Query gi|254780630|ref|YP_003065043.1| ribonuclease PH [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 242
No_of_seqs 107 out of 3928
Neff 9.8
Searched_HMMs 39220
Date Sun May 29 21:15:30 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780630.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00173 rph ribonuclease PH; 100.0 0 0 336.6 19.0 237 1-239 1-237 (237)
2 TIGR02065 ECX1 exosome complex 100.0 0 0 336.1 13.2 220 1-241 8-230 (231)
3 TIGR01966 RNasePH ribonuclease 100.0 0 0 333.2 15.2 237 2-239 1-237 (237)
4 PRK03983 exosome complex exonu 100.0 0 0 313.5 19.2 220 1-241 13-234 (243)
5 PRK04282 exosome complex RNA-b 100.0 0 0 290.9 19.1 232 1-239 24-270 (271)
6 COG0689 Rph RNase PH [Translat 100.0 1.4E-45 0 274.3 16.5 222 1-239 8-230 (230)
7 COG2123 RNase PH-related exori 100.0 1.1E-44 0 269.9 18.1 233 1-240 23-272 (272)
8 KOG1068 consensus 100.0 3.2E-42 0 256.2 12.4 222 1-242 13-236 (245)
9 KOG1614 consensus 100.0 2.6E-37 6.5E-42 228.6 15.5 231 1-241 22-272 (291)
10 PRK11824 polynucleotide phosph 100.0 1.5E-33 3.8E-38 207.5 16.7 226 1-240 314-543 (694)
11 TIGR03591 polynuc_phos polyrib 100.0 1.1E-33 2.7E-38 208.3 15.7 227 1-240 310-540 (684)
12 KOG1069 consensus 100.0 2.6E-32 6.6E-37 200.5 11.3 205 9-242 3-212 (217)
13 KOG1612 consensus 100.0 4.2E-31 1.1E-35 193.7 15.5 237 1-241 21-277 (288)
14 KOG1613 consensus 100.0 2.1E-31 5.5E-36 195.4 10.4 229 1-235 36-297 (298)
15 TIGR03591 polynuc_phos polyrib 100.0 3.3E-29 8.3E-34 183.1 17.0 210 11-239 4-215 (684)
16 PRK11824 polynucleotide phosph 100.0 6.5E-29 1.7E-33 181.4 17.7 211 11-240 12-224 (694)
17 pfam01138 RNase_PH 3' exoribon 100.0 2.8E-28 7.1E-33 177.9 9.3 128 10-143 1-128 (128)
18 KOG1067 consensus 99.9 1.7E-26 4.4E-31 167.8 12.2 223 1-239 358-585 (760)
19 COG1185 Pnp Polyribonucleotide 99.9 3.7E-25 9.4E-30 160.3 14.3 226 1-240 312-541 (692)
20 COG1185 Pnp Polyribonucleotide 99.9 2E-22 5.2E-27 144.9 15.1 208 12-239 14-223 (692)
21 KOG1067 consensus 99.7 1.6E-17 4.1E-22 117.4 11.0 207 10-236 54-262 (760)
22 TIGR02696 pppGpp_PNP guanosine 99.7 1.3E-17 3.3E-22 118.0 1.4 229 1-240 341-574 (725)
23 TIGR02696 pppGpp_PNP guanosine 98.9 3.1E-08 7.9E-13 65.3 11.5 212 10-237 15-249 (725)
24 pfam03725 RNase_PH_C 3' exorib 98.8 9.2E-09 2.3E-13 68.3 5.3 67 159-226 1-67 (67)
25 pfam11558 HET-s_218-289 Het-s 36.5 30 0.00075 14.9 2.5 13 23-35 15-27 (72)
26 pfam04446 Thg1 tRNAHis guanyly 24.8 16 0.00041 16.3 -0.6 10 34-43 21-30 (181)
27 TIGR01421 gluta_reduc_1 glutat 24.7 48 0.0012 13.7 1.8 44 177-225 406-449 (475)
No 1
>PRK00173 rph ribonuclease PH; Reviewed
Probab=100.00 E-value=0 Score=336.61 Aligned_cols=237 Identities=55% Similarity=0.874 Sum_probs=223.3
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCC
Q ss_conf 96789980117879999766326882899996894899999933324531015543421100100555653222333444
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRVKREAVS 80 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~ 80 (242)
||.|||+++|+|||++++|++++|+|||||++|||+|+|+|+.+...|++...+..+.++++|.+.|++..+|..+....
T Consensus 1 lR~DGR~~~E~R~i~i~~g~~~~A~GSa~v~~G~T~Vl~~v~~~~~~p~~~~~~~~g~l~~ey~mlP~st~~R~~R~~~~ 80 (237)
T PRK00173 1 MRPDGRAADQLRPVTITRNYTKHAEGSVLVEFGDTKVLCTASVEEGVPRFLKGQGQGWVTAEYGMLPRATHTRNDREAAK 80 (237)
T ss_pred CCCCCCCCCCCCCEEEEECCCCCCCEEEEEEECCCEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCC
T ss_conf 98989897774465999487799873699996892999999726667530037765336777521676778867576556
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCCC
Q ss_conf 47773102344443224210002200488022234420355576310100012221011001000001463101124378
Q gi|254780630|r 81 GRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKGH 160 (242)
Q Consensus 81 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~~ 160 (242)
++..++..++++.+++++++.+.+..+++.+|+++++|+++||+..+|+++++++||.||...+.. .+...++|++++
T Consensus 81 g~~~~r~~Eisrli~ralr~~i~l~~~~~~~I~i~~~VL~aDGg~~~Asi~aa~lAL~dA~~~~~~--~~~~~~~P~~~~ 158 (237)
T PRK00173 81 GKQGGRTQEIQRLIGRSLRAVVDLKALGERTITLDCDVLQADGGTRTASITGAYVALADALNKLVA--RGKLKKNPLKDH 158 (237)
T ss_pred CCCCCCHHHHHHHHHHHHHHHCCHHHCCCEEEEEEEEEEECCCCCCCEECCHHHHHHHHHHHHHHH--CCCCCCCCCCCC
T ss_conf 887600689999999998776118554985999999986158982120123578999999999986--486667885464
Q ss_pred CCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 3102004545541003343101234303688875998689999218636868999999999999999999999999977
Q gi|254780630|r 161 VAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDVIS 239 (242)
Q Consensus 161 ~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~L~ 239 (242)
+++++++++++.+++||+++|+..++++++++++.+|+++.+|+.|++++|+++++.+++++|+++|++|+++|+++|.
T Consensus 159 v~avs~G~i~~~~v~D~~~~Ed~~~d~d~~v~~~~~g~iv~iQ~~ge~~~fs~ee~~~~l~~A~~gi~~I~~~q~~aLs 237 (237)
T PRK00173 159 VAAVSVGIVDGEPVLDLDYVEDSAAETDMNVVMTGDGGFVEVQGTAEGAPFSREELNALLDLAEGGIAELVALQKAALA 237 (237)
T ss_pred CCEEEEEEECCEEEECCCHHHHHCCCCCEEEEECCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 1116899987868778884676268763699986999899997146779859999999999999999999999999749
No 2
>TIGR02065 ECX1 exosome complex exonuclease 1; InterPro: IPR011807 The PH (phosphorolytic) domain is responsible for 3'-5' exoribonuclease activity, although in some proteins this domain has lost its catalytic function. An active PH domain uses inorganic phosphate as a nucleophile, adding it across the phosphodiester bond between the end two nucleotides in order to release ribonucleoside 5'-diphosphate (rNDP) from the 3' end of the RNA substrate. PH domains can be found in bacterial/organelle RNases and PNPases (polynucleotide phosphorylases) , as well as in archaeal and eukaryotic RNA exosomes , , the later acting as nano-compartments for the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA). Bacterial/organelle PNPases share a common barrel structure with RNA exosomes, consisting of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber . Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel , . This entry represents a family of archaeal proteins that are orthologous to the eukaryotic exosome protein Rrp41. It is somewhat more distantly related to the bacterial protein ribonuclease PH. An exosome-like complex has been demonstrated experimentally for the Archaea in Sulfolobus solfataricus, so members of this family are designated exosome complex exonuclease 1, after usage in SwissProt .; GO: 0016896 exoribonuclease activity producing 5'-phosphomonoesters, 0000178 exosome (RNase complex).
Probab=100.00 E-value=0 Score=336.14 Aligned_cols=220 Identities=27% Similarity=0.400 Sum_probs=206.8
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCC-CCCCCCCCCCCEEEEECCCCC-CCCCCCCC
Q ss_conf 9678998011787999976632688289999689489999993332453-101554342110010055565-32223334
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPM-WIRNTKHGWITAEYGMLPRST-GNRVKREA 78 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~r~~~~~ 78 (242)
+|.|||+|+|+|||+|+.|+++|||||||+++|+||++++||||++..+ ....|+.+.+-+=|+|+|||. -+|..+.+
T Consensus 8 ~R~DGR~pdeLRp~KI~~GvL~rADGSA~~E~G~tki~aAVYGPrE~hpRh~~~PDRAV~R~RY~MAPFSvkDERK~PgP 87 (231)
T TIGR02065 8 LRLDGRKPDELRPVKIEAGVLKRADGSAYLEFGATKIVAAVYGPREAHPRHLQLPDRAVLRVRYNMAPFSVKDERKRPGP 87 (231)
T ss_pred CCCCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCC
T ss_conf 54587784201201001311112760010113797999986377667775457888357760013898874346787222
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCC
Q ss_conf 44477731023444432242100022004880222344203555763101000122210110010000014631011243
Q gi|254780630|r 79 VSGRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLK 158 (242)
Q Consensus 79 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~ 158 (242)
+ .|++++|+.+..||+|.++.+.||++.|+|++.||+.||+...|.+.||++||+||||||.++
T Consensus 88 d-----RR~iEiSKv~~EALepai~~E~fPRt~IDVF~EvLQADaGTR~AgltAASlALADAGIpMRDL----------- 151 (231)
T TIGR02065 88 D-----RREIEISKVIREALEPAILLEQFPRTAIDVFVEVLQADAGTRCAGLTAASLALADAGIPMRDL----------- 151 (231)
T ss_pred C-----CCEEHHHHHHHHHCCCEEEEECCCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHCCCHHHHH-----------
T ss_conf 9-----441215668888513101322388950105789985276504788999999998479402422-----------
Q ss_pred CCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEE-ECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 7831020045455410033431012343036888-759986899992186368689999999999999999999999999
Q gi|254780630|r 159 GHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFV-MTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDV 237 (242)
Q Consensus 159 ~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~-~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~ 237 (242)
++.|..+++++.+++|++.+|...+.+++.++ +++.++|+.+|++| .+|++++.+++++|.++|+.|++++|++
T Consensus 152 --V~gvavGKv~G~vVLDl~~~ED~yGEAD~P~A~mP~~~~iTLLQldG---~~T~dEF~~A~~lA~~g~~~v~~~~r~A 226 (231)
T TIGR02065 152 --VVGVAVGKVDGVVVLDLSELEDMYGEADVPLAIMPKLGEITLLQLDG---DLTPDEFRQALDLAVKGIKRVYEIQREA 226 (231)
T ss_pred --HHEEEEEEECCEEEECCCCCCCCCCCCCCHHHHCCCCCCEEEEEECC---CCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf --00003455678889836612467576565665158998268997479---8686789999999999988999999998
Q ss_pred HHHC
Q ss_conf 7720
Q gi|254780630|r 238 ISNE 241 (242)
Q Consensus 238 L~~~ 241 (242)
|+++
T Consensus 227 Lk~k 230 (231)
T TIGR02065 227 LKKK 230 (231)
T ss_pred HHCC
T ss_conf 6405
No 3
>TIGR01966 RNasePH ribonuclease PH; InterPro: IPR002381 Prokaryotic ribonuclease PH (2.7.7.56 from EC) (RNase PH) is a phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates . There is a similar protein in Caenorhabditis elegans that belongs to this group. More information about these proteins can be found at Protein of the Month: RNA Exosomes .; GO: 0000049 tRNA binding, 0004549 tRNA-specific ribonuclease activity, 0008033 tRNA processing.
Probab=100.00 E-value=0 Score=333.22 Aligned_cols=237 Identities=55% Similarity=0.873 Sum_probs=230.1
Q ss_pred CCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCC
Q ss_conf 67899801178799997663268828999968948999999333245310155434211001005556532223334444
Q gi|254780630|r 2 RLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRVKREAVSG 81 (242)
Q Consensus 2 R~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~ 81 (242)
|+|||+.||+|||+|+.+++++|+|||+++.|||||||+++.+..+|++.+...+|+++-+|.|.|.++..|..+....+
T Consensus 1 R~dGR~~dqLRpv~i~r~f~~haEGSvLi~~G~TkVlCTASv~e~VP~flrG~G~GWiTAEY~MLPraT~~R~~REa~~G 80 (237)
T TIGR01966 1 RPDGRKPDQLRPVKITRDFLKHAEGSVLIEFGDTKVLCTASVEEKVPPFLRGSGEGWITAEYGMLPRATQTRNRREAAKG 80 (237)
T ss_pred CCCCCCCCCCCCEEECCCCCCCCCCEEEEEECCEEEEEEEEECCCCCCCCCCCCCEEEEHHHHHHHHHHCCCCHHHHHHC
T ss_conf 98988553453625546887888872689787924666787558728523588942550411000330303124668617
Q ss_pred CCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCCCC
Q ss_conf 77731023444432242100022004880222344203555763101000122210110010000014631011243783
Q gi|254780630|r 82 RQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKGHV 161 (242)
Q Consensus 82 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~~~ 161 (242)
|..+|..+++|+|.|+|++.+.+...++-+|+|||.|++.||+...|+|..+..||.+|...|..-.....+ .|+.+.+
T Consensus 81 K~~GRTqEIQRLIGRaLRavvDl~aLGErTI~iDCDVlQADGGTRTAsITGAfVAL~dAi~~L~~~~~~~~~-~P~~~~V 159 (237)
T TIGR01966 81 KQSGRTQEIQRLIGRALRAVVDLEALGERTIWIDCDVLQADGGTRTASITGAFVALADAIKKLQKRGILKES-EPIRDFV 159 (237)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCC-CCCCCCC
T ss_conf 878750567778888988773462348502798533433887612467888999999999999857862346-8711052
Q ss_pred CEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 102004545541003343101234303688875998689999218636868999999999999999999999999977
Q gi|254780630|r 162 AAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDVIS 239 (242)
Q Consensus 162 ~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~L~ 239 (242)
++|+++.+++..++|..|+|...+++++.|+|+.+|+++.||.+|++.||+.+||.+||++|+++|.+|.++||++|.
T Consensus 160 AAVSVGiv~g~~~LDL~Y~EDs~A~vD~NvVmT~~G~fvEvQGTaE~~pFsr~EL~~LL~LA~~Gi~eL~~~Qk~aL~ 237 (237)
T TIGR01966 160 AAVSVGIVDGEPVLDLDYEEDSAADVDMNVVMTGSGGFVEVQGTAEEEPFSRDELNELLDLAEKGIRELIELQKQALG 237 (237)
T ss_pred CEEEEEEECCEEEECCCCCCCCCCCCCCEEEECCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 438988766806763588555646335205885787658887057889701899999999988889999999999719
No 4
>PRK03983 exosome complex exonuclease Rrp41; Provisional
Probab=100.00 E-value=0 Score=313.46 Aligned_cols=220 Identities=29% Similarity=0.427 Sum_probs=201.2
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCC-CCCCCCCCCCCCEEEEECCCCCCCCCCCCCC
Q ss_conf 967899801178799997663268828999968948999999333245-3101554342110010055565322233344
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVP-MWIRNTKHGWITAEYGMLPRSTGNRVKREAV 79 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~ 79 (242)
+|+|||+++|+|+|++++|++++|||||||++|||+|+|+|+||++.. ...+.++++.+.+++.++||+...|..+.
T Consensus 13 ~R~DGR~~~elR~i~~~~g~~~~adGSa~~~~G~T~Vl~~V~gp~e~~~~~~~~~~~~~l~v~~~~~pfa~~~r~~~~-- 90 (243)
T PRK03983 13 LRLDGRKPDELRPIKIEVGVLKNADGSAYVEWGNNKIIAAVYGPREMHPRHLQLPDRAVLRVRYNMAPFSVDERKRPG-- 90 (243)
T ss_pred CCCCCCCCCCCCCEEEEECCCCCCCEEEEEEECCCEEEEEECCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCC--
T ss_conf 659995988843869996979999889999978949999975784457320037874899999965887667665789--
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCC
Q ss_conf 44777310234444322421000220048802223442035557631010001222101100100000146310112437
Q gi|254780630|r 80 SGRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKG 159 (242)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~ 159 (242)
...++.++++.+++++++.++++.+|+.+|+++++++++||+.+++++||+++||.||++||.+
T Consensus 91 ---~~~~~~els~~i~~~l~~~i~~~~~p~s~I~V~v~Vl~~DG~~~~aainaa~lAL~dAgIpm~d------------- 154 (243)
T PRK03983 91 ---PDRREIEISKVIREALEPAIMLEQFPRSVIDVFIEVLQADAGTRVAGITAASLALADAGIPMRD------------- 154 (243)
T ss_pred ---CCHHHHHHHHHHHHHHHHHCCHHHCCCEEEEEEEEEECCCCCCCEECCCCCEEEHHHCCCCCCC-------------
T ss_conf ---9831899999999998754289887970999999999179981000103536765456987246-------------
Q ss_pred CCCEEECCCCCCCCEECCCCCCCCCCCEEEEEE-ECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 831020045455410033431012343036888-7599868999921863686899999999999999999999999997
Q gi|254780630|r 160 HVAAISCGMLCGYPIVDLDYGEDSTIDVDANFV-MTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDVI 238 (242)
Q Consensus 160 ~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~-~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~L 238 (242)
++++++++..++.++.||+++|+..++++++++ +++.++|+.+|+.| .|+.+++.+++++|.++|++|+++|+++|
T Consensus 155 ~v~a~svg~~~~~~ilDp~~~Ee~~~~~~l~va~~~~~~~i~~~q~~G---~~s~~~l~~~l~~a~~~~~~i~~~~~~~l 231 (243)
T PRK03983 155 LVAGCAVGKVDGVIVLDLNKEEDNYGEADMPVAIMPKLGEITLLQLDG---NLTRDEFLEALELAKKGAKRIYQIQREAL 231 (243)
T ss_pred CEEEEEEEEECCEEEECCCHHHHCCCCCEEEEEEECCCCCEEEEEEEC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 351799999899999889837740577406999966999899999988---58899999999999999999999999999
Q ss_pred HHC
Q ss_conf 720
Q gi|254780630|r 239 SNE 241 (242)
Q Consensus 239 ~~~ 241 (242)
+++
T Consensus 232 ~~~ 234 (243)
T PRK03983 232 KNK 234 (243)
T ss_pred HHH
T ss_conf 878
No 5
>PRK04282 exosome complex RNA-binding protein Rrp42; Provisional
Probab=100.00 E-value=0 Score=290.94 Aligned_cols=232 Identities=22% Similarity=0.315 Sum_probs=199.9
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCC
Q ss_conf 96789980117879999766326882899996894899999933324531015543421100100555653222333444
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRVKREAVS 80 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~ 80 (242)
+|+|||+++|+|++.+++|++++|+|||+|++|+|+|+|+|+.+...| ..+.|++|.+.+.+.++|++.+.+..+
T Consensus 24 ~R~DGR~~~e~R~i~i~~g~l~~a~GSa~v~~G~T~Vla~V~~ei~~p-~~~~p~eG~~~~~v~~~~~a~~~~~~g---- 98 (271)
T PRK04282 24 KRIDGRGLDEYRPIEIETGVIKKAEGSALVKLGNTQVIAGVKLELGEP-FPDTPDEGVLIVNAELLPLASPTFEPG---- 98 (271)
T ss_pred CCCCCCCCCCCCCEEEEECCCCCCCEEEEEEECCEEEEEEEEECCCCC-CCCCCCCCCEEEEEEECCCCCCCCCCC----
T ss_conf 789998988866759997985888805999968948999987235676-566898543799996578677766579----
Q ss_pred CCCCCCHHHHHHHHHHHHHH--------HCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCC---
Q ss_conf 47773102344443224210--------0022004880222344203555763101000122210110010000014---
Q gi|254780630|r 81 GRQGGRSQEIQRMIGRALRS--------VVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSN--- 149 (242)
Q Consensus 81 ~~~~~~~~~~~~~~~~~l~~--------~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~--- 149 (242)
+...+..++++.+++.++. .++......|.+.++++++++|||+++|+++|+.+||.|+++|......
T Consensus 99 -~~~~~~~e~~~~l~r~l~~s~~idle~LcI~~g~~~W~i~idv~VL~~dGn~~dA~~~A~~aAL~~~~~P~v~~~~~~~ 177 (271)
T PRK04282 99 -PPDENAIELARVVDRGIRESGAIDLEKLVIEPGKKVWVVFIDVYVLDHDGNLLDASMLAAVAALLNTKLPAVVKEDGGV 177 (271)
T ss_pred -CCCCCHHHHHHHHHHHHHHHCCCCHHHHCCCCCCCCEEEEEEEEEEECCCCHHHHHHHHHHHHHHHCCCCEEEECCCCE
T ss_conf -9763028899999988764252324763657777517999999999159968888999999999866897168516631
Q ss_pred ----CCCEECCCCCCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHH
Q ss_conf ----6310112437831020045455410033431012343036888759986899992186368689999999999999
Q gi|254780630|r 150 ----KFQLSQVLKGHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKD 225 (242)
Q Consensus 150 ----~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~ 225 (242)
....++++++.|++++++++++.++.||+.+||.++++++++++|.+|++|.+||.| +++++.++|.+|+++|++
T Consensus 178 ~~~~~~~~~l~i~~~Pi~vT~~~i~~~~l~Dpt~~EE~~~~~~~~V~~n~~g~i~~l~k~g-~~~i~~~~l~~~~~~A~~ 256 (271)
T PRK04282 178 VLDLGEKVPLPINNKPVSVTFAKIGNYLVVDPTLEEELVMDARITITTDEDGIICAMQKSG-LGSFTEEEVEEAIDLALK 256 (271)
T ss_pred EECCCCCCCCCCCCCCEEEEEEEECCEEEECCCHHHHHCCCCEEEEEEECCCCEEEEECCC-CCCCCHHHHHHHHHHHHH
T ss_conf 2113666677635661378999999999977998898456876999990899799997789-999599999999999999
Q ss_pred HHHHHHHHHHHHHH
Q ss_conf 99999999999977
Q gi|254780630|r 226 RIADLIKLQKDVIS 239 (242)
Q Consensus 226 ~~~~i~~~i~~~L~ 239 (242)
++++|+++|+++|-
T Consensus 257 ~~~~l~~~i~~aL~ 270 (271)
T PRK04282 257 KAKELREKLKEALG 270 (271)
T ss_pred HHHHHHHHHHHHHC
T ss_conf 99999999998629
No 6
>COG0689 Rph RNase PH [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-45 Score=274.31 Aligned_cols=222 Identities=50% Similarity=0.793 Sum_probs=204.9
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCC-CCCCCCCCCCCCCEEEEECCCCCCCCCCCCCC
Q ss_conf 96789980117879999766326882899996894899999933324-53101554342110010055565322233344
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKV-PMWIRNTKHGWITAEYGMLPRSTGNRVKREAV 79 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~ 79 (242)
+|+|||+++|+|||+++.|++++|+||+++++|||||+|+|+||++. |+....+..+.+.+.+.+.|++...|..+...
T Consensus 8 ~R~dgR~~~elR~i~~~~~~~~~a~GS~~~~~G~tkVic~vsGp~e~~p~~l~~~~~g~~t~ey~m~p~sT~~R~~~~~~ 87 (230)
T COG0689 8 MRPDGRKPDELRPIKITRGVLKHAEGSSLIEFGNTKVICTVSGPREPVPRFLRGTGKGWLTAEYGMLPRSTDERKKREAD 87 (230)
T ss_pred CCCCCCCCCCCCCEEEEECCCCCCCCCEEEEECCEEEEEEEECCCCCCCHHHCCCCCEEEEEEECCCCCCCCCCCCCCCC
T ss_conf 37788884524646887155467885379996780899997067778885443777217999970201234333234433
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCC
Q ss_conf 44777310234444322421000220048802223442035557631010001222101100100000146310112437
Q gi|254780630|r 80 SGRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKG 159 (242)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~ 159 (242)
. ++..++++.+.+++++.+.++.+|+.+|++++++++.||+.+.|+++++.+||+||++||.+
T Consensus 88 ~----gR~~eisrli~~al~~~i~L~~~p~~~I~i~~dVlqaDggTrta~It~A~lAL~DAgipl~~------------- 150 (230)
T COG0689 88 R----GRTKEISRLIGRALRAVIDLELLPESTIDIDCDVLQADGGTRTASITGASLALADAGIPLRD------------- 150 (230)
T ss_pred C----CHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCEEEEHHHHHHHHHHHCCCCHHH-------------
T ss_conf 4----30327999999999887656544763899999999878975420266799999873994565-------------
Q ss_pred CCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 83102004545541003343101234303688875998689999218636868999999999999999999999999977
Q gi|254780630|r 160 HVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDVIS 239 (242)
Q Consensus 160 ~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~L~ 239 (242)
...++++++.++.++.|+.++|+..+.+++++++..++.+..++..++.++|+++++.+++++|.++|+++++.|+++|.
T Consensus 151 ~vaaiSvgi~~~~~~lDl~~~Eds~~~~d~~v~~~~~~~~~ei~~~~~~~~~~~del~~lL~la~~g~~~~~~~~~~al~ 230 (230)
T COG0689 151 LVAAISVGIVDGVIVLDLDYEEDSAAEADMNVVMTGNGGLVEIQGLAEDGPFTEDELLELLDLAIKGCNELRELQREALA 230 (230)
T ss_pred HEEEEEEEEECCCEEECCCCHHHCCCCCCCEEEEEECCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 30276788877935763743211122447149997069737899863069979999999999999999999999999759
No 7
>COG2123 RNase PH-related exoribonuclease [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-44 Score=269.87 Aligned_cols=233 Identities=18% Similarity=0.239 Sum_probs=204.0
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCC
Q ss_conf 96789980117879999766326882899996894899999933324531015543421100100555653222333444
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRVKREAVS 80 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~ 80 (242)
+|+|||.++|||++.+++|+++.|+|||+|++|+|+|+|+|+.+.. .++.+.|++|.+.++..+.|.+.+.|..+++.
T Consensus 23 ~R~DGR~~~efR~leI~~~vi~ka~GSa~VklG~Tqvv~gvK~eig-~Pf~DtP~eG~~~~n~El~Plas~~fE~Gppd- 100 (272)
T COG2123 23 IRIDGRSFDEFRPLEIETGVIPKANGSALVKLGNTQVVVGVKAEIG-EPFPDTPNEGVLVVNVELSPLASPSFEPGPPD- 100 (272)
T ss_pred CCCCCCCCCCCCCEEEEECCEECCCCCEEEEECCEEEEEEEECCCC-CCCCCCCCCCEEEEEEEEECCCCCCCCCCCCC-
T ss_conf 2568988212313388957142478857998268089999972457-88889987755775546602324554689996-
Q ss_pred CCCCCCHHHHHHHHHHHHHHH------CCCCCC--CCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCC-CCCCC-
Q ss_conf 477731023444432242100------022004--88022234420355576310100012221011001000-00146-
Q gi|254780630|r 81 GRQGGRSQEIQRMIGRALRSV------VDLSAL--GSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHME-DCSNK- 150 (242)
Q Consensus 81 ~~~~~~~~~~~~~~~~~l~~~------~~~~~~--~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~-~~~~~- 150 (242)
+...++++.+++.++.. -++... .-|.++++++++++|||+++|+..|+.+||.++++|.. ....+
T Consensus 101 ----e~aielsrvvdr~lr~s~aiDlekL~I~~g~kvwvv~vDv~vld~DGnl~Daa~lA~~AAL~~t~vP~~~~~~~~~ 176 (272)
T COG2123 101 ----ELAIELSRVVDRGLRESKAIDLEKLCIEEGKKVWVVFVDVHVLDYDGNLIDAASLAAVAALLNTRVPKAVEVGDGE 176 (272)
T ss_pred ----HHHHHHHHHHHHHHHHCCCCCHHHEEEECCCEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCEEECCCCC
T ss_conf ----0178999999998876167565451575398899999989998689978989999999999746797045327850
Q ss_pred -------CCEECCCCCCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHH
Q ss_conf -------3101124378310200454554100334310123430368887599868999921863686899999999999
Q gi|254780630|r 151 -------FQLSQVLKGHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLA 223 (242)
Q Consensus 151 -------~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a 223 (242)
...++|+.+++++++++++++.+++||+.+||..+++.++++++++|+||.+||.| +++++++.+.+|++.|
T Consensus 177 ~v~~~~~~~~pl~~~~~pi~vt~a~ig~~lvvDPtleEe~v~d~~ltit~~~~~~Iv~iqK~g-~~~~~~~~~~~~~~~A 255 (272)
T COG2123 177 IVIEVEEEPVPLPVSNPPISVTFAKIGNVLVVDPSLEEELVADGRLTITVNEDGEIVAIQKVG-GGSITESDLEKALKTA 255 (272)
T ss_pred EEECCCCCCCCCCCCCCCEEEEEEEECCEEEECCCCCHHHHCCCEEEEEECCCCCEEEEEECC-CCCCCHHHHHHHHHHH
T ss_conf 563156777445567875699999988889858980356523713999997998599999718-8767899999999999
Q ss_pred HHHHHHHHHHHHHHHHH
Q ss_conf 99999999999999772
Q gi|254780630|r 224 KDRIADLIKLQKDVISN 240 (242)
Q Consensus 224 ~~~~~~i~~~i~~~L~~ 240 (242)
.+...++.+.++++|+.
T Consensus 256 ~~~~~kl~~~~~~~L~~ 272 (272)
T COG2123 256 LSKAEKLREALKEALKE 272 (272)
T ss_pred HHHHHHHHHHHHHHHCC
T ss_conf 99999999999986339
No 8
>KOG1068 consensus
Probab=100.00 E-value=3.2e-42 Score=256.19 Aligned_cols=222 Identities=26% Similarity=0.314 Sum_probs=197.5
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCC-CCCCCCCCCEEEEECCCCCCCCCCCCCC
Q ss_conf 967899801178799997663268828999968948999999333245310-1554342110010055565322233344
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMWI-RNTKHGWITAEYGMLPRSTGNRVKREAV 79 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~r~~~~~~ 79 (242)
+|.|||+|+++|+|...+|++.+|+||||+++|||||+|.|+||++..... +.++++.+.+.+.+.+|+...|.+++..
T Consensus 13 ~r~dgRr~~elR~i~~~~g~~~~a~GSay~E~GnTKVl~aV~GPre~~~~~~~~~~~a~lnc~~~~a~Fst~~r~~~~~~ 92 (245)
T KOG1068 13 LRTDGRRPNELRRIYARIGVLTQADGSAYMEQGNTKVLCAVYGPREIRGKSARRPDKAVLNCEVSSAQFSTGDRKKRPKG 92 (245)
T ss_pred CCCCCCCHHHHHHHHHHCCCCCCCCCCCHHHCCCEEEEEEEECCCCCCCCCCCCCCCCEEEEEEEEECCCCCHHCCCCCC
T ss_conf 44577885674101211174236885010024880799998488442231002666524777775420111210157876
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCC
Q ss_conf 44777310234444322421000220048802223442035557631010001222101100100000146310112437
Q gi|254780630|r 80 SGRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKG 159 (242)
Q Consensus 80 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~ 159 (242)
+ .++.+++..+..++++.+++..||+.+|+|+++++++||+.+.+++|++.+||.||+|||+++
T Consensus 93 ~----rr~~e~s~~L~~afe~~I~~~lyPrsqIDI~v~VleddG~~laa~inaatlAL~daGI~m~D~------------ 156 (245)
T KOG1068 93 D----RREKELSLMLQQAFEPVILLELYPRSQIDIYVQVLEDDGSNLAAAINAATLALADAGIPMYDL------------ 156 (245)
T ss_pred C----HHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHH------------
T ss_conf 2----788999999999988888752376556139999997799529988878899999819974435------------
Q ss_pred CCCEEECCCCCCCCEECCCCCCCCCCCEEEEEE-ECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 831020045455410033431012343036888-7599868999921863686899999999999999999999999997
Q gi|254780630|r 160 HVAAISCGMLCGYPIVDLDYGEDSTIDVDANFV-MTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDVI 238 (242)
Q Consensus 160 ~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~-~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~L 238 (242)
..+++.++.++.++.|+++.||......++++ +....+|..+|+++ .++.+.+...++.+..+|+++++.++.++
T Consensus 157 -i~~~t~~l~~~~~l~Dl~~~eesa~~~~ltVa~l~~~~~i~~l~~~~---~~~~d~l~~vl~~a~~~c~~v~~~l~~~l 232 (245)
T KOG1068 157 -ITACTAGLADGTPLLDLTSLEESARAPGLTVAALPNREEIALLQLDE---RLHCDHLETVLELAIAGCKRVYERLRLVL 232 (245)
T ss_pred -HHHCEEEECCCCCCCCCCCCHHHCCCCCEEEEEECCCCEEEEEEECC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf -55110132078643365410545247862899822765278898518---87778899999999999999999999999
Q ss_pred HHCC
Q ss_conf 7209
Q gi|254780630|r 239 SNEV 242 (242)
Q Consensus 239 ~~~~ 242 (242)
.+++
T Consensus 233 ~~~l 236 (245)
T KOG1068 233 REHL 236 (245)
T ss_pred HHHH
T ss_conf 9999
No 9
>KOG1614 consensus
Probab=100.00 E-value=2.6e-37 Score=228.62 Aligned_cols=231 Identities=19% Similarity=0.265 Sum_probs=197.5
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCC
Q ss_conf 96789980117879999766326882899996894899999933324531015543421100100555653222333444
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRVKREAVS 80 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~ 80 (242)
+|.|||++.|||.+.+++| .-.||+.|++|||+|+|.|+.+... |+.+.|.+|.+.....++|++.+.++.+.
T Consensus 22 ~R~DgR~l~efR~lei~fG---ke~gs~~vt~G~Tkvma~vt~~ia~-Py~dRP~eG~f~I~telsPmA~~sfE~G~--- 94 (291)
T KOG1614 22 LRFDGRSLEEFRDLEIEFG---KEYGSVLVTMGNTKVMARVTAQIAQ-PYIDRPHEGSFSIFTELSPMASPSFEPGR--- 94 (291)
T ss_pred CCCCCCCHHHHHCEEEEEC---CCCCCEEEEECCEEEEEEEEEHHCC-CCCCCCCCCEEEEEECCCCCCCCCCCCCC---
T ss_conf 3557644545331389960---1116289985670688886302167-65578877704544102424343557998---
Q ss_pred CCCCCCHHHHHHHHHHHHH------HHCCCCCCCC--EEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCC-----
Q ss_conf 4777310234444322421------0002200488--02223442035557631010001222101100100000-----
Q gi|254780630|r 81 GRQGGRSQEIQRMIGRALR------SVVDLSALGS--RQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDC----- 147 (242)
Q Consensus 81 ~~~~~~~~~~~~~~~~~l~------~~~~~~~~~~--~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~----- 147 (242)
..+...++++.++++++ ...++...++ |.+.+++++++.|||+.+|+..|+.+||++++.|....
T Consensus 95 --~~~~~v~l~Rliek~~R~S~aiD~EsLCI~aG~kvW~IRiDlhiLd~DGnlvDaA~iAviaaL~hFrrPdvTv~g~~v 172 (291)
T KOG1614 95 --KGESEVELSRLIEKALRRSKAIDTESLCIRAGEKVWLIRIDLHILDHDGNLVDAACIAVIAALMHFRRPDVTVGGEEV 172 (291)
T ss_pred --CCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCEEEEEEEEEEEECCCCCEEHHHHHHHHHHHHHCCCCCCCCCCEEE
T ss_conf --562189999999999874165426777753087799999889997599984026899999999961799720056056
Q ss_pred -----CCCCCEECCCCCCCCEEECCCCC--CCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHH
Q ss_conf -----14631011243783102004545--54100334310123430368887599868999921863686899999999
Q gi|254780630|r 148 -----SNKFQLSQVLKGHVAAISCGMLC--GYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAML 220 (242)
Q Consensus 148 -----~~~~~~~~~~~~~~~~~~~~~~~--~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l 220 (242)
....+.++.+++.|+++++++++ +..+.||++.|+..+++.+++++|+++++|.+||+| +..+++.+++.|.
T Consensus 173 ~ihp~eEr~PvPL~I~HmPIC~tf~ffnkG~i~viDpt~~Ee~~~dGs~vVt~Nk~rEVc~i~k~G-~~~~~~~~i~~C~ 251 (291)
T KOG1614 173 IIHPVEEREPVPLSIHHMPICFTFGFFNKGEIVVIDPTEKEEAVMDGSMVVTMNKNREVCAIQKSG-GEILDESVIERCY 251 (291)
T ss_pred EECCHHCCCCCCEEEEECCCEEEEEEECCCEEEEECCCHHHHHCCCCEEEEEECCCCCEEEEECCC-CCCCCHHHHHHHH
T ss_conf 761610068851245421305899983476089968757777256851999974886189996177-7334699999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHC
Q ss_conf 999999999999999997720
Q gi|254780630|r 221 NLAKDRIADLIKLQKDVISNE 241 (242)
Q Consensus 221 ~~a~~~~~~i~~~i~~~L~~~ 241 (242)
..|..++.++.+++.++|+++
T Consensus 252 k~A~~~a~~vt~ii~~~l~~d 272 (291)
T KOG1614 252 KLAKDRAVEVTGIILEALEED 272 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
T ss_conf 988889998889999999878
No 10
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=100.00 E-value=1.5e-33 Score=207.48 Aligned_cols=226 Identities=21% Similarity=0.240 Sum_probs=187.5
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECC--CCCCCC--CCCCCCCCCEEEEECCCCCCCCCCC
Q ss_conf 967899801178799997663268828999968948999999333--245310--1554342110010055565322233
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEE--KVPMWI--RNTKHGWITAEYGMLPRSTGNRVKR 76 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~--~~~~~~--~~~~~~~~~~~~~~~~~~~~~r~~~ 76 (242)
+|+|||.++|+|||++++|+++++||||+|+.|+|++||+++.-- +..... .......++..|+|+|||..+-...
T Consensus 314 ~RiDGR~~dEIRPI~~EvgvLPr~HGSaLFTRGETQaL~~~TLG~~~d~Q~iD~l~~~~~krFmlHYNFPPfSvGE~g~~ 393 (694)
T PRK11824 314 IRIDGRDLDEIRPISIEVGVLPRTHGSALFTRGETQALVVATLGTLRDAQIIDGLEGEYKKRFMLHYNFPPYSVGETGRV 393 (694)
T ss_pred CCCCCCCCCCCCCCEEECCCCCCCCCCEEEECCCCEEEEEEEECCCCHHHHHCCCCCCCCEEEEEECCCCCCCCCCCCCC
T ss_conf 66688886641452578388788874345871560699999725830101001567651104799747899767876677
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECC
Q ss_conf 34444777310234444322421000220048802223442035557631010001222101100100000146310112
Q gi|254780630|r 77 EAVSGRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQV 156 (242)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~ 156 (242)
....+ |++-...+-++++.++++...-....|++...+++.+|+...|+++++++||+|||+|++....++..++.
T Consensus 394 ~~p~R----REIGHG~LAeRAL~~vlP~~e~FPYtIRvvSEileSNGSSSMAsVCg~sLALmdAGVPik~~VAGIAmGLi 469 (694)
T PRK11824 394 GSPGR----REIGHGALAERALEPVLPSEEEFPYTIRVVSEILESNGSSSMASVCGGSLALMDAGVPIKAPVAGIAMGLI 469 (694)
T ss_pred CCCCC----CCCCCHHHHHHHHHHHCCCCCCCCCEEEEEEEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEE
T ss_conf 89763----10033699999887118985669834899988004488534488987879988579964664004777778
Q ss_pred CCCCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 43783102004545541003343101234303688875998689999218636868999999999999999999999999
Q gi|254780630|r 157 LKGHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKD 236 (242)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~ 236 (242)
... ....++.|..-.|...+|+++-++++++| |+.+||.-+-..++.+.|.++++.|+.+-..|.+.|.+
T Consensus 470 ~e~---------~~~~iLtDI~G~EDh~GDMDFKvAGT~~G-ITA~QmDiKi~Gi~~~il~~Al~qA~~gR~~IL~~M~~ 539 (694)
T PRK11824 470 KEG---------DKYAVLSDILGDEDHLGDMDFKVAGTRDG-ITALQMDIKIDGITREIMEEALEQAKEGRLHILGKMNE 539 (694)
T ss_pred ECC---------CEEEEEEECCCCCCCCCCCCEEEECCCCC-EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 708---------73799974044410247753156236664-48887403447969899999999999999999999987
Q ss_pred HHHH
Q ss_conf 9772
Q gi|254780630|r 237 VISN 240 (242)
Q Consensus 237 ~L~~ 240 (242)
+|.+
T Consensus 540 ~i~~ 543 (694)
T PRK11824 540 AISE 543 (694)
T ss_pred HCCC
T ss_conf 3666
No 11
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=100.00 E-value=1.1e-33 Score=208.33 Aligned_cols=227 Identities=21% Similarity=0.233 Sum_probs=187.6
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCC--CCCC--CCCCCCCCCCEEEEECCCCCCCCCCC
Q ss_conf 9678998011787999976632688289999689489999993332--4531--01554342110010055565322233
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEK--VPMW--IRNTKHGWITAEYGMLPRSTGNRVKR 76 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~--~~~~--~~~~~~~~~~~~~~~~~~~~~~r~~~ 76 (242)
+|+|||.++|+|||++++|+++++||||+|+.|+|++||+++.--. .... -.......++..|+|+|||..+-...
T Consensus 310 ~R~DGR~~dEIRpIs~EvgvLPr~HGSaLFtRGETQaL~v~TLG~~~d~Q~iD~l~~~~~krFmlHYNFPPfSvGE~g~~ 389 (684)
T TIGR03591 310 KRIDGRDLDTIRPISIEVGVLPRTHGSALFTRGETQALVVTTLGTERDEQIIDDLEGEYRKRFMLHYNFPPYSVGEVGRV 389 (684)
T ss_pred CCCCCCCCCCCCCHHCCCCCCCCCCCCEEEEECCCEEEEEEEECCCHHHHHHCCCCCCCCEEEEEECCCCCCCCCCCCCC
T ss_conf 77889982301240203387577774357885265079999506822211011457651104899747999767876778
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECC
Q ss_conf 34444777310234444322421000220048802223442035557631010001222101100100000146310112
Q gi|254780630|r 77 EAVSGRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQV 156 (242)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~ 156 (242)
.... .|++-...+-++++.+.++...-....|++...+++.+|+...|+++++++||+|||+|++....++..++.
T Consensus 390 ~~p~----RREIGHG~LAeRAL~~vlP~~e~FPYtIRvvSeileSNGSSSMAsVCg~sLALmdAGVPik~~VAGIAmGLi 465 (684)
T TIGR03591 390 GGPG----RREIGHGALAERALKAVLPSEEEFPYTIRVVSEILESNGSSSMASVCGGSLALMDAGVPIKAPVAGIAMGLI 465 (684)
T ss_pred CCCC----CHHHCCHHHHHHHHHHCCCCCCCCCCEEEEEEEEEECCCCHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEE
T ss_conf 8998----501226799999998518982338814899988004688434289999999998679963665025777768
Q ss_pred CCCCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 43783102004545541003343101234303688875998689999218636868999999999999999999999999
Q gi|254780630|r 157 LKGHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKD 236 (242)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~ 236 (242)
... ...+.++.|..-.|...+|+++-++++++| |+.+||.-+-..++.+.|.++++.|+++-..|.+.|.+
T Consensus 466 ~e~--------d~~y~iLtDI~G~EDh~GDMDFKvaGT~~G-ITa~QmDiKi~Gi~~~il~~Al~qA~~~R~~IL~~M~~ 536 (684)
T TIGR03591 466 KEG--------DERFAVLSDILGDEDHLGDMDFKVAGTRDG-ITALQMDIKIDGITREIMEQALEQAKEGRLHILGEMNK 536 (684)
T ss_pred ECC--------CCCEEEEEECCCCCCCCCCCCEEEECCCCC-EEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 737--------874799973133410147753056336664-48887403558978999999999999999999999997
Q ss_pred HHHH
Q ss_conf 9772
Q gi|254780630|r 237 VISN 240 (242)
Q Consensus 237 ~L~~ 240 (242)
+|.+
T Consensus 537 ~i~~ 540 (684)
T TIGR03591 537 VISE 540 (684)
T ss_pred HCCC
T ss_conf 3525
No 12
>KOG1069 consensus
Probab=99.98 E-value=2.6e-32 Score=200.50 Aligned_cols=205 Identities=20% Similarity=0.283 Sum_probs=172.4
Q ss_pred CCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf 11787999976632688289999689489999993332453101554342110010055565322233344447773102
Q gi|254780630|r 9 NQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRVKREAVSGRQGGRSQ 88 (242)
Q Consensus 9 ~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~ 88 (242)
+.+|++.++.|+++++|||+.|++|+|+|+|+|+||.+++...+.+++..+.+.++. ..+.....++
T Consensus 3 ~~lr~~~cei~iLsr~dGSs~fsqgdT~V~c~V~GP~dvk~r~E~~~katleVi~rp-------------~~G~~~~~eK 69 (217)
T KOG1069 3 ERLRGIACEISILSRPDGSSEFSQGDTKVICSVYGPIDVKARQEDPEKATLEVIWRP-------------KSGVNGTVEK 69 (217)
T ss_pred HHHHHHHHHHCEECCCCCCCCEECCCCEEEEEEECCCCHHHCCCCCHHCEEEEEEEC-------------CCCCCHHHHH
T ss_conf 244435566333237998620115981799991078633312147100358999712-------------5676227999
Q ss_pred HHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCCCCCEEECCC
Q ss_conf 34444322421000220048802223442035557631010001222101100100000146310112437831020045
Q gi|254780630|r 89 EIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKGHVAAISCGM 168 (242)
Q Consensus 89 ~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 (242)
.+++.+.+.+++.+.++.+|++.+.+.++++++||+.+.+++||+++||.|+|+||..+ .+++.+.+
T Consensus 70 ~~e~iI~~tl~~~I~l~l~Prt~iqVsiqvv~ddgs~LacaINaAclALvDaGIpl~~m-------------fcai~~~~ 136 (217)
T KOG1069 70 VLERIIRKTLSKAIILELYPRTTIQVSIQVVEDDGSTLACAINAACLALVDAGIPLRSM-------------FCAISCAL 136 (217)
T ss_pred HHHHHHHHHHHHHHEEEECCCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHCCCCHHHH-------------HHHCEEEE
T ss_conf 99999999987755132157746999999993588405789988999998569856774-------------54204788
Q ss_pred CCC-CCEECCCCCCCCCCCEEE--EEEE--CCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 455-410033431012343036--8887--5998689999218636868999999999999999999999999977209
Q gi|254780630|r 169 LCG-YPIVDLDYGEDSTIDVDA--NFVM--TDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDVISNEV 242 (242)
Q Consensus 169 ~~~-~~~~d~~~~ee~~~~~~l--~v~~--~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~L~~~~ 242 (242)
..+ .++.||+..++..+.+.. ++.. ....+++.... .|.++.+++..+++.|+.++.+++.++|+.++++.
T Consensus 137 ~~d~~lv~Dpt~~qek~~~~~~~lsf~~~~~~~~~vi~s~t---~G~~~~d~lf~~le~a~~~~~~~f~f~r~~~q~~~ 212 (217)
T KOG1069 137 HEDGVLVLDPTAKQEKISTARATLSFEGGSLGEPKVIISET---NGEKSEDQLFYVLELAQAAAQSLFPFYREVLQRKY 212 (217)
T ss_pred ECCCCEEECCCHHHHHHHHCEEEEEEECCCCCCCCEEEEEC---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 43762897871776544222489998347788762588724---68888899999998537889999999999998640
No 13
>KOG1612 consensus
Probab=99.97 E-value=4.2e-31 Score=193.72 Aligned_cols=237 Identities=18% Similarity=0.154 Sum_probs=182.1
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECC-CEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCC
Q ss_conf 9678998011787999976632688289999689-489999993332453101554342110010055565322233344
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGD-THLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRVKREAV 79 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~-T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~ 79 (242)
||+|||.+++||||.+++|+++++||||+|++|+ |.|+++||.+...|. .+.|.++.+.++++++|.+.+.|.++..+
T Consensus 21 iR~DGR~~~~~Rpi~vetdVlp~tNGSaRVk~g~~tdiivgVKaEvg~~~-~~~p~egk~~~~VD~S~sasp~f~gRggd 99 (288)
T KOG1612 21 IRNDGRSCHQFRPIEVETDVLPGTNGSARVKLGDGTDIIVGVKAEVGSPD-DETPVEGKYLFFVDCSPSASPQFQGRGGD 99 (288)
T ss_pred CCCCCCCCCCCCEEEEEECCCCCCCCCEEEEECCCCEEEEEEEEECCCCC-CCCCCCCEEEEEEEECCCCCCCCCCCCHH
T ss_conf 14678670100107888130148998578993687359999763205763-35877773899998468768324677700
Q ss_pred CCCCCCCHHHHHHHHHH-----HHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCC----
Q ss_conf 44777310234444322-----421000220048802223442035557631010001222101100100000146----
Q gi|254780630|r 80 SGRQGGRSQEIQRMIGR-----ALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNK---- 150 (242)
Q Consensus 80 ~~~~~~~~~~~~~~~~~-----~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~---- 150 (242)
+- ..+....+.+.+.. .+....+... ..|.+.+++.++..+||+++|...|+-+||.+..+|......-
T Consensus 100 e~-~~eltsaLq~~l~~~~sgv~ls~L~lt~~-~~W~i~VDvlVi~s~gn~~dAiS~Ai~~AL~~T~lPkv~v~~dd~~~ 177 (288)
T KOG1612 100 EL-VEELTSALQRVLNSLGSGVDLSKLQLTPG-YCWKIYVDVLVISSDGNLLDAISIAIYAALNNTRLPKVIVAFDDDGE 177 (288)
T ss_pred HH-HHHHHHHHHHHHHCCCCCCCHHHEECCCC-EEEEEEEEEEEEECCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf 68-99999999999847686545122352587-06999976999954997888999999998742567743356566886
Q ss_pred CCEECC----------CCCCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHH
Q ss_conf 310112----------4378310200454554100334310123430368887599868999921863686899999999
Q gi|254780630|r 151 FQLSQV----------LKGHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAML 220 (242)
Q Consensus 151 ~~~~~~----------~~~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l 220 (242)
.....+ ...+|.-++...++..+++||+.+||+++...+.+..++.|-+..+.+.|.++ +.++-+.+|+
T Consensus 178 ~~i~~s~~~Yd~~~~~~~~~P~ivtlskIG~~~lVD~T~eEe~~a~s~l~Isv~a~givs~~r~VG~G~-l~~s~i~~ml 256 (288)
T KOG1612 178 VEILLSDEEYDLMVKLVENVPLIVTLSKIGTNMLVDPTAEEESVANSGLLISVSAGGIVSCTRSVGLGD-LDPSSIPEML 256 (288)
T ss_pred EEECCCCCCCHHHHHHCCCCCEEEEEEEECCEEECCCCCCHHHHHHCCEEEEEECCCCEEEEEEECCCC-CCHHHHHHHH
T ss_conf 146047543003454034687799998605237705782177764310699985276057888854888-7704689999
Q ss_pred HHHHHHHHHHHHHHHHHHHHC
Q ss_conf 999999999999999997720
Q gi|254780630|r 221 NLAKDRIADLIKLQKDVISNE 241 (242)
Q Consensus 221 ~~a~~~~~~i~~~i~~~L~~~ 241 (242)
+.+++-.+.++..+.+.|+++
T Consensus 257 e~~~~~~e~l~~~l~k~L~~~ 277 (288)
T KOG1612 257 EQGKAVVETLAPDLVKSLENE 277 (288)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999876658899875356
No 14
>KOG1613 consensus
Probab=99.97 E-value=2.1e-31 Score=195.36 Aligned_cols=229 Identities=17% Similarity=0.158 Sum_probs=176.2
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCC
Q ss_conf 96789980117879999766326882899996894899999933324531015543421100100555653222333444
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRVKREAVS 80 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~ 80 (242)
+|+|||+..|+|.+.++.|-++.|||||.++.|+|.|+|+|+++...| ..+.|++|.+..++.++|.+...+..+++.
T Consensus 36 ~RpdgR~lgefRdt~in~g~IsTangSal~K~G~ttvi~~Ik~ei~ep-stdapdeg~Iv~n~~lpplcs~r~RpG~p~- 113 (298)
T KOG1613 36 IRPDGRKLGEFRDTAINAGNISTANGSALLKSGKTTVICGIKAEIAEP-STDAPDEGDIVPNYALPPLCSSRFRPGPPT- 113 (298)
T ss_pred CCCCHHHHHHHHHHHEECCCEECCCCHHHHHCCCCEEEEEEEEEECCC-CCCCCCCCCEEECCCCCCCCCCCCCCCCCC-
T ss_conf 684135565776652003754036747777348808999764321166-657998764541356786324677788972-
Q ss_pred CCCCCCHHHHHHHHHHHHHH------HCCCCCCCCEEE--EEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCC-
Q ss_conf 47773102344443224210------002200488022--234420355576310100012221011001000001463-
Q gi|254780630|r 81 GRQGGRSQEIQRMIGRALRS------VVDLSALGSRQI--IIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKF- 151 (242)
Q Consensus 81 ~~~~~~~~~~~~~~~~~l~~------~~~~~~~~~~~i--~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~- 151 (242)
+.....++.+...+.. --++....++.| ..++.+++.||+.+++|-+|..+||.+.+.|.+......
T Consensus 114 ----dea~viSq~LhdtIl~S~ii~~k~Lci~~gKaawvlYadIicLd~dG~~fDa~w~al~aAlknvklP~a~ide~~~ 189 (298)
T KOG1613 114 ----DEAQVISQKLHDTILHSRIIPKKALCIKAGKAAWVLYADIICLDYDGPVFDACWNALMAALKNVKLPRAFIDERAS 189 (298)
T ss_pred ----HHHHHHHHHHHHHHHHCCCCCHHHHEEECCCEEEEEEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCH
T ss_conf ----3778899999999986277442553110362465777779998488848999999999998427786566356420
Q ss_pred ---------------CEECCC---------CCCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCC
Q ss_conf ---------------101124---------37831020045455410033431012343036888759986899992186
Q gi|254780630|r 152 ---------------QLSQVL---------KGHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAE 207 (242)
Q Consensus 152 ---------------~~~~~~---------~~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~ 207 (242)
..+.-+ +..+.+....+.+..+..|||.+||..++..+++++++.|+++.++|.|+
T Consensus 190 ~~~~t~e~~ic~~tlt~p~~ln~e~r~~~~~n~~fS~~~vl~~~li~adpT~eEE~l~~~~lTIvldss~n~v~l~k~GG 269 (298)
T KOG1613 190 DLRMTIEEIICDQTLTVPLMLNAENRAFASQNSDFSEEEVLDDVLIAADPTEEEETLITSTLTIVLDSSGNYVQLTKVGG 269 (298)
T ss_pred HHHHHHHHHHHHHHHCCHHHHCCCCCCCCCCCCCCCHHHHHCCEEEECCCCCHHHHHHHCEEEEEECCCCCEEEEEECCC
T ss_conf 43202788877655141444140002110147885177751443684189830344111158999868888899994486
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 3686899999999999999999999999
Q gi|254780630|r 208 RATFSQDHFFAMLNLAKDRIADLIKLQK 235 (242)
Q Consensus 208 ~~~~~~~~l~~~l~~a~~~~~~i~~~i~ 235 (242)
+.-..++-+..|+++|..+.+++.+.+.
T Consensus 270 ~al~~~~~iK~c~elar~Rakelk~~~~ 297 (298)
T KOG1613 270 GALITPEMIKRCLELARVRAKELKTRFN 297 (298)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 4446799999999999987999998736
No 15
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=99.97 E-value=3.3e-29 Score=183.10 Aligned_cols=210 Identities=19% Similarity=0.266 Sum_probs=179.8
Q ss_pred EEEEEEEEC-CCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCC-CCCCCCCCCCCCCHH
Q ss_conf 787999976-632688289999689489999993332453101554342110010055565322-233344447773102
Q gi|254780630|r 11 MREISLTRR-VSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNR-VKREAVSGRQGGRSQ 88 (242)
Q Consensus 11 ~R~i~i~~g-~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r-~~~~~~~~~~~~~~~ 88 (242)
-|+++++|| +.+||+||+.++.|+|.|||+|....+.+. ..+...+.++|.--.++.... .++...++++.+++.
T Consensus 4 g~~l~~etGklAkqA~GsV~v~~GdT~VL~T~~~~~~~~~---~~DFfPLtVdY~Ek~yAaGkIPGgF~KREgrPse~Ei 80 (684)
T TIGR03591 4 GRTLTLETGKIARQADGAVVVRYGDTVVLVTVVAAKEAKE---GQDFFPLTVNYQEKFYAAGKIPGGFFKREGRPSEKET 80 (684)
T ss_pred CCEEEEECCHHHHHCCCEEEEEECCEEEEEEEEECCCCCC---CCCCCCCEEEEEEHHHHCCCCCCCCCCCCCCCCHHHH
T ss_conf 8069997453354168429999899699999981488889---9997775460476633177777766477889971888
Q ss_pred HHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCCCCCEEECCC
Q ss_conf 34444322421000220048802223442035557631010001222101100100000146310112437831020045
Q gi|254780630|r 89 EIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKGHVAAISCGM 168 (242)
Q Consensus 89 ~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 (242)
+.+++++|.++|.++..++.++|+.+.++..+.+......+++++++||.- +++|+..|..++.++.
T Consensus 81 L~sRlIDRpiRPLFP~gf~~evQIi~tVLS~D~~~~pDvlAi~gASaAL~i-------------SdIPf~GPVaaVRVG~ 147 (684)
T TIGR03591 81 LTSRLIDRPIRPLFPKGFRNEVQVVATVLSYDPENDPDILAIIGASAALAI-------------SGIPFNGPIAAVRVGY 147 (684)
T ss_pred HHHHHHCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHH-------------CCCCCCCCEEEEEEEE
T ss_conf 888873676546776678877289999997688889068899999999986-------------0898678738999999
Q ss_pred CCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 45541003343101234303688875998689999218636868999999999999999999999999977
Q gi|254780630|r 169 LCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDVIS 239 (242)
Q Consensus 169 ~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~L~ 239 (242)
.++.++.+|+.+|.+.++.+|+++++.+ .|++|+..++ .+++++|.++++.|++.++++.++|++..+
T Consensus 148 idGe~ViNPT~~qle~SdLDLvVAGT~d-aIvMVE~~A~--EvsEe~mleAI~~ahe~iq~ii~~q~el~~ 215 (684)
T TIGR03591 148 IDGQYVLNPTVDELEKSDLDLVVAGTKD-AVLMVESEAK--ELSEEVMLGAIEFGHEEIQPVIEAIEELAE 215 (684)
T ss_pred ECCEEEECCCHHHHHHCCEEEEEECCCC-EEEEEECCCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 8998998998667854743399981488-1899975677--678899999999999999999999999999
No 16
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=99.97 E-value=6.5e-29 Score=181.42 Aligned_cols=211 Identities=20% Similarity=0.292 Sum_probs=180.0
Q ss_pred EEEEEEEEC-CCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCC-CCCCCCCCCCCCHH
Q ss_conf 787999976-6326882899996894899999933324531015543421100100555653222-33344447773102
Q gi|254780630|r 11 MREISLTRR-VSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRV-KREAVSGRQGGRSQ 88 (242)
Q Consensus 11 ~R~i~i~~g-~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~-~~~~~~~~~~~~~~ 88 (242)
-|+++++|| +.+||+||+.++.|+|.|||+|......+. ..+...++++|.--.++....+ ++...++++.+++.
T Consensus 12 g~~l~~etGklAkqA~Gsv~v~~GdT~VL~Tv~~~~~~~~---~~dFfPLtVdY~Ek~yAaGkIPGgF~KREgrpse~ei 88 (694)
T PRK11824 12 GRTLTLETGKIARQADGAVLVRYGDTVVLVTVVASKEPKE---GQDFFPLTVDYQEKTYAAGKIPGGFFKREGRPSEKET 88 (694)
T ss_pred CEEEEEECCHHHHHCCCEEEEEECCEEEEEEEEECCCCCC---CCCCCCCEEEEEEHHHCCCCCCCCCCCCCCCCCHHHH
T ss_conf 9999998443354168429999899699999982488889---9996771475788210177677756267889971777
Q ss_pred HHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCCCCCEEECCC
Q ss_conf 34444322421000220048802223442035557631010001222101100100000146310112437831020045
Q gi|254780630|r 89 EIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKGHVAAISCGM 168 (242)
Q Consensus 89 ~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 168 (242)
+.+++++|.++|+++..++.++|+.+.++..|.+......+++++++||.. +++|+..|..++.+++
T Consensus 89 L~sRlIDRpiRPLFP~gf~~evQIi~tVLS~D~~~~pdvlAi~gASaAL~i-------------SdIPF~GPVaaVRVG~ 155 (694)
T PRK11824 89 LTSRLIDRPIRPLFPKGFRNEVQVVATVLSVDPENDPDILAMIGASAALSI-------------SGIPFNGPIAAVRVGY 155 (694)
T ss_pred HHHHHHCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHH-------------CCCCCCCCEEEEEEEE
T ss_conf 878863676556777788866189999997688889068899999999985-------------0899788748999998
Q ss_pred CCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 455410033431012343036888759986899992186368689999999999999999999999999772
Q gi|254780630|r 169 LCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDVISN 240 (242)
Q Consensus 169 ~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~L~~ 240 (242)
.++.++.+|+.+|.+.++.+|+++++.+ .|++++..++ .+++++|.+++..|++.++++.++|++..++
T Consensus 156 idGe~ViNPT~eqle~SdLDLvVAGT~d-aI~MVE~~A~--EvsEe~mleAI~fahe~iq~ii~~q~el~~~ 224 (694)
T PRK11824 156 IDGEFVLNPTVEELEESDLDLVVAGTKD-AVLMVESEAN--ELSEEVMLEAIEFGHEAIQELIDAQEELAAE 224 (694)
T ss_pred ECCEEEECCCHHHHHHCCEEEEEECCCC-EEEEEECCCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 8998998998567742837899982478-1899972477--6788999999999999999999999999999
No 17
>pfam01138 RNase_PH 3' exoribonuclease family, domain 1. This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components contain a copy of this domain. A hypothetical protein from S. pombe appears to belong to an uncharacterized subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Probab=99.95 E-value=2.8e-28 Score=177.87 Aligned_cols=128 Identities=37% Similarity=0.465 Sum_probs=116.2
Q ss_pred CEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 17879999766326882899996894899999933324531015543421100100555653222333444477731023
Q gi|254780630|r 10 QMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNRVKREAVSGRQGGRSQE 89 (242)
Q Consensus 10 e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~ 89 (242)
|+|+|++++|++++|||||+|++|+|+|+|+|++|.+.|.. ..+.++.+.+++.+.|++...+.. ++...++.+
T Consensus 1 e~R~i~~~~gv~~~a~GSa~v~~G~T~Via~V~~p~~~~~~-~~~~~~~l~v~v~~~p~a~~~~~~-----~~~~~~~~~ 74 (128)
T pfam01138 1 ELRPIEIETGVLSQADGSALVELGDTKVLATVTGPIEPPNE-RDFFPGELTVEYEEKPFASGERPE-----GRPSEREIE 74 (128)
T ss_pred CCCCEEEEECCCCCCCEEEEEEECCEEEEEEEECCCCCCCC-CCCCCCEEEEEEEECCCCCCCCCC-----CCCCHHHHH
T ss_conf 97318999697799887899998997999999705435555-678885699998675743553346-----863166899
Q ss_pred HHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCC
Q ss_conf 444432242100022004880222344203555763101000122210110010
Q gi|254780630|r 90 IQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQH 143 (242)
Q Consensus 90 ~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~ 143 (242)
++..+++++++.++...+++|.+.++++++++||++++++++|+++||.|+++|
T Consensus 75 l~~~l~~~l~~~~~~~~~~~~~I~i~v~vl~~dG~~~~a~~~A~~~AL~dagiP 128 (128)
T pfam01138 75 LSRLIDRALRPSFPLEGYPRWEIRIDITVLSDDGSLLDAAINAASLALADAGIP 128 (128)
T ss_pred HHHHHHHHHHHHCCCCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHCCCC
T ss_conf 999999998864560447856999999999579998999999999999865999
No 18
>KOG1067 consensus
Probab=99.94 E-value=1.7e-26 Score=167.83 Aligned_cols=223 Identities=21% Similarity=0.239 Sum_probs=182.9
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCC-----CCCCCCCCCCCCEEEEECCCCCCCCCC
Q ss_conf 967899801178799997663268828999968948999999333245-----310155434211001005556532223
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVP-----MWIRNTKHGWITAEYGMLPRSTGNRVK 75 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~r~~ 75 (242)
.|.|||..+++|||+++.+.++..+|||+|+.|+|.|+|+|+..-... ......+++.++..|.|+|++..+-.+
T Consensus 358 kR~DGR~ldelR~I~ce~~m~~~lHGSaLFqRGqTQvlctVtl~s~e~a~klD~l~~~~~~~~FmLhY~FPPyat~Evgk 437 (760)
T KOG1067 358 KRCDGRDLDELRNISCEVDMLKTLHGSALFQRGQTQVLCTVTLDSLESAQKLDSLIGPDNGINFMLHYEFPPYATNEVGK 437 (760)
T ss_pred CCCCCCCHHHHCCCCEECCCCCCCCCHHHHHCCCEEEEEEEECCCHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCC
T ss_conf 55678333341354100173222441145526760599999838978843455302576675389996159754564301
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEEC
Q ss_conf 33444477731023444432242100022004880222344203555763101000122210110010000014631011
Q gi|254780630|r 76 REAVSGRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQ 155 (242)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~ 155 (242)
......|..+. ..+-++++.+.++ ..+ ...|.+...+++.+|+...|+++..++||+|||+|+.....+...++
T Consensus 438 ig~~nRRE~Gh----gaLAEkaL~~vlP-~df-PftIRv~SeVleSnGSsSMASvCGGslALmDaGvPv~a~vAGVaiGl 511 (760)
T KOG1067 438 IGGLNRRELGH----GALAEKALLPVLP-EDF-PFTIRVTSEVLESNGSSSMASVCGGSLALMDAGVPVSAHVAGVAIGL 511 (760)
T ss_pred CCCCCCCCCCC----HHHHHHHHHCCCC-CCC-CEEEEEEEEEEECCCCCHHHHHHCCHHHHHHCCCCCCCCCCEEEEEE
T ss_conf 46876000475----1676644302385-458-63799753664058951677663521655416984213213057876
Q ss_pred CCCCCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 24378310200454554100334310123430368887599868999921863686899999999999999999999999
Q gi|254780630|r 156 VLKGHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQK 235 (242)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~ 235 (242)
.-+.. .-.....+++++.|..-.|...++.++-++.+++| ++.+ | ++.+.+++++..|..+-.+|.+.|.
T Consensus 512 vt~td--~e~g~i~dyriltDIlGiEd~~GDMDFKiAGt~dG-vTA~---g----i~l~Iv~eal~~a~~ar~~Il~~m~ 581 (760)
T KOG1067 512 VTKTD--PEKGEIEDYRILTDILGIEDYNGDMDFKIAGTNDG-VTAL---G----IPLKIVMEALQKAREARLQILDIME 581 (760)
T ss_pred EECCC--CCCCCCCCCEEEHHHCCHHHHCCCCCEEECCCCCC-CEEC---C----CCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 76147--55477666143103304454168742032045676-1132---7----7489999998761688999999998
Q ss_pred HHHH
Q ss_conf 9977
Q gi|254780630|r 236 DVIS 239 (242)
Q Consensus 236 ~~L~ 239 (242)
+.+.
T Consensus 582 k~i~ 585 (760)
T KOG1067 582 KNIN 585 (760)
T ss_pred HHCC
T ss_conf 5268
No 19
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=99.93 E-value=3.7e-25 Score=160.33 Aligned_cols=226 Identities=21% Similarity=0.259 Sum_probs=170.0
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECC--CCCC--CCCCCCCCCCCEEEEECCCCCCCCCCC
Q ss_conf 967899801178799997663268828999968948999999333--2453--101554342110010055565322233
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEE--KVPM--WIRNTKHGWITAEYGMLPRSTGNRVKR 76 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~--~~~~--~~~~~~~~~~~~~~~~~~~~~~~r~~~ 76 (242)
+|+|||..++.||+.+++|+++++|||+++..|.|+.++.++.-- .... .-....+......|+|+|+|..+-...
T Consensus 312 vR~DGR~~~~VRpi~~ev~~lpr~HGS~LFtRGeTQal~v~TLG~~~d~Qiid~l~~e~~krfm~hYNFPp~SvGE~g~~ 391 (692)
T COG1185 312 VRIDGRFGDEVRPIGIEVGVLPRTHGSALFTRGETQALVVVTLGTPRDAQVIDILEGEYKKRFLLHYNFPPFSVGETGRM 391 (692)
T ss_pred CCCCCCCCCEEEEEEEEECCCCCCCCHHHCCCCCCCCEEEEECCCCCHHHHHHHCCCHHHHHEEEECCCCCCCCCCCCCC
T ss_conf 43578876526540377547887530221006887514689757741366655205323332542126799874556778
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECC
Q ss_conf 34444777310234444322421000220048802223442035557631010001222101100100000146310112
Q gi|254780630|r 77 EAVSGRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQV 156 (242)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~ 156 (242)
.....+..+ ....-++++.+.+.........+.+...+++.+|+...+++++.++||++|++|++....+...++.
T Consensus 392 g~p~RREiG----HG~LA~Ral~~vlp~~e~fpytiRvVsEi~eSNGSsSmaSVCg~sLaLmdAGVPIk~pVAGIAMGLI 467 (692)
T COG1185 392 GSPGRREIG----HGALAERALAPVLPSEEEFPYTIRVVSEILESNGSSSMASVCGGSLALMDAGVPIKAPVAGIAMGLI 467 (692)
T ss_pred CCCCCCCCC----CCHHHHHHHHHHCCCHHCCCCEEEEEEHHHCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCE
T ss_conf 898753346----7364688886509951007804552201110467412223455179887578963555543001523
Q ss_pred CCCCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 43783102004545541003343101234303688875998689999218636868999999999999999999999999
Q gi|254780630|r 157 LKGHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKD 236 (242)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~ 236 (242)
...-. ...+.|..-.|...+|.++-++.+.+| ++.+||.-+-..++.+.|.+++..|+.+...+...+.+
T Consensus 468 ~eg~~---------~~vLsDI~G~EDhlGDMDFKVAGT~~G-iTAlQMDiKi~Git~eim~~AL~QAk~aRlhIL~~M~~ 537 (692)
T COG1185 468 KEGDK---------YAVLSDILGDEDHLGDMDFKVAGTDDG-ITALQMDIKIKGITKEIMKKALEQAKGARLHILIVMNE 537 (692)
T ss_pred ECCCC---------EEEECCCCCCCCCCCCCEEEEECCCCC-CCEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 24874---------476400266533457732687257677-50104556645888999999998799999999999999
Q ss_pred HHHH
Q ss_conf 9772
Q gi|254780630|r 237 VISN 240 (242)
Q Consensus 237 ~L~~ 240 (242)
++..
T Consensus 538 ai~~ 541 (692)
T COG1185 538 AISE 541 (692)
T ss_pred HHHH
T ss_conf 8751
No 20
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=2e-22 Score=144.94 Aligned_cols=208 Identities=19% Similarity=0.253 Sum_probs=177.5
Q ss_pred EEEEEEEC-CCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCC-CCCCCCCCCCCCCHHH
Q ss_conf 87999976-632688289999689489999993332453101554342110010055565322-2333444477731023
Q gi|254780630|r 12 REISLTRR-VSKYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNR-VKREAVSGRQGGRSQE 89 (242)
Q Consensus 12 R~i~i~~g-~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r-~~~~~~~~~~~~~~~~ 89 (242)
|++.+++| +.+||+||+++++|+|.|+++|.+.. .+ ..-+...++++|.--.++.... .++...++|+.+.+.+
T Consensus 14 ~~l~~etg~~A~qa~gav~~~~gdt~vl~t~~~~~-~~---~~~dF~PLtV~y~Ek~yaaGkiPGgf~kREGrpse~e~L 89 (692)
T COG1185 14 RTLTLETGKIARQANGAVLVRYGDTVVLATVVASK-PK---EGQDFFPLTVNYEEKTYAAGKIPGGFFKREGRPSEKEIL 89 (692)
T ss_pred EEEEEECCHHHHHCCCCEEEEECCEEEEEEEEECC-CC---CCCCCCCEEEEEEEEHHCCCCCCCCCCCCCCCCCCCHHH
T ss_conf 46999824335525750899978979999975147-88---898844316735450120676777420367788752026
Q ss_pred HHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCCCCCEEECCCC
Q ss_conf 44443224210002200488022234420355576310100012221011001000001463101124378310200454
Q gi|254780630|r 90 IQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKGHVAAISCGML 169 (242)
Q Consensus 90 ~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 169 (242)
.+++++|.++|.+.......+++...+...+.+-.....+.+++++||..++ +|+..|...+..++.
T Consensus 90 ~sRLIDRpiRPlFp~g~~~evqIv~tvls~D~~~~pdi~a~~gaSaAl~ls~-------------iPf~gpi~~vrvg~i 156 (692)
T COG1185 90 TSRLIDRPIRPLFPKGFRNEVQIVNTVLSVDPENDPDILAMVGASAALSLSG-------------IPFLGPIGAVRVGYI 156 (692)
T ss_pred HHHHCCCCCCCCCCHHHCCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHCC-------------CCCCCCCCEEEEEEE
T ss_conf 7764066553355212065408999998667877868899878889875137-------------986676014899998
Q ss_pred CCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 5541003343101234303688875998689999218636868999999999999999999999999977
Q gi|254780630|r 170 CGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKDVIS 239 (242)
Q Consensus 170 ~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~~L~ 239 (242)
++.++..|+.++...+..+++++.+.+ .|.+++..+ ..+++++|.+++..+++..+.+.+++++...
T Consensus 157 dg~~vlNPt~~e~~~s~lDlvVAGT~~-aV~MVE~~a--~~l~E~~ml~Av~fg~~~~~~~~~~qe~l~~ 223 (692)
T COG1185 157 DGIFVLNPTLEELEESKLDLVVAGTKD-AVNMVESEA--DELDEEVMLEAVEFGHEAIQSVINAQEELAL 223 (692)
T ss_pred CCEEEECCCHHHHHHCCEEEEECCCHH-HHHEEECCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 898997787666541631257607866-641043466--6688899999999888989999999999999
No 21
>KOG1067 consensus
Probab=99.75 E-value=1.6e-17 Score=117.41 Aligned_cols=207 Identities=20% Similarity=0.221 Sum_probs=164.2
Q ss_pred CEEEEEEEECCC-CCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCC-CCCCCCCCCCCCCCCCCH
Q ss_conf 178799997663-268828999968948999999333245310155434211001005556-532223334444777310
Q gi|254780630|r 10 QMREISLTRRVS-KYAEGSCLVKFGDTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRS-TGNRVKREAVSGRQGGRS 87 (242)
Q Consensus 10 e~R~i~i~~g~~-~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~r~~~~~~~~~~~~~~ 87 (242)
--|.|.+++|.+ .+|+||+.++.|+|.|+.+|..--. |. ++..-.+.+.|..-..+ +..-..+...+++..+++
T Consensus 54 GnR~i~~eTG~maRfAngsvvv~~GeT~V~ttv~~a~~-PS---p~~FlPL~VdYqek~aA~GRip~~f~rREg~tkd~E 129 (760)
T KOG1067 54 GNREILFETGKLARFANGSVVVQMGETAVMTTVVLADK-PS---PPQFLPLVVDYQEKFAAVGRIPGNFMRREGRTKDKE 129 (760)
T ss_pred CCEEEEEECCHHHHHCCCCEEECCCCEEEEEEEEECCC-CC---CCCCCEEEEEHHHHHHHHCCCCCCHHHCCCCCCCCE
T ss_conf 97479996143342127857970487589999885178-99---644403798756544441567763100147885501
Q ss_pred HHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCCCCCEEECC
Q ss_conf 23444432242100022004880222344203555763101000122210110010000014631011243783102004
Q gi|254780630|r 88 QEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKGHVAAISCG 167 (242)
Q Consensus 88 ~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~~~~~~~~~ 167 (242)
....+++++.+++......+...+|..++...+.--.....++|+++.|+....+ |...+...+..+
T Consensus 130 il~~rLidrsirplfp~g~~~etqi~~n~Ls~dG~~~pdvlainaas~Al~lsdv-------------pw~gpig~vRig 196 (760)
T KOG1067 130 ILTGRLIDRPIRPLFPKGFYHETQILCNVLSSDGVHDPDVLAINAASAALSLSDV-------------PWNGPIGAVRIG 196 (760)
T ss_pred EEEEECCCCCCCCCCCCCCHHHHHHHHHHEECCCCCCCHHHHHHHHHHHHHHCCC-------------CCCCCEEEEEEE
T ss_conf 4664213765566775520537888766511146558028877677777643148-------------777842116862
Q ss_pred CCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 545541003343101234303688875998689999218636868999999999999999999999999
Q gi|254780630|r 168 MLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQKD 236 (242)
Q Consensus 168 ~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~~ 236 (242)
.+++.++++||..|-+.+...+.++++ ..++++++..+ ..+.++.+.+++.++.+.++++..-|..
T Consensus 197 Li~Ge~vVNPT~kEmssS~Lnlvvagt-~~~~vmle~~s--~~i~qqdl~~Aikvg~~~~q~~i~~i~~ 262 (760)
T KOG1067 197 LIDGEFVVNPTRKEMSSSQLNLVVAGT-KSQTVMLEGSS--NNILQQDLLHAIKVGVKEAQQIIQGIER 262 (760)
T ss_pred EECCEEEECCCHHHHHHCCCEEEEEEC-CCEEEEEECCC--CCCCHHHHHHHHHHCCHHHHHHHHHHHH
T ss_conf 334338867516654015300588714-65289997002--4220899999997430889999999999
No 22
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polyribonucleotide nucleotidyltransferase; InterPro: IPR014069 The of the characterization of two proteins from Streptomyces coelicolor ahs been presented . The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. It has also been shown that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase ..
Probab=99.66 E-value=1.3e-17 Score=117.98 Aligned_cols=229 Identities=18% Similarity=0.196 Sum_probs=183.5
Q ss_pred CCCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCC-----CCCCCCCCCCEEEEECCCCCCCCCC
Q ss_conf 96789980117879999766326882899996894899999933324531-----0155434211001005556532223
Q gi|254780630|r 1 MRLSGRQENQMREISLTRRVSKYAEGSCLVKFGDTHLLTTATLEEKVPMW-----IRNTKHGWITAEYGMLPRSTGNRVK 75 (242)
Q Consensus 1 iR~DGR~~~e~R~i~i~~g~~~~a~GSa~v~~G~T~Vl~~V~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~r~~ 75 (242)
.|.|||...++|.+..+..++++.+||+.|+.|+|.++--.+.. ..... -.+....-....|+++|++..+...
T Consensus 341 ~r~dGrG~~dir~l~~ev~~~Pr~hGsa~f~rGetq~lGv~tl~-ml~m~q~~d~l~P~~~~ry~h~yn~PPys~Ge~Gr 419 (725)
T TIGR02696 341 VRIDGRGLTDIRSLSAEVEVIPRVHGSALFERGETQILGVTTLN-MLKMEQQIDSLSPVTSKRYLHHYNFPPYSTGETGR 419 (725)
T ss_pred CEECCCCHHHHHHHHCCEEEECCCCCHHHHHCCCEEEEHHHHHH-HHHHHHHHHHCCCHHHHHHHHCCCCCCCCCCCCCC
T ss_conf 20136764455521000024133101023205760354034778-88887655311620230011003788756676456
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEEC
Q ss_conf 33444477731023444432242100022004880222344203555763101000122210110010000014631011
Q gi|254780630|r 76 REAVSGRQGGRSQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQ 155 (242)
Q Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~ 155 (242)
.+.... ++.-...+-++++-|.++........+.-....+..+|+...-+++|..++|.++|+|+.....+...++
T Consensus 420 vG~Pkr----reiGhG~laeral~PvlP~~e~fPyair~vseal~snGstsmGsvCastl~l~~aGvPl~~~vaGiamGl 495 (725)
T TIGR02696 420 VGSPKR----REIGHGALAERALVPVLPSREEFPYAIRQVSEALGSNGSTSMGSVCASTLSLLNAGVPLKAPVAGIAMGL 495 (725)
T ss_pred CCCCCC----CCCCCCCHHHHCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
T ss_conf 688753----2025650221100034467665636899998874157763035789999999864886200020122222
Q ss_pred CCCCCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 24378310200454554100334310123430368887599868999921863686899999999999999999999999
Q gi|254780630|r 156 VLKGHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDRIADLIKLQK 235 (242)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~~~~i~~~i~ 235 (242)
..... .....+..+.|..-.|...++.++-++.+++ -++.+|...+-..++.+.+..++..|+++-..|.+.+.
T Consensus 496 ~~~~~-----~~~~~y~~ltdi~Gaeda~GdmdfkvaGt~~-~~talqldtkldGiP~~vla~al~~a~~ar~~il~~~~ 569 (725)
T TIGR02696 496 ISDEV-----DGETRYVALTDILGAEDALGDMDFKVAGTRE-FVTALQLDTKLDGIPAEVLAEALKQAKDARLAILDVLA 569 (725)
T ss_pred HHHHC-----CCCEEEEEEEECCCCCCCCCCCCEEECCHHH-HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 22200-----3542567642011320102553212214478-77777531002576478999999988988999999999
Q ss_pred HHHHH
Q ss_conf 99772
Q gi|254780630|r 236 DVISN 240 (242)
Q Consensus 236 ~~L~~ 240 (242)
+++..
T Consensus 570 ~~i~~ 574 (725)
T TIGR02696 570 EAIDT 574 (725)
T ss_pred HHHHC
T ss_conf 98507
No 23
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polyribonucleotide nucleotidyltransferase; InterPro: IPR014069 The of the characterization of two proteins from Streptomyces coelicolor ahs been presented . The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. It has also been shown that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase ..
Probab=98.91 E-value=3.1e-08 Score=65.28 Aligned_cols=212 Identities=18% Similarity=0.154 Sum_probs=158.1
Q ss_pred CEEEEEEEEC-CCCCCCCEEEEEEC-CCEEEEEEEECCCCCCCCCCCCCCCCCEEEEECCCCCCCC-CCCCCCCCCCCCC
Q ss_conf 1787999976-63268828999968-9489999993332453101554342110010055565322-2333444477731
Q gi|254780630|r 10 QMREISLTRR-VSKYAEGSCLVKFG-DTHLLTTATLEEKVPMWIRNTKHGWITAEYGMLPRSTGNR-VKREAVSGRQGGR 86 (242)
Q Consensus 10 e~R~i~i~~g-~~~~a~GSa~v~~G-~T~Vl~~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r-~~~~~~~~~~~~~ 86 (242)
--|-++.++| +..||+||+..-+. +|.++.+.+....+ .+..+...+++++.--.++.... ..+-..++++...
T Consensus 15 G~~~~rfe~G~la~qa~G~~~~yld~~tm~l~~t~~~~~P---~~~~dffPltvdveer~yaaG~iPGsffrreGrPs~~ 91 (725)
T TIGR02696 15 GTRTIRFETGRLARQAQGSVVAYLDDETMLLSATTASKQP---KDQLDFFPLTVDVEERMYAAGRIPGSFFRREGRPSTE 91 (725)
T ss_pred CCEEEEEECCHHHHHCCCCEEEEECCCEEEEEECHHCCCC---HHHCCCCCEEEEHHHHHHHCCCCCCCCCCCCCCCCHH
T ss_conf 6516664001132322773788872761466420001374---0224512205531000010267875110147897412
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCCEEEEEEEEECCCCCCCCHHHHCCCCCCCHHHCCCCCCCCCCCCEECCCCCCCCEEEC
Q ss_conf 02344443224210002200488022234420355576310100012221011001000001463101124378310200
Q gi|254780630|r 87 SQEIQRMIGRALRSVVDLSALGSRQIIIDCDVIQADGGTRTAAITGAWVALHDCLQHMEDCSNKFQLSQVLKGHVAAISC 166 (242)
Q Consensus 87 ~~~~~~~~~~~l~~~~~~~~~~~~~i~i~v~v~~~dg~~~~a~~~a~~~Al~~a~i~~~~~~~~~~~~~~~~~~~~~~~~ 166 (242)
..+..+++++.++|.+......+.++.+.+..+.-+.-....++|+++++.. .+++|+..|...+..
T Consensus 92 ail~CrlidrPlrP~f~~Glrne~q~v~tvl~~~P~~~y~~~ainaas~~t~-------------~~GlP~sGP~~Gvr~ 158 (725)
T TIGR02696 92 AILACRLIDRPLRPSFVKGLRNEVQVVVTVLSLNPDELYDVVAINAASASTQ-------------LAGLPFSGPIGGVRL 158 (725)
T ss_pred HEEEEEECCCCCCHHHHHHHHHHEEEEEEEEECCHHHHHHHHHHHHHHHHHH-------------HCCCCCCCCCCCEEE
T ss_conf 3123100046787125520012000012312017256766666543434433-------------126754466442488
Q ss_pred CCCC-CCCEECCCCCCCCCCCEEEEEEE---CC----CCC--EEEEEECCCCCCC----------CHHHHHHHHHHHHHH
Q ss_conf 4545-54100334310123430368887---59----986--8999921863686----------899999999999999
Q gi|254780630|r 167 GMLC-GYPIVDLDYGEDSTIDVDANFVM---TD----SGH--IVEVQGSAERATF----------SQDHFFAMLNLAKDR 226 (242)
Q Consensus 167 ~~~~-~~~~~d~~~~ee~~~~~~l~v~~---~~----~~~--i~~i~~~g~~~~~----------~~~~l~~~l~~a~~~ 226 (242)
+++. +.|+.-|..++...+..++.++. .. .++ |.+++...+...+ +++.+.+.++.|+.-
T Consensus 159 ali~~~qWvafP~~~~~~~a~f~~~v~Grv~~~~~~~~~dvaimmvea~~t~~~~~~~~~G~~~P~e~~v~~Gl~aak~f 238 (725)
T TIGR02696 159 ALIEDGQWVAFPTVEQLEEAVFDLVVAGRVLENEDGTEGDVAIMMVEAEATEKTLELVEGGAKAPTEEVVAEGLEAAKPF 238 (725)
T ss_pred EEEECCCEEECCCHHHHHCCEEEEEEEEEEEECCCCCCCCEEEEEEECCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf 89717825863762322013033356511231245665645899962334178999986110373278998767767899
Q ss_pred HHHHHHHHHHH
Q ss_conf 99999999999
Q gi|254780630|r 227 IADLIKLQKDV 237 (242)
Q Consensus 227 ~~~i~~~i~~~ 237 (242)
.+.+...+...
T Consensus 239 i~~l~~~q~~l 249 (725)
T TIGR02696 239 IKVLCRAQADL 249 (725)
T ss_pred HHHHHHHHHHH
T ss_conf 99999999999
No 24
>pfam03725 RNase_PH_C 3' exoribonuclease family, domain 2. This family includes 3'-5' exoribonucleases. Ribonuclease PH contains a single copy of this domain, and removes nucleotide residues following the -CCA terminus of tRNA. Polyribonucleotide nucleotidyltransferase (PNPase) contains two tandem copies of the domain. PNPase is involved in mRNA degradation in a 3'-5' direction. The exosome is a 3'-5' exoribonuclease complex that is required for 3' processing of the 5.8S rRNA. Three of its five protein components contain a copy of this domain. A hypothetical protein from S. pombe appears to belong to an uncharacterized subfamily. This subfamily is found in both eukaryotes and archaebacteria.
Probab=98.78 E-value=9.2e-09 Score=68.25 Aligned_cols=67 Identities=27% Similarity=0.447 Sum_probs=61.1
Q ss_pred CCCCEEECCCCCCCCEECCCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 78310200454554100334310123430368887599868999921863686899999999999999
Q gi|254780630|r 159 GHVAAISCGMLCGYPIVDLDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKDR 226 (242)
Q Consensus 159 ~~~~~~~~~~~~~~~~~d~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~~ 226 (242)
+++++++++++++.++.||+.+|+..++++++++++.++++|.+++.| ++.|+++++.+|+++|+++
T Consensus 1 ~~v~avtvg~i~~~~i~dpt~~Ee~~~~~~l~v~~~~~~~~v~~~~~g-~~~l~~~~l~~~l~~a~~~ 67 (67)
T pfam03725 1 GPVAAVTVGKIDGELVLDPTLEEESLADSDLTIVVAGTGDIVALMKEG-GGGLTEEELLEALELAHKG 67 (67)
T ss_pred CCEEEEEEEEECCEEEECCCHHHHHHHCCEEEEEEECCCCEEEEECCC-CCCCCHHHHHHHHHHHCCC
T ss_conf 988999999999999999896786331473689996899999999189-9785999999999987079
No 25
>pfam11558 HET-s_218-289 Het-s 218-289. This family of proteins is residues 218-289 of Het-s, a protein of Podospora anserina. Het-s plays a role in heterokaryon incompatibility which prevents different forms of parasitism. This region of the protein is the C-terminal end and is unstructured in solution but forms infectious fibrils in vitro which has a structure consisting of a left-handed beta solenoid which contains two windings per molecule.
Probab=36.55 E-value=30 Score=14.86 Aligned_cols=13 Identities=23% Similarity=0.396 Sum_probs=8.7
Q ss_pred CCCCEEEEEECCC
Q ss_conf 6882899996894
Q gi|254780630|r 23 YAEGSCLVKFGDT 35 (242)
Q Consensus 23 ~a~GSa~v~~G~T 35 (242)
+..+||.|++||-
T Consensus 15 ~~ee~ak~~lGNv 27 (72)
T pfam11558 15 RTEERARVQLGNV 27 (72)
T ss_pred CCCCCEEEEECCH
T ss_conf 3365415895316
No 26
>pfam04446 Thg1 tRNAHis guanylyltransferase. The Thg1 protein from Saccharomyces cerevisiae is responsible for adding a GMP residue to the 5' end of tRNA His.
Probab=24.85 E-value=16 Score=16.33 Aligned_cols=10 Identities=10% Similarity=0.059 Sum_probs=4.1
Q ss_pred CCEEEEEEEE
Q ss_conf 9489999993
Q gi|254780630|r 34 DTHLLTTATL 43 (242)
Q Consensus 34 ~T~Vl~~V~~ 43 (242)
||-+++.+-|
T Consensus 21 ~~~iVVRiDG 30 (181)
T pfam04446 21 NTYIVVRIDG 30 (181)
T ss_pred CCEEEEEEEC
T ss_conf 9738999647
No 27
>TIGR01421 gluta_reduc_1 glutathione-disulfide reductase; InterPro: IPR006322 These sequences represent one of two closely related subfamilies of glutathione reductase. Both are closely related to trypanothione reductase, and separate models are built so each of the three can describe proteins with conserved function. This model describes glutathione reductases of animals, yeast, and a number of animal-resident bacteria. ; GO: 0004362 glutathione-disulfide reductase activity, 0050660 FAD binding, 0050661 NADP binding, 0006749 glutathione metabolic process.
Probab=24.71 E-value=48 Score=13.70 Aligned_cols=44 Identities=11% Similarity=0.126 Sum_probs=29.8
Q ss_pred CCCCCCCCCCEEEEEEECCCCCEEEEEECCCCCCCCHHHHHHHHHHHHH
Q ss_conf 3431012343036888759986899992186368689999999999999
Q gi|254780630|r 177 LDYGEDSTIDVDANFVMTDSGHIVEVQGSAERATFSQDHFFAMLNLAKD 225 (242)
Q Consensus 177 ~~~~ee~~~~~~l~v~~~~~~~i~~i~~~g~~~~~~~~~l~~~l~~a~~ 225 (242)
....+.+.++..|..+ +++.+|+++|+-| +..++|++-+..|.|
T Consensus 406 A~~~~k~~~~~Klvca-g~eEKvVGLH~~G----~g~dEmLQGFAVAiK 449 (475)
T TIGR01421 406 ALTKEKQKCRMKLVCA-GKEEKVVGLHGIG----LGVDEMLQGFAVAIK 449 (475)
T ss_pred HHHCCCCCCCEEEEEE-CCCCCEEEEEEEC----CCHHHHHHCCCEEEE
T ss_conf 8726888665178973-8986678774204----522332311402433
Done!