Query 004281
Match_columns 764
No_of_seqs 249 out of 1558
Neff 5.6
Searched_HMMs 46136
Date Thu Mar 28 20:43:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004281.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004281hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1488 Translational represso 100.0 3.3E-60 7.2E-65 528.2 33.0 310 448-761 174-496 (503)
2 cd07920 Pumilio Pumilio-family 100.0 6E-53 1.3E-57 452.5 32.6 313 447-760 3-322 (322)
3 KOG2049 Translational represso 100.0 1.8E-47 3.9E-52 429.7 25.1 319 445-764 209-536 (536)
4 COG5099 RNA-binding protein of 100.0 1.3E-45 2.9E-50 431.8 24.8 304 455-761 443-758 (777)
5 cd07920 Pumilio Pumilio-family 100.0 2.2E-36 4.7E-41 324.5 29.0 277 445-724 38-322 (322)
6 KOG1488 Translational represso 100.0 3.1E-31 6.8E-36 296.5 27.4 279 443-724 206-495 (503)
7 COG5099 RNA-binding protein of 100.0 1.4E-27 3E-32 280.6 24.7 230 495-761 447-678 (777)
8 KOG2049 Translational represso 99.9 4.7E-27 1E-31 265.2 14.6 271 485-759 213-491 (536)
9 KOG2050 Puf family RNA-binding 99.9 3E-25 6.5E-30 247.0 23.9 277 449-729 160-445 (652)
10 KOG2188 Predicted RNA-binding 99.9 1E-20 2.2E-25 213.0 25.5 314 447-762 93-607 (650)
11 KOG2050 Puf family RNA-binding 99.9 2.7E-20 5.8E-25 207.9 22.6 257 501-760 135-440 (652)
12 KOG2188 Predicted RNA-binding 99.8 1.3E-19 2.8E-24 204.2 21.8 260 455-724 338-605 (650)
13 KOG4574 RNA-binding protein (c 99.8 3.4E-19 7.3E-24 204.2 11.3 331 418-760 481-849 (1007)
14 KOG4574 RNA-binding protein (c 98.9 4.9E-10 1.1E-14 130.0 4.0 200 550-753 536-774 (1007)
15 PF00806 PUF: Pumilio-family R 98.1 2.4E-06 5.2E-11 63.2 2.8 35 486-520 1-35 (35)
16 smart00025 Pumilio Pumilio-lik 97.6 4.2E-05 9.2E-10 55.6 3.1 34 487-520 2-35 (36)
17 PF00806 PUF: Pumilio-family R 97.6 6.3E-05 1.4E-09 55.6 3.3 29 668-696 4-32 (35)
18 smart00025 Pumilio Pumilio-lik 97.1 0.00038 8.1E-09 50.6 2.8 32 667-698 3-34 (36)
19 PRK05686 fliG flagellar motor 86.8 49 0.0011 36.9 18.8 87 474-561 54-147 (339)
20 PF08144 CPL: CPL (NUC119) dom 82.3 4.1 8.9E-05 40.2 7.0 55 707-761 65-130 (148)
21 PRK05686 fliG flagellar motor 76.6 1.3E+02 0.0029 33.5 20.7 29 641-669 201-229 (339)
22 PF08144 CPL: CPL (NUC119) dom 72.1 7.1 0.00015 38.6 5.3 63 667-729 63-134 (148)
23 TIGR00207 fliG flagellar motor 59.1 3E+02 0.0065 30.8 22.0 28 642-669 199-226 (338)
24 PF09770 PAT1: Topoisomerase I 55.0 10 0.00023 47.0 3.6 145 598-744 577-773 (808)
25 TIGR00207 fliG flagellar motor 52.3 3.8E+02 0.0083 30.0 18.3 158 474-632 51-225 (338)
26 COG1747 Uncharacterized N-term 49.8 2.6E+02 0.0057 33.4 13.1 72 646-726 227-300 (711)
27 PRK07194 fliG flagellar motor 40.8 5.6E+02 0.012 28.6 18.1 23 720-742 260-282 (334)
28 PF14666 RICTOR_M: Rapamycin-i 39.0 60 0.0013 34.4 5.7 167 570-743 48-223 (226)
29 PF04286 DUF445: Protein of un 36.2 6E+02 0.013 27.7 16.4 49 657-705 290-340 (367)
30 KOG1059 Vesicle coat complex A 30.8 9.3E+02 0.02 30.2 14.1 21 708-728 421-441 (877)
31 COG5181 HSH155 U2 snRNP splice 29.3 1.1E+03 0.024 29.1 14.2 51 710-760 512-565 (975)
32 PF11510 FA_FANCE: Fanconi Ana 24.9 4E+02 0.0087 29.1 9.1 196 470-669 42-247 (263)
33 PF12231 Rif1_N: Rap1-interact 24.5 1E+03 0.023 26.8 14.4 44 645-689 179-222 (372)
34 COG1536 FliG Flagellar motor s 22.6 1.1E+03 0.025 26.5 19.0 31 717-747 263-293 (339)
35 KOG3821 Heparin sulfate cell s 22.1 1.4E+03 0.031 27.5 17.0 66 668-737 257-326 (563)
36 PF05918 API5: Apoptosis inhib 22.1 1.5E+03 0.032 27.5 15.1 39 528-568 51-89 (556)
37 PF10508 Proteasom_PSMB: Prote 22.1 1.3E+03 0.029 27.1 18.3 17 744-760 226-242 (503)
38 cd07439 FANCE_c-term Fanconi a 21.2 9E+02 0.02 26.2 10.9 201 447-650 6-218 (254)
39 KOG0166 Karyopherin (importin) 20.2 1.5E+03 0.033 27.1 15.4 12 535-546 193-204 (514)
No 1
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.3e-60 Score=528.23 Aligned_cols=310 Identities=35% Similarity=0.583 Sum_probs=293.7
Q ss_pred HHHhhhhHhhhccCCCccHHHHhhhccCCH-HHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHHh
Q 004281 448 VEEVTGRIYLMAKDQHGCRFLQRKISEGTL-EDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITRK 526 (764)
Q Consensus 448 leEv~GkI~~LA~Dq~GSRvLQklLe~as~-eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~~ 526 (764)
+.++.|.++++++||+||||||..|+.++. +++..||++|.+.+.+||+|.||||||||+||+++.+++..+...+.
T Consensus 174 ~~~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvIQkffE~gt~~q~~~l~~~~~-- 251 (503)
T KOG1488|consen 174 LVDIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVIQKFFEHGTEDQRNLLHSQIK-- 251 (503)
T ss_pred ccccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhhccCCHHHHHHHHHHHH--
Confidence 446789999999999999999999999988 99999999999999999999999999999999999999888888876
Q ss_pred hhhHHhhh-----hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhh--hhh
Q 004281 527 AGDLVRIS-----TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTN--NCV 599 (764)
Q Consensus 527 ~g~Ll~ls-----~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~--~iv 599 (764)
++++.+| ||||||+|+.++.. +...+++||..++..+++|++||||||||+++++++.+.||++.+.+ ++.
T Consensus 252 -g~v~~Lsld~ygCRVIQkale~id~~-~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p~~~~~Fiv~~f~~~~~~~ 329 (503)
T KOG1488|consen 252 -GHVLELSLDMYGCRVIQKALEKVDVS-LQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLPPDAWQFIVDFFSGDDNLL 329 (503)
T ss_pred -hhhhhhhcccccchhHHHHHHhcCHH-HHHHHHHHHHhhHHHHHhhcccceehhhhhhccChHHHHHHHHHhcCCCcee
Confidence 4556655 99999999999755 44457888899999999999999999999999999999999999998 999
Q ss_pred hhhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhccccCcch
Q 004281 600 ELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEGNYGDLSMQKYS 679 (764)
Q Consensus 600 ~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~G 679 (764)
.+|+|+|||||||++||+|+++++..++++|..++..|+.|+||||||||+|+++.++++..|+++|.++++++|.|||+
T Consensus 330 ~ls~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~~I~~~l~~~ll~~Sq~KfA 409 (503)
T KOG1488|consen 330 ELSTHKYGCRVIQRILEHCSEDQKQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDTIIIKCLLGNLLSMSQHKFA 409 (503)
T ss_pred EeeccCcccHHHHHHhhcCChHhhhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhhhHHHHHHhhHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhhCCHHHHHHHHHHHHhc-----hhHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhhhHHHHhcCCchH
Q 004281 680 SNVVEKCLKYGDDERRAHIIQELISN-----AHLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRPHVPVLRTSPYGK 754 (764)
Q Consensus 680 S~VVEK~L~~a~~k~Rk~Ii~eLl~~-----~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~~l~~L~~skyGs 754 (764)
|+||||||.+++...|..|++|++.. +.|..||+|+|||||||++|+.|.+.+++.|...|++|+..|+..+||+
T Consensus 410 SnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q~~~i~~rI~~h~~~Lrk~syGK 489 (503)
T KOG1488|consen 410 SNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQRELIKSRVKPHASRLRKFSYGK 489 (503)
T ss_pred HHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHHHHHHHHHHHHHHHHHccCccHH
Confidence 99999999999999999999999973 6899999999999999999999999999999999999999999999999
Q ss_pred HHHHHhh
Q 004281 755 KVLSCNS 761 (764)
Q Consensus 755 rVV~kL~ 761 (764)
||++++.
T Consensus 490 hIia~le 496 (503)
T KOG1488|consen 490 HIIAKLE 496 (503)
T ss_pred HHHHHHH
Confidence 9988764
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=6e-53 Score=452.50 Aligned_cols=313 Identities=49% Similarity=0.768 Sum_probs=298.5
Q ss_pred cHHHhh-hhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHH
Q 004281 447 SVEEVT-GRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITR 525 (764)
Q Consensus 447 sleEv~-GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~ 525 (764)
+++++. |++.++|+|++|||+||++|+.++++++..||+++.+++.+||.|+|||||||++|++++++++..|++.+.+
T Consensus 3 ~~~~~~~~~~~~l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~ 82 (322)
T cd07920 3 TLQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILG 82 (322)
T ss_pred CHHhccCcchhhccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 566766 9999999999999999999999999999999999999999999999999999999999999999999999975
Q ss_pred hhhhHHhhh--hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhc
Q 004281 526 KAGDLVRIS--TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELAT 603 (764)
Q Consensus 526 ~~g~Ll~ls--~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~ 603 (764)
+...+.... |+|||++++.+. ++++..+++++.+++..|++|+|||||+|+++++++++.+..+++.+.+++.+++.
T Consensus 83 ~~~~l~~~~~g~~vlqkll~~~~-~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~ 161 (322)
T cd07920 83 HVVRLSLDMYGCRVIQKLLESIS-EEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALST 161 (322)
T ss_pred HHHHHcccchhHHHHHHHHHhcC-HHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHc
Confidence 544444332 999999999997 77889999999999999999999999999999999999999999999999999999
Q ss_pred CcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhccccCcchhHHH
Q 004281 604 DRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEGNYGDLSMQKYSSNVV 683 (764)
Q Consensus 604 dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~GS~VV 683 (764)
|++||+|+|++++.++++++..+++++.+++..|+.|+|||||||++|+.++++.++.|++.+.+++.+|+++||||+||
T Consensus 162 ~~~G~~vvq~~l~~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~Gs~Vv 241 (322)
T cd07920 162 HPYGCRVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASNVV 241 (322)
T ss_pred CccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCCHHHHHHHHHHHHHHHHHHHcCcchHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCHHHHHHHHHHHHhc----hhHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhhhHHHHhcCCchHHHHHH
Q 004281 684 EKCLKYGDDERRAHIIQELISN----AHLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRPHVPVLRTSPYGKKVLSC 759 (764)
Q Consensus 684 EK~L~~a~~k~Rk~Ii~eLl~~----~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~~l~~L~~skyGsrVV~k 759 (764)
++||+.++++.|+.|+++++.. +.+.+|+.|+|||||||++|+.+++..++.|++.|++++.+|+.++||++|+++
T Consensus 242 e~~l~~~~~~~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~~~~~i~~~l~~~~~~L~~~~~G~~v~~~ 321 (322)
T cd07920 242 EKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRPHLPSLRKSPYGKHILAK 321 (322)
T ss_pred HHHHHHCCHHHHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcCCCcHHHHHHh
Confidence 9999999999999999999974 489999999999999999999999999999999999999999999999999998
Q ss_pred h
Q 004281 760 N 760 (764)
Q Consensus 760 L 760 (764)
|
T Consensus 322 ~ 322 (322)
T cd07920 322 L 322 (322)
T ss_pred C
Confidence 6
No 3
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.8e-47 Score=429.65 Aligned_cols=319 Identities=51% Similarity=0.835 Sum_probs=305.5
Q ss_pred CccHHHhhhhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHH
Q 004281 445 YNSVEEVTGRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAIT 524 (764)
Q Consensus 445 ~nsleEv~GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~ 524 (764)
..++.+..|.+..+|+|++|||+||+.+..++......|+.++..++.+||.|+||||+||+|+++|+++++..|+..++
T Consensus 209 ~~~~~~~~~~~~~~akd~~gc~~lq~~~~~~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lt 288 (536)
T KOG2049|consen 209 LASMVEIQGSINLIAKDQHGCRLLQKLLSEGTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLT 288 (536)
T ss_pred chhhhccchhhhhhcccccCCcccccCcccCccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHh
Confidence 34567778999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhHHhhh-----hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhh
Q 004281 525 RKAGDLVRIS-----TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCV 599 (764)
Q Consensus 525 ~~~g~Ll~ls-----~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv 599 (764)
...+.++.++ +++||++++...+.+|+..++++|.+.+..|++|.||+||||+||.+..++.++++++++...+.
T Consensus 289 s~p~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~ 368 (536)
T KOG2049|consen 289 SDPRLFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCL 368 (536)
T ss_pred cCccceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhcchhHHHHHHHHhcCchhhhHHHHHHHHHHH
Confidence 8888888877 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhccccCcch
Q 004281 600 ELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEGNYGDLSMQKYS 679 (764)
Q Consensus 600 ~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~G 679 (764)
++|+|++||+|+|+||.....+++..|+++|..++..|+.|+|||||||++|+...+.....|+..|.|++++||++|||
T Consensus 369 ~iA~~~hGCcvLq~cl~~~~~~~rd~Lv~~i~~naL~Ls~d~~GNyvVQyvl~L~~~~~t~~i~~~L~g~~veLS~qKfg 448 (536)
T KOG2049|consen 369 DLATDQHGCCVLQKCLDYSRGEQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEKLRGHYVELSFQKFG 448 (536)
T ss_pred HHHHhccccchhHHHhcchhHHHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHhhhhHHHHHHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999998999999999999999999999999
Q ss_pred hHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHHHhhcCCh----hhHHHHHHHHhhhHHHHhcCCchHH
Q 004281 680 SNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQAALQQSKG----GVHSALVDAIRPHVPVLRTSPYGKK 755 (764)
Q Consensus 680 S~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkLL~~~~~----~~r~~Lve~L~~~l~~L~~skyGsr 755 (764)
||||||||+.+... +..|+.||+..+.++.|+.|+|||||||++|..+++ ..+..+++.+++.+..|+++++|++
T Consensus 449 S~vVEk~L~~~~~~-~~~iV~ell~~~~~~~Ll~D~ygNyViq~AL~vtk~~~~~~~~~~lv~~~~~~~~~lr~~p~~~~ 527 (536)
T KOG2049|consen 449 SHVVEKLLKVRESS-RAQIVLELLSCDELDRLLRDPYGNYVIQTALRVTKVKLREDLFGLLVQKLMPRIRLLRNNPGGNI 527 (536)
T ss_pred cHHHHHHHhcCcch-hhHHHHHHHccccHHHHhhCccchHHHHHHHHHhhhcccchhhHHHHHHHhhhhHHhhcCcccce
Confidence 99999999987744 488999999888999999999999999999999986 6899999999999999999999999
Q ss_pred HHHHhhcCC
Q 004281 756 VLSCNSLKK 764 (764)
Q Consensus 756 VV~kL~lkk 764 (764)
|..++.+++
T Consensus 528 ~~~~~~~~~ 536 (536)
T KOG2049|consen 528 ALIKDSLRK 536 (536)
T ss_pred eeehhcccC
Confidence 999988775
No 4
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-45 Score=431.77 Aligned_cols=304 Identities=41% Similarity=0.627 Sum_probs=287.1
Q ss_pred HhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHHhhhhHHhhh
Q 004281 455 IYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITRKAGDLVRIS 534 (764)
Q Consensus 455 I~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~~~g~Ll~ls 534 (764)
+...++|++|||+||+.|+..+.++.+.++.++++...+||.|.||||||||+||+++++++..++..+.+ +++.++
T Consensus 443 ~~~~~~Dq~g~r~LQk~Lds~s~~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~---~~~~ls 519 (777)
T COG5099 443 IIVSCKDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSK---HLVSLS 519 (777)
T ss_pred cccccCCcHHHHHHHHHhcccchHHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhh---hHHHhh
Confidence 33336999999999999999999999999999999999999999999999999999999999999998864 455444
Q ss_pred -----hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccch
Q 004281 535 -----TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCC 609 (764)
Q Consensus 535 -----~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSr 609 (764)
|||+||+|+.+.+++++..++++|.+++..+++|++||||||||++++..+...+|++.+..+++++++|+|||+
T Consensus 520 ~~~~Gtrv~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~Gs~ 599 (777)
T COG5099 520 VHKYGTRVLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSR 599 (777)
T ss_pred ccccccHHHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccccH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHH-hhhccccCcchhHHHHHHHh
Q 004281 610 VIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEG-NYGDLSMQKYSSNVVEKCLK 688 (764)
Q Consensus 610 VVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g-~~veLS~~K~GS~VVEK~L~ 688 (764)
|||+|+|++..++...++++|..++..|++|+||||||||+|+.+.+..+..|+..+.. ++++||+|||||.|||||+.
T Consensus 600 vvq~~le~~~~~~~~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~ 679 (777)
T COG5099 600 VVQRCLENCNSEDKENLVEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIK 679 (777)
T ss_pred HHHHHHHhccHhHHHHHHHHHHHHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999888 99999999999999999999
Q ss_pred hCCHHH-HHHHHHHHHh----ch-hHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhhhHHHHhcCCchHHHHHHhh
Q 004281 689 YGDDER-RAHIIQELIS----NA-HLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRPHVPVLRTSPYGKKVLSCNS 761 (764)
Q Consensus 689 ~a~~k~-Rk~Ii~eLl~----~~-~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~~l~~L~~skyGsrVV~kL~ 761 (764)
++.+.. |.+|+.++.. .+ .+..|+.|+|||||+|+++..+....+..+++.+++++..|..++||.||..++.
T Consensus 680 ~~~~~~~~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~~s~~~~~~l~~~~i~~~~~~l~~s~~g~~i~~~le 758 (777)
T COG5099 680 YASDSFKRSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKKSMYGQHILALLE 758 (777)
T ss_pred cCCcchHHHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHhhCchhhHHHHHHHHHHHHHHHhcCCccHHHHHHHH
Confidence 999988 5999999986 23 3888999999999999999999999999999999999999999999999987764
No 5
>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=2.2e-36 Score=324.46 Aligned_cols=277 Identities=24% Similarity=0.392 Sum_probs=262.0
Q ss_pred CccHHHhhhhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHH
Q 004281 445 YNSVEEVTGRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAIT 524 (764)
Q Consensus 445 ~nsleEv~GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~ 524 (764)
-..++++.+++..+++|++|++++|++|+.++++++..|+.++.+++.+||.|+||+|+||++++.++++++..|++++.
T Consensus 38 ~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~g~~vlqkll~~~~~~~~~~i~~~l~ 117 (322)
T cd07920 38 ELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELR 117 (322)
T ss_pred HHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcccchhHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 34588899999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred HhhhhHHhhh--hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhh
Q 004281 525 RKAGDLVRIS--TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELA 602 (764)
Q Consensus 525 ~~~g~Ll~ls--~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls 602 (764)
++...|.... ++|+|++++.+ ++++...+++.+.+++..++.|++|++|+|++++.+.++.+..+++.+.+++..++
T Consensus 118 ~~~~~L~~d~~gn~Vvq~~l~~~-~~~~~~~i~~~l~~~~~~l~~~~~G~~vvq~~l~~~~~~~~~~l~~~l~~~~~~L~ 196 (322)
T cd07920 118 GHVVELVKDQNGNHVIQKCIEKF-PPEDLQFIIDAFKGNCVALSTHPYGCRVIQRCLEHCSEEQREPLLEEILEHALELV 196 (322)
T ss_pred HCHHHHhhcccccHHHHHHHHhC-CHHHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHh
Confidence 7777776654 99999999998 46778889999999999999999999999999999999999999999999999999
Q ss_pred cCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHH------HhhhccccC
Q 004281 603 TDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLE------GNYGDLSMQ 676 (764)
Q Consensus 603 ~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~------g~~veLS~~ 676 (764)
.++||++|||++++.++++.+..+++.+.+++..|+.++||++|++++++.+++..+..|++.|. +++.+|+.+
T Consensus 197 ~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~Gs~Vve~~l~~~~~~~~~~ii~~l~~~~~~~~~l~~l~~d 276 (322)
T cd07920 197 QDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASNVVEKCLKHASKEERELIIDEILASGNETSALDTLMKD 276 (322)
T ss_pred cCCchhhHHHHHHhcCCHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHCCHHHHHHHHHHHhcCCCchhHHHHHhCC
Confidence 99999999999999999999999999999999999999999999999999999999999999995 488999999
Q ss_pred cchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHHH
Q 004281 677 KYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQAA 724 (764)
Q Consensus 677 K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkL 724 (764)
+||++||+++|+.+++..++.|+..|.. ++..|+.++||+.|+.++
T Consensus 277 ~~Gn~Viq~~l~~~~~~~~~~i~~~l~~--~~~~L~~~~~G~~v~~~~ 322 (322)
T cd07920 277 QYGNYVIQTALDVAKEEQRELLVEAIRP--HLPSLRKSPYGKHILAKL 322 (322)
T ss_pred CcccHHHHHHHHhCCHHHHHHHHHHHHH--HHHHHcCCCcHHHHHHhC
Confidence 9999999999999999999999999965 899999999999999874
No 6
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.1e-31 Score=296.53 Aligned_cols=279 Identities=23% Similarity=0.335 Sum_probs=242.0
Q ss_pred CCCccHHHhhhhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHH
Q 004281 443 QKYNSVEEVTGRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQA 522 (764)
Q Consensus 443 ~~~nsleEv~GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~ 522 (764)
.+..+++++...+..+++|..|-.|+|+.++.++.+++..+...+.+++.+||.|.||++||||.|+..+..++.+|+.+
T Consensus 206 ek~~if~ei~~~~~~L~~dvFGNyvIQkffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~E 285 (503)
T KOG1488|consen 206 EKQAVFDEILPPALELMTDVFGNYVIQKFFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDE 285 (503)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCchhhhhhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHH
Confidence 35667888888889999999999999999999999998888888999999999999999999999999999999999999
Q ss_pred HHHhhhhHHhh--hhHHHHHHHHhcCChHHHHHHHHHhhh--hhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhh
Q 004281 523 ITRKAGDLVRI--STRAVQKVIETLKSPEQFSLVVSSLKP--GIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNC 598 (764)
Q Consensus 523 I~~~~g~Ll~l--s~rVVQKlIe~~~t~eq~~~IveeL~~--~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~i 598 (764)
+..+.-+++.. +++|+||+||++. ++....|++.+.+ ++..+++|+||+.|||++||+|..+....+++.+..++
T Consensus 286 Ld~~vl~~v~DQngnHViQK~ie~~p-~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~ 364 (503)
T KOG1488|consen 286 LDGHLLKCVKDQNGNHVIQKCIETLP-PDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSEDQKQPLMEEIIRNC 364 (503)
T ss_pred HHhhHHHHHhhcccceehhhhhhccC-hHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChHhhhHHHHHHHHHH
Confidence 85433333322 2999999999986 4566778888888 89999999999999999999999888888999999999
Q ss_pred hhhhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHHh-------hh
Q 004281 599 VELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEGN-------YG 671 (764)
Q Consensus 599 v~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~-------~v 671 (764)
..|+.++||.+|||.++++++++.+..|++.|..++..|++++|++.||.+++.++++..|..|++++.+. +.
T Consensus 365 ~~L~~dQygNYVIQHVie~g~~~~~~~I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~ 444 (503)
T KOG1488|consen 365 DQLAQDQYGNYVIQHVIEHGSPYRDTIIIKCLLGNLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALD 444 (503)
T ss_pred HHHHhhhhhhHHHHHHHhcCChhhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHH
Confidence 99999999999999999999998888888999999999999999999999999999888999999888654 45
Q ss_pred ccccCcchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHHH
Q 004281 672 DLSMQKYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQAA 724 (764)
Q Consensus 672 eLS~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkL 724 (764)
.|..|+||.+||+|+|+.+++.+|+.|+..+.. ++..|-+..||.++|.++
T Consensus 445 ~mmkdQYgNYVVQkmi~~~~~~q~~~i~~rI~~--h~~~Lrk~syGKhIia~l 495 (503)
T KOG1488|consen 445 IMMKDQYGNYVVQKMIDICGPEQRELIKSRVKP--HASRLRKFSYGKHIIAKL 495 (503)
T ss_pred HHHHHhhhhhHHHHHHHhcCHHHHHHHHHHHHH--HHHHHccCccHHHHHHHH
Confidence 678999999999999999999999999998854 888899999999988875
No 7
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=1.4e-27 Score=280.57 Aligned_cols=230 Identities=24% Similarity=0.356 Sum_probs=212.8
Q ss_pred hcCCchhHHHHHHHhhcCHHHHHHHHHHHHHhhhhHHhhhhHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchH
Q 004281 495 MTDPFGNYLVQKLLEVCNEDQRMQILQAITRKAGDLVRISTRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHV 574 (764)
Q Consensus 495 s~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~~~g~Ll~ls~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhV 574 (764)
|+|++|++.||+.|+.-+.+. ++.+..++.+.+.+|+.|.|||||
T Consensus 447 ~~Dq~g~r~LQk~Lds~s~~~-----------------------------------~~~~~~e~~d~~~eLs~d~fGNyl 491 (777)
T COG5099 447 CKDQHGSRFLQKLLDSNSSPE-----------------------------------IEVIFNEILDQLVELSSDYFGNYL 491 (777)
T ss_pred cCCcHHHHHHHHHhcccchHH-----------------------------------HHHHHHHHhhhhHHHHHhhhcchh
Confidence 799999999999999854443 334556667788899999999999
Q ss_pred HHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhhcCChHHHH-HHHHHHHHhHHHhhcCCCchHHHHHHHHh
Q 004281 575 AQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLTHSEGEQRH-RLVSKITSNALILSQDPFGNYVVQFVFEL 653 (764)
Q Consensus 575 IQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe~as~eqr~-~Li~eL~~~l~~La~DqyGNyVIQ~LLe~ 653 (764)
+|||++++...++..++..+.+++..++.|+|||||+|+++++...+... .+++++.+.+..|++|++||+|||++++.
T Consensus 492 iQK~fe~~s~~q~~~ml~~~~~~~~~ls~~~~Gtrv~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~ 571 (777)
T COG5099 492 IQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEK 571 (777)
T ss_pred hHHHHHhccHHHHHHHHHHhhhhHHHhhccccccHHHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHh
Confidence 99999999999999999999999999999999999999999987776555 89999999999999999999999999999
Q ss_pred CChhhHHHHHHHHHHhhhccccCcchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHHHhhcCChhhH
Q 004281 654 RLPWATMDILDQLEGNYGDLSMQKYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQAALQQSKGGVH 733 (764)
Q Consensus 654 ~~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkLL~~~~~~~r 733 (764)
-..+....|++.+.+++.+++.|+|||+||++|++.+..+....++++|+. ....|+.|+|||||||++|+.+.+..+
T Consensus 572 ~~~~~~~fif~~~~~~~~~is~~r~Gs~vvq~~le~~~~~~~~~~~~~Ii~--~~~~L~~dq~GNyvvq~il~~g~~~~k 649 (777)
T COG5099 572 FNKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLENCNSEDKENLVEEIIS--NSKYLSQDQYGNYVVQHILDNGAEPNK 649 (777)
T ss_pred cCccccchHHHHHHhhhHhhhccccccHHHHHHHHhccHhHHHHHHHHHHH--HHHhhccCCcchhhhhHHhhcCCCcch
Confidence 888888999999999999999999999999999999999999999999987 678999999999999999999999999
Q ss_pred HHHHHHHhh-hHHHHhcCCchHHHHHHhh
Q 004281 734 SALVDAIRP-HVPVLRTSPYGKKVLSCNS 761 (764)
Q Consensus 734 ~~Lve~L~~-~l~~L~~skyGsrVV~kL~ 761 (764)
+.++..+.. ++.+|++++||+.||+|+.
T Consensus 650 ~~i~~~~l~~~v~elS~~kfaSnvVeK~i 678 (777)
T COG5099 650 ERIIIKLLSKRVVELSTHKFASNVVEKCI 678 (777)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999988888 8999999999999999985
No 8
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=4.7e-27 Score=265.16 Aligned_cols=271 Identities=25% Similarity=0.320 Sum_probs=160.0
Q ss_pred HHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHHhhhhHHhhh--hHHHHHHHHhcCChHHHHHHHHHhhh--
Q 004281 485 VEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITRKAGDLVRIS--TRAVQKVIETLKSPEQFSLVVSSLKP-- 560 (764)
Q Consensus 485 ~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~~~g~Ll~ls--~rVVQKlIe~~~t~eq~~~IveeL~~-- 560 (764)
.+..+.+..+|+|++|..++|++++.++......|+.++......|+... ..++|++++.|+ +++...|+..+..
T Consensus 213 ~~~~~~~~~~akd~~gc~~lq~~~~~~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~-~eq~~~i~~~lts~p 291 (536)
T KOG2049|consen 213 VEIQGSINLIAKDQHGCRLLQKLLSEGTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCD-EEQLTKIVSLLTSDP 291 (536)
T ss_pred hccchhhhhhcccccCCcccccCcccCccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhC-HHHHHHHHHHHhcCc
Confidence 34557899999999999999999999998877776666654444444333 555566655553 3344334444432
Q ss_pred -hhhhhhccCCCchHHHHHHhccCh-hhhHHHHhhhhhhhhhhhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhh
Q 004281 561 -GIVTLIKNMNGNHVAQRCLLYLLP-EYSKFLFQATTNNCVELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILS 638 (764)
Q Consensus 561 -~i~~L~~Dq~GNhVIQklLe~lsp-e~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La 638 (764)
.++.++.+.||+.++|++++.... ++...++++++..++.|.+|.||.+|+|+|+...+.+..+.+++.+..++..+|
T Consensus 292 ~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~iA 371 (536)
T KOG2049|consen 292 RLFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCLDLA 371 (536)
T ss_pred cceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhcchhHHHHHHHHhcCchhhhHHHHHHHHHHHHHH
Confidence 355555556666666655555322 233455555555555555666666666666655555555555555555555566
Q ss_pred cCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhccccCcchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChh
Q 004281 639 QDPFGNYVVQFVFELRLPWATMDILDQLEGNYGDLSMQKYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGN 718 (764)
Q Consensus 639 ~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGN 718 (764)
+|++|+.|+|++|.......|..+++++..+...|+.+.||.+||+.+++.-....-..|+..|.+ +..+|+..+||+
T Consensus 372 ~~~hGCcvLq~cl~~~~~~~rd~Lv~~i~~naL~Ls~d~~GNyvVQyvl~L~~~~~t~~i~~~L~g--~~veLS~qKfgS 449 (536)
T KOG2049|consen 372 TDQHGCCVLQKCLDYSRGEQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEKLRG--HYVELSFQKFGS 449 (536)
T ss_pred HhccccchhHHHhcchhHHHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHhhhh--HHHHHHHHhhcc
Confidence 666666666666655555555555555555555555666666666665555554455555555533 555566666666
Q ss_pred HHHHHHhhcCChhhHHHHHHHHhh--hHHHHhcCCchHHHHHH
Q 004281 719 YVIQAALQQSKGGVHSALVDAIRP--HVPVLRTSPYGKKVLSC 759 (764)
Q Consensus 719 yVIQkLL~~~~~~~r~~Lve~L~~--~l~~L~~skyGsrVV~k 759 (764)
|||++||+.+... +..++.++.. ++..|..++||.+||++
T Consensus 450 ~vVEk~L~~~~~~-~~~iV~ell~~~~~~~Ll~D~ygNyViq~ 491 (536)
T KOG2049|consen 450 HVVEKLLKVRESS-RAQIVLELLSCDELDRLLRDPYGNYVIQT 491 (536)
T ss_pred HHHHHHHhcCcch-hhHHHHHHHccccHHHHhhCccchHHHHH
Confidence 6666666555444 2444444444 55555555566555543
No 9
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=3e-25 Score=247.02 Aligned_cols=277 Identities=19% Similarity=0.264 Sum_probs=248.2
Q ss_pred HHhhhhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHHhhh
Q 004281 449 EEVTGRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITRKAG 528 (764)
Q Consensus 449 eEv~GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~~~g 528 (764)
+-++|+|..++.-|+.|||||+++++++..+|+.||+++.|.+++||+++||-|+|||+|.++++.++..|++++.+++.
T Consensus 160 ~likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~Ghv~ 239 (652)
T KOG2050|consen 160 KLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRGHVV 239 (652)
T ss_pred HHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHH
Confidence 34689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHhhh--hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhc-Cc
Q 004281 529 DLVRIS--TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELAT-DR 605 (764)
Q Consensus 529 ~Ll~ls--~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~-dk 605 (764)
.|+++. ..||..++....+.+|...++.|+++..+.++++.+--++- ++++. .|+.+..|++.+...+..++. ..
T Consensus 240 kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~sn~~Tl~-kil~~-~pekk~~I~~~l~~~I~~v~eKg~ 317 (652)
T KOG2050|consen 240 KLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDSNDKTLD-KILAE-APEKKASILRHLKAIITPVAEKGS 317 (652)
T ss_pred HHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhccCcccHH-HHHHh-ChHhHHHHHHHHHHHhHHHhhcch
Confidence 999887 99999999999999999999999999999999995555444 44443 678899998888877765442 33
Q ss_pred ccchh----hhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhccccCcchhH
Q 004281 606 HGCCV----IQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEGNYGDLSMQKYSSN 681 (764)
Q Consensus 606 yGSrV----VQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~GS~ 681 (764)
.|.-+ +-..|..|+++.+..+++.+.+.+..|++.+-|+.|.-+++.+++++.|+.|++.++.|+..++++.||+.
T Consensus 318 v~~tivHk~mlEy~~~ade~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~K~A~~~yGh~ 397 (652)
T KOG2050|consen 318 VDHTIVHKLMLEYLTIADEEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVEKIANDEYGHL 397 (652)
T ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhhccCce
Confidence 44444 44556789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhCCHH--HHHHHHHHHHhchhHHHhhcCCChhHHHHHHhhcCC
Q 004281 682 VVEKCLKYGDDE--RRAHIIQELISNAHLDQVMLDPYGNYVIQAALQQSK 729 (764)
Q Consensus 682 VVEK~L~~a~~k--~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkLL~~~~ 729 (764)
|+-.+|++.++. .++.|+.++.+ ++..++.|+||+-||++++.-.+
T Consensus 398 vlia~ldc~DDT~l~kk~i~~e~~~--el~~li~Dk~Grrv~lyll~p~D 445 (652)
T KOG2050|consen 398 VLIALLDCTDDTKLLKKLIYDELKS--ELKSLISDKYGRRVILYLLAPRD 445 (652)
T ss_pred ehhhhhcccchHHHHHHHHHHHHHH--HHHHHhccchhhhhhhhhccCCc
Confidence 999999998776 67788899865 89999999999999999998754
No 10
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.87 E-value=1e-20 Score=213.01 Aligned_cols=314 Identities=15% Similarity=0.188 Sum_probs=203.6
Q ss_pred cHHHhhhhHhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcCH-------------
Q 004281 447 SVEEVTGRIYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCNE------------- 513 (764)
Q Consensus 447 sleEv~GkI~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s~------------- 513 (764)
+++|+.|+++.+|+++-||.+||+++..++..+...+|.++.+++..+++|+||+||+|++|+....
T Consensus 93 i~ee~~grel~l~tnqi~Sk~le~l~~f~d~~ql~~ff~~~~g~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s~de 172 (650)
T KOG2188|consen 93 IFEEVYGRELDLATNQIGSKVLEDLLGFSDSRQLCDFFSALNGVLRSIAQHRFGSHVLESALEKLAALVGQEAALLSEDE 172 (650)
T ss_pred HHHHhccceeehhccchhHHHHHHHhccCCchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccchhh
Confidence 6999999999999999999999999999999999999999999999999999999999999987111
Q ss_pred -------------HHHHHHHHHHHHhhh-hHHhhh--hHHHHHHHHhcCCh-----------------------------
Q 004281 514 -------------DQRMQILQAITRKAG-DLVRIS--TRAVQKVIETLKSP----------------------------- 548 (764)
Q Consensus 514 -------------eqr~~Ii~~I~~~~g-~Ll~ls--~rVVQKlIe~~~t~----------------------------- 548 (764)
+...-+..++.++.. .++.++ .+|+.+++-.+...
T Consensus 173 a~~~ke~p~~t~e~~~~~m~nei~~~~~~~l~~~~~gshv~rt~~l~l~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (650)
T KOG2188|consen 173 AAVEKEGPFVTCENLLLLMLNEISPHVLKTLMELIFGSHVLRTILLLLFSMCPIAESEHKLALRKAAHRGMDDWDAVTTP 252 (650)
T ss_pred hcccccCcccccchHHHHHHHHhhHHHHHHHHHHHHhHHHHHHHHHHHccCcchhhhHHHHHHHHHhhccccchhhhhcC
Confidence 112234445544443 333333 44444444433210
Q ss_pred -H----HHHHHHHHhh-----------hhhhhhhccCCCchHHHHHHhccCh-----hhhHHH---Hh---h--------
Q 004281 549 -E----QFSLVVSSLK-----------PGIVTLIKNMNGNHVAQRCLLYLLP-----EYSKFL---FQ---A-------- 593 (764)
Q Consensus 549 -e----q~~~IveeL~-----------~~i~~L~~Dq~GNhVIQklLe~lsp-----e~~~~I---ie---a-------- 593 (764)
+ ....++..+. .++...+.|++.+.|+|++|..... ..++.+ .. .
T Consensus 253 pqsFp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~d~~~~ 332 (650)
T KOG2188|consen 253 PQSFPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMESPRLVTKFQLFNEKDGLWG 332 (650)
T ss_pred hhhccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhhhhHHHhhhhccccCcccc
Confidence 0 0011111111 0233344455555555555554221 011100 00 0
Q ss_pred hh-hhhhhhhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHHhhcCCCchHHHHHHHHhCC-hhhHHHHHHHH-----
Q 004281 594 TT-NNCVELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALILSQDPFGNYVVQFVFELRL-PWATMDILDQL----- 666 (764)
Q Consensus 594 L~-~~iv~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~~~-~~~r~~II~~L----- 666 (764)
.. .-...+-.|+.||++++.+++.+++..+..+...+...+.+|+.++.+||+||++|++.. .++...|++.|
T Consensus 333 kE~~~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~ 412 (650)
T KOG2188|consen 333 KERSFLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLS 412 (650)
T ss_pred cccHHHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHH
Confidence 00 011223335666666666666665555533333333555566666666666666665321 22222222222
Q ss_pred --------------------------------------------------------------------------------
Q 004281 667 -------------------------------------------------------------------------------- 666 (764)
Q Consensus 667 -------------------------------------------------------------------------------- 666 (764)
T Consensus 413 ~LL~~g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~l 492 (650)
T KOG2188|consen 413 SLLEQGNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEEL 492 (650)
T ss_pred HHHHcCCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHHHHH
Confidence
Q ss_pred -------------------HHhhhccccCcchhHHHHHHHhh--CCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHHHh
Q 004281 667 -------------------EGNYGDLSMQKYSSNVVEKCLKY--GDDERRAHIIQELISNAHLDQVMLDPYGNYVIQAAL 725 (764)
Q Consensus 667 -------------------~g~~veLS~~K~GS~VVEK~L~~--a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkLL 725 (764)
..++.++|++.+||||||.+|.. .+++.|++++..|- +...+|+.+.||++|+.+|+
T Consensus 493 v~f~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~--g~~~~La~~~~GSrv~eK~w 570 (650)
T KOG2188|consen 493 VNFSKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILD--GSFVTLALSTFGSRVFEKCW 570 (650)
T ss_pred HhhchhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhh--ccchheeecCcccHHHHHHH
Confidence 23456778999999999999976 77888999998884 47889999999999999999
Q ss_pred hcCChhhHHHHHHHHhhhHHHHhcCCchHHHHHHhhc
Q 004281 726 QQSKGGVHSALVDAIRPHVPVLRTSPYGKKVLSCNSL 762 (764)
Q Consensus 726 ~~~~~~~r~~Lve~L~~~l~~L~~skyGsrVV~kL~l 762 (764)
+.+++.+|..|+.+|-..-..++.++||+.|+.++.|
T Consensus 571 ea~~~~~k~rIakeL~~~~~~vk~s~~gk~v~~~~~l 607 (650)
T KOG2188|consen 571 EATDVLYKERIAKELVGIHNDVKSSKYGKFVMLNWDL 607 (650)
T ss_pred HHhhHHHHHHHHHHHHhhccccccCcchHHHHHhccH
Confidence 9999889999999999999999999999999887654
No 11
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.86 E-value=2.7e-20 Score=207.86 Aligned_cols=257 Identities=18% Similarity=0.275 Sum_probs=207.6
Q ss_pred hHHHHHHHhh-cCHHHHHHHHHHHHHhh-hhHHhhh-----hHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCch
Q 004281 501 NYLVQKLLEV-CNEDQRMQILQAITRKA-GDLVRIS-----TRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNH 573 (764)
Q Consensus 501 NhVVQKLLE~-~s~eqr~~Ii~~I~~~~-g~Ll~ls-----~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNh 573 (764)
+-+.++|=.. +..+.|..++.++.+.. +.+-++. +||||.++.+++ +.+++.|+++|.+.+++|++..||-|
T Consensus 135 kslWEkLR~k~~~ke~R~klv~el~~likg~i~~lv~aHDtSRViQt~Vky~s-~~~r~~if~eL~p~~v~l~kskY~k~ 213 (652)
T KOG2050|consen 135 KSLWEKLRRKTTPKEERDKLVSELYKLIKGKISKLVFAHDTSRVIQTCVKYGS-EAQREQIFEELLPFFVELAKSKYAKF 213 (652)
T ss_pred HHHHHHHhccCCcHHHHHHHHHHHHHHHhhhHHHHHHHhhhHHHHHHHHHhcC-HHHHHHHHHHHhHHHHHHHHhHHHHH
Confidence 3445555433 34577777777775432 2222222 899999998884 67788899999999999999999999
Q ss_pred HHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhh-cCChHHHHHHHHHHHHhHHHhhcCCCchH-------
Q 004281 574 VAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLT-HSEGEQRHRLVSKITSNALILSQDPFGNY------- 645 (764)
Q Consensus 574 VIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe-~as~eqr~~Li~eL~~~l~~La~DqyGNy------- 645 (764)
++|++|.++++..++.|++.+.++++.|..|+.|+.||+.++. +++.+||..|+.++-.....|.++..--.
T Consensus 214 ~v~KmLkyGsk~q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~sn~~Tl~kil~~ 293 (652)
T KOG2050|consen 214 FVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDSNDKTLDKILAE 293 (652)
T ss_pred HHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhccCcccHHHHHHh
Confidence 9999999999999999999999999999999999999998876 68888888888888765555554411101
Q ss_pred --------------HHHHHH------------------HhCChhhHHHHHHHHHHhhhccccCcchhHHHHHHHhhCCHH
Q 004281 646 --------------VVQFVF------------------ELRLPWATMDILDQLEGNYGDLSMQKYSSNVVEKCLKYGDDE 693 (764)
Q Consensus 646 --------------VIQ~LL------------------e~~~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~k 693 (764)
+|+.++ ...+++.+..+++.+..-+++|..++-||+|..+|+..++++
T Consensus 294 ~pekk~~I~~~l~~~I~~v~eKg~v~~tivHk~mlEy~~~ade~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aK 373 (652)
T KOG2050|consen 294 APEKKASILRHLKAIITPVAEKGSVDHTIVHKLMLEYLTIADEEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAK 373 (652)
T ss_pred ChHhHHHHHHHHHHHhHHHhhcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHH
Confidence 111111 234677888899999999999999999999999999999999
Q ss_pred HHHHHHHHHHhchhHHHhhcCCChhHHHHHHhhcCChh--hHHHHHHHHhhhHHHHhcCCchHHHHHHh
Q 004281 694 RRAHIIQELISNAHLDQVMLDPYGNYVIQAALQQSKGG--VHSALVDAIRPHVPVLRTSPYGKKVLSCN 760 (764)
Q Consensus 694 ~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkLL~~~~~~--~r~~Lve~L~~~l~~L~~skyGsrVV~kL 760 (764)
.|+.|+..+. +++..++.|+||+.|+-.+|++.+++ ..+.|++++..++.+|..++||++|+.-+
T Consensus 374 eRK~IiK~~K--~h~~K~A~~~yGh~vlia~ldc~DDT~l~kk~i~~e~~~el~~li~Dk~Grrv~lyl 440 (652)
T KOG2050|consen 374 ERKLIIKNMK--EHVEKIANDEYGHLVLIALLDCTDDTKLLKKLIYDELKSELKSLISDKYGRRVILYL 440 (652)
T ss_pred HHHHHHHHHH--HHHHHHHhhccCceehhhhhcccchHHHHHHHHHHHHHHHHHHHhccchhhhhhhhh
Confidence 9999999995 49999999999999999999999888 68899999999999999999999998765
No 12
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.84 E-value=1.3e-19 Score=204.24 Aligned_cols=260 Identities=17% Similarity=0.269 Sum_probs=197.2
Q ss_pred HhhhccCCCccHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhcC-HHHHHHHHHHHHHhhhhHHhh
Q 004281 455 IYLMAKDQHGCRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVCN-EDQRMQILQAITRKAGDLVRI 533 (764)
Q Consensus 455 I~~LA~Dq~GSRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~s-~eqr~~Ii~~I~~~~g~Ll~l 533 (764)
...+-.|+.|||+|+.+++.+++..+..++..+++.+.+||.|++|||+||+||++.. .++...|++++.++...|++.
T Consensus 338 ~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~~LL~~ 417 (650)
T KOG2188|consen 338 LKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLSSLLEQ 417 (650)
T ss_pred HHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHHHHHHc
Confidence 3445569999999999999999999988888889999999999999999999999998 899999999999999999999
Q ss_pred h-hHHHHHHHHhcCCh-HHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhh
Q 004281 534 S-TRAVQKVIETLKSP-EQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVI 611 (764)
Q Consensus 534 s-~rVVQKlIe~~~t~-eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVV 611 (764)
+ ..||-.++.++..- -..+.+++.|...+.. ...-..-++-++|-... .+.+.......--.|..||.++
T Consensus 418 g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~--~~~~~k~il~~lL~~~~------~~g~~~~~~~t~~~h~~ga~ll 489 (650)
T KOG2188|consen 418 GNSGVVASLIAASARLGSYQDKMLQQLIQAFHA--ASESKKNILPCLLFSLT------LFGCVGEWFLTEKFHQKGAVLL 489 (650)
T ss_pred CCchHhHHHHHHHHhhchhHHHHHHHHHHHHhc--CChhhcchHHHHHHHhh------hcccccccccHHHHhhchhHHH
Confidence 9 89999999887432 1223344444333311 00000111111111100 0011110111112356899999
Q ss_pred hhhhhcCChHHH---HHHHHHHHHhHHHhhcCCCchHHHHHHHHh--CChhhHHHHHHHHHHhhhccccCcchhHHHHHH
Q 004281 612 QKCLTHSEGEQR---HRLVSKITSNALILSQDPFGNYVVQFVFEL--RLPWATMDILDQLEGNYGDLSMQKYSSNVVEKC 686 (764)
Q Consensus 612 QkiLe~as~eqr---~~Li~eL~~~l~~La~DqyGNyVIQ~LLe~--~~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~ 686 (764)
|.++.+...-.. ..+.+.-...+.+++++.+|++||+++|.. .++..+++||..|.+.++.|+.+.+||||++||
T Consensus 490 e~lv~f~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~eK~ 569 (650)
T KOG2188|consen 490 EELVNFSKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVFEKC 569 (650)
T ss_pred HHHHhhchhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHHHHH
Confidence 999998766322 223333347899999999999999999998 578899999999999999999999999999999
Q ss_pred HhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHHH
Q 004281 687 LKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQAA 724 (764)
Q Consensus 687 L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkL 724 (764)
|+.+....|.+|+++|+. .-..+-.++||.||+.+.
T Consensus 570 wea~~~~~k~rIakeL~~--~~~~vk~s~~gk~v~~~~ 605 (650)
T KOG2188|consen 570 WEATDVLYKERIAKELVG--IHNDVKSSKYGKFVMLNW 605 (650)
T ss_pred HHHhhHHHHHHHHHHHHh--hccccccCcchHHHHHhc
Confidence 999999999999999987 334688999999998775
No 13
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.78 E-value=3.4e-19 Score=204.17 Aligned_cols=331 Identities=20% Similarity=0.297 Sum_probs=252.6
Q ss_pred cccCCCCCCCCCCC-cccccccCCCCCCCccHHHhhhhHhhhccCCCccHHHHhhhccC--CHHHHHHHHHHHHHHHHHh
Q 004281 418 FQIDGLNSWPLSSD-SMDLKIIRPQPQKYNSVEEVTGRIYLMAKDQHGCRFLQRKISEG--TLEDIEKIFVEIIDHIVEL 494 (764)
Q Consensus 418 ~~~~~l~s~~~~s~-t~dl~~~r~~~~~~nsleEv~GkI~~LA~Dq~GSRvLQklLe~a--s~eq~~~If~eL~~~i~eL 494 (764)
..++++.+.++... ..|..++++.++..+.+.+ .+.---|-+.+-+... +..+.+.+..++.++..++
T Consensus 481 ~~~~~l~~saIknk~vs~tn~~gpl~t~n~~~R~---------fe~~klRe~rksedsn~~S~pEied~ai~mLDe~~el 551 (1007)
T KOG4574|consen 481 NLTNSLISSAIKNKGVSDTNEFGPLPTPNNGLRD---------FEAPKLRELRKSEDSNRLSAPEIEDLAILMLDELPEL 551 (1007)
T ss_pred hhhhhhhhhhhhcCCcccccccCCCCCCCccccc---------CccchhhHHhhhcccCcccchhHHHHHHHHhccCCcc
Confidence 34445555555432 4555666666654433332 1222234444444432 4567788888999999999
Q ss_pred hcCCchhHHHHHHHhhcCHHHHHHHHHHHHHhhhhH--HhhhhHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCc
Q 004281 495 MTDPFGNYLVQKLLEVCNEDQRMQILQAITRKAGDL--VRISTRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGN 572 (764)
Q Consensus 495 s~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~~~g~L--l~ls~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GN 572 (764)
..|..||-|+||+||+++...++++........-.+ -+.++|+.||+|+.+-++.++..++..+.+.+..++.|+|||
T Consensus 552 sSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~iv~g~dpyc~~l~~dqfgn 631 (1007)
T KOG4574|consen 552 SSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLIVRGVDPYCTPLLNDQFGN 631 (1007)
T ss_pred hhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhheeeeccCcchhhHHHHhhcc
Confidence 999999999999999999988888777654322111 122399999999999999999999999999999999999999
Q ss_pred hHHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhhcC--ChHHHHHHHHHH-HHhHHHhhcCCCchHHHHH
Q 004281 573 HVAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLTHS--EGEQRHRLVSKI-TSNALILSQDPFGNYVVQF 649 (764)
Q Consensus 573 hVIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe~a--s~eqr~~Li~eL-~~~l~~La~DqyGNyVIQ~ 649 (764)
||+|++|.+.-+ ...|+++.+..++|.+.+.+||++.+.+|++.. ..++....++.+ ......++++..|-..|.|
T Consensus 632 yvaqd~LkF~fp-~nsFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~iIs~ss~latnsng~llvtw 710 (1007)
T KOG4574|consen 632 YVAQDSLKFGFP-WNSFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCIISKSSYLATNSNGLLLVTW 710 (1007)
T ss_pred eeeeeehhccCc-cchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhhhhchhhhhhcCccceeeee
Confidence 999999999777 589999999999999999999999999999943 334443333333 3557789999999999999
Q ss_pred HHHhCCh-hhHHHHHHHHHHhhhccccCcchhHHHHHHHhhCCHHH-HHHHHHHHHh-----------------------
Q 004281 650 VFELRLP-WATMDILDQLEGNYGDLSMQKYSSNVVEKCLKYGDDER-RAHIIQELIS----------------------- 704 (764)
Q Consensus 650 LLe~~~~-~~r~~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~k~-Rk~Ii~eLl~----------------------- 704 (764)
+|+.+.- .....++..+.++++.+|+|+.|+-+|.|+++++.+.. |++|++.|+.
T Consensus 711 ~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n~kd~~lt~Vl~~~~~gpmfi 790 (1007)
T KOG4574|consen 711 LLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLRNFKDSALTEVLTEANYGPMFI 790 (1007)
T ss_pred ecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhccccccchhhhhhhhhcccccee
Confidence 9998643 34455667788999999999999999999999887776 9999999983
Q ss_pred -----chhHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhhhHHHHhcCCchHHHHHHh
Q 004281 705 -----NAHLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRPHVPVLRTSPYGKKVLSCN 760 (764)
Q Consensus 705 -----~~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~~l~~L~~skyGsrVV~kL 760 (764)
.+.+.....|+++++|.|.|+...... ...+ +.|...+.-++.+++|++-++.+
T Consensus 791 ikvi~~p~iel~f~dQf~kvvrq~il~~~a~~-narv-~~LleevgliSasksgs~s~q~~ 849 (1007)
T KOG4574|consen 791 IKVITKPTIELAFRDQFIKVVRQVILNSPAVS-NARV-QRLLEEVGLISASKSGSQSIQMH 849 (1007)
T ss_pred eeeeccccchHHHHHHHHHHHHHHHHhcCCcc-HHHH-HHHHHHHhhhccccchhHHHHhh
Confidence 123556788999999999999976443 2222 67777778888999999887654
No 14
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=98.93 E-value=4.9e-10 Score=129.98 Aligned_cols=200 Identities=18% Similarity=0.253 Sum_probs=148.8
Q ss_pred HHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhhcCCh-HHHHHHHH
Q 004281 550 QFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLTHSEG-EQRHRLVS 628 (764)
Q Consensus 550 q~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe~as~-eqr~~Li~ 628 (764)
+++.+.-+..+...++-.|-.||.|+|++++..+.-.++...+.....+..+..|++|..+.|++++++.. .+.+.++.
T Consensus 536 Eied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~iv~ 615 (1007)
T KOG4574|consen 536 EIEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLIVR 615 (1007)
T ss_pred hHHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhheeee
Confidence 34445555566677788888999999999999888888888888888889999999999999999997654 45556666
Q ss_pred HHHHhHHHhhcCCCchHHHHHHHHhCChhhHHHHHHHHHHhhhccccCcchhHHHHHHHhhCCH--HHHHHHHHHHH---
Q 004281 629 KITSNALILSQDPFGNYVVQFVFELRLPWATMDILDQLEGNYGDLSMQKYSSNVVEKCLKYGDD--ERRAHIIQELI--- 703 (764)
Q Consensus 629 eL~~~l~~La~DqyGNyVIQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~--k~Rk~Ii~eLl--- 703 (764)
-+.+.+..|+.|+|||||+|.+|..+-++- ..|++.+..++..+...+||++-|-+|++.-+. ++-...++.++
T Consensus 616 g~dpyc~~l~~dqfgnyvaqd~LkF~fp~n-sFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~iIs~ 694 (1007)
T KOG4574|consen 616 GVDPYCTPLLNDQFGNYVAQDSLKFGFPWN-SFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCIISK 694 (1007)
T ss_pred ccCcchhhHHHHhhcceeeeeehhccCccc-hHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhhhhc
Confidence 677889999999999999999999987765 556888888999999999999999999965221 11111111111
Q ss_pred ------------------h---------------chhHHHhhcCCChhHHHHHHhhcCChhhHHHHHHHHhhhHHHHhcC
Q 004281 704 ------------------S---------------NAHLDQVMLDPYGNYVIQAALQQSKGGVHSALVDAIRPHVPVLRTS 750 (764)
Q Consensus 704 ------------------~---------------~~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lve~L~~~l~~L~~s 750 (764)
+ .+++..+|.|.-|+-+|+|+++.+.+.. ..+.|.+|+..+..+
T Consensus 695 ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepv---s~ekii~hlf~~~n~ 771 (1007)
T KOG4574|consen 695 SSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPV---SREKIIEHLFHLRNF 771 (1007)
T ss_pred hhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChH---HHHHHHHHHhhcccc
Confidence 0 1356678888888888888888876654 445555666777776
Q ss_pred Cch
Q 004281 751 PYG 753 (764)
Q Consensus 751 kyG 753 (764)
+-|
T Consensus 772 kd~ 774 (1007)
T KOG4574|consen 772 KDS 774 (1007)
T ss_pred ccc
Confidence 666
No 15
>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=98.08 E-value=2.4e-06 Score=63.25 Aligned_cols=35 Identities=51% Similarity=0.749 Sum_probs=30.7
Q ss_pred HHHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHH
Q 004281 486 EIIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQIL 520 (764)
Q Consensus 486 eL~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii 520 (764)
++.+++.+||.|+||||||||+|+.++++++..|+
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 36788999999999999999999999998887664
No 16
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.64 E-value=4.2e-05 Score=55.62 Aligned_cols=34 Identities=53% Similarity=0.767 Sum_probs=29.2
Q ss_pred HHHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHH
Q 004281 487 IIDHIVELMTDPFGNYLVQKLLEVCNEDQRMQIL 520 (764)
Q Consensus 487 L~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii 520 (764)
+.+++.+||.|+|||||||++|+.++..++..|+
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 4678999999999999999999999988777664
No 17
>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=97.58 E-value=6.3e-05 Score=55.64 Aligned_cols=29 Identities=41% Similarity=0.699 Sum_probs=12.4
Q ss_pred HhhhccccCcchhHHHHHHHhhCCHHHHH
Q 004281 668 GNYGDLSMQKYSSNVVEKCLKYGDDERRA 696 (764)
Q Consensus 668 g~~veLS~~K~GS~VVEK~L~~a~~k~Rk 696 (764)
+++.+|+.|+|||+||++||+.+++++++
T Consensus 4 ~~~~~l~~d~~Gn~VvQk~le~~~~~~~~ 32 (35)
T PF00806_consen 4 GNLVELSKDQYGNYVVQKCLEHASPEQRQ 32 (35)
T ss_dssp TTHHHHHTSTTHHHHHHHHHHHSSHHHHH
T ss_pred HHHHHHHhccccCHHHHHHHHHCCHHHHH
Confidence 34444444444444444444444444333
No 18
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.12 E-value=0.00038 Score=50.55 Aligned_cols=32 Identities=31% Similarity=0.546 Sum_probs=16.0
Q ss_pred HHhhhccccCcchhHHHHHHHhhCCHHHHHHH
Q 004281 667 EGNYGDLSMQKYSSNVVEKCLKYGDDERRAHI 698 (764)
Q Consensus 667 ~g~~veLS~~K~GS~VVEK~L~~a~~k~Rk~I 698 (764)
.+++.+|+.++|||+||+++|+.+++..+..|
T Consensus 3 ~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i 34 (36)
T smart00025 3 KGHLLELSKDQYGNRVVQKLLEHASESQREQI 34 (36)
T ss_pred hHHHHHHHhcchhhHHHHHHHHHCCHHHHHHh
Confidence 34445555555555555555555554444443
No 19
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=86.77 E-value=49 Score=36.88 Aligned_cols=87 Identities=23% Similarity=0.270 Sum_probs=47.5
Q ss_pred cCCHHHHHHHHHHHHHHHHHhh-cCCchhHHHHHHHhh-cCHHHHHHHHHHHHHh-----hhhHHhhhhHHHHHHHHhcC
Q 004281 474 EGTLEDIEKIFVEIIDHIVELM-TDPFGNYLVQKLLEV-CNEDQRMQILQAITRK-----AGDLVRISTRAVQKVIETLK 546 (764)
Q Consensus 474 ~as~eq~~~If~eL~~~i~eLs-~D~yGNhVVQKLLE~-~s~eqr~~Ii~~I~~~-----~g~Ll~ls~rVVQKlIe~~~ 546 (764)
.-+++..+.++.++...+..-. ...-|.-.+..++.. ...+.-..|++.+... +..|.++..+.++.++...
T Consensus 54 ~vs~~~~~~vL~ef~~~~~~~~~~~~gg~~~~~~iL~~~l~~~~a~~il~~i~~~~~~~~fe~L~~ld~~~l~~lL~~E- 132 (339)
T PRK05686 54 NVSPEQVEAVLEEFEDEFEAGAYILMGGIDYARSLLEKALGEEKADSILERILESLGTSGFDFLRKMDPQQLANFIRNE- 132 (339)
T ss_pred CCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHcCHHHHHHHHHHHhccccCchHHHHhcCCHHHHHHHHHhc-
Confidence 3356666666666655554433 233445557888875 6666667777777532 2233333366666666655
Q ss_pred ChHHHHHHHHHhhhh
Q 004281 547 SPEQFSLVVSSLKPG 561 (764)
Q Consensus 547 t~eq~~~IveeL~~~ 561 (764)
.++.+..++..+.+.
T Consensus 133 hpqtiA~iLs~l~~~ 147 (339)
T PRK05686 133 HPQTIALILSYLKPD 147 (339)
T ss_pred CHHHHHHHHhCCCHH
Confidence 244444444444433
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=82.34 E-value=4.1 Score=40.24 Aligned_cols=55 Identities=16% Similarity=0.262 Sum_probs=34.0
Q ss_pred hHHHhhcCCChhHHHHHHhhcCChhh---HHHHHHHHhhh--------HHHHhcCCchHHHHHHhh
Q 004281 707 HLDQVMLDPYGNYVIQAALQQSKGGV---HSALVDAIRPH--------VPVLRTSPYGKKVLSCNS 761 (764)
Q Consensus 707 ~L~~La~DqyGNyVIQkLL~~~~~~~---r~~Lve~L~~~--------l~~L~~skyGsrVV~kL~ 761 (764)
+...|+.+.+|..||.-+|..+.++. ...|++.+... -..+..+++|++++.+|.
T Consensus 65 ~~~~ll~~~~g~~~i~eiL~~~~gdk~~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~lK~Li 130 (148)
T PF08144_consen 65 NAEELLSSSFGCQFITEILLSATGDKSAALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRMLKKLI 130 (148)
T ss_pred hHHHHHhcCcccHHHHHHHhccCccHHHHHHHHHHHHhhccCCCCCcCccchhcCchHHHHHHHHH
Confidence 44567777777777777777765431 22344444332 124667888888887764
No 21
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=76.58 E-value=1.3e+02 Score=33.51 Aligned_cols=29 Identities=21% Similarity=0.059 Sum_probs=18.9
Q ss_pred CCchHHHHHHHHhCChhhHHHHHHHHHHh
Q 004281 641 PFGNYVVQFVFELRLPWATMDILDQLEGN 669 (764)
Q Consensus 641 qyGNyVIQ~LLe~~~~~~r~~II~~L~g~ 669 (764)
.-|-..+-.+|...+....+.|++.|...
T Consensus 201 ~~g~~~~a~Iln~~~~~~~~~il~~L~~~ 229 (339)
T PRK05686 201 MGGVKTVAEILNNLDRQTEKTILESLEEE 229 (339)
T ss_pred cCcHHHHHHHHhcCCchHHHHHHHHHHhh
Confidence 34556677777776666666777777643
No 22
>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=72.06 E-value=7.1 Score=38.57 Aligned_cols=63 Identities=13% Similarity=0.210 Sum_probs=34.4
Q ss_pred HHhhhccccCcchhHHHHHHHhhCCHH---HHHHHHHHHHhc------hhHHHhhcCCChhHHHHHHhhcCC
Q 004281 667 EGNYGDLSMQKYSSNVVEKCLKYGDDE---RRAHIIQELISN------AHLDQVMLDPYGNYVIQAALQQSK 729 (764)
Q Consensus 667 ~g~~veLS~~K~GS~VVEK~L~~a~~k---~Rk~Ii~eLl~~------~~L~~La~DqyGNyVIQkLL~~~~ 729 (764)
..+..+|..+++||.+|-.+|..+..+ ....|+..+... +.-..++.+++|+.++.++++...
T Consensus 63 ~~~~~~ll~~~~g~~~i~eiL~~~~gdk~~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~lK~Liq~~~ 134 (148)
T PF08144_consen 63 AENAEELLSSSFGCQFITEILLSATGDKSAALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRMLKKLIQGDK 134 (148)
T ss_pred HHhHHHHHhcCcccHHHHHHHhccCccHHHHHHHHHHHHhhccCCCCCcCccchhcCchHHHHHHHHHHCCC
Confidence 334445555666666666655554322 111222222211 111358899999999999998653
No 23
>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=59.05 E-value=3e+02 Score=30.85 Aligned_cols=28 Identities=21% Similarity=0.068 Sum_probs=18.5
Q ss_pred CchHHHHHHHHhCChhhHHHHHHHHHHh
Q 004281 642 FGNYVVQFVFELRLPWATMDILDQLEGN 669 (764)
Q Consensus 642 yGNyVIQ~LLe~~~~~~r~~II~~L~g~ 669 (764)
-|--.+..+|...+....+.|++.|...
T Consensus 199 gG~~~~a~ILN~~~~~~~~~il~~L~~~ 226 (338)
T TIGR00207 199 GGVRAVAEIINLMDRKTEKTIITSLEEF 226 (338)
T ss_pred ChHHHHHHHHHhCCchHHHHHHHHHHHh
Confidence 3556677777776666666777777543
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=54.96 E-value=10 Score=46.96 Aligned_cols=145 Identities=17% Similarity=0.197 Sum_probs=49.0
Q ss_pred hhhhhcCcccchhhhhhhhcCChHHHHHHHHHHHHhHHH-----------------hh----cCCCchHHHHHHHHhCCh
Q 004281 598 CVELATDRHGCCVIQKCLTHSEGEQRHRLVSKITSNALI-----------------LS----QDPFGNYVVQFVFELRLP 656 (764)
Q Consensus 598 iv~Ls~dkyGSrVVQkiLe~as~eqr~~Li~eL~~~l~~-----------------La----~DqyGNyVIQ~LLe~~~~ 656 (764)
|+.+..-.-|-++|-++|.+.+.+++..|+..|..++.. ++ .+.|-..|+..|+.+...
T Consensus 577 fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l~vv~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~l~~~i~~ 656 (808)
T PF09770_consen 577 FISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQLDVVRRASYTDGEDQPLLIKRDDIELFLQAVMPPLMNVINE 656 (808)
T ss_dssp HHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH-----------------HHHHHTTTTT--GGGGHHHS-HHHHH
T ss_pred ceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhhcccccccccccccCccccchHhHHHHHHHHHHHHHHHHHh
Confidence 445555556666677777777776666666666666522 11 112222232222222111
Q ss_pred hhHHHHHHHH-----HHhhhccccCcchhHHHHHHHhhCC---------H---HHHHHHHHHHHhchhH-----HH----
Q 004281 657 WATMDILDQL-----EGNYGDLSMQKYSSNVVEKCLKYGD---------D---ERRAHIIQELISNAHL-----DQ---- 710 (764)
Q Consensus 657 ~~r~~II~~L-----~g~~veLS~~K~GS~VVEK~L~~a~---------~---k~Rk~Ii~eLl~~~~L-----~~---- 710 (764)
.....|+..| ..++..++++|+|--+|..+|..+. . .....++..|+. .| ..
T Consensus 657 ~~~~~i~gll~~~~~~~~~~~i~~tk~Gls~lt~llsRae~l~~~~~~~~~~~~~W~~~~~~lf~--~l~~~~~~~~fp~ 734 (808)
T PF09770_consen 657 APFNEIIGLLGLLINNNNVSFIAQTKFGLSLLTMLLSRAELLKQSGSSSEEEWSQWTEFYDQLFD--SLEEPRLPSIFPP 734 (808)
T ss_dssp HHHHHHTTSTTT-S--HHHHHHHTSHHHHHHHHHHHHHHHHHHHT------HHHHHHHH---------------------
T ss_pred CCHHHHHHHHHHHHhCCCceEEEEChHHHHHHHHHHHHHHHhhccCCCCHHHHHHhhhhhhhccc--ccccccccccccc
Confidence 1111111111 1245667889999888888886521 1 134455666654 22 11
Q ss_pred --hhcCCChhHHHHHHhhcC---ChhhHHHHHHHHhhhH
Q 004281 711 --VMLDPYGNYVIQAALQQS---KGGVHSALVDAIRPHV 744 (764)
Q Consensus 711 --La~DqyGNyVIQkLL~~~---~~~~r~~Lve~L~~~l 744 (764)
-..+--..||+|-+-..+ +.++...||.+++..+
T Consensus 735 ~~~~~~~~~~~vwq~la~~~~~~~~~~q~~lv~~vrd~v 773 (808)
T PF09770_consen 735 DSSINSGDDSYVWQFLAALALGASPEQQQILVDEVRDRV 773 (808)
T ss_dssp ---------------------------------------
T ss_pred ccccccccccccccccccccccccccccccccccccccc
Confidence 223344689998877655 4556777777777654
No 25
>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=52.32 E-value=3.8e+02 Score=30.02 Aligned_cols=158 Identities=15% Similarity=0.171 Sum_probs=74.5
Q ss_pred cCCHHHHHHHHHHHHHHHHHhhcCC-chhHHHHHHHhhc-CHHHHHHHHHHHHHh------hhhHHhhhhHHHHHHHHhc
Q 004281 474 EGTLEDIEKIFVEIIDHIVELMTDP-FGNYLVQKLLEVC-NEDQRMQILQAITRK------AGDLVRISTRAVQKVIETL 545 (764)
Q Consensus 474 ~as~eq~~~If~eL~~~i~eLs~D~-yGNhVVQKLLE~~-s~eqr~~Ii~~I~~~------~g~Ll~ls~rVVQKlIe~~ 545 (764)
.-++++.+.+++++...+..-..-. -|.-.++++|+.+ .++.-..|++.+... +..|-+.....+-.++..-
T Consensus 51 ~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il~~i~~~~~~~~~~~~L~~~~~~~la~~l~~E 130 (338)
T TIGR00207 51 QIDNQQKDDVLEEFEQIAEAQAYINIGGLDYAREVLEKALGEEKAASILNDLTSSLQTAPGFEFLRKAEPQQIADFIQQE 130 (338)
T ss_pred CCCHHHHHHHHHHHHHHHHhcCCccCChHHHHHHHHHHhcCHHHHHHHHHHHhcccccCchhHHHHCCCHHHHHHHHHcc
Confidence 3456666666666655554443222 2345567777665 344555666666432 1112222244444444433
Q ss_pred CChHHHHHHHHHhhhhhhhhh----ccCCCchHHHHHHhc--cChhhhHHHHhhhhhhhhhhh---cCcccchhhhhhhh
Q 004281 546 KSPEQFSLVVSSLKPGIVTLI----KNMNGNHVAQRCLLY--LLPEYSKFLFQATTNNCVELA---TDRHGCCVIQKCLT 616 (764)
Q Consensus 546 ~t~eq~~~IveeL~~~i~~L~----~Dq~GNhVIQklLe~--lspe~~~~IieaL~~~iv~Ls---~dkyGSrVVQkiLe 616 (764)
.++.+..|+..|.+....-+ .+....-|+.++... .+|+....|-+.+...+..+. ...-|...+-.++.
T Consensus 131 -hPQ~iAliLs~L~p~~AA~VL~~Lp~~~~~ei~~ria~l~~vs~~~i~~ie~~L~~~~~~~~~~~~~~gG~~~~a~ILN 209 (338)
T TIGR00207 131 -HPQTIALILSHLDPAQAADILSLFPEEVQAEVARRIATMGRTSPEVVAEVERVLEGKLDSLNSDYTKMGGVRAVAEIIN 209 (338)
T ss_pred -CHHHHHHHHHcCCHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhhccccccCChHHHHHHHHH
Confidence 24444444544443332211 111112222222222 233333332222222332222 22346677888888
Q ss_pred cCChHHHHHHHHHHHH
Q 004281 617 HSEGEQRHRLVSKITS 632 (764)
Q Consensus 617 ~as~eqr~~Li~eL~~ 632 (764)
..+......|++.|..
T Consensus 210 ~~~~~~~~~il~~L~~ 225 (338)
T TIGR00207 210 LMDRKTEKTIITSLEE 225 (338)
T ss_pred hCCchHHHHHHHHHHH
Confidence 8888878788877764
No 26
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=49.77 E-value=2.6e+02 Score=33.40 Aligned_cols=72 Identities=19% Similarity=0.393 Sum_probs=43.2
Q ss_pred HHHHHHHhC--ChhhHHHHHHHHHHhhhccccCcchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHH
Q 004281 646 VVQFVFELR--LPWATMDILDQLEGNYGDLSMQKYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQA 723 (764)
Q Consensus 646 VIQ~LLe~~--~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQk 723 (764)
++-++|++. +-+.|+.|++.|+..+.. ..-+|..+..++-.+-.+=..+.+. .+..++.=.-||||.-.
T Consensus 227 Ilk~il~~d~k~~~ar~~~i~~lRd~y~~-------~~~~e~yl~~s~i~~~~rnf~~~l~--dFek~m~f~eGnFVfHq 297 (711)
T COG1747 227 ILKHILEHDEKDVWARKEIIENLRDKYRG-------HSQLEEYLKISNISQSGRNFFEALN--DFEKLMHFDEGNFVFHQ 297 (711)
T ss_pred HHHHHhhhcchhhhHHHHHHHHHHHHhcc-------chhHHHHHHhcchhhccccHHHHHH--HHHHHheeccCceEEec
Confidence 677788774 457888999988775533 3345666665555544333333333 45566666667777544
Q ss_pred Hhh
Q 004281 724 ALQ 726 (764)
Q Consensus 724 LL~ 726 (764)
-..
T Consensus 298 tWg 300 (711)
T COG1747 298 TWG 300 (711)
T ss_pred ccc
Confidence 443
No 27
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=40.77 E-value=5.6e+02 Score=28.63 Aligned_cols=23 Identities=13% Similarity=0.274 Sum_probs=10.0
Q ss_pred HHHHHhhcCChhhHHHHHHHHhh
Q 004281 720 VIQAALQQSKGGVHSALVDAIRP 742 (764)
Q Consensus 720 VIQkLL~~~~~~~r~~Lve~L~~ 742 (764)
++-.+|..++++.+..++..+..
T Consensus 260 ~la~aLkg~~~e~r~~il~nmS~ 282 (334)
T PRK07194 260 LWAVALKGTEPALRQAILRVMPK 282 (334)
T ss_pred HHHHHHccCCHHHHHHHHHHccH
Confidence 34444444444444444444433
No 28
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=38.96 E-value=60 Score=34.39 Aligned_cols=167 Identities=15% Similarity=0.149 Sum_probs=88.6
Q ss_pred CCchHHHHHHhccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhhcCChH-H--HHHHHHHHHHhHHHhhcCCCchHH
Q 004281 570 NGNHVAQRCLLYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLTHSEGE-Q--RHRLVSKITSNALILSQDPFGNYV 646 (764)
Q Consensus 570 ~GNhVIQklLe~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe~as~e-q--r~~Li~eL~~~l~~La~DqyGNyV 646 (764)
...-.+++++....|-...+---..... ..--.-+.||.+++.++...... . ...++..|.+.+.++-. .-|...
T Consensus 48 ~~~kF~kRLl~FyrP~~~rfs~~~~~~~-~~~~y~~vGc~L~~~Ll~~~eG~~~l~~~~ll~qia~~L~~~d~-~~g~~~ 125 (226)
T PF14666_consen 48 KSTKFFKRLLSFYRPFKYRFSNLDLNTK-NNQKYVRVGCQLLETLLSSPEGIKYLSESKLLPQIAECLAQVDP-MSGITA 125 (226)
T ss_pred hcChHHHHHHHhcCCccccccccccccc-cchHHHHHHHHHHHHHHcCcHHHHHHHHccHHHHHHHHHHHHhh-hcCCcc
Confidence 3455666676666553322211000000 00111235888888888873321 1 22444444444443310 112111
Q ss_pred HHHHHHhCChhhHHHHHHHHHHhhhccccCcchhHHHHHH------HhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHH
Q 004281 647 VQFVFELRLPWATMDILDQLEGNYGDLSMQKYSSNVVEKC------LKYGDDERRAHIIQELISNAHLDQVMLDPYGNYV 720 (764)
Q Consensus 647 IQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~------L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyV 720 (764)
-..++.. ......+....-.-+..||.++.|-.++|+. ......+.+..++.-++. .+ +...+....-+
T Consensus 126 ~~~lfs~--~~l~~tl~~~Yf~~IG~lS~~~~Gl~lLe~~~if~~l~~i~~~~~~~~l~klil~--~L-DY~~~~~~R~i 200 (226)
T PF14666_consen 126 HDPLFSP--QRLSTTLSRGYFLFIGVLSSTPNGLKLLERWNIFTMLYHIFSLSSRDDLLKLILS--SL-DYSVDGHPRII 200 (226)
T ss_pred cccccCH--HHHHhhHHHHHHHHHHHHhCChhHHHHHHHCCHHHHHHHHHccCchHHHHHHHHh--hC-CCCCccHHHHH
Confidence 1122221 1112223333344567899999998777752 233333455666666665 22 46668889999
Q ss_pred HHHHhhcCChhhHHHHHHHHhhh
Q 004281 721 IQAALQQSKGGVHSALVDAIRPH 743 (764)
Q Consensus 721 IQkLL~~~~~~~r~~Lve~L~~~ 743 (764)
+.++|..++...|....+.|+..
T Consensus 201 LsKaLt~~s~~iRl~aT~~L~~l 223 (226)
T PF14666_consen 201 LSKALTSGSESIRLYATKHLRVL 223 (226)
T ss_pred HHHHHhcCCHHHHHHHHHHHHHH
Confidence 99999999988888777766543
No 29
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=36.23 E-value=6e+02 Score=27.67 Aligned_cols=49 Identities=18% Similarity=0.123 Sum_probs=25.4
Q ss_pred hhHHHHHHHHHHhhhccccC--cchhHHHHHHHhhCCHHHHHHHHHHHHhc
Q 004281 657 WATMDILDQLEGNYGDLSMQ--KYSSNVVEKCLKYGDDERRAHIIQELISN 705 (764)
Q Consensus 657 ~~r~~II~~L~g~~veLS~~--K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~ 705 (764)
..+..|.+.+...+..+... -.-..+|+.-+..-+.+....++...+++
T Consensus 290 ~l~~~i~~~i~~~l~~~v~~~~~~i~~~V~~~l~~~~~~~l~~~i~~~v~~ 340 (367)
T PF04286_consen 290 ELREKINRFIENLLERIVESNHIDIGEIVEEKLNSLDDEELEELIESKVGK 340 (367)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 33444444444444443333 22345555555666777777777666653
No 30
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.76 E-value=9.3e+02 Score=30.15 Aligned_cols=21 Identities=10% Similarity=0.181 Sum_probs=11.5
Q ss_pred HHHhhcCCChhHHHHHHhhcC
Q 004281 708 LDQVMLDPYGNYVIQAALQQS 728 (764)
Q Consensus 708 L~~La~DqyGNyVIQkLL~~~ 728 (764)
|..|.....|.-+-..+++.+
T Consensus 421 La~l~~~~~G~~I~eQi~Dv~ 441 (877)
T KOG1059|consen 421 LARLEGTRHGSLIAEQIIDVA 441 (877)
T ss_pred HHhccccchhhHHHHHHHHHh
Confidence 334555556666666665554
No 31
>COG5181 HSH155 U2 snRNP spliceosome subunit [RNA processing and modification]
Probab=29.30 E-value=1.1e+03 Score=29.06 Aligned_cols=51 Identities=6% Similarity=-0.097 Sum_probs=36.4
Q ss_pred HhhcCCChhHHHHHHhhcCChh---hHHHHHHHHhhhHHHHhcCCchHHHHHHh
Q 004281 710 QVMLDPYGNYVIQAALQQSKGG---VHSALVDAIRPHVPVLRTSPYGKKVLSCN 760 (764)
Q Consensus 710 ~La~DqyGNyVIQkLL~~~~~~---~r~~Lve~L~~~l~~L~~skyGsrVV~kL 760 (764)
.|++---..+|+.++|+...++ .|+.-+......+..|-..-+|-+..+.+
T Consensus 512 ilAk~~g~~~v~~kil~~~~De~ep~r~m~a~~vsri~~~lg~~~~dErleerl 565 (975)
T COG5181 512 ILAKMGGDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERL 565 (975)
T ss_pred HHHHHcCChHHHHHHHhhccCCcchhhhhhhHHHHHHHHhcccccccHHHHHHH
Confidence 4555555678999999977443 67777777777777777777777776654
No 32
>PF11510 FA_FANCE: Fanconi Anaemia group E protein FANCE; InterPro: IPR021025 Fanconi Anaemia (FA) is a cancer predisposition disorder characterised by chromosome fragility and hypersensitivity to genotoxic agents that suggest defects in the molecular mechanisms of DNA damage signalling and repair. In response to DNA damage, the FA core complex monoubiquitinates the FANCD2 protein. This ubiquitination targets FANCD2 to nuclear foci where it interacts with a variety of DNA repair proteins. The FA group E protein (FANCE) has an important role in DNA repair, functioning as the FANCD2-binding protein in the FA core complex []. This entry represents the C-terminal domain of FANCE, which consists predominantly of helices and does not contain any beta-strands. This domain folds in a continuous right-handed solenoidal pattern from its N terminus to its C terminus. ; PDB: 2ILR_A.
Probab=24.90 E-value=4e+02 Score=29.06 Aligned_cols=196 Identities=13% Similarity=0.098 Sum_probs=0.0
Q ss_pred hhhccCCHHHHHHHHHHH-HHHHHHhhcCCchhHHHHHHHhhcCHHHHHHHHHHHHHhhhhHHhhhhHHHHHHHHhcCCh
Q 004281 470 RKISEGTLEDIEKIFVEI-IDHIVELMTDPFGNYLVQKLLEVCNEDQRMQILQAITRKAGDLVRISTRAVQKVIETLKSP 548 (764)
Q Consensus 470 klLe~as~eq~~~If~eL-~~~i~eLs~D~yGNhVVQKLLE~~s~eqr~~Ii~~I~~~~g~Ll~ls~rVVQKlIe~~~t~ 548 (764)
+.|-.+++.+.+.+...+ .+.+.+=..=++=+.++.-=-+.+-..-..-+-.-+.++...+-+-++|++..++..+...
T Consensus 42 q~L~~csp~q~e~lc~~L~l~~lsd~~l~~lc~~ll~Ls~dls~~~a~~l~~sl~LpkilsL~~~ASR~L~sal~~f~k~ 121 (263)
T PF11510_consen 42 QFLNECSPSQVEMLCSQLQLPQLSDDGLLQLCSSLLALSPDLSHSNATVLLRSLFLPKILSLEEPASRLLVSALTSFCKK 121 (263)
T ss_dssp HGGGG--HHHHHHHHHHHTGGG--HHHHHHHHHHHHH-SS---HHHHHHHHHHHHHHHHHH-SS---HHHHHHHHHHHHH
T ss_pred HHHHhCCHHHHHHHHHHhCcCCCCHHHHHHHHHHHHccCcccchhhHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHh
Q ss_pred HHHHHHHHHhhhhhhhhhccCCCchHHHHHH--hccChhhhHHHHhhhhhhhhhhhcCcccchhhhhhhh---cCChHHH
Q 004281 549 EQFSLVVSSLKPGIVTLIKNMNGNHVAQRCL--LYLLPEYSKFLFQATTNNCVELATDRHGCCVIQKCLT---HSEGEQR 623 (764)
Q Consensus 549 eq~~~IveeL~~~i~~L~~Dq~GNhVIQklL--e~lspe~~~~IieaL~~~iv~Ls~dkyGSrVVQkiLe---~as~eqr 623 (764)
.....+--.+.+-+..-.....-.-++.+++ +++.|+.+..++..+.+-.|.-.. ..|+|.+++ ..+.+..
T Consensus 122 ~p~~~~~all~PlL~~~~~g~~Q~eLl~rlvk~~~l~p~~~~l~l~~~L~~~W~E~~----~~Vlq~lL~~k~~l~~~~~ 197 (263)
T PF11510_consen 122 YPRPVCEALLVPLLQAPGLGPPQCELLCRLVKKECLEPDHRLLLLRQILELVWNEET----FLVLQSLLERKVELSQELF 197 (263)
T ss_dssp SHHHHHHHHHHHHHHSTT--HHHHHHHHHHHH-TTS-HHHHHHHHHHHHHS---HHH----HHHHHHHHTT-----HHHH
T ss_pred CcHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHHhCcCcHHH----HHHHHHHHhcCCCCCHHHH
Q ss_pred HHHHHHHHHhHHHhhcC-CCchHHHHHHHHhC---ChhhHHHHHHHHHHh
Q 004281 624 HRLVSKITSNALILSQD-PFGNYVVQFVFELR---LPWATMDILDQLEGN 669 (764)
Q Consensus 624 ~~Li~eL~~~l~~La~D-qyGNyVIQ~LLe~~---~~~~r~~II~~L~g~ 669 (764)
..+++.+......++++ +||..++.-+=+++ .+..+..+...+..+
T Consensus 198 ~~l~~~L~~~a~~~skSlkFakLlLtvltKy~~~it~~~~~~L~~~l~~n 247 (263)
T PF11510_consen 198 SLLVELLCEQAPQFSKSLKFAKLLLTVLTKYQSQITEAHKLSLAEALELN 247 (263)
T ss_dssp HHHHHHHH--------SHHHHHHHHHHHHHTGGG--HHHHHHHHHHH-SS
T ss_pred HHHHHHHHHhhHhhhcchHHHHHHHHHHHHcchhccHHHHHHHHHHHHhc
No 33
>PF12231 Rif1_N: Rap1-interacting factor 1 N terminal; InterPro: IPR022031 This domain family is found in eukaryotes, and is typically between 135 and 146 amino acids in length. Rif1 is a protein which interacts with Rap1 to regulate telomere length. Interaction with telomeres limits their length. The N-terminal region contains many HEAT- and ARMADILLO- type repeats. These are helical folds which form extended curved proteins or RNA interface surfaces.
Probab=24.51 E-value=1e+03 Score=26.75 Aligned_cols=44 Identities=14% Similarity=-0.066 Sum_probs=19.8
Q ss_pred HHHHHHHHhCChhhHHHHHHHHHHhhhccccCcchhHHHHHHHhh
Q 004281 645 YVVQFVFELRLPWATMDILDQLEGNYGDLSMQKYSSNVVEKCLKY 689 (764)
Q Consensus 645 yVIQ~LLe~~~~~~r~~II~~L~g~~veLS~~K~GS~VVEK~L~~ 689 (764)
.++..++... ...|..++..+.+-...+..++.-+..+..+++.
T Consensus 179 ~l~~~l~~~~-k~ir~~a~~l~~~~~~~l~~~~~~s~~~~~~~~~ 222 (372)
T PF12231_consen 179 ILFPDLLSSA-KDIRTKAISLLLEAKKCLGPNKELSKSVLEDLQR 222 (372)
T ss_pred HHHHHHhhcc-hHHHHHHHHHHHHHHHHhChhHHHHHHHHHHhcc
Confidence 4555555542 2233333333333333344455555555555543
No 34
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=22.58 E-value=1.1e+03 Score=26.52 Aligned_cols=31 Identities=6% Similarity=0.155 Sum_probs=17.5
Q ss_pred hhHHHHHHhhcCChhhHHHHHHHHhhhHHHH
Q 004281 717 GNYVIQAALQQSKGGVHSALVDAIRPHVPVL 747 (764)
Q Consensus 717 GNyVIQkLL~~~~~~~r~~Lve~L~~~l~~L 747 (764)
.+.++..+|.-+++..|+.+...+.+...++
T Consensus 263 ~~~~La~aLkg~~~~lrekilsnmskR~~e~ 293 (339)
T COG1536 263 DKEDLAIALKGASEELREKILSNMSKRAAEM 293 (339)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHhccHHHHHH
Confidence 4555666666666666666665555544433
No 35
>KOG3821 consensus Heparin sulfate cell surface proteoglycan [Signal transduction mechanisms]
Probab=22.09 E-value=1.4e+03 Score=27.50 Aligned_cols=66 Identities=20% Similarity=0.228 Sum_probs=36.3
Q ss_pred Hhhhccc----cCcchhHHHHHHHhhCCHHHHHHHHHHHHhchhHHHhhcCCChhHHHHHHhhcCChhhHHHHH
Q 004281 668 GNYGDLS----MQKYSSNVVEKCLKYGDDERRAHIIQELISNAHLDQVMLDPYGNYVIQAALQQSKGGVHSALV 737 (764)
Q Consensus 668 g~~veLS----~~K~GS~VVEK~L~~a~~k~Rk~Ii~eLl~~~~L~~La~DqyGNyVIQkLL~~~~~~~r~~Lv 737 (764)
.++.-+. |.-|=.+|+.-|+..-.+ .+.-+..+++ .+..|+..-+|.|=|...+........+.|+
T Consensus 257 p~CqGl~~~kPC~gYC~NVmrGClA~~ad--Ld~~W~~~id--Sl~~L~~~l~g~~~iesvl~~i~v~iseAIm 326 (563)
T KOG3821|consen 257 PHCQGLPSVKPCYGYCLNVMRGCLANQAD--LDPEWRNYID--SLLELADKLEGPFNIESVLLPIHVKISEAIM 326 (563)
T ss_pred hhccCCCccCCcHHHHHHHHHHHhhhhcc--cchHHHHHHH--HHHHHHHhhcCcchHHHHHhhhhhHHHHHHH
Confidence 4444444 333668899999954321 2223333332 3445666667777777777765544444433
No 36
>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=22.09 E-value=1.5e+03 Score=27.54 Aligned_cols=39 Identities=10% Similarity=0.220 Sum_probs=19.1
Q ss_pred hhHHhhhhHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhcc
Q 004281 528 GDLVRISTRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKN 568 (764)
Q Consensus 528 g~Ll~ls~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~D 568 (764)
.+.-+++...+..+++.|..++. . |-..-..++..+|+|
T Consensus 51 k~FP~l~~~Ai~a~~DLcEDed~-~-iR~~aik~lp~~ck~ 89 (556)
T PF05918_consen 51 KHFPDLQEEAINAQLDLCEDEDV-Q-IRKQAIKGLPQLCKD 89 (556)
T ss_dssp CC-GGGHHHHHHHHHHHHT-SSH-H-HHHHHHHHGGGG--T
T ss_pred hhChhhHHHHHHHHHHHHhcccH-H-HHHHHHHhHHHHHHh
Confidence 33444556667777777753322 1 334444566667766
No 37
>PF10508 Proteasom_PSMB: Proteasome non-ATPase 26S subunit; InterPro: IPR019538 The 26S proteasome is an enzymatic complex that degrades ubiquitinated proteins in eukaryotic cells. 26S proteasome non-ATPase regulatory subunit 5 is one of a number of chaperones that are involved in the assembly of the proteasome. The chaperones dissociate before 26S proteasome formation is complete [].; GO: 0044183 protein binding involved in protein folding
Probab=22.09 E-value=1.3e+03 Score=27.08 Aligned_cols=17 Identities=24% Similarity=0.352 Sum_probs=9.9
Q ss_pred HHHHhcCCchHHHHHHh
Q 004281 744 VPVLRTSPYGKKVLSCN 760 (764)
Q Consensus 744 l~~L~~skyGsrVV~kL 760 (764)
+.+|+.+++|..-+.+.
T Consensus 226 l~~La~~~~g~~yL~~~ 242 (503)
T PF10508_consen 226 LSELAETPHGLQYLEQQ 242 (503)
T ss_pred HHHHHcChhHHHHHHhC
Confidence 35666666676655443
No 38
>cd07439 FANCE_c-term Fanconi anemia complementation group E protein, C-terminal domain. Fanconi Anemia (FA) is an autosomal recessive disorder associated with increased susceptibility to various cancers, bone marrow failure, cardiac, renal, and limb malformations, and other characteristics. Cells are highly sensitive to DNA damaging agents. A multi-subunit protein complex, the FA core complex, is responsible for ubiquitination of the protein FANCD2 in response to DNA damage. This monoubiquitination results in a downstream effect on homology-directed DNA repair. FANCE is part of the FA core complex and its C-terminal domain, which is modeled here, has been shown to directly interact with FANCD2. The domain contains a five-fold repeat of a structural unit similar to ARM and HEAT repeats. FANCE appears conserved in metazoa and in plants.
Probab=21.24 E-value=9e+02 Score=26.22 Aligned_cols=201 Identities=14% Similarity=0.093 Sum_probs=0.0
Q ss_pred cHHHhhhhHhhhccCCCc----cHHHHhhhccCCHHHHHHHHHHHHHHHHHhhcCCchhHHHHHHHhhc---CHHHHHHH
Q 004281 447 SVEEVTGRIYLMAKDQHG----CRFLQRKISEGTLEDIEKIFVEIIDHIVELMTDPFGNYLVQKLLEVC---NEDQRMQI 519 (764)
Q Consensus 447 sleEv~GkI~~LA~Dq~G----SRvLQklLe~as~eq~~~If~eL~~~i~eLs~D~yGNhVVQKLLE~~---s~eqr~~I 519 (764)
+.++...+|.+++....+ +-..=..+..+++++.+.+..++.-.- ..|.-...++..++... +......+
T Consensus 6 ~i~~~~~~ikeLl~~~~~~~~~~~~~L~~l~~~~~~~~~~lc~~L~~~~---~~d~~~~~Lcs~lL~~~~~~s~~~~~~~ 82 (254)
T cd07439 6 VIQEVLEDIKELLLQEGEWLPSSPDELQFLHSCSPSQMEVLCSQLQLSS---LSDQTLLLLCSSLLPLSPDLSLANAVVF 82 (254)
T ss_pred HHHHHHHHHHHHHHhhccCcCChHHHHHHHccCCHHHHHHHHHHhccCC---cccHHHHHHHHHHhccCCccCcccHHHH
Q ss_pred HHHH-HHhhhhHHhhhhHHHHHHHHhcCChHHHHHHHHHhhhhhhhhhccCCCchHHHHHHhccChhhhHHHHhhhhhhh
Q 004281 520 LQAI-TRKAGDLVRISTRAVQKVIETLKSPEQFSLVVSSLKPGIVTLIKNMNGNHVAQRCLLYLLPEYSKFLFQATTNNC 598 (764)
Q Consensus 520 i~~I-~~~~g~Ll~ls~rVVQKlIe~~~t~eq~~~IveeL~~~i~~L~~Dq~GNhVIQklLe~lspe~~~~IieaL~~~i 598 (764)
+..+ .++...+-+-++|++-.++..+........+-..+.+-+...-...+-..+|.++++.+.+..-...+-.-.=.-
T Consensus 83 ~~~l~LpKl~~l~~~aSR~L~~al~~f~~r~~~~~ceall~PLl~~~~~~~~q~ell~rlike~~~~~~~~l~~~q~L~~ 162 (254)
T cd07439 83 TRHLLLPKLLSLNESASRALVAALASFAKRYPRPFCEALLRPLLQCPHPGPFQAELLCRLVKECFEPDAVLLLLHQILIS 162 (254)
T ss_pred HHHHHhhhhhccCcchhHHHHHHHHHHHHhCChhHHHHHHHHHHHCCCCCHHHHHHHHHHHhccccHHHHHHHHHHHHcc
Q ss_pred hhhhcCcccchhhhhhhh---cCChHHHHHHHHHHHHhHHHhhcC-CCchHHHHHH
Q 004281 599 VELATDRHGCCVIQKCLT---HSEGEQRHRLVSKITSNALILSQD-PFGNYVVQFV 650 (764)
Q Consensus 599 v~Ls~dkyGSrVVQkiLe---~as~eqr~~Li~eL~~~l~~La~D-qyGNyVIQ~L 650 (764)
.++.-+..--.|+|.++. ..+++....++..+......++++ +||+.++.-+
T Consensus 163 ~~~~W~E~~~~v~q~lL~~~~~lte~~~~~Lv~~L~~~a~~~skSlkFa~lll~~i 218 (254)
T cd07439 163 PNLVWTEETFTVIQALLNRKPPLSEESFSELVSKLQEQAEAFSKSLKFAKLLLAVI 218 (254)
T ss_pred ccccccHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhccccHHHHHHHHH
No 39
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.24 E-value=1.5e+03 Score=27.09 Aligned_cols=12 Identities=17% Similarity=0.321 Sum_probs=5.9
Q ss_pred hHHHHHHHHhcC
Q 004281 535 TRAVQKVIETLK 546 (764)
Q Consensus 535 ~rVVQKlIe~~~ 546 (764)
|.+++.++..+.
T Consensus 193 ~g~l~pLl~~l~ 204 (514)
T KOG0166|consen 193 CGALDPLLRLLN 204 (514)
T ss_pred hcchHHHHHHhc
Confidence 445555555443
Done!