Query 000089
Match_columns 2277
No_of_seqs 153 out of 186
Neff 3.2
Searched_HMMs 46136
Date Thu Mar 28 17:37:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000089.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000089hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4522 RNA polymerase II tran 100.0 4E-217 8E-222 1924.2 23.3 1412 405-2270 3-1427(1427)
2 KOG3598 Thyroid hormone recept 100.0 1.4E-48 2.9E-53 482.3 15.5 601 56-793 43-729 (2220)
3 PF12145 Med12-LCEWAV: Eukaryo 100.0 9.4E-43 2E-47 414.8 7.6 294 360-730 1-364 (480)
4 KOG4522 RNA polymerase II tran 99.9 7.8E-25 1.7E-29 267.8 14.5 275 44-369 12-308 (1427)
5 PF09497 Med12: Transcription 99.9 2.8E-22 6E-27 186.9 5.3 62 158-219 2-64 (64)
6 KOG3598 Thyroid hormone recept 99.0 1.9E-10 4.2E-15 147.4 4.6 405 173-729 264-729 (2220)
7 COG0695 GrxC Glutaredoxin and 34.8 11 0.00025 37.4 -0.4 30 885-916 5-34 (80)
8 PF00462 Glutaredoxin: Glutare 24.6 27 0.00058 32.1 0.2 26 885-912 3-28 (60)
9 TIGR02194 GlrX_NrdH Glutaredox 20.0 46 0.00099 31.8 0.8 26 885-912 3-28 (72)
10 TIGR02189 GlrX-like_plant Glut 19.1 42 0.00091 34.6 0.4 24 885-910 12-35 (99)
No 1
>KOG4522 consensus RNA polymerase II transcription mediator [Transcription]
Probab=100.00 E-value=3.6e-217 Score=1924.18 Aligned_cols=1412 Identities=50% Similarity=0.758 Sum_probs=1259.2
Q ss_pred HHHHHHHhhcCCccccCCCCCCCcccccccccCcccccccchhhhcccccCccchhhhccccchhhcccccchhhHHHHH
Q 000089 405 EMLRYLILAVPDTFVALDCFPLPSCVVSYAANDGNFVSKASEDVGKMKNYSTDAICVFRGKAVDAQYQSLSFDNVISAIQ 484 (2277)
Q Consensus 405 ~LLQ~L~LacPDAFVpPD~WPlppsvLP~p~n~~~fl~kasee~~~lk~~~~E~~~~~Rskave~ry~~LSf~~si~sIQ 484 (2277)
.|.+++.++-|+ .-|.+|++|+. ++.....+. .++.+++.+++|+..-+++++|.. +..++|++....|+
T Consensus 3 n~~~r~~l~pP~---~~D~~Pl~pc~-----~d~s~~s~d-~~l~~l~s~~~~i~anF~~~gv~~-~pfl~fd~is~~~r 72 (1427)
T KOG4522|consen 3 NMVRRLVLAPPD---ASDFFPLPPCP-----NDVSYTSKD-YELEKLRSNSAEISANFQGRGVLS-FPFLSFDYISSTIR 72 (1427)
T ss_pred ccccccccCCCC---ccccCcCCCCC-----CchhhcCcc-ccHHHhhcchhhhhhhhhcccccc-ccccchhhhhhhhh
Confidence 456778888886 35667777752 333333333 347788888999999999999999 89999999999999
Q ss_pred HHhHhhhhccCCCCCCCcHhHHHHHhhhhhccCCHHHHHHHHhhhhhhhcccccchhccCccccccccccccccccccce
Q 000089 485 RRADNLAKDASPGYPGHSVAKAVQALDKALLQGDIREAYKHLFEDLCDAALDESWIAEVSPCLRSSLKWIGTVSLSSVCS 564 (2277)
Q Consensus 485 kRn~~Lak~anp~~~~~~~akvVQaLDkalssgDI~~aY~~lF~dl~d~~vsedwi~evSPcl~~sl~w~gtv~lsli~s 564 (2277)
+...++++.++-++|+|+..+.||+||++++++|++.+|..+|+++| +.+++.||.-++ +|+ +.|+|..++|++ +
T Consensus 73 ~Sv~~~~~~as~~l~Qh~~k~~v~~l~~~~s~~~~r~~~s~l~ep~~-gf~~p~rITl~~--~R~-~rWl~~lSts~v-s 147 (1427)
T KOG4522|consen 73 RSVDDLAKIASAGLPQHNVKKAVQALDKALSDGDIRAAYSYLFEPLC-GFVDPARITLVS--LRS-LRWLGALSTSFV-S 147 (1427)
T ss_pred hhhhhHHHHHhccchhhhHHHHHHHHHHHhhcccccccceeecCCcc-cCCCCceeeehh--hhH-HHHHHhhcccch-h
Confidence 99999999999899999999999999999999999999999999999 688999998888 665 999999999998 9
Q ss_pred eeeeeecccccCCCCCCCCCCCccccccCcchhHHHHHHHHHHHhh-hcCCCCCCCCCcccccccccccccccccccccc
Q 000089 565 VFFICEWATCDFRDFRTVPPHGMKFTGRKDFSQIYVAIRLLKQKIR-DLHTPPRRKSESTLGIIDNLAKGSRQRNNYANR 643 (2277)
Q Consensus 565 Vf~LCEWAtt~fR~~r~~~~~~~kftgRk~lsqVYiAvrLLk~K~~-ei~~~~r~k~~s~~~i~~~~~Kgs~~~~~~~~~ 643 (2277)
+++|.+|+.+.+|++|...|+++||. +++|.|+-|+|.++- |+.. ||...++|.
T Consensus 148 l~~lik~iphgl~~~~~i~~~~iKF~-----~p~~raIwlikc~~~~E~~s-----------------~~kk~r~n~--- 202 (1427)
T KOG4522|consen 148 LFFLIKWIPHGLRDFRAIVPKDIKFS-----SPVYRAIWLIKCKILGEFTS-----------------KGKKCRNNF--- 202 (1427)
T ss_pred HHHHHhhCCcccchhhhhhhhheeec-----chHHHHHHHHHHhHHHHHHh-----------------hhhhhcccc---
Confidence 99999999999999999999999995 789999999995543 3321 222334432
Q ss_pred cccCCcccccccccccccccccCCCccCCCCCccceeeecccccccccccccchhhhhHHHhhhcCCCChHHHHHHHHHh
Q 000089 644 NFQGNGYEIKNNANRLDGLRINSSDIFETPGPLHDIIVCWIDQHEIHKREGVKRVQHFIMELVRAGIFYPQAYVRQLMVS 723 (2277)
Q Consensus 644 ~~~~~~~~~~~~s~~ld~~~~~ss~IfespgpLqDIIv~fLDq~~p~k~~~~k~L~~Lf~ELIRsGIFSv~aYVr~LIar 723 (2277)
+++||+ || |++|.||.|| ..+|-|++++|+|.|-+|+ |||.+
T Consensus 203 ------------~gs~Da--------~~-----~~~ik~WtD~------------~~~vle~~is~~~N~~ad~-q~i~s 244 (1427)
T KOG4522|consen 203 ------------LGSMDA--------FE-----HDIIKCWTDQ------------QLLVLELIISGIFNPIADV-QLIVS 244 (1427)
T ss_pred ------------cccchh--------hH-----HHHHHHhHHH------------HHHHHHHHHHHhcCcchhH-HHHHH
Confidence 234444 54 9999999888 6789999999999999999 78888
Q ss_pred CccCCCCCCcccccchhhHhhhCCCCchHHHHHHhhhccchhhHHHHHHHHhhhHhhhhcccccchhhhhhhcccccccc
Q 000089 724 GILDMNGLDLNRRRRHHRILKVLPGLFLRVALEEARIAEGSQLSEAIHVYSNERRLVLHELLFDQSIYVNVAAQNQKRHM 803 (2277)
Q Consensus 724 Gil~~~~~d~er~~rh~rlLkqLPg~~l~~~L~~a~i~e~~~l~e~~~~y~~eRrl~L~~~~~~~~~~~~~~~~~~~~~~ 803 (2277)
|..+.. ++||+||+++.+. |+||||++|+++..+... .+. ..
T Consensus 245 ~~~dv~-----------y~LKllg~c~~~e-------------------l~n~~~fllr~v~f~~g~----~d~----~~ 286 (1427)
T KOG4522|consen 245 GMIDVI-----------YILKLLGGCFVHE-------------------LSNERRFLLREVLFEKGK----SDQ----KS 286 (1427)
T ss_pred HHHHHH-----------HHHHHhhhhHHHH-------------------hcchhHhhhhheeeecCc----ccc----cc
Confidence 876543 8999999998765 999999999998877643 111 22
Q ss_pred CCCCCCCCCcccccccccccCCCCCCCCCCCCcccHHHHHHHHHHHhcCCCCCCCCCC-CCccccccccccccccccccc
Q 000089 804 AGGRDGASPSLADQWKTIQPTTGISSGRSGKSDADIEELKASIAVILQLPSSSATSAD-SGLDESQGSVKRSLGAVSSKM 882 (2277)
Q Consensus 804 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~k~~is~ll~~~~~~~~~~~-~~~~e~~~~~~~~~~~~~~~~ 882 (2277)
.+.+-..+++.+++.+++.+++ + .||.+. ||+++||+.+ ++-++ .-++|.+.|++++.++.|.+|
T Consensus 287 k~~Slh~~~v~~~~~c~~~sn~--p-~~~t~s----------~s~~~qFf~~-s~i~~t~v~~~~~~S~~~~s~~~yi~~ 352 (1427)
T KOG4522|consen 287 KKISLHLSSVIFPRACNAKSNS--P-RKHTKS----------ISALLQFFGM-SCIVETPVRDEFQNSVKRSSGSVYIKM 352 (1427)
T ss_pred cceeeeehhhccchhhccccCC--c-hhhccc----------hhhhccccch-hheehhhhhHHHhhhheeccCceeEec
Confidence 3445567888999999999887 3 567554 9999999998 77777 678999999999999999999
Q ss_pred ccCCCCCCchhhhhhhhhcccccCCCcee-ccCCCCCCCcccceeecCCCCCCc-cccCCCCCccccccccccchhhhhh
Q 000089 883 DLSEGTPGCEDCKRVKRQKLCEDRSSVLQ-ISSPIHSDDEDLWWVRKGPKPLES-YKADPPLKSTKQVSRGRQKTVRRTQ 960 (2277)
Q Consensus 883 d~~~~~~gce~c~r~krqkl~~~~~~~~q-~~~~~~sd~ed~wwv~k~~k~~e~-~k~~~~~k~~kq~~~~r~k~vrktq 960 (2277)
|..+.| +|+|+|+.|++++..++|| |.++|-++++|+||++|++|..++ +|++ ..+||+.||||++-||||
T Consensus 353 Dqp~n~----~~k~~~l~k~~s~~l~~~qe~n~eif~fpt~nW~i~Kp~~~~~~s~~~~---~~~~d~p~~~~l~s~~~e 425 (1427)
T KOG4522|consen 353 DQPENT----DCKRAKLPKMNSEKLSCYQEGNSEIFSFPTDNWWIKKPSKTVESSLKVD---EITKDVPRGRQLMSRKTE 425 (1427)
T ss_pred CCccch----hhHHHhhHHHHHHHHHHHHhcCcceeecccccccccCCeeEEEeecccc---chhhcccchHHHHHHHHH
Confidence 999998 9999999999999999999 999999999999999999998886 4666 679999999999999999
Q ss_pred hHHHHHHhcccCCCCCccccccCCCCCCCCCCCCCCCCccccccccccccccchHHHHHhhhcccccccchhHHHHHHHH
Q 000089 961 SLAQLAAARIEGSQGASTSHVCDNKGSCPHHKTGVEGETLKSMDGVRTACYGDIVSIGKALKKLRYVEKRTVTVWLISIA 1040 (2277)
Q Consensus 961 slaqlaa~riegsqgastsh~c~~k~scphh~~~~~~~~~k~~d~~~~~~~~d~~~ig~~lk~lr~~e~r~~~~wl~~~v 1040 (2277)
||||..+|||||+|||||+|+|+|+||||||.++.+|+|++++|-+++.++.|++++|..+|+|.|..+|+|.+|+++.+
T Consensus 426 sl~~ns~ar~~~~~~ast~~f~l~iVsC~~fp~~~~g~n~~~~d~fkll~p~~~~pvy~~~~pL~~h~~~~~~~W~i~~~ 505 (1427)
T KOG4522|consen 426 SLAQNSAARIEGSQGASTSHFCLNIVSCPHFPPGVEGENQKVVDVFKLLTPVDMVPVYNSLKPLQFHDKRSIAVWLITAV 505 (1427)
T ss_pred HHhhhhhHHHhhcccccccceeeeEEecCCCCccccchhhhHHHHHHhcCcccccccccCccceeeeeehheeeeeechH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhhhcccccccccccCCCcccceecCccchhhhhhhhhhchhHHHHHHHHHHhcccccCCCCCCccCCccc
Q 000089 1041 RQHIEEAEKTAAKVGQFNRSFVPVDGRISGRWRLSEDELSAILYFMDVCDDLVSAAKFLLWLLPKVLNSPSSTINSGRNI 1120 (2277)
Q Consensus 1041 rql~e~~e~~~~k~~~~~~~~~~~~~~~~~rw~lg~del~~~ly~~d~~~dl~s~~~~llwll~k~~~~~~~~~~~gr~~ 1120 (2277)
||++|+..+..+.++||+|. ++ .||+.++++|+|+.-|||++. |
T Consensus 506 rqf~~~~~n~~V~~~~~nr~-------Nt------~De~l~~~~i~D~~lslV~~l--------------------~--- 549 (1427)
T KOG4522|consen 506 RQFVEEPQNSSVRVGQFNRK-------NT------ADELLSILFILDISLSLVSAL--------------------G--- 549 (1427)
T ss_pred HhhCcCccchhHHHHHhhcc-------cc------hhhhhHHHHHHHHHHHHHHHh--------------------c---
Confidence 99999999999999999993 22 799999999999999999986 3
Q ss_pred cccccccCCCccchhhHHHHHHHhhhhhHHHhcccchHHHHHHHHhhHHHHhcCCcccccchHHHHHHHHHHhCCchhHH
Q 000089 1121 LMLSRNAENHACGVGEAFLLSSLRRYENIIIATDLIPEALSATMHRAAQVMASNGRVSGSAAYGYARYLLKKYGNMASVI 1200 (2277)
Q Consensus 1121 ~~~~~n~e~~~c~vgea~l~ssl~ryenil~a~dl~pe~ls~~~~r~~~~~~s~~r~~~s~~~~y~ry~lkky~~~~sv~ 1200 (2277)
||+|||.|.+|||.+. ||||+|||++.|++ ++++.|+|+|+ +| |.||.++
T Consensus 550 ----~n~e~n~cvi~~a~~~--l~rllniL~s~g~v--~~~~yi~rlaS--------sG-----ylr~~~~--------- 599 (1427)
T KOG4522|consen 550 ----RNVENNMCVIGEAILV--LRRLLNILLSAGLV--AMTAYINRLAS--------SG-----YLRYILK--------- 599 (1427)
T ss_pred ----cccccchhhHHHHHHH--HHHHHHHHHhcchH--hHHHHHHHHHh--------cc-----hhHHHhc---------
Confidence 7899999999999886 99999999999999 89999999665 22 9999998
Q ss_pred HHHhhhhhhhhhhhHhhhccCccccCCcCcCCCCcCCCCCCchhhhhhccCCcccccccchHHHHHHhHHHHHHhhhhhh
Q 000089 1201 EWEKNFKATCDKRLLSELESGRSLDGELGLPLGVPAGIEDPDDYLRQKISGGQLSRVGLSMRDVVHRHMEEAFHYFYDKE 1280 (2277)
Q Consensus 1201 ~wek~fk~t~d~rl~~el~~~rs~dg~~~~~~gv~ag~ed~d~~~rqki~~~r~srv~~~m~d~vqr~~~e~~~~~~~k~ 1280 (2277)
++|+.+..+.+++||+..|+..||+ |+.++|||.|.|++..- ++|+|||| ||+
T Consensus 600 ---N~~f~~~q~kil~~l~~lr~sq~~~--------~l~N~~~Y~~kk~~if~-----------~d~~Ve~~-eyl---- 652 (1427)
T KOG4522|consen 600 ---NNFFATSQKKILSELDHLRSSQGEY--------GLDNPDDYLRKKISIFG-----------LDRHVEEA-EYL---- 652 (1427)
T ss_pred ---cchhHHHHHHHHhcCcHhhhccccc--------ccCCHHHHHHHhhhccc-----------hhhhhhHH-HHH----
Confidence 8999999999999999999999999 67999999999998632 89999999 999
Q ss_pred hhhhccCCCCCCCCCCCchhhHHHHHHHHHHHHHHHhcCCCCCCCChhhHhHhHHhhhccccchhhccccccCCCCCCCC
Q 000089 1281 RKLFAAGSPRNPAIDKSDDESQIAQQIIIGLMDCFRQTGGAAQEGDPSLLSSAVSAIVGNVIPTMVKIHDFTAGSNYQNY 1360 (2277)
Q Consensus 1281 ~~~~~~~~~k~~~~ek~~~~yq~a~~iv~gl~dcirq~gga~~~gd~slv~savsaiv~~~g~~~ak~~d~~~g~n~~~~ 1360 (2277)
++++++|+.|+..+||.+++||+|+|++.|+|+|+|| ||++||+||+..+|-.+|.+.||..|+.|+++
T Consensus 653 K~~i~t~~~~~~~~~k~~~s~~v~~~e~y~~~~cs~~-----------Lvs~a~T~i~k~~~~~~~~l~~Fh~~~~fqv~ 721 (1427)
T KOG4522|consen 653 KKLIGTGTMKASLAEKNDDSYQVAQQEVYGLMDCSRQ-----------LVSSAVTAIIKSVGLSVARLTDFHLGNIFQVH 721 (1427)
T ss_pred HHHhcccchhhhhhccCCchhhhhHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHhhcchhhhhh
Confidence 4568999999999999999999999999999999999 99999999999999999999999999999999
Q ss_pred ccccCchhHHHHHHhhhhHHHHhhHHHhhcchhhhhhhhhhhhhhhhhhccccCCcccccccCCCCCCCCCCCCcchhhc
Q 000089 1361 ASTTGSLSFARRILRIYITCLCLLKEALGERQSRVFEIALATEASCALARVFTPGKAARSQFQSSPEAHDPNANMSNDIL 1440 (2277)
Q Consensus 1361 ~~~~~sl~~~r~il~~hi~~l~llkealger~srvfeiala~eas~~~~~~f~p~k~~r~qfq~spe~~d~~~~~~n~~~ 1440 (2277)
++.. |-|.+|.|||+| |||+ ++|+|| ++||||||||+ |+|.+.+|.|.|.+|| .|.+-|+.
T Consensus 722 ~~lv-sdn~~~~~l~~~--clC~--q~Lf~~--fI~~~~l~Tes-------f~~v~~~~gk~~~vpa-----~N~T~dmp 782 (1427)
T KOG4522|consen 722 PSLV-SDNIARYILRIH--CLCL--QALFER--FIFEIALATES-------FAPVKGSRGKHQLVPA-----NNSTIDMP 782 (1427)
T ss_pred hhhh-hhHHHHHHHHHH--HHHH--HHHHHH--HHHHHhhhhhh-------HHHHHhhhhhhhcccc-----ccccccCc
Confidence 9888 899999999988 9998 999999 89999999998 9999999999999995 34455554
Q ss_pred cCccccccccchhHHHHHHHHHHHHhhhchhhhhhhhhhheeccccceeeecccccCCCCCCcccccceeccCceEEEee
Q 000089 1441 NSSSKVASGRTSKVTAAISALVVGAVLHGVTSLERMVTVFRLKEGLDVIQFVRSTKSNSNGSARSIGTFKLDNSIEVHVH 1520 (2277)
Q Consensus 1441 ~~~~~~~~~~~~k~~aa~salvvgai~~gv~slermv~vlrlkegld~~~~~r~~~~~sng~~rs~~~~k~~~s~ev~vh 1520 (2277)
| . +...-|.+||+||+||||+ -|||+++|+.| ++|+|+.+|.++|+|.+++.|| .+|++|+- |+++|
T Consensus 783 ~-~-k~~l~~f~~It~~~s~l~i---~~~~V~y~d~~-l~~~K~~~Dfvefl~~~~~~sn-s~~avg~T------~~~~~ 849 (1427)
T KOG4522|consen 783 N-G-KMALSRFTKITAAVSALVI---THGVVTYEDIV-LLRLKDYLDFVEFLRRTKSSSN-SARAVGAT------EVYVH 849 (1427)
T ss_pred c-H-HHHHHhhHHHHHHhhhhee---ecceEEecHHH-HhhhhhhhhHHHHHHhhhcccc-cchhhhhh------HHHHH
Confidence 4 3 3444699999999999997 89999999999 9999999999999999999998 89999986 99999
Q ss_pred eehhhhcccccccccchhhhcCchhHHHHHhhhhcccccccCCchhHHHHHhhhhhhhcccc--chhhhhHHHHHHHHHH
Q 000089 1521 WFRLLVGNCRTVSDGLVVEFLGEPSIVALSRMQRMLPLSLVFPPAYLIFAFVLWRPFILNNS--LAVREDIHQMYQSLTM 1598 (2277)
Q Consensus 1521 wfr~l~gncrtv~~glv~~~lge~~i~alsr~qr~lpl~~vfppaysifa~v~wr~~~~~~~--~~~red~~qlyqsl~~ 1598 (2277)
|||++||||+++.+|+..++. +++|.+|||||||+.+||||||+|.||++||+|+.|.| -.+.||+|..||+.+|
T Consensus 850 vf~~~v~~~~h~se~~d~~~~---~~f~~~r~~~ml~i~~~fk~~~~~~~~fl~rk~~sn~n~~~~Vs~~~~~e~q~n~~ 926 (1427)
T KOG4522|consen 850 VFRLLVGNCKHVSEGLDLELV---SVFAISRMQRMLPIKLVFKPAYSIIAFFLWRKFVSNSNSNSSVSEDTHREYQSNTM 926 (1427)
T ss_pred HHHHHhcccccCCchhhhHHH---HHHHHHhhhhhhhHHhhhhHHHHHHHHHHccccccccchhhhhhhHhHHHHHhcch
Confidence 999999999999999999887 99999999999999999999999999999999998733 2459999999999999
Q ss_pred HHHHHHhcCCcccccccccccceeeeccCCChHHHHHHHhhcCcccccccccccchhhHHhHHHHhccCCCCCcccCCCc
Q 000089 1599 AINDAIRHLPFRDVCLRDCQGFYNLVTADSTDAEFAAMLELNGLDLQLKSMAFVPLRARLFLNAIIDCKMPSSLFKPEDF 1678 (2277)
Q Consensus 1599 ai~d~~~h~pfrdvc~r~~~~~y~l~~ad~~d~efa~~le~~~~d~~~k~~af~plrarlflna~idc~~p~~~~~~~~~ 1678 (2277)
|+.|+|||+|| .+|.+|.||+.++|.|| +|+.+|- |||+|||.+++||.
T Consensus 927 ~l~~vi~~Lp~---------------~ld~~d~~~g~~~e~H~----~ksI~~~--~ar~~l~~l~l~K~---------- 975 (1427)
T KOG4522|consen 927 ALHDVIKHLPF---------------VLDSTDAEFGSVFESHG----LKSIAFA--RARLFLNSLILCKV---------- 975 (1427)
T ss_pred HHHHHHHhccc---------------cccCCCccchhHHHhhc----hHHHHhH--HHHHHHhHHHHHHH----------
Confidence 99999999999 78999999999999999 8898888 99999999999997
Q ss_pred ccccCCccccccccchhhhHHHHHHHHHhhcCCccchhHHHHHHHhhchHHHHHHhhcccchHHHHHH-hcCCCcccccc
Q 000089 1679 NRVSGHTESKSHRAENEAKLLDKLVHVLDSLQPAKFHWQWVELRLLLNEQALIDRLENHEMSLAEAIR-SLSPSPEKAAA 1757 (2277)
Q Consensus 1679 ~~~~~~~~~k~~~~~~~~kl~d~lv~~ld~lqpakfhwqwvelrlll~eqal~ek~~~~~~~l~~a~~-~~sp~~e~~~~ 1757 (2277)
..|..|.|... ||..|+.+++++++|+|||+ +++|||+|.|||++|+|.|.||++ +.+|. |+.+
T Consensus 976 --~~g~~c~~N~~-e~~~K~v~~~~sv~dcl~~s----------~~i~~q~l~~~lenh~mil~d~l~ysTCpt--k~d~ 1040 (1427)
T KOG4522|consen 976 --HEGVSCAKNRH-ENGTKLVDKLVSVLDCLQPS----------LLINEQALAEKLENHDMILTDALRYSTCPT--KPDA 1040 (1427)
T ss_pred --hcCchhhhhhH-HhHHHHHHHHhchhhhcchH----------HHhHHHHHHHHhhhccchhhhhHHhccCCC--cccc
Confidence 36778898833 99999999999999999999 899999999999999999999999 89988 8999
Q ss_pred chhchhhHHHHHHHhhcCCCCcchHHHHHHHhcchhhhhhHhhcceecccccccccchhhhHHHHhhhhccCcccccccc
Q 000089 1758 SENENNFIEIILTRLLVRPDAAPLFSELVHLFGRSLEDSMLLQAKWFLGGHDVLFGRKTIRQRLVNIAESKGLSTKAQFW 1837 (2277)
Q Consensus 1758 se~e~~f~~iiltrll~rpdaa~l~se~vhl~g~~l~~s~~~~~kw~l~g~d~l~grk~~rq~l~~i~~~k~~~~k~q~~ 1837 (2277)
+|+|+||+ +|||++|||+||||.+|+|++|+. ||+ ||++||.|+|..++|||++|
T Consensus 1041 s~~e~~~~-------------~Pl~~tvvt~~d~s~dD~~~~~~~------Dvv--~k~V~~~l~n~~~~~g~~~~---- 1095 (1427)
T KOG4522|consen 1041 SENEKNFI-------------VPLFSTVVTLFDRSVDDSMLKQAE------DVV--RKTVRQKLINVGESKGLPTK---- 1095 (1427)
T ss_pred ccCccccC-------------CCchhhheeccCCccchhhhHhHH------HHH--HHHHHHHHHHhccccCccch----
Confidence 99999999 899999999999999999999998 998 99999999999999999999
Q ss_pred cccccC-CCCCCCcccc--cCcccccccccccccccccccccccCCCCCCCcccccccccccchhhHHHHHHhhcccccc
Q 000089 1838 KPWGWV-NSGFGPGLNR--GDKKKLEATSLEEGEVVEEGIDSKRHGKGSNPLFDAEGTSIGQQHVTERAFIELVLPCIDQ 1914 (2277)
Q Consensus 1838 kpwgw~-~~~~~~~~~~--~~k~k~e~~s~eegev~~~~~d~kr~~~~~~~~~~~~~~~~~~~~~te~a~~elvlpcid~ 1914 (2277)
|+|+ .+..||++.. +.|+||+.+++||||+.+|- .++|+.|......+.|.. ||||.+++||||||
T Consensus 1096 --~iwk~~~s~~p~~a~~~~k~~~F~i~ei~~~~dl~~~--------~f~q~ld~~s~~v~~qI~-e~~F~~~~l~~~~Q 1164 (1427)
T KOG4522|consen 1096 --WIWKNSSSSDPITANKAGKKRKFEITEIEEGEDLEEV--------LFPQVLDENSPSVGYQIT-ERAFVQLVLPCIDQ 1164 (1427)
T ss_pred --hheecccCCCchhhhhhhhhceEEEEEeccccchhHH--------hhhHHhhccChHHHhcCc-HHHHHHhcCCcccc
Confidence 9999 6777898765 88999999999999999773 799999999999998876 99999999999999
Q ss_pred CChhhhhhhHHHHHHHHHHHHHHHHHHhhcCccc--ccccCCCCCcCCCCCCCccccccCCCCCCCCCCCCCCCCCCCHH
Q 000089 1915 SSDDSRNTFANDLIKQLNNIEQQISAVTRGANKL--TGSVPSGIEVPSNKGSNRKSIRGGSPGLARRLAATADPAPPSPA 1992 (2277)
Q Consensus 1915 ss~~~r~~fa~dlikq~~~i~~~i~~~~~~~~k~--~~~~~~g~e~~~nk~~~rk~~~ggsp~~~rr~~~~~~~~~ps~a 1992 (2277)
|+||+|.+|..++|.|+.++||+.+.++..-+-- .|++.+|.+-+++| ||+|+||..... |
T Consensus 1165 s~d~~~s~~vneiv~~~S~r~qrlTs~~~~it~~n~hg~~~~~~qls~l~----------s~sl~kr~~~n~-------a 1227 (1427)
T KOG4522|consen 1165 SSDESRSTFVNEIVRQFSNREQRLTSVTNRITTSNKHGTASSGSQLSSLK----------SPSLAKRSSANT-------A 1227 (1427)
T ss_pred ccchhhhHHHHHHHHhhhhHHHHHHHHHHHhhhccchhhhHHHHHHhhcc----------CcchhhHHHhHH-------H
Confidence 9999999999999999999999999997655432 89999999999988 899999987665 9
Q ss_pred HHHHHHHHHHHHHhhhhhhhhcCCCCCchhhHHHHHHHHHHHhccceeecccccCCCCCCCccchhhhcccccCCCCCcc
Q 000089 1993 ALRASMSLRLQFLLRLLPLIYTDGEPSGRNMRYLLASVILRLLGSRVVHEDADLSFYPMQSPQSKREVESLPEASSVPSA 2072 (2277)
Q Consensus 1993 alras~~lrlq~l~rllp~i~~d~~~~~r~mr~~las~i~~llg~rvv~eda~~~~~~~~~~~~~~e~~s~~e~~~~~~~ 2072 (2277)
|||++|.+|+||++|+|||||. +|+..+.+|.+|+.|.|+||+|||+||++++.+ -++-.|.||+++|| +
T Consensus 1228 ~L~~~~f~~~~~~~r~~~v~~~--kPs~~~~d~~c~~~~~~~~n~r~~l~~yev~ss----r~~~a~y~sTID~p----a 1297 (1427)
T KOG4522|consen 1228 ALRASMFLRLQFLLRLLPVICG--KPSFKNTDHACASTIVRLLNSRVVLEDYEVCSS----RSELAEYESTIDPP----A 1297 (1427)
T ss_pred HHHHHHHhHHHHHHhhhceeec--CCCCCchHHHHHHhHHhhccchhhhhHHhhhcc----chhhhhhhcccCCh----H
Confidence 9999999999999999998885 588999999999999999999999999997654 22337899999997 6
Q ss_pred cCCchhhHHH-HHHHHHHhhcCCCCCccccCCCCCCCCCCCCCCCcccHHHHHHhhcccccccCchhHHhHhhhcccccc
Q 000089 2073 DFSGESLFDR-LLLVLYGLLSSCQPSWLRPKPAFKSSNNTSKDSSGFDREIAESLQNDLDHMQLPDTVRWRIQAAIPILL 2151 (2277)
Q Consensus 2073 d~~~e~lfdr-ll~vlh~ll~~~~p~wlk~~~~sk~~~~~~r~~~~fd~e~~e~lq~~ld~mqlp~~ir~riqaamp~l~ 2151 (2277)
|.++|.+||+ -|+= |.-||||++||||||+||
T Consensus 1298 ~lss~~~~~pr~ll~-------------------------------------------L~~~q~~sfi~w~~qh~~---- 1330 (1427)
T KOG4522|consen 1298 DLSSEVLFDPRELLG-------------------------------------------LSTMQLPSFIRWRIQHAM---- 1330 (1427)
T ss_pred HhccccccChHHHhC-------------------------------------------CCcccchHHHHHHHHccc----
Confidence 8999999975 3322 234999999999999999
Q ss_pred CCCccccccCCCCcchhhhcccCcccccCCCCCCCCCCCCCCCccccccccCCCCCCCCCCCCCCCcccCccccccCCCC
Q 000089 2152 PSVRCSLTCQPPSVPVAALASLQPSISVSGASPGNLNLPQRNPVPLARSATNTGKSKPIPLQQDSDMEIDPWTLLEDGAG 2231 (2277)
Q Consensus 2152 ps~~~~~~cqpp~v~~~a~~~lq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~d~~~e~dpwtlledg~~ 2231 (2277)
..+|||.++|..||+..||...++.+ ..++|+.|+.....|..+-|.-...+.+..|-|--..+.
T Consensus 1331 -----dy~~qe~s~~~~~ltl~~~igit~~a------~~neq~~~~I~d~~~~~~~~~fs~~P~q~~~~~nt~~~d---- 1395 (1427)
T KOG4522|consen 1331 -----DYSCQEHSVPPTALTLVQPIGITAAA------GTNEQNSPAISDSGTAAKLKPFSLAPHQQQEADNTDVVD---- 1395 (1427)
T ss_pred -----ccccCcCCCCccchhhhccchhhhhh------hhccccceeeeeccchhhhccccCCchhhhhhccceeec----
Confidence 78999999999999999998887764 255777888888877776666655555555543322322
Q ss_pred CCCCCCCCcccCCCccchhhhhhccccceeeeecccccc
Q 000089 2232 SGPSSSNTAAIGSGDQANLQAASWLKGAIRVRRTDLTYI 2270 (2277)
Q Consensus 2232 ~~~~~s~~~~~~~gd~~nl~a~swlkgavrvrrtdltyi 2270 (2277)
.+.+++.|.+|++|++||||+||||||||||+
T Consensus 1396 -------~~as~s~d~~~f~~Sc~l~~~v~vr~~dl~~~ 1427 (1427)
T KOG4522|consen 1396 -------SNASNSSDMANFRASCWLKGAVRVRRTDLTYV 1427 (1427)
T ss_pred -------ccccccHHHHHhhHhHHHhhhhheeeeccccC
Confidence 44556689999999999999999999999995
No 2
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=100.00 E-value=1.4e-48 Score=482.34 Aligned_cols=601 Identities=9% Similarity=-0.084 Sum_probs=445.8
Q ss_pred CcccCC---CCCCCCCccCCCCCCCCccccHHHHhcccccccc--chh--hhHHHHH--HhhhhhchHHHHHHHHHHHHH
Q 000089 56 DKESLN---SRLGPPDFHPQTPNCPEETLTREYVQNGYKETVE--GLE--EVREISL--TQAQTFNKPVVLKCREAIRKC 126 (2277)
Q Consensus 56 ekrpLk---pRLGyPDFYPQ~pnQpEDeLTee~VKKGY~dtPe--snE--SAResl~--SkLs~F~n~VILK~KEaLkqr 126 (2277)
+.+||+ +|+|+||+||++++|.||+||..+||+||.+.|. ++| +||++.. .++..++..|+ .+.+
T Consensus 43 ~~r~~k~P~~r~~~~~~~~~~~~~~~~~~~~v~~KQ~F~N~~a~~~~e~~~~kN~~~~~~~~~~~~~~i~---~~~~--- 116 (2220)
T KOG3598|consen 43 LYKSFRNPIKRREATKTWNYLTGFMKYMFDDVLDKQEFLNDLTEVFNQLFLQKNFKNPSVLSTFMKYYVY---FVED--- 116 (2220)
T ss_pred hhhhhcCcccccCCCccCcccchhHHHHHHHHHHHhhhccChhhhhhhhhhhhccccChhhhhhhhhHHH---hHHh---
Confidence 344444 5799999999999999999999999999999985 344 8998776 34444443432 2322
Q ss_pred HHHHHHhHHHhhhcCcccCCCCCCccCCCCCccCCccccChHHHHHHHHHhccCChhHHHHhhcCCCCcchhHHHHHHHh
Q 000089 127 LRAINESRAQKRKAGQVYGVPLSDSLLTKPGVFPEQRPCGEEFRKKWIEGLSQQHKRLRSLADHVPHGYRKRSLFEVLIR 206 (2277)
Q Consensus 127 lraINeirdqKRKagQV~GVPlSGS~ltKPsF~P~rVttltDkREaWfkDLAnPnVPLrKLSKkIPHGiKKEeLLEqL~e 206 (2277)
..|...+.+|++.|++ .+++||-+.. ....++++||.|||+ ++||..|+++||.+-++++.|+.+.+
T Consensus 117 --~~~tl~~t~r~~~~v~---------q~~~f~~~~A-~~q~~I~~~~~D~~~-~~~l~~~~~~VP~f~~~e~~~~~~A~ 183 (2220)
T KOG3598|consen 117 --LSSSLVLARRSSTLLC---------QALGFLFEMA-QDKRKIDAYYDDYDD-FIDMLDEIPDVPYFDETDKTPEAQAE 183 (2220)
T ss_pred --hhhhhhhccccchhhh---------hhcceeeeeh-hhHhHHHHHHhhhcc-cccHHHhcccCCccccccccHHHHHH
Confidence 3578888899998876 5899998764 335669999999999 99999999999999999999999999
Q ss_pred cCCCchhhHHHhHhhhhhcccccccccCcCccccccc-hhhHHHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCCCCccc
Q 000089 207 NNVPLLRATWFIKVTYLNQVRHGSANSLSGAQDKIQL-SRTEIWTKDVIDYLQHLLDEFFSRNNSHSTQYSRDRSPQTLY 285 (2277)
Q Consensus 207 knVPI~RAVWFIKcVgANEiRa~saaiSsgk~kKrql-~ws~EWTq~VtqFLekqL~E~~s~n~s~~ppss~sqS~~~p~ 285 (2277)
|-||+.||+|+||+++++. +++++.+.+|++. ++..|||++.++|+.+|+..+++.+...+.++ -++-+.
T Consensus 184 ~~v~~~R~a~~iK~t~~~~-----~~~~~~~~~Kr~~~~P~~E~t~~~~k~~~~Q~~~~~d~Y~~~~~~S-yep~p~--- 254 (2220)
T KOG3598|consen 184 ELIKEKRKAGSLKKSERRR-----RRGLSKNRPKKMPQNPSNEASLDHDKVQIKQEPMDYDEYGGQYDPS-YEPLPF--- 254 (2220)
T ss_pred HHHHHHHHhhhhHHHHHHH-----HhhhhccccccCCCCcchhHHHHHHHHHHHHhhHHHHhhcCCCCCC-CCCCCc---
Confidence 9999999999999999998 6777888888865 59999999999999999998888764221110 000000
Q ss_pred CCCCCCCCCcccccCCCCccccch-HHHHHHHHHHHHHccCCChhhHHHHHHHhhhcccc--hhhHHHHHHHHHHHHHHh
Q 000089 286 TGSPQQRSDPAAVINSEEPSLHFK-WWYMVRLVQWHLAEGLLLPSYIIEWVLNQLKDKEL--LEILQLVLPIIYGVLETV 362 (2277)
Q Consensus 286 aGsik~~sdP~a~sDseE~~~k~K-WsY~lRLlr~LY~EGLLDR~eFLdWLLe~LqE~~s--~eiLpLlLpLLlqYwdDI 362 (2277)
+ .| .. .+.....| |.|.-.++..++.|||+|+++|+.|+++.+.+... +++++++++.+..|-+++
T Consensus 255 ---v----~P--~~--~~~~~~sk~~e~n~~~~~~k~qe~mldkHe~~~~i~~v~~~ia~~~~e~~KLle~~~~~~s~Ed 323 (2220)
T KOG3598|consen 255 ---V----TP--ER--ISGRYGSKTKEKNKDKEKDKEKEKSVDEHTLDVPINPDDAEMATDASEKQKLVEEEPTGKENED 323 (2220)
T ss_pred ---c----CC--CC--CchhHHhhhhccChHHHHHhhcccccchhhhhhhccccHHhhccChHHHHHHhHHHhhcccCCC
Confidence 0 01 00 11112356 99999999999999999999999999999977753 589999999999999999
Q ss_pred hhhhHHHHHHHHHHHHHhcCCC-----------------------------C----------CCCCccCCchhHHHHHHH
Q 000089 363 VSSQTYVRSLVGIATHFIREPS-----------------------------P----------GGSDLVDNSRRAYTISAL 403 (2277)
Q Consensus 363 lqSr~LSRRLAeaLLrKLsep~-----------------------------P----------~~sdL~d~p~r~~Lis~L 403 (2277)
.++.+++|+++|+|-+++..+- | .+.++.-|++|.+++..|
T Consensus 324 ~qSa~tsr~~aY~~~r~a~l~ld~~~~~~~~~sp~~vs~~~tS~~~t~~~~~~pP~~s~~~~~~sd~~~~~qH~~Lv~~l 403 (2220)
T KOG3598|consen 324 DTSSKTAKTSTSAEKSEAPSIVDSNDKIDKEPNASSTSNDETSKDDTVPMESDPPAATEKPKESTEITTEEEHEDDIMII 403 (2220)
T ss_pred chHHHHHHHHHHHHHhhhhhccccccccccCCCCCcCCCccccccCCCCCCCCCCcccCCCcchhhhhhhhhhcchHHHH
Confidence 9999999999999999887410 0 236667788899999999
Q ss_pred HHHHHHHHhhcCCccc---------------cCCCCCCCcccccccccCcccccccchhhhcccccCccchhhhccccch
Q 000089 404 AEMLRYLILAVPDTFV---------------ALDCFPLPSCVVSYAANDGNFVSKASEDVGKMKNYSTDAICVFRGKAVD 468 (2277)
Q Consensus 404 S~LLQ~L~LacPDAFV---------------pPD~WPlppsvLP~p~n~~~fl~kasee~~~lk~~~~E~~~~~Rskave 468 (2277)
+++++.+.++||.+.| +.|+.|..++.+++|.....|...+. .+-|+-|++|.+|+.|++
T Consensus 404 ~~~~qt~~~~C~~a~V~~~sl~~~ks~~p~~~~Dh~p~a~~~~n~Pe~~~a~~q~~~-----~kirE~E~qI~~l~~Ave 478 (2220)
T KOG3598|consen 404 ESNKKADEDDCVVIAVVDQTPESEKKKDGEEERDKNKDTDVADNEPEKIYTDEELAE-----IKIREKEMKIATLASHIK 478 (2220)
T ss_pred HHHHHHHHhhhHHHHHHhcCchhhhccCCCCchhhCcCCCCCCCCCCCCCCCccCCC-----ccHHHHHHHHHHHhhhhh
Confidence 9999999999999999 88999999999999987666655554 455688999999999999
Q ss_pred hhcccccchhhHHHHHHHhHhhhhccCCCCCCCcHhHHHHHhhhhhc-----cCCHHHHHHHHhhhhhhhcccccchhcc
Q 000089 469 AQYQSLSFDNVISAIQRRADNLAKDASPGYPGHSVAKAVQALDKALL-----QGDIREAYKHLFEDLCDAALDESWIAEV 543 (2277)
Q Consensus 469 ~ry~~LSf~~si~sIQkRn~~Lak~anp~~~~~~~akvVQaLDkals-----sgDI~~aY~~lF~dl~d~~vsedwi~ev 543 (2277)
++| +++.+++..... ..-..+++...||..+. .+-+.++|+.||+.-. +++ .+++
T Consensus 479 ~r~-------v~DK~~~~tt~~--------t~~R~L~t~e~~d~Hs~~~~~~~nsl~t~~s~I~~~~q----~k~-~hri 538 (2220)
T KOG3598|consen 479 EKM-------VSDKKWKEKTSH--------AGWRTLDQCSQFALHLLSSMVQYMACVTPESFVWNVQQ----EER-RHRI 538 (2220)
T ss_pred ccc-------ccchHHhhhccc--------ccchhHHHHHHHHhhhcCcCchhhhhhhhhhhcccCCc----ccc-ccee
Confidence 998 456777755322 22345677777776653 3446799999998322 222 3577
Q ss_pred CccccccccccccccccccceeeeeeecccccCCCCCCCCCCCccccccCcchhHHHHHHHHHHHhhhcCCCCCCCCCcc
Q 000089 544 SPCLRSSLKWIGTVSLSSVCSVFFICEWATCDFRDFRTVPPHGMKFTGRKDFSQIYVAIRLLKQKIRDLHTPPRRKSEST 623 (2277)
Q Consensus 544 SPcl~~sl~w~gtv~lsli~sVf~LCEWAtt~fR~~r~~~~~~~kftgRk~lsqVYiAvrLLk~K~~ei~~~~r~k~~s~ 623 (2277)
+|.. ..-|+.+|||||.+-|-+ -+++-..+.+++.|++++..+++.- .
T Consensus 539 ~p~d--------------~~~V~~~CEeaVsC~R~~---------------r~~~m~~ak~~E~R~~~~eA~~~~~---~ 586 (2220)
T KOG3598|consen 539 LPLH--------------KLPVMEGVEEVVDCLRLR---------------HCEIVRRSQAAEDRWLPNAAFLQSF---R 586 (2220)
T ss_pred ccch--------------hHHHHHhhHHHhhhhhhh---------------hHHHHHHHHHHHhhhCcchHhhcch---h
Confidence 7731 233899999999999974 2445555667778999998877773 1
Q ss_pred cccccccccccccccccccccccCCcccccccccccccccccCCCccCCCCCccceeeecccccccc--------ccccc
Q 000089 624 LGIIDNLAKGSRQRNNYANRNFQGNGYEIKNNANRLDGLRINSSDIFETPGPLHDIIVCWIDQHEIH--------KREGV 695 (2277)
Q Consensus 624 ~~i~~~~~Kgs~~~~~~~~~~~~~~~~~~~~~s~~ld~~~~~ss~IfespgpLqDIIv~fLDq~~p~--------k~~~~ 695 (2277)
+.++ .|++ -++ ++. |--+-+.+++.+..|||+..+. +..+|
T Consensus 587 ~~~~---~~~s---------------I~~------~s~-------iaps~P~~~tvL~~~L~t~~~s~~~~~s~~e~lEF 635 (2220)
T KOG3598|consen 587 IIDT---CVDV---------------IGI------MDN-------IDVEKPNAITNAGLRLFAFREKFEKQEALKTMLMF 635 (2220)
T ss_pred hhhh---hhhh---------------ccc------ccc-------cCccchHHHHHHHHHHHHhhhcccChHHHHHHHHH
Confidence 2222 2211 111 111 1111224699999999999885 33579
Q ss_pred chhhhhHHHhhhcCCCChHHHHHHHHHhCccCCCCCC-cccccchhhHhhh----CCCCchHHHHHHhhh-ccchhhHHH
Q 000089 696 KRVQHFIMELVRAGIFYPQAYVRQLMVSGILDMNGLD-LNRRRRHHRILKV----LPGLFLRVALEEARI-AEGSQLSEA 769 (2277)
Q Consensus 696 k~L~~Lf~ELIRsGIFSv~aYVr~LIarGil~~~~~d-~er~~rh~rlLkq----LPg~~l~~~L~~a~i-~e~~~l~e~ 769 (2277)
++++.+|||++|+.+|++..|++.||.+|+.....-. ++ +.++- +|-+. +--+.+-+ .++..++|.
T Consensus 636 ~~~vle~~E~~~~dVf~~k~~~~tl~~~Gd~~~g~~~v~~------rf~~~~~ad~p~h~--s~~~~~~f~~~v~~~~E~ 707 (2220)
T KOG3598|consen 636 KWCITEEREGSFRATYIAKLLRFGMDQNPENTIGGWQVMD------LFFKFMSTEGPKHG--SKMYQAHFDSTVAIMIEM 707 (2220)
T ss_pred HHHHHHHHHhhhHHhhhhhhhhhhhccCCccccccccccc------cccccCCCCCCCcc--chhhhhhhhhHHHHHHHH
Confidence 9999999999999999999999999999998866311 00 00000 00000 11233334 566778899
Q ss_pred HHHHHhhhHhhhhcccccchhhhh
Q 000089 770 IHVYSNERRLVLHELLFDQSIYVN 793 (2277)
Q Consensus 770 ~~~y~~eRrl~L~~~~~~~~~~~~ 793 (2277)
|++++.-= +|.++..+.-++.|
T Consensus 708 MdIfS~t~--~l~eli~ksDls~~ 729 (2220)
T KOG3598|consen 708 MKIFSITD--ILRELEKDSDLDYN 729 (2220)
T ss_pred hccCcchh--HHHhhhhccCcccC
Confidence 98887654 56666666655554
No 3
>PF12145 Med12-LCEWAV: Eukaryotic Mediator 12 subunit domain; InterPro: IPR021990 This domain is found in eukaryotes, and is typically between 325 and 354 amino acids in length. The function of this particular region of the Mediator subunit Med12 is not known, but there is a conserved sequence motif: LCEWAV, from which the name derives.
Probab=100.00 E-value=9.4e-43 Score=414.80 Aligned_cols=294 Identities=17% Similarity=0.270 Sum_probs=218.3
Q ss_pred HHhhhhhHHHHHHHHHHHHHhcCCC--------------------------------------C---CCCCccCCchhHH
Q 000089 360 ETVVSSQTYVRSLVGIATHFIREPS--------------------------------------P---GGSDLVDNSRRAY 398 (2277)
Q Consensus 360 dDIlqSr~LSRRLAeaLLrKLsep~--------------------------------------P---~~sdL~d~p~r~~ 398 (2277)
+||++|++|+||||++|++||+.+. | .+.++.+||+|++
T Consensus 1 ~efvqs~~LsRrLAy~c~rkla~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~d~~~C~~hr~ 80 (480)
T PF12145_consen 1 DEFVQSEYLSRRLAYFCARKLAQLLSEGAEPQGTSNHQSQSIKAQSGSNIKETSASQPPPSSNPVQSAFSDYLQCPHHRD 80 (480)
T ss_pred ChhhHhHHHHHHHHHHHHHHHHHHhhccccccccccCCcccccccCCCCCCCCCCCCCCCCCCccchHHHHHHhCcchHH
Confidence 5899999999999999999998511 0 2356689999999
Q ss_pred HHHHHHHHHHHHHhhcCCccc----------------cCCCCCCCcccccccccCcccccccchhhhcccccCccchhhh
Q 000089 399 TISALAEMLRYLILAVPDTFV----------------ALDCFPLPSCVVSYAANDGNFVSKASEDVGKMKNYSTDAICVF 462 (2277)
Q Consensus 399 Lis~LS~LLQ~L~LacPDAFV----------------pPD~WPlppsvLP~p~n~~~fl~kasee~~~lk~~~~E~~~~~ 462 (2277)
++..|++|||+|+++||+||| |+|++|++++.||||.+...+...... +.+..|.+|++
T Consensus 81 vv~~Ls~ilQ~i~l~CPtALVW~~~~~~~~~~~l~GSPLD~LP~aps~LPmp~g~~~~~~~vr~-----~l~~~E~~I~~ 155 (480)
T PF12145_consen 81 VVLGLSCILQIITLECPTALVWNNYGEGRSRSQLCGSPLDHLPCAPSSLPMPPGNSRFNQQVRK-----QLREAEQEIKR 155 (480)
T ss_pred HHHHHHHHHHHHheeCchHHhccCCCCCCCcccCCCCCccccCCCHhhCCCCCCcchhhHHHHH-----HHHHHHHHHHH
Confidence 999999999999999999999 999999999999999986555444332 23378889999
Q ss_pred ccccchhhcccccchhhHHHHHHHhHhhhhccCCCCCCCcHhHHHHHhhhhh-----ccCCHHHHHHHHhhhhhhhcccc
Q 000089 463 RGKAVDAQYQSLSFDNVISAIQRRADNLAKDASPGYPGHSVAKAVQALDKAL-----LQGDIREAYKHLFEDLCDAALDE 537 (2277)
Q Consensus 463 Rskave~ry~~LSf~~si~sIQkRn~~Lak~anp~~~~~~~akvVQaLDkal-----ssgDI~~aY~~lF~dl~d~~vse 537 (2277)
||+|+|+|| +++++|+.+... ....+..++++||+.. .+|.|+++|..||.......-++
T Consensus 156 Rs~aaE~rW-------s~dk~q~s~~g~--------~i~rVL~~Le~LD~h~f~r~d~~nsld~LY~kIF~~~~~~~~~~ 220 (480)
T PF12145_consen 156 RSRAAESRW-------SFDKCQESTAGF--------TITRVLHTLEILDRHCFDRVDSPNSLDTLYNKIFPSIQKKDSEE 220 (480)
T ss_pred HHHHHHccc-------CHHhhhhcccch--------HHHHHHHHHHHhcccceeeccCCCcHHHHHHhcCCCCccccccc
Confidence 999999999 466777765322 1123456788888766 57899999999999755321111
Q ss_pred cchhccCccccccccccccccccccceeeeeeecccccCCCCCCCCCCCccccccCcchhHHHHHHHHHHHhhhcCCCCC
Q 000089 538 SWIAEVSPCLRSSLKWIGTVSLSSVCSVFFICEWATCDFRDFRTVPPHGMKFTGRKDFSQIYVAIRLLKQKIRDLHTPPR 617 (2277)
Q Consensus 538 dwi~evSPcl~~sl~w~gtv~lsli~sVf~LCEWAtt~fR~~r~~~~~~~kftgRk~lsqVYiAvrLLk~K~~ei~~~~r 617 (2277)
++.-- ..-.-|.-.. ....|++|||||||++|+ |-+|..+|++||++|+.++.....
T Consensus 221 ----~~~~~-~~~~~~~~~~---d~aiV~lLCEWAVs~~R~---------------G~HRA~vVA~LLekrq~~~~~~~~ 277 (480)
T PF12145_consen 221 ----ELQQQ-PKFSEYEPPQ---DDAIVRLLCEWAVSPKRW---------------GEHRAMVVAKLLEKRQNEIEAERC 277 (480)
T ss_pred ----hhccc-cccccccccc---chHHHHhhhhcccccccc---------------cchHHHHHHHHHHHHHHHhhhhcc
Confidence 01000 0000011111 234599999999999999 567799999999999999976554
Q ss_pred CCCCcccccccccccccccccccccccccCCcccccccccccccccccCCCccCCCCCccceeeecccccccc-------
Q 000089 618 RKSESTLGIIDNLAKGSRQRNNYANRNFQGNGYEIKNNANRLDGLRINSSDIFETPGPLHDIIVCWIDQHEIH------- 690 (2277)
Q Consensus 618 ~k~~s~~~i~~~~~Kgs~~~~~~~~~~~~~~~~~~~~~s~~ld~~~~~ss~IfespgpLqDIIv~fLDq~~p~------- 690 (2277)
...+ +...|++. .+|.+ .-.+.+.||++|+.|||+++|.
T Consensus 278 ~~s~------~~d~k~s~-----------~s~~~-----------------~~~~~PvfQ~~L~~FLD~~AP~l~~~~s~ 323 (480)
T PF12145_consen 278 NESE------VLDEKDSI-----------SSGSL-----------------SISSLPVFQNLLMKFLDTQAPVLDDPSSE 323 (480)
T ss_pred cccc------cCcccccc-----------ccccc-----------------CCCcchHHHHHHHHHhcccCCCCCCCccc
Confidence 4321 12233331 11111 1112334799999999999995
Q ss_pred -cccccchhhhhHHHhhhcCCCChHHHHHHHHHhCccCCCC
Q 000089 691 -KREGVKRVQHFIMELVRAGIFYPQAYVRQLMVSGILDMNG 730 (2277)
Q Consensus 691 -k~~~~k~L~~Lf~ELIRsGIFSv~aYVr~LIarGil~~~~ 730 (2277)
+.++|.||++||+||||+++|||++|||+||+||+|....
T Consensus 324 ~~~~eF~nLv~LF~ELIr~dVFSHd~YmcTLISRGdL~~~~ 364 (480)
T PF12145_consen 324 QEKQEFANLVLLFSELIRHDVFSHDAYMCTLISRGDLSSTA 364 (480)
T ss_pred cccHHHHHHHHHHHHHHhccccchHHHHHHHhhhcccccCC
Confidence 4568999999999999999999999999999999999864
No 4
>KOG4522 consensus RNA polymerase II transcription mediator [Transcription]
Probab=99.92 E-value=7.8e-25 Score=267.77 Aligned_cols=275 Identities=17% Similarity=0.222 Sum_probs=201.2
Q ss_pred CC--CCCccccccCCcccCCCCCCCCCccCCCCCCCCccccHHHHhccccccccc-hh--hh--HHHHHH----h---hh
Q 000089 44 RS--TQLTPYKLKCDKESLNSRLGPPDFHPQTPNCPEETLTREYVQNGYKETVEG-LE--EV--REISLT----Q---AQ 109 (2277)
Q Consensus 44 rP--~~L~PY~lk~ekrpLkpRLGyPDFYPQ~pnQpEDeLTee~VKKGY~dtPes-nE--SA--Resl~S----k---Ls 109 (2277)
+| ++++||.. |.++ ..-.+||||||.+...||++.++++-+|++..|.. +| ++ |.++.+ + ++
T Consensus 12 pP~~~D~~Pl~p-c~~d---~s~~s~d~~l~~l~s~~~~i~anF~~~gv~~~pfl~fd~is~~~r~Sv~~~~~~as~~l~ 87 (1427)
T KOG4522|consen 12 PPDASDFFPLPP-CPND---VSYTSKDYELEKLRSNSAEISANFQGRGVLSFPFLSFDYISSTIRRSVDDLAKIASAGLP 87 (1427)
T ss_pred CCCccccCcCCC-CCCc---hhhcCccccHHHhhcchhhhhhhhhccccccccccchhhhhhhhhhhhhhHHHHHhccch
Confidence 55 68999986 4333 36689999999999999999999999999998852 22 22 333221 1 11
Q ss_pred -hhchHHHHHHHHHHHHHHHHHHHhHHHhhhcCcccCCCCCCccCCCC--CccCCccccChHH-HHHHHHHhccCChhHH
Q 000089 110 -TFNKPVVLKCREAIRKCLRAINESRAQKRKAGQVYGVPLSDSLLTKP--GVFPEQRPCGEEF-RKKWIEGLSQQHKRLR 185 (2277)
Q Consensus 110 -~F~n~VILK~KEaLkqrlraINeirdqKRKagQV~GVPlSGS~ltKP--sF~P~rVttltDk-REaWfkDLAnPnVPLr 185 (2277)
+|-+..+.+++++ .+|.+. | |.| +.+-.| +|-||.|.|+.+. ++.|+.+|+.|.+||-
T Consensus 88 Qh~~k~~v~~l~~~------~s~~~~---r---~~~------s~l~ep~~gf~~p~rITl~~~R~~rWl~~lSts~vsl~ 149 (1427)
T KOG4522|consen 88 QHNVKKAVQALDKA------LSDGDI---R---AAY------SYLFEPLCGFVDPARITLVSLRSLRWLGALSTSFVSLF 149 (1427)
T ss_pred hhhHHHHHHHHHHH------hhcccc---c---ccc------eeecCCcccCCCCceeeehhhhHHHHHHhhcccchhHH
Confidence 2211111111111 122111 1 222 456667 7866655666666 8999999999999999
Q ss_pred HHhhcCCCCcchhHHHHHH-HhcCCCchhhHHHhHhhhhhccccccc---ccCcCccccccchhhHHHHHHHHHHHHHHH
Q 000089 186 SLADHVPHGYRKRSLFEVL-IRNNVPLLRATWFIKVTYLNQVRHGSA---NSLSGAQDKIQLSRTEIWTKDVIDYLQHLL 261 (2277)
Q Consensus 186 KLSKkIPHGiKKEeLLEqL-~eknVPI~RAVWFIKcVgANEiRa~sa---aiSsgk~kKrql~ws~EWTq~VtqFLekqL 261 (2277)
.|.|.||||+|+.+..++| ....+|+-||+|||||.+.+|+++... .+..|..+-++.+|...||.+...+|+..+
T Consensus 150 ~lik~iphgl~~~~~i~~~~iKF~~p~~raIwlikc~~~~E~~s~~kk~r~n~~gs~Da~~~~~ik~WtD~~~~vle~~i 229 (1427)
T KOG4522|consen 150 FLIKWIPHGLRDFRAIVPKDIKFSSPVYRAIWLIKCKILGEFTSKGKKCRNNFLGSMDAFEHDIIKCWTDQQLLVLELII 229 (1427)
T ss_pred HHHhhCCcccchhhhhhhhheeecchHHHHHHHHHHhHHHHHHhhhhhhcccccccchhhHHHHHHHhHHHHHHHHHHHH
Confidence 9999999999995555555 556699999999999999999977542 222345566667899999999999999999
Q ss_pred HHHhccCCCCCCCCCCCCCCCcccCCCCCCCCCcccccCCCCccccchHHHHHHHHHHHHHccCCChhhHHHHHHHhhhc
Q 000089 262 DEFFSRNNSHSTQYSRDRSPQTLYTGSPQQRSDPAAVINSEEPSLHFKWWYMVRLVQWHLAEGLLLPSYIIEWVLNQLKD 341 (2277)
Q Consensus 262 ~E~~s~n~s~~ppss~sqS~~~p~aGsik~~sdP~a~sDseE~~~k~KWsY~lRLlr~LY~EGLLDR~eFLdWLLe~LqE 341 (2277)
..|..+. ++.. .=..|.....|.++|++.||.+.|.++..||.|++++-+.
T Consensus 230 s~~~N~~------------------------ad~q-----~i~s~~~dv~y~LKllg~c~~~el~n~~~fllr~v~f~~g 280 (1427)
T KOG4522|consen 230 SGIFNPI------------------------ADVQ-----LIVSGMIDVIYILKLLGGCFVHELSNERRFLLREVLFEKG 280 (1427)
T ss_pred HHhcCcc------------------------hhHH-----HHHHHHHHHHHHHHHhhhhHHHHhcchhHhhhhheeeecC
Confidence 9986432 1100 1112333479999999999999999999999999999977
Q ss_pred ccchhhHHHHHHHHHHHHHHhhhhhHHH
Q 000089 342 KELLEILQLVLPIIYGVLETVVSSQTYV 369 (2277)
Q Consensus 342 ~~s~eiLpLlLpLLlqYwdDIlqSr~LS 369 (2277)
+++.+.+++-+++...+|.++++-..=+
T Consensus 281 ~~d~~~k~~Slh~~~v~~~~~c~~~sn~ 308 (1427)
T KOG4522|consen 281 KSDQKSKKISLHLSSVIFPRACNAKSNS 308 (1427)
T ss_pred cccccccceeeeehhhccchhhccccCC
Confidence 7888999999999999999999865444
No 5
>PF09497 Med12: Transcription mediator complex subunit Med12; InterPro: IPR019035 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med12 is a component of the evolutionarily conserved Mediator complex []. The Med12 subunit may specifically regulate transcription of targets of the Wnt signaling pathway and SHH signaling pathway. Med12 is a negative regulator of the Gli3-dependent sonic hedgehog signaling pathway via its interaction with Gli3 within the Mediator. A complex is formed between Med12, Med13, CDK8 and CycC which is responsible for suppression of transcription []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=99.86 E-value=2.8e-22 Score=186.86 Aligned_cols=62 Identities=39% Similarity=0.711 Sum_probs=58.7
Q ss_pred cc-CCccccChHHHHHHHHHhccCChhHHHHhhcCCCCcchhHHHHHHHhcCCCchhhHHHhH
Q 000089 158 VF-PEQRPCGEEFRKKWIEGLSQQHKRLRSLADHVPHGYRKRSLFEVLIRNNVPLLRATWFIK 219 (2277)
Q Consensus 158 F~-P~rVttltDkREaWfkDLAnPnVPLrKLSKkIPHGiKKEeLLEqL~eknVPI~RAVWFIK 219 (2277)
|+ |+++++++++|++||+|||||++||++|||+||||+|||+|||+||+|+||+.||+||||
T Consensus 2 f~~P~r~t~t~~~r~~W~~dLa~~~~pL~~Lsk~iPhg~k~~~ll~~l~~~~VP~~RA~W~iK 64 (64)
T PF09497_consen 2 FKPPPRVTLTDSKREAWFKDLANPNVPLRKLSKKIPHGIKKEELLEQLCEYNVPLPRAIWFIK 64 (64)
T ss_pred CCCCceecccHHHHHHHHHHHcCCCCCHHHHHHHCCCcccHHHHHHHHHHcCCCchHhhheeC
Confidence 64 778888888899999999999999999999999999999999999999999999999997
No 6
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=99.00 E-value=1.9e-10 Score=147.43 Aligned_cols=405 Identities=8% Similarity=-0.088 Sum_probs=246.5
Q ss_pred HHHHhccCChhHHHHhhcCCCCcchhHHHHHHHhcCCCchhhHHHhHhhhhhcccccccccCcCccccccc-hhhHHHHH
Q 000089 173 WIEGLSQQHKRLRSLADHVPHGYRKRSLFEVLIRNNVPLLRATWFIKVTYLNQVRHGSANSLSGAQDKIQL-SRTEIWTK 251 (2277)
Q Consensus 173 WfkDLAnPnVPLrKLSKkIPHGiKKEeLLEqL~eknVPI~RAVWFIKcVgANEiRa~saaiSsgk~kKrql-~ws~EWTq 251 (2277)
.+.++++ +.|+..+.+++|.-.++++ -.++-|.||..|| . ...|. -+++...+.+.+. ....+||+
T Consensus 264 ~~sk~~e-~n~~~~~~k~qe~mldkHe--~~~~i~~v~~~ia-----~-~~~e~----~KLle~~~~~~s~Ed~qSa~ts 330 (2220)
T KOG3598|consen 264 YGSKTKE-KNKDKEKDKEKEKSVDEHT--LDVPINPDDAEMA-----T-DASEK----QKLVEEEPTGKENEDDTSSKTA 330 (2220)
T ss_pred HHhhhhc-cChHHHHHhhcccccchhh--hhhhccccHHhhc-----c-ChHHH----HHHhHHHhhcccCCCchHHHHH
Confidence 3478999 9999999999999999999 4578899999999 2 33332 3344555566555 48999999
Q ss_pred HHHHHHHHHHHHHhccCCCCCCCCCCCCCCCcccCCCCCCCCCcccccCCCCccccch-HHHHHHHHHHHHHccCCChhh
Q 000089 252 DVIDYLQHLLDEFFSRNNSHSTQYSRDRSPQTLYTGSPQQRSDPAAVINSEEPSLHFK-WWYMVRLVQWHLAEGLLLPSY 330 (2277)
Q Consensus 252 ~VtqFLekqL~E~~s~n~s~~ppss~sqS~~~p~aGsik~~sdP~a~sDseE~~~k~K-WsY~lRLlr~LY~EGLLDR~e 330 (2277)
.-..|+.+....+...++.. ....+++++. + .++.+ +.+ |.|.-++..+++.++.+...+
T Consensus 331 r~~aY~~~r~a~l~ld~~~~-~~~~~sp~~v----------------s-~~~tS-~~~t~~~~~~pP~~s~~~~~~sd~~ 391 (2220)
T KOG3598|consen 331 KTSTSAEKSEAPSIVDSNDK-IDKEPNASST----------------S-NDETS-KDDTVPMESDPPAATEKPKESTEIT 391 (2220)
T ss_pred HHHHHHHHhhhhhccccccc-cccCCCCCcC----------------C-Ccccc-ccCCCCCCCCCCcccCCCcchhhhh
Confidence 99999999998775533210 0111111110 0 02222 344 888888888999998887766
Q ss_pred HHHHHHHhhhcccchhhHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhcC-CC---------------CCC-------
Q 000089 331 IIEWVLNQLKDKELLEILQLVLPIIYGVLETVVSSQTYVRSLVGIATHFIRE-PS---------------PGG------- 387 (2277)
Q Consensus 331 FLdWLLe~LqE~~s~eiLpLlLpLLlqYwdDIlqSr~LSRRLAeaLLrKLse-p~---------------P~~------- 387 (2277)
++. .+..+++++..|.+.|+++-++++++.+.+-.-.+. +. |.+
T Consensus 392 ~~~-------------qH~~Lv~~l~~~~qt~~~~C~~a~V~~~sl~~~ks~~p~~~~Dh~p~a~~~~n~Pe~~~a~~q~ 458 (2220)
T KOG3598|consen 392 TEE-------------EHEDDIMIIESNKKADEDDCVVIAVVDQTPESEKKKDGEEERDKNKDTDVADNEPEKIYTDEEL 458 (2220)
T ss_pred hhh-------------hhcchHHHHHHHHHHHHhhhHHHHHHhcCchhhhccCCCCchhhCcCCCCCCCCCCCCCCCccC
Confidence 655 456889999999999999999999999766544321 10 100
Q ss_pred -----------CCccCCchhHHHHHHHHHHHHHHHhhcCCccc-------------cCCCCCCCcccccccccCcccccc
Q 000089 388 -----------SDLVDNSRRAYTISALAEMLRYLILAVPDTFV-------------ALDCFPLPSCVVSYAANDGNFVSK 443 (2277)
Q Consensus 388 -----------sdL~d~p~r~~Lis~LS~LLQ~L~LacPDAFV-------------pPD~WPlppsvLP~p~n~~~fl~k 443 (2277)
.+...|..+.+++..++++.+.-+..||...+ +.+...-+++.+++ .+.+.+
T Consensus 459 ~~~kirE~E~qI~~l~~Ave~r~v~DK~~~~tt~~t~~R~L~t~e~~d~Hs~~~~~~~nsl~t~~s~I~~---~~q~k~- 534 (2220)
T KOG3598|consen 459 AEIKIREKEMKIATLASHIKEKMVSDKKWKEKTSHAGWRTLDQCSQFALHLLSSMVQYMACVTPESFVWN---VQQEER- 534 (2220)
T ss_pred CCccHHHHHHHHHHHhhhhhcccccchHHhhhcccccchhHHHHHHHHhhhcCcCchhhhhhhhhhhccc---CCcccc-
Confidence 11122233346777788999999999998877 33333334444443 111111
Q ss_pred cchhhhcccccCccchhhhccccchhhcccccchhhHHHHHHHhHhhhhccCCCCCCCcHhHHHHHhhhhhc--c--CCH
Q 000089 444 ASEDVGKMKNYSTDAICVFRGKAVDAQYQSLSFDNVISAIQRRADNLAKDASPGYPGHSVAKAVQALDKALL--Q--GDI 519 (2277)
Q Consensus 444 asee~~~lk~~~~E~~~~~Rskave~ry~~LSf~~si~sIQkRn~~Lak~anp~~~~~~~akvVQaLDkals--s--gDI 519 (2277)
..|+. -++.+|..+-|.+++++..-+- +..++.++|..+. + .+.
T Consensus 535 -----------~hri~------p~d~~~V~~~CEeaVsC~R~~r---------------~~~m~~ak~~E~R~~~~eA~~ 582 (2220)
T KOG3598|consen 535 -----------RHRIL------PLHKLPVMEGVEEVVDCLRLRH---------------CEIVRRSQAAEDRWLPNAAFL 582 (2220)
T ss_pred -----------cceec------cchhHHHHHhhHHHhhhhhhhh---------------HHHHHHHHHHHhhhCcchHhh
Confidence 22322 2666776666666665432211 2233444443331 1 112
Q ss_pred HHHHHHHhhhhhhhcccccchhccCccccccccccccccccccceeeeeeecccccCCCCCCCCCCCccccccCcchhHH
Q 000089 520 REAYKHLFEDLCDAALDESWIAEVSPCLRSSLKWIGTVSLSSVCSVFFICEWATCDFRDFRTVPPHGMKFTGRKDFSQIY 599 (2277)
Q Consensus 520 ~~aY~~lF~dl~d~~vsedwi~evSPcl~~sl~w~gtv~lsli~sVf~LCEWAtt~fR~~r~~~~~~~kftgRk~lsqVY 599 (2277)
.+-|.-+|..-..+.++ +++| +.-..+.+||+|+.+.-|. |+++ -
T Consensus 583 ~~~~~~~~~~~sI~~~s-----~iap--------------s~P~~~tvL~~~L~t~~~s----------~~~~------~ 627 (2220)
T KOG3598|consen 583 QSFRIIDTCVDVIGIMD-----NIDV--------------EKPNAITNAGLRLFAFREK----------FEKQ------E 627 (2220)
T ss_pred cchhhhhhhhhhccccc-----ccCc--------------cchHHHHHHHHHHHHhhhc----------ccCh------H
Confidence 22255555421111111 2333 2334488999999999774 3555 5
Q ss_pred HHHHHHHHHhhhcCCCCCCCCCcccccccccccccccccccccccccCCcccccccccccccccccCCCccCCCCCccce
Q 000089 600 VAIRLLKQKIRDLHTPPRRKSESTLGIIDNLAKGSRQRNNYANRNFQGNGYEIKNNANRLDGLRINSSDIFETPGPLHDI 679 (2277)
Q Consensus 600 iAvrLLk~K~~ei~~~~r~k~~s~~~i~~~~~Kgs~~~~~~~~~~~~~~~~~~~~~s~~ld~~~~~ss~IfespgpLqDI 679 (2277)
++..+|+.|+-++....+.-. . . ..+|-+. | .|+...+ +.. ..+.+
T Consensus 628 s~~e~lEF~~~vle~~E~~~~--d-V---f~~k~~~--------------~-------tl~~~Gd-~~~------g~~~v 673 (2220)
T KOG3598|consen 628 ALKTMLMFKWCITEEREGSFR--A-T---YIAKLLR--------------F-------GMDQNPE-NTI------GGWQV 673 (2220)
T ss_pred HHHHHHHHHHHHHHHHHhhhH--H-h---hhhhhhh--------------h-------hhccCCc-ccc------ccccc
Confidence 667888888888765433310 0 1 1122110 0 1111111 111 24666
Q ss_pred eeecccccccc----cc----cccchhhhhHHHhhhcCCCChHHHHHHHHHhCccCCC
Q 000089 680 IVCWIDQHEIH----KR----EGVKRVQHFIMELVRAGIFYPQAYVRQLMVSGILDMN 729 (2277)
Q Consensus 680 Iv~fLDq~~p~----k~----~~~k~L~~Lf~ELIRsGIFSv~aYVr~LIarGil~~~ 729 (2277)
...|+++..+. +. ..|++.+.+|||.+ ||||+.+|++.||.+|+++.+
T Consensus 674 ~~rf~~~~~ad~p~h~s~~~~~~f~~~v~~~~E~M--dIfS~t~~l~eli~ksDls~~ 729 (2220)
T KOG3598|consen 674 MDLFFKFMSTEGPKHGSKMYQAHFDSTVAIMIEMM--KIFSITDILRELEKDSDLDYN 729 (2220)
T ss_pred cccccccCCCCCCCccchhhhhhhhhHHHHHHHHh--ccCcchhHHHhhhhccCcccC
Confidence 77788877763 11 24999999999999 999999999999999999986
No 7
>COG0695 GrxC Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]
Probab=34.80 E-value=11 Score=37.43 Aligned_cols=30 Identities=30% Similarity=0.450 Sum_probs=23.4
Q ss_pred CCCCCCchhhhhhhhhcccccCCCceeccCCC
Q 000089 885 SEGTPGCEDCKRVKRQKLCEDRSSVLQISSPI 916 (2277)
Q Consensus 885 ~~~~~gce~c~r~krqkl~~~~~~~~q~~~~~ 916 (2277)
+..++||..|.+||+- | ++++-.|+-.-..
T Consensus 5 iyt~~~CPyC~~ak~~-L-~~~g~~~~~i~~~ 34 (80)
T COG0695 5 IYTKPGCPYCKRAKRL-L-DRKGVDYEEIDVD 34 (80)
T ss_pred EEECCCCchHHHHHHH-H-HHcCCCcEEEEec
Confidence 5678999999999997 7 6777777764433
No 8
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=24.59 E-value=27 Score=32.09 Aligned_cols=26 Identities=27% Similarity=0.566 Sum_probs=19.5
Q ss_pred CCCCCCchhhhhhhhhcccccCCCceec
Q 000089 885 SEGTPGCEDCKRVKRQKLCEDRSSVLQI 912 (2277)
Q Consensus 885 ~~~~~gce~c~r~krqkl~~~~~~~~q~ 912 (2277)
+..++||..|.++|+- | +++.-.|.-
T Consensus 3 vy~~~~C~~C~~~~~~-L-~~~~i~y~~ 28 (60)
T PF00462_consen 3 VYTKPGCPYCKKAKEF-L-DEKGIPYEE 28 (60)
T ss_dssp EEESTTSHHHHHHHHH-H-HHTTBEEEE
T ss_pred EEEcCCCcCHHHHHHH-H-HHcCCeeeE
Confidence 3457999999999998 7 666555543
No 9
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=20.05 E-value=46 Score=31.85 Aligned_cols=26 Identities=23% Similarity=0.464 Sum_probs=19.2
Q ss_pred CCCCCCchhhhhhhhhcccccCCCceec
Q 000089 885 SEGTPGCEDCKRVKRQKLCEDRSSVLQI 912 (2277)
Q Consensus 885 ~~~~~gce~c~r~krqkl~~~~~~~~q~ 912 (2277)
+..+++|..|+++|+. | +++.-.|.-
T Consensus 3 ly~~~~Cp~C~~ak~~-L-~~~~i~~~~ 28 (72)
T TIGR02194 3 VYSKNNCVQCKMTKKA-L-EEHGIAFEE 28 (72)
T ss_pred EEeCCCCHHHHHHHHH-H-HHCCCceEE
Confidence 4678999999999997 7 454444433
No 10
>TIGR02189 GlrX-like_plant Glutaredoxin-like family. This family of glutaredoxin-like proteins is aparrently limited to plants. Multiple isoforms are found in A. thaliana and O.sativa.
Probab=19.14 E-value=42 Score=34.64 Aligned_cols=24 Identities=25% Similarity=0.203 Sum_probs=18.0
Q ss_pred CCCCCCchhhhhhhhhcccccCCCce
Q 000089 885 SEGTPGCEDCKRVKRQKLCEDRSSVL 910 (2277)
Q Consensus 885 ~~~~~gce~c~r~krqkl~~~~~~~~ 910 (2277)
+..+|+|..|.+||+- | ++..-.|
T Consensus 12 vysk~~Cp~C~~ak~~-L-~~~~i~~ 35 (99)
T TIGR02189 12 IFSRSSCCMCHVVKRL-L-LTLGVNP 35 (99)
T ss_pred EEECCCCHHHHHHHHH-H-HHcCCCC
Confidence 5678999999999996 6 4444333
Done!