Query 000137
Match_columns 2067
No_of_seqs 202 out of 273
Neff 5.8
Searched_HMMs 46136
Date Thu Mar 28 20:09:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000137.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000137hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5103 CDC39 Cell division co 100.0 9E-224 2E-228 2031.8 94.7 1600 6-2066 25-1664(2005)
2 KOG1831 Negative regulator of 100.0 5E-194 1E-198 1812.7 73.2 1141 532-2066 82-1248(1591)
3 PF12842 DUF3819: Domain of un 100.0 7.4E-46 1.6E-50 397.7 17.8 145 1308-1452 1-147 (147)
4 KOG1831 Negative regulator of 97.3 0.0066 1.4E-07 82.4 19.5 289 1010-1431 658-947 (1591)
5 smart00543 MIF4G Middle domain 92.6 1.2 2.5E-05 50.6 12.3 181 972-1162 2-196 (200)
6 PF02854 MIF4G: MIF4G domain; 87.8 0.56 1.2E-05 53.2 4.4 188 973-1161 3-204 (209)
7 KOG1467 Translation initiation 82.8 3.8 8.2E-05 52.2 8.4 119 1327-1451 249-387 (556)
8 PF02847 MA3: MA3 domain; Int 46.5 1.4E+02 0.003 31.1 9.8 85 671-765 3-87 (113)
9 COG5088 SOH1 Rad5p-binding pro 46.4 41 0.00089 34.8 5.4 89 984-1077 15-108 (114)
10 PF08542 Rep_fac_C: Replicatio 36.2 92 0.002 31.1 6.4 61 7-70 3-63 (89)
11 KOG2140 Uncharacterized conser 23.8 1.7E+02 0.0037 38.5 6.9 174 968-1164 162-346 (739)
12 smart00544 MA3 Domain in DAP-5 23.0 2.2E+02 0.0047 29.8 6.7 71 686-765 17-87 (113)
13 KOG3769 Ribonuclease III domai 21.9 1.2E+02 0.0025 37.4 4.8 50 121-170 111-160 (333)
14 PRK00218 putative lysogenizati 20.0 2.3E+02 0.0049 33.6 6.5 90 705-815 32-134 (207)
No 1
>COG5103 CDC39 Cell division control protein, negative regulator of transcription [Cell division and chromosome partitioning / Transcription]
Probab=100.00 E-value=9.1e-224 Score=2031.81 Aligned_cols=1600 Identities=25% Similarity=0.377 Sum_probs=1210.0
Q ss_pred CCcHHHHHHHHHhhhhhchHHHHHHHHHHHH-hcccchhHHHHhhhhccccCC-CCCCCch---hHHHHHHHHHHhhcCC
Q 000137 6 STVPSQIRFLLQSLNEANADSVFRELCQFIE-YGIEGSTMMLQTCMDHLNLHG-TGLKNPQ---LESVVASVFKYIMDKP 80 (2067)
Q Consensus 6 ~~~~~qi~~Lv~~l~k~n~~~~~~el~qlv~-~G~ea~~~lL~~~l~~~~~~~-~~~k~~~---~~~Ll~~~~~~ll~kp 80 (2067)
+.+-+||.+|++.|++.||++.-+||.|+++ ...+-.++.||.++.--.++- +.+|... --++|-+||+.++.|-
T Consensus 25 sIV~AQI~fLlsTL~eDqydt~~eqIRqlinkna~~vY~~~~rRLiq~nS~~If~tGK~~~~~a~~~~LL~Elks~~~Kr 104 (2005)
T COG5103 25 SIVKAQILFLLSTLREDQYDTKLEQIRQLINKNAPRVYHHFLRRLIQGNSYRIFGTGKSSDGLATYKLLLDELKSLTKKR 104 (2005)
T ss_pred HHHHHHHHHHHHHhhccchhHHHHHHHHHHccCCcHHHHHHHHHHhcccchhhhccCcccchhHHHHHHHHHHHhhhhhh
Confidence 4577899999999999999999999999997 999999999999996443311 2355444 4588999999999865
Q ss_pred CccchhhhhccCcccCHHHHHHHHhhcCCCchhHHH--HhhhhccCCChHHHHHHHHHHHHHHHHHhhCCCC------CC
Q 000137 81 NFSTVFSQSVKITEINEQLLENLSDVLNLSLPERIG--IGLALSDSENLDALMCGKNFCMAQIERLCANPVP------MN 152 (2067)
Q Consensus 81 nf~T~lc~A~~~~~~~~~fl~~ls~~L~Ls~~qev~--~gLAL~~s~n~e~~~~g~~f~~~~l~el~~~~~~------~~ 152 (2067)
. ..|+.+.+ ++-++++ +.. +||.++ .+++..-.+. |... ++
T Consensus 105 ~-----sD~Is~~d--sevFed~----------~FQ~siGlT~S-------------Ll~n~Fqs~~-Nq~~~~t~qqS~ 153 (2005)
T COG5103 105 F-----SDAISGSD--SEVFEDF----------HFQFSIGLTTS-------------LLKNTFQSLL-NQLSDPTQQQSI 153 (2005)
T ss_pred h-----hhHhhcch--hhhhcch----------hhhhhhhhhHH-------------HHHHHHHHHH-hhccchHhhhhc
Confidence 4 66666642 2333333 122 333333 2222222221 2111 11
Q ss_pred CHHHHHHHHHHHhhccchhH-hHHHHHHHHhhhcCCCCCCccccCCCCCccccccccccccccccCCCcchHHHHHhhhh
Q 000137 153 SAEQIQNIIMFLQRSSDLSK-HVDSLMQILSLLQSKDHTQFVLNPVLPDELHDATSLRDLDLFHECRDDDFDDILAEMEK 231 (2067)
Q Consensus 153 s~e~lh~il~~l~~~~gl~~-~~~~f~~~l~~~~p~~~~p~~laPll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 231 (2067)
.-+-+. .|+ +|-.. ...-|.+.+...--..+ |++. +.+.++.+- +.+..+
T Consensus 154 d~NDld----~lr--~~~Tdydr~~f~q~i~~~Le~s~------~~~~--------------~~~p~e~~~-~~l~~~-- 204 (2005)
T COG5103 154 DKNDLD----LLR--EGTTDYDRKIFRQEIKDVLEKSD------PLTA--------------LFGPREVDR-SFLDDA-- 204 (2005)
T ss_pred ccchHH----HHh--cCCchHHHHHHHHHhHHHHHcCC------chhh--------------hcCcchhhH-HHHHHH--
Confidence 101010 111 12110 01122222211100000 0000 000011000 111111
Q ss_pred cCcHHHHHHHhCcccccCHHHHHHHHhcCCCCCHHHHHHHHHHHHhhccCCccCccchhhHhhhccCCCCCCCCCCCCCC
Q 000137 232 EMSMGDVMNELGYGCSADASQCKEILSLFTPLTEITLSRILGAIARTHAGLEDNQNTFSTFTLALGCSTMSDLPPLSSWN 311 (2067)
Q Consensus 232 ~~sl~~~i~elG~~~t~s~~~c~~~L~~~~~l~e~~va~~l~~ma~t~sgl~~~~~~~~~~~~~~g~~~~~~~~~~~~Wn 311 (2067)
..++|+-.+.-.+.|||+.+-.|+. -+..+.||
T Consensus 205 ---------------------l~~Il~P~~~~~~~dvar~il~~~~--------------------------~~D~~~w~ 237 (2005)
T COG5103 205 ---------------------LQRILRPRREVVPEDVARAILFMAD--------------------------FPDRGEWN 237 (2005)
T ss_pred ---------------------HHHHhCCCccCCcchHHHHHhhhhh--------------------------cccccccc
Confidence 3345553446888899998444442 22356799
Q ss_pred HHHHHHHHHhhCCCCCHHHHHHhcCCCCCCCCChhhHHHHHHHHhh-hcCCCcccccccCCcccChhh-hHHHHHHHhhC
Q 000137 312 VDVLVKAIKQLAPNTNWIRVVENLDYEGFYIPTEEAFSFFMSVYKY-ACQEPFPLHAVCGSVWKNTEG-QLSFLRYAVAS 389 (2067)
Q Consensus 312 ~~vlv~alk~~~p~lnW~~Vi~~lD~~~f~i~d~~~l~ll~~~~~~-~~~~~Fpi~~l~~~~W~N~~~-Qlsfl~~~l~~ 389 (2067)
.-..+.+++..+..+||.+|+.+||.+.|.|+....+..++.+|-. +.+.+||.+.+|. .|||... |+++.-|..+.
T Consensus 238 ~v~~~~a~~s~~e~iNW~~v~s~f~~~~F~i~~l~p~~v~~~c~f~~~~~~~v~~eff~~-~Wkn~~~~~l~i~lhi~s~ 316 (2005)
T COG5103 238 LVAIVGAMKSNLEEINWRDVYSCFLDVNFSIWTLEPLYVIIDCWFYISGIITVPYEFFFK-RWKNERAQILFIRLHIESD 316 (2005)
T ss_pred hHHHHHHHHhhhhhcCHHHHHHHhcCcceeeccCcchHHHHHHHHHHhcCCCccHHHHHH-HhcchhhhhHhhheeeeec
Confidence 9999999999999999999999999999999977766666665554 4567899999995 8999999 55556666677
Q ss_pred CCCccccCc-CccccccccCCCCccccc-cccccccchHHHHHHHHHhhhcCchHHHHHHhhhhhhcChhHHHHHHhcc-
Q 000137 390 PPEVFTFAH-SARQLPYVDAVPGLKLQS-GQANHAWLCLDLLDVLCQLSEMGHASFARSMLEYPLKQCPEMLLLGMAHI- 466 (2067)
Q Consensus 390 p~~~f~f~~-~~~~~v~~d~~~~~~~~~-~~~~~~W~sldL~e~L~~Lae~~~~~~v~~l~e~p~k~~pe~lllgl~~i- 466 (2067)
+...|+... .+.+.|..+...+.+... -...+++||.+|++++ .+++.....-..++| +...||++.+||..+
T Consensus 317 ~~~~fd~~Nv~~tr~Vs~~~~~~~~~~ny~~~~snlNc~el~Q~~-~l~~~p~i~y~~~lF---lN~~pE~~~a~L~~~~ 392 (2005)
T COG5103 317 EKRTFDYSNVFFTRIVSIEDSRGHRFKNYMGYESNLNCVELFQCI-MLGSLPLIEYIARLF---LNKSPEWCAAGLGFVQ 392 (2005)
T ss_pred ccchheecccceeEEEeeecCchHHHHHHHHHhcccCHHHHHHHH-HhccchHHHHHHHHH---hccCHHHHHHHHHHhh
Confidence 777777654 345555554433332222 2477999999999999 344333323333466 789999999999754
Q ss_pred ----CcchhHHHHHHHHhhhHHhHc-CCCchHHHHHHhhcCchhhHHHHHHhhhcCCccHHHHHHHHHHhhhhhhhhccC
Q 000137 467 ----NTAYNLIQYEVSFAVFPMIIK-STMSNGMILHIWHVNPNIVLRGFVDAQNMEPDCTIRILEICQELKILSSVLEMI 541 (2067)
Q Consensus 467 ----~~~~~~l~~ell~~l~~~fl~-~~~~~~vi~~lW~~~~~~~~~~l~d~y~~d~~~l~rIldvaqelk~L~~ll~~~ 541 (2067)
+-.||+.+.+.+...+-+++. ..+|++|+..+...+|+++++...-...+|...++|++|+.-|+|.|+.+.|..
T Consensus 393 ~~f~~L~~N~v~~s~if~~ll~~f~n~~p~sFvfv~~~rT~p~~~~~~~r~v~~kd~~pv~~~l~~~le~~~l~~V~n~l 472 (2005)
T COG5103 393 PKFSPLAWNPVQESRIFEELLMGFANGAPNSFVFVVLFRTHPEMMLQKSRLVLAKDGIPVSRLLDIFLEHKMLPLVSNLL 472 (2005)
T ss_pred hhhhhhhcCchHHHHHHHHHHHHHhcCCCCceEEEEEEecCHHHHHHHHHHHHhcCCCcHHHHHHHHHhcCchhhhhhcC
Confidence 447999999988888888775 458899999999999999999998778999999999999999999999999999
Q ss_pred CchhHHHHHHHhhcccccCHHHHHHHHhhcCcc-h----HHHHHHHHHHHHhhcccccccCCCCCCCcccccccchhHHH
Q 000137 542 PSPFAIRLAVIASQKELVDLEKWLSINLSTYKD-V----FFEECLKFVKEVQFGRSQDFSAQPFHHSGALLNLYMEKIPV 616 (2067)
Q Consensus 542 pf~f~idLA~lAsrre~l~lekWL~~~l~~~~~-~----f~~a~l~FL~~k~~~~~~~~~~~~~~~~~~~~~L~~etv~~ 616 (2067)
|..|++|+++|++.|+.++|..|+..++....+ + |+...++||+.|+.......+. ...+-+ ++..|+-.
T Consensus 473 P~~f~~~i~vL~~aR~~l~~~~Wl~~~~~~~~dad~~NVfvv~~~~~l~sk~s~~k~p~~q---~ee~~~--f~~~tvie 547 (2005)
T COG5103 473 PPEFCFDIIVLSSARDHLNLGIWLSNNLTTRKDADGLNVFVVSLVQYLDSKVSKHKEPEKQ---KEESVM--FPLNTVIE 547 (2005)
T ss_pred CHHHHHHHHHHHHHHHhcchhhhcccCceeeecCCcccchHHHHHHHHHHHHhhcCChhhh---ccccee--eehhhHHH
Confidence 999999999999999999999999999987665 3 9999999999999754321110 011222 34456655
Q ss_pred HHHHHHhhhCCCCchHHHHHHHHHHHHhhccCCCCCCCC-CCCCC-----CCCCCchhHHHHHHHHHHHhhccCCCHHHH
Q 000137 617 ILKLLKAHIGLITSTKLSEEIEKFQAVVLDSTPRLQNGE-AADSS-----TSEGYADDIEAEANSYFHQMFSGQLTIEAM 690 (2067)
Q Consensus 617 ll~~L~~~~~~~~s~~~~e~l~~~~~~~l~~~PRL~n~~-~~d~~-----~~~~f~~dVE~Ean~yfqkmY~~eisI~~i 690 (2067)
+|..+...... -.+.++.++..|++.||||+++| +||+. +.++++.|||+||.+|||+||+++++|+++
T Consensus 548 il~t~~~~V~q-----~~~~~k~~~~~~l~~fprli~~G~~~Ds~v~at~tt~s~~~dIE~E~~sy~q~~y~~~~~I~~~ 622 (2005)
T COG5103 548 ILGTFTKAVEQ-----YIRILKPETVVVLNEFPRLIPHGLRRDSIVAATNTTRSKEIDIEEEASSYIQQIYNSQRGIESS 622 (2005)
T ss_pred HHHHhHHHHHH-----HHHhcCcceEehHhhhhhhccCCCCcchhhhccCcccccCccHHHHHHHHHHHHHHhcccHHHH
Confidence 55554332221 15677888889999999999997 67763 456799999999999999999999999999
Q ss_pred HHHHHHhhcCCcccchhhHHHHHHhhhhhhccCCCCcHHHHHHHHHHHHHhhhhhccchhHHHHHHHHHHHHhcCCCCCc
Q 000137 691 VQMLARFKESSVKREHSIFECMIGNLFEEYRFFPKYPERQLRIAAVLFGSIIKHQLVTHLTLGIALRGVLDALRKPADSK 770 (2067)
Q Consensus 691 v~~L~~~k~S~~~rdqdvFaCMih~LFdEYrff~~YP~~eL~~TA~LFG~lI~~~Lv~~~~L~iALr~ILeAlr~p~~sk 770 (2067)
|+.||+|++|++|||+|+|+|+.|.|||||+||++||.++|++|||||||||+++|+++.+|++|+|||..++++|++||
T Consensus 623 I~~l~~f~~senprd~elfsci~hal~~ey~ff~dyPl~ALaltavLfGslI~f~ll~~~~L~vA~ryI~~~lk~P~~sk 702 (2005)
T COG5103 623 INQLKEFLRSENPRDKELFSCIFHALLEEYGFFYDYPLSALALTAVLFGSLIKFRLLPKPYLRVAIRYIKGSLKHPENSK 702 (2005)
T ss_pred HHHHHHHhhcCCcchHHHHHHHHHHHHHHhcccccCcchHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHhcCCCchh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchHHHHHHHHHHhhhhhhHHHHHHhcccccccccHHHHHHHHHHHHhhccCCCCCCCCCCCcccccccccccCCCCCc
Q 000137 771 MFVFGTKALEQFVDRLIEWPQYCNHILQISHLRSTHAELVAFIERALARISSGHLESDGASNPAAHQHVSSQATSGNGEV 850 (2067)
Q Consensus 771 mf~FGi~AL~~F~~RL~ewPqyC~~Ll~ip~L~~~~p~l~~~i~~~l~~~~~~~~~~~~~~~~~~~q~~~~q~~~~~~~~ 850 (2067)
||+||+|||++|+.||++||+||+.++.||.|+. .|++|+.|-++.. ..+. .+
T Consensus 703 mf~Fg~qal~~Fq~kLp~Yp~yc~~vl~ip~l~~-r~~iy~sivem~s----~eNt-------~~--------------- 755 (2005)
T COG5103 703 MFSFGFQALEVFQEKLPSYPSYCSEVLEIPTLNN-RILIYKSIVEMDS----NENT-------EV--------------- 755 (2005)
T ss_pred hHHHHHHHHHHHHHhhhhhhHHHHHHhccccccc-chHHHHHHHHHHh----ccCC-------cc---------------
Confidence 9999999999999999999999999999999965 9999998876642 1000 00
Q ss_pred CCCCccccccchhhHHHhhhcccccccccccccccccCCCCCCcccCCCCCCcCCCCCCchhhhhcccCCCccccccCCC
Q 000137 851 SGSGITQLGQQLSSQIQLQQRSESVVDDRHKVSAASSSDMKPLLSSIGQPSSVAPLGDTSSAQKLHNAVSAPAMLSISSG 930 (2067)
Q Consensus 851 ~~~~~~~~~~q~~~~~~~qq~~~~~l~~~~~~~~~~~~~~~p~~~s~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~ 930 (2067)
+..+|.-++++. ..
T Consensus 756 -------------------------------------Eka~p~~pm~pl-----------------------------~~ 769 (2005)
T COG5103 756 -------------------------------------EKANPTHPMLPL-----------------------------ED 769 (2005)
T ss_pred -------------------------------------cccCCCCcccch-----------------------------hh
Confidence 001111111100 00
Q ss_pred ccCCCCCccccccccccchhHHHHHhhhcCCCcCCCChhhhhhHhhhhhccChhhHHHHHHHHHHHhhhcChhhhhHHHH
Q 000137 931 FARPSRGVTSTKFGSALNIETLVAAAERRETPIEAPASEVQDKISFIINNISALNVEAKAKEFTEILKEQYYPWFAQYMV 1010 (2067)
Q Consensus 931 ~~~~~~~~~~~~~~~~~ni~tL~~~~e~~~~~~~~P~e~v~dKI~FiiNNls~~Nl~~K~~El~~~L~~~y~~WFA~YLV 1010 (2067)
|++-- + +-+.+.|.-++++..+|+|.+||++..|+..|++|+|+-|+|.|.+||+.|||
T Consensus 770 fv~~~-----------------v----~c~~n~Eg~~~evV~~iLFaiNNl~~ln~n~ki~~lk~~Ltp~y~~wfs~y~v 828 (2005)
T COG5103 770 FVRLI-----------------V----KCDANNEGRATEVVKSILFAINNLLDLNRNDKIHRLKEALTPGYVGWFSIYMV 828 (2005)
T ss_pred hheeE-----------------e----ccccCccccHHHHHHHHHHHhhhHHhhhccchHHHHHHhcCcccccceeeEEE
Confidence 11100 0 00122344567788889999999999999999999999999999999999999
Q ss_pred hhhcccCCchhHHHHHHHHHhCChhHHHHHHHHHHHHHHHHhcchhcccChHHHHHHHHhhHhHhhhhhhcCcccccCCC
Q 000137 1011 MKRASIEPNFHDLYLKFLDKVNSKALNREIVQATYENCKVLLGSELIKSSSEERSLLKNLGSWLGKLTIGRNQVLRAREI 1090 (2067)
Q Consensus 1011 ~kRas~EpN~H~LY~~fld~l~~~~L~~~il~~Ty~~i~~LL~se~~~~~s~eRslLKNLGsWLG~iTLarNkPI~~k~l 1090 (2067)
.+|++.|||||+||.++++.++++.||+.+.+.|++.++.||+...- +++|+++|||||+|||+|||||||||+|+++
T Consensus 829 tqR~~~e~n~~~ly~kvve~lgS~dly~~~~r~TL~~l~~ll~~~~e--s~~ekk~lKnLgswLG~ItLa~NkpIt~~q~ 906 (2005)
T COG5103 829 TQRSTAEENCRRLYGKVVERLGSKDLYLRFSRKTLEFLKMLLDYRCE--SPSEKKVLKNLGSWLGRITLAKNKPITSEQF 906 (2005)
T ss_pred EeeccccchHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHhcccc--ChHHHHHHHHHHHHHhHHHHhhcCccccccc
Confidence 99999999999999999999999999999999999999999987644 8899999999999999999999999999999
Q ss_pred ChhHHHHHHHhcCceeEEechhhhhcccccCCccccCCCccHHHHHHHHHHHhcCCccchhhHHHHHHHHhhcCCCcccc
Q 000137 1091 DPKSLIIEAYEKGLMIAVIPFTSKILEPCQSSLAYQPPNPWTMAILGLLAEIYSMPNLKMNLKFDIEVLFKNLGVDMKDI 1170 (2067)
Q Consensus 1091 d~K~LL~eaY~~g~L~~VIPFV~KVLe~~~~S~vFkPPNPWtm~IL~lL~Ely~~~~LKlnLKFEIEVL~K~L~ld~~di 1170 (2067)
|||++|+|||+.||+..|||||||||++++.|+||||||||+||||+||.|||+++++||+||||||+|+|+||++++.|
T Consensus 907 ~Fk~~lve~~~~~Ri~~vvpFV~k~L~~as~s~IFkPpNPW~mgILkLL~El~~~a~~~l~lkFEie~Ll~~lnv~~~~i 986 (2005)
T COG5103 907 DFKKFLVESVECRRILFVVPFVSKFLRQASCSIIFKPPNPWVMGILKLLSELHSCAPRVLRLKFEIEGLLRHLNVELVPI 986 (2005)
T ss_pred cHHHHHHHHhhcCceEEeehHHHHHHHhcccceEecCCCchHHHHHHHHHHHHhcCcceeehhhhHHHHHHhcceeeccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccchhh---hcCCCCCCCCccCCCCCcccCCCCcCccCCCCCCCCCCCCCCCCCCCCCcccccccccccccCcC
Q 000137 1171 TPTSLLKDRKRE---IEGNPDFSNKDVGASQPQLVPEVKPAIVSPLGHVDLPLDVASPPNSGGPTHLLSQYAAPLRLSSG 1247 (2067)
Q Consensus 1171 ~ps~~L~~r~~~---~~~~~d~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~~ 1247 (2067)
||++.++++.-. ++. ..|+. -++ .+.|.++ .+++||...
T Consensus 987 kPs~~~~n~~V~ks~LEk---------------e~~Ed------vL~-a~~~d~~----------~~~~qyi~~------ 1028 (2005)
T COG5103 987 KPSKSLGNHLVLKSRLEK---------------ELPED------VLN-AKFPDGT----------DYLAQYIIE------ 1028 (2005)
T ss_pred ChhhhhCcHHHHHHHHhh---------------hchHH------HHh-hhccccc----------hHHHHHHHH------
Confidence 999998775421 110 01110 000 0001000 023333210
Q ss_pred cchhHHHHhhccCCCCCCcccccccccCCCCCCCccccccCCCCCCccEeecccccccccchhhhhhHHHHHHHHHHhhh
Q 000137 1248 TLMEDEKLAALGISDQLPSAQGLFQASQSQSPFSVSQLSTPIPNIGTHVIINQKLTALGLHLHFQRVVPIAMDRAIKEIV 1327 (2067)
Q Consensus 1248 ~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~s~~~i~~~~~~l~~~~~in~~l~~f~~~p~Lk~iv~~Ai~rAIrEIi 1327 (2067)
+ ++.++..+..+ .+...| -|.+|++.++|++.+||||+
T Consensus 1029 ----~------------------------sSq~TvtD~va-------~~~g~P-------~PaiK~~~Qlal~~SVrEI~ 1066 (2005)
T COG5103 1029 ----D------------------------SSQITVTDLVA-------RHVGSP-------KPAIKNLTQLALDLSVREIC 1066 (2005)
T ss_pred ----h------------------------hhcchHHHHHH-------HHcCCC-------ChHHHHHHHHHHHHHHHHHH
Confidence 0 00111111111 111122 28999999999999999999
Q ss_pred hhcchhhhHHHHHHhHHHHhhccCCChhhHHHHHHHHHHHHHHHhhhHHHHchHHHHHHHHHHHHHHHhcCCCcHHHHHH
Q 000137 1328 SGIVQRSVSIATQTTKELVLKDYAMESDETRIYNAAHLMVASLAGSLAHVTCKEPLRGSISSQLRNSLQGLTIASELLEQ 1407 (2067)
Q Consensus 1328 ~PVVeRSvtIA~iTT~elV~KDFA~E~De~kmr~AAh~Mv~~LAgsLAlVTckEPLr~si~~~Lr~~l~~~~~~~~~~e~ 1407 (2067)
..|||||+.||++||+.|++||||+|.|+.++..||++||++|||+||+|||+|||++.|.++.|+...++......+-+
T Consensus 1067 ~aVVeks~gIAi~Tt~~l~~KDFa~ev~~s~l~~aar~Mv~~La~~La~vT~~EPlk~~i~~n~rs~a~~l~sv~~~~ae 1146 (2005)
T COG5103 1067 GAVVEKSCGIAIQTTMALFKKDFAMEVEKSMLYVAARNMVVNLAKFLALVTAQEPLKACISGNVRSYAMKLCSVLDFSAE 1146 (2005)
T ss_pred HHHHHHhccchhhHHHHHHHHHhhhccChhHHHHHHHHHHHHHHHHHHHHHhHhhHHHHHhccHHHHHHHHhhhhhchHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999998887666677888
Q ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-CCCCCcCcccccccccCCCCccCCCCCCCCHhH
Q 000137 1408 AVQLVTNDNLDLGCAVIEQAATDKAIQTIDGEIAQQLSLRRKHREG-VGSSFFDPNIYAQGSMGVPEALRPKPGHLSVSQ 1486 (2067)
Q Consensus 1408 ~i~~~~~dNldL~c~~IekaA~ekAi~eIde~l~~~~~~RRkhre~-~g~~f~D~~~~~~~~~~LPE~LrlkpgGl~~~Q 1486 (2067)
++..++++|++.||.+||+|+++|++++|+..|+.++..||+||++ ++.||+|+++ +..+++||++|+++-||+||||
T Consensus 1147 ~vd~~~~eN~~va~~lIe~a~~~k~~~~i~aei~h~Iv~R~~Hrktt~n~PFvd~aa-a~~slnLps~L~ls~~~~Tpqq 1225 (2005)
T COG5103 1147 KVDKIAMENQDVACRLIERAGVSKVSESISAEIEHMIVERVRHRKTTPNLPFVDPAA-ANLSLNLPSSLELSIGKATPQQ 1225 (2005)
T ss_pred HHHHHHHhchhHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhhccCCCCCccCccc-CccccCCCcccccccCCcCHHH
Confidence 8999999999999999999999999999999999999999999998 7999999997 4446889999999999999999
Q ss_pred HHHHHhhhcCcCCccCCCCCcccccCccCCCCchhhhccccCCCCCCCCCCcCCCCCCCcccccCCccccCCCccccccc
Q 000137 1487 QRVYEDFVRLPWQNQSSQGSHAMSAGSLTSSGDAAQASAYGLAGGQGNQGYSSSAGSTGFDAVSRPSDVASGTTESTSAG 1566 (2067)
Q Consensus 1487 ~~VYEdF~r~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~ 1566 (2067)
+++||||.|+|-..-++.+...+..+..+. +++.+ . .-|..+...+ ...++
T Consensus 1226 f~lyE~fD~l~ls~i~~h~~~~~~n~~~Td-------------~adst---------d-----al~~nl~nt~--e~eAn 1276 (2005)
T COG5103 1226 FSLYEDFDRLSLSTIMGHIEKIAINAIDTD-------------SADST---------D-----ALNNNLNNTV--ENEAN 1276 (2005)
T ss_pred hhhhhccccccccccccccchhhhhhhcCC-------------hhhhh---------h-----hhccccchhh--hhHHH
Confidence 999999999654222111111111000000 00000 0 0000000000 00000
Q ss_pred ccccccccccccCCCcccccccccccccCChhhhhhcccCCCCCCCCCCCCCCCCCCCchhhhhcccccccccchhhhhH
Q 000137 1567 FLSTSLVHIGAADGGILHNSESESVNAAFTPAATELYAADSTEPVKEPGASSQSLPSTAAPERIGSSILEPSLQTRDALD 1646 (2067)
Q Consensus 1567 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~le 1646 (2067)
+ ++.++... .-. ++. +..++ +...|... +..+. .+
T Consensus 1277 Q---ta~~yq~n------------~L~-i~~---ql~Ql----------~~~~Py~~---~~~V~---------aD---- 1311 (2005)
T COG5103 1277 Q---TALEYQEN------------LLI-IKA---QLVQL----------SKKIPYSS---KKNVI---------AD---- 1311 (2005)
T ss_pred H---HHHHHHHH------------hhh-hhh---HHHHh----------cccCCcch---hhcCc---------ch----
Confidence 0 00000000 000 000 00000 00001110 11111 00
Q ss_pred HHHHHHHHHHHHhhcCCcchhHHHHhhhhHHHHHhhcChhHHHHHHHHHHHHHHhcccCCcchHHHHHHHHHHHHHHhHH
Q 000137 1647 KYHIVAQKLDALIGNDAREAEVQGVISEVPEIILRCISRDEAALAVAQKVFKGLYENASNNLHFSAHLAILAAIRDVCKL 1726 (2067)
Q Consensus 1647 ~~~~~~~~l~~l~~~~~~~~ei~~~i~~v~~~i~~~~~rde~al~~aQkvv~~L~~~~~~~l~~ev~~~~L~~L~~~~~~ 1726 (2067)
..|-. +.+. . +++..++.+|...|.++ |+.++.++|.+++.|+..+.+++++||+.++||+||++|-+
T Consensus 1312 ~e~~~---lkE~-----~-NQ~~t~~~~Il~~Ia~s---d~~~l~c~q~c~~il~~~skSp~~~evls~~lEkic~~S~k 1379 (2005)
T COG5103 1312 EEHGL---LKEG-----K-NQFETVFRRILESIASS---DDKDLECIQLCRYILGHLSKSPSKEEVLSRCLEKICKISFK 1379 (2005)
T ss_pred hhhhH---HHhh-----H-HHHHHHHHHHHHHhccc---hhhHHHHHHHHHHHHhccccCchHHHHHHHHHHHHHhHhHH
Confidence 00111 1111 1 35667777777777665 99999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhccccccccCHHHHHHHHHhcCCChhHHHHHHHHHHhcCCChhHHHHHHHHHHHHhcCCchhh-hhhHHHH
Q 000137 1727 VVKELTSWVIYSDEERKFNRDITMGLIRSELLNLAEYNVHMAKLIDGGRNKAATEFAISLLQTLVTDESRVV-ISELHNL 1805 (2067)
Q Consensus 1727 ~~kevt~wli~s~derK~Nv~vi~~Lir~~Li~~~e~D~~LAk~i~~~~n~~av~Fa~~Ll~~~l~~e~~~~-~sdf~~t 1805 (2067)
++|+|.|||+|+.|.||||+|+|.+|||+|||+..|||.+|++.|.+.. ..++|||+.|++..+++|.++. ..||.+|
T Consensus 1380 t~k~V~~wl~ysnD~rKfnip~I~slie~nli~~~E~D~~l~r~i~~~~-gnvtdFai~Ll~~~V~~e~pi~~~~dFI~t 1458 (2005)
T COG5103 1380 TQKEVLGWLIYSNDPRKFNIPLIGSLIEHNLINVVEYDQALSRKIPLAD-GNVTDFAIALLASLVTAEVPICTVYDFICT 1458 (2005)
T ss_pred HhhhhheeeeecCChhhcCcHHHHHHHHhccchhhhHHHHHHhhccccc-cchHHHHHHHHHHHhccCCceeeHHHHHHH
Confidence 9999999999999999999999999999999999999999999997654 3489999999999999997654 5999999
Q ss_pred HHHHHHHHcCCCChhHHHHHHHHHhCcccccCCCCCCccccchhhhhhcccccccCcccCccCCCCCCCCCCCCCChHHH
Q 000137 1806 VDALAKLAAKPGSPESLQQLIEIVRNPAANANASSGATTAKDDKARQSKDKKAYSHTTANREDYNIPESVDPDPVGFPEQ 1885 (2067)
Q Consensus 1806 leaL~kl~~~~~~~e~l~~l~e~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dp~~l~eq 1885 (2067)
+|.|+.-. . +.+.+..+++-. .+++ .+..| ....+.||
T Consensus 1459 Le~la~s~----d-~~vk~f~~~~~~------------tm~~---------~v~kg----------------nKqq~ndq 1496 (2005)
T COG5103 1459 LEMLAGSS----D-PKVKDFFQKISN------------TMMH---------IVAKG----------------NKQQLNDQ 1496 (2005)
T ss_pred HHHHhccC----C-hhHHHHHHHHHH------------hhhh---------ccccc----------------ccccccce
Confidence 98875321 1 333455554431 0000 00000 12346789
Q ss_pred HHHHHHHHHHhhcCCCCCchHHHHHHHHHHHCCCCCCChhHHHHHHHHHHHHHHHHhhhcccCCCCCCCcCccccccchh
Q 000137 1886 VSMLFAEWYQICELPGSNDAACTRYVLQLHQNGLLKGDDMTDRFFRRLTEVSVAHCLSSEVINPGTLQSPQQSQSLSFLA 1965 (2067)
Q Consensus 1886 ~~~lF~EWv~l~~~~~~~~~~~~~Fv~qL~~~giLk~dd~~~~FfR~~~E~sV~~~~~~e~~~~g~~~~~~~~~~~~f~~ 1965 (2067)
+..+|.|||++..+...+|..-..|+.||+++|+++.+|++..|||+..|.+|..|. |.+ |+ +.||..
T Consensus 1497 i~iVf~ewv~llrn~~~nD~v~~~F~~ql~e~g~~s~~~~~~~ffk~sle~~i~aF~--e~~-pt---------a~~y~~ 1564 (2005)
T COG5103 1497 IIIVFSEWVELLRNCRFNDTVPEMFLPQLMERGDYSASLDIRSFFKVSLEHFIRAFH--ERI-PT---------AYCYLK 1564 (2005)
T ss_pred EEEeeHHHHHHHHhcccccccHHHHHHHHHHccCCCchHHHHHHHHhhHHHHHHHHh--hcC-Cc---------ccceee
Confidence 999999999999999999999999999999999999999999999999999999995 442 32 689999
Q ss_pred hhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHhhhHhhhcCCCCCchHHHHHHHHHhhccCCCCCCcchHHHH
Q 000137 1966 IDIYAKLMLSILKCCPVEQGSSKIFLLSKILTVTVKFILKDAEEKKASFNPRPYFRLFINWLLDMSSLDPVADGSNFQIL 2045 (2067)
Q Consensus 1966 IDA~akLIv~lvk~~~~~~~~~k~~lL~kiLsivv~vl~~dhe~~~~~FnqrPYfRlFs~LL~el~~~d~~l~~~~~qil 2045 (2067)
||||+-||+.++++. +..+.++-.|++||++++++|++++|..+++.||+|||||+||++|+||-......++.-..+.
T Consensus 1565 IDal~sLi~n~l~~e-G~te~T~s~~~~kii~~i~~VFae~h~~~~e~~h~~~fFrLfS~il~e~~dv~~~d~s~fv~~~ 1643 (2005)
T COG5103 1565 IDALPSLIKNRLYEE-GSTEGTVSVLFRKIIKDILFVFAEAHRKRAEFVHNYLFFRLFSRILIETLDVIDEDTSCFVNNR 1643 (2005)
T ss_pred ccchHHHHHHHHHHh-ccccchHHHHHHHHHHHHHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhhhhhccchhhhhhH
Confidence 999999999999995 5556678899999999999999999999999999999999999999999775544555666788
Q ss_pred HHHHHHHhhcCCCCCCccccC
Q 000137 2046 SAFANAFHVLQPLKVPAFRLA 2066 (2067)
Q Consensus 2046 ~aFa~~l~~LQP~~~PGFaFA 2066 (2067)
+.|-++|.+|||.+||||+||
T Consensus 1644 Sv~y~~f~alqP~~fPgFtfa 1664 (2005)
T COG5103 1644 SVVYSIFEALQPSRFPGFTFA 1664 (2005)
T ss_pred HHHHHHHHHcCcccCCchHHH
Confidence 999999999999999999997
No 2
>KOG1831 consensus Negative regulator of transcription [Transcription]
Probab=100.00 E-value=5.2e-194 Score=1812.69 Aligned_cols=1141 Identities=32% Similarity=0.463 Sum_probs=848.9
Q ss_pred hhhhhhhccCCchhHHHHHHHhhcccccCHHHHHHHHhhcCcchHHHHHHHHHHHHhhcccccccCCCCCCCcccccccc
Q 000137 532 KILSSVLEMIPSPFAIRLAVIASQKELVDLEKWLSINLSTYKDVFFEECLKFVKEVQFGRSQDFSAQPFHHSGALLNLYM 611 (2067)
Q Consensus 532 k~L~~ll~~~pf~f~idLA~lAsrre~l~lekWL~~~l~~~~~~f~~a~l~FL~~k~~~~~~~~~~~~~~~~~~~~~L~~ 611 (2067)
.-++-|.|+.||.++++.+.+|+.++++++..||..++.--.+ |..++.-... .++.++.+..+...
T Consensus 82 ~~~~~v~Nm~pn~~~~n~~~la~~~~a~~F~~~l~~~~~~~~~-----~~~~~s~~~~--------~~q~~~~~~~~~~~ 148 (1591)
T KOG1831|consen 82 PGMDIVGNMSPNLEALNIRDLASCFGAVNFSIWLLESLYLMID-----DAVPLSLIIT--------APQEPSFKPWPNER 148 (1591)
T ss_pred CcchhhhhcCcchhhhchHhhhhhcCCCCchhhhcccceeecc-----CCCcccceee--------ccccccCCCChhHH
Confidence 4578899999999999999999999999999999998653211 1111111111 01111111111100
Q ss_pred -hhHHHHHHHHHhhhCCCCchHHHHHHHHHHHHhhccCCCCCCCCCCCC-----CCCCCCchhHHHHHHHHHHHhhccCC
Q 000137 612 -EKIPVILKLLKAHIGLITSTKLSEEIEKFQAVVLDSTPRLQNGEAADS-----STSEGYADDIEAEANSYFHQMFSGQL 685 (2067)
Q Consensus 612 -etv~~ll~~L~~~~~~~~s~~~~e~l~~~~~~~l~~~PRL~n~~~~d~-----~~~~~f~~dVE~Ean~yfqkmY~~ei 685 (2067)
.++..++-.... -++-.+..-++|.||. .+..+|++|||+|||+||||||+ .+
T Consensus 149 ~~qi~~l~p~~~~--------------------q~qrt~s~sa~~~~d~v~~~~~~~~~~s~die~E~~sYfqkiYn-~l 207 (1591)
T KOG1831|consen 149 FAQIYFLLPIGPS--------------------QLQRTESVSAPGPHDPVFFARQVSIEFSRDIEFEVNSYFQKIYN-CL 207 (1591)
T ss_pred HHHHHHHccCChh--------------------hccccccccCCCCCCchhhhcccccccChhHHHHHHHHHHHHHH-Hh
Confidence 112221111100 0111122224555665 24578999999999999999999 99
Q ss_pred CHHHHHHHHHHhhcCCcccchhhHHHHHHhhhhhhccCCCCcHHHHHHHHHHHHHhhhhhccchhHHHHHHHHHHHHhcC
Q 000137 686 TIEAMVQMLARFKESSVKREHSIFECMIGNLFEEYRFFPKYPERQLRIAAVLFGSIIKHQLVTHLTLGIALRGVLDALRK 765 (2067)
Q Consensus 686 sI~~iv~~L~~~k~S~~~rdqdvFaCMih~LFdEYrff~~YP~~eL~~TA~LFG~lI~~~Lv~~~~L~iALr~ILeAlr~ 765 (2067)
+|+++|++|+|||.|+++|||++|+||.|+||||||||++||++||++||+||||||.|+|+++.+||+|+|+|++|+++
T Consensus 208 sI~~vI~lL~rfr~Se~~Rdq~vf~C~~~~lF~EyrFF~dYPe~~L~~Ta~lfGsiI~~~Lls~v~l~la~R~Vl~~l~~ 287 (1591)
T KOG1831|consen 208 SIFQVIDLLQRFRLSELPRDQEVFACAAHNLFEEYRFFRDYPELALATTAVLFGSIIFFVLLSFVELGLALRLVLAALGI 287 (1591)
T ss_pred hHHHHHHHHHhcccccChhhhhHHHHHHhhccccccccccCHHHHHHHHHHhcchhHHHHHHhhhHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccchHHHHHHHHHHhhhhhhHHHHHHhcccccccccHHHHHHHHHHHHhhccCCCCCCCCCCCcccccccccccC
Q 000137 766 PADSKMFVFGTKALEQFVDRLIEWPQYCNHILQISHLRSTHAELVAFIERALARISSGHLESDGASNPAAHQHVSSQATS 845 (2067)
Q Consensus 766 p~~skmf~FGi~AL~~F~~RL~ewPqyC~~Ll~ip~L~~~~p~l~~~i~~~l~~~~~~~~~~~~~~~~~~~q~~~~q~~~ 845 (2067)
||+||||+||++||.+|+.||.+||+||.+|+.+|++..++|++|++|....- +.. . +..
T Consensus 288 P~~skl~~Fgv~Al~~frskL~~Yp~yC~~Il~~~~~s~~~~~l~~~I~~~~~---san----a---~~~---------- 347 (1591)
T KOG1831|consen 288 PPSSKLFIFGVQALLPFRSKLLDYPKYCFDILSIPPFSKFRPHLYDSIWETAT---SAN----A---TTR---------- 347 (1591)
T ss_pred CChhHHHHHHHHHHHHHHHHhcchHHHHHHHHhCcchhhccHHHHHHHHhhhh---hcc----C---CCc----------
Confidence 99999999999999999999999999999999999999999999999977421 110 0 000
Q ss_pred CCCCcCCCCccccccchhhHHHhhhcccccccccccccccccCCCCCCcccCC-CCCCcCCCCCCchhhhhcccCCCccc
Q 000137 846 GNGEVSGSGITQLGQQLSSQIQLQQRSESVVDDRHKVSAASSSDMKPLLSSIG-QPSSVAPLGDTSSAQKLHNAVSAPAM 924 (2067)
Q Consensus 846 ~~~~~~~~~~~~~~~q~~~~~~~qq~~~~~l~~~~~~~~~~~~~~~p~~~s~~-~~~~~~~~~~~~~~~~~~~~p~~~~~ 924 (2067)
...|..+..+ .++.+
T Consensus 348 -------------------------------------------~s~pv~~~~p~~~~av--------------------- 363 (1591)
T KOG1831|consen 348 -------------------------------------------KSDPVRSASPYLDSAV--------------------- 363 (1591)
T ss_pred -------------------------------------------ccccchhccccccccc---------------------
Confidence 0000000000 00000
Q ss_pred cccCCCccCCCCCccccccccccchhHHHHHhhhcCCCcCCCChhhhhhHhhhhhccChhhHHHHHHHHHHHhhhcChhh
Q 000137 925 LSISSGFARPSRGVTSTKFGSALNIETLVAAAERRETPIEAPASEVQDKISFIINNISALNVEAKAKEFTEILKEQYYPW 1004 (2067)
Q Consensus 925 ~~~~~~~~~~~~~~~~~~~~~~~ni~tL~~~~e~~~~~~~~P~e~v~dKI~FiiNNls~~Nl~~K~~El~~~L~~~y~~W 1004 (2067)
+.. .+| .+.+.|||+|+|||+|++||+|+.|+.+|++|+|++|+++||+|
T Consensus 364 -s~~----~~P-------------------------~n~~~~~e~v~dkilF~lNNlsq~N~~qKvdevk~~ltp~y~~W 413 (1591)
T KOG1831|consen 364 -SKH----VEP-------------------------KNAEGPPEDVVDKILFPLNNLSQLNFNQKVDEVKEILTPEYYPW 413 (1591)
T ss_pred -ccc----CCc-------------------------ccccCCchhhhhhheeeechHhhhhhHHHHHHHHHHcChhhHHH
Confidence 000 011 12347999999999999999999999999999999999999999
Q ss_pred hhHHHHhhhcccCCchhHHHHHHHHHhCChhHHHHHHHHHHHHHHHHhcchhcccChHHHHHHHHhhHhHhhhhhhcCcc
Q 000137 1005 FAQYMVMKRASIEPNFHDLYLKFLDKVNSKALNREIVQATYENCKVLLGSELIKSSSEERSLLKNLGSWLGKLTIGRNQV 1084 (2067)
Q Consensus 1005 FA~YLV~kRas~EpN~H~LY~~fld~l~~~~L~~~il~~Ty~~i~~LL~se~~~~~s~eRslLKNLGsWLG~iTLarNkP 1084 (2067)
||+|+|+||||+|+|||+||.+|++.+++.. | -+||++|||||||||.||||||||
T Consensus 414 fs~YiV~qR~S~E~Nf~~LYskFi~ai~n~~--------t----------------~~dk~~LKNLgsWLG~iTl~rNkP 469 (1591)
T KOG1831|consen 414 FSQYIVTQRVSKEINFHELYSKFISAIKNSV--------T----------------ESDKRLLKNLGSWLGEITLGRNKP 469 (1591)
T ss_pred HHHHHhhhhhhcccchHHHHHHHHHHHhCcc--------c----------------hhHHHHHHHHHHHHHHHHHhcCCc
Confidence 9999999999999999999999999999982 2 179999999999999999999999
Q ss_pred cccCCCChhHHHHHHHhcCceeEEechhhhhcccccCCccccCCCccHHHHHHHHHHHhcCCccchhhHHHHHHHHhhcC
Q 000137 1085 LRAREIDPKSLIIEAYEKGLMIAVIPFTSKILEPCQSSLAYQPPNPWTMAILGLLAEIYSMPNLKMNLKFDIEVLFKNLG 1164 (2067)
Q Consensus 1085 I~~k~ld~K~LL~eaY~~g~L~~VIPFV~KVLe~~~~S~vFkPPNPWtm~IL~lL~Ely~~~~LKlnLKFEIEVL~K~L~ 1164 (2067)
|++.++|||+||+|||.+|++..|+|||||||+.|.+|+|||||||||||||++|+|+|+.||||+|||||||||||+||
T Consensus 470 I~~l~l~~kslLlEaY~sg~ll~VvPFVaKIL~~asksrIFkpPnpW~~gIlklL~ELh~e~d~klnLkFEIEVLlkslN 549 (1591)
T KOG1831|consen 470 IKELDLDFKSLLLEAYGSGRLLPVVPFVAKILEGASKSRIFKPPNPWTMGILKLLAELHQEADLKLNLKFEIEVLLKSLN 549 (1591)
T ss_pred hHHhhhhHHHHHHHHhccCceeecchHHHHHHHhhhhccccCCCCchHHHHHHHHHHhcccccceeeeeeeeeehhcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccccccccchhhhcCCCCCCCCccCCCCCcccCCCCcCccCCCCCCCCCCCCCCCCCCCCCccccccccccccc
Q 000137 1165 VDMKDITPTSLLKDRKREIEGNPDFSNKDVGASQPQLVPEVKPAIVSPLGHVDLPLDVASPPNSGGPTHLLSQYAAPLRL 1244 (2067)
Q Consensus 1165 ld~~di~ps~~L~~r~~~~~~~~d~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~ 1244 (2067)
+++++++|+.+++|..+. .+.. ..+.++.. ++.+++.. +|
T Consensus 550 ~~l~~le~~~~lnn~~~i-~~~L-----------~~~~~e~h-------~~~~~~~~--------------q~------- 589 (1591)
T KOG1831|consen 550 VILSELEPSETLNNIIRI-KKQL-----------VLMKLETH-------QSLELEDI--------------QQ------- 589 (1591)
T ss_pred chHhhcchhhHHhhHHhH-HHHH-----------ccCChhhc-------cccccCch--------------hc-------
Confidence 999999999999994431 0100 00000000 00000000 00
Q ss_pred CcCcchhHHHHhhccCCCCCCcccccccccCCCCCCCccccccC-CCCCCccEeecccccccccchhhhhhHHHHHHHHH
Q 000137 1245 SSGTLMEDEKLAALGISDQLPSAQGLFQASQSQSPFSVSQLSTP-IPNIGTHVIINQKLTALGLHLHFQRVVPIAMDRAI 1323 (2067)
Q Consensus 1245 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~s~~~i~~~-~~~l~~~~~in~~l~~f~~~p~Lk~iv~~Ai~rAI 1323 (2067)
++ +.+ ...|++++.... ..+..+++...| ||+.|++|+.|++++|
T Consensus 590 ----------------------~~---~~~--~~~fa~~~~n~~t~~~~i~~l~~~~-------~P~~Kh~~~~Aleqsv 635 (1591)
T KOG1831|consen 590 ----------------------VT---LGN--TIAFAYDARNVSTATEVIKQLDLRP-------HPDIKHRVQEALEQSV 635 (1591)
T ss_pred ----------------------cc---ccC--CccceecccccchhhhhhhhccCCC-------CccHHHHHHHHHHHHH
Confidence 00 000 111444443211 122233333343 8999999999999999
Q ss_pred HhhhhhcchhhhHHHHHHhHHHHhhccCCChhhHHHHHHHHHHHHHHHhhhHHHHchHHHHHHHHHHHHHHHhcCCCcHH
Q 000137 1324 KEIVSGIVQRSVSIATQTTKELVLKDYAMESDETRIYNAAHLMVASLAGSLAHVTCKEPLRGSISSQLRNSLQGLTIASE 1403 (2067)
Q Consensus 1324 rEIi~PVVeRSvtIA~iTT~elV~KDFA~E~De~kmr~AAh~Mv~~LAgsLAlVTckEPLr~si~~~Lr~~l~~~~~~~~ 1403 (2067)
+|||.||||||+.||++||+.||+||||+|+||+|||.||+.|||+||++||++||||||+++|+++|+..+.++.+...
T Consensus 636 ~eii~~Vv~rs~~IA~ttTe~lirKDFA~e~~es~l~~Aa~~M~r~la~~lAmiTcreplk~am~~nl~~~~~~~l~~~~ 715 (1591)
T KOG1831|consen 636 VEIIEPVVERSSGIASTTTESLIRKDFALERDESRLRLAASQMVRELAAGLAMITCREPLKVAMSSNLVLAALSLLSLMA 715 (1591)
T ss_pred HHHHHHHHHHhhceeehhHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhHHHHHhhhhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999776655678
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-CCCCCcCcccccccccCCCCccCCCCCCC
Q 000137 1404 LLEQAVQLVTNDNLDLGCAVIEQAATDKAIQTIDGEIAQQLSLRRKHREG-VGSSFFDPNIYAQGSMGVPEALRPKPGHL 1482 (2067)
Q Consensus 1404 ~~e~~i~~~~~dNldL~c~~IekaA~ekAi~eIde~l~~~~~~RRkhre~-~g~~f~D~~~~~~~~~~LPE~LrlkpgGl 1482 (2067)
.+++++..+++||++++|.+|||+|+|||+.|||.+|++++..|+.||++ ++.||+|+...++. ..|||++|+++||+
T Consensus 716 ai~~a~~t~~~dNv~l~~~~Iek~a~eka~~dI~~~L~q~~~~Rv~~k~~~~~~~fvD~~~~~~~-~~LP~~vr~~~~~~ 794 (1591)
T KOG1831|consen 716 AIARAADTLQSDNVELVVKFIEKTAIEKATQDIDSRLEQDICGRVFHKENPEVMPFVDLLSAAYS-CTLPEVVRLKIGGL 794 (1591)
T ss_pred HHHHHHHHHHhhchhhHhhhhHHHHHHHHHHHHHHHHHHhhHhheecccCCccccchhhhhhhhh-ccCcHhhhcccCCC
Confidence 89999999999999999999999999999999999999999999999997 68999999886665 44999999999999
Q ss_pred CHhHHHHHHhhhc-CcC-CccCCCCCcccccCccCCCCchhhhccccCCCCCCCCCCcCCCCCCCcccccCCccccCCCc
Q 000137 1483 SVSQQRVYEDFVR-LPW-QNQSSQGSHAMSAGSLTSSGDAAQASAYGLAGGQGNQGYSSSAGSTGFDAVSRPSDVASGTT 1560 (2067)
Q Consensus 1483 ~~~Q~~VYEdF~r-~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~ 1560 (2067)
+|+|++|||+|+| +|+ ...++...+.. | .+++.++.+.-
T Consensus 795 ~~~l~~vYe~F~k~i~~~~~~s~~~~la~----------------~----------------------~~~~~dlt~~~- 835 (1591)
T KOG1831|consen 795 TPQLFRVYEEFPKPIPGFLGNSSRKDLAE----------------Y----------------------ITESSDLTQPH- 835 (1591)
T ss_pred CHHHHHHHHHcccccccccccCCCccccc----------------c----------------------cCCCccccchh-
Confidence 9999999999998 454 11111110000 0 01111111100
Q ss_pred ccccccccccccccccccCCCcccccccccccccCChhhhhhcccCCCCCCCCCCCCCCCCCCCchhhhhcccccccccc
Q 000137 1561 ESTSAGFLSTSLVHIGAADGGILHNSESESVNAAFTPAATELYAADSTEPVKEPGASSQSLPSTAAPERIGSSILEPSLQ 1640 (2067)
Q Consensus 1561 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 1640 (2067)
-.+.....+- .++-++...-.++..++...++.. +++ ....++.+
T Consensus 836 ------~~s~~~~lv~------~ei~~~~~~~a~~~~i~~~~l~~~----------a~s---~~~~m~~v---------- 880 (1591)
T KOG1831|consen 836 ------VISNALDLVV------REICGAIVEKACQTAIQTGMLQFK----------AQS---VEKLMEEV---------- 880 (1591)
T ss_pred ------hhhHHHHHHH------HHHHHHHHHHHHHHHHHhhhhhhh----------hhc---chhhHHhc----------
Confidence 0000000000 000000000000000000000000 000 00111111
Q ss_pred hhhhhHHHHHHHHHHHHHhhcCCcchhHHHHhhhhHHHHHhhcChhHHHHHHHH--HHHHHHhcccCCcchHHHHHHHHH
Q 000137 1641 TRDALDKYHIVAQKLDALIGNDAREAEVQGVISEVPEIILRCISRDEAALAVAQ--KVFKGLYENASNNLHFSAHLAILA 1718 (2067)
Q Consensus 1641 ~~~~le~~~~~~~~l~~l~~~~~~~~ei~~~i~~v~~~i~~~~~rde~al~~aQ--kvv~~L~~~~~~~l~~ev~~~~L~ 1718 (2067)
+.++..-........+..++. ..-..-.+.+ +.+...+ +.+--.+++..+|+
T Consensus 881 ----------------------~~~~~~~~~~~~~~~~~ar~i-~hli~~~V~~~~~~l~~~~---~~~~I~~i~m~iL~ 934 (1591)
T KOG1831|consen 881 ----------------------PARNMVVNLVNSLLLLVARSI-EHLISGLVSYFMKNLELDF---STEKIFKIIMEILD 934 (1591)
T ss_pred ----------------------cchhhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhh---cchhHHHHHHHHHH
Confidence 011111111111111111000 0000111111 1111111 11223456777888
Q ss_pred HHHHHhHH-HHHHHHhhhhccccccccCHHHHHHHHHhcCCChhHHHHHHHHHHhcCCChhHHHHHHHHHHHHhcCCchh
Q 000137 1719 AIRDVCKL-VVKELTSWVIYSDEERKFNRDITMGLIRSELLNLAEYNVHMAKLIDGGRNKAATEFAISLLQTLVTDESRV 1797 (2067)
Q Consensus 1719 ~L~~~~~~-~~kevt~wli~s~derK~Nv~vi~~Lir~~Li~~~e~D~~LAk~i~~~~n~~av~Fa~~Ll~~~l~~e~~~ 1797 (2067)
-+|....+ ..+.|+-.+..+++++|||++.+..|++.+|++..++|.+||++||+|.|..++.|+++|++....++.+.
T Consensus 935 ~ic~~~qk~~~~~vs~a~s~~~~~~e~n~~~~~~L~~~~l~~~~~vd~~l~~amDs~~n~~vi~f~iell~~~~~~dnvi 1014 (1591)
T KOG1831|consen 935 NICRFIQKAGVRKVSEAISSSRSSLEYNIEKAEHLILSLLLDSGHVDKHLAKAMDSGGNQEVIAFLIELLRIAYGGDNVI 1014 (1591)
T ss_pred HHHHhccHHHHHHHHHHHHhchHHHHhhHHHHHHHHHHhccChhhHHHHHHHHhccCCChHHHHHHHHHHHHhccCcchh
Confidence 88887644 44557878889999999999999999999999999999999999999999999999999999999999753
Q ss_pred h-h--hhHHHHHHHHHHHHcCCCC-----hh---HHHHHHHHHhCcccccCCCCCCccccchhhhhhcccccccCcccCc
Q 000137 1798 V-I--SELHNLVDALAKLAAKPGS-----PE---SLQQLIEIVRNPAANANASSGATTAKDDKARQSKDKKAYSHTTANR 1866 (2067)
Q Consensus 1798 ~-~--sdf~~tleaL~kl~~~~~~-----~e---~l~~l~e~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1866 (2067)
. . ..|..|.|.+.|+.+.-.+ .+ +..+.++.+-. ++..
T Consensus 1015 ~~~~~~~~~~t~E~~~ri~q~v~s~~~~~g~~~~~~~~~v~~~~k----------------------------~~s~--- 1063 (1591)
T KOG1831|consen 1015 ADEWKNLFKETKEELFRILQSVESSEDKSGECASLCDYIVEHAIK----------------------------SGSS--- 1063 (1591)
T ss_pred hhhhhhhhhhHHHHHHHHHHHHhcccccchhhhhHHHHHHHhccC----------------------------CCCc---
Confidence 3 3 4688899999996542111 11 11122221110 0000
Q ss_pred cCCCCCCCCCCCCCChHHHHHHHHHHHHHhhcCCCCCchHHHHHHHHHHHCCCCCCChhHHHHHHHHHHHHHHHHhhhcc
Q 000137 1867 EDYNIPESVDPDPVGFPEQVSMLFAEWYQICELPGSNDAACTRYVLQLHQNGLLKGDDMTDRFFRRLTEVSVAHCLSSEV 1946 (2067)
Q Consensus 1867 ~~~~~~~~~~~dp~~l~eq~~~lF~EWv~l~~~~~~~~~~~~~Fv~qL~~~giLk~dd~~~~FfR~~~E~sV~~~~~~e~ 1946 (2067)
++-..++ .+|++++.||++.+|.|||.+|+.+..++..+++||+||+++|||++||.+++|||.|+|+||+.++.+.
T Consensus 1064 ~~~m~~~--~~~~~~lt~K~~~v~~~Wv~L~~~~~~~~~s~~~fi~ql~~~GVls~dd~ltqFfr~~~el~~~i~~~a~- 1140 (1591)
T KOG1831|consen 1064 ADFMFRR--MDDKQKLTEKTEIVFLEWVILLNDSRKNDESLAAFIQQLNEIGVLSTDDLLTQFFRADLELCVVIFLEAS- 1140 (1591)
T ss_pred hhHHHHh--cCcchhhhhHHHHHHHHHHHHHhccccchHHHHHHHHHHHHcCcccchHHHHHHHHhhhhhhHHHHHHhc-
Confidence 0000011 3577899999999999999999999999999999999999999999999999999999999999998532
Q ss_pred cCCCCCCCcCccccccc-hhhhHHHHHHHHHhhcCCCCCCCcHHHHHHHHHHHHHHHHHhhhHhhhcCCCCCchHHHHHH
Q 000137 1947 INPGTLQSPQQSQSLSF-LAIDIYAKLMLSILKCCPVEQGSSKIFLLSKILTVTVKFILKDAEEKKASFNPRPYFRLFIN 2025 (2067)
Q Consensus 1947 ~~~g~~~~~~~~~~~~f-~~IDA~akLIv~lvk~~~~~~~~~k~~lL~kiLsivv~vl~~dhe~~~~~FnqrPYfRlFs~ 2025 (2067)
+.. ...+ .+++||.+....|.+|.. +++|.+|++||+++|++|+++||+++|+.|||+||||+|+|
T Consensus 1141 --~~~--------a~~~i~tv~~~~~~l~~l~~f~d---~~tk~dl~~KI~~livgv~akdHs~~~e~f~~~~y~Rlf~~ 1207 (1591)
T KOG1831|consen 1141 --LIT--------ALVQICTVYAFICTLEMLDGFVD---LPTKIDLFNKILNLIVGVFAKDHSERGEYFNQCPYFRLFSM 1207 (1591)
T ss_pred --ccc--------cchhhhhHHHHHHHHHHHHHHhc---CchHHHHHHHHHHHHHHHHhcchHHhhhhHhhCcHhHHHHH
Confidence 111 2222 578888888888888862 37899999999999999999999999999999999999999
Q ss_pred HHHhhccCCCCCCcchHHHHHHHHHHHhhcCCCCCCccccC
Q 000137 2026 WLLDMSSLDPVADGSNFQILSAFANAFHVLQPLKVPAFRLA 2066 (2067)
Q Consensus 2026 LL~el~~~d~~l~~~~~qil~aFa~~l~~LQP~~~PGFaFA 2066 (2067)
+|.||..++.+++++.++|+++|+++||+|||.++|||+||
T Consensus 1208 ll~E~~~~~~~le~~~~~i~SaF~~tfhalqp~~~Pgf~fa 1248 (1591)
T KOG1831|consen 1208 LLPELMTADSVLEPISLDILSAFKNTFHALQPRRFPGFAFA 1248 (1591)
T ss_pred HHHHhccccchhhhHHHHHHHHHHHHHHHhCcccCccccee
Confidence 99999999999999999999999999999999999999998
No 3
>PF12842 DUF3819: Domain of unknown function (DUF3819); InterPro: IPR024557 The Ccr4-Not complex is a global regulator of gene expression that is conserved from yeast to human. It affects genes positively and negatively and is thought to regulate transcription factor IID function. In Saccharomyces cerevisiae, it exists in two prominent forms and consists of at least nine core subunits: the five Not proteins (Not1p to Not5p), Caf1p, Caf40p, Caf130p and Ccr4p []. The Ccr4-Not complex regulates many different cellular functions, including RNA degradation and transcription initiation. It may be a regulatory platform that senses nutrient levels and stress []. Caf1p and Ccr4p, are directly involved in mRNA deadenylation, and Caf1p is associated with Dhh1p, a putative RNA helicase thought to be a component of the decapping complex []. Pop2, a component of the Ccr4-Not complex, functions as a deadenylase []. This entry represents a domain of unknown function found in the Not1 subunit of the CCR4-Not complex.
Probab=100.00 E-value=7.4e-46 Score=397.70 Aligned_cols=145 Identities=56% Similarity=0.809 Sum_probs=140.2
Q ss_pred chhhhhhHHHHHHHHHHhhhhhcchhhhHHHHHHhHHHHhhccCCChhhHHHHHHHHHHHHHHHhhhHHHHchHHHHHHH
Q 000137 1308 HLHFQRVVPIAMDRAIKEIVSGIVQRSVSIATQTTKELVLKDYAMESDETRIYNAAHLMVASLAGSLAHVTCKEPLRGSI 1387 (2067)
Q Consensus 1308 ~p~Lk~iv~~Ai~rAIrEIi~PVVeRSvtIA~iTT~elV~KDFA~E~De~kmr~AAh~Mv~~LAgsLAlVTckEPLr~si 1387 (2067)
||+||++|+.|+||||||||.|||||||+||++||++||+||||+|+||++||+|||+||++||||||+|||||||+.+|
T Consensus 1 ~p~lk~~v~~Al~rai~Eii~pvveRsv~IA~~Tt~~LV~KDFa~E~De~~~r~aa~~Mv~~LA~sLalvTcrepL~~~i 80 (147)
T PF12842_consen 1 HPQLKRIVQNALDRAIREIISPVVERSVTIASITTEELVKKDFATEPDENKMRRAAHNMVRSLAGSLALVTCREPLRESI 80 (147)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcC-CC-cHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 000137 1388 SSQLRNSLQGL-TI-ASELLEQAVQLVTNDNLDLGCAVIEQAATDKAIQTIDGEIAQQLSLRRKHRE 1452 (2067)
Q Consensus 1388 ~~~Lr~~l~~~-~~-~~~~~e~~i~~~~~dNldL~c~~IekaA~ekAi~eIde~l~~~~~~RRkhre 1452 (2067)
.+|||+++++. +. .++.+|++++++++||+||||++|||+|+|||+++||++|+++|+.||+|||
T Consensus 81 ~~~l~~~l~~~~~~~~~~~~e~~i~~~~~dNlel~~~~Iek~a~eka~~~id~~l~~~~~~R~~~re 147 (147)
T PF12842_consen 81 QNNLRSLLSQLNGSTEQELPEQAIQQIVNDNLELACAFIEKAAMEKAIKEIDERLEPEIELRRRHRE 147 (147)
T ss_pred HHHHHHHHHhhcCCchhhhHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999843 33 4689999999999999999999999999999999999999999999999996
No 4
>KOG1831 consensus Negative regulator of transcription [Transcription]
Probab=97.34 E-value=0.0066 Score=82.38 Aligned_cols=289 Identities=22% Similarity=0.263 Sum_probs=176.2
Q ss_pred HhhhcccCCchhHHHHHHHHHhCChhHHHHHHHHHHH-HHHHHhcchhcccChHHHHHHHHhhHhHhhhhhhcCcccccC
Q 000137 1010 VMKRASIEPNFHDLYLKFLDKVNSKALNREIVQATYE-NCKVLLGSELIKSSSEERSLLKNLGSWLGKLTIGRNQVLRAR 1088 (2067)
Q Consensus 1010 V~kRas~EpN~H~LY~~fld~l~~~~L~~~il~~Ty~-~i~~LL~se~~~~~s~eRslLKNLGsWLG~iTLarNkPI~~k 1088 (2067)
+.|==..|++=..||+.+.-. .+.|-+-+...|-+ -+++..++. |-+...=+=.+..|.++-+..-
T Consensus 658 irKDFA~e~~es~l~~Aa~~M--~r~la~~lAmiTcreplk~am~~n-----------l~~~~~~~l~~~~ai~~a~~t~ 724 (1591)
T KOG1831|consen 658 IRKDFALERDESRLRLAASQM--VRELAAGLAMITCREPLKVAMSSN-----------LVLAALSLLSLMAAIARAADTL 724 (1591)
T ss_pred HHHHHhcccchhHHHHHHHHH--HHHHHHHHHHHhhhhHHHHHHHhh-----------HHHHHhhhhHHHHHHHHHHHHH
Confidence 444456788888888887654 33444545544544 233332221 1111111111577888888888
Q ss_pred CCChhHHHHHHHhcCceeEEechhhhhcccccCCccccCCCccHHHHHHHHHHHhcCCccchhhHHHHHHHHhhcCCCcc
Q 000137 1089 EIDPKSLIIEAYEKGLMIAVIPFTSKILEPCQSSLAYQPPNPWTMAILGLLAEIYSMPNLKMNLKFDIEVLFKNLGVDMK 1168 (2067)
Q Consensus 1089 ~ld~K~LL~eaY~~g~L~~VIPFV~KVLe~~~~S~vFkPPNPWtm~IL~lL~Ely~~~~LKlnLKFEIEVL~K~L~ld~~ 1168 (2067)
--|.+.+.+.-.++-++.-.+-++.+-|++..--+||.+.|||.|.++-.+.+.|++- |.- -+++++.
T Consensus 725 ~~dNv~l~~~~Iek~a~eka~~dI~~~L~q~~~~Rv~~k~~~~~~~fvD~~~~~~~~~-LP~-----------~vr~~~~ 792 (1591)
T KOG1831|consen 725 QSDNVELVVKFIEKTAIEKATQDIDSRLEQDICGRVFHKENPEVMPFVDLLSAAYSCT-LPE-----------VVRLKIG 792 (1591)
T ss_pred HhhchhhHhhhhHHHHHHHHHHHHHHHHHHhhHhheecccCCccccchhhhhhhhhcc-CcH-----------hhhcccC
Confidence 8899999999999999999999999999999999999999999999999999999975 322 2222222
Q ss_pred ccccccccccchhhhcCCCCCCCCccCCCCCcccCCCCcCccCCCCCCCCCCCCCCCCCCCCCcccccccccccccCcCc
Q 000137 1169 DITPTSLLKDRKREIEGNPDFSNKDVGASQPQLVPEVKPAIVSPLGHVDLPLDVASPPNSGGPTHLLSQYAAPLRLSSGT 1248 (2067)
Q Consensus 1169 di~ps~~L~~r~~~~~~~~d~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~q~~~~~~~~~~~ 1248 (2067)
.+.|.-+ + -..+ |.. ..++ .+
T Consensus 793 ~~~~~l~-~-vYe~------F~k---------~i~~-----------------------------~~------------- 813 (1591)
T KOG1831|consen 793 GLTPQLF-R-VYEE------FPK---------PIPG-----------------------------FL------------- 813 (1591)
T ss_pred CCCHHHH-H-HHHH------ccc---------cccc-----------------------------cc-------------
Confidence 2222110 0 0000 000 0000 00
Q ss_pred chhHHHHhhccCCCCCCcccccccccCCCCCCCccccccCCCCCCccEeecccccccccchhhhhhHHHHHHHHHHhhhh
Q 000137 1249 LMEDEKLAALGISDQLPSAQGLFQASQSQSPFSVSQLSTPIPNIGTHVIINQKLTALGLHLHFQRVVPIAMDRAIKEIVS 1328 (2067)
Q Consensus 1249 ~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~s~~~i~~~~~~l~~~~~in~~l~~f~~~p~Lk~iv~~Ai~rAIrEIi~ 1328 (2067)
|+ ...+++..++.=+..+. -...+..+.+-..+||.+
T Consensus 814 ----------~~--------------------------s~~~~la~~~~~~~dlt-------~~~~~s~~~~lv~~ei~~ 850 (1591)
T KOG1831|consen 814 ----------GN--------------------------SSRKDLAEYITESSDLT-------QPHVISNALDLVVREICG 850 (1591)
T ss_pred ----------cc--------------------------CCCcccccccCCCcccc-------chhhhhHHHHHHHHHHHH
Confidence 00 00001111110011110 124568899999999999
Q ss_pred hcchhhhHHHHHHhHHHHhhccCCChhhHHHHHHHHHHHHHHHhhhHHHHchHHHHHHHHHHHHHHHhcCCCcHHHHHHH
Q 000137 1329 GIVQRSVSIATQTTKELVLKDYAMESDETRIYNAAHLMVASLAGSLAHVTCKEPLRGSISSQLRNSLQGLTIASELLEQA 1408 (2067)
Q Consensus 1329 PVVeRSvtIA~iTT~elV~KDFA~E~De~kmr~AAh~Mv~~LAgsLAlVTckEPLr~si~~~Lr~~l~~~~~~~~~~e~~ 1408 (2067)
-+++|+...|..+.. +-.|-+.+++--..+ -|.+|+-+++.|+..+.. +++..-|..|.-....++.. .-.-+-
T Consensus 851 ~~~~~a~~~~i~~~~-l~~~a~s~~~~m~~v--~~~~~~~~~~~~~~~~~a-r~i~hli~~~V~~~~~~l~~--~~~~~~ 924 (1591)
T KOG1831|consen 851 AIVEKACQTAIQTGM-LQFKAQSVEKLMEEV--PARNMVVNLVNSLLLLVA-RSIEHLISGLVSYFMKNLEL--DFSTEK 924 (1591)
T ss_pred HHHHHHHHHHHHhhh-hhhhhhcchhhHHhc--cchhhhHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH--hhcchh
Confidence 999998888888877 778888888766655 577999999999887766 56665555554432222110 111112
Q ss_pred HHHHHHhhHHHHHHHHHHHHHHH
Q 000137 1409 VQLVTNDNLDLGCAVIEQAATDK 1431 (2067)
Q Consensus 1409 i~~~~~dNldL~c~~IekaA~ek 1431 (2067)
|..++-.|++.+|.+++|++..|
T Consensus 925 I~~i~m~iL~~ic~~~qk~~~~~ 947 (1591)
T KOG1831|consen 925 IFKIIMEILDNICRFIQKAGVRK 947 (1591)
T ss_pred HHHHHHHHHHHHHHhccHHHHHH
Confidence 45667778888888877776553
No 5
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)
Probab=92.57 E-value=1.2 Score=50.62 Aligned_cols=181 Identities=20% Similarity=0.249 Sum_probs=120.1
Q ss_pred hhHhhhhhccChhhHHHHHHHHHHHhhhc--ChhhhhHHHHhhhcccCCchhHHHHHHHHHhCC--hhHHHHHHHHHHHH
Q 000137 972 DKISFIINNISALNVEAKAKEFTEILKEQ--YYPWFAQYMVMKRASIEPNFHDLYLKFLDKVNS--KALNREIVQATYEN 1047 (2067)
Q Consensus 972 dKI~FiiNNls~~Nl~~K~~El~~~L~~~--y~~WFA~YLV~kRas~EpN~H~LY~~fld~l~~--~~L~~~il~~Ty~~ 1047 (2067)
.+|.-++|-+|.+|++.-++|+.++.... ...-+... +.+++-.+|++-.+|..++..++. +.+-..+++.++..
T Consensus 2 ~~v~~~lnkLs~~n~~~~~~~l~~~~~~~~~~~~~l~~~-i~~~~~~~~~~~~~ya~L~~~l~~~~~~f~~~ll~~~~~~ 80 (200)
T smart00543 2 KKVKGLINKLSPSNFESIIKELLKLNNSDKNLRKYILEL-IFEKAVEEPNFIPAYARLCALLNAKNPDFGSLLLERLQEE 80 (200)
T ss_pred hHHHHHHhhCCHHHHHHHHHHHHHHHccCHHHHHHHHHH-HHHHHHcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999999999888553 23333333 457799999999999999999986 56778888888877
Q ss_pred HHHHhcchhcccChHHHHHHHHhhHhHhhhhhhcCcccccCCCChhHHHHHHHhcCce------eEEechhhhhcccccC
Q 000137 1048 CKVLLGSELIKSSSEERSLLKNLGSWLGKLTIGRNQVLRAREIDPKSLIIEAYEKGLM------IAVIPFTSKILEPCQS 1121 (2067)
Q Consensus 1048 i~~LL~se~~~~~s~eRslLKNLGsWLG~iTLarNkPI~~k~ld~K~LL~eaY~~g~L------~~VIPFV~KVLe~~~~ 1121 (2067)
....+... ...++...+|+--+||.+..-+=-+.. .+.++|-+--....- ..-|=.+|.+|+.|..
T Consensus 81 f~~~~e~~----~~~~~~~~~~~i~fl~eL~~~~~i~~~----~i~~~l~~ll~~~~~~~~~~~~~~ve~l~~lL~~~G~ 152 (200)
T smart00543 81 FEKGLESE----EESDKQRRLGLVRFLGELYNFQVLTSK----IILELLKELLNDLTKLDPPRSDFSVECLLSLLPTCGK 152 (200)
T ss_pred HHHHHHHH----HHHhhhhHHhHHHHHHHHHHcccCcHH----HHHHHHHHHHhccCCCCCCCcHHHHHHHHHHHHHhhH
Confidence 66654332 335667778888888888765443322 122222222222211 1345567888888866
Q ss_pred CccccCCCccHHH-HHHHHHHHhcCC---ccchhhHHHHHHHHhh
Q 000137 1122 SLAYQPPNPWTMA-ILGLLAEIYSMP---NLKMNLKFDIEVLFKN 1162 (2067)
Q Consensus 1122 S~vFkPPNPWtm~-IL~lL~Ely~~~---~LKlnLKFEIEVL~K~ 1162 (2067)
.--+ +.+|=.|. ++..+....... .+....+|-++-|+.-
T Consensus 153 ~l~~-~~~~~~~~~~l~~l~~~~~~~~~~~~~~r~~~~l~~l~~l 196 (200)
T smart00543 153 DLER-EKSPKLLDEILERLQDYLLKKDKTELSSRLRFMLELLIEL 196 (200)
T ss_pred HHcC-cccHHHHHHHHHHHHHHHhcccccCCChHHHHHHHHHHHH
Confidence 5433 55655554 455555555555 5777888888877653
No 6
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=87.80 E-value=0.56 Score=53.18 Aligned_cols=188 Identities=19% Similarity=0.218 Sum_probs=112.6
Q ss_pred hHhhhhhccChhhHHHHHHHHHHHhhhcChhhhhHHH---HhhhcccCCchhHHHHHHHHHhCCh---hHHHHHHHHHHH
Q 000137 973 KISFIINNISALNVEAKAKEFTEILKEQYYPWFAQYM---VMKRASIEPNFHDLYLKFLDKVNSK---ALNREIVQATYE 1046 (2067)
Q Consensus 973 KI~FiiNNls~~Nl~~K~~El~~~L~~~y~~WFA~YL---V~kRas~EpN~H~LY~~fld~l~~~---~L~~~il~~Ty~ 1046 (2067)
||.-++|-+|..|++.-++++.+..... .++...++ +.++|..+|++..+|..++..+... .+-..+++.+.+
T Consensus 3 ~v~~~lnklt~~n~~~~~~~l~~~~~~~-~~~~~~~i~~~i~~~a~~~~~~~~~~a~l~~~l~~~~~~~f~~~ll~~~~~ 81 (209)
T PF02854_consen 3 KVRGILNKLTPSNFESIIDELIKLNWSD-DPETLKEIVKLIFEKAVEEPNFSPLYARLCAALNSRFPSEFRSLLLNRCQE 81 (209)
T ss_dssp HHHHHHHHCSSTTHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHSGGGHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred hHHHHHHHCCHHHHHHHHHHHHHHHhhc-cHHHHHHHHHHHhhhhhcCchHHHHHHHHHHHHhccchhhHHHHHHHHHHH
Confidence 6778999999999999999999998776 33333333 3567999999999999999998743 566667766666
Q ss_pred HHHHHh-cchhcccChHHHHHHHHhhHhHhhhhhhcCcccccCCCChhHHHHHHHhcC---ceeEEechhhhhcccccCC
Q 000137 1047 NCKVLL-GSELIKSSSEERSLLKNLGSWLGKLTIGRNQVLRAREIDPKSLIIEAYEKG---LMIAVIPFTSKILEPCQSS 1122 (2067)
Q Consensus 1047 ~i~~LL-~se~~~~~s~eRslLKNLGsWLG~iTLarNkPI~~k~ld~K~LL~eaY~~g---~L~~VIPFV~KVLe~~~~S 1122 (2067)
.+.... ..+.......++...+|+.-+||.+....=-+-..-.--++.|+-...+.. .-..-|-.+|.+|..|...
T Consensus 82 ~f~~~~~~~~~~~~~~~~~~~~~~~~~fl~eL~~~~vv~~~~i~~~l~~ll~~~~~~~~~~~~~~~ie~~~~lL~~~G~~ 161 (209)
T PF02854_consen 82 EFEERYSNEELEENRQSSKQRRRGNIRFLAELFNFGVVSEKIIFDILRELLSDGTDECQPPPDEENIECLCTLLKTCGKK 161 (209)
T ss_dssp HHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHTSHHCCHHTCHHHHHHHHHHHHHHHHH
T ss_pred HHHHhhhhhhHHHHHHHHHHHHhhhhhHHHhhHhhccccchhHHHHHHHHHhcccccccCCCcHhHHHHHHHHHHHHHHH
Confidence 554411 012223456778889999999999886542111100012233333322211 1112344555555555333
Q ss_pred ccccCCCcc-HHHHHHHHHHHhcC---CccchhhHHHHHHHHh
Q 000137 1123 LAYQPPNPW-TMAILGLLAEIYSM---PNLKMNLKFDIEVLFK 1161 (2067)
Q Consensus 1123 ~vFkPPNPW-tm~IL~lL~Ely~~---~~LKlnLKFEIEVL~K 1161 (2067)
--=.+.+|= .-.++..+...... +++.-.++|=|+-+++
T Consensus 162 l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~r~~~~l~~l~~ 204 (209)
T PF02854_consen 162 LENSEESPKALDEIFERLQKYANSKKDPNLSSRIRFMLEDLIE 204 (209)
T ss_dssp HHHCHHHHHHHHHHHHHHHHHHHHCHSSSSSHHHHHHHHHHHH
T ss_pred HhcCCCchhHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHH
Confidence 110122222 22355555555555 6777777777776654
No 7
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=82.80 E-value=3.8 Score=52.23 Aligned_cols=119 Identities=23% Similarity=0.277 Sum_probs=88.3
Q ss_pred hhhcchhhhHHHHHHhHHHHhhccCCChhhHHHHHHHHHHHHHHHhhhHHHHchHHHHHHHHHHHHHHHhc---CC---C
Q 000137 1327 VSGIVQRSVSIATQTTKELVLKDYAMESDETRIYNAAHLMVASLAGSLAHVTCKEPLRGSISSQLRNSLQG---LT---I 1400 (2067)
Q Consensus 1327 i~PVVeRSvtIA~iTT~elV~KDFA~E~De~kmr~AAh~Mv~~LAgsLAlVTckEPLr~si~~~Lr~~l~~---~~---~ 1400 (2067)
|.-.--| -||.+-+-+.|.|||-+++.. .-.|.|...+.+=+++.|---||-.||.|-+|-+=.. +. +
T Consensus 249 I~GsnaR--CIa~L~afqevi~Dy~TP~~k----tlsrdLt~~i~~qv~~L~~cRPLs~SmgNAiRflK~eI~~L~~s~~ 322 (556)
T KOG1467|consen 249 ISGSNAR--CIAMLQAFQEVIKDYTTPPEK----TLSRDLTAAISPQVSFLTQCRPLSISMGNAIRFLKNEISKLPISLS 322 (556)
T ss_pred cCCccHH--HHHHHHHHHHHHHhccCCCcc----ccchhhHhhhhhHHHHHhhcCCccchhhHHHHHHHHHHhhCCCCCC
Confidence 4444444 499999999999999999987 4668888888888887765579999999999966332 22 1
Q ss_pred ---cHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHhh
Q 000137 1401 ---ASELLEQAVQLVTNDNLDLGCAVIEQAATDKAI-----------QTIDGEIAQQLSLRRKHR 1451 (2067)
Q Consensus 1401 ---~~~~~e~~i~~~~~dNldL~c~~IekaA~ekAi-----------~eIde~l~~~~~~RRkhr 1451 (2067)
.++.+-..|..-+++++.+|-..|-+.|.+|.- .-++..|..+.+.+++.|
T Consensus 323 e~eaKe~L~~~I~~~i~eki~~A~qaI~q~a~~KI~dgdviltyg~s~vV~~ill~A~~~~k~fr 387 (556)
T KOG1467|consen 323 ESEAKEELQSDIDRFIAEKIILADQAISQHAVTKIQDGDVLLTYGSSSVVNMILLEAKELGKKFR 387 (556)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCEEEEecchHHHHHHHHHHHHhCcceE
Confidence 145555668888999999999999999999853 234455666665444443
No 8
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=46.49 E-value=1.4e+02 Score=31.15 Aligned_cols=85 Identities=16% Similarity=0.292 Sum_probs=60.7
Q ss_pred HHHHHHHHHhhccCCCHHHHHHHHHHhhcCCcccchhhHHHHHHhhhhhhccCCCCcHHHHHHHHHHHHHhhhhhccchh
Q 000137 671 AEANSYFHQMFSGQLTIEAMVQMLARFKESSVKREHSIFECMIGNLFEEYRFFPKYPERQLRIAAVLFGSIIKHQLVTHL 750 (2067)
Q Consensus 671 ~Ean~yfqkmY~~eisI~~iv~~L~~~k~S~~~rdqdvFaCMih~LFdEYrff~~YP~~eL~~TA~LFG~lI~~~Lv~~~ 750 (2067)
++++...+-.++. -..+|.+..+++++-+ ....++..-+|+..+|+ =..+-..++.|+..+++.++++..
T Consensus 3 k~i~~~l~ey~~~-~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~-------~~~~r~~~~~Ll~~L~~~~~~~~~ 72 (113)
T PF02847_consen 3 KKIFSILMEYFSS-GDVDEAVECLKELKLP--SQHHEVVKVILECALEE-------KKSYREYYSKLLSHLCKRKLISKE 72 (113)
T ss_dssp HHHHHHHHHHHHH-T-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTS-------SHHHHHHHHHHHHHHHHTTSS-HH
T ss_pred HHHHHHHHHHhcC-CCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhc-------cHHHHHHHHHHHHHHHhcCCCCHH
Confidence 3344444444433 3678888888888666 56677888888888887 355566799999999999999999
Q ss_pred HHHHHHHHHHHHhcC
Q 000137 751 TLGIALRGVLDALRK 765 (2067)
Q Consensus 751 ~L~iALr~ILeAlr~ 765 (2067)
.+.-|+.-+++.+..
T Consensus 73 ~~~~gf~~~l~~l~D 87 (113)
T PF02847_consen 73 QFQEGFEDLLESLED 87 (113)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHhhh
Confidence 998888888776654
No 9
>COG5088 SOH1 Rad5p-binding protein [General function prediction only]
Probab=46.38 E-value=41 Score=34.76 Aligned_cols=89 Identities=24% Similarity=0.339 Sum_probs=66.0
Q ss_pred hhHHHHHHHHHHHhhhcChhhhhHHHHhhhcccCCchhHHHHHHHHHhCChhHHHHHHHHHHHHHHHHhcchhcccChHH
Q 000137 984 LNVEAKAKEFTEILKEQYYPWFAQYMVMKRASIEPNFHDLYLKFLDKVNSKALNREIVQATYENCKVLLGSELIKSSSEE 1063 (2067)
Q Consensus 984 ~Nl~~K~~El~~~L~~~y~~WFA~YLV~kRas~EpN~H~LY~~fld~l~~~~L~~~il~~Ty~~i~~LL~se~~~~~s~e 1063 (2067)
+-+|-.++=+.-+-.+.|..|+++.=.-+ -+||. -|++.++--.+|+..++|+--+.--|-.||++......-+|
T Consensus 15 sRFE~ELEFvQ~L~Np~Yl~~Ltq~~~fe----se~F~-~YL~YlEYWr~PeYs~fivYP~CL~iL~lLn~~~~~~~vs~ 89 (114)
T COG5088 15 SRFEVELEFVQSLANPQYLTLLTQQQIFE----SENFK-NYLKYLEYWRNPEYSQFIVYPNCLFILKLLNGFMESAIVSE 89 (114)
T ss_pred chhHHHHHHHHHhcCHHHHHHHHHhhhhc----CHHHH-HHHHHHHHhhCCcccceeechhHHHHHHHhcchhHhhhhhh
Confidence 44454444444444678889888754443 34554 49999999999998898887776667788898887777889
Q ss_pred HHHHHHhh-----HhHhhh
Q 000137 1064 RSLLKNLG-----SWLGKL 1077 (2067)
Q Consensus 1064 RslLKNLG-----sWLG~i 1077 (2067)
-.++|.|| -|||+.
T Consensus 90 ~~l~~~l~e~qy~~Wlnk~ 108 (114)
T COG5088 90 DGLLEGLDELQYPQWLNKM 108 (114)
T ss_pred hHHHHhhhHHHHHHHHHHH
Confidence 99999998 488765
No 10
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=36.20 E-value=92 Score=31.12 Aligned_cols=61 Identities=16% Similarity=0.221 Sum_probs=44.8
Q ss_pred CcHHHHHHHHHhhhhhchHHHHHHHHHHHHhcccchhHHHHhhhhccccCCCCCCCchhHHHHH
Q 000137 7 TVPSQIRFLLQSLNEANADSVFRELCQFIEYGIEGSTMMLQTCMDHLNLHGTGLKNPQLESVVA 70 (2067)
Q Consensus 7 ~~~~qi~~Lv~~l~k~n~~~~~~el~qlv~~G~ea~~~lL~~~l~~~~~~~~~~k~~~~~~Ll~ 70 (2067)
+...+|+.+++.+-++||+..+..+.+++.-|+.+. .+++.+.+.+--. +.++..|.+++.
T Consensus 3 p~~~~i~~i~~~~~~~~~~~~~~~~~~l~~~G~s~~-~Il~~l~~~l~~~--~~~~~~k~~i~~ 63 (89)
T PF08542_consen 3 PPPEVIEEILESCLNGDFKEARKKLYELLVEGYSAS-DILKQLHEVLVES--DIPDSQKAEILK 63 (89)
T ss_dssp --HHHHHHHHHHHHHTCHHHHHHHHHHHHHTT--HH-HHHHHHHHHHHTS--TSSHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCHH-HHHHHHHHHHHHh--hccHHHHHHHHH
Confidence 357899999999999999999999999996699988 5666777765333 455666666554
No 11
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=23.83 E-value=1.7e+02 Score=38.49 Aligned_cols=174 Identities=20% Similarity=0.289 Sum_probs=104.2
Q ss_pred hhhhhhHhhhhhccChhhHHHHHHHHHHHhhhcChh---hhhHHHHhhhcccCCchhHHHHHHHHHhCCh--hHHHHHHH
Q 000137 968 SEVQDKISFIINNISALNVEAKAKEFTEILKEQYYP---WFAQYMVMKRASIEPNFHDLYLKFLDKVNSK--ALNREIVQ 1042 (2067)
Q Consensus 968 e~v~dKI~FiiNNls~~Nl~~K~~El~~~L~~~y~~---WFA~YLV~kRas~EpN~H~LY~~fld~l~~~--~L~~~il~ 1042 (2067)
|.+..+|.=+|||+..+|+..-+.|| ++++.-. -|.. =||+=-+--|||-.+|..++.-||++ .+=..+++
T Consensus 162 EalkksInglInkvn~sNi~~ii~eL---fqeNiirgRgl~cr-sv~~aq~asp~ft~vyaALvAviNskfP~IgElLlk 237 (739)
T KOG2140|consen 162 EALKKSINGLINKVNASNIQEIIREL---FQENIIRGRGLLCR-SVMQAQAASPGFTPVYAALVAVINSKFPQIGELLLK 237 (739)
T ss_pred HHHHHHhHHHHhhhhHHHHHHHHHHH---HHHHHHhccchhHH-HHHHHHhcCCCCcHHHHHHHHHHccCCchHHHHHHH
Confidence 46788999999999999997666554 4333211 1111 25566667899999999999999987 33344444
Q ss_pred HHHHHHHHHhcchhcccChHHHHHHHHhhHhHhhhhhhcCcccccCCCChh--HHHHHHHhcCceeEEechh----hhhc
Q 000137 1043 ATYENCKVLLGSELIKSSSEERSLLKNLGSWLGKLTIGRNQVLRAREIDPK--SLIIEAYEKGLMIAVIPFT----SKIL 1116 (2067)
Q Consensus 1043 ~Ty~~i~~LL~se~~~~~s~eRslLKNLGsWLG~iTLarNkPI~~k~ld~K--~LL~eaY~~g~L~~VIPFV----~KVL 1116 (2067)
....+.+.=.+ -.|+...-|--.++..+ -|+-+-|.-+.+. -||+|-=....+.++|-|+ +|..
T Consensus 238 rLilqf~r~f~-------RnDk~~c~~~~kfiahL---inq~VahEIv~Leil~lLLe~PTddSvevaI~flkecGakL~ 307 (739)
T KOG2140|consen 238 RLILQFKRSFR-------RNDKVSCLNASKFIAHL---INQQVAHEIVALEILTLLLERPTDDSVEVAIAFLKECGAKLA 307 (739)
T ss_pred HHHHHHHHHhc-------ccchHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHH
Confidence 43333322221 23444444443333332 2444555544443 3344433345666777765 2333
Q ss_pred ccccCCccccCCCccHHHHHHHHHHHhcCCccchhhHHHHHHHHhhcC
Q 000137 1117 EPCQSSLAYQPPNPWTMAILGLLAEIYSMPNLKMNLKFDIEVLFKNLG 1164 (2067)
Q Consensus 1117 e~~~~S~vFkPPNPWtm~IL~lL~Ely~~~~LKlnLKFEIEVL~K~L~ 1164 (2067)
+=... =.-+|..=|.=|-|..+|-=.+.|=||+||.-=.
T Consensus 308 ~VSpr---------~~n~IfErlR~ILhe~Eld~rvqy~iEtlf~iRk 346 (739)
T KOG2140|consen 308 EVSPR---------ALNGIFERLRYILHEGELDRRVQYMIETLFQIRK 346 (739)
T ss_pred HhChH---------HHhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHH
Confidence 32211 1346777788888888999999999999996433
No 12
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=22.97 E-value=2.2e+02 Score=29.76 Aligned_cols=71 Identities=13% Similarity=0.279 Sum_probs=59.6
Q ss_pred CHHHHHHHHHHhhcCCcccchhhHHHHHHhhhhhhccCCCCcHHHHHHHHHHHHHhhhhhccchhHHHHHHHHHHHHhcC
Q 000137 686 TIEAMVQMLARFKESSVKREHSIFECMIGNLFEEYRFFPKYPERQLRIAAVLFGSIIKHQLVTHLTLGIALRGVLDALRK 765 (2067)
Q Consensus 686 sI~~iv~~L~~~k~S~~~rdqdvFaCMih~LFdEYrff~~YP~~eL~~TA~LFG~lI~~~Lv~~~~L~iALr~ILeAlr~ 765 (2067)
..+|.+..+++++.+ ....++....|+--+||- .++-..++.|+..+.+.++++...+.-|+.-+++.+.+
T Consensus 17 D~~ea~~~l~~L~~~--~~~~~vv~~~i~~~le~~-------~~~~~~~~~Ll~~L~~~~~~~~~~~~~~f~~~~~~l~d 87 (113)
T smart00544 17 DTDEAVHCLLELKLP--EQHHEVVKVLLTCALEEK-------RTYREMYSVLLSRLCQANVISTKQFEKGFWRLLEDIED 87 (113)
T ss_pred CHHHHHHHHHHhCCC--cchHHHHHHHHHHHHcCC-------ccHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHhhChh
Confidence 688888888888766 377889999999989982 34566699999999999999999999999988888875
No 13
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=21.85 E-value=1.2e+02 Score=37.44 Aligned_cols=50 Identities=18% Similarity=0.126 Sum_probs=43.4
Q ss_pred hccCCChHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHhhccch
Q 000137 121 LSDSENLDALMCGKNFCMAQIERLCANPVPMNSAEQIQNIIMFLQRSSDL 170 (2067)
Q Consensus 121 L~~s~n~e~~~~g~~f~~~~l~el~~~~~~~~s~e~lh~il~~l~~~~gl 170 (2067)
+-.-+|.|+...|++|+...+.+.+...-..+|+|+||.|+.++..++-|
T Consensus 111 ~~~~~N~~L~~~Gk~~~~~~v~~~l~~kyPrlP~E~l~ai~n~ll~ee~L 160 (333)
T KOG3769|consen 111 NPQYSNEELVEIGKQFLSFYVTEYLKCKYPRLPEEGLHAIVNGLLGEEVL 160 (333)
T ss_pred cCCcchHHHHHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHhhhHHHH
Confidence 45568899999999999999999998776899999999999998775543
No 14
>PRK00218 putative lysogenization regulator; Reviewed
Probab=20.05 E-value=2.3e+02 Score=33.63 Aligned_cols=90 Identities=20% Similarity=0.368 Sum_probs=60.1
Q ss_pred chhhHHHHHHhhhhhhccCCCCcHHHHHHHHHHHHHhhhhhccchhHHHHHHHHHHHHhc---CCCCCc--ccchHHHHH
Q 000137 705 EHSIFECMIGNLFEEYRFFPKYPERQLRIAAVLFGSIIKHQLVTHLTLGIALRGVLDALR---KPADSK--MFVFGTKAL 779 (2067)
Q Consensus 705 dqdvFaCMih~LFdEYrff~~YP~~eL~~TA~LFG~lI~~~Lv~~~~L~iALr~ILeAlr---~p~~sk--mf~FGi~AL 779 (2067)
|.+-|.|+|++||.- +| ..|..+||+ +. .|..+|+.+.+.|. ++.+.. -|.+|+.+|
T Consensus 32 d~~~~~~~l~Sll~~------~p----~st~~VyG~-~~-------~L~~Gl~~L~~~L~~~~~~~~~el~RY~~~ll~L 93 (207)
T PRK00218 32 DEDALETSLNSLLVT------NP----SSTLDVYGG-EA-------NLRLGLETLLNQLNSSRQGLDAELTRYALSLLAL 93 (207)
T ss_pred CHHHHHHHHHHHHhc------CC----CCHHHHhCC-cH-------HHHHHHHHHHHHHccCCCCcchHHHHHHHHHHHH
Confidence 467899999999974 44 457889998 22 27788888888886 333333 466777777
Q ss_pred HHHHHhhhhhhHHHHHHhc--------ccccccccHHHHHHHHH
Q 000137 780 EQFVDRLIEWPQYCNHILQ--------ISHLRSTHAELVAFIER 815 (2067)
Q Consensus 780 ~~F~~RL~ewPqyC~~Ll~--------ip~L~~~~p~l~~~i~~ 815 (2067)
|+ ||.-=|..-..|.+ ..||.-.|+.++..+-.
T Consensus 94 Er---kL~k~~~~~~~L~~ri~~~~rQ~~hf~~~~~~via~lA~ 134 (207)
T PRK00218 94 ER---KLSKNPDALNTLGERINQIQRQLEHFDLLHENVIANLAG 134 (207)
T ss_pred HH---HHccCHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence 65 55556666555432 35676678877775543
Done!