Query 000102
Match_columns 2239
No_of_seqs 148 out of 186
Neff 3.2
Searched_HMMs 46136
Date Thu Mar 28 18:21:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000102.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000102hhsearch_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 1E-217 2E-222 1926.9 23.4 1412 367-2232 3-1427(1427)
2 KOG3598 Thyroid hormone recept 100.0 7E-49 1.5E-53 484.5 15.3 600 18-755 43-729 (2220)
3 PF12145 Med12-LCEWAV: Eukaryo 100.0 7.1E-43 1.5E-47 415.4 6.8 294 322-692 1-364 (480)
4 KOG4522 RNA polymerase II tran 99.9 1.9E-23 4.2E-28 255.5 14.7 280 8-331 16-308 (1427)
5 PF09497 Med12: Transcription 99.9 2.8E-22 6.1E-27 186.5 5.3 62 120-181 2-64 (64)
6 KOG3598 Thyroid hormone recept 99.0 1.7E-10 3.7E-15 147.8 4.3 405 135-691 264-729 (2220)
7 COG0695 GrxC Glutaredoxin and 33.4 17 0.00036 36.2 0.5 29 847-877 5-33 (80)
8 PF00462 Glutaredoxin: Glutare 25.1 26 0.00056 32.1 0.2 26 847-874 3-28 (60)
9 TIGR02194 GlrX_NrdH Glutaredox 20.5 44 0.00096 31.9 0.8 26 847-874 3-28 (72)
10 TIGR02189 GlrX-like_plant Glut 19.6 40 0.00088 34.7 0.4 24 847-872 12-35 (99)
No 1
>KOG4522 consensus RNA polymerase II transcription mediator [Transcription]
Probab=100.00 E-value=1.1e-217 Score=1926.88 Aligned_cols=1412 Identities=50% Similarity=0.757 Sum_probs=1259.6
Q ss_pred HHHHHHHhhCCCceecCCCCCCCcccccccccCccccccchhhhhccccCCcchhhhhcccchhhhcccccchhhHHHHH
Q 000102 367 EMLRYLILAVPDTFVALDCFPLPSCVVSYAANDGNFVSKASEDVGKMKNYSTDAICVFRGKAVDAQYQSLSFDNVISAIQ 446 (2239)
Q Consensus 367 ~LLQ~L~LacPDAFVpPD~WPlppsvLP~p~n~~~fl~kasee~~~lk~~~~E~~~~~Rskave~ry~~LSf~~si~sIQ 446 (2239)
.|.+++.++-|+ .-|.+|++|+. ++.....+. .++.+++.+++|+..-+++++|.. +..++|++....|+
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 466788888886 35677777752 233333332 347788989999999999999999 89999999999999
Q ss_pred HHhHhhhhccCCCCCCCcHhHHHHHhhhhhccCCHHHHHHHHhhhhhhccccccchhccCccccccccccccccccccce
Q 000102 447 RRADNLAKDASPGYPGHSVAKAVQALDKALLQGDIREAYKHLFEDLCDAALDESWIAEVSPCLRSSLKWIGTVSLSSVCS 526 (2239)
Q Consensus 447 kRn~~Lak~anp~~~~~~~akvVQaLDkalss~DI~~aY~~lF~dl~d~~vsedwi~eVSPcl~~sl~w~gtv~lsli~s 526 (2239)
+...++++.++-++|+|+..+.||+||++++++|++.+|..+|+++| +.+++.||.-++ +|+ +.|+|..++|++ +
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 675 999999999998 9
Q ss_pred eeeeeecccccCCCCCCCCCCCccccccCcchhHHHHHHHHHHhhhc-cCCCCCCCCCcccccccccccccccccccccc
Q 000102 527 VFFICEWATCDFRDFRTVPPHGMKFTGRKDFSQIYVAIRLLKQKIRD-LHTPPRRKSESTLGIIDNLAKGSRQRNNYANR 605 (2239)
Q Consensus 527 Vf~LCEWAtt~fR~~r~~~~~~~kftgRk~lsqVYiAvrLLk~K~~e-i~~~~r~k~~s~~~i~~~~~Kgs~~~~~~~~~ 605 (2239)
+++|.+|+.+++|++|...|+++||. +++|.|+-|+|.++-. +.. ||...++|.
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 7899999999955433 221 233344432
Q ss_pred cccCCcccccccccccccccccCCCccCCCCCccceeeecccccccccccccchhhhhhHHhhhcCCCChHHHHHHHHHh
Q 000102 606 NFQGNGYEIKNNANRLDGLRINSSDIFETPGPLHDIIVCWIDQHEIHKREGVKRVQHFIMELVRAGIFYPQAYVRQLMVS 685 (2239)
Q Consensus 606 ~~~~~~~~~~~~s~~ld~~~~~ss~ifespgpLqDIIv~fLDq~~~~k~~~~k~L~~Lf~ELIRsGiFS~~aYVr~LIar 685 (2239)
+++|| +|| |++|.||.|| ..+|-|++++|+|.|-+|+ |||.+
T Consensus 203 ------------~gs~D--------a~~-----~~~ik~WtD~------------~~~vle~~is~~~N~~ad~-q~i~s 244 (1427)
T KOG4522|consen 203 ------------LGSMD--------AFE-----HDIIKCWTDQ------------QLLVLELIISGIFNPIADV-QLIVS 244 (1427)
T ss_pred ------------cccch--------hhH-----HHHHHHhHHH------------HHHHHHHHHHHhcCcchhH-HHHHH
Confidence 13333 454 9999999888 6789999999999999999 78888
Q ss_pred CccCCCCCCcccccchhhHhhhCCCCchHHHHHHhhhccchhhHHHHHHHHhhhHhhhhccccccchhhhhhcccccccc
Q 000102 686 GILDMNGLDLNRRRRHHRILKVLPGLFLRVALEEARIAEGSQLSEAIHVYSNERRLVLHELLFDQSIYVNVAAQNQKRHM 765 (2239)
Q Consensus 686 Gil~~~~~d~er~~rh~rlLkqLPg~~l~~~L~~a~i~e~~~l~e~~~~y~~eRrl~L~~~~~~~~~~~~~~~~~~~~~~ 765 (2239)
|..+.. ++||+||+++.+. |+||||++|+++..+... .+. ..
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 000102 766 AGGRDGASPSLADQWKTIQPTTGISSGRSGKSDADIEELKASIAVILQLPSSSATSAD-SGLDESQGSVKRSLGAVSSKM 844 (2239)
Q Consensus 766 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~k~~is~ll~~~~~~~~~~~-~~~~e~~~~~~~~~~~~~~~~ 844 (2239)
.+.+-..+++.+++.+++.+++ + .||.+. ||+++||+.+ ++-++ .-++|.+.|++++.++.|.+|
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 567654 9999999998 77777 678999999999999999999
Q ss_pred ccCCCCCCchhhhhhhhhcccccCCCcee-ccCCCCCCCcccceeecCCCCCCc-cccCCCCCccccccccccchhhhhh
Q 000102 845 DLSEGTPGCEDCKRVKRQKLCEDRSSVLQ-ISSPIHSDDEDLWWVRKGPKPLES-YKADPPLKSTKQVSRGRQKTVRRTQ 922 (2239)
Q Consensus 845 d~~~~~~gce~c~r~krqkl~~~~~~~~q-~~~~~~sd~ed~wwv~k~~k~~e~-~k~~~~~k~~kq~~~~r~k~vrktq 922 (2239)
|..+.| +|+|+|+.|++++..++|| |.++|-++++|+||++|++|..++ +|++ ..+||+.||||++-||||
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 999999999999999999999886 4666 679999999999999999
Q ss_pred hHHHHHHhcccCCCCCccccccCCCCCCCCCCCCCCCCccccccccccccccchHHHHHhhhcccccccchhHHHHHHHH
Q 000102 923 SLAQLAAARIEGSQGASTSHVCDNKGSCPHHKTGVEGETLKSMDGVRTACYGDIVSIGKALKKLRYVEKRTVTVWLISIA 1002 (2239)
Q Consensus 923 slaqlaa~riegsqgastsh~c~~k~scphh~~~~~~~~~k~~d~~~~~~~~d~~~ig~~lk~lr~~e~r~~~~wl~~~v 1002 (2239)
||||..+|||||+|||||+|+|+|+||||||.++.+|+|++++|-+++.++.|++++|..+|+|.|..+|+|.+|+++.+
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 000102 1003 RQHIEEAEKTAAKVGQFNRSFVPVDGRISGRWRLSEDELSAILYFMDVCDDLVSAAKFLLWLLPKVLNSPSSTINSGRNI 1082 (2239)
Q Consensus 1003 rql~e~~e~~~~k~~~~~~~~~~~~~~~~~rw~lg~del~~~ly~~d~~~dl~s~~~~llwll~k~~~~~~~~~~~gr~~ 1082 (2239)
||++|+..+..+.++||+|. ++ .||+.++++|+|+.-|||++. |
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 000102 1083 LMLSRNAENHACGVGEAFLLSSLRRYENIIIATDLIPEALSATMHRAAQVMASNGRVSGSAAYGYARYLLKKYGNMASVI 1162 (2239)
Q Consensus 1083 ~~~~~n~e~~~c~vgea~l~ssl~ryenil~a~dl~pe~ls~~~~r~~~~~~s~~r~~~s~~~~y~ry~lkky~~~~sv~ 1162 (2239)
||+|||.|.+|||.+. ||||+|||++.|++ ++++.|+|+|+ +| |.||.++
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 000102 1163 EWEKNFKATCDKRLLSELESGRSLDGELGLPLGVPAGIEDPDDYLRQKISGGQLSRVGLSMRDVVHRHMEEAFHYFYDKE 1242 (2239)
Q Consensus 1163 ~wek~fk~t~d~rl~~el~~~rs~dg~~~~~~gv~ag~ed~d~~~rqki~~~r~srv~~~m~d~vqr~~~e~~~~~~~k~ 1242 (2239)
++|+.+..+.+++||+..|+..||+ |+.++|||.|.|++..- ++|+|||| ||+
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 000102 1243 RKLFAAGSPRNPAIDKSDDESQIAQQIIIGLMDCFRQTGGAAQEGDPSLLSSAVSAIVGNVIPTMVKIHDFTAGSNYQNY 1322 (2239)
Q Consensus 1243 ~~~~~~~~~k~~~~ek~~~~yq~a~~iv~gl~dcirq~gga~~~gd~slv~savsaiv~~~g~~~ak~~d~~~g~n~~~~ 1322 (2239)
++++++|+.|+..+||.+++||+|+|++.|+|+|+|| ||++||+||+..+|-.+|.+.||..|+.|+++
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 ccccCchhHHHHHHhhhhHHHHhhHHHhhcchhhhhhhhhhhchhhhhhccccCCcccccccCCCCCCCCCCCCcchhhc
Q 000102 1323 ASTTGSLSFARRILRIYITCLCLLKEALGERQSRVFEIALATEASCALARVFTPGKAARSQFQSSPEAHDPNANMSNDIL 1402 (2239)
Q Consensus 1323 ~~~~~sl~~~r~il~~hi~~l~llkealger~srvfeiala~eas~~~~~~f~p~k~~r~qfq~spe~~d~~~~~~n~~~ 1402 (2239)
++.. |-|.+|.|||+| |||+ ++|+|| ++||||||||+ |+|.+.+|.|.|.+|+ .|.+-|+.
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 000102 1403 NSSSKVASGRTSKVTAAISALVVGAVLHGVTSLERMVTVFRLKEGLDVIQFVRSTKSNSNGSARSIGTFKLDNSIEVHVH 1482 (2239)
Q Consensus 1403 ~~~~~~~~~~~~k~~aa~salvvgai~~gv~slermv~vlrlkegld~~~~~r~~~~~sng~~rs~~~~k~~~s~ev~vh 1482 (2239)
| . +...-|.+||+||+||||+ -|||+++|+.| ++|+|+.+|.++|+|.+++.|| .+|++|+- |+++|
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 000102 1483 WFRLLVGNCRTVSDGLVVEFLGEPSIVALSRMQRMLPLSLVFPPAYLIFAFVLWRPFILNNS--LAVREDIHQMYQSLTM 1560 (2239)
Q Consensus 1483 wfr~l~gncrtv~~glv~~~lge~~i~alsr~qr~lpl~~vfppaysifa~v~wr~~~~~~~--~~~red~~qlyqsl~~ 1560 (2239)
|||++||||+++.+|+..++. +++|.+|||||||+.+||||||+|.||++||+|+.|.| -.+.||+|..||+.+|
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 HHHHHHhcCCccccccccccccceeeccCCChHHHHHHHhhcCcccccccccccchhhHHhHHHHhccCCCCCcccCCCc
Q 000102 1561 AINDAIRHLPFRDVCLRDCQGFYNLVTADSTDAEFAAMLELNGLDLQLKSMAFVPLRARLFLNAIIDCKMPSSLFKPEDF 1640 (2239)
Q Consensus 1561 ai~d~~~h~pfrdvc~r~~~~~y~l~~ad~~d~efa~~le~~~~d~~~k~~af~plrarlflna~idc~~p~~~~~~~~~ 1640 (2239)
|+.|+|||+|| .+|.+|.||+.++|.|| +|+.+|- |||+|||.+++||.
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 000102 1641 NRVSGHTESKSHRAENEAKLLDKLVHVLDSLQPAKFHWQWVELRLLLNEQALIDRLENHEMSLAEAIR-SLSPSPEKAAA 1719 (2239)
Q Consensus 1641 ~~~~~~~~~k~~~~~~~~kl~d~lv~~ld~lqpakfhwqwvelrlll~eqal~ek~~~~~~~l~~a~~-~~sp~~e~~~~ 1719 (2239)
..|..|.|... ||..|+.+++++++|+|||+ +++|||+|.|||++|+|.|.||++ +.+|. |+.+
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 000102 1720 SENENNFIEIILTRLLVRPDAAPLFSELVHLFGRSLEDSMLLQAKWFLGGHDVLFGRKTIRQRLVNIAESKGLSTKAQFW 1799 (2239)
Q Consensus 1720 se~e~~f~~iiltrll~rpdaa~l~se~vhl~g~~l~~s~~~~~kw~l~g~d~l~grk~~rq~l~~i~~~k~~~~k~q~~ 1799 (2239)
+|+|+||+ +|||++|||+||||.+|+|++|+. ||+ ||++||.|+|..++|||++|
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 000102 1800 KPWGWV-NSGFGPGLNR--GDKKKLEATSLEEGEVVEEGIDSKRHGKGSNPLFDAEGTSIGQQHVTERAFIELVLPCIDQ 1876 (2239)
Q Consensus 1800 kpwgw~-~~~~~~~~~~--~~k~k~~~~s~eegev~~~~~d~kr~~~~~~~~~~~~~~~~~~~~~te~a~~elvlpcid~ 1876 (2239)
|+|+ ++..||++.. +.|+||+.+++||||+.+|- .++|+.|......+.|.. ||||.+++||||||
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 000102 1877 SSDDSRNTFANDLIKQLNNIEQQISAVTRGANKL--TGSVPSGIEVPSNKGSNRKSIRGGSPGLARRLAATADPAPPSPA 1954 (2239)
Q Consensus 1877 ss~~~r~~fa~dlikq~~~i~~~i~~~~~~~~k~--~~~~~~g~e~~~nk~~~rk~~~ggsp~~~rr~~~~~~~~~~s~a 1954 (2239)
|+||+|.+|..++|.|+.++||+.+.++..-+-- .|++.+|.+-+++| ||+|+||..... |
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 899999987765 9
Q ss_pred HHHHHHHHHHHHHhhhhhhhhcCCCCCchhhHHHHHHHHHHHhccceeecccccCCCCCCCccchhhhcccccCCCCCcc
Q 000102 1955 ALRASMSLRLQFLLRLLPLIYTDGEPSGRNMRYLLASVILRLLGSRVVHEDADLSFYPMQSPQSKREVESLPEASSVPSA 2034 (2239)
Q Consensus 1955 alras~~lrlq~l~rllp~i~~d~~~~~r~mr~~las~i~~llg~rvv~eda~~~~~~~~~~~~~~e~~s~~e~~~~~~~ 2034 (2239)
|||++|.+|+||++|+|||||. +|+..+.+|.+|+.|.|+||+|||+||++++.+ -++-.|.||+++|| +
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 000102 2035 DFSGESLFDR-LLLVLYGLLSSCQPSWLRPKPAFKSSNNTSKDSSGFDREIAESLQNDLDHMQLPDTVRWRIQAAIPILL 2113 (2239)
Q Consensus 2035 d~~~e~lfdr-ll~vlh~ll~~~~p~wlk~~~~sk~~~~~~r~~~~fd~e~~e~lq~~ld~m~lp~~ir~riqaamp~l~ 2113 (2239)
|.++|.+||+ -|+= |.-||||++||||||+||
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 000102 2114 PSVRCSLTCQPPSVPVAALASLQPSISVSGASPGNLNLPQRNPVPLARSATNTGKSKPIPLQQDSDMEIDPWTLLEDGAG 2193 (2239)
Q Consensus 2114 ps~~~~~~cqpp~v~~~a~~~lq~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~d~~~e~dpwtlledg~~ 2193 (2239)
..+|||.++|..||+..||...++.+ ..++|+.|+.....|..+-|.-...+.+..|-|--..+.
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 000102 2194 SGPSSSNTAAIGSGDQANLQAASWLKGAIRVRRTDLTYI 2232 (2239)
Q Consensus 2194 ~~~~~s~~~~~~~gd~~nl~a~swlkgavrvrrtdltyi 2232 (2239)
.+.+++.|.+|++|++||||+||||||||||+
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=7e-49 Score=484.48 Aligned_cols=600 Identities=9% Similarity=-0.100 Sum_probs=445.4
Q ss_pred CcccCC---CCCCCCCccCCCCCCCCccccHHHHhcccccccc--chh--hhHHHhHH--hhhhhchHHHHHHHHHHHHH
Q 000102 18 DKESLN---SRLGPPDFHPQTPNCPEETLTREYVQNGYKETVE--GLE--EVREISLT--QAQTFNKPVVLKCREAIRKC 88 (2239)
Q Consensus 18 EkrpLk---pRLGyPDFYPQ~pnQpEDeLTee~VKkGY~etP~--~nE--SARnsl~s--kLssFs~~VIlk~kEALkkr 88 (2239)
+.+||+ +|+|+||+||++++|.||+||+.+||+||.+.|. ++| +|||+.+. ++..++..| .. +.+
T Consensus 43 ~~r~~k~P~~r~~~~~~~~~~~~~~~~~~~~v~~KQ~F~N~~a~~~~e~~~~kN~~~~~~~~~~~~~~i-~~--~~~--- 116 (2220)
T KOG3598|consen 43 LYKSFRNPIKRREATKTWNYLTGFMKYMFDDVLDKQEFLNDLTEVFNQLFLQKNFKNPSVLSTFMKYYV-YF--VED--- 116 (2220)
T ss_pred hhhhhcCcccccCCCccCcccchhHHHHHHHHHHHhhhccChhhhhhhhhhhhccccChhhhhhhhhHH-Hh--HHh---
Confidence 344444 5699999999999999999999999999999985 344 89997773 333333333 22 221
Q ss_pred HHHHHHhHHHhhhcCcccCCCCcCccCCCCCccCCccccChHHHHHHHHHhhcCChhHHHHhhcCCCCcchhHHHHHHHh
Q 000102 89 LRAINESRAQKRKAGQVYGVPLSDSLLTKPGVFPEQRPCGEEFRKKWIEGLSQQHKRLRSLADHVPHGYRKRSLFEVLIR 168 (2239)
Q Consensus 89 lqaINeird~KRKagQV~GVPlSGS~ltKPsF~PprvttltDkREaWFkDLAnPnVPLrkLSKkIPHGiKKEeLLEqL~e 168 (2239)
..|++.+.+|++.|++ .+++||-+.. ....++++||.|||+ ++||..|+++||.+-++++.|+.+.+
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 3588889999999876 5899998764 336669999999999 99999999999999999999999999
Q ss_pred cCCCchhhHHHHHhhhhhcccccccccCcCccccccc-hhhHHHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCCCCccc
Q 000102 169 NNVPLLRATWFIKVTYLNQVRHGSANSLSGAQDKIQL-SRTEIWTKDVIDYLQHLLDEFFSRNNSHSTQYSRDRSPQTLY 247 (2239)
Q Consensus 169 knVPI~RAVWFIKcVgANEIRa~~aaiSsgk~kKrql-~ws~EWTq~VtqFLekqL~E~~s~n~s~~ppss~~qS~~~p~ 247 (2239)
|-||+.||+|+||+++++. +++++.+.+|++. +++.|||++.++|+.+|+..+++.++....++- +
T Consensus 184 ~~v~~~R~a~~iK~t~~~~-----~~~~~~~~~Kr~~~~P~~E~t~~~~k~~~~Q~~~~~d~Y~~~~~~Sy-e------- 250 (2220)
T KOG3598|consen 184 ELIKEKRKAGSLKKSERRR-----RRGLSKNRPKKMPQNPSNEASLDHDKVQIKQEPMDYDEYGGQYDPSY-E------- 250 (2220)
T ss_pred HHHHHHHHhhhhHHHHHHH-----HhhhhccccccCCCCcchhHHHHHHHHHHHHhhHHHHhhcCCCCCCC-C-------
Confidence 9999999999999999998 6777888888855 599999999999999999998887643221110 0
Q ss_pred CC-CCCCCCCcccccCCCCccccch-HHHHHHHHHHHHHccCCChhhHHHHHHHhhhcccc--hhhHHHHHHHHHHHHHH
Q 000102 248 TG-SPQQRSDPAAVINSEEPSLHFK-WWYMVRLVQWHLAEGLLLPSYIIEWVLNQLKDKEL--LEILQLVLPIIYGVLET 323 (2239)
Q Consensus 248 aG-Svk~~s~Psa~sdseE~~~k~K-WsY~lRLlr~LY~EGLLDR~eFLdWLLd~LqE~~s--~eiLpLlLpLLlqYwdD 323 (2239)
+| -+++ .. .+.....| |.|.-.++..++.|||+|+++|+.|+++.+.+... +++++++++.+..|-++
T Consensus 251 p~p~v~P------~~--~~~~~~sk~~e~n~~~~~~k~qe~mldkHe~~~~i~~v~~~ia~~~~e~~KLle~~~~~~s~E 322 (2220)
T KOG3598|consen 251 PLPFVTP------ER--ISGRYGSKTKEKNKDKEKDKEKEKSVDEHTLDVPINPDDAEMATDASEKQKLVEEEPTGKENE 322 (2220)
T ss_pred CCCccCC------CC--CchhHHhhhhccChHHHHHhhcccccchhhhhhhccccHHhhccChHHHHHHhHHHhhcccCC
Confidence 00 0111 00 11112346 99999999999999999999999999999977753 58999999999999999
Q ss_pred HHhhHHHHHHHHHHHHHHhcCCC-----------------------------C----------CCCCccCCchhHHHHHH
Q 000102 324 VVSSQTYVRSLVGIATHFIREPS-----------------------------P----------GGSDLVDNSRRAYTISA 364 (2239)
Q Consensus 324 IvqSr~LSRRLAeaLLrKLsep~-----------------------------P----------~~sdl~d~P~r~~Lis~ 364 (2239)
+..|.+++|+++|+|-+++..+. | .+.++.-|++|.+++..
T Consensus 323 d~qSa~tsr~~aY~~~r~a~l~ld~~~~~~~~~sp~~vs~~~tS~~~t~~~~~~pP~~s~~~~~~sd~~~~~qH~~Lv~~ 402 (2220)
T KOG3598|consen 323 DDTSSKTAKTSTSAEKSEAPSIVDSNDKIDKEPNASSTSNDETSKDDTVPMESDPPAATEKPKESTEITTEEEHEDDIMI 402 (2220)
T ss_pred CchHHHHHHHHHHHHHhhhhhccccccccccCCCCCcCCCccccccCCCCCCCCCCcccCCCcchhhhhhhhhhcchHHH
Confidence 99999999999999999887410 0 23667778889999999
Q ss_pred HHHHHHHHHhhCCCcee---------------cCCCCCCCcccccccccCccccccchhhhhccccCCcchhhhhcccch
Q 000102 365 LAEMLRYLILAVPDTFV---------------ALDCFPLPSCVVSYAANDGNFVSKASEDVGKMKNYSTDAICVFRGKAV 429 (2239)
Q Consensus 365 LS~LLQ~L~LacPDAFV---------------pPD~WPlppsvLP~p~n~~~fl~kasee~~~lk~~~~E~~~~~Rskav 429 (2239)
|+++++.+.++||.+.| +.|+.|..++.+++|.....|...+. .+-|+-|++|.+|+.|+
T Consensus 403 l~~~~qt~~~~C~~a~V~~~sl~~~ks~~p~~~~Dh~p~a~~~~n~Pe~~~a~~q~~~-----~kirE~E~qI~~l~~Av 477 (2220)
T KOG3598|consen 403 IESNKKADEDDCVVIAVVDQTPESEKKKDGEEERDKNKDTDVADNEPEKIYTDEELAE-----IKIREKEMKIATLASHI 477 (2220)
T ss_pred HHHHHHHHHhhhHHHHHHhcCchhhhccCCCCchhhCcCCCCCCCCCCCCCCCccCCC-----ccHHHHHHHHHHHhhhh
Confidence 99999999999999999 88999999999999987776666654 45568899999999999
Q ss_pred hhhcccccchhhHHHHHHHhHhhhhccCCCCCCCcHhHHHHHhhhhh-----ccCCHHHHHHHHhhhhhhccccccchhc
Q 000102 430 DAQYQSLSFDNVISAIQRRADNLAKDASPGYPGHSVAKAVQALDKAL-----LQGDIREAYKHLFEDLCDAALDESWIAE 504 (2239)
Q Consensus 430 e~ry~~LSf~~si~sIQkRn~~Lak~anp~~~~~~~akvVQaLDkal-----ss~DI~~aY~~lF~dl~d~~vsedwi~e 504 (2239)
+++| +++.+++..... ..-..+++...||..+ ..+-+.++|++||+.-. +++ .++
T Consensus 478 e~r~-------v~DK~~~~tt~~--------t~~R~L~t~e~~d~Hs~~~~~~~nsl~t~~s~I~~~~q----~k~-~hr 537 (2220)
T KOG3598|consen 478 KEKM-------VSDKKWKEKTSH--------AGWRTLDQCSQFALHLLSSMVQYMACVTPESFVWNVQQ----EER-RHR 537 (2220)
T ss_pred hccc-------ccchHHhhhccc--------ccchhHHHHHHHHhhhcCcCchhhhhhhhhhhcccCCc----ccc-cce
Confidence 9998 456777755322 1234556777777555 34556699999999321 222 357
Q ss_pred cCccccccccccccccccccceeeeeeecccccCCCCCCCCCCCccccccCcchhHHHHHHHHHHhhhccCCCCCCCCCc
Q 000102 505 VSPCLRSSLKWIGTVSLSSVCSVFFICEWATCDFRDFRTVPPHGMKFTGRKDFSQIYVAIRLLKQKIRDLHTPPRRKSES 584 (2239)
Q Consensus 505 VSPcl~~sl~w~gtv~lsli~sVf~LCEWAtt~fR~~r~~~~~~~kftgRk~lsqVYiAvrLLk~K~~ei~~~~r~k~~s 584 (2239)
|+|.. ..-|+.+|||||.+-|-+ -+++-..+.+++.|++++..+++.-
T Consensus 538 i~p~d--------------~~~V~~~CEeaVsC~R~~---------------r~~~m~~ak~~E~R~~~~eA~~~~~--- 585 (2220)
T KOG3598|consen 538 ILPLH--------------KLPVMEGVEEVVDCLRLR---------------HCEIVRRSQAAEDRWLPNAAFLQSF--- 585 (2220)
T ss_pred eccch--------------hHHHHHhhHHHhhhhhhh---------------hHHHHHHHHHHHhhhCcchHhhcch---
Confidence 77731 233899999999999974 2445555667778899998877763
Q ss_pred ccccccccccccccccccccccccCCcccccccccccccccccCCCccCCCCCccceeeecccccccc--------cccc
Q 000102 585 TLGIIDNLAKGSRQRNNYANRNFQGNGYEIKNNANRLDGLRINSSDIFETPGPLHDIIVCWIDQHEIH--------KREG 656 (2239)
Q Consensus 585 ~~~i~~~~~Kgs~~~~~~~~~~~~~~~~~~~~~s~~ld~~~~~ss~ifespgpLqDIIv~fLDq~~~~--------k~~~ 656 (2239)
.+.+. .|++ - +++++ |--+-+.+++.+..|||+..+. +..+
T Consensus 586 ~~~~~---~~~s---------------I------~~~s~-------iaps~P~~~tvL~~~L~t~~~s~~~~~s~~e~lE 634 (2220)
T KOG3598|consen 586 RIIDT---CVDV---------------I------GIMDN-------IDVEKPNAITNAGLRLFAFREKFEKQEALKTMLM 634 (2220)
T ss_pred hhhhh---hhhh---------------c------ccccc-------cCccchHHHHHHHHHHHHhhhcccChHHHHHHHH
Confidence 11111 1211 1 11111 1111224699999999999885 3357
Q ss_pred cchhhhhhHHhhhcCCCChHHHHHHHHHhCccCCCCCC-cccccchhhHhh----hCCCCchHHHHHHhhh-ccchhhHH
Q 000102 657 VKRVQHFIMELVRAGIFYPQAYVRQLMVSGILDMNGLD-LNRRRRHHRILK----VLPGLFLRVALEEARI-AEGSQLSE 730 (2239)
Q Consensus 657 ~k~L~~Lf~ELIRsGiFS~~aYVr~LIarGil~~~~~d-~er~~rh~rlLk----qLPg~~l~~~L~~a~i-~e~~~l~e 730 (2239)
|++++.+|||++|+.+|++..|++.||.+|+.....-. ++ +.++ .+|-+. +--+.+-+ .++..++|
T Consensus 635 F~~~vle~~E~~~~dVf~~k~~~~tl~~~Gd~~~g~~~v~~------rf~~~~~ad~p~h~--s~~~~~~f~~~v~~~~E 706 (2220)
T KOG3598|consen 635 FKWCITEEREGSFRATYIAKLLRFGMDQNPENTIGGWQVMD------LFFKFMSTEGPKHG--SKMYQAHFDSTVAIMIE 706 (2220)
T ss_pred HHHHHHHHHHhhhHHhhhhhhhhhhhccCCccccccccccc------cccccCCCCCCCcc--chhhhhhhhhHHHHHHH
Confidence 99999999999999999999999999999998866311 00 0000 000000 11233334 56677889
Q ss_pred HHHHHHhhhHhhhhccccccchhhh
Q 000102 731 AIHVYSNERRLVLHELLFDQSIYVN 755 (2239)
Q Consensus 731 ~~~~y~~eRrl~L~~~~~~~~~~~~ 755 (2239)
.|.+++.-= +|.++..+.-++.|
T Consensus 707 ~MdIfS~t~--~l~eli~ksDls~~ 729 (2220)
T KOG3598|consen 707 MMKIFSITD--ILRELEKDSDLDYN 729 (2220)
T ss_pred HhccCcchh--HHHhhhhccCcccC
Confidence 998877654 56666666555544
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=7.1e-43 Score=415.38 Aligned_cols=294 Identities=17% Similarity=0.268 Sum_probs=218.4
Q ss_pred HHHHhhHHHHHHHHHHHHHHhcCCC--------------------------------------C---CCCCccCCchhHH
Q 000102 322 ETVVSSQTYVRSLVGIATHFIREPS--------------------------------------P---GGSDLVDNSRRAY 360 (2239)
Q Consensus 322 dDIvqSr~LSRRLAeaLLrKLsep~--------------------------------------P---~~sdl~d~P~r~~ 360 (2239)
++|++|++|+||||++|++||+.+. | .+.++.+||+|++
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 2356789999999
Q ss_pred HHHHHHHHHHHHHhhCCCcee----------------cCCCCCCCcccccccccCccccccchhhhhccccCCcchhhhh
Q 000102 361 TISALAEMLRYLILAVPDTFV----------------ALDCFPLPSCVVSYAANDGNFVSKASEDVGKMKNYSTDAICVF 424 (2239)
Q Consensus 361 Lis~LS~LLQ~L~LacPDAFV----------------pPD~WPlppsvLP~p~n~~~fl~kasee~~~lk~~~~E~~~~~ 424 (2239)
++..|++|||+|+++||+||| |+|++|++++.||||.+...+...... +.+..|.+|++
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 23478889999
Q ss_pred cccchhhhcccccchhhHHHHHHHhHhhhhccCCCCCCCcHhHHHHHhhhhh-----ccCCHHHHHHHHhhhhhhccccc
Q 000102 425 RGKAVDAQYQSLSFDNVISAIQRRADNLAKDASPGYPGHSVAKAVQALDKAL-----LQGDIREAYKHLFEDLCDAALDE 499 (2239)
Q Consensus 425 Rskave~ry~~LSf~~si~sIQkRn~~Lak~anp~~~~~~~akvVQaLDkal-----ss~DI~~aY~~lF~dl~d~~vse 499 (2239)
||||+|+|| +++++|+.+... ....+..++++||+.. .+|.|+++|..||.......-++
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 1123446788888765 58999999999999755321111
Q ss_pred cchhccCccccccccccccccccccceeeeeeecccccCCCCCCCCCCCccccccCcchhHHHHHHHHHHhhhccCCCCC
Q 000102 500 SWIAEVSPCLRSSLKWIGTVSLSSVCSVFFICEWATCDFRDFRTVPPHGMKFTGRKDFSQIYVAIRLLKQKIRDLHTPPR 579 (2239)
Q Consensus 500 dwi~eVSPcl~~sl~w~gtv~lsli~sVf~LCEWAtt~fR~~r~~~~~~~kftgRk~lsqVYiAvrLLk~K~~ei~~~~r 579 (2239)
++.-- ..-.-|.-.. ....|++|||||||++|+ |-+|..+||+||++|+.++.....
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 11000 0000011111 234599999999999999 567799999999999999986554
Q ss_pred CCCCcccccccccccccccccccccccccCCcccccccccccccccccCCCccCCCCCccceeeecccccccc-------
Q 000102 580 RKSESTLGIIDNLAKGSRQRNNYANRNFQGNGYEIKNNANRLDGLRINSSDIFETPGPLHDIIVCWIDQHEIH------- 652 (2239)
Q Consensus 580 ~k~~s~~~i~~~~~Kgs~~~~~~~~~~~~~~~~~~~~~s~~ld~~~~~ss~ifespgpLqDIIv~fLDq~~~~------- 652 (2239)
...+ +...|++. .+|. ..-.+.+.||++|+.|||+++|.
T Consensus 278 ~~s~------~~d~k~s~-----------~s~~-----------------~~~~~~PvfQ~~L~~FLD~~AP~l~~~~s~ 323 (480)
T PF12145_consen 278 NESE------VLDEKDSI-----------SSGS-----------------LSISSLPVFQNLLMKFLDTQAPVLDDPSSE 323 (480)
T ss_pred cccc------cCcccccc-----------cccc-----------------cCCCcchHHHHHHHHHhcccCCCCCCCccc
Confidence 4321 12233321 1111 11122334799999999999995
Q ss_pred -cccccchhhhhhHHhhhcCCCChHHHHHHHHHhCccCCCC
Q 000102 653 -KREGVKRVQHFIMELVRAGIFYPQAYVRQLMVSGILDMNG 692 (2239)
Q Consensus 653 -k~~~~k~L~~Lf~ELIRsGiFS~~aYVr~LIarGil~~~~ 692 (2239)
+.++|.||++||+||||+++|||++|||+||+||+|....
T Consensus 324 ~~~~eF~nLv~LF~ELIr~dVFSHd~YmcTLISRGdL~~~~ 364 (480)
T PF12145_consen 324 QEKQEFANLVLLFSELIRHDVFSHDAYMCTLISRGDLSSTA 364 (480)
T ss_pred cccHHHHHHHHHHHHHHhccccchHHHHHHHhhhcccccCC
Confidence 4578999999999999999999999999999999999864
No 4
>KOG4522 consensus RNA polymerase II transcription mediator [Transcription]
Probab=99.90 E-value=1.9e-23 Score=255.54 Aligned_cols=280 Identities=17% Similarity=0.232 Sum_probs=200.0
Q ss_pred CCCccccccCCcccCCCCCCCCCccCCCCCCCCccccHHHHhccccccccc-hh--hh--HHHhHHhhhhhchHHHHHHH
Q 000102 8 TQLTPYKLKCDKESLNSRLGPPDFHPQTPNCPEETLTREYVQNGYKETVEG-LE--EV--REISLTQAQTFNKPVVLKCR 82 (2239)
Q Consensus 8 ~qL~PY~lk~EkrpLkpRLGyPDFYPQ~pnQpEDeLTee~VKkGY~etP~~-nE--SA--Rnsl~skLssFs~~VIlk~k 82 (2239)
.+++||.. |.++ ..-.+||||||.+.-.||++.++++-+|++..|.. +| ++ |.++.+....=++ .+....
T Consensus 16 ~D~~Pl~p-c~~d---~s~~s~d~~l~~l~s~~~~i~anF~~~gv~~~pfl~fd~is~~~r~Sv~~~~~~as~-~l~Qh~ 90 (1427)
T KOG4522|consen 16 SDFFPLPP-CPND---VSYTSKDYELEKLRSNSAEISANFQGRGVLSFPFLSFDYISSTIRRSVDDLAKIASA-GLPQHN 90 (1427)
T ss_pred cccCcCCC-CCCc---hhhcCccccHHHhhcchhhhhhhhhccccccccccchhhhhhhhhhhhhhHHHHHhc-cchhhh
Confidence 58899996 4322 36689999999999999999999999999998853 22 22 3333221110000 000111
Q ss_pred HHHHHHHHHHHHhHHHhhhcCcccCCCCc-CccCCCC--CccCCccccChHH-HHHHHHHhhcCChhHHHHhhcCCCCcc
Q 000102 83 EAIRKCLRAINESRAQKRKAGQVYGVPLS-DSLLTKP--GVFPEQRPCGEEF-RKKWIEGLSQQHKRLRSLADHVPHGYR 158 (2239)
Q Consensus 83 EALkkrlqaINeird~KRKagQV~GVPlS-GS~ltKP--sF~PprvttltDk-REaWFkDLAnPnVPLrkLSKkIPHGiK 158 (2239)
+ ++..+++.+... +|.|.- -+.+-.| +|-||.|.|+.+. ++.|+.+|+.|.+||..|.|.||||+|
T Consensus 91 ~--k~~v~~l~~~~s--------~~~~r~~~s~l~ep~~gf~~p~rITl~~~R~~rWl~~lSts~vsl~~lik~iphgl~ 160 (1427)
T KOG4522|consen 91 V--KKAVQALDKALS--------DGDIRAAYSYLFEPLCGFVDPARITLVSLRSLRWLGALSTSFVSLFFLIKWIPHGLR 160 (1427)
T ss_pred H--HHHHHHHHHHhh--------cccccccceeecCCcccCCCCceeeehhhhHHHHHHhhcccchhHHHHHhhCCcccc
Confidence 1 011122222111 111111 1355566 7866666666666 899999999999999999999999999
Q ss_pred h-hHHHHHHHhcCCCchhhHHHHHhhhhhcccccc---cccCcCccccccchhhHHHHHHHHHHHHHHHHHHhccCCCCC
Q 000102 159 K-RSLFEVLIRNNVPLLRATWFIKVTYLNQVRHGS---ANSLSGAQDKIQLSRTEIWTKDVIDYLQHLLDEFFSRNNSHS 234 (2239)
Q Consensus 159 K-EeLLEqL~eknVPI~RAVWFIKcVgANEIRa~~---aaiSsgk~kKrql~ws~EWTq~VtqFLekqL~E~~s~n~s~~ 234 (2239)
+ +.+.-+..+..+|+-||+|||||.+.+|+++.. +.+..|..+-++.+|...||.+..-+|+.++..|..+.
T Consensus 161 ~~~~i~~~~iKF~~p~~raIwlikc~~~~E~~s~~kk~r~n~~gs~Da~~~~~ik~WtD~~~~vle~~is~~~N~~---- 236 (1427)
T KOG4522|consen 161 DFRAIVPKDIKFSSPVYRAIWLIKCKILGEFTSKGKKCRNNFLGSMDAFEHDIIKCWTDQQLLVLELIISGIFNPI---- 236 (1427)
T ss_pred hhhhhhhhheeecchHHHHHHHHHHhHHHHHHhhhhhhcccccccchhhHHHHHHHhHHHHHHHHHHHHHHhcCcc----
Confidence 9 555555556679999999999999999997754 22334555666778999999999999999999986432
Q ss_pred CCCCCCCCCCcccCCCCCCCCCcccccCCCCccccchHHHHHHHHHHHHHccCCChhhHHHHHHHhhhcccchhhHHHHH
Q 000102 235 TQYSRDRSPQTLYTGSPQQRSDPAAVINSEEPSLHFKWWYMVRLVQWHLAEGLLLPSYIIEWVLNQLKDKELLEILQLVL 314 (2239)
Q Consensus 235 ppss~~qS~~~p~aGSvk~~s~Psa~sdseE~~~k~KWsY~lRLlr~LY~EGLLDR~eFLdWLLd~LqE~~s~eiLpLlL 314 (2239)
++.. .=..|.....|.++|+..+|.+.|.++..||.|++++-+.+++.+.+++-+
T Consensus 237 --------------------ad~q-----~i~s~~~dv~y~LKllg~c~~~el~n~~~fllr~v~f~~g~~d~~~k~~Sl 291 (1427)
T KOG4522|consen 237 --------------------ADVQ-----LIVSGMIDVIYILKLLGGCFVHELSNERRFLLREVLFEKGKSDQKSKKISL 291 (1427)
T ss_pred --------------------hhHH-----HHHHHHHHHHHHHHHhhhhHHHHhcchhHhhhhheeeecCcccccccceee
Confidence 1100 111223347999999999999999999999999999987777888999999
Q ss_pred HHHHHHHHHHHhhHHHH
Q 000102 315 PIIYGVLETVVSSQTYV 331 (2239)
Q Consensus 315 pLLlqYwdDIvqSr~LS 331 (2239)
++...+|.++++-..=+
T Consensus 292 h~~~v~~~~~c~~~sn~ 308 (1427)
T KOG4522|consen 292 HLSSVIFPRACNAKSNS 308 (1427)
T ss_pred eehhhccchhhccccCC
Confidence 99999999998764433
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=99.85 E-value=2.8e-22 Score=186.55 Aligned_cols=62 Identities=39% Similarity=0.711 Sum_probs=58.6
Q ss_pred cc-CCccccChHHHHHHHHHhhcCChhHHHHhhcCCCCcchhHHHHHHHhcCCCchhhHHHHH
Q 000102 120 VF-PEQRPCGEEFRKKWIEGLSQQHKRLRSLADHVPHGYRKRSLFEVLIRNNVPLLRATWFIK 181 (2239)
Q Consensus 120 F~-PprvttltDkREaWFkDLAnPnVPLrkLSKkIPHGiKKEeLLEqL~eknVPI~RAVWFIK 181 (2239)
|+ |+++++++++|++||+|||||++||++|||+||||+|||+|||+||+|+||+.||+||||
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 677778888899999999999999999999999999999999999999999999999997
No 6
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=99.00 E-value=1.7e-10 Score=147.80 Aligned_cols=405 Identities=8% Similarity=-0.095 Sum_probs=246.0
Q ss_pred HHHHhhcCChhHHHHhhcCCCCcchhHHHHHHHhcCCCchhhHHHHHhhhhhcccccccccCcCccccccc-hhhHHHHH
Q 000102 135 WIEGLSQQHKRLRSLADHVPHGYRKRSLFEVLIRNNVPLLRATWFIKVTYLNQVRHGSANSLSGAQDKIQL-SRTEIWTK 213 (2239)
Q Consensus 135 WFkDLAnPnVPLrkLSKkIPHGiKKEeLLEqL~eknVPI~RAVWFIKcVgANEIRa~~aaiSsgk~kKrql-~ws~EWTq 213 (2239)
.+.++++ +.|+..+.+++|.-.++++ -.++-|.||..|| ..+++. -+.+...+.+++. +...+||+
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-----TDASEK-----QKLVEEEPTGKENEDDTSSKTA 330 (2220)
T ss_pred HHhhhhc-cChHHHHHhhcccccchhh--hhhhccccHHhhc-----cChHHH-----HHHhHHHhhcccCCCchHHHHH
Confidence 3478999 9999999999999999999 5578899999999 333322 2334555555555 48999999
Q ss_pred HHHHHHHHHHHHHhccCCCCCCCCCCCCCCCcccCCCCCCCCCcccccCCCCccccch-HHHHHHHHHHHHHccCCChhh
Q 000102 214 DVIDYLQHLLDEFFSRNNSHSTQYSRDRSPQTLYTGSPQQRSDPAAVINSEEPSLHFK-WWYMVRLVQWHLAEGLLLPSY 292 (2239)
Q Consensus 214 ~VtqFLekqL~E~~s~n~s~~ppss~~qS~~~p~aGSvk~~s~Psa~sdseE~~~k~K-WsY~lRLlr~LY~EGLLDR~e 292 (2239)
.-..|+.+....+...++.. ...+++.++ .+ +++.. +.+ |.|.-++..+++.++.+...+
T Consensus 331 r~~aY~~~r~a~l~ld~~~~-~~~~~sp~~----------------vs-~~~tS-~~~t~~~~~~pP~~s~~~~~~sd~~ 391 (2220)
T KOG3598|consen 331 KTSTSAEKSEAPSIVDSNDK-IDKEPNASS----------------TS-NDETS-KDDTVPMESDPPAATEKPKESTEIT 391 (2220)
T ss_pred HHHHHHHHhhhhhccccccc-cccCCCCCc----------------CC-Ccccc-ccCCCCCCCCCCcccCCCcchhhhh
Confidence 99999999998776543210 000011000 00 02222 344 889899999999999888777
Q ss_pred HHHHHHHhhhcccchhhHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHhcC-CC---------------CC--------
Q 000102 293 IIEWVLNQLKDKELLEILQLVLPIIYGVLETVVSSQTYVRSLVGIATHFIRE-PS---------------PG-------- 348 (2239)
Q Consensus 293 FLdWLLd~LqE~~s~eiLpLlLpLLlqYwdDIvqSr~LSRRLAeaLLrKLse-p~---------------P~-------- 348 (2239)
++. .+..+++++..|.+.++++-++++++.+.+-.-.+. +. |.
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 665 356789999999999999999999999766544421 10 10
Q ss_pred ----------CCCccCCchhHHHHHHHHHHHHHHHhhCCCcee-------------cCCCCCCCcccccccccCcccccc
Q 000102 349 ----------GSDLVDNSRRAYTISALAEMLRYLILAVPDTFV-------------ALDCFPLPSCVVSYAANDGNFVSK 405 (2239)
Q Consensus 349 ----------~sdl~d~P~r~~Lis~LS~LLQ~L~LacPDAFV-------------pPD~WPlppsvLP~p~n~~~fl~k 405 (2239)
+.+...|..+.+.+..++++.+.-+..||...+ +.+...-+++.+++ .+.+.+
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 011122333346777788889999999998777 33333334444443 111111
Q ss_pred chhhhhccccCCcchhhhhcccchhhhcccccchhhHHHHHHHhHhhhhccCCCCCCCcHhHHHHHhhhhhc----cCCH
Q 000102 406 ASEDVGKMKNYSTDAICVFRGKAVDAQYQSLSFDNVISAIQRRADNLAKDASPGYPGHSVAKAVQALDKALL----QGDI 481 (2239)
Q Consensus 406 asee~~~lk~~~~E~~~~~Rskave~ry~~LSf~~si~sIQkRn~~Lak~anp~~~~~~~akvVQaLDkals----s~DI 481 (2239)
..|+. -++.+|-.+-|.+++++..-+ .+..++.++|.-+. +.+.
T Consensus 535 -----------~hri~------p~d~~~V~~~CEeaVsC~R~~---------------r~~~m~~ak~~E~R~~~~eA~~ 582 (2220)
T KOG3598|consen 535 -----------RHRIL------PLHKLPVMEGVEEVVDCLRLR---------------HCEIVRRSQAAEDRWLPNAAFL 582 (2220)
T ss_pred -----------cceec------cchhHHHHHhhHHHhhhhhhh---------------hHHHHHHHHHHHhhhCcchHhh
Confidence 22222 256667555555555533221 12234444443331 1111
Q ss_pred HHHHHHHhhhhhhccccccchhccCccccccccccccccccccceeeeeeecccccCCCCCCCCCCCccccccCcchhHH
Q 000102 482 REAYKHLFEDLCDAALDESWIAEVSPCLRSSLKWIGTVSLSSVCSVFFICEWATCDFRDFRTVPPHGMKFTGRKDFSQIY 561 (2239)
Q Consensus 482 ~~aY~~lF~dl~d~~vsedwi~eVSPcl~~sl~w~gtv~lsli~sVf~LCEWAtt~fR~~r~~~~~~~kftgRk~lsqVY 561 (2239)
.+.|.-+|..=.-+.+ .+|+| +.-..+.+||+|+.+.-|. |+++ -
T Consensus 583 ~~~~~~~~~~~sI~~~-----s~iap--------------s~P~~~tvL~~~L~t~~~s----------~~~~------~ 627 (2220)
T KOG3598|consen 583 QSFRIIDTCVDVIGIM-----DNIDV--------------EKPNAITNAGLRLFAFREK----------FEKQ------E 627 (2220)
T ss_pred cchhhhhhhhhhcccc-----cccCc--------------cchHHHHHHHHHHHHhhhc----------ccCh------H
Confidence 2224444442111111 13333 2334488999999999774 3555 5
Q ss_pred HHHHHHHHhhhccCCCCCCCCCcccccccccccccccccccccccccCCcccccccccccccccccCCCccCCCCCccce
Q 000102 562 VAIRLLKQKIRDLHTPPRRKSESTLGIIDNLAKGSRQRNNYANRNFQGNGYEIKNNANRLDGLRINSSDIFETPGPLHDI 641 (2239)
Q Consensus 562 iAvrLLk~K~~ei~~~~r~k~~s~~~i~~~~~Kgs~~~~~~~~~~~~~~~~~~~~~s~~ld~~~~~ss~ifespgpLqDI 641 (2239)
++..+|+.|+-++....+.- +.+ ..+|-+. -.|+...+ +. + ..+.+
T Consensus 628 s~~e~lEF~~~vle~~E~~~----~dV--f~~k~~~---------------------~tl~~~Gd-~~--~----g~~~v 673 (2220)
T KOG3598|consen 628 ALKTMLMFKWCITEEREGSF----RAT--YIAKLLR---------------------FGMDQNPE-NT--I----GGWQV 673 (2220)
T ss_pred HHHHHHHHHHHHHHHHHhhh----HHh--hhhhhhh---------------------hhhccCCc-cc--c----ccccc
Confidence 66788888888877533331 100 1122110 01112111 11 1 24666
Q ss_pred eeecccccccc----cc----cccchhhhhhHHhhhcCCCChHHHHHHHHHhCccCCC
Q 000102 642 IVCWIDQHEIH----KR----EGVKRVQHFIMELVRAGIFYPQAYVRQLMVSGILDMN 691 (2239)
Q Consensus 642 Iv~fLDq~~~~----k~----~~~k~L~~Lf~ELIRsGiFS~~aYVr~LIarGil~~~ 691 (2239)
...|+++..+. +. ..|++.+.+|||.+ ||||+.+|++.||.+|+++.+
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 25999999999999 999999999999999999986
No 7
>COG0695 GrxC Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]
Probab=33.38 E-value=17 Score=36.23 Aligned_cols=29 Identities=31% Similarity=0.509 Sum_probs=22.6
Q ss_pred CCCCCCchhhhhhhhhcccccCCCceeccCC
Q 000102 847 SEGTPGCEDCKRVKRQKLCEDRSSVLQISSP 877 (2239)
Q Consensus 847 ~~~~~gce~c~r~krqkl~~~~~~~~q~~~~ 877 (2239)
+..++||..|.+||+- | ++++-.|+-.-.
T Consensus 5 iyt~~~CPyC~~ak~~-L-~~~g~~~~~i~~ 33 (80)
T COG0695 5 IYTKPGCPYCKRAKRL-L-DRKGVDYEEIDV 33 (80)
T ss_pred EEECCCCchHHHHHHH-H-HHcCCCcEEEEe
Confidence 5678999999999998 7 677777766433
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=25.13 E-value=26 Score=32.13 Aligned_cols=26 Identities=27% Similarity=0.566 Sum_probs=19.5
Q ss_pred CCCCCCchhhhhhhhhcccccCCCceec
Q 000102 847 SEGTPGCEDCKRVKRQKLCEDRSSVLQI 874 (2239)
Q Consensus 847 ~~~~~gce~c~r~krqkl~~~~~~~~q~ 874 (2239)
+..++||..|.++|+- | +++.-.|.-
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 666655543
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=20.50 E-value=44 Score=31.89 Aligned_cols=26 Identities=23% Similarity=0.464 Sum_probs=19.2
Q ss_pred CCCCCCchhhhhhhhhcccccCCCceec
Q 000102 847 SEGTPGCEDCKRVKRQKLCEDRSSVLQI 874 (2239)
Q Consensus 847 ~~~~~gce~c~r~krqkl~~~~~~~~q~ 874 (2239)
+..+++|..|+++|+. | +++.-.|.-
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=19.65 E-value=40 Score=34.70 Aligned_cols=24 Identities=25% Similarity=0.203 Sum_probs=18.0
Q ss_pred CCCCCCchhhhhhhhhcccccCCCce
Q 000102 847 SEGTPGCEDCKRVKRQKLCEDRSSVL 872 (2239)
Q Consensus 847 ~~~~~gce~c~r~krqkl~~~~~~~~ 872 (2239)
+..+|+|..|.+||+- | ++..-.|
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!