Query 003522
Match_columns 813
No_of_seqs 143 out of 188
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 01:01:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003522.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003522hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2051 Nonsense-mediated mRNA 100.0 6E-174 1E-178 1499.2 46.7 740 15-810 44-797 (1128)
2 smart00543 MIF4G Middle domain 99.8 3.8E-20 8.3E-25 184.7 13.2 186 440-630 3-200 (200)
3 PF02854 MIF4G: MIF4G domain; 99.7 4.6E-17 1E-21 162.2 9.8 186 440-626 3-205 (209)
4 PF02854 MIF4G: MIF4G domain; 99.5 3.9E-14 8.5E-19 141.2 5.7 147 646-804 3-158 (209)
5 smart00543 MIF4G Middle domain 99.4 2.8E-13 6E-18 135.4 9.3 145 647-804 4-150 (200)
6 KOG2140 Uncharacterized conser 97.9 1.4E-05 3.1E-10 90.9 7.1 163 445-610 168-348 (739)
7 KOG2051 Nonsense-mediated mRNA 97.9 3.3E-05 7.2E-10 93.7 9.5 140 487-629 679-836 (1128)
8 KOG2141 Protein involved in hi 97.5 0.0016 3.4E-08 77.1 14.8 189 439-630 321-520 (822)
9 KOG0401 Translation initiation 90.1 0.15 3.3E-06 64.3 2.0 91 536-626 477-569 (970)
10 KOG2140 Uncharacterized conser 84.1 3.7 7.9E-05 48.4 8.3 88 678-768 198-285 (739)
11 PF05918 API5: Apoptosis inhib 70.2 14 0.00031 44.2 8.2 264 439-710 44-349 (556)
12 PF02847 MA3: MA3 domain; Int 63.9 9.2 0.0002 35.3 4.1 105 10-122 7-112 (113)
13 KOG2147 Nucleolar protein invo 49.6 1.3E+02 0.0029 37.3 11.2 82 638-729 574-660 (823)
14 KOG2141 Protein involved in hi 47.1 27 0.00059 42.8 5.1 113 653-767 328-453 (822)
15 smart00544 MA3 Domain in DAP-5 45.0 32 0.0007 31.8 4.4 105 10-122 7-112 (113)
16 PRK00083 frr ribosome recyclin 42.3 2.8E+02 0.006 28.9 11.0 70 186-259 105-175 (185)
17 cd07599 BAR_Rvs167p The Bin/Am 41.6 81 0.0018 32.9 7.2 72 200-271 107-181 (216)
18 PF04147 Nop14: Nop14-like fam 38.1 2E+02 0.0043 36.6 10.9 130 585-751 420-555 (840)
19 TIGR00496 frr ribosome recycli 37.8 3.7E+02 0.0081 27.7 11.1 70 186-259 96-166 (176)
20 KOG1104 Nuclear cap-binding co 35.8 41 0.00089 41.5 4.3 91 472-566 64-155 (759)
21 PF13764 E3_UbLigase_R4: E3 ub 35.4 6.8E+02 0.015 31.9 14.7 147 438-607 116-275 (802)
22 COG0233 Frr Ribosome recycling 35.2 3.7E+02 0.0079 28.3 10.4 85 165-256 89-174 (187)
23 cd00520 RRF Ribosome recycling 34.9 4.1E+02 0.0089 27.4 10.9 70 186-259 101-171 (179)
24 KOG0414 Chromosome condensatio 34.2 4.7E+02 0.01 34.5 13.0 197 567-778 551-765 (1251)
25 KOG1104 Nuclear cap-binding co 34.1 86 0.0019 38.8 6.6 94 693-789 82-179 (759)
26 PF13801 Metal_resist: Heavy-m 32.0 1.1E+02 0.0024 27.7 5.7 30 183-212 39-68 (125)
27 PF12921 ATP13: Mitochondrial 29.5 98 0.0021 30.0 5.1 44 40-84 52-96 (126)
28 PF12755 Vac14_Fab1_bd: Vacuol 28.2 1.5E+02 0.0031 27.6 5.7 91 689-806 2-96 (97)
29 KOG3384 Selenoprotein [General 27.8 39 0.00085 33.6 2.0 39 557-596 57-97 (154)
30 PRK09458 pspB phage shock prot 27.2 1.4E+02 0.0031 26.9 5.1 40 230-269 33-72 (75)
31 PF03874 RNA_pol_Rpb4: RNA pol 24.2 79 0.0017 29.7 3.3 79 505-605 36-115 (117)
32 PRK11546 zraP zinc resistance 23.6 6.4E+02 0.014 25.4 9.5 24 185-208 43-66 (143)
33 PF06013 WXG100: Proteins of 1 23.6 4.4E+02 0.0095 22.0 9.2 72 186-263 4-75 (86)
34 cd00280 TRFH Telomeric Repeat 20.8 3.7E+02 0.008 28.4 7.5 140 570-728 34-181 (200)
35 KOG2229 Protein required for a 20.2 9.1E+02 0.02 29.3 11.2 142 497-690 2-154 (616)
No 1
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=100.00 E-value=5.6e-174 Score=1499.23 Aligned_cols=740 Identities=44% Similarity=0.682 Sum_probs=621.4
Q ss_pred eeecCCCCchhhhhhccchhHhhhHHHHHHHHHHHhhhcccchHHHHHHHHHHhccccCchHHHHHHHhhhcCCCCCCCc
Q 003522 15 ILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFPGKSGED 94 (813)
Q Consensus 15 ~~~~~~~~~~~~~~~~~~~~l~ky~~ei~~~~~e~~~~~~~dI~aaVeI~S~LHQRy~~Ft~~Ll~~l~~~~~~~~~~~~ 94 (813)
.|++.++|+|+++|.+|| |+|||+||++|++||++| .+||+|||++||++||||++||++|+.+|+++|..++
T Consensus 44 ~~t~~~~dsli~els~ln--LsKyi~Ei~a~ivE~klK-~~dv~~~v~l~s~~h~~y~~Fs~~~lg~~~k~l~~~~---- 116 (1128)
T KOG2051|consen 44 LLTAEQYDSLIKELSTLN--LSKYISEITAAIVEAKLK-CSDVPAAVELCSILHARYARFSTAFLGAFLKALECKK---- 116 (1128)
T ss_pred HHhhhhhHHHHHHHHhcc--HHHHHHHHHHHHHHHHHh-ccchHHHHHHHHHHHHHhccccHHHHHHHHHhcCCcc----
Confidence 478999999999999999 999999999999999999 6899999999999999999999999999999994332
Q ss_pred hhhhhhhhhhhhhhhhhhhhheeeeeeccChhhH---HHHHhhhhhcccccccCCCCcchHHHHHHHhh-ccccccCCCC
Q 003522 95 LDADRNLKAMKKRSTLKLLLELYFIGIIEDSSIF---INIIKDLTSIEHLKDRDTTQTNLTLLASFARQ-GRIFLGLPLS 170 (813)
Q Consensus 95 ~ekee~~ri~K~R~~LRll~EL~LvGV~~~~~~l---~~~lk~l~~~e~l~Dk~~~~~nL~ll~sF~K~-g~~~lG~~~~ 170 (813)
.|+..|++|.|++||+++||++||||.+.+.+ ..+|+.++.+ + +..|++++++.||||+ |+++.|+.|.
T Consensus 117 --~~k~~n~~klr~dlrl~aEL~~vGVf~~ke~l~~l~~~L~~li~~---~--~~~~~~v~~~~s~~r~~g~~~a~~~~~ 189 (1128)
T KOG2051|consen 117 --YDKIGNITKLRSDLRLFAELYLVGVFDDKEGLSPLRKVLSILIQL---K--DIDHVNVSLIISFYRHCGGSTASIVPQ 189 (1128)
T ss_pred --ccccccchhhhhhhHHHhhhhhheeeeccchhhhHHHHHHHHHhc---c--cCCccchhHHHHHhhhccccccccchH
Confidence 36889999999999999999999999877544 4455544442 3 3369999999999999 9999999886
Q ss_pred CCCc--hh-hHhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCChhhHHHHHHHHHH
Q 003522 171 GPGQ--EI-YEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSYEKLRKS 247 (813)
Q Consensus 171 ~~~~--~~-~~~~~~~~~is~e~q~~~r~ll~~Y~~al~~~l~~~hk~L~~~ek~n~~~~i~~Gel~eE~~~~ye~l~k~ 247 (813)
.-.. +. ..+.+.+..|++++|+.|+.+|+.||+++++|+.++|+.+++++|+|+++++++|++++|+.+.|+++++.
T Consensus 190 ~~k~~a~~~~~~~p~~d~i~~dk~kt~~~l~k~y~~sL~~~~~~e~~~l~~~ek~~~r~~~~kgel~~er~~~~e~l~~~ 269 (1128)
T KOG2051|consen 190 FRKMAAELFNGEVPSSDLISNDKKKTFQVLFKDYYDSLMSHLGKEHRELNDMEKENRRALFSKGELSDERTEGYEELQSG 269 (1128)
T ss_pred HHHHHHHHhcccCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHH
Confidence 4110 00 01122334489999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCCCCccccccccCCCC-CCCCCCCCCCCCCCCCChhhhccccccccccccchhhhhhhh
Q 003522 248 YDHLYRNVSSLAEALDMQPPVMPEDVHTTRVTSGEDA-SPASGKDSSVPEPVWDDEETRAFYECLPDLRAFVPAVLLGEA 326 (813)
Q Consensus 248 yEkL~~~~~sLAe~L~~~mP~Lp~~~~~~~~~~g~~~-~~~~~~~~~~~~~iWeDEEtR~FYE~LpDL~~~VPa~Ll~~~ 326 (813)
|+||++++++||++||++||+|+++. ++...|++. .++.....+. .++|+||+||+|||+||||+++|||.+.+.+
T Consensus 270 ~dkL~~naisl~e~l~~~~p~l~e~s--~~~~~~~~~~~~~~~~s~~i-~~~wsDedtrafye~l~Dlr~~vpa~~~~~n 346 (1128)
T KOG2051|consen 270 LDKLLANAISLSELLGELMPELEEES--DEADPGEEASQMGKNGSLSI-EDLWSDEDTRAFYENLIDLRDFVPATNEGFN 346 (1128)
T ss_pred HHHHHHHHHhHHHHhccccccccccc--ccCCccccccccccccccCc-ccccccHHHHHHHHhhhHHHHhcccccccch
Confidence 99999999999999999999999875 223334442 2222222233 3499999999999999999999998776654
Q ss_pred ccccCCCCCCCCCCCCCCCCCCccchhhhchhhhhhcccCCCCCCCccccCCchhHHhhhhcCCCccccCCCCChhhhhh
Q 003522 327 EHKANEPSVKPLEQPTDPASEPDQGQLAAQDTAEVSADLGASPEGKSVEKGKDKEEKEKEKAKDPDKEKGKGKDKEEKDK 406 (813)
Q Consensus 327 ~~~~~~~~~~~~e~~~~~~~e~~~~~~~~~d~~e~~~~~~~~~~~~~~e~~~~~ee~e~~~~~~~~~~~~~g~d~ee~~~ 406 (813)
+.+..+ . ++..+.........++.++++++..+ ++...+ .+++..++ .+|+..++.++
T Consensus 347 ~~~e~e-----~----esn~~~~~~~~~~~~~~e~~~~~~~~-e~~~~~---~~~~~~~~---------~~~~~~~~~~~ 404 (1128)
T KOG2051|consen 347 KSKEVE-----K----ESNSEAAMVWDDREQTTEVSSPSNFM-EGSIAE---MKEDLKES---------KGEDEKEELGK 404 (1128)
T ss_pred hhhhhh-----h----hhhhhHHhhhcccccceeecCCCccc-cchhhh---hhhhhhhh---------hccchhhhcch
Confidence 322211 1 11111101000111222333322211 111111 11111111 11111121111
Q ss_pred hhcCCCCcccCcccchhhhhhhhHhhhcCCcchhHHHHHhhCCCCCChhHHHHHHHHHhh-ccCchhHHHHHHHhhccCC
Q 003522 407 EKAKDPDKEKGKEKDTERKVETEKEKLKGVEGTNLDALLQRLPGCVSRDLIDQLTVEFCY-LNSKSNRKRLVRALFNVPR 485 (813)
Q Consensus 407 e~~~d~~~~~~~~~~~~~~~~~e~~~~~~~~~~~ld~fl~~Lp~~~nrd~ID~~aveF~~-lN~Ka~RkrLvk~l~~v~r 485 (813)
++. ....-+.+.....+...++++.|+.+||+|+|||.||++|++||. +|||++||||+|+||.+||
T Consensus 405 ~~~------------~~~~~~~~~~~~~~~~~~~~d~Fl~~L~~~vsrdliD~~a~ef~~nlNtKa~RkrLvKal~~vpr 472 (1128)
T KOG2051|consen 405 NKQ------------EQDLLESEGDLNTSQVVSNVDCFLLDLPNCVSRDLIDQAAIEFCSNLNTKANRKRLVKALFVVPR 472 (1128)
T ss_pred hhh------------HHHHhhhhhhcchhhHHHHHHHHHccCcchHHHHHHHHHHHHHHHHhccHHHHHHHHHhhhcccc
Confidence 110 001111122222334557899999999999999999999999996 9999999999999999999
Q ss_pred CCCCCchHHHHHHHHhcccchhhHHHHHHHHHHHHHHhhhhccccccchhhceeeeeeccccccccChhhHHHHHHHHhh
Q 003522 486 TSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLD 565 (813)
Q Consensus 486 ~r~dlLP~YaR~vAtl~~~~~Dv~~~lv~~L~~~Fr~~~~kk~~~~~e~kiKnirfi~EL~KF~lvP~~~if~~lk~ll~ 565 (813)
+|+|+||||+||||||++|||||+++||++|.++||+++|+|+|+++++|+|+||||||||||++||+++||||||+||+
T Consensus 473 t~ldllPyYsRlVAtl~~~M~dvat~lv~~L~~eFr~~~hkK~q~~ietk~~~VrfIsEL~KF~lv~~~~if~cLk~ll~ 552 (1128)
T KOG2051|consen 473 TRLDLLPYYSRLVATLSKCMPDVATELVTMLRKEFRSHLHKKAQINIETKLKIVRFISELCKFQLVPKFEIFSCLKMLLN 552 (1128)
T ss_pred hhhhhhhHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHhhhhhCccChHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCchHHHHHHHHhhhcccccCChhhHHHHHHHHHHHHHHhhccCCChhHHHHHHHhhhhcCCCccccccccCCCcHHH
Q 003522 566 DFTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQ 645 (813)
Q Consensus 566 dfs~~nIei~c~llE~CGRfL~r~pet~~rm~~mLe~m~rkk~~~~L~~r~~~lieNa~y~~~PP~~~~~~~k~r~p~~~ 645 (813)
||+||||||+|+|||+|||||||+||||.||..|||+|||+|++++||+|+.++||||||+|+||+++++..|+|||+|+
T Consensus 553 dF~~hnIEm~c~lLE~~GrfLlr~pEt~lrM~~~Le~i~rkK~a~~lDsr~~~~iENay~~~~PPe~~~~~~k~r~p~~e 632 (1128)
T KOG2051|consen 553 DFTHHNIEMACVLLESCGRFLLRSPETKLRMRVFLEQIKRKKRASALDSRQATLIENAYYLCNPPERSKRLSKKRPPMQE 632 (1128)
T ss_pred hcccccHHHHHHHHHhcchhhhcChhHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHhHHhccChhhcccccccCCcHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCcccHHHHHHHHHcCCCCChh--HHHHHHHhcccccccccHHHHHHHHHHHhcccccchhhhhhhHHHHH
Q 003522 646 YIRKLLFSDLDKSSIEHVLRQLRKLPWSDCE--SYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVLEEI 723 (813)
Q Consensus 646 fir~Li~~~L~~~~~~~vlk~lrKl~W~d~~--~~l~k~~~~~~k~ky~nI~~lA~ll~~L~~~~~~f~v~vVD~vlE~I 723 (813)
|||+|||.+|++.|++.++++||||||+|++ .|+++||++||+++|+||+++|++|+||++|||+|||+|||.|||+|
T Consensus 633 fiR~Li~~dL~k~tvd~~lkllRkl~W~D~e~~~yli~~~~k~w~iky~~i~~lA~llaGL~~y~~~fvi~VID~vlE~I 712 (1128)
T KOG2051|consen 633 FIRYLIRSDLSKDTVDRVLKLLRKLDWSDPEVKQYLISCFSKPWKIKYQNIHALASLLAGLSSYHPEFVIHVIDHVLEDI 712 (1128)
T ss_pred HHHHHHHHHhccccHHHHHHHHHhcccccHHHHHHHHHHhhhhhccccccHHHHHHHHHHHHhhchhhhhhhHHHHHHHH
Confidence 9999999999999999999999999999975 79999999999999999999999999999999999999999999999
Q ss_pred HhhhcCCCchhHHHHHHHHHHHHHhhhcccCChhHHHHHHHHHhhcCCCCcCCcccccccccCCCccceeeehhhhhhhh
Q 003522 724 RLGLELNDYGMQQRRLAHMRFLGELYNYEHVDSSVIFDTLYLILVFGHGTAETYWTHQKIVSGSGWLLLFLRLVVTTLTE 803 (813)
Q Consensus 724 r~gLE~N~~~~nQrRia~vkyLgELYny~lv~s~vIfdtLY~ii~fGh~~~~~~~~~~~~~~~~~~~~fr~rl~~t~l~~ 803 (813)
|.|||.|+|.+||||||+||||||||||+||||.|||+|||++|+|||++...+++ +|.|+|+|||||||++|++
T Consensus 713 r~glEin~~~~nQrriA~aryL~ELynfemvds~vIl~tLy~~i~~g~~~~~~~~~-----ldppddlFRirlV~~lL~t 787 (1128)
T KOG2051|consen 713 RPGLEINDYVSNQRRIALARYLGELYNFEMVDSDVILNTLYHLISLGHFENLTPSA-----LDPPDDLFRIRLVCMLLQT 787 (1128)
T ss_pred HhhhhcCcHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHhcccccCCCCccc-----CCChHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999986645554 8999999999999999995
Q ss_pred c---CCCCCC
Q 003522 804 A---LPRGNL 810 (813)
Q Consensus 804 ~---~~~~~~ 810 (813)
| |+||+-
T Consensus 788 c~~yf~rgs~ 797 (1128)
T KOG2051|consen 788 CGPYFTRGST 797 (1128)
T ss_pred cccccccchh
Confidence 5 788863
No 2
>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=99.83 E-value=3.8e-20 Score=184.73 Aligned_cols=186 Identities=25% Similarity=0.426 Sum_probs=165.2
Q ss_pred hHHHHHhhCCCCCChhHHHHHHHHHhhc--cCchhHHHHHHHhhccCCCCCCCchHHHHHHHHhcccchhhHHHHHHHHH
Q 003522 440 NLDALLQRLPGCVSRDLIDQLTVEFCYL--NSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLE 517 (813)
Q Consensus 440 ~ld~fl~~Lp~~~nrd~ID~~aveF~~l--N~Ka~RkrLvk~l~~v~r~r~dlLP~YaR~vAtl~~~~~Dv~~~lv~~L~ 517 (813)
.+..++.+|- .+.++.++.++..+ .++..++.+++.+++........+|+||||++.+++++|+++..+++.+.
T Consensus 3 ~v~~~lnkLs----~~n~~~~~~~l~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~ya~L~~~l~~~~~~f~~~ll~~~~ 78 (200)
T smart00543 3 KVKGLINKLS----PSNFESIIKELLKLNNSDKNLRKYILELIFEKAVEEPNFIPAYARLCALLNAKNPDFGSLLLERLQ 78 (200)
T ss_pred HHHHHHhhCC----HHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777774 57888888888854 34578999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhccccccchhhceeeeeeccccccccChhhHHHHHHHHhhcCCC-------chHHHHHHHHhhhcccccCCh
Q 003522 518 EEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTH-------HNIDVACNLLETCGRFLYRSP 590 (813)
Q Consensus 518 ~~Fr~~~~kk~~~~~e~kiKnirfi~EL~KF~lvP~~~if~~lk~ll~dfs~-------~nIei~c~llE~CGRfL~r~p 590 (813)
++|+..++..+.........++||||||.+|+++|...+++|++.++.+.+. ++||++|.+|++||++|.+ +
T Consensus 79 ~~f~~~~e~~~~~~~~~~~~~i~fl~eL~~~~~i~~~~i~~~l~~ll~~~~~~~~~~~~~~ve~l~~lL~~~G~~l~~-~ 157 (200)
T smart00543 79 EEFEKGLESEEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKLDPPRSDFSVECLLSLLPTCGKDLER-E 157 (200)
T ss_pred HHHHHHHHHHHHHhhhhHHhHHHHHHHHHHcccCcHHHHHHHHHHHHhccCCCCCCCcHHHHHHHHHHHHHhhHHHcC-c
Confidence 9998865544444456678899999999999999999999999999999876 8999999999999999998 8
Q ss_pred hhHHHHHHHHHHHHHHhhcc---CCChhHHHHHHHhhhhcCCC
Q 003522 591 ETSIRMANMLEILMRLKNVK---NLDPRHVTLVENAYYLCKPP 630 (813)
Q Consensus 591 et~~rm~~mLe~m~rkk~~~---~L~~r~~~lieNa~y~~~PP 630 (813)
++...|..+++.++.....+ ++++|.+.|+++.+...+|+
T Consensus 158 ~~~~~~~~~l~~l~~~~~~~~~~~~~~r~~~~l~~l~~l~~~~ 200 (200)
T smart00543 158 KSPKLLDEILERLQDYLLKKDKTELSSRLRFMLELLIELRKNK 200 (200)
T ss_pred ccHHHHHHHHHHHHHHHhcccccCCChHHHHHHHHHHHHhhCc
Confidence 99999999999999998877 89999999999999887764
No 3
>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=99.69 E-value=4.6e-17 Score=162.25 Aligned_cols=186 Identities=27% Similarity=0.437 Sum_probs=158.4
Q ss_pred hHHHHHhhCCCCCChhHHHHHHHHHhhccCchhHHHHHHHhhccCCCCCCCchHHHHHHHHhcccch-hhHHHHHHHHHH
Q 003522 440 NLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMK-DVSSMLIQMLEE 518 (813)
Q Consensus 440 ~ld~fl~~Lp~~~nrd~ID~~aveF~~lN~Ka~RkrLvk~l~~v~r~r~dlLP~YaR~vAtl~~~~~-Dv~~~lv~~L~~ 518 (813)
.+..++.+|....-...++++...++.. ++...+.+++.+++......+..|+|||+++.++..+| +++..+++.+.+
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 4678899998544444444444433322 67899999999999888888999999999999999999 999999999999
Q ss_pred HHHH-----hhhhccccccchhhceeeeeeccccccccChhhHHHHHHHHhhcCCC--------chHHHHHHHHhhhccc
Q 003522 519 EFNF-----LINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTH--------HNIDVACNLLETCGRF 585 (813)
Q Consensus 519 ~Fr~-----~~~kk~~~~~e~kiKnirfi~EL~KF~lvP~~~if~~lk~ll~dfs~--------~nIei~c~llE~CGRf 585 (813)
+|.. ............+.-++||||||.+|++++...+++|++.++.+... ++|+++|.+|.+||+.
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 9987 22221222334567799999999999999999999999999999887 9999999999999999
Q ss_pred ccCChhhHHHHHHHHHHHHHHhhc---cCCChhHHHHHHHhhhh
Q 003522 586 LYRSPETSIRMANMLEILMRLKNV---KNLDPRHVTLVENAYYL 626 (813)
Q Consensus 586 L~r~pet~~rm~~mLe~m~rkk~~---~~L~~r~~~lieNa~y~ 626 (813)
|.++++++..|..+++.++..... .++++|.+.|+++.+-.
T Consensus 162 l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~r~~~~l~~l~~l 205 (209)
T PF02854_consen 162 LENSEESPKALDEIFERLQKYANSKKDPNLSSRIRFMLEDLIEL 205 (209)
T ss_dssp HHHCHHHHHHHHHHHHHHHHHHHHCHSSSSSHHHHHHHHHHHHH
T ss_pred HhcCCCchhHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHH
Confidence 999999999999999999999988 79999999999998754
No 4
>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=99.47 E-value=3.9e-14 Score=141.22 Aligned_cols=147 Identities=29% Similarity=0.362 Sum_probs=132.3
Q ss_pred HHHHHHHhhcCcccHHHHHHHHHcCCCCC-h--hHHHHHHHhcccccccccHHHHHHHHHHHhcccc-cchhhhhhhHHH
Q 003522 646 YIRKLLFSDLDKSSIEHVLRQLRKLPWSD-C--ESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHD-EFAVAVVDEVLE 721 (813)
Q Consensus 646 fir~Li~~~L~~~~~~~vlk~lrKl~W~d-~--~~~l~k~~~~~~k~ky~nI~~lA~ll~~L~~~~~-~f~v~vVD~vlE 721 (813)
.++.++ ..|++.+++.+++.+.+++|++ + -.++++++...+....+.++..|.+++.|+.+++ +|+..+++.+.|
T Consensus 3 ~v~~~l-nklt~~n~~~~~~~l~~~~~~~~~~~~~~i~~~i~~~a~~~~~~~~~~a~l~~~l~~~~~~~f~~~ll~~~~~ 81 (209)
T PF02854_consen 3 KVRGIL-NKLTPSNFESIIDELIKLNWSDDPETLKEIVKLIFEKAVEEPNFSPLYARLCAALNSRFPSEFRSLLLNRCQE 81 (209)
T ss_dssp HHHHHH-HHCSSTTHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSGGGHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred hHHHHH-HHCCHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhhhhcCchHHHHHHHHHHHHhccchhhHHHHHHHHHHH
Confidence 456555 8899999999999999999997 3 3678888877766667999999999999999999 999999999999
Q ss_pred HHHh-----hhcCCCchhHHHHHHHHHHHHHhhhcccCChhHHHHHHHHHhhcCCCCcCCcccccccccCCCccceeeeh
Q 003522 722 EIRL-----GLELNDYGMQQRRLAHMRFLGELYNYEHVDSSVIFDTLYLILVFGHGTAETYWTHQKIVSGSGWLLLFLRL 796 (813)
Q Consensus 722 ~Ir~-----gLE~N~~~~nQrRia~vkyLgELYny~lv~s~vIfdtLY~ii~fGh~~~~~~~~~~~~~~~~~~~~fr~rl 796 (813)
.+.. ++|.+..+..|++++.++|+||||++++|+..+|+++++.++.+++.... .+++.+++++
T Consensus 82 ~f~~~~~~~~~~~~~~~~~~~~~~~~~fl~eL~~~~vv~~~~i~~~l~~ll~~~~~~~~-----------~~~~~~~ie~ 150 (209)
T PF02854_consen 82 EFEERYSNEELEENRQSSKQRRRGNIRFLAELFNFGVVSEKIIFDILRELLSDGTDECQ-----------PPPDEENIEC 150 (209)
T ss_dssp HHHHHT-HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHTSHHCC-----------HHTCHHHHHH
T ss_pred HHHHhhhhhhHHHHHHHHHHHHhhhhhHHHhhHhhccccchhHHHHHHHHHhccccccc-----------CCCcHhHHHH
Confidence 9999 99999999999999999999999999999999999999999999986542 4567799999
Q ss_pred hhhhhhhc
Q 003522 797 VVTTLTEA 804 (813)
Q Consensus 797 ~~t~l~~~ 804 (813)
+|++|..|
T Consensus 151 ~~~lL~~~ 158 (209)
T PF02854_consen 151 LCTLLKTC 158 (209)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 99999977
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=99.44 E-value=2.8e-13 Score=135.41 Aligned_cols=145 Identities=27% Similarity=0.372 Sum_probs=130.1
Q ss_pred HHHHHHhhcCcccHHHHHHHHHcCCCCChh--HHHHHHHhcccccccccHHHHHHHHHHHhcccccchhhhhhhHHHHHH
Q 003522 647 IRKLLFSDLDKSSIEHVLRQLRKLPWSDCE--SYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVLEEIR 724 (813)
Q Consensus 647 ir~Li~~~L~~~~~~~vlk~lrKl~W~d~~--~~l~k~~~~~~k~ky~nI~~lA~ll~~L~~~~~~f~v~vVD~vlE~Ir 724 (813)
++.++ ..|+..+++.+++.|.++.|++++ .++++++.+.+......++..|.+++.|..+.+.|+..+|+.+.+.++
T Consensus 4 v~~~l-nkLs~~n~~~~~~~l~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~ya~L~~~l~~~~~~f~~~ll~~~~~~f~ 82 (200)
T smart00543 4 VKGLI-NKLSPSNFESIIKELLKLNNSDKNLRKYILELIFEKAVEEPNFIPAYARLCALLNAKNPDFGSLLLERLQEEFE 82 (200)
T ss_pred HHHHH-hhCCHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444 788899999999999999999753 678999888887877899999999999999999999999999999999
Q ss_pred hhhcCCCchhHHHHHHHHHHHHHhhhcccCChhHHHHHHHHHhhcCCCCcCCcccccccccCCCccceeeehhhhhhhhc
Q 003522 725 LGLELNDYGMQQRRLAHMRFLGELYNYEHVDSSVIFDTLYLILVFGHGTAETYWTHQKIVSGSGWLLLFLRLVVTTLTEA 804 (813)
Q Consensus 725 ~gLE~N~~~~nQrRia~vkyLgELYny~lv~s~vIfdtLY~ii~fGh~~~~~~~~~~~~~~~~~~~~fr~rl~~t~l~~~ 804 (813)
.++|.++....+++++.++||||||++++++...|+++++.++..+.+... +++.+.++++|++|..|
T Consensus 83 ~~~e~~~~~~~~~~~~~i~fl~eL~~~~~i~~~~i~~~l~~ll~~~~~~~~------------~~~~~~ve~l~~lL~~~ 150 (200)
T smart00543 83 KGLESEEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTKLDP------------PRSDFSVECLLSLLPTC 150 (200)
T ss_pred HHHHHHHHHhhhhHHhHHHHHHHHHHcccCcHHHHHHHHHHHHhccCCCCC------------CCcHHHHHHHHHHHHHh
Confidence 999999999999999999999999999999999999999999999854331 25568999999999977
No 6
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=97.95 E-value=1.4e-05 Score=90.86 Aligned_cols=163 Identities=21% Similarity=0.371 Sum_probs=136.8
Q ss_pred HhhCCCCCChhHHHHHHHHHhhccCchhHHHHHHHhhccCCCCCCCchHHHHHHHHhcccchhhHHHHHHHHHHHHHHhh
Q 003522 445 LQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLI 524 (813)
Q Consensus 445 l~~Lp~~~nrd~ID~~aveF~~lN~Ka~RkrLvk~l~~v~r~r~dlLP~YaR~vAtl~~~~~Dv~~~lv~~L~~~Fr~~~ 524 (813)
+.-|-+-+|.+-|-++.-|...-|-=-+|.-+.|..+..+-..+...|-||=|||.++.-||+||+-|...|-=.|+...
T Consensus 168 InglInkvn~sNi~~ii~eLfqeNiirgRgl~crsv~~aq~asp~ft~vyaALvAviNskfP~IgElLlkrLilqf~r~f 247 (739)
T KOG2140|consen 168 INGLINKVNASNIQEIIRELFQENIIRGRGLLCRSVMQAQAASPGFTPVYAALVAVINSKFPQIGELLLKRLILQFKRSF 247 (739)
T ss_pred hHHHHhhhhHHHHHHHHHHHHHHHHHhccchhHHHHHHHHhcCCCCcHHHHHHHHHHccCCchHHHHHHHHHHHHHHHHh
Confidence 34444555666676777777777777888888888877777788899999999999999999999999999999999999
Q ss_pred hhccccccchhhceeeeeeccccccccChhhHHHHHHHHhhcCCCchHHHHHHHHhhhcc------------------cc
Q 003522 525 NKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGR------------------FL 586 (813)
Q Consensus 525 ~kk~~~~~e~kiKnirfi~EL~KF~lvP~~~if~~lk~ll~dfs~~nIei~c~llE~CGR------------------fL 586 (813)
+++++..+ +-.+.||+=|+--.|+-..+++..+-.||.+=+..-||++-.||--||- +.
T Consensus 248 ~RnDk~~c---~~~~kfiahLinq~VahEIv~Leil~lLLe~PTddSvevaI~flkecGakL~~VSpr~~n~IfErlR~I 324 (739)
T KOG2140|consen 248 RRNDKVSC---LNASKFIAHLINQQVAHEIVALEILTLLLERPTDDSVEVAIAFLKECGAKLAEVSPRALNGIFERLRYI 324 (739)
T ss_pred cccchHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHHhChHHHhHHHHHHHHH
Confidence 99887543 3357899999999999999999999999999999999999999999994 45
Q ss_pred cCChhhHHHHHHHHHHHHHHhhcc
Q 003522 587 YRSPETSIRMANMLEILMRLKNVK 610 (813)
Q Consensus 587 ~r~pet~~rm~~mLe~m~rkk~~~ 610 (813)
+...|...|...|+|.|...++++
T Consensus 325 Lhe~Eld~rvqy~iEtlf~iRkdk 348 (739)
T KOG2140|consen 325 LHEGELDRRVQYMIETLFQIRKDK 348 (739)
T ss_pred HhHhhHHHHHHHHHHHHHHHHHHh
Confidence 667777788888888887766553
No 7
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=97.90 E-value=3.3e-05 Score=93.66 Aligned_cols=140 Identities=21% Similarity=0.358 Sum_probs=109.2
Q ss_pred CCCCchHHHHHHHHhcccchhhHHHHHHHHHHHHHHhhhhccccccchhhceeeeeeccccccccChhhHHHHHHHHhhc
Q 003522 487 SLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDD 566 (813)
Q Consensus 487 r~dlLP~YaR~vAtl~~~~~Dv~~~lv~~L~~~Fr~~~~kk~~~~~e~kiKnirfi~EL~KF~lvP~~~if~~lk~ll~d 566 (813)
+...|+..|+++|-|..|-||++-.+|+..-+.-|.-+.=.+...-..|+-++||+|||.-|.++...+||..|=.++..
T Consensus 679 ky~~i~~lA~llaGL~~y~~~fvi~VID~vlE~Ir~glEin~~~~nQrriA~aryL~ELynfemvds~vIl~tLy~~i~~ 758 (1128)
T KOG2051|consen 679 KYQNIHALASLLAGLSSYHPEFVIHVIDHVLEDIRPGLEINDYVSNQRRIALARYLGELYNFEMVDSDVILNTLYHLISL 758 (1128)
T ss_pred ccccHHHHHHHHHHHHhhchhhhhhhHHHHHHHHHhhhhcCcHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHhcc
Confidence 56688999999999999999999888876666665544421222225679999999999999999999999999998887
Q ss_pred CCCch--------------HHHHHHHHhhhcccccCChhhHHHHHHHHHHHHHHh---hc-cCCChhHHHHHHHhhhhcC
Q 003522 567 FTHHN--------------IDVACNLLETCGRFLYRSPETSIRMANMLEILMRLK---NV-KNLDPRHVTLVENAYYLCK 628 (813)
Q Consensus 567 fs~~n--------------Iei~c~llE~CGRfL~r~pet~~rm~~mLe~m~rkk---~~-~~L~~r~~~lieNa~y~~~ 628 (813)
-..+| |-|+|+||++||+|..|. .|+.+|..+|=-.++.= .. ..||..+ .++|.+-++.
T Consensus 759 g~~~~~~~~~ldppddlFRirlV~~lL~tc~~yf~rg-s~kkkl~~fL~~fq~Y~~iKk~~~Pld~~~--~f~d~~~~~r 835 (1128)
T KOG2051|consen 759 GHFENLTPSALDPPDDLFRIRLVCMLLQTCGPYFTRG-STKKKLDQFLVAFQRYILIKKSQQPLDMEY--EFEDFLELVR 835 (1128)
T ss_pred cccCCCCcccCCChHHHHHHHHHHHHHHHcccccccc-hhHHHHHHHHHHHHHHhhcccccCCCchhh--hHHhhhhhcc
Confidence 44444 899999999999999887 58889999998887743 21 3455544 3777777766
Q ss_pred C
Q 003522 629 P 629 (813)
Q Consensus 629 P 629 (813)
|
T Consensus 836 p 836 (1128)
T KOG2051|consen 836 P 836 (1128)
T ss_pred c
Confidence 6
No 8
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=97.50 E-value=0.0016 Score=77.08 Aligned_cols=189 Identities=18% Similarity=0.346 Sum_probs=126.3
Q ss_pred hhHHHHHhhCCCCCChhHHHHHHHHHhhccCchh-----HHHHHHHhhccCCCCCCCchHHHHHHHHhcccc-hhhHHHH
Q 003522 439 TNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSN-----RKRLVRALFNVPRTSLELLPYYSRMVATLSTCM-KDVSSML 512 (813)
Q Consensus 439 ~~ld~fl~~Lp~~~nrd~ID~~aveF~~lN~Ka~-----RkrLvk~l~~v~r~r~dlLP~YaR~vAtl~~~~-~Dv~~~l 512 (813)
.+++..|++|..+.=--.|=.+++=|. -|++.. -|-|.+++....|.--.++--|+=++|+|+.-- -+|+.-+
T Consensus 321 rkv~g~LNKLSdaNi~~I~~~i~~Ly~-~~sr~~v~~sLtk~l~~~~~~~~~~ld~~~~~y~AL~~~l~~~vg~eigahf 399 (822)
T KOG2141|consen 321 RKVNGSLNKLSDANIIKIIAGIAELYM-NNSRYDVTSSLTKLLLKALLGPFRLLDSLLTTYAALAAMLHTMVGNEIGAHF 399 (822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-hcchhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 456777888877543333334444333 122211 233445555554555567788999999997554 6899999
Q ss_pred HHHHHHHHHHhhhhccccccchhh--ceeeeeeccccccccChhhHHHHHHHHhhcCCCchHHHHHHHHhhhcccccCCh
Q 003522 513 IQMLEEEFNFLINKKDQMNIETKI--RNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCGRFLYRSP 590 (813)
Q Consensus 513 v~~L~~~Fr~~~~kk~~~~~e~ki--Knirfi~EL~KF~lvP~~~if~~lk~ll~dfs~~nIei~c~llE~CGRfL~r~p 590 (813)
++-.-+.|-.+++......+..|. -.+.|+|.|.-|++|....|+..|+.++.+++-.|+|++-.++-+||. .+|.-
T Consensus 400 ~q~~ve~f~~~~~~~~~~~~~~K~~~Nl~~~l~ylynF~ivs~~LiydiI~kl~~~l~e~~ve~ll~ii~~~G~-~LRkD 478 (822)
T KOG2141|consen 400 LQTFVEDFLKSYKEEEEMDLKDKSLNNIVLFLSYLYNFGIVSCSLIYDIIRKLAENLNETNVEALLTIIANCGF-SLRKD 478 (822)
T ss_pred HHHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHhhcccHHHHHHHHHHHHhchhhhhHHHHHHHHHHccc-hhcCC
Confidence 998888887666543332222222 248899999999999999999999999999999999999999999997 66664
Q ss_pred hhHHHHHHHHHHHHHHhhccC---CChhHHHHHHHhhhhcCCC
Q 003522 591 ETSIRMANMLEILMRLKNVKN---LDPRHVTLVENAYYLCKPP 630 (813)
Q Consensus 591 et~~rm~~mLe~m~rkk~~~~---L~~r~~~lieNa~y~~~PP 630 (813)
+ -.-++.++.-|+.+-+... ..+|.+-|+|.....=|.|
T Consensus 479 D-p~alk~~i~eiq~~a~~a~~s~~~pR~rFmleti~aLKnN~ 520 (822)
T KOG2141|consen 479 D-PLALKDIITEIQSKAASAKISAISPRLRFMLETISALKNNK 520 (822)
T ss_pred C-hHHHHHHHHHHHHHhhcCCccccchHHHHHHHHHHHHhcCC
Confidence 3 3344555555544333222 2568888888766654443
No 9
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=90.13 E-value=0.15 Score=64.33 Aligned_cols=91 Identities=29% Similarity=0.454 Sum_probs=83.6
Q ss_pred hceeeeeeccccccccChhhHHHHHHHHhhc--CCCchHHHHHHHHhhhcccccCChhhHHHHHHHHHHHHHHhhccCCC
Q 003522 536 IRNIRFIGELCKFKIAPAGLVFSCLKACLDD--FTHHNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLD 613 (813)
Q Consensus 536 iKnirfi~EL~KF~lvP~~~if~~lk~ll~d--fs~~nIei~c~llE~CGRfL~r~pet~~rm~~mLe~m~rkk~~~~L~ 613 (813)
+-||+|||||-|=++++.-++-+|+..|+.+ ++..|||.+|.|+.|.|.=|=..+++..-|..+...|+-.++....+
T Consensus 477 lgn~~~ig~l~~~~ml~e~i~~~~v~~Ll~~~~~~ee~ie~lc~f~~tig~~lD~~~~s~r~md~~~~~~k~~~~~~~~s 556 (970)
T KOG0401|consen 477 LGNFRFIGELFKLKMLTEKIVHACVQKLLSDDQPSEESIECLCRFLTTIGKKLDFSKESPRNMDEYFNSMKNLKRKPQRS 556 (970)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhhhhHHhhhhcccccccccCcccchhHHHHHHHHHhhhhhhhc
Confidence 5689999999999999999999999999998 88999999999999999988888888777999999999999999999
Q ss_pred hhHHHHHHHhhhh
Q 003522 614 PRHVTLVENAYYL 626 (813)
Q Consensus 614 ~r~~~lieNa~y~ 626 (813)
.+..-|+.|..-.
T Consensus 557 ~r~RfM~~~~idl 569 (970)
T KOG0401|consen 557 NRIRFMLQSVIDL 569 (970)
T ss_pred cchhhhhcccccc
Confidence 9999999887653
No 10
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=84.08 E-value=3.7 Score=48.36 Aligned_cols=88 Identities=18% Similarity=0.258 Sum_probs=74.5
Q ss_pred HHHHHHhcccccccccHHHHHHHHHHHhcccccchhhhhhhHHHHHHhhhcCCCchhHHHHHHHHHHHHHhhhcccCChh
Q 003522 678 YLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVLEEIRLGLELNDYGMQQRRLAHMRFLGELYNYEHVDSS 757 (813)
Q Consensus 678 ~l~k~~~~~~k~ky~nI~~lA~ll~~L~~~~~~f~v~vVD~vlE~Ir~gLE~N~~~~nQrRia~vkyLgELYny~lv~s~ 757 (813)
.+++-..+..-.+-+=+|..|.|++-+....|.++--+.-.|+=..+++.-.||+. .-++.++|++.|.||.|..-=
T Consensus 198 l~crsv~~aq~asp~ft~vyaALvAviNskfP~IgElLlkrLilqf~r~f~RnDk~---~c~~~~kfiahLinq~VahEI 274 (739)
T KOG2140|consen 198 LLCRSVMQAQAASPGFTPVYAALVAVINSKFPQIGELLLKRLILQFKRSFRRNDKV---SCLNASKFIAHLINQQVAHEI 274 (739)
T ss_pred hhHHHHHHHHhcCCCCcHHHHHHHHHHccCCchHHHHHHHHHHHHHHHHhcccchH---HHHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555578899999999999999999999999999999999999975 468999999999999999999
Q ss_pred HHHHHHHHHhh
Q 003522 758 VIFDTLYLILV 768 (813)
Q Consensus 758 vIfdtLY~ii~ 768 (813)
|++.+|-.++.
T Consensus 275 v~Leil~lLLe 285 (739)
T KOG2140|consen 275 VALEILTLLLE 285 (739)
T ss_pred HHHHHHHHHhc
Confidence 99998877764
No 11
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=70.20 E-value=14 Score=44.22 Aligned_cols=264 Identities=14% Similarity=0.215 Sum_probs=137.5
Q ss_pred hhHHHHHhhCCCCCChhHHHHHHHHHhhccCchhHHHHHHHhhccCCCCCCCchHHHHHHHHhcccch-hhHHHHHHHHH
Q 003522 439 TNLDALLQRLPGCVSRDLIDQLTVEFCYLNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMK-DVSSMLIQMLE 517 (813)
Q Consensus 439 ~~ld~fl~~Lp~~~nrd~ID~~aveF~~lN~Ka~RkrLvk~l~~v~r~r~dlLP~YaR~vAtl~~~~~-Dv~~~lv~~L~ 517 (813)
+-+-.|+...|++.+ ++||.+ .|.|-=-.-.=|+--+|.|-.+++...+ |-+|.+-+|.|.+- |=..+ +.++.
T Consensus 44 q~I~kffk~FP~l~~-~Ai~a~-~DLcEDed~~iR~~aik~lp~~ck~~~~---~v~kvaDvL~QlL~tdd~~E-~~~v~ 117 (556)
T PF05918_consen 44 QFIPKFFKHFPDLQE-EAINAQ-LDLCEDEDVQIRKQAIKGLPQLCKDNPE---HVSKVADVLVQLLQTDDPVE-LDAVK 117 (556)
T ss_dssp HHHHHHHCC-GGGHH-HHHHHH-HHHHT-SSHHHHHHHHHHGGGG--T--T----HHHHHHHHHHHTT---HHH-HHHHH
T ss_pred HHHHHHHhhChhhHH-HHHHHH-HHHHhcccHHHHHHHHHhHHHHHHhHHH---HHhHHHHHHHHHHhcccHHH-HHHHH
Confidence 456789999999987 557755 5899766777999999999999996444 56799999998874 33222 12223
Q ss_pred HHHHHh---------------hhhccccccchhhceeeeee--------ccccccccChhhHHHHHHHHhhcCCCchHHH
Q 003522 518 EEFNFL---------------INKKDQMNIETKIRNIRFIG--------ELCKFKIAPAGLVFSCLKACLDDFTHHNIDV 574 (813)
Q Consensus 518 ~~Fr~~---------------~~kk~~~~~e~kiKnirfi~--------EL~KF~lvP~~~if~~lk~ll~dfs~~nIei 574 (813)
+-+.++ +.....-.-..|-|.|.||+ |+.+++-=..-.|.+.+|.+|.|.+.--.++
T Consensus 118 ~sL~~ll~~d~k~tL~~lf~~i~~~~~~de~~Re~~lkFl~~kl~~l~~~~~~p~~E~e~~i~~~ikkvL~DVTaeEF~l 197 (556)
T PF05918_consen 118 NSLMSLLKQDPKGTLTGLFSQIESSKSGDEQVRERALKFLREKLKPLKPELLTPQKEMEEFIVDEIKKVLQDVTAEEFEL 197 (556)
T ss_dssp HHHHHHHHH-HHHHHHHHHHHHH---HS-HHHHHHHHHHHHHHGGGS-TTTS---HHHHHHHHHHHHHHCTT--HHHHHH
T ss_pred HHHHHHHhcCcHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHHhhCcHHHhhchHHHHHHHHHHHHHHHHhccHHHHHH
Confidence 333222 22100001124777888885 3334333345667888999999999988999
Q ss_pred HHHHHhhhcccccCChhhHHHHHHHHHHHHHHh-hccCCChhHHHHHHHhhhhcCCCccccccccCCCcHHHHHHHHHHh
Q 003522 575 ACNLLETCGRFLYRSPETSIRMANMLEILMRLK-NVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFS 653 (813)
Q Consensus 575 ~c~llE~CGRfL~r~pet~~rm~~mLe~m~rkk-~~~~L~~r~~~lieNa~y~~~PP~~~~~~~k~r~p~~~fir~Li~~ 653 (813)
+-.||-++.-| ....|-..+..|++++...- -...+++.+...|+..++.+.---.-.......+.+-.|+-.-|.-
T Consensus 198 ~m~lL~~lk~~--~~~~t~~g~qeLv~ii~eQa~Ld~~f~~sD~e~Idrli~C~~~Alp~fs~~v~Sskfv~y~~~kvlP 275 (556)
T PF05918_consen 198 FMSLLKSLKIY--GGKQTIEGRQELVDIIEEQADLDQPFDPSDPESIDRLISCLRQALPFFSRGVSSSKFVNYMCEKVLP 275 (556)
T ss_dssp HHHHHHTSGG-----GSSHHHHHHHHHHHHHHHTTTS---SSSHHHHHHHHHHHHHHGGG-BTTB--HHHHHHHHHHTCC
T ss_pred HHHHHHhCccc--cccCChHHHHHHHHHHHHHhccCCCCCCcCHHHHHHHHHHHHHhhHHhcCCCChHHHHHHHHHHhcC
Confidence 98888887754 34456777777888777644 2444666666667665543222000000012223444444444444
Q ss_pred hcCcccHHHHHHHHHcC----CCC---Chh---HHHHHHHh-------cccccccccHHHHHHHHHHHhccccc
Q 003522 654 DLDKSSIEHVLRQLRKL----PWS---DCE---SYLLKCFM-------KVHKGKYGQIHLIASLTAGLSRYHDE 710 (813)
Q Consensus 654 ~L~~~~~~~vlk~lrKl----~W~---d~~---~~l~k~~~-------~~~k~ky~nI~~lA~ll~~L~~~~~~ 710 (813)
.|+....+.=+++|+.+ |.. |.. ..++..|. ...+.+|+.+.++=-....|++..|+
T Consensus 276 ~l~~l~e~~kl~lLk~lAE~s~~~~~~d~~~~L~~i~~~L~~ymP~~~~~~~l~fs~vEcLL~afh~La~k~p~ 349 (556)
T PF05918_consen 276 KLSDLPEDRKLDLLKLLAELSPFCGAQDARQLLPSIFQLLKKYMPSKKTEPKLQFSYVECLLYAFHQLARKSPN 349 (556)
T ss_dssp CTT-----HHHHHHHHHHHHHTT----THHHHHHHHHHHHHTTS----------HHHHHHHHHHHHHHHTT-TH
T ss_pred ChhhCChHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHHHhCCCCCCCCcccchHhhHHHHHHHHHhhhCcc
Confidence 45544444444444433 111 111 12344442 13566677777777777777777776
No 12
>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=63.89 E-value=9.2 Score=35.28 Aligned_cols=105 Identities=17% Similarity=0.098 Sum_probs=73.8
Q ss_pred hhhhheeecCCCCchhhhhhccchhHhhhHHHHHHHHHHHhhhc-ccchHHHHHHHHHHhccccCchHHHHHHHhhhcCC
Q 003522 10 QLIMFILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGL-WLTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFP 88 (813)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~l~ky~~ei~~~~~e~~~~~-~~dI~aaVeI~S~LHQRy~~Ft~~Ll~~l~~~~~~ 88 (813)
.++|=-+.+.|.+.+..+|+.++ +.+|..+++.-+++..... ..+-..+..+++.|.++=.-++..+..||...+.
T Consensus 7 ~~l~ey~~~~d~~ea~~~l~el~--~~~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~~~~~~~~~~~gf~~~l~- 83 (113)
T PF02847_consen 7 SILMEYFSSGDVDEAVECLKELK--LPSQHHEVVKVILECALEEKKSYREYYSKLLSHLCKRKLISKEQFQEGFEDLLE- 83 (113)
T ss_dssp HHHHHHHHHT-HHHHHHHHHHTT---GGGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHH-
T ss_pred HHHHHHhcCCCHHHHHHHHHHhC--CCccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh-
Confidence 45666677889999999999998 7799999998777666555 5889999999999998876778888888877662
Q ss_pred CCCCCchhhhhhhhhhhhhhhhhhhhheeeeeec
Q 003522 89 GKSGEDLDADRNLKAMKKRSTLKLLLELYFIGII 122 (813)
Q Consensus 89 ~~~~~~~ekee~~ri~K~R~~LRll~EL~LvGV~ 122 (813)
..+.-....+...+..-++++.++.-|++
T Consensus 84 -----~l~Dl~~D~P~~~~~la~~~~~~i~~~~l 112 (113)
T PF02847_consen 84 -----SLEDLELDIPKAPEYLAKFLARLIADGIL 112 (113)
T ss_dssp -----HHHHHHHHSTTHHHHHHHHHHHHHHTTSS
T ss_pred -----HhhhccccchHHHHHHHHHHHHHHHcCCc
Confidence 11112233445556666677766665554
No 13
>KOG2147 consensus Nucleolar protein involved in 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=49.56 E-value=1.3e+02 Score=37.31 Aligned_cols=82 Identities=21% Similarity=0.199 Sum_probs=48.8
Q ss_pred cCCCcHHHHHHHHHHhhcCcccHHHHHHHHHcCCCCC--hhHHHHHHHhcc--cccccccHHHHHHHHHHHhcc-cccch
Q 003522 638 KVRPPLHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSD--CESYLLKCFMKV--HKGKYGQIHLIASLTAGLSRY-HDEFA 712 (813)
Q Consensus 638 k~r~p~~~fir~Li~~~L~~~~~~~vlk~lrKl~W~d--~~~~l~k~~~~~--~k~ky~nI~~lA~ll~~L~~~-~~~f~ 712 (813)
+-.|-+-.|+|.+++--..++....+ -.|+.. +-.+++.+..+. .+.....|+ +..++++ -|.|.
T Consensus 574 RyvPEvi~F~~~iL~~a~p~k~~~~~-----~~~F~~~~~lselL~l~a~~d~~~l~p~~L~-----l~~~s~~~tp~~~ 643 (823)
T KOG2147|consen 574 RYVPEVINFLRGILLLAIPEKSSQEA-----PNPFEILKSLSELLCLPANYDVTKLEPQSLS-----LIFLSSLSTPDLK 643 (823)
T ss_pred hccHHHHHHHHHHHHHhccccccccc-----CCCcccCCCcchhhccccccccccccccccc-----hhhhcCCCChhHH
Confidence 34466789999999888776554411 122222 234555555543 333333444 2344443 57899
Q ss_pred hhhhhhHHHHHHhhhcC
Q 003522 713 VAVVDEVLEEIRLGLEL 729 (813)
Q Consensus 713 v~vVD~vlE~Ir~gLE~ 729 (813)
+.|.+.+|+-|.....+
T Consensus 644 ~svL~~~l~li~~~~~i 660 (823)
T KOG2147|consen 644 VSVLRAVLELIEHLVLI 660 (823)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999988764443
No 14
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=47.10 E-value=27 Score=42.78 Aligned_cols=113 Identities=21% Similarity=0.328 Sum_probs=61.5
Q ss_pred hhcCcccHHHHHHHHHcCCCCC-----hhHHHHHHHhccccccc----ccHHHHHHHHHHHhccc-ccchhhhhhhHHHH
Q 003522 653 SDLDKSSIEHVLRQLRKLPWSD-----CESYLLKCFMKVHKGKY----GQIHLIASLTAGLSRYH-DEFAVAVVDEVLEE 722 (813)
Q Consensus 653 ~~L~~~~~~~vlk~lrKl~W~d-----~~~~l~k~~~~~~k~ky----~nI~~lA~ll~~L~~~~-~~f~v~vVD~vlE~ 722 (813)
..|+..++.++..-|-.| |.. ...++.+.+.+.-...+ +-+..-|.|++.|.+-+ -.|+.+.+-..+|.
T Consensus 328 NKLSdaNi~~I~~~i~~L-y~~~sr~~v~~sLtk~l~~~~~~~~~~ld~~~~~y~AL~~~l~~~vg~eigahf~q~~ve~ 406 (822)
T KOG2141|consen 328 NKLSDANIIKIIAGIAEL-YMNNSRYDVTSSLTKLLLKALLGPFRLLDSLLTTYAALAAMLHTMVGNEIGAHFLQTFVED 406 (822)
T ss_pred HHHHHHHHHHHHHHHHHH-HHhcchhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 345555566665555555 432 23344444444333333 33334444555555532 24555555555555
Q ss_pred HHhhhcC---CCchhHHHHHHHHHHHHHhhhcccCChhHHHHHHHHHh
Q 003522 723 IRLGLEL---NDYGMQQRRLAHMRFLGELYNYEHVDSSVIFDTLYLIL 767 (813)
Q Consensus 723 Ir~gLE~---N~~~~nQrRia~vkyLgELYny~lv~s~vIfdtLY~ii 767 (813)
.-.-++. ++-+ .-.-..-+-+|+.||||++|.+..|+|.+-.++
T Consensus 407 f~~~~~~~~~~~~~-~K~~~Nl~~~l~ylynF~ivs~~LiydiI~kl~ 453 (822)
T KOG2141|consen 407 FLKSYKEEEEMDLK-DKSLNNIVLFLSYLYNFGIVSCSLIYDIIRKLA 453 (822)
T ss_pred HHHHHHHHHhcccc-cchhhhHHHHHHHHHHhhcccHHHHHHHHHHHH
Confidence 4433321 1111 222345688999999999999999999876443
No 15
>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=45.02 E-value=32 Score=31.77 Aligned_cols=105 Identities=17% Similarity=0.055 Sum_probs=72.9
Q ss_pred hhhhheeecCCCCchhhhhhccchhHhhhHHHHHHHHHHHhhhcc-cchHHHHHHHHHHhccccCchHHHHHHHhhhcCC
Q 003522 10 QLIMFILVSDDCTKFPFCIKNKSNCICKYIANIYIYTYTLLLGLW-LTLVYFLKICSLLHQRYKDFSPCLIDGLLKVFFP 88 (813)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~l~ky~~ei~~~~~e~~~~~~-~dI~aaVeI~S~LHQRy~~Ft~~Ll~~l~~~~~~ 88 (813)
.++|=-+.++|.+....||+.|. +.+|-.|++..+++...--+ ..-..+..+.+.|+++=.-++..+..+|...+..
T Consensus 7 ~~l~ey~~~~D~~ea~~~l~~L~--~~~~~~~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~~~~~~~~~~~~f~~~~~~ 84 (113)
T smart00544 7 LIIEEYLSSGDTDEAVHCLLELK--LPEQHHEVVKVLLTCALEEKRTYREMYSVLLSRLCQANVISTKQFEKGFWRLLED 84 (113)
T ss_pred HHHHHHHHcCCHHHHHHHHHHhC--CCcchHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHhh
Confidence 34555578899999999999998 55899999876665544324 6888899999999977667888888888887631
Q ss_pred CCCCCchhhhhhhhhhhhhhhhhhhhheeeeeec
Q 003522 89 GKSGEDLDADRNLKAMKKRSTLKLLLELYFIGII 122 (813)
Q Consensus 89 ~~~~~~~ekee~~ri~K~R~~LRll~EL~LvGV~ 122 (813)
- ++. +...+...+..=++++-+..-|++
T Consensus 85 l---~dl---~~D~P~a~~~la~~~a~~v~~~~l 112 (113)
T smart00544 85 I---EDL---ELDIPNAWRNLAEFVARLISDGIL 112 (113)
T ss_pred C---hhh---hcccccHHHHHHHHHHHHHHcCCC
Confidence 1 111 222345555666666666655554
No 16
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=42.31 E-value=2.8e+02 Score=28.87 Aligned_cols=70 Identities=16% Similarity=0.229 Sum_probs=45.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCChhhHHHH-HHHHHHHHHHHHHHHHHH
Q 003522 186 ITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSY-EKLRKSYDHLYRNVSSLA 259 (813)
Q Consensus 186 is~e~q~~~r~ll~~Y~~al~~~l~~~hk~L~~~ek~n~~~~i~~Gel~eE~~~~y-e~l~k~yEkL~~~~~sLA 259 (813)
++.|.|+.+.+..+.+.+.....+..-.+...+.- +.+...|+++||....+ +++++.-++....+..+.
T Consensus 105 lT~E~R~elvK~~k~~~E~aKv~iRniRr~~~~~i----Kk~~k~~~iseD~~k~~e~eiQkltd~~i~~id~~~ 175 (185)
T PRK00083 105 LTEERRKELVKQVKKEAEEAKVAIRNIRRDANDKL----KKLEKDKEISEDELKRAEDEIQKLTDKYIKKIDELL 175 (185)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhhcCCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999887765544333322222 23345799999865554 445666666655555443
No 17
>cd07599 BAR_Rvs167p The Bin/Amphiphysin/Rvs (BAR) domain of Saccharomyces cerevisiae Reduced viability upon starvation protein 167 and similar proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of fungal proteins with similarity to Saccharomyces cerevisiae Reduced viability upon starvation protein 167 (Rvs167p) and Schizosaccharomyces pombe Hob1 (homolog of Bin1). S. cerevisiae Rvs167p plays a role in regulation of the actin cytoskeleton, endocytosis, and sporulation. It forms a heterodimer with another BAR domain protein Rvs161p. Rvs161p and Rvs167p share common functions but are not interchangeable. Their BAR domains cannot be replaced with each other and the overexpression of one cannot suppress the mutant phenotypes of the other. Rvs167p also interacts with the GTPase activating protein (GAP) Gyp5p, which is involved in ER to Golgi vesicle trafficking. BAR domains fo
Probab=41.62 E-value=81 Score=32.93 Aligned_cols=72 Identities=18% Similarity=0.298 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCC
Q 003522 200 TYYNAVQELLQAEHTSLRQMENENAKI---LNAKGELSEENSSSYEKLRKSYDHLYRNVSSLAEALDMQPPVMPE 271 (813)
Q Consensus 200 ~Y~~al~~~l~~~hk~L~~~ek~n~~~---~i~~Gel~eE~~~~ye~l~k~yEkL~~~~~sLAe~L~~~mP~Lp~ 271 (813)
.||..+-+.+.+.+.++...++.+++. +..+++.+....+...++.+.++.-..--..|=+.|-.++|.|-.
T Consensus 107 ~~~~~i~k~IkKR~~k~lDyd~~~~k~~k~~~~k~~~~~kd~~kl~kae~~l~~a~~~y~~lN~~Lk~eLP~l~~ 181 (216)
T cd07599 107 KYIKKIRKTIKKRDHKKLDYDKLQNKLNKLLQKKKELSLKDEKQLAKLERKLEEAKEEYEALNELLKSELPKLLA 181 (216)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 588888899998888888888776643 666788888777777777777777766667777777788887643
No 18
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=38.15 E-value=2e+02 Score=36.64 Aligned_cols=130 Identities=16% Similarity=0.230 Sum_probs=86.0
Q ss_pred cccCChhhHHHHHHHHHHHHHHhhccCCChhHHHHHHHhhhhcCCCccccccccCCCcHHHHHHHHHHhhcCcccHHHHH
Q 003522 585 FLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLLFSDLDKSSIEHVL 664 (813)
Q Consensus 585 fL~r~pet~~rm~~mLe~m~rkk~~~~L~~r~~~lieNa~y~~~PP~~~~~~~k~r~p~~~fir~Li~~~L~~~~~~~vl 664 (813)
|-+-.|.||..+..+|+ ..+..+...|=.=+..|+-|.=.. .+|. -|+.|+..|+
T Consensus 420 ftf~~P~s~eel~~lL~---------~~~~~~~~~iI~RIrk~~hpsLa~-~NK~--Kl~~f~~vLl------------- 474 (840)
T PF04147_consen 420 FTFPCPSSHEELLELLD---------GYSPEDQPTIIQRIRKCYHPSLAE-GNKE--KLQVFFGVLL------------- 474 (840)
T ss_pred ceecCCCCHHHHHHHHh---------cCCHHHHhHHHHHHHHhCCCCCCc-chHH--HHHHHHHHHH-------------
Confidence 56788999988777765 223333333434455777775211 1222 3888888887
Q ss_pred HHHHcCCCCChhHHHHHHHhcccccccccHHHHHHHHHHHhcccccchhhhhhhHHHHHHhhhcC-----C-CchhHHHH
Q 003522 665 RQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVLEEIRLGLEL-----N-DYGMQQRR 738 (813)
Q Consensus 665 k~lrKl~W~d~~~~l~k~~~~~~k~ky~nI~~lA~ll~~L~~~~~~f~v~vVD~vlE~Ir~gLE~-----N-~~~~nQrR 738 (813)
.|+..+........|..|..|+..|..|+..+|..+..++=.+|..|..-+.. + .-+.+..=
T Consensus 475 ------------q~i~~la~~~~~~~~~~ld~L~~~L~~Laq~~p~~~a~~~r~~L~~~~~~~~~~~l~~~~~~~P~l~~ 542 (840)
T PF04147_consen 475 ------------QHILYLASQDSPPPFEVLDSLIPHLYDLAQKYPEEAAECFREVLKEMQKRFRKGALKPKERSWPSLSD 542 (840)
T ss_pred ------------HHHHHHhcccCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCChhH
Confidence 44444444444677888999999999999999998888887777777443332 1 12556677
Q ss_pred HHHHHHHHHhhhc
Q 003522 739 LAHMRFLGELYNY 751 (813)
Q Consensus 739 ia~vkyLgELYny 751 (813)
+...|.+|-||--
T Consensus 543 Lvllklv~~lFPT 555 (840)
T PF04147_consen 543 LVLLKLVGTLFPT 555 (840)
T ss_pred HHHHHHHHHhcCc
Confidence 8888888888753
No 19
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=37.80 E-value=3.7e+02 Score=27.70 Aligned_cols=70 Identities=16% Similarity=0.245 Sum_probs=46.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCChhhHHHH-HHHHHHHHHHHHHHHHHH
Q 003522 186 ITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSY-EKLRKSYDHLYRNVSSLA 259 (813)
Q Consensus 186 is~e~q~~~r~ll~~Y~~al~~~l~~~hk~L~~~ek~n~~~~i~~Gel~eE~~~~y-e~l~k~yEkL~~~~~sLA 259 (813)
++.|.|+.+.+..+.+++.....+....+...+.- +.+...|+++||....+ +++++..++....+..+.
T Consensus 96 lT~E~RkelvK~~k~~~E~aKv~iRniRr~~~~~i----Kk~~k~~~iseD~~k~~~~~iQkltd~~i~~id~~~ 166 (176)
T TIGR00496 96 LTEERRKELVKHAKKIAEQAKVAVRNVRRDANDKV----KKLEKDKEISEDEERRLQEEIQKLTDEYIKKIDEIL 166 (176)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhhcCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999887665554333333222 23335788997765554 456777777776666554
No 20
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=35.78 E-value=41 Score=41.45 Aligned_cols=91 Identities=16% Similarity=0.275 Sum_probs=77.1
Q ss_pred hHHHHHHHhhccCCCCCCCchHHHHHHHHhcccchhhHHHHHHHHHHHHHHhhhhccccccchhhce-eeeeeccccccc
Q 003522 472 NRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRN-IRFIGELCKFKI 550 (813)
Q Consensus 472 ~RkrLvk~l~~v~r~r~dlLP~YaR~vAtl~~~~~Dv~~~lv~~L~~~Fr~~~~kk~~~~~e~kiKn-irfi~EL~KF~l 550 (813)
.|..++..|..+-..-...+|.|+=||--+|.--+++|.++++++-.+|.-.+++.+ -| +.|+ +||++-|.-=+|
T Consensus 64 ~~~~iL~~L~~ca~~lP~K~~~yaTLvgllN~kn~~fg~~~v~~~~~~~q~sl~~~~-~n---~ar~llrfL~dL~~~~v 139 (759)
T KOG1104|consen 64 FKSKILDILNTCAVYLPEKITAYATLVGLLNLKNFNFGGEFVEYMIEELQESLKSGN-WN---EARYLLRFLSDLSNCHV 139 (759)
T ss_pred HHHHHHHHHHHHHHHcccchhHHHHHHHHHhccchhhHHHHHHHHHHHHHHHhhcCC-hH---HHHHHHHHHHHHhcCCc
Confidence 677888888887777889999999999999999999999999999999987776532 11 2333 899999999999
Q ss_pred cChhhHHHHHHHHhhc
Q 003522 551 APAGLVFSCLKACLDD 566 (813)
Q Consensus 551 vP~~~if~~lk~ll~d 566 (813)
++...+...+..+++.
T Consensus 140 l~~~sli~l~esl~~~ 155 (759)
T KOG1104|consen 140 LQADSLINLFESLLDA 155 (759)
T ss_pred cChHHHHHHHHHHHHH
Confidence 9999999999988775
No 21
>PF13764 E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4
Probab=35.36 E-value=6.8e+02 Score=31.92 Aligned_cols=147 Identities=18% Similarity=0.203 Sum_probs=76.1
Q ss_pred chhHHHHHhhCCCCC----ChhHHHHHHHHHhh-ccCchhHHHHHHHhhccCCCCCCCchHHHHHHHHhcccchhhH---
Q 003522 438 GTNLDALLQRLPGCV----SRDLIDQLTVEFCY-LNSKSNRKRLVRALFNVPRTSLELLPYYSRMVATLSTCMKDVS--- 509 (813)
Q Consensus 438 ~~~ld~fl~~Lp~~~----nrd~ID~~aveF~~-lN~Ka~RkrLvk~l~~v~r~r~dlLP~YaR~vAtl~~~~~Dv~--- 509 (813)
..-++.+|..|+.+. .|+.++.+..=|-+ .+.|.||++|++ + .--.||+.++..++.+-.
T Consensus 116 ~gGL~~ll~~l~~~~~~~~~~~ll~~llkLL~~c~Kv~~NR~~Ll~-~-----------~al~~LL~~L~~~l~~~~~~~ 183 (802)
T PF13764_consen 116 CGGLEVLLSRLDSIRDFSRGRELLQVLLKLLRYCCKVKVNRRALLE-L-----------NALNRLLSVLNRALQANQNSS 183 (802)
T ss_pred CCCHHHHHHHHHhhccccCcHHHHHHHHHHHHHHHhhHHHHHHHHH-c-----------CCHHHHHHHHHHHHhCccccc
Confidence 345677777777765 47888887543322 677999999988 2 224578888876665422
Q ss_pred -HHHHHHHHHHHHHhhhhccccccchhhceeeeeeccccccccChhhHHHHHHHHhh----cCCCchHHHHHHHHhhhcc
Q 003522 510 -SMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLD----DFTHHNIDVACNLLETCGR 584 (813)
Q Consensus 510 -~~lv~~L~~~Fr~~~~kk~~~~~e~kiKnirfi~EL~KF~lvP~~~if~~lk~ll~----dfs~~nIei~c~llE~CGR 584 (813)
.++++.|-.--..++...+...+.. ...+ ..-|+.- ....+.+..+|+ .+...|--++-.+.--.+.
T Consensus 184 ~~~i~E~LL~IiE~ll~ea~~~~~~~---~~~~---~~~~~~~--~~~~~~v~~lL~~l~s~~~r~~~~i~~~l~RiLP~ 255 (802)
T PF13764_consen 184 QAEIAEQLLEIIESLLSEANSSSSSE---SKSS---SSLSGSE--EQDKEQVEMLLERLNSPFVRSNPQILQALARILPF 255 (802)
T ss_pred cchHHHHHHHHHHHHHHHHhhhhhhh---cccc---ccccccc--cccHHHHHHHHHHhcCccccCCHHHHHHHHHHhhH
Confidence 3333333333333443322211111 0000 1111100 223444444444 3444455556666555565
Q ss_pred cccCChhhHHHHHHHHHHHHHHh
Q 003522 585 FLYRSPETSIRMANMLEILMRLK 607 (813)
Q Consensus 585 fL~r~pet~~rm~~mLe~m~rkk 607 (813)
.=|-+ ...|..+++.+++.-
T Consensus 256 Lt~G~---~e~m~~Lv~~F~p~l 275 (802)
T PF13764_consen 256 LTYGN---EEKMDALVEHFKPYL 275 (802)
T ss_pred HhcCC---HHHHHHHHHHHHHhc
Confidence 55554 456777777776533
No 22
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=35.16 E-value=3.7e+02 Score=28.28 Aligned_cols=85 Identities=20% Similarity=0.271 Sum_probs=47.4
Q ss_pred ccCCCCCCCchhhHhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCChhhHHHH-HH
Q 003522 165 LGLPLSGPGQEIYEEFFKGLNITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSY-EK 243 (813)
Q Consensus 165 lG~~~~~~~~~~~~~~~~~~~is~e~q~~~r~ll~~Y~~al~~~l~~~hk~L~~~ek~n~~~~i~~Gel~eE~~~~y-e~ 243 (813)
||+.|..-|....- .++ .++.|.|+.+.+..+.|.+...-.+..-.+.....- +-....|+++||....+ ++
T Consensus 89 LglnP~~dG~~IRv-~~P--~lTeErRkelvK~~k~~~EeakvaiRniRrda~d~i----KK~~K~~~isEDe~k~~e~~ 161 (187)
T COG0233 89 LGLNPNNDGNVIRV-PLP--PLTEERRKELVKVAKKYAEEAKVAVRNIRRDANDKI----KKLEKDKEISEDEVKKAEEE 161 (187)
T ss_pred CCCCcCcCCCeEEe-cCC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHhccCCcchHHHHHHHHH
Confidence 67777643322111 111 278999999999999999865543333222222222 23445888988764433 45
Q ss_pred HHHHHHHHHHHHH
Q 003522 244 LRKSYDHLYRNVS 256 (813)
Q Consensus 244 l~k~yEkL~~~~~ 256 (813)
++|..+...+-+.
T Consensus 162 iQKlTd~yi~~iD 174 (187)
T COG0233 162 IQKLTDEYIKKID 174 (187)
T ss_pred HHHHHHHHHHHHH
Confidence 5555555544433
No 23
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=34.93 E-value=4.1e+02 Score=27.38 Aligned_cols=70 Identities=19% Similarity=0.243 Sum_probs=44.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCChhhHHHH-HHHHHHHHHHHHHHHHHH
Q 003522 186 ITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSY-EKLRKSYDHLYRNVSSLA 259 (813)
Q Consensus 186 is~e~q~~~r~ll~~Y~~al~~~l~~~hk~L~~~ek~n~~~~i~~Gel~eE~~~~y-e~l~k~yEkL~~~~~sLA 259 (813)
++.|.|+.+.+..+.+++.....+....+...+.- +-....|++++|....+ +++++..++....+..+.
T Consensus 101 lT~E~R~~lvK~~k~~~E~~Kv~iRniR~~~~~~l----Kk~~k~~~iseD~~k~~~~~iqkltd~~i~~id~~~ 171 (179)
T cd00520 101 LTEERRKELVKDAKKIAEEAKVAIRNIRRDANDKI----KKLEKEKEISEDEVKKAEEDLQKLTDEYIKKIDELL 171 (179)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhhccCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999887766554333333322 23345688897665444 455666666665555443
No 24
>KOG0414 consensus Chromosome condensation complex Condensin, subunit D2 [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=34.21 E-value=4.7e+02 Score=34.50 Aligned_cols=197 Identities=23% Similarity=0.288 Sum_probs=110.9
Q ss_pred CCCchHHHH--HHHHhhhcccccCChhhHHHHHHHHHHHHHHhhccCCChhHHHHHHHhhh--hcCCCccccccccCCCc
Q 003522 567 FTHHNIDVA--CNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRHVTLVENAYY--LCKPPERSARVSKVRPP 642 (813)
Q Consensus 567 fs~~nIei~--c~llE~CGRfL~r~pet~~rm~~mLe~m~rkk~~~~L~~r~~~lieNa~y--~~~PP~~~~~~~k~r~p 642 (813)
|++.+-||. --||=.| |.|.=+-+..-|++|+.+.+++-+. -.-+|+|||- +.+||.......+ .-
T Consensus 551 ~s~t~teV~E~Idfl~~c--~~F~I~gae~~irkMl~LVWskd~~------i~e~v~~ayk~l~~~~~~n~~~~e~--~~ 620 (1251)
T KOG0414|consen 551 FSKTTTEVKEAIDFLVRC--KQFGIDGAEFGIRKMLPLVWSKDKE------IREAVENAYKQLYFRPDGNSKASEA--SS 620 (1251)
T ss_pred hcCChHHHHHHHHHHHHH--HHhCCCcHHHHHHHHhhhhhCCCcc------HHHHHHHHHHHHhccCCCCchhhHH--HH
Confidence 555555554 2233344 3556677889999999999975444 5567999995 4666654433212 33
Q ss_pred HHHHHHHHHHhh-c-CcccHHHHHHHHHcCCCCChh--HHHHHHHh-cccccccccHHHHHHHHHHHhcccccchhhhhh
Q 003522 643 LHQYIRKLLFSD-L-DKSSIEHVLRQLRKLPWSDCE--SYLLKCFM-KVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVD 717 (813)
Q Consensus 643 ~~~fir~Li~~~-L-~~~~~~~vlk~lrKl~W~d~~--~~l~k~~~-~~~k~ky~nI~~lA~ll~~L~~~~~~f~v~vVD 717 (813)
+-+++-+|.+.. + ...+++.|+..|-.=..=|+. ..|...|+ +..-..-.....=-.+|.-+++..|+++-.=.|
T Consensus 621 ia~NL~~l~~~~s~~d~~slE~vl~~lv~~~~Id~~Vi~~Lw~~ftlq~~~~~~~q~~~sl~iL~M~s~s~~~Iv~~~~~ 700 (1251)
T KOG0414|consen 621 IAQNLSKLLIDASIGDLTSLEEVLCELVARGYIDAAVINKLWEIFTLQKKGTTNEQSRGSLIILGMASRSKPSIVLANLD 700 (1251)
T ss_pred HHHHHHHHHhcccccchhhHHHHHHHHHhCCCccHHHHHHHHHHHHHHhccCchhhhccceeehhhhhccChhhhhhhhH
Confidence 344444444433 3 345788888776542222221 22333331 211111111111113455567778888888888
Q ss_pred hHHHHHHhhhcCCCchhHHHHHHHH------HHH---HHhhhcccCChhHHHHHHHHHhhcCCCCcCCcc
Q 003522 718 EVLEEIRLGLELNDYGMQQRRLAHM------RFL---GELYNYEHVDSSVIFDTLYLILVFGHGTAETYW 778 (813)
Q Consensus 718 ~vlE~Ir~gLE~N~~~~nQrRia~v------kyL---gELYny~lv~s~vIfdtLY~ii~fGh~~~~~~~ 778 (813)
. +.+|-.|= |+.-+--++.. |.. .-=|+++.=...++|.-|+.++.||...+++.|
T Consensus 701 ~-lv~iglg~----p~l~~~~L~~~s~i~~~r~~~~~~~r~~f~~~~~~~L~k~L~~l~~~~~~~~d~~~ 765 (1251)
T KOG0414|consen 701 L-LVQIGLGE----PRLAVDVLARYSNIVDPRKLEDAYSRPKFNLEQEEVLFKILEKLLFFEFMKADDDW 765 (1251)
T ss_pred H-HHHhccCc----HHHHHHHHHHHHHhhcccccchhhccccccCchHHHHHHHHHHHHhhccCCcchHH
Confidence 7 66665442 44444322222 222 122456666778999999999999988776555
No 25
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=34.05 E-value=86 Score=38.82 Aligned_cols=94 Identities=19% Similarity=0.270 Sum_probs=69.0
Q ss_pred cHHHHHHHHHHHhcccccchhhhhhhHHHHHHhhhcCCCchhHHHHHHHHHHHHHhhhcccCChhHHHHHHHHHhhcC--
Q 003522 693 QIHLIASLTAGLSRYHDEFAVAVVDEVLEEIRLGLELNDYGMQQRRLAHMRFLGELYNYEHVDSSVIFDTLYLILVFG-- 770 (813)
Q Consensus 693 nI~~lA~ll~~L~~~~~~f~v~vVD~vlE~Ir~gLE~N~~~~nQrRia~vkyLgELYny~lv~s~vIfdtLY~ii~fG-- 770 (813)
.+++.|-|+.-|....+.|+-.+|+-+.++..-.|+.+.|..- | -.+|||..|+|..|+-++-+..++=+++.--
T Consensus 82 K~~~yaTLvgllN~kn~~fg~~~v~~~~~~~q~sl~~~~~n~a--r-~llrfL~dL~~~~vl~~~sli~l~esl~~~~~e 158 (759)
T KOG1104|consen 82 KITAYATLVGLLNLKNFNFGGEFVEYMIEELQESLKSGNWNEA--R-YLLRFLSDLSNCHVLQADSLINLFESLLDAAIE 158 (759)
T ss_pred chhHHHHHHHHHhccchhhHHHHHHHHHHHHHHHhhcCChHHH--H-HHHHHHHHHhcCCccChHHHHHHHHHHHHHHHh
Confidence 5688999999999999999999999999999998876665433 3 3689999999999999997766666555432
Q ss_pred --CCCcCCcccccccccCCCc
Q 003522 771 --HGTAETYWTHQKIVSGSGW 789 (813)
Q Consensus 771 --h~~~~~~~~~~~~~~~~~~ 789 (813)
.|.+.++|-...+-+-+||
T Consensus 159 ~~~Pqvr~D~~v~~vLs~lPw 179 (759)
T KOG1104|consen 159 ENVPQVRRDYYVYCVLSSLPW 179 (759)
T ss_pred hcCcchhhhHHHHHHHhccch
Confidence 2333344444444343443
No 26
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=32.03 E-value=1.1e+02 Score=27.73 Aligned_cols=30 Identities=20% Similarity=0.314 Sum_probs=23.0
Q ss_pred cCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 003522 183 GLNITADQKKIFKKAFHTYYNAVQELLQAE 212 (813)
Q Consensus 183 ~~~is~e~q~~~r~ll~~Y~~al~~~l~~~ 212 (813)
...+|++++..++.+...|+...-..-...
T Consensus 39 ~l~Lt~eQ~~~l~~~~~~~~~~~~~~r~~~ 68 (125)
T PF13801_consen 39 MLNLTPEQQAKLRALMDEFRQEMRALRQEL 68 (125)
T ss_dssp HS-TTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hcCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356999999999999999998766444433
No 27
>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase. The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].
Probab=29.50 E-value=98 Score=30.02 Aligned_cols=44 Identities=16% Similarity=0.245 Sum_probs=36.6
Q ss_pred HHHHHHHHHHhhhcccchHHHHHHHHHHhcccc-CchHHHHHHHhh
Q 003522 40 ANIYIYTYTLLLGLWLTLVYFLKICSLLHQRYK-DFSPCLIDGLLK 84 (813)
Q Consensus 40 ~ei~~~~~e~~~~~~~dI~aaVeI~S~LHQRy~-~Ft~~Ll~~l~~ 84 (813)
+++..||+.+. ++.+||..|+.++..+-++|+ +....+-..+++
T Consensus 52 ~~lL~AIv~sf-~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~ 96 (126)
T PF12921_consen 52 SRLLIAIVHSF-GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE 96 (126)
T ss_pred HHHHHHHHHHH-HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 57888999999 668999999999999999998 777666555543
No 28
>PF12755 Vac14_Fab1_bd: Vacuolar 14 Fab1-binding region
Probab=28.21 E-value=1.5e+02 Score=27.60 Aligned_cols=91 Identities=19% Similarity=0.156 Sum_probs=60.0
Q ss_pred cccccHHHHHHHHHHHhcccccchhhhhhhHHHHHHhhhcCCCchhHHHHHHHHHHHHHhh---hcccC-ChhHHHHHHH
Q 003522 689 GKYGQIHLIASLTAGLSRYHDEFAVAVVDEVLEEIRLGLELNDYGMQQRRLAHMRFLGELY---NYEHV-DSSVIFDTLY 764 (813)
Q Consensus 689 ~ky~nI~~lA~ll~~L~~~~~~f~v~vVD~vlE~Ir~gLE~N~~~~nQrRia~vkyLgELY---ny~lv-~s~vIfdtLY 764 (813)
-|++-+-.||.+.-+|... .-..++.++.-|-.++..+|.+- |-+.+.-|.++- .=.++ ..+-||+.|+
T Consensus 2 ~R~ggli~Laa~ai~l~~~----~~~~l~~Il~pVL~~~~D~d~rV---Ry~AcEaL~ni~k~~~~~~l~~f~~IF~~L~ 74 (97)
T PF12755_consen 2 YRKGGLIGLAAVAIALGKD----ISKYLDEILPPVLKCFDDQDSRV---RYYACEALYNISKVARGEILPYFNEIFDALC 74 (97)
T ss_pred chhHHHHHHHHHHHHchHh----HHHHHHHHHHHHHHHcCCCcHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788888888787765 77788999999999998888764 444444443332 22222 3467888888
Q ss_pred HHhhcCCCCcCCcccccccccCCCccceeeehhhhhhhhcCC
Q 003522 765 LILVFGHGTAETYWTHQKIVSGSGWLLLFLRLVVTTLTEALP 806 (813)
Q Consensus 765 ~ii~fGh~~~~~~~~~~~~~~~~~~~~fr~rl~~t~l~~~~~ 806 (813)
.++. +| | =+||--|++||..++
T Consensus 75 kl~~----D~-----------d-----~~Vr~~a~~Ld~llk 96 (97)
T PF12755_consen 75 KLSA----DP-----------D-----ENVRSAAELLDRLLK 96 (97)
T ss_pred HHHc----CC-----------c-----hhHHHHHHHHHHHhc
Confidence 8754 11 1 247777777776543
No 29
>KOG3384 consensus Selenoprotein [General function prediction only]
Probab=27.80 E-value=39 Score=33.57 Aligned_cols=39 Identities=33% Similarity=0.597 Sum_probs=33.0
Q ss_pred HHHHHHHhhc--CCCchHHHHHHHHhhhcccccCChhhHHHH
Q 003522 557 FSCLKACLDD--FTHHNIDVACNLLETCGRFLYRSPETSIRM 596 (813)
Q Consensus 557 f~~lk~ll~d--fs~~nIei~c~llE~CGRfL~r~pet~~rm 596 (813)
=+|++.|.+| |++.-+ -+.++||.||+=|-|.|+-+.-.
T Consensus 57 ~dClqCC~~d~e~~~~k~-Ya~AILEVC~ckl~~yPqiqaFi 97 (154)
T KOG3384|consen 57 PDCLQCCADDSEFSMSKV-YAGAILEVCMCKLVRYPQIQAFI 97 (154)
T ss_pred hHHHHHhhccchhHHhhh-hhHHHHHHHHhhhcccHHHHHHH
Confidence 3699999997 877777 78999999999999999876543
No 30
>PRK09458 pspB phage shock protein B; Provisional
Probab=27.24 E-value=1.4e+02 Score=26.89 Aligned_cols=40 Identities=20% Similarity=0.342 Sum_probs=36.7
Q ss_pred cCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCC
Q 003522 230 KGELSEENSSSYEKLRKSYDHLYRNVSSLAEALDMQPPVM 269 (813)
Q Consensus 230 ~Gel~eE~~~~ye~l~k~yEkL~~~~~sLAe~L~~~mP~L 269 (813)
.+.++++.++.++++...=+|+..-+++|=.+||.+-|.-
T Consensus 33 ~~~Ls~~d~~~L~~L~~~A~rm~~RI~tLE~ILDae~P~W 72 (75)
T PRK09458 33 SQGLSQEEQQRLAQLTEKAERMRERIQALEAILDAEHPNW 72 (75)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCc
Confidence 3459999999999999999999999999999999999864
No 31
>PF03874 RNA_pol_Rpb4: RNA polymerase Rpb4; InterPro: IPR005574 The eukaryotic RNA polymerase subunits RPB4 and RPB7 form a heterodimer that reversibly associates with the RNA polymerase II core. Archaeal cells contain a single RNAP made up of about 12 subunits, displaying considerable homology to the eukaryotic RNAPII subunits. The RPB4 and RPB7 homologs are called subunits F and E, respectively, and have been shown to form a stable heterodimer. While the RPB7 homologue is reasonably well conserved, the similarity between the eukaryotic RPB4 and the archaeal F subunit is barely detectable [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3AYH_A 3H3V_E 4A3C_D 3PO3_D 3HOX_D 2R92_D 3HOU_D 1Y77_D 2R7Z_D 3QT1_D ....
Probab=24.16 E-value=79 Score=29.70 Aligned_cols=79 Identities=15% Similarity=0.235 Sum_probs=47.7
Q ss_pred chhhHHHHHHHHHHHHHHhhhhccccccchhhceeeeeeccccccccChhhHHHHHHHHhhcCCCchHHHHHHHHhhhc-
Q 003522 505 MKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFSCLKACLDDFTHHNIDVACNLLETCG- 583 (813)
Q Consensus 505 ~~Dv~~~lv~~L~~~Fr~~~~kk~~~~~e~kiKnirfi~EL~KF~lvP~~~if~~lk~ll~dfs~~nIei~c~llE~CG- 583 (813)
+..+-....+||.. |...... .. .-.+..+|.+|++ ....+ .-+-|..+.+++-+-++++.|+
T Consensus 36 ~~~~~~~~~~Yl~~-~~~~~~~---e~------~~~l~~~L~~~~L-~~~E~-----~qi~Nl~P~~~~El~~ii~~~~~ 99 (117)
T PF03874_consen 36 LNTIQYKTLEYLEK-FSKFQNP---ES------IKELREELKKFGL-TEFEI-----LQIINLRPTTAVELRAIIESLES 99 (117)
T ss_dssp HCHHHHHHHHHHHH-H-SSSSH---HH------HHHHHHHHTTSTS--HHHH-----HHHHHH--SSHHHHHHHSTTGTT
T ss_pred hHHHHHHHHHHHHc-cccCCCH---HH------HHHHHHHHhcccC-CHHHH-----HHHhcCCCCCHHHHHHHHHHhcc
Confidence 44555566667766 5433311 11 1233456667874 33333 3455778999999999999999
Q ss_pred ccccCChhhHHHHHHHHHHHHH
Q 003522 584 RFLYRSPETSIRMANMLEILMR 605 (813)
Q Consensus 584 RfL~r~pet~~rm~~mLe~m~r 605 (813)
|| +-.....+|+.+.+
T Consensus 100 r~------~ee~l~~iL~~v~~ 115 (117)
T PF03874_consen 100 RF------SEEDLEEILDLVSK 115 (117)
T ss_dssp TS------THHHHHHHHHHHHH
T ss_pred CC------CHHHHHHHHHHHHH
Confidence 56 45778888888765
No 32
>PRK11546 zraP zinc resistance protein; Provisional
Probab=23.64 E-value=6.4e+02 Score=25.44 Aligned_cols=24 Identities=21% Similarity=0.499 Sum_probs=20.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHH
Q 003522 185 NITADQKKIFKKAFHTYYNAVQEL 208 (813)
Q Consensus 185 ~is~e~q~~~r~ll~~Y~~al~~~ 208 (813)
.+|+|+|+.+++|.+.|+......
T Consensus 43 ~LT~EQQa~~q~I~~~f~~~t~~L 66 (143)
T PRK11546 43 PLTTEQQAAWQKIHNDFYAQTSAL 66 (143)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHH
Confidence 389999999999999999877643
No 33
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=23.56 E-value=4.4e+02 Score=22.04 Aligned_cols=72 Identities=17% Similarity=0.337 Sum_probs=53.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHcC
Q 003522 186 ITADQKKIFKKAFHTYYNAVQELLQAEHTSLRQMENENAKILNAKGELSEENSSSYEKLRKSYDHLYRNVSSLAEALD 263 (813)
Q Consensus 186 is~e~q~~~r~ll~~Y~~al~~~l~~~hk~L~~~ek~n~~~~i~~Gel~eE~~~~ye~l~k~yEkL~~~~~sLAe~L~ 263 (813)
++++.-..+.+-|..+-+.+...+...+..+..+. -.. +|+-.+...+.|++....+.++......+++.|.
T Consensus 4 vd~~~l~~~a~~~~~~~~~l~~~~~~l~~~~~~l~----~~W--~G~a~~af~~~~~~~~~~~~~~~~~L~~~~~~l~ 75 (86)
T PF06013_consen 4 VDPEQLRAAAQQLQAQADELQSQLQQLESSIDSLQ----ASW--QGEAADAFQDKFEEWNQAFRQLNEALEELSQALR 75 (86)
T ss_dssp SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHG----GGB--TSSTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----hhC--CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666676666776666666665555555552 233 6999999999999999999999999999888764
No 34
>cd00280 TRFH Telomeric Repeat binding Factor or TTAGGG Repeat binding Factor, central (dimerization) domain Homology; TRFH. Telomeres are protein/DNA complexes that make up the physical ends of eukaryotic linear chromosomes and are essential for chromosome stability, protecting the chromosome ends from degradation and end-to-end fusion. Proteins TRF1, TRF2 and Taz1 bind telomeric DNA and are also involved in recruiting interacting proteins, TIN2, and Rap1, to the telomeres. It has also been demonstrated that PARP1 associates with TRF2 and is capable of poly(ADP-ribosyl)ation of TRF2, which affects binding of TRF2 to telomeric DNA. TRF1, TRF2 and Taz1 proteins contain three functional domains: an N-terminal acidic domain, a central TRF-specific/dimerization domain, and a C-terminal DNA binding domain with a single Myb-like repeat. Homodimerization, a prerequisite to DNA binding, results in the juxtaposition of two Myb DNA binding domains.
Probab=20.84 E-value=3.7e+02 Score=28.42 Aligned_cols=140 Identities=21% Similarity=0.236 Sum_probs=96.3
Q ss_pred chHHHHHHHHhhhcccccCChhhHHHHHHHHHHHHHHhhccCCChhH-----HHHHHHhhhhcCCCccccccccCCC-c-
Q 003522 570 HNIDVACNLLETCGRFLYRSPETSIRMANMLEILMRLKNVKNLDPRH-----VTLVENAYYLCKPPERSARVSKVRP-P- 642 (813)
Q Consensus 570 ~nIei~c~llE~CGRfL~r~pet~~rm~~mLe~m~rkk~~~~L~~r~-----~~lieNa~y~~~PP~~~~~~~k~r~-p- 642 (813)
+-.+|+..++.. +.....++.+|-.+.+-+.|.-.-.+||.+. .+=+|.|+-..+-- .++-+ |
T Consensus 34 ~~rdi~e~ll~~----~~~~~a~~~k~l~i~QfLsRI~eG~~LD~~Fd~~~~~TPLESAl~v~~~I------~~E~~~~~ 103 (200)
T cd00280 34 RTRDIAEALLVG----PLKLTATQLKTLRIMQFLSRIAEGKNLDCQFENDEELTPLESALMVLESI------EKEFSLPE 103 (200)
T ss_pred HHHHHHHHHHhc----cccccccchhHhHHHHHHHHHHcCCCCCCccCCCCCcChHHHHHHHHHHH------HHhcCCcH
Confidence 456666666654 3444456778889999999999999999865 35577776643322 23444 3
Q ss_pred -HHHHHHHHHHhhcCcccHHHHHHHHHcCCCCChhHHHHHHHhcccccccccHHHHHHHHHHHhcccccchhhhhhhHHH
Q 003522 643 -LHQYIRKLLFSDLDKSSIEHVLRQLRKLPWSDCESYLLKCFMKVHKGKYGQIHLIASLTAGLSRYHDEFAVAVVDEVLE 721 (813)
Q Consensus 643 -~~~fir~Li~~~L~~~~~~~vlk~lrKl~W~d~~~~l~k~~~~~~k~ky~nI~~lA~ll~~L~~~~~~f~v~vVD~vlE 721 (813)
+|+=||+||. +-.|+-+++|=.++..+..+-+.|+.+..-+. =..|+.++..=..|||=+.----+..++
T Consensus 104 ~lhe~i~~lik-------~~aV~VCm~~g~Fk~A~eiLkr~~~d~~~~~~--r~kL~~II~~Kd~~h~~lqnFSy~~~~~ 174 (200)
T cd00280 104 TLHEEIRKLIK-------EQAVAVCMENGEFKKAEEVLKRLFSDPESQKL--RMKLLMIIREKDPAHPVLQNFSYSHFMQ 174 (200)
T ss_pred HHHHHHHHHHH-------HHHHHHHHhcCchHHHHHHHHHHhcCCCchhH--HHHHHHHHHccccccHHHHhccHHHHHH
Confidence 8999999994 56688888888777777778888887665444 4556666666667888766666666666
Q ss_pred HHHhhhc
Q 003522 722 EIRLGLE 728 (813)
Q Consensus 722 ~Ir~gLE 728 (813)
.|-.=+|
T Consensus 175 ki~~~ve 181 (200)
T cd00280 175 KMKSYVE 181 (200)
T ss_pred HHHHHHH
Confidence 6655444
No 35
>KOG2229 consensus Protein required for actin cytoskeleton organization and cell cycle progression [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=20.23 E-value=9.1e+02 Score=29.34 Aligned_cols=142 Identities=19% Similarity=0.288 Sum_probs=76.3
Q ss_pred HHHHhcccchhhHHHHHHHHHHHHHHhhhhccccccchhhceeeeeeccccccccChhhHHH---HHHHHhhcCCCchHH
Q 003522 497 MVATLSTCMKDVSSMLIQMLEEEFNFLINKKDQMNIETKIRNIRFIGELCKFKIAPAGLVFS---CLKACLDDFTHHNID 573 (813)
Q Consensus 497 ~vAtl~~~~~Dv~~~lv~~L~~~Fr~~~~kk~~~~~e~kiKnirfi~EL~KF~lvP~~~if~---~lk~ll~dfs~~nIe 573 (813)
|||-..+|+|++...+=+.|.+ +++. +- .++|+..=-+ ||=.|..--+-.-.|
T Consensus 2 F~aqv~~~yp~~~a~FP~el~d----LL~~-~~-------------------~~lp~~Lr~~i~~~LiLLrNk~~i~~~~ 57 (616)
T KOG2229|consen 2 FVAQVCPCYPEVLANFPSELKD----LLRT-NH-------------------TVLPPELREKIVKALILLRNKNLIVAED 57 (616)
T ss_pred chhhcccccHHHHHhhhHHHHH----HHHh-cc-------------------ccCCHHHHHHHHHHHHHHhccCcCCHHH
Confidence 7888999999987776665554 3332 11 2345544333 333333335556678
Q ss_pred HHHHHHhhhcccccCChhhHHHHHHHHHHHHHHhh--ccCCChhHHHHHHHhhhhcCCCccccccccCCCcHHHHHHHHH
Q 003522 574 VACNLLETCGRFLYRSPETSIRMANMLEILMRLKN--VKNLDPRHVTLVENAYYLCKPPERSARVSKVRPPLHQYIRKLL 651 (813)
Q Consensus 574 i~c~llE~CGRfL~r~pet~~rm~~mLe~m~rkk~--~~~L~~r~~~lieNa~y~~~PP~~~~~~~k~r~p~~~fir~Li 651 (813)
++..||+ |+|.++++.|---+=.+..-.|+ .++.+.-. ..-+|.|+-.++
T Consensus 58 LL~lff~-----l~~~~dk~lRkllythiv~~Ikn~n~~~kn~kl-----------------------nkslq~~~fsml 109 (616)
T KOG2229|consen 58 LLELFFP-----LLRCGDKNLRKLLYTHIVTTIKNINKKHKNDKL-----------------------NKSLQAFMFSML 109 (616)
T ss_pred HHHHHHH-----HHhcCchhHHHHHHHHHHHHHHHHHhhcccchH-----------------------HHHHHHHHHHHH
Confidence 8888887 78888888764433333332221 11111111 112333333222
Q ss_pred HhhcC---cccHHHHHHHHHcCCCCChh---HHHHHHHhcccccc
Q 003522 652 FSDLD---KSSIEHVLRQLRKLPWSDCE---SYLLKCFMKVHKGK 690 (813)
Q Consensus 652 ~~~L~---~~~~~~vlk~lrKl~W~d~~---~~l~k~~~~~~k~k 690 (813)
...=+ +..++.++.+-||==|+|.. -....||++.-+|-
T Consensus 110 ~~~d~~~ak~a~~~~~eL~kr~iW~d~~tV~i~~~acf~~~~ki~ 154 (616)
T KOG2229|consen 110 DQSDSTAAKMALDTMIELYKRNIWNDSKTVNIITTACFSKVPKIL 154 (616)
T ss_pred hCCCchhHHHHHHHHHHHHHhcccccchhHHHHHHHHhccCcHHH
Confidence 21111 22456677777777799864 34555999877763
Done!