Query 005600
Match_columns 688
No_of_seqs 295 out of 1561
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 01:58:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005600.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005600hhsearch_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 6E-64 1.3E-68 551.8 28.2 307 380-687 152-464 (503)
2 cd07920 Pumilio Pumilio-family 100.0 2.8E-51 6E-56 434.0 30.1 286 401-687 4-291 (322)
3 PF07990 NABP: Nucleic acid bi 100.0 5.6E-52 1.2E-56 442.2 14.9 234 145-402 135-385 (385)
4 COG5099 RNA-binding protein of 100.0 1E-44 2.2E-49 419.5 21.9 280 407-687 441-726 (777)
5 cd07920 Pumilio Pumilio-family 100.0 1.8E-42 3.8E-47 366.8 32.4 297 379-682 16-322 (322)
6 KOG1488 Translational represso 100.0 8E-44 1.7E-48 392.7 18.9 265 379-644 222-498 (503)
7 KOG2049 Translational represso 100.0 2.2E-42 4.7E-47 384.2 18.9 281 401-687 212-497 (536)
8 KOG2050 Puf family RNA-binding 100.0 5.5E-38 1.2E-42 344.2 24.0 299 365-685 136-443 (652)
9 COG5099 RNA-binding protein of 100.0 1.1E-31 2.4E-36 311.4 21.2 266 380-645 484-761 (777)
10 KOG2049 Translational represso 100.0 1.4E-31 2.9E-36 298.3 16.5 263 376-640 256-531 (536)
11 KOG2188 Predicted RNA-binding 99.9 5.7E-23 1.2E-27 228.5 21.5 276 400-681 93-604 (650)
12 KOG2050 Puf family RNA-binding 99.9 1.7E-21 3.6E-26 215.1 26.3 251 428-687 146-407 (652)
13 KOG2188 Predicted RNA-binding 99.7 8.3E-16 1.8E-20 171.8 20.1 234 407-641 337-605 (650)
14 KOG4574 RNA-binding protein (c 99.6 9.6E-16 2.1E-20 174.3 10.1 256 431-687 535-820 (1007)
15 KOG4574 RNA-binding protein (c 99.4 2.8E-13 6E-18 154.6 9.3 249 404-655 580-863 (1007)
16 PF00806 PUF: Pumilio-family R 98.2 8.8E-07 1.9E-11 64.7 2.3 35 439-473 1-35 (35)
17 PF00806 PUF: Pumilio-family R 97.8 1.3E-05 2.8E-10 58.5 2.6 31 587-617 4-34 (35)
18 smart00025 Pumilio Pumilio-lik 97.8 1E-05 2.2E-10 58.1 1.9 33 441-473 3-35 (36)
19 smart00025 Pumilio Pumilio-lik 97.6 5.3E-05 1.2E-09 54.3 2.8 34 404-437 2-35 (36)
20 PRK05686 fliG flagellar motor 94.8 6.8 0.00015 43.0 22.8 213 416-657 80-298 (339)
21 PF04286 DUF445: Protein of un 93.6 12 0.00027 40.3 22.0 50 611-660 289-340 (367)
22 PRK05686 fliG flagellar motor 91.1 26 0.00057 38.5 20.2 29 595-623 200-228 (339)
23 PF08144 CPL: CPL (NUC119) dom 89.4 1.5 3.2E-05 42.7 7.8 66 581-646 58-134 (148)
24 PF08144 CPL: CPL (NUC119) dom 82.4 3.6 7.8E-05 40.1 6.5 67 544-610 58-134 (148)
25 TIGR00207 fliG flagellar motor 81.0 94 0.002 34.3 19.2 48 610-657 248-295 (338)
26 COG1747 Uncharacterized N-term 80.8 75 0.0016 37.2 16.8 231 367-623 9-251 (711)
27 TIGR00207 fliG flagellar motor 78.7 1.1E+02 0.0024 33.7 20.6 28 600-627 262-289 (338)
28 PF09770 PAT1: Topoisomerase I 71.7 6.1 0.00013 48.3 5.8 92 408-499 577-694 (808)
29 COG1536 FliG Flagellar motor s 71.3 1.7E+02 0.0038 32.4 20.7 42 401-442 59-106 (339)
30 KOG2051 Nonsense-mediated mRNA 67.5 2.8E+02 0.0061 35.2 18.1 189 466-659 457-674 (1128)
31 cd07439 FANCE_c-term Fanconi a 67.3 1.8E+02 0.0039 31.0 15.3 102 558-660 132-239 (254)
32 PF12231 Rif1_N: Rap1-interact 66.9 1.3E+02 0.0027 33.6 14.4 73 527-603 179-252 (372)
33 PF11510 FA_FANCE: Fanconi Ana 62.9 1.4E+02 0.0031 32.0 13.1 79 562-644 145-228 (263)
34 PLN03083 E3 UFM1-protein ligas 60.6 1.9E+02 0.0042 35.6 15.0 67 435-506 512-578 (803)
35 PF11510 FA_FANCE: Fanconi Ana 58.4 2.3E+02 0.0049 30.5 13.7 138 418-573 37-190 (263)
36 PF09770 PAT1: Topoisomerase I 57.2 14 0.0003 45.3 5.1 42 443-484 576-617 (808)
37 PF12460 MMS19_C: RNAPII trans 56.2 3.4E+02 0.0073 30.5 16.0 28 490-517 118-145 (415)
38 KOG0213 Splicing factor 3b, su 52.3 3E+02 0.0065 33.9 14.3 170 459-643 556-762 (1172)
39 KOG1924 RhoA GTPase effector D 49.4 2.2E+02 0.0049 35.0 12.8 48 437-484 715-762 (1102)
40 KOG1059 Vesicle coat complex A 46.9 2.8E+02 0.0061 33.9 13.1 24 440-463 219-242 (877)
41 PF10508 Proteasom_PSMB: Prote 46.0 5.4E+02 0.012 29.9 20.0 93 383-475 4-100 (503)
42 KOG1059 Vesicle coat complex A 43.9 6.7E+02 0.015 30.9 15.5 24 404-427 219-242 (877)
43 KOG1086 Cytosolic sorting prot 43.4 1.2E+02 0.0026 34.7 9.0 20 589-608 33-52 (594)
44 PRK07194 fliG flagellar motor 41.9 5.1E+02 0.011 28.5 21.6 25 560-586 197-221 (334)
45 PF02854 MIF4G: MIF4G domain; 41.3 79 0.0017 30.6 6.7 18 578-595 168-185 (209)
46 TIGR00400 mgtE Mg2+ transporte 41.1 1.6E+02 0.0036 33.5 10.1 14 493-506 107-120 (449)
47 COG4399 Uncharacterized protei 39.6 6E+02 0.013 28.6 13.5 24 637-660 326-349 (376)
48 KOG1991 Nuclear transport rece 38.6 3E+02 0.0066 34.6 12.0 125 484-608 432-574 (1010)
49 PF12447 DUF3683: Protein of u 37.5 1.7E+02 0.0036 27.6 7.6 62 506-572 45-106 (115)
50 KOG0166 Karyopherin (importin) 35.3 8.1E+02 0.018 28.9 16.1 154 488-644 256-430 (514)
51 PF04078 Rcd1: Cell differenti 35.1 6E+02 0.013 27.3 15.8 27 616-642 204-230 (262)
52 KOG2213 Apoptosis inhibitor 5/ 34.2 6.4E+02 0.014 28.9 12.7 38 461-498 206-243 (460)
53 PF05327 RRN3: RNA polymerase 34.0 3.1E+02 0.0067 32.4 11.2 71 429-501 49-121 (563)
54 KOG1070 rRNA processing protei 33.9 1.3E+03 0.028 30.8 17.7 37 406-442 1446-1486(1710)
55 PF02438 Adeno_100: Late 100kD 33.3 6.6E+02 0.014 29.8 13.1 49 519-571 284-332 (583)
56 PTZ00429 beta-adaptin; Provisi 32.4 1E+03 0.022 29.4 15.4 253 404-684 180-446 (746)
57 KOG4368 Predicted RNA binding 31.7 4.4E+02 0.0095 31.4 11.3 8 671-678 245-252 (757)
58 PLN03218 maturation of RBCL 1; 31.6 3.7E+02 0.0081 34.4 11.9 25 635-659 688-712 (1060)
59 PF14666 RICTOR_M: Rapamycin-i 31.3 2.3E+02 0.0049 29.7 8.4 26 627-652 190-215 (226)
60 KOG1992 Nuclear export recepto 31.1 5.1E+02 0.011 32.2 12.1 53 561-613 700-756 (960)
61 COG2733 Predicted membrane pro 30.9 5.2E+02 0.011 29.4 11.4 171 486-660 125-301 (415)
62 PF12231 Rif1_N: Rap1-interact 30.6 4.1E+02 0.009 29.5 10.9 50 442-493 77-126 (372)
63 PF03224 V-ATPase_H_N: V-ATPas 28.3 7.6E+02 0.017 26.5 14.3 30 601-630 240-269 (312)
64 PF01602 Adaptin_N: Adaptin N 28.3 6.8E+02 0.015 28.3 12.5 7 614-620 357-363 (526)
65 KOG0166 Karyopherin (importin) 27.7 8.4E+02 0.018 28.8 12.9 103 417-521 257-374 (514)
66 PF11573 Med23: Mediator compl 27.3 3.2E+02 0.007 35.8 10.2 166 422-587 5-195 (1341)
67 KOG2236 Uncharacterized conser 27.2 2.1E+02 0.0045 33.0 7.7 39 56-94 298-338 (483)
68 COG1536 FliG Flagellar motor s 25.9 9.5E+02 0.021 26.8 19.5 26 634-659 263-288 (339)
69 PF05918 API5: Apoptosis inhib 25.7 1.2E+03 0.026 27.8 15.5 8 443-450 82-89 (556)
70 PF08625 Utp13: Utp13 specific 25.5 2.1E+02 0.0046 27.7 6.6 84 598-683 47-137 (141)
71 PF04078 Rcd1: Cell differenti 24.7 2.9E+02 0.0062 29.7 7.8 45 453-498 159-211 (262)
72 COG1747 Uncharacterized N-term 24.2 1.3E+03 0.028 27.6 17.2 36 456-491 68-103 (711)
73 TIGR00400 mgtE Mg2+ transporte 23.8 3.4E+02 0.0073 31.0 8.9 102 401-515 4-105 (449)
74 KOG2160 Armadillo/beta-catenin 22.9 1.1E+03 0.024 26.4 16.7 43 428-471 95-143 (342)
75 PF11864 DUF3384: Domain of un 22.5 9.7E+02 0.021 27.5 12.3 21 480-500 239-259 (464)
76 PF10508 Proteasom_PSMB: Prote 22.2 1.3E+03 0.027 26.9 17.9 11 625-635 226-236 (503)
77 PF07165 DUF1397: Protein of u 21.4 6.7E+02 0.015 25.9 9.7 85 408-494 40-127 (213)
78 KOG1992 Nuclear export recepto 21.2 3.8E+02 0.0082 33.3 8.7 59 418-476 701-764 (960)
79 PF08625 Utp13: Utp13 specific 21.2 6.7E+02 0.014 24.3 9.1 26 525-550 47-72 (141)
80 COG5240 SEC21 Vesicle coat com 21.0 1.5E+03 0.033 27.4 19.3 79 406-484 286-388 (898)
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=6e-64 Score=551.85 Aligned_cols=307 Identities=52% Similarity=0.849 Sum_probs=290.5
Q ss_pred CchhhhHHHHHhhcc-chhhhhHHHHHHHHHHHhhCCCcCHHHHHHhhcCCH-HHHHHHHHHHHHhHHhhhcCcCcchHH
Q 005600 380 EDSKKHSFLEELKSS-NAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSA-EEKVSVFKEVLPHASKLMTDVFGNYVI 457 (688)
Q Consensus 380 ~d~~rs~LLeel~s~-~~r~~~L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~-eer~~If~EL~~~~~eL~~D~yGn~VI 457 (688)
+...++.+++++.+. ..+.+.+.++.|++++++.|++|||+||+.|+.+++ +++..||+||.+.+.+||+|.||||||
T Consensus 152 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvI 231 (503)
T KOG1488|consen 152 NSTGPSFLLDPFRSNSLSKTLELVDIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVI 231 (503)
T ss_pred CCCCCCccccccccccccccccccccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchh
Confidence 334556667776665 667788889999999999999999999999999988 999999999999999999999999999
Q ss_pred HHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHhhhcCC
Q 005600 458 QKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVP 537 (688)
Q Consensus 458 QKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~~~ 537 (688)
||+||+++.+|+..+...+.+++..|+.|+||||||||+||..+.+++.+|++||.+++++|++|++||||||||||+.+
T Consensus 232 QkffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p 311 (503)
T KOG1488|consen 232 QKFFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLP 311 (503)
T ss_pred hhhhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHh--hHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCChHHHH
Q 005600 538 AEKIEFIISAFRG--QVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERT 615 (688)
Q Consensus 538 ~e~~~~Ii~~L~~--~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk 615 (688)
++.+.+|++.|.+ ++..||+|+|||||||++||+|.++ +...++++|..++..|+.|+||||||||+|+++++.++.
T Consensus 312 ~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~-~~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~ 390 (503)
T KOG1488|consen 312 PDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSED-QKQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDT 390 (503)
T ss_pred hHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChH-hhhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhh
Confidence 9999999999999 9999999999999999999999866 455699999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcCcchHHHHHHHHHhCCHHHHHHHHHHHhcCCCCc-chhhhc-cCcchhHHHHHhhcccC
Q 005600 616 QILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEEN-DNLLYY-KSRLAGSMLICLTSWTE 687 (688)
Q Consensus 616 ~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~d~~~Rk~II~ELlg~~~~~-d~L~~L-~DqyGnyVLq~LLsvT~ 687 (688)
.|++.|.++++.|++|||+|||||+||.++.+.+|..|++|+++..++. ++|..| +|+|||||||+++++++
T Consensus 391 ~I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~ 464 (503)
T KOG1488|consen 391 IIIKCLLGNLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICG 464 (503)
T ss_pred hHHHHHHhhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999986655 889999 99999999999999864
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=2.8e-51 Score=434.01 Aligned_cols=286 Identities=58% Similarity=0.913 Sum_probs=274.4
Q ss_pred HHHHH-HHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhh
Q 005600 401 LSDIA-GRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQ 479 (688)
Q Consensus 401 L~~I~-G~V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~ 479 (688)
|+++. |++.++++|++|||+||++|+.++++++..||+++.+++.+||+|+|||||||++|++++++++..|++++.++
T Consensus 4 ~~~~~~~~~~~l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~ 83 (322)
T cd07920 4 LQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGH 83 (322)
T ss_pred HHhccCcchhhccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 45666 99999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHhhhcCChhHHHHHHHHHHhhHHHhhcCC
Q 005600 480 VLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHP 559 (688)
Q Consensus 480 vv~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk 559 (688)
+..|+.|+|||||||++|+.++.+++..|+++|.+++..|++|++||||+|++++..+++.++.|++.+.+++.+|+.|+
T Consensus 84 ~~~l~~~~~g~~vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~ 163 (322)
T cd07920 84 VVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHP 163 (322)
T ss_pred HHHHcccchhHHHHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCChHHHHHHHHHHHHHHHHHhcCcchHHHHH
Q 005600 560 YGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVE 639 (688)
Q Consensus 560 ~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVE 639 (688)
+||+|+|++|+.+. ++.++.+++++.+++..|+.|+|||||||++|+.++++.++.|++.+.+++.+|+++||||+|++
T Consensus 164 ~G~~vvq~~l~~~~-~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~Gs~Vve 242 (322)
T cd07920 164 YGCRVIQRCLEHCS-EEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASNVVE 242 (322)
T ss_pred cccHHHHHHHHhCC-HHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCCHHHHHHHHHHHHHHHHHHHcCcchHHHHH
Confidence 99999999999886 55788999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhCCHHHHHHHHHHHhcCCCCcchhhhc-cCcchhHHHHHhhcccC
Q 005600 640 KCLEYGDTAERELLIEEILGQSEENDNLLYY-KSRLAGSMLICLTSWTE 687 (688)
Q Consensus 640 k~L~~~d~~~Rk~II~ELlg~~~~~d~L~~L-~DqyGnyVLq~LLsvT~ 687 (688)
+||+.++++.|+.|+++|+....+.+.|..| +|+||||||+++|+.++
T Consensus 243 ~~l~~~~~~~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~ 291 (322)
T cd07920 243 KCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAK 291 (322)
T ss_pred HHHHHCCHHHHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCC
Confidence 9999999999999999999864224679999 99999999999998764
No 3
>PF07990 NABP: Nucleic acid binding protein NABP; InterPro: IPR012940 This domain occurs in some putative nucleic acid binding proteins. One of these proteins has been partially characterised [] and contains two putative phosphorylation sites and a possible dimerisation / leucine zipper domain.
Probab=100.00 E-value=5.6e-52 Score=442.17 Aligned_cols=234 Identities=36% Similarity=0.571 Sum_probs=214.4
Q ss_pred CCCCCCCCCCCCCCCCCCCCcccCCCCCCCCcccCCCCCCCCCCCCCC-CCCCC---CCCcccccCCCCCCCCC-----C
Q 005600 145 FYPSFQPSGAGVYPSQYNVGGYALNSALFPPFVAGYPSQGPVPMPFDA-TSGSS---FNIRTTSVSTGEGIPHI-----G 215 (688)
Q Consensus 145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~---~~~~~~~~~~~~~~~~~-----~ 215 (688)
.|||++. ++|..+||++||+. |+||++++++|++|++||+ +++++ +++++ |++|+++.++ +
T Consensus 135 ~~q~~~~-------~n~~~~gy~~n~~~-~s~~~~~~~~gn~p~~fd~~~~~s~~~~~~~~s--~~~g~~~~s~~~~~~~ 204 (385)
T PF07990_consen 135 PYQNSDN-------PNSSFGGYALNPAL-PSMMASQLNNGNIPPLFDNSAAASALASPGMDS--RSLGGGLDSGGNQGAS 204 (385)
T ss_pred cccCCCc-------ccccccccccCccc-hhhhhccccCCCCCccccccccchhhccCCCcc--cccCCccccccccccc
Confidence 4777777 45555999999998 9999999999999999999 55555 67777 9999999986 5
Q ss_pred Ccccc-hhcCCC-CCCCCCCCCChhhhhhhcCCcccccchh-ccCCCCCCCCC-CCCCCCCCCchhhHhhhhhhcccccc
Q 005600 216 STQHQ-KFYGHQ-GLMLQSPFVDPLHMQYFQHPFGDAYNAS-VQHRLASSGVN-GALADPSSKKEPIVAAYMGDQNLQSS 291 (688)
Q Consensus 216 ~~~~~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 291 (688)
|++|+ |++||+ |.++|+||+||+|+||||++++++++.+ +.||+++|+++ ++++|+++.||+||++||++||+||+
T Consensus 205 d~~~l~r~gnq~~g~~lq~~~~DP~Y~Qylq~~~~aa~~~a~~~dP~~~R~~~G~s~~dl~~~qKayl~~lL~~QK~Qy~ 284 (385)
T PF07990_consen 205 DGQNLNRFGNQVAGSALQSPFVDPLYLQYLQAPEYAAQQAAAQNDPSVDRNYMGSSYMDLLGLQKAYLEALLAQQKSQYG 284 (385)
T ss_pred chhhhhhhcccccCcccCCCCCCchHHHHhccccchhhhhhccCCcccccCCcCccccchHHHHHHHHHHHHHHHHHhhC
Confidence 99999 999997 7999999999999999999999988888 99999999999 99999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCCCCcccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcccccc---cCCCCCCCCCCCC-CCCCc
Q 005600 292 LNGGPSISNPRKVGMPVGGYYGGLPGMGVMGQFPTSPIASPVLPSSPVGSTSQLGLRH---EMRLPQGLNRNTG-IYSGW 367 (688)
Q Consensus 292 ~~~~~~~~~~~~~~~~~~~~~g~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~g-~~~~W 367 (688)
+ |+ .|+|..+++||| +|.||++|+|||+|+++|+||++|+|+++ |+|+ ++||++++|+.+| ++|+|
T Consensus 285 ~---P~----~~~~~~n~~y~g-np~~G~gm~Y~gsplaspvlPsspvG~gs--p~r~~er~~R~~s~mRn~~GG~~GsW 354 (385)
T PF07990_consen 285 V---PL----KKSGSMNHGYYG-NPSYGLGMPYPGSPLASPVLPSSPVGPGS--PLRHNERNMRFPSGMRNSSGGSMGSW 354 (385)
T ss_pred C---cc----ccCCCCCCCCCC-CCCccccCCCCCCCCcCCCCCCCCCCCCC--CCcCCccccccCcccccccccccccc
Confidence 8 65 899999999999 88899999999999999999999999997 5654 6999999999845 99999
Q ss_pred ccccccCCCcccCchhhhHHHHHhhccchhhhhHH
Q 005600 368 QGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELS 402 (688)
Q Consensus 368 ~~~r~~~~~~~~~d~~rs~LLeel~s~~~r~~~L~ 402 (688)
+.+++.+ +++.+.+.|||||+++|+|++||+
T Consensus 355 ~~d~g~~----~d~~~~sSlLEEFKsNKtr~FELS 385 (385)
T PF07990_consen 355 HSDAGGN----MDENFASSLLEEFKSNKTRSFELS 385 (385)
T ss_pred ccccccc----ccccchhHHHHHHhcCCccceecC
Confidence 9999877 899999999999999999999984
No 4
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1e-44 Score=419.48 Aligned_cols=280 Identities=40% Similarity=0.648 Sum_probs=261.3
Q ss_pred HHHHH-hhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhhc
Q 005600 407 RIVEF-SVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSL 485 (688)
Q Consensus 407 ~V~eL-a~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~ 485 (688)
....+ ++|++|||+||++|+.-+.++.+.|+.|+.+...+||.|.||||||||+||+++.+|+..++..+.++++.|+.
T Consensus 441 ~~~~~~~~Dq~g~r~LQk~Lds~s~~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~~~~~ls~ 520 (777)
T COG5099 441 PSIIVSCKDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSV 520 (777)
T ss_pred CccccccCCcHHHHHHHHHhcccchHHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhhhHHHhhc
Confidence 33344 49999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccHHHHHHHhhhCHHHHH-HHHHhhhhchhhhhcccCCchhhhHhhhcCChhHHHHHHHHHHhhHHHhhcCCCchHH
Q 005600 486 QMYGCRVIQKALEVIELHQKS-QLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRV 564 (688)
Q Consensus 486 h~yGSrVVQklLE~as~eq~~-~Lv~EL~g~i~~L~kdq~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~V 564 (688)
|+|||||+||+++++..+.+. .|++++++++..|++|++||||+|||++..+.+...+|++.+.+++.++++|+|||+|
T Consensus 521 ~~~Gtrv~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~Gs~v 600 (777)
T COG5099 521 HKYGTRVLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRV 600 (777)
T ss_pred cccccHHHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccccHH
Confidence 999999999999999887777 8899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCChHHHHHHHHHHHH-HHHHHhcCcchHHHHHHHHH
Q 005600 565 IQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAG-KIVQMSQHKYASNVVEKCLE 643 (688)
Q Consensus 565 IQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk~IIk~Lkg-~l~~Ls~~K~GS~VVEk~L~ 643 (688)
||+|||+|..+ ..+.++++|..++..|++|+|||||||++|+.+.+.+++.|+..+.. ++++|++|||||+|||||++
T Consensus 601 vq~~le~~~~~-~~~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~ 679 (777)
T COG5099 601 VQRCLENCNSE-DKENLVEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIK 679 (777)
T ss_pred HHHHHHhccHh-HHHHHHHHHHHHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999865 45789999999999999999999999999999999999999998888 99999999999999999999
Q ss_pred hCCHHH-HHHHHHHHhcCCCCcc-hhhhc-cCcchhHHHHHhhcccC
Q 005600 644 YGDTAE-RELLIEEILGQSEEND-NLLYY-KSRLAGSMLICLTSWTE 687 (688)
Q Consensus 644 ~~d~~~-Rk~II~ELlg~~~~~d-~L~~L-~DqyGnyVLq~LLsvT~ 687 (688)
++.+.+ |++|+.++.....+.+ .|..| .|+|||||+|+++++..
T Consensus 680 ~~~~~~~~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~~s~ 726 (777)
T COG5099 680 YASDSFKRSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLDVSP 726 (777)
T ss_pred cCCcchHHHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHhhCc
Confidence 998888 5999999998322233 48888 99999999999998753
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=1.8e-42 Score=366.79 Aligned_cols=297 Identities=25% Similarity=0.410 Sum_probs=284.0
Q ss_pred cCchhhhHHHHHhh---ccchhhhhHHHHHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhHHhhhcCcCcch
Q 005600 379 FEDSKKHSFLEELK---SSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNY 455 (688)
Q Consensus 379 ~~d~~rs~LLeel~---s~~~r~~~L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~~eL~~D~yGn~ 455 (688)
+.|..++++++++. +++++..+++++.+++.+++.|++|++|||++|+.+++++|..|++++.+++.+|++|+||+|
T Consensus 16 ~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~g~~ 95 (322)
T cd07920 16 AKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCR 95 (322)
T ss_pred cCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcccchhHH
Confidence 68889999999754 567788899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHhhhc
Q 005600 456 VIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIEC 535 (688)
Q Consensus 456 VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~ 535 (688)
|||++|++++++++..|++++.+++.+|+.|.||++|||++++.++.+++..|+++|.+++..++.|++|++|+|++|+.
T Consensus 96 vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~G~~vvq~~l~~ 175 (322)
T cd07920 96 VIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYGCRVIQRCLEH 175 (322)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCccccHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCChHHHH
Q 005600 536 VPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERT 615 (688)
Q Consensus 536 ~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk 615 (688)
.+++.++.+++.+.+++..|+.+++|++|||++|+... ++.++.|++.+.+++..|++++||++|++++|+.+.+++|+
T Consensus 176 ~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~-~~~~~~i~~~l~~~~~~l~~~k~Gs~Vve~~l~~~~~~~~~ 254 (322)
T cd07920 176 CSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGD-PDDTSRIIEKLLGNIVQLSCHKFASNVVEKCLKHASKEERE 254 (322)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCC-HHHHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHCCHHHHH
Confidence 99999999999999999999999999999999999976 55789999999999999999999999999999999999999
Q ss_pred HHHHHHH------HHHHHHhcCcchHHHHHHHHHhCCHHHHHHHHHHHhcCCCCcchhhhc-cCcchhHHHHHh
Q 005600 616 QILSKLA------GKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLYY-KSRLAGSMLICL 682 (688)
Q Consensus 616 ~IIk~Lk------g~l~~Ls~~K~GS~VVEk~L~~~d~~~Rk~II~ELlg~~~~~d~L~~L-~DqyGnyVLq~L 682 (688)
.|++.|. .++.+|++++||++||+++|+.+++..++.|+.+|.++ +..| .++||+.|+.+|
T Consensus 255 ~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~~~~~i~~~l~~~------~~~L~~~~~G~~v~~~~ 322 (322)
T cd07920 255 LIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRPH------LPSLRKSPYGKHILAKL 322 (322)
T ss_pred HHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHHHHHHHHHHHHHH------HHHHcCCCcHHHHHHhC
Confidence 9999995 58999999999999999999999999999999999965 8899 999999999875
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=8e-44 Score=392.69 Aligned_cols=265 Identities=28% Similarity=0.422 Sum_probs=245.5
Q ss_pred cCchhhhHHHHHh---hccchhhhhHHHHHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhHHhhhcCcCcch
Q 005600 379 FEDSKKHSFLEEL---KSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNY 455 (688)
Q Consensus 379 ~~d~~rs~LLeel---~s~~~r~~~L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~~eL~~D~yGn~ 455 (688)
|.|.|+++++++| .+.++++.....++|++.+||.|.+||||||+.|+..+.+.+..++.||..++..+++|++|||
T Consensus 222 ~~dvFGNyvIQkffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnH 301 (503)
T KOG1488|consen 222 MTDVFGNYVIQKFFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNH 301 (503)
T ss_pred HHHHhcCchhhhhhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccce
Confidence 3444555555533 3445566667789999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhcCCHHHHHHHHHHHHh--hHHhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHhh
Q 005600 456 VIQKFFEHGSPDQRKELAEKLVG--QVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCI 533 (688)
Q Consensus 456 VIQKLLe~gs~eqr~~Ii~~L~g--~vv~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklL 533 (688)
||||+||..+++.+.+|++.|.+ ++..|+.|+|||||||++||++.++++..+++||..++..|+.|+|||||||++|
T Consensus 302 ViQK~ie~~p~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~~~L~~dQygNYVIQHVi 381 (503)
T KOG1488|consen 302 VIQKCIETLPPDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSEDQKQPLMEEIIRNCDQLAQDQYGNYVIQHVI 381 (503)
T ss_pred ehhhhhhccChHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChHhhhHHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence 99999999999999999999999 9999999999999999999999999999999999999999999999999999999
Q ss_pred hcCChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHH-------HHHHHHhCCChhHHHHHHH
Q 005600 534 ECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILE-------SAFALAQDQYGNYVTQHVL 606 (688)
Q Consensus 534 e~~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle-------~l~~La~Dq~GNyVIQ~lL 606 (688)
+++.++++..|++.+.++++++++|||+|+||++||+++.. ..|..|++||++ -+..|++|+|||||||++|
T Consensus 382 e~g~~~~~~~I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~-~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi 460 (503)
T KOG1488|consen 382 EHGSPYRDTIIIKCLLGNLLSMSQHKFASNVVEKAFLFAPP-LLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMI 460 (503)
T ss_pred hcCChhhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHhhCCH-HHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHH
Confidence 99999888889999999999999999999999999999874 489999999996 4889999999999999999
Q ss_pred hcCChHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHh
Q 005600 607 ERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEY 644 (688)
Q Consensus 607 e~~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~ 644 (688)
+.+.+.+|+.|+.+++.|+..|.+.+||.|||+++-+.
T Consensus 461 ~~~~~~q~~~i~~rI~~h~~~Lrk~syGKhIia~lek~ 498 (503)
T KOG1488|consen 461 DICGPEQRELIKSRVKPHASRLRKFSYGKHIIAKLEKL 498 (503)
T ss_pred HhcCHHHHHHHHHHHHHHHHHHccCccHHHHHHHHHHh
Confidence 99999999999999999999999999999999997554
No 7
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.2e-42 Score=384.24 Aligned_cols=281 Identities=32% Similarity=0.499 Sum_probs=263.4
Q ss_pred HHHHHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHh--
Q 005600 401 LSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVG-- 478 (688)
Q Consensus 401 L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g-- 478 (688)
+.++.|.+..+++|++|||++|+.+..++......||.|+..++.+||.|+|||++|||+++.|+++|+..|+..+..
T Consensus 212 ~~~~~~~~~~~akd~~gc~~lq~~~~~~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p 291 (536)
T KOG2049|consen 212 MVEIQGSINLIAKDQHGCRLLQKLLSEGTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDP 291 (536)
T ss_pred hhccchhhhhhcccccCCcccccCcccCccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcCc
Confidence 346778999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred -hHHhhhccccccHHHHHHHhhhCH-HHHHHHHHhhhhchhhhhcccCCchhhhHhhhcCChhHHHHHHHHHHhhHHHhh
Q 005600 479 -QVLPLSLQMYGCRVIQKALEVIEL-HQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLS 556 (688)
Q Consensus 479 -~vv~La~h~yGSrVVQklLE~as~-eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls 556 (688)
.++.++.++||+++||++++.... +|...+++.|+..+..|++|.||+||||+||+..++++.+++++.+...+.++|
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 699999999999999999987654 455566788999999999999999999999999999999999999999999999
Q ss_pred cCCCchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCChHHHHHHHHHHHHHHHHHhcCcchHH
Q 005600 557 THPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASN 636 (688)
Q Consensus 557 ~hk~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~ 636 (688)
+|++||+|+|+||....+ ++|+.++++|..+...|+.|+|||||||++|+.-++.....|+..|.+++.+||.+||||+
T Consensus 372 ~~~hGCcvLq~cl~~~~~-~~rd~Lv~~i~~naL~Ls~d~~GNyvVQyvl~L~~~~~t~~i~~~L~g~~veLS~qKfgS~ 450 (536)
T KOG2049|consen 372 TDQHGCCVLQKCLDYSRG-EQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEKLRGHYVELSFQKFGSH 450 (536)
T ss_pred HhccccchhHHHhcchhH-HHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHhhhhHHHHHHHHhhccH
Confidence 999999999999999775 5899999999999999999999999999999999988899999999999999999999999
Q ss_pred HHHHHHHhCCHHHHHHHHHHHhcCCCCcchhhhc-cCcchhHHHHHhhcccC
Q 005600 637 VVEKCLEYGDTAERELLIEEILGQSEENDNLLYY-KSRLAGSMLICLTSWTE 687 (688)
Q Consensus 637 VVEk~L~~~d~~~Rk~II~ELlg~~~~~d~L~~L-~DqyGnyVLq~LLsvT~ 687 (688)
||||||+..... +..|+.||++. +.|..| .|+|||||||++|++|+
T Consensus 451 vVEk~L~~~~~~-~~~iV~ell~~----~~~~~Ll~D~ygNyViq~AL~vtk 497 (536)
T KOG2049|consen 451 VVEKLLKVRESS-RAQIVLELLSC----DELDRLLRDPYGNYVIQTALRVTK 497 (536)
T ss_pred HHHHHHhcCcch-hhHHHHHHHcc----ccHHHHhhCccchHHHHHHHHHhh
Confidence 999999987654 38899999986 458999 99999999999999986
No 8
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.5e-38 Score=344.17 Aligned_cols=299 Identities=19% Similarity=0.328 Sum_probs=273.2
Q ss_pred CCcccccccCCCcccCchhhhHHHHHhhccchhhhhHHHHHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhH
Q 005600 365 SGWQGQRTFEGQRTFEDSKKHSFLEELKSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHA 444 (688)
Q Consensus 365 ~~W~~~r~~~~~~~~~d~~rs~LLeel~s~~~r~~~L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~ 444 (688)
+-|+..|+++ +++++|.+|+.|+.. .++|+|.+|++.|++|||||++++++++++|+.||+||.|.+
T Consensus 136 slWEkLR~k~----~~ke~R~klv~el~~---------likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~ 202 (652)
T KOG2050|consen 136 SLWEKLRRKT----TPKEERDKLVSELYK---------LIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFF 202 (652)
T ss_pred HHHHHHhccC----CcHHHHHHHHHHHHH---------HHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHH
Confidence 4599999988 799999999999876 899999999999999999999999999999999999999999
Q ss_pred HhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHH-hhhCHHHHHHHHHhhhhchhhhhccc
Q 005600 445 SKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKAL-EVIELHQKSQLVLELDGHVMRCVRDQ 523 (688)
Q Consensus 445 ~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklL-E~as~eq~~~Lv~EL~g~i~~L~kdq 523 (688)
++||+++||.|+|||+|.||+++|+..|+++|+||++.|.+|+.|+.||+.++ ++++.+||..|+.||+|..+.++++.
T Consensus 203 v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~s 282 (652)
T KOG2050|consen 203 VELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDS 282 (652)
T ss_pred HHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhcc
Confidence 99999999999999999999999999999999999999999999999999999 56999999999999999999999995
Q ss_pred CCchhhhHhhhcCChhHHHHHHHHHHhhHHHhh-----cCCCchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCCh
Q 005600 524 NGNHVIQKCIECVPAEKIEFIISAFRGQVATLS-----THPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYG 598 (688)
Q Consensus 524 ~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls-----~hk~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~G 598 (688)
+--+ |.++++.. ++.+..|+..++..+..++ .|..-+.++..+|..|+. +.+..+++.+.+.+.+|++++.|
T Consensus 283 n~~T-l~kil~~~-pekk~~I~~~l~~~I~~v~eKg~v~~tivHk~mlEy~~~ade-~e~~e~l~ll~elv~e~vHT~dG 359 (652)
T KOG2050|consen 283 NDKT-LDKILAEA-PEKKASILRHLKAIITPVAEKGSVDHTIVHKLMLEYLTIADE-EEKSELLELLKELVPEMVHTRDG 359 (652)
T ss_pred Cccc-HHHHHHhC-hHhHHHHHHHHHHHhHHHhhcchhHHHHHHHHHHHHHHhCCH-HHHHHHHHHHHHHHHHHhcCCch
Confidence 5544 45555544 6778889999888776554 344566778888889875 57888999999999999999999
Q ss_pred hHHHHHHHhcCChHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHhCCHH--HHHHHHHHHhcCCCCcchhhhc-cCcch
Q 005600 599 NYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTA--ERELLIEEILGQSEENDNLLYY-KSRLA 675 (688)
Q Consensus 599 NyVIQ~lLe~~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~d~~--~Rk~II~ELlg~~~~~d~L~~L-~DqyG 675 (688)
+.|..++++++++++|+.|++.|+.|+.+++++.||+.|+-.+|++.|++ .++.|++++.+. |..+ .|+||
T Consensus 360 S~vAm~li~~a~aKeRK~IiK~~K~h~~K~A~~~yGh~vlia~ldc~DDT~l~kk~i~~e~~~e------l~~li~Dk~G 433 (652)
T KOG2050|consen 360 SRVAMKLIWHATAKERKLIIKNMKEHVEKIANDEYGHLVLIALLDCTDDTKLLKKLIYDELKSE------LKSLISDKYG 433 (652)
T ss_pred HHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhhccCceehhhhhcccchHHHHHHHHHHHHHHH------HHHHhccchh
Confidence 99999999999999999999999999999999999999999999999888 788899999975 8889 99999
Q ss_pred hHHHHHhhcc
Q 005600 676 GSMLICLTSW 685 (688)
Q Consensus 676 nyVLq~LLsv 685 (688)
+.|++||+..
T Consensus 434 rrv~lyll~p 443 (652)
T KOG2050|consen 434 RRVILYLLAP 443 (652)
T ss_pred hhhhhhhccC
Confidence 9999999986
No 9
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=99.98 E-value=1.1e-31 Score=311.38 Aligned_cols=266 Identities=25% Similarity=0.372 Sum_probs=239.8
Q ss_pred CchhhhHHHHHh---hccchhhhhHHHHHHHHHHHhhCCCcCHHHHHHhhcCCHHHHH-HHHHHHHHhHHhhhcCcCcch
Q 005600 380 EDSKKHSFLEEL---KSSNAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKV-SVFKEVLPHASKLMTDVFGNY 455 (688)
Q Consensus 380 ~d~~rs~LLeel---~s~~~r~~~L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~eer~-~If~EL~~~~~eL~~D~yGn~ 455 (688)
.|.++.++++++ .+..++...|..+.+++++++.+++|||++|++|+..++++.- .|++||.+....|.+|++|||
T Consensus 484 ~d~fGNyliQK~fe~~s~~q~~~ml~~~~~~~~~ls~~~~Gtrv~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNH 563 (777)
T COG5099 484 SDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNH 563 (777)
T ss_pred HhhhcchhhHHHHHhccHHHHHHHHHHhhhhHHHhhccccccHHHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCH
Confidence 344444444432 2345566668889999999999999999999999998766554 999999999999999999999
Q ss_pred HHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHhhhc
Q 005600 456 VIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIEC 535 (688)
Q Consensus 456 VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~ 535 (688)
||||||+....+....|++.+.+++.++++|+|||||||+|+|.+..+++..++++|..+...|+.|++||+|||++|+.
T Consensus 564 viqKci~~~~~~~~~fif~~~~~~~~~is~~r~Gs~vvq~~le~~~~~~~~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~ 643 (777)
T COG5099 564 VIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLENCNSEDKENLVEEIISNSKYLSQDQYGNYVVQHILDN 643 (777)
T ss_pred HHHHHHHhcCccccchHHHHHHhhhHhhhccccccHHHHHHHHhccHhHHHHHHHHHHHHHHhhccCCcchhhhhHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhHHHHHHHHHHh-hHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHH-------HHHHHHhCCChhHHHHHHHh
Q 005600 536 VPAEKIEFIISAFRG-QVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILE-------SAFALAQDQYGNYVTQHVLE 607 (688)
Q Consensus 536 ~~~e~~~~Ii~~L~~-~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle-------~l~~La~Dq~GNyVIQ~lLe 607 (688)
+.+..++.|+..+.. ++.+|++||+|+.||++||..|.+...|+.|+.++.. -+..|+.|+|||||+|+++.
T Consensus 644 g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~~~~~~~~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~ 723 (777)
T COG5099 644 GAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKYASDSFKRSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLD 723 (777)
T ss_pred CCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHh
Confidence 999999999888777 9999999999999999999999988667889999886 27789999999999999999
Q ss_pred cCChHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHhC
Q 005600 608 RGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYG 645 (688)
Q Consensus 608 ~~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~ 645 (688)
...+.+|..+.+.++.++..|-..++|-++...+-+.+
T Consensus 724 ~s~~~~~~l~~~~i~~~~~~l~~s~~g~~i~~~le~~~ 761 (777)
T COG5099 724 VSPEIQRSLLARAIKKVIPSLKKSMYGQHILALLEKVG 761 (777)
T ss_pred hCchhhHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHh
Confidence 99999999999999999999999999999887765553
No 10
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=1.4e-31 Score=298.26 Aligned_cols=263 Identities=25% Similarity=0.306 Sum_probs=238.2
Q ss_pred CcccCchhhhHHHHHhh---ccchhhhhHHHHHH---HHHHHhhCCCcCHHHHHHhhcC-CHHHHHHHHHHHHHhHHhhh
Q 005600 376 QRTFEDSKKHSFLEELK---SSNAQKFELSDIAG---RIVEFSVDQHGSRFIQQKLEHC-SAEEKVSVFKEVLPHASKLM 448 (688)
Q Consensus 376 ~~~~~d~~rs~LLeel~---s~~~r~~~L~~I~G---~V~eLa~Dq~GSRVIQklLe~~-s~eer~~If~EL~~~~~eL~ 448 (688)
++-|.|+++.++++++. +.+++..+++.+.. .+++++.+.+|+|.||++++.. +.+|...|+..|++.+..|+
T Consensus 256 ~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~ 335 (536)
T KOG2049|consen 256 PELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDPRLFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLI 335 (536)
T ss_pred HHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcCccceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhh
Confidence 45588999999999655 34445555555553 6899999999999999999885 56778899999999999999
Q ss_pred cCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchh
Q 005600 449 TDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHV 528 (688)
Q Consensus 449 ~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhV 528 (688)
+|.||+||||+||+..++++.+.+++.+..++.++|+|.+||.|||++|.....+++..|++|+..+...|+.|++||||
T Consensus 336 ~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~iA~~~hGCcvLq~cl~~~~~~~rd~Lv~~i~~naL~Ls~d~~GNyv 415 (536)
T KOG2049|consen 336 KDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCLDLATDQHGCCVLQKCLDYSRGEQRDRLVEEISRNALLLSNDPYGNYV 415 (536)
T ss_pred hhcchhHHHHHHHHhcCchhhhHHHHHHHHHHHHHHHhccccchhHHHhcchhHHHHHHHHHHHHHHhHhhhcCccccch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHhhhcCChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHH--HHHHHHhCCChhHHHHHHH
Q 005600 529 IQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILE--SAFALAQDQYGNYVTQHVL 606 (688)
Q Consensus 529 VQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle--~l~~La~Dq~GNyVIQ~lL 606 (688)
||.+|+.-.+.....|++.|.+++++|+.+||||+|||+||+.+... +..|+.|+++ .+..|+.|+|||||||+.|
T Consensus 416 VQyvl~L~~~~~t~~i~~~L~g~~veLS~qKfgS~vVEk~L~~~~~~--~~~iV~ell~~~~~~~Ll~D~ygNyViq~AL 493 (536)
T KOG2049|consen 416 VQYVLELNDPSCTVNIAEKLRGHYVELSFQKFGSHVVEKLLKVRESS--RAQIVLELLSCDELDRLLRDPYGNYVIQTAL 493 (536)
T ss_pred hhhhhhhcCcchHHHHHHhhhhHHHHHHHHhhccHHHHHHHhcCcch--hhHHHHHHHccccHHHHhhCccchHHHHHHH
Confidence 99999998888889999999999999999999999999999997643 4789999998 8999999999999999999
Q ss_pred hcCCh----HHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005600 607 ERGKS----YERTQILSKLAGKIVQMSQHKYASNVVEK 640 (688)
Q Consensus 607 e~~~~----k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk 640 (688)
...+. ..+..++..++..+..|...++|..+.++
T Consensus 494 ~vtk~~~~~~~~~~lv~~~~~~~~~lr~~p~~~~~~~~ 531 (536)
T KOG2049|consen 494 RVTKVKLREDLFGLLVQKLMPRIRLLRNNPGGNIALIK 531 (536)
T ss_pred HHhhhcccchhhHHHHHHHhhhhHHhhcCcccceeeeh
Confidence 98775 67788999999999999999998877655
No 11
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=5.7e-23 Score=228.45 Aligned_cols=276 Identities=18% Similarity=0.342 Sum_probs=197.5
Q ss_pred hHHHHHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCC--------------
Q 005600 400 ELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGS-------------- 465 (688)
Q Consensus 400 ~L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs-------------- 465 (688)
++++..|+..+++.++-+|.++|+++..++..+...+|.++-+++..++.|+||+||+|++|+...
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 456666777777777777777777777777777777777777777777777777777777776421
Q ss_pred ------------HHHHHHHHHHHHhhHH-hhhccccccHHHHHHHhhhCH-----H------------------------
Q 005600 466 ------------PDQRKELAEKLVGQVL-PLSLQMYGCRVIQKALEVIEL-----H------------------------ 503 (688)
Q Consensus 466 ------------~eqr~~Ii~~L~g~vv-~La~h~yGSrVVQklLE~as~-----e------------------------ 503 (688)
++....+.+++..++. .|+.|.+|++|+.+++-.+.. +
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 1223445566666666 677777777777776633110 0
Q ss_pred -----------------------------HHH-------------HHHHhhh----------------------------
Q 005600 504 -----------------------------QKS-------------QLVLELD---------------------------- 513 (688)
Q Consensus 504 -----------------------------q~~-------------~Lv~EL~---------------------------- 513 (688)
.+. .|.-.+.
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 000 0000000
Q ss_pred ---hchhhhhcccCCchhhhHhhhcCChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHH----
Q 005600 514 ---GHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEIL---- 586 (688)
Q Consensus 514 ---g~i~~L~kdq~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIl---- 586 (688)
+....+..|+.|+|++..+++.++++.+..+...|.+++.+|+.|+.+.-+||++|++..+.+....|++++.
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 0012344578888888888888877777666677778888888888888888888887664443333333332
Q ss_pred --------------------------------------------------------------------------------
Q 005600 587 -------------------------------------------------------------------------------- 586 (688)
Q Consensus 587 -------------------------------------------------------------------------------- 586 (688)
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 --------------------HHHHHHHhCCChhHHHHHHHhc--CChHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHh
Q 005600 587 --------------------ESAFALAQDQYGNYVTQHVLER--GKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEY 644 (688)
Q Consensus 587 --------------------e~l~~La~Dq~GNyVIQ~lLe~--~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~ 644 (688)
+++.+++++.+|++||+++|.. ..++.+++||..|.+.+++|+.+.+||+|++|||++
T Consensus 493 v~f~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~eK~wea 572 (650)
T KOG2188|consen 493 VNFSKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVFEKCWEA 572 (650)
T ss_pred HhhchhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHHHHHHHH
Confidence 1367889999999999999998 458899999999999999999999999999999999
Q ss_pred CCHHHHHHHHHHHhcCCCCcchhhhc-cCcchhHHHHH
Q 005600 645 GDTAERELLIEEILGQSEENDNLLYY-KSRLAGSMLIC 681 (688)
Q Consensus 645 ~d~~~Rk~II~ELlg~~~~~d~L~~L-~DqyGnyVLq~ 681 (688)
+++..|+.|++||++..+ .+ .++||.||...
T Consensus 573 ~~~~~k~rIakeL~~~~~------~vk~s~~gk~v~~~ 604 (650)
T KOG2188|consen 573 TDVLYKERIAKELVGIHN------DVKSSKYGKFVMLN 604 (650)
T ss_pred hhHHHHHHHHHHHHhhcc------ccccCcchHHHHHh
Confidence 999999999999998754 67 99999999764
No 12
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=1.7e-21 Score=215.06 Aligned_cols=251 Identities=21% Similarity=0.274 Sum_probs=221.2
Q ss_pred CCHHHHHHHHHHH----HHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHH
Q 005600 428 CSAEEKVSVFKEV----LPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELH 503 (688)
Q Consensus 428 ~s~eer~~If~EL----~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~e 503 (688)
+..++|+.++.|| ++++.+|+.-.-.++|||.|++|+++++|..|+++|.+.++.||..+||-+.||++|.+.+..
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 3558888777765 578999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhchhhhhcccCCchhhhHhhhc-CChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhcCCHHHHHHHH
Q 005600 504 QKSQLVLELDGHVMRCVRDQNGNHVIQKCIEC-VPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIV 582 (688)
Q Consensus 504 q~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~-~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~II 582 (688)
++..|+.+|+||+..|++|..|.+|+..++.- ...++|..++..|.+....+..+ .--.-|.++++... +.+..|+
T Consensus 226 q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~-sn~~Tl~kil~~~p--ekk~~I~ 302 (652)
T KOG2050|consen 226 QKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKD-SNDKTLDKILAEAP--EKKASIL 302 (652)
T ss_pred HHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhc-cCcccHHHHHHhCh--HhHHHHH
Confidence 99999999999999999999999999988765 67899999999999998888877 45566778877643 4677888
Q ss_pred HHHHHHHHHHHhCCC-h----hHHHHHHHhcCChHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHhCCHHHHHHHHHHH
Q 005600 583 DEILESAFALAQDQY-G----NYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEI 657 (688)
Q Consensus 583 eeIle~l~~La~Dq~-G----NyVIQ~lLe~~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~d~~~Rk~II~EL 657 (688)
+.+...+..++.-.. + ..|+..+|..++++++..+++.++..+.+|..++.||+|..+|++++++++|+.|++.|
T Consensus 303 ~~l~~~I~~v~eKg~v~~tivHk~mlEy~~~ade~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~ 382 (652)
T KOG2050|consen 303 RHLKAIITPVAEKGSVDHTIVHKLMLEYLTIADEEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNM 382 (652)
T ss_pred HHHHHHhHHHhhcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHH
Confidence 888877766655443 2 23444456779999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCcchhhhc-cCcchhHHHHHhhcccC
Q 005600 658 LGQSEENDNLLYY-KSRLAGSMLICLTSWTE 687 (688)
Q Consensus 658 lg~~~~~d~L~~L-~DqyGnyVLq~LLsvT~ 687 (688)
.. .+..+ +|+||+.||..+|+++|
T Consensus 383 K~------h~~K~A~~~yGh~vlia~ldc~D 407 (652)
T KOG2050|consen 383 KE------HVEKIANDEYGHLVLIALLDCTD 407 (652)
T ss_pred HH------HHHHHHhhccCceehhhhhcccc
Confidence 95 48899 99999999999999986
No 13
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.69 E-value=8.3e-16 Score=171.83 Aligned_cols=234 Identities=19% Similarity=0.234 Sum_probs=184.6
Q ss_pred HHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCC-HHHHHHHHHHHHhhHHhhhc
Q 005600 407 RIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGS-PDQRKELAEKLVGQVLPLSL 485 (688)
Q Consensus 407 ~V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs-~eqr~~Ii~~L~g~vv~La~ 485 (688)
-..++-.|+.|||+++.+++.+++..+..+...+++++.+|+.++++||+||++|++.+ .++...|++++.+++..|..
T Consensus 337 ~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~~LL~ 416 (650)
T KOG2188|consen 337 FLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLSSLLE 416 (650)
T ss_pred HHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHHHHHH
Confidence 34566669999999999999999999977778899999999999999999999999987 89999999999999888866
Q ss_pred cccccHHHHHHHhhhC------HHHHHHHHHhhh----------------hchhhhh--------cccCCchhhhHhhhc
Q 005600 486 QMYGCRVIQKALEVIE------LHQKSQLVLELD----------------GHVMRCV--------RDQNGNHVIQKCIEC 535 (688)
Q Consensus 486 h~yGSrVVQklLE~as------~eq~~~Lv~EL~----------------g~i~~L~--------kdq~GnhVVQklLe~ 535 (688)
+.+-- |+-.++..+. .+-..+|++.+. .....+. .|+-|+.+++.++.+
T Consensus 417 ~g~~g-Vv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~lv~f 495 (650)
T KOG2188|consen 417 QGNSG-VVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEELVNF 495 (650)
T ss_pred cCCch-HhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHHHHHHhh
Confidence 65432 3333333221 011111222221 1111111 355788899999998
Q ss_pred CChh---HHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhc-CCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCCh
Q 005600 536 VPAE---KIEFIISAFRGQVATLSTHPYGCRVIQRVLEHC-SDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKS 611 (688)
Q Consensus 536 ~~~e---~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~-~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~ 611 (688)
..+. ....+.+....++.++|++.+|||||+.+|... -++..++.+|..+-.....|+.+-+|++|+.+|++.+++
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 6441 223344555689999999999999999999972 345678899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhcCcchHHHHHHH
Q 005600 612 YERTQILSKLAGKIVQMSQHKYASNVVEKC 641 (688)
Q Consensus 612 k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~ 641 (688)
..|.+|.+.|.+.-.++..++||..|..+|
T Consensus 576 ~~k~rIakeL~~~~~~vk~s~~gk~v~~~~ 605 (650)
T KOG2188|consen 576 LYKERIAKELVGIHNDVKSSKYGKFVMLNW 605 (650)
T ss_pred HHHHHHHHHHHhhccccccCcchHHHHHhc
Confidence 999999999999999999999999998885
No 14
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.62 E-value=9.6e-16 Score=174.33 Aligned_cols=256 Identities=19% Similarity=0.233 Sum_probs=206.3
Q ss_pred HHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHHHHHH-HH
Q 005600 431 EEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQ-LV 509 (688)
Q Consensus 431 eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~eq~~~-Lv 509 (688)
.|.+.+.-++.++..+|..|-.||-|+||+|++++...+.........++..+..|++|.++.|++++.+..+...+ ++
T Consensus 535 pEied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~iv 614 (1007)
T KOG4574|consen 535 PEIEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLIV 614 (1007)
T ss_pred hhHHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhheee
Confidence 45556667777888999999999999999999999999999999999999999999999999999999887655544 44
Q ss_pred HhhhhchhhhhcccCCchhhhHhhhcCChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHH--H
Q 005600 510 LELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEIL--E 587 (688)
Q Consensus 510 ~EL~g~i~~L~kdq~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIl--e 587 (688)
.-.+.....++.|++||||+|.+|...-+. -.+|++.+..+++.+.+.+||++.+.+||+...-.-+...+..+.+ .
T Consensus 615 ~g~dpyc~~l~~dqfgnyvaqd~LkF~fp~-nsFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~iIs 693 (1007)
T KOG4574|consen 615 RGVDPYCTPLLNDQFGNYVAQDSLKFGFPW-NSFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCIIS 693 (1007)
T ss_pred eccCcchhhHHHHhhcceeeeeehhccCcc-chHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhhhh
Confidence 667788889999999999999999987543 4788999999999999999999999999996443222333333322 2
Q ss_pred HHHHHHhCCChhHHHHHHHhcCChHHHH-HHHHHHHHHHHHHhcCcchHHHHHHHHHhCCHH-HHHHHHHHHhcCCCC--
Q 005600 588 SAFALAQDQYGNYVTQHVLERGKSYERT-QILSKLAGKIVQMSQHKYASNVVEKCLEYGDTA-ERELLIEEILGQSEE-- 663 (688)
Q Consensus 588 ~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk-~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~d~~-~Rk~II~ELlg~~~~-- 663 (688)
....++.+-.|-..|.++|+.+....|. .++..+.++++++|.|+-|+-+|.|+++.+.+. .|++|++.|+.....
T Consensus 694 ~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n~kd 773 (1007)
T KOG4574|consen 694 KSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLRNFKD 773 (1007)
T ss_pred chhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhcccccc
Confidence 3567888999999999999998755443 455677899999999999999999999996555 599999999943111
Q ss_pred ----------------------cchhhhc-cCcchhHHHHHhhcccC
Q 005600 664 ----------------------NDNLLYY-KSRLAGSMLICLTSWTE 687 (688)
Q Consensus 664 ----------------------~d~L~~L-~DqyGnyVLq~LLsvT~ 687 (688)
...++.. .|+++++|.+.++...+
T Consensus 774 ~~lt~Vl~~~~~gpmfiikvi~~p~iel~f~dQf~kvvrq~il~~~a 820 (1007)
T KOG4574|consen 774 SALTEVLTEANYGPMFIIKVITKPTIELAFRDQFIKVVRQVILNSPA 820 (1007)
T ss_pred chhhhhhhhhccccceeeeeeccccchHHHHHHHHHHHHHHHHhcCC
Confidence 1123444 89999999998887653
No 15
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.43 E-value=2.8e-13 Score=154.62 Aligned_cols=249 Identities=16% Similarity=0.223 Sum_probs=182.5
Q ss_pred HHHHHHHHhhCCCcCHHHHHHhhcCC-HHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHh
Q 005600 404 IAGRIVEFSVDQHGSRFIQQKLEHCS-AEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLP 482 (688)
Q Consensus 404 I~G~V~eLa~Dq~GSRVIQklLe~~s-~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~ 482 (688)
..-.+.....+++|.+..|+.+|.+. +.+.+.|+.-+.+...+|..|+|||||+|.+|+.+-+. ..+|++.+..++++
T Consensus 580 ~s~ylts~gvHknGtw~~qk~ik~a~te~qik~iv~g~dpyc~~l~~dqfgnyvaqd~LkF~fp~-nsFVfE~v~s~~~~ 658 (1007)
T KOG4574|consen 580 GSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLIVRGVDPYCTPLLNDQFGNYVAQDSLKFGFPW-NSFVFESVFSHFWD 658 (1007)
T ss_pred hhhhhhhccccccchHHHHHHHHHhhchhhhheeeeccCcchhhHHHHhhcceeeeeehhccCcc-chHHHHHHHHHHHH
Confidence 33445566667777777777777754 44567777777788888888888888888888887654 45678999999999
Q ss_pred hhccccccHHHHHHHhhh--CHHHHHHHHHh-hhhchhhhhcccCCchhhhHhhhcCChhHHHH-HHHHHHhhHHHhhcC
Q 005600 483 LSLQMYGCRVIQKALEVI--ELHQKSQLVLE-LDGHVMRCVRDQNGNHVIQKCIECVPAEKIEF-IISAFRGQVATLSTH 558 (688)
Q Consensus 483 La~h~yGSrVVQklLE~a--s~eq~~~Lv~E-L~g~i~~L~kdq~GnhVVQklLe~~~~e~~~~-Ii~~L~~~lv~Ls~h 558 (688)
+.+.+||+|.+.+|||.. ..++....++. +....-.+..+.+|-.+|.++|+.+..-.+.. ++..+.+++.++|.|
T Consensus 659 ivQsrfGsravrAcle~lNa~~e~qsl~~~s~iIs~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h 738 (1007)
T KOG4574|consen 659 IVQSRFGSRAVRACLEALNANTEDQSLVRESCIISKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFH 738 (1007)
T ss_pred HHHHhhhhHHHHHHHHHhccCchhhhhhhhhhhhhchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhh
Confidence 999999999999999754 34444433333 33446677889999999999999866555544 446777999999999
Q ss_pred CCchHHHHHHHhhcCCHHHHHHHHHHHHHH------------------------------HHHHHhCCChhHHHHHHHhc
Q 005600 559 PYGCRVIQRVLEHCSDEQQGQCIVDEILES------------------------------AFALAQDQYGNYVTQHVLER 608 (688)
Q Consensus 559 k~GS~VIQklLe~~~d~~~r~~IIeeIle~------------------------------l~~La~Dq~GNyVIQ~lLe~ 608 (688)
+.|+.+++++|+.|.+++.+++|++.|+.- +....-|+++.+|.|.|+..
T Consensus 739 ~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n~kd~~lt~Vl~~~~~gpmfiikvi~~p~iel~f~dQf~kvvrq~il~~ 818 (1007)
T KOG4574|consen 739 KLGSTTVLKLLNLRQEPVSREKIIEHLFHLRNFKDSALTEVLTEANYGPMFIIKVITKPTIELAFRDQFIKVVRQVILNS 818 (1007)
T ss_pred hccchhhhhhhhcCCChHHHHHHHHHHhhccccccchhhhhhhhhccccceeeeeeccccchHHHHHHHHHHHHHHHHhc
Confidence 999999999999999987788888777730 23445567777777777776
Q ss_pred CChHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHhCCHHHHHHHHH
Q 005600 609 GKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIE 655 (688)
Q Consensus 609 ~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~d~~~Rk~II~ 655 (688)
.....- .++.|...+.-.+..|+|+.-++.|+...+..+-+.++.
T Consensus 819 ~a~~na--rv~~LleevgliSasksgs~s~q~~~sss~~~~~qrlls 863 (1007)
T KOG4574|consen 819 PAVSNA--RVQRLLEEVGLISASKSGSQSIQMHISSSKTPFAQRLLS 863 (1007)
T ss_pred CCccHH--HHHHHHHHHhhhccccchhHHHHhhhccCCcccccchhh
Confidence 543221 126666677777888888888888887766554444433
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=98.18 E-value=8.8e-07 Score=64.71 Aligned_cols=35 Identities=43% Similarity=0.727 Sum_probs=26.2
Q ss_pred HHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHH
Q 005600 439 EVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELA 473 (688)
Q Consensus 439 EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii 473 (688)
|+.+++.+|++|+||||||||+|++++++++..|+
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 35677778888888888888888877777776654
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=97.81 E-value=1.3e-05 Score=58.51 Aligned_cols=31 Identities=42% Similarity=0.656 Sum_probs=15.8
Q ss_pred HHHHHHHhCCChhHHHHHHHhcCChHHHHHH
Q 005600 587 ESAFALAQDQYGNYVTQHVLERGKSYERTQI 617 (688)
Q Consensus 587 e~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk~I 617 (688)
+++..|++|+|||||||++|+.+++++++.|
T Consensus 4 ~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~i 34 (35)
T PF00806_consen 4 GNLVELSKDQYGNYVVQKCLEHASPEQRQLI 34 (35)
T ss_dssp TTHHHHHTSTTHHHHHHHHHHHSSHHHHHHH
T ss_pred HHHHHHHhccccCHHHHHHHHHCCHHHHHhh
Confidence 3445555555555555555555555444443
No 18
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.80 E-value=1e-05 Score=58.11 Aligned_cols=33 Identities=39% Similarity=0.615 Sum_probs=18.6
Q ss_pred HHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHH
Q 005600 441 LPHASKLMTDVFGNYVIQKFFEHGSPDQRKELA 473 (688)
Q Consensus 441 ~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii 473 (688)
++++.+|++|+|||+|||++|++++++++..|+
T Consensus 3 ~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 3 KGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred hHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 455555566666666666666555555554443
No 19
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.58 E-value=5.3e-05 Score=54.32 Aligned_cols=34 Identities=38% Similarity=0.662 Sum_probs=31.7
Q ss_pred HHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHH
Q 005600 404 IAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVF 437 (688)
Q Consensus 404 I~G~V~eLa~Dq~GSRVIQklLe~~s~eer~~If 437 (688)
+++++.+|+.|++||||||++|+.++.+++..|+
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 5789999999999999999999999999998876
No 20
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=94.82 E-value=6.8 Score=43.03 Aligned_cols=213 Identities=14% Similarity=0.232 Sum_probs=99.3
Q ss_pred CcCHHHHHHhhc-CCHHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHH
Q 005600 416 HGSRFIQQKLEH-CSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQ 494 (688)
Q Consensus 416 ~GSRVIQklLe~-~s~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQ 494 (688)
.|-..+..+|.. ...++.+.|++++.+.-. .++++.+- ..+++.+..++.....+++.++...--..+-.
T Consensus 80 gg~~~~~~iL~~~l~~~~a~~il~~i~~~~~--------~~~fe~L~-~ld~~~l~~lL~~EhpqtiA~iLs~l~~~~aa 150 (339)
T PRK05686 80 GGIDYARSLLEKALGEEKADSILERILESLG--------TSGFDFLR-KMDPQQLANFIRNEHPQTIALILSYLKPDQAA 150 (339)
T ss_pred ChHHHHHHHHHHHcCHHHHHHHHHHHhcccc--------CchHHHHh-cCCHHHHHHHHHhcCHHHHHHHHhCCCHHHHH
Confidence 445567777765 556666777777654321 24555433 44677777777776777666665555555555
Q ss_pred HHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHhhhcCChhHHHHHHHHHHhhHHHhh----cCCCchHHHHHHHh
Q 005600 495 KALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLS----THPYGCRVIQRVLE 570 (688)
Q Consensus 495 klLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls----~hk~GS~VIQklLe 570 (688)
++|...+.+.+..++..+-. ++..+++....|-+.+...+..+. ...-|...+-.+|.
T Consensus 151 ~vL~~l~~~~~~~v~~ria~------------------l~~v~~~~~~~i~~~L~~~l~~~~~~~~~~~~g~~~~a~Iln 212 (339)
T PRK05686 151 EILSLLPEELRADVMMRIAT------------------LEGVSPEALKEVEEVLEKKLSSMANADRTKMGGVKTVAEILN 212 (339)
T ss_pred HHHHhCCHHHHHHHHHHHHc------------------cCCCCHHHHHHHHHHHHHHHhhcccccccccCcHHHHHHHHh
Confidence 55555555555544433210 111223333333333343333321 22345555666666
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHHhC-CChhHHHHHHHhcCChHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHhCCHHH
Q 005600 571 HCSDEQQGQCIVDEILESAFALAQD-QYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAE 649 (688)
Q Consensus 571 ~~~d~~~r~~IIeeIle~l~~La~D-q~GNyVIQ~lLe~~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~d~~~ 649 (688)
..... ..+.+++.|.+.=..++.. .---|+...++. -++.....|++.+-.....++..--..-+.+++|..-+...
T Consensus 213 ~~~~~-~~~~il~~L~~~d~~~a~~Ir~~mF~Fedl~~-l~~~~l~~ll~~v~~~~L~~ALkga~~~~~~~il~nmS~R~ 290 (339)
T PRK05686 213 NLDRQ-TEKTILESLEEEDPELAEKIKDLMFVFEDLVD-LDDRSIQRLLREVDNDVLALALKGASEELREKFLSNMSKRA 290 (339)
T ss_pred cCCch-HHHHHHHHHHhhCHHHHHHHHHHhcCHHHHhc-CCHHHHHHHHHhCCHHHHHHHHCCCCHHHHHHHHHhcCHHH
Confidence 55432 3344544444321111100 000111222211 23344444555444444444444444445555555555555
Q ss_pred HHHHHHHH
Q 005600 650 RELLIEEI 657 (688)
Q Consensus 650 Rk~II~EL 657 (688)
++.|-++|
T Consensus 291 a~~l~eel 298 (339)
T PRK05686 291 AEMLREDL 298 (339)
T ss_pred HHHHHHHH
Confidence 55544444
No 21
>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=93.61 E-value=12 Score=40.27 Aligned_cols=50 Identities=24% Similarity=0.230 Sum_probs=35.3
Q ss_pred hHHHHHHHHHHHHHHHHHhcC--cchHHHHHHHHHhCCHHHHHHHHHHHhcC
Q 005600 611 SYERTQILSKLAGKIVQMSQH--KYASNVVEKCLEYGDTAERELLIEEILGQ 660 (688)
Q Consensus 611 ~k~Rk~IIk~Lkg~l~~Ls~~--K~GS~VVEk~L~~~d~~~Rk~II~ELlg~ 660 (688)
+..++.+.+.+...+..+... -.=..+|+.-++.-++++...++...++.
T Consensus 289 ~~l~~~i~~~i~~~l~~~v~~~~~~i~~~V~~~l~~~~~~~l~~~i~~~v~~ 340 (367)
T PF04286_consen 289 PELREKINRFIENLLERIVESNHIDIGEIVEEKLNSLDDEELEELIESKVGK 340 (367)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 566777777777777776665 33345555556777888888888888875
No 22
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=91.08 E-value=26 Score=38.47 Aligned_cols=29 Identities=17% Similarity=0.145 Sum_probs=20.4
Q ss_pred CCChhHHHHHHHhcCChHHHHHHHHHHHH
Q 005600 595 DQYGNYVTQHVLERGKSYERTQILSKLAG 623 (688)
Q Consensus 595 Dq~GNyVIQ~lLe~~~~k~Rk~IIk~Lkg 623 (688)
+.-|...+-.+|...+....+.|++.|..
T Consensus 200 ~~~g~~~~a~Iln~~~~~~~~~il~~L~~ 228 (339)
T PRK05686 200 KMGGVKTVAEILNNLDRQTEKTILESLEE 228 (339)
T ss_pred ccCcHHHHHHHHhcCCchHHHHHHHHHHh
Confidence 34577778888888777777777766644
No 23
>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=89.38 E-value=1.5 Score=42.74 Aligned_cols=66 Identities=17% Similarity=0.240 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHhCCChhHHHHHHHhcCChHH---HHHHHHHHHHH--------HHHHhcCcchHHHHHHHHHhCC
Q 005600 581 IVDEILESAFALAQDQYGNYVTQHVLERGKSYE---RTQILSKLAGK--------IVQMSQHKYASNVVEKCLEYGD 646 (688)
Q Consensus 581 IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~k~---Rk~IIk~Lkg~--------l~~Ls~~K~GS~VVEk~L~~~d 646 (688)
|++.|.++...|+.+.+|+.||..+|..++.+. .+.|++.+... =..+..+.+|++++.+++....
T Consensus 58 Ll~~i~~~~~~ll~~~~g~~~i~eiL~~~~gdk~~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~lK~Liq~~~ 134 (148)
T PF08144_consen 58 LLEAIAENAEELLSSSFGCQFITEILLSATGDKSAALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRMLKKLIQGDK 134 (148)
T ss_pred HHHHHHHhHHHHHhcCcccHHHHHHHhccCccHHHHHHHHHHHHhhccCCCCCcCccchhcCchHHHHHHHHHHCCC
Confidence 444444556666677777777777766654221 12233333222 1246678888888888876543
No 24
>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=82.39 E-value=3.6 Score=40.08 Aligned_cols=67 Identities=16% Similarity=0.422 Sum_probs=45.6
Q ss_pred HHHHHHhhHHHhhcCCCchHHHHHHHhhcCCHH--HHHHHHHHHHHH--------HHHHHhCCChhHHHHHHHhcCC
Q 005600 544 IISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQ--QGQCIVDEILES--------AFALAQDQYGNYVTQHVLERGK 610 (688)
Q Consensus 544 Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~--~r~~IIeeIle~--------l~~La~Dq~GNyVIQ~lLe~~~ 610 (688)
|++.+..+..+|..++.||.+|..+|..+..++ ....|++.+... =..++.+++|.+++-++++.+.
T Consensus 58 Ll~~i~~~~~~ll~~~~g~~~i~eiL~~~~gdk~~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~lK~Liq~~~ 134 (148)
T PF08144_consen 58 LLEAIAENAEELLSSSFGCQFITEILLSATGDKSAALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRMLKKLIQGDK 134 (148)
T ss_pred HHHHHHHhHHHHHhcCcccHHHHHHHhccCccHHHHHHHHHHHHhhccCCCCCcCccchhcCchHHHHHHHHHHCCC
Confidence 444555566778888889999988888875432 122333333332 1367899999999999998765
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=81.02 E-value=94 Score=34.29 Aligned_cols=48 Identities=15% Similarity=0.191 Sum_probs=23.0
Q ss_pred ChHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHhCCHHHHHHHHHHH
Q 005600 610 KSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAERELLIEEI 657 (688)
Q Consensus 610 ~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~d~~~Rk~II~EL 657 (688)
++.....|++.+-.....++..--.--+.+++|..-+...++.|-++|
T Consensus 248 d~~~l~~llrev~~~~L~~ALkga~~e~~~~il~nmS~R~a~~l~ee~ 295 (338)
T TIGR00207 248 DDRSIQRVLREVDSEDLLLALKGAEQPLREKFLNNMSQRAAEILKEDM 295 (338)
T ss_pred CHHHHHHHHHhCCHHHHHHHHCcCCHHHHHHHHHHhhHHHHHHHHHHH
Confidence 344445555555444444444444444555555555544444444444
No 26
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=80.79 E-value=75 Score=37.19 Aligned_cols=231 Identities=16% Similarity=0.219 Sum_probs=107.2
Q ss_pred cccccccCCCcccCchhhhHHHHHhhcc------chhhhhHHHHHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHH
Q 005600 367 WQGQRTFEGQRTFEDSKKHSFLEELKSS------NAQKFELSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEV 440 (688)
Q Consensus 367 W~~~r~~~~~~~~~d~~rs~LLeel~s~------~~r~~~L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL 440 (688)
|.....++..|++.+..|..+++.+.+= ..++-+...-..-+..++...-----+-++|...++..+..|++.+
T Consensus 9 ys~~k~keld~~i~~~~~~~~~~~~~~ic~~hl~~~k~si~~lyisg~~~~s~~~l~d~~l~~~~~~f~~n~k~~~veh~ 88 (711)
T COG1747 9 YSAEKFKELDRIIAEAKRQSILDVLKGICDEHLAHSKNSIIALYISGIISLSKQLLDDSCLVTLLTIFGDNHKNQIVEHL 88 (711)
T ss_pred hhHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhhhccccchHHHHHHHHhccchHHHHHHHH
Confidence 3334444444555666666666655421 0111111111122334555443333455666667777888888888
Q ss_pred HHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhh
Q 005600 441 LPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCV 520 (688)
Q Consensus 441 ~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~ 520 (688)
+..+.+...++..=+-+-++......++.-.|.+.+.+... .+..-.|++-..+|.+..+..... .+.+..-+
T Consensus 89 c~~~l~~~e~kmal~el~q~y~en~n~~l~~lWer~ve~df---nDvv~~ReLa~~yEkik~sk~a~~----f~Ka~yrf 161 (711)
T COG1747 89 CTRVLEYGESKMALLELLQCYKENGNEQLYSLWERLVEYDF---NDVVIGRELADKYEKIKKSKAAEF----FGKALYRF 161 (711)
T ss_pred HHHHHHhcchHHHHHHHHHHHHhcCchhhHHHHHHHHHhcc---hhHHHHHHHHHHHHHhchhhHHHH----HHHHHHHh
Confidence 88887777776665544444433344444444443222111 112223445555555443322222 22221111
Q ss_pred --cccCC--chhhhHhhhcCChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCC
Q 005600 521 --RDQNG--NHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQ 596 (688)
Q Consensus 521 --kdq~G--nhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq 596 (688)
+.|++ ..|+.++.+..+ ++.++++..+.+--..+ ....|+-.+|.++.+..+.+--+.-
T Consensus 162 I~~~q~~~i~evWeKL~~~i~-dD~D~fl~l~~kiqt~l-g~~~~~Vl~qdv~~~Ys~~eN~~ea--------------- 224 (711)
T COG1747 162 IPRRQNAAIKEVWEKLPELIG-DDKDFFLRLQKKIQTKL-GEGRGSVLMQDVYKKYSENENWTEA--------------- 224 (711)
T ss_pred cchhhhhhHHHHHHHHHHhcc-ccHHHHHHHHHHHHHhh-ccchHHHHHHHHHHHhccccCHHHH---------------
Confidence 11222 236667776653 33444444333322222 2345666677776655433211111
Q ss_pred ChhHHHHHHHhcCC--hHHHHHHHHHHHH
Q 005600 597 YGNYVTQHVLERGK--SYERTQILSKLAG 623 (688)
Q Consensus 597 ~GNyVIQ~lLe~~~--~k~Rk~IIk~Lkg 623 (688)
-.++-++|++.. -..|+.|++.|+.
T Consensus 225 --i~Ilk~il~~d~k~~~ar~~~i~~lRd 251 (711)
T COG1747 225 --IRILKHILEHDEKDVWARKEIIENLRD 251 (711)
T ss_pred --HHHHHHHhhhcchhhhHHHHHHHHHHH
Confidence 124455565533 3446777777665
No 27
>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=78.72 E-value=1.1e+02 Score=33.74 Aligned_cols=28 Identities=11% Similarity=0.113 Sum_probs=14.3
Q ss_pred HHHHHHHhcCChHHHHHHHHHHHHHHHH
Q 005600 600 YVTQHVLERGKSYERTQILSKLAGKIVQ 627 (688)
Q Consensus 600 yVIQ~lLe~~~~k~Rk~IIk~Lkg~l~~ 627 (688)
-++-..|+-.++..|+.|++.+.....+
T Consensus 262 ~~L~~ALkga~~e~~~~il~nmS~R~a~ 289 (338)
T TIGR00207 262 EDLLLALKGAEQPLREKFLNNMSQRAAE 289 (338)
T ss_pred HHHHHHHCcCCHHHHHHHHHHhhHHHHH
Confidence 3444444445555566666665554433
No 28
>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=71.70 E-value=6.1 Score=48.33 Aligned_cols=92 Identities=13% Similarity=0.251 Sum_probs=58.7
Q ss_pred HHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhH-----------------Hhhh----cCcCcchHHHHHhhcCCH
Q 005600 408 IVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHA-----------------SKLM----TDVFGNYVIQKFFEHGSP 466 (688)
Q Consensus 408 V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~-----------------~eL~----~D~yGn~VIQKLLe~gs~ 466 (688)
++.+..=..|=++|-.+|...+.+++..|+.-|.-++ ..+. .|.|-..|+..|+.+...
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 4445555567778888888889998888888888777 3333 345666666666666555
Q ss_pred HHHHHHHHHH-----HhhHHhhhccccccHHHHHHHhh
Q 005600 467 DQRKELAEKL-----VGQVLPLSLQMYGCRVIQKALEV 499 (688)
Q Consensus 467 eqr~~Ii~~L-----~g~vv~La~h~yGSrVVQklLE~ 499 (688)
.....|+..+ ..++..++++++|.-+|-.+|..
T Consensus 657 ~~~~~i~gll~~~~~~~~~~~i~~tk~Gls~lt~llsR 694 (808)
T PF09770_consen 657 APFNEIIGLLGLLINNNNVSFIAQTKFGLSLLTMLLSR 694 (808)
T ss_dssp HHHHHHTTSTTT-S--HHHHHHHTSHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHhCCCceEEEEChHHHHHHHHHHHH
Confidence 4444443221 24677788999998888888854
No 29
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=71.28 E-value=1.7e+02 Score=32.45 Aligned_cols=42 Identities=19% Similarity=0.297 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHhhCCC-----cCHHHHHHhhcCCHHHH-HHHHHHHHH
Q 005600 401 LSDIAGRIVEFSVDQH-----GSRFIQQKLEHCSAEEK-VSVFKEVLP 442 (688)
Q Consensus 401 L~~I~G~V~eLa~Dq~-----GSRVIQklLe~~s~eer-~~If~EL~~ 442 (688)
+.++-+.+.++...+. +..+.+.+|+..-.+++ +.|++.+.+
T Consensus 59 ~~~il~eF~~~~~~~~~i~~~~~~~~~~lL~kalg~~~a~~i~~~i~~ 106 (339)
T COG1536 59 KEQVLEEFEELFTEQAGINKGADEYARELLEKALGEEKAESLLERITG 106 (339)
T ss_pred HHHHHHHHHHHHHhccccccChHHHHHHHHHHhCcHhHHHHHHHHhhh
Confidence 3344444444444433 33456666665544443 344444443
No 30
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=67.53 E-value=2.8e+02 Score=35.15 Aligned_cols=189 Identities=17% Similarity=0.174 Sum_probs=89.6
Q ss_pred HHHHHHHHHHHHh-hHHhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHh------hhcCC-
Q 005600 466 PDQRKELAEKLVG-QVLPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKC------IECVP- 537 (688)
Q Consensus 466 ~eqr~~Ii~~L~g-~vv~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQkl------Le~~~- 537 (688)
...|+.+++.+.. ---.|-.-+|=+|.|..+-.+ ..+.-..|+..|...+...++...-.-+..++ =|.+.
T Consensus 457 Ka~RkrLvKal~~vprt~ldllPyYsRlVAtl~~~-M~dvat~lv~~L~~eFr~~~hkK~q~~ietk~~~VrfIsEL~KF 535 (1128)
T KOG2051|consen 457 KANRKRLVKALFVVPRTRLDLLPYYSRLVATLSKC-MPDVATELVTMLRKEFRSHLHKKAQINIETKLKIVRFISELCKF 535 (1128)
T ss_pred HHHHHHHHHhhhcccchhhhhhhHHHHHHHHHHhh-hhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHhhhhh
Confidence 4445555544332 122344555666666444433 34444455554444444433322111222221 11111
Q ss_pred -hhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhcC-------CH-HHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhc
Q 005600 538 -AEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCS-------DE-QQGQCIVDEILESAFALAQDQYGNYVTQHVLER 608 (688)
Q Consensus 538 -~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~-------d~-~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~ 608 (688)
--.+..++..++.-+.++..|. --+...+|+.|+ +. ...+.+++.|+..-...+.|.--.-+|..++-.
T Consensus 536 ~lv~~~~if~cLk~ll~dF~~hn--IEm~c~lLE~~GrfLlr~pEt~lrM~~~Le~i~rkK~a~~lDsr~~~~iENay~~ 613 (1128)
T KOG2051|consen 536 QLVPKFEIFSCLKMLLNDFTHHN--IEMACVLLESCGRFLLRSPETKLRMRVFLEQIKRKKRASALDSRQATLIENAYYL 613 (1128)
T ss_pred CccChHHHHHHHHHHHHhccccc--HHHHHHHHHhcchhhhcChhHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHhHHh
Confidence 0112234444444444444443 344555566554 11 123445555555555566677777788888887
Q ss_pred CChHHHHHHH-------HHHHHHHH--HHhcCcchHHHHHHHHH---hCCHHHHHHHHHHHhc
Q 005600 609 GKSYERTQIL-------SKLAGKIV--QMSQHKYASNVVEKCLE---YGDTAERELLIEEILG 659 (688)
Q Consensus 609 ~~~k~Rk~II-------k~Lkg~l~--~Ls~~K~GS~VVEk~L~---~~d~~~Rk~II~ELlg 659 (688)
+.|-.+...+ +.+..++. +|+.+.+- .+.+||. ..|++..+.+|.-|+.
T Consensus 614 ~~PPe~~~~~~k~r~p~~efiR~Li~~dL~k~tvd--~~lkllRkl~W~D~e~~~yli~~~~k 674 (1128)
T KOG2051|consen 614 CNPPERSKRLSKKRPPMQEFIRYLIRSDLSKDTVD--RVLKLLRKLDWSDPEVKQYLISCFSK 674 (1128)
T ss_pred ccChhhcccccccCCcHHHHHHHHHHHHhccccHH--HHHHHHHhcccccHHHHHHHHHHhhh
Confidence 7755544322 22333322 35444443 3344444 4677788888877764
No 31
>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=67.31 E-value=1.8e+02 Score=31.05 Aligned_cols=102 Identities=21% Similarity=0.307 Sum_probs=58.0
Q ss_pred CCCchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcC---ChHHHHHHHHHHHHHHHHHhcC-cc
Q 005600 558 HPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERG---KSYERTQILSKLAGKIVQMSQH-KY 633 (688)
Q Consensus 558 hk~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~---~~k~Rk~IIk~Lkg~l~~Ls~~-K~ 633 (688)
..+=+.+|.++++.+...+....+...++.. .++.-+..---|+|.+|... +++.-..++..+..+...++++ ||
T Consensus 132 ~~~q~ell~rlike~~~~~~~~l~~~q~L~~-~~~~W~E~~~~v~q~lL~~~~~lte~~~~~Lv~~L~~~a~~~skSlkF 210 (254)
T cd07439 132 GPFQAELLCRLVKECFEPDAVLLLLHQILIS-PNLVWTEETFTVIQALLNRKPPLSEESFSELVSKLQEQAEAFSKSLKF 210 (254)
T ss_pred CHHHHHHHHHHHhccccHHHHHHHHHHHHcc-ccccccHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhccccH
Confidence 4445667777777766444433333333321 11223334445888888764 3566777888888888888876 78
Q ss_pred hHHHHHHHHHhCCH--HHHHHHHHHHhcC
Q 005600 634 ASNVVEKCLEYGDT--AERELLIEEILGQ 660 (688)
Q Consensus 634 GS~VVEk~L~~~d~--~~Rk~II~ELlg~ 660 (688)
|..++.-+-+++.. +..+..+.+.++.
T Consensus 211 a~lll~~itky~~~~~~~~~~~L~~~~~~ 239 (254)
T cd07439 211 AKLLLAVITKYGPQMSPAHKQSLSEALER 239 (254)
T ss_pred HHHHHHHHHHccHhhcHHHHHHHHHHHHh
Confidence 87666555555433 2233334444543
No 32
>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=66.87 E-value=1.3e+02 Score=33.60 Aligned_cols=73 Identities=10% Similarity=0.033 Sum_probs=41.1
Q ss_pred hhhhHhhhcCChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhC-CChhHHHH
Q 005600 527 HVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQD-QYGNYVTQ 603 (688)
Q Consensus 527 hVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~D-q~GNyVIQ 603 (688)
+++..++...++ .+..++.....-...+..++.-++.+..+++....+ . .+++.+.+.+..|+.+ ..+-+|.+
T Consensus 179 ~l~~~l~~~~k~-ir~~a~~l~~~~~~~l~~~~~~s~~~~~~~~~~~~~--~-~~~~~~~~~L~~mi~~~~~~~~a~~ 252 (372)
T PF12231_consen 179 ILFPDLLSSAKD-IRTKAISLLLEAKKCLGPNKELSKSVLEDLQRSLEN--G-KLIQLYCERLKEMIKSKDEYKLAMQ 252 (372)
T ss_pred HHHHHHhhcchH-HHHHHHHHHHHHHHHhChhHHHHHHHHHHhcccccc--c-cHHHHHHHHHHHHHhCcCCcchHHH
Confidence 555566654432 233344333333344455666677777777654432 1 6778888888888877 44444443
No 33
>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=62.91 E-value=1.4e+02 Score=31.99 Aligned_cols=79 Identities=22% Similarity=0.348 Sum_probs=35.0
Q ss_pred hHHHHHHH-hhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCC---hHHHHHHHHHHHHHHHHHhcC-cchHH
Q 005600 562 CRVIQRVL-EHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGK---SYERTQILSKLAGKIVQMSQH-KYASN 636 (688)
Q Consensus 562 S~VIQklL-e~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~---~k~Rk~IIk~Lkg~l~~Ls~~-K~GS~ 636 (688)
+.+|.+++ +.|-+++.+..++..++ ++.-+..---|+|.+|+... ++....+++.|...-..++.+ |||..
T Consensus 145 ~eLl~rlvk~~~l~p~~~~l~l~~~L----~~~W~E~~~~Vlq~lL~~k~~l~~~~~~~l~~~L~~~a~~~skSlkFakL 220 (263)
T PF11510_consen 145 CELLCRLVKKECLEPDHRLLLLRQIL----ELVWNEETFLVLQSLLERKVELSQELFSLLVELLCEQAPQFSKSLKFAKL 220 (263)
T ss_dssp HHHHHHHHH-TTS-HHHHHHHHHHHH----HS---HHHHHHHHHHHTT-----HHHHHHHHHHHH--------SHHHHHH
T ss_pred HHHHHHHHHhccCCHHHHHHHHHHHH----hCcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhHhhhcchHHHHH
Confidence 44555666 44555555555555444 23334444567788887753 333445666666666666665 55554
Q ss_pred HHHHHHHh
Q 005600 637 VVEKCLEY 644 (688)
Q Consensus 637 VVEk~L~~ 644 (688)
++.-+-++
T Consensus 221 lLtvltKy 228 (263)
T PF11510_consen 221 LLTVLTKY 228 (263)
T ss_dssp HHHHHHHT
T ss_pred HHHHHHHc
Confidence 44444345
No 34
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=60.60 E-value=1.9e+02 Score=35.61 Aligned_cols=67 Identities=21% Similarity=0.373 Sum_probs=38.2
Q ss_pred HHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHHHHH
Q 005600 435 SVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKS 506 (688)
Q Consensus 435 ~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~eq~~ 506 (688)
.|+.+|..++.....+.+ ..+++.+++ .+.+.|+.....+...+-.|..+. +..+|.++....+...
T Consensus 512 ~ll~~lA~~l~p~l~~~~-~~~~~~~~~-~~~~~rr~~~~~lq~k~~~l~~n~---~LfeKgl~lF~dd~~t 578 (803)
T PLN03083 512 SILKHLADHLRPMLINSL-KERRKALFT-ENAERRRRLLDNLQKKIDESFLNM---QLYEKALDLFEDDQST 578 (803)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHh-cchHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhCCccccc
Confidence 445555444444332222 234777887 677778888877777776665554 2455555555544443
No 35
>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=58.43 E-value=2.3e+02 Score=30.46 Aligned_cols=138 Identities=15% Similarity=0.188 Sum_probs=66.6
Q ss_pred CHHHHHHhhcCCHHHHHHHHHHHH-H-----hHHhhhcCcCcchHHHHHhhcCC---HHH-HHHHHHHHHhhHHhhhccc
Q 005600 418 SRFIQQKLEHCSAEEKVSVFKEVL-P-----HASKLMTDVFGNYVIQKFFEHGS---PDQ-RKELAEKLVGQVLPLSLQM 487 (688)
Q Consensus 418 SRVIQklLe~~s~eer~~If~EL~-~-----~~~eL~~D~yGn~VIQKLLe~gs---~eq-r~~Ii~~L~g~vv~La~h~ 487 (688)
.-..=+.|-.|++++.+.|++++. + -+..||. .++...+ -.. ...+-..|.+++..| ..
T Consensus 37 ~~~~lq~L~~csp~q~e~lc~~L~l~~lsd~~l~~lc~---------~ll~Ls~dls~~~a~~l~~sl~LpkilsL--~~ 105 (263)
T PF11510_consen 37 PPSELQFLNECSPSQVEMLCSQLQLPQLSDDGLLQLCS---------SLLALSPDLSHSNATVLLRSLFLPKILSL--EE 105 (263)
T ss_dssp --HHHHGGGG--HHHHHHHHHHHTGGG--HHHHHHHHH---------HHHH-SS---HHHHHHHHHHHHHHHHHH---SS
T ss_pred ChHHHHHHHhCCHHHHHHHHHHhCcCCCCHHHHHHHHH---------HHHccCcccchhhHHHHHHHHHHHHHHhc--CC
Confidence 334445667889999999999886 2 2233332 2221111 111 222223456777666 66
Q ss_pred cccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhccc-CCc---hhhhHhh--hcCChhHHHHHHHHHHhhHHHhhcCCCc
Q 005600 488 YGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQ-NGN---HVIQKCI--ECVPAEKIEFIISAFRGQVATLSTHPYG 561 (688)
Q Consensus 488 yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq-~Gn---hVVQklL--e~~~~e~~~~Ii~~L~~~lv~Ls~hk~G 561 (688)
-++|++..++..+-...-..+++.+...+ +++. .|+ -++.+++ ++..++.+..++..+. ++.-+..-
T Consensus 106 ~ASR~L~sal~~f~k~~p~~~~~all~Pl---L~~~~~g~~Q~eLl~rlvk~~~l~p~~~~l~l~~~L----~~~W~E~~ 178 (263)
T PF11510_consen 106 PASRLLVSALTSFCKKYPRPVCEALLVPL---LQAPGLGPPQCELLCRLVKKECLEPDHRLLLLRQIL----ELVWNEET 178 (263)
T ss_dssp ---HHHHHHHHHHHHHSHHHHHHHHHHHH---HHSTT--HHHHHHHHHHHH-TTS-HHHHHHHHHHHH----HS---HHH
T ss_pred CccHHHHHHHHHHHHhCcHHHHHHHHHHH---HcCCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHH----hCcCcHHH
Confidence 88999988885433333344444443332 2222 122 3555666 5666777766665443 33334445
Q ss_pred hHHHHHHHhhcC
Q 005600 562 CRVIQRVLEHCS 573 (688)
Q Consensus 562 S~VIQklLe~~~ 573 (688)
..|+|.+++...
T Consensus 179 ~~Vlq~lL~~k~ 190 (263)
T PF11510_consen 179 FLVLQSLLERKV 190 (263)
T ss_dssp HHHHHHHHTT--
T ss_pred HHHHHHHHhcCC
Confidence 788999998754
No 36
>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=57.17 E-value=14 Score=45.26 Aligned_cols=42 Identities=14% Similarity=0.195 Sum_probs=33.3
Q ss_pred hHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhh
Q 005600 443 HASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLS 484 (688)
Q Consensus 443 ~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La 484 (688)
.|+.++.-.=|..+|-++|.+.+.+++..|+..|..++-.|.
T Consensus 576 ~fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l~ 617 (808)
T PF09770_consen 576 PFISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQLD 617 (808)
T ss_dssp HHHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH----
T ss_pred cceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhhc
Confidence 477888888899999999999999999999999988885443
No 37
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=56.16 E-value=3.4e+02 Score=30.54 Aligned_cols=28 Identities=14% Similarity=0.268 Sum_probs=19.6
Q ss_pred cHHHHHHHhhhCHHHHHHHHHhhhhchh
Q 005600 490 CRVIQKALEVIELHQKSQLVLELDGHVM 517 (688)
Q Consensus 490 SrVVQklLE~as~eq~~~Lv~EL~g~i~ 517 (688)
++++..++...+.+.+.++++++..-+.
T Consensus 118 ~~l~~~iv~~l~~~~q~~~~~~~~~lf~ 145 (415)
T PF12460_consen 118 SRLINLIVRSLSPEKQQEILDELYSLFL 145 (415)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHc
Confidence 5677777777888887777776655443
No 38
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=52.27 E-value=3e+02 Score=33.89 Aligned_cols=170 Identities=13% Similarity=0.157 Sum_probs=81.4
Q ss_pred HHhhcC--CHHHHHHHHHHHHhhHHhhhccccccHHHHHHHhhhCHHHHH---HHHHhh---hhchhhhhcccCCchhhh
Q 005600 459 KFFEHG--SPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALEVIELHQKS---QLVLEL---DGHVMRCVRDQNGNHVIQ 530 (688)
Q Consensus 459 KLLe~g--s~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE~as~eq~~---~Lv~EL---~g~i~~L~kdq~GnhVVQ 530 (688)
++|++| +..|+-.++..+.=..+.=+..+||......+++-.....+. .-+..| .+.++.|+.-.|++|--.
T Consensus 556 ~ii~~gl~De~qkVR~itAlalsalaeaa~Pygie~fDsVlkpLwkgir~hrgk~laafLkAigyliplmd~eya~yyTr 635 (1172)
T KOG0213|consen 556 KIIEHGLKDEQQKVRTITALALSALAEAATPYGIEQFDSVLKPLWKGIRQHRGKELAAFLKAIGYLIPLMDAEYASYYTR 635 (1172)
T ss_pred HHHHHhhcccchhhhhHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHccChHHHHHHHHHhhccccccHHHHHHhHH
Confidence 344444 234444455555444444456789988888877654333221 122222 355667777777776543
Q ss_pred Hhh----hc--CChhHHHHHH-HHHHhhHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHH----------------
Q 005600 531 KCI----EC--VPAEKIEFII-SAFRGQVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILE---------------- 587 (688)
Q Consensus 531 klL----e~--~~~e~~~~Ii-~~L~~~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle---------------- 587 (688)
.++ .. .+.+..+.|+ +.++..+..-... +.-.+..++-+++.
T Consensus 636 evmlil~rEf~sPDeemkkivLKVv~qcc~t~Gv~---------------~~y~r~dilp~ff~~fw~rrmA~drr~ykq 700 (1172)
T KOG0213|consen 636 EVMLILIREFGSPDEEMKKIVLKVVKQCCATDGVE---------------PAYIRFDILPEFFFSFWGRRMALDRRNYKQ 700 (1172)
T ss_pred HHHHHHHHhhCCChHHHHHHHHHHHHHHhcccCCC---------------HHHHhhhhhHHHHhhhhhhhhhccccchhh
Confidence 332 21 2344444433 3333222111100 01122233333332
Q ss_pred ---HHHHHHhCCChhHHHHHHHh-cCC--hHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHH
Q 005600 588 ---SAFALAQDQYGNYVTQHVLE-RGK--SYERTQILSKLAGKIVQMSQHKYASNVVEKCLE 643 (688)
Q Consensus 588 ---~l~~La~Dq~GNyVIQ~lLe-~~~--~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~ 643 (688)
...+++..--..+.|..++. ..+ +..|+...+.+..-+..|-...++.+..|.+++
T Consensus 701 lv~ttv~ia~KvG~~~~v~R~v~~lkde~e~yrkm~~etv~ri~~~lg~~diderleE~lid 762 (1172)
T KOG0213|consen 701 LVDTTVEIAAKVGSDPIVSRVVLDLKDEPEQYRKMVAETVSRIVGRLGAADIDERLEERLID 762 (1172)
T ss_pred HHHHHHHHHHHhCchHHHHHHhhhhccccHHHHHHHHHHHHHHHhccccccccHHHHHHHHH
Confidence 23344443333444444443 333 445676666666666666666777777776665
No 39
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=49.41 E-value=2.2e+02 Score=34.97 Aligned_cols=48 Identities=17% Similarity=0.248 Sum_probs=33.2
Q ss_pred HHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhh
Q 005600 437 FKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLS 484 (688)
Q Consensus 437 f~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La 484 (688)
.+||+.-++++-.+....-+||.|+++.++.....-+.+++...-+|+
T Consensus 715 yeeik~~ILevne~vLse~~iqnLik~lPe~E~l~~L~e~Kaeye~l~ 762 (1102)
T KOG1924|consen 715 YEEIKNVILEVNEDVLSESMIQNLIKHLPEQEQLNKLSELKAEYEDLP 762 (1102)
T ss_pred HHHHHHHHhhccHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhccCCC
Confidence 366777777777888888889999999876544444555565555544
No 40
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.90 E-value=2.8e+02 Score=33.89 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=21.1
Q ss_pred HHHhHHhhhcCcCcchHHHHHhhc
Q 005600 440 VLPHASKLMTDVFGNYVIQKFFEH 463 (688)
Q Consensus 440 L~~~~~eL~~D~yGn~VIQKLLe~ 463 (688)
+.|.+.+||++.--|+++-|+|+.
T Consensus 219 LAP~ffkllttSsNNWmLIKiiKL 242 (877)
T KOG1059|consen 219 LAPLFYKLLVTSSNNWVLIKLLKL 242 (877)
T ss_pred ccHHHHHHHhccCCCeehHHHHHH
Confidence 347899999999999999999985
No 41
>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=45.98 E-value=5.4e+02 Score=29.90 Aligned_cols=93 Identities=16% Similarity=0.114 Sum_probs=38.8
Q ss_pred hhhHHHHHhhccchhhhhHHHHHHHHHHHh-hCCCcCHHHHHHhhcCCHHHHHHHHHHH---HHhHHhhhcCcCcchHHH
Q 005600 383 KKHSFLEELKSSNAQKFELSDIAGRIVEFS-VDQHGSRFIQQKLEHCSAEEKVSVFKEV---LPHASKLMTDVFGNYVIQ 458 (688)
Q Consensus 383 ~rs~LLeel~s~~~r~~~L~~I~G~V~eLa-~Dq~GSRVIQklLe~~s~eer~~If~EL---~~~~~eL~~D~yGn~VIQ 458 (688)
.+..++++|.....+-..|..++..+.... .+..-.++|=.+|...+.|+.+.+++-| .....--...+.-.-+++
T Consensus 4 ~~~~~l~~l~~~~~~~~~L~~l~~~~~~~~~l~~~~~~~lf~~L~~~~~e~v~~~~~iL~~~l~~~~~~~l~~~~~~~L~ 83 (503)
T PF10508_consen 4 WINELLEELSSKAERLEALPELKTELSSSPFLERLPEPVLFDCLNTSNREQVELICDILKRLLSALSPDSLLPQYQPFLQ 83 (503)
T ss_pred HHHHHHHHHhcccchHHHHHHHHHHHhhhhHHHhchHHHHHHHHhhcChHHHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence 345566666655555455555544333222 1111122233345544555444333211 111100000222223455
Q ss_pred HHhhcCCHHHHHHHHHH
Q 005600 459 KFFEHGSPDQRKELAEK 475 (688)
Q Consensus 459 KLLe~gs~eqr~~Ii~~ 475 (688)
+.+.+.++..|...+..
T Consensus 84 ~gL~h~~~~Vr~l~l~~ 100 (503)
T PF10508_consen 84 RGLTHPSPKVRRLALKQ 100 (503)
T ss_pred HHhcCCCHHHHHHHHHH
Confidence 56666666655555554
No 42
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.92 E-value=6.7e+02 Score=30.86 Aligned_cols=24 Identities=13% Similarity=0.130 Sum_probs=17.2
Q ss_pred HHHHHHHHhhCCCcCHHHHHHhhc
Q 005600 404 IAGRIVEFSVDQHGSRFIQQKLEH 427 (688)
Q Consensus 404 I~G~V~eLa~Dq~GSRVIQklLe~ 427 (688)
+..-+..|..+-.-.++|-++|+.
T Consensus 219 LAP~ffkllttSsNNWmLIKiiKL 242 (877)
T KOG1059|consen 219 LAPLFYKLLVTSSNNWVLIKLLKL 242 (877)
T ss_pred ccHHHHHHHhccCCCeehHHHHHH
Confidence 345566777777778888888875
No 43
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=43.42 E-value=1.2e+02 Score=34.72 Aligned_cols=20 Identities=15% Similarity=0.265 Sum_probs=8.9
Q ss_pred HHHHHhCCChhHHHHHHHhc
Q 005600 589 AFALAQDQYGNYVTQHVLER 608 (688)
Q Consensus 589 l~~La~Dq~GNyVIQ~lLe~ 608 (688)
+..+-+|..|-...-.+|.|
T Consensus 33 ceqinkdp~gp~lAv~LlaH 52 (594)
T KOG1086|consen 33 CEQINKDPEGPLLAVRLLAH 52 (594)
T ss_pred HHHHhcCCCCchhHHHHHHh
Confidence 34444444444444444443
No 44
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=41.87 E-value=5.1e+02 Score=28.51 Aligned_cols=25 Identities=8% Similarity=0.311 Sum_probs=12.8
Q ss_pred CchHHHHHHHhhcCCHHHHHHHHHHHH
Q 005600 560 YGCRVIQRVLEHCSDEQQGQCIVDEIL 586 (688)
Q Consensus 560 ~GS~VIQklLe~~~d~~~r~~IIeeIl 586 (688)
-|...+..+|+..... . ..+++.|.
T Consensus 197 ~G~~~aa~ILn~l~~~-~-~~il~~L~ 221 (334)
T PRK07194 197 IGVKQAADIINRFPGD-R-QQLMEMLK 221 (334)
T ss_pred CCHHHHHHHHHhCchh-H-HHHHHHHH
Confidence 4566666666665422 2 34444444
No 45
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=41.29 E-value=79 Score=30.61 Aligned_cols=18 Identities=28% Similarity=0.289 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHhC
Q 005600 578 GQCIVDEILESAFALAQD 595 (688)
Q Consensus 578 r~~IIeeIle~l~~La~D 595 (688)
....++++++.+...+..
T Consensus 168 ~~~~l~~~~~~~~~~~~~ 185 (209)
T PF02854_consen 168 SPKALDEIFERLQKYANS 185 (209)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred chhHHHHHHHHHHHHHHh
Confidence 345566666665555443
No 46
>TIGR00400 mgtE Mg2+ transporter (mgtE). This family of prokaryotic proteins models a class of Mg++ transporter first described in Bacillus firmus. May form a homodimer.
Probab=41.05 E-value=1.6e+02 Score=33.51 Aligned_cols=14 Identities=14% Similarity=0.223 Sum_probs=6.7
Q ss_pred HHHHHhhhCHHHHH
Q 005600 493 IQKALEVIELHQKS 506 (688)
Q Consensus 493 VQklLE~as~eq~~ 506 (688)
.++++...+.+++.
T Consensus 107 ~~~lL~~l~~~er~ 120 (449)
T TIGR00400 107 VQQLLASSTEEERK 120 (449)
T ss_pred HHHHHHcCCHHHHH
Confidence 34455555555443
No 47
>COG4399 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.55 E-value=6e+02 Score=28.58 Aligned_cols=24 Identities=25% Similarity=0.188 Sum_probs=12.4
Q ss_pred HHHHHHHhCCHHHHHHHHHHHhcC
Q 005600 637 VVEKCLEYGDTAERELLIEEILGQ 660 (688)
Q Consensus 637 VVEk~L~~~d~~~Rk~II~ELlg~ 660 (688)
+|+.=++.-+.+..++++.++.++
T Consensus 326 ~v~eqi~~fs~~~lE~lV~~Is~k 349 (376)
T COG4399 326 LVEEQINTFSLERLEKLVLEISRK 349 (376)
T ss_pred HHHHHHhcCCHHHHHHHHHHHHHH
Confidence 333334445555556666565543
No 48
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=38.61 E-value=3e+02 Score=34.59 Aligned_cols=125 Identities=14% Similarity=0.159 Sum_probs=62.5
Q ss_pred hcccccc-HHHHHHHhhhCHHH--HHHHHHhhhhchhhhhcccCCchhhhHhhhc--------CChhHHHHHHHHHHhhH
Q 005600 484 SLQMYGC-RVIQKALEVIELHQ--KSQLVLELDGHVMRCVRDQNGNHVIQKCIEC--------VPAEKIEFIISAFRGQV 552 (688)
Q Consensus 484 a~h~yGS-rVVQklLE~as~eq--~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~--------~~~e~~~~Ii~~L~~~l 552 (688)
.+.++|| |+|-.+.+...... +.+|=.-|..|++..+++++|--.-+.|--+ ..+.....+++.....+
T Consensus 432 ~rqkdGAL~~vgsl~~~L~K~s~~~~~mE~flv~hVfP~f~s~~g~Lrarac~vl~~~~~~df~d~~~l~~ale~t~~~l 511 (1010)
T KOG1991|consen 432 PRQKDGALRMVGSLASILLKKSPYKSQMEYFLVNHVFPEFQSPYGYLRARACWVLSQFSSIDFKDPNNLSEALELTHNCL 511 (1010)
T ss_pred hhhhhhHHHHHHHHHHHHccCCchHHHHHHHHHHHhhHhhcCchhHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHh
Confidence 4566776 55555554433222 2333344567888888888886555554221 22223333333333332
Q ss_pred H---HhhcCCCchHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHHHhC---CChhHHHHHHHhc
Q 005600 553 A---TLSTHPYGCRVIQRVLEHCSDE-QQGQCIVDEILESAFALAQD---QYGNYVTQHVLER 608 (688)
Q Consensus 553 v---~Ls~hk~GS~VIQklLe~~~d~-~~r~~IIeeIle~l~~La~D---q~GNyVIQ~lLe~ 608 (688)
. +|--.--+...+|.++.++... +..+..+..+++.+..|++. ..=..|+|+++..
T Consensus 512 ~~d~~lPV~VeAalALq~fI~~~~~~~e~~~~hvp~~mq~lL~L~ne~End~Lt~vme~iV~~ 574 (1010)
T KOG1991|consen 512 LNDNELPVRVEAALALQSFISNQEQADEKVSAHVPPIMQELLKLSNEVENDDLTNVMEKIVCK 574 (1010)
T ss_pred ccCCcCchhhHHHHHHHHHHhcchhhhhhHhhhhhHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence 2 1112223666777777776544 23455555555555555442 2344455555543
No 49
>PF12447 DUF3683: Protein of unknown function (DUF3683); InterPro: IPR022153 This domain family is found in bacteria, and is approximately 120 amino acids in length. The family is found in association with PF02754 from PFAM, PF01565 from PFAM, PF02913 from PFAM.
Probab=37.51 E-value=1.7e+02 Score=27.63 Aligned_cols=62 Identities=11% Similarity=0.271 Sum_probs=47.6
Q ss_pred HHHHHhhhhchhhhhcccCCchhhhHhhhcCChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhhc
Q 005600 506 SQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEHC 572 (688)
Q Consensus 506 ~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~~ 572 (688)
..|+-|+.|.+.-.-.++ |+-|.+++. ++.++.+++++.+.+.++.....|..-+..+++.+
T Consensus 45 ARmL~evlGDiwvv~RNP---yL~ddLld~--~~Rr~~L~~al~hrL~~I~~r~~~~~~V~~l~~aa 106 (115)
T PF12447_consen 45 ARMLFEVLGDIWVVRRNP---YLQDDLLDN--PKRRRALFEALRHRLDEIEKRANGNPRVLELLAAA 106 (115)
T ss_pred HHHHHHHhcceeeeecCc---hhHHHHccC--HHHHHHHHHHHHHHHHHHHHhccCChHHHHHHHHH
Confidence 457777788877777776 577777776 78888899999999988888877777666666653
No 50
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.32 E-value=8.1e+02 Score=28.91 Aligned_cols=154 Identities=9% Similarity=0.136 Sum_probs=82.0
Q ss_pred cccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHhhh-----cCChhHHHHHHH-HHHhhHHHhhcC---
Q 005600 488 YGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIE-----CVPAEKIEFIIS-AFRGQVATLSTH--- 558 (688)
Q Consensus 488 yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe-----~~~~e~~~~Ii~-~L~~~lv~Ls~h--- 558 (688)
.+|+.|..+-+..++..+..+-..+.+.+..|..+..++-++-++-. .++....+.+++ .+...+..|...
T Consensus 256 Da~WAlsyLsdg~ne~iq~vi~~gvv~~LV~lL~~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~~~L~~l~~ll~~s~~ 335 (514)
T KOG0166|consen 256 DACWALSYLTDGSNEKIQMVIDAGVVPRLVDLLGHSSPKVVTPALRAIGNIVTGSDEQTQVVINSGALPVLSNLLSSSPK 335 (514)
T ss_pred HHHHHHHHHhcCChHHHHHHHHccchHHHHHHHcCCCcccccHHHhhccceeeccHHHHHHHHhcChHHHHHHHhccCcc
Confidence 44555544444433333333333467778888888877655322222 244666666664 344555555542
Q ss_pred ----CCchHHHHHHHhhcCCHHHHHHHHH-HHHHHHHHHHhCC------ChhHHHHHHHhcCChHHHHHHHHH-HHHHHH
Q 005600 559 ----PYGCRVIQRVLEHCSDEQQGQCIVD-EILESAFALAQDQ------YGNYVTQHVLERGKSYERTQILSK-LAGKIV 626 (688)
Q Consensus 559 ----k~GS~VIQklLe~~~d~~~r~~IIe-eIle~l~~La~Dq------~GNyVIQ~lLe~~~~k~Rk~IIk~-Lkg~l~ 626 (688)
+-+|++|-.+-. ++.++.+.+++ .++..+..+++.. -..++|-.+...+++++-+.+++. +...+.
T Consensus 336 ~~ikkEAcW~iSNItA--G~~~qiqaVida~l~p~Li~~l~~~ef~~rKEAawaIsN~ts~g~~~qi~yLv~~giI~plc 413 (514)
T KOG0166|consen 336 ESIKKEACWTISNITA--GNQEQIQAVIDANLIPVLINLLQTAEFDIRKEAAWAISNLTSSGTPEQIKYLVEQGIIKPLC 413 (514)
T ss_pred hhHHHHHHHHHHHhhc--CCHHHHHHHHHcccHHHHHHHHhccchHHHHHHHHHHHhhcccCCHHHHHHHHHcCCchhhh
Confidence 346666665554 23444455543 4555555555432 256777777777777777666664 444455
Q ss_pred HHhcCcchHHHHHHHHHh
Q 005600 627 QMSQHKYASNVVEKCLEY 644 (688)
Q Consensus 627 ~Ls~~K~GS~VVEk~L~~ 644 (688)
.|-.-+. .+++..+++.
T Consensus 414 dlL~~~D-~~ii~v~Ld~ 430 (514)
T KOG0166|consen 414 DLLTCPD-VKIILVALDG 430 (514)
T ss_pred hcccCCC-hHHHHHHHHH
Confidence 5443322 2335555543
No 51
>PF04078 Rcd1: Cell differentiation family, Rcd1-like ; InterPro: IPR007216 Rcd1 (Required cell differentiation 1) -like proteins are found among a wide range of organisms []. Rcd1 was initially identified as an essential factor in nitrogen starvation-invoked differentiation in fission yeast. This results largely from a defect in nitrogen starvation-invoked induction of ste11+, a key transcriptional factor gene required for the onset of sexual development. It is one of the most conserved proteins in eukaryotes, and its mammalian homologue is expressed in a variety of differentiating tissues [, ]. The mammalian Rcd1 is a novel transcriptional cofactor and is critical for retinoic acid-induced differentiation of F9 mouse teratocarcinoma cells, at least in part, via forming complexes with retinoic acid receptor and activation transcription factor-2 (ATF-2) []. Two of the members in this family have been characterised as being involved in regulation of Ste11 regulated sex genes [, ].; PDB: 2FV2_B.
Probab=35.09 E-value=6e+02 Score=27.34 Aligned_cols=27 Identities=19% Similarity=0.456 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHhcCcchHHHHHHHH
Q 005600 616 QILSKLAGKIVQMSQHKYASNVVEKCL 642 (688)
Q Consensus 616 ~IIk~Lkg~l~~Ls~~K~GS~VVEk~L 642 (688)
++++.+..-+..|+.++.+...+..|+
T Consensus 204 RLLKhIIrCYlRLsdnprar~aL~~~L 230 (262)
T PF04078_consen 204 RLLKHIIRCYLRLSDNPRAREALRQCL 230 (262)
T ss_dssp HHHHHHHHHHHHHTTSTTHHHHHHHHS
T ss_pred hHHHHHHHHHHHHccCHHHHHHHHHhC
Confidence 455555555555666655555554443
No 52
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=34.19 E-value=6.4e+02 Score=28.88 Aligned_cols=38 Identities=11% Similarity=0.056 Sum_probs=23.1
Q ss_pred hhcCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHh
Q 005600 461 FEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALE 498 (688)
Q Consensus 461 Le~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE 498 (688)
|...+++....++..+.-.+.-.++...+++.+..+-+
T Consensus 206 f~~sD~d~VdRfisCl~~AvPfFargapSskf~~y~n~ 243 (460)
T KOG2213|consen 206 FNVSDADYVDRFISCLLMAVPFFARGAPSSKFVEYLNK 243 (460)
T ss_pred ccCCChHHHHHHHHHHHHhhhhhhcCCchhHHHHHHHh
Confidence 33445556666666666666666677777666655443
No 53
>PF05327 RRN3: RNA polymerase I specific transcription initiation factor RRN3; InterPro: IPR007991 This family consists of several eukaryotic proteins which are homologous to the Saccharomyces cerevisiae RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in the S. cerevisiae [] RNA polymerase I complex within the nucleolus. In mammalian cells, the phosphorylation state of Rrn3 regulates rDNA transcription by determining the steady-state concentration of the Rrn3 [].; PDB: 3TJ1_B.
Probab=33.97 E-value=3.1e+02 Score=32.39 Aligned_cols=71 Identities=11% Similarity=0.143 Sum_probs=44.3
Q ss_pred CHHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhh--hccccccHHHHHHHhhhC
Q 005600 429 SAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPL--SLQMYGCRVIQKALEVIE 501 (688)
Q Consensus 429 s~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~L--a~h~yGSrVVQklLE~as 501 (688)
+..+...++.++...+..|-.+ -+.+|+.++..---..-..+++.+..-+..| +.-.|-..|+.++++...
T Consensus 49 ~~~~l~~~L~~L~~~Vs~Ld~~--~~~LV~ail~~~W~~~~~~~v~~y~~Fl~~Lvsa~~~yl~~vl~~LV~~f~ 121 (563)
T PF05327_consen 49 SVSQLIRWLKALSSCVSLLDSS--CKQLVEAILSLNWLGRDEDFVEAYIQFLINLVSAQPKYLSPVLSMLVKNFI 121 (563)
T ss_dssp -HHHHHHHHHHHHHGGGGG-SC--CHHHHHHHHT-TGGGS-HHHHHHHHHHHHHHHHH-GGGHHHHHHHHHHGGG
T ss_pred cHHHHHHHHHHHHHHHHHhhhH--HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcc
Confidence 3567888889998888887776 7788889987632112223444444444444 456677888888887654
No 54
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=33.86 E-value=1.3e+03 Score=30.82 Aligned_cols=37 Identities=14% Similarity=0.056 Sum_probs=22.2
Q ss_pred HHHHHHhhCCCcCHH----HHHHhhcCCHHHHHHHHHHHHH
Q 005600 406 GRIVEFSVDQHGSRF----IQQKLEHCSAEEKVSVFKEVLP 442 (688)
Q Consensus 406 G~V~eLa~Dq~GSRV----IQklLe~~s~eer~~If~EL~~ 442 (688)
.....+-.++..|.+ ++-.|+....|.-..|+++..+
T Consensus 1446 DferlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~ 1486 (1710)
T KOG1070|consen 1446 DFERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALK 1486 (1710)
T ss_pred HHHHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhh
Confidence 344455566776654 4555666666666777776654
No 55
>PF02438 Adeno_100: Late 100kD protein; InterPro: IPR003381 The late 100 kDa protein is a non-structural viral protein involved in the transport of hexon from the cytoplasm to the nucleus.; GO: 0019060 intracellular transport of viral proteins in host cell
Probab=33.33 E-value=6.6e+02 Score=29.81 Aligned_cols=49 Identities=14% Similarity=0.179 Sum_probs=30.8
Q ss_pred hhcccCCchhhhHhhhcCChhHHHHHHHHHHhhHHHhhcCCCchHHHHHHHhh
Q 005600 519 CVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHPYGCRVIQRVLEH 571 (688)
Q Consensus 519 L~kdq~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk~GS~VIQklLe~ 571 (688)
+-.++.||.|+++.|+. .+.++.|.+.+.-.++---+. +=-|.|.||+.
T Consensus 284 theNRlnn~vlh~tL~g--e~rrDYv~DtIyLfLv~TWQT--aMgvWQQ~Lee 332 (583)
T PF02438_consen 284 THENRLNNPVLHSTLEG--EDRRDYVRDTIYLFLVLTWQT--AMGVWQQCLEE 332 (583)
T ss_pred hhhccCcchHHHHHhcc--cchhhHHHhhHHHHHHHHHHH--HHHHHHHHhhH
Confidence 44789999999999987 445666666654333211111 22377888875
No 56
>PTZ00429 beta-adaptin; Provisional
Probab=32.37 E-value=1e+03 Score=29.36 Aligned_cols=253 Identities=14% Similarity=0.152 Sum_probs=0.0
Q ss_pred HHHHHHHHhhCCCcCHHHHHHhhcCCHHHH-HHHHHHHHHhHHhhhc-----CcCcchHHHHHhhcCCHHHHHHHHHHHH
Q 005600 404 IAGRIVEFSVDQHGSRFIQQKLEHCSAEEK-VSVFKEVLPHASKLMT-----DVFGNYVIQKFFEHGSPDQRKELAEKLV 477 (688)
Q Consensus 404 I~G~V~eLa~Dq~GSRVIQklLe~~s~eer-~~If~EL~~~~~eL~~-----D~yGn~VIQKLLe~gs~eqr~~Ii~~L~ 477 (688)
+..++.++..|.+.+-+.-.+.-...-.+. ..-++-..+++..|+. +.+|-..|-+++-.-.++.... ...+.
T Consensus 180 ~~~~L~~LL~D~dp~Vv~nAl~aL~eI~~~~~~~l~l~~~~~~~Ll~~L~e~~EW~Qi~IL~lL~~y~P~~~~e-~~~il 258 (746)
T PTZ00429 180 FKKDLVELLNDNNPVVASNAAAIVCEVNDYGSEKIESSNEWVNRLVYHLPECNEWGQLYILELLAAQRPSDKES-AETLL 258 (746)
T ss_pred hHHHHHHHhcCCCccHHHHHHHHHHHHHHhCchhhHHHHHHHHHHHHHhhcCChHHHHHHHHHHHhcCCCCcHH-HHHHH
Q ss_pred hhHHhhhccccccHHHH------HHHhhhCHHHHHHHHHhhhhchhhhhc-ccCCchhhhHhhhcCChhHHHHHHHHHHh
Q 005600 478 GQVLPLSLQMYGCRVIQ------KALEVIELHQKSQLVLELDGHVMRCVR-DQNGNHVIQKCIECVPAEKIEFIISAFRG 550 (688)
Q Consensus 478 g~vv~La~h~yGSrVVQ------klLE~as~eq~~~Lv~EL~g~i~~L~k-dq~GnhVVQklLe~~~~e~~~~Ii~~L~~ 550 (688)
..+.....|...+=|+. .+....+.+....++..+...++.|.. +++-.|++-+-|...-......+...++.
T Consensus 259 ~~l~~~Lq~~N~AVVl~Aik~il~l~~~~~~~~~~~~~~rl~~pLv~L~ss~~eiqyvaLr~I~~i~~~~P~lf~~~~~~ 338 (746)
T PTZ00429 259 TRVLPRMSHQNPAVVMGAIKVVANLASRCSQELIERCTVRVNTALLTLSRRDAETQYIVCKNIHALLVIFPNLLRTNLDS 338 (746)
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHHHHHhhCCCccHHHHHHHHHHHHHHHCHHHHHHHHHh
Q ss_pred hHHHhhcCCCchHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCChHHHHHHHHHHHHHHHHHhc
Q 005600 551 QVATLSTHPYGCRVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQ 630 (688)
Q Consensus 551 ~lv~Ls~hk~GS~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk~IIk~Lkg~l~~Ls~ 630 (688)
.+....-..|-...--.+|-...++.-...|++|+.+.+... +.+.++..++.|-.-..++
T Consensus 339 Ff~~~~Dp~yIK~~KLeIL~~Lane~Nv~~IL~EL~eYa~d~-----------------D~ef~r~aIrAIg~lA~k~-- 399 (746)
T PTZ00429 339 FYVRYSDPPFVKLEKLRLLLKLVTPSVAPEILKELAEYASGV-----------------DMVFVVEVVRAIASLAIKV-- 399 (746)
T ss_pred hhcccCCcHHHHHHHHHHHHHHcCcccHHHHHHHHHHHhhcC-----------------CHHHHHHHHHHHHHHHHhC--
Q ss_pred CcchHHHHHHHHHhCCHHHHHHHHHHHhcCCCCcchhhhc-cCcchhHHHHHhhc
Q 005600 631 HKYASNVVEKCLEYGDTAERELLIEEILGQSEENDNLLYY-KSRLAGSMLICLTS 684 (688)
Q Consensus 631 ~K~GS~VVEk~L~~~d~~~Rk~II~ELlg~~~~~d~L~~L-~DqyGnyVLq~LLs 684 (688)
......+|..+++.... +..++.+.+ ..+..+ +--=..++|..|+.
T Consensus 400 ~~~a~~cV~~Ll~ll~~--~~~~v~e~i------~vik~IlrkyP~~~il~~L~~ 446 (746)
T PTZ00429 400 DSVAPDCANLLLQIVDR--RPELLPQVV------TAAKDIVRKYPELLMLDTLVT 446 (746)
T ss_pred hHHHHHHHHHHHHHhcC--CchhHHHHH------HHHHHHHHHCccHHHHHHHHH
No 57
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=31.72 E-value=4.4e+02 Score=31.45 Aligned_cols=8 Identities=0% Similarity=0.056 Sum_probs=4.9
Q ss_pred cCcchhHH
Q 005600 671 KSRLAGSM 678 (688)
Q Consensus 671 ~DqyGnyV 678 (688)
.+.||..|
T Consensus 245 ~~~y~~~~ 252 (757)
T KOG4368|consen 245 INEYSSVV 252 (757)
T ss_pred HhhhhHHH
Confidence 56666655
No 58
>PLN03218 maturation of RBCL 1; Provisional
Probab=31.63 E-value=3.7e+02 Score=34.44 Aligned_cols=25 Identities=20% Similarity=0.235 Sum_probs=16.1
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHhc
Q 005600 635 SNVVEKCLEYGDTAERELLIEEILG 659 (688)
Q Consensus 635 S~VVEk~L~~~d~~~Rk~II~ELlg 659 (688)
+.+|..+.+.+..++-..++++|..
T Consensus 688 nsLI~ay~k~G~~eeA~~lf~eM~~ 712 (1060)
T PLN03218 688 SSLMGACSNAKNWKKALELYEDIKS 712 (1060)
T ss_pred HHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 4555666666666666777777754
No 59
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=31.28 E-value=2.3e+02 Score=29.69 Aligned_cols=26 Identities=19% Similarity=0.180 Sum_probs=14.8
Q ss_pred HHhcCcchHHHHHHHHHhCCHHHHHH
Q 005600 627 QMSQHKYASNVVEKCLEYGDTAEREL 652 (688)
Q Consensus 627 ~Ls~~K~GS~VVEk~L~~~d~~~Rk~ 652 (688)
+...+.+...|+.|++..++...|.-
T Consensus 190 DY~~~~~~R~iLsKaLt~~s~~iRl~ 215 (226)
T PF14666_consen 190 DYSVDGHPRIILSKALTSGSESIRLY 215 (226)
T ss_pred CCCCccHHHHHHHHHHhcCCHHHHHH
Confidence 45555555566666666666555543
No 60
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=31.08 E-value=5.1e+02 Score=32.24 Aligned_cols=53 Identities=25% Similarity=0.234 Sum_probs=34.4
Q ss_pred chHHHHHHHhhcCCHHHHHHHHHHHHHHHHHH----HhCCChhHHHHHHHhcCChHH
Q 005600 561 GCRVIQRVLEHCSDEQQGQCIVDEILESAFAL----AQDQYGNYVTQHVLERGKSYE 613 (688)
Q Consensus 561 GS~VIQklLe~~~d~~~r~~IIeeIle~l~~L----a~Dq~GNyVIQ~lLe~~~~k~ 613 (688)
--|+++.+|+..........-+.-|++.+..| +.|++|-|++.+++++-++..
T Consensus 700 lvrLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka~Dh~GF~LLn~i~~~~~~~~ 756 (960)
T KOG1992|consen 700 LVRLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKANDHHGFYLLNTIIESIPPNE 756 (960)
T ss_pred HHHHHHHHHhcCchhhcccccchhHHHHHHHHhcCcccchhHHHHHHHHHhcCCHhh
Confidence 45677888876543322222244555555544 568999999999999877553
No 61
>COG2733 Predicted membrane protein [Function unknown]
Probab=30.92 E-value=5.2e+02 Score=29.44 Aligned_cols=171 Identities=12% Similarity=0.061 Sum_probs=0.0
Q ss_pred cccccHHHHHHHhhhCHHHHHHHHHhhhhchhhhhcccCCchhhhHhhhcCChhHH-HHHHHHHHhhHHHhhcCCCch--
Q 005600 486 QMYGCRVIQKALEVIELHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKI-EFIISAFRGQVATLSTHPYGC-- 562 (688)
Q Consensus 486 h~yGSrVVQklLE~as~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~~~~e~~-~~Ii~~L~~~lv~Ls~hk~GS-- 562 (688)
+..+-++++-+.+....-....+-.-++..+.+-+...+-....-++|++...+.+ +.|++.+.+.+........-.
T Consensus 125 ~~v~~~t~~l~~~~~~lld~~~iq~~ik~~v~~~i~e~~~~~~~~~vL~~l~~d~r~q~l~D~~~~~L~r~~~~~~v~~~ 204 (415)
T COG2733 125 QRVSQETLKLLSQLLELLDDDDIQRVIKRAVIRAIAEVYLGPTAGRVLESLTADDRHQALLDKLIDRLIRWLLNDKVREF 204 (415)
T ss_pred HHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhhhHHH
Q ss_pred --HHHHHHHhhcCCHHHHHHHHHHHHHHHHHHHhCCChhHHHHHHHhcCChHHHHHHHHHHHHHHHHHhcCcchHHHHHH
Q 005600 563 --RVIQRVLEHCSDEQQGQCIVDEILESAFALAQDQYGNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEK 640 (688)
Q Consensus 563 --~VIQklLe~~~d~~~r~~IIeeIle~l~~La~Dq~GNyVIQ~lLe~~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk 640 (688)
.+|.+.++....-.....+++.+.+.. -..-++-.++.++...+-+.|+..-..+.+.+.+|-.++-=-.=+|+
T Consensus 205 i~~~i~r~~~ee~p~f~~~~~~~~v~~~~----I~~a~~~~~D~v~~~p~h~~rk~~~R~~~~~i~~L~~Dp~~~~r~e~ 280 (415)
T COG2733 205 IAAVIVRYLEEEHPLFAPIIIVSLVGKRD----ISDAVNSFLDEVRRDPDHKMRKDFDRFLFDLIDDLYHDPGMAARAEA 280 (415)
T ss_pred HHHHHHHHHHhcCccchhhhhHHHHhhch----HHHHHHHHHHHHHhCcCccchHHHHHHHHHHHHHHhcCHHHHHHHHH
Q ss_pred HHHh-CCHHHHHHHHHHHhcC
Q 005600 641 CLEY-GDTAERELLIEEILGQ 660 (688)
Q Consensus 641 ~L~~-~d~~~Rk~II~ELlg~ 660 (688)
+-.. -........+.+|..+
T Consensus 281 iK~~~~~~~~i~~~~~~~w~~ 301 (415)
T COG2733 281 IKSYLKEDEAIATAAGDMWTS 301 (415)
T ss_pred HHHHHhcChHHHHHHHHHHHH
No 62
>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=30.61 E-value=4.1e+02 Score=29.53 Aligned_cols=50 Identities=16% Similarity=0.240 Sum_probs=29.0
Q ss_pred HhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccHHH
Q 005600 442 PHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCRVI 493 (688)
Q Consensus 442 ~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVV 493 (688)
+.+.+...+-++.+++..+++....+.... .-+..++.-|+.++++..++
T Consensus 77 ~~i~~~l~~d~~~~~i~~~i~~l~~~~~~K--~i~~~~l~~ls~Q~f~~~~~ 126 (372)
T PF12231_consen 77 PEIVSTLSDDFASFIIDHSIESLQNPNSPK--SICTHYLWCLSDQKFSPKIM 126 (372)
T ss_pred HHHHhhCChHHHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHcCCCCCccc
Confidence 566677777777788877776531111000 11234566677788887754
No 63
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=28.34 E-value=7.6e+02 Score=26.45 Aligned_cols=30 Identities=3% Similarity=-0.005 Sum_probs=16.1
Q ss_pred HHHHHHhcCChHHHHHHHHHHHHHHHHHhc
Q 005600 601 VTQHVLERGKSYERTQILSKLAGKIVQMSQ 630 (688)
Q Consensus 601 VIQ~lLe~~~~k~Rk~IIk~Lkg~l~~Ls~ 630 (688)
+|..+++......++++++....-+..|..
T Consensus 240 ~i~~L~~i~~~~~KEKvvRv~la~l~Nl~~ 269 (312)
T PF03224_consen 240 LIPLLADILKDSIKEKVVRVSLAILRNLLS 269 (312)
T ss_dssp HHHHHHHHHHH--SHHHHHHHHHHHHHTTS
T ss_pred hHHHHHHHHHhcccchHHHHHHHHHHHHHh
Confidence 666666655555555666655555555543
No 64
>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=28.29 E-value=6.8e+02 Score=28.33 Aligned_cols=7 Identities=14% Similarity=0.548 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 005600 614 RTQILSK 620 (688)
Q Consensus 614 Rk~IIk~ 620 (688)
+..+++.
T Consensus 357 ~~~~i~~ 363 (526)
T PF01602_consen 357 RRELIKA 363 (526)
T ss_dssp HHHHHHH
T ss_pred hhhHHHH
Confidence 3333333
No 65
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.69 E-value=8.4e+02 Score=28.79 Aligned_cols=103 Identities=15% Similarity=0.109 Sum_probs=64.0
Q ss_pred cCHHHHHHhhcCCHHHHHHHHH-HHHHhHHhhhcCcCcchHHHHHhh-----cCCHHHHHHHHHH-HHhhHHhhhcc---
Q 005600 417 GSRFIQQKLEHCSAEEKVSVFK-EVLPHASKLMTDVFGNYVIQKFFE-----HGSPDQRKELAEK-LVGQVLPLSLQ--- 486 (688)
Q Consensus 417 GSRVIQklLe~~s~eer~~If~-EL~~~~~eL~~D~yGn~VIQKLLe-----~gs~eqr~~Ii~~-L~g~vv~La~h--- 486 (688)
+|+.|--+ -.++.|...++++ .+.+++++|..+.-++.++=++-- .|+++|...+++. ....+..|...
T Consensus 257 a~WAlsyL-sdg~ne~iq~vi~~gvv~~LV~lL~~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~~~L~~l~~ll~~s~~ 335 (514)
T KOG0166|consen 257 ACWALSYL-TDGSNEKIQMVIDAGVVPRLVDLLGHSSPKVVTPALRAIGNIVTGSDEQTQVVINSGALPVLSNLLSSSPK 335 (514)
T ss_pred HHHHHHHH-hcCChHHHHHHHHccchHHHHHHHcCCCcccccHHHhhccceeeccHHHHHHHHhcChHHHHHHHhccCcc
Confidence 34444333 3345555555554 588999999999888877443332 3678888888764 55666666653
Q ss_pred ----ccccHHHHHHHhhhCHHHHHHHHHh-hhhchhhhhc
Q 005600 487 ----MYGCRVIQKALEVIELHQKSQLVLE-LDGHVMRCVR 521 (688)
Q Consensus 487 ----~yGSrVVQklLE~as~eq~~~Lv~E-L~g~i~~L~k 521 (688)
+.+|++|--+-. .+.+|...+++. |.+.++.++.
T Consensus 336 ~~ikkEAcW~iSNItA-G~~~qiqaVida~l~p~Li~~l~ 374 (514)
T KOG0166|consen 336 ESIKKEACWTISNITA-GNQEQIQAVIDANLIPVLINLLQ 374 (514)
T ss_pred hhHHHHHHHHHHHhhc-CCHHHHHHHHHcccHHHHHHHHh
Confidence 456666655554 566677776653 5565555554
No 66
>PF11573 Med23: Mediator complex subunit 23; InterPro: IPR021629 Med23 is one of the subunits of the Tail portion of the Mediator complex that regulates RNA polymerase II activity. Med23 is required for heat-shock-specific gene expression, and has been shown to mediate transcriptional activation of E1A in mice.
Probab=27.32 E-value=3.2e+02 Score=35.77 Aligned_cols=166 Identities=12% Similarity=0.051 Sum_probs=0.0
Q ss_pred HHHhhcCCHHHHHHHHHHHHHhHHhhhcCcCcchH----------HHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccH
Q 005600 422 QQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYV----------IQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCR 491 (688)
Q Consensus 422 QklLe~~s~eer~~If~EL~~~~~eL~~D~yGn~V----------IQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSr 491 (688)
.++++.-++.-+..+.+|+...+....-+.-...+ .-.++...++|+++..++++...+...+..+...+
T Consensus 5 ~~v~~~~~~~lk~~~i~e~f~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~Ee~~~~ik~~l~~i~~~~~~~~~~~ 84 (1341)
T PF11573_consen 5 TQVIEMVEEILKVDIIEEAFSGFTVHFPNPETEKLIDCTAELRKKFNTMMSSMSEEEKESCIKQYLKYIHSQSHPRRYEF 84 (1341)
T ss_pred HHHHHHHHHHHHHHHHHHHhccceeecCcchHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCChhHHHH
Q ss_pred HHHHHHhhhC------HHHHHHHHHhhhhchhhhhcccCCchhhhHhhhcCChhHHHHHHHHHHhhHHHhhcCC------
Q 005600 492 VIQKALEVIE------LHQKSQLVLELDGHVMRCVRDQNGNHVIQKCIECVPAEKIEFIISAFRGQVATLSTHP------ 559 (688)
Q Consensus 492 VVQklLE~as------~eq~~~Lv~EL~g~i~~L~kdq~GnhVVQklLe~~~~e~~~~Ii~~L~~~lv~Ls~hk------ 559 (688)
+++.+...+. ......++..-.-....-......=.+|+++|...+-+-.+.|++.+.+.+..+=..-
T Consensus 85 l~d~L~~~v~~~~i~ar~vCe~lL~~~~l~~~~~~~W~~~F~lIrkiI~~VDYKGvR~Ilk~~~eK~~~iP~~~~~~~~~ 164 (1341)
T PF11573_consen 85 LFDLLETAVNNGIIPARLVCEELLSSEKLFYLNSRFWQEKFKLIRKIIHGVDYKGVREILKICLEKMQQIPSSLSPEQLP 164 (1341)
T ss_pred HHHHHHHHHHhCCCChHHHHHHHhcccchhhhhhHHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHhccccCCHHHHH
Q ss_pred ---CchHHHHHHHhhcCCHHHHHHHHHHHHH
Q 005600 560 ---YGCRVIQRVLEHCSDEQQGQCIVDEILE 587 (688)
Q Consensus 560 ---~GS~VIQklLe~~~d~~~r~~IIeeIle 587 (688)
..+.||+.+|+.-..-----..+.||..
T Consensus 165 ~l~~~~~vi~~ilDR~~~LlP~y~~~nEi~r 195 (1341)
T PF11573_consen 165 QLLAVEEVIEHILDRNACLLPAYFAVNEIRR 195 (1341)
T ss_pred HHHHHHHHHHHHhCcccccchHHHHHHHHHh
No 67
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.25 E-value=2.1e+02 Score=33.01 Aligned_cols=39 Identities=21% Similarity=0.124 Sum_probs=17.5
Q ss_pred CCCCCCCCCCCcchhhhhhcc--cccchhHHHHHHHHHhhh
Q 005600 56 RIDDTNSKNAGLEDVASVSAA--SQSDVSRAESRMRKKQEE 94 (688)
Q Consensus 56 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ 94 (688)
+-.+..+|-.+.-|+-.--+. -.-|+..||.|+.|||..
T Consensus 298 lkq~kGsDASn~~DeE~p~~e~dfSDDEkEaeak~~kKQrk 338 (483)
T KOG2236|consen 298 LKQGKGSDASNRYDEEIPPREQDFSDDEKEAEAKQMKKQRK 338 (483)
T ss_pred hhhcccccccccccccCChhhhccchHHHHHHHHHHHHHhh
Confidence 334445555555554332111 112344556666655443
No 68
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=25.91 E-value=9.5e+02 Score=26.75 Aligned_cols=26 Identities=12% Similarity=0.124 Sum_probs=19.9
Q ss_pred hHHHHHHHHHhCCHHHHHHHHHHHhc
Q 005600 634 ASNVVEKCLEYGDTAERELLIEEILG 659 (688)
Q Consensus 634 GS~VVEk~L~~~d~~~Rk~II~ELlg 659 (688)
....+-..++-.+++.|++|+..|..
T Consensus 263 ~~~~La~aLkg~~~~lrekilsnmsk 288 (339)
T COG1536 263 DKEDLAIALKGASEELREKILSNMSK 288 (339)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHhccH
Confidence 56677777777888888888887754
No 69
>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=25.73 E-value=1.2e+03 Score=27.84 Aligned_cols=8 Identities=25% Similarity=0.301 Sum_probs=3.1
Q ss_pred hHHhhhcC
Q 005600 443 HASKLMTD 450 (688)
Q Consensus 443 ~~~eL~~D 450 (688)
.+..+|+|
T Consensus 82 ~lp~~ck~ 89 (556)
T PF05918_consen 82 GLPQLCKD 89 (556)
T ss_dssp HGGGG--T
T ss_pred hHHHHHHh
Confidence 44555555
No 70
>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=25.54 E-value=2.1e+02 Score=27.70 Aligned_cols=84 Identities=12% Similarity=0.101 Sum_probs=41.6
Q ss_pred hhHHHHHHHhcCChHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHhCCHHH------HHHHHHHHhcCCCCcchhhhc-
Q 005600 598 GNYVTQHVLERGKSYERTQILSKLAGKIVQMSQHKYASNVVEKCLEYGDTAE------RELLIEEILGQSEENDNLLYY- 670 (688)
Q Consensus 598 GNyVIQ~lLe~~~~k~Rk~IIk~Lkg~l~~Ls~~K~GS~VVEk~L~~~d~~~------Rk~II~ELlg~~~~~d~L~~L- 670 (688)
|+..|..++...+.++...+++.++..-..-.....|..|+-.+|..-++++ .+.+++.|+.-++ ..+..+
T Consensus 47 g~~~l~~~i~~L~~~~l~~LL~~ir~WNTNsr~~~vAQ~vL~~il~~~~~~~L~~~~~~~~~le~lipYte--RH~~Rl~ 124 (141)
T PF08625_consen 47 GSEELDEVIKKLDDEQLEKLLRFIRDWNTNSRTSHVAQRVLNAILKSHPPEELLKIPGLKEILEALIPYTE--RHFQRLD 124 (141)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCCHHHHHccccHHHHHHHHhhhHH--HHHHHHH
Confidence 4556666666666666555555555433222223334455555555544442 3445566665433 234444
Q ss_pred cCcchhHHHHHhh
Q 005600 671 KSRLAGSMLICLT 683 (688)
Q Consensus 671 ~DqyGnyVLq~LL 683 (688)
+-.-..|+|.+.+
T Consensus 125 ~L~q~syllDy~l 137 (141)
T PF08625_consen 125 RLLQKSYLLDYTL 137 (141)
T ss_pred HHHHHHHHHHHHH
Confidence 4444455555554
No 71
>PF04078 Rcd1: Cell differentiation family, Rcd1-like ; InterPro: IPR007216 Rcd1 (Required cell differentiation 1) -like proteins are found among a wide range of organisms []. Rcd1 was initially identified as an essential factor in nitrogen starvation-invoked differentiation in fission yeast. This results largely from a defect in nitrogen starvation-invoked induction of ste11+, a key transcriptional factor gene required for the onset of sexual development. It is one of the most conserved proteins in eukaryotes, and its mammalian homologue is expressed in a variety of differentiating tissues [, ]. The mammalian Rcd1 is a novel transcriptional cofactor and is critical for retinoic acid-induced differentiation of F9 mouse teratocarcinoma cells, at least in part, via forming complexes with retinoic acid receptor and activation transcription factor-2 (ATF-2) []. Two of the members in this family have been characterised as being involved in regulation of Ste11 regulated sex genes [, ].; PDB: 2FV2_B.
Probab=24.68 E-value=2.9e+02 Score=29.73 Aligned_cols=45 Identities=18% Similarity=0.211 Sum_probs=28.3
Q ss_pred cchHHHHHhh--------cCCHHHHHHHHHHHHhhHHhhhccccccHHHHHHHh
Q 005600 453 GNYVIQKFFE--------HGSPDQRKELAEKLVGQVLPLSLQMYGCRVIQKALE 498 (688)
Q Consensus 453 Gn~VIQKLLe--------~gs~eqr~~Ii~~L~g~vv~La~h~yGSrVVQklLE 498 (688)
+.|++||++. +.+.|....+...+..-+..|+.++ ..|++..++.
T Consensus 159 AtfIlqKIL~dd~GL~yiC~t~eRf~av~~vL~~mV~~l~~~p-S~RLLKhIIr 211 (262)
T PF04078_consen 159 ATFILQKILLDDVGLNYICQTAERFFAVAMVLNKMVEQLVKQP-SPRLLKHIIR 211 (262)
T ss_dssp HHHHHHHHHHSHHHHHHHTSSHHHHHHHHHHHHHHHHHHHHS---HHHHHHHHH
T ss_pred HHHHHHHHHcchhHHHHHhcCHHHHHHHHHHHHHHHHHHccCC-ChhHHHHHHH
Confidence 5688888885 2356666666666666666665555 6677776664
No 72
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=24.18 E-value=1.3e+03 Score=27.63 Aligned_cols=36 Identities=11% Similarity=0.165 Sum_probs=16.4
Q ss_pred HHHHHhhcCCHHHHHHHHHHHHhhHHhhhccccccH
Q 005600 456 VIQKFFEHGSPDQRKELAEKLVGQVLPLSLQMYGCR 491 (688)
Q Consensus 456 VIQKLLe~gs~eqr~~Ii~~L~g~vv~La~h~yGSr 491 (688)
.+-.++.......+..|++.+...++....++.+-+
T Consensus 68 ~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~ 103 (711)
T COG1747 68 CLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALL 103 (711)
T ss_pred HHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHH
Confidence 333444444444444455555544444444444433
No 73
>TIGR00400 mgtE Mg2+ transporter (mgtE). This family of prokaryotic proteins models a class of Mg++ transporter first described in Bacillus firmus. May form a homodimer.
Probab=23.82 E-value=3.4e+02 Score=31.02 Aligned_cols=102 Identities=12% Similarity=0.180 Sum_probs=61.6
Q ss_pred HHHHHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHHHHHHHHHHhhH
Q 005600 401 LSDIAGRIVEFSVDQHGSRFIQQKLEHCSAEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQRKELAEKLVGQV 480 (688)
Q Consensus 401 L~~I~G~V~eLa~Dq~GSRVIQklLe~~s~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L~g~v 480 (688)
++++..++.++..+++ ...++.+|+...+.+...+++++.++-....-........-.+|++.+++.+..+++.+...
T Consensus 4 ~~~~~~~~~~~~~~~~-~~~l~~~l~~~~~~dia~~l~~l~~~~~~~~~~~l~~~~~a~vl~~l~~~~~~~ll~~l~~~- 81 (449)
T TIGR00400 4 IDELILRIRILLKEKS-YSKIKEKFLKXQPXDIAEALKRLPGTELILLYRFLPKKIAVDTFSNLDQSTQNKLLNSFTNK- 81 (449)
T ss_pred HHHHHHHHHHHHHcCC-HHHHHHHHhcCCHHHHHHHHHhCCHHHHHHHHHhCChhhHHHHHHcCCHHHHHHHHHhCCHH-
Confidence 4455555656554443 45677777778888888888887765444333444445556666666666666666655433
Q ss_pred HhhhccccccHHHHHHHhhhCHHHHHHHHHhhhhc
Q 005600 481 LPLSLQMYGCRVIQKALEVIELHQKSQLVLELDGH 515 (688)
Q Consensus 481 v~La~h~yGSrVVQklLE~as~eq~~~Lv~EL~g~ 515 (688)
-+..+++..+.++...+++++...
T Consensus 82 -----------~~~~~~~~l~~dd~~~ll~~l~~~ 105 (449)
T TIGR00400 82 -----------EISEMINEMNLDDVIDLLEEVPAN 105 (449)
T ss_pred -----------HHHHHHHcCChhHHHHHHHhCCHH
Confidence 223456666666666666665443
No 74
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=22.86 E-value=1.1e+03 Score=26.40 Aligned_cols=43 Identities=14% Similarity=0.164 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHHHH------HhHHhhhcCcCcchHHHHHhhcCCHHHHHH
Q 005600 428 CSAEEKVSVFKEVL------PHASKLMTDVFGNYVIQKFFEHGSPDQRKE 471 (688)
Q Consensus 428 ~s~eer~~If~EL~------~~~~eL~~D~yGn~VIQKLLe~gs~eqr~~ 471 (688)
.+.+++..-|++|. +++..|++...---|+- .++..+.+.|..
T Consensus 95 ~~le~ke~ald~Le~lve~iDnAndl~~~ggl~~ll~-~l~~~~~~lR~~ 143 (342)
T KOG2160|consen 95 VDLEDKEDALDNLEELVEDIDNANDLISLGGLVPLLG-YLENSDAELREL 143 (342)
T ss_pred CCHHHHHHHHHHHHHHHHhhhhHHhHhhccCHHHHHH-HhcCCcHHHHHH
Confidence 45677777777665 35566766665444444 777777765543
No 75
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=22.50 E-value=9.7e+02 Score=27.46 Aligned_cols=21 Identities=14% Similarity=0.222 Sum_probs=12.0
Q ss_pred HHhhhccccccHHHHHHHhhh
Q 005600 480 VLPLSLQMYGCRVIQKALEVI 500 (688)
Q Consensus 480 vv~La~h~yGSrVVQklLE~a 500 (688)
+..|+..+.|..+|..+.+..
T Consensus 239 m~nL~~S~~g~~~i~~L~~iL 259 (464)
T PF11864_consen 239 MRNLLKSHLGHSAIRTLCDIL 259 (464)
T ss_pred HHHHHcCccHHHHHHHHHHHH
Confidence 444555556666666666555
No 76
>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=22.23 E-value=1.3e+03 Score=26.86 Aligned_cols=11 Identities=0% Similarity=0.135 Sum_probs=5.0
Q ss_pred HHHHhcCcchH
Q 005600 625 IVQMSQHKYAS 635 (688)
Q Consensus 625 l~~Ls~~K~GS 635 (688)
+.+|+..++|.
T Consensus 226 l~~La~~~~g~ 236 (503)
T PF10508_consen 226 LSELAETPHGL 236 (503)
T ss_pred HHHHHcChhHH
Confidence 34444444443
No 77
>PF07165 DUF1397: Protein of unknown function (DUF1397); InterPro: IPR009832 This entry consists of several insect specific 27 kDa Haemolymph glycoprotein precursors. The function of this family is unknown [].
Probab=21.36 E-value=6.7e+02 Score=25.88 Aligned_cols=85 Identities=14% Similarity=0.192 Sum_probs=50.8
Q ss_pred HHHHhhCCCcCHHHHHHhhcCC-HHHHHHHHHHHHHhHHhhhcCcCcchHHHHHhhcCCHHHH--HHHHHHHHhhHHhhh
Q 005600 408 IVEFSVDQHGSRFIQQKLEHCS-AEEKVSVFKEVLPHASKLMTDVFGNYVIQKFFEHGSPDQR--KELAEKLVGQVLPLS 484 (688)
Q Consensus 408 V~eLa~Dq~GSRVIQklLe~~s-~eer~~If~EL~~~~~eL~~D~yGn~VIQKLLe~gs~eqr--~~Ii~~L~g~vv~La 484 (688)
+.+-..++.--..+|.=++..+ ..+++.+|....+.+.++ ...+.. +..++-...+++.+ ..++..+...+++++
T Consensus 40 ~~~C~~~~vd~~~l~~eie~~~p~g~ld~vF~KyC~k~~~~-~~C~~~-f~~~v~~Cl~~ee~~~~~~~~~i~~~ll~fv 117 (213)
T PF07165_consen 40 LPECLSGLVDLTQLQQEIEEAKPTGDLDEVFNKYCPKRPQA-KECFDP-FTEKVKPCLDEEEKEILDVMMNIIPSLLDFV 117 (213)
T ss_pred HHHHHHhccCHHHHHHHHHHcCccccHHHHHHHHhHhhHHH-HHHHHH-HHhhcccCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334433455666677777 568999999888866652 222222 22223333344433 335566778899999
Q ss_pred ccccccHHHH
Q 005600 485 LQMYGCRVIQ 494 (688)
Q Consensus 485 ~h~yGSrVVQ 494 (688)
.++.|.++..
T Consensus 118 C~k~Gd~Ial 127 (213)
T PF07165_consen 118 CYKDGDRIAL 127 (213)
T ss_pred HcCCchhhHh
Confidence 9999987753
No 78
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=21.23 E-value=3.8e+02 Score=33.32 Aligned_cols=59 Identities=19% Similarity=0.258 Sum_probs=33.7
Q ss_pred CHHHHHHhhcCCHHHH-HHHHHHHHHhHHh----hhcCcCcchHHHHHhhcCCHHHHHHHHHHH
Q 005600 418 SRFIQQKLEHCSAEEK-VSVFKEVLPHASK----LMTDVFGNYVIQKFFEHGSPDQRKELAEKL 476 (688)
Q Consensus 418 SRVIQklLe~~s~eer-~~If~EL~~~~~e----L~~D~yGn~VIQKLLe~gs~eqr~~Ii~~L 476 (688)
-|++|.+|+.++..-. ..-+.-|.+.+-. =+.|.+|=++++.++++.++....--++.+
T Consensus 701 vrLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka~Dh~GF~LLn~i~~~~~~~~~~py~k~i 764 (960)
T KOG1992|consen 701 VRLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKANDHHGFYLLNTIIESIPPNELAPYMKQI 764 (960)
T ss_pred HHHHHHHHhcCchhhcccccchhHHHHHHHHhcCcccchhHHHHHHHHHhcCCHhhhhHHHHHH
Confidence 4677777777654322 1112233344433 455788888888888888776544333333
No 79
>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=21.22 E-value=6.7e+02 Score=24.26 Aligned_cols=26 Identities=19% Similarity=0.401 Sum_probs=15.3
Q ss_pred CchhhhHhhhcCChhHHHHHHHHHHh
Q 005600 525 GNHVIQKCIECVPAEKIEFIISAFRG 550 (688)
Q Consensus 525 GnhVVQklLe~~~~e~~~~Ii~~L~~ 550 (688)
|+..+..+|...+.+....+++.++.
T Consensus 47 g~~~l~~~i~~L~~~~l~~LL~~ir~ 72 (141)
T PF08625_consen 47 GSEELDEVIKKLDDEQLEKLLRFIRD 72 (141)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence 45666666666666665555554443
No 80
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=21.02 E-value=1.5e+03 Score=27.39 Aligned_cols=79 Identities=16% Similarity=0.344 Sum_probs=50.3
Q ss_pred HHHHHHhhCCCcCHHHHHHh-------hcCCHHHH---HHHHHHHH-----------HhHHhhhcCcC---cchHHHHHh
Q 005600 406 GRIVEFSVDQHGSRFIQQKL-------EHCSAEEK---VSVFKEVL-----------PHASKLMTDVF---GNYVIQKFF 461 (688)
Q Consensus 406 G~V~eLa~Dq~GSRVIQklL-------e~~s~eer---~~If~EL~-----------~~~~eL~~D~y---Gn~VIQKLL 461 (688)
..+..|+..-.|+.+++..+ +.-...-| -.|+++|. +++..|.+|.+ +-|-|-.++
T Consensus 286 r~v~~~~~~nv~~~~~~~~vs~L~~fL~s~rv~~rFsA~Riln~lam~~P~kv~vcN~evEsLIsd~Nr~IstyAITtLL 365 (898)
T COG5240 286 RAVCALSEENVGSQFVDQTVSSLRTFLKSTRVVLRFSAMRILNQLAMKYPQKVSVCNKEVESLISDENRTISTYAITTLL 365 (898)
T ss_pred HHHHHHHHhccCHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhhCCceeeecChhHHHHhhcccccchHHHHHHHH
Confidence 34555666666666665544 33222222 23444443 35667777765 458899999
Q ss_pred hcCCHHHHHHHHHHHHhhHHhhh
Q 005600 462 EHGSPDQRKELAEKLVGQVLPLS 484 (688)
Q Consensus 462 e~gs~eqr~~Ii~~L~g~vv~La 484 (688)
+.|+++-+..+++.+-..+.+++
T Consensus 366 KTGt~e~idrLv~~I~sfvhD~S 388 (898)
T COG5240 366 KTGTEETIDRLVNLIPSFVHDMS 388 (898)
T ss_pred HcCchhhHHHHHHHHHHHHHhhc
Confidence 99999999999988877666654
Done!