Query 021234
Match_columns 315
No_of_seqs 156 out of 491
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 08:39:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021234.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021234hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3031 Protein required for b 100.0 8.9E-95 1.9E-99 664.5 14.3 293 1-300 1-293 (307)
2 COG5106 RPF2 Uncharacterized c 100.0 1.1E-77 2.3E-82 542.0 11.1 289 1-296 1-296 (316)
3 KOG2971 RNA-binding protein re 100.0 3.3E-45 7.3E-50 332.7 13.7 206 23-253 45-269 (299)
4 COG5154 BRX1 RNA-binding prote 100.0 5.1E-41 1.1E-45 298.8 13.7 206 26-251 29-253 (283)
5 PF04427 Brix: Brix domain; I 100.0 5.5E-42 1.2E-46 304.3 6.6 184 32-232 1-191 (191)
6 smart00879 Brix Brix domain. T 100.0 4.7E-36 1E-40 262.5 18.0 178 31-227 1-180 (180)
7 KOG2963 RNA-binding protein re 99.9 5.8E-27 1.3E-31 221.7 16.7 167 28-209 26-202 (405)
8 KOG2781 U3 small nucleolar rib 99.9 5.9E-26 1.3E-30 206.4 17.5 182 28-238 83-264 (290)
9 KOG2780 Ribosome biogenesis pr 99.7 2.1E-16 4.5E-21 145.9 15.5 183 28-237 97-279 (302)
10 PRK03972 ribosomal biogenesis 99.4 2.2E-11 4.7E-16 110.4 17.9 189 30-245 2-203 (208)
11 COG2136 IMP4 Predicted exosome 99.2 5.6E-10 1.2E-14 100.3 17.0 180 29-235 3-187 (191)
12 PRK00933 ribosomal biogenesis 97.0 0.028 6E-07 49.7 13.9 116 30-172 1-116 (165)
13 PRK15456 universal stress prot 31.9 33 0.00073 28.1 2.1 30 76-106 95-124 (142)
14 cd01987 USP_OKCHK USP domain i 26.3 26 0.00057 27.7 0.5 32 76-107 75-106 (124)
15 cd01988 Na_H_Antiporter_C The 24.7 70 0.0015 25.1 2.7 23 76-98 84-106 (132)
16 PRK15005 universal stress prot 23.9 61 0.0013 26.3 2.3 20 76-95 97-116 (144)
17 PF05450 Nicastrin: Nicastrin; 21.0 1.2E+02 0.0026 28.2 3.8 62 141-202 49-117 (234)
No 1
>KOG3031 consensus Protein required for biogenesis of the ribosomal 60S subunit [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.9e-95 Score=664.51 Aligned_cols=293 Identities=51% Similarity=0.820 Sum_probs=284.9
Q ss_pred CCCccCCCChhhHHHHHHhCCCccccCceEEEEeCCCCChhHHHHHHHHHhccccceeeeccCCCccccCCCCCCchhHh
Q 021234 1 MLKVKTPKNPRVKRALEKRAPKLVETGKKTLILQGTKTSNTLNDVLTELYLLKKGSAIRYTRKNENIRPFESGGETSLEF 80 (315)
Q Consensus 1 ~~~~~k~kt~r~kr~l~~repk~~En~K~~L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~Kkn~~i~pFe~~~~~~le~ 80 (315)
|.++++||+++++|+|.+|||+++||.+.+||+.|..|++.+.++|.||++|++|.++.++|+|. ||||||. ++|||
T Consensus 1 m~rv~k~k~~~~kr~l~kr~~klve~~k~alf~~g~~~~~tl~~vm~dl~alKKp~~i~~~rkN~-i~pFEd~--sslef 77 (307)
T KOG3031|consen 1 MNRVVKPKNARAKRALVKREPKLVENHKDALFLPGMKTNKTLLDVMKDLYALKKPLEIRYNRKNN-IHPFEDP--SSLEF 77 (307)
T ss_pred CCceeecchhhhHHHHHhhchhhchhhhhhhccCchhhchHHHHHHHHHHHhccCceeeeccCCC-cccCCCC--chHHH
Confidence 78999999999999999999999999999999999999999999999999999999999999996 9999997 99999
Q ss_pred hhhcCCCCeEEEEeecCCCCCceEEEeccCCceeeeEEEEeeceeecccccCCCCCCCCCCCccEEEEeCCCCCChhhHH
Q 021234 81 FSLKTDCSIFIYGSTSKKRPDNLVIGRTYDHHIYDLVEVGVENFKPLNSFIYDKKLAPRVGSKPFICFVGEGFESVEELK 160 (315)
Q Consensus 81 la~k~dcslf~~~s~sKKrP~~L~igR~~~g~~lDm~ef~V~n~~~m~df~~~~~~~~~~gskPlLvF~g~~F~~~~~~k 160 (315)
+++|+|||+|+++|||||||+||+|||+||+++||||||+|+||++++||+.+++ ..|++|||+|+|+.|++++.|+
T Consensus 78 fseK~D~slfv~gs~sKKrp~nLv~gR~fd~~vlDMiElgI~~ykslsdF~~~k~---~~gtKP~l~f~G~~f~~~~~~k 154 (307)
T KOG3031|consen 78 FSEKNDCSLFVLGSHSKKRPNNLVIGRTFDYEVLDMIELGIENYKSLSDFKAAKI---TEGTKPMLIFQGAVFDQHPEYK 154 (307)
T ss_pred HhhhhhhhhhhhccccccCCCceEEEEecCchhhHHHHHhhhhhhhhhhhhccCC---CCCCCceEEEecchhccChHHH
Confidence 9999999999999999999999999999999999999999999999999998877 8999999999999999999999
Q ss_pred HHHHHHHhhCCCCCCCccccCCCCEEEEEEEeCCCeEEEEEeEEEeeeCCCCCCCeeEEeeccceeEEEEEeeCCCHHHH
Q 021234 161 HLKEVLVDLLRGEVIENLNLAGLDHAYVCTAVSSNRVFFTHCALRLKKSGTIVPRMELVEVGPCMDFVVRRHRLPNESLR 240 (315)
Q Consensus 161 ~lk~ll~d~F~~~~~~~i~l~gld~Vi~ft~~d~~~I~fR~Y~I~~kksg~~~p~veL~EiGPr~dl~~~r~~~~~~~l~ 240 (315)
+|+|||+|||+|+.++.++|+|++|||+||+.++..|+||+|.+.+++||+.+||+||+||||++||+++|+++||+|||
T Consensus 155 rlknL~vDfFrge~vd~v~l~Gl~~v~vfta~~~~~v~~r~Y~lklkKs~~~~PRiELeE~GPsldf~irR~~~asddL~ 234 (307)
T KOG3031|consen 155 RLKNLFVDFFRGEKVDKVRLAGLEYVIVFTATEETNVLFRVYRLKLKKSGTRTPRIELEEMGPSLDFEIRRTKLASDDLY 234 (307)
T ss_pred HHHHHHHHHHcCCcccceeeccccEEEEEEeecCceeeeeeeeeeeeeccCCCCceehhhcCCceeEEEEeccCCCHHHH
Confidence 99999999999999999999999999999999988899999999999999999999999999999999999999999999
Q ss_pred HHHHhhhhhcccccccccccccCCCeeeEEeccCCCCCCCCCcccccCCccchhHhhccC
Q 021234 241 KEAMKTAKDQSKKKVKNVGQDAIQGKIGKIYIPDQKLGDMALPNKAKGVKRERREAKMKN 300 (315)
Q Consensus 241 k~A~k~pk~~~~kk~KNi~~d~~g~~~Grvh~~kQdl~~lqt~rk~k~lk~~~~~~~~~~ 300 (315)
|+|||+||++++|++|||+.|.||+++|||||++||+++||| |||||||+.++++...+
T Consensus 235 k~A~k~PK~l~~K~kKNv~~D~~g~k~GriHm~kQdl~~iqt-rK~Kglk~e~~~~~~~~ 293 (307)
T KOG3031|consen 235 KEALKKPKQLEKKKKKNVSKDAFGNKLGRIHMGKQDLGDIQT-RKSKGLKKERKDARLKE 293 (307)
T ss_pred HHHhcCchhcccccccccchhhhcCcceeEecChhhhhhHHH-HHhhhhhhccccchhcc
Confidence 999999999999999999999999999999999999999999 99999998655554443
No 2
>COG5106 RPF2 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=1.1e-77 Score=542.05 Aligned_cols=289 Identities=39% Similarity=0.598 Sum_probs=277.2
Q ss_pred CCCccCCCChhhHHHHHHhCCCccccCceEEEEeCCCCChhHHHHHHHHHhccccceeeeccCCCccccCCCCCCchhHh
Q 021234 1 MLKVKTPKNPRVKRALEKRAPKLVETGKKTLILQGTKTSNTLNDVLTELYLLKKGSAIRYTRKNENIRPFESGGETSLEF 80 (315)
Q Consensus 1 ~~~~~k~kt~r~kr~l~~repk~~En~K~~L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~Kkn~~i~pFe~~~~~~le~ 80 (315)
|+|.+||||+|.||||.+|||+++|+.|.+||+.|..+++.+-++|-|+.+|++|..+.+.|+|. ||||||. ++|||
T Consensus 1 M~r~vkpkNaR~kRAl~kRepklve~~k~AiF~pg~s~~k~lldvi~d~~alkkp~~i~f~rkn~-ihpfEd~--SplEf 77 (316)
T COG5106 1 MFRAVKPKNARVKRALHKREPKLVEAHKDAIFYPGMSERKTLLDVICDTEALKKPKEIGFIRKNT-IHPFEDT--SPLEF 77 (316)
T ss_pred CccccCCcchHHHHHHHhcCchhhhhhhheEeccCcccchhhhhhhcchhhhccchhhccccCCc-ccccccC--CHHHH
Confidence 88999999999999999999999999999999999999999999999999999999999999997 9999998 99999
Q ss_pred hhhcCCCCeEEEEeecCCCCCceEEEeccCCceeeeEEEEeeceeecccccCCCCCCCCCCCccEEEEeCCCCCChhhHH
Q 021234 81 FSLKTDCSIFIYGSTSKKRPDNLVIGRTYDHHIYDLVEVGVENFKPLNSFIYDKKLAPRVGSKPFICFVGEGFESVEELK 160 (315)
Q Consensus 81 la~k~dcslf~~~s~sKKrP~~L~igR~~~g~~lDm~ef~V~n~~~m~df~~~~~~~~~~gskPlLvF~g~~F~~~~~~k 160 (315)
++++|||++.+++.|+|||+|||+|||+|++.++|||||+|.+|++++||..++ +..|.+|+++|||..|+..|.|+
T Consensus 78 fseknd~~l~vl~ts~kKr~hnlt~~R~Fny~~~DMiEl~i~~yksvsdF~~~~---~~~g~Kpmv~fQg~~fd~hp~yr 154 (316)
T COG5106 78 FSEKNDKKLSVLFTSVKKRRHNLTIGRAFNYELIDMIELKINRYKSVSDFECAG---PELGMKPMVVFQGINFDAHPTYR 154 (316)
T ss_pred HHHhhhhhhhhhhhhccccccceeEEeecchHHHHHHHHhhhhhhehhhhhccC---CccCCceEEEEeccccccchHHH
Confidence 999999999999999999999999999999999999999999999999998554 48999999999999999999999
Q ss_pred HHHHHHHhhCCCCCCCccccCCCCEEEEEEEeCC-------CeEEEEEeEEEeeeCCCCCCCeeEEeeccceeEEEEEee
Q 021234 161 HLKEVLVDLLRGEVIENLNLAGLDHAYVCTAVSS-------NRVFFTHCALRLKKSGTIVPRMELVEVGPCMDFVVRRHR 233 (315)
Q Consensus 161 ~lk~ll~d~F~~~~~~~i~l~gld~Vi~ft~~d~-------~~I~fR~Y~I~~kksg~~~p~veL~EiGPr~dl~~~r~~ 233 (315)
+|+|||.|||+|...+.....|+.|||+.|+... +.+.||+|...+-++.+.+||+||+|||||+||+++|++
T Consensus 155 ~iksLflDFFrges~~~ldsagls~Vi~~t~~g~~~d~~plp~v~fRVyk~k~~kt~~~lpr~elee~GPrldf~i~R~~ 234 (316)
T COG5106 155 RIKSLFLDFFRGESSKVLDSAGLSWVIARTEEGYVLDTYPLPLVVFRVYKTKLLKTKTNLPRLELEECGPRLDFEIVRSY 234 (316)
T ss_pred HHHHHHHHHHcCCchhhhhhcceeEEEEEecchhhhccccccceeeeeeecccccccCCCCceehhhcccceeeEEEeec
Confidence 9999999999999999999999999999998632 358999999998899999999999999999999999999
Q ss_pred CCCHHHHHHHHhhhhhcccccccccccccCCCeeeEEeccCCCCCCCCCcccccCCccchhHh
Q 021234 234 LPNESLRKEAMKTAKDQSKKKVKNVGQDAIQGKIGKIYIPDQKLGDMALPNKAKGVKRERREA 296 (315)
Q Consensus 234 ~~~~~l~k~A~k~pk~~~~kk~KNi~~d~~g~~~Grvh~~kQdl~~lqt~rk~k~lk~~~~~~ 296 (315)
.+++|+|++|++.|+++++|.+||+..|.|||++|||||++|||+.||| |||||||+.-.+.
T Consensus 235 ~~s~d~~~ealkkPk~~e~KpkKNv~~di~gdkiGriHidkQDLg~lqt-rKmkGlk~gvee~ 296 (316)
T COG5106 235 HCSDDLYKEALKKPKTQEPKPKKNVAKDIFGDKIGRIHIDKQDLGDLQT-RKMKGLKRGVEEW 296 (316)
T ss_pred CCChHHHHHHhcCccccCCCcccchhhhhhhccccceeechhHhhhHHH-Hhhhccccccccc
Confidence 9999999999999999999999999999999999999999999999999 9999999765443
No 3
>KOG2971 consensus RNA-binding protein required for biogenesis of the ribosomal 60S subunit [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.3e-45 Score=332.70 Aligned_cols=206 Identities=16% Similarity=0.249 Sum_probs=186.9
Q ss_pred ccccCceEEEEeCCCCChhHHHHHHHHHhccccceeeecc----CCCccccCCCCCCchhHhhhhcCCCCeEEEEeecCC
Q 021234 23 LVETGKKTLILQGTKTSNTLNDVLTELYLLKKGSAIRYTR----KNENIRPFESGGETSLEFFSLKTDCSIFIYGSTSKK 98 (315)
Q Consensus 23 ~~En~K~~L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~K----kn~~i~pFe~~~~~~le~la~k~dcslf~~~s~sKK 98 (315)
.+.|.+++|++++|++|.+.||||+||..|+ ||+...+| ++ + ..|+++|+.++|+.++|++++|+
T Consensus 45 ~w~NK~rvlv~ssRgis~R~RhLm~di~~Ll-ph~k~dsk~d~~k~--l--------~~lnel~elkncn~~lfFesrkr 113 (299)
T KOG2971|consen 45 KWKNKERVLVLSSRGISFRTRHLMKDISSLL-PHSKKDSKLDRKKK--L--------GVLNELAELKNCNSCLFFESRKR 113 (299)
T ss_pred ccccceeEEEEecCCchHHHHHHHHHHHHhc-ccccccchhhhcch--H--------HHHHHHHHHhcCCeEEEEEeecc
Confidence 4668999999999999999999999999998 99987654 22 2 79999999999999999999999
Q ss_pred CCCceEEEeccCCceeeeEEEEeeceeecccccCC-CCCCCCCCCccEEEEeCCCCCChhhHHHHHHHHHhhCCCCCCCc
Q 021234 99 RPDNLVIGRTYDHHIYDLVEVGVENFKPLNSFIYD-KKLAPRVGSKPFICFVGEGFESVEELKHLKEVLVDLLRGEVIEN 177 (315)
Q Consensus 99 rP~~L~igR~~~g~~lDm~ef~V~n~~~m~df~~~-~~~~~~~gskPlLvF~g~~F~~~~~~k~lk~ll~d~F~~~~~~~ 177 (315)
+..|||+++.++||+ +.|.|+|.|||+|++++ +| +.||+|+|.|+.. ||+.|||+++|+||.++|+.|..|+
T Consensus 114 ~DlYlWm~~~p~GpS---vkFlv~n~hTM~ElkmtgN~---lkgsrplLsFd~~-Fd~~pHlkl~Kell~q~fgiP~~hr 186 (299)
T KOG2971|consen 114 KDLYLWMSNSPNGPS---VKFLVHNVHTMAELKMTGNC---LKGSRPLLSFDKA-FDELPHLKLLKELLEQIFGIPKHHR 186 (299)
T ss_pred CceeEEEecCCCCCc---eEEehhhhhhHHHhCCcccc---ccCCcceeecccc-cccchHHHHHHHHHHHHcCCCCCCc
Confidence 999999999999999 79999999999999998 56 9999999999985 9999999999999999999999999
Q ss_pred cccCCCCEEEEEEEeCCCeEEEEEeEEEeeeCCCCCCCeeEEeeccceeEEEEEeeC--------------CCHHHHHHH
Q 021234 178 LNLAGLDHAYVCTAVSSNRVFFTHCALRLKKSGTIVPRMELVEVGPCMDFVVRRHRL--------------PNESLRKEA 243 (315)
Q Consensus 178 i~l~gld~Vi~ft~~d~~~I~fR~Y~I~~kksg~~~p~veL~EiGPr~dl~~~r~~~--------------~~~~l~k~A 243 (315)
.|.|++|||++||+.|+. ||||+|+|... ....|+||||||+|+++++.. .|+.+.+.+
T Consensus 187 kSkpf~Dhvf~Fsi~D~~-IWfRnyqI~~~------ed~~L~EiGPRfvl~~ikif~gsFgG~~lYenp~yvspn~~r~~ 259 (299)
T KOG2971|consen 187 KSKPFVDHVFTFSILDGK-IWFRNYQISEE------EDKTLIEIGPRFVLNVIKIFEGSFGGPTLYENPKYVSPNMIRAV 259 (299)
T ss_pred ccCCccceEEEEEEecCe-EEEEEeEeccc------cCcceeeeccHHHHhHHHHHhccCCCceeecCccccCHHHHHHH
Confidence 999999999999999986 99999999632 348999999999999999864 677788888
Q ss_pred Hhhhhhcccc
Q 021234 244 MKTAKDQSKK 253 (315)
Q Consensus 244 ~k~pk~~~~k 253 (315)
.|+..+.+.+
T Consensus 260 ~k~~~a~k~~ 269 (299)
T KOG2971|consen 260 IKKQAAGKYQ 269 (299)
T ss_pred HHHHHHHHHH
Confidence 8877765543
No 4
>COG5154 BRX1 RNA-binding protein required for 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.1e-41 Score=298.81 Aligned_cols=206 Identities=17% Similarity=0.255 Sum_probs=185.8
Q ss_pred cCceEEEEeCCCCChhHHHHHHHHHhccccceeeec----cCCCccccCCCCCCchhHhhhhcCCCCeEEEEeecCCCCC
Q 021234 26 TGKKTLILQGTKTSNTLNDVLTELYLLKKGSAIRYT----RKNENIRPFESGGETSLEFFSLKTDCSIFIYGSTSKKRPD 101 (315)
Q Consensus 26 n~K~~L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~----Kkn~~i~pFe~~~~~~le~la~k~dcslf~~~s~sKKrP~ 101 (315)
+.+++|++.+|++|.+.+|||+||..|+ ||+++.. ++|- .+|++||+.++|+.++|+.++|....
T Consensus 29 ~kq~~lilSsRGvsyr~RHL~~Dls~l~-phskke~KlD~kk~l----------~qLnelaelynCnn~lFFesrkr~Dl 97 (283)
T COG5154 29 PKQTSLILSSRGVSYRIRHLMKDLSRLV-PHSKKEQKLDMKKNL----------GQLNELAELYNCNNMLFFESRKRSDL 97 (283)
T ss_pred ccceEEEEecCCchHHHHHHHHHHHHhC-cccccccccchhhhH----------HHHHHHHHHhcCCceEEEeecccccc
Confidence 6789999999999999999999999997 9997655 4442 79999999999999999999999999
Q ss_pred ceEEEeccCCceeeeEEEEeeceeecccccCC-CCCCCCCCCccEEEEeCCCCCChhhHHHHHHHHHhhCCCCCCCcccc
Q 021234 102 NLVIGRTYDHHIYDLVEVGVENFKPLNSFIYD-KKLAPRVGSKPFICFVGEGFESVEELKHLKEVLVDLLRGEVIENLNL 180 (315)
Q Consensus 102 ~L~igR~~~g~~lDm~ef~V~n~~~m~df~~~-~~~~~~~gskPlLvF~g~~F~~~~~~k~lk~ll~d~F~~~~~~~i~l 180 (315)
+||++|.+|||+ +.|.|+|.|+|+|+.++ +| ++||+|+|.|+.+ |++.|||+.+|++|.+.|..|.....+.
T Consensus 98 yl~~ar~pnGpt---vkF~~~NlhTMdelNftgN~---lKgsrpvLsFdk~-Fe~~pHlk~~Kell~h~F~ip~~arrSk 170 (283)
T COG5154 98 YLMGARIPNGPT---VKFRMHNLHTMDELNFTGNS---LKGSRPVLSFDKE-FEDIPHLKYAKELLEHIFGIPKGARRSK 170 (283)
T ss_pred eeeeccCCCCCe---EEEEEeccchHhhcCCcccc---ccCCcceEeeccc-cccchHHHHHHHHHHHhccCCCcccccc
Confidence 999999999999 79999999999999998 55 9999999999996 9999999999999999999999999999
Q ss_pred CCCCEEEEEEEeCCCeEEEEEeEEEeeeCCCCCCCeeEEeeccceeEEEEEee--------------CCCHHHHHHHHhh
Q 021234 181 AGLDHAYVCTAVSSNRVFFTHCALRLKKSGTIVPRMELVEVGPCMDFVVRRHR--------------LPNESLRKEAMKT 246 (315)
Q Consensus 181 ~gld~Vi~ft~~d~~~I~fR~Y~I~~kksg~~~p~veL~EiGPr~dl~~~r~~--------------~~~~~l~k~A~k~ 246 (315)
|++|||++|++.|+. ||+|+|.|.- ....+...|.|+||||||+|+++.+- +.|+.+.++|+++
T Consensus 171 pfiD~v~~f~i~Dgk-IWvR~YeI~r-e~ed~~~dv~L~EIGPRfVmtvi~iLEgsFgGp~iYkn~~~vs~~~vra~ir~ 248 (283)
T COG5154 171 PFIDKVLCFFILDGK-IWVRCYEIGR-ENEDKSKDVKLEEIGPRFVMTVIKILEGSFGGPAIYKNETFVSSTMVRAAIRN 248 (283)
T ss_pred cchhheEEEEEecCe-EEEEEEeecc-ccccccccceeeeeccHHHHHHHHHHHhccCCceeeecccccchHHHHHHHHH
Confidence 999999999999997 9999999952 23344456999999999999988763 4788888999998
Q ss_pred hhhcc
Q 021234 247 AKDQS 251 (315)
Q Consensus 247 pk~~~ 251 (315)
..+..
T Consensus 249 qaae~ 253 (283)
T COG5154 249 QAAEN 253 (283)
T ss_pred HHHHH
Confidence 77653
No 5
>PF04427 Brix: Brix domain; InterPro: IPR007109 The Brix domain is found in a number of eukaryotic proteins including some from Saccharomyces cerevisiae and Homo sapiens, Arabidopsis thaliana Peter Pan-like protein and several hypothetical proteins. There are six (one archaean and five eukaryotic) protein families which have a similar domain architecture with a central globular Brix domain. They have an optional N- and obligatory C-terminal segments, which both have charged low-complexity regions []. Proteins from the Imp4/Brix superfamily appear to be involved in ribosomal RNA processing, which essential for the functioning of all cells. The N- and C-terminal halves of a member of the superfamily, Mil, show significant structural similarity to one another. This suggests an origin by means of an ancestral duplication. Both halves have the same fold as the anticodon-binding domain of class IIa aminoacyl-tRNA synthetases, with greater conservation seen in the N-terminal half. Structural evidence suggests that the Imp4/Brix superfamily proteins could bind single-stranded segments of RNA along a concave surface formed by the N-terminal half of their beta-sheet and a central alpha-helix [].; PDB: 2CXH_A.
Probab=100.00 E-value=5.5e-42 Score=304.30 Aligned_cols=184 Identities=33% Similarity=0.543 Sum_probs=73.3
Q ss_pred EEeCCCCChhHHHHHHHHHhccccceeeeccCCC-ccccCCCCCCchhHhhhhcCCCCeEEEEeecCCCCCceEEEeccC
Q 021234 32 ILQGTKTSNTLNDVLTELYLLKKGSAIRYTRKNE-NIRPFESGGETSLEFFSLKTDCSIFIYGSTSKKRPDNLVIGRTYD 110 (315)
Q Consensus 32 ~l~g~~~s~~~~~llkDL~~L~kP~a~~~~Kkn~-~i~pFe~~~~~~le~la~k~dcslf~~~s~sKKrP~~L~igR~~~ 110 (315)
|++|+++|+.+++|++||+.|++|+|++++|++. .+. ..+|+++.+++|++++|+++++ +|++|||+|+|+
T Consensus 1 i~ts~~~s~~~~~l~~DL~~l~~p~s~~~~r~~~~~l~-------~~~~~~~~~~~~~l~~~~~~~k-~p~~L~i~r~~~ 72 (191)
T PF04427_consen 1 ITTSRKPSKRLRQLMKDLRSLFPPNSKKLNRKKKNSLK-------DLLEFAKQKNCTSLFVFGEHKK-NPNNLWIGRLPN 72 (191)
T ss_dssp -EESSS--HHHHHHHHHHHTTS-TTEEE---TT---HH-------HHHHHHHHTTEEEEEEEEEETT-EEEEEEEEE-SS
T ss_pred cCCCCCCCHHHHHHHHHHHHHcCCCeEEEeCCCCCchH-------HHHHHHHHCCCCEEEEEEEeCC-CcceEEEEecCC
Confidence 6899999999999999999998899999998875 343 4667777777778888888876 999999999999
Q ss_pred CceeeeEEEEeeceeecccccCC-CCCCCCCCCccEEEEeCCCCCChhhHHHHHHHHHhhCCCCCCCccccCCCCEEEEE
Q 021234 111 HHIYDLVEVGVENFKPLNSFIYD-KKLAPRVGSKPFICFVGEGFESVEELKHLKEVLVDLLRGEVIENLNLAGLDHAYVC 189 (315)
Q Consensus 111 g~~lDm~ef~V~n~~~m~df~~~-~~~~~~~gskPlLvF~g~~F~~~~~~k~lk~ll~d~F~~~~~~~i~l~gld~Vi~f 189 (315)
||++ +|+|.+|++++|++.. .. ..|++|+|+|+|..|+.+++++++++||+|+|+++.++.+.+.++||||+|
T Consensus 73 gptl---~f~I~~~~~~~~~~~~~~~---~~~~~P~lif~g~~~~~~~~~~~ik~~l~~lF~~~~~~~~~~~~~~rvi~f 146 (191)
T PF04427_consen 73 GPTL---EFSIENYKLMKDIKSSSKR---PKGSRPLLIFNGFFFELDPELKLIKELLQDLFPGPNVDSIPLPGIDRVISF 146 (191)
T ss_dssp --EE---EEEEEEEE-HHHHT----------S---EEEEE----------------------------------------
T ss_pred CCCE---EEEEEeEEEhhHhcccccC---CCCCCeEEEEEeccccccccccccccccccccccccccccccccccccccc
Confidence 9996 9999999999999854 22 458899999999767667999999999999999999999999999999999
Q ss_pred EEeCCCeEEEEEeEEEeeeCCCCC-----CCeeEEeeccceeEEEEEe
Q 021234 190 TAVSSNRVFFTHCALRLKKSGTIV-----PRMELVEVGPCMDFVVRRH 232 (315)
Q Consensus 190 t~~d~~~I~fR~Y~I~~kksg~~~-----p~veL~EiGPr~dl~~~r~ 232 (315)
++.+|..|||||| | .+++++. +.|+|+||||||+|+|+|+
T Consensus 147 ~~~~d~~I~fR~Y-i--~~~~~~~~~~~~~~v~L~EiGPr~~l~l~kI 191 (191)
T PF04427_consen 147 SNQRDFVIFFRHY-I--FKSGSKNPKKLLPRVELVEIGPRFTLKLRKI 191 (191)
T ss_dssp ------------------------------------------------
T ss_pred ccccccccccccc-c--cccccccccccccccccccccccccccccCC
Confidence 9987745999999 7 4445544 4489999999999999986
No 6
>smart00879 Brix Brix domain. The Brix domain is found in a number of eukaryotic proteins including SSF proteins from yeast and humans, Arabidopsis thaliana Peter Pan-like protein and several hypothetical proteins.
Probab=100.00 E-value=4.7e-36 Score=262.50 Aligned_cols=178 Identities=30% Similarity=0.396 Sum_probs=150.2
Q ss_pred EEEeCCCCChhHHHHHHHHHhccccceeeecc-CCCccccCCCCCCchhHhhhhc-CCCCeEEEEeecCCCCCceEEEec
Q 021234 31 LILQGTKTSNTLNDVLTELYLLKKGSAIRYTR-KNENIRPFESGGETSLEFFSLK-TDCSIFIYGSTSKKRPDNLVIGRT 108 (315)
Q Consensus 31 L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~K-kn~~i~pFe~~~~~~le~la~k-~dcslf~~~s~sKKrP~~L~igR~ 108 (315)
||++|+++|+.++++++||+.++ |++.+.++ ++. +. ..+|+++.+ .+|+++++.+++|++|++||++|+
T Consensus 1 lit~sr~~s~~~r~~~~dL~~~~-~~~~~~~r~~~~-~~-------~~~e~~~~~~~~~~i~v~e~~~k~~p~~L~i~~~ 71 (180)
T smart00879 1 LITTSRKPSKRTRQLAKDLRRLF-PPSTKINRGKNK-LN-------ELLEFASEKGNTDLLVVFESSSKGRPLNLTIYRL 71 (180)
T ss_pred CEEcCCCCCHHHHHHHHHHHHHC-CCcEeecccCcc-HH-------HHHHHHHHcCCccEEEEecccCCCCCceEEEEEC
Confidence 68899999999999999999998 65555554 443 42 578888887 677888888888999999999999
Q ss_pred cCCceeeeEEEEeeceeecccccCCCCCCCCCCCccEEEEeCCCCCChhhHHHHHHHHHhhCCCCCCCccccCCCCEEEE
Q 021234 109 YDHHIYDLVEVGVENFKPLNSFIYDKKLAPRVGSKPFICFVGEGFESVEELKHLKEVLVDLLRGEVIENLNLAGLDHAYV 188 (315)
Q Consensus 109 ~~g~~lDm~ef~V~n~~~m~df~~~~~~~~~~gskPlLvF~g~~F~~~~~~k~lk~ll~d~F~~~~~~~i~l~gld~Vi~ 188 (315)
|+||+|||.+++|..++.+..+...++ ..+++|+|+|+|..|+. .++++++|+++|+++.++.+++++++||++
T Consensus 72 ~~gp~l~f~i~~v~~~~~~~~~~~~~~---~~~~~P~li~~~~~~~~---~~~~k~~l~~~F~~~~~~~~~~~~~~rvi~ 145 (180)
T smart00879 72 PNGPTLDFKILNVSLRKELKGFKTGNC---LTGSRPLLIFNNFFTEL---GKLIKELFQDLFPGPPEHKKSLPGLRRVVT 145 (180)
T ss_pred CCCCcEEEEEECcccHhhhhhhhcCCC---cCCCccEEEECCCCCch---HHHHHHHHHHHCCCCCccccccCCCCEEEE
Confidence 999999888887777776666543444 78899999999954443 388999999999999999999999999999
Q ss_pred EEEeCCCeEEEEEeEEEeeeCCCCCCCeeEEeeccceeE
Q 021234 189 CTAVSSNRVFFTHCALRLKKSGTIVPRMELVEVGPCMDF 227 (315)
Q Consensus 189 ft~~d~~~I~fR~Y~I~~kksg~~~p~veL~EiGPr~dl 227 (315)
|++.++. ||||||.|.. +.+.++++|.||||||+|
T Consensus 146 f~~~~~~-I~~R~y~i~~---~~~~~~v~l~eiGPr~~l 180 (180)
T smart00879 146 FSNQDDY-IFFRHYRIKF---GKKKPRVELQEIGPRFTL 180 (180)
T ss_pred EEecCCE-EEEEEEEEEc---cCCCCceEEEEecCCccC
Confidence 9999985 9999999976 556789999999999986
No 7
>KOG2963 consensus RNA-binding protein required for 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=5.8e-27 Score=221.69 Aligned_cols=167 Identities=13% Similarity=0.189 Sum_probs=143.1
Q ss_pred ceEEEEeCCCCChhHHHHHHHHHhccccce-ee--eccCCCccccCCCCCCchhHhhhhcCCCCeEEEEeecCCCCCceE
Q 021234 28 KKTLILQGTKTSNTLNDVLTELYLLKKGSA-IR--YTRKNENIRPFESGGETSLEFFSLKTDCSIFIYGSTSKKRPDNLV 104 (315)
Q Consensus 28 K~~L~l~g~~~s~~~~~llkDL~~L~kP~a-~~--~~Kkn~~i~pFe~~~~~~le~la~k~dcslf~~~s~sKKrP~~L~ 104 (315)
..+++++..-+...+++|..||+.||.||+ .+ ..|+|. |++|... |...|+++|++++.+.. -.+|.
T Consensus 26 ph~~v~~rgla~~~~~~L~~DlR~iMeP~TA~~LkerK~N~-iKDfv~~--------~gplGVTH~l~lskt~~-nlslk 95 (405)
T KOG2963|consen 26 PHIRVGHRGLAGRSLKQLTLDLRRIMEPHTASNLKERKRNK-LKDFVVM--------SGPLGVTHLLMLSKTET-NLSLK 95 (405)
T ss_pred ceEEEEecccccccHHHHHHHHHHhhCcchhhHHHHHhhhh-hhhHHhh--------cccccceEEEEEecccC-ceeEE
Confidence 344455544556899999999999999995 44 458897 9999984 99999999999888765 66899
Q ss_pred EEeccCCceeeeEEEEeeceeecccccC----CCCCCCCCCCccEEEEeCCCCCCh--hhHHHHHHHHHhhCCCCCCCcc
Q 021234 105 IGRTYDHHIYDLVEVGVENFKPLNSFIY----DKKLAPRVGSKPFICFVGEGFESV--EELKHLKEVLVDLLRGEVIENL 178 (315)
Q Consensus 105 igR~~~g~~lDm~ef~V~n~~~m~df~~----~~~~~~~~gskPlLvF~g~~F~~~--~~~k~lk~ll~d~F~~~~~~~i 178 (315)
+.|++.||+| .|.|..|....|+.. +.|..-.+-+.||||+|| |.++ +|++++..+|++|||..+++.+
T Consensus 96 i~R~PqGPTL---tFkV~qYsLardV~~~qkrp~~~~~~Fk~pPLlVmNg--Fg~~~~~HlkL~~t~FQNmFPsInv~tv 170 (405)
T KOG2963|consen 96 IARTPQGPTL---TFKVHQYSLARDVVSLQKRPKSPNDLFKSPPLLVLNG--FGTSGRKHLKLMTTMFQNMFPSINVATV 170 (405)
T ss_pred EEecCCCCce---EEEeeehhhHHHHHHHHhCCCCchhhccCCCEEEEcc--CCCCcchhHHHHHHHHHHcCCCcCccee
Confidence 9999999995 999999999999864 345555788999999999 9986 8999999999999999999999
Q ss_pred ccCCCCEEEEEEEe-CCCeEEEEEeEEEeeeC
Q 021234 179 NLAGLDHAYVCTAV-SSNRVFFTHCALRLKKS 209 (315)
Q Consensus 179 ~l~gld~Vi~ft~~-d~~~I~fR~Y~I~~kks 209 (315)
+|..|+||+.|+|. |+..|.||||.|...+.
T Consensus 171 nlntikRcllinyn~dt~eIdmRHysI~vvpV 202 (405)
T KOG2963|consen 171 NLNTIKRCLLINYNRDTGEIDMRHYSIRVVPV 202 (405)
T ss_pred eccceeEEEEEecCCCCCeeeeeeeEEEEEec
Confidence 99999999999995 56679999999987653
No 8
>KOG2781 consensus U3 small nucleolar ribonucleoprotein (snoRNP) component [RNA processing and modification]
Probab=99.94 E-value=5.9e-26 Score=206.40 Aligned_cols=182 Identities=19% Similarity=0.169 Sum_probs=164.4
Q ss_pred ceEEEEeCCCCChhHHHHHHHHHhccccceeeeccCCCccccCCCCCCchhHhhhhcCCCCeEEEEeecCCCCCceEEEe
Q 021234 28 KKTLILQGTKTSNTLNDVLTELYLLKKGSAIRYTRKNENIRPFESGGETSLEFFSLKTDCSIFIYGSTSKKRPDNLVIGR 107 (315)
Q Consensus 28 K~~L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~Kkn~~i~pFe~~~~~~le~la~k~dcslf~~~s~sKKrP~~L~igR 107 (315)
-++|+..|+..|.++.+++++|..+. |+|.++++.|. .. ..|.+-|..+|...+++...++..|.+|++++
T Consensus 83 PKimvTTSR~PSsrL~~FaKelkLvf-PNaqr~nRG~~-~~-------~~lv~a~ra~~~Td~iivHEhRG~PdgL~vsh 153 (290)
T KOG2781|consen 83 PKIMVTTSRDPSSRLKMFAKELKLVF-PNAQRLNRGNY-VV-------GELVDAARANGVTDLIIVHEHRGIPDGLVVSH 153 (290)
T ss_pred CcEEEEeCCCchHHHHHHHHhheEec-cChhhhcccce-eH-------HHHHHHHHHCCCceEEEEeccCCCCCceEEEe
Confidence 46899999999999999999999885 99999999996 32 78999999999999999999999999999999
Q ss_pred ccCCceeeeEEEEeeceeecccccCCCCCCCCCCCccEEEEeCCCCCChhhHHHHHHHHHhhCCCCCCCccccCCCCEEE
Q 021234 108 TYDHHIYDLVEVGVENFKPLNSFIYDKKLAPRVGSKPFICFVGEGFESVEELKHLKEVLVDLLRGEVIENLNLAGLDHAY 187 (315)
Q Consensus 108 ~~~g~~lDm~ef~V~n~~~m~df~~~~~~~~~~gskPlLvF~g~~F~~~~~~k~lk~ll~d~F~~~~~~~i~l~gld~Vi 187 (315)
+|=||+ .-|.+.|+.+.+|+...+. +...+|+|||++ |+ +...++++++|.++|++|.. .-.|||
T Consensus 154 lPfGPT---a~Fsl~nvVmRhdip~~G~---msE~~phlIfdN--f~-t~lG~Rv~~iLkhLFP~pk~------ds~Rvv 218 (290)
T KOG2781|consen 154 LPFGPT---AFFSLHNVVMRHDIPDIGT---MSEQKPHLIFDN--FT-TKLGKRVKTILKHLFPVPKD------DSKRVV 218 (290)
T ss_pred cCCCCc---eEeeeeeeeeccccccccc---ccccCceEEecc--cc-chHHHHHHHHHHHhCCCCcC------CcccEE
Confidence 999999 6899999999999997765 788899999998 98 67899999999999998876 789999
Q ss_pred EEEEeCCCeEEEEEeEEEeeeCCCCCCCeeEEeeccceeEEEEEeeCCCHH
Q 021234 188 VCTAVSSNRVFFTHCALRLKKSGTIVPRMELVEVGPCMDFVVRRHRLPNES 238 (315)
Q Consensus 188 ~ft~~d~~~I~fR~Y~I~~kksg~~~p~veL~EiGPr~dl~~~r~~~~~~~ 238 (315)
+|.+.+|- |.||||.+.... . ..|+|.|+||||+|.+..+++++-|
T Consensus 219 tf~N~~Dy-IsFRhhvy~~~~--~--k~vel~evGPRfelklyeIrlGTlE 264 (290)
T KOG2781|consen 219 TFANRNDY-ISFRHHVYKKTD--G--KEVELTEVGPRFELKLYEIRLGTLE 264 (290)
T ss_pred EEecCCce-EEEEEEEEecCC--C--ceEEEeeccccceeeeeeeeeccee
Confidence 99999996 999999985421 1 3599999999999999999999888
No 9
>KOG2780 consensus Ribosome biogenesis protein RPF1, contains IMP4 domain [RNA processing and modification]
Probab=99.71 E-value=2.1e-16 Score=145.88 Aligned_cols=183 Identities=15% Similarity=0.181 Sum_probs=152.9
Q ss_pred ceEEEEeCCCCChhHHHHHHHHHhccccceeeeccCCCccccCCCCCCchhHhhhhcCCCCeEEEEeecCCCCCceEEEe
Q 021234 28 KKTLILQGTKTSNTLNDVLTELYLLKKGSAIRYTRKNENIRPFESGGETSLEFFSLKTDCSIFIYGSTSKKRPDNLVIGR 107 (315)
Q Consensus 28 K~~L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~Kkn~~i~pFe~~~~~~le~la~k~dcslf~~~s~sKKrP~~L~igR 107 (315)
-++||..+...+-....++.+|..+. ||+.-..+.|..+ .++.+.|.+.+.+.+++....++.|+.|.|+.
T Consensus 97 pKvlITt~~~~~~~t~~~~~eL~~ii-PNs~~~~R~~~~v--------k~i~~~a~~~eftdlvvV~edRkk~n~L~iih 167 (302)
T KOG2780|consen 97 PKVLITTSKNPKRTTYKFASELLDII-PNSTVKKRDNYTV--------KSIVEIAIKREFTDLVVVNEDRKKPNGLKIIH 167 (302)
T ss_pred ccEEEEcCCCCcccHHHHHHHHHHhC-CCceEEecCCchH--------HHHHHHHHHhcCCceEEEecCcCCccceEEEe
Confidence 57889999899999999999999995 9986554556423 68888999999998888887777899999999
Q ss_pred ccCCceeeeEEEEeeceeecccccCCCCCCCCCCCccEEEEeCCCCCChhhHHHHHHHHHhhCCCCCCCccccCCCCEEE
Q 021234 108 TYDHHIYDLVEVGVENFKPLNSFIYDKKLAPRVGSKPFICFVGEGFESVEELKHLKEVLVDLLRGEVIENLNLAGLDHAY 187 (315)
Q Consensus 108 ~~~g~~lDm~ef~V~n~~~m~df~~~~~~~~~~gskPlLvF~g~~F~~~~~~k~lk~ll~d~F~~~~~~~i~l~gld~Vi 187 (315)
+++||+ +-|.+.+|..-.|+..-+. .-+..|=|++++ |. +.....+..||+.+|+.+.. . .-.+|+
T Consensus 168 lP~GPT---~~Fkls~~~~~kdi~k~g~---~t~h~PElIlNN--Ft-TrlG~~v~r~f~sLfp~~p~----f-~gRrvv 233 (302)
T KOG2780|consen 168 LPNGPT---AYFKLSNVVLTKDIKKHGR---PTSHIPELILNN--FT-TRLGMTVGRLFASLFPHDPQ----F-TGRRVV 233 (302)
T ss_pred cCCCCc---eEEEeecccchhhhhhcCC---cccccchhhhhc--cc-chhhHHHHHHHHHhCCCCcc----c-cceeEE
Confidence 999999 6999999999999976543 456789999998 98 55677899999999987641 0 257899
Q ss_pred EEEEeCCCeEEEEEeEEEeeeCCCCCCCeeEEeeccceeEEEEEeeCCCH
Q 021234 188 VCTAVSSNRVFFTHCALRLKKSGTIVPRMELVEVGPCMDFVVRRHRLPNE 237 (315)
Q Consensus 188 ~ft~~d~~~I~fR~Y~I~~kksg~~~p~veL~EiGPr~dl~~~r~~~~~~ 237 (315)
.|...-|- |+||||++..+..| -+|-|.|+||||.|.|++.+.+.-
T Consensus 234 tFhnQrD~-IfFRhhRY~Fkee~---~kvglqElGPrfTLrL~~lq~G~f 279 (302)
T KOG2780|consen 234 TFHNQRDY-IFFRHHRYEFKEEE---IKVGLQELGPRFTLRLRRLQKGTF 279 (302)
T ss_pred EEEecCce-EEEEEEEEeecccc---cccchhhcCCceeeeehhhhhccc
Confidence 99998885 99999999987655 357899999999999999876543
No 10
>PRK03972 ribosomal biogenesis protein; Validated
Probab=99.40 E-value=2.2e-11 Score=110.35 Aligned_cols=189 Identities=13% Similarity=0.065 Sum_probs=145.6
Q ss_pred EEEEeCCCCChhHHHHHHHHHhccccceeeeccCCCccccCCCCCCchhHhhhhcCCCCeEEEEeecCCCCCceEEEecc
Q 021234 30 TLILQGTKTSNTLNDVLTELYLLKKGSAIRYTRKNENIRPFESGGETSLEFFSLKTDCSIFIYGSTSKKRPDNLVIGRTY 109 (315)
Q Consensus 30 ~L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~Kkn~~i~pFe~~~~~~le~la~k~dcslf~~~s~sKKrP~~L~igR~~ 109 (315)
+||..|+..|++++++++||..+. |+|.+++|++..+ ..|-..|..+|.+.+++....++.|+.|++.+++
T Consensus 2 iLITTSr~PS~rtr~F~keL~~v~-Pns~~i~RGk~~l--------kel~~~A~~~g~TdLIVV~E~rg~P~~L~i~hLP 72 (208)
T PRK03972 2 MLITTSHRPTRRTRSFGHDLERVF-PNSLYLTRGKKTI--------QDLLMEAYDRGYERLLIINVWKGNPLKMTFIKVG 72 (208)
T ss_pred EEEECCCCccHHHHHHHHHHHHhC-CCCEEEecCCccH--------HHHHHHHHHCCCCeEEEEecCCCcCCeEEEEcCC
Confidence 689999999999999999999996 9999999876534 5777788899998888888889999999999998
Q ss_pred CCc---eeeeEEEEeeceeeccccc--CCCCCCCCCCCccEEEEeCCCCCChhhHHHHHHHHHhhCCCCCCCc--ccc--
Q 021234 110 DHH---IYDLVEVGVENFKPLNSFI--YDKKLAPRVGSKPFICFVGEGFESVEELKHLKEVLVDLLRGEVIEN--LNL-- 180 (315)
Q Consensus 110 ~g~---~lDm~ef~V~n~~~m~df~--~~~~~~~~~gskPlLvF~g~~F~~~~~~k~lk~ll~d~F~~~~~~~--i~l-- 180 (315)
+|| + .-|.+.|+++.+|+. ..+. .....|++|..+ |..++.+...-..+..-++.+-+.. .++
T Consensus 73 ~gP~GPT---a~FkLsnV~l~~ei~~~~~~~---~s~~~p~iItts--~kt~~g~~~~Ak~lA~eLgi~yV~R~k~Sl~~ 144 (208)
T PRK03972 73 PEDWGYL---GYLYLHGIKLQREMGFRNLRP---IREDMPLVITTA--KRVGLDHMAFAQVFAELTGGKFVPRGGKSLQD 144 (208)
T ss_pred CCCCCce---EEEEEccEEEHHHcccCCCCC---ccccccEEEEcC--CCCCHHHHHHHHHHHHHhCCceeCcCCcCHHH
Confidence 655 7 689999999999994 3433 678899999987 8888755444445666777766654 453
Q ss_pred ----CCCCEEEEEEEeCCCeEEEEEeEEEeeeCCCCCCCeeEEeeccceeEEEEEeeCCCHHHHHHHHh
Q 021234 181 ----AGLDHAYVCTAVSSNRVFFTHCALRLKKSGTIVPRMELVEVGPCMDFVVRRHRLPNESLRKEAMK 245 (315)
Q Consensus 181 ----~gld~Vi~ft~~d~~~I~fR~Y~I~~kksg~~~p~veL~EiGPr~dl~~~r~~~~~~~l~k~A~k 245 (315)
.+.|.|+++.--.-. .-+-.|.+...+ -..+||.+-..+-+..-.-.=-||+|+-
T Consensus 145 L~~~~~~d~vLVV~~~~~~-~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 203 (208)
T PRK03972 145 IADKYNTDVLGVIERHPRG-MAVNFYRLDVTK---------ERPVGPLIFVKIWIMEDGRRWDYKEALG 203 (208)
T ss_pred HHhhhcCceEEEEecCCCc-eEEEEEEecccc---------ccccCCcEEEEEEEeccCcccchhhhhc
Confidence 345888888655444 667777775432 3457999998888876665556777764
No 11
>COG2136 IMP4 Predicted exosome subunit/U3 small nucleolar ribonucleoprotein (snoRNP) component, contains IMP4 domain [Translation, ribosomal structure and biogenesis / RNA processing and modification]
Probab=99.23 E-value=5.6e-10 Score=100.35 Aligned_cols=180 Identities=13% Similarity=0.086 Sum_probs=138.1
Q ss_pred eEEEEeCCCCChhHHHHHHHHHhccccceeeeccCCCccccCCCCCCchhHhhhhcCCCCeEEEEeecCCCCCceEEEec
Q 021234 29 KTLILQGTKTSNTLNDVLTELYLLKKGSAIRYTRKNENIRPFESGGETSLEFFSLKTDCSIFIYGSTSKKRPDNLVIGRT 108 (315)
Q Consensus 29 ~~L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~Kkn~~i~pFe~~~~~~le~la~k~dcslf~~~s~sKKrP~~L~igR~ 108 (315)
++|+.+|++.|.+++++.+||.... |++...++.+..+ ..+-+-|-..+.+.+++.+..++.|..|++-..
T Consensus 3 ~~liTTSRkPS~Rtr~Fak~L~~~l-p~~~~~~rg~~~~--------~el~~~a~~~g~~~l~iv~E~rGnP~~L~f~d~ 73 (191)
T COG2136 3 KMLLTTSRKPSRRTRSFAKDLSRVL-PNAYFLRRGKKSI--------IELSEEAIARGATDLLIVGERRGNPARLTFYDL 73 (191)
T ss_pred cEEEEecCCccHHHHHHHHHHHHhC-CcceEEecCccch--------hHHHHHHHhcCCceEEEEEEecCCCcEEEEEEe
Confidence 6899999999999999999999997 9998887744323 577778999999999999999999999999999
Q ss_pred -cCCceeeeEEEEeeceeecccccCCCCCCCCCCCccEEEEeCCCCCChhhHHHHHHHHHhh----CCCCCCCccccCCC
Q 021234 109 -YDHHIYDLVEVGVENFKPLNSFIYDKKLAPRVGSKPFICFVGEGFESVEELKHLKEVLVDL----LRGEVIENLNLAGL 183 (315)
Q Consensus 109 -~~g~~lDm~ef~V~n~~~m~df~~~~~~~~~~gskPlLvF~g~~F~~~~~~k~lk~ll~d~----F~~~~~~~i~l~gl 183 (315)
+.++. +-|.+.++++..++...+. ....+-|++++++ |.+.-.++.+.++|.++ |... . .. ..
T Consensus 74 ~~~~~~---~~f~l~~v~l~re~~~~~~--~~~~~~~~~I~~~--~~~~~g~~~~~~~~~~~~~~~f~~~-~---~~-~~ 141 (191)
T COG2136 74 EPEGLT---FSFKLSGVKLRREIPVLGP--KSRLHGPELIFNN--FTTLLGFLKVAEAFSELLLVKFVPN-P---AW-EH 141 (191)
T ss_pred cCCCce---EEEEEecceEEEeccccCC--cccCCCCceeeec--ccccccchhhHHHHHhhcccccccC-c---cc-ce
Confidence 77776 5799999999999976532 0346679999998 98888888999999999 5422 1 11 13
Q ss_pred CEEEEEEEeCCCeEEEEEeEEEeeeCCCCCCCeeEEeeccceeEEEEEeeCC
Q 021234 184 DHAYVCTAVSSNRVFFTHCALRLKKSGTIVPRMELVEVGPCMDFVVRRHRLP 235 (315)
Q Consensus 184 d~Vi~ft~~d~~~I~fR~Y~I~~kksg~~~p~veL~EiGPr~dl~~~r~~~~ 235 (315)
..|+.+...++ -+.||.+.-.... ..+.+.|+||+|.+.+.|.+..
T Consensus 142 ~~v~~~~~~~~-f~~~~~~~~~~~~-----~~~~~~~vgp~~~~r~~~~~~g 187 (191)
T COG2136 142 ELVATGANKGD-FKSLRRHRRVFEE-----DGIGLEEVGPRLTLRLWRMEDG 187 (191)
T ss_pred eeeeeccccce-EEEEEeeeeEeee-----eeeeEEEeCceeeeehhhhhhc
Confidence 33444444444 3666655544322 4688999999999999887654
No 12
>PRK00933 ribosomal biogenesis protein; Validated
Probab=97.00 E-value=0.028 Score=49.73 Aligned_cols=116 Identities=13% Similarity=0.108 Sum_probs=77.4
Q ss_pred EEEEeCCCCChhHHHHHHHHHhccccceeeeccCCCccccCCCCCCchhHhhhhcCCCCeEEEEeecCCCCCceEEEecc
Q 021234 30 TLILQGTKTSNTLNDVLTELYLLKKGSAIRYTRKNENIRPFESGGETSLEFFSLKTDCSIFIYGSTSKKRPDNLVIGRTY 109 (315)
Q Consensus 30 ~L~l~g~~~s~~~~~llkDL~~L~kP~a~~~~Kkn~~i~pFe~~~~~~le~la~k~dcslf~~~s~sKKrP~~L~igR~~ 109 (315)
++|.+|+++|+.++++.++|.... ++...+|+. .+|+++++..+...+++.+..++.|+.|.+-+.-
T Consensus 1 mIITTSrkPs~~t~~fAkeLa~~l--n~~yv~Rgk-----------~Sl~eL~~~~~~~~llVV~E~kg~P~~L~iyd~~ 67 (165)
T PRK00933 1 MIITTSRKPSQRTRSLVKDLARFL--NCKYVNRGK-----------MSLQELLEECEARYLLIIGEYKGNPGALKFYDVE 67 (165)
T ss_pred CEEECCCCCCHHHHHHHHHHHHHh--CCEEEccCC-----------ccHHHHHHHhccCcEEEEECCCCCCceEEEEECC
Confidence 368889999999999999999885 676666654 4777777655555666666678899999999988
Q ss_pred CCceeeeEEEEeeceeecccccCCCCCCCCCCCccEEEEeCCCCCChhhHHHHHHHHHhhCCC
Q 021234 110 DHHIYDLVEVGVENFKPLNSFIYDKKLAPRVGSKPFICFVGEGFESVEELKHLKEVLVDLLRG 172 (315)
Q Consensus 110 ~g~~lDm~ef~V~n~~~m~df~~~~~~~~~~gskPlLvF~g~~F~~~~~~k~lk~ll~d~F~~ 172 (315)
+...+-+ -++| .+. .+. |.....+..|.+.=.+. ....+.++|..+...
T Consensus 68 ~~~~~~~-~~~v-~~~--~~~----~~~~~~~~~p~~~~~~~------~~~~~~e~f~~~l~~ 116 (165)
T PRK00933 68 GNKLLSY-RLSV-KLQ--REI----SGPVFKNRRPIKSAFDV------GGDELAELFDYFLFY 116 (165)
T ss_pred CCEEEEE-EEEe-eee--ccc----CcceeecCCCcccchhh------HHHHHHHHHHHHHhh
Confidence 7877632 3343 222 122 21224666776644331 244567777776654
No 13
>PRK15456 universal stress protein UspG; Provisional
Probab=31.93 E-value=33 Score=28.07 Aligned_cols=30 Identities=10% Similarity=0.253 Sum_probs=22.5
Q ss_pred chhHhhhhcCCCCeEEEEeecCCCCCceEEE
Q 021234 76 TSLEFFSLKTDCSIFIYGSTSKKRPDNLVIG 106 (315)
Q Consensus 76 ~~le~la~k~dcslf~~~s~sKKrP~~L~ig 106 (315)
..|.++|+.++|+++++|++.+. ...+++|
T Consensus 95 ~~I~~~a~~~~~DLIVmG~~g~~-~~~~llG 124 (142)
T PRK15456 95 DEVNELAEELGADVVVIGSRNPS-ISTHLLG 124 (142)
T ss_pred HHHHHHHhhcCCCEEEEcCCCCC-ccceecC
Confidence 57888999999999999998632 3334444
No 14
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=26.32 E-value=26 Score=27.73 Aligned_cols=32 Identities=16% Similarity=0.301 Sum_probs=24.7
Q ss_pred chhHhhhhcCCCCeEEEEeecCCCCCceEEEe
Q 021234 76 TSLEFFSLKTDCSIFIYGSTSKKRPDNLVIGR 107 (315)
Q Consensus 76 ~~le~la~k~dcslf~~~s~sKKrP~~L~igR 107 (315)
..|...|+.++|+++++|++.+.....+++|.
T Consensus 75 ~~I~~~~~~~~~dllviG~~~~~~~~~~~~Gs 106 (124)
T cd01987 75 EAIVEFAREHNVTQIVVGKSRRSRWRELFRGS 106 (124)
T ss_pred HHHHHHHHHcCCCEEEeCCCCCchHHHHhccc
Confidence 57889999999999999998765444444444
No 15
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=24.75 E-value=70 Score=25.14 Aligned_cols=23 Identities=9% Similarity=0.141 Sum_probs=20.0
Q ss_pred chhHhhhhcCCCCeEEEEeecCC
Q 021234 76 TSLEFFSLKTDCSIFIYGSTSKK 98 (315)
Q Consensus 76 ~~le~la~k~dcslf~~~s~sKK 98 (315)
..|..+|...+|+++++|++.+.
T Consensus 84 ~~I~~~a~~~~~dlIV~G~~~~~ 106 (132)
T cd01988 84 SGILRTAKERQADLIIMGWHGST 106 (132)
T ss_pred HHHHHHHHhcCCCEEEEecCCCC
Confidence 57888999999999999998654
No 16
>PRK15005 universal stress protein F; Provisional
Probab=23.94 E-value=61 Score=26.25 Aligned_cols=20 Identities=15% Similarity=0.152 Sum_probs=18.0
Q ss_pred chhHhhhhcCCCCeEEEEee
Q 021234 76 TSLEFFSLKTDCSIFIYGST 95 (315)
Q Consensus 76 ~~le~la~k~dcslf~~~s~ 95 (315)
..|..+|+.++|+++|+|++
T Consensus 97 ~~I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 97 DRILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHHHcCCCEEEEeCC
Confidence 56888999999999999987
No 17
>PF05450 Nicastrin: Nicastrin; InterPro: IPR008710 Nicastrin and presenilin are two major components of the gamma-secretase complex, which executes the intramembrane proteolysis of type I integral membrane proteins such as the amyloid precursor protein (APP) and Notch. Nicastrin is synthesised in fibroblasts and neurons as an endoglycosidase-H-sensitive glycosylated precursor protein (immature nicastrin) and is then modified by complex glycosylation in the Golgi apparatus and by sialylation in the trans-Golgi network (mature nicastrin) [].; GO: 0016485 protein processing, 0016021 integral to membrane
Probab=20.95 E-value=1.2e+02 Score=28.20 Aligned_cols=62 Identities=13% Similarity=0.184 Sum_probs=45.8
Q ss_pred CCccEE--EEeCCCCCChhhHHHHHHHHHhhCC--CCCCCccccCCCCEEEEEEEeCC---CeEEEEEe
Q 021234 141 GSKPFI--CFVGEGFESVEELKHLKEVLVDLLR--GEVIENLNLAGLDHAYVCTAVSS---NRVFFTHC 202 (315)
Q Consensus 141 gskPlL--vF~g~~F~~~~~~k~lk~ll~d~F~--~~~~~~i~l~gld~Vi~ft~~d~---~~I~fR~Y 202 (315)
..|+++ .|+||.|+-----+.+..|-...|+ .-...++++..|+.+|-+.-++. ..+|+-.+
T Consensus 49 ~~knV~F~~F~GEs~dYiGS~R~vyDm~~~~f~~~~~~~~~i~~~~I~~~IElgqvg~~~~~~l~~Hvd 117 (234)
T PF05450_consen 49 LNKNVLFAFFNGESFDYIGSSRFVYDMQNGNFPSDSLQFQPISLDNIDSVIELGQVGLSNSSGLYAHVD 117 (234)
T ss_pred ccCcEEEEEecCccccccchHHHHHHHHcCcCcccccccccccHHHCCEEEEeeccCCCCCCCEEEEec
Confidence 356664 8899999976666778888888887 33456799999999999987642 12666644
Done!