Query 012935
Match_columns 453
No_of_seqs 206 out of 611
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 07:50:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012935.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012935hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2574 mRNA splicing factor P 100.0 2E-151 4E-156 1144.8 23.3 446 6-452 38-489 (492)
2 COG1498 SIK1 Protein implicate 100.0 3.4E-80 7.3E-85 629.9 22.8 285 55-346 108-395 (395)
3 PRK14552 C/D box methylation g 100.0 5.9E-76 1.3E-80 609.6 22.6 259 57-318 133-396 (414)
4 KOG2573 Ribosome biogenesis pr 100.0 2E-68 4.3E-73 537.8 18.6 251 54-304 158-413 (498)
5 KOG2572 Ribosome biogenesis pr 100.0 7.5E-65 1.6E-69 511.9 19.3 253 55-307 150-402 (498)
6 PF01798 Nop: Putative snoRNA 100.0 6.5E-55 1.4E-59 397.5 7.1 149 156-304 1-150 (150)
7 PF09785 Prp31_C: Prp31 C term 100.0 1.4E-48 3.1E-53 344.8 7.6 120 306-425 1-124 (124)
8 PF08060 NOSIC: NOSIC (NUC001) 99.9 1.7E-22 3.6E-27 154.5 6.1 53 64-116 1-53 (53)
9 KOG2014 SMT3/SUMO-activating c 76.1 4.6 0.0001 41.7 5.2 73 132-205 227-303 (331)
10 PF05511 ATP-synt_F6: Mitochon 57.4 18 0.0004 31.5 4.4 52 31-97 37-95 (99)
11 KOG4634 Mitochondrial F1F0-ATP 45.2 78 0.0017 27.7 6.2 61 20-97 22-89 (105)
12 PF13770 DUF4169: Domain of un 41.0 17 0.00037 28.4 1.6 26 327-353 7-32 (55)
13 TIGR03738 PRTRC_C PRTRC system 33.4 24 0.00052 28.7 1.3 17 85-101 27-43 (66)
14 PRK00082 hrcA heat-inducible t 29.6 54 0.0012 34.1 3.6 149 19-178 27-203 (339)
15 PF05918 API5: Apoptosis inhib 26.6 55 0.0012 36.6 3.1 127 57-191 20-170 (556)
16 PRK10548 flagellar biosynthesi 25.5 4.1E+02 0.0089 23.8 7.9 56 143-205 50-105 (121)
17 PF14454 Prok_Ub: Prokaryotic 24.7 33 0.00071 27.8 0.7 17 85-101 28-44 (65)
18 PF12347 HJURP_C: Holliday jun 24.5 25 0.00054 28.1 0.0 28 310-338 6-33 (64)
19 KOG3365 NADH:ubiquinone oxidor 23.6 32 0.0007 31.7 0.6 36 80-116 47-82 (145)
20 KOG2199 Signal transducing ada 21.2 70 0.0015 34.5 2.5 51 148-198 20-70 (462)
21 PRK15058 cytochrome b562; Prov 20.9 3.2E+02 0.007 24.9 6.3 75 20-94 36-127 (128)
22 PRK14552 C/D box methylation g 20.2 3.4E+02 0.0074 29.3 7.5 73 58-137 227-299 (414)
No 1
>KOG2574 consensus mRNA splicing factor PRP31 [RNA processing and modification]
Probab=100.00 E-value=1.9e-151 Score=1144.82 Aligned_cols=446 Identities=59% Similarity=0.912 Sum_probs=426.2
Q ss_pred ccchHhhhhcCCcchhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCCCCCCCCcchhHHHHhhhhHHHHHHHHHHHHHH
Q 012935 6 DGDIEDIEALNYDDLDNVSKLQKSQRFTDIMQKVEAALQNGSDISNHGMVLEDDPEYQLIVDCNVLSVDIENEIVIIHNF 85 (453)
Q Consensus 6 ~~~~~~~~~~~~~~v~~va~l~~s~~~~~~l~~i~~~~~~~~~~~~~~~~~e~~pey~lIv~~n~L~~~Id~EI~~~h~~ 85 (453)
+.++..+.++.++||+.|+||++|.+|.++|+++++|+.++.+..+..+++|++|||+|||+||+++++|||||+++|+|
T Consensus 38 ~a~~~~~~~l~~dsv~~v~kL~~S~r~~~im~q~E~~l~k~~d~~~i~~~~E~dpeykLIVd~n~iavdI~nEI~ivH~F 117 (492)
T KOG2574|consen 38 DAEMENLLTLTYDSVESVSKLAKSSRYRDIMQQTEEYLGKQVDAKEILGPVEADPEYKLIVDCNQIAVDIENEIVIVHNF 117 (492)
T ss_pred cccccCchhhhhhhHHHHHHHHhccHHHHHHHHHHHHhcccchHHHhcCccccCcceeeeechhhhhhhhhhhHHHHHHH
Confidence 33445566778999999999999999999999999999999888889999999999999999999999999999999999
Q ss_pred HHHHhhccCccccccccChHHHHHHHHHhcCCCCCCccccc--ccCChhHHHHHHHHhccCCCCCCCHHHHHHHHHHHHH
Q 012935 86 IRDKYRLKFPELESLVHHPIDYARVVKKIGNEMDLTLVDLE--GLLPSAIIMVVSVTASTTSGKPLPEDVLQKTIDACDR 163 (453)
Q Consensus 86 iRd~Ys~~FPELeslv~~~~~Y~k~V~~ign~~dl~~~~L~--~iL~~~~imvisv~Asts~G~~Ls~~dl~~i~~ac~~ 163 (453)
|||||+.|||||+|||++|++|+++|+.|||+.|...++|+ .+||+++||||+|||+||.|..|++++++.|.+||++
T Consensus 118 ikdkY~~RFpELeSLVp~~ldY~~~Vk~LgNelD~~~~~l~~~~~L~~atIMVvsvTasTT~G~~Lp~d~~~~v~eAc~~ 197 (492)
T KOG2574|consen 118 IKDKYSKRFPELESLVPNPLDYAKVVKELGNELDLKKVDLELQAILPSATIMVVSVTASTTQGNKLPEDELEQVLEACEM 197 (492)
T ss_pred HHHHHHhhhhhhHhhccCHHHHHHHHHHHhhhHHHHHhhhhhhccCccceEEEEEEEeeeccCCCCCHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999998888755 5999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhccccCCCchhHhhchHHHHHHHHHhCCcchhcCCCchhhhhhhhhcccccccccCCCCCccce
Q 012935 164 ALALDAAKKKVLDFVESRMSYIAPNLSAIVGSAVAAKLMGTAGGLSALAKMPACNVQLLGAKKKNLAGFSTATSQFRVGY 243 (453)
Q Consensus 164 i~~L~~~r~~i~~yvesrM~~iAPNLsaLvG~~iaArLi~~AGgL~~LAkmPAcnIq~LGaeK~~~~g~st~~~~p~~G~ 243 (453)
+++|+..|++|.+||+|||++||||||+|||+.+||+||++||||+.||+|||||||+||++|++++||++.+..||+||
T Consensus 198 a~~L~~~k~ki~eyVeSrms~IAPNLs~ivGs~taA~Lig~AGGls~Lsk~PaCNv~vlGk~kk~l~gfst~~~~~~~Gy 277 (492)
T KOG2574|consen 198 AEQLNKLKEKIYEYVESRMSFIAPNLSAIVGSTTAAKLIGIAGGLSELSKMPACNVQVLGKQKKTLIGFSTTSSLPHTGY 277 (492)
T ss_pred HHHHHHHHHHHHHHHHHHhhhccchhHhhhcHHHHHHHHHhhcCchhhccCCcchhhhhhccchhccccccccccCccce
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeCccccCCCchhhhhHHHHHHhHHHHHhhcccCCCCCCCchhHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCCCcc
Q 012935 244 LEQTEIFQSTPPPLRMRACRLLAAKSTLAARVDSTRGDPSGTAGRSFREEIHKKIEKWQEPPPAKQPKPLPVPDSEPKKK 323 (453)
Q Consensus 244 Iy~s~lVq~~P~~~r~kaaR~lAaK~aLAARvD~~~~~~~g~~G~~lreei~~ki~Kl~epP~~k~~K~LP~P~d~~kkk 323 (453)
||+|++||++||++|+||+|+|||||+||||||++|++++|.+|..||++|++||+||+||||++.+||||+|+|+||||
T Consensus 278 ly~s~ivQk~Ppdl~~ka~Rl~aAKvtLAARVDa~he~~~g~~g~~~k~evekK~eKl~EpPpvk~~KaLP~P~d~pkKk 357 (492)
T KOG2574|consen 278 LYASDIVQKTPPDLRKKAARLVAAKVTLAARVDAGHESPNGELGHEFKAEVEKKIEKLQEPPPVKQTKALPIPLDGPKKK 357 (492)
T ss_pred eeHHhHhhhcCccHHHHHHHHHHHHHHHHHHhhccccCCccHHHHHHHHHHHHHHHhhcCCCCCCcCCCCCCCCccchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcchhHhHHHhhhhHHHHHhhccccCcccccccCCCcccccccccCCCCcceeeeccccchhHHHHHHhhh----ccc
Q 012935 324 RGGRRLRKMKERYAVTDMRKLANRMLFGVPEESSLGDGLGEGYGMLGQAGSGKLRVSVGQSKLAAKVAKRFKE----KSY 399 (453)
Q Consensus 324 RGGrr~Rk~Ke~~~~telrk~~NRm~FG~~ee~~~~~~~~~glGmlg~~~~Gr~r~~~~~~~~~~k~~k~~~~----~~~ 399 (453)
|||||+|||||||+|||+||+||||+||++||+++++++|+||||+|++|+||||.++++.+++++++|+|++ +++
T Consensus 358 RgGRR~RKmKEr~~lTe~RklaNRM~FG~~Ee~v~~~~~g~glGmlgksg~Grir~~~vd~~tkarisk~~~~~lq~~q~ 437 (492)
T KOG2574|consen 358 RGGRRFRKMKERYALTELRKLANRMAFGKIEEDVLQEDLGEGLGMLGKSGSGRIRGSSVDEKTKARISKKMKKQLQEQQQ 437 (492)
T ss_pred ccchHHHHHHHHhhhHHHHHHHhhhccCChhhhhhccccccccccccccCCCceeecccccchhhhhhHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999999999999999999999877777777777754 344
Q ss_pred CCCCcccccccccccCCCCcccccCCchhhcccCCCCCCcccCCCCceeeccC
Q 012935 400 GSSGATSGLTSSLAFTPVQGIELSNPQAHAHQLGGGTQSTYFSETGTFSKIKK 452 (453)
Q Consensus 400 ~~~~~~~g~~sSlaftp~qg~el~nP~~~~~~~~~~~~~~~F~~~~~F~~~~~ 452 (453)
.++-.++||+||++|||+||||||||++ ++++..+++++|||++|+|++|++
T Consensus 438 agg~ttsG~~ss~aftP~qglEivnp~~-~~~~~~e~~~~yFS~~g~F~~i~~ 489 (492)
T KOG2574|consen 438 AGGFTTSGTASSVAFTPIQGLEIVNPQA-AEQQQPEENSKYFSSSGSFSKIKK 489 (492)
T ss_pred hCCccccccccccccCcccchhhcCHHH-HhhcCcccccceecCCCceeeccc
Confidence 5567789999999999999999999998 666777889999999999999987
No 2
>COG1498 SIK1 Protein implicated in ribosomal biogenesis, Nop56p homolog [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.4e-80 Score=629.94 Aligned_cols=285 Identities=38% Similarity=0.558 Sum_probs=272.8
Q ss_pred CCCCCcchhHHHHhhhhHHHHHHHHHHHHHHHHHHhhccCccccccccChHHHHHHHHHhcCCCCCCccc---ccccCCh
Q 012935 55 VLEDDPEYQLIVDCNVLSVDIENEIVIIHNFIRDKYRLKFPELESLVHHPIDYARVVKKIGNEMDLTLVD---LEGLLPS 131 (453)
Q Consensus 55 ~~e~~pey~lIv~~n~L~~~Id~EI~~~h~~iRd~Ys~~FPELeslv~~~~~Y~k~V~~ign~~dl~~~~---L~~iL~~ 131 (453)
..+.+.+|++|||+|+++++||++||.+|+||||||+||||||.+||+|+.+||++|..+||+.++++.. |..++|.
T Consensus 108 ~~~~~~~D~~iiqai~~lddiDk~iN~~~~RlrEWY~~hFPEL~~lv~~~~~Y~~~V~~~g~~~~~~~~~~~~l~~~~~~ 187 (395)
T COG1498 108 REEVDKEDKLIIQAIEALDDIDKEINLLAMRLREWYGWHFPELSSLVPDNEQYAKLVSALGNRENINKESLKDLGFALPD 187 (395)
T ss_pred HhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcchhhhcccHHHHHHHHHHHcchhccchhhHHHHhhhcch
Confidence 4577889999999999999999999999999999999999999999999999999999999999998875 4445566
Q ss_pred hHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCchhHhhchHHHHHHHHHhCCcchh
Q 012935 132 AIIMVVSVTASTTSGKPLPEDVLQKTIDACDRALALDAAKKKVLDFVESRMSYIAPNLSAIVGSAVAAKLMGTAGGLSAL 211 (453)
Q Consensus 132 ~~imvisv~Asts~G~~Ls~~dl~~i~~ac~~i~~L~~~r~~i~~yvesrM~~iAPNLsaLvG~~iaArLi~~AGgL~~L 211 (453)
..+.|..+|.+|||.++++.|+.+|..+|+.+.+|.++|++|.+||+++|+.||||||+|||+.||||||+|||||++|
T Consensus 188 -~~~~i~~aA~~SmG~~~~~~Di~~i~~~ae~i~~L~~~R~~l~~Yi~~~M~~vAPNlt~LVG~~lgARLIs~AGgL~~L 266 (395)
T COG1498 188 -IAIKIAEAAKDSMGADLSEEDIDNIRELAEIILELYELREQLEEYIESKMSEIAPNLTALVGPVLGARLISHAGGLTRL 266 (395)
T ss_pred -HHHHHHHHhhcccccCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccHHHHHhHHHHHHHHHHhcCHHHH
Confidence 7788888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCchhhhhhhhhcccccccccCCCCCccceEeeCccccCCCchhhhhHHHHHHhHHHHHhhcccCCCCCCCchhHHHH
Q 012935 212 AKMPACNVQLLGAKKKNLAGFSTATSQFRVGYLEQTEIFQSTPPPLRMRACRLLAAKSTLAARVDSTRGDPSGTAGRSFR 291 (453)
Q Consensus 212 AkmPAcnIq~LGaeK~~~~g~st~~~~p~~G~Iy~s~lVq~~P~~~r~kaaR~lAaK~aLAARvD~~~~~~~g~~G~~lr 291 (453)
|+|||||||+|||||++|++|.+.+++|+||+||+||+|+.+|+|.||||||+||||||||||||+|++.+++ ..||
T Consensus 267 Ak~PASTIQvLGAEKALFraL~~~~~~PK~GvIy~~p~I~~sp~~~rGkiAR~LAaK~AIAARiD~~s~~~~~---~~lr 343 (395)
T COG1498 267 AKMPASTIQVLGAEKALFRALKTGAKTPKYGVIYQSPLIQKSPPWQRGKIARALAAKLAIAARIDAFSGEPDG---ISLR 343 (395)
T ss_pred HhCccchhhhhhhhHHHHHHHhCCCCCCCceeEeeChhhccCCHHHhhHHHHHHHHHHHHHHHHHhccCCCCh---HHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999998887 9999
Q ss_pred HHHHHHHHHhcCCCCCCCCCCCCCCCCCCCccCCCcchhHhHHHhhhhHHHHHhh
Q 012935 292 EEIHKKIEKWQEPPPAKQPKPLPVPDSEPKKKRGGRRLRKMKERYAVTDMRKLAN 346 (453)
Q Consensus 292 eei~~ki~Kl~epP~~k~~K~LP~P~d~~kkkRGGrr~Rk~Ke~~~~telrk~~N 346 (453)
++|++||+++.++|+.+.+|++|.| + +++|+||+.|++|+++.-++.|+.+|
T Consensus 344 ~ele~Ri~~i~~~~~~pp~k~~~~~-~--~~~~~~r~~~~~~~~~~~~~~~~~~~ 395 (395)
T COG1498 344 EELEKRIEKLKEKPPKPPTKAKPER-D--KKERPGRYRRKKKEKKAKSERRGLQN 395 (395)
T ss_pred HHHHHHHHHHhccCCCCCCcccccc-c--cccCccccccccccccchhhhhhccC
Confidence 9999999999999999999999999 5 88999999999999999999988765
No 3
>PRK14552 C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional
Probab=100.00 E-value=5.9e-76 Score=609.56 Aligned_cols=259 Identities=32% Similarity=0.479 Sum_probs=248.5
Q ss_pred CCCcchhHHHHhhhhHHHHHHHHHHHHHHHHHHhhccCccccccccChHHHHHHHHHhcCCCCCCccccccc-CChhHHH
Q 012935 57 EDDPEYQLIVDCNVLSVDIENEIVIIHNFIRDKYRLKFPELESLVHHPIDYARVVKKIGNEMDLTLVDLEGL-LPSAIIM 135 (453)
Q Consensus 57 e~~pey~lIv~~n~L~~~Id~EI~~~h~~iRd~Ys~~FPELeslv~~~~~Y~k~V~~ign~~dl~~~~L~~i-L~~~~im 135 (453)
..+..+++|||||+++++||+|||.+|+|||+||+||||||+++|+|+.+|+++|+.++++.+++..+|.++ ++.++++
T Consensus 133 ~~~~~D~~iiqai~~ld~ldk~in~~~~RLrewY~~~FPEL~~iv~d~~~Y~~iV~~i~~~~~i~~~~l~~i~l~~eka~ 212 (414)
T PRK14552 133 AAQKRDKLAIQAIRAIDDIDKTINLFSERLREWYSLHFPELDELVKKHEEYVKLVSELGDRENYTREKLKKLGLPENKAR 212 (414)
T ss_pred ccCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcCHHhhcCChHHHHHHHHHcCChhhhhhhHHHhccCCHHHHH
Confidence 445578999999999999999999999999999999999999999999999999999999999988888888 9999999
Q ss_pred HHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCchhHhhchHHHHHHHHHhCCcchhcCCC
Q 012935 136 VVSVTASTTSGKPLPEDVLQKTIDACDRALALDAAKKKVLDFVESRMSYIAPNLSAIVGSAVAAKLMGTAGGLSALAKMP 215 (453)
Q Consensus 136 visv~Asts~G~~Ls~~dl~~i~~ac~~i~~L~~~r~~i~~yvesrM~~iAPNLsaLvG~~iaArLi~~AGgL~~LAkmP 215 (453)
.|+++|++|+|.++++.|+..|..+|+++++|+++|++|.+||+++|..+|||||+|||+.+|||||++||||.+||+||
T Consensus 213 ~I~~aA~~S~G~~lse~dl~~I~~~a~~I~~L~e~R~~L~~yI~~~M~~iAPNLtaLVG~~lAArLIa~AGsL~~Lak~P 292 (414)
T PRK14552 213 KIAEAAKKSMGADLSEFDLEAIKKLANEILDLYKLREELEDYLETVMKEVAPNLTALVGPSLGARLISLAGGLEELAKMP 292 (414)
T ss_pred HHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHhhHHHHHHHHHhCCHHHHhhCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhhhhhcccccccccCCCCCccceEeeCccccCCCchhhhhHHHHHHhHHHHHhhcccCCCCCCCchhHHHHHHHH
Q 012935 216 ACNVQLLGAKKKNLAGFSTATSQFRVGYLEQTEIFQSTPPPLRMRACRLLAAKSTLAARVDSTRGDPSGTAGRSFREEIH 295 (453)
Q Consensus 216 AcnIq~LGaeK~~~~g~st~~~~p~~G~Iy~s~lVq~~P~~~r~kaaR~lAaK~aLAARvD~~~~~~~g~~G~~lreei~ 295 (453)
|||||+|||+|++|+||+|++.+|||||||||++||++|+|+||||+|+||||||||||||+|++ +.+|.+||++|+
T Consensus 293 astIqiLGAeKalf~~l~t~~~~pk~G~Iy~~~~V~~~p~~~rgkiaR~lA~K~alAARiD~~~~---~~~G~~l~~~l~ 369 (414)
T PRK14552 293 ASTIQVLGAEKALFRHLRTGAKPPKHGVIFQYPAIHGSPWWQRGKIARALAAKLAIAARVDYFSG---RYIGDELKEELN 369 (414)
T ss_pred chHHHHhchhhHHHHHhccCCCCCCceEEEcCHHHhhCCHHHHHHHHHHHHHHHHHHHHhhhcCC---ccchHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999974 479999999999
Q ss_pred HHHH----HhcCCCCCCCCCCCCCCCC
Q 012935 296 KKIE----KWQEPPPAKQPKPLPVPDS 318 (453)
Q Consensus 296 ~ki~----Kl~epP~~k~~K~LP~P~d 318 (453)
+||+ ||+||||.+..++-|.+..
T Consensus 370 ~ri~~i~~k~~~Pp~~k~~~~~~~~~~ 396 (414)
T PRK14552 370 KRIEEIKEKYPKPPKKKREEKKPQKRK 396 (414)
T ss_pred HHHHHHHHhcCCCCCCCcCCCCCCCcc
Confidence 9999 6799999999987555544
No 4
>KOG2573 consensus Ribosome biogenesis protein - Nop56p/Sik1p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2e-68 Score=537.82 Aligned_cols=251 Identities=27% Similarity=0.418 Sum_probs=240.0
Q ss_pred CCCCCCcchhHHHHhhhhHHHHHHHHHHHHHHHHHHhhccCccccccccChHHHHHHHHHhcCCCCCCccc---ccccC-
Q 012935 54 MVLEDDPEYQLIVDCNVLSVDIENEIVIIHNFIRDKYRLKFPELESLVHHPIDYARVVKKIGNEMDLTLVD---LEGLL- 129 (453)
Q Consensus 54 ~~~e~~pey~lIv~~n~L~~~Id~EI~~~h~~iRd~Ys~~FPELeslv~~~~~Y~k~V~~ign~~dl~~~~---L~~iL- 129 (453)
..++.+..+++|+|++.|++++|++||.|.|||||||+||||||..+|+|++.|+++|+.|+|+..++... +-..|
T Consensus 158 VkfnV~R~DnmvIqaI~lLDqlDKDINtfaMRirEwYswhFPEL~kiv~DNy~ya~~~~~i~dk~~l~ed~~~~~~e~l~ 237 (498)
T KOG2573|consen 158 VKFNVNRVDNMVIQAIALLDQLDKDINTFAMRIREWYSWHFPELVKIVPDNYKYAKVVKFIVDKEKLNEDGLHELLEDLG 237 (498)
T ss_pred eeecccccchHHHHHHHHHHHHhhhhhhhHHHHHHHHhhccHHHHHhccchHHHHHHHHHHhchhhccccchhHHHHHhc
Confidence 45788899999999999999999999999999999999999999999999999999999999998887655 22333
Q ss_pred -ChhHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCchhHhhchHHHHHHHHHhCCc
Q 012935 130 -PSAIIMVVSVTASTTSGKPLPEDVLQKTIDACDRALALDAAKKKVLDFVESRMSYIAPNLSAIVGSAVAAKLMGTAGGL 208 (453)
Q Consensus 130 -~~~~imvisv~Asts~G~~Ls~~dl~~i~~ac~~i~~L~~~r~~i~~yvesrM~~iAPNLsaLvG~~iaArLi~~AGgL 208 (453)
+++..-.|..++.+|||++||+.||.+|..+++++.+|.++|++|..||..+|+.|||||++|||..|+||||+|||||
T Consensus 238 ~d~~ka~~Iiea~k~SMG~diS~~Dl~Ni~~fa~rV~~l~eyRk~L~~YL~~KMs~vAPnLa~LIGe~vgARLIShAGsL 317 (498)
T KOG2573|consen 238 VDSEKAQEIIEAAKNSMGQDISPADLENIRKFAERVSDLAEYRKQLSDYLKDKMSSVAPNLAALIGEVVGARLISHAGSL 317 (498)
T ss_pred CcHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHhcccc
Confidence 5778888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhcCCCchhhhhhhhhcccccccccCCCCCccceEeeCccccCCCchhhhhHHHHHHhHHHHHhhcccCCCCCCCchhH
Q 012935 209 SALAKMPACNVQLLGAKKKNLAGFSTATSQFRVGYLEQTEIFQSTPPPLRMRACRLLAAKSTLAARVDSTRGDPSGTAGR 288 (453)
Q Consensus 209 ~~LAkmPAcnIq~LGaeK~~~~g~st~~~~p~~G~Iy~s~lVq~~P~~~r~kaaR~lAaK~aLAARvD~~~~~~~g~~G~ 288 (453)
+||||+||||+|+|||||++|++++|+++||+||+||||.+|..+..+.+|+++|+||+||+||+|||||++.|+..||.
T Consensus 318 tNLaK~PASTvQIlGAEKALFRALKtrgnTPKYGLIyhSsfigrA~akNKGRISRyLAnKCSIAsrIDcFse~pts~fGe 397 (498)
T KOG2573|consen 318 TNLAKYPASTVQILGAEKALFRALKTRGNTPKYGLIYHSSFIGRAGAKNKGRISRYLANKCSIASRIDCFSEDPTSVFGE 397 (498)
T ss_pred chhhhCcchHHHHhhhHHHHHHHHHhcCCCCCceeEeecchhhhhhccccchHHHHHHhhccHHHhhhhcccCCchHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhcCC
Q 012935 289 SFREEIHKKIEKWQEP 304 (453)
Q Consensus 289 ~lreei~~ki~Kl~ep 304 (453)
.||++|++||+.+...
T Consensus 398 ~Lr~qVEeRL~fy~tg 413 (498)
T KOG2573|consen 398 KLREQVEERLEFYETG 413 (498)
T ss_pred HHHHHHHHHHHhhhcC
Confidence 9999999999999854
No 5
>KOG2572 consensus Ribosome biogenesis protein - Nop58p/Nop5p [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.5e-65 Score=511.93 Aligned_cols=253 Identities=27% Similarity=0.464 Sum_probs=245.2
Q ss_pred CCCCCcchhHHHHhhhhHHHHHHHHHHHHHHHHHHhhccCccccccccChHHHHHHHHHhcCCCCCCcccccccCChhHH
Q 012935 55 VLEDDPEYQLIVDCNVLSVDIENEIVIIHNFIRDKYRLKFPELESLVHHPIDYARVVKKIGNEMDLTLVDLEGLLPSAII 134 (453)
Q Consensus 55 ~~e~~pey~lIv~~n~L~~~Id~EI~~~h~~iRd~Ys~~FPELeslv~~~~~Y~k~V~~ign~~dl~~~~L~~iL~~~~i 134 (453)
.+..+.-+.+|||++.|+|++|+|+|++.|+|||||+||||||.++|.|++.|+++|+.+|++.+....+|.++||.+.-
T Consensus 150 kfs~dKvDtmIiQaisLLDDLDkeLNtY~mRvrEwYGwHFPEL~kii~dn~~Yak~vk~mG~r~~~a~~d~sEil~eeiE 229 (498)
T KOG2572|consen 150 KFSPDKVDTMIIQAISLLDDLDKELNTYAMRVKEWYGWHFPELAKIIQDNYAYAKLVKAMGVRCNAASLDFSEILPEEIE 229 (498)
T ss_pred ccCcchhhHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhHHHHHHHHhhHHHHHHHHHHhHhhhhhcccHHhhchHHHH
Confidence 45566667999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCchhHhhchHHHHHHHHHhCCcchhcCC
Q 012935 135 MVVSVTASTTSGKPLPEDVLQKTIDACDRALALDAAKKKVLDFVESRMSYIAPNLSAIVGSAVAAKLMGTAGGLSALAKM 214 (453)
Q Consensus 135 mvisv~Asts~G~~Ls~~dl~~i~~ac~~i~~L~~~r~~i~~yvesrM~~iAPNLsaLvG~~iaArLi~~AGgL~~LAkm 214 (453)
-.+..+|-+|||.++++.|+.+|.+.|+.++++.++|.++.+|+.+||..||||||+|||..|+||||+|||||.+|||+
T Consensus 230 ~~~k~aAeiSMgteis~~Dl~nI~~l~dqVle~aeyR~qL~dylknrM~~iAPnLTaLvGElVGaRlIshaGSL~nLaK~ 309 (498)
T KOG2572|consen 230 AELKEAAEISMGTEISDSDLLNIKELCDQVLELAEYRDQLIDYLKNRMRTIAPNLTALVGELVGARLISHAGSLFNLAKA 309 (498)
T ss_pred HHHHhhhhhhhcccccHhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHhhhhHHHHhhC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CchhhhhhhhhcccccccccCCCCCccceEeeCccccCCCchhhhhHHHHHHhHHHHHhhcccCCCCCCCchhHHHHHHH
Q 012935 215 PACNVQLLGAKKKNLAGFSTATSQFRVGYLEQTEIFQSTPPPLRMRACRLLAAKSTLAARVDSTRGDPSGTAGRSFREEI 294 (453)
Q Consensus 215 PAcnIq~LGaeK~~~~g~st~~~~p~~G~Iy~s~lVq~~P~~~r~kaaR~lAaK~aLAARvD~~~~~~~g~~G~~lreei 294 (453)
|+|+||+|||||++|++++|...||+||+|||++||.++||+++||++|.||+|++||+|+|+++++.+|.+|...|..+
T Consensus 310 p~StIQilGAEKALFrALKtk~~TPKYGLIyhasLVgQa~pKnKGKIaR~LAaK~alA~R~Dalge~~~~~iGve~R~kl 389 (498)
T KOG2572|consen 310 PASTIQILGAEKALFRALKTKHDTPKYGLIYHASLVGQASPKNKGKIARSLAAKTALAARIDALGEESTNEIGVENRAKL 389 (498)
T ss_pred ChhHHHHHhhHHHHHHHHhcccCCCCCcceeccchhccCCcccccHHHHHHHHHHHHHHHHHHhccCCCCccchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCCC
Q 012935 295 HKKIEKWQEPPPA 307 (453)
Q Consensus 295 ~~ki~Kl~epP~~ 307 (453)
++||..+.+.-..
T Consensus 390 E~rlr~lE~r~l~ 402 (498)
T KOG2572|consen 390 EKRLRSLEGRDLQ 402 (498)
T ss_pred HHHHhhhhccCcc
Confidence 9999999876443
No 6
>PF01798 Nop: Putative snoRNA binding domain; InterPro: IPR002687 This domain is present in various pre-mRNA processing ribonucleoproteins. The function of the domain is unknown however it may be a common RNA or snoRNA or Nop1p binding domain. Proteins have been implicated in an expanding variety of functions during pre-mRNA splicing. Molecular cloning has identified genes encoding spliceosomal proteins that potentially act as novel RNA helicases, GTPases, or protein isomerases. Novel protein-protein and protein-RNA interactions that are required for functional spliceosome formation have also been described. Finally, growing evidence suggests that proteins may contribute directly to the spliceosome's active sites [].; PDB: 3GQX_B 3GQU_A 3NVM_A 3NMU_B 2NNW_C 3NVI_A 3NVK_A 2OZB_E 3SIU_B 3SIV_H ....
Probab=100.00 E-value=6.5e-55 Score=397.46 Aligned_cols=149 Identities=51% Similarity=0.813 Sum_probs=142.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccccCCCchhHhhchHHHHHHHHHhCCcchhcCCCchhhhhhhhhcccccccccC
Q 012935 156 KTIDACDRALALDAAKKKVLDFVESRMSYIAPNLSAIVGSAVAAKLMGTAGGLSALAKMPACNVQLLGAKKKNLAGFSTA 235 (453)
Q Consensus 156 ~i~~ac~~i~~L~~~r~~i~~yvesrM~~iAPNLsaLvG~~iaArLi~~AGgL~~LAkmPAcnIq~LGaeK~~~~g~st~ 235 (453)
+|.++|+++++|+++|+.|.+||++||..||||||+|||+.||||||++||||.+||+|||||||+||++|++|+||++.
T Consensus 1 ~I~~~~~~~~~L~~~r~~l~~yi~~rm~~iAPNLsaLvG~~vaA~Li~~aGgL~~Lak~Pasniq~lGaeK~~~~~l~~~ 80 (150)
T PF01798_consen 1 NILSACDEVISLSEYRKELLEYIESRMSEIAPNLSALVGSSVAARLISHAGGLENLAKMPASNIQVLGAEKALFRGLKTK 80 (150)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHTSHHHHHTS-HHHHTTSTCHHHHHHHHCCT
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCchHHHHHCcHHHHHHHHHcccHHHHHhCCHhhHHHHHhHHHHhHHhccc
Confidence 58899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCccceEeeCccccCCCchhhhhHHHHHHhHHHHHhhcccCCCCCCCc-hhHHHHHHHHHHHHHhcCC
Q 012935 236 TSQFRVGYLEQTEIFQSTPPPLRMRACRLLAAKSTLAARVDSTRGDPSGT-AGRSFREEIHKKIEKWQEP 304 (453)
Q Consensus 236 ~~~p~~G~Iy~s~lVq~~P~~~r~kaaR~lAaK~aLAARvD~~~~~~~g~-~G~~lreei~~ki~Kl~ep 304 (453)
+.+||+|||||||+||++||++|+||+|+||+||+||||||+|+++++|+ +|.+||++|++||+||+|.
T Consensus 81 ~~~pk~G~i~~~~~V~~~p~~~r~k~~R~lA~K~aLAARiD~~~~~~~~~~~G~~~re~i~~ki~k~~e~ 150 (150)
T PF01798_consen 81 AKTPKYGYIYQSDLVQKAPPKLRGKAARMLAAKCALAARIDAFSESPDGSAFGKKLREEIEKKIEKLQEK 150 (150)
T ss_dssp -SSTSSSGGGGSHHHHTS-HHHHHHHHHHHHHHHHHHHHHHHHT-STTHHHHHHHHHHHHHHHHHHHHCT
T ss_pred CCCCCeeEEecCHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999999995 9999999999999999984
No 7
>PF09785 Prp31_C: Prp31 C terminal domain; InterPro: IPR019175 This is the C-terminal domain of the pre-mRNA processing factor Prp31. Prp31 is required for U4/U6*U5 tri-snRNP formation []. In humans this protein has been linked to autosomal dominant retinitis pigmentosa [, ].
Probab=100.00 E-value=1.4e-48 Score=344.82 Aligned_cols=120 Identities=60% Similarity=0.936 Sum_probs=112.2
Q ss_pred CCCCCCCCCCCCCCCCccCCCcchhHhHHHhhhhHHHHHhhccccCcccccccCCCcccccccccCCCCcceeeeccccc
Q 012935 306 PAKQPKPLPVPDSEPKKKRGGRRLRKMKERYAVTDMRKLANRMLFGVPEESSLGDGLGEGYGMLGQAGSGKLRVSVGQSK 385 (453)
Q Consensus 306 ~~k~~K~LP~P~d~~kkkRGGrr~Rk~Ke~~~~telrk~~NRm~FG~~ee~~~~~~~~~glGmlg~~~~Gr~r~~~~~~~ 385 (453)
|++.+||||+|+|.|||||||||+|||||+|+||||||+||||+||++|||++++|+|+||||||++++||||+.+++++
T Consensus 1 P~k~~KaLP~Pdd~pkKKRGGrR~RK~KEr~~~TelRK~~NRm~FG~~eee~~~~~~g~glGmlg~~~~grir~~~~~~k 80 (124)
T PF09785_consen 1 PAKQKKALPIPDDKPKKKRGGRRFRKMKERFAMTELRKAQNRMEFGEEEEEVYDFGEGIGLGMLGQSGSGRIRATQVDQK 80 (124)
T ss_pred CCCcCCCCCCCCCCCcCccccHHHHHHHHHHHHHHHHHHHHhcccCcchhhhcccccceeeeeeccCCCCceeeeecccc
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHhhhcccCC----CCcccccccccccCCCCcccccCC
Q 012935 386 LAAKVAKRFKEKSYGS----SGATSGLTSSLAFTPVQGIELSNP 425 (453)
Q Consensus 386 ~~~k~~k~~~~~~~~~----~~~~~g~~sSlaftp~qg~el~nP 425 (453)
+.++++|+++.+...+ ++.++||+|||+|||+||||||||
T Consensus 81 ~~ak~sK~~~~~l~~~~~~~~~~~sG~~sSlaftp~qgiElvnP 124 (124)
T PF09785_consen 81 TKAKISKKMQKRLQSSGATTGGSTSGLASSLAFTPVQGIELVNP 124 (124)
T ss_pred hhhhhhHHHHHHHHhhccccCCcccchhhhhhcCCCccccccCc
Confidence 9999999998765432 244589999999999999999999
No 8
>PF08060 NOSIC: NOSIC (NUC001) domain; InterPro: IPR012976 This is the central domain in Nop56/SIK1-like proteins [].; PDB: 3PLA_K 3ICX_B 3ID6_A 3ID5_E 3NVM_A 3NMU_B 2NNW_C 3NVI_A 3NVK_A 2OZB_E ....
Probab=99.87 E-value=1.7e-22 Score=154.48 Aligned_cols=53 Identities=57% Similarity=0.870 Sum_probs=51.2
Q ss_pred HHHHhhhhHHHHHHHHHHHHHHHHHHhhccCccccccccChHHHHHHHHHhcC
Q 012935 64 LIVDCNVLSVDIENEIVIIHNFIRDKYRLKFPELESLVHHPIDYARVVKKIGN 116 (453)
Q Consensus 64 lIv~~n~L~~~Id~EI~~~h~~iRd~Ys~~FPELeslv~~~~~Y~k~V~~ign 116 (453)
+|++||+++++||+||+.+|+|+||||++|||||+++|+||.+|+++|+.|||
T Consensus 1 ~Ii~~~~l~~~id~ei~~~~~~lre~Y~~~FPEL~~lv~~~~~Y~~vV~~i~n 53 (53)
T PF08060_consen 1 LIIQANELLDDIDKEINLLHMRLREWYSWHFPELESLVPNPIDYAKVVKIIGN 53 (53)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTTTSTTHHHHS-SHHHHHHHHHHTTS
T ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHccchhHHHHcCCHHHHHHHHHHhcC
Confidence 69999999999999999999999999999999999999999999999999997
No 9
>KOG2014 consensus SMT3/SUMO-activating complex, AOS1/RAD31 component [Posttranslational modification, protein turnover, chaperones]
Probab=76.11 E-value=4.6 Score=41.69 Aligned_cols=73 Identities=19% Similarity=0.358 Sum_probs=56.4
Q ss_pred hHHHHHHHHhccCCCCC---CCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhccccCCCchhHhhchHHHHHHHHHh
Q 012935 132 AIIMVVSVTASTTSGKP---LPEDVLQKTIDACDRALA-LDAAKKKVLDFVESRMSYIAPNLSAIVGSAVAAKLMGTA 205 (453)
Q Consensus 132 ~~imvisv~Asts~G~~---Ls~~dl~~i~~ac~~i~~-L~~~r~~i~~yvesrM~~iAPNLsaLvG~~iaArLi~~A 205 (453)
..+|.+.+.-.+|-|++ .+++|+++++..-+.+++ ..-....+.+|+..--..+|| +||+||-.+|...|-.-
T Consensus 227 ~~ll~v~l~f~~s~~r~pg~~~~~d~erl~~I~~ell~s~~i~pd~~~~f~~~~~~ef~P-v~AvVGGivaQevIk~i 303 (331)
T KOG2014|consen 227 YFLLPVLLKFRTSEGRDPGETSEEDLERLLQIRNELLESETIIPDELLEFLSLIFTEFAP-VCAVVGGILAQEVIKAI 303 (331)
T ss_pred eehHHHHHHHHHhcCCCCccccHHHHHHHHHHHHhhccccccCCchHHHHHHhcccccCc-hhhhhhhHhHHHHHHHh
Confidence 34566666666776654 559999988887766666 555666777899999999999 99999999998887644
No 10
>PF05511 ATP-synt_F6: Mitochondrial ATP synthase coupling factor 6; InterPro: IPR008387 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit F6 (or coupling factor 6) found in the F0 complex of F-ATPases in mitochondria. The F6 subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit F6 in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2WSS_V 2CLY_C 1VZS_A.
Probab=57.43 E-value=18 Score=31.51 Aligned_cols=52 Identities=21% Similarity=0.405 Sum_probs=31.4
Q ss_pred hHHHHHHHHHHHHhcCCCCCCCCCCCCCCcchhHHHHhhhhHHHHHHHHHHHHHHHHHHhhcc-------Cccc
Q 012935 31 RFTDIMQKVEAALQNGSDISNHGMVLEDDPEYQLIVDCNVLSVDIENEIVIIHNFIRDKYRLK-------FPEL 97 (453)
Q Consensus 31 ~~~~~l~~i~~~~~~~~~~~~~~~~~e~~pey~lIv~~n~L~~~Id~EI~~~h~~iRd~Ys~~-------FPEL 97 (453)
=.+--+.||++|..+.. +..+++++.+|||+ .++++|++ +|.-+|+.- ||+.
T Consensus 37 IQklFldKIREY~~Ksk--s~gGklVD~~Pe~~---------kel~eel~----kL~r~YG~g~~~Dm~kFP~F 95 (99)
T PF05511_consen 37 IQKLFLDKIREYNQKSK--SSGGKLVDAGPEYE---------KELNEELE----KLARQYGGGSGVDMTKFPTF 95 (99)
T ss_dssp TTHHHHHHHHHHHHHHT--TTSS-STT--THHH---------HHHHHHHH----HHHHHHHSS---TTTS-SS-
T ss_pred HHHHHHHHHHHHHHHhc--cCCCCCCCCCHHHH---------HHHHHHHH----HHHHHhCCcccccHHhCCCC
Confidence 34456889999954322 12345899999985 35666666 688888865 7774
No 11
>KOG4634 consensus Mitochondrial F1F0-ATP synthase, subunit Cf6 (coupling factor 6) [Energy production and conversion]
Probab=45.20 E-value=78 Score=27.71 Aligned_cols=61 Identities=18% Similarity=0.400 Sum_probs=40.8
Q ss_pred hhhhhhhhccc-hHHHHHHHHHHHHhcCCCCCCCCCCCCCCcchhHHHHhhhhHHHHHHHHHHHHHHHHHHhh------c
Q 012935 20 LDNVSKLQKSQ-RFTDIMQKVEAALQNGSDISNHGMVLEDDPEYQLIVDCNVLSVDIENEIVIIHNFIRDKYR------L 92 (453)
Q Consensus 20 v~~va~l~~s~-~~~~~l~~i~~~~~~~~~~~~~~~~~e~~pey~lIv~~n~L~~~Id~EI~~~h~~iRd~Ys------~ 92 (453)
|.++|-....+ -.+-.+.||++|..+. ..+++++.+|||+ .++..|++ ++.-.|+ .
T Consensus 22 v~a~a~nk~~DpIqqlFldKvREy~~ks----~~Gklvds~pe~e---------~eLk~el~----rla~qfg~~~~Dm~ 84 (105)
T KOG4634|consen 22 VTATAFNKELDPIQQLFLDKVREYKKKS----PAGKLVDSDPEYE---------QELKEELF----RLAQQFGLANADML 84 (105)
T ss_pred hhhhHHHhhhChHHHHHHHHHHHHHhcC----CCCCCCCCCHHHH---------HHHHHHHH----HHHHHhCccCchhh
Confidence 55666666544 3445678999997763 4567899999986 34556665 5667777 4
Q ss_pred cCccc
Q 012935 93 KFPEL 97 (453)
Q Consensus 93 ~FPEL 97 (453)
.||+.
T Consensus 85 ~fp~f 89 (105)
T KOG4634|consen 85 TFPPF 89 (105)
T ss_pred hCCCC
Confidence 56654
No 12
>PF13770 DUF4169: Domain of unknown function (DUF4169)
Probab=41.03 E-value=17 Score=28.43 Aligned_cols=26 Identities=35% Similarity=0.428 Sum_probs=19.7
Q ss_pred cchhHhHHHhhhhHHHHHhhccccCcc
Q 012935 327 RRLRKMKERYAVTDMRKLANRMLFGVP 353 (453)
Q Consensus 327 rr~Rk~Ke~~~~telrk~~NRm~FG~~ 353 (453)
+++||.|++-. .+-.-.+||+.||-.
T Consensus 7 n~~RK~kaR~~-~~~~A~~NR~~fGRt 32 (55)
T PF13770_consen 7 NRARKAKARAE-KEAQADENRAKFGRT 32 (55)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHhCCC
Confidence 57888888754 455678999999963
No 13
>TIGR03738 PRTRC_C PRTRC system protein C. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated PRTRC system protein C.
Probab=33.45 E-value=24 Score=28.66 Aligned_cols=17 Identities=35% Similarity=0.585 Sum_probs=14.8
Q ss_pred HHHHHhhccCccccccc
Q 012935 85 FIRDKYRLKFPELESLV 101 (453)
Q Consensus 85 ~iRd~Ys~~FPELeslv 101 (453)
.|||.|+..||||-+-.
T Consensus 27 ~V~dfYs~~YPeLttA~ 43 (66)
T TIGR03738 27 QVRDFYSAQYPELLNAE 43 (66)
T ss_pred HHHHHHhccCchheeee
Confidence 69999999999997654
No 14
>PRK00082 hrcA heat-inducible transcription repressor; Provisional
Probab=29.59 E-value=54 Score=34.12 Aligned_cols=149 Identities=17% Similarity=0.167 Sum_probs=88.9
Q ss_pred chhhhhhh--h--ccchHHHHHHHHHH--HHhcCCCCCCCCCCCCCCcchhHHHHhhhhHH--HHHHHHHHHHHHHHHHh
Q 012935 19 DLDNVSKL--Q--KSQRFTDIMQKVEA--ALQNGSDISNHGMVLEDDPEYQLIVDCNVLSV--DIENEIVIIHNFIRDKY 90 (453)
Q Consensus 19 ~v~~va~l--~--~s~~~~~~l~~i~~--~~~~~~~~~~~~~~~e~~pey~lIv~~n~L~~--~Id~EI~~~h~~iRd~Y 90 (453)
..+.+++. + .+...+..|..+++ |+.++. ...|.+..+.-|++=|++- +. .++++. -.+|+.+|
T Consensus 27 ~s~~l~~~~~l~~S~aTIR~dm~~Le~~G~l~~~h---~sagrIPT~kGYR~YVd~L--~~~~~~~~~~---~~~i~~~~ 98 (339)
T PRK00082 27 GSKTLSKRYGLGVSSATIRNDMADLEELGLLEKPH---TSSGRIPTDKGYRYFVDHL--LEVKPLSEEE---RRAIEKFL 98 (339)
T ss_pred CHHHHHHHhCCCCChHHHHHHHHHHHhCCCcCCCc---CCCCCCcCHHHHHHHHHHh--CCCCCCCHHH---HHHHHHHH
Confidence 35666654 2 35567778888776 444433 3457788999999998744 32 233322 24777888
Q ss_pred hccCccccccccChHHHHHHHHHhcCCCCC------Cccccccc----CChhHHHHHHHHhcc-------CCCCCCCHHH
Q 012935 91 RLKFPELESLVHHPIDYARVVKKIGNEMDL------TLVDLEGL----LPSAIIMVVSVTAST-------TSGKPLPEDV 153 (453)
Q Consensus 91 s~~FPELeslv~~~~~Y~k~V~~ign~~dl------~~~~L~~i----L~~~~imvisv~Ast-------s~G~~Ls~~d 153 (453)
..++.+++.++.. -++++..+-+-.-+ ....|..| |++..+++|.|+.+- ....+++.++
T Consensus 99 ~~~~~~~~~~l~~---aa~~Ls~lT~~~avv~~p~~~~~~l~~i~lv~l~~~~~lvvlVt~~G~V~~~~i~~~~~~~~~~ 175 (339)
T PRK00082 99 DERGVSLEDVLQE---AAQLLSELTGYTAVVLTPKLSDSRLKHIELVPLSPHRALAVLVTDSGRVENRVIELPEGISPSD 175 (339)
T ss_pred HhccCCHHHHHHH---HHHHHHHHHCCcEEEEecCCCCceEEEEEEEEECCCcEEEEEEcCCCcEEEEEEeCCCCCCHHH
Confidence 8888899888754 45555555443211 11123222 345666665554432 3557788999
Q ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHH
Q 012935 154 LQKTIDACDRA---LALDAAKKKVLDFV 178 (453)
Q Consensus 154 l~~i~~ac~~i---~~L~~~r~~i~~yv 178 (453)
|..+..+-+.. ..|.+.+..+.+.+
T Consensus 176 L~~~~~~ln~~l~g~~l~ei~~~l~~~~ 203 (339)
T PRK00082 176 LEEASNFLNERLVGLTLSEIRSKLRTEL 203 (339)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence 98887776654 24556666665544
No 15
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=26.63 E-value=55 Score=36.62 Aligned_cols=127 Identities=15% Similarity=0.210 Sum_probs=65.2
Q ss_pred CCCcchhHHHHhhhhHHHHHHHHHHHHHHHHHHhhccCccccccccCh-HHH---------HHHHHHhcCCCCCCccc--
Q 012935 57 EDDPEYQLIVDCNVLSVDIENEIVIIHNFIRDKYRLKFPELESLVHHP-IDY---------ARVVKKIGNEMDLTLVD-- 124 (453)
Q Consensus 57 e~~pey~lIv~~n~L~~~Id~EI~~~h~~iRd~Ys~~FPELeslv~~~-~~Y---------~k~V~~ign~~dl~~~~-- 124 (453)
+...+|..|+.+..= +.+.-.+.-.+--.|-.+||+|.+-.-|. +|. +..|+.|. ++.+.+
T Consensus 20 ~~~~~y~~il~~~kg----~~k~K~Laaq~I~kffk~FP~l~~~Ai~a~~DLcEDed~~iR~~aik~lp---~~ck~~~~ 92 (556)
T PF05918_consen 20 QHEEDYKEILDGVKG----SPKEKRLAAQFIPKFFKHFPDLQEEAINAQLDLCEDEDVQIRKQAIKGLP---QLCKDNPE 92 (556)
T ss_dssp GGHHHHHHHHHGGGS-----HHHHHHHHHHHHHHHCC-GGGHHHHHHHHHHHHT-SSHHHHHHHHHHGG---GG--T--T
T ss_pred cCHHHHHHHHHHccC----CHHHHHHHHHHHHHHHhhChhhHHHHHHHHHHHHhcccHHHHHHHHHhHH---HHHHhHHH
Confidence 344589999998884 34456666777889999999998643321 111 11222222 122111
Q ss_pred --------ccccCChhHHHHHHHHhccCCCCCCCHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhccccCCCchhH
Q 012935 125 --------LEGLLPSAIIMVVSVTASTTSGKPLPEDVLQKTIDACDRAL----ALDAAKKKVLDFVESRMSYIAPNLSA 191 (453)
Q Consensus 125 --------L~~iL~~~~imvisv~Asts~G~~Ls~~dl~~i~~ac~~i~----~L~~~r~~i~~yvesrM~~iAPNLsa 191 (453)
|-++|..+....+.+.- .+.-.-|.-+-...+..+|+.+. .-+..|+++..||..+|..+.|++..
T Consensus 93 ~v~kvaDvL~QlL~tdd~~E~~~v~-~sL~~ll~~d~k~tL~~lf~~i~~~~~~de~~Re~~lkFl~~kl~~l~~~~~~ 170 (556)
T PF05918_consen 93 HVSKVADVLVQLLQTDDPVELDAVK-NSLMSLLKQDPKGTLTGLFSQIESSKSGDEQVRERALKFLREKLKPLKPELLT 170 (556)
T ss_dssp -HHHHHHHHHHHTT---HHHHHHHH-HHHHHHHHH-HHHHHHHHHHHHH---HS-HHHHHHHHHHHHHHGGGS-TTTS-
T ss_pred HHhHHHHHHHHHHhcccHHHHHHHH-HHHHHHHhcCcHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHHhhCcHHHhh
Confidence 44444322211111100 01001112222234455667776 44457999999999999999888866
No 16
>PRK10548 flagellar biosynthesis protein FliT; Provisional
Probab=25.54 E-value=4.1e+02 Score=23.82 Aligned_cols=56 Identities=18% Similarity=0.246 Sum_probs=44.6
Q ss_pred cCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCchhHhhchHHHHHHHHHh
Q 012935 143 TTSGKPLPEDVLQKTIDACDRALALDAAKKKVLDFVESRMSYIAPNLSAIVGSAVAAKLMGTA 205 (453)
Q Consensus 143 ts~G~~Ls~~dl~~i~~ac~~i~~L~~~r~~i~~yvesrM~~iAPNLsaLvG~~iaArLi~~A 205 (453)
.+.+.++++.+.+.....-..|++-+. .|..+++.||.. |+.++|..---+-+..|
T Consensus 50 ~~~~~~l~~~~q~~~~~lL~~IL~nda---~Ir~Llq~rl~e----L~~li~~~~rq~~l~~a 105 (121)
T PRK10548 50 LTIPPDISTVMQEQLRPMLRQILDNEA---ELKQLLQQRMDE----LSSLIGQSTRQKSVNSA 105 (121)
T ss_pred cCCCCCCCHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH----HHHHHHHhHHHHHHHHH
Confidence 456778999988888888888877554 667778999998 99999998888777665
No 17
>PF14454 Prok_Ub: Prokaryotic Ubiquitin
Probab=24.75 E-value=33 Score=27.75 Aligned_cols=17 Identities=35% Similarity=0.616 Sum_probs=14.7
Q ss_pred HHHHHhhccCccccccc
Q 012935 85 FIRDKYRLKFPELESLV 101 (453)
Q Consensus 85 ~iRd~Ys~~FPELeslv 101 (453)
-||+.|+..||||-+-.
T Consensus 28 ~V~~~ya~~YPeL~tA~ 44 (65)
T PF14454_consen 28 EVRDFYAAQYPELTTAE 44 (65)
T ss_pred HHHHHHhhhChhhheee
Confidence 59999999999997643
No 18
>PF12347 HJURP_C: Holliday junction regulator protein family C-terminal repeat; InterPro: IPR022102 Although this family is conserved in the Holliday junction regulator, HJURP, proteins in higher eukaryotes, alongside an Scm3, PF10384 from PFAM, family, its exact function is not known. The C-terminal region of Scm3 proteins has been evolving rapidly, and this short repeat at the C-terminal end can be present in up to two copies in the higher eukaryotes. ; PDB: 3P57_A 3KOV_A.
Probab=24.51 E-value=25 Score=28.13 Aligned_cols=28 Identities=29% Similarity=0.498 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCccCCCcchhHhHHHhhh
Q 012935 310 PKPLPVPDSEPKKKRGGRRLRKMKERYAV 338 (453)
Q Consensus 310 ~K~LP~P~d~~kkkRGGrr~Rk~Ke~~~~ 338 (453)
.+..|.|+..+. =|++-|||+++|+|..
T Consensus 6 ~~~sp~p~~~~~-p~~e~kY~eI~eeFD~ 33 (64)
T PF12347_consen 6 GCDSPEPDIEPS-PRTENKYREINEEFDK 33 (64)
T ss_dssp -----------------------------
T ss_pred CCCCCCCCcCCC-CchhhHHHHHHHHHHH
Confidence 366788887666 7889999999999954
No 19
>KOG3365 consensus NADH:ubiquinone oxidoreductase, NDUFA5/B13 subunit [Energy production and conversion]
Probab=23.63 E-value=32 Score=31.74 Aligned_cols=36 Identities=25% Similarity=0.321 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhhccCccccccccChHHHHHHHHHhcC
Q 012935 80 VIIHNFIRDKYRLKFPELESLVHHPIDYARVVKKIGN 116 (453)
Q Consensus 80 ~~~h~~iRd~Ys~~FPELeslv~~~~~Y~k~V~~ign 116 (453)
...|.++++||+.--|+|+. ||++.-|-+.+..|-|
T Consensus 47 ~~~~~rl~~ly~kil~~~eq-Ipkn~ayRk~Tesit~ 82 (145)
T KOG3365|consen 47 ENPHERLRDLYTKILDVLEQ-IPKNAAYRKYTESITN 82 (145)
T ss_pred CCHHHHHHHHHHHhHHHHHH-cchhhhhhHHHHHHHH
Confidence 45699999999999999997 6888999888877665
No 20
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=21.24 E-value=70 Score=34.50 Aligned_cols=51 Identities=14% Similarity=0.176 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCchhHhhchHHH
Q 012935 148 PLPEDVLQKTIDACDRALALDAAKKKVLDFVESRMSYIAPNLSAIVGSAVA 198 (453)
Q Consensus 148 ~Ls~~dl~~i~~ac~~i~~L~~~r~~i~~yvesrM~~iAPNLsaLvG~~ia 198 (453)
.++.++|..|+++||++-+--+--+.-+.+|..||..--||+--+.=+.+.
T Consensus 20 ~nT~enW~~IlDvCD~v~~~~~~~kd~lk~i~KRln~~dphV~L~AlTLld 70 (462)
T KOG2199|consen 20 KNTSENWSLILDVCDKVGSDPDGGKDCLKAIMKRLNHKDPHVVLQALTLLD 70 (462)
T ss_pred ccccccHHHHHHHHHhhcCCCcccHHHHHHHHHHhcCCCcchHHHHHHHHH
Confidence 356799999999999998877777788899999999999998654444333
No 21
>PRK15058 cytochrome b562; Provisional
Probab=20.89 E-value=3.2e+02 Score=24.95 Aligned_cols=75 Identities=20% Similarity=0.290 Sum_probs=45.2
Q ss_pred hhhhhhhhccchHHHHHHHHHHHHhc--CCCCCCCCCCCCCCcchhHHH-HhhhhHHHHHHHHHHHH-------------
Q 012935 20 LDNVSKLQKSQRFTDIMQKVEAALQN--GSDISNHGMVLEDDPEYQLIV-DCNVLSVDIENEIVIIH------------- 83 (453)
Q Consensus 20 v~~va~l~~s~~~~~~l~~i~~~~~~--~~~~~~~~~~~e~~pey~lIv-~~n~L~~~Id~EI~~~h------------- 83 (453)
...+++=-+.+.++.-+...+....+ ...+....+..+|+||.+--. --+.|+++||.-...+.
T Consensus 36 ~k~~~~A~~a~~~k~al~~mr~aa~~Ak~~~P~kl~~k~~ds~e~K~Y~~G~d~Li~qID~a~~la~~GkL~eAK~~a~~ 115 (128)
T PRK15058 36 LKVVEKTDNAAEVKDALTKMRAAALDAQKATPPKLEDKAPDSPEMKDFRHGFDILVGQIDGALKLANEGKVKEAQAAAEQ 115 (128)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHHHHhccCCchhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 44555555556677777777765543 123344456677888864332 24667777776555443
Q ss_pred -HHHHHHhhccC
Q 012935 84 -NFIRDKYRLKF 94 (453)
Q Consensus 84 -~~iRd~Ys~~F 94 (453)
.-+|+-|+.+|
T Consensus 116 l~~lR~eYHkky 127 (128)
T PRK15058 116 LKTTRNAYHKKY 127 (128)
T ss_pred HHHHHHHHHHhc
Confidence 25788888877
No 22
>PRK14552 C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional
Probab=20.16 E-value=3.4e+02 Score=29.31 Aligned_cols=73 Identities=19% Similarity=0.258 Sum_probs=57.8
Q ss_pred CCcchhHHHHhhhhHHHHHHHHHHHHHHHHHHhhccCccccccccChHHHHHHHHHhcCCCCCCcccccccCChhHHHHH
Q 012935 58 DDPEYQLIVDCNVLSVDIENEIVIIHNFIRDKYRLKFPELESLVHHPIDYARVVKKIGNEMDLTLVDLEGLLPSAIIMVV 137 (453)
Q Consensus 58 ~~pey~lIv~~n~L~~~Id~EI~~~h~~iRd~Ys~~FPELeslv~~~~~Y~k~V~~ign~~dl~~~~L~~iL~~~~imvi 137 (453)
.+.+...|.++.+.+.++++....+..||.+.-...-|-|.+||. +..=++++..+|.=..|. -+|..+|.++
T Consensus 227 se~dl~~I~~~a~~I~~L~e~R~~L~~yI~~~M~~iAPNLtaLVG-~~lAArLIa~AGsL~~La------k~PastIqiL 299 (414)
T PRK14552 227 SEFDLEAIKKLANEILDLYKLREELEDYLETVMKEVAPNLTALVG-PSLGARLISLAGGLEELA------KMPASTIQVL 299 (414)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccHHHHHHh-hHHHHHHHHHhCCHHHHh------hCCchHHHHh
Confidence 444668888999999999999999999999999999999999954 567789999998633332 2466666654
Done!