Query 024165
Match_columns 271
No_of_seqs 146 out of 694
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 02:33:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024165.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024165hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2780 Ribosome biogenesis pr 100.0 5.8E-58 1.3E-62 406.3 18.1 207 41-271 96-302 (302)
2 KOG2781 U3 small nucleolar rib 100.0 4.2E-57 9.2E-62 396.6 19.9 216 30-271 72-287 (290)
3 KOG2963 RNA-binding protein re 100.0 7.3E-46 1.6E-50 339.1 17.9 231 33-264 17-321 (405)
4 KOG2971 RNA-binding protein re 100.0 3.6E-41 7.8E-46 297.2 14.1 195 41-265 49-254 (299)
5 PF04427 Brix: Brix domain; I 100.0 4.7E-41 1E-45 290.6 9.5 179 46-242 1-191 (191)
6 smart00879 Brix Brix domain. T 100.0 4.6E-37 1E-41 262.1 19.8 170 45-237 1-180 (180)
7 COG5154 BRX1 RNA-binding prote 100.0 1.9E-37 4E-42 267.7 13.4 192 40-252 29-230 (283)
8 COG2136 IMP4 Predicted exosome 100.0 1.4E-32 3E-37 238.4 18.5 181 42-247 2-189 (191)
9 PRK03972 ribosomal biogenesis 99.9 8.7E-26 1.9E-30 197.3 19.8 125 44-168 2-132 (208)
10 KOG3031 Protein required for b 99.4 1.8E-12 3.9E-17 117.0 10.8 179 49-247 35-231 (307)
11 PRK00933 ribosomal biogenesis 99.2 2.3E-10 5E-15 97.6 13.5 112 44-164 1-112 (165)
12 COG5106 RPF2 Uncharacterized c 98.1 4.8E-06 1E-10 74.5 6.2 174 54-247 40-238 (316)
13 PRK03972 ribosomal biogenesis 94.8 0.21 4.5E-06 44.4 9.0 78 41-124 105-188 (208)
14 cd00860 ThrRS_anticodon ThrRS 59.9 46 0.001 24.0 6.6 77 43-120 3-80 (91)
15 PF05508 Ran-binding: RanGTP-b 59.3 4.8 0.0001 37.7 1.3 40 228-267 186-227 (302)
16 cd00861 ProRS_anticodon_short 50.0 50 0.0011 24.2 5.4 67 55-122 19-85 (94)
17 cd00858 GlyRS_anticodon GlyRS 45.6 1.1E+02 0.0023 24.1 7.0 77 42-120 27-106 (121)
18 PF03129 HGTP_anticodon: Antic 40.5 94 0.002 22.8 5.6 82 44-125 2-86 (94)
19 PF12745 HGTP_anticodon2: Anti 37.4 2.6E+02 0.0056 25.8 9.0 78 40-117 4-89 (273)
20 cd02974 AhpF_NTD_N Alkyl hydro 36.3 2E+02 0.0043 22.1 7.2 68 37-117 16-84 (94)
21 COG0124 HisS Histidyl-tRNA syn 33.5 2.1E+02 0.0046 28.2 8.2 77 39-116 333-410 (429)
22 cd00859 HisRS_anticodon HisRS 32.2 1.8E+02 0.0038 20.3 6.3 76 43-119 3-79 (91)
23 COG1783 XtmB Phage terminase l 31.7 1.8E+02 0.0038 28.6 7.1 79 42-125 24-112 (414)
24 PF12112 DUF3579: Protein of u 25.9 24 0.00053 27.4 0.2 16 21-36 13-28 (92)
25 PF15210 SFTA2: Surfactant-ass 21.3 53 0.0011 23.1 1.1 9 232-240 2-10 (59)
26 cd03026 AhpF_NTD_C TRX-GRX-lik 20.2 3.2E+02 0.007 20.3 5.4 55 36-93 8-64 (89)
27 KOG3112 Uncharacterized conser 20.1 92 0.002 28.1 2.7 41 80-122 102-142 (262)
No 1
>KOG2780 consensus Ribosome biogenesis protein RPF1, contains IMP4 domain [RNA processing and modification]
Probab=100.00 E-value=5.8e-58 Score=406.29 Aligned_cols=207 Identities=60% Similarity=0.972 Sum_probs=200.7
Q ss_pred CCeEEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEE
Q 024165 41 FLYCLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 120 (271)
Q Consensus 41 ~pkilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~ 120 (271)
.||+|||++.+|+.++..|+.+|+.++||+....|++.+++.++++|..+++|++++++++++.|+.|.|+|+|+|||++
T Consensus 96 spKvlITt~~~~~~~t~~~~~eL~~iiPNs~~~~R~~~~vk~i~~~a~~~eftdlvvV~edRkk~n~L~iihlP~GPT~~ 175 (302)
T KOG2780|consen 96 SPKVLITTSKNPKRTTYKFASELLDIIPNSTVKKRDNYTVKSIVEIAIKREFTDLVVVNEDRKKPNGLKIIHLPNGPTAY 175 (302)
T ss_pred CccEEEEcCCCCcccHHHHHHHHHHhCCCceEEecCCchHHHHHHHHHHhcCCceEEEecCcCCccceEEEecCCCCceE
Confidence 39999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeceeehhhhccCCCCCCCCceEEccCCCCchhHHHHHHhhhhCCCCCCCCCCeEEEEEecCCeEEEEeeeeEEEecc
Q 024165 121 FKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFFRHHRYIFETKE 200 (271)
Q Consensus 121 F~I~n~~l~kdi~~~~~~~~~~P~LI~nnF~t~~g~~i~~~l~~lFp~~p~~~~rRVv~F~~~~d~I~fRhy~Y~~~~~~ 200 (271)
|++.|+.+.+||+.+|.+++|.|+||+|||+|++|..++++|++|||.+|++.+||||+|++|+|+|+||||||.|...+
T Consensus 176 Fkls~~~~~kdi~k~g~~t~h~PElIlNNFtTrlG~~v~r~f~sLfp~~p~f~gRrvvtFhnQrD~IfFRhhRY~Fkee~ 255 (302)
T KOG2780|consen 176 FKLSNVVLTKDIKKHGRPTSHIPELILNNFTTRLGMTVGRLFASLFPHDPQFTGRRVVTFHNQRDYIFFRHHRYEFKEEE 255 (302)
T ss_pred EEeecccchhhhhhcCCcccccchhhhhcccchhhHHHHHHHHHhCCCCccccceeEEEEEecCceEEEEEEEEeecccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999997654
Q ss_pred CCCCCCCCccccchhhhccccccceeeeEeeeceeEEEEEEeecccCCCCcceEEEEeCCCCCccccccCC
Q 024165 201 SKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDTSRRRFFL 271 (271)
Q Consensus 201 ~~~~~~s~~~~~~~~~~~~~~~~~~v~L~EIGPRftLkL~kI~~G~~~~~~~~~~~~~k~~~~~~r~~~~l 271 (271)
. ++.|+|+||||||+|.+.++|+|+.+.|+++|+.++ |+++|++|||
T Consensus 256 ~-----------------------kvglqElGPrfTLrL~~lq~G~fd~K~ge~~~~~~~-~~tsrr~f~L 302 (302)
T KOG2780|consen 256 I-----------------------KVGLQELGPRFTLRLRRLQKGTFDEKEGEFEWVHKK-METSRRKFFL 302 (302)
T ss_pred c-----------------------ccchhhcCCceeeeehhhhhccccccceeeeeeecc-cccchhcccC
Confidence 3 369999999999999999999999999999999999 9999999998
No 2
>KOG2781 consensus U3 small nucleolar ribonucleoprotein (snoRNP) component [RNA processing and modification]
Probab=100.00 E-value=4.2e-57 Score=396.56 Aligned_cols=216 Identities=38% Similarity=0.644 Sum_probs=203.1
Q ss_pred cccchhhccCCCCeEEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEE
Q 024165 30 QSTWAWDNLWHFLYCLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALL 109 (271)
Q Consensus 30 ~~~~~~~~l~~~pkilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~ 109 (271)
-++|.+ .+...|||+|||||+||+++.+|+|+|+.+|||+...+||++.+.++++.|..+|+|++|+++|++|.|.+|.
T Consensus 72 ddEy~~-ag~~dPKimvTTSR~PSsrL~~FaKelkLvfPNaqr~nRG~~~~~~lv~a~ra~~~Td~iivHEhRG~PdgL~ 150 (290)
T KOG2781|consen 72 DDEYRW-AGEEDPKIMVTTSRDPSSRLKMFAKELKLVFPNAQRLNRGNYVVGELVDAARANGVTDLIIVHEHRGIPDGLV 150 (290)
T ss_pred cHHHHh-ccCCCCcEEEEeCCCchHHHHHHHHhheEeccChhhhcccceeHHHHHHHHHHCCCceEEEEeccCCCCCceE
Confidence 456777 6778899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEecCCCceEEEEEeceeehhhhccCCCCCCCCceEEccCCCCchhHHHHHHhhhhCCCCCCCCCCeEEEEEecCCeEEE
Q 024165 110 IIGLPDGPTAHFKLSKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEFRGRRVVTFHNQRDFIFF 189 (271)
Q Consensus 110 I~~lP~GPT~~F~I~n~~l~kdi~~~~~~~~~~P~LI~nnF~t~~g~~i~~~l~~lFp~~p~~~~rRVv~F~~~~d~I~f 189 (271)
|||+|.|||+.|.|.|+.+++||+..|+++..+|+||||||+|.+|++++++|.+|||. |+..++|||+|.|++|+|.|
T Consensus 151 vshlPfGPTa~Fsl~nvVmRhdip~~G~msE~~phlIfdNf~t~lG~Rv~~iLkhLFP~-pk~ds~Rvvtf~N~~DyIsF 229 (290)
T KOG2781|consen 151 VSHLPFGPTAFFSLHNVVMRHDIPDIGTMSEQKPHLIFDNFTTKLGKRVKTILKHLFPV-PKDDSKRVVTFANRNDYISF 229 (290)
T ss_pred EEecCCCCceEeeeeeeeecccccccccccccCceEEeccccchHHHHHHHHHHHhCCC-CcCCcccEEEEecCCceEEE
Confidence 99999999999999999999999999999999999999999999999999999999995 88889999999999999999
Q ss_pred EeeeeEEEeccCCCCCCCCccccchhhhccccccceeeeEeeeceeEEEEEEeecccCCCCcceEEEEeCCCCCcccccc
Q 024165 190 RHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDTSRRRF 269 (271)
Q Consensus 190 Rhy~Y~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~L~EIGPRftLkL~kI~~G~~~~~~~~~~~~~k~~~~~~r~~~ 269 (271)
|||.|.-... + .+.|.|+||||.|+|+.|..|+++...+++||++||||+|+|||-
T Consensus 230 Rhhvy~~~~~--k----------------------~vel~evGPRfelklyeIrlGTlE~~~ad~EW~~rpY~nTa~kR~ 285 (290)
T KOG2781|consen 230 RHHVYKKTDG--K----------------------EVELTEVGPRFELKLYEIRLGTLEIKDADVEWVLRPYMNTARKRD 285 (290)
T ss_pred EEEEEecCCC--c----------------------eEEEeeccccceeeeeeeeecceeccccceeEEecchhcchhhhh
Confidence 9988864321 1 158999999999999999999999889999999999999999986
Q ss_pred CC
Q 024165 270 FL 271 (271)
Q Consensus 270 ~l 271 (271)
+|
T Consensus 286 ~l 287 (290)
T KOG2781|consen 286 FL 287 (290)
T ss_pred hh
Confidence 64
No 3
>KOG2963 consensus RNA-binding protein required for 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.3e-46 Score=339.09 Aligned_cols=231 Identities=22% Similarity=0.234 Sum_probs=194.8
Q ss_pred chhhccCCCCeEEEEecCCCCchHHHHHHHHHhcC-CCcE--EcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEE
Q 024165 33 WAWDNLWHFLYCLPVYMLFILQRGPAFISELLSVI-PNSH--YYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALL 109 (271)
Q Consensus 33 ~~~~~l~~~pkilIttSr~ps~~~r~f~kdL~~l~-Pns~--~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~ 109 (271)
--+.+++..|.|+|.+++-....+++|..|||++| ||+. ...|++|+|||++.+|+.+|+||+++++.+..+ .+|+
T Consensus 17 ~~e~~i~~~ph~~v~~rgla~~~~~~L~~DlR~iMeP~TA~~LkerK~N~iKDfv~~~gplGVTH~l~lskt~~n-lslk 95 (405)
T KOG2963|consen 17 EQEIEIAKSPHIRVGHRGLAGRSLKQLTLDLRRIMEPHTASNLKERKRNKLKDFVVMSGPLGVTHLLMLSKTETN-LSLK 95 (405)
T ss_pred cchhhcccCceEEEEecccccccHHHHHHHHHHhhCcchhhHHHHHhhhhhhhHHhhcccccceEEEEEecccCc-eeEE
Confidence 34567788999999999999999999999999999 9974 567899999999999999999999999999875 5799
Q ss_pred EEecCCCceEEEEEeceeehhhhccCCC-------CCCCCceEEccCCCCc---hhHHHHHHhhhhCCCC-CC----CCC
Q 024165 110 IIGLPDGPTAHFKLSKLVLRKDIKNHGN-------PTGHIPELVLNNFATR---LGHRVGRLIQSLFPQS-PE----FRG 174 (271)
Q Consensus 110 I~~lP~GPT~~F~I~n~~l~kdi~~~~~-------~~~~~P~LI~nnF~t~---~g~~i~~~l~~lFp~~-p~----~~~ 174 (271)
|+++|.|||++|+|+.|++.+|+.+... .+.++|+||+|||++. +.+++..|||+|||++ +. .++
T Consensus 96 i~R~PqGPTLtFkV~qYsLardV~~~qkrp~~~~~~Fk~pPLlVmNgFg~~~~~HlkL~~t~FQNmFPsInv~tvnlnti 175 (405)
T KOG2963|consen 96 IARTPQGPTLTFKVHQYSLARDVVSLQKRPKSPNDLFKSPPLLVLNGFGTSGRKHLKLMTTMFQNMFPSINVATVNLNTI 175 (405)
T ss_pred EEecCCCCceEEEeeehhhHHHHHHHHhCCCCchhhccCCCEEEEccCCCCcchhHHHHHHHHHHcCCCcCcceeeccce
Confidence 9999999999999999999999988532 2689999999999954 6789999999999994 22 378
Q ss_pred CeEEEEEe--cCCeEEEEeeeeEEEeccCC-------------------------------CC-CCCCccccchhhhc--
Q 024165 175 RRVVTFHN--QRDFIFFRHHRYIFETKESK-------------------------------GS-DANGKKAKDAKSEK-- 218 (271)
Q Consensus 175 rRVv~F~~--~~d~I~fRhy~Y~~~~~~~~-------------------------------~~-~~s~~~~~~~~~~~-- 218 (271)
+||+++++ +++.|.||||.+.+.+.+.. .| .+||||.||++.-+
T Consensus 176 kRcllinyn~dt~eIdmRHysI~vvpVGisR~vkkl~k~~~~~~~iPnL~~~~DISd~vl~~g~~~seSE~e~d~~~~i~ 255 (405)
T KOG2963|consen 176 KRCLLINYNRDTGEIDMRHYSIRVVPVGISRNVKKLVKAKKNLSTIPNLHRLQDISDLVLKGGLYASESEIEDDATVRIV 255 (405)
T ss_pred eEEEEEecCCCCCeeeeeeeEEEEEecccchHHHHHHhhhcccCCCCCchhhhhHHHHhcCCcccccccccccccceEEe
Confidence 99999996 68899999965555443321 02 47888877666410
Q ss_pred --------------------cccccceeeeEeeeceeEEEEEEeecccCCCCcceEEEEeCCCCCc
Q 024165 219 --------------------TSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDT 264 (271)
Q Consensus 219 --------------------~~~~~~~v~L~EIGPRftLkL~kI~~G~~~~~~~~~~~~~k~~~~~ 264 (271)
...++++|+|+||||||||+|+||++|.|+|+++||+|+.|+..+.
T Consensus 256 ~~~~~~~eveL~q~~~s~g~~~~qksaikL~EIGPRlTlqLvKIeEGi~~GkVlyH~hv~Kt~eEi 321 (405)
T KOG2963|consen 256 DNQDVKEEVELPQPKASRGNQPPQKSAIKLTEIGPRLTLQLVKIEEGICEGKVLYHEHVQKTEEEI 321 (405)
T ss_pred ccccchhhhhccccccccCCCcccccceeeEeecccceEEEEEeeccccccceEEeehhcCCHHHH
Confidence 1134678999999999999999999999999999999999997543
No 4
>KOG2971 consensus RNA-binding protein required for biogenesis of the ribosomal 60S subunit [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.6e-41 Score=297.15 Aligned_cols=195 Identities=23% Similarity=0.333 Sum_probs=171.2
Q ss_pred CCeEEEEecCCCCchHHHHHHHHHhcCCCcEEccc--ccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCce
Q 024165 41 FLYCLPVYMLFILQRGPAFISELLSVIPNSHYYKR--GTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPT 118 (271)
Q Consensus 41 ~pkilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R--~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT 118 (271)
.+++||++||+.|-++|+||+||..++||++...+ .+.++-.|.++|...+|+.+++|+.++....||||++.|+|||
T Consensus 49 K~rvlv~ssRgis~R~RhLm~di~~Llph~k~dsk~d~~k~l~~lnel~elkncn~~lfFesrkr~DlYlWm~~~p~GpS 128 (299)
T KOG2971|consen 49 KERVLVLSSRGISFRTRHLMKDISSLLPHSKKDSKLDRKKKLGVLNELAELKNCNSCLFFESRKRKDLYLWMSNSPNGPS 128 (299)
T ss_pred ceeEEEEecCCchHHHHHHHHHHHHhcccccccchhhhcchHHHHHHHHHHhcCCeEEEEEeeccCceeEEEecCCCCCc
Confidence 57999999999999999999999999999988766 3678999999999999999999999999999999999999999
Q ss_pred EEEEEeceeehhhhccCCCCC-CCCceEEcc-CCCC-chhHHHHHHhhhhCCCCCCC------CCCeEEEEEecCCeEEE
Q 024165 119 AHFKLSKLVLRKDIKNHGNPT-GHIPELVLN-NFAT-RLGHRVGRLIQSLFPQSPEF------RGRRVVTFHNQRDFIFF 189 (271)
Q Consensus 119 ~~F~I~n~~l~kdi~~~~~~~-~~~P~LI~n-nF~t-~~g~~i~~~l~~lFp~~p~~------~~rRVv~F~~~~d~I~f 189 (271)
++|.|+|+++|+|++.+|||. +++|+|.|+ +|++ ++.++++++|.+.|+. |+. ..+||++|++.+|.|||
T Consensus 129 vkFlv~n~hTM~ElkmtgN~lkgsrplLsFd~~Fd~~pHlkl~Kell~q~fgi-P~~hrkSkpf~Dhvf~Fsi~D~~IWf 207 (299)
T KOG2971|consen 129 VKFLVHNVHTMAELKMTGNCLKGSRPLLSFDKAFDELPHLKLLKELLEQIFGI-PKHHRKSKPFVDHVFTFSILDGKIWF 207 (299)
T ss_pred eEEehhhhhhHHHhCCccccccCCcceeecccccccchHHHHHHHHHHHHcCC-CCCCcccCCccceEEEEEEecCeEEE
Confidence 999999999999999999995 799999998 7995 5679999999999987 431 36899999999999999
Q ss_pred EeeeeEEEeccCCCCCCCCccccchhhhccccccceeeeEeeeceeEEEEEEeecccCCCCcceEEEEeCCCCCcc
Q 024165 190 RHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGGEFEWVHKPEMDTS 265 (271)
Q Consensus 190 Rhy~Y~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~L~EIGPRftLkL~kI~~G~~~~~~~~~~~~~k~~~~~~ 265 (271)
|+ |+|+..+. ..|+||||||+|.+++|.+|+|+|. ..|.+..|...+
T Consensus 208 Rn--yqI~~~ed------------------------~~L~EiGPRfvl~~ikif~gsFgG~---~lYenp~yvspn 254 (299)
T KOG2971|consen 208 RN--YQISEEED------------------------KTLIEIGPRFVLNVIKIFEGSFGGP---TLYENPKYVSPN 254 (299)
T ss_pred EE--eEeccccC------------------------cceeeeccHHHHhHHHHHhccCCCc---eeecCccccCHH
Confidence 99 67752221 3899999999999999999999755 455555554443
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=4.7e-41 Score=290.55 Aligned_cols=179 Identities=38% Similarity=0.560 Sum_probs=80.6
Q ss_pred EEecCCCCchHHHHHHHHHhcC-CCcEEcccccc-cHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEEEEE
Q 024165 46 PVYMLFILQRGPAFISELLSVI-PNSHYYKRGTY-DLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKL 123 (271)
Q Consensus 46 IttSr~ps~~~r~f~kdL~~l~-Pns~~~~R~k~-~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~F~I 123 (271)
||||++||+++++|++||+.++ ||+.+.+|++. +++|++++|..++|++++++++++++|++|||+++|+|||++|+|
T Consensus 1 i~ts~~~s~~~~~l~~DL~~l~~p~s~~~~r~~~~~l~~~~~~~~~~~~~~l~~~~~~~k~p~~L~i~r~~~gptl~f~I 80 (191)
T PF04427_consen 1 ITTSRKPSKRLRQLMKDLRSLFPPNSKKLNRKKKNSLKDLLEFAKQKNCTSLFVFGEHKKNPNNLWIGRLPNGPTLEFSI 80 (191)
T ss_dssp -EESSS--HHHHHHHHHHHTTS-TTEEE---TT---HHHHHHHHHHTTEEEEEEEEEETTEEEEEEEEE-SS--EEEEEE
T ss_pred cCCCCCCCHHHHHHHHHHHHHcCCCeEEEeCCCCCchHHHHHHHHHCCCCEEEEEEEeCCCcceEEEEecCCCCCEEEEE
Confidence 7999999999999999999999 99999999977 999999999999999999999999999999999999999999999
Q ss_pred eceeehhhhccCCC-CCCCCceEEccCCCCch---hHHHHHHhhhhCCCC-----CCCCCCeEEEEEecCCe-EEEEeee
Q 024165 124 SKLVLRKDIKNHGN-PTGHIPELVLNNFATRL---GHRVGRLIQSLFPQS-----PEFRGRRVVTFHNQRDF-IFFRHHR 193 (271)
Q Consensus 124 ~n~~l~kdi~~~~~-~~~~~P~LI~nnF~t~~---g~~i~~~l~~lFp~~-----p~~~~rRVv~F~~~~d~-I~fRhy~ 193 (271)
.||.+++|+++... ..+++|+|||+||.++. +++++++|++|||.. +...++||++|++++|. ||||||
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~P~lif~g~~~~~~~~~~~ik~~l~~lF~~~~~~~~~~~~~~rvi~f~~~~d~~I~fR~Y- 159 (191)
T PF04427_consen 81 ENYKLMKDIKSSSKRPKGSRPLLIFNGFFFELDPELKLIKELLQDLFPGPNVDSIPLPGIDRVISFSNQRDFVIFFRHY- 159 (191)
T ss_dssp EEEE-HHHHT-------S---EEEEE------------------------------------------------------
T ss_pred EeEEEhhHhcccccCCCCCCeEEEEEecccccccccccccccccccccccccccccccccccccccccccccccccccc-
Confidence 99999999987543 34788999999998765 899999999999984 12468999999999898 999995
Q ss_pred eEEEeccCCCCCCCCccccchhhhccccccceeeeEeeeceeEEEEEEe
Q 024165 194 YIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSL 242 (271)
Q Consensus 194 Y~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~L~EIGPRftLkL~kI 242 (271)
. ..++.+. ..+-..+|+|+||||||||+|++|
T Consensus 160 i--~~~~~~~---------------~~~~~~~v~L~EiGPr~~l~l~kI 191 (191)
T PF04427_consen 160 I--FKSGSKN---------------PKKLLPRVELVEIGPRFTLKLRKI 191 (191)
T ss_dssp -------------------------------------------------
T ss_pred c--ccccccc---------------ccccccccccccccccccccccCC
Confidence 2 2111100 000012479999999999999987
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=4.6e-37 Score=262.06 Aligned_cols=170 Identities=43% Similarity=0.658 Sum_probs=147.2
Q ss_pred EEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEec--CCCCCeEEEEecCCCceEEEE
Q 024165 45 LPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTN--RREPDALLIIGLPDGPTAHFK 122 (271)
Q Consensus 45 lIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~--k~~p~~L~I~~lP~GPT~~F~ 122 (271)
||||||+||+++++|++||+.++|++.+.+|+++.++++.++|...+.++.+++.|. +|+|.+|||+++|+|||++|.
T Consensus 1 lit~sr~~s~~~r~~~~dL~~~~~~~~~~~r~~~~~~~~~e~~~~~~~~~~i~v~e~~~k~~p~~L~i~~~~~gp~l~f~ 80 (180)
T smart00879 1 LITTSRKPSKRTRQLAKDLRRLFPPSTKINRGKNKLNELLEFASEKGNTDLLVVFESSSKGRPLNLTIYRLPNGPTLDFK 80 (180)
T ss_pred CEEcCCCCCHHHHHHHHHHHHHCCCcEeecccCccHHHHHHHHHHcCCccEEEEecccCCCCCceEEEEECCCCCcEEEE
Confidence 689999999999999999999999999999999999999999998855555555555 788999999999999999999
Q ss_pred Eeceeehhhhcc--CCCC-CCCCceEEccCCCCchhHHHHHHhhhhCCCCCCC-----CCCeEEEEEecCCeEEEEeeee
Q 024165 123 LSKLVLRKDIKN--HGNP-TGHIPELVLNNFATRLGHRVGRLIQSLFPQSPEF-----RGRRVVTFHNQRDFIFFRHHRY 194 (271)
Q Consensus 123 I~n~~l~kdi~~--~~~~-~~~~P~LI~nnF~t~~g~~i~~~l~~lFp~~p~~-----~~rRVv~F~~~~d~I~fRhy~Y 194 (271)
+.++.+.+|+.. .+++ .+++|+|||+||.++.+++++++|+.|||..+.. ..+||++|++++|.||||||+|
T Consensus 81 i~~v~~~~~~~~~~~~~~~~~~~P~li~~~~~~~~~~~~k~~l~~~F~~~~~~~~~~~~~~rvi~f~~~~~~I~~R~y~i 160 (180)
T smart00879 81 ILNVSLRKELKGFKTGNCLTGSRPLLIFNNFFTELGKLIKELFQDLFPGPPEHKKSLPGLRRVVTFSNQDDYIFFRHYRI 160 (180)
T ss_pred EECcccHhhhhhhhcCCCcCCCccEEEECCCCCchHHHHHHHHHHHCCCCCccccccCCCCEEEEEEecCCEEEEEEEEE
Confidence 999999999987 3443 6789999999999999999999999999985432 5799999999999999999776
Q ss_pred EEEeccCCCCCCCCccccchhhhccccccceeeeEeeeceeEE
Q 024165 195 IFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTL 237 (271)
Q Consensus 195 ~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~L~EIGPRftL 237 (271)
.+.... .+++|+||||||+|
T Consensus 161 ~~~~~~-----------------------~~v~l~eiGPr~~l 180 (180)
T smart00879 161 KFGKKK-----------------------PRVELQEIGPRFTL 180 (180)
T ss_pred EccCCC-----------------------CceEEEEecCCccC
Confidence 541111 13699999999986
No 7
>COG5154 BRX1 RNA-binding protein required for 60S ribosomal subunit biogenesis [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.9e-37 Score=267.66 Aligned_cols=192 Identities=19% Similarity=0.304 Sum_probs=167.4
Q ss_pred CCCeEEEEecCCCCchHHHHHHHHHhcCCCcEEcccc--cccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCc
Q 024165 40 HFLYCLPVYMLFILQRGPAFISELLSVIPNSHYYKRG--TYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGP 117 (271)
Q Consensus 40 ~~pkilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~--k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GP 117 (271)
..++++|++||++|.++|||++||..++||+++..+. +..+.+|.++|..++|+++++|+.++....+||+++.|+||
T Consensus 29 ~kq~~lilSsRGvsyr~RHL~~Dls~l~phskke~KlD~kk~l~qLnelaelynCnn~lFFesrkr~Dlyl~~ar~pnGp 108 (283)
T COG5154 29 PKQTSLILSSRGVSYRIRHLMKDLSRLVPHSKKEQKLDMKKNLGQLNELAELYNCNNMLFFESRKRSDLYLMGARIPNGP 108 (283)
T ss_pred ccceEEEEecCCchHHHHHHHHHHHHhCcccccccccchhhhHHHHHHHHHHhcCCceEEEeecccccceeeeccCCCCC
Confidence 3589999999999999999999999999999888774 67899999999999999999999999999999999999999
Q ss_pred eEEEEEeceeehhhhccCCCCC-CCCceEEcc-CCCC-chhHHHHHHhhhhCCCCCC-----CCCCeEEEEEecCCeEEE
Q 024165 118 TAHFKLSKLVLRKDIKNHGNPT-GHIPELVLN-NFAT-RLGHRVGRLIQSLFPQSPE-----FRGRRVVTFHNQRDFIFF 189 (271)
Q Consensus 118 T~~F~I~n~~l~kdi~~~~~~~-~~~P~LI~n-nF~t-~~g~~i~~~l~~lFp~~p~-----~~~rRVv~F~~~~d~I~f 189 (271)
|++|+++|.++|+|+...||+. +++|.|.|+ .|++ ++.+.+++++++.|...+. ...++|++|+..+|.||+
T Consensus 109 tvkF~~~NlhTMdelNftgN~lKgsrpvLsFdk~Fe~~pHlk~~Kell~h~F~ip~~arrSkpfiD~v~~f~i~DgkIWv 188 (283)
T COG5154 109 TVKFRMHNLHTMDELNFTGNSLKGSRPVLSFDKEFEDIPHLKYAKELLEHIFGIPKGARRSKPFIDKVLCFFILDGKIWV 188 (283)
T ss_pred eEEEEEeccchHhhcCCccccccCCcceEeeccccccchHHHHHHHHHHHhccCCCcccccccchhheEEEEEecCeEEE
Confidence 9999999999999999999985 689999998 5985 6779999999999976322 246899999999999999
Q ss_pred EeeeeEEEeccCCCCCCCCccccchhhhccccccceeeeEeeeceeEEEEEEeecccCCCCcc
Q 024165 190 RHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTFDTKGG 252 (271)
Q Consensus 190 Rhy~Y~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~L~EIGPRftLkL~kI~~G~~~~~~~ 252 (271)
|+ |.|...... +.+ .|+|.||||||+|.+++|.+|+|+|...
T Consensus 189 R~--YeI~re~ed-----------------~~~--dv~L~EIGPRfVmtvi~iLEgsFgGp~i 230 (283)
T COG5154 189 RC--YEIGRENED-----------------KSK--DVKLEEIGPRFVMTVIKILEGSFGGPAI 230 (283)
T ss_pred EE--Eeecccccc-----------------ccc--cceeeeeccHHHHHHHHHHHhccCCcee
Confidence 99 677421110 011 2699999999999999999999986544
No 8
>COG2136 IMP4 Predicted exosome subunit/U3 small nucleolar ribonucleoprotein (snoRNP) component, contains IMP4 domain [Translation, ribosomal structure and biogenesis / RNA processing and modification]
Probab=100.00 E-value=1.4e-32 Score=238.42 Aligned_cols=181 Identities=34% Similarity=0.494 Sum_probs=170.5
Q ss_pred CeEEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEec-CCCceEE
Q 024165 42 LYCLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGL-PDGPTAH 120 (271)
Q Consensus 42 pkilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~l-P~GPT~~ 120 (271)
||+||||||+||+++|+|++||..++||+.+..||+.++.++.+.|...|.+++++++|.+|+|..|.++++ |.||++.
T Consensus 2 ~~~liTTSRkPS~Rtr~Fak~L~~~lp~~~~~~rg~~~~~el~~~a~~~g~~~l~iv~E~rGnP~~L~f~d~~~~~~~~~ 81 (191)
T COG2136 2 PKMLLTTSRKPSRRTRSFAKDLSRVLPNAYFLRRGKKSIIELSEEAIARGATDLLIVGERRGNPARLTFYDLEPEGLTFS 81 (191)
T ss_pred CcEEEEecCCccHHHHHHHHHHHHhCCcceEEecCccchhHHHHHHHhcCCceEEEEEEecCCCcEEEEEEecCCCceEE
Confidence 899999999999999999999999999999999999999999999999999999999999999999999999 9999999
Q ss_pred EEEeceeehhhhccCCC-CCCCCceEEccCCCCchh-HHHHHHhhhh----CCCCCCCCCCeEEEEEecCCeEEEEeeee
Q 024165 121 FKLSKLVLRKDIKNHGN-PTGHIPELVLNNFATRLG-HRVGRLIQSL----FPQSPEFRGRRVVTFHNQRDFIFFRHHRY 194 (271)
Q Consensus 121 F~I~n~~l~kdi~~~~~-~~~~~P~LI~nnF~t~~g-~~i~~~l~~l----Fp~~p~~~~rRVv~F~~~~d~I~fRhy~Y 194 (271)
|++.|+.+.+++...+. ...+.|++|++||++..+ +.+.++++.+ |++.+......|+.+.++++++.+|+|.|
T Consensus 82 f~l~~v~l~re~~~~~~~~~~~~~~~I~~~~~~~~g~~~~~~~~~~~~~~~f~~~~~~~~~~v~~~~~~~~f~~~~~~~~ 161 (191)
T COG2136 82 FKLSGVKLRREIPVLGPKSRLHGPELIFNNFTTLLGFLKVAEAFSELLLVKFVPNPAWEHELVATGANKGDFKSLRRHRR 161 (191)
T ss_pred EEEecceEEEeccccCCcccCCCCceeeecccccccchhhHHHHHhhcccccccCcccceeeeeeccccceEEEEEeeee
Confidence 99999999999999887 567899999999999988 8999999999 88877767899999999999999999999
Q ss_pred EEEeccCCCCCCCCccccchhhhccccccceeeeEeeeceeEEEEEEeecccC
Q 024165 195 IFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTF 247 (271)
Q Consensus 195 ~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~L~EIGPRftLkL~kI~~G~~ 247 (271)
.+... .++++|+||||+|++..+++|..
T Consensus 162 ~~~~~-------------------------~~~~~~vgp~~~~r~~~~~~g~~ 189 (191)
T COG2136 162 VFEED-------------------------GIGLEEVGPRLTLRLWRMEDGRG 189 (191)
T ss_pred Eeeee-------------------------eeeEEEeCceeeeehhhhhhccc
Confidence 98642 25899999999999999999954
No 9
>PRK03972 ribosomal biogenesis protein; Validated
Probab=99.94 E-value=8.7e-26 Score=197.33 Aligned_cols=125 Identities=18% Similarity=0.279 Sum_probs=114.9
Q ss_pred EEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCC---CceEE
Q 024165 44 CLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPD---GPTAH 120 (271)
Q Consensus 44 ilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~---GPT~~ 120 (271)
+|||||++||+++++|++||..+|||+.+.+||+.+++|+++.|..+|+|++|+++|++|+|+.|.|+|+|. |||++
T Consensus 2 iLITTSr~PS~rtr~F~keL~~v~Pns~~i~RGk~~lkel~~~A~~~g~TdLIVV~E~rg~P~~L~i~hLP~gP~GPTa~ 81 (208)
T PRK03972 2 MLITTSHRPTRRTRSFGHDLERVFPNSLYLTRGKKTIQDLLMEAYDRGYERLLIINVWKGNPLKMTFIKVGPEDWGYLGY 81 (208)
T ss_pred EEEECCCCccHHHHHHHHHHHHhCCCCEEEecCCccHHHHHHHHHHCCCCeEEEEecCCCcCCeEEEEcCCCCCCCceEE
Confidence 799999999999999999999999999999999999999999999999999999999999999999999985 55999
Q ss_pred EEEeceeehhhh--ccCCCCCCCCceEEccCCCCchhH-HHHHHhhhhCCC
Q 024165 121 FKLSKLVLRKDI--KNHGNPTGHIPELVLNNFATRLGH-RVGRLIQSLFPQ 168 (271)
Q Consensus 121 F~I~n~~l~kdi--~~~~~~~~~~P~LI~nnF~t~~g~-~i~~~l~~lFp~ 168 (271)
|+|+|+.+.+|| +..+.++.+.|++|.++|.+..+. ..+..+.+.+..
T Consensus 82 FkLsnV~l~~ei~~~~~~~~s~~~p~iItts~kt~~g~~~~Ak~lA~eLgi 132 (208)
T PRK03972 82 LYLHGIKLQREMGFRNLRPIREDMPLVITTAKRVGLDHMAFAQVFAELTGG 132 (208)
T ss_pred EEEccEEEHHHcccCCCCCccccccEEEEcCCCCCHHHHHHHHHHHHHhCC
Confidence 999999999999 457888899999999999998874 556666666665
No 10
>KOG3031 consensus Protein required for biogenesis of the ribosomal 60S subunit [Translation, ribosomal structure and biogenesis]
Probab=99.40 E-value=1.8e-12 Score=117.03 Aligned_cols=179 Identities=16% Similarity=0.218 Sum_probs=143.2
Q ss_pred cCCCCchHHHHHHHHHhcC-CCcEEccccccc-----HHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCce---E
Q 024165 49 MLFILQRGPAFISELLSVI-PNSHYYKRGTYD-----LKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPT---A 119 (271)
Q Consensus 49 Sr~ps~~~r~f~kdL~~l~-Pns~~~~R~k~~-----lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT---~ 119 (271)
....+..+..-+.||..+= |.+...+|+++. -..+..+...++|+-+++.+.+++.|.+|.+++.-++-. +
T Consensus 35 g~~~~~tl~~vm~dl~alKKp~~i~~~rkN~i~pFEd~ssleffseK~D~slfv~gs~sKKrp~nLv~gR~fd~~vlDMi 114 (307)
T KOG3031|consen 35 GMKTNKTLLDVMKDLYALKKPLEIRYNRKNNIHPFEDPSSLEFFSEKNDCSLFVLGSHSKKRPNNLVIGRTFDYEVLDMI 114 (307)
T ss_pred chhhchHHHHHHHHHHHhccCceeeeccCCCcccCCCCchHHHHhhhhhhhhhhhccccccCCCceEEEEecCchhhHHH
Confidence 4455678889999999984 999988887532 356788899999999999999999999999999988764 7
Q ss_pred EEEEeceeehhhhccCCCCCCCCceEEccC--CCC-chhHHHHHHhhhhCCCCCC----C-CCCeEEEEEecCCe-EEEE
Q 024165 120 HFKLSKLVLRKDIKNHGNPTGHIPELVLNN--FAT-RLGHRVGRLIQSLFPQSPE----F-RGRRVVTFHNQRDF-IFFR 190 (271)
Q Consensus 120 ~F~I~n~~l~kdi~~~~~~~~~~P~LI~nn--F~t-~~g~~i~~~l~~lFp~~p~----~-~~rRVv~F~~~~d~-I~fR 190 (271)
.+.|.||...+|....+-..+..|.|+|+| |.+ +..++++++|...|...+. . .-++|+.|+..++. |+||
T Consensus 115 ElgI~~ykslsdF~~~k~~~gtKP~l~f~G~~f~~~~~~krlknL~vDfFrge~vd~v~l~Gl~~v~vfta~~~~~v~~r 194 (307)
T KOG3031|consen 115 ELGIENYKSLSDFKAAKITEGTKPMLIFQGAVFDQHPEYKRLKNLFVDFFRGEKVDKVRLAGLEYVIVFTATEETNVLFR 194 (307)
T ss_pred HHhhhhhhhhhhhhccCCCCCCCceEEEecchhccChHHHHHHHHHHHHHcCCcccceeeccccEEEEEEeecCceeeee
Confidence 899999999999988765568999999997 554 4568999999999997322 2 35899999976554 9999
Q ss_pred eeeeEEEeccCCCCCCCCccccchhhhccccccceeeeEeeeceeEEEEEEeecccC
Q 024165 191 HHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTF 247 (271)
Q Consensus 191 hy~Y~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~L~EIGPRftLkL~kI~~G~~ 247 (271)
||+......+ +...++.|.|+||+++|++.++.--.-
T Consensus 195 ~Y~lklkKs~--------------------~~~PRiELeE~GPsldf~irR~~~asd 231 (307)
T KOG3031|consen 195 VYRLKLKKSG--------------------TRTPRIELEEMGPSLDFEIRRTKLASD 231 (307)
T ss_pred eeeeeeeecc--------------------CCCCceehhhcCCceeEEEEeccCCCH
Confidence 9665443222 233568999999999999999876443
No 11
>PRK00933 ribosomal biogenesis protein; Validated
Probab=99.23 E-value=2.3e-10 Score=97.63 Aligned_cols=112 Identities=17% Similarity=0.302 Sum_probs=84.0
Q ss_pred EEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEEEEE
Q 024165 44 CLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFKL 123 (271)
Q Consensus 44 ilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~F~I 123 (271)
++||||++||.++++|+++|...+ |+.+.+|++.+++++++.|.. .++++++|++|+|+.|.|+..-..+.+.+.|
T Consensus 1 mIITTSrkPs~~t~~fAkeLa~~l-n~~yv~Rgk~Sl~eL~~~~~~---~~llVV~E~kg~P~~L~iyd~~~~~~~~~~~ 76 (165)
T PRK00933 1 MIITTSRKPSQRTRSLVKDLARFL-NCKYVNRGKMSLQELLEECEA---RYLLIIGEYKGNPGALKFYDVEGNKLLSYRL 76 (165)
T ss_pred CEEECCCCCCHHHHHHHHHHHHHh-CCEEEccCCccHHHHHHHhcc---CcEEEEECCCCCCceEEEEECCCCEEEEEEE
Confidence 489999999999999999999999 999999999999999877664 4999999999999999999988777776655
Q ss_pred eceeehhhhccCCCCCCCCceEEccCCCCchhHHHHHHhhh
Q 024165 124 SKLVLRKDIKNHGNPTGHIPELVLNNFATRLGHRVGRLIQS 164 (271)
Q Consensus 124 ~n~~l~kdi~~~~~~~~~~P~LI~nnF~t~~g~~i~~~l~~ 164 (271)
++.+.++.... ......|.+. ++.. .+..++++|..
T Consensus 77 -~v~~~~~~~~~-~~~~~~p~~~--~~~~-~~~~~~e~f~~ 112 (165)
T PRK00933 77 -SVKLQREISGP-VFKNRRPIKS--AFDV-GGDELAELFDY 112 (165)
T ss_pred -EeeeecccCcc-eeecCCCccc--chhh-HHHHHHHHHHH
Confidence 35665555431 2234445332 2221 14455555554
No 12
>COG5106 RPF2 Uncharacterized conserved protein [Function unknown]
Probab=98.13 E-value=4.8e-06 Score=74.46 Aligned_cols=174 Identities=17% Similarity=0.223 Sum_probs=125.4
Q ss_pred chHHHHHHHHHhc-CCCcEEccccccc-----HHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCc---eEEEEEe
Q 024165 54 QRGPAFISELLSV-IPNSHYYKRGTYD-----LKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGP---TAHFKLS 124 (271)
Q Consensus 54 ~~~r~f~kdL~~l-~Pns~~~~R~k~~-----lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GP---T~~F~I~ 124 (271)
+.+...+=|+..+ .|....+.|++.- ..-+--+.+.++|+-.++++..++.+..|.+++.-+-- .+.|.|.
T Consensus 40 k~lldvi~d~~alkkp~~i~f~rkn~ihpfEd~SplEffseknd~~l~vl~ts~kKr~hnlt~~R~Fny~~~DMiEl~i~ 119 (316)
T COG5106 40 KTLLDVICDTEALKKPKEIGFIRKNTIHPFEDTSPLEFFSEKNDKKLSVLFTSVKKRRHNLTIGRAFNYELIDMIELKIN 119 (316)
T ss_pred hhhhhhhcchhhhccchhhccccCCcccccccCCHHHHHHHhhhhhhhhhhhhccccccceeEEeecchHHHHHHHHhhh
Confidence 3456666677666 3777777776422 23456677889999999999999989889998876543 3678899
Q ss_pred ceeehhhhccCCCCCCCCceEEccC--CCC-chhHHHHHHhhhhCCCCCC--C---CCCeEEEEEec----CCe----EE
Q 024165 125 KLVLRKDIKNHGNPTGHIPELVLNN--FAT-RLGHRVGRLIQSLFPQSPE--F---RGRRVVTFHNQ----RDF----IF 188 (271)
Q Consensus 125 n~~l~kdi~~~~~~~~~~P~LI~nn--F~t-~~g~~i~~~l~~lFp~~p~--~---~~rRVv~F~~~----~d~----I~ 188 (271)
+|....|....+...+..|.++|.| |++ |.-++|+.+|-..|...+. . .-..|++-+.+ +.+ +.
T Consensus 120 ~yksvsdF~~~~~~~g~Kpmv~fQg~~fd~hp~yr~iksLflDFFrges~~~ldsagls~Vi~~t~~g~~~d~~plp~v~ 199 (316)
T COG5106 120 RYKSVSDFECAGPELGMKPMVVFQGINFDAHPTYRRIKSLFLDFFRGESSKVLDSAGLSWVIARTEEGYVLDTYPLPLVV 199 (316)
T ss_pred hhhehhhhhccCCccCCceEEEEeccccccchHHHHHHHHHHHHHcCCchhhhhhcceeEEEEEecchhhhcccccccee
Confidence 9999999988777778899999975 874 5669999999999997542 1 22577777743 222 57
Q ss_pred EEeeeeEEEeccCCCCCCCCccccchhhhccccccceeeeEeeeceeEEEEEEeecccC
Q 024165 189 FRHHRYIFETKESKGSDANGKKAKDAKSEKTSQQKVITRLQECGPRFTLKLVSLQHGTF 247 (271)
Q Consensus 189 fRhy~Y~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~v~L~EIGPRftLkL~kI~~G~~ 247 (271)
||-| ....-..+ +.-.++.|.|+|||+.+++.++.--+-
T Consensus 200 fRVy--k~k~~kt~------------------~~lpr~elee~GPrldf~i~R~~~~s~ 238 (316)
T COG5106 200 FRVY--KTKLLKTK------------------TNLPRLELEECGPRLDFEIVRSYHCSD 238 (316)
T ss_pred eeee--eccccccc------------------CCCCceehhhcccceeeEEEeecCCCh
Confidence 8884 32211111 123467999999999999999986444
No 13
>PRK03972 ribosomal biogenesis protein; Validated
Probab=94.82 E-value=0.21 Score=44.37 Aligned_cols=78 Identities=19% Similarity=0.192 Sum_probs=58.4
Q ss_pred CCeEEEEecCCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEec------C
Q 024165 41 FLYCLPVYMLFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGL------P 114 (271)
Q Consensus 41 ~pkilIttSr~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~l------P 114 (271)
.| .+|||+.+++...+..++.+...+ +..+.+|++.++.++. ...+...++++..+-.+ ..+.++++ |
T Consensus 105 ~p-~iItts~kt~~g~~~~Ak~lA~eL-gi~yV~R~k~Sl~~L~---~~~~~d~vLVV~~~~~~-~~~~~~~~~~~~~~~ 178 (208)
T PRK03972 105 MP-LVITTAKRVGLDHMAFAQVFAELT-GGKFVPRGGKSLQDIA---DKYNTDVLGVIERHPRG-MAVNFYRLDVTKERP 178 (208)
T ss_pred cc-EEEEcCCCCCHHHHHHHHHHHHHh-CCceeCcCCcCHHHHH---hhhcCceEEEEecCCCc-eEEEEEEeccccccc
Confidence 44 589999999998888899987765 7778899999998776 44567888888665433 24666664 6
Q ss_pred CCceEEEEEe
Q 024165 115 DGPTAHFKLS 124 (271)
Q Consensus 115 ~GPT~~F~I~ 124 (271)
-||.+..++-
T Consensus 179 ~~~~~~~~~~ 188 (208)
T PRK03972 179 VGPLIFVKIW 188 (208)
T ss_pred cCCcEEEEEE
Confidence 7999887764
No 14
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=59.87 E-value=46 Score=24.04 Aligned_cols=77 Identities=16% Similarity=0.063 Sum_probs=50.5
Q ss_pred eEEEEecC-CCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEE
Q 024165 43 YCLPVYML-FILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 120 (271)
Q Consensus 43 kilIttSr-~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~ 120 (271)
.++|+... ..-.....+++.|++.==.+....+ ..++..-...|...|+..++++.+..-....+.+..+..|-...
T Consensus 3 ~v~ii~~~~~~~~~a~~~~~~Lr~~g~~v~~d~~-~~~~~~~~~~a~~~g~~~~iiig~~e~~~~~v~lk~~~~~~~~~ 80 (91)
T cd00860 3 QVVVIPVTDEHLDYAKEVAKKLSDAGIRVEVDLR-NEKLGKKIREAQLQKIPYILVVGDKEVETGTVSVRTRDGGDLGS 80 (91)
T ss_pred EEEEEeeCchHHHHHHHHHHHHHHCCCEEEEECC-CCCHHHHHHHHHHcCCCEEEEECcchhhCCEEEEEECCCCccce
Confidence 34555443 3334667788888774112222234 46899999999999999999999775444467777777664433
No 15
>PF05508 Ran-binding: RanGTP-binding protein; InterPro: IPR008812 The small Ras-like GTPase Ran plays an essential role in the transport of macromolecules in and out of the nucleus and has been implicated in spindle and nuclear envelope formation during mitosis in higher eukaryotes. The Saccharomyces cerevisiae ORF YGL164c encoding a novel RanGTP-binding protein, termed Yrb30p was identified. The protein competes with S. cerevisiae RanBP1 (Yrb1p) for binding to the GTP-bound form of S. cerevisiae Ran (Gsp1p) and is, like Yrb1p, able to form trimeric complexes with RanGTP and some of the karyopherins [].
Probab=59.32 E-value=4.8 Score=37.73 Aligned_cols=40 Identities=33% Similarity=0.339 Sum_probs=30.5
Q ss_pred eEeeeceeEEEEEEeecccCCCC--cceEEEEeCCCCCcccc
Q 024165 228 LQECGPRFTLKLVSLQHGTFDTK--GGEFEWVHKPEMDTSRR 267 (271)
Q Consensus 228 L~EIGPRftLkL~kI~~G~~~~~--~~~~~~~~k~~~~~~r~ 267 (271)
-.-|||-|+|.+|.++.|--..+ .+...+.||-.|-.+|-
T Consensus 186 ~~qvGP~F~lslY~lF~~~sr~~~~~~~~~~tWKE~~~ka~v 227 (302)
T PF05508_consen 186 PVQVGPTFTLSLYMLFYGHSRPKYEEGLRKITWKEVMHKARV 227 (302)
T ss_pred ccccCCcEEEEeeheecccccccccccccCcceeeeccceEE
Confidence 35699999999999999987664 46667777776666553
No 16
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=49.96 E-value=50 Score=24.18 Aligned_cols=67 Identities=13% Similarity=-0.011 Sum_probs=44.0
Q ss_pred hHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEEEE
Q 024165 55 RGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFK 122 (271)
Q Consensus 55 ~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~F~ 122 (271)
....++..|++-==.+....+ ..+++.-+..|...|+..++++.+..-....+.+-.+-.|-.....
T Consensus 19 ~a~~la~~Lr~~g~~v~~d~~-~~~l~k~i~~a~~~g~~~~iiiG~~e~~~~~v~vk~~~~~~~~~~~ 85 (94)
T cd00861 19 LAEKLYAELQAAGVDVLLDDR-NERPGVKFADADLIGIPYRIVVGKKSAAEGIVEIKVRKTGEKEEIS 85 (94)
T ss_pred HHHHHHHHHHHCCCEEEEECC-CCCcccchhHHHhcCCCEEEEECCchhhCCEEEEEECCCCcceEEe
Confidence 455666666653111222233 3488888999999999999999977543446778777777554443
No 17
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=45.64 E-value=1.1e+02 Score=24.07 Aligned_cols=77 Identities=9% Similarity=0.010 Sum_probs=50.7
Q ss_pred CeEEEEecC--C-CCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCce
Q 024165 42 LYCLPVYML--F-ILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPT 118 (271)
Q Consensus 42 pkilIttSr--~-ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT 118 (271)
+.++|+... . ......+++..||+- .......-. .+++.-...|...|+..++++.+..-....+.+..+..|-.
T Consensus 27 ~~v~Ii~~~~~~~~~~~a~~la~~LR~~-gi~v~~d~~-~sl~kqlk~A~k~g~~~~iiiG~~e~~~~~v~lk~l~~~~~ 104 (121)
T cd00858 27 IKVAVLPLVKRDELVEIAKEISEELREL-GFSVKYDDS-GSIGRRYARQDEIGTPFCVTVDFDTLEDGTVTIRERDSMRQ 104 (121)
T ss_pred cEEEEEecCCcHHHHHHHHHHHHHHHHC-CCEEEEeCC-CCHHHHHHHhHhcCCCEEEEECcCchhCCEEEEEECCCCce
Confidence 456666544 2 223556777777763 112222223 68999999999999999999998754445677877777654
Q ss_pred EE
Q 024165 119 AH 120 (271)
Q Consensus 119 ~~ 120 (271)
..
T Consensus 105 ~~ 106 (121)
T cd00858 105 VR 106 (121)
T ss_pred EE
Confidence 43
No 18
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=40.53 E-value=94 Score=22.81 Aligned_cols=82 Identities=16% Similarity=0.137 Sum_probs=55.3
Q ss_pred EEEEecCCCCchHHHHHHHHHhcCC-Cc--EEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEE
Q 024165 44 CLPVYMLFILQRGPAFISELLSVIP-NS--HYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAH 120 (271)
Q Consensus 44 ilIttSr~ps~~~r~f~kdL~~l~P-ns--~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~ 120 (271)
|.|+.-..-+.....++.++.+.+. +. ....-...++..=+..|...|+..++++.+..-....+.+-.+-.|-...
T Consensus 2 v~Ii~~~~~~~~~~~~a~~l~~~L~~~gi~v~~d~~~~~~~k~~~~a~~~g~p~~iiiG~~e~~~~~v~vk~~~~~~~~~ 81 (94)
T PF03129_consen 2 VVIIPVGKKDEEIIEYAQELANKLRKAGIRVELDDSDKSLGKQIKYADKLGIPFIIIIGEKELENGTVTVKDRDTGEQET 81 (94)
T ss_dssp EEEEESSCSHHHHHHHHHHHHHHHHHTTSEEEEESSSSTHHHHHHHHHHTTESEEEEEEHHHHHTTEEEEEETTTTEEEE
T ss_pred EEEEEeCCCcHHHHHHHHHHHHHHHHCCCEEEEECCCCchhHHHHHHhhcCCeEEEEECchhHhCCEEEEEECCCCcEEE
Confidence 3444433324456667777766662 22 22333778888999999999999999999765434568888888886666
Q ss_pred EEEec
Q 024165 121 FKLSK 125 (271)
Q Consensus 121 F~I~n 125 (271)
..+.+
T Consensus 82 v~~~e 86 (94)
T PF03129_consen 82 VSLEE 86 (94)
T ss_dssp EECCH
T ss_pred EEHHH
Confidence 65554
No 19
>PF12745 HGTP_anticodon2: Anticodon binding domain of tRNAs; InterPro: IPR024435 This is an anticodon binding domain, found largely on Gcn2 proteins which bind tRNA to down regulate translation in certain stress situations [].; GO: 0000049 tRNA binding
Probab=37.36 E-value=2.6e+02 Score=25.78 Aligned_cols=78 Identities=10% Similarity=0.097 Sum_probs=46.1
Q ss_pred CCCeEEEEecCCCCchH--HHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecC-----C-CCCeEEEE
Q 024165 40 HFLYCLPVYMLFILQRG--PAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNR-----R-EPDALLII 111 (271)
Q Consensus 40 ~~pkilIttSr~ps~~~--r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k-----~-~p~~L~I~ 111 (271)
++..|||++-....-++ .+++.+|=.-==.+........++.|+.+.|...|++++|++.+.. + .-..|+|-
T Consensus 4 ~RCDVLV~S~~~~~L~~~~~~iv~~LW~~gIsAd~~~~~~~S~Eel~~~~~~~gi~wiViikq~~~~~~~~~~~k~lKVK 83 (273)
T PF12745_consen 4 SRCDVLVCSFGPSSLRTEGIEIVQELWAAGISADLMYDASPSQEELQSYCREDGISWIVIIKQKEKSSSSKSKYKPLKVK 83 (273)
T ss_pred CcceEEEEeCChhHHHHHHHHHHHHHHHCCCceEeccccCCCHHHHHHHHHHCCCCEEEEEecccccccCCCccCceEEe
Confidence 45678885544433212 3334444221011233345667999999999999999999999853 1 11126666
Q ss_pred ecCCCc
Q 024165 112 GLPDGP 117 (271)
Q Consensus 112 ~lP~GP 117 (271)
++-.+-
T Consensus 84 ~l~~~~ 89 (273)
T PF12745_consen 84 SLEKKK 89 (273)
T ss_pred ccCCCc
Confidence 665554
No 20
>cd02974 AhpF_NTD_N Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction of hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD forming two contiguous TRX-fold subdomain similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The N-terminal TRX-fold subdomain of AhpF NTD is redox inactive, but is proposed to contain an important residue that aids in the catalytic function of the redox-active CXXC motif contained in the C-terminal TRX-
Probab=36.27 E-value=2e+02 Score=22.05 Aligned_cols=68 Identities=12% Similarity=0.046 Sum_probs=42.2
Q ss_pred ccCCCCeEEEEec-CCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCC
Q 024165 37 NLWHFLYCLPVYM-LFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPD 115 (271)
Q Consensus 37 ~l~~~pkilIttS-r~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~ 115 (271)
.+.+.-.+.+.+. ...|..+++|++|+..+=|.-......... ....+.+.... +.+.++...+|.
T Consensus 16 ~l~~pV~l~~f~~~~~~~~e~~~ll~e~a~lSdkI~~~~~~~~~-----------~~P~~~i~~~~--~~~gIrF~GiP~ 82 (94)
T cd02974 16 RLENPVELVASLDDSEKSAELLELLEEIASLSDKITLEEDNDDE-----------RKPSFSINRPG--EDTGIRFAGIPM 82 (94)
T ss_pred hCCCCEEEEEEeCCCcchHHHHHHHHHHHHhCCceEEEEecCCC-----------CCCEEEEecCC--CcccEEEEecCC
Confidence 3444444545553 366778999999999987765543332211 24555554332 345699999998
Q ss_pred Cc
Q 024165 116 GP 117 (271)
Q Consensus 116 GP 117 (271)
|.
T Consensus 83 Gh 84 (94)
T cd02974 83 GH 84 (94)
T ss_pred ch
Confidence 85
No 21
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=33.54 E-value=2.1e+02 Score=28.20 Aligned_cols=77 Identities=14% Similarity=0.043 Sum_probs=60.1
Q ss_pred CCCCeEEEEecCCCC-chHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCC
Q 024165 39 WHFLYCLPVYMLFIL-QRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDG 116 (271)
Q Consensus 39 ~~~pkilIttSr~ps-~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~G 116 (271)
...+.++|.+..... .....+++.||+-=+.+.....++. ++.=.+.|...|+..++++.+..-....+.|-++-.|
T Consensus 333 ~~~~~v~v~~~~~~~~~~a~~la~~LR~~g~~~~~~~~~r~-~k~q~k~A~~~g~~~~viiGe~E~~~g~v~vKdl~t~ 410 (429)
T COG0124 333 ETRVDVYVVPLGEDAEPEALKLAQKLRAAGISVEVDYSGRK-LKKQFKYADKLGARFAVILGEDELANGVVTVKDLATG 410 (429)
T ss_pred CCCCCEEEEEcCchhHHHHHHHHHHHHHcCCcEEEEecccc-HHHHHHHHHHCCCCEEEEEcchHHhcCCEEEeeCCCC
Confidence 346888999887765 6889999999997666654433333 8999999999999999999998755556778777777
No 22
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=32.23 E-value=1.8e+02 Score=20.34 Aligned_cols=76 Identities=13% Similarity=0.087 Sum_probs=47.3
Q ss_pred eEEEEecCCCC-chHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceE
Q 024165 43 YCLPVYMLFIL-QRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTA 119 (271)
Q Consensus 43 kilIttSr~ps-~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~ 119 (271)
.++|....... .....++..|++-==...... ...++++....|...|+..++++.+.......+.+..+..|...
T Consensus 3 ~v~i~~~~~~~~~~a~~i~~~Lr~~g~~v~~~~-~~~~~~~~~~~a~~~~~~~~i~i~~~~~~~~~~~i~~~~~~~~~ 79 (91)
T cd00859 3 DVYVVPLGEGALSEALELAEQLRDAGIKAEIDY-GGRKLKKQFKYADRSGARFAVILGEDELAAGVVTVKDLETGEQE 79 (91)
T ss_pred cEEEEEcChHHHHHHHHHHHHHHHCCCEEEEec-CCCCHHHHHHHHHHcCCCEEEEEcHHHHhCCcEEEEECCCCCcE
Confidence 46666544422 356778888887411112212 22468899999999999999999854322234667667666543
No 23
>COG1783 XtmB Phage terminase large subunit [General function prediction only]
Probab=31.70 E-value=1.8e+02 Score=28.59 Aligned_cols=79 Identities=13% Similarity=0.005 Sum_probs=56.4
Q ss_pred Ce-EEEEecCCCCchHHHHHHHHHhcC--CCc-EEccc-----c-cccHHHHHHHHHhCCCcEEEEEEecCCCCCeEEEE
Q 024165 42 LY-CLPVYMLFILQRGPAFISELLSVI--PNS-HYYKR-----G-TYDLKKIIEYAKKKDFTSIIVVHTNRREPDALLII 111 (271)
Q Consensus 42 pk-ilIttSr~ps~~~r~f~kdL~~l~--Pns-~~~~R-----~-k~~lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~ 111 (271)
+| .++..+|+.++.--...+.+.+++ |.+ ...-| . +.+.++|.+.+..+|+++...+.... | -+.
T Consensus 24 qk~~i~~G~rGS~KSy~~alk~i~kl~~~~~~d~lvIR~v~nt~k~St~~~~~e~l~e~gv~~~f~~~~s~--p---e~i 98 (414)
T COG1783 24 QKYFIAKGGRGSSKSYATALKNIEKLLSEPGIDVLVIREVENTHKQSTYALFKEALSELGVTKFFKISKSS--P---EII 98 (414)
T ss_pred heEEEEEccCCCchhHHHHHHHHHHHHcCCCCcEEEEEEeccccchhHHHHHHHHHHHhCccceeEEecCC--h---hhe
Confidence 55 566667777766666677777776 776 33223 2 33478999999999999888886653 3 366
Q ss_pred ecCCCceEEEEEec
Q 024165 112 GLPDGPTAHFKLSK 125 (271)
Q Consensus 112 ~lP~GPT~~F~I~n 125 (271)
+.+.|-.+.|+...
T Consensus 99 ~~~~G~ri~F~G~d 112 (414)
T COG1783 99 LKDTGQRIIFKGLD 112 (414)
T ss_pred ecccCcEEEEecCC
Confidence 88999999988653
No 24
>PF12112 DUF3579: Protein of unknown function (DUF3579); InterPro: IPR021969 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 98 to 126 amino acids in length. This protein has a conserved FRP sequence motif. ; PDB: 2L9D_A.
Probab=25.87 E-value=24 Score=27.36 Aligned_cols=16 Identities=25% Similarity=0.370 Sum_probs=9.1
Q ss_pred hhcceeeeecccchhh
Q 024165 21 LFKNIAVIRQSTWAWD 36 (271)
Q Consensus 21 ~~~~~~~~~~~~~~~~ 36 (271)
+-+.=++|||||||+-
T Consensus 13 iT~~Gk~FRPSDWaER 28 (92)
T PF12112_consen 13 ITSDGKTFRPSDWAER 28 (92)
T ss_dssp EETTS-B-S-TTHHHH
T ss_pred EcCCCCCcCCccHHHH
Confidence 3344467999999983
No 25
>PF15210 SFTA2: Surfactant-associated protein 2
Probab=21.27 E-value=53 Score=23.09 Aligned_cols=9 Identities=56% Similarity=0.929 Sum_probs=7.9
Q ss_pred eceeEEEEE
Q 024165 232 GPRFTLKLV 240 (271)
Q Consensus 232 GPRftLkL~ 240 (271)
||++||+|-
T Consensus 2 GPgmtl~lK 10 (59)
T PF15210_consen 2 GPGMTLQLK 10 (59)
T ss_pred CCceEEEEE
Confidence 899999974
No 26
>cd03026 AhpF_NTD_C TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then reduces hydrogen peroxide and organic hydroperoxides. AhpF contains an NTD containing two contiguous TRX-fold subdomains similar to Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). It also contains a catalytic core similar to TRX reductase containing FAD and NADH binding domains with an active site disulfide. The proposed mechanism of action of AhpF is similar to a TRX/TRX reductase system. The flow of reducing equivalents goes from NADH - catalytic core of AhpF - NTD of AhpF - AhpC - peroxide substrates. The catalytic CXXC motif of the NTD of AhpF is contained in its C-terminal TRX subdomain.
Probab=20.19 E-value=3.2e+02 Score=20.30 Aligned_cols=55 Identities=5% Similarity=-0.147 Sum_probs=34.3
Q ss_pred hccCCCCeEEEEec--CCCCchHHHHHHHHHhcCCCcEEcccccccHHHHHHHHHhCCCc
Q 024165 36 DNLWHFLYCLPVYM--LFILQRGPAFISELLSVIPNSHYYKRGTYDLKKIIEYAKKKDFT 93 (271)
Q Consensus 36 ~~l~~~pkilIttS--r~ps~~~r~f~kdL~~l~Pns~~~~R~k~~lkdl~~~a~~~~~t 93 (271)
+.|...-++.++++ -.+...+.+++.++....|+-....-+ ..+.-+.|..+|+.
T Consensus 8 ~~l~~pv~i~~F~~~~C~~C~~~~~~~~~l~~~~~~i~~~~vd---~~~~~e~a~~~~V~ 64 (89)
T cd03026 8 RRLNGPINFETYVSLSCHNCPDVVQALNLMAVLNPNIEHEMID---GALFQDEVEERGIM 64 (89)
T ss_pred HhcCCCEEEEEEECCCCCCcHHHHHHHHHHHHHCCCceEEEEE---hHhCHHHHHHcCCc
Confidence 35555556666665 456679999999999988875544333 33334455555543
No 27
>KOG3112 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.13 E-value=92 Score=28.05 Aligned_cols=41 Identities=17% Similarity=0.160 Sum_probs=32.3
Q ss_pred HHHHHHHHHhCCCcEEEEEEecCCCCCeEEEEecCCCceEEEE
Q 024165 80 LKKIIEYAKKKDFTSIIVVHTNRREPDALLIIGLPDGPTAHFK 122 (271)
Q Consensus 80 lkdl~~~a~~~~~t~lIi~~e~k~~p~~L~I~~lP~GPT~~F~ 122 (271)
-++++++++..||.++|+++...+ .......+..||..+.-
T Consensus 102 ~e~l~~~~kSSG~~~VIVLSss~~--~~~~~L~~srgP~~Y~l 142 (262)
T KOG3112|consen 102 QEELVELLKSSGARRVIVLSSSFG--FEKRVLEESRGPWAYRL 142 (262)
T ss_pred HHHHHHHHHhcCCceEEEEecchH--HHhhhhhhccCCeeEEc
Confidence 478999999999999999998765 23555577888887643
Done!