Query 009214
Match_columns 540
No_of_seqs 268 out of 1475
Neff 7.7
Searched_HMMs 46136
Date Thu Mar 28 21:49:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009214.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009214hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2050 Puf family RNA-binding 100.0 4.6E-91 9.9E-96 719.4 39.5 475 7-536 152-643 (652)
2 cd07920 Pumilio Pumilio-family 100.0 2E-39 4.3E-44 334.4 32.9 273 19-301 10-289 (322)
3 cd07920 Pumilio Pumilio-family 100.0 3.2E-39 6.9E-44 332.9 32.5 282 7-298 34-322 (322)
4 KOG1488 Translational represso 100.0 1.2E-35 2.6E-40 311.5 20.1 278 16-298 176-495 (503)
5 PF08144 CPL: CPL (NUC119) dom 100.0 4.4E-30 9.4E-35 233.0 9.4 131 286-472 1-133 (148)
6 KOG1488 Translational represso 100.0 2E-28 4.4E-33 257.1 21.4 244 10-260 243-495 (503)
7 KOG2049 Translational represso 99.9 4.7E-27 1E-31 249.0 19.4 243 15-302 213-459 (536)
8 COG5099 RNA-binding protein of 99.9 1.1E-25 2.4E-30 249.7 22.5 268 25-301 447-724 (777)
9 COG5099 RNA-binding protein of 99.9 6E-24 1.3E-28 235.9 21.7 280 8-296 466-755 (777)
10 KOG2049 Translational represso 99.9 2.5E-23 5.5E-28 220.7 22.9 279 9-296 243-530 (536)
11 KOG2050 Puf family RNA-binding 99.9 3.9E-20 8.5E-25 193.2 29.3 416 41-509 146-591 (652)
12 KOG2188 Predicted RNA-binding 99.8 1.6E-17 3.4E-22 175.5 27.5 438 10-521 90-587 (650)
13 KOG2188 Predicted RNA-binding 99.7 1.1E-15 2.3E-20 161.8 23.5 294 2-297 256-604 (650)
14 KOG4574 RNA-binding protein (c 98.7 4.6E-08 1E-12 106.8 9.7 268 10-302 537-853 (1007)
15 KOG4574 RNA-binding protein (c 98.6 5.4E-08 1.2E-12 106.2 7.9 233 43-291 534-774 (1007)
16 PF00806 PUF: Pumilio-family R 98.4 1.6E-07 3.5E-12 63.9 2.9 35 52-86 1-35 (35)
17 smart00025 Pumilio Pumilio-lik 98.1 1.6E-06 3.4E-11 58.8 2.2 34 53-86 2-35 (36)
18 PF00806 PUF: Pumilio-family R 98.0 5.9E-06 1.3E-10 56.1 3.1 34 17-50 2-35 (35)
19 smart00025 Pumilio Pumilio-lik 97.8 1.4E-05 2.9E-10 54.1 2.5 34 17-50 2-35 (36)
20 PF08144 CPL: CPL (NUC119) dom 89.7 1.4 3.1E-05 40.2 7.5 38 4-41 49-86 (148)
21 KOG1059 Vesicle coat complex A 86.2 65 0.0014 36.6 18.6 59 53-111 219-279 (877)
22 TIGR00207 fliG flagellar motor 57.9 2.4E+02 0.0052 29.4 21.5 168 75-248 50-231 (338)
23 PRK05686 fliG flagellar motor 57.3 2.4E+02 0.0053 29.3 18.6 35 213-247 199-233 (339)
24 PF09770 PAT1: Topoisomerase I 46.1 56 0.0012 38.3 7.6 106 6-111 550-693 (808)
25 PF01602 Adaptin_N: Adaptin N 41.6 4.9E+02 0.011 28.2 16.1 41 207-247 327-371 (526)
26 PF12348 CLASP_N: CLASP N term 34.4 2.1E+02 0.0045 27.4 8.5 61 62-123 88-153 (228)
27 PF08625 Utp13: Utp13 specific 32.9 3.7E+02 0.008 24.2 9.8 81 30-110 47-137 (141)
28 PLN03083 E3 UFM1-protein ligas 32.2 8.9E+02 0.019 28.4 18.3 111 8-127 512-639 (803)
29 TIGR00207 fliG flagellar motor 29.7 3.9E+02 0.0086 27.8 10.0 97 27-124 197-294 (338)
30 PRK05686 fliG flagellar motor 26.3 7.5E+02 0.016 25.6 18.7 87 27-122 78-165 (339)
31 KOG2038 CAATT-binding transcri 25.7 1.1E+03 0.024 27.5 15.9 63 2-64 165-242 (988)
32 PF04147 Nop14: Nop14-like fam 20.9 1.4E+03 0.031 27.0 13.4 56 30-99 443-505 (840)
33 PLN03083 E3 UFM1-protein ligas 20.6 1.4E+03 0.031 26.8 13.3 47 84-132 512-558 (803)
No 1
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.6e-91 Score=719.39 Aligned_cols=475 Identities=39% Similarity=0.581 Sum_probs=425.2
Q ss_pred HHHHHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHH
Q 009214 7 IRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFI 86 (540)
Q Consensus 7 ~klv~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il 86 (540)
++||+|+|+.++|++.++++.||+|||||||++||++++|++||++|.|.+++||+++||.|+|||||+||+++|++.|+
T Consensus 152 ~klv~el~~likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI 231 (652)
T KOG2050|consen 152 DKLVSELYKLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKII 231 (652)
T ss_pred HHHHHHHHHHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhHHHHHhccchhhHHHHHHh-hCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhhhhhhHHHHHHhHHHH
Q 009214 87 SALHGHVASLLRHMVGSVVVEHAYQ-LGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASV 165 (540)
Q Consensus 87 ~~l~g~v~~L~~h~~gs~Vvq~ll~-~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~~~~k~~~i~~~~~~~ 165 (540)
++|+||+++|++|++|++||+++|+ +++.+||..|++||||++|++|++.+ ..+|.++++..|+++.+|++++..+
T Consensus 232 ~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~sn---~~Tl~kil~~~pekk~~I~~~l~~~ 308 (652)
T KOG2050|consen 232 NSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDSN---DKTLDKILAEAPEKKASILRHLKAI 308 (652)
T ss_pred HHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhccC---cccHHHHHHhChHhHHHHHHHHHHH
Confidence 9999999999999999999999998 69999999999999999999999965 8999999999999999999999999
Q ss_pred HHHHHhhCCCchhhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHH
Q 009214 166 IQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIG 245 (540)
Q Consensus 166 iq~il~K~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~~i~ 245 (540)
|+++++|+.++++|+|++|++||++|+++.+.++++.+.+- +.+|+||++||+|++.|+|++++|+||.|+|+|++|+.
T Consensus 309 I~~v~eKg~v~~tivHk~mlEy~~~ade~e~~e~l~ll~el-v~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~ 387 (652)
T KOG2050|consen 309 ITPVAEKGSVDHTIVHKLMLEYLTIADEEEKSELLELLKEL-VPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVE 387 (652)
T ss_pred hHHHhhcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH-HHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999954 89999999999999999999999999999999999999
Q ss_pred HHHhCcChhHHHHHHHhccCchHHHHHHHHHHHHHHHHHhHhCcChHHHHHHhcCCCCCCCCCHhHHHhhcccccccccc
Q 009214 246 KVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAK 325 (540)
Q Consensus 246 ~La~d~~G~~Vl~~ll~~~dDt~l~~k~I~~eL~~~l~~L~~~kyGr~vll~lL~~~~~r~~~~~~~~~L~~~~~~l~~~ 325 (540)
++|.|+|||+|+.++|+|+|||+++++.|++++.+++..+..|+|||+|++|++.|+|++||+|+.++.|++.
T Consensus 388 K~A~~~yGh~vlia~ldc~DDT~l~kk~i~~e~~~el~~li~Dk~Grrv~lyll~p~D~~~f~~e~ie~l~~~------- 460 (652)
T KOG2050|consen 388 KIANDEYGHLVLIALLDCTDDTKLLKKLIYDELKSELKSLISDKYGRRVILYLLAPRDGRYFVPEFIEVLEEL------- 460 (652)
T ss_pred HHHhhccCceehhhhhcccchHHHHHHHHHHHHHHHHHHHhccchhhhhhhhhccCCccccccHHHHHHHHhc-------
Confidence 9999999999999999999999999999999999999999999999999999999999999999999887742
Q ss_pred cCcccchhhcccchhhhhhHHHHhhhhccCCCCCCCCCCCCCCCCCChHHHHHHHHhhcCCcHHHHHHHHhcHHHHhhcc
Q 009214 326 EGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSN 405 (540)
Q Consensus 326 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~sKKd~~~Rr~EL~~~~~~~~~l~~~~~~~~~~l~~~~ 405 (540)
| .+..|||||.+||.||+. +++|.|+.+|.+|+++++.++
T Consensus 461 -------------------------d-------------~~k~sKKdp~vRr~eLla--~isp~lis~~s~~aeeil~e~ 500 (652)
T KOG2050|consen 461 -------------------------D-------------SNKHSKKDPLVRRIELLA--AISPSLISLLSENAEEILAEA 500 (652)
T ss_pred -------------------------c-------------cccccccCHHHHHHHHHH--hhhHHHHHHHHHhHHHHHHHh
Confidence 2 346799999999999997 599999999999999999999
Q ss_pred CcchHHHHHHhcCCCCCcCCcchhhHHHHHHHHHHHhc-ccCCccchhhhhhhcchhhHHHH------------HHHhcC
Q 009214 406 FGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLAS-ESKSEASEEEHVLENFHSSRTIR------------KLVMDC 472 (540)
Q Consensus 406 ~g~~vi~e~l~~~~~~~~~~~~~d~~~~~~~ai~~~~~-~~~~~~~~~~~~~~~~~~~r~lk------------~li~~~ 472 (540)
+||+|+++.++++..|.+.+ |+-+.+.+++-..-. .|... ...-|..+.|.++.++. .+..+.
T Consensus 501 ~~~~~lV~~~l~~~~~~~d~---~~~q~~a~a~l~~~~~~~~~~-~~p~h~~~~~~~~~il~q~g~w~~~~~k~~~~~~~ 576 (652)
T KOG2050|consen 501 LKSQVLVEASLGAEDGDKDP---DEKQAAAEAALPAFKAIPEEA-KKPKHQEEEPAAHLILGQEGAWMHIEKKRILKNNR 576 (652)
T ss_pred hcceeeHHhhhcCcccccCh---hhHHHHHHHHHHHhccCcccc-cCCcchhcccchhhHHhccccchhHHHHHHhhhcC
Confidence 99999999999988776521 222223232221111 12211 11234445555554444 222233
Q ss_pred cchH--HHHHHHhchhhhhhhcc-cCccchhhHhhcCCCHHHHHHHHHhhccccccCCcccCccccC
Q 009214 473 PKFA--STLWKNALKGKSEFWAQ-GHSCKVVTAFLESSDFKVRELAKTELQPLIDSGSLKIPEAKQL 536 (540)
Q Consensus 473 ~~f~--~~l~~~~~~~~~~~w~~-~~~~fvv~al~e~~~~~~~~~~~~~l~~~~~~~~l~~~~~~~~ 536 (540)
+.+. ..|.+.+..++|.+||+ ++|||||+||+|++++.+.+..+..+...+.+|+++++.++++
T Consensus 577 ~g~~~~k~l~e~l~sk~L~sWa~~nrg~fvL~allE~~~~~v~~k~ka~~~r~~~~~~~~~~a~kg~ 643 (652)
T KOG2050|consen 577 EGEGVPKLLLENLSSKNLKSWASVNRGCFVLLALLETCDDQVEEKKKAKLLRLVLSGILKDSATKGA 643 (652)
T ss_pred CccccHHHHHHHhhHHHHHHHHccCcchhhHHHHHHhcCHHhhhhHHHHHHHhhhhhhcccccCccH
Confidence 4333 48888888999999999 6899999999999999999999999999999999999988875
No 2
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=100.00 E-value=2e-39 Score=334.37 Aligned_cols=273 Identities=19% Similarity=0.301 Sum_probs=248.7
Q ss_pred chHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHHhHHHHHh
Q 009214 19 GKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLR 98 (540)
Q Consensus 19 g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v~~L~~ 98 (540)
|++.+++.+|+|||++|++++++++++|..||+++.|++.+||.|+|||||+|++++++++++|..|++++.|++..|+.
T Consensus 10 ~~~~~l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~~~~l~~ 89 (322)
T cd07920 10 GHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGHVVRLSL 89 (322)
T ss_pred cchhhccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhHHHHHHhhCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhh-hhhhHHHHHHhHHHHHHHHHhhCCCch
Q 009214 99 HMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISK-LGLQKASVLRHMASVIQPILEKGIIDH 177 (540)
Q Consensus 99 h~~gs~Vvq~ll~~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~-~~~k~~~i~~~~~~~iq~il~K~~~~~ 177 (540)
|+|||+|||++++.++++++..+++++++....++.|..| ...++.+++. .++.+..+.+.+...+..+.. +
T Consensus 90 ~~~g~~vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~g--n~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~-----~ 162 (322)
T cd07920 90 DMYGCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNG--NHVIQKCIEKFPPEDLQFIIDAFKGNCVALST-----H 162 (322)
T ss_pred cchhHHHHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccc--cHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHc-----C
Confidence 9999999999999999999999999999999999999998 6788999985 466777777777665555442 2
Q ss_pred hhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhCcChhHHH
Q 009214 178 SIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVL 257 (540)
Q Consensus 178 ~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~~i~~La~d~~G~~Vl 257 (540)
...++++..++..++++.+..+++.+.++ +..|+.+++|++|+++++++++++.++.|++.+.+++.+|++|+||++|+
T Consensus 163 ~~G~~vvq~~l~~~~~~~~~~l~~~l~~~-~~~L~~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~Gs~Vv 241 (322)
T cd07920 163 PYGCRVIQRCLEHCSEEQREPLLEEILEH-ALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASNVV 241 (322)
T ss_pred ccccHHHHHHHHhCCHHHHHHHHHHHHHH-HHHHhcCCchhhHHHHHHhcCCHHHHHHHHHHHHHHHHHHHcCcchHHHH
Confidence 23446677777888899999999999887 69999999999999999999999999999999999999999999999999
Q ss_pred HHHHhccCchHHHHHHHHHHHH------HHHHHhHhCcChHHHHHHhcCC
Q 009214 258 LCIVSIVDDTKLIAKIIIRELQ------SIIKELVMDKNGRRVLLQLLHP 301 (540)
Q Consensus 258 ~~ll~~~dDt~l~~k~I~~eL~------~~l~~L~~~kyGr~vll~lL~~ 301 (540)
+++|+..+.. .++.|++++. +++.+|+.|+||++|++++|..
T Consensus 242 e~~l~~~~~~--~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~ 289 (322)
T cd07920 242 EKCLKHASKE--ERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDV 289 (322)
T ss_pred HHHHHHCCHH--HHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHh
Confidence 9999998754 3588999985 4899999999999999988875
No 3
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=100.00 E-value=3.2e-39 Score=332.87 Aligned_cols=282 Identities=17% Similarity=0.303 Sum_probs=256.1
Q ss_pred HHHHHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHH
Q 009214 7 IRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFI 86 (540)
Q Consensus 7 ~klv~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il 86 (540)
....+.+++.+.+++.+++.+++|++++|++++++++++|..|++++.|++.+||.|+||+|++|+++++++++++..|+
T Consensus 34 ~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~g~~vlqkll~~~~~~~~~~i~ 113 (322)
T cd07920 34 PEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCRVIQKLLESISEEQISLLV 113 (322)
T ss_pred HHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcccchhHHHHHHHHHhcCHHHHHHHH
Confidence 34677889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhHHHHHhccchhhHHHHHHhhCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhh-hhhhHHHHHHhHHHH
Q 009214 87 SALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISK-LGLQKASVLRHMASV 165 (540)
Q Consensus 87 ~~l~g~v~~L~~h~~gs~Vvq~ll~~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~-~~~k~~~i~~~~~~~ 165 (540)
+++++++..|+.|+||+||+|++++.++++++..|++.++|+...++.+..| +..++++++. .+..+..+++.+...
T Consensus 114 ~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~G--~~vvq~~l~~~~~~~~~~l~~~l~~~ 191 (322)
T cd07920 114 KELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYG--CRVIQRCLEHCSEEQREPLLEEILEH 191 (322)
T ss_pred HHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCccc--cHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999988 7889999995 466777788877776
Q ss_pred HHHHHhhCCCchhhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHH----
Q 009214 166 IQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMK---- 241 (540)
Q Consensus 166 iq~il~K~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk---- 241 (540)
+..+..+ ..++.+++ ..+..++++.+..+++.+.++ +..|+++++||+|+++|+.++++++|+.+++.+.
T Consensus 192 ~~~L~~d-~~Gn~vvq----~~l~~~~~~~~~~i~~~l~~~-~~~l~~~k~Gs~Vve~~l~~~~~~~~~~ii~~l~~~~~ 265 (322)
T cd07920 192 ALELVQD-QFGNYVVQ----HVLELGDPDDTSRIIEKLLGN-IVQLSCHKFASNVVEKCLKHASKEERELIIDEILASGN 265 (322)
T ss_pred HHHHhcC-CchhhHHH----HHHhcCCHHHHHHHHHHHHHH-HHHHHcCcchHHHHHHHHHHCCHHHHHHHHHHHhcCCC
Confidence 6666643 34444444 455667889999999999987 6999999999999999999999999999999984
Q ss_pred --HHHHHHHhCcChhHHHHHHHhccCchHHHHHHHHHHHHHHHHHhHhCcChHHHHHHh
Q 009214 242 --GHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQL 298 (540)
Q Consensus 242 --~~i~~La~d~~G~~Vl~~ll~~~dDt~l~~k~I~~eL~~~l~~L~~~kyGr~vll~l 298 (540)
+++.+|++|+|||||||++|++.+++ .++.|+++|.+++.+|..++|||+|+..|
T Consensus 266 ~~~~l~~l~~d~~Gn~Viq~~l~~~~~~--~~~~i~~~l~~~~~~L~~~~~G~~v~~~~ 322 (322)
T cd07920 266 ETSALDTLMKDQYGNYVIQTALDVAKEE--QRELLVEAIRPHLPSLRKSPYGKHILAKL 322 (322)
T ss_pred chhHHHHHhCCCcccHHHHHHHHhCCHH--HHHHHHHHHHHHHHHHcCCCcHHHHHHhC
Confidence 59999999999999999999999865 46999999999999999999999999754
No 4
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-35 Score=311.50 Aligned_cols=278 Identities=21% Similarity=0.278 Sum_probs=243.9
Q ss_pred HHhchHHhhhcCCChhHHHHhhhhcCCH-HHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHHhHH
Q 009214 16 KMKGKIPEIAGSHVSSRVLQTCVKYCSQ-AERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVA 94 (540)
Q Consensus 16 ~i~g~i~~la~~~~gsRvlQ~llk~~~~-e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v~ 94 (540)
.+.|++.+++.++.|||+||.-++..+. +++..||+++.+.+.+||+|.||||||||+|++|+.+++..+...++||+.
T Consensus 176 ~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvIQkffE~gt~~q~~~l~~~~~g~v~ 255 (503)
T KOG1488|consen 176 DIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVIQKFFEHGTEDQRNLLHSQIKGHVL 255 (503)
T ss_pred ccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhhccCCHHHHHHHHHHHHhhhh
Confidence 3568899999999999999999999988 999999999999999999999999999999999999999999999999999
Q ss_pred HHHhccchhhHHHHHHhhCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhhhh-hhHHHH---------------
Q 009214 95 SLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLG-LQKASV--------------- 158 (540)
Q Consensus 95 ~L~~h~~gs~Vvq~ll~~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~~~-~k~~~i--------------- 158 (540)
.|+.|+|||||+|++++..+..++..|++|+-+...++++|++| ++.++++++..| +...-|
T Consensus 256 ~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQng--nHViQK~ie~~p~~~~~Fiv~~f~~~~~~~~ls~ 333 (503)
T KOG1488|consen 256 ELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNG--NHVIQKCIETLPPDAWQFIVDFFSGDDNLLELST 333 (503)
T ss_pred hhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhccc--ceehhhhhhccChHHHHHHHHHhcCCCceeEeec
Confidence 99999999999999999999999999999999999999999999 678888888544 333222
Q ss_pred HHhHHHHHHHHHhhCCCchhh--HHH----------------HHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHH
Q 009214 159 LRHMASVIQPILEKGIIDHSI--IHR----------------VLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKI 220 (540)
Q Consensus 159 ~~~~~~~iq~il~K~~~~~~i--~h~----------------~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~V 220 (540)
..|||++||++++++.-+... +-. ++.-.++++++.++..+++.|.++ ++.|+++||.|+|
T Consensus 334 ~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~~I~~~l~~~-ll~~Sq~KfASnV 412 (503)
T KOG1488|consen 334 HKYGCRVIQRILEHCSEDQKQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDTIIIKCLLGN-LLSMSQHKFASNV 412 (503)
T ss_pred cCcccHHHHHHhhcCChHhhhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhhhHHHHHHhh-HHHHHHHHHHHHH
Confidence 357999999999977543221 111 111113567888888888889988 7999999999999
Q ss_pred HHHHHhhCCHHHHHHHHHHHHH-------HHHHHHhCcChhHHHHHHHhccCchHHHHHHHHHHHHHHHHHhHhCcChHH
Q 009214 221 GMLCVKHGSAKERKKIIKGMKG-------HIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRR 293 (540)
Q Consensus 221 v~~~L~~~~~k~Rk~Iik~lk~-------~i~~La~d~~G~~Vl~~ll~~~dDt~l~~k~I~~eL~~~l~~L~~~kyGr~ 293 (540)
+++|+.+++..+|..|++++.+ -+..|+.|+|||||||+++++++... ++.|...+..|+..|-..+||++
T Consensus 413 VEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q--~~~i~~rI~~h~~~Lrk~syGKh 490 (503)
T KOG1488|consen 413 VEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQ--RELIKSRVKPHASRLRKFSYGKH 490 (503)
T ss_pred HHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHH--HHHHHHHHHHHHHHHccCccHHH
Confidence 9999999999999999999775 47889999999999999999997777 49999999999999999999999
Q ss_pred HHHHh
Q 009214 294 VLLQL 298 (540)
Q Consensus 294 vll~l 298 (540)
++..|
T Consensus 491 Iia~l 495 (503)
T KOG1488|consen 491 IIAKL 495 (503)
T ss_pred HHHHH
Confidence 98653
No 5
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=99.96 E-value=4.4e-30 Score=232.97 Aligned_cols=131 Identities=40% Similarity=0.580 Sum_probs=115.3
Q ss_pred HhCcChHHHHHHhcCCCCCCCCCHhHHHhhcccccccccccCcccchhhcccchhhhhhHHHHhhhhccCCCCCCCCCCC
Q 009214 286 VMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADESTSPAENLPL 365 (540)
Q Consensus 286 ~~~kyGr~vll~lL~~~~~r~~~~~~~~~L~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~ 365 (540)
++|+|||+|++|||.|++++||+|.+++.|.++ | +
T Consensus 1 i~dk~gRr~llYLl~~~d~~~f~p~~i~~L~~~--------------------------------d-------------~ 35 (148)
T PF08144_consen 1 INDKYGRRVLLYLLSPRDPRYFSPEIIKLLKEG--------------------------------D-------------R 35 (148)
T ss_pred CCCccCceeeeeeccCCCcccCCHHHHHHHhhh--------------------------------c-------------c
Confidence 379999999999999999999999999999862 1 4
Q ss_pred CCCCCCChHHHHHHHHhhcCCcHHHHHHHHhcHHHHhhccCcchHHHHHHhcCCCCCcCCcchhhHHHHHHHHHHHhccc
Q 009214 366 AEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLRSNFGKEVLYEVAKGGSDDILRPTLDDKLNTLHETIASLASES 445 (540)
Q Consensus 366 ~~~sKKd~~~Rr~EL~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vi~e~l~~~~~~~~~~~~~d~~~~~~~ai~~~~~~~ 445 (540)
+.||||||++||+||++ +++|.|+++|++|+++|+++++||+||.|+|.++. ||+ .++++||+++++.+
T Consensus 36 ~~tSKKd~~~Rr~ELl~--~~sp~Ll~~i~~~~~~ll~~~~g~~~i~eiL~~~~--------gdk-~~a~~Aia~~~~~~ 104 (148)
T PF08144_consen 36 NATSKKDPEVRRKELLE--AISPPLLEAIAENAEELLSSSFGCQFITEILLSAT--------GDK-SAALEAIASLAAEP 104 (148)
T ss_pred cccccCCHHHHHHHHHH--HhhHHHHHHHHHhHHHHHhcCcccHHHHHHHhccC--------ccH-HHHHHHHHHHHhhc
Confidence 68999999999999998 59999999999999999999999999999998754 475 56777999988764
Q ss_pred --CCccchhhhhhhcchhhHHHHHHHhcC
Q 009214 446 --KSEASEEEHVLENFHSSRTIRKLVMDC 472 (540)
Q Consensus 446 --~~~~~~~~~~~~~~~~~r~lk~li~~~ 472 (540)
.++..++.|++++|+|||+||+|||++
T Consensus 105 ~~~~~~~~e~H~i~~p~~~r~lK~Liq~~ 133 (148)
T PF08144_consen 105 LFPGDIDEEYHLIEHPFGHRMLKKLIQGD 133 (148)
T ss_pred cCCCCCcCccchhcCchHHHHHHHHHHCC
Confidence 233444789999999999999999987
No 6
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=2e-28 Score=257.13 Aligned_cols=244 Identities=16% Similarity=0.217 Sum_probs=188.2
Q ss_pred HHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHH
Q 009214 10 ISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISAL 89 (540)
Q Consensus 10 v~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l 89 (540)
.+.+-..++|++.+||.+.+||||||+.|++-+..++.++++||.+++..+++|++||||+||+++..+++-.++|++.|
T Consensus 243 ~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p~~~~~Fiv~~f 322 (503)
T KOG1488|consen 243 RNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLPPDAWQFIVDFF 322 (503)
T ss_pred HHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccChHHHHHHHHHh
Confidence 34555667777888888888888888888887777777888888778888888888888888888887777777888888
Q ss_pred HH--hHHHHHhccchhhHHHHHHhhCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhhh-hhhHHHHHHhHHHHH
Q 009214 90 HG--HVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKL-GLQKASVLRHMASVI 166 (540)
Q Consensus 90 ~g--~v~~L~~h~~gs~Vvq~ll~~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~~-~~k~~~i~~~~~~~i 166 (540)
.+ ++..|+.|+|||+|||.+++.|+++|+..++.++..+...|..++.| +..++.+++.. ++.+..|.+.+.+.+
T Consensus 323 ~~~~~~~~ls~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~~~L~~dQyg--NYVIQHVie~g~~~~~~~I~~~l~~~l 400 (503)
T KOG1488|consen 323 SGDDNLLELSTHKYGCRVIQRILEHCSEDQKQPLMEEIIRNCDQLAQDQYG--NYVIQHVIEHGSPYRDTIIIKCLLGNL 400 (503)
T ss_pred cCCCceeEeeccCcccHHHHHHhhcCChHhhhHHHHHHHHHHHHHHhhhhh--hHHHHHHHhcCChhhhhhHHHHHHhhH
Confidence 77 77778888888888888888777777777777777777777777776 45666666632 333333433333332
Q ss_pred HHHHhhCCCchhhHHHHHHHHHhhCChhhHHHHHHHhhh------hHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHH
Q 009214 167 QPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSG------PLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGM 240 (540)
Q Consensus 167 q~il~K~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~------~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~l 240 (540)
..+. .+.+-..++..+|+++++..+..+++++.+ +.|..|+.|+||+|||+++|..|++.+|+.|+..+
T Consensus 401 l~~S-----q~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q~~~i~~rI 475 (503)
T KOG1488|consen 401 LSMS-----QHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQRELIKSRV 475 (503)
T ss_pred HHHH-----HHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHHHHHHHHHH
Confidence 2222 233445788888999999999999998731 35899999999999999999999999999999999
Q ss_pred HHHHHHHHhCcChhHHHHHH
Q 009214 241 KGHIGKVAHDQCGSMVLLCI 260 (540)
Q Consensus 241 k~~i~~La~d~~G~~Vl~~l 260 (540)
++|+..|-...||.+++.++
T Consensus 476 ~~h~~~Lrk~syGKhIia~l 495 (503)
T KOG1488|consen 476 KPHASRLRKFSYGKHIIAKL 495 (503)
T ss_pred HHHHHHHccCccHHHHHHHH
Confidence 99999999999999998774
No 7
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=4.7e-27 Score=248.98 Aligned_cols=243 Identities=19% Similarity=0.257 Sum_probs=215.7
Q ss_pred HHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHH---
Q 009214 15 QKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHG--- 91 (540)
Q Consensus 15 ~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g--- 91 (540)
..+.|.+.-+++++.|||++|+.+..++...-..|+.++..++.+|+.|+||++++||+++.|+.+|+..|+..+..
T Consensus 213 ~~~~~~~~~~akd~~gc~~lq~~~~~~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p~ 292 (536)
T KOG2049|consen 213 VEIQGSINLIAKDQHGCRLLQKLLSEGTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDPR 292 (536)
T ss_pred hccchhhhhhcccccCCcccccCcccCccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcCcc
Confidence 34568899999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred hHHHHHhccchhhHHHHHHhh-CCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhhhhhhHHHHHHhHHHHHHHHH
Q 009214 92 HVASLLRHMVGSVVVEHAYQL-GNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKLGLQKASVLRHMASVIQPIL 170 (540)
Q Consensus 92 ~v~~L~~h~~gs~Vvq~ll~~-~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~~~~k~~~i~~~~~~~iq~il 170 (540)
.+..++.++||++++|++++. .+.+|...++..+......+.+|.+ ++++||+++
T Consensus 293 ~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~~------------------------g~~Viq~cl 348 (536)
T KOG2049|consen 293 LFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDKN------------------------GNHVIQRCL 348 (536)
T ss_pred ceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhcc------------------------hhHHHHHHH
Confidence 589999999999999999984 6788888899999888888888855 566777666
Q ss_pred hhCCCchhhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhC
Q 009214 171 EKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHD 250 (540)
Q Consensus 171 ~K~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~~i~~La~d 250 (540)
+. .+++..+.+.+.+... +.++|.++.||.|+++||.++...+|..++.++..+...|+.|
T Consensus 349 ~~------------------f~~~~~~~l~e~i~~~-c~~iA~~~hGCcvLq~cl~~~~~~~rd~Lv~~i~~naL~Ls~d 409 (536)
T KOG2049|consen 349 RV------------------FSKEKNEFLYEAILRY-CLDLATDQHGCCVLQKCLDYSRGEQRDRLVEEISRNALLLSND 409 (536)
T ss_pred Hh------------------cCchhhhHHHHHHHHH-HHHHHHhccccchhHHHhcchhHHHHHHHHHHHHHHhHhhhcC
Confidence 52 2344555666666544 8999999999999999999999999999999999999999999
Q ss_pred cChhHHHHHHHhccCchHHHHHHHHHHHHHHHHHhHhCcChHHHHHHhcCCC
Q 009214 251 QCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHPN 302 (540)
Q Consensus 251 ~~G~~Vl~~ll~~~dDt~l~~k~I~~eL~~~l~~L~~~kyGr~vll~lL~~~ 302 (540)
+|||||||.+++--+-.. ...|+..|.++..+|+..|||++|++.||.-+
T Consensus 410 ~~GNyvVQyvl~L~~~~~--t~~i~~~L~g~~veLS~qKfgS~vVEk~L~~~ 459 (536)
T KOG2049|consen 410 PYGNYVVQYVLELNDPSC--TVNIAEKLRGHYVELSFQKFGSHVVEKLLKVR 459 (536)
T ss_pred ccccchhhhhhhhcCcch--HHHHHHhhhhHHHHHHHHhhccHHHHHHHhcC
Confidence 999999999999765443 36788999999999999999999999999864
No 8
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=1.1e-25 Score=249.68 Aligned_cols=268 Identities=18% Similarity=0.250 Sum_probs=232.4
Q ss_pred hcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHHhHHHHHhccchhh
Q 009214 25 AGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSV 104 (540)
Q Consensus 25 a~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v~~L~~h~~gs~ 104 (540)
++++.|||.||+.++--+.++...|+.++.+...+|+.|.|||||+||+|++++.+||..++..+.+++..|..|+||||
T Consensus 447 ~~Dq~g~r~LQk~Lds~s~~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~~~~~ls~~~~Gtr 526 (777)
T COG5099 447 CKDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTR 526 (777)
T ss_pred cCCcHHHHHHHHHhcccchHHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhhhHHHhhccccccH
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhC-CHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhhh-hhhHHHHHHhHHHHHHHHHhhCCCchhhHHH
Q 009214 105 VVEHAYQLG-NATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKL-GLQKASVLRHMASVIQPILEKGIIDHSIIHR 182 (540)
Q Consensus 105 Vvq~ll~~~-~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~~-~~k~~~i~~~~~~~iq~il~K~~~~~~i~h~ 182 (540)
|+|+++++. ++.|-..++.++......+++|.+|+ +.+++.++.. .++..-|+..++..+..+.. +-...+
T Consensus 527 v~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngN--HviqKci~~~~~~~~~fif~~~~~~~~~is~-----~r~Gs~ 599 (777)
T COG5099 527 VLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGN--HVIQKCIEKFNKEKNQFIFDSINENLYDLST-----HRYGSR 599 (777)
T ss_pred HHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCC--HHHHHHHHhcCccccchHHHHHHhhhHhhhc-----cccccH
Confidence 999999975 56666699999999999999999984 5888888854 45555566655555443322 223446
Q ss_pred HHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHH-HHHHHHhCcChhHHHHHHH
Q 009214 183 VLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKG-HIGKVAHDQCGSMVLLCIV 261 (540)
Q Consensus 183 ~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~-~i~~La~d~~G~~Vl~~ll 261 (540)
++..+++++..++.+.+++.+... +..++.+++|.+|++++|..+...++..|+..+.. ++.+|++|+||+.||++++
T Consensus 600 vvq~~le~~~~~~~~~~~~~Ii~~-~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i 678 (777)
T COG5099 600 VVQRCLENCNSEDKENLVEEIISN-SKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCI 678 (777)
T ss_pred HHHHHHHhccHhHHHHHHHHHHHH-HHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 777888888888889999998866 68999999999999999999999999999888777 9999999999999999999
Q ss_pred hccCchHHHHHHHHHHHHH-------HHHHhHhCcChHHHHHHhcCC
Q 009214 262 SIVDDTKLIAKIIIRELQS-------IIKELVMDKNGRRVLLQLLHP 301 (540)
Q Consensus 262 ~~~dDt~l~~k~I~~eL~~-------~l~~L~~~kyGr~vll~lL~~ 301 (540)
....+... ++.|++++.. -+..+..|.||.+|++|++..
T Consensus 679 ~~~~~~~~-~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~~ 724 (777)
T COG5099 679 KYASDSFK-RSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLDV 724 (777)
T ss_pred hcCCcchH-HHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHhh
Confidence 99987764 5778888765 278889999999999998875
No 9
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=6e-24 Score=235.88 Aligned_cols=280 Identities=15% Similarity=0.252 Sum_probs=210.8
Q ss_pred HHHHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHH-HHHHHH
Q 009214 8 RLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKK-QLAGFI 86 (540)
Q Consensus 8 klv~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e-~~~~Il 86 (540)
..++.++.++.....+|+.+.+|..++|++++||+++||......+.+++..|+.++||+|++||++++.+.+ +...|+
T Consensus 466 ~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~~~~~ls~~~~Gtrv~QK~id~~~t~~qi~~lv 545 (777)
T COG5099 466 PEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVSTDIQISLLV 545 (777)
T ss_pred HHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhhhHHHhhccccccHHHHHHHhccCchhhHHHHH
Confidence 3567788888888999999999999999999999999999999999999999999999999999999988554 444888
Q ss_pred HHHHHhHHHHHhccchhhHHHHHHhhCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhhh-hhhHHHHHHhHHHH
Q 009214 87 SALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISKL-GLQKASVLRHMASV 165 (540)
Q Consensus 87 ~~l~g~v~~L~~h~~gs~Vvq~ll~~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~~-~~k~~~i~~~~~~~ 165 (540)
+++.+++..|+.|.+|+||+|+|++..+.+-...|+..+-++.+.+..+..| +..++.+++.- .+....+...+...
T Consensus 546 ~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~G--s~vvq~~le~~~~~~~~~~~~~Ii~~ 623 (777)
T COG5099 546 EELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYG--SRVVQRCLENCNSEDKENLVEEIISN 623 (777)
T ss_pred HHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccc--cHHHHHHHHhccHhHHHHHHHHHHHH
Confidence 9999999999999999999999998877777778888888888888888887 77888888732 22222222211111
Q ss_pred HHHHHhhCCCchhhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHH-HHHHHHHHHH--
Q 009214 166 IQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKE-RKKIIKGMKG-- 242 (540)
Q Consensus 166 iq~il~K~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~-Rk~Iik~lk~-- 242 (540)
+-.+.+ +..+. .++.-++..+.+.++..++..+-...+.+++.+|+||.||++|+.++...+ |.+|++.+..
T Consensus 624 ~~~L~~-dq~GN----yvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~~~~~~~~~ril~~~~~~~ 698 (777)
T COG5099 624 SKYLSQ-DQYGN----YVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKYASDSFKRSRILNELTNRG 698 (777)
T ss_pred HHhhcc-CCcch----hhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHhccc
Confidence 111111 11222 222223334445555666665544237999999999999999999998877 5899998774
Q ss_pred -----HHHHHHhCcChhHHHHHHHhccCchHHHHHHHHHHHHHHHHHhHhCcChHHHHH
Q 009214 243 -----HIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQSIIKELVMDKNGRRVLL 296 (540)
Q Consensus 243 -----~i~~La~d~~G~~Vl~~ll~~~dDt~l~~k~I~~eL~~~l~~L~~~kyGr~vll 296 (540)
.+..|+.|.|||||+|++++....... ..+..-+...+..|...+||++++.
T Consensus 699 ~~~~~~l~~i~~d~y~Nyv~q~~~~~s~~~~~--~l~~~~i~~~~~~l~~s~~g~~i~~ 755 (777)
T COG5099 699 IEKPGFLMLILDDQYANYVIQYLLDVSPEIQR--SLLARAIKKVIPSLKKSMYGQHILA 755 (777)
T ss_pred ccCChHHHHHHHhhhcchHHHHHHhhCchhhH--HHHHHHHHHHHHHHhcCCccHHHHH
Confidence 388999999999999999998865542 4445556677788888899999874
No 10
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.91 E-value=2.5e-23 Score=220.71 Aligned_cols=279 Identities=16% Similarity=0.276 Sum_probs=217.2
Q ss_pred HHHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhH---hHHhhhcccchhHHHHHHhhcC-CHHHHHH
Q 009214 9 LISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQP---HFLSLADNTYAVHLVKKMLDNA-SKKQLAG 84 (540)
Q Consensus 9 lv~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~---~~~~L~~d~yg~~vvqkll~~~-~~e~~~~ 84 (540)
-+..++.++...+.+|..++.|..++|+++..++++||..|...+.. .|+.+|.+.||.+.+|++++.. +.+|...
T Consensus 243 ~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~ 322 (536)
T KOG2049|consen 243 SILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDPRLFVEICTNMYGTRAVQKLLGKSDSVDQISL 322 (536)
T ss_pred cHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcCccceeEeeecCchhHHHHHHHhccccHHHHHH
Confidence 35567888888899999999999999999999999999999888876 6899999999999999999876 5667888
Q ss_pred HHHHHHHhHHHHHhccchhhHHHHHHhhCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHh-hhhhhHHHHHHhHH
Q 009214 85 FISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVIS-KLGLQKASVLRHMA 163 (540)
Q Consensus 85 Il~~l~g~v~~L~~h~~gs~Vvq~ll~~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~-~~~~k~~~i~~~~~ 163 (540)
+++.+.+.+..|+++.||.||++.|+...++++...+..........++.+.+| +..|++++. ...+.|..++..+.
T Consensus 323 ~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~iA~~~hG--CcvLq~cl~~~~~~~rd~Lv~~i~ 400 (536)
T KOG2049|consen 323 FLDAIKPNFLHLIKDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCLDLATDQHG--CCVLQKCLDYSRGEQRDRLVEEIS 400 (536)
T ss_pred HHHHHHhhhHHhhhhcchhHHHHHHHHhcCchhhhHHHHHHHHHHHHHHHhccc--cchhHHHhcchhHHHHHHHHHHHH
Confidence 889999999999999999999999999888888888888888888888888887 788888877 34566665554443
Q ss_pred HHHHHHHhhCCCchhhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHH-
Q 009214 164 SVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKG- 242 (540)
Q Consensus 164 ~~iq~il~K~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~- 242 (540)
...-.+.+. ..|+..+|.++.. -.+.....+++.+.+. .++|+..|+||+|+++||+++... +..|+.+|..
T Consensus 401 ~naL~Ls~d-~~GNyvVQyvl~L----~~~~~t~~i~~~L~g~-~veLS~qKfgS~vVEk~L~~~~~~-~~~iV~ell~~ 473 (536)
T KOG2049|consen 401 RNALLLSND-PYGNYVVQYVLEL----NDPSCTVNIAEKLRGH-YVELSFQKFGSHVVEKLLKVRESS-RAQIVLELLSC 473 (536)
T ss_pred HHhHhhhcC-ccccchhhhhhhh----cCcchHHHHHHhhhhH-HHHHHHHhhccHHHHHHHhcCcch-hhHHHHHHHcc
Confidence 333332222 2233333333222 2333456788889988 599999999999999999988653 4777777776
Q ss_pred -HHHHHHhCcChhHHHHHHHhccCc--hHHHHHHHHHHHHHHHHHhHhCcChHHHHH
Q 009214 243 -HIGKVAHDQCGSMVLLCIVSIVDD--TKLIAKIIIRELQSIIKELVMDKNGRRVLL 296 (540)
Q Consensus 243 -~i~~La~d~~G~~Vl~~ll~~~dD--t~l~~k~I~~eL~~~l~~L~~~kyGr~vll 296 (540)
++.+|+.|+|||||+|++|.++.. ...++..++..+...+..|...++|+++..
T Consensus 474 ~~~~~Ll~D~ygNyViq~AL~vtk~~~~~~~~~~lv~~~~~~~~~lr~~p~~~~~~~ 530 (536)
T KOG2049|consen 474 DELDRLLRDPYGNYVIQTALRVTKVKLREDLFGLLVQKLMPRIRLLRNNPGGNIALI 530 (536)
T ss_pred ccHHHHhhCccchHHHHHHHHHhhhcccchhhHHHHHHHhhhhHHhhcCcccceeee
Confidence 999999999999999999998863 112356677777788888889999988763
No 11
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.88 E-value=3.9e-20 Score=193.15 Aligned_cols=416 Identities=16% Similarity=0.179 Sum_probs=278.3
Q ss_pred CCHHHHHHHHHH----HhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHHhHHHHHhccchhhHHHHHHhhCCHH
Q 009214 41 CSQAERDAVFEE----LQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLGNAT 116 (540)
Q Consensus 41 ~~~e~r~~I~~e----L~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v~~L~~h~~gs~Vvq~ll~~~~~~ 116 (540)
+..+.|+.++.+ +++++..|+..+..++|||.|++||++.+|+.|++++.|.++.|+..+||-+.|++++.++++.
T Consensus 146 ~~ke~R~klv~el~~likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~ 225 (652)
T KOG2050|consen 146 TPKEERDKLVSELYKLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKA 225 (652)
T ss_pred CcHHHHHHHHHHHHHHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHH
Confidence 455788877665 5789999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhHHHhhcccCCCchhhHHHHHh--hhhhhHHHHHHhHHHHHHHHHhhCCCchhhHHHHHHHHHhhCChh
Q 009214 117 QKQELLVELYSTELQLFKNLVSIKESRLVDVIS--KLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSMADKS 194 (540)
Q Consensus 117 qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~--~~~~k~~~i~~~~~~~iq~il~K~~~~~~i~h~~l~ey~~~~~~~ 194 (540)
|+..|+.+|||+...|+++..| ...+.+.+. .++++|..+.+.+.+....++.. .+..-+.++ +.. .|+
T Consensus 226 q~a~iI~sl~Ghv~kLlRH~ea--a~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~--sn~~Tl~ki----l~~-~pe 296 (652)
T KOG2050|consen 226 QKAKIINSLRGHVVKLLRHREA--AYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKD--SNDKTLDKI----LAE-APE 296 (652)
T ss_pred HHHHHHHHHhhhHHHHHhhhHH--HHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhc--cCcccHHHH----HHh-ChH
Confidence 9999999999999999999876 456666666 47899999999888887777643 121111122 211 244
Q ss_pred hHHHHHHHhhh---------hHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhCcChhHHHHHHHhccC
Q 009214 195 SAADIIQQLSG---------PLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVD 265 (540)
Q Consensus 195 ~~~~li~~L~~---------~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~~i~~La~d~~G~~Vl~~ll~~~d 265 (540)
.+.-++..+.+ ..-..|+| .++-..+.+++++.+..++..++.-+.+|+..+-|+.|-..++-..
T Consensus 297 kk~~I~~~l~~~I~~v~eKg~v~~tivH-----k~mlEy~~~ade~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a- 370 (652)
T KOG2050|consen 297 KKASILRHLKAIITPVAEKGSVDHTIVH-----KLMLEYLTIADEEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHA- 370 (652)
T ss_pred hHHHHHHHHHHHhHHHhhcchhHHHHHH-----HHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhC-
Confidence 44444444422 21234444 6777788999999999999999999999999999999988887765
Q ss_pred chHHHHHHHHHHHHHHHHHhHhCcChHHHHHHhcCC-CCCCCCCHhHHHhhcccccccccccCcccchhhcccchhhhhh
Q 009214 266 DTKLIAKIIIRELQSIIKELVMDKNGRRVLLQLLHP-NCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMA 344 (540)
Q Consensus 266 Dt~l~~k~I~~eL~~~l~~L~~~kyGr~vll~lL~~-~~~r~~~~~~~~~L~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 344 (540)
|..-||.|+..+.+++..++++.||+.|+..+|.. +|+...-..+...+....++|+..+-++-. +.++
T Consensus 371 -~aKeRK~IiK~~K~h~~K~A~~~yGh~vlia~ldc~DDT~l~kk~i~~e~~~el~~li~Dk~Grrv--------~lyl- 440 (652)
T KOG2050|consen 371 -TAKERKLIIKNMKEHVEKIANDEYGHLVLIALLDCTDDTKLLKKLIYDELKSELKSLISDKYGRRV--------ILYL- 440 (652)
T ss_pred -CHHHHHHHHHHHHHHHHHHHhhccCceehhhhhcccchHHHHHHHHHHHHHHHHHHHhccchhhhh--------hhhh-
Confidence 44457999999999999999999999999999999 555544444455444333223222211100 0000
Q ss_pred HHHHhhhhccCCCCCCCCCCCCCCCCCChHHHHHHHHhhc-----CCcH------HHHHHHHhcHHHHhhccCcchHHHH
Q 009214 345 DQEVVAVQADESTSPAENLPLAEGGKKDPRVRRQELLVSS-----GLAE------SMIDVCIENAGELLRSNFGKEVLYE 413 (540)
Q Consensus 345 ~~~~~~d~~~~~~~~~~~~~~~~~sKKd~~~Rr~EL~~~~-----~~~~------~l~~~~~~~~~~l~~~~~g~~vi~e 413 (540)
+...|+ .. -+|+.+ |++.+- +--+ .|+..++.+.=.++..+ ...+|+|
T Consensus 441 -------l~p~D~--------~~---f~~e~i--e~l~~~d~~k~sKKdp~vRr~eLla~isp~lis~~s~~-aeeil~e 499 (652)
T KOG2050|consen 441 -------LAPRDG--------RY---FVPEFI--EVLEELDSNKHSKKDPLVRRIELLAAISPSLISLLSEN-AEEILAE 499 (652)
T ss_pred -------ccCCcc--------cc---ccHHHH--HHHHhcccccccccCHHHHHHHHHHhhhHHHHHHHHHh-HHHHHHH
Confidence 000011 11 124444 555421 1122 34444555555666544 4455555
Q ss_pred HHhcC--CCCCcCCcchhhHHHHHHHHHHHhc-ccCCccchhhhhhhcchhhHHHHHHHhcCcchHHHHHHHhchhhhhh
Q 009214 414 VAKGG--SDDILRPTLDDKLNTLHETIASLAS-ESKSEASEEEHVLENFHSSRTIRKLVMDCPKFASTLWKNALKGKSEF 490 (540)
Q Consensus 414 ~l~~~--~~~~~~~~~~d~~~~~~~ai~~~~~-~~~~~~~~~~~~~~~~~~~r~lk~li~~~~~f~~~l~~~~~~~~~~~ 490 (540)
.+-.. +++.+....||+...=..+.+..+. .....+++..|++..-+..+....|.|+|. |...-..++ .
T Consensus 500 ~~~~~~lV~~~l~~~~~~~d~~~~q~~a~a~l~~~~~~~~~~~~p~h~~~~~~~~~il~q~g~------w~~~~~k~~-~ 572 (652)
T KOG2050|consen 500 ALKSQVLVEASLGAEDGDKDPDEKQAAAEAALPAFKAIPEEAKKPKHQEEEPAAHLILGQEGA------WMHIEKKRI-L 572 (652)
T ss_pred hhcceeeHHhhhcCcccccChhhHHHHHHHHHHHhccCcccccCCcchhcccchhhHHhcccc------chhHHHHHH-h
Confidence 55443 3344444555544333334433222 223455556788888888899988888762 222111111 1
Q ss_pred hcccCccchhhHhhcCCCH
Q 009214 491 WAQGHSCKVVTAFLESSDF 509 (540)
Q Consensus 491 w~~~~~~fvv~al~e~~~~ 509 (540)
-..+.|.++-..|+|....
T Consensus 573 ~~~~~g~~~~k~l~e~l~s 591 (652)
T KOG2050|consen 573 KNNREGEGVPKLLLENLSS 591 (652)
T ss_pred hhcCCccccHHHHHHHhhH
Confidence 1245677777777776543
No 12
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.80 E-value=1.6e-17 Score=175.54 Aligned_cols=438 Identities=17% Similarity=0.198 Sum_probs=269.1
Q ss_pred HHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCC-----------
Q 009214 10 ISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNAS----------- 78 (540)
Q Consensus 10 v~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~----------- 78 (540)
++.+|++.+|+..+++.++.||.++|+++..++..|-..+|.++.+++..+++|+||+||+|+++....
T Consensus 90 ~n~i~ee~~grel~l~tnqi~Sk~le~l~~f~d~~ql~~ff~~~~g~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s 169 (650)
T KOG2188|consen 90 VNSIFEEVYGRELDLATNQIGSKVLEDLLGFSDSRQLCDFFSALNGVLRSIAQHRFGSHVLESALEKLAALVGQEAALLS 169 (650)
T ss_pred ehhHHHHhccceeehhccchhHHHHHHHhccCCchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccc
Confidence 455999999999999999999999999999999999999999999999999999999999999997511
Q ss_pred ---------------HHHHHHHHHHHHHhHH-HHHhccchhhHHHHHHhhC----CHHH-HHHHHHHHH-hhHHHhhc--
Q 009214 79 ---------------KKQLAGFISALHGHVA-SLLRHMVGSVVVEHAYQLG----NATQ-KQELLVELY-STELQLFK-- 134 (540)
Q Consensus 79 ---------------~e~~~~Il~~l~g~v~-~L~~h~~gs~Vvq~ll~~~----~~~q-r~~il~e~~-g~~~~l~~-- 134 (540)
++....+++++.+++. .|+.|.+|++|+..++... .... ...+..++. +.-..-..
T Consensus 170 ~dea~~~ke~p~~t~e~~~~~m~nei~~~~~~~l~~~~~gshv~rt~~l~l~s~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (650)
T KOG2188|consen 170 EDEAAVEKEGPFVTCENLLLLMLNEISPHVLKTLMELIFGSHVLRTILLLLFSMCPIAESEHKLALRKAAHRGMDDWDAV 249 (650)
T ss_pred hhhhcccccCcccccchHHHHHHHHhhHHHHHHHHHHHHhHHHHHHHHHHHccCcchhhhHHHHHHHHHhhccccchhhh
Confidence 1234567899999999 9999999999999999742 1111 111211111 00000000
Q ss_pred -ccCCCchhhHHHHHhh----hh--------hhHH-HHHHhHHHHHHHHHhhCC---CchhhHHHHHHHHHhhCChhhHH
Q 009214 135 -NLVSIKESRLVDVISK----LG--------LQKA-SVLRHMASVIQPILEKGI---IDHSIIHRVLMEYLSMADKSSAA 197 (540)
Q Consensus 135 -~~~g~~~~~L~~il~~----~~--------~k~~-~i~~~~~~~iq~il~K~~---~~~~i~h~~l~ey~~~~~~~~~~ 197 (540)
...-+-...+..++.. .+ +-+. .+.++...++|..+.-.. ......+. +..+..+......
T Consensus 250 ~~~pqsFp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~--~~lv~~~~~~~e~ 327 (650)
T KOG2188|consen 250 TTPPQSFPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMES--PRLVTKFQLFNEK 327 (650)
T ss_pred hcChhhccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhh--hhHHHhhhhcccc
Confidence 0000001111111110 00 1122 234556666666554110 11111111 0001110000000
Q ss_pred HHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhCcChhHHHHHHHhccCchHHHHHHHHHH
Q 009214 198 DIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRE 277 (540)
Q Consensus 198 ~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~~i~~La~d~~G~~Vl~~ll~~~dDt~l~~k~I~~e 277 (540)
+-.....++++..+..++.||++++.++..++++-+..+...|++.+.+||.|+.|||+||++++.+.+.+. -..|+.|
T Consensus 328 d~~~~kE~~~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~-v~~v~ee 406 (650)
T KOG2188|consen 328 DGLWGKERSFLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLED-VGSVIEE 406 (650)
T ss_pred CcccccccHHHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHH-HHHHHHH
Confidence 000001234566777799999999999999999999777778999999999999999999999999976665 4789999
Q ss_pred HHHHHHHhHhCcChHHHHHHhcCCCCCCCCCHhHHHhhcccccccccccCcccchhhcccchhhhhhHHHHhhhhccCCC
Q 009214 278 LQSIIKELVMDKNGRRVLLQLLHPNCSRYLSPDDLSSLNLSIPSLCAKEGSEVNSEAKNNESSKEMADQEVVAVQADEST 357 (540)
Q Consensus 278 L~~~l~~L~~~kyGr~vll~lL~~~~~r~~~~~~~~~L~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~ 357 (540)
|.+++..|....|.--|. .|+.. +.| ++...-++++....+.++..
T Consensus 407 L~P~~~~LL~~g~~gVv~-sLia~-~~r-l~s~q~~~l~~Li~a~~~~~------------------------------- 452 (650)
T KOG2188|consen 407 LAPKLSSLLEQGNSGVVA-SLIAA-SAR-LGSYQDKMLQQLIQAFHAAS------------------------------- 452 (650)
T ss_pred HhHHHHHHHHcCCchHhH-HHHHH-HHh-hchhHHHHHHHHHHHHhcCC-------------------------------
Confidence 999999998776654333 33332 222 22222222222111122222
Q ss_pred CCCCCCCCCCCCCCChHHHHHHHHhhcCCcHHHHHHHHhcHHHHhh----ccCcchHHHHHHhcCCCCCcCCcchhhHHH
Q 009214 358 SPAENLPLAEGGKKDPRVRRQELLVSSGLAESMIDVCIENAGELLR----SNFGKEVLYEVAKGGSDDILRPTLDDKLNT 433 (540)
Q Consensus 358 ~~~~~~~~~~~sKKd~~~Rr~EL~~~~~~~~~l~~~~~~~~~~l~~----~~~g~~vi~e~l~~~~~~~~~~~~~d~~~~ 433 (540)
.|+|..--+ || +......+..+|-. .-.||.++.+++.... +.+..
T Consensus 453 ----------~~~k~il~~---lL--------~~~~~~g~~~~~~~t~~~h~~ga~lle~lv~f~k---------~~i~~ 502 (650)
T KOG2188|consen 453 ----------ESKKNILPC---LL--------FSLTLFGCVGEWFLTEKFHQKGAVLLEELVNFSK---------THIQT 502 (650)
T ss_pred ----------hhhcchHHH---HH--------HHhhhcccccccccHHHHhhchhHHHHHHHhhch---------hhhHH
Confidence 222221111 11 11111122222221 2257888887776522 12233
Q ss_pred HHHHHHHHhcccCCccchhhhhhhcchhhHHHHHHHhc---CcchHHHHHHHhchhhhhhhccc-CccchhhHhhcCCCH
Q 009214 434 LHETIASLASESKSEASEEEHVLENFHSSRTIRKLVMD---CPKFASTLWKNALKGKSEFWAQG-HSCKVVTAFLESSDF 509 (540)
Q Consensus 434 ~~~ai~~~~~~~~~~~~~~~~~~~~~~~~r~lk~li~~---~~~f~~~l~~~~~~~~~~~w~~~-~~~fvv~al~e~~~~ 509 (540)
+.+.+-++ |... =.+...++++||++....+. ++.+-++|.+. +.+.-.++|.. +||+|+-...+..++
T Consensus 503 litsll~L---~~eq---i~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~-l~g~~~~La~~~~GSrv~eK~wea~~~ 575 (650)
T KOG2188|consen 503 LITSLLSL---SEEQ---ILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINI-LDGSFVTLALSTFGSRVFEKCWEATDV 575 (650)
T ss_pred HHHHHHhh---hHHH---HHHHhcCCchHHHHHHHHHhccccHHHHHHHHHH-hhccchheeecCcccHHHHHHHHHhhH
Confidence 43444322 2100 02345678999999988886 36888999876 67777777766 899999999999998
Q ss_pred HHHHHHHHhhcc
Q 009214 510 KVRELAKTELQP 521 (540)
Q Consensus 510 ~~~~~~~~~l~~ 521 (540)
.-+.++-++|..
T Consensus 576 ~~k~rIakeL~~ 587 (650)
T KOG2188|consen 576 LYKERIAKELVG 587 (650)
T ss_pred HHHHHHHHHHHh
Confidence 888888877765
No 13
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.71 E-value=1.1e-15 Score=161.79 Aligned_cols=294 Identities=19% Similarity=0.215 Sum_probs=187.9
Q ss_pred cHHHHHHHHHHHHHHHhc-------hHHhhhcCCChhHHHHhhhhcCCH----HH-HHHHHHHHh---------------
Q 009214 2 FFFLLIRLISEALQKMKG-------KIPEIAGSHVSSRVLQTCVKYCSQ----AE-RDAVFEELQ--------------- 54 (540)
Q Consensus 2 ~~~~l~klv~el~~~i~g-------~i~~la~~~~gsRvlQ~llk~~~~----e~-r~~I~~eL~--------------- 54 (540)
|+-.+.-++...+.-.+. ++...+.++++|.++|+++...-. ++ +..+--..+
T Consensus 256 Fp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~d~~~~kE~ 335 (650)
T KOG2188|consen 256 FPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMESPRLVTKFQLFNEKDGLWGKER 335 (650)
T ss_pred ccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhhhhHHHhhhhccccCccccccc
Confidence 444444555554444442 566777777777887777775321 11 111110011
Q ss_pred HhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHHhHHHHHhccchhhHHHHHHhhC-CHHHHHHHHHHHHhhHHHhh
Q 009214 55 PHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLG-NATQKQELLVELYSTELQLF 133 (540)
Q Consensus 55 ~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v~~L~~h~~gs~Vvq~ll~~~-~~~qr~~il~e~~g~~~~l~ 133 (540)
+-..++-.|+-|+|++..++..+++..+..+...|.+++.+|+.|+.|+.+||++++.. +.++-..|+.++.+..-.+.
T Consensus 336 ~~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~~LL 415 (650)
T KOG2188|consen 336 SFLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLSSLL 415 (650)
T ss_pred HHHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHHHHH
Confidence 13445556777888888888888777776666667778888888888888888888754 47777777777777777766
Q ss_pred cccCCCchhhHHHHHhhhhhhHHHHHHhHHHHHHH-----------HH----hhCCCc----hhhH--H-HHHHHHHhhC
Q 009214 134 KNLVSIKESRLVDVISKLGLQKASVLRHMASVIQP-----------IL----EKGIID----HSII--H-RVLMEYLSMA 191 (540)
Q Consensus 134 ~~~~g~~~~~L~~il~~~~~k~~~i~~~~~~~iq~-----------il----~K~~~~----~~i~--h-~~l~ey~~~~ 191 (540)
...+.....+|.......+..+..+++.+....-. ++ --+.++ ..-. + .++.+-+-.+
T Consensus 416 ~~g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~lv~f 495 (650)
T KOG2188|consen 416 EQGNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEELVNF 495 (650)
T ss_pred HcCCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHHHHHHhh
Confidence 65443223333333333333333333221111000 00 000001 0001 1 2223333333
Q ss_pred ChhhHHHHHH---HhhhhHHHHhccCcchhHHHHHHHhh--CCHHHHHHHHHHHHHHHHHHHhCcChhHHHHHHHhccCc
Q 009214 192 DKSSAADIIQ---QLSGPLLVRMIHTRDGSKIGMLCVKH--GSAKERKKIIKGMKGHIGKVAHDQCGSMVLLCIVSIVDD 266 (540)
Q Consensus 192 ~~~~~~~li~---~L~~~~l~~L~~tk~Gs~Vv~~~L~~--~~~k~Rk~Iik~lk~~i~~La~d~~G~~Vl~~ll~~~dD 266 (540)
+.....-+|. .|....+.+|+.++.||||++.+|.. .+++.|+.++..+.++..+|+.+.||++|+.++|+.+++
T Consensus 496 ~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~eK~wea~~~ 575 (650)
T KOG2188|consen 496 SKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVFEKCWEATDV 575 (650)
T ss_pred chhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHHHHHHHHhhH
Confidence 3333333333 34555689999999999999999998 679999999999999999999999999999999999984
Q ss_pred hHHHHHHHHHHHHHHHHHhHhCcChHHHHHH
Q 009214 267 TKLIAKIIIRELQSIIKELVMDKNGRRVLLQ 297 (540)
Q Consensus 267 t~l~~k~I~~eL~~~l~~L~~~kyGr~vll~ 297 (540)
+ .+..|+.||..--..+..++||++|+..
T Consensus 576 ~--~k~rIakeL~~~~~~vk~s~~gk~v~~~ 604 (650)
T KOG2188|consen 576 L--YKERIAKELVGIHNDVKSSKYGKFVMLN 604 (650)
T ss_pred H--HHHHHHHHHHhhccccccCcchHHHHHh
Confidence 4 4689999999999999999999999863
No 14
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=98.71 E-value=4.6e-08 Score=106.76 Aligned_cols=268 Identities=14% Similarity=0.173 Sum_probs=161.4
Q ss_pred HHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcC-CHHHHHHHHHH
Q 009214 10 ISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNA-SKKQLAGFISA 88 (540)
Q Consensus 10 v~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~-~~e~~~~Il~~ 88 (540)
|+++...+-+...++..+-.|.-|+|++.++++.-.++.........+..+..|+||.|..||+++.. .+.+...|+.-
T Consensus 537 ied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~iv~g 616 (1007)
T KOG4574|consen 537 IEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLIVRG 616 (1007)
T ss_pred HHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhheeeec
Confidence 34455555566667777777777777777777777777777777777777777777777777777776 44456666677
Q ss_pred HHHhHHHHHhccchhhHHHHHHhhCCHHHHHHHHHHHHhhHHHhhcccCCCchhhHHHHHhh---hhhhHHHHHHh----
Q 009214 89 LHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQLFKNLVSIKESRLVDVISK---LGLQKASVLRH---- 161 (540)
Q Consensus 89 l~g~v~~L~~h~~gs~Vvq~ll~~~~~~qr~~il~e~~g~~~~l~~~~~g~~~~~L~~il~~---~~~k~~~i~~~---- 161 (540)
..+..-.++.+.||+||+|+++..+-+- -..++++.+.+...+.+...| .+.+..+++. .++......+.
T Consensus 617 ~dpyc~~l~~dqfgnyvaqd~LkF~fp~-nsFVfE~v~s~~~~ivQsrfG--sravrAcle~lNa~~e~qsl~~~s~iIs 693 (1007)
T KOG4574|consen 617 VDPYCTPLLNDQFGNYVAQDSLKFGFPW-NSFVFESVFSHFWDIVQSRFG--SRAVRACLEALNANTEDQSLVRESCIIS 693 (1007)
T ss_pred cCcchhhHHHHhhcceeeeeehhccCcc-chHHHHHHHHHHHHHHHHhhh--hHHHHHHHHHhccCchhhhhhhhhhhhh
Confidence 7777777777777777777777643211 112345555555555555444 4455555542 11111100000
Q ss_pred ----------HHHHHHHHHhhCCCchhhHHHHHHHHHhhCChhhHHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHH
Q 009214 162 ----------MASVIQPILEKGIIDHSIIHRVLMEYLSMADKSSAADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAK 231 (540)
Q Consensus 162 ----------~~~~iq~il~K~~~~~~i~h~~l~ey~~~~~~~~~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k 231 (540)
+...+...+|.+. ++.+++ ..+..+.++ +..+|.++-|+-++.+++.++...
T Consensus 694 ~ss~latnsng~llvtw~lDns~----------------~~nrh~-~l~~~lt~e-l~~lC~h~Lgsttv~Kl~n~~qep 755 (1007)
T KOG4574|consen 694 KSSYLATNSNGLLLVTWLLDNSS----------------LPNRHT-ILAHGLTKE-LVMLCFHKLGSTTVLKLLNLRQEP 755 (1007)
T ss_pred chhhhhhcCccceeeeeeccccc----------------ccchhh-HHhhhhhhc-cchhhhhhccchhhhhhhhcCCCh
Confidence 0000111111111 112222 233334445 678888888888888888877544
Q ss_pred H-HHHHHHHHHH------------------------------HHHHHHhCcChhHHHHHHHhccCchHHHHHHHHHHHHH
Q 009214 232 E-RKKIIKGMKG------------------------------HIGKVAHDQCGSMVLLCIVSIVDDTKLIAKIIIRELQS 280 (540)
Q Consensus 232 ~-Rk~Iik~lk~------------------------------~i~~La~d~~G~~Vl~~ll~~~dDt~l~~k~I~~eL~~ 280 (540)
. |+.|++.|-. .+.....++++.+|.+.+++..--. ...+..|..
T Consensus 756 vs~ekii~hlf~~~n~kd~~lt~Vl~~~~~gpmfiikvi~~p~iel~f~dQf~kvvrq~il~~~a~~----narv~~Lle 831 (1007)
T KOG4574|consen 756 VSREKIIEHLFHLRNFKDSALTEVLTEANYGPMFIIKVITKPTIELAFRDQFIKVVRQVILNSPAVS----NARVQRLLE 831 (1007)
T ss_pred HHHHHHHHHHhhccccccchhhhhhhhhccccceeeeeeccccchHHHHHHHHHHHHHHHHhcCCcc----HHHHHHHHH
Confidence 4 7777777541 3555667888888888888765322 222345556
Q ss_pred HHHHhHhCcChHHHHHHhcCCC
Q 009214 281 IIKELVMDKNGRRVLLQLLHPN 302 (540)
Q Consensus 281 ~l~~L~~~kyGr~vll~lL~~~ 302 (540)
.+--++.++||.+-++.++...
T Consensus 832 evgliSasksgs~s~q~~~sss 853 (1007)
T KOG4574|consen 832 EVGLISASKSGSQSIQMHISSS 853 (1007)
T ss_pred HHhhhccccchhHHHHhhhccC
Confidence 6666788999999998887653
No 15
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=98.64 E-value=5.4e-08 Score=106.23 Aligned_cols=233 Identities=13% Similarity=0.119 Sum_probs=164.3
Q ss_pred HHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHHhHHHHHhccchhhHHHHHHhhC-CHHHHHHH
Q 009214 43 QAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVVVEHAYQLG-NATQKQEL 121 (540)
Q Consensus 43 ~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v~~L~~h~~gs~Vvq~ll~~~-~~~qr~~i 121 (540)
..+...+.-+..+...++.-+=-|+-|+||++++++.-.++.+...-...+..+..|+||.|+.|++++.+ ++.|-+.+
T Consensus 534 ~pEied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~i 613 (1007)
T KOG4574|consen 534 APEIEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLI 613 (1007)
T ss_pred chhHHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhhee
Confidence 34556667778888999999999999999999999999999999999999999999999999999999964 77788788
Q ss_pred HHHHHhhHHHhhcccCCCchhhHHHHHh----hhhhhHHHHHHhHHHHHHHHHhhCCCchhhHHHHHHHHHhh--CChhh
Q 009214 122 LVELYSTELQLFKNLVSIKESRLVDVIS----KLGLQKASVLRHMASVIQPILEKGIIDHSIIHRVLMEYLSM--ADKSS 195 (540)
Q Consensus 122 l~e~~g~~~~l~~~~~g~~~~~L~~il~----~~~~k~~~i~~~~~~~iq~il~K~~~~~~i~h~~l~ey~~~--~~~~~ 195 (540)
++..-...-.++.++.|+ .+.++.+. .++---+.+..+++.++|..+ ..+.++.++.. +..++
T Consensus 614 v~g~dpyc~~l~~dqfgn--yvaqd~LkF~fp~nsFVfE~v~s~~~~ivQsrf---------GsravrAcle~lNa~~e~ 682 (1007)
T KOG4574|consen 614 VRGVDPYCTPLLNDQFGN--YVAQDSLKFGFPWNSFVFESVFSHFWDIVQSRF---------GSRAVRACLEALNANTED 682 (1007)
T ss_pred eeccCcchhhHHHHhhcc--eeeeeehhccCccchHHHHHHHHHHHHHHHHhh---------hhHHHHHHHHHhccCchh
Confidence 777666666677777763 33444443 111113455667777776633 22455555432 22333
Q ss_pred HHHHHHHhhhhHHHHhccCcchhHHHHHHHhhCCHHHHHHHHH-HHHHHHHHHHhCcChhHHHHHHHhccCchHHHHHHH
Q 009214 196 AADIIQQLSGPLLVRMIHTRDGSKIGMLCVKHGSAKERKKIIK-GMKGHIGKVAHDQCGSMVLLCIVSIVDDTKLIAKII 274 (540)
Q Consensus 196 ~~~li~~L~~~~l~~L~~tk~Gs~Vv~~~L~~~~~k~Rk~Iik-~lk~~i~~La~d~~G~~Vl~~ll~~~dDt~l~~k~I 274 (540)
....++.+.-...-.++.+-.|...+.+++..+.--.|..+.- .+-+++.++|+|.-|+.+++++++...|.+. ++.|
T Consensus 683 qsl~~~s~iIs~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs-~eki 761 (1007)
T KOG4574|consen 683 QSLVRESCIISKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVS-REKI 761 (1007)
T ss_pred hhhhhhhhhhhchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHH-HHHH
Confidence 3333333322213567888899999999999886555544433 3668999999999999999999999988873 4444
Q ss_pred HHHHHHHHHHhHhCcCh
Q 009214 275 IRELQSIIKELVMDKNG 291 (540)
Q Consensus 275 ~~eL~~~l~~L~~~kyG 291 (540)
++ ++..+...+-+
T Consensus 762 i~----hlf~~~n~kd~ 774 (1007)
T KOG4574|consen 762 IE----HLFHLRNFKDS 774 (1007)
T ss_pred HH----HHhhccccccc
Confidence 44 44444444444
No 16
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains. The FBF-2 protein of Caenorhabditis elegans also has a Puf domain. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs [, ]. The same type of repetitive domain has been found in in a number of other proteins from all eukaryotic kingdoms. The Puf proteins characterised to date have been reported to bind to 3'-untranslated region (UTR) sequences encompassing a so-called UGUR tetranucleotide motif and thereby to repress gene expression by affecting mRNA translation or stability. In Saccharomyces cerevisiae (Baker's yeast), five proteins, termed Puf1p to Puf5p, bear six to eight Puf repeats []. Puf3p binds nearly exclusively to cytoplasmic mRNAs that encode mitochondrial proteins; Puf1p and Puf2p interact preferentially with mRNAs encoding membrane-associated proteins; Puf4p preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors; and Puf5p is associated with mRNAs encoding chromatin modifiers and components of the spindle pole body. This suggests the existence of an extensive network of RNA-protein interactions that coordinate the post-transcriptional fate of large sets of cytotopically and functionally related RNAs through each stage of its lifecycle.; GO: 0003723 RNA binding; PDB: 3BX2_A 4DZS_B 3BX3_B 3BWT_A 3GVT_B 3GVO_A 1IB2_A 3Q0N_A 2YJY_A 1M8Z_A ....
Probab=98.43 E-value=1.6e-07 Score=63.90 Aligned_cols=35 Identities=26% Similarity=0.430 Sum_probs=27.0
Q ss_pred HHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHH
Q 009214 52 ELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFI 86 (540)
Q Consensus 52 eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il 86 (540)
++.+++.+|+.|+||||||||+++++++++++.|+
T Consensus 1 ~i~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~il 35 (35)
T PF00806_consen 1 EIKGNLVELSKDQYGNYVVQKCLEHASPEQRQLIL 35 (35)
T ss_dssp CHTTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHHH
T ss_pred ChHHHHHHHHhccccCHHHHHHHHHCCHHHHHhhC
Confidence 36677888888888888888888888777777664
No 17
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=98.11 E-value=1.6e-06 Score=58.80 Aligned_cols=34 Identities=32% Similarity=0.593 Sum_probs=23.3
Q ss_pred HhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHH
Q 009214 53 LQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFI 86 (540)
Q Consensus 53 L~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il 86 (540)
+++++.+||.|+||+||+|++++++++.++..|+
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 4566777777777777777777777766666554
No 18
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains. The FBF-2 protein of Caenorhabditis elegans also has a Puf domain. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs [, ]. The same type of repetitive domain has been found in in a number of other proteins from all eukaryotic kingdoms. The Puf proteins characterised to date have been reported to bind to 3'-untranslated region (UTR) sequences encompassing a so-called UGUR tetranucleotide motif and thereby to repress gene expression by affecting mRNA translation or stability. In Saccharomyces cerevisiae (Baker's yeast), five proteins, termed Puf1p to Puf5p, bear six to eight Puf repeats []. Puf3p binds nearly exclusively to cytoplasmic mRNAs that encode mitochondrial proteins; Puf1p and Puf2p interact preferentially with mRNAs encoding membrane-associated proteins; Puf4p preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors; and Puf5p is associated with mRNAs encoding chromatin modifiers and components of the spindle pole body. This suggests the existence of an extensive network of RNA-protein interactions that coordinate the post-transcriptional fate of large sets of cytotopically and functionally related RNAs through each stage of its lifecycle.; GO: 0003723 RNA binding; PDB: 3BX2_A 4DZS_B 3BX3_B 3BWT_A 3GVT_B 3GVO_A 1IB2_A 3Q0N_A 2YJY_A 1M8Z_A ....
Probab=97.98 E-value=5.9e-06 Score=56.10 Aligned_cols=34 Identities=24% Similarity=0.536 Sum_probs=32.1
Q ss_pred HhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHH
Q 009214 17 MKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVF 50 (540)
Q Consensus 17 i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~ 50 (540)
+.|++.+|+.+++||||||++++++++++++.|+
T Consensus 2 i~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~il 35 (35)
T PF00806_consen 2 IKGNLVELSKDQYGNYVVQKCLEHASPEQRQLIL 35 (35)
T ss_dssp HTTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHHH
T ss_pred hHHHHHHHHhccccCHHHHHHHHHCCHHHHHhhC
Confidence 6899999999999999999999999999998875
No 19
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.81 E-value=1.4e-05 Score=54.11 Aligned_cols=34 Identities=24% Similarity=0.513 Sum_probs=31.9
Q ss_pred HhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHH
Q 009214 17 MKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVF 50 (540)
Q Consensus 17 i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~ 50 (540)
++|++.+|+.+++|||++|++++++++.+|..|+
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 5789999999999999999999999999998886
No 20
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=89.65 E-value=1.4 Score=40.15 Aligned_cols=38 Identities=13% Similarity=0.145 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHhchHHhhhcCCChhHHHHhhhhcC
Q 009214 4 FLLIRLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYC 41 (540)
Q Consensus 4 ~~l~klv~el~~~i~g~i~~la~~~~gsRvlQ~llk~~ 41 (540)
+|+..+.-.+++.|..+..++..+..||.+|..+|.++
T Consensus 49 ELl~~~sp~Ll~~i~~~~~~ll~~~~g~~~i~eiL~~~ 86 (148)
T PF08144_consen 49 ELLEAISPPLLEAIAENAEELLSSSFGCQFITEILLSA 86 (148)
T ss_pred HHHHHhhHHHHHHHHHhHHHHHhcCcccHHHHHHHhcc
Confidence 45555555555555555555555555555555555554
No 21
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=86.15 E-value=65 Score=36.63 Aligned_cols=59 Identities=15% Similarity=0.137 Sum_probs=37.1
Q ss_pred HhHhHHhhhcccchhHHHHHHhhcCCHH--HHHHHHHHHHHhHHHHHhccchhhHHHHHHh
Q 009214 53 LQPHFLSLADNTYAVHLVKKMLDNASKK--QLAGFISALHGHVASLLRHMVGSVVVEHAYQ 111 (540)
Q Consensus 53 L~~~~~~L~~d~yg~~vvqkll~~~~~e--~~~~Il~~l~g~v~~L~~h~~gs~Vvq~ll~ 111 (540)
|.|.|..|+++.--||++-|+|+-...- .-..+-.-+.+.+..|+....|-.++=.|++
T Consensus 219 LAP~ffkllttSsNNWmLIKiiKLF~aLtplEPRLgKKLieplt~li~sT~AmSLlYECvN 279 (877)
T KOG1059|consen 219 LAPLFYKLLVTSSNNWVLIKLLKLFAALTPLEPRLGKKLIEPITELMESTVAMSLLYECVN 279 (877)
T ss_pred ccHHHHHHHhccCCCeehHHHHHHHhhccccCchhhhhhhhHHHHHHHhhHHHHHHHHHHH
Confidence 3467999999999999999998754210 1122333444555566666666666555554
No 22
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=57.90 E-value=2.4e+02 Score=29.38 Aligned_cols=168 Identities=14% Similarity=0.137 Sum_probs=79.8
Q ss_pred hcCCHHHHHHHHHHHHHhHHHHHhcc-chhhHHHHHHhh-CCHHHHHHHHHHHHhh-----HHHhhcccCCCchhhHHHH
Q 009214 75 DNASKKQLAGFISALHGHVASLLRHM-VGSVVVEHAYQL-GNATQKQELLVELYST-----ELQLFKNLVSIKESRLVDV 147 (540)
Q Consensus 75 ~~~~~e~~~~Il~~l~g~v~~L~~h~-~gs~Vvq~ll~~-~~~~qr~~il~e~~g~-----~~~l~~~~~g~~~~~L~~i 147 (540)
..-++++...++++|...+..-..-. -|-..++.+++. ..++.-..++.++++. .+..+.... ...|..+
T Consensus 50 ~~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il~~i~~~~~~~~~~~~L~~~~---~~~la~~ 126 (338)
T TIGR00207 50 TQIDNQQKDDVLEEFEQIAEAQAYINIGGLDYAREVLEKALGEEKAASILNDLTSSLQTAPGFEFLRKAE---PQQIADF 126 (338)
T ss_pred CCCCHHHHHHHHHHHHHHHHhcCCccCChHHHHHHHHHHhcCHHHHHHHHHHHhcccccCchhHHHHCCC---HHHHHHH
Confidence 34577788888888877765543222 234445666653 4555556677777654 222222221 3445555
Q ss_pred Hhh-hhhhHHHHHHhHHHHHH-HHHhhCCCchhhHHHHHHHHH--hhCChhhHHHHHHHhhhhHHHHhc---cCcchhHH
Q 009214 148 ISK-LGLQKASVLRHMASVIQ-PILEKGIIDHSIIHRVLMEYL--SMADKSSAADIIQQLSGPLLVRMI---HTRDGSKI 220 (540)
Q Consensus 148 l~~-~~~k~~~i~~~~~~~iq-~il~K~~~~~~i~h~~l~ey~--~~~~~~~~~~li~~L~~~~l~~L~---~tk~Gs~V 220 (540)
+.. .|.....++.++..-.- .++. . ........++...- ..-+|+...++-+.|... +..+. ....|...
T Consensus 127 l~~EhPQ~iAliLs~L~p~~AA~VL~-~-Lp~~~~~ei~~ria~l~~vs~~~i~~ie~~L~~~-~~~~~~~~~~~gG~~~ 203 (338)
T TIGR00207 127 IQQEHPQTIALILSHLDPAQAADILS-L-FPEEVQAEVARRIATMGRTSPEVVAEVERVLEGK-LDSLNSDYTKMGGVRA 203 (338)
T ss_pred HHccCHHHHHHHHHcCCHHHHHHHHH-h-CCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH-HHhhccccccCChHHH
Confidence 542 23333333333211100 0010 0 00001111111111 122333333322223322 33333 23468888
Q ss_pred HHHHHhhCCHHHHHHHHHHHHHHHHHHH
Q 009214 221 GMLCVKHGSAKERKKIIKGMKGHIGKVA 248 (540)
Q Consensus 221 v~~~L~~~~~k~Rk~Iik~lk~~i~~La 248 (540)
+..+|..-+...++.|+..+...=.+++
T Consensus 204 ~a~ILN~~~~~~~~~il~~L~~~dp~la 231 (338)
T TIGR00207 204 VAEIINLMDRKTEKTIITSLEEFDPELA 231 (338)
T ss_pred HHHHHHhCCchHHHHHHHHHHHhCHHHH
Confidence 8899999888889999988876433333
No 23
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=57.33 E-value=2.4e+02 Score=29.27 Aligned_cols=35 Identities=11% Similarity=0.121 Sum_probs=27.1
Q ss_pred cCcchhHHHHHHHhhCCHHHHHHHHHHHHHHHHHH
Q 009214 213 HTRDGSKIGMLCVKHGSAKERKKIIKGMKGHIGKV 247 (540)
Q Consensus 213 ~tk~Gs~Vv~~~L~~~~~k~Rk~Iik~lk~~i~~L 247 (540)
.+..|...+-.+|..-+...++.++..+...=.++
T Consensus 199 ~~~~g~~~~a~Iln~~~~~~~~~il~~L~~~d~~~ 233 (339)
T PRK05686 199 TKMGGVKTVAEILNNLDRQTEKTILESLEEEDPEL 233 (339)
T ss_pred cccCcHHHHHHHHhcCCchHHHHHHHHHHhhCHHH
Confidence 45578888889999988888999999888643333
No 24
>PF09770 PAT1: Topoisomerase II-associated protein PAT1; InterPro: IPR019167 Proteins in this entry are necessary for accurate chromosome transmission during cell division []. ; PDB: 2XER_C 2XES_B 2XEQ_D.
Probab=46.10 E-value=56 Score=38.30 Aligned_cols=106 Identities=12% Similarity=0.189 Sum_probs=72.0
Q ss_pred HHHHHHHHHHHHhc------------hHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhh-------------
Q 009214 6 LIRLISEALQKMKG------------KIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSL------------- 60 (540)
Q Consensus 6 l~klv~el~~~i~g------------~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L------------- 60 (540)
...+++.+|+.++. .++.+..-.-|-++|-+++.+-+.+++..|+..|..|+-.|
T Consensus 550 ~~~~~~~l~~~L~~~~~~~~~~~~~~~fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l~vv~~~~~~~~~~ 629 (808)
T PF09770_consen 550 RQALVEKLWESLKVMEPIGDSSSEPHPFISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQLDVVRRASYTDGED 629 (808)
T ss_dssp HHHHHHHHHHHHHT--TTSSS---THHHHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH----------------
T ss_pred HHHHHHHHHHhcCCCCCCCCCCCCCCcceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhhccccccccccccc
Confidence 34677888888875 57788888889999999999999999999999999988333
Q ss_pred ----h----cccchhHHHHHHhhcCCHHHHHHHHHH---H--HHhHHHHHhccchhhHHHHHHh
Q 009214 61 ----A----DNTYAVHLVKKMLDNASKKQLAGFISA---L--HGHVASLLRHMVGSVVVEHAYQ 111 (540)
Q Consensus 61 ----~----~d~yg~~vvqkll~~~~~e~~~~Il~~---l--~g~v~~L~~h~~gs~Vvq~ll~ 111 (540)
. .+-|-..|+.-|+.+.+......|+.- | ..++..++++++|--+|-.++.
T Consensus 630 ~~~~~~~~~~e~~~~~~~~~l~~~i~~~~~~~i~gll~~~~~~~~~~~i~~tk~Gls~lt~lls 693 (808)
T PF09770_consen 630 QPLLIKRDDIELFLQAVMPPLMNVINEAPFNEIIGLLGLLINNNNVSFIAQTKFGLSLLTMLLS 693 (808)
T ss_dssp -HHHHHTTTTT--GGGGHHHS-HHHHHHHHHHHTTSTTT-S--HHHHHHHTSHHHHHHHHHHHH
T ss_pred CccccchHhHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCceEEEEChHHHHHHHHHHH
Confidence 2 234555555555555544434433321 1 3577788888888888877775
No 25
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=41.60 E-value=4.9e+02 Score=28.20 Aligned_cols=41 Identities=20% Similarity=0.174 Sum_probs=23.3
Q ss_pred HHHHhccCcchhHHHHHHHhhC----CHHHHHHHHHHHHHHHHHH
Q 009214 207 LLVRMIHTRDGSKIGMLCVKHG----SAKERKKIIKGMKGHIGKV 247 (540)
Q Consensus 207 ~l~~L~~tk~Gs~Vv~~~L~~~----~~k~Rk~Iik~lk~~i~~L 247 (540)
.+..++.......++..++.+. +...|+.+++.+..-....
T Consensus 327 lL~~l~~~~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~ 371 (526)
T PF01602_consen 327 LLYKLANESNVKEILDELLKYLSELSDPDFRRELIKAIGDLAEKF 371 (526)
T ss_dssp HHHHH--HHHHHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHH
T ss_pred HHhhcccccchhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhcc
Confidence 3556666666666777766665 4456777777766543333
No 26
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=34.39 E-value=2.1e+02 Score=27.37 Aligned_cols=61 Identities=11% Similarity=0.086 Sum_probs=31.2
Q ss_pred cccchhHHHHHHhhcCCHHHHHHHHHHHHHhHHHHHhccc-hhhHHHHHHh-h---CCHHHHHHHHH
Q 009214 62 DNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMV-GSVVVEHAYQ-L---GNATQKQELLV 123 (540)
Q Consensus 62 ~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v~~L~~h~~-gs~Vvq~ll~-~---~~~~qr~~il~ 123 (540)
.++|+..++..|++.+.. ....|-+.-..-+..++.+.. +..++...+. . .++..|...+.
T Consensus 88 ~~~~~~~~l~~Ll~~~~~-~~~~i~~~a~~~L~~i~~~~~~~~~~~~~~l~~~~~~Kn~~vR~~~~~ 153 (228)
T PF12348_consen 88 FEPYADILLPPLLKKLGD-SKKFIREAANNALDAIIESCSYSPKILLEILSQGLKSKNPQVREECAE 153 (228)
T ss_dssp GHHHHHHHHHHHHHGGG----HHHHHHHHHHHHHHHTTS-H--HHHHHHHHHHTT-S-HHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcc-ccHHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 345667777888877644 244555555555666666654 4666344443 2 35666655444
No 27
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=32.91 E-value=3.7e+02 Score=24.22 Aligned_cols=81 Identities=15% Similarity=0.199 Sum_probs=41.0
Q ss_pred hhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHH------HHHHHHHH----HhHHHHHhc
Q 009214 30 SSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQL------AGFISALH----GHVASLLRH 99 (540)
Q Consensus 30 gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~------~~Il~~l~----g~v~~L~~h 99 (540)
|+.-++..++.-+.++...+++-++.=--.==...-|..|+-.++..-++++. ..+++.+. .|+.++-+-
T Consensus 47 g~~~l~~~i~~L~~~~l~~LL~~ir~WNTNsr~~~vAQ~vL~~il~~~~~~~L~~~~~~~~~le~lipYteRH~~Rl~~L 126 (141)
T PF08625_consen 47 GSEELDEVIKKLDDEQLEKLLRFIRDWNTNSRTSHVAQRVLNAILKSHPPEELLKIPGLKEILEALIPYTERHFQRLDRL 126 (141)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCCHHHHHccccHHHHHHHHhhhHHHHHHHHHHH
Confidence 56777777777777777766655544111111122244555555565565542 22333332 345555444
Q ss_pred cchhhHHHHHH
Q 009214 100 MVGSVVVEHAY 110 (540)
Q Consensus 100 ~~gs~Vvq~ll 110 (540)
...+++++.++
T Consensus 127 ~q~syllDy~l 137 (141)
T PF08625_consen 127 LQKSYLLDYTL 137 (141)
T ss_pred HHHHHHHHHHH
Confidence 44555555444
No 28
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=32.24 E-value=8.9e+02 Score=28.42 Aligned_cols=111 Identities=14% Similarity=0.108 Sum_probs=59.7
Q ss_pred HHHHHHHHHHhchHHhhhcCCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHH------
Q 009214 8 RLISEALQKMKGKIPEIAGSHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQ------ 81 (540)
Q Consensus 8 klv~el~~~i~g~i~~la~~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~------ 81 (540)
.++..+.+.+.+.+..... -..|.++. .+.+.|.+....|...+-+|-.+- .+..|-++..+.+.
T Consensus 512 ~ll~~lA~~l~p~l~~~~~-----~~~~~~~~-~~~~~rr~~~~~lq~k~~~l~~n~---~LfeKgl~lF~dd~~t~~~L 582 (803)
T PLN03083 512 SILKHLADHLRPMLINSLK-----ERRKALFT-ENAERRRRLLDNLQKKIDESFLNM---QLYEKALDLFEDDQSTSVVL 582 (803)
T ss_pred HHHHHHHHHHHHHHHHHHH-----HHHHHHHh-cchHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhCCccccchHHH
Confidence 4444455555554433332 23566666 677778888888888777765543 24444444443222
Q ss_pred HHHHHHHHHHhHHHHHhccchhhHHHHHH---------h--hCCHHHHHHHHHHHHh
Q 009214 82 LAGFISALHGHVASLLRHMVGSVVVEHAY---------Q--LGNATQKQELLVELYS 127 (540)
Q Consensus 82 ~~~Il~~l~g~v~~L~~h~~gs~Vvq~ll---------~--~~~~~qr~~il~e~~g 127 (540)
...++..+...+..++.+-.+++-.-..= + ..+++||..++..|-+
T Consensus 583 ~khLLkT~~~~i~n~l~~~~a~~~~l~~~~~~~~~~~~~~~~l~~~~R~~~~~~lp~ 639 (803)
T PLN03083 583 HRHLLRTTAAEIADTLLHTLDIHNKLKNGTEVEDSKTQDTVLLSSAERTALAKNLPG 639 (803)
T ss_pred HHHHHHhhhhHHHHHHHHHHHHHHhhhcccccccccCCCcccCCHHHHHHHHHhCcH
Confidence 34445555555555555544432221111 1 2367889888887754
No 29
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=29.71 E-value=3.9e+02 Score=27.78 Aligned_cols=97 Identities=7% Similarity=0.085 Sum_probs=51.1
Q ss_pred CCChhHHHHhhhhcCCHHHHHHHHHHHhHhHHhhhcccch-hHHHHHHhhcCCHHHHHHHHHHHHHhHHHHHhccchhhH
Q 009214 27 SHVSSRVLQTCVKYCSQAERDAVFEELQPHFLSLADNTYA-VHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVV 105 (540)
Q Consensus 27 ~~~gsRvlQ~llk~~~~e~r~~I~~eL~~~~~~L~~d~yg-~~vvqkll~~~~~e~~~~Il~~l~g~v~~L~~h~~gs~V 105 (540)
...|.+.+..++..-+...++.|++.|...=.+++..--. -|+..-++ .-++...+.|+.++.....-++...-.--+
T Consensus 197 ~~gG~~~~a~ILN~~~~~~~~~il~~L~~~dp~la~~Ir~~mF~Fedl~-~ld~~~l~~llrev~~~~L~~ALkga~~e~ 275 (338)
T TIGR00207 197 KMGGVRAVAEIINLMDRKTEKTIITSLEEFDPELAEEIKKEMFVFEDIV-DLDDRSIQRVLREVDSEDLLLALKGAEQPL 275 (338)
T ss_pred cCChHHHHHHHHHhCCchHHHHHHHHHHHhCHHHHHHHHHHccCHHHHh-cCCHHHHHHHHHhCCHHHHHHHHCcCCHHH
Confidence 4467777888888887777888887776533333322111 12222222 234445666666665555555444444444
Q ss_pred HHHHHhhCCHHHHHHHHHH
Q 009214 106 VEHAYQLGNATQKQELLVE 124 (540)
Q Consensus 106 vq~ll~~~~~~qr~~il~e 124 (540)
-+++|...+...+..+-.+
T Consensus 276 ~~~il~nmS~R~a~~l~ee 294 (338)
T TIGR00207 276 REKFLNNMSQRAAEILKED 294 (338)
T ss_pred HHHHHHHhhHHHHHHHHHH
Confidence 4455544444444443333
No 30
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=26.28 E-value=7.5e+02 Score=25.64 Aligned_cols=87 Identities=11% Similarity=0.122 Sum_probs=40.9
Q ss_pred CCChhHHHHhhhhc-CCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHHhHHHHHhccchhhH
Q 009214 27 SHVSSRVLQTCVKY-CSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRHMVGSVV 105 (540)
Q Consensus 27 ~~~gsRvlQ~llk~-~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v~~L~~h~~gs~V 105 (540)
...|-..+..++.. -++++-..|++.+.+.-. .+++..|- ..+++....++..-++++..++...-..-+
T Consensus 78 ~~gg~~~~~~iL~~~l~~~~a~~il~~i~~~~~--------~~~fe~L~-~ld~~~l~~lL~~EhpqtiA~iLs~l~~~~ 148 (339)
T PRK05686 78 LMGGIDYARSLLEKALGEEKADSILERILESLG--------TSGFDFLR-KMDPQQLANFIRNEHPQTIALILSYLKPDQ 148 (339)
T ss_pred cCChHHHHHHHHHHHcCHHHHHHHHHHHhcccc--------CchHHHHh-cCCHHHHHHHHHhcCHHHHHHHHhCCCHHH
Confidence 33455556666654 455555666666543211 13333333 334555555555555555544444333334
Q ss_pred HHHHHhhCCHHHHHHHH
Q 009214 106 VEHAYQLGNATQKQELL 122 (540)
Q Consensus 106 vq~ll~~~~~~qr~~il 122 (540)
-..++...++..+..++
T Consensus 149 aa~vL~~l~~~~~~~v~ 165 (339)
T PRK05686 149 AAEILSLLPEELRADVM 165 (339)
T ss_pred HHHHHHhCCHHHHHHHH
Confidence 44444444444443333
No 31
>KOG2038 consensus CAATT-binding transcription factor/60S ribosomal subunit biogenesis protein [Translation, ribosomal structure and biogenesis; Transcription]
Probab=25.71 E-value=1.1e+03 Score=27.51 Aligned_cols=63 Identities=10% Similarity=0.044 Sum_probs=37.1
Q ss_pred cHHHHHHHHHHHHHHHhchHHhh--hcCCCh--hHHHHhhhhcCCHHHHHHHHHHHhH-----------hHHhhhccc
Q 009214 2 FFFLLIRLISEALQKMKGKIPEI--AGSHVS--SRVLQTCVKYCSQAERDAVFEELQP-----------HFLSLADNT 64 (540)
Q Consensus 2 ~~~~l~klv~el~~~i~g~i~~l--a~~~~g--sRvlQ~llk~~~~e~r~~I~~eL~~-----------~~~~L~~d~ 64 (540)
|-+-.+|+.+.=-.++......+ -..+.| ++.+++++..|+...|-.-+.-+.+ .++.+|+.+
T Consensus 165 ~~~~VeKl~e~G~~lm~qdae~f~~t~~~~gsd~k~l~siiSsGT~~DkitA~~LlvqesPvh~lk~lEtLls~c~KK 242 (988)
T KOG2038|consen 165 NKDVVEKLLELGKDLMAQDAELFQETKQDKGSDAKWLYSIISSGTLTDKITAMTLLVQESPVHNLKSLETLLSSCKKK 242 (988)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhHHHHHHHHhcCcchhhhHHHHHhhcccchhHHHHHHHHHHHHhhh
Confidence 44455555554444444332222 344545 6899999999998877666554432 455666666
No 32
>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=20.86 E-value=1.4e+03 Score=27.00 Aligned_cols=56 Identities=20% Similarity=0.238 Sum_probs=34.2
Q ss_pred hhHHHHhhhhc-------CCHHHHHHHHHHHhHhHHhhhcccchhHHHHHHhhcCCHHHHHHHHHHHHHhHHHHHhc
Q 009214 30 SSRVLQTCVKY-------CSQAERDAVFEELQPHFLSLADNTYAVHLVKKMLDNASKKQLAGFISALHGHVASLLRH 99 (540)
Q Consensus 30 gsRvlQ~llk~-------~~~e~r~~I~~eL~~~~~~L~~d~yg~~vvqkll~~~~~e~~~~Il~~l~g~v~~L~~h 99 (540)
-.-|||++++. +|.+--..++.-|..|+..++...+ ...-.+++.|.+|+..|+..
T Consensus 443 ~~~iI~RIrk~~hpsLa~~NK~Kl~~f~~vLlq~i~~la~~~~--------------~~~~~~ld~L~~~L~~Laq~ 505 (840)
T PF04147_consen 443 QPTIIQRIRKCYHPSLAEGNKEKLQVFFGVLLQHILYLASQDS--------------PPPFEVLDSLIPHLYDLAQK 505 (840)
T ss_pred HhHHHHHHHHhCCCCCCcchHHHHHHHHHHHHHHHHHHhcccC--------------CcCHHHHHHHHHHHHHHHHH
Confidence 45677777764 3444455555666666666666554 23445677777787777754
No 33
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=20.56 E-value=1.4e+03 Score=26.82 Aligned_cols=47 Identities=17% Similarity=0.227 Sum_probs=22.6
Q ss_pred HHHHHHHHhHHHHHhccchhhHHHHHHhhCCHHHHHHHHHHHHhhHHHh
Q 009214 84 GFISALHGHVASLLRHMVGSVVVEHAYQLGNATQKQELLVELYSTELQL 132 (540)
Q Consensus 84 ~Il~~l~g~v~~L~~h~~gs~Vvq~ll~~~~~~qr~~il~e~~g~~~~l 132 (540)
.|+..+..++...+...+ -.+++.+|. .+.+.|+.....+-.....+
T Consensus 512 ~ll~~lA~~l~p~l~~~~-~~~~~~~~~-~~~~~rr~~~~~lq~k~~~l 558 (803)
T PLN03083 512 SILKHLADHLRPMLINSL-KERRKALFT-ENAERRRRLLDNLQKKIDES 558 (803)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHh-cchHHHHHHHHHHHHHHHHH
Confidence 444444444444443322 233666666 55666655555444333333
Done!