Translation, ribosomal structure and biogenesis]
Probab=32.62 E-value=20 Score=27.92 Aligned_cols=25 Identities=24% Similarity=0.655 Sum_probs=22.9
Q ss_pred cccccHHHHHHHHHHhhhccCeEEe
Q psy39 132 FECETLEYICTSVIGSARSVGIEVV 156 (195)
Q Consensus 132 l~~~~l~~~vk~VlGTArSMGi~V~ 156 (195)
+....|+..|+.|.-||+.+|+.|.
T Consensus 13 ~d~~~LD~~~~~Ive~akrtg~~v~ 37 (104)
T COG0051 13 FDHRLLDQVCREIVETAKRTGADVK 37 (104)
T ss_pred CCHHHHHHHHHHHHHHHHHhCCeee
Confidence 5678999999999999999999994
No 29
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=32.58 E-value=34 Score=29.81 Aligned_cols=30 Identities=30% Similarity=0.562 Sum_probs=18.5
Q ss_pred CCCCCcCCCCCchhH----HHHHHHHHhhCccCC
Q psy39 36 PLGPTLGERGVNIAT----FCKDFNEKTKDLKEG 65 (195)
Q Consensus 36 plGP~LG~~GIni~~----fck~fN~~Tk~~~~G 65 (195)
+||+.|||+|+=+.- +..++.+.-.+++.|
T Consensus 125 kLgriLGprGlMP~pk~gTvt~di~~~V~~~k~G 158 (229)
T CHL00129 125 KLGRVLGPRGLMPSPKSGTVTTDLASAINEFKKG 158 (229)
T ss_pred HhcCcccccCCCCCCCCCCccccHHHHHHHHhcC
Confidence 499999999863321 334555555555545
No 30
>PF04431 Pec_lyase_N: Pectate lyase, N terminus; InterPro: IPR007524 This region is found N-terminal to the pectate lyase domain (IPR002022 from INTERPRO) in some plant pectate lyase enzymes.; GO: 0030570 pectate lyase activity
Probab=31.74 E-value=62 Score=22.47 Aligned_cols=19 Identities=11% Similarity=0.260 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy39 162 EEYQQFLEERKIIVAEQKK 180 (195)
Q Consensus 162 gey~~~l~~~~~~~~~~~~ 180 (195)
++||++.++|++..++...
T Consensus 3 ~efDeyW~~Ra~eA~~~a~ 21 (56)
T PF04431_consen 3 GEFDEYWQKRAEEARKAAL 21 (56)
T ss_pred chHHHHHHHHHHHHHHHHH
Confidence 6899999999766554433
No 31
>PHA00729 NTP-binding motif containing protein
Probab=30.86 E-value=3.6e+02 Score=23.47 Aligned_cols=94 Identities=13% Similarity=0.140 Sum_probs=57.9
Q ss_pred CceEEEEeCCCHHHHHHHHhCCCCCCCCC-CC--eeeccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeE
Q psy39 78 RSYKLIIHKPPTSYYLKQAAGMAKGVMKP-GK--EIGGKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIE 154 (195)
Q Consensus 78 rsf~~~i~~Ppts~Likkaagi~kgs~~p-~~--~~~G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~ 154 (195)
|+-.|.+.+++...|....-. +|-..- -+ ...+..+-.+||+|...+..+. ++..-++. ++ +-.
T Consensus 118 R~~l~il~~ls~edL~~~Lr~--Rg~~~~kI~en~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~---~~--~~~- 184 (226)
T PHA00729 118 RVSAVIFTTPSPEDLAFYLRE--KGWYQIRVTMVNRKTMTARATLYSKDFGRNSKG-----EIVTQVKK---KA--LDL- 184 (226)
T ss_pred hCcEEEEecCCHHHHHHHHHh--CCCcHHHhhhcccCcccchhhHHHHHHhhcccc-----hhHHHHHH---HH--HHH-
Confidence 566677766666665544332 333211 00 2346688899999999887532 22222222 23 211
Q ss_pred EeccCChHHHHHHHHHHHHHHHHHHHHHHH
Q psy39 155 VVDKLDAEEYQQFLEERKIIVAEQKKELEE 184 (195)
Q Consensus 155 V~~~id~gey~~~l~~~~~~~~~~~~~~~~ 184 (195)
+...+..+-|+++++.|.++.+..++++.+
T Consensus 185 ~~~~~p~~~y~ey~~~r~~~~~~~~~~~~~ 214 (226)
T PHA00729 185 FKVQIPNDIYKEYMQRRKETERKLLQELRQ 214 (226)
T ss_pred hHhhCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 335788899999999999998888888665
No 32
>COG4816 EutL Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=30.67 E-value=1.2e+02 Score=26.24 Aligned_cols=75 Identities=21% Similarity=0.255 Sum_probs=54.4
Q ss_pred eecccCC-CCCCCCCCcCCCC-CchhHHHHHHHHHhhCccCCCCeeEEEEEcCCC--ceEEEEeCCCHHHHHHHHhCCCC
Q psy39 26 IPAGLAS-PGPPLGPTLGERG-VNIATFCKDFNEKTKDLKEGLPLPTRIKVNPDR--SYKLIIHKPPTSYYLKQAAGMAK 101 (195)
Q Consensus 26 v~aGkA~-p~PplGP~LG~~G-Ini~~fck~fN~~Tk~~~~G~~vpV~I~v~~Dr--sf~~~i~~Ppts~Likkaagi~k 101 (195)
..||.+. |+|.-|..|+-+| =|+.++-.-.+....++..|- ..++-+++. -|.... +--++++|-+++|++-
T Consensus 69 ~ygGAghg~~~~agevliilgGp~paeVk~gl~vav~~ieng~---~fv~aNea~~~~~~ah~-vsRtgs~Lsk~ag~~~ 144 (219)
T COG4816 69 TYGGAGHGPSPSAGEVLIILGGPNPAEVKRGLEVAVAEIENGA---GFVYANEAGDTHIEAHY-VSRTGSYLSKTAGAPL 144 (219)
T ss_pred ccccccCCCCcccccEEEEEcCCCHHHHHHHHHHHHHHHhccc---ceeecccCCCceEEEEe-ehhhhhHHHhhcCCcc
Confidence 3455443 4566688898885 778888888888888776554 455666665 466665 6778899999999998
Q ss_pred CCC
Q psy39 102 GVM 104 (195)
Q Consensus 102 gs~ 104 (195)
|..
T Consensus 145 G~a 147 (219)
T COG4816 145 GDA 147 (219)
T ss_pred cce
Confidence 865
No 33
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=27.97 E-value=1.6e+02 Score=27.97 Aligned_cols=13 Identities=31% Similarity=0.460 Sum_probs=9.2
Q ss_pred eeeccccHHHHHH
Q psy39 109 EIGGKLTLKHIYE 121 (195)
Q Consensus 109 ~~~G~Itl~~v~e 121 (195)
+.+|..++++|+.
T Consensus 194 ~vIG~~tldevLt 206 (419)
T PRK10930 194 GVIGKYTMDRILT 206 (419)
T ss_pred HHHccCCHHHHhh
Confidence 5577777777763
No 34
>PHA01929 putative scaffolding protein
Probab=25.95 E-value=1.8e+02 Score=26.58 Aligned_cols=39 Identities=23% Similarity=0.325 Sum_probs=30.8
Q ss_pred cccc---HHHHHHHHHHhhhccCeEEe-------------ccCChHHHHHHHHHH
Q psy39 133 ECET---LEYICTSVIGSARSVGIEVV-------------DKLDAEEYQQFLEER 171 (195)
Q Consensus 133 ~~~~---l~~~vk~VlGTArSMGi~V~-------------~~id~gey~~~l~~~ 171 (195)
++-+ ++.+.|+|++-|+++|.-|+ .-+...||..-+.+|
T Consensus 228 nSGd~~~mk~AAk~V~~FA~~sG~vv~~~q~plG~~~~~~~aLSaae~~Aeiskl 282 (306)
T PHA01929 228 NSGDAQAMQYAAKQVAAFAQGSGAVVQATGQPLGAAAPALAALSAAEYRAEVSKL 282 (306)
T ss_pred ccchHHHHHHHHHHHHHHHHhcCceeccCCCCcCccchhhhhhhHHHHHHHHHhc
Confidence 4555 89999999999999999875 347778887777654
No 35
>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=25.15 E-value=90 Score=21.97 Aligned_cols=27 Identities=22% Similarity=0.463 Sum_probs=20.8
Q ss_pred eEEEEEcCCCceEEEEeCCCHHHHHHHHh
Q psy39 69 PTRIKVNPDRSYKLIIHKPPTSYYLKQAA 97 (195)
Q Consensus 69 pV~I~v~~Drsf~~~i~~Ppts~Likkaa 97 (195)
.|+|+|. +++|.|.+ ++.--..+.+++
T Consensus 1 ~V~v~I~-G~~y~i~~-~~~~ee~l~~~a 27 (89)
T PF05164_consen 1 QVKVTIL-GREYRIKC-PDEDEEYLRKAA 27 (89)
T ss_dssp -EEEEET-TEEEEECE-TGCGHHHHHHHH
T ss_pred CeEEEEC-CEEEEeec-CCCCHHHHHHHH
Confidence 3788887 99999987 677777777776
No 36
>PF13184 KH_5: NusA-like KH domain; PDB: 1HH2_P 1L2F_A 2ATW_A 1K0R_B 2ASB_A.
Probab=22.51 E-value=48 Score=23.54 Aligned_cols=34 Identities=21% Similarity=0.530 Sum_probs=24.3
Q ss_pred EEEEeecccCCCCCCCCCCcCCCCCchhHHHHHHH
Q psy39 22 IRTNIPAGLASPGPPLGPTLGERGVNIATFCKDFN 56 (195)
Q Consensus 22 ikl~v~aGkA~p~PplGP~LG~~GIni~~fck~fN 56 (195)
.++-|..+... --|+|-..|+.|..+..+.+++|
T Consensus 5 ~kvaV~~~~~~-~d~vG~~iG~~G~rik~i~~~L~ 38 (69)
T PF13184_consen 5 TKVAVKSGDPN-IDPVGACIGKKGSRIKAISEELN 38 (69)
T ss_dssp EEEEEEESSTT-S-HHHHHH-CCCCCHHHHHHHTT
T ss_pred EEEEEEcCCCC-cCcceecCccccHHHHHHHHHhC
Confidence 44556665532 24689999999999999999995
No 37
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=22.47 E-value=68 Score=19.59 Aligned_cols=21 Identities=38% Similarity=0.661 Sum_probs=14.3
Q ss_pred HHHHhhhccCeEEeccCChHHHHHHHH
Q psy39 143 SVIGSARSVGIEVVDKLDAEEYQQFLE 169 (195)
Q Consensus 143 ~VlGTArSMGi~V~~~id~gey~~~l~ 169 (195)
+++--|+.||+++ +++.+||+
T Consensus 7 ~Li~eA~~~Gls~------eeir~FL~ 27 (30)
T PF08671_consen 7 ELIKEAKESGLSK------EEIREFLE 27 (30)
T ss_dssp HHHHHHHHTT--H------HHHHHHHH
T ss_pred HHHHHHHHcCCCH------HHHHHHHH
Confidence 4566789999876 67888875
No 38
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=22.05 E-value=2.3e+02 Score=21.33 Aligned_cols=63 Identities=21% Similarity=0.258 Sum_probs=36.6
Q ss_pred ccccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEeccCChHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy39 112 GKLTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVVDKLDAEEYQQFLEERKIIVAEQKKELEEAK 186 (195)
Q Consensus 112 G~Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~~~id~gey~~~l~~~~~~~~~~~~~~~~~~ 186 (195)
..-.+..+.-|...+. ...+|+.+ +.++....+ | +.+..++.++|+++.+.++++.++++..+
T Consensus 40 ~~~~i~~l~~I~~lr~-----~G~sl~eI-~~~l~~~~~-~-----~~~~~~~~~~l~~~~~~l~~~i~~l~~~~ 102 (123)
T cd04770 40 GEADLARLRFIRRAQA-----LGFSLAEI-RELLSLRDD-G-----AAPCAEVRALLEEKLAEVEAKIAELQALR 102 (123)
T ss_pred CHHHHHHHHHHHHHHH-----CCCCHHHH-HHHHHhhhc-C-----CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444443 34667764 344443322 1 23456788889988888888888876644
No 39
>cd00225 API3 Ascaris pepsin inhibitor-3 (API3); protein inhibitor that reversibly inhibits aspartic proteinase cathepsin E, and gastric enzymes pepsin and gastricsin.
Probab=21.84 E-value=2.8e+02 Score=23.17 Aligned_cols=20 Identities=30% Similarity=0.390 Sum_probs=15.1
Q ss_pred hccCeEEe-----------ccCChHHHHHHH
Q psy39 149 RSVGIEVV-----------DKLDAEEYQQFL 168 (195)
Q Consensus 149 rSMGi~V~-----------~~id~gey~~~l 168 (195)
-|-||.|+ ++|.+.|.++|-
T Consensus 10 gs~gCvVt~N~Lfang~~lReLt~~Eq~el~ 40 (159)
T cd00225 10 GSAGCVVTDNVLFANGFPLRELTPDEQQELA 40 (159)
T ss_pred CceeEEEECCEEEecCceeeeCCHHHHHHHH
Confidence 56789885 678888876665
No 40
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=21.76 E-value=64 Score=28.44 Aligned_cols=45 Identities=27% Similarity=0.446 Sum_probs=24.7
Q ss_pred CCCCcCCCCCc--hhH--HHHHHHHHhhCccCCCCeeEEEEEcCCCceEEEE
Q psy39 37 LGPTLGERGVN--IAT--FCKDFNEKTKDLKEGLPLPTRIKVNPDRSYKLII 84 (195)
Q Consensus 37 lGP~LG~~GIn--i~~--fck~fN~~Tk~~~~G~~vpV~I~v~~Drsf~~~i 84 (195)
|||.|||+|+= +.- +..+.+.+-..++.|. |++.......+.+.|
T Consensus 128 LG~vLGPRGlMP~Pk~gTvt~Dv~~av~~~K~g~---v~~R~dk~g~ih~~i 176 (228)
T COG0081 128 LGKVLGPRGLMPNPKTGTVTDDVAKAVEELKKGT---VEFRADKAGVIHVPI 176 (228)
T ss_pred HhhhcCCCCCCCCCCCCCCCcCHHHHHHHHhcCc---EEEEECCCceEEEEe
Confidence 79999999963 222 4455555555555543 444443233344444
No 41
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=21.66 E-value=1.6e+02 Score=21.66 Aligned_cols=57 Identities=18% Similarity=0.201 Sum_probs=33.3
Q ss_pred ccHHHHHHHHHHhccCcccccccHHHHHHHHHHhhhccCeEEeccCChHHHHHHHHHHHHHHHHHHHHHHH
Q psy39 114 LTLKHIYEIAKIKSEDSAFECETLEYICTSVIGSARSVGIEVVDKLDAEEYQQFLEERKIIVAEQKKELEE 184 (195)
Q Consensus 114 Itl~~v~eIAk~K~~d~~l~~~~l~~~vk~VlGTArSMGi~V~~~id~gey~~~l~~~~~~~~~~~~~~~~ 184 (195)
-|.++|..+..++.-. -...+|+.+- .++.. -+..++..+|+++.+.++++.++++.
T Consensus 39 Y~~~~~~~l~~I~~lr--~~G~~l~eI~-~~l~~-----------~~~~~~~~~l~~~~~~l~~~i~~l~~ 95 (97)
T cd04782 39 YTLEQFEQLDIILLLK--ELGISLKEIK-DYLDN-----------RNPDELIELLKKQEKEIKEEIEELQK 95 (97)
T ss_pred CCHHHHHHHHHHHHHH--HcCCCHHHHH-HHHhc-----------CCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445555554444321 2357776643 44432 13467888888888888888777654
No 42
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed
Probab=21.28 E-value=1.8e+02 Score=23.79 Aligned_cols=37 Identities=16% Similarity=0.153 Sum_probs=30.8
Q ss_pred CCCHHHHHHHHhCCCCCCCCCCCeeeccccHHHHHHHHHHhcc
Q psy39 86 KPPTSYYLKQAAGMAKGVMKPGKEIGGKLTLKHIYEIAKIKSE 128 (195)
Q Consensus 86 ~Ppts~Likkaagi~kgs~~p~~~~~G~Itl~~v~eIAk~K~~ 128 (195)
-+..|..|.+.+|+... ..+|.||-+|+..|..+-..
T Consensus 34 G~~~a~~Ic~~lgi~~~------~~~~~Lt~~qi~~l~~~i~~ 70 (149)
T PRK04053 34 GRRTARAIARKLGLDPN------AKLGYLSDEEIEKIEEALED 70 (149)
T ss_pred cHHHHHHHHHHcCcCCC------CccCcCCHHHHHHHHHHHHh
Confidence 47889999999998754 34899999999999998753
No 43
>TIGR02612 mob_myst_A mobile mystery protein A. Members of this protein family are found in mobization-related contexts more often than not, including within a CRISPR-associated gene region in Geobacter sulfurreducens PCA, and on plasmids in Agrobacterium tumefaciens and Coxiella burnetii, always together with mobile mystery protein B, a member of the Fic protein family (pfam02661). This protein is encoded by the upstream member of the gene pair and belongs to a family of helix-turn-helix DNA binding proteins (pfam01381).
Probab=20.82 E-value=1.9e+02 Score=23.56 Aligned_cols=60 Identities=15% Similarity=0.142 Sum_probs=35.9
Q ss_pred eccccHHHHHHHHHHhccC------------cccccccHHHHHHHHHHhhhccCeEEeccCChHHHHHHHHHH
Q psy39 111 GGKLTLKHIYEIAKIKSED------------SAFECETLEYICTSVIGSARSVGIEVVDKLDAEEYQQFLEER 171 (195)
Q Consensus 111 ~G~Itl~~v~eIAk~K~~d------------~~l~~~~l~~~vk~VlGTArSMGi~V~~~id~gey~~~l~~~ 171 (195)
.|++|++.+++||+.-.-+ +.+.....+.|.+.|.-|+++|...- ..+..++.++.++++
T Consensus 64 ~~~psl~~L~kIA~aLgv~~~~l~~~~~~~~~~i~~~a~~~a~~~~~~~~~~m~le~-q~~~~~~~~~~~~~~ 135 (150)
T TIGR02612 64 SGTVTLKTLRAAAEALDCTFVYAFVPKTSLEATIRAQARKVAKEIVARVAHTMALED-QATSKNRTEAEVEAL 135 (150)
T ss_pred CCCCCHHHHHHHHHHcCCCHHHHhCCccchhHHHHHHHHHHHHHHHHHHhhhhhHHh-hcCCHHHHHHHHHHH
Confidence 3567888888888863221 11122344556777888899997642 335555555555554
No 44
>cd03405 Band_7_HflC Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma membranes lack cholesterol and are unlikely to have lipid raft domains. Individual proteins of this band 7 domain family may cluster to form membrane microdomains which may in turn recruit multiprotein complexes. Escherichia coli HflC is an integral membrane protein which may localize to the plasma membrane. HflC associates with another band 7 family member (HflK) to form an HflKC complex. HflKC interacts with FtsH in a large complex termed the FtsH holo-enzyme. FtsH is an AAA ATP-dependent protease which exerts progressive proteolysis against membrane-embedded and soluble substrate proteins. HflKC can modulate the activity of FtsH. HflKC plays a role in the decision between lysogenic and lytic cycle growth during la
Probab=20.04 E-value=3.8e+02 Score=22.30 Aligned_cols=22 Identities=41% Similarity=0.702 Sum_probs=13.6
Q ss_pred hhhccCeEEe----ccCC-hHHHHHHH
Q psy39 147 SARSVGIEVV----DKLD-AEEYQQFL 168 (195)
Q Consensus 147 TArSMGi~V~----~~id-~gey~~~l 168 (195)
....+|+.|+ .+++ |.++.+-+
T Consensus 132 ~l~~~Gi~i~~v~i~~i~~p~~i~~ai 158 (242)
T cd03405 132 EAKELGIEVVDVRIKRIDLPEEVSESV 158 (242)
T ss_pred HHHccCcEEEEEEEEeccCCHHHHHHH
Confidence 3456899995 4544 55565544
Done!