Query 002070
Match_columns 973
No_of_seqs 343 out of 1899
Neff 6.0
Searched_HMMs 46136
Date Thu Mar 28 15:50:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002070.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002070hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2102 Exosomal 3'-5' exoribo 100.0 4E-117 8E-122 1085.4 46.9 636 157-964 219-858 (941)
2 TIGR00358 3_prime_RNase VacB a 100.0 4E-113 9E-118 1031.4 62.2 571 175-972 13-590 (654)
3 PRK11642 exoribonuclease R; Pr 100.0 2E-112 4E-117 1037.3 62.4 576 175-972 81-661 (813)
4 TIGR02063 RNase_R ribonuclease 100.0 1E-109 3E-114 1011.3 63.6 572 176-972 66-645 (709)
5 PRK05054 exoribonuclease II; P 100.0 8E-107 2E-111 972.6 62.3 555 177-972 20-579 (644)
6 TIGR02062 RNase_B exoribonucle 100.0 1E-105 3E-110 960.3 62.3 555 176-972 16-575 (639)
7 COG0557 VacB Exoribonuclease R 100.0 1E-104 2E-109 966.2 60.3 568 178-972 69-640 (706)
8 PF00773 RNB: RNB domain CAUTI 100.0 3.7E-75 8E-80 650.4 28.7 320 509-861 1-324 (325)
9 COG4776 Rnb Exoribonuclease II 100.0 4E-60 8.6E-65 519.0 22.7 460 401-954 97-558 (645)
10 PF08206 OB_RNB: Ribonuclease 97.8 2.2E-05 4.8E-10 66.7 3.7 44 181-227 1-44 (58)
11 PF08206 OB_RNB: Ribonuclease 86.5 2.3 4.9E-05 36.2 6.3 50 399-461 9-58 (58)
12 smart00357 CSP Cold shock prot 84.5 1.4 3.1E-05 36.9 4.2 45 180-227 1-49 (64)
13 TIGR02063 RNase_R ribonuclease 76.5 7.8 0.00017 48.9 8.6 58 399-468 79-137 (709)
14 smart00357 CSP Cold shock prot 62.3 20 0.00044 29.7 5.6 55 399-462 10-64 (64)
15 COG4871 Uncharacterized protei 21.3 1.4E+02 0.003 30.9 4.5 50 687-736 63-112 (193)
16 PF00313 CSD: 'Cold-shock' DNA 21.2 3.2E+02 0.007 23.3 6.3 48 180-227 2-53 (66)
No 1
>KOG2102 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp44/Dis3 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.8e-117 Score=1085.44 Aligned_cols=636 Identities=39% Similarity=0.641 Sum_probs=542.7
Q ss_pred ccCccCCCCHHHHHHHHHcCCeEEEEEEeccCCceeEEEEeCCcceeEEEeCCCCccccCCCCEEEEEEccchhhhhccC
Q 002070 157 CKIFAPHWSMEAVNEALEKGDAFKALYRVNAHNRLEAYCKIEGVQTDVLITGIAAQNRAVEGDFVLIKVDRLSLWAKMKG 236 (973)
Q Consensus 157 k~~F~~hls~~~V~~gLk~G~l~qG~LRVN~~N~~eAyV~~~g~~~DVlI~G~~~rNRAl~GDiVaVeLlp~~~W~~~k~ 236 (973)
|.+|++|||++.+.+||++|.+++|+||||++|+.||||.++++..+|+|+|.++||||++||+|||||+|..+|.....
T Consensus 219 k~~~~~~l~~~~~~~~~~~g~~~~g~l~i~~~n~~e~~v~~~~~~~~v~i~G~~~~NRa~~gdvVavell~~~~~~~~~~ 298 (941)
T KOG2102|consen 219 KLLFSPYLPMAKIKAGIKSGRLVQGTLRISRKNLSEAFVRVQGLDHPVLICGSKDRNRALDGDVVAVELLPVDEWRVELS 298 (941)
T ss_pred ceeeccccchhhHhhhhcccceeeceEEecccccccceeeccccCCceEEeCchhhhhhhcCCeEEEEeccchhccccch
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999952110
Q ss_pred CCCCCCccccCCCcccccCCCcccccCCccccccccccccccccccCCCCCCCCchhhhhhhhhhhccccccCCCCCCCC
Q 002070 237 FSNNSSIVEDSNLPTEANGMHSDICKGKSKVDVSYEYSNCTLLSEKGIHHDDDSSSEAYNQEMIEREGYNYINGHHPSTS 316 (973)
Q Consensus 237 ~~~~~~~~~~~~~~~e~~e~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (973)
.... + . + ....... .++...++.
T Consensus 299 ---------~~~~--~---~------~--~~~~~~~--------~~~~~~e~~--------------------------- 321 (941)
T KOG2102|consen 299 ---------SIFL--D---S------V--KVSSNIK--------ESDDEDEDG--------------------------- 321 (941)
T ss_pred ---------hhhc--c---c------c--ccccccc--------ccccccccc---------------------------
Confidence 0000 0 0 0 0000000 000000000
Q ss_pred CccccccccccccchhhhhheeeeeecCCCCCccEEEEEEEecCCCCcceEEEEEeccccccCCCCcccccccCCCCCCC
Q 002070 317 DSTEKVSSSQQNDGMNAIERLSAMISSYPTKRPTGRVVSIIERSPRRDGIVGFLNVNQWFNYKGGSRKDAKKNRSSLSVP 396 (973)
Q Consensus 317 ~~~~~~~~~~~~~~~~a~~~~~~~i~~~~~~~p~G~VV~IleR~~~~~~~vG~l~~~~~~~~~~~~~~~~~k~~~~~~~~ 396 (973)
... .....+. .....-.++|+||+|++|+|++ ++|.+....+. +.+. .
T Consensus 322 ----------~~~----~~~~~~~-~~~~~~~~~~~VV~il~r~~~~--~~~~l~~~~~~---------~~~~------~ 369 (941)
T KOG2102|consen 322 ----------TLN----LRGKAVL-SDPLPVQPTGKVVAILRRNWRQ--YVGGLLPLSEQ---------ALKG------S 369 (941)
T ss_pred ----------ccc----ccccccc-cccccccccceEEEEEecCcee--eeccccCcccc---------cccc------c
Confidence 000 0000000 0000134699999999999964 55555421110 0011 1
Q ss_pred CCceEEEEeCCCCCCceEEecC-CCChhhhhhcccCCccccceEEEEEEeecCCCCCCCcEEEEEecCCCCChhHHHHHH
Q 002070 397 DREYIQLTPTHPKYPKMVVLVK-DLPDSIKKRLEEGDATIEMELVAARIDEWNEESPFPQAHVLHVFGRGGEVEPQINAI 475 (973)
Q Consensus 397 ~~~~~~~~P~D~rip~i~i~~~-~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s~~P~G~iv~~LG~~gd~~~e~~ai 475 (973)
...++||+|.|+|+|++.|+++ +.. .+.+.++++.|++||.++.||.|++++.||..++.++++++|
T Consensus 370 ~~~~~~~~p~DkRvP~i~i~t~~~~~------------~~~~~~~~~~I~~W~~ts~~p~g~~v~~lG~i~~~~~e~~aL 437 (941)
T KOG2102|consen 370 SALIVLFIPSDKRVPLIRILTDDQAQ------------DLIDKRIVAAIDRWPRTSLYPFGHLVRELGTIGDTETETEAL 437 (941)
T ss_pred ccceeeeccccCCCCeeecccccccc------------chhceeEEEEecccccCCcccCceehhhccCcCCccchhhhh
Confidence 2478999999999999999987 332 234678999999999999999999999999999999999999
Q ss_pred HHHcCCCCCCCChhhhccCCC-CCCCCChhhhcc-CccCCCceEEEEcCCCCCCCCceEEEEEcCCceEEEEEEEccccc
Q 002070 476 LYENAICCSGFSPESLSCLPC-VPWEVPQEELLS-RKDLRNFCIFTIDPSTATDLDDALSIERLSDGISRVGVHIADVSY 553 (973)
Q Consensus 476 l~e~~l~~~~Fs~~vl~~l~~-~~~~i~~~e~~~-R~DLr~l~vfTIDp~~AkDlDDAlSie~l~~G~~~lgVHIADVS~ 553 (973)
|.+|++...+|+++++.|+|. .+|.+++++... |.|||++.||+|||++|.||||||||+.++||+|+||||||||||
T Consensus 438 L~en~v~~~~f~~~~~~~lp~~~~~~~~~~~~~~~R~Dlr~~~i~~IDp~~~~dlDdAL~~~~l~nG~~evGVHIADVt~ 517 (941)
T KOG2102|consen 438 LLENGVPHKPFSQALLDCLPRSHPWPITEEELQKLRKDLRDLLIFSIDPPGATDLDDALHVRNLPNGNLEVGVHIADVTH 517 (941)
T ss_pred hhcCCCcccccCHHHHhcCCccCCCCcChHHhhhhhhhhhhceEEeecCCCccchhhhhheeecCCCcEEEEEEeccchh
Confidence 999999889999999999999 999999999998 999999999999999999999999999999999999999999999
Q ss_pred cccCCCHhhHHHHhccceeecCCCcccCCChhhhhcccCCCCCCceEEEEEEEEEcCCCCEEEEEEEEEEEecCcccCHH
Q 002070 554 FVLPGTALDIEAQVRSTSVYMLQRKIPMLPVLLSEEVGSLNPGVDRLAFSIFWDLNSAGDVVDRWIGRTVIRSCCKLSYE 633 (973)
Q Consensus 554 fV~~gS~LD~eA~~RgtSvYLp~rvipMLP~~Ls~~lcSL~pg~dRlA~Sv~~~id~~G~i~~~~f~~SvIrS~~rLTYe 633 (973)
||.|||+||+||++|||||||++++|||||+.||+++|||.||+||+||||.|+|+.+|.|+..||++|+|+|+++|+|+
T Consensus 518 fV~pgs~lD~eA~~R~ttvyL~q~~i~MLP~~L~~~lcSL~~g~dr~aFSvvwel~~~~~i~~~~f~ksvI~s~~~lsye 597 (941)
T KOG2102|consen 518 FVKPGSALDREAARRGTTVYLVQKRIPMLPKLLSEELCSLRPGVDRLAFSVVWELDSDGSILKTWFGKSVIRSKAALSYE 597 (941)
T ss_pred hcCCCCccCHHHHhhcceEEeccccccCCchhhhhhheeccCCCceeeEEEEEEEcCCCceeeceecchhcccchhhhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHccCCCccccCcCCCCCCcccCCCchhhHHHHHHHHHHHHHHHHHHHhcCCCccccCCCceeeeCCCC-CeeEEE
Q 002070 634 HAQDIIDGKFDVESSNTLGEGWPQLYGQFEWSDVVRSIKSLYEVSKILKDKRFTDGALRLENSKPVFLFDEYG-TPYDSV 712 (973)
Q Consensus 634 ~vq~iL~~~~~~~~~~~~~~~~p~~~~~~~~~~i~~~L~~L~~lA~~Lr~~R~~~Gal~l~~~e~~~~lDe~g-~p~~~~ 712 (973)
+||++|+++.. ..++...|+.|.+||+.||++|+.+|++.+..+++.|.+|+.+ .|.++.
T Consensus 598 ~Aq~~id~~~~-------------------~~~v~~~l~~l~~ia~~lr~~R~~~gal~l~~~e~~~~~d~~~~~p~~~e 658 (941)
T KOG2102|consen 598 EAQDILDTPNS-------------------SDPLTSSLRLLHEIAKILRQKRLDNGALLLRSPELRFLLDEEKPNPQDVE 658 (941)
T ss_pred HHHHHhcCCcc-------------------cchhhhhHHHHHHHHHHHHHHHhccCCcccccHhHHhhhccCCCCccccc
Confidence 99999998422 1267789999999999999999999999999999999999876 788888
Q ss_pred eccCCcHHHHHHHHHHHHHHHHHHHHHHhCCCcceEEeCCCCChHHHHHHHHHHHHcCCccCCCChhHHHHHHHHHHHhh
Q 002070 713 LSGREDLNFLFEEFMLLANKTAAEVIARAFPDSALLRRHPAPNMRKLREFEAFCSKHGLQLDTSSSGQFHQSLEQAREKL 792 (973)
Q Consensus 713 ~~~~~~s~~LIEEfMllAN~~VA~~l~~~~~~~allR~H~~P~~~kl~~l~~~~~~~G~~ld~~~s~~l~~sL~~i~~~~ 792 (973)
.++..+++.||||||++||.+||++|...||.+++||+||.|....++.+.++|..+|+.+|.++++.|..+|.++.+..
T Consensus 659 ~~~~~~~n~lveEfmllaN~~vA~~I~~~f~~~alLR~hp~P~~~~~~~~~~~~~~~g~~ld~sS~~~L~~Sl~r~~~~~ 738 (941)
T KOG2102|consen 659 VKELTETNFLVEEFMLLANISVAEKILASFPSLALLRRHPSPPPENFKPLVSLCLELGFNLDTSSSKSLADSLDRIRDDD 738 (941)
T ss_pred eeeeehhhhHHHHHHHHHhHHHHHHHHHhCCchhhhccCCCCccccccHHHHHHHHcCCCccccchHHHhhhHhhhcCCc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999998753
Q ss_pred cCCHHHHHHHHHHHcccccCceecccCCCCCCCCcccccccCCCccccccccCchhhHHHHHHHHHHHHhhhhhhhhhcc
Q 002070 793 KDDYVLFDILINYATRPMQLASYFCSGDFKDDTDWGHYALAFPVYTHFTSPLRRYPDLVVHRTLNAALEAEKLYWKHRRM 872 (973)
Q Consensus 793 ~~~~~~~~~L~~~~lr~m~~A~Y~~sg~~~s~~~~~HfgL~~~~YTHFTSPIRRYaDLiVHR~L~a~L~~~~~~~~~~~~ 872 (973)
.|....+|..+++|+|.+|+|||+|.. ++..++|||||+|.|||||||||||+||+|||||++......
T Consensus 739 --~p~~~~~l~~l~~r~m~~A~yf~sg~~-~~~~~~HygLa~p~YTHFTsPiRRY~DIivHrqL~~~~~~~~-------- 807 (941)
T KOG2102|consen 739 --KPYLNTLLRILATRSMTRAVYFCSGSS-DTPQFHHYGLASPLYTHFTSPIRRYADIIVHRQLAAAFLERS-------- 807 (941)
T ss_pred --hHHHHHHHHHHHhhhhhceeEEeeccc-CcchhhchhhcccchhhccCcccccchHHHHHHHHHHhhccC--------
Confidence 367777889999999999999999973 568899999999999999999999999999999997332110
Q ss_pred CCCCCCccccccccccccccccchhhhhhhhhHHHHHhhhcCCCchhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Q 002070 873 LPKNNHREGVRGRFLTGIFYDKDAAESLEGREALSVAALKYGVPCADILVNVATHCNDRKLACRNVKDACVKLYMWILLK 952 (973)
Q Consensus 873 ~~~~~~~~~~~~~~~~~i~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~ia~~cNerk~~Ar~a~~~~~~l~~~~~~k 952 (973)
. ..++...+..+|.+||.|+++|+.|+++|..+|++.|++
T Consensus 808 ~----------------------------------------~~~~~~~l~~i~~~~N~r~~~a~~a~~~S~~l~~~~~~k 847 (941)
T KOG2102|consen 808 P----------------------------------------TAPDRPNLSSLAANCNERKKAAKKAQEASTELYLCEYLK 847 (941)
T ss_pred c----------------------------------------cccccccHHHHHhhhhhhHHHHHHHHHhhHHHHHHHHHH
Confidence 0 011123688999999999999999999999999999999
Q ss_pred hcccEeeCeEEE
Q 002070 953 KKEVLFSCLILY 964 (973)
Q Consensus 953 ~~~~~~~~~iv~ 964 (973)
.+ .+..+|+|+
T Consensus 848 ~~-~~~~~a~v~ 858 (941)
T KOG2102|consen 848 DK-QVLEEAVVL 858 (941)
T ss_pred hc-ccccceEEE
Confidence 98 556666665
No 2
>TIGR00358 3_prime_RNase VacB and RNase II family 3'-5' exoribonucleases. This model is defined to identify a pair of paralogous 3-prime exoribonucleases in E. coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterized originally as required for the expression of virulence genes, but is now recognized as the exoribonuclease RNase R (Rnr). Its paralog in E. coli and H. influenzae is designated exoribonuclease II (Rnb). Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cutoff to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3-prime exoribonucleases.
Probab=100.00 E-value=4.1e-113 Score=1031.39 Aligned_cols=571 Identities=27% Similarity=0.389 Sum_probs=496.5
Q ss_pred cCCeEEEEEEeccCCceeEEEEeCC-cceeEEEeCCCCccccCCCCEEEEEEccchhhhhccCCCCCCCccccCCCcccc
Q 002070 175 KGDAFKALYRVNAHNRLEAYCKIEG-VQTDVLITGIAAQNRAVEGDFVLIKVDRLSLWAKMKGFSNNSSIVEDSNLPTEA 253 (973)
Q Consensus 175 ~G~l~qG~LRVN~~N~~eAyV~~~g-~~~DVlI~G~~~rNRAl~GDiVaVeLlp~~~W~~~k~~~~~~~~~~~~~~~~e~ 253 (973)
...+++|+++++++.+ |||..++ ...||||.+. ++|+|+|||+|.|+|.+...
T Consensus 13 ~~~~~~G~i~~~~~gf--gFv~~~~~~~~difI~~~-~~~~a~~GD~V~v~i~~~~~----------------------- 66 (654)
T TIGR00358 13 KDDLVKGVVKAHNKGF--GFLRPDDDDKKDYFIPPP-QMKKVMHGDLVEACPLSQPQ----------------------- 66 (654)
T ss_pred CCCeEEEEEEECCCcc--EEEEeCCCCCCcEEEchH-HhCcCCCCCEEEEEEeecCC-----------------------
Confidence 3457999999999887 8998875 3579999985 99999999999999743100
Q ss_pred cCCCcccccCCccccccccccccccccccCCCCCCCCchhhhhhhhhhhccccccCCCCCCCCCccccccccccccchhh
Q 002070 254 NGMHSDICKGKSKVDVSYEYSNCTLLSEKGIHHDDDSSSEAYNQEMIEREGYNYINGHHPSTSDSTEKVSSSQQNDGMNA 333 (973)
Q Consensus 254 ~e~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a 333 (973)
T Consensus 67 -------------------------------------------------------------------------------- 66 (654)
T TIGR00358 67 -------------------------------------------------------------------------------- 66 (654)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hhheeeeeecCCCCCccEEEEEEEecCCCCcceEEEEEeccccccCCCCcccccccCCCCCCCCCceEEEEeCCCCCCce
Q 002070 334 IERLSAMISSYPTKRPTGRVVSIIERSPRRDGIVGFLNVNQWFNYKGGSRKDAKKNRSSLSVPDREYIQLTPTHPKYPKM 413 (973)
Q Consensus 334 ~~~~~~~i~~~~~~~p~G~VV~IleR~~~~~~~vG~l~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~P~D~rip~i 413 (973)
+++|+|+|++||+|++ +.+||++.. .+ +..+|+|.|++++..
T Consensus 67 ------------~~~~~g~v~~il~r~~--~~~vG~~~~----------------~~--------~~~~v~p~~~~~~~~ 108 (654)
T TIGR00358 67 ------------RGRFEAEVERILEPAL--TRFVGKFLG----------------EN--------DFGFVVPDDPRIYLD 108 (654)
T ss_pred ------------CCCceEEEEEEeccCC--CEEEEEEEE----------------eC--------CeEEEEECCCCCCCc
Confidence 1237899999999985 579999882 11 356899999999984
Q ss_pred EEecCCCChhhhhhcccCCccccceEEEEEEeecCCCCCCCcEEEEEecCCCCChhHHHHHHHHHcCCCCCCCChhhhcc
Q 002070 414 VVLVKDLPDSIKKRLEEGDATIEMELVAARIDEWNEESPFPQAHVLHVFGRGGEVEPQINAILYENAICCSGFSPESLSC 493 (973)
Q Consensus 414 ~i~~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s~~P~G~iv~~LG~~gd~~~e~~ail~e~~l~~~~Fs~~vl~~ 493 (973)
++.+.. .....+++| .+|+|+|++||..+.+|.|+|+++||..+++.++++++|.+|+|. .+||++++++
T Consensus 109 i~i~~~---~~~~~~~~g------~~V~v~i~~~p~~~~~~~g~i~~~lG~~~d~~~~~~~il~~~~i~-~~f~~~v~~~ 178 (654)
T TIGR00358 109 IIVPKA---SVKNELAEG------DKVVVELTEYPLRRNLFYGEITQILGNNDDPLIPWWVTLARHEIP-FEFPDGVEQQ 178 (654)
T ss_pred EEEcCC---ccccCCCCC------CEEEEEEccCCCCCCCceEEEEEEEcCCCCcccHHHHHHHHcCcC-CCCCHHHHHH
Confidence 443221 011123344 489999999999999999999999999999999999999999995 6999999999
Q ss_pred CCCCCCCCChhhhccCccCCCceEEEEcCCCCCCCCceEEEEEcCCceEEEEEEEccccccccCCCHhhHHHHhccceee
Q 002070 494 LPCVPWEVPQEELLSRKDLRNFCIFTIDPSTATDLDDALSIERLSDGISRVGVHIADVSYFVLPGTALDIEAQVRSTSVY 573 (973)
Q Consensus 494 l~~~~~~i~~~e~~~R~DLr~l~vfTIDp~~AkDlDDAlSie~l~~G~~~lgVHIADVS~fV~~gS~LD~eA~~RgtSvY 573 (973)
++.++|.+++++.+.|+|||++++|||||++|+||||||||+++++|+|+||||||||||||++||+||+||++||||||
T Consensus 179 a~~~~~~~~~~~~~~R~Dlr~~~~~TID~~~a~D~DDAisie~~~~g~~~l~VHIADVs~~V~~~s~LD~eA~~R~tSvY 258 (654)
T TIGR00358 179 AAKLQFDVDEQAKKYREDLTDLAFVTIDGADAKDLDDAVYVKKLPDGGWKLYVAIADVSYYVAENSPLDKEAKHRGFSVY 258 (654)
T ss_pred HHhccccCChhHhhCccccccCcEEEECCCCCCcccceEEEEEeCCCcEEEEEEEechhheeCCCCHHHHHHHHhCcCcc
Confidence 99999999999999999999999999999999999999999999899999999999999999999999999999999999
Q ss_pred cCCCcccCCChhhhhcccCCCCCCceEEEEEEEEEcCCCCEEEEEEEEEEEecCcccCHHHHHHHHccCCCccccCcCCC
Q 002070 574 MLQRKIPMLPVLLSEEVGSLNPGVDRLAFSIFWDLNSAGDVVDRWIGRTVIRSCCKLSYEHAQDIIDGKFDVESSNTLGE 653 (973)
Q Consensus 574 Lp~rvipMLP~~Ls~~lcSL~pg~dRlA~Sv~~~id~~G~i~~~~f~~SvIrS~~rLTYe~vq~iL~~~~~~~~~~~~~~ 653 (973)
||++++||||+.||+++|||+||++|+||||.|+||.+|+|++++|++|+|+|+++|||++|+++|++.....
T Consensus 259 lp~~~ipMLP~~Ls~~~cSL~p~~~R~a~s~~~~id~~G~i~~~~~~~svI~s~~rltY~~v~~~l~~~~~~~------- 331 (654)
T TIGR00358 259 LPGFVIPMLPEELSNGLCSLNPNEDRLVLVCEMTISAQGRITDNEFYPATIESKARLTYDKVNDWLENDDELQ------- 331 (654)
T ss_pred CCCCeecCCCHHHhcCccccCCCCcceEEEEEEEECCCCCEeEEEEEEEEEEECcEEcHHHHHHHHcCCcccc-------
Confidence 9999999999999999999999999999999999999999999999999999999999999999998742110
Q ss_pred CCCcccCCCchhhHHHHHHHHHHHHHHHHHHHhcCCCccccCCCceeeeCCCCCeeEEEeccCCcHHHHHHHHHHHHHHH
Q 002070 654 GWPQLYGQFEWSDVVRSIKSLYEVSKILKDKRFTDGALRLENSKPVFLFDEYGTPYDSVLSGREDLNFLFEEFMLLANKT 733 (973)
Q Consensus 654 ~~p~~~~~~~~~~i~~~L~~L~~lA~~Lr~~R~~~Gal~l~~~e~~~~lDe~g~p~~~~~~~~~~s~~LIEEfMllAN~~ 733 (973)
...+++.++|..|++||++||++|.++|+|.|+.|+++|.+|++|.+.++...++.+||.|||||||+||++
T Consensus 332 --------~~~~~~~~~L~~l~~la~~lr~~R~~~Gai~~~~~e~~~~~d~~g~~~~i~~~~~~~a~~lIeE~MilAN~~ 403 (654)
T TIGR00358 332 --------PEYETLVEQLKALHQLSQALGEWRHKRGLIDFEHPETKFIVDEEGRVIDIVAEVRRIAEKIIEEAMIVANIC 403 (654)
T ss_pred --------hhhHHHHHHHHHHHHHHHHHHHHHHHCCCcccCCCceeEEECCCCCeeEEEeccCcHHHHHHHHHHHHHHHH
Confidence 013567889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCcceEEeCCCCChHHHHHHHHHHHHcCCccCCC-----ChhHHHHHHHHHHHhhcCCHHHHHHHHHHHcc
Q 002070 734 AAEVIARAFPDSALLRRHPAPNMRKLREFEAFCSKHGLQLDTS-----SSGQFHQSLEQAREKLKDDYVLFDILINYATR 808 (973)
Q Consensus 734 VA~~l~~~~~~~allR~H~~P~~~kl~~l~~~~~~~G~~ld~~-----~s~~l~~sL~~i~~~~~~~~~~~~~L~~~~lr 808 (973)
||+|+.++ +.|++||+|++|+.+++++|.+++..+|+.++.. .+..++..|..+. +.+. ..+|..+++|
T Consensus 404 vA~~~~~~-~~p~iyR~h~~p~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~l~~~~----~~~~-~~~l~~~llr 477 (654)
T TIGR00358 404 AARFLHNH-KVPGIYRVHPGPSKKKLQSLLEFLAELGLTLPGGNAENVTTLDGACWLREVK----DRPE-YEILVTRLLR 477 (654)
T ss_pred HHHHHHHc-CCCeEEecCCCCCHHHHHHHHHHHHHcCCCccCCCcCCCChHHHHHHHHHhh----CCCH-HHHHHHHHHH
Confidence 99999987 7899999999999999999999999999987432 2344555555543 3333 3567778899
Q ss_pred cccCceecccCCCCCCCCcccccccCCCccccccccCchhhHHHHHHHHHHHHhhhhhhhhhccCCCCCCcccccccccc
Q 002070 809 PMQLASYFCSGDFKDDTDWGHYALAFPVYTHFTSPLRRYPDLVVHRTLNAALEAEKLYWKHRRMLPKNNHREGVRGRFLT 888 (973)
Q Consensus 809 ~m~~A~Y~~sg~~~s~~~~~HfgL~~~~YTHFTSPIRRYaDLiVHR~L~a~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 888 (973)
+|++|.| +..+.+|||||++.|||||||||||+||+|||||+++|.+++... . .
T Consensus 478 ~m~~A~y-------~~~~~~HfgL~~~~YthfTSPIRRY~DLivHr~L~a~l~~~~~~~----~-~-------------- 531 (654)
T TIGR00358 478 SLSQAEY-------SPEPLGHFGLGLEHYAHFTSPIRRYPDLTNHRLIKAVLAKEQTDT----E-R-------------- 531 (654)
T ss_pred hhccccc-------CCCCCCccccccccccccCCccccchHHHHHHHHHHHHcCCCCcc----c-c--------------
Confidence 9999999 468999999999999999999999999999999999997543100 0 0
Q ss_pred ccccccchhhhhhhhhHHHHHhhhcCCCchhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHh-cccEeeCeEEEEEE
Q 002070 889 GIFYDKDAAESLEGREALSVAALKYGVPCADILVNVATHCNDRKLACRNVKDACVKLYMWILLKK-KEVLFSCLILYLTS 967 (973)
Q Consensus 889 ~i~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~ia~~cNerk~~Ar~a~~~~~~l~~~~~~k~-~~~~~~~~iv~~~s 967 (973)
. ...+.|..+|+|||++++.|++|++++.++|.|.|++. .|..+.+.|+.++.
T Consensus 532 --~------------------------~~~~~l~~~~~~~~~~er~a~~aer~~~~~~~~~yl~~~iG~~~~g~I~~v~~ 585 (654)
T TIGR00358 532 --Y------------------------QPQDELLQIAEHCSDTERRARDAERDVADWLKCRYLLDKVGTEFSGEISSVTR 585 (654)
T ss_pred --h------------------------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCCCcEEEEEEEeEEc
Confidence 0 01356889999999999999999999999999999998 57778888888999
Q ss_pred eeeee
Q 002070 968 FSTIH 972 (973)
Q Consensus 968 ~g~~~ 972 (973)
||+|.
T Consensus 586 ~GifV 590 (654)
T TIGR00358 586 FGMFV 590 (654)
T ss_pred CcEEE
Confidence 99984
No 3
>PRK11642 exoribonuclease R; Provisional
Probab=100.00 E-value=2e-112 Score=1037.34 Aligned_cols=576 Identities=26% Similarity=0.377 Sum_probs=497.4
Q ss_pred cCCeEEEEEEeccCCceeEEEEeCCcceeEEEeCCCCccccCCCCEEEEEEccchhhhhccCCCCCCCccccCCCccccc
Q 002070 175 KGDAFKALYRVNAHNRLEAYCKIEGVQTDVLITGIAAQNRAVEGDFVLIKVDRLSLWAKMKGFSNNSSIVEDSNLPTEAN 254 (973)
Q Consensus 175 ~G~l~qG~LRVN~~N~~eAyV~~~g~~~DVlI~G~~~rNRAl~GDiVaVeLlp~~~W~~~k~~~~~~~~~~~~~~~~e~~ 254 (973)
...++.|+++++++.+ +||..++...||||... ++|.|+|||.|.|++.+..
T Consensus 81 ~~~~~~G~v~~~~~Gf--gFv~~e~~~~difI~~~-~l~~A~~GD~V~v~i~~~~------------------------- 132 (813)
T PRK11642 81 RLDLLKGTVIGHRDGY--GFLRVEGRKDDLYLSSE-QMKTCIHGDQVLAQPLGAD------------------------- 132 (813)
T ss_pred cCceEEEEEEECCCcc--EEEEECCCCCCEEEChH-HHccCCCCCEEEEEEccCC-------------------------
Confidence 3457899999998776 79888765569999775 8999999999999852200
Q ss_pred CCCcccccCCccccccccccccccccccCCCCCCCCchhhhhhhhhhhccccccCCCCCCCCCccccccccccccchhhh
Q 002070 255 GMHSDICKGKSKVDVSYEYSNCTLLSEKGIHHDDDSSSEAYNQEMIEREGYNYINGHHPSTSDSTEKVSSSQQNDGMNAI 334 (973)
Q Consensus 255 e~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~ 334 (973)
T Consensus 133 -------------------------------------------------------------------------------- 132 (813)
T PRK11642 133 -------------------------------------------------------------------------------- 132 (813)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hheeeeeecCCCCCccEEEEEEEecCCCCcceEEEEEeccccccCCCCcccccccCCCCCCCCCceEEEEeCCCCCCceE
Q 002070 335 ERLSAMISSYPTKRPTGRVVSIIERSPRRDGIVGFLNVNQWFNYKGGSRKDAKKNRSSLSVPDREYIQLTPTHPKYPKMV 414 (973)
Q Consensus 335 ~~~~~~i~~~~~~~p~G~VV~IleR~~~~~~~vG~l~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~P~D~rip~i~ 414 (973)
.+++++|+||+||+|+. ..+||++.. .. +..+++|.|.|++..+
T Consensus 133 ----------~~~r~eg~Vv~IleR~~--~~~vG~~~~----------------~~--------~~~~v~P~d~r~~~~i 176 (813)
T PRK11642 133 ----------RKGRREARIVRVLVPKT--SQIVGRYFT----------------DA--------GVGFVVPDDSRLSFDI 176 (813)
T ss_pred ----------CCCCcEEEEEEEEecCC--CEEEEEEEE----------------eC--------CeEEEEECCCCCCCcE
Confidence 01236999999999985 579999982 11 3568999999999854
Q ss_pred EecCCCChhhhhhcccCCccccceEEEEEEeecCCCCCCCcEEEEEecCCCCChhHHHHHHHHHcCCCCCCCChhhhccC
Q 002070 415 VLVKDLPDSIKKRLEEGDATIEMELVAARIDEWNEESPFPQAHVLHVFGRGGEVEPQINAILYENAICCSGFSPESLSCL 494 (973)
Q Consensus 415 i~~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s~~P~G~iv~~LG~~gd~~~e~~ail~e~~l~~~~Fs~~vl~~l 494 (973)
..+.. . ...+++| .+|+|+|++||.....|.|+|+++||..+++.++++++|.+|+| +.+||++|++++
T Consensus 177 ~i~~~---~-~~~~~~g------d~V~v~I~~~p~~~~~~~g~iv~vLG~~~d~~~d~~~il~~~~i-p~~Fp~~v~~ea 245 (813)
T PRK11642 177 LIPPE---Q-IMGARMG------FVVVVELTQRPTRRTKAVGKIVEVLGDNMGTGMAVDIALRTHEI-PYIWPQAVEQQV 245 (813)
T ss_pred Eeccc---c-ccCCCCC------CEEEEEEecCCCcCCCCCEEEEEEecCCCCcchHHHHHHHHcCC-CCCCCHHHHHHH
Confidence 43221 1 1234444 48999999999999999999999999999999999999999999 468999999999
Q ss_pred CCCCCCCChhhhccCccCCCceEEEEcCCCCCCCCceEEEEEcCCceEEEEEEEccccccccCCCHhhHHHHhccceeec
Q 002070 495 PCVPWEVPQEELLSRKDLRNFCIFTIDPSTATDLDDALSIERLSDGISRVGVHIADVSYFVLPGTALDIEAQVRSTSVYM 574 (973)
Q Consensus 495 ~~~~~~i~~~e~~~R~DLr~l~vfTIDp~~AkDlDDAlSie~l~~G~~~lgVHIADVS~fV~~gS~LD~eA~~RgtSvYL 574 (973)
..++|.+++++.++|+|||++++|||||++|+||||||||+++++|+|+||||||||||||++||+||+||++|||||||
T Consensus 246 ~~~~~~~~~~~~~~R~DLr~l~~vTID~~~akD~DDAvsie~~~~g~~~L~VHIADVs~yV~~gS~LD~eA~~RgtSvYl 325 (813)
T PRK11642 246 AGLKEEVPEEAKAGRVDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYF 325 (813)
T ss_pred HhccccCChhHhccccccccCcEEEECCCCCCcccceEEEEEeCCCcEEEEEEecchhheeCCCCHHHHHHHHhCCeEeC
Confidence 99999999999999999999999999999999999999999998999999999999999999999999999999999999
Q ss_pred CCCcccCCChhhhhcccCCCCCCceEEEEEEEEEcCCCCEEEEEEEEEEEecCcccCHHHHHHHHccCCCccccCcCCCC
Q 002070 575 LQRKIPMLPVLLSEEVGSLNPGVDRLAFSIFWDLNSAGDVVDRWIGRTVIRSCCKLSYEHAQDIIDGKFDVESSNTLGEG 654 (973)
Q Consensus 575 p~rvipMLP~~Ls~~lcSL~pg~dRlA~Sv~~~id~~G~i~~~~f~~SvIrS~~rLTYe~vq~iL~~~~~~~~~~~~~~~ 654 (973)
|++++||||+.||+++|||+||++|+||||.|+||.+|+|++++|++|+|+|+++|||++|+++|+++....
T Consensus 326 pd~viPMLP~~Lsn~lcSL~p~~dRla~s~~~~id~~G~v~~~~~~~svI~s~~rltY~~v~~~l~~~~~~~-------- 397 (813)
T PRK11642 326 PSQVVPMLPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDLR-------- 397 (813)
T ss_pred CCceeeCCCHHHhcCccccCCCCceeEEEEEEEECCCCCCcCCEEEEEEEEECceECHHHHHHHHcCCcccc--------
Confidence 999999999999999999999999999999999999999999999999999999999999999998742210
Q ss_pred CCcccCCCchhhHHHHHHHHHHHHHHHHHHHhcCCCccccCCCceeeeCCCCCeeEEEeccCCcHHHHHHHHHHHHHHHH
Q 002070 655 WPQLYGQFEWSDVVRSIKSLYEVSKILKDKRFTDGALRLENSKPVFLFDEYGTPYDSVLSGREDLNFLFEEFMLLANKTA 734 (973)
Q Consensus 655 ~p~~~~~~~~~~i~~~L~~L~~lA~~Lr~~R~~~Gal~l~~~e~~~~lDe~g~p~~~~~~~~~~s~~LIEEfMllAN~~V 734 (973)
..+.++.++|..|+++|++|+++|+++|+|+|+.||++|.+|++|.+..+...++.+||.|||||||+||++|
T Consensus 398 -------~~~~~~~~~L~~l~~la~~Lr~~R~~~Gai~~d~~E~~i~ld~~g~~~~i~~~~~~~a~~lIEE~MllAN~~v 470 (813)
T PRK11642 398 -------EQYAPLVKHLEELHNLYKVLDKAREERGGISFESEEAKFIFNAERRIERIEQTQRNDAHKLIEECMILANISA 470 (813)
T ss_pred -------hhhhHHHHHHHHHHHHHHHHHHHHHHCCCcccCCCceEEEECCCCCEeeEEecccccHHHHHHHHHHHHHHHH
Confidence 1235678999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCcceEEeCCCCChHHHHHHHHHHHHcCCccCCCC---hhHHHHHHHHHHHhhcCCHHHHHHHHHHHccccc
Q 002070 735 AEVIARAFPDSALLRRHPAPNMRKLREFEAFCSKHGLQLDTSS---SGQFHQSLEQAREKLKDDYVLFDILINYATRPMQ 811 (973)
Q Consensus 735 A~~l~~~~~~~allR~H~~P~~~kl~~l~~~~~~~G~~ld~~~---s~~l~~sL~~i~~~~~~~~~~~~~L~~~~lr~m~ 811 (973)
|+|+.++ +.|++||+|+.|+++++++|.+++..+|+.++... +..++..|..+ .+.|. ..+|..+++|+|+
T Consensus 471 A~~l~~~-~~p~lyR~H~~P~~ekl~~l~~~l~~lG~~l~~~~~~~~~~~~~ll~~~----~~~~~-~~~l~~~llRsm~ 544 (813)
T PRK11642 471 ARFVEKA-KEPALFRIHDKPSTEAITSFRSVLAELGLELPGGNKPEPRDYAELLESV----ADRPD-AEMLQTMLLRSMK 544 (813)
T ss_pred HHHHHHC-CCCEEEEeCCCCCHHHHHHHHHHHHHcCCcccCCCCCCHHHHHHHHHHH----hCCcH-HHHHHHHHHHhcc
Confidence 9999875 79999999999999999999999999999986432 34455555555 34443 3567788899999
Q ss_pred CceecccCCCCCCCCcccccccCCCccccccccCchhhHHHHHHHHHHHHhhhhhhhhhccCCCCCCccccccccccc-c
Q 002070 812 LASYFCSGDFKDDTDWGHYALAFPVYTHFTSPLRRYPDLVVHRTLNAALEAEKLYWKHRRMLPKNNHREGVRGRFLTG-I 890 (973)
Q Consensus 812 ~A~Y~~sg~~~s~~~~~HfgL~~~~YTHFTSPIRRYaDLiVHR~L~a~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-i 890 (973)
+|.| ++++.+||||+++.||||||||||||||||||+|+++|.++.-. ..|++. .
T Consensus 545 ~A~Y-------~~~~~gHfGLa~~~YtHFTSPIRRY~DLivHR~Lk~~L~~~~~~-----------------~~~~~~~~ 600 (813)
T PRK11642 545 QAIY-------DPENRGHFGLALQSYAHFTSPIRRYPDLSLHRAIKYLLAKEQGH-----------------KGNTTETG 600 (813)
T ss_pred cccc-------CCCCCCccccccccccccCchhhhhHHHHHHHHHHHHHhCCCCc-----------------cccccccc
Confidence 9999 56899999999999999999999999999999999999754210 011110 1
Q ss_pred ccccchhhhhhhhhHHHHHhhhcCCCchhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHh-cccEeeCeEEEEEEee
Q 002070 891 FYDKDAAESLEGREALSVAALKYGVPCADILVNVATHCNDRKLACRNVKDACVKLYMWILLKK-KEVLFSCLILYLTSFS 969 (973)
Q Consensus 891 ~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~ia~~cNerk~~Ar~a~~~~~~l~~~~~~k~-~~~~~~~~iv~~~s~g 969 (973)
.|.. ..+.|..+|+|||++++.|..|++++.++++|.|++. .|..+.+.|+.|++||
T Consensus 601 ~~~~----------------------~~~~l~~~~~~~s~~er~A~~aeR~~~~~~~~~~m~~~iGe~f~G~Is~V~~fG 658 (813)
T PRK11642 601 GYHY----------------------SMEEMLQLGQHCSMTERRADEATRDVADWLKCDFMLDQVGNVFKGVISSVTGFG 658 (813)
T ss_pred cccc----------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCCcEEEEEEEEeecCc
Confidence 2210 1245789999999999999999999999999999996 7888888888999999
Q ss_pred eee
Q 002070 970 TIH 972 (973)
Q Consensus 970 ~~~ 972 (973)
||.
T Consensus 659 ifV 661 (813)
T PRK11642 659 FFV 661 (813)
T ss_pred eEE
Confidence 994
No 4
>TIGR02063 RNase_R ribonuclease R. This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans.
Probab=100.00 E-value=1.5e-109 Score=1011.30 Aligned_cols=572 Identities=31% Similarity=0.436 Sum_probs=495.5
Q ss_pred CCeEEEEEEeccCCceeEEEEeCC-cceeEEEeCCCCccccCCCCEEEEEEccchhhhhccCCCCCCCccccCCCccccc
Q 002070 176 GDAFKALYRVNAHNRLEAYCKIEG-VQTDVLITGIAAQNRAVEGDFVLIKVDRLSLWAKMKGFSNNSSIVEDSNLPTEAN 254 (973)
Q Consensus 176 G~l~qG~LRVN~~N~~eAyV~~~g-~~~DVlI~G~~~rNRAl~GDiVaVeLlp~~~W~~~k~~~~~~~~~~~~~~~~e~~ 254 (973)
..++.|+++++++.+ |||..++ ...||||.. .+.|.|++||.|.|+|.+ |..
T Consensus 66 ~~~~~G~i~~~~~g~--gFv~~~~~~~~di~I~~-~~~~~a~~GD~Vlv~I~~---~~~--------------------- 118 (709)
T TIGR02063 66 LKLVKGTVIAHRDGF--GFLRPEDDDEDDIFIPP-RQMNGAMHGDRVLVRITG---KPD--------------------- 118 (709)
T ss_pred CCeEEEEEEECCCcc--EEEEECCCCCCcEEECh-HHhCcCCCCCEEEEEEec---ccC---------------------
Confidence 347889999987665 8998876 467999987 589999999999999743 100
Q ss_pred CCCcccccCCccccccccccccccccccCCCCCCCCchhhhhhhhhhhccccccCCCCCCCCCccccccccccccchhhh
Q 002070 255 GMHSDICKGKSKVDVSYEYSNCTLLSEKGIHHDDDSSSEAYNQEMIEREGYNYINGHHPSTSDSTEKVSSSQQNDGMNAI 334 (973)
Q Consensus 255 e~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~ 334 (973)
T Consensus 119 -------------------------------------------------------------------------------- 118 (709)
T TIGR02063 119 -------------------------------------------------------------------------------- 118 (709)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hheeeeeecCCCCCccEEEEEEEecCCCCcceEEEEEeccccccCCCCcccccccCCCCCCCCCceEEEEeCCCCCCc-e
Q 002070 335 ERLSAMISSYPTKRPTGRVVSIIERSPRRDGIVGFLNVNQWFNYKGGSRKDAKKNRSSLSVPDREYIQLTPTHPKYPK-M 413 (973)
Q Consensus 335 ~~~~~~i~~~~~~~p~G~VV~IleR~~~~~~~vG~l~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~P~D~rip~-i 413 (973)
++++++|+|+.|++|.. +.+||++.. .. ++.+|+|.|+|+|. +
T Consensus 119 ----------~~~~~eg~Vv~Il~r~~--~~~VG~~~~----------------~~--------~~~~v~p~d~~~~~~I 162 (709)
T TIGR02063 119 ----------GGDRFEARVIKILERAN--DQIVGTFYI----------------EN--------GIGFVIPDDKRIYLDI 162 (709)
T ss_pred ----------CCCCceEEEEEEEeeCC--CEEEEEEEE----------------cC--------cEEEEEECCCCCCCCE
Confidence 01236899999999984 679999982 11 46789999999987 5
Q ss_pred EEecCCCChhhhhhcccCCccccceEEEEEEeecCCCCCCCcEEEEEecCCCCChhHHHHHHHHHcCCCCCCCChhhhcc
Q 002070 414 VVLVKDLPDSIKKRLEEGDATIEMELVAARIDEWNEESPFPQAHVLHVFGRGGEVEPQINAILYENAICCSGFSPESLSC 493 (973)
Q Consensus 414 ~i~~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s~~P~G~iv~~LG~~gd~~~e~~ail~e~~l~~~~Fs~~vl~~ 493 (973)
.|+.... ..+++ +.+|+|+|++||..+.+|.|+|+++||..+++.++++++|.+|+|. .+|+++++++
T Consensus 163 ~i~~~~~-----~~~~~------g~~v~v~i~~~p~~~~~~~g~i~~~lg~~~d~~~~~~~il~~~~i~-~~f~~~v~~~ 230 (709)
T TIGR02063 163 FIPPEQI-----LGAEE------GDKVLVEITKYPDRNRPAIGKVVEILGHADDPGIDILIIIRKHGIP-YEFPEEVLDE 230 (709)
T ss_pred EECCccc-----cCCCC------CCEEEEEEccCCCCCCCceEEEEEEeCCCCcccchHHHHHHHcCcC-CCCCHHHHHH
Confidence 5543321 12333 4589999999999999999999999999999999999999999995 6999999999
Q ss_pred CCCCCCCCChhhhccCccCCCceEEEEcCCCCCCCCceEEEEEcCCceEEEEEEEccccccccCCCHhhHHHHhccceee
Q 002070 494 LPCVPWEVPQEELLSRKDLRNFCIFTIDPSTATDLDDALSIERLSDGISRVGVHIADVSYFVLPGTALDIEAQVRSTSVY 573 (973)
Q Consensus 494 l~~~~~~i~~~e~~~R~DLr~l~vfTIDp~~AkDlDDAlSie~l~~G~~~lgVHIADVS~fV~~gS~LD~eA~~RgtSvY 573 (973)
+..++|.+++++.+.|+|||++++|||||++|+||||||||+++++|+|+||||||||||||++||+||+||++||||||
T Consensus 231 a~~~~~~~~~~~~~~R~Dl~~~~~~tID~~~a~D~DDAisie~~~~g~~~l~VhIADVs~~V~~~s~lD~eA~~R~tSvY 310 (709)
T TIGR02063 231 AAKIPEEVPEEEIKGRKDLRDLPFVTIDGEDAKDFDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVY 310 (709)
T ss_pred HHhCCCCCChhHhhcccccccCcEEEECCCCCcccccEEEEEEcCCCCEEEEEEEechhhEeCCCChHHHHHHHhCeeEe
Confidence 99999999988999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCcccCCChhhhhcccCCCCCCceEEEEEEEEEcCCCCEEEEEEEEEEEecCcccCHHHHHHHHccCCCccccCcCCC
Q 002070 574 MLQRKIPMLPVLLSEEVGSLNPGVDRLAFSIFWDLNSAGDVVDRWIGRTVIRSCCKLSYEHAQDIIDGKFDVESSNTLGE 653 (973)
Q Consensus 574 Lp~rvipMLP~~Ls~~lcSL~pg~dRlA~Sv~~~id~~G~i~~~~f~~SvIrS~~rLTYe~vq~iL~~~~~~~~~~~~~~ 653 (973)
||++++||||+.||+++|||+||++|+||||.|+||.+|+|++++|++|+|+|+++|||++|+++|+++.....
T Consensus 311 lp~~~ipMLP~~Ls~~~cSL~p~~~r~a~s~~~~id~~G~i~~~~~~~svI~s~~~ltY~~v~~~l~~~~~~~~------ 384 (709)
T TIGR02063 311 LPDRVIPMLPERLSNGICSLNPNEDRLTLSCEMEIDKKGRVKKYEFYEAVINSHARLTYNQVNDIIEGKDALDK------ 384 (709)
T ss_pred CCCCcccCCChHHccCccccCCCCceEEEEEEEEECCCCCEEEeEEEEEEEEeCeEEcHHHHHHHHcCCccccc------
Confidence 99999999999999999999999999999999999999999999999999999999999999999988432100
Q ss_pred CCCcccCCCchhhHHHHHHHHHHHHHHHHHHHhcCCCccccCCCceeeeCCCCCeeEEEeccCCcHHHHHHHHHHHHHHH
Q 002070 654 GWPQLYGQFEWSDVVRSIKSLYEVSKILKDKRFTDGALRLENSKPVFLFDEYGTPYDSVLSGREDLNFLFEEFMLLANKT 733 (973)
Q Consensus 654 ~~p~~~~~~~~~~i~~~L~~L~~lA~~Lr~~R~~~Gal~l~~~e~~~~lDe~g~p~~~~~~~~~~s~~LIEEfMllAN~~ 733 (973)
...++.++|..|+++|++||++|.++|+|.|+.++++|.+|++|.+..+...++.+||.|||||||+||++
T Consensus 385 ---------~~~~~~~~L~~l~~la~~l~~~R~~~G~i~~~~~e~~~~~d~~g~~~~i~~~~~~~a~~lIeE~MllAN~~ 455 (709)
T TIGR02063 385 ---------KEPPLKEMLKNLFELYKILRKKRKKRGAIDFDSKEAKIILDENGKPIDIVPRERGDAHKLIEEFMIAANET 455 (709)
T ss_pred ---------hhhHHHHHHHHHHHHHHHHHHHHHhCCCcccCCccceeEECCCCCeEEEEeccchHHHHHHHHHHHHHHHH
Confidence 12457789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCcceEEeCCCCChHHHHHHHHHHHHcCCccCC-----CChhHHHHHHHHHHHhhcCCHHHHHHHHHHHcc
Q 002070 734 AAEVIARAFPDSALLRRHPAPNMRKLREFEAFCSKHGLQLDT-----SSSGQFHQSLEQAREKLKDDYVLFDILINYATR 808 (973)
Q Consensus 734 VA~~l~~~~~~~allR~H~~P~~~kl~~l~~~~~~~G~~ld~-----~~s~~l~~sL~~i~~~~~~~~~~~~~L~~~~lr 808 (973)
||+|+.+ ++.|++||+|++|+.+++++|.+++..+|+.++. .++..++..|..+ ++.|. ..++..+++|
T Consensus 456 vA~~l~~-~~~p~iyR~h~~P~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~l~~~----~~~~~-~~~l~~~llr 529 (709)
T TIGR02063 456 VAEHLEK-AKLPFIYRVHERPSEEKLQNLREFLKTLGITLKGGTSDKPQPKDFQKLLEKV----KGRPE-EELINTVLLR 529 (709)
T ss_pred HHHHHHh-CCCCeEEecCCCCCHHHHHHHHHHHHHcCCCccCCCCCCCCHHHHHHHHHHh----hCCcH-HHHHHHHHHH
Confidence 9999986 4899999999999999999999999999998853 2345566666555 34453 3567788899
Q ss_pred cccCceecccCCCCCCCCcccccccCCCccccccccCchhhHHHHHHHHHHHHhhhhhhhhhccCCCCCCcccccccccc
Q 002070 809 PMQLASYFCSGDFKDDTDWGHYALAFPVYTHFTSPLRRYPDLVVHRTLNAALEAEKLYWKHRRMLPKNNHREGVRGRFLT 888 (973)
Q Consensus 809 ~m~~A~Y~~sg~~~s~~~~~HfgL~~~~YTHFTSPIRRYaDLiVHR~L~a~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 888 (973)
+|++|.| ++.+.+|||||++.|||||||||||+||+|||||+++|.+++.. +...
T Consensus 530 ~m~~A~y-------~~~~~~HfgL~~~~YthfTSPIRRY~DLivHr~L~~~l~~~~~~----~~~~-------------- 584 (709)
T TIGR02063 530 SMQQAKY-------SPENIGHFGLALEYYTHFTSPIRRYPDLIVHRLIKKALFGGENT----TTEK-------------- 584 (709)
T ss_pred HhcCccc-------CCCCCCccccccccccccCCccccchHHHHHHHHHHHHcCCCCC----Cccc--------------
Confidence 9999999 46899999999999999999999999999999999999754310 0000
Q ss_pred ccccccchhhhhhhhhHHHHHhhhcCCCchhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHh-cccEeeCeEEEEEE
Q 002070 889 GIFYDKDAAESLEGREALSVAALKYGVPCADILVNVATHCNDRKLACRNVKDACVKLYMWILLKK-KEVLFSCLILYLTS 967 (973)
Q Consensus 889 ~i~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~ia~~cNerk~~Ar~a~~~~~~l~~~~~~k~-~~~~~~~~iv~~~s 967 (973)
... ...+.|..+|.|||++++.|++|++++.++++|.|++. .|..+.+.|+.++.
T Consensus 585 ~~~------------------------~~~~~l~~~~~~~~~~er~a~~aer~~~~~~~~~yl~~~iG~~~~g~V~~v~~ 640 (709)
T TIGR02063 585 ERE------------------------YLEAKLEEIAEHSSKTERRADEAERDVNDWKKAEYMSEKIGEEFEGVISGVTS 640 (709)
T ss_pred cch------------------------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCcEEEEEEEEEEe
Confidence 000 01356889999999999999999999999999999997 57888888888999
Q ss_pred eeeee
Q 002070 968 FSTIH 972 (973)
Q Consensus 968 ~g~~~ 972 (973)
||+|.
T Consensus 641 fGifV 645 (709)
T TIGR02063 641 FGLFV 645 (709)
T ss_pred CCEEE
Confidence 99984
No 5
>PRK05054 exoribonuclease II; Provisional
Probab=100.00 E-value=8.4e-107 Score=972.62 Aligned_cols=555 Identities=22% Similarity=0.290 Sum_probs=470.5
Q ss_pred CeEEEEEEeccCCceeEEEEeCCcceeEEEeCCCCccccCCCCEEEEEEccchhhhhccCCCCCCCccccCCCcccccCC
Q 002070 177 DAFKALYRVNAHNRLEAYCKIEGVQTDVLITGIAAQNRAVEGDFVLIKVDRLSLWAKMKGFSNNSSIVEDSNLPTEANGM 256 (973)
Q Consensus 177 ~l~qG~LRVN~~N~~eAyV~~~g~~~DVlI~G~~~rNRAl~GDiVaVeLlp~~~W~~~k~~~~~~~~~~~~~~~~e~~e~ 256 (973)
.++.|+|+++++.+ +||..++ ..||||... +.|.|+|||.|.|++.+ .
T Consensus 20 ~~~~G~~~~~~~gf--gFv~~~~-~~difI~~~-~l~~a~~GD~V~v~i~~-----~----------------------- 67 (644)
T PRK05054 20 PRVEGVVKATEKGF--GFLEVDA-QKSYFIPPP-QMKKVMHGDRIIAVIHT-----E----------------------- 67 (644)
T ss_pred CeEEEEEEECCCcc--EEEEECC-CCcEEEChH-HHccCCCCCEEEEEEec-----C-----------------------
Confidence 57899999998777 7887766 459999886 89999999999998621 0
Q ss_pred CcccccCCccccccccccccccccccCCCCCCCCchhhhhhhhhhhccccccCCCCCCCCCccccccccccccchhhhhh
Q 002070 257 HSDICKGKSKVDVSYEYSNCTLLSEKGIHHDDDSSSEAYNQEMIEREGYNYINGHHPSTSDSTEKVSSSQQNDGMNAIER 336 (973)
Q Consensus 257 ~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~ 336 (973)
T Consensus 68 -------------------------------------------------------------------------------- 67 (644)
T PRK05054 68 -------------------------------------------------------------------------------- 67 (644)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred eeeeeecCCCCCccEEEEEEEecCCCCcceEEEEEeccccccCCCCcccccccCCCCCCCCCceEEEEeCCCCCCceEEe
Q 002070 337 LSAMISSYPTKRPTGRVVSIIERSPRRDGIVGFLNVNQWFNYKGGSRKDAKKNRSSLSVPDREYIQLTPTHPKYPKMVVL 416 (973)
Q Consensus 337 ~~~~i~~~~~~~p~G~VV~IleR~~~~~~~vG~l~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~P~D~rip~i~i~ 416 (973)
+++++|+|++||+|. ++.+||++.. .. +..+++|.|.+++..+..
T Consensus 68 ---------~~r~~g~v~~il~r~--~~~~vG~~~~----------------~~--------~~~~~~p~d~~~~~~i~i 112 (644)
T PRK05054 68 ---------KDREIAEPEELIEPF--LTRFVGRVQK----------------KD--------DRLSIVPDHPLLKDAIPC 112 (644)
T ss_pred ---------CCCcEEEEEEEEecC--CCEEEEEEEE----------------eC--------ceEEEEECCCCCCccEEe
Confidence 012479999999998 4689999982 11 356899999999985544
Q ss_pred cCCCChhhhhhcccCCccccceEEEEEEeecCCC-CCCCcEEEEEecCCCCChhHHHHHHHHHcCCCCCCCChhhhccCC
Q 002070 417 VKDLPDSIKKRLEEGDATIEMELVAARIDEWNEE-SPFPQAHVLHVFGRGGEVEPQINAILYENAICCSGFSPESLSCLP 495 (973)
Q Consensus 417 ~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~-s~~P~G~iv~~LG~~gd~~~e~~ail~e~~l~~~~Fs~~vl~~l~ 495 (973)
.. +......+++|| +|+|+|++||.. ...|.|+|+++||..+++.+++++++.+|+| +.+|++++++
T Consensus 113 ~~--~~~~~~~~~~gd------~V~v~i~~~p~~~~~~~~g~i~~~lG~~~d~~~d~~~il~~~~l-~~~f~~~~~~--- 180 (644)
T PRK05054 113 RA--AKGLNHEFKEGD------WVVAELRRHPLKGDRGFYAEITQFITDADDHFAPWWVTLARHNL-EREAPAGGVA--- 180 (644)
T ss_pred cc--ccccccCCCCCC------EEEEEEecCCCCCCCCceEEEEEEECCCCCCccHHHHHHHHcCC-CCCCCchhhh---
Confidence 21 010011244454 899999999985 4569999999999999999999999999999 5799988754
Q ss_pred CCCCCCChhhhccCccCCCceEEEEcCCCCCCCCceEEEEEcCCceEEEEEEEccccccccCCCHhhHHHHhccceeecC
Q 002070 496 CVPWEVPQEELLSRKDLRNFCIFTIDPSTATDLDDALSIERLSDGISRVGVHIADVSYFVLPGTALDIEAQVRSTSVYML 575 (973)
Q Consensus 496 ~~~~~i~~~e~~~R~DLr~l~vfTIDp~~AkDlDDAlSie~l~~G~~~lgVHIADVS~fV~~gS~LD~eA~~RgtSvYLp 575 (973)
|++++++. .|+|||++++|||||++|+||||||||+++++|+|+||||||||||||++||+||+||++||||||||
T Consensus 181 ---~~~~~~~~-~R~Dlr~~~~~TID~~~akD~DDAisve~~~~g~~~l~VHIADVs~yV~~gS~LD~eA~~RgtSvYlp 256 (644)
T PRK05054 181 ---WEMLDEGL-EREDLTALDFVTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGSKLDKAARQRAFTNYLP 256 (644)
T ss_pred ---ccCChhcc-CcccccCCcEEEECCCCCCcccceEEEEEeCCCCEEEEEEEcchhhEeCCCCHHHHHHHHhCceEeCC
Confidence 23343443 79999999999999999999999999999989999999999999999999999999999999999999
Q ss_pred CCcccCCChhhhhcccCCCCCCceEEEEEEEEEcCCCCEEE-EEEEEEEEecCcccCHHHHHHHHccCCCccccCcCCCC
Q 002070 576 QRKIPMLPVLLSEEVGSLNPGVDRLAFSIFWDLNSAGDVVD-RWIGRTVIRSCCKLSYEHAQDIIDGKFDVESSNTLGEG 654 (973)
Q Consensus 576 ~rvipMLP~~Ls~~lcSL~pg~dRlA~Sv~~~id~~G~i~~-~~f~~SvIrS~~rLTYe~vq~iL~~~~~~~~~~~~~~~ 654 (973)
++++||||+.||+++|||+||++|+||||.|+||++|+|++ ++|++|+|+|+++|||++|+++|+++.+.
T Consensus 257 ~~vipMLP~~Ls~~~cSL~p~~~R~als~~~~id~~G~i~~~~~~~~svI~s~~rltY~~v~~~l~~~~~~--------- 327 (644)
T PRK05054 257 GFNIPMLPRELSDDLCSLRPNERRPALACRVTIDADGTIEDDIRFFAAWIESKAKLAYDNVSDWLENGGDW--------- 327 (644)
T ss_pred CCcccCCChHHhcCccccCCCCCceEEEEEEEEeCCCCcccccEEEEEEEEcCCeecHHHHHHHHhCCCcc---------
Confidence 99999999999999999999999999999999999999998 89999999999999999999999874221
Q ss_pred CCcccCCCchhhHHHHHHHHHHHHHHHHHHHhcCCCccccCCCceeeeCCCCCeeEEEeccCCcHHHHHHHHHHHHHHHH
Q 002070 655 WPQLYGQFEWSDVVRSIKSLYEVSKILKDKRFTDGALRLENSKPVFLFDEYGTPYDSVLSGREDLNFLFEEFMLLANKTA 734 (973)
Q Consensus 655 ~p~~~~~~~~~~i~~~L~~L~~lA~~Lr~~R~~~Gal~l~~~e~~~~lDe~g~p~~~~~~~~~~s~~LIEEfMllAN~~V 734 (973)
+ ...+++.+.|..|++++++|+++|.++|++.|+.|+++|.+|++|.+.++...++.+||.|||||||+||++|
T Consensus 328 -~-----~~~~~i~~~l~~L~~l~~~l~~~R~~~G~i~~d~~e~~i~ld~~g~~~~i~~~~~~~a~~lIeE~MllAN~~v 401 (644)
T PRK05054 328 -Q-----PESEAIAEQIRLLHQFCLARSEWRKQHALVFKDRPDYRFELGEKGEVLDIVAEPRRIANRIVEESMIAANICA 401 (644)
T ss_pred -c-----cchhHHHHHHHHHHHHHHHHHHHHHhCCCccccCCceEEEECCCCCEEEEEEecCcHHHHHHHHHHHHHHHHH
Confidence 0 1235688899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCcceEEeCCCCChHHHHHHHHHHHHcCCccCCCChhHHHHHHHHHHHhhcCCHHHHHHHHHHHcccccCce
Q 002070 735 AEVIARAFPDSALLRRHPAPNMRKLREFEAFCSKHGLQLDTSSSGQFHQSLEQAREKLKDDYVLFDILINYATRPMQLAS 814 (973)
Q Consensus 735 A~~l~~~~~~~allR~H~~P~~~kl~~l~~~~~~~G~~ld~~~s~~l~~sL~~i~~~~~~~~~~~~~L~~~~lr~m~~A~ 814 (973)
|+|+.++ +.|++||+|+.|+++++++|.+++..+|+.++.....++. .+..+...+...+. ..+...++|+|++|.
T Consensus 402 A~~l~~~-~~p~iyRvH~~P~~~~l~~l~~~~~~~g~~~~~~~~~~l~-~~~~~~~~l~~~~~--~~l~~~llr~~~~a~ 477 (644)
T PRK05054 402 ARVLRDK-LGFGIYNVHSGFDPANAEQAVALLKEHGLHFDAEELLTLE-GFCKLRRELDAQPT--GYLDSRIRRFQSFAE 477 (644)
T ss_pred HHHHHHc-CCCEEEECCCCCCHHHHHHHHHHHHHCCCCcCCCcccChH-HHHHHHHHHhcchH--HHHHHHHHHHHhcee
Confidence 9999986 6899999999999999999999999999998655433332 23333333333332 234445689999999
Q ss_pred ecccCCCCCCCCcccccccCCCccccccccCchhhHHHHHHHHHHHHhhhhhhhhhccCCCCCCcccccccccccccccc
Q 002070 815 YFCSGDFKDDTDWGHYALAFPVYTHFTSPLRRYPDLVVHRTLNAALEAEKLYWKHRRMLPKNNHREGVRGRFLTGIFYDK 894 (973)
Q Consensus 815 Y~~sg~~~s~~~~~HfgL~~~~YTHFTSPIRRYaDLiVHR~L~a~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 894 (973)
| ++.+.+|||||++.|||||||||||+||+|||||+++|.+++.
T Consensus 478 y-------s~~~~gHfgL~~~~YthfTSPIRRY~DLivHR~L~a~l~~~~~----------------------------- 521 (644)
T PRK05054 478 I-------STEPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETA----------------------------- 521 (644)
T ss_pred c-------CCCCcCccccccccccccCChhhhhHHHHHHHHHHHHHcCCCC-----------------------------
Confidence 9 6789999999999999999999999999999999999975321
Q ss_pred chhhhhhhhhHHHHHhhhcCCCchhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhc-c--cEeeCeEEEEEEeeee
Q 002070 895 DAAESLEGREALSVAALKYGVPCADILVNVATHCNDRKLACRNVKDACVKLYMWILLKKK-E--VLFSCLILYLTSFSTI 971 (973)
Q Consensus 895 ~~~e~~~~~~~~~~~~~~~~~~~~~~l~~ia~~cNerk~~Ar~a~~~~~~l~~~~~~k~~-~--~~~~~~iv~~~s~g~~ 971 (973)
...+..+|.|||++++.|++|++++.+++++.|++.+ | ..+.+.|+.||+||||
T Consensus 522 -----------------------~~~~~~~~~~~s~~er~a~~aer~~~~~~~~~y~~~~~G~~~~f~g~I~~v~~~G~f 578 (644)
T PRK05054 522 -----------------------ERPQDEITVQLAERRRLNRMAERDVGDWLYARYLKDKAGTDTRFAAEIIDISRGGMR 578 (644)
T ss_pred -----------------------CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEEEEEEEeeecCcEE
Confidence 0124579999999999999999999999999999995 3 3777777789999998
Q ss_pred e
Q 002070 972 H 972 (973)
Q Consensus 972 ~ 972 (973)
.
T Consensus 579 V 579 (644)
T PRK05054 579 V 579 (644)
T ss_pred E
Confidence 4
No 6
>TIGR02062 RNase_B exoribonuclease II. This family consists of exoribonuclease II, the product of the rnb gene, as found in a number of gamma proteobacteria. In Escherichia coli, it is one of eight different exoribonucleases. It is involved in mRNA degradation and tRNA precursor end processing.
Probab=100.00 E-value=1.5e-105 Score=960.26 Aligned_cols=555 Identities=20% Similarity=0.276 Sum_probs=469.4
Q ss_pred CCeEEEEEEeccCCceeEEEEeCCcceeEEEeCCCCccccCCCCEEEEEEccchhhhhccCCCCCCCccccCCCcccccC
Q 002070 176 GDAFKALYRVNAHNRLEAYCKIEGVQTDVLITGIAAQNRAVEGDFVLIKVDRLSLWAKMKGFSNNSSIVEDSNLPTEANG 255 (973)
Q Consensus 176 G~l~qG~LRVN~~N~~eAyV~~~g~~~DVlI~G~~~rNRAl~GDiVaVeLlp~~~W~~~k~~~~~~~~~~~~~~~~e~~e 255 (973)
..++.|+|+++++.+ +||..+| ..||||... +.|.|+|||.|.|++.+.
T Consensus 16 ~~~~~G~i~~~~kGf--gFv~~~~-~~difI~~~-~l~~A~~GD~V~v~i~~~--------------------------- 64 (639)
T TIGR02062 16 TPRVEGVVKATEKGF--GFLEVDA-QKSYFIPPP-QMKKVMHGDKIIAVIHSE--------------------------- 64 (639)
T ss_pred CceEEEEEEECCCcc--EEEEECC-CCcEEEChH-HHccCCCCCEEEEEEecC---------------------------
Confidence 456899999998777 7887666 459999885 899999999999986210
Q ss_pred CCcccccCCccccccccccccccccccCCCCCCCCchhhhhhhhhhhccccccCCCCCCCCCccccccccccccchhhhh
Q 002070 256 MHSDICKGKSKVDVSYEYSNCTLLSEKGIHHDDDSSSEAYNQEMIEREGYNYINGHHPSTSDSTEKVSSSQQNDGMNAIE 335 (973)
Q Consensus 256 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~ 335 (973)
T Consensus 65 -------------------------------------------------------------------------------- 64 (639)
T TIGR02062 65 -------------------------------------------------------------------------------- 64 (639)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred heeeeeecCCCCCccEEEEEEEecCCCCcceEEEEEeccccccCCCCcccccccCCCCCCCCCceEEEEeCCCCCCceEE
Q 002070 336 RLSAMISSYPTKRPTGRVVSIIERSPRRDGIVGFLNVNQWFNYKGGSRKDAKKNRSSLSVPDREYIQLTPTHPKYPKMVV 415 (973)
Q Consensus 336 ~~~~~i~~~~~~~p~G~VV~IleR~~~~~~~vG~l~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~P~D~rip~i~i 415 (973)
+++++|+|++|++|+. ..+||++.. .. +..+++|.|++++.++.
T Consensus 65 ----------~~r~~~~v~~iver~~--~~~vG~~~~----------------~~--------~~~~v~p~d~~~~~~i~ 108 (639)
T TIGR02062 65 ----------KERESAEPEELIEPFL--TRFVGKVQG----------------KD--------DKLAIVPDHPLLKDAIP 108 (639)
T ss_pred ----------CCCcEEEEEEEEccCC--CEEEEEEEE----------------eC--------CeEEEEECCCCCCccEE
Confidence 0124799999999984 679999982 11 35689999999988643
Q ss_pred ecCCCChhhhhhcccCCccccceEEEEEEeecCCCC-CCCcEEEEEecCCCCChhHHHHHHHHHcCCCCCCCChhhhccC
Q 002070 416 LVKDLPDSIKKRLEEGDATIEMELVAARIDEWNEES-PFPQAHVLHVFGRGGEVEPQINAILYENAICCSGFSPESLSCL 494 (973)
Q Consensus 416 ~~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s-~~P~G~iv~~LG~~gd~~~e~~ail~e~~l~~~~Fs~~vl~~l 494 (973)
... ++.....+++|| +|+|+|++||... ..|.|+|+++||..+++.++++++|.+|+| +.+|++++++++
T Consensus 109 ~~~--~~~~~~~~~~gd------~V~v~I~~~p~~~~~~~~~~I~~vLG~~~d~~~d~~~il~~~~l-~~~f~~~v~~ea 179 (639)
T TIGR02062 109 CRA--AKGLNHEFQEGD------WAVAELRRHPLKGDRSFYAELTQYITFADDHLAPWWVTLARHNL-EREEPDGVADEM 179 (639)
T ss_pred ecC--ccccccCCCCCC------EEEEEEeccCCCCCCCceEEEEEEeCCCCCCccHHHHHHHHcCc-CCCCCHHHHHhh
Confidence 311 111111234444 7889999999865 559999999999999999999999999999 579999999887
Q ss_pred CCCCCCCChhhhccCccCCCceEEEEcCCCCCCCCceEEEEEcCCceEEEEEEEccccccccCCCHhhHHHHhccceeec
Q 002070 495 PCVPWEVPQEELLSRKDLRNFCIFTIDPSTATDLDDALSIERLSDGISRVGVHIADVSYFVLPGTALDIEAQVRSTSVYM 574 (973)
Q Consensus 495 ~~~~~~i~~~e~~~R~DLr~l~vfTIDp~~AkDlDDAlSie~l~~G~~~lgVHIADVS~fV~~gS~LD~eA~~RgtSvYL 574 (973)
.. +.+.|+|||++++|||||++|+||||||||+++++|+|+||||||||||||++||+||+||++|||||||
T Consensus 180 ~~--------~~~~R~DLr~~~~~TID~~~akD~DDAisie~~~~g~~~L~VHIADVs~yV~~gS~LD~eA~~RgtSvYL 251 (639)
T TIGR02062 180 LL--------DGLVREDLTALDFVTIDSESTKDMDDALFAEALPNGKLQLIVAIADPTAYIAEGSKLDKAAKIRGFTNYL 251 (639)
T ss_pred hh--------ccccCcccccCCEEEECCCCCCcccceEEEEEeCCCcEEEEEEEcCccccCCCCCHHHHHHHHhCCcEeC
Confidence 32 1257999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccCCChhhhhcccCCCCCCceEEEEEEEEEcCCCCEEE-EEEEEEEEecCcccCHHHHHHHHccCCCccccCcCCC
Q 002070 575 LQRKIPMLPVLLSEEVGSLNPGVDRLAFSIFWDLNSAGDVVD-RWIGRTVIRSCCKLSYEHAQDIIDGKFDVESSNTLGE 653 (973)
Q Consensus 575 p~rvipMLP~~Ls~~lcSL~pg~dRlA~Sv~~~id~~G~i~~-~~f~~SvIrS~~rLTYe~vq~iL~~~~~~~~~~~~~~ 653 (973)
|++++||||+.||+++|||+||++|+||||.|+||++|+|++ ++|++|+|||+++|||++|+++|+++....
T Consensus 252 p~~vipMLP~~Ls~~~cSL~p~e~R~als~~~~ld~~G~i~~~~~~~~svIrs~~rltY~~v~~~l~~~~~~~------- 324 (639)
T TIGR02062 252 PGFNIPMLPRELSDDLCSLRANEVRPVLACRITISKDGNIEDKIEFFAATIKSKAKLVYDQVSDWLENTSDWQ------- 324 (639)
T ss_pred CCceecCCCHHHhcCccccCCCCCeeEEEEEEEEcCCCcEeecCEEEEEEEEeCcEEeHHHHHHHHhCCcccc-------
Confidence 999999999999999999999999999999999999999999 799999999999999999999998742110
Q ss_pred CCCcccCCCchhhHHHHHHHHHHHHHHHHHHHhcCCCccccCCCceeeeCCCCCeeEEEeccCCcHHHHHHHHHHHHHHH
Q 002070 654 GWPQLYGQFEWSDVVRSIKSLYEVSKILKDKRFTDGALRLENSKPVFLFDEYGTPYDSVLSGREDLNFLFEEFMLLANKT 733 (973)
Q Consensus 654 ~~p~~~~~~~~~~i~~~L~~L~~lA~~Lr~~R~~~Gal~l~~~e~~~~lDe~g~p~~~~~~~~~~s~~LIEEfMllAN~~ 733 (973)
| ..+++.++|..|.++|++|+++|.++|++.|+.||+++.+|++|.+..+...++.+||.|||||||+||++
T Consensus 325 --~------~~~~i~~~L~~L~~la~~l~~~R~~~G~i~ld~pE~~~~ld~~g~~~~i~~~~~~~a~~lIeE~MllAN~~ 396 (639)
T TIGR02062 325 --P------ESEEIAQQVRLLHQFCQARIEWRHTHALVFKDRPDYRFILSEKGEVLDIVAEPRRIANRIVEEAMIIANIC 396 (639)
T ss_pred --c------chHHHHHHHHHHHHHHHHHHHHHHhCCcccccCCceEEEECCCCCEEEEEEecCCHHHHHHHHHHHHHHHH
Confidence 0 13567889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCcceEEeCCCCChHHHHHHHHHHHHcCCccCCCChhHHHHHHHHHHHhhcCCHHHHHHHHHHHcccccCc
Q 002070 734 AAEVIARAFPDSALLRRHPAPNMRKLREFEAFCSKHGLQLDTSSSGQFHQSLEQAREKLKDDYVLFDILINYATRPMQLA 813 (973)
Q Consensus 734 VA~~l~~~~~~~allR~H~~P~~~kl~~l~~~~~~~G~~ld~~~s~~l~~sL~~i~~~~~~~~~~~~~L~~~~lr~m~~A 813 (973)
||+|+.++ ..|++||+|+.|+++++++|.+++..+|+.++..+..++. .+..+...+...+. ..+..+++|+|++|
T Consensus 397 vA~~l~~~-~~p~iyR~H~~P~~~~l~~l~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~~~~~--~~l~~~~~r~~~~a 472 (639)
T TIGR02062 397 AARFLRDK-LGFGIYNTHAGFDPANAENVVALLKTNGLHVDAEELATLD-GFCKLRRELDAQET--GYLDSRIRRYQSFA 472 (639)
T ss_pred HHHHHHHh-CCCeEEecCCCCCHHHHHHHHHHHHHcCCCCCcccccCHH-HHHHHHHHhhcchH--HHHHHHHHHHhhhc
Confidence 99999987 4689999999999999999999999999988643221221 23333333333332 34666778999999
Q ss_pred eecccCCCCCCCCcccccccCCCccccccccCchhhHHHHHHHHHHHHhhhhhhhhhccCCCCCCccccccccccccccc
Q 002070 814 SYFCSGDFKDDTDWGHYALAFPVYTHFTSPLRRYPDLVVHRTLNAALEAEKLYWKHRRMLPKNNHREGVRGRFLTGIFYD 893 (973)
Q Consensus 814 ~Y~~sg~~~s~~~~~HfgL~~~~YTHFTSPIRRYaDLiVHR~L~a~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 893 (973)
.| ++.+.+|||||++.|||||||||||+||+|||||+++|.+++.
T Consensus 473 ~y-------s~~~~~HfgL~~~~YthfTSPIRRY~DLivHR~L~~~l~~~~~---------------------------- 517 (639)
T TIGR02062 473 EI-------STEPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETA---------------------------- 517 (639)
T ss_pred cc-------CCCCcCcchhccccccccCChhhhhHHHHHHHHHHHHHcCCCC----------------------------
Confidence 99 5789999999999999999999999999999999999974320
Q ss_pred cchhhhhhhhhHHHHHhhhcCCCchhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhc-c--cEeeCeEEEEEEeee
Q 002070 894 KDAAESLEGREALSVAALKYGVPCADILVNVATHCNDRKLACRNVKDACVKLYMWILLKKK-E--VLFSCLILYLTSFST 970 (973)
Q Consensus 894 ~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~ia~~cNerk~~Ar~a~~~~~~l~~~~~~k~~-~--~~~~~~iv~~~s~g~ 970 (973)
...+..+|.|||++++.|+.|+|++.++++|.||+.+ | ..+.+.|+.+++|||
T Consensus 518 ------------------------~~~~~~~~~~~s~~er~a~~aeR~~~~~~~~~yl~~~~g~~~~f~g~I~~v~~~g~ 573 (639)
T TIGR02062 518 ------------------------TRPQEDITVQLAERRRLNRIAERDVADWLYARFLADKAAKNTRFAAEIVDISRGGM 573 (639)
T ss_pred ------------------------CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcEEEEEEEeeeCCcE
Confidence 0124578999999999999999999999999999985 3 356666666999999
Q ss_pred ee
Q 002070 971 IH 972 (973)
Q Consensus 971 ~~ 972 (973)
|.
T Consensus 574 ~v 575 (639)
T TIGR02062 574 RV 575 (639)
T ss_pred EE
Confidence 84
No 7
>COG0557 VacB Exoribonuclease R [Transcription]
Probab=100.00 E-value=1.1e-104 Score=966.21 Aligned_cols=568 Identities=36% Similarity=0.525 Sum_probs=498.5
Q ss_pred eEEEEEEeccCCceeEEEEeCC--cceeEEEeCCCCccccCCCCEEEEEEccchhhhhccCCCCCCCccccCCCcccccC
Q 002070 178 AFKALYRVNAHNRLEAYCKIEG--VQTDVLITGIAAQNRAVEGDFVLIKVDRLSLWAKMKGFSNNSSIVEDSNLPTEANG 255 (973)
Q Consensus 178 l~qG~LRVN~~N~~eAyV~~~g--~~~DVlI~G~~~rNRAl~GDiVaVeLlp~~~W~~~k~~~~~~~~~~~~~~~~e~~e 255 (973)
+.+|++..+++++ +|+..++ ...|++|... .+|+|++||.|.|++.+...|
T Consensus 69 ~~~~~~~~~~~gf--~f~~~~~~~~~~d~~v~~~-~~~~a~~gD~V~v~~~~~~~~------------------------ 121 (706)
T COG0557 69 LVEGIVEASAKGF--GFLSPDDSKDADDIFVPKD-PLNRALHGDRVLVELLPSDKR------------------------ 121 (706)
T ss_pred cccceEEeccCCc--eeeccCccCCCCcEEeccc-cccccccCCEEEEEECccccc------------------------
Confidence 7899999999999 8888877 6789999997 499999999999998220000
Q ss_pred CCcccccCCccccccccccccccccccCCCCCCCCchhhhhhhhhhhccccccCCCCCCCCCccccccccccccchhhhh
Q 002070 256 MHSDICKGKSKVDVSYEYSNCTLLSEKGIHHDDDSSSEAYNQEMIEREGYNYINGHHPSTSDSTEKVSSSQQNDGMNAIE 335 (973)
Q Consensus 256 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~ 335 (973)
T Consensus 122 -------------------------------------------------------------------------------- 121 (706)
T COG0557 122 -------------------------------------------------------------------------------- 121 (706)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred heeeeeecCCCCCccEEEEEEEecCCCCcceEEEEEeccccccCCCCcccccccCCCCCCCCCceEEEEeCCCCCC-ceE
Q 002070 336 RLSAMISSYPTKRPTGRVVSIIERSPRRDGIVGFLNVNQWFNYKGGSRKDAKKNRSSLSVPDREYIQLTPTHPKYP-KMV 414 (973)
Q Consensus 336 ~~~~~i~~~~~~~p~G~VV~IleR~~~~~~~vG~l~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~P~D~rip-~i~ 414 (973)
++.++|+|+.|++|.+ ..+||.+... .++.+++|.|+|++ .+.
T Consensus 122 ----------~~~~~~~v~~il~r~~--~~~vG~~~~~------------------------~~~~~~~p~d~r~~~~i~ 165 (706)
T COG0557 122 ----------GRFKEAAVVRILERAN--SALVGELRPS------------------------QGIGRVLPDDKRLPFLIA 165 (706)
T ss_pred ----------CCCceEEEEeeecccc--ceeEEEEEec------------------------CCeEEEEecCCCCcccee
Confidence 0036899999999986 4699999831 13689999999999 577
Q ss_pred EecCCCChhhhhhcccCCccccceEEEEEEeecCCCCCCCcEEEEEecCCCCChhHHHHHHHHHcCCCCCCCChhhhccC
Q 002070 415 VLVKDLPDSIKKRLEEGDATIEMELVAARIDEWNEESPFPQAHVLHVFGRGGEVEPQINAILYENAICCSGFSPESLSCL 494 (973)
Q Consensus 415 i~~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s~~P~G~iv~~LG~~gd~~~e~~ail~e~~l~~~~Fs~~vl~~l 494 (973)
|++++.+ .. ..+.+|+|+|+.||..+.+|.|+++++||..+++..++++++++|++. .+|++++++++
T Consensus 166 i~~~~~~-----~~------~~~~~v~~~i~~~~~~~~~~~g~v~~~lG~~~~~~~~~~~il~~~~i~-~~f~~~v~~~a 233 (706)
T COG0557 166 IPPEQAP-----GA------EEGHLVVVEITRWPDTSRPPFGEVVEVLGDLGDPGADIEAILRDHGIP-SEFPEKVLDEA 233 (706)
T ss_pred ecccccc-----cc------ccCCEEEEEecccCCcCCCCceeEEEeecCCCCcchhHHHHHHHcCCC-CCCCHHHHHHH
Confidence 8766554 12 235689999999999999999999999999999999999999999995 57999999999
Q ss_pred CCCCCCCChhhhccCccCCCceEEEEcCCCCCCCCceEEEEEcCCceEEEEEEEccccccccCCCHhhHHHHhccceeec
Q 002070 495 PCVPWEVPQEELLSRKDLRNFCIFTIDPSTATDLDDALSIERLSDGISRVGVHIADVSYFVLPGTALDIEAQVRSTSVYM 574 (973)
Q Consensus 495 ~~~~~~i~~~e~~~R~DLr~l~vfTIDp~~AkDlDDAlSie~l~~G~~~lgVHIADVS~fV~~gS~LD~eA~~RgtSvYL 574 (973)
...++.+++++.++|.|||++++|||||++|+|||||||++.+.+|+|+||||||||||||+|||+||+||++|||||||
T Consensus 234 ~~~~~~~~~~~~~~R~Dlr~l~~~TID~~~akD~DDAv~~~~l~~g~~~LgVhIADVs~yV~p~s~LD~EA~~RgtSVYl 313 (706)
T COG0557 234 AALPDEVPEEDLKGRVDLRDLPIFTIDPEDAKDLDDAVSVEKLRNGGYRLGVHIADVSHYVQPGSALDKEARKRGTSVYL 313 (706)
T ss_pred HhccCcCChhhhcCccccccCCEEEECCCCCccccceEEEEEeCCCcEEEEEEEecceeecCCCChhhHHHHHcCCeEEc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcccCCChhhhhcccCCCCCCceEEEEEEEEEcCCCCEEEEEEEEEEEecCcccCHHHHHHHHccCCCccccCcCCCC
Q 002070 575 LQRKIPMLPVLLSEEVGSLNPGVDRLAFSIFWDLNSAGDVVDRWIGRTVIRSCCKLSYEHAQDIIDGKFDVESSNTLGEG 654 (973)
Q Consensus 575 p~rvipMLP~~Ls~~lcSL~pg~dRlA~Sv~~~id~~G~i~~~~f~~SvIrS~~rLTYe~vq~iL~~~~~~~~~~~~~~~ 654 (973)
|+++|||||+.||+++|||+||++|+|+||.|+||.+|+|++++|++|+|+|+++|||++|+++|+++.+
T Consensus 314 p~~vipMLPe~Ls~~lcSL~p~~dRla~s~~m~ld~~g~v~~~~~~~svI~s~~rltY~~v~~~l~~~~~---------- 383 (706)
T COG0557 314 PDRVIPMLPEALSNGLCSLNPGVDRLALSCEMTLDSEGRVKKYEIYPSVIKSAARLTYEEVQAILDGKED---------- 383 (706)
T ss_pred CCcccCCCchhhcCCccccCCCCceEEEEEEEEECCCCCEEEEEEEEEEEeccccCCHHHHHHHHhcCcc----------
Confidence 9999999999999999999999999999999999999999999999999999999999999999998531
Q ss_pred CCcccCCCchhhHHHHHHHHHHHHHHHHHHHhcCCCccccCCCceeeeCCCCCeeEEEeccCCcHHHHHHHHHHHHHHHH
Q 002070 655 WPQLYGQFEWSDVVRSIKSLYEVSKILKDKRFTDGALRLENSKPVFLFDEYGTPYDSVLSGREDLNFLFEEFMLLANKTA 734 (973)
Q Consensus 655 ~p~~~~~~~~~~i~~~L~~L~~lA~~Lr~~R~~~Gal~l~~~e~~~~lDe~g~p~~~~~~~~~~s~~LIEEfMllAN~~V 734 (973)
.....+.+.|..|..++++++++|.++|+|+|+.+|.++.+|++|.|..+...++.++|.|||||||+||++|
T Consensus 384 -------~~~~~l~~~l~~~~~l~~~l~~~R~~rg~i~~~~~E~ki~~d~~~~~~~i~~~~r~~a~~lIee~Ml~AN~~v 456 (706)
T COG0557 384 -------DKYAPLLDSLLELLELAKILKKKRLSRGAIDFDTPEAKIVLDEEGRPVEIEIRERLDAEKLIEEFMLLANETV 456 (706)
T ss_pred -------hhcccchHHHHHHHHHHHHHHHHHHhCCCcccCCcceeEEECCCCCeeeEEEecccHHHHHHHHHHHHHHHHH
Confidence 0123466889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCcceEEeCCCCChHHHHHHHHHHHHcCCccCCCChhHHHHHHHHHHHhhcCCHHHHHHHHHHHcccccCce
Q 002070 735 AEVIARAFPDSALLRRHPAPNMRKLREFEAFCSKHGLQLDTSSSGQFHQSLEQAREKLKDDYVLFDILINYATRPMQLAS 814 (973)
Q Consensus 735 A~~l~~~~~~~allR~H~~P~~~kl~~l~~~~~~~G~~ld~~~s~~l~~sL~~i~~~~~~~~~~~~~L~~~~lr~m~~A~ 814 (973)
|+++.+++ .|.+||+|+.|+.++++.|.+++..+|+.+........+..+..+.+..++.|. ..++..+++|+|++|+
T Consensus 457 A~~l~~~~-~~~~~R~h~~P~~ek~~~l~~~l~~lg~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~v~~~~~lRsm~~a~ 534 (706)
T COG0557 457 AEHLEKHK-IPLLYRTHERPSTEKLQSLREFLQNLGLVLPLGGSKPQPQDYQILLETVKGRPL-EAVLQTLLLRSMKQAE 534 (706)
T ss_pred HHHHHHcC-CCcceeCCCCCCHHHHHHHHHHHHHcCceecCCCCcCCHHHHHHHHhhccCChH-HHHHHHHHHHhhhcCe
Confidence 99999884 578999999999999999999999999999865543333345555554444443 3567778899999999
Q ss_pred ecccCCCCCCCCcccccccCCCccccccccCchhhHHHHHHHHHHHHhhhhhhhhhccCCCCCCcccccccccccccccc
Q 002070 815 YFCSGDFKDDTDWGHYALAFPVYTHFTSPLRRYPDLVVHRTLNAALEAEKLYWKHRRMLPKNNHREGVRGRFLTGIFYDK 894 (973)
Q Consensus 815 Y~~sg~~~s~~~~~HfgL~~~~YTHFTSPIRRYaDLiVHR~L~a~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 894 (973)
| ++.+.+|||||++.|||||||||||+||||||||+++|.++......
T Consensus 535 Y-------s~~~~~HfgL~~~~YtHFTSPIRRY~DLivHR~L~~~l~~~~~~~~~------------------------- 582 (706)
T COG0557 535 Y-------SPDNVGHFGLALDYYTHFTSPIRRYPDLIVHRQLKALLSGEPIPEKK------------------------- 582 (706)
T ss_pred e-------cCCCCCceeccccchhccCCchhhchHHHHHHHHHHHhcCCCCCccc-------------------------
Confidence 9 56799999999999999999999999999999999999865421000
Q ss_pred chhhhhhhhhHHHHHhhhcCCCchhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhccc-EeeCeEEEEEEeeeee
Q 002070 895 DAAESLEGREALSVAALKYGVPCADILVNVATHCNDRKLACRNVKDACVKLYMWILLKKKEV-LFSCLILYLTSFSTIH 972 (973)
Q Consensus 895 ~~~e~~~~~~~~~~~~~~~~~~~~~~l~~ia~~cNerk~~Ar~a~~~~~~l~~~~~~k~~~~-~~~~~iv~~~s~g~~~ 972 (973)
...+.|..+|.|||.++++|..|++++.+++.|.|+++... .+.+.|+.||+||||.
T Consensus 583 ---------------------~~~~~l~~i~~~~s~~er~a~~aer~~~~~~~~~~m~~~vg~~f~g~V~~v~~~g~~V 640 (706)
T COG0557 583 ---------------------TSEEELDELAAHISSAERRAQEAERDVIDLLKAEYMKKRVGEEFDGVVTGVTSFGFFV 640 (706)
T ss_pred ---------------------hhHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHhcCCEEEEEEEEEEeccEEE
Confidence 01368899999999999999999999999999999999544 6666666699999995
No 8
>PF00773 RNB: RNB domain CAUTION: The Prosite pattern does not correspond to this Pfam.; InterPro: IPR001900 This entry represents the catalytic domain of ribonuclease II []. It includes characterised and related sequences to exoribonuclease II (RNase II) and ribonuclease R, a bacterial 3' --> 5' exoribonuclease homologous to RNase II [,,].; GO: 0003723 RNA binding, 0004540 ribonuclease activity; PDB: 2R7D_A 2R7F_A 2ID0_D 2IX1_A 2IX0_A 2VNU_D 2WP8_J.
Probab=100.00 E-value=3.7e-75 Score=650.38 Aligned_cols=320 Identities=42% Similarity=0.673 Sum_probs=256.5
Q ss_pred CccCCCceEEEEcCCCCCCCCceEEEEEcCCceEEEEEEEccccccccCCCHhhHHHHhccceeecCCCcccCCChhhhh
Q 002070 509 RKDLRNFCIFTIDPSTATDLDDALSIERLSDGISRVGVHIADVSYFVLPGTALDIEAQVRSTSVYMLQRKIPMLPVLLSE 588 (973)
Q Consensus 509 R~DLr~l~vfTIDp~~AkDlDDAlSie~l~~G~~~lgVHIADVS~fV~~gS~LD~eA~~RgtSvYLp~rvipMLP~~Ls~ 588 (973)
|+|||++++|||||++|+|+||||||+++++|+|+|||||||||+||++||+||++|++||+|+|||++++||||+.|++
T Consensus 1 R~Dl~~~~~~tID~~~~~d~DDAisie~~~~~~~~v~VHIaDvt~~i~~~s~ld~~A~~r~~s~Ylp~~~~pMlP~~l~~ 80 (325)
T PF00773_consen 1 RKDLRDLPVFTIDPPGAKDIDDAISIEKLPDGKYEVGVHIADVTSFIPPDSPLDREARKRGTSVYLPEKVVPMLPPELSE 80 (325)
T ss_dssp SEECTTSEEEEEESTTSS---EEEEEEEETTTEEEEEEEEE-GGGTS-TTSHHHHHHHHH-B-EEETTEEE-SS-HHHHC
T ss_pred CccCCCCCEEEEcCCCCCCCCCeEEEEECCCCcEEEEEEcCCHHHhhccChHHHHHHHhcCccEECCCCccccCChhHhc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCCCceEEEEEEEEEcCCCCEEEEEEEEEEEecCcccCHHHHHHHHccCCCccccCcCCCCCCcccCCCchhhHH
Q 002070 589 EVGSLNPGVDRLAFSIFWDLNSAGDVVDRWIGRTVIRSCCKLSYEHAQDIIDGKFDVESSNTLGEGWPQLYGQFEWSDVV 668 (973)
Q Consensus 589 ~lcSL~pg~dRlA~Sv~~~id~~G~i~~~~f~~SvIrS~~rLTYe~vq~iL~~~~~~~~~~~~~~~~p~~~~~~~~~~i~ 668 (973)
++|||.||++|+||||.|+||.+|+|++++|++|+|+|+++|||++|+++|++...... ...+.
T Consensus 81 ~~~SL~~~~~r~a~S~~~~l~~~G~i~~~~i~~s~I~~~~~lty~~v~~~l~~~~~~~~----------------~~~~~ 144 (325)
T PF00773_consen 81 DLCSLNPGKDRLAFSVIFTLDEDGEILDYEIYPSIIRSVARLTYEEVDEILEGKSQEEP----------------ESPIE 144 (325)
T ss_dssp TTSSTTBTSEEEEEEEEEEE-TTS-EEEEEEEEEEEEBSEEEEHHHHHHHHHTTTS--H----------------CSHCH
T ss_pred ccccCCCCCCceEEEEEEEEeeCCeEeeeEEEEEEEecccccCHHHHHHHHhcCcccch----------------hhHHH
Confidence 99999999999999999999999999999999999999999999999999998532110 00135
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCccc-cCCCceeeeCCCCCeeEEEecc---CCcHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 002070 669 RSIKSLYEVSKILKDKRFTDGALRL-ENSKPVFLFDEYGTPYDSVLSG---REDLNFLFEEFMLLANKTAAEVIARAFPD 744 (973)
Q Consensus 669 ~~L~~L~~lA~~Lr~~R~~~Gal~l-~~~e~~~~lDe~g~p~~~~~~~---~~~s~~LIEEfMllAN~~VA~~l~~~~~~ 744 (973)
++|..|+++|+.|+++|..+|++.+ +.++..+.+++++.+....... ...|+.||+||||+||++||+|+.+ ++.
T Consensus 145 ~~L~~l~~la~~l~~~R~~~Ga~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~lV~E~MilAN~~vA~~~~~-~~i 223 (325)
T PF00773_consen 145 EDLKLLYELAKALRKKRLSRGAIELFNSPELKFSLDEDGPPKEINRESSDESSPAHSLVEELMILANRAVAQFLSE-NGI 223 (325)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTS-----SHCEEEEEETTTTEEEEEEE------HHHHHHHHHHHHHHHHHHHHHHH-CTT
T ss_pred HHHHHHHHHHHHHHHhhhhccCccccCCCceEEEEecCCCcceEEEEeccCCchHHHHHHHHHHHHHHHHHHHHHH-cCC
Confidence 8899999999999999999999999 7889999999999888887765 8999999999999999999999996 489
Q ss_pred cceEEeCCCCChHHHHHHHHHHHHcCCccCCCChhHHHHHHHHHHHhhcCCHHHHHHHHHHHcccccCceecccCCCCCC
Q 002070 745 SALLRRHPAPNMRKLREFEAFCSKHGLQLDTSSSGQFHQSLEQAREKLKDDYVLFDILINYATRPMQLASYFCSGDFKDD 824 (973)
Q Consensus 745 ~allR~H~~P~~~kl~~l~~~~~~~G~~ld~~~s~~l~~sL~~i~~~~~~~~~~~~~L~~~~lr~m~~A~Y~~sg~~~s~ 824 (973)
|++||+|+.|+..+++++.+.+ +++++. .+.+ .++.+... .+.+ ....+..+++++|.+|+| +.
T Consensus 224 p~iyR~~~~p~~~~~~~~~~~~---~~~~~~--~~~~--~~~~~~~~-~~~~-~~~~~~~~l~~~l~~a~y-------~~ 287 (325)
T PF00773_consen 224 PAIYRVQPEPDPERLEELLKLL---KLDLDE--TKSL--TLQNLLQA-ENPP-NSLALRYLLLKTLPPAEY-------ST 287 (325)
T ss_dssp TSEEEEB-SSSCCCHHHHHHHH---T---ST--CHHH--CHHCHHCC-CCTT-SSHHHHHHHHCCC--EEE-------ES
T ss_pred CceeeeCCCCCHHHHHHHHHHh---cCCCCC--cchh--hHHHHHHh-cCCh-HHHHHHHHHHHhhccccc-------cc
Confidence 9999999999999998888777 444443 3332 23333332 2222 223456677899999999 56
Q ss_pred CCcccccccCCCccccccccCchhhHHHHHHHHHHHH
Q 002070 825 TDWGHYALAFPVYTHFTSPLRRYPDLVVHRTLNAALE 861 (973)
Q Consensus 825 ~~~~HfgL~~~~YTHFTSPIRRYaDLiVHR~L~a~L~ 861 (973)
.+.+|||||++.|||||||||||+||+|||||+++|.
T Consensus 288 ~p~~H~~L~l~~Yt~~TSPlRRY~Dl~~hrql~~~L~ 324 (325)
T PF00773_consen 288 EPSGHFGLGLPAYTHFTSPLRRYADLVVHRQLKAALR 324 (325)
T ss_dssp SGC-BTTTTBSS-B--S-TTTBHHHHHHHHHHHHHHH
T ss_pred CCCcceeeeccccccccChhhhhHHHHHHHHHHHHhh
Confidence 8899999999999999999999999999999999996
No 9
>COG4776 Rnb Exoribonuclease II [Transcription]
Probab=100.00 E-value=4e-60 Score=519.01 Aligned_cols=460 Identities=24% Similarity=0.317 Sum_probs=357.7
Q ss_pred EEEEeCCCCCCceEEecCCCChhhhhhcccCCccccceEEEEEEeecCCCC-CCCcEEEEEecCCCCChhHHHHHHHHHc
Q 002070 401 IQLTPTHPKYPKMVVLVKDLPDSIKKRLEEGDATIEMELVAARIDEWNEES-PFPQAHVLHVFGRGGEVEPQINAILYEN 479 (973)
Q Consensus 401 ~~~~P~D~rip~i~i~~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s-~~P~G~iv~~LG~~gd~~~e~~ail~e~ 479 (973)
+.++|+.+-+-.. |.-. .-+.+...+++|| .+|+.+.+.|... ..-...|.+.+-..+|.-+---.-|.+|
T Consensus 97 L~i~pDhP~lk~~-i~~~-~~k~l~~~fQeGD------W~VA~lk~HpLkgDr~F~a~lt~~It~~dD~l~PWWVTLArh 168 (645)
T COG4776 97 LQIVPDHPLLKDA-IPCR-AAKGLNEEFQEGD------WAVAELKRHPLKGDRSFYAELTQKITFADDHLAPWWVTLARH 168 (645)
T ss_pred eEEcCCChhhhhh-cccc-cccchhhhhhcCc------eehhhhhcCCCCCchhHHHHHHHHhhccCCcccceeeehhhc
Confidence 5677776555433 3222 1233445667777 6888998888642 3333444455555555444444456666
Q ss_pred CCCCCCCChhhhccCCCCCCCCChhhhccCccCCCceEEEEcCCCCCCCCceEEEEEcCCceEEEEEEEccccccccCCC
Q 002070 480 AICCSGFSPESLSCLPCVPWEVPQEELLSRKDLRNFCIFTIDPSTATDLDDALSIERLSDGISRVGVHIADVSYFVLPGT 559 (973)
Q Consensus 480 ~l~~~~Fs~~vl~~l~~~~~~i~~~e~~~R~DLr~l~vfTIDp~~AkDlDDAlSie~l~~G~~~lgVHIADVS~fV~~gS 559 (973)
++.. +.+. -..+|.+.++. -.|+||+.+.++|||+.+++|+||||.++++++|.|.|-|.|||+|.||.+||
T Consensus 169 ~l~r--~~p~-----g~~d~~m~d~~-l~RedLTaL~FvTID~~sT~DmDDALy~~~~~~~~~~L~vAIADPTAyI~~~s 240 (645)
T COG4776 169 NLER--EAPA-----GIVDTEMLDEG-LVREDLTALDFVTIDSESTEDMDDALYAEPLPDGDWQLIVAIADPTAYIAEGS 240 (645)
T ss_pred cCCc--cCCC-----cccchhhhhhh-hhhccccccceEEecCccccccchhhhccccCCCcEEEEEEecCCccccCCcc
Confidence 6632 1111 11233433332 47999999999999999999999999999999999999999999999999999
Q ss_pred HhhHHHHhccceeecCCCcccCCChhhhhcccCCCCCCceEEEEEEEEEcCCCCEE-EEEEEEEEEecCcccCHHHHHHH
Q 002070 560 ALDIEAQVRSTSVYMLQRKIPMLPVLLSEEVGSLNPGVDRLAFSIFWDLNSAGDVV-DRWIGRTVIRSCCKLSYEHAQDI 638 (973)
Q Consensus 560 ~LD~eA~~RgtSvYLp~rvipMLP~~Ls~~lcSL~pg~dRlA~Sv~~~id~~G~i~-~~~f~~SvIrS~~rLTYe~vq~i 638 (973)
.||++|+.|+.|.|||+..|||||+.||.++|||.|++-|.++.|.++++.+|+|. +.+|..++|+|+++|.|++|.++
T Consensus 241 ~ld~~A~~R~FTnYLPGfNIPMLPreLsd~lCSL~~ne~RPaL~C~it~~~~G~I~~~i~F~aA~i~SkakL~YdhVSDw 320 (645)
T COG4776 241 KLDKEAKIRAFTNYLPGFNIPMLPRELSDDLCSLRANEVRPALACRITIDKDGNITDKIRFFAATIESKAKLVYDHVSDW 320 (645)
T ss_pred hhhHHHHHHHHhhcCCCCCCCCCChhhhhhhhhccccccCceEEEEEEEecCCccccchhhHHHhhhhhhhhhhhhHHHH
Confidence 99999999999999999999999999999999999999999999999999999998 47899999999999999999999
Q ss_pred HccCCCccccCcCCCCCCcccCCCchhhHHHHHHHHHHHHHHHHHHHhcCCCccccCCCceeeeCCCCCeeEEEeccCCc
Q 002070 639 IDGKFDVESSNTLGEGWPQLYGQFEWSDVVRSIKSLYEVSKILKDKRFTDGALRLENSKPVFLFDEYGTPYDSVLSGRED 718 (973)
Q Consensus 639 L~~~~~~~~~~~~~~~~p~~~~~~~~~~i~~~L~~L~~lA~~Lr~~R~~~Gal~l~~~e~~~~lDe~g~p~~~~~~~~~~ 718 (973)
|++..+ |. | ...++.+.++.|+.+++..-+.|..+.-+.-+.|+.+|.+.++|.++++....+.-
T Consensus 321 lE~~~~-----Wq----P------e~~~iAqqi~~L~~~~~aR~~WRk~hal~FkdrpdYrF~l~e~g~V~~I~ae~RRi 385 (645)
T COG4776 321 LENTGD-----WQ----P------ESEAIAQQIRLLHQFCQARIEWRKTHALVFKDRPDYRFILGEKGEVLDIVAEPRRI 385 (645)
T ss_pred HhcCCC-----CC----C------CCHHHHHHHHHHHHHHHHHHHHHhhceeeccCCCceEEEecCCCceEeeehhHHHH
Confidence 998432 11 2 23578899999999999999999888777678999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCcceEEeCCCCChHHHHHHHHHHHHcCCccCCCChhHHHHHHHHHHHhhcCCHHH
Q 002070 719 LNFLFEEFMLLANKTAAEVIARAFPDSALLRRHPAPNMRKLREFEAFCSKHGLQLDTSSSGQFHQSLEQAREKLKDDYVL 798 (973)
Q Consensus 719 s~~LIEEfMllAN~~VA~~l~~~~~~~allR~H~~P~~~kl~~l~~~~~~~G~~ld~~~s~~l~~sL~~i~~~~~~~~~~ 798 (973)
||+||||.||+||.++|++|.+++ ..++|-+|...++..++....++..+|...+...-.+|. .+.+++..+...+.
T Consensus 386 AnriVEE~MI~ANIcAa~~L~~~~-gfGI~N~HsGFd~~~~e~a~~~l~~~~~~~~~e~l~Tl~-Gfc~lRr~l~~~~t- 462 (645)
T COG4776 386 ANRIVEESMIAANICAARVLREKL-GFGIYNVHSGFDPANAEAAAALLKTNGLNVDAEELLTLE-GFCKLRRELDAQPT- 462 (645)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc-CcceeeccccCCHHHHHHHHHHHHhcCcCCCHHHHhhhH-HHHHHHHHhhcccc-
Confidence 999999999999999999999986 479999999999999999999999999876543222222 22233322211110
Q ss_pred HHHHHHHHcccccCceecccCCCCCCCCcccccccCCCccccccccCchhhHHHHHHHHHHHHhhhhhhhhhccCCCCCC
Q 002070 799 FDILINYATRPMQLASYFCSGDFKDDTDWGHYALAFPVYTHFTSPLRRYPDLVVHRTLNAALEAEKLYWKHRRMLPKNNH 878 (973)
Q Consensus 799 ~~~L~~~~lr~m~~A~Y~~sg~~~s~~~~~HfgL~~~~YTHFTSPIRRYaDLiVHR~L~a~L~~~~~~~~~~~~~~~~~~ 878 (973)
..|-.-+-|-..-|++ +.++.+|||||++.|+.||||||+|.|+|+||+|+|+|.++... +
T Consensus 463 -~yld~RiRrfqsfae~-------~t~p~PHFglGl~~YATWTSPIRKY~DMiNHRLlKavi~~~~~~---------k-- 523 (645)
T COG4776 463 -GYLDSRIRRFQSFAEI-------STEPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETAE---------K-- 523 (645)
T ss_pred -chHHHHHHHHHhHHhh-------ccCcCccccccchheeeccchhhhhhhHHHHHHHHHHHcCCCcC---------C--
Confidence 1121111222222333 56899999999999999999999999999999999999865310 0
Q ss_pred ccccccccccccccccchhhhhhhhhHHHHHhhhcCCCchhHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHhc
Q 002070 879 REGVRGRFLTGIFYDKDAAESLEGREALSVAALKYGVPCADILVNVATHCNDRKLACRNVKDACVKLYMWILLKKK 954 (973)
Q Consensus 879 ~~~~~~~~~~~i~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~l~~ia~~cNerk~~Ar~a~~~~~~l~~~~~~k~~ 954 (973)
|. +.+...+.++++.-|-|+|+.-++..|+|++.+
T Consensus 524 -------------------------------------Pq----edi~v~lae~Rr~nrmaERdv~DWLY~r~L~~k 558 (645)
T COG4776 524 -------------------------------------PQ----EDITVQLAERRRLNRMAERDVADWLYARFLADK 558 (645)
T ss_pred -------------------------------------Cc----hHHHHHHHHHHHhhhhhhhhhHHHHHHHHhccc
Confidence 11 245667788899999999999999999998874
No 10
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=97.77 E-value=2.2e-05 Score=66.69 Aligned_cols=44 Identities=18% Similarity=0.339 Sum_probs=35.7
Q ss_pred EEEEeccCCceeEEEEeCCcceeEEEeCCCCccccCCCCEEEEEEcc
Q 002070 181 ALYRVNAHNRLEAYCKIEGVQTDVLITGIAAQNRAVEGDFVLIKVDR 227 (973)
Q Consensus 181 G~LRVN~~N~~eAyV~~~g~~~DVlI~G~~~rNRAl~GDiVaVeLlp 227 (973)
|+|+++++.+ |||.+++...||||... ++|.|+|||.|.|+|.+
T Consensus 1 G~~~~~~~Gf--GFv~~~~~~~DifIp~~-~l~~A~~gD~V~v~i~~ 44 (58)
T PF08206_consen 1 GTLKIHPKGF--GFVIPDDGGEDIFIPPR-NLNGAMDGDKVLVRITP 44 (58)
T ss_dssp EEEEE-SSS---EEEEECT-TEEEEE-HH-HHTTS-TT-EEEEEEEE
T ss_pred CEEEEEcCCC--EEEEECCCCCCEEECHH-HHCCCCCCCEEEEEEec
Confidence 8999998888 99999998999999995 99999999999999988
No 11
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=86.49 E-value=2.3 Score=36.20 Aligned_cols=50 Identities=18% Similarity=0.217 Sum_probs=32.6
Q ss_pred ceEEEEeCCCCCCceEEecCCCChhhhhhcccCCccccceEEEEEEeecCCCCCCCcEEEEEe
Q 002070 399 EYIQLTPTHPKYPKMVVLVKDLPDSIKKRLEEGDATIEMELVAARIDEWNEESPFPQAHVLHV 461 (973)
Q Consensus 399 ~~~~~~P~D~rip~i~i~~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s~~P~G~iv~~ 461 (973)
+|.+++|.| .-.-+.|+. .-.+.+.+|| .|+|+|.. +.....|.|+|+++
T Consensus 9 GfGFv~~~~-~~~DifIp~-----~~l~~A~~gD------~V~v~i~~-~~~~~~~eg~vv~V 58 (58)
T PF08206_consen 9 GFGFVIPDD-GGEDIFIPP-----RNLNGAMDGD------KVLVRITP-PSRGKRPEGEVVEV 58 (58)
T ss_dssp S-EEEEECT--TEEEEE-H-----HHHTTS-TT-------EEEEEEEE-SSSEEEEEEEEEE-
T ss_pred CCEEEEECC-CCCCEEECH-----HHHCCCCCCC------EEEEEEec-CCCCCCCCEEEEeC
Confidence 688999999 223355542 2234455565 79999998 88888999999985
No 12
>smart00357 CSP Cold shock protein domain. RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.
Probab=84.45 E-value=1.4 Score=36.87 Aligned_cols=45 Identities=18% Similarity=0.147 Sum_probs=34.7
Q ss_pred EEEEEeccCCceeEEEEeCCcceeEEEeCCCC----ccccCCCCEEEEEEcc
Q 002070 180 KALYRVNAHNRLEAYCKIEGVQTDVLITGIAA----QNRAVEGDFVLIKVDR 227 (973)
Q Consensus 180 qG~LRVN~~N~~eAyV~~~g~~~DVlI~G~~~----rNRAl~GDiVaVeLlp 227 (973)
+|+++...+. -+||..++...||||.-. + .+.+.+||.|.+++..
T Consensus 1 ~G~i~~~~~g--~gfv~~~~~~~~i~v~~~-~~~~~~~~~~~Gd~V~~~i~~ 49 (64)
T smart00357 1 TGVVKWFNKG--FGFIRPDDGGKDVFVHPS-QIQGGLKSLREGDEVEFKVVS 49 (64)
T ss_pred CeEEEEEcCC--eeEEecCCCCccEEEEhH-HhhcCCCcCCCCCEEEEEEEE
Confidence 4788876643 579988765579999644 4 6889999999999854
No 13
>TIGR02063 RNase_R ribonuclease R. This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans.
Probab=76.53 E-value=7.8 Score=48.93 Aligned_cols=58 Identities=17% Similarity=0.229 Sum_probs=41.4
Q ss_pred ceEEEEeCCCCCC-ceEEecCCCChhhhhhcccCCccccceEEEEEEeecCCCCCCCcEEEEEecCCCCCh
Q 002070 399 EYIQLTPTHPKYP-KMVVLVKDLPDSIKKRLEEGDATIEMELVAARIDEWNEESPFPQAHVLHVFGRGGEV 468 (973)
Q Consensus 399 ~~~~~~P~D~rip-~i~i~~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s~~P~G~iv~~LG~~gd~ 468 (973)
++.++.|.| +.+ .+.|+..+ ...+.+|| .|+|+|..|+.....|.|+|+++||...+.
T Consensus 79 g~gFv~~~~-~~~~di~I~~~~-----~~~a~~GD------~Vlv~I~~~~~~~~~~eg~Vv~Il~r~~~~ 137 (709)
T TIGR02063 79 GFGFLRPED-DDEDDIFIPPRQ-----MNGAMHGD------RVLVRITGKPDGGDRFEARVIKILERANDQ 137 (709)
T ss_pred ccEEEEECC-CCCCcEEEChHH-----hCcCCCCC------EEEEEEecccCCCCCceEEEEEEEeeCCCE
Confidence 577889987 433 45554322 23445565 899999999865667899999999998655
No 14
>smart00357 CSP Cold shock protein domain. RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.
Probab=62.33 E-value=20 Score=29.75 Aligned_cols=55 Identities=18% Similarity=0.167 Sum_probs=33.4
Q ss_pred ceEEEEeCCCCCCceEEecCCCChhhhhhcccCCccccceEEEEEEeecCCCCCCCcEEEEEec
Q 002070 399 EYIQLTPTHPKYPKMVVLVKDLPDSIKKRLEEGDATIEMELVAARIDEWNEESPFPQAHVLHVF 462 (973)
Q Consensus 399 ~~~~~~P~D~rip~i~i~~~~~p~~~~~~~~~gd~~~~~~lvvv~I~~wp~~s~~P~G~iv~~L 462 (973)
++.++.|.+.. +.+.|+...+.. -...+.+|| .|.++|..|. ....|.+.++++|
T Consensus 10 g~gfv~~~~~~-~~i~v~~~~~~~-~~~~~~~Gd------~V~~~i~~~~-~~~~~~a~~v~~~ 64 (64)
T smart00357 10 GFGFIRPDDGG-KDVFVHPSQIQG-GLKSLREGD------EVEFKVVSPR-GGGKPEAENVVKL 64 (64)
T ss_pred CeeEEecCCCC-ccEEEEhHHhhc-CCCcCCCCC------EEEEEEEEcc-CCCCcEEEEEEeC
Confidence 46778887653 456665332100 012334444 8899999883 4456899999875
No 15
>COG4871 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.25 E-value=1.4e+02 Score=30.93 Aligned_cols=50 Identities=14% Similarity=0.236 Sum_probs=41.2
Q ss_pred cCCCccccCCCceeeeCCCCCeeEEEeccCCcHHHHHHHHHHHHHHHHHH
Q 002070 687 TDGALRLENSKPVFLFDEYGTPYDSVLSGREDLNFLFEEFMLLANKTAAE 736 (973)
Q Consensus 687 ~~Gal~l~~~e~~~~lDe~g~p~~~~~~~~~~s~~LIEEfMllAN~~VA~ 736 (973)
++++|.|...+.-+.+-++|.+.-..+....+|..+.+|+|-.+|+++|+
T Consensus 63 kk~~l~~~kgerIitiy~sGkVsm~~ikdedEAkeilgel~d~ineA~~k 112 (193)
T COG4871 63 KKNILILQKGERIITIYGSGKVSMTMIKDEDEAKEILGELMDIINEAIAK 112 (193)
T ss_pred ccceEEEeeccEEEEEccCCeEEeeeecCHHHHHHHHHHHHHHHHHHHHc
Confidence 45788888888777788888765555567789999999999999999996
No 16
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=21.25 E-value=3.2e+02 Score=23.28 Aligned_cols=48 Identities=15% Similarity=0.151 Sum_probs=33.6
Q ss_pred EEEEEeccCCceeEEEEeCCcceeEEEeCCCCcc---cc-CCCCEEEEEEcc
Q 002070 180 KALYRVNAHNRLEAYCKIEGVQTDVLITGIAAQN---RA-VEGDFVLIKVDR 227 (973)
Q Consensus 180 qG~LRVN~~N~~eAyV~~~g~~~DVlI~G~~~rN---RA-l~GDiVaVeLlp 227 (973)
+|++.--..+..-+||..++...|||+.-..-.+ |. -.||.|.+++..
T Consensus 2 ~G~V~~~~~~kgyGFI~~~~~~~diFfh~s~~~~~~~~~l~~G~~V~F~~~~ 53 (66)
T PF00313_consen 2 TGTVKWFDDEKGYGFITSDDGGEDIFFHISDLSGNGFRSLKEGDRVEFEVEE 53 (66)
T ss_dssp EEEEEEEETTTTEEEEEETTSSSEEEEEGGGBCSSSSTS--TTSEEEEEEEE
T ss_pred eEEEEEEECCCCceEEEEcccceeEEeccccccccccccCCCCCEEEEEEEE
Confidence 5766654444566999999988899997554333 33 499999998743
Done!