Query 002096
Match_columns 967
No_of_seqs 302 out of 1546
Neff 5.0
Searched_HMMs 46136
Date Thu Mar 28 16:25:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002096.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002096hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07990 NABP: Nucleic acid bi 100.0 6.3E-89 1.4E-93 750.2 22.7 377 285-698 1-385 (385)
2 KOG1488 Translational represso 100.0 2.6E-59 5.6E-64 532.9 24.8 288 678-966 154-446 (503)
3 cd07920 Pumilio Pumilio-family 100.0 1.2E-45 2.5E-50 403.1 27.3 262 696-958 3-265 (322)
4 KOG1488 Translational represso 100.0 4.9E-44 1.1E-48 408.0 19.2 267 673-940 220-498 (503)
5 COG5099 RNA-binding protein of 100.0 2.5E-42 5.5E-47 412.9 19.9 247 708-955 447-696 (777)
6 cd07920 Pumilio Pumilio-family 100.0 3.6E-40 7.9E-45 360.0 29.4 282 674-956 15-305 (322)
7 KOG2049 Translational represso 100.0 1.7E-38 3.6E-43 365.5 16.2 258 697-956 212-473 (536)
8 COG5099 RNA-binding protein of 100.0 3E-33 6.5E-38 335.2 19.5 273 669-941 477-761 (777)
9 KOG2049 Translational represso 100.0 3E-33 6.5E-38 322.2 15.4 264 672-937 256-532 (536)
10 KOG2050 Puf family RNA-binding 99.9 1.6E-25 3.6E-30 255.0 24.6 257 696-955 158-422 (652)
11 KOG2188 Predicted RNA-binding 99.9 2.6E-22 5.5E-27 231.1 27.3 178 782-959 344-591 (650)
12 KOG2050 Puf family RNA-binding 99.8 3.1E-19 6.8E-24 204.1 20.1 278 681-958 176-535 (652)
13 KOG2188 Predicted RNA-binding 99.8 3.2E-17 7E-22 189.4 20.9 236 704-940 338-608 (650)
14 KOG4574 RNA-binding protein (c 99.5 4.7E-15 1E-19 174.5 7.3 230 726-956 534-768 (1007)
15 KOG4574 RNA-binding protein (c 99.5 1.6E-14 3.5E-19 170.1 10.4 266 676-944 553-856 (1007)
16 PF00806 PUF: Pumilio-family R 97.9 3.8E-06 8.1E-11 64.2 1.4 33 736-768 2-34 (35)
17 PF00806 PUF: Pumilio-family R 97.7 3.5E-05 7.5E-10 58.9 3.4 32 918-949 3-34 (35)
18 smart00025 Pumilio Pumilio-lik 97.4 0.00014 3E-09 54.5 3.3 33 918-950 3-35 (36)
19 smart00025 Pumilio Pumilio-lik 97.4 0.00013 2.8E-09 54.7 2.8 33 701-733 3-35 (36)
20 PF04286 DUF445: Protein of un 93.4 12 0.00027 42.0 21.8 50 907-956 289-340 (367)
21 PRK05686 fliG flagellar motor 90.8 29 0.00063 39.8 20.9 86 713-807 81-167 (339)
22 PF08144 CPL: CPL (NUC119) dom 81.4 7.9 0.00017 39.5 8.8 19 923-941 115-133 (148)
23 PRK05686 fliG flagellar motor 81.3 49 0.0011 38.0 16.1 171 719-924 115-293 (339)
24 PF04286 DUF445: Protein of un 79.4 73 0.0016 35.8 16.6 18 874-891 292-309 (367)
25 PF08144 CPL: CPL (NUC119) dom 75.7 7.4 0.00016 39.7 6.6 67 840-906 58-134 (148)
26 PF09770 PAT1: Topoisomerase I 73.1 4.7 0.0001 51.2 5.5 93 703-795 576-694 (808)
27 KOG1059 Vesicle coat complex A 70.6 2.7E+02 0.0058 35.6 18.7 205 736-941 219-485 (877)
28 TIGR00207 fliG flagellar motor 67.7 2.4E+02 0.0052 32.6 21.4 30 895-924 261-290 (338)
29 KOG0166 Karyopherin (importin) 66.3 1.2E+02 0.0026 37.1 14.8 130 784-915 256-405 (514)
30 COG4399 Uncharacterized protei 66.1 91 0.002 36.3 12.9 66 886-955 283-348 (376)
31 PF11510 FA_FANCE: Fanconi Ana 65.4 1.2E+02 0.0027 34.0 13.7 194 719-920 42-247 (263)
32 KOG2051 Nonsense-mediated mRNA 64.8 2.2E+02 0.0048 37.6 17.0 80 876-955 585-674 (1128)
33 COG5240 SEC21 Vesicle coat com 63.1 3.9E+02 0.0085 33.5 18.2 84 697-780 281-388 (898)
34 PF05918 API5: Apoptosis inhib 61.0 2.9E+02 0.0063 34.3 16.8 19 761-779 146-164 (556)
35 PF09770 PAT1: Topoisomerase I 60.3 11 0.00025 47.8 5.3 41 739-779 576-616 (808)
36 cd07439 FANCE_c-term Fanconi a 59.8 2.9E+02 0.0063 30.9 15.9 81 854-935 132-216 (254)
37 COG1747 Uncharacterized N-term 57.3 2.1E+02 0.0046 35.2 14.2 26 896-921 226-253 (711)
38 PF10508 Proteasom_PSMB: Prote 55.3 2.8E+02 0.006 33.7 15.4 53 680-732 5-58 (503)
39 COG1536 FliG Flagellar motor s 52.2 4.4E+02 0.0096 30.7 20.8 34 894-927 263-296 (339)
40 PF12231 Rif1_N: Rap1-interact 51.7 2.1E+02 0.0045 33.3 13.2 43 710-759 56-98 (372)
41 PTZ00429 beta-adaptin; Provisi 50.1 2.1E+02 0.0044 36.8 13.6 27 912-938 574-602 (746)
42 KOG1070 rRNA processing protei 49.9 6.6E+02 0.014 34.7 17.9 35 704-738 1448-1486(1710)
43 PF12460 MMS19_C: RNAPII trans 49.0 5.1E+02 0.011 30.5 19.4 28 786-813 118-145 (415)
44 PF12231 Rif1_N: Rap1-interact 48.9 3.3E+02 0.0071 31.7 14.2 17 932-948 277-293 (372)
45 KOG0166 Karyopherin (importin) 47.3 4.4E+02 0.0096 32.5 15.1 165 780-945 210-399 (514)
46 TIGR00207 fliG flagellar motor 46.8 5.2E+02 0.011 30.0 15.4 84 714-805 79-163 (338)
47 KOG4368 Predicted RNA binding 45.9 2.1E+02 0.0045 35.5 11.9 11 859-869 165-175 (757)
48 cd07439 FANCE_c-term Fanconi a 45.6 4.8E+02 0.01 29.3 14.3 42 697-738 7-52 (254)
49 PF01603 B56: Protein phosphat 44.8 6E+02 0.013 30.1 17.5 14 676-689 131-144 (409)
50 COG5095 TAF6 Transcription ini 42.7 6E+02 0.013 29.6 14.2 26 712-737 198-223 (450)
51 PF04078 Rcd1: Cell differenti 41.9 2.4E+02 0.0052 31.8 11.0 46 911-956 203-259 (262)
52 PF10508 Proteasom_PSMB: Prote 41.6 7.3E+02 0.016 30.2 20.9 13 883-895 224-236 (503)
53 PF14666 RICTOR_M: Rapamycin-i 41.0 1.7E+02 0.0037 32.1 9.7 72 845-917 144-220 (226)
54 KOG1248 Uncharacterized conser 39.3 4.8E+02 0.01 35.0 14.4 65 713-777 674-745 (1176)
55 PLN03218 maturation of RBCL 1; 39.2 1.8E+02 0.004 38.7 11.2 58 896-955 654-712 (1060)
56 PF10521 DUF2454: Protein of u 38.6 4.5E+02 0.0098 29.4 12.9 83 723-818 107-204 (282)
57 PF02854 MIF4G: MIF4G domain; 37.9 1.5E+02 0.0032 30.0 8.3 17 875-891 169-185 (209)
58 KOG1992 Nuclear export recepto 37.0 3.6E+02 0.0079 34.9 12.5 64 857-920 700-771 (960)
59 KOG2072 Translation initiation 35.2 1.2E+03 0.025 30.7 17.2 251 701-954 15-325 (988)
60 PF03378 CAS_CSE1: CAS/CSE pro 34.5 3.8E+02 0.0082 32.2 12.0 48 824-871 182-234 (435)
61 KOG2027 Spindle pole body prot 33.9 2.4E+02 0.0052 33.5 10.0 20 885-904 103-122 (388)
62 PF05327 RRN3: RNA polymerase 33.5 1.6E+02 0.0035 36.3 9.0 70 726-797 50-121 (563)
63 TIGR00400 mgtE Mg2+ transporte 33.5 2.7E+02 0.0059 33.3 10.7 14 788-801 106-119 (449)
64 KOG2562 Protein phosphatase 2 33.0 4.7E+02 0.01 31.8 12.0 82 781-866 219-318 (493)
65 COG1747 Uncharacterized N-term 31.5 1.1E+03 0.024 29.4 17.2 59 765-823 45-103 (711)
66 KOG1059 Vesicle coat complex A 31.0 9.7E+02 0.021 30.9 14.6 37 761-797 365-401 (877)
67 PRK07764 DNA polymerase III su 30.8 2.1E+02 0.0046 37.1 9.6 19 906-924 327-345 (824)
68 PF08568 Kinetochor_Ybp2: Unch 30.6 7.2E+02 0.016 31.1 14.0 55 832-886 453-507 (633)
69 KOG3759 Uncharacterized RUN do 30.4 1.1E+03 0.024 28.9 15.5 87 722-812 98-193 (621)
70 KOG1070 rRNA processing protei 30.4 6.3E+02 0.014 34.9 13.4 75 688-762 1452-1529(1710)
71 COG5240 SEC21 Vesicle coat com 30.1 1.2E+03 0.027 29.4 14.9 38 811-848 344-384 (898)
72 COG2733 Predicted membrane pro 28.1 6.4E+02 0.014 30.2 11.9 168 782-953 125-298 (415)
73 PF01602 Adaptin_N: Adaptin N 28.0 6.4E+02 0.014 29.9 12.6 221 713-954 172-402 (526)
74 PRK07003 DNA polymerase III su 27.8 4.1E+02 0.0088 34.5 11.1 233 696-938 103-352 (830)
75 COG1536 FliG Flagellar motor s 27.5 1E+03 0.023 27.8 16.0 43 696-738 58-106 (339)
76 PRK07194 fliG flagellar motor 27.5 9.2E+02 0.02 27.8 13.3 14 796-809 50-63 (334)
77 KOG1992 Nuclear export recepto 27.4 2.2E+02 0.0048 36.8 8.6 52 715-766 702-758 (960)
78 PF05327 RRN3: RNA polymerase 27.3 6.8E+02 0.015 31.0 12.9 69 762-832 50-120 (563)
79 KOG3821 Heparin sulfate cell s 27.1 7.8E+02 0.017 30.6 12.8 56 856-914 271-326 (563)
80 PF11573 Med23: Mediator compl 26.3 2.2E+02 0.0048 38.7 8.9 112 756-867 53-179 (1341)
81 PF14631 FancD2: Fanconi anaem 25.8 8.7E+02 0.019 33.8 14.3 32 892-923 453-484 (1426)
82 PF02854 MIF4G: MIF4G domain; 25.6 3.7E+02 0.0081 27.1 8.8 25 787-811 2-26 (209)
83 PF12348 CLASP_N: CLASP N term 24.4 8.4E+02 0.018 25.6 12.1 14 935-948 183-196 (228)
84 PF04078 Rcd1: Cell differenti 24.2 2.1E+02 0.0046 32.2 7.0 34 833-867 179-212 (262)
85 TIGR00400 mgtE Mg2+ transporte 23.4 3.3E+02 0.0073 32.5 9.0 94 715-808 21-114 (449)
86 PF08625 Utp13: Utp13 specific 22.9 5.9E+02 0.013 26.0 9.4 23 821-843 47-69 (141)
87 PF11864 DUF3384: Domain of un 22.9 6.1E+02 0.013 30.5 11.1 22 775-796 238-259 (464)
88 PRK07194 fliG flagellar motor 22.8 1.2E+03 0.026 26.9 18.7 14 856-869 197-210 (334)
89 PF10521 DUF2454: Protein of u 22.4 8.6E+02 0.019 27.2 11.5 51 786-836 97-154 (282)
90 PLN03083 E3 UFM1-protein ligas 21.3 1.9E+03 0.042 28.7 16.0 49 696-746 513-561 (803)
91 PLN03218 maturation of RBCL 1; 21.2 9.4E+02 0.02 32.3 13.1 60 895-956 583-643 (1060)
92 PF02438 Adeno_100: Late 100kD 21.1 1.3E+03 0.029 28.7 13.1 49 816-868 285-333 (583)
93 PF07393 Sec10: Exocyst comple 20.2 1.8E+03 0.038 28.1 14.9 27 819-845 216-242 (710)
94 PF12069 DUF3549: Protein of u 20.1 5.7E+02 0.012 30.0 9.6 23 692-714 79-101 (340)
No 1
>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=6.3e-89 Score=750.19 Aligned_cols=377 Identities=58% Similarity=0.962 Sum_probs=363.2
Q ss_pred cCCCCCCCCCCccccccCCCCCcCCCCCCCCCCCCCCChHHHHHHhcCCCCCCCCCCcccccccchhhhhhhhhcc-cCC
Q 002096 285 RAPSPRIPTAGVGRASSMDKRTVSGPLPLNGVSPSLKDSAEIVAALSGLNLSTDGVADQENNSRSQNQHEIDDRHS-LFN 363 (967)
Q Consensus 285 r~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 363 (967)
|+|||||||||+ |+.+.|||++.|+++||+++|+++|+|||+|||||||||+++++++|+|+|+|+|||||||++ ||+
T Consensus 1 R~PSp~lpPIG~-Rv~s~eKk~~~g~~sfn~~SS~~~e~aDlvAALSGLNLS~~~~~~ee~~~qSqlqqdvdnqq~~lf~ 79 (385)
T PF07990_consen 1 RAPSPCLPPIGV-RVGSVEKKNNGGSSSFNGVSSGINESADLVAALSGLNLSGNRAADEENHMQSQLQQDVDNQQDFLFN 79 (385)
T ss_pred CCCCCCCCCccc-cccchhcccccCCcccccccCCCCcHHHHHHHHhcCCcCcCccccccccchHHHHHHHHHhhhhhhc
Confidence 899999999999 999999999999999999999999999999999999999999999999999999999999999 999
Q ss_pred CCCCccccccCccccCccccccccccccCCCCCCCCCCCCCCCccccccccccccccccccCCCCccCCCCCCCccCCCC
Q 002096 364 LQGDSRHMKQHPFLGRSESGHLLMHSASHSTKGSYPNMGKSGVGIDMNNASLMADGHKSALSSSNSYLKGPCTPTLNGGG 443 (967)
Q Consensus 364 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 443 (967)
+|++|+|.+||.|+++++++|+++| ++++..+.+.++|+|++.++.+++++
T Consensus 80 ~q~~q~~~~Qq~~~~~se~~~l~~~-----------------------------e~~~a~~~~~~s~~~~~~~s~~~~~g 130 (385)
T PF07990_consen 80 VQGGQNQGNQQSYMKKSESGHLNAP-----------------------------ELQKAAFPSGNSYFKNSNASKLSGGG 130 (385)
T ss_pred CccchhhhhhHHHhhccchhhcccc-----------------------------ccccccCCCccccccCCCcccccCCC
Confidence 9999999999999999999999765 56677888899999999999999999
Q ss_pred CCCCCCccCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCCCccchhhHHhhhhcCCCCCccccccCCCCchhhhhhH
Q 002096 444 NSPSHHQVMGNMNSAFSNFSLNGYSMNPSSPSMMGSPIGSGNLPPLYENAAAASAMAGNGLDARTLASLGLGPNVMAAAA 523 (967)
Q Consensus 444 ~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 523 (967)
..+..||+++.++..+ +||++||++|+||.+++++|++|+|||+++++++++.+++++|.+| +++.++++....
T Consensus 131 ~~~~~~q~~~~~n~~~-----~gy~~n~~~~s~~~~~~~~gn~p~~fd~~~~~s~~~~~~~~s~~~g-~~~~s~~~~~~~ 204 (385)
T PF07990_consen 131 GSPFPYQNSDNPNSSF-----GGYALNPALPSMMASQLNNGNIPPLFDNSAAASALASPGMDSRSLG-GGLDSGGNQGAS 204 (385)
T ss_pred CCCCcccCCCcccccc-----cccccCccchhhhhccccCCCCCccccccccchhhccCCCcccccC-Cccccccccccc
Confidence 9899999988777766 8999999999999999999999999999999999999999999999 889999887888
Q ss_pred hhhhhcccccCCCCCCCCCCCCChHHHhhhccchHHHHHhhhcCCCCcc---cCCCccchhhhHHHhhhccccccccccC
Q 002096 524 ELQSMNRLGNHTAGSALQAPLMDPLYLQYLRSNEYAAAQVASLNDPAMD---IGNSYMDLLGLQKAYLGALLSPQKSQYG 600 (967)
Q Consensus 524 ~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~p~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 600 (967)
|+++++|+|||+++.++|+|++||+|+||||+++|++++++++.||+++ +|++++|++++|||||++||++||+|||
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 9999999999997799999999999999999999999999999999998 9999999999999999999999999999
Q ss_pred CCcccCCCCCCCCCCCCCCCCCccCCCCCC----CCCCCCCCCCCCccCCCCCCCCCCCCccCCCCCCCCCCCcCCCCCC
Q 002096 601 VPYLNKSGSLNNNLYGNPAFGLGMSYPGGP----LLPNSPVGSGSPVRHGDRNMRFPSGMRNLSGGVMGPWHSEAGGSLD 676 (967)
Q Consensus 601 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~----~~~~~~~~~~~p~~~~~~~~r~~s~~r~~~gg~~~~w~~d~g~~m~ 676 (967)
+|+ .|+|.++++|||+|.||++|+|||+| |||++|+|+++|+++++|++||+++|||..||++++||.|.+++||
T Consensus 285 ~P~-~~~~~~n~~y~gnp~~G~gm~Y~gsplaspvlPsspvG~gsp~r~~er~~R~~s~mRn~~GG~~GsW~~d~g~~~d 363 (385)
T PF07990_consen 285 VPL-KKSGSMNHGYYGNPSYGLGMPYPGSPLASPVLPSSPVGPGSPLRHNERNMRFPSGMRNSSGGSMGSWHSDAGGNMD 363 (385)
T ss_pred Ccc-ccCCCCCCCCCCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCcCCccccccCccccccccccccccccccccccc
Confidence 999 88888999999999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred hhhhhHHHhhhcCcccccchHH
Q 002096 677 ESFASSLLDEFKSNKTKCFELS 698 (967)
Q Consensus 677 d~~~S~lLqef~snk~r~~~L~ 698 (967)
+.|++.||||||+||+|+|||.
T Consensus 364 ~~~~sSlLEEFKsNKtr~FELS 385 (385)
T PF07990_consen 364 ENFASSLLEEFKSNKTRSFELS 385 (385)
T ss_pred ccchhHHHHHHhcCCccceecC
Confidence 9999999999999999999873
No 2
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.6e-59 Score=532.89 Aligned_cols=288 Identities=59% Similarity=0.950 Sum_probs=274.2
Q ss_pred hhhhHHHhhhcCc-ccccchHHHHHHHHHHHhhCcccCHHHHHhhhcCCH-HHHHHHHHHHHHHHHHhhhccccchhHhh
Q 002096 678 SFASSLLDEFKSN-KTKCFELSEIAGHVVEFSADQYGSRFIQQKLETATT-EEKNMVFQEIMPQALSLMTDVFGNYVIQK 755 (967)
Q Consensus 678 ~~~S~lLqef~sn-k~r~~~L~eI~G~IveLa~Dq~GSRVLQklLE~~S~-Eer~~IfeEI~~~lleLmtD~fGN~VVQK 755 (967)
...+.+++.+.++ ..+.+.+.++.+++++|++||+||||||++|+.+++ +++..||++|.+.+.+||+|.||||||||
T Consensus 154 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvIQk 233 (503)
T KOG1488|consen 154 TGPSFLLDPFRSNSLSKTLELVDIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVIQK 233 (503)
T ss_pred CCCCccccccccccccccccccccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchhhh
Confidence 3446677777777 667788999999999999999999999999999998 99999999999999999999999999999
Q ss_pred hhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCchhhhhhhcCChh
Q 002096 756 FFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVPED 835 (967)
Q Consensus 756 LLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e 835 (967)
+||+++++++..|...+++++..||+++||||||||+|+..+.+++.+|++||++++++|++|+|||||||||||+.+.+
T Consensus 234 ffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p~~ 313 (503)
T KOG1488|consen 234 FFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLPPD 313 (503)
T ss_pred hhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccChH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHH--HHHHhhcCcchhHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHH
Q 002096 836 AIQFIVLTFYD--QVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAI 913 (967)
Q Consensus 836 ~iq~IId~L~~--~lv~LS~hkyGSrVIQkILE~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~I 913 (967)
.+++|++.|.+ ++..+|+|+|||||||++||+|..+++ +.|+++|..++..|++|+||||||||+|+++++..+..|
T Consensus 314 ~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~~~-~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~~I 392 (503)
T KOG1488|consen 314 AWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSEDQK-QPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDTII 392 (503)
T ss_pred HHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChHhh-hHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhhhH
Confidence 99999999999 999999999999999999999987664 569999999999999999999999999999999888899
Q ss_pred HHHHHHHHHHHhcCccHHHHHHHHHhhCCHHHHHHHHHHHhcCCCCC-CccccC
Q 002096 914 IKKLTGQIVQMSQQKFASNVIEKCLSFGTPAERQALVNEMLGSIEEN-EPLQVC 966 (967)
Q Consensus 914 Ik~LkgnIveLS~nKfGS~VVEKcL~~~d~~eRk~II~ELl~~~Den-~~l~~~ 966 (967)
++.|.++++.|++|||+||||||||.++.+.+|..||+|++...++. ++|..|
T Consensus 393 ~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~m 446 (503)
T KOG1488|consen 393 IKCLLGNLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIM 446 (503)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHH
Confidence 99999999999999999999999999999999999999999999988 666554
No 3
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=100.00 E-value=1.2e-45 Score=403.15 Aligned_cols=262 Identities=57% Similarity=0.949 Sum_probs=253.4
Q ss_pred hHHHHH-HHHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHh
Q 002096 696 ELSEIA-GHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTG 774 (967)
Q Consensus 696 ~L~eI~-G~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g 774 (967)
.++++. |+++++|.|++|||+||++|+.++++++..||+++.+++.+||+|+|||||||++|++++++++..|++++.+
T Consensus 3 ~~~~~~~~~~~~l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~ 82 (322)
T cd07920 3 TLQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILG 82 (322)
T ss_pred CHHhccCcchhhccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 456677 9999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHhhhccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCchhhhhhhcCChhhHHHHHHHHHHHHHHhhcC
Q 002096 775 HVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLSTH 854 (967)
Q Consensus 775 ~IveLA~hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS~h 854 (967)
++.+|+.|+|||||||++|+.++++++..|+++|.+++..|+.|++||||||+++++++++.++.|++.+.+++..+++|
T Consensus 83 ~~~~l~~~~~g~~vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~ 162 (322)
T cd07920 83 HVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTH 162 (322)
T ss_pred HHHHHcccchhHHHHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHH
Q 002096 855 PYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQKFASNVI 934 (967)
Q Consensus 855 kyGSrVIQkILE~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~nKfGS~VV 934 (967)
++||+|+|+||+.+. ++.++.|++++.+.+..|+.|+|||||||++|+.++++.++.|++.|++++++|+++||||+||
T Consensus 163 ~~G~~vvq~~l~~~~-~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~Gs~Vv 241 (322)
T cd07920 163 PYGCRVIQRCLEHCS-EEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASNVV 241 (322)
T ss_pred ccccHHHHHHHHhCC-HHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCCHHHHHHHHHHHHHHHHHHHcCcchHHHH
Confidence 999999999999886 4557889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCHHHHHHHHHHHhcCCC
Q 002096 935 EKCLSFGTPAERQALVNEMLGSIE 958 (967)
Q Consensus 935 EKcL~~~d~~eRk~II~ELl~~~D 958 (967)
|+||+.++++.|+.|+++|+....
T Consensus 242 e~~l~~~~~~~~~~ii~~l~~~~~ 265 (322)
T cd07920 242 EKCLKHASKEERELIIDEILASGN 265 (322)
T ss_pred HHHHHHCCHHHHHHHHHHHhcCCC
Confidence 999999999999999999998764
No 4
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.9e-44 Score=408.00 Aligned_cols=267 Identities=27% Similarity=0.449 Sum_probs=253.2
Q ss_pred CCCChhhhhHHHhh---hcCcccccchHHHHHHHHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhcccc
Q 002096 673 GSLDESFASSLLDE---FKSNKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFG 749 (967)
Q Consensus 673 ~~m~d~~~S~lLqe---f~snk~r~~~L~eI~G~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fG 749 (967)
.+|.|.|+++++|+ +.+.+++..+...+++++.+||.|.+|||||||.|++-+.+....+++||..+++++++|++|
T Consensus 220 ~L~~dvFGNyvIQkffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQng 299 (503)
T KOG1488|consen 220 ELMTDVFGNYVIQKFFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNG 299 (503)
T ss_pred HHHHHHhcCchhhhhhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhccc
Confidence 35799999999995 556677777788899999999999999999999999999999999999999999999999999
Q ss_pred chhHhhhhccCCHHHHHHHHHHHHh--hHHHhhhccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCchhhh
Q 002096 750 NYVIQKFFEHGTASQVRELADQLTG--HVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQK 827 (967)
Q Consensus 750 N~VVQKLLE~~s~Eqr~~Iie~L~g--~IveLA~hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQk 827 (967)
|||||||||..+.+...+|++.+.+ ++..||.|+|||||||++||+++.+++..+++||..++..|+.|+|||||||+
T Consensus 300 nHViQK~ie~~p~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~~~L~~dQygNYVIQH 379 (503)
T KOG1488|consen 300 NHVIQKCIETLPPDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSEDQKQPLMEEIIRNCDQLAQDQYGNYVIQH 379 (503)
T ss_pred ceehhhhhhccChHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChHhhhHHHHHHHHHHHHHHhhhhhhHHHHH
Confidence 9999999999999999999999999 99999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhhcCCHHHHHHHHHHHHH-------HHHHHhcCccHHHHHHH
Q 002096 828 CIECVPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQ-------SVCMLAQDQYGNYVVQH 900 (967)
Q Consensus 828 LLE~~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~csde~~r~~LLdeLle-------~L~~La~DqyGNYVVQ~ 900 (967)
+|+++.++....|++.+.++++.+++|||+|+||++||.++.. ..+..|+++|++ .+..|+.|+|||||||+
T Consensus 380 Vie~g~~~~~~~I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~-~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQk 458 (503)
T KOG1488|consen 380 VIEHGSPYRDTIIIKCLLGNLLSMSQHKFASNVVEKAFLFAPP-LLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQK 458 (503)
T ss_pred HHhcCChhhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHhhCCH-HHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHH
Confidence 9999999999999999999999999999999999999999864 457899999996 48899999999999999
Q ss_pred HHhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhh
Q 002096 901 VLEHGKPHERSAIIKKLTGQIVQMSQQKFASNVIEKCLSF 940 (967)
Q Consensus 901 ILe~~~pkeRk~IIk~LkgnIveLS~nKfGS~VVEKcL~~ 940 (967)
+|+.+++.+|+.|+.+++.|+..|.+.+||.|+|+++=+.
T Consensus 459 mi~~~~~~q~~~i~~rI~~h~~~Lrk~syGKhIia~lek~ 498 (503)
T KOG1488|consen 459 MIDICGPEQRELIKSRVKPHASRLRKFSYGKHIIAKLEKL 498 (503)
T ss_pred HHHhcCHHHHHHHHHHHHHHHHHHccCccHHHHHHHHHHh
Confidence 9999999999999999999999999999999999997554
No 5
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.5e-42 Score=412.90 Aligned_cols=247 Identities=43% Similarity=0.735 Sum_probs=238.6
Q ss_pred hhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccch
Q 002096 708 SADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCR 787 (967)
Q Consensus 708 a~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcr 787 (967)
|+||+|||+||++|+.-+.+++..|+.++...+.+||.|.||||||||+||+++++|+..++..+.++++.|+.|+||||
T Consensus 447 ~~Dq~g~r~LQk~Lds~s~~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~~~~~ls~~~~Gtr 526 (777)
T COG5099 447 CKDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTR 526 (777)
T ss_pred cCCcHHHHHHHHHhcccchHHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhhhHHHhhccccccH
Confidence 69999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhcCHHHHH-HHHHHHhhHHhHhhcccCCCchhhhhhhcCChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHh
Q 002096 788 VIQKAIEVVELDQQT-QMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLE 866 (967)
Q Consensus 788 VLQklLE~as~eq~~-~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE 866 (967)
|+||+|+++..+.+. .|+++|++++..|++|++|||||||||++...+..++|++.+.++++++++|+|||+|||+|||
T Consensus 527 v~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~Gs~vvq~~le 606 (777)
T COG5099 527 VLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLE 606 (777)
T ss_pred HHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccccHHHHHHHH
Confidence 999999999888887 8899999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHHHHHHHH-HHHHHhcCccHHHHHHHHHhhCCHHH
Q 002096 867 HCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAIIKKLTG-QIVQMSQQKFASNVIEKCLSFGTPAE 945 (967)
Q Consensus 867 ~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~IIk~Lkg-nIveLS~nKfGS~VVEKcL~~~d~~e 945 (967)
+|..+.+ +.++++|+..+..|++|+||||||||+|+.+.+..+++|+..+.. ++++|++|||||+|||||++++.+.+
T Consensus 607 ~~~~~~~-~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~~~~~~ 685 (777)
T COG5099 607 NCNSEDK-ENLVEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKYASDSF 685 (777)
T ss_pred hccHhHH-HHHHHHHHHHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcch
Confidence 9986654 789999999999999999999999999999999999999999888 99999999999999999999998877
Q ss_pred -HHHHHHHHhc
Q 002096 946 -RQALVNEMLG 955 (967)
Q Consensus 946 -Rk~II~ELl~ 955 (967)
|++|+.+|..
T Consensus 686 ~~~ril~~~~~ 696 (777)
T COG5099 686 KRSRILNELTN 696 (777)
T ss_pred HHHHHHHHHhc
Confidence 5999999998
No 6
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=100.00 E-value=3.6e-40 Score=359.97 Aligned_cols=282 Identities=25% Similarity=0.423 Sum_probs=244.9
Q ss_pred CCChhhhhHHHhh---hcCcccccchHHHHHHHHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccc
Q 002096 674 SLDESFASSLLDE---FKSNKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGN 750 (967)
Q Consensus 674 ~m~d~~~S~lLqe---f~snk~r~~~L~eI~G~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN 750 (967)
...|..++++||+ ..+++++..++.+|.+++.++++|++|++|+|++|+.++++++..|++++.+++.+|++|+||+
T Consensus 15 l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~g~ 94 (322)
T cd07920 15 FAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGC 94 (322)
T ss_pred ccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcccchhH
Confidence 3577788888884 3456777888888899999999999999999999999999999999999889999999999999
Q ss_pred hhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCchhhhhhh
Q 002096 751 YVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIE 830 (967)
Q Consensus 751 ~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE 830 (967)
+||||+|++++++++..|++++.+++.+|+.|.||++|||++++.++++++..|+++|.+++..++.|++|++|||+||+
T Consensus 95 ~vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~G~~vvq~~l~ 174 (322)
T cd07920 95 RVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYGCRVIQRCLE 174 (322)
T ss_pred HHHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCccccHHHHHHHH
Confidence 99999999888888888999999999999999999999999999888888888888888888999999999999999999
Q ss_pred cCChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHH
Q 002096 831 CVPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHER 910 (967)
Q Consensus 831 ~~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeR 910 (967)
..+++.++.|++.+.+++..|+.++||++|||++|+... ++.+..|++.+.+++..|++++||++||+++|+.++++.|
T Consensus 175 ~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~-~~~~~~i~~~l~~~~~~l~~~k~Gs~Vve~~l~~~~~~~~ 253 (322)
T cd07920 175 HCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGD-PDDTSRIIEKLLGNIVQLSCHKFASNVVEKCLKHASKEER 253 (322)
T ss_pred hCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCC-HHHHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHCCHHHH
Confidence 888888888888888888899999999999999998865 4556788888888888899999999999999999888888
Q ss_pred HHHHHHHH------HHHHHHhcCccHHHHHHHHHhhCCHHHHHHHHHHHhcC
Q 002096 911 SAIIKKLT------GQIVQMSQQKFASNVIEKCLSFGTPAERQALVNEMLGS 956 (967)
Q Consensus 911 k~IIk~Lk------gnIveLS~nKfGS~VVEKcL~~~d~~eRk~II~ELl~~ 956 (967)
+.|+++|. .++.+|++|+||++||+++|+.++++.|+.|+.+|.+.
T Consensus 254 ~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~~~~~i~~~l~~~ 305 (322)
T cd07920 254 ELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRPH 305 (322)
T ss_pred HHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence 88888884 48889999999999999999988888888888888764
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=1.7e-38 Score=365.47 Aligned_cols=258 Identities=32% Similarity=0.541 Sum_probs=241.7
Q ss_pred HHHHHHHHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHh--
Q 002096 697 LSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTG-- 774 (967)
Q Consensus 697 L~eI~G~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g-- 774 (967)
+.++.+.+.-+|+|++|||++|+.++.++.+....||.++..++.+||.|+||||+|||+++.|+++|+..|+..++.
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 456778899999999999999999999999999999999999999999999999999999999999999999999985
Q ss_pred -hHHHhhhccccchhhhhhhhhcCHHHH-HHHHHHHhhHHhHhhcccCCCchhhhhhhcCChhhHHHHHHHHHHHHHHhh
Q 002096 775 -HVLTLSLQMYGCRVIQKAIEVVELDQQ-TQMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLS 852 (967)
Q Consensus 775 -~IveLA~hkyGcrVLQklLE~as~eq~-~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS 852 (967)
.++.+|.++||+++||++++.....++ ..+++.|...++.|++|.||+||||+||.+.+++..++|++.+...+.++|
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 699999999999999999998765444 456677999999999999999999999999999999999999999999999
Q ss_pred cCcchhHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCccHHH
Q 002096 853 THPYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQKFASN 932 (967)
Q Consensus 853 ~hkyGSrVIQkILE~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~nKfGS~ 932 (967)
+|++||+|+|+||....+ +.|+.++++|..+...|+.|+|||||||++|+...+.....|++.|.+++++||.+||||+
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 999999999999999765 5689999999999999999999999999999999988899999999999999999999999
Q ss_pred HHHHHHhhCCHHHHHHHHHHHhcC
Q 002096 933 VIEKCLSFGTPAERQALVNEMLGS 956 (967)
Q Consensus 933 VVEKcL~~~d~~eRk~II~ELl~~ 956 (967)
||||||++.... +..||.||++.
T Consensus 451 vVEk~L~~~~~~-~~~iV~ell~~ 473 (536)
T KOG2049|consen 451 VVEKLLKVRESS-RAQIVLELLSC 473 (536)
T ss_pred HHHHHHhcCcch-hhHHHHHHHcc
Confidence 999999987554 37899999987
No 8
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3e-33 Score=335.21 Aligned_cols=273 Identities=25% Similarity=0.431 Sum_probs=251.1
Q ss_pred CcCCCCCChhhhhHHHhh---hcCcccccchHHHHHHHHHHHhhCcccCHHHHHhhhcCCHH-HHHHHHHHHHHHHHHhh
Q 002096 669 SEAGGSLDESFASSLLDE---FKSNKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETATTE-EKNMVFQEIMPQALSLM 744 (967)
Q Consensus 669 ~d~g~~m~d~~~S~lLqe---f~snk~r~~~L~eI~G~IveLa~Dq~GSRVLQklLE~~S~E-er~~IfeEI~~~lleLm 744 (967)
.+...+|.|.||+|++|+ +.+..+|..++..+.+++++++.+++|||++||+|+..+++ +...|++++.+.+..|+
T Consensus 477 d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~~~~~ls~~~~Gtrv~QK~id~~~t~~qi~~lv~~l~~~~~~li 556 (777)
T COG5099 477 DQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYGTRVLQKAIDIVSTDIQISLLVEELRPYCLQLI 556 (777)
T ss_pred hhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhhhHHHhhccccccHHHHHHHhccCchhhHHHHHHHhhhhhHHHH
Confidence 334456899999999994 55667788889999999999999999999999999998755 45599999999999999
Q ss_pred hccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCch
Q 002096 745 TDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHV 824 (967)
Q Consensus 745 tD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhV 824 (967)
+|++|||||||||+....+....|++.+.+++.+++.|+|||||||+|+|.+..+++..++++|..++..|+.|++||||
T Consensus 557 ~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~Gs~vvq~~le~~~~~~~~~~~~~Ii~~~~~L~~dq~GNyv 636 (777)
T COG5099 557 KDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVVQRCLENCNSEDKENLVEEIISNSKYLSQDQYGNYV 636 (777)
T ss_pred HhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccccHHHHHHHHhccHhHHHHHHHHHHHHHHhhccCCcchhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCChhhHHHHHHHHHH-HHHHhhcCcchhHHHHHHHhhcCCHHHHHHHHHHHHH-------HHHHHhcCccHHH
Q 002096 825 IQKCIECVPEDAIQFIVLTFYD-QVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQ-------SVCMLAQDQYGNY 896 (967)
Q Consensus 825 IQkLLE~~~~e~iq~IId~L~~-~lv~LS~hkyGSrVIQkILE~csde~~r~~LLdeLle-------~L~~La~DqyGNY 896 (967)
||++|+.+.+..++.|+..+.. ++++|++||||+.||++||..|.+...+..|+.++.. .+..|+.|+||||
T Consensus 637 vq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~~~~~~~~~ril~~~~~~~~~~~~~l~~i~~d~y~Ny 716 (777)
T COG5099 637 VQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKYASDSFKRSRILNELTNRGIEKPGFLMLILDDQYANY 716 (777)
T ss_pred hhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHhcccccCChHHHHHHHhhhcch
Confidence 9999999999999988888887 9999999999999999999999987766788888887 2788999999999
Q ss_pred HHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhhC
Q 002096 897 VVQHVLEHGKPHERSAIIKKLTGQIVQMSQQKFASNVIEKCLSFG 941 (967)
Q Consensus 897 VVQ~ILe~~~pkeRk~IIk~LkgnIveLS~nKfGS~VVEKcL~~~ 941 (967)
|+|+++....+.+|..+.+.++..+..|-..++|-++..++=+..
T Consensus 717 v~q~~~~~s~~~~~~l~~~~i~~~~~~l~~s~~g~~i~~~le~~~ 761 (777)
T COG5099 717 VIQYLLDVSPEIQRSLLARAIKKVIPSLKKSMYGQHILALLEKVG 761 (777)
T ss_pred HHHHHHhhCchhhHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHh
Confidence 999999999999999999999999999999999988887765553
No 9
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3e-33 Score=322.19 Aligned_cols=264 Identities=23% Similarity=0.335 Sum_probs=239.0
Q ss_pred CCCCChhhhhHHHhhhc---CcccccchHHHHHH---HHHHHhhCcccCHHHHHhhhcC-CHHHHHHHHHHHHHHHHHhh
Q 002096 672 GGSLDESFASSLLDEFK---SNKTKCFELSEIAG---HVVEFSADQYGSRFIQQKLETA-TTEEKNMVFQEIMPQALSLM 744 (967)
Q Consensus 672 g~~m~d~~~S~lLqef~---snk~r~~~L~eI~G---~IveLa~Dq~GSRVLQklLE~~-S~Eer~~IfeEI~~~lleLm 744 (967)
.+.|.|+|++++++++. +.+++..+..-|.. .+++++.+.+|+|.||++++.. +.+|+..|++.|++.++.|+
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 35689999999999544 44445445555543 5899999999999999999985 46788999999999999999
Q ss_pred hccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCch
Q 002096 745 TDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHV 824 (967)
Q Consensus 745 tD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhV 824 (967)
+|.||+||||+||...++++.+.|++.+..++.++|+|++||.|||+||.....+++..+++|+..+.+.|+.|++||||
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 hhhhhhcCChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhhcCCHHHHHHHHHHHHH--HHHHHhcCccHHHHHHHHH
Q 002096 825 IQKCIECVPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQ--SVCMLAQDQYGNYVVQHVL 902 (967)
Q Consensus 825 IQkLLE~~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~csde~~r~~LLdeLle--~L~~La~DqyGNYVVQ~IL 902 (967)
||++|+.-......+|++.+.+++++||.+||||+|||+||+.+... +..|+.|++. .+..|+.|+|||||||+.|
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 99999998888899999999999999999999999999999997543 3678888888 8999999999999999999
Q ss_pred hcCCH----HHHHHHHHHHHHHHHHHhcCccHHHHHHHH
Q 002096 903 EHGKP----HERSAIIKKLTGQIVQMSQQKFASNVIEKC 937 (967)
Q Consensus 903 e~~~p----keRk~IIk~LkgnIveLS~nKfGS~VVEKc 937 (967)
...+. +.+..++.++...+..|.+.++|..+.++.
T Consensus 494 ~vtk~~~~~~~~~~lv~~~~~~~~~lr~~p~~~~~~~~~ 532 (536)
T KOG2049|consen 494 RVTKVKLREDLFGLLVQKLMPRIRLLRNNPGGNIALIKD 532 (536)
T ss_pred HHhhhcccchhhHHHHHHHhhhhHHhhcCcccceeeehh
Confidence 99886 778899999999999999999998877653
No 10
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=1.6e-25 Score=254.98 Aligned_cols=257 Identities=17% Similarity=0.316 Sum_probs=224.5
Q ss_pred hHHHHHHHHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhh
Q 002096 696 ELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGH 775 (967)
Q Consensus 696 ~L~eI~G~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~ 775 (967)
++.-|++++.+++..++.|||||.+++++++++|..||+|+.|.+++||+++||-|+|||||.+++++++..||+.|.||
T Consensus 158 l~~likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~Gh 237 (652)
T KOG2050|consen 158 LYKLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRGH 237 (652)
T ss_pred HHHHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence 35567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhhccccchhhhhhhh-hcCHHHHHHHHHHHhhHHhHhhcccCCCchhhhhhhcCChhhHHHHHHHHHHHHHHhhc-
Q 002096 776 VLTLSLQMYGCRVIQKAIE-VVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLST- 853 (967)
Q Consensus 776 IveLA~hkyGcrVLQklLE-~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS~- 853 (967)
++.|..|+.|+.||+.++. .++.+|+..|+.||++..+.++++.+--++...|.+. ++.+..|+..+...+-.++.
T Consensus 238 v~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~sn~~Tl~kil~~~--pekk~~I~~~l~~~I~~v~eK 315 (652)
T KOG2050|consen 238 VVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDSNDKTLDKILAEA--PEKKASILRHLKAIITPVAEK 315 (652)
T ss_pred HHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhccCcccHHHHHHhC--hHhHHHHHHHHHHHhHHHhhc
Confidence 9999999999999999995 5899999999999999999999995554444444443 45567777777766655432
Q ss_pred ----CcchhHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCcc
Q 002096 854 ----HPYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQKF 929 (967)
Q Consensus 854 ----hkyGSrVIQkILE~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~nKf 929 (967)
|..-..++..+|..|.. +.+..+++.+.+.+.+|+.++-|+.|..+++.++++++|+.|++.|+.++.+++.+.|
T Consensus 316 g~v~~tivHk~mlEy~~~ade-~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~K~A~~~y 394 (652)
T KOG2050|consen 316 GSVDHTIVHKLMLEYLTIADE-EEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVEKIANDEY 394 (652)
T ss_pred chhHHHHHHHHHHHHHHhCCH-HHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhhcc
Confidence 33445667777888865 5567899999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhCCHHH--HHHHHHHHhc
Q 002096 930 ASNVIEKCLSFGTPAE--RQALVNEMLG 955 (967)
Q Consensus 930 GS~VVEKcL~~~d~~e--Rk~II~ELl~ 955 (967)
|+.|+..+|+..|++. ++.|+.|+.+
T Consensus 395 Gh~vlia~ldc~DDT~l~kk~i~~e~~~ 422 (652)
T KOG2050|consen 395 GHLVLIALLDCTDDTKLLKKLIYDELKS 422 (652)
T ss_pred CceehhhhhcccchHHHHHHHHHHHHHH
Confidence 9999999999987664 7777776543
No 11
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=2.6e-22 Score=231.08 Aligned_cols=178 Identities=15% Similarity=0.261 Sum_probs=138.0
Q ss_pred ccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCchhhhhhhcCC-hhhHHHHHHHHHHHHHHhh--------
Q 002096 782 QMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVP-EDAIQFIVLTFYDQVVTLS-------- 852 (967)
Q Consensus 782 hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~-~e~iq~IId~L~~~lv~LS-------- 852 (967)
|..|+|+++.+++++.++....+...+.+.+.+|+.|+.+|++||++|++.. .+....|++++..++-.|.
T Consensus 344 d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~~LL~~g~~gVv 423 (650)
T KOG2188|consen 344 DQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLSSLLEQGNSGVV 423 (650)
T ss_pred cCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHHHHHHcCCchHh
Confidence 5677777777777777776644445567788899999999999999999876 7777777777765544221
Q ss_pred ---------------------------------------------------------cCcchhHHHHHHHhhcCC--HHH
Q 002096 853 ---------------------------------------------------------THPYGCRVIQRVLEHCHD--EKT 873 (967)
Q Consensus 853 ---------------------------------------------------------~hkyGSrVIQkILE~csd--e~~ 873 (967)
.|..||.++|.++.+..+ .-.
T Consensus 424 ~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~lv~f~k~~i~~l 503 (650)
T KOG2188|consen 424 ASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEELVNFSKTHIQTL 503 (650)
T ss_pred HHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHHHHHHhhchhhhHHH
Confidence 122466666666666443 111
Q ss_pred HHHHHHHHHHHHHHHhcCccHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhhCCHHHHHHHHH
Q 002096 874 QSIMMDEILQSVCMLAQDQYGNYVVQHVLEHG--KPHERSAIIKKLTGQIVQMSQQKFASNVIEKCLSFGTPAERQALVN 951 (967)
Q Consensus 874 r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~--~pkeRk~IIk~LkgnIveLS~nKfGS~VVEKcL~~~d~~eRk~II~ 951 (967)
...|++...+.|.+++++.+|+|||+++|... .++.|++||..|.+.+++|+++.|||+|++|||+++++..|++|++
T Consensus 504 itsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~eK~wea~~~~~k~rIak 583 (650)
T KOG2188|consen 504 ITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVFEKCWEATDVLYKERIAK 583 (650)
T ss_pred HHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHHHHHHHHhhHHHHHHHHH
Confidence 22333444456899999999999999999994 5889999999999999999999999999999999999999999999
Q ss_pred HHhcCCCC
Q 002096 952 EMLGSIEE 959 (967)
Q Consensus 952 ELl~~~De 959 (967)
||++..++
T Consensus 584 eL~~~~~~ 591 (650)
T KOG2188|consen 584 ELVGIHND 591 (650)
T ss_pred HHHhhccc
Confidence 99987763
No 12
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.82 E-value=3.1e-19 Score=204.13 Aligned_cols=278 Identities=19% Similarity=0.332 Sum_probs=226.8
Q ss_pred hHHHh---hhcCcccccchHHHHHHHHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhh
Q 002096 681 SSLLD---EFKSNKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFF 757 (967)
Q Consensus 681 S~lLq---ef~snk~r~~~L~eI~G~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLL 757 (967)
++++| .|.+...|..++.++.+.+|+||+++||-.++|++|+++++++++.|+.++.+|++.|+.|..|.+||.-++
T Consensus 176 SRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay 255 (652)
T KOG2050|consen 176 SRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYAY 255 (652)
T ss_pred HHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHH
Confidence 56777 678888999999999999999999999999999999999999999999999999999999999999999887
Q ss_pred c-cCCHHHHHHHHHHHHhhHHHhhhc-----------------------------------cccc----hhhhhhhhhcC
Q 002096 758 E-HGTASQVRELADQLTGHVLTLSLQ-----------------------------------MYGC----RVIQKAIEVVE 797 (967)
Q Consensus 758 E-~~s~Eqr~~Iie~L~g~IveLA~h-----------------------------------kyGc----rVLQklLE~as 797 (967)
. +++.+||..|+.+|.|.-+.+..+ ..+. .++-..|..|+
T Consensus 256 ~~~A~l~Qr~~li~EfYG~efqlfK~sn~~Tl~kil~~~pekk~~I~~~l~~~I~~v~eKg~v~~tivHk~mlEy~~~ad 335 (652)
T KOG2050|consen 256 NDFATLEQRQYLIQEFYGDEFQLFKDSNDKTLDKILAEAPEKKASILRHLKAIITPVAEKGSVDHTIVHKLMLEYLTIAD 335 (652)
T ss_pred HhhccHHHHHHHHHHHhhHHHHHHhccCcccHHHHHHhChHhHHHHHHHHHHHhHHHhhcchhHHHHHHHHHHHHHHhCC
Confidence 5 589999999999998765555332 1111 22222334577
Q ss_pred HHHHHHHHHHHhhHHhHhhcccCCCchhhhhhhcCChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhhcCCHH-HHHH
Q 002096 798 LDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEK-TQSI 876 (967)
Q Consensus 798 ~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~csde~-~r~~ 876 (967)
++.+..+++.+..-+.+++..+.|..|--+||.+.++++++.|+..++.++..++.+.||+.|+-.+|++..+.. ..+.
T Consensus 336 e~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~K~A~~~yGh~vlia~ldc~DDT~l~kk~ 415 (652)
T KOG2050|consen 336 EEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVEKIANDEYGHLVLIALLDCTDDTKLLKKL 415 (652)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhhccCceehhhhhcccchHHHHHHH
Confidence 888888888888999999999999999999999999999999999999999999999999999999999876544 3567
Q ss_pred HHHHHHHHHHHHhcCccHHHHHHHHHhcCC------------------------HHH-HHH--------HHHHHHHHHHH
Q 002096 877 MMDEILQSVCMLAQDQYGNYVVQHVLEHGK------------------------PHE-RSA--------IIKKLTGQIVQ 923 (967)
Q Consensus 877 LLdeLle~L~~La~DqyGNYVVQ~ILe~~~------------------------pke-Rk~--------IIk~LkgnIve 923 (967)
|++++...+..|+.|+||..|+++++.-.+ |.. |.+ +|..+..++.+
T Consensus 416 i~~e~~~el~~li~Dk~Grrv~lyll~p~D~~~f~~e~ie~l~~~d~~k~sKKdp~vRr~eLla~isp~lis~~s~~aee 495 (652)
T KOG2050|consen 416 IYDELKSELKSLISDKYGRRVILYLLAPRDGRYFVPEFIEVLEELDSNKHSKKDPLVRRIELLAAISPSLISLLSENAEE 495 (652)
T ss_pred HHHHHHHHHHHHhccchhhhhhhhhccCCccccccHHHHHHHHhcccccccccCHHHHHHHHHHhhhHHHHHHHHHhHHH
Confidence 889999999999999999999999985522 222 223 33444555566
Q ss_pred HhcCccHHH-HHHHHHhhC----CHHHHHHHHHHHhcCCC
Q 002096 924 MSQQKFASN-VIEKCLSFG----TPAERQALVNEMLGSIE 958 (967)
Q Consensus 924 LS~nKfGS~-VVEKcL~~~----d~~eRk~II~ELl~~~D 958 (967)
+...++|+. .|+.|+... ++++|+..++..+...+
T Consensus 496 il~e~~~~~~lV~~~l~~~~~~~d~~~~q~~a~a~l~~~~ 535 (652)
T KOG2050|consen 496 ILAEALKSQVLVEASLGAEDGDKDPDEKQAAAEAALPAFK 535 (652)
T ss_pred HHHHhhcceeeHHhhhcCcccccChhhHHHHHHHHHHHhc
Confidence 667777777 677777653 35567777777765543
No 13
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.75 E-value=3.2e-17 Score=189.44 Aligned_cols=236 Identities=19% Similarity=0.285 Sum_probs=185.6
Q ss_pred HHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCC-HHHHHHHHHHHHhhHHHhhhc
Q 002096 704 VVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGT-ASQVRELADQLTGHVLTLSLQ 782 (967)
Q Consensus 704 IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s-~Eqr~~Iie~L~g~IveLA~h 782 (967)
+.++-.|+.|||+|+++++.+.+.....++..+++.+.+|+.|+++||+||++|++.. .++...||+++.+++..|..+
T Consensus 338 ~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~~LL~~ 417 (650)
T KOG2188|consen 338 LKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLSSLLEQ 417 (650)
T ss_pred HHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHHHHHHc
Confidence 4566679999999999999999999977778889999999999999999999999987 899999999999999888655
Q ss_pred cccc-----------------hhhhhhhhh--cCHHHHHHHHHH-H-hhHHhHhhc--------ccCCCchhhhhhhcCC
Q 002096 783 MYGC-----------------RVIQKAIEV--VELDQQTQMVKE-L-DGHIMRCVR--------DQNGNHVIQKCIECVP 833 (967)
Q Consensus 783 kyGc-----------------rVLQklLE~--as~eq~~~Lv~E-L-~g~il~Lv~--------DqnGNhVIQkLLE~~~ 833 (967)
.+.- .|+|.+++. ++.+....++-. | ......++. |+.|..++|.++.+.
T Consensus 418 g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~lv~f~- 496 (650)
T KOG2188|consen 418 GNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEELVNFS- 496 (650)
T ss_pred CCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHHHHHHhhc-
Confidence 4432 233333321 111111112211 1 111222222 457888899999874
Q ss_pred hhhHHHHHHH----HHHHHHHhhcCcchhHHHHHHHhhcC-CHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHH
Q 002096 834 EDAIQFIVLT----FYDQVVTLSTHPYGCRVIQRVLEHCH-DEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPH 908 (967)
Q Consensus 834 ~e~iq~IId~----L~~~lv~LS~hkyGSrVIQkILE~cs-de~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pk 908 (967)
..+++.+++. -..++.++|++.+||+|||.+|.... ++..++.|+..+-....+|+.+.+|++|+++||+.+...
T Consensus 497 k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~eK~wea~~~~ 576 (650)
T KOG2188|consen 497 KTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVFEKCWEATDVL 576 (650)
T ss_pred hhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHHHHHHHHhhHH
Confidence 3444544444 46899999999999999999999843 566778899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcCccHHHHHHHHHhh
Q 002096 909 ERSAIIKKLTGQIVQMSQQKFASNVIEKCLSF 940 (967)
Q Consensus 909 eRk~IIk~LkgnIveLS~nKfGS~VVEKcL~~ 940 (967)
.|.+|.+.|.+.-..+..++||-+|..+|=-.
T Consensus 577 ~k~rIakeL~~~~~~vk~s~~gk~v~~~~~l~ 608 (650)
T KOG2188|consen 577 YKERIAKELVGIHNDVKSSKYGKFVMLNWDLE 608 (650)
T ss_pred HHHHHHHHHHhhccccccCcchHHHHHhccHH
Confidence 99999999999999999999999999887543
No 14
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.55 E-value=4.7e-15 Score=174.52 Aligned_cols=230 Identities=19% Similarity=0.297 Sum_probs=191.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcCHHHHH-HH
Q 002096 726 TEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQT-QM 804 (967)
Q Consensus 726 ~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as~eq~~-~L 804 (967)
..|...+.-+...+..+|..|-.||-|+||+||++....++.+......++..+..|+||.++.||+|+.+..+.+. .+
T Consensus 534 ~pEied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~i 613 (1007)
T KOG4574|consen 534 APEIEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLI 613 (1007)
T ss_pred chhHHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhhee
Confidence 45566666677777888899999999999999999999999999999999999999999999999999988766554 45
Q ss_pred HHHHhhHHhHhhcccCCCchhhhhhhcCChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhhcCCHHHHHHHH-HHHH-
Q 002096 805 VKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMM-DEIL- 882 (967)
Q Consensus 805 v~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~csde~~r~~LL-deLl- 882 (967)
+.-++..+-.++.|++||||+|.+|....+.. .||++.+..+++.+.+.+||++.+.+||+.-.-.-..+.+. +.+.
T Consensus 614 v~g~dpyc~~l~~dqfgnyvaqd~LkF~fp~n-sFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~iI 692 (1007)
T KOG4574|consen 614 VRGVDPYCTPLLNDQFGNYVAQDSLKFGFPWN-SFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCII 692 (1007)
T ss_pred eeccCcchhhHHHHhhcceeeeeehhccCccc-hHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhhh
Confidence 56688999999999999999999999876554 78899999999999999999999999999743221222232 2222
Q ss_pred HHHHHHhcCccHHHHHHHHHhcCCHHHHH-HHHHHHHHHHHHHhcCccHHHHHHHHHhhCC-HHHHHHHHHHHhcC
Q 002096 883 QSVCMLAQDQYGNYVVQHVLEHGKPHERS-AIIKKLTGQIVQMSQQKFASNVIEKCLSFGT-PAERQALVNEMLGS 956 (967)
Q Consensus 883 e~L~~La~DqyGNYVVQ~ILe~~~pkeRk-~IIk~LkgnIveLS~nKfGS~VVEKcL~~~d-~~eRk~II~ELl~~ 956 (967)
.....++.+-.|-..|.++|+.+....|. .++..+.+++++||+||-|+-+|.|+++... +..|++|++.|+.-
T Consensus 693 s~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~ 768 (1007)
T KOG4574|consen 693 SKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHL 768 (1007)
T ss_pred hchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhc
Confidence 23567899999999999999998755555 4456688999999999999999999999975 45599999999943
No 15
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.54 E-value=1.6e-14 Score=170.10 Aligned_cols=266 Identities=15% Similarity=0.247 Sum_probs=212.9
Q ss_pred ChhhhhHHHhhhcC---cccccchHHHHHHHHHHHhhCcccCHHHHHhhhcCC-HHHHHHHHHHHHHHHHHhhhccccch
Q 002096 676 DESFASSLLDEFKS---NKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETAT-TEEKNMVFQEIMPQALSLMTDVFGNY 751 (967)
Q Consensus 676 ~d~~~S~lLqef~s---nk~r~~~L~eI~G~IveLa~Dq~GSRVLQklLE~~S-~Eer~~IfeEI~~~lleLmtD~fGN~ 751 (967)
.|..++.+.++|.+ .-.|..+++.....+..+..+++|.+..|++++.+. +.+...|+.-+.+....|..|+||||
T Consensus 553 SdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~iv~g~dpyc~~l~~dqfgny 632 (1007)
T KOG4574|consen 553 SDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLIVRGVDPYCTPLLNDQFGNY 632 (1007)
T ss_pred hhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhheeeeccCcchhhHHHHhhcce
Confidence 55566777776543 344666677777788889999999999999999975 55678888889999999999999999
Q ss_pred hHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhc--CHHHHHHHHHH-HhhHHhHhhcccCCCchhhhh
Q 002096 752 VIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVV--ELDQQTQMVKE-LDGHIMRCVRDQNGNHVIQKC 828 (967)
Q Consensus 752 VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~a--s~eq~~~Lv~E-L~g~il~Lv~DqnGNhVIQkL 828 (967)
|+|.+|+++-+. ..+|++.+..|++++...+||+|.+.+||+.. ..+++...++. +......+..+.+|-..|.++
T Consensus 633 vaqd~LkF~fp~-nsFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~iIs~ss~latnsng~llvtw~ 711 (1007)
T KOG4574|consen 633 VAQDSLKFGFPW-NSFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCIISKSSYLATNSNGLLLVTWL 711 (1007)
T ss_pred eeeeehhccCcc-chHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhhhhchhhhhhcCccceeeeee
Confidence 999999987554 35668999999999999999999999999854 34444433333 334467788999999999999
Q ss_pred hhcCChhhHH-HHHHHHHHHHHHhhcCcchhHHHHHHHhhcCCHHHHHHHHHHHHHH-----------------------
Q 002096 829 IECVPEDAIQ-FIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQS----------------------- 884 (967)
Q Consensus 829 LE~~~~e~iq-~IId~L~~~lv~LS~hkyGSrVIQkILE~csde~~r~~LLdeLle~----------------------- 884 (967)
|+.+....+. .++..+.++++++|+|+.|+.+|+++++.|.+++.+++|++.|+..
T Consensus 712 lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n~kd~~lt~Vl~~~~~gpmfii 791 (1007)
T KOG4574|consen 712 LDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLRNFKDSALTEVLTEANYGPMFII 791 (1007)
T ss_pred cccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhccccccchhhhhhhhhccccceee
Confidence 9976544444 3445667999999999999999999999999988788888887731
Q ss_pred -------HHHHhcCccHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhhCCHH
Q 002096 885 -------VCMLAQDQYGNYVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQKFASNVIEKCLSFGTPA 944 (967)
Q Consensus 885 -------L~~La~DqyGNYVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~nKfGS~VVEKcL~~~d~~ 944 (967)
+.....|+++++|.|.|+....... .++ +.|...+.-+|..|+|+.-++.|+...+..
T Consensus 792 kvi~~p~iel~f~dQf~kvvrq~il~~~a~~n-arv-~~LleevgliSasksgs~s~q~~~sss~~~ 856 (1007)
T KOG4574|consen 792 KVITKPTIELAFRDQFIKVVRQVILNSPAVSN-ARV-QRLLEEVGLISASKSGSQSIQMHISSSKTP 856 (1007)
T ss_pred eeeccccchHHHHHHHHHHHHHHHHhcCCccH-HHH-HHHHHHHhhhccccchhHHHHhhhccCCcc
Confidence 3446778999999999999876433 233 788888999999999999999999975443
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=97.92 E-value=3.8e-06 Score=64.24 Aligned_cols=33 Identities=36% Similarity=0.603 Sum_probs=20.6
Q ss_pred HHHHHHHhhhccccchhHhhhhccCCHHHHHHH
Q 002096 736 IMPQALSLMTDVFGNYVIQKFFEHGTASQVREL 768 (967)
Q Consensus 736 I~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~I 768 (967)
+.+++.+|++|+||||||||+|+++++++++.|
T Consensus 2 i~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~i 34 (35)
T PF00806_consen 2 IKGNLVELSKDQYGNYVVQKCLEHASPEQRQLI 34 (35)
T ss_dssp HTTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHH
T ss_pred hHHHHHHHHhccccCHHHHHHHHHCCHHHHHhh
Confidence 445666666666666666666666666665554
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=97.69 E-value=3.5e-05 Score=58.94 Aligned_cols=32 Identities=31% Similarity=0.798 Sum_probs=16.3
Q ss_pred HHHHHHHhcCccHHHHHHHHHhhCCHHHHHHH
Q 002096 918 TGQIVQMSQQKFASNVIEKCLSFGTPAERQAL 949 (967)
Q Consensus 918 kgnIveLS~nKfGS~VVEKcL~~~d~~eRk~I 949 (967)
++++.+|++|+||++||+|||+++++++++.|
T Consensus 3 ~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~i 34 (35)
T PF00806_consen 3 KGNLVELSKDQYGNYVVQKCLEHASPEQRQLI 34 (35)
T ss_dssp TTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHH
T ss_pred HHHHHHHHhccccCHHHHHHHHHCCHHHHHhh
Confidence 34455555555555555555555555554444
No 18
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.41 E-value=0.00014 Score=54.47 Aligned_cols=33 Identities=18% Similarity=0.610 Sum_probs=19.1
Q ss_pred HHHHHHHhcCccHHHHHHHHHhhCCHHHHHHHH
Q 002096 918 TGQIVQMSQQKFASNVIEKCLSFGTPAERQALV 950 (967)
Q Consensus 918 kgnIveLS~nKfGS~VVEKcL~~~d~~eRk~II 950 (967)
++++.+|++++||++||++||+.+++++|..|+
T Consensus 3 ~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 3 KGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred hHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 455556666666666666666665555555544
No 19
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.38 E-value=0.00013 Score=54.68 Aligned_cols=33 Identities=39% Similarity=0.764 Sum_probs=18.4
Q ss_pred HHHHHHHhhCcccCHHHHHhhhcCCHHHHHHHH
Q 002096 701 AGHVVEFSADQYGSRFIQQKLETATTEEKNMVF 733 (967)
Q Consensus 701 ~G~IveLa~Dq~GSRVLQklLE~~S~Eer~~If 733 (967)
.+++.+++.|++||+|||++|+.++++++..|+
T Consensus 3 ~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 3 KGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred hHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 445555555555555555555555555555443
No 20
>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=93.39 E-value=12 Score=41.98 Aligned_cols=50 Identities=16% Similarity=0.236 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHHHhcC--ccHHHHHHHHHhhCCHHHHHHHHHHHhcC
Q 002096 907 PHERSAIIKKLTGQIVQMSQQ--KFASNVIEKCLSFGTPAERQALVNEMLGS 956 (967)
Q Consensus 907 pkeRk~IIk~LkgnIveLS~n--KfGS~VVEKcL~~~d~~eRk~II~ELl~~ 956 (967)
+..+++|.+.+...+..+... ..=..+|+.-++.-+.++-..++...++.
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 677788888888887777665 23344555555666888888888777653
No 21
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=90.81 E-value=29 Score=39.85 Aligned_cols=86 Identities=9% Similarity=0.129 Sum_probs=47.2
Q ss_pred cCHHHHHhhhc-CCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhh
Q 002096 713 GSRFIQQKLET-ATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQK 791 (967)
Q Consensus 713 GSRVLQklLE~-~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQk 791 (967)
|-.++..+|.. ...+....|++++.+.-. .++++.+- ..+++....++....++++.+++..--.-+-.+
T Consensus 81 g~~~~~~iL~~~l~~~~a~~il~~i~~~~~--------~~~fe~L~-~ld~~~l~~lL~~EhpqtiA~iLs~l~~~~aa~ 151 (339)
T PRK05686 81 GIDYARSLLEKALGEEKADSILERILESLG--------TSGFDFLR-KMDPQQLANFIRNEHPQTIALILSYLKPDQAAE 151 (339)
T ss_pred hHHHHHHHHHHHcCHHHHHHHHHHHhcccc--------CchHHHHh-cCCHHHHHHHHHhcCHHHHHHHHhCCCHHHHHH
Confidence 34456666664 445555666666543211 24555333 345666666666666666666665555555555
Q ss_pred hhhhcCHHHHHHHHHH
Q 002096 792 AIEVVELDQQTQMVKE 807 (967)
Q Consensus 792 lLE~as~eq~~~Lv~E 807 (967)
+|...+.+.+..++..
T Consensus 152 vL~~l~~~~~~~v~~r 167 (339)
T PRK05686 152 ILSLLPEELRADVMMR 167 (339)
T ss_pred HHHhCCHHHHHHHHHH
Confidence 6666555555554443
No 22
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=81.41 E-value=7.9 Score=39.50 Aligned_cols=19 Identities=11% Similarity=0.305 Sum_probs=13.8
Q ss_pred HHhcCccHHHHHHHHHhhC
Q 002096 923 QMSQQKFASNVIEKCLSFG 941 (967)
Q Consensus 923 eLS~nKfGS~VVEKcL~~~ 941 (967)
.+..+.+|++++.+++...
T Consensus 115 H~i~~p~~~r~lK~Liq~~ 133 (148)
T PF08144_consen 115 HLIEHPFGHRMLKKLIQGD 133 (148)
T ss_pred chhcCchHHHHHHHHHHCC
Confidence 4567888888887777654
No 23
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=81.28 E-value=49 Score=38.02 Aligned_cols=171 Identities=10% Similarity=0.165 Sum_probs=86.2
Q ss_pred HhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcCH
Q 002096 719 QKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVEL 798 (967)
Q Consensus 719 klLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as~ 798 (967)
..|...+++....++....++.+.++-..--.-+-.++|...+++.+..++..+. -++..++
T Consensus 115 e~L~~ld~~~l~~lL~~EhpqtiA~iLs~l~~~~aa~vL~~l~~~~~~~v~~ria------------------~l~~v~~ 176 (339)
T PRK05686 115 DFLRKMDPQQLANFIRNEHPQTIALILSYLKPDQAAEILSLLPEELRADVMMRIA------------------TLEGVSP 176 (339)
T ss_pred HHHhcCCHHHHHHHHHhcCHHHHHHHHhCCCHHHHHHHHHhCCHHHHHHHHHHHH------------------ccCCCCH
Confidence 3556667777777877777777766544444445555555555555544444432 1223333
Q ss_pred HHHHHHHHHHhhHHhHhh----cccCCCchhhhhhhcCChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhhcC----C
Q 002096 799 DQQTQMVKELDGHIMRCV----RDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCH----D 870 (967)
Q Consensus 799 eq~~~Lv~EL~g~il~Lv----~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~cs----d 870 (967)
+....|-+.|...+.... ....|...+-.+|...+.+..+.|++.+...=.+++ -.|-+++|.+.. +
T Consensus 177 ~~~~~i~~~L~~~l~~~~~~~~~~~~g~~~~a~Iln~~~~~~~~~il~~L~~~d~~~a-----~~Ir~~mF~Fedl~~l~ 251 (339)
T PRK05686 177 EALKEVEEVLEKKLSSMANADRTKMGGVKTVAEILNNLDRQTEKTILESLEEEDPELA-----EKIKDLMFVFEDLVDLD 251 (339)
T ss_pred HHHHHHHHHHHHHHhhcccccccccCcHHHHHHHHhcCCchHHHHHHHHHHhhCHHHH-----HHHHHHhcCHHHHhcCC
Confidence 322222222332222211 233566667778888777777777777664322222 233344444321 1
Q ss_pred HHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q 002096 871 EKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAIIKKLTGQIVQM 924 (967)
Q Consensus 871 e~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~IIk~LkgnIveL 924 (967)
....+.|+++ .-+.++-..|+-+++..|++|+..+..+..++
T Consensus 252 ~~~l~~ll~~------------v~~~~L~~ALkga~~~~~~~il~nmS~R~a~~ 293 (339)
T PRK05686 252 DRSIQRLLRE------------VDNDVLALALKGASEELREKFLSNMSKRAAEM 293 (339)
T ss_pred HHHHHHHHHh------------CCHHHHHHHHCCCCHHHHHHHHHhcCHHHHHH
Confidence 1112223333 23444555555566666666666655554444
No 24
>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=79.44 E-value=73 Score=35.82 Aligned_cols=18 Identities=6% Similarity=-0.040 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHHhcC
Q 002096 874 QSIMMDEILQSVCMLAQD 891 (967)
Q Consensus 874 r~~LLdeLle~L~~La~D 891 (967)
+..+.+.+...+..++..
T Consensus 292 ~~~i~~~i~~~l~~~v~~ 309 (367)
T PF04286_consen 292 REKINRFIENLLERIVES 309 (367)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333433333334443333
No 25
>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=75.66 E-value=7.4 Score=39.69 Aligned_cols=67 Identities=13% Similarity=0.354 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHhhcCcchhHHHHHHHhhcCCHHH--HHHHHHHHHHH--------HHHHhcCccHHHHHHHHHhcCC
Q 002096 840 IVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKT--QSIMMDEILQS--------VCMLAQDQYGNYVVQHVLEHGK 906 (967)
Q Consensus 840 IId~L~~~lv~LS~hkyGSrVIQkILE~csde~~--r~~LLdeLle~--------L~~La~DqyGNYVVQ~ILe~~~ 906 (967)
|++.+..+..+|..++.||.+|..+|..+..++. ...|++.+... =..++.+++|.+++-++++...
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 4455556667788888999999999988765432 12333333332 1368899999999999997765
No 26
>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=73.12 E-value=4.7 Score=51.25 Aligned_cols=93 Identities=11% Similarity=0.214 Sum_probs=58.8
Q ss_pred HHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHH-----------------HHhh----hccccchhHhhhhccCC
Q 002096 703 HVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQA-----------------LSLM----TDVFGNYVIQKFFEHGT 761 (967)
Q Consensus 703 ~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~l-----------------leLm----tD~fGN~VVQKLLE~~s 761 (967)
.++.|..=..|-++|-++|...+.|++..|+..|..++ ..++ .+.|-..|+..|+.+..
T Consensus 576 ~fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l~vv~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~l~~~i~ 655 (808)
T PF09770_consen 576 PFISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQLDVVRRASYTDGEDQPLLIKRDDIELFLQAVMPPLMNVIN 655 (808)
T ss_dssp HHHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH-----------------HHHHHTTTTT--GGGGHHHS-HHHH
T ss_pred cceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhhcccccccccccccCccccchHhHHHHHHHHHHHHHHHHH
Confidence 45666666678888888888888888888888888777 2333 24555666666666555
Q ss_pred HHHHHHHHHHH-----HhhHHHhhhccccchhhhhhhhh
Q 002096 762 ASQVRELADQL-----TGHVLTLSLQMYGCRVIQKAIEV 795 (967)
Q Consensus 762 ~Eqr~~Iie~L-----~g~IveLA~hkyGcrVLQklLE~ 795 (967)
......|+..+ ..++.-++++++|.-+|-.+|..
T Consensus 656 ~~~~~~i~gll~~~~~~~~~~~i~~tk~Gls~lt~llsR 694 (808)
T PF09770_consen 656 EAPFNEIIGLLGLLINNNNVSFIAQTKFGLSLLTMLLSR 694 (808)
T ss_dssp HHHHHHHTTSTTT-S--HHHHHHHTSHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHHHhCCCceEEEEChHHHHHHHHHHHH
Confidence 44444443322 14566677888888888777754
No 27
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=70.57 E-value=2.7e+02 Score=35.58 Aligned_cols=205 Identities=15% Similarity=0.239 Sum_probs=104.3
Q ss_pred HHHHHHHhhhccccchhHhhhhccC------CHHHHHHHHHHHHhhHHHhh--------h-----------ccccchhhh
Q 002096 736 IMPQALSLMTDVFGNYVIQKFFEHG------TASQVRELADQLTGHVLTLS--------L-----------QMYGCRVIQ 790 (967)
Q Consensus 736 I~~~lleLmtD~fGN~VVQKLLE~~------s~Eqr~~Iie~L~g~IveLA--------~-----------hkyGcrVLQ 790 (967)
+.|.+.+||++.--|+++-|+|+.. .+...+.+++-|...+..-+ . +..-.-.+|
T Consensus 219 LAP~ffkllttSsNNWmLIKiiKLF~aLtplEPRLgKKLieplt~li~sT~AmSLlYECvNTVVa~s~s~g~~d~~asiq 298 (877)
T KOG1059|consen 219 LAPLFYKLLVTSSNNWVLIKLLKLFAALTPLEPRLGKKLIEPITELMESTVAMSLLYECVNTVVAVSMSSGMSDHSASIQ 298 (877)
T ss_pred ccHHHHHHHhccCCCeehHHHHHHHhhccccCchhhhhhhhHHHHHHHhhHHHHHHHHHHHHheeehhccCCCCcHHHHH
Confidence 4467999999999999999888852 23445555555543332110 0 001111222
Q ss_pred hhhh----hcCH-HH----------------HHHHHHHHhhHHhHhhcccCCCchhhh---hhhcCChhhHHHHHHHHHH
Q 002096 791 KAIE----VVEL-DQ----------------QTQMVKELDGHIMRCVRDQNGNHVIQK---CIECVPEDAIQFIVLTFYD 846 (967)
Q Consensus 791 klLE----~as~-eq----------------~~~Lv~EL~g~il~Lv~DqnGNhVIQk---LLE~~~~e~iq~IId~L~~ 846 (967)
-|++ .+.. ++ -.+.+.+.+.-+++|+.|..-+-=+.. +...+..+.+..|++.+..
T Consensus 299 LCvqKLr~fiedsDqNLKYlgLlam~KI~ktHp~~Vqa~kdlIlrcL~DkD~SIRlrALdLl~gmVskkNl~eIVk~LM~ 378 (877)
T KOG1059|consen 299 LCVQKLRIFIEDSDQNLKYLGLLAMSKILKTHPKAVQAHKDLILRCLDDKDESIRLRALDLLYGMVSKKNLMEIVKTLMK 378 (877)
T ss_pred HHHHHHhhhhhcCCccHHHHHHHHHHHHhhhCHHHHHHhHHHHHHHhccCCchhHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence 2222 1111 00 011223333344555555444322221 1123456666677777777
Q ss_pred HHHHhhcCcchhHHHHHHHhhcCCHHHH-----HHHHHHHHHHHHHHhcCccHHHHHHHHHhcCC--HHHHHHHHHHHHH
Q 002096 847 QVVTLSTHPYGCRVIQRVLEHCHDEKTQ-----SIMMDEILQSVCMLAQDQYGNYVVQHVLEHGK--PHERSAIIKKLTG 919 (967)
Q Consensus 847 ~lv~LS~hkyGSrVIQkILE~csde~~r-----~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~--pkeRk~IIk~Lkg 919 (967)
++..-.-.-|--.++-++|+-|+..... ..++..+ -.+..|.....|..+-..+++.+- +..|...+..+..
T Consensus 379 ~~~~ae~t~yrdell~~II~iCS~snY~~ItdFEWYlsVl-veLa~l~~~~~G~~I~eQi~Dv~iRV~~iR~fsV~~m~~ 457 (877)
T KOG1059|consen 379 HVEKAEGTNYRDELLTRIISICSQSNYQYITDFEWYLSVL-VELARLEGTRHGSLIAEQIIDVAIRVPSIRPFSVSQMSA 457 (877)
T ss_pred HHHhccchhHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHH-HHHHhccccchhhHHHHHHHHHheechhhhHhHHHHHHH
Confidence 7665444455556666777777543321 1222222 224556668889888888888763 5556655554443
Q ss_pred HHH------HHhcCccHHHHHHHHHhhC
Q 002096 920 QIV------QMSQQKFASNVIEKCLSFG 941 (967)
Q Consensus 920 nIv------eLS~nKfGS~VVEKcL~~~ 941 (967)
-+. ....+.+=+-|+-.|.+.+
T Consensus 458 Ll~~~~~~~s~q~n~~l~eVL~AaaWi~ 485 (877)
T KOG1059|consen 458 LLDDPLLAGSAQINSQLCEVLYAAAWIL 485 (877)
T ss_pred HHhchhhccchhhccchhHHHHHHHHHH
Confidence 333 2223444455666665543
No 28
>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=67.68 E-value=2.4e+02 Score=32.64 Aligned_cols=30 Identities=7% Similarity=0.150 Sum_probs=15.6
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q 002096 895 NYVVQHVLEHGKPHERSAIIKKLTGQIVQM 924 (967)
Q Consensus 895 NYVVQ~ILe~~~pkeRk~IIk~LkgnIveL 924 (967)
+-++-..|+-+++..|++|++.+..+..++
T Consensus 261 ~~~L~~ALkga~~e~~~~il~nmS~R~a~~ 290 (338)
T TIGR00207 261 SEDLLLALKGAEQPLREKFLNNMSQRAAEI 290 (338)
T ss_pred HHHHHHHHCcCCHHHHHHHHHHhhHHHHHH
Confidence 344444445555555666666555554444
No 29
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=66.33 E-value=1.2e+02 Score=37.06 Aligned_cols=130 Identities=8% Similarity=0.163 Sum_probs=64.9
Q ss_pred ccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCchhhhhhh-----cCChhhHHHHHHH-HHHHHHHhhc-C--
Q 002096 784 YGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIE-----CVPEDAIQFIVLT-FYDQVVTLST-H-- 854 (967)
Q Consensus 784 yGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE-----~~~~e~iq~IId~-L~~~lv~LS~-h-- 854 (967)
..|+.|-.+-+..++..+..|-..+.+.++.|..+..++.++-++-. .+.+...+.+++. +...+..+.. +
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 34555544444444443333334467788888888877665333222 2456666666653 4445554443 2
Q ss_pred ----cchhHHHHHHHhhcCCHHHHHHHH-HHHHHHHHHHhcC------ccHHHHHHHHHhcCCHHHHHHHHH
Q 002096 855 ----PYGCRVIQRVLEHCHDEKTQSIMM-DEILQSVCMLAQD------QYGNYVVQHVLEHGKPHERSAIIK 915 (967)
Q Consensus 855 ----kyGSrVIQkILE~csde~~r~~LL-deLle~L~~La~D------qyGNYVVQ~ILe~~~pkeRk~IIk 915 (967)
+-.|++|-.|-.. ..++.+.++ ..++..+..+++. +...++|-.+...+++++-+.|++
T Consensus 336 ~~ikkEAcW~iSNItAG--~~~qiqaVida~l~p~Li~~l~~~ef~~rKEAawaIsN~ts~g~~~qi~yLv~ 405 (514)
T KOG0166|consen 336 ESIKKEACWTISNITAG--NQEQIQAVIDANLIPVLINLLQTAEFDIRKEAAWAISNLTSSGTPEQIKYLVE 405 (514)
T ss_pred hhHHHHHHHHHHHhhcC--CHHHHHHHHHcccHHHHHHHHhccchHHHHHHHHHHHhhcccCCHHHHHHHHH
Confidence 4567776666552 233333333 3344444444332 223455555555555544444443
No 30
>COG4399 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=66.13 E-value=91 Score=36.30 Aligned_cols=66 Identities=18% Similarity=0.248 Sum_probs=31.7
Q ss_pred HHHhcCccHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhhCCHHHHHHHHHHHhc
Q 002096 886 CMLAQDQYGNYVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQKFASNVIEKCLSFGTPAERQALVNEMLG 955 (967)
Q Consensus 886 ~~La~DqyGNYVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~nKfGS~VVEKcL~~~d~~eRk~II~ELl~ 955 (967)
..+...+|=.+|-|.+.- +.-+.+++.|..++.++-.--.=-.||+.=++..+.+.-+.++.++.+
T Consensus 283 ~~~~~~~y~~~vteel~~----~L~~~l~~~l~~~l~~il~rl~l~~~v~eqi~~fs~~~lE~lV~~Is~ 348 (376)
T COG4399 283 ITLITNQYESYVTEELAP----KLVRYLIEDLSSHLAQILKRLDLEELVEEQINTFSLERLEKLVLEISR 348 (376)
T ss_pred hhhhcccHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 344445555555555442 222344444444444333322233344444555566666666666654
No 31
>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=65.39 E-value=1.2e+02 Score=33.97 Aligned_cols=194 Identities=12% Similarity=0.111 Sum_probs=0.0
Q ss_pred HhhhcCCHHHHHHHHHHHH-HHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcC
Q 002096 719 QKLETATTEEKNMVFQEIM-PQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVE 797 (967)
Q Consensus 719 klLE~~S~Eer~~IfeEI~-~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as 797 (967)
+.|-.|++.+.+.|++++. +.+.+=.--++.+.++.---+..-..-...+-..+.+++..| ..-++|++..++...-
T Consensus 42 q~L~~csp~q~e~lc~~L~l~~lsd~~l~~lc~~ll~Ls~dls~~~a~~l~~sl~LpkilsL--~~~ASR~L~sal~~f~ 119 (263)
T PF11510_consen 42 QFLNECSPSQVEMLCSQLQLPQLSDDGLLQLCSSLLALSPDLSHSNATVLLRSLFLPKILSL--EEPASRLLVSALTSFC 119 (263)
T ss_dssp HGGGG--HHHHHHHHHHHTGGG--HHHHHHHHHHHHH-SS---HHHHHHHHHHHHHHHHHH---SS---HHHHHHHHHHH
T ss_pred HHHHhCCHHHHHHHHHHhCcCCCCHHHHHHHHHHHHccCcccchhhHHHHHHHHHHHHHHhc--CCCccHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHhhHHhHhhcccCCCc---hhhhhh--hcCChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhhcC--C
Q 002096 798 LDQQTQMVKELDGHIMRCVRDQNGNH---VIQKCI--ECVPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCH--D 870 (967)
Q Consensus 798 ~eq~~~Lv~EL~g~il~Lv~DqnGNh---VIQkLL--E~~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~cs--d 870 (967)
...-..+++.+...+ |-.-..|+. +|.+++ ++..++.+..++..+. ++.-+..-..|+|.+++... +
T Consensus 120 k~~p~~~~~all~Pl--L~~~~~g~~Q~eLl~rlvk~~~l~p~~~~l~l~~~L----~~~W~E~~~~Vlq~lL~~k~~l~ 193 (263)
T PF11510_consen 120 KKYPRPVCEALLVPL--LQAPGLGPPQCELLCRLVKKECLEPDHRLLLLRQIL----ELVWNEETFLVLQSLLERKVELS 193 (263)
T ss_dssp HHSHHHHHHHHHHHH--HHSTT--HHHHHHHHHHHH-TTS-HHHHHHHHHHHH----HS---HHHHHHHHHHHTT-----
T ss_pred HhCcHHHHHHHHHHH--HcCCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHH----hCcCcHHHHHHHHHHHhcCCCCC
Q ss_pred HHHHHHHHHHHHHHHHHHhcCccHHHHHHHHH----hcCCHHHHHHHHHHHHHH
Q 002096 871 EKTQSIMMDEILQSVCMLAQDQYGNYVVQHVL----EHGKPHERSAIIKKLTGQ 920 (967)
Q Consensus 871 e~~r~~LLdeLle~L~~La~DqyGNYVVQ~IL----e~~~pkeRk~IIk~Lkgn 920 (967)
++....+++.+......++.+.--..++-.+| ....+.+|..+...+..+
T Consensus 194 ~~~~~~l~~~L~~~a~~~skSlkFakLlLtvltKy~~~it~~~~~~L~~~l~~n 247 (263)
T PF11510_consen 194 QELFSLLVELLCEQAPQFSKSLKFAKLLLTVLTKYQSQITEAHKLSLAEALELN 247 (263)
T ss_dssp HHHHHHHHHHHH--------SHHHHHHHHHHHHHTGGG--HHHHHHHHHHH-SS
T ss_pred HHHHHHHHHHHHHhhHhhhcchHHHHHHHHHHHHcchhccHHHHHHHHHHHHhc
No 32
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=64.77 E-value=2.2e+02 Score=37.59 Aligned_cols=80 Identities=16% Similarity=0.205 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHHH-------HHHHHHHHHHhcCccHHHHHHHHHhh---CCHHH
Q 002096 876 IMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAII-------KKLTGQIVQMSQQKFASNVIEKCLSF---GTPAE 945 (967)
Q Consensus 876 ~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~II-------k~LkgnIveLS~nKfGS~VVEKcL~~---~d~~e 945 (967)
.+++.|...-..-+.|.-=.-+|+.++-.+.|-.+.+.+ +.+..++..--.+|---..+.|||+. .|++.
T Consensus 585 ~~Le~i~rkK~a~~lDsr~~~~iENay~~~~PPe~~~~~~k~r~p~~efiR~Li~~dL~k~tvd~~lkllRkl~W~D~e~ 664 (1128)
T KOG2051|consen 585 VFLEQIKRKKRASALDSRQATLIENAYYLCNPPERSKRLSKKRPPMQEFIRYLIRSDLSKDTVDRVLKLLRKLDWSDPEV 664 (1128)
T ss_pred HHHHHHHHHHHHhhhchHHHHHHHHhHHhccChhhcccccccCCcHHHHHHHHHHHHhccccHHHHHHHHHhcccccHHH
Confidence 445555544445666776677888888877655444322 23333333222233333445556554 47777
Q ss_pred HHHHHHHHhc
Q 002096 946 RQALVNEMLG 955 (967)
Q Consensus 946 Rk~II~ELl~ 955 (967)
.+-+|.-|++
T Consensus 665 ~~yli~~~~k 674 (1128)
T KOG2051|consen 665 KQYLISCFSK 674 (1128)
T ss_pred HHHHHHHhhh
Confidence 8888877764
No 33
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=63.06 E-value=3.9e+02 Score=33.48 Aligned_cols=84 Identities=21% Similarity=0.389 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHhhCcccCHHHHHhhhc-------CCHH---HHHHHHHHHH-----------HHHHHhhhccc---cchh
Q 002096 697 LSEIAGHVVEFSADQYGSRFIQQKLET-------ATTE---EKNMVFQEIM-----------PQALSLMTDVF---GNYV 752 (967)
Q Consensus 697 L~eI~G~IveLa~Dq~GSRVLQklLE~-------~S~E---er~~IfeEI~-----------~~lleLmtD~f---GN~V 752 (967)
.-|....++.++..-.|+.+++..+.. -... ..-.|+.+|. +++-.|.+|.+ +.|-
T Consensus 281 ~lE~Ar~v~~~~~~nv~~~~~~~~vs~L~~fL~s~rv~~rFsA~Riln~lam~~P~kv~vcN~evEsLIsd~Nr~IstyA 360 (898)
T COG5240 281 FLEAARAVCALSEENVGSQFVDQTVSSLRTFLKSTRVVLRFSAMRILNQLAMKYPQKVSVCNKEVESLISDENRTISTYA 360 (898)
T ss_pred hHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHhhCCceeeecChhHHHHhhcccccchHHH
Confidence 455666677777777788877765432 1111 1123333332 23556666654 4588
Q ss_pred HhhhhccCCHHHHHHHHHHHHhhHHHhh
Q 002096 753 IQKFFEHGTASQVRELADQLTGHVLTLS 780 (967)
Q Consensus 753 VQKLLE~~s~Eqr~~Iie~L~g~IveLA 780 (967)
|-.+++.++.|....++..|..-+.+++
T Consensus 361 ITtLLKTGt~e~idrLv~~I~sfvhD~S 388 (898)
T COG5240 361 ITTLLKTGTEETIDRLVNLIPSFVHDMS 388 (898)
T ss_pred HHHHHHcCchhhHHHHHHHHHHHHHhhc
Confidence 8888888888888888887766666554
No 34
>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=60.98 E-value=2.9e+02 Score=34.31 Aligned_cols=19 Identities=11% Similarity=0.010 Sum_probs=10.7
Q ss_pred CHHHHHHHHHHHHhhHHHh
Q 002096 761 TASQVRELADQLTGHVLTL 779 (967)
Q Consensus 761 s~Eqr~~Iie~L~g~IveL 779 (967)
++..|+.++..|..++..|
T Consensus 146 de~~Re~~lkFl~~kl~~l 164 (556)
T PF05918_consen 146 DEQVRERALKFLREKLKPL 164 (556)
T ss_dssp -HHHHHHHHHHHHHHGGGS
T ss_pred chHHHHHHHHHHHHHHhhC
Confidence 3445666666666665544
No 35
>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=60.31 E-value=11 Score=47.84 Aligned_cols=41 Identities=15% Similarity=0.203 Sum_probs=31.6
Q ss_pred HHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHh
Q 002096 739 QALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTL 779 (967)
Q Consensus 739 ~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveL 779 (967)
.++.++.-.-|-.+|-++|.+.+.+++..|+..|.-++-.|
T Consensus 576 ~fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l 616 (808)
T PF09770_consen 576 PFISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQL 616 (808)
T ss_dssp HHHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH---
T ss_pred cceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhh
Confidence 46777888889999999999999999888888888887444
No 36
>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=59.83 E-value=2.9e+02 Score=30.94 Aligned_cols=81 Identities=22% Similarity=0.356 Sum_probs=45.0
Q ss_pred CcchhHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHhc-Ccc
Q 002096 854 HPYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHG---KPHERSAIIKKLTGQIVQMSQ-QKF 929 (967)
Q Consensus 854 hkyGSrVIQkILE~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~---~pkeRk~IIk~LkgnIveLS~-nKf 929 (967)
..+=+.+|.++++.|...+..-.++..++.. .++.-+..=--|+|.+|... +++....++..|..+...++. -||
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 4445566677777665444333333333221 11222333345778888765 466677777777777777765 467
Q ss_pred HHHHHH
Q 002096 930 ASNVIE 935 (967)
Q Consensus 930 GS~VVE 935 (967)
|..|+.
T Consensus 211 a~lll~ 216 (254)
T cd07439 211 AKLLLA 216 (254)
T ss_pred HHHHHH
Confidence 755443
No 37
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=57.32 E-value=2.1e+02 Score=35.23 Aligned_cols=26 Identities=31% Similarity=0.584 Sum_probs=19.0
Q ss_pred HHHHHHHhcCC--HHHHHHHHHHHHHHH
Q 002096 896 YVVQHVLEHGK--PHERSAIIKKLTGQI 921 (967)
Q Consensus 896 YVVQ~ILe~~~--pkeRk~IIk~LkgnI 921 (967)
.++-+||++.. ...|+.|++.|+.++
T Consensus 226 ~Ilk~il~~d~k~~~ar~~~i~~lRd~y 253 (711)
T COG1747 226 RILKHILEHDEKDVWARKEIIENLRDKY 253 (711)
T ss_pred HHHHHHhhhcchhhhHHHHHHHHHHHHh
Confidence 46777887754 556889998888844
No 38
>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=55.27 E-value=2.8e+02 Score=33.72 Aligned_cols=53 Identities=17% Similarity=0.273 Sum_probs=26.6
Q ss_pred hhHHHhhhcCcccccchHHHHHHHHHHHh-hCcccCHHHHHhhhcCCHHHHHHH
Q 002096 680 ASSLLDEFKSNKTKCFELSEIAGHVVEFS-ADQYGSRFIQQKLETATTEEKNMV 732 (967)
Q Consensus 680 ~S~lLqef~snk~r~~~L~eI~G~IveLa-~Dq~GSRVLQklLE~~S~Eer~~I 732 (967)
....|+++.....+...|.+++..+.... .+..-..+|=.+|...+.|+...+
T Consensus 5 ~~~~l~~l~~~~~~~~~L~~l~~~~~~~~~l~~~~~~~lf~~L~~~~~e~v~~~ 58 (503)
T PF10508_consen 5 INELLEELSSKAERLEALPELKTELSSSPFLERLPEPVLFDCLNTSNREQVELI 58 (503)
T ss_pred HHHHHHHHhcccchHHHHHHHHHHHhhhhHHHhchHHHHHHHHhhcChHHHHHH
Confidence 46677777776666555666666543322 222222333333444444444333
No 39
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=52.20 E-value=4.4e+02 Score=30.74 Aligned_cols=34 Identities=12% Similarity=0.194 Sum_probs=22.7
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcC
Q 002096 894 GNYVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQ 927 (967)
Q Consensus 894 GNYVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~n 927 (967)
.+.++...|.-..++.|++|++.+..+..+|-+.
T Consensus 263 ~~~~La~aLkg~~~~lrekilsnmskR~~e~i~~ 296 (339)
T COG1536 263 DKEDLAIALKGASEELREKILSNMSKRAAEMLKE 296 (339)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHhccHHHHHHHHH
Confidence 5566666666667777777777776666665443
No 40
>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=51.65 E-value=2.1e+02 Score=33.33 Aligned_cols=43 Identities=26% Similarity=0.428 Sum_probs=23.7
Q ss_pred CcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhcc
Q 002096 710 DQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEH 759 (967)
Q Consensus 710 Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~ 759 (967)
|+..++++.+.|+..+- =--.+.+.+.+.+-++.+++..+++.
T Consensus 56 ~p~~~~L~~qALkll~~-------~l~~~~i~~~l~~d~~~~~i~~~i~~ 98 (372)
T PF12231_consen 56 DPFDSRLVIQALKLLGF-------FLYHPEIVSTLSDDFASFIIDHSIES 98 (372)
T ss_pred CCcchHHHHHHHHHHHH-------HHccHHHHhhCChHHHHHHHHHHHHH
Confidence 45678888877764211 00123455555566666666666654
No 41
>PTZ00429 beta-adaptin; Provisional
Probab=50.09 E-value=2.1e+02 Score=36.81 Aligned_cols=27 Identities=4% Similarity=-0.021 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHhc--CccHHHHHHHHH
Q 002096 912 AIIKKLTGQIVQMSQ--QKFASNVIEKCL 938 (967)
Q Consensus 912 ~IIk~LkgnIveLS~--nKfGS~VVEKcL 938 (967)
.++++|..++-+||. +|-.+.+|..--
T Consensus 574 ~~l~~L~~~~~tlssvY~kp~~~f~~~~~ 602 (746)
T PTZ00429 574 MTMADLKKSLNTAAIVFARPYQSFLPPYG 602 (746)
T ss_pred HHHHHHHHhcCceeeeecCCHHHhcCchh
Confidence 355666666666654 566666555433
No 42
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=49.86 E-value=6.6e+02 Score=34.67 Aligned_cols=35 Identities=11% Similarity=0.097 Sum_probs=20.8
Q ss_pred HHHHhhCcccCHH----HHHhhhcCCHHHHHHHHHHHHH
Q 002096 704 VVEFSADQYGSRF----IQQKLETATTEEKNMVFQEIMP 738 (967)
Q Consensus 704 IveLa~Dq~GSRV----LQklLE~~S~Eer~~IfeEI~~ 738 (967)
...+-.+++.|-+ ++..|+....|.-++|+++..+
T Consensus 1448 erlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~ 1486 (1710)
T KOG1070|consen 1448 ERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALK 1486 (1710)
T ss_pred HHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhh
Confidence 3444556666643 4556666666667777776443
No 43
>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=49.05 E-value=5.1e+02 Score=30.50 Aligned_cols=28 Identities=18% Similarity=0.372 Sum_probs=21.3
Q ss_pred chhhhhhhhhcCHHHHHHHHHHHhhHHh
Q 002096 786 CRVIQKAIEVVELDQQTQMVKELDGHIM 813 (967)
Q Consensus 786 crVLQklLE~as~eq~~~Lv~EL~g~il 813 (967)
++++..++...+.+.+.++++++..-+.
T Consensus 118 ~~l~~~iv~~l~~~~q~~~~~~~~~lf~ 145 (415)
T PF12460_consen 118 SRLINLIVRSLSPEKQQEILDELYSLFL 145 (415)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHc
Confidence 6777888888888888888887765444
No 44
>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=48.90 E-value=3.3e+02 Score=31.74 Aligned_cols=17 Identities=29% Similarity=0.520 Sum_probs=13.3
Q ss_pred HHHHHHHhhCCHHHHHH
Q 002096 932 NVIEKCLSFGTPAERQA 948 (967)
Q Consensus 932 ~VVEKcL~~~d~~eRk~ 948 (967)
.|+|+||+..++..|..
T Consensus 277 ~v~e~cFn~~d~~~k~~ 293 (372)
T PF12231_consen 277 KVPEKCFNSSDPQVKIQ 293 (372)
T ss_pred HHHHHHhcCCCHHHHHH
Confidence 58889999988876654
No 45
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.27 E-value=4.4e+02 Score=32.47 Aligned_cols=165 Identities=17% Similarity=0.219 Sum_probs=83.7
Q ss_pred hhccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCchhhhhh-----hcCChhhHHHHHH-HHHHHHHHhhc
Q 002096 780 SLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCI-----ECVPEDAIQFIVL-TFYDQVVTLST 853 (967)
Q Consensus 780 A~hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLL-----E~~~~e~iq~IId-~L~~~lv~LS~ 853 (967)
+..+...++|-.+....++.--..-+.++.+.+..|+.+..-.-+.-.|- .-.+.+.++.+++ .+..+++++..
T Consensus 210 ~~lRn~tW~LsNlcrgk~P~P~~~~v~~iLp~L~~ll~~~D~~Vl~Da~WAlsyLsdg~ne~iq~vi~~gvv~~LV~lL~ 289 (514)
T KOG0166|consen 210 SMLRNATWTLSNLCRGKNPSPPFDVVAPILPALLRLLHSTDEEVLTDACWALSYLTDGSNEKIQMVIDAGVVPRLVDLLG 289 (514)
T ss_pred HHHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCChHHHHHHHHccchHHHHHHHc
Confidence 34444555555555544332222334445555566665554433322221 1235566666665 46677777777
Q ss_pred CcchhHH---HHHHHh--hcCCHHHHHHHHHHHHHHHHHHhcCcc-------HHHHHHHHHhcCCHHHHHHHHHH-HHHH
Q 002096 854 HPYGCRV---IQRVLE--HCHDEKTQSIMMDEILQSVCMLAQDQY-------GNYVVQHVLEHGKPHERSAIIKK-LTGQ 920 (967)
Q Consensus 854 hkyGSrV---IQkILE--~csde~~r~~LLdeLle~L~~La~Dqy-------GNYVVQ~ILe~~~pkeRk~IIk~-Lkgn 920 (967)
|.-+.-+ +..+-. .+++..++..|-.-.+..+..|....+ ..++|-.|-. +..++...+++. |.+.
T Consensus 290 ~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~~~L~~l~~ll~~s~~~~ikkEAcW~iSNItA-G~~~qiqaVida~l~p~ 368 (514)
T KOG0166|consen 290 HSSPKVVTPALRAIGNIVTGSDEQTQVVINSGALPVLSNLLSSSPKESIKKEACWTISNITA-GNQEQIQAVIDANLIPV 368 (514)
T ss_pred CCCcccccHHHhhccceeeccHHHHHHHHhcChHHHHHHHhccCcchhHHHHHHHHHHHhhc-CCHHHHHHHHHcccHHH
Confidence 7655433 222222 233444443444455666777766433 3334444333 556677777776 6666
Q ss_pred HHHHhc------CccHHHHHHHHHhhCCHHH
Q 002096 921 IVQMSQ------QKFASNVIEKCLSFGTPAE 945 (967)
Q Consensus 921 IveLS~------nKfGS~VVEKcL~~~d~~e 945 (967)
++.+.+ .|=+..+|-.+..-+++++
T Consensus 369 Li~~l~~~ef~~rKEAawaIsN~ts~g~~~q 399 (514)
T KOG0166|consen 369 LINLLQTAEFDIRKEAAWAISNLTSSGTPEQ 399 (514)
T ss_pred HHHHHhccchHHHHHHHHHHHhhcccCCHHH
Confidence 665532 2334555555555556554
No 46
>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=46.83 E-value=5.2e+02 Score=29.95 Aligned_cols=84 Identities=12% Similarity=0.197 Sum_probs=43.7
Q ss_pred CHHHHHhhhcC-CHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhh
Q 002096 714 SRFIQQKLETA-TTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKA 792 (967)
Q Consensus 714 SRVLQklLE~~-S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQkl 792 (967)
-.+++++|+.+ .++....|++++.+.. -....++ .++..++++...++..=.+++..+.+.+-+...--++
T Consensus 79 ~~~~~~~L~~alg~~~a~~il~~i~~~~-------~~~~~~~-~L~~~~~~~la~~l~~EhPQ~iAliLs~L~p~~AA~V 150 (338)
T TIGR00207 79 LDYAREVLEKALGEEKAASILNDLTSSL-------QTAPGFE-FLRKAEPQQIADFIQQEHPQTIALILSHLDPAQAADI 150 (338)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHhccc-------ccCchhH-HHHCCCHHHHHHHHHccCHHHHHHHHHcCCHHHHHHH
Confidence 45678887764 4556666766654421 1121333 4444556665555555455555555555444444455
Q ss_pred hhhcCHHHHHHHH
Q 002096 793 IEVVELDQQTQMV 805 (967)
Q Consensus 793 LE~as~eq~~~Lv 805 (967)
|...+++.+..++
T Consensus 151 L~~Lp~~~~~ei~ 163 (338)
T TIGR00207 151 LSLFPEEVQAEVA 163 (338)
T ss_pred HHhCCHHHHHHHH
Confidence 5555555554444
No 47
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=45.94 E-value=2.1e+02 Score=35.48 Aligned_cols=11 Identities=45% Similarity=0.936 Sum_probs=5.0
Q ss_pred HHHHHHHhhcC
Q 002096 859 RVIQRVLEHCH 869 (967)
Q Consensus 859 rVIQkILE~cs 869 (967)
++|-.++-+|.
T Consensus 165 ylind~~~hcq 175 (757)
T KOG4368|consen 165 YLINDVLHHCQ 175 (757)
T ss_pred HHHHHHHHHHH
Confidence 33444444553
No 48
>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=45.64 E-value=4.8e+02 Score=29.26 Aligned_cols=42 Identities=12% Similarity=0.120 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHhhCccc----CHHHHHhhhcCCHHHHHHHHHHHHH
Q 002096 697 LSEIAGHVVEFSADQYG----SRFIQQKLETATTEEKNMVFQEIMP 738 (967)
Q Consensus 697 L~eI~G~IveLa~Dq~G----SRVLQklLE~~S~Eer~~IfeEI~~ 738 (967)
+++...++.+++....+ +-..=++|+.+++++.+.++.++..
T Consensus 7 i~~~~~~ikeLl~~~~~~~~~~~~~L~~l~~~~~~~~~~lc~~L~~ 52 (254)
T cd07439 7 IQEVLEDIKELLLQEGEWLPSSPDELQFLHSCSPSQMEVLCSQLQL 52 (254)
T ss_pred HHHHHHHHHHHHHhhccCcCChHHHHHHHccCCHHHHHHHHHHhcc
Confidence 44555566667665554 5555568888999888888887653
No 49
>PF01603 B56: Protein phosphatase 2A regulatory B subunit (B56 family); InterPro: IPR002554 Protein phosphatase 2A (PP2A) is a major intracellular protein phosphatase that regulates multiple aspects of cell growth and metabolism. The ability of this widely distributed heterotrimeric enzyme to act on a diverse array of substrates is largely controlled by the nature of its regulatory B subunit. There are multiple families of B subunits, this family is called the B56 family [].; GO: 0008601 protein phosphatase type 2A regulator activity, 0007165 signal transduction, 0000159 protein phosphatase type 2A complex; PDB: 2NYM_B 2NYL_B 2IAE_E 2NPP_B 3FGA_B 2JAK_A.
Probab=44.76 E-value=6e+02 Score=30.12 Aligned_cols=14 Identities=43% Similarity=0.726 Sum_probs=5.3
Q ss_pred ChhhhhHHHhhhcC
Q 002096 676 DESFASSLLDEFKS 689 (967)
Q Consensus 676 ~d~~~S~lLqef~s 689 (967)
+..|..++++-|.+
T Consensus 131 ~~~fi~~Ll~l~~S 144 (409)
T PF01603_consen 131 DQKFIKKLLELFDS 144 (409)
T ss_dssp -HHHHHHHHHTTTS
T ss_pred CHHHHHHHHHHcCC
Confidence 33444444443333
No 50
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=42.67 E-value=6e+02 Score=29.56 Aligned_cols=26 Identities=12% Similarity=0.339 Sum_probs=17.7
Q ss_pred ccCHHHHHhhhcCCHHHHHHHHHHHH
Q 002096 712 YGSRFIQQKLETATTEEKNMVFQEIM 737 (967)
Q Consensus 712 ~GSRVLQklLE~~S~Eer~~IfeEI~ 737 (967)
|--+||+.+++....+.|+.-++.+.
T Consensus 198 YF~kvisal~dEs~~~~r~aAl~sLr 223 (450)
T COG5095 198 YFDKVISALLDESDEQTRDAALESLR 223 (450)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 44478888888777777766665444
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=41.91 E-value=2.4e+02 Score=31.81 Aligned_cols=46 Identities=13% Similarity=0.318 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHhcCccHHHHHHHHHhh-----------CCHHHHHHHHHHHhcC
Q 002096 911 SAIIKKLTGQIVQMSQQKFASNVIEKCLSF-----------GTPAERQALVNEMLGS 956 (967)
Q Consensus 911 k~IIk~LkgnIveLS~nKfGS~VVEKcL~~-----------~d~~eRk~II~ELl~~ 956 (967)
.++++.+...+..|+.+..+...+.+|+-. .++..-+..+.+|+.+
T Consensus 203 ~RLLKhIIrCYlRLsdnprar~aL~~~LP~~Lrd~~f~~~l~~D~~~k~~l~qLl~n 259 (262)
T PF04078_consen 203 PRLLKHIIRCYLRLSDNPRAREALRQCLPDQLRDGTFSNILKDDPSTKRWLQQLLSN 259 (262)
T ss_dssp HHHHHHHHHHHHHHTTSTTHHHHHHHHS-GGGTSSTTTTGGCS-HHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHccCHHHHHHHHHhCcHHHhcHHHHHHHhcCHHHHHHHHHHHHH
Confidence 378888888888899999998888888742 1244455555566544
No 52
>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=41.60 E-value=7.3e+02 Score=30.18 Aligned_cols=13 Identities=23% Similarity=0.227 Sum_probs=7.4
Q ss_pred HHHHHHhcCccHH
Q 002096 883 QSVCMLAQDQYGN 895 (967)
Q Consensus 883 e~L~~La~DqyGN 895 (967)
+-+.+|+..+.|.
T Consensus 224 ell~~La~~~~g~ 236 (503)
T PF10508_consen 224 ELLSELAETPHGL 236 (503)
T ss_pred HHHHHHHcChhHH
Confidence 3455566666664
No 53
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=41.03 E-value=1.7e+02 Score=32.06 Aligned_cols=72 Identities=22% Similarity=0.293 Sum_probs=34.6
Q ss_pred HHHHHHhhcCcchhHHHHHH-----HhhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHHHHHH
Q 002096 845 YDQVVTLSTHPYGCRVIQRV-----LEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAIIKKL 917 (967)
Q Consensus 845 ~~~lv~LS~hkyGSrVIQkI-----LE~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~IIk~L 917 (967)
..-+-.|+.++.|=.++++. |.+..+...+..++..|+.++ ....|...--+++++|..+..+.|....+.|
T Consensus 144 f~~IG~lS~~~~Gl~lLe~~~if~~l~~i~~~~~~~~l~klil~~L-DY~~~~~~R~iLsKaLt~~s~~iRl~aT~~L 220 (226)
T PF14666_consen 144 FLFIGVLSSTPNGLKLLERWNIFTMLYHIFSLSSRDDLLKLILSSL-DYSVDGHPRIILSKALTSGSESIRLYATKHL 220 (226)
T ss_pred HHHHHHHhCChhHHHHHHHCCHHHHHHHHHccCchHHHHHHHHhhC-CCCCccHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 33444678888887666641 111111111234444444433 3334444555666666666655554444333
No 54
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=39.33 E-value=4.8e+02 Score=35.04 Aligned_cols=65 Identities=8% Similarity=0.143 Sum_probs=32.2
Q ss_pred cCHHHHHhhhc-----CCHHHHHHHHHHHHHHHHHhhhc-ccc-chhHhhhhccCCHHHHHHHHHHHHhhHH
Q 002096 713 GSRFIQQKLET-----ATTEEKNMVFQEIMPQALSLMTD-VFG-NYVIQKFFEHGTASQVRELADQLTGHVL 777 (967)
Q Consensus 713 GSRVLQklLE~-----~S~Eer~~IfeEI~~~lleLmtD-~fG-N~VVQKLLE~~s~Eqr~~Iie~L~g~Iv 777 (967)
+.|+|..++.. ........|++.+.+-+-..+.- +.+ -.++..+++..+.+....+...|.+-++
T Consensus 674 ~yrlL~~l~~~~s~~~~~~q~i~~I~n~L~ds~qs~~~~~~~~rl~~L~~L~~~~~~e~~~~i~k~I~EvIL 745 (1176)
T KOG1248|consen 674 AYRLLEELSSSPSGEGLVEQRIDDIFNSLLDSFQSSSSPAQASRLKCLKRLLKLLSAEHCDLIPKLIPEVIL 745 (1176)
T ss_pred HHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHH
Confidence 44555555555 22334455555555544433321 111 1455666676666665555555544443
No 55
>PLN03218 maturation of RBCL 1; Provisional
Probab=39.19 E-value=1.8e+02 Score=38.68 Aligned_cols=58 Identities=12% Similarity=0.084 Sum_probs=29.2
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCc-cHHHHHHHHHhhCCHHHHHHHHHHHhc
Q 002096 896 YVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQK-FASNVIEKCLSFGTPAERQALVNEMLG 955 (967)
Q Consensus 896 YVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~nK-fGS~VVEKcL~~~d~~eRk~II~ELl~ 955 (967)
.+|..+...+..+.-.++++.++..- +.-+. .-+.+|..|.+.+..++-..++++|..
T Consensus 654 sLI~a~~k~G~~eeA~~l~~eM~k~G--~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~ 712 (1060)
T PLN03218 654 ALVDVAGHAGDLDKAFEILQDARKQG--IKLGTVSYSSLMGACSNAKNWKKALELYEDIKS 712 (1060)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 34444444444444444544443211 11111 224455566666777777778877764
No 56
>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p [].
Probab=38.61 E-value=4.5e+02 Score=29.36 Aligned_cols=83 Identities=16% Similarity=0.219 Sum_probs=42.8
Q ss_pred cCCHHHHHHHHHHHHHHHHHhhhcc------ccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhcccc-chhhhhhhh-
Q 002096 723 TATTEEKNMVFQEIMPQALSLMTDV------FGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYG-CRVIQKAIE- 794 (967)
Q Consensus 723 ~~S~Eer~~IfeEI~~~lleLmtD~------fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyG-crVLQklLE- 794 (967)
..+.......+.-|.|-++.|+-|. -|..+++.+++.+.... . .....+| ..|++.++.
T Consensus 107 ~~~~~~i~~~~~liiP~iL~llDD~~~~~K~~G~~lL~~ll~~~~~~~----~---------~~L~~tGl~~v~~~al~~ 173 (282)
T PF10521_consen 107 QLDRPWISQHWPLIIPPILNLLDDYSPEIKIQGCQLLHHLLEKVPAAE----W---------DILRRTGLFSVFEDALFP 173 (282)
T ss_pred cCCcchHHHhhhHHHhhHHHHhcCCCHHHHHHHHHHHHHHHHhCChhh----h---------HHHHHcChHHHHHHHHHH
Confidence 3334445555666666666666553 35666677777665544 0 0111122 233333332
Q ss_pred ---hc----CHHHHHHHHHHHhhHHhHhhcc
Q 002096 795 ---VV----ELDQQTQMVKELDGHIMRCVRD 818 (967)
Q Consensus 795 ---~a----s~eq~~~Lv~EL~g~il~Lv~D 818 (967)
+. +.++-..++......+..|+.-
T Consensus 174 ~L~~LP~~tp~~~s~~Ll~~ay~~L~~L~~~ 204 (282)
T PF10521_consen 174 CLYYLPPITPEDESLELLQAAYPALLSLLKT 204 (282)
T ss_pred HhhcCCCCCCchhhHHHHHHHHHHHHHHHHh
Confidence 11 1255566777777777777553
No 57
>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=37.93 E-value=1.5e+02 Score=29.97 Aligned_cols=17 Identities=24% Similarity=0.350 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHhcC
Q 002096 875 SIMMDEILQSVCMLAQD 891 (967)
Q Consensus 875 ~~LLdeLle~L~~La~D 891 (967)
...+++++..+...+..
T Consensus 169 ~~~l~~~~~~~~~~~~~ 185 (209)
T PF02854_consen 169 PKALDEIFERLQKYANS 185 (209)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHh
Confidence 34556666654444433
No 58
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=37.05 E-value=3.6e+02 Score=34.94 Aligned_cols=64 Identities=20% Similarity=0.202 Sum_probs=38.2
Q ss_pred hhHHHHHHHhhcCCHHHHHHHHHHHHHHHH----HHhcCccHHHHHHHHHhcCCHH----HHHHHHHHHHHH
Q 002096 857 GCRVIQRVLEHCHDEKTQSIMMDEILQSVC----MLAQDQYGNYVVQHVLEHGKPH----ERSAIIKKLTGQ 920 (967)
Q Consensus 857 GSrVIQkILE~csde~~r~~LLdeLle~L~----~La~DqyGNYVVQ~ILe~~~pk----eRk~IIk~Lkgn 920 (967)
--|+++.+|+..........-+.-++..+. .=+.|++|=|.+++++++-++. ..+.|...|..+
T Consensus 700 lvrLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka~Dh~GF~LLn~i~~~~~~~~~~py~k~i~~llf~R 771 (960)
T KOG1992|consen 700 LVRLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKANDHHGFYLLNTIIESIPPNELAPYMKQIFGLLFQR 771 (960)
T ss_pred HHHHHHHHHhcCchhhcccccchhHHHHHHHHhcCcccchhHHHHHHHHHhcCCHhhhhHHHHHHHHHHHHH
Confidence 346778888765433221122334444433 3467999999999999998755 344554444433
No 59
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=35.22 E-value=1.2e+03 Score=30.69 Aligned_cols=251 Identities=16% Similarity=0.178 Sum_probs=0.0
Q ss_pred HHHHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhc-cccchhHhhhhccCCHHHHHHH--HHHHHhhHH
Q 002096 701 AGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTD-VFGNYVIQKFFEHGTASQVREL--ADQLTGHVL 777 (967)
Q Consensus 701 ~G~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD-~fGN~VVQKLLE~~s~Eqr~~I--ie~L~g~Iv 777 (967)
.+.++++-+.+.+-..|+..|....-..-+.+++-|+=.+++||.| +-|...=.-++.|-.-.|..-+ ++.+..|++
T Consensus 15 AdElI~VGkkq~ALqsLhd~i~~kr~r~~q~~~EpIMfKyleLCVdLkKg~lAKdGL~QYk~~~Qqvnv~SlE~Vvrhfl 94 (988)
T KOG2072|consen 15 ADELIEVGKKQDALQSLHDTITAKRHRWWQTVLEPIMFKYLELCVDLKKGHLAKDGLFQYKNLCQQVNVKSLENVVRHFL 94 (988)
T ss_pred HHHHHHcCCccHHHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhchHhHHHHHHHHH
Q ss_pred Hhhhcccc-----chhhhhhhhhcCH------------------------------------HHHHHHHHHHh-hHHhHh
Q 002096 778 TLSLQMYG-----CRVIQKAIEVVEL------------------------------------DQQTQMVKELD-GHIMRC 815 (967)
Q Consensus 778 eLA~hkyG-----crVLQklLE~as~------------------------------------eq~~~Lv~EL~-g~il~L 815 (967)
+|+..+.- +--+|+++++-+. +.....++-|+ ..-++.
T Consensus 95 klAe~kte~Aq~qad~l~~ve~vdDLe~~~tPEslllSvVsGe~sqdR~DR~lltPWlkFLWeSYR~vLdlLRNNa~lE~ 174 (988)
T KOG2072|consen 95 KLAEEKTEAAQEQADELQKVEEVDDLEAGVTPESLLLSVVSGEDSQDRSDRELLTPWLKFLWESYRTVLDLLRNNARLEA 174 (988)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhccccccCCChHHHHHHHhcccccccccchHHHHHHHHHHHHHHHHHHHHHhhhHHHHH
Q ss_pred hcccCCCchhhhhhhcCChhhHHHHHHHHHHHHHHhhcCcchh--------HHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Q 002096 816 VRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLSTHPYGC--------RVIQRVLEHCHDEKTQSIMMDEILQSVCM 887 (967)
Q Consensus 816 v~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS~hkyGS--------rVIQkILE~csde~~r~~LLdeLle~L~~ 887 (967)
+-+-.+++..|-|+..-.......+++.+..|+..++.|.+.+ -.+|.+|+.. -......|-=+|-.....
T Consensus 175 lY~~ia~~aFqFCLkYqRktEFRrLCe~LR~HL~~i~k~~nq~~~v~Ln~~Etlql~LDtR-f~QLdvAi~lELWQEAyr 253 (988)
T KOG2072|consen 175 LYHDIARKAFQFCLKYQRKTEFRRLCELLRMHLDNINKHQNQSTRVDLNDPETLQLYLDTR-FQQLDVAIELELWQEAYR 253 (988)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhccCcCCCCCCHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Q ss_pred HhcCccHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhh-------CCHHHHHHHHHHHh
Q 002096 888 LAQDQYGNYVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQKFASNVIEKCLSF-------GTPAERQALVNEML 954 (967)
Q Consensus 888 La~DqyGNYVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~nKfGS~VVEKcL~~-------~d~~eRk~II~ELl 954 (967)
-+-|-||-.-+-+ ....|..----+++|..-+..-...-|-....-|+|.. .+.++.+.+...++
T Consensus 254 SiEDIhgLm~lSK--rtPkp~~laNYY~KL~~VF~~sgn~LfHAaAw~k~f~l~k~~~K~~Tqde~q~~as~Vl 325 (988)
T KOG2072|consen 254 SIEDIHGLMKLSK--RTPKPSTLANYYEKLAKVFWKSGNPLFHAAAWLKLFKLYKNMNKNLTQDELQRMASRVL 325 (988)
T ss_pred HHHHHHHHHHHhc--CCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHH
No 60
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=34.47 E-value=3.8e+02 Score=32.21 Aligned_cols=48 Identities=19% Similarity=0.332 Sum_probs=24.8
Q ss_pred hhhhhhhcCChhh-----HHHHHHHHHHHHHHhhcCcchhHHHHHHHhhcCCH
Q 002096 824 VIQKCIECVPEDA-----IQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDE 871 (967)
Q Consensus 824 VIQkLLE~~~~e~-----iq~IId~L~~~lv~LS~hkyGSrVIQkILE~csde 871 (967)
+++..|++.+... .+.|+..|..-+..=+.+.+|-.+++.+++++..+
T Consensus 182 LL~a~i~k~~~~i~~~~~l~~iLgvFQkLi~sk~~D~~gF~LL~~iv~~~p~~ 234 (435)
T PF03378_consen 182 LLQAYIKKDPSFIVANNQLEPILGVFQKLIASKANDHYGFDLLESIVENLPPE 234 (435)
T ss_dssp HHHHHHHHHGGG----S-CHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHS-HH
T ss_pred HHHHHHHhCchhhcchhhHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHCCHH
Confidence 4555555543322 23333333332333345558888888888888643
No 61
>KOG2027 consensus Spindle pole body protein [Cytoskeleton]
Probab=33.92 E-value=2.4e+02 Score=33.46 Aligned_cols=20 Identities=25% Similarity=0.358 Sum_probs=11.7
Q ss_pred HHHHhcCccHHHHHHHHHhc
Q 002096 885 VCMLAQDQYGNYVVQHVLEH 904 (967)
Q Consensus 885 L~~La~DqyGNYVVQ~ILe~ 904 (967)
|..+...+||...+..+++.
T Consensus 103 i~~~f~~kYGk~f~~~a~~l 122 (388)
T KOG2027|consen 103 IRDLFVKKYGKEFVKAAIEL 122 (388)
T ss_pred HHHHHHHHHhHHHHHHHHhc
Confidence 34455566666666666554
No 62
>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=33.54 E-value=1.6e+02 Score=36.30 Aligned_cols=70 Identities=6% Similarity=0.063 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHh--hhccccchhhhhhhhhcC
Q 002096 726 TEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTL--SLQMYGCRVIQKAIEVVE 797 (967)
Q Consensus 726 ~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveL--A~hkyGcrVLQklLE~as 797 (967)
..+...+++++..++..|-.+ .+.+|+.++..--...-..+++.+..-+..| +.-.|-..|+.++++...
T Consensus 50 ~~~l~~~L~~L~~~Vs~Ld~~--~~~LV~ail~~~W~~~~~~~v~~y~~Fl~~Lvsa~~~yl~~vl~~LV~~f~ 121 (563)
T PF05327_consen 50 VSQLIRWLKALSSCVSLLDSS--CKQLVEAILSLNWLGRDEDFVEAYIQFLINLVSAQPKYLSPVLSMLVKNFI 121 (563)
T ss_dssp HHHHHHHHHHHHHGGGGG-SC--CHHHHHHHHT-TGGGS-HHHHHHHHHHHHHHHHH-GGGHHHHHHHHHHGGG
T ss_pred HHHHHHHHHHHHHHHHHhhhH--HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcc
Confidence 356777778888776666554 7788888887632122233344444433343 345677777888887543
No 63
>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=33.53 E-value=2.7e+02 Score=33.26 Aligned_cols=14 Identities=14% Similarity=0.318 Sum_probs=7.0
Q ss_pred hhhhhhhhcCHHHH
Q 002096 788 VIQKAIEVVELDQQ 801 (967)
Q Consensus 788 VLQklLE~as~eq~ 801 (967)
..++++...+++++
T Consensus 106 ~~~~lL~~l~~~er 119 (449)
T TIGR00400 106 VVQQLLASSTEEER 119 (449)
T ss_pred HHHHHHHcCCHHHH
Confidence 34445555555544
No 64
>KOG2562 consensus Protein phosphatase 2 regulatory subunit [RNA processing and modification]
Probab=33.02 E-value=4.7e+02 Score=31.84 Aligned_cols=82 Identities=16% Similarity=0.266 Sum_probs=50.6
Q ss_pred hccccchhhhhhhhhcCHH------HHHHHHHHHhhHHhHhhcccCCCchhhhhhhcCChhhHHHHHHHHH---------
Q 002096 781 LQMYGCRVIQKAIEVVELD------QQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFY--------- 845 (967)
Q Consensus 781 ~hkyGcrVLQklLE~as~e------q~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e~iq~IId~L~--------- 845 (967)
..+|.+.|+|+++-.++.. .+..+...|...+.+|..+..-|+++ +.+.-++...|+..++
T Consensus 219 ~~~Y~~tvi~rIFy~~nrs~tG~iti~el~~snll~~l~~l~eEed~nq~~----~~FS~e~f~viy~kFweLD~Dhd~l 294 (493)
T KOG2562|consen 219 QERYAETVIQRIFYYLNRSRTGRITIQELLRSNLLDALLELDEEEDINQVT----RYFSYEHFYVIYCKFWELDTDHDGL 294 (493)
T ss_pred HHHHHHHHhhhhheeeCCccCCceeHHHHHHhHHHHHHHHHHHHhhhhhhh----hheeHHHHHHHHHHHhhhccccccc
Confidence 3578889999988765432 22223333555566666666444443 3445555566666554
Q ss_pred ---HHHHHhhcCcchhHHHHHHHh
Q 002096 846 ---DQVVTLSTHPYGCRVIQRVLE 866 (967)
Q Consensus 846 ---~~lv~LS~hkyGSrVIQkILE 866 (967)
.++...+.|..-.++|.+|+.
T Consensus 295 idk~~L~ry~d~tlt~~ivdRIFs 318 (493)
T KOG2562|consen 295 IDKEDLKRYGDHTLTERIVDRIFS 318 (493)
T ss_pred cCHHHHHHHhccchhhHHHHHHHh
Confidence 356666777777888889988
No 65
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=31.48 E-value=1.1e+03 Score=29.39 Aligned_cols=59 Identities=10% Similarity=0.152 Sum_probs=38.0
Q ss_pred HHHHHHHHHhhHHHhhhccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCc
Q 002096 765 VRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNH 823 (967)
Q Consensus 765 r~~Iie~L~g~IveLA~hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNh 823 (967)
+..|+.....-+..++.+.----++-+++.......+.+|++.|...++..-....+-+
T Consensus 45 k~si~~lyisg~~~~s~~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~ 103 (711)
T COG1747 45 KNSIIALYISGIISLSKQLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALL 103 (711)
T ss_pred hhhhHHHHHHHHHHhhhccccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHH
Confidence 45555555555666666666656666777777777777777777776666665554433
No 66
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.96 E-value=9.7e+02 Score=30.95 Aligned_cols=37 Identities=16% Similarity=0.258 Sum_probs=16.0
Q ss_pred CHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcC
Q 002096 761 TASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVE 797 (967)
Q Consensus 761 s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as 797 (967)
+++...+|+..|..|+..---..|--..+-++|+.|+
T Consensus 365 skkNl~eIVk~LM~~~~~ae~t~yrdell~~II~iCS 401 (877)
T KOG1059|consen 365 SKKNLMEIVKTLMKHVEKAEGTNYRDELLTRIISICS 401 (877)
T ss_pred hhhhHHHHHHHHHHHHHhccchhHHHHHHHHHHHHhh
Confidence 3444444555554444433323333344444444443
No 67
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=30.76 E-value=2.1e+02 Score=37.09 Aligned_cols=19 Identities=16% Similarity=0.272 Sum_probs=8.9
Q ss_pred CHHHHHHHHHHHHHHHHHH
Q 002096 906 KPHERSAIIKKLTGQIVQM 924 (967)
Q Consensus 906 ~pkeRk~IIk~LkgnIveL 924 (967)
+.....++++.|..-+..|
T Consensus 327 s~~~L~r~ie~l~ea~~~l 345 (824)
T PRK07764 327 GPAELTRAADVVNDGLTEM 345 (824)
T ss_pred CHHHHHHHHHHHHHHHHHH
Confidence 3444445555554444333
No 68
>PF08568 Kinetochor_Ybp2: Uncharacterised protein family, YAP/Alf4/glomulin; InterPro: IPR013877 This is a family of proteins integrally involved in the central kinetochore. In baker's yeast the protein seems to be part of a macromolecular kinetochore complex and appears to contribute to the proper associations among the central kinetochore sub-complexes and the kinetochore-specific nucleosome. The family is localised in such a way as to bridge the COMA and Ndc80 complexes onto the centromeric nucleosome []. This family also includes aberrant root formation protein 4 and glomulin. Aberrant root formation protein 4 (Alf4) of Arabidopsis thaliana (Mouse-ear cress) is required for the initiation of lateral roots independent from auxin signalling. It may also function in maintaining the pericycle in the mitotically competent state needed for lateral root formation []. Glomulin (FAP68) is essential for normal development of the vasculature and may represent a naturally occurring ligand of the immunophilins FKBP59 and FKBP12 [, ].
Probab=30.63 E-value=7.2e+02 Score=31.11 Aligned_cols=55 Identities=16% Similarity=0.311 Sum_probs=36.9
Q ss_pred CChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhhcCCHHHHHHHHHHHHHHHH
Q 002096 832 VPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQSVC 886 (967)
Q Consensus 832 ~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~csde~~r~~LLdeLle~L~ 886 (967)
++....+.+.-.+...+....-..-...+|..+|+.|.-+..+..++..+++.+.
T Consensus 453 ~p~~~lR~~~~~ll~~iL~~~p~~~rf~~i~dlLe~c~~~~~k~~~I~~lKd~i~ 507 (633)
T PF08568_consen 453 CPSPELRKIAFTLLTRILHLFPEETRFKFIRDLLENCPFESLKASAIGWLKDEIL 507 (633)
T ss_pred CCCHHHHHHHHHHHHHHHHHCCcHhHHHHHHHHHhcCCCHhHHHHHHHHHHHHHH
Confidence 3444455555566666666666666777888888888877777777776666543
No 69
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=30.37 E-value=1.1e+03 Score=28.89 Aligned_cols=87 Identities=18% Similarity=0.239 Sum_probs=49.6
Q ss_pred hcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccC---------CHHHHHHHHHHHHhhHHHhhhccccchhhhhh
Q 002096 722 ETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHG---------TASQVRELADQLTGHVLTLSLQMYGCRVIQKA 792 (967)
Q Consensus 722 E~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~---------s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQkl 792 (967)
-.+.++++.+++.++...+.+=|.|..+ +|..=.+. ..+..+++|..++.++.+|-.-.|-.-- -.+
T Consensus 98 vea~p~er~~LLrdLedFAF~Gcpd~~~---lq~~~s~~~~~~~~lekq~e~qkeLi~QLk~Ql~dLE~~AYe~Ge-g~L 173 (621)
T KOG3759|consen 98 VEADPSERLKLLRDLEDFAFKGCPDMNE---LQRLRSESESGNDVLEKQNERQKELIKQLKEQLEDLERTAYENGE-GEL 173 (621)
T ss_pred HcCCHHHHHHHHHHHHHHHhcCCCcccc---cccccccccccchhhhhhcchHHHHHHHHHHHHHHHHHHHHhcCC-CcC
Confidence 4578899999999999988888887542 12211110 1234578888898888877543321100 000
Q ss_pred hhhcCHHHHHHHHHHHhhHH
Q 002096 793 IEVVELDQQTQMVKELDGHI 812 (967)
Q Consensus 793 LE~as~eq~~~Lv~EL~g~i 812 (967)
=...-.+.+..|++||+..+
T Consensus 174 Pq~viLekQk~ilDeLr~Kl 193 (621)
T KOG3759|consen 174 PQTVILEKQKAILDELREKL 193 (621)
T ss_pred chHHHHHHHHHHHHHHHHHh
Confidence 01111344556777776553
No 70
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=30.36 E-value=6.3e+02 Score=34.89 Aligned_cols=75 Identities=15% Similarity=0.099 Sum_probs=36.6
Q ss_pred cCcccccchHHHHHHHHHHHhhCcccCHHHHHhhhcC---CHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCH
Q 002096 688 KSNKTKCFELSEIAGHVVEFSADQYGSRFIQQKLETA---TTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTA 762 (967)
Q Consensus 688 ~snk~r~~~L~eI~G~IveLa~Dq~GSRVLQklLE~~---S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~ 762 (967)
.++.--.+.|-+...+.++++-=.-+-.+-++.|..- ..+|+..|+-.+..-....=++----.|++++..+|++
T Consensus 1452 rssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~ 1529 (1710)
T KOG1070|consen 1452 RSSPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDA 1529 (1710)
T ss_pred hcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcch
Confidence 3333344555555555555544333444556666665 45677777766554322211111112455555556653
No 71
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=30.08 E-value=1.2e+03 Score=29.43 Aligned_cols=38 Identities=18% Similarity=0.203 Sum_probs=20.3
Q ss_pred HHhHhhcccCC---CchhhhhhhcCChhhHHHHHHHHHHHH
Q 002096 811 HIMRCVRDQNG---NHVIQKCIECVPEDAIQFIVLTFYDQV 848 (967)
Q Consensus 811 ~il~Lv~DqnG---NhVIQkLLE~~~~e~iq~IId~L~~~l 848 (967)
.+..|+.|.|- .|-|..+++.+.++.+..++..+..-+
T Consensus 344 evEsLIsd~Nr~IstyAITtLLKTGt~e~idrLv~~I~sfv 384 (898)
T COG5240 344 EVESLISDENRTISTYAITTLLKTGTEETIDRLVNLIPSFV 384 (898)
T ss_pred hHHHHhhcccccchHHHHHHHHHcCchhhHHHHHHHHHHHH
Confidence 34445555443 355666666666666655555444333
No 72
>COG2733 Predicted membrane protein [Function unknown]
Probab=28.14 E-value=6.4e+02 Score=30.19 Aligned_cols=168 Identities=14% Similarity=0.102 Sum_probs=0.0
Q ss_pred ccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCchhhhhhhcCChhhH-HHHHHHHHHHHHHhhcCcchh--
Q 002096 782 QMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAI-QFIVLTFYDQVVTLSTHPYGC-- 858 (967)
Q Consensus 782 hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e~i-q~IId~L~~~lv~LS~hkyGS-- 858 (967)
+..+-++++-+.+....-....+-.-++..+.+-+...+-.-..-+++++...+.+ +.|++.+.+.+........-.
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 --HHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHH
Q 002096 859 --RVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQKFASNVIEK 936 (967)
Q Consensus 859 --rVIQkILE~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~nKfGS~VVEK 936 (967)
.+|.+.++...+-.....+++.+.+.. ...-++-.++.++...+-+.|+...+.+.+-+..|-.++-=-.=+|+
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 HHhhC-CHHHHHHHHHHH
Q 002096 937 CLSFG-TPAERQALVNEM 953 (967)
Q Consensus 937 cL~~~-d~~eRk~II~EL 953 (967)
+..+. ..+.....+.+|
T Consensus 281 iK~~~~~~~~i~~~~~~~ 298 (415)
T COG2733 281 IKSYLKEDEAIATAAGDM 298 (415)
T ss_pred HHHHHhcChHHHHHHHHH
No 73
>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=28.05 E-value=6.4e+02 Score=29.86 Aligned_cols=221 Identities=11% Similarity=0.130 Sum_probs=0.0
Q ss_pred cCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhh
Q 002096 713 GSRFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKA 792 (967)
Q Consensus 713 GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQkl 792 (967)
+..++..+ .++++....++..+...+..+. ...++..+..+++.+......-.....+..+++.+
T Consensus 172 a~~~l~~i--~~~~~~~~~~~~~~~~~L~~~l-------------~~~~~~~q~~il~~l~~~~~~~~~~~~~~~~i~~l 236 (526)
T PF01602_consen 172 ALSLLSEI--KCNDDSYKSLIPKLIRILCQLL-------------SDPDPWLQIKILRLLRRYAPMEPEDADKNRIIEPL 236 (526)
T ss_dssp HHHHHHHH--HCTHHHHTTHHHHHHHHHHHHH-------------TCCSHHHHHHHHHHHTTSTSSSHHHHHHHHHHHHH
T ss_pred HHHHHHHH--ccCcchhhhhHHHHHHHhhhcc-------------cccchHHHHHHHHHHHhcccCChhhhhHHHHHHHH
Q ss_pred hhhcCHHHHHHHHHHHhhHHhHhhcccC-CCchhhhhhhcCChhhHHHHHHHHHHHHHHhhcCc----chhHHHHHHHhh
Q 002096 793 IEVVELDQQTQMVKELDGHIMRCVRDQN-GNHVIQKCIECVPEDAIQFIVLTFYDQVVTLSTHP----YGCRVIQRVLEH 867 (967)
Q Consensus 793 LE~as~eq~~~Lv~EL~g~il~Lv~Dqn-GNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS~hk----yGSrVIQkILE~ 867 (967)
..... .....++-+....+..+..... -..+++.++.... ..-..+--.....+..++... ....++-.++..
T Consensus 237 ~~~l~-s~~~~V~~e~~~~i~~l~~~~~~~~~~~~~L~~lL~-s~~~nvr~~~L~~L~~l~~~~~~~v~~~~~~~~~l~~ 314 (526)
T PF01602_consen 237 LNLLQ-SSSPSVVYEAIRLIIKLSPSPELLQKAINPLIKLLS-SSDPNVRYIALDSLSQLAQSNPPAVFNQSLILFFLLY 314 (526)
T ss_dssp HHHHH-HHHHHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHT-SSSHHHHHHHHHHHHHHCCHCHHHHGTHHHHHHHHHC
T ss_pred HHHhh-ccccHHHHHHHHHHHHhhcchHHHHhhHHHHHHHhh-cccchhehhHHHHHHHhhcccchhhhhhhhhhheecC
Q ss_pred cCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcC----CHHHHHHHHHHHHHHHHHHhcC-ccHHHHHHHHHhhCC
Q 002096 868 CHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHG----KPHERSAIIKKLTGQIVQMSQQ-KFASNVIEKCLSFGT 942 (967)
Q Consensus 868 csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~----~pkeRk~IIk~LkgnIveLS~n-KfGS~VVEKcL~~~d 942 (967)
..+...+...++.+.. |+....-..|++.++... +++.+..+++.+..-......+ ++--.++.+++...+
T Consensus 315 ~~d~~Ir~~~l~lL~~----l~~~~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~~~~ 390 (526)
T PF01602_consen 315 DDDPSIRKKALDLLYK----LANESNVKEILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLEISG 390 (526)
T ss_dssp SSSHHHHHHHHHHHHH----H--HHHHHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHHCTG
T ss_pred CCChhHHHHHHHHHhh----cccccchhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHhhhhcc
Q ss_pred HHHHHHHHHHHh
Q 002096 943 PAERQALVNEML 954 (967)
Q Consensus 943 ~~eRk~II~ELl 954 (967)
......++..|.
T Consensus 391 ~~~~~~~~~~i~ 402 (526)
T PF01602_consen 391 DYVSNEIINVIR 402 (526)
T ss_dssp GGCHCHHHHHHH
T ss_pred ccccchHHHHHH
No 74
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=27.80 E-value=4.1e+02 Score=34.53 Aligned_cols=233 Identities=7% Similarity=0.064 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHH---HHHHhhhccccchhHhhhhccCCHHHHHHH-HHH
Q 002096 696 ELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMP---QALSLMTDVFGNYVIQKFFEHGTASQVREL-ADQ 771 (967)
Q Consensus 696 ~L~eI~G~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~---~lleLmtD~fGN~VVQKLLE~~s~Eqr~~I-ie~ 771 (967)
.+.+|..++.....+....-+|=.=.+..+.+..+.+++.|.. ++.-++...+-+.|+..++..|..-.++.| .+.
T Consensus 103 dIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~ee 182 (830)
T PRK07003 103 EMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGH 182 (830)
T ss_pred HHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHH
Q ss_pred HHhhHHHhhhc---cccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhhcccCCCchhhhhhhcCChhhHHHHHHHHHHHH
Q 002096 772 LTGHVLTLSLQ---MYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCVRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQV 848 (967)
Q Consensus 772 L~g~IveLA~h---kyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~l 848 (967)
+..++..++.. .+.-..+..+.+.+..+.+..| .|......+.......-.|..++-..+.+.+..|++.+.
T Consensus 183 Iv~~L~~Il~~EgI~id~eAL~lIA~~A~GsmRdAL--sLLdQAia~~~~~It~~~V~~~LG~~d~~~i~~ll~aL~--- 257 (830)
T PRK07003 183 IVSHLERILGEERIAFEPQALRLLARAAQGSMRDAL--SLTDQAIAYSANEVTETAVSGMLGALDQTYMVRLLDALA--- 257 (830)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHH--HHHHHHHHhccCCcCHHHHHHHhCCCCHHHHHHHHHHHH---
Q ss_pred HHhhcCcchhHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcCccHH----------HHHHHHHhcCCHHHHHHHHHHHH
Q 002096 849 VTLSTHPYGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGN----------YVVQHVLEHGKPHERSAIIKKLT 918 (967)
Q Consensus 849 v~LS~hkyGSrVIQkILE~csde~~r~~LLdeLle~L~~La~DqyGN----------YVVQ~ILe~~~pkeRk~IIk~Lk 918 (967)
.+-...++..+-+..........++..|+..+..++.-++.. .-++.+-+.-+.+....+++.+.
T Consensus 258 -----~~d~~~~l~~~~~l~~~g~~~~~~l~dLl~~l~~~~~~q~~~~~~~~~~~e~~~~~~~a~~~s~~~l~~~~qi~l 332 (830)
T PRK07003 258 -----AGDGPEILAVADEMALRSLSFSTALQDLASLLHRIAWAQFAPASVLDEWPEAADLRRFAELLSPEQVQLFYQIAT 332 (830)
T ss_pred -----cCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhCccccccccchHHHHHHHHHhCCHHHHHHHHHHHH
Q ss_pred HHHHHHhcCccHHHHHHHHH
Q 002096 919 GQIVQMSQQKFASNVIEKCL 938 (967)
Q Consensus 919 gnIveLS~nKfGS~VVEKcL 938 (967)
.-..+|.....-...+|-+|
T Consensus 333 ~g~~el~~ap~~~~~~Em~l 352 (830)
T PRK07003 333 VGRGELGLAPDEYAGFTMTL 352 (830)
T ss_pred hHHHHhhcCCCHHHHHHHHH
No 75
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=27.53 E-value=1e+03 Score=27.77 Aligned_cols=43 Identities=23% Similarity=0.316 Sum_probs=27.4
Q ss_pred hHHHHHHHHHHHhhCcc-----cCHHHHHhhhcCCHHHHH-HHHHHHHH
Q 002096 696 ELSEIAGHVVEFSADQY-----GSRFIQQKLETATTEEKN-MVFQEIMP 738 (967)
Q Consensus 696 ~L~eI~G~IveLa~Dq~-----GSRVLQklLE~~S~Eer~-~IfeEI~~ 738 (967)
...++.+.+.+++..+. +..+.+.+|+..-.+++. .|++.+..
T Consensus 58 ~~~~il~eF~~~~~~~~~i~~~~~~~~~~lL~kalg~~~a~~i~~~i~~ 106 (339)
T COG1536 58 EKEQVLEEFEELFTEQAGINKGADEYARELLEKALGEEKAESLLERITG 106 (339)
T ss_pred HHHHHHHHHHHHHHhccccccChHHHHHHHHHHhCcHhHHHHHHHHhhh
Confidence 45666777777766554 455688888887765554 45555554
No 76
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=27.52 E-value=9.2e+02 Score=27.85 Aligned_cols=14 Identities=21% Similarity=0.444 Sum_probs=6.2
Q ss_pred cCHHHHHHHHHHHh
Q 002096 796 VELDQQTQMVKELD 809 (967)
Q Consensus 796 as~eq~~~Lv~EL~ 809 (967)
.+.+....++++|.
T Consensus 50 v~~~~~~~vl~eF~ 63 (334)
T PRK07194 50 IKVDQARQVLQRFF 63 (334)
T ss_pred CCHHHHHHHHHHHH
Confidence 34444444444443
No 77
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=27.44 E-value=2.2e+02 Score=36.76 Aligned_cols=52 Identities=19% Similarity=0.273 Sum_probs=34.1
Q ss_pred HHHHHhhhcCCHHHH-HHHHHHHHHHHHHhh----hccccchhHhhhhccCCHHHHH
Q 002096 715 RFIQQKLETATTEEK-NMVFQEIMPQALSLM----TDVFGNYVIQKFFEHGTASQVR 766 (967)
Q Consensus 715 RVLQklLE~~S~Eer-~~IfeEI~~~lleLm----tD~fGN~VVQKLLE~~s~Eqr~ 766 (967)
|++|..|+.++..-. ..-+.-|.+++-+|. .|.+|=++++.++++.+.....
T Consensus 702 rLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka~Dh~GF~LLn~i~~~~~~~~~~ 758 (960)
T KOG1992|consen 702 RLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKANDHHGFYLLNTIIESIPPNELA 758 (960)
T ss_pred HHHHHHHhcCchhhcccccchhHHHHHHHHhcCcccchhHHHHHHHHHhcCCHhhhh
Confidence 677777777654322 122344666666664 5888999999999988776444
No 78
>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=27.35 E-value=6.8e+02 Score=30.96 Aligned_cols=69 Identities=13% Similarity=0.144 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcCHHHHHHHHHHHhhHHhHhh--cccCCCchhhhhhhcC
Q 002096 762 ASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQTQMVKELDGHIMRCV--RDQNGNHVIQKCIECV 832 (967)
Q Consensus 762 ~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as~eq~~~Lv~EL~g~il~Lv--~DqnGNhVIQkLLE~~ 832 (967)
..+...+++++..++-.|-.. -..+|+.++...=...-..+++.+..-+..|+ ...+-.-|+.++++..
T Consensus 50 ~~~l~~~L~~L~~~Vs~Ld~~--~~~LV~ail~~~W~~~~~~~v~~y~~Fl~~Lvsa~~~yl~~vl~~LV~~f 120 (563)
T PF05327_consen 50 VSQLIRWLKALSSCVSLLDSS--CKQLVEAILSLNWLGRDEDFVEAYIQFLINLVSAQPKYLSPVLSMLVKNF 120 (563)
T ss_dssp HHHHHHHHHHHHHGGGGG-SC--CHHHHHHHHT-TGGGS-HHHHHHHHHHHHHHHHH-GGGHHHHHHHHHHGG
T ss_pred HHHHHHHHHHHHHHHHHhhhH--HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhc
Confidence 456777788888777666554 44556666643110111123333333333333 2233344566666654
No 79
>KOG3821 consensus Heparin sulfate cell surface proteoglycan [Signal transduction mechanisms]
Probab=27.10 E-value=7.8e+02 Score=30.62 Aligned_cols=56 Identities=21% Similarity=0.219 Sum_probs=37.5
Q ss_pred chhHHHHHHHhhcCCHHHHHHHHHHHHHHHHHHhcCccHHHHHHHHHhcCCHHHHHHHH
Q 002096 856 YGCRVIQRVLEHCHDEKTQSIMMDEILQSVCMLAQDQYGNYVVQHVLEHGKPHERSAII 914 (967)
Q Consensus 856 yGSrVIQkILE~csde~~r~~LLdeLle~L~~La~DqyGNYVVQ~ILe~~~pkeRk~II 914 (967)
|-..|++-|+..-.+ .+.-....++.+..|+..-+|.|=|+.+|..-..+.-+.|+
T Consensus 271 YC~NVmrGClA~~ad---Ld~~W~~~idSl~~L~~~l~g~~~iesvl~~i~v~iseAIm 326 (563)
T KOG3821|consen 271 YCLNVMRGCLANQAD---LDPEWRNYIDSLLELADKLEGPFNIESVLLPIHVKISEAIM 326 (563)
T ss_pred HHHHHHHHHhhhhcc---cchHHHHHHHHHHHHHHhhcCcchHHHHHhhhhhHHHHHHH
Confidence 555778888877543 12334555666777888888888888888876655544444
No 80
>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=26.27 E-value=2.2e+02 Score=38.72 Aligned_cols=112 Identities=13% Similarity=0.039 Sum_probs=64.9
Q ss_pred hhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhhhcCHHHH--HHHHHHHhh--HHhHh--hcccCCCchhhhhh
Q 002096 756 FFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIEVVELDQQ--TQMVKELDG--HIMRC--VRDQNGNHVIQKCI 829 (967)
Q Consensus 756 LLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE~as~eq~--~~Lv~EL~g--~il~L--v~DqnGNhVIQkLL 829 (967)
++...++|+++..++.+...+...+..+.-.++++.+...+..... ..+.+++.. .+... ..+...-.+|++||
T Consensus 53 ~~~~~~~Ee~~~~ik~~l~~i~~~~~~~~~~~l~d~L~~~v~~~~i~ar~vCe~lL~~~~l~~~~~~~W~~~F~lIrkiI 132 (1341)
T PF11573_consen 53 MMSSMSEEEKESCIKQYLKYIHSQSHPRRYEFLFDLLETAVNNGIIPARLVCEELLSSEKLFYLNSRFWQEKFKLIRKII 132 (1341)
T ss_pred HHhcCCHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHhCCCChHHHHHHHhcccchhhhhhHHHHHHHHHHHHHh
Confidence 4445678888888888877777777766666666655544322110 112222210 00000 11222335889999
Q ss_pred hcCChhhHHHHHHHHHHHHHHhhc----C-----cchhHHHHHHHhh
Q 002096 830 ECVPEDAIQFIVLTFYDQVVTLST----H-----PYGCRVIQRVLEH 867 (967)
Q Consensus 830 E~~~~e~iq~IId~L~~~lv~LS~----h-----kyGSrVIQkILE~ 867 (967)
..++-+-++.|++.+.+++..+=. + ...+.||+.+++.
T Consensus 133 ~~VDYKGvR~Ilk~~~eK~~~iP~~~~~~~~~~l~~~~~vi~~ilDR 179 (1341)
T PF11573_consen 133 HGVDYKGVREILKICLEKMQQIPSSLSPEQLPQLLAVEEVIEHILDR 179 (1341)
T ss_pred cccCcHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHhCc
Confidence 988888888888887776664411 1 2467777777754
No 81
>PF14631 FancD2: Fanconi anaemia protein FancD2 nuclease; PDB: 3S4W_B.
Probab=25.77 E-value=8.7e+02 Score=33.75 Aligned_cols=32 Identities=9% Similarity=0.204 Sum_probs=22.8
Q ss_pred ccHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 002096 892 QYGNYVVQHVLEHGKPHERSAIIKKLTGQIVQ 923 (967)
Q Consensus 892 qyGNYVVQ~ILe~~~pkeRk~IIk~LkgnIve 923 (967)
.||++.-..++..-+.-.|++|+..|..|+..
T Consensus 453 ~FG~~~Y~~lF~~fds~~qqeVv~~Lvthi~s 484 (1426)
T PF14631_consen 453 EFGSHLYKYLFKEFDSYCQQEVVGALVTHIGS 484 (1426)
T ss_dssp HHHHHHHHHHHHSS-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhccchhHHHHHHHHHHHHcC
Confidence 47888888888777665677788887777743
No 82
>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=25.57 E-value=3.7e+02 Score=27.07 Aligned_cols=25 Identities=12% Similarity=0.171 Sum_probs=14.8
Q ss_pred hhhhhhhhhcCHHHHHHHHHHHhhH
Q 002096 787 RVIQKAIEVVELDQQTQMVKELDGH 811 (967)
Q Consensus 787 rVLQklLE~as~eq~~~Lv~EL~g~ 811 (967)
+.|+.++...++.....++++|...
T Consensus 2 r~v~~~lnklt~~n~~~~~~~l~~~ 26 (209)
T PF02854_consen 2 RKVRGILNKLTPSNFESIIDELIKL 26 (209)
T ss_dssp HHHHHHHHHCSSTTHHHHHHHHHHH
T ss_pred chHHHHHHHCCHHHHHHHHHHHHHH
Confidence 4456666666665566666665443
No 83
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=24.35 E-value=8.4e+02 Score=25.57 Aligned_cols=14 Identities=43% Similarity=0.394 Sum_probs=6.3
Q ss_pred HHHHhhCCHHHHHH
Q 002096 935 EKCLSFGTPAERQA 948 (967)
Q Consensus 935 EKcL~~~d~~eRk~ 948 (967)
.+|+.-++++.|+.
T Consensus 183 ~~~l~D~~~~VR~~ 196 (228)
T PF12348_consen 183 VKLLSDADPEVREA 196 (228)
T ss_dssp HHHHTSS-HHHHHH
T ss_pred HHHCCCCCHHHHHH
Confidence 34444455555543
No 84
>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=24.20 E-value=2.1e+02 Score=32.18 Aligned_cols=34 Identities=12% Similarity=0.310 Sum_probs=15.3
Q ss_pred ChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhh
Q 002096 833 PEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEH 867 (967)
Q Consensus 833 ~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~ 867 (967)
..+....|...+..-+..+..++ ..|++..++.+
T Consensus 179 t~eRf~av~~vL~~mV~~l~~~p-S~RLLKhIIrC 212 (262)
T PF04078_consen 179 TAERFFAVAMVLNKMVEQLVKQP-SPRLLKHIIRC 212 (262)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHS---HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHccCC-ChhHHHHHHHH
Confidence 44444444444433333444333 55666665554
No 85
>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=23.38 E-value=3.3e+02 Score=32.49 Aligned_cols=94 Identities=12% Similarity=0.127 Sum_probs=49.7
Q ss_pred HHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhccccchhHhhhhccCCHHHHHHHHHHHHhhHHHhhhccccchhhhhhhh
Q 002096 715 RFIQQKLETATTEEKNMVFQEIMPQALSLMTDVFGNYVIQKFFEHGTASQVRELADQLTGHVLTLSLQMYGCRVIQKAIE 794 (967)
Q Consensus 715 RVLQklLE~~S~Eer~~IfeEI~~~lleLmtD~fGN~VVQKLLE~~s~Eqr~~Iie~L~g~IveLA~hkyGcrVLQklLE 794 (967)
..++.+|+...+.+...+++++.+.-.............-.+|++.+++.+..+++.+...-..-.....-..=+..+++
T Consensus 21 ~~l~~~l~~~~~~dia~~l~~l~~~~~~~~~~~l~~~~~a~vl~~l~~~~~~~ll~~l~~~~~~~~~~~l~~dd~~~ll~ 100 (449)
T TIGR00400 21 SKIKEKFLKXQPXDIAEALKRLPGTELILLYRFLPKKIAVDTFSNLDQSTQNKLLNSFTNKEISEMINEMNLDDVIDLLE 100 (449)
T ss_pred HHHHHHHhcCCHHHHHHHHHhCCHHHHHHHHHhCChhhHHHHHHcCCHHHHHHHHHhCCHHHHHHHHHcCChhHHHHHHH
Confidence 45566666667777777776655443222222233344456777777777777777775443322222333333344444
Q ss_pred hcCHHHHHHHHHHH
Q 002096 795 VVELDQQTQMVKEL 808 (967)
Q Consensus 795 ~as~eq~~~Lv~EL 808 (967)
....+.+..++..+
T Consensus 101 ~l~~~~~~~lL~~l 114 (449)
T TIGR00400 101 EVPANVVQQLLASS 114 (449)
T ss_pred hCCHHHHHHHHHcC
Confidence 45555444554443
No 86
>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=22.92 E-value=5.9e+02 Score=25.96 Aligned_cols=23 Identities=9% Similarity=0.306 Sum_probs=12.7
Q ss_pred CCchhhhhhhcCChhhHHHHHHH
Q 002096 821 GNHVIQKCIECVPEDAIQFIVLT 843 (967)
Q Consensus 821 GNhVIQkLLE~~~~e~iq~IId~ 843 (967)
|+..|..+|...+.++...+++.
T Consensus 47 g~~~l~~~i~~L~~~~l~~LL~~ 69 (141)
T PF08625_consen 47 GSEELDEVIKKLDDEQLEKLLRF 69 (141)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHH
Confidence 44556666666665555544443
No 87
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=22.85 E-value=6.1e+02 Score=30.46 Aligned_cols=22 Identities=14% Similarity=0.220 Sum_probs=13.8
Q ss_pred hHHHhhhccccchhhhhhhhhc
Q 002096 775 HVLTLSLQMYGCRVIQKAIEVV 796 (967)
Q Consensus 775 ~IveLA~hkyGcrVLQklLE~a 796 (967)
-+..|+..++|..+|..+.+..
T Consensus 238 ~m~nL~~S~~g~~~i~~L~~iL 259 (464)
T PF11864_consen 238 TMRNLLKSHLGHSAIRTLCDIL 259 (464)
T ss_pred HHHHHHcCccHHHHHHHHHHHH
Confidence 3445566666666676666665
No 88
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=22.75 E-value=1.2e+03 Score=26.88 Aligned_cols=14 Identities=7% Similarity=0.271 Sum_probs=7.5
Q ss_pred chhHHHHHHHhhcC
Q 002096 856 YGCRVIQRVLEHCH 869 (967)
Q Consensus 856 yGSrVIQkILE~cs 869 (967)
-|...+..+|+...
T Consensus 197 ~G~~~aa~ILn~l~ 210 (334)
T PRK07194 197 IGVKQAADIINRFP 210 (334)
T ss_pred CCHHHHHHHHHhCc
Confidence 35555566665543
No 89
>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p [].
Probab=22.42 E-value=8.6e+02 Score=27.19 Aligned_cols=51 Identities=16% Similarity=0.184 Sum_probs=29.5
Q ss_pred chhhhhhhh-hcCHHHHHHHHHHHhhHHhHhhccc------CCCchhhhhhhcCChhh
Q 002096 786 CRVIQKAIE-VVELDQQTQMVKELDGHIMRCVRDQ------NGNHVIQKCIECVPEDA 836 (967)
Q Consensus 786 crVLQklLE-~as~eq~~~Lv~EL~g~il~Lv~Dq------nGNhVIQkLLE~~~~e~ 836 (967)
+.++.-++. ..+.....+.+.-+.+.++.++.|. .|..+++++++.++...
T Consensus 97 ~~~l~w~v~~~~~~~~i~~~~~liiP~iL~llDD~~~~~K~~G~~lL~~ll~~~~~~~ 154 (282)
T PF10521_consen 97 SHVLSWIVLSQLDRPWISQHWPLIIPPILNLLDDYSPEIKIQGCQLLHHLLEKVPAAE 154 (282)
T ss_pred HHHHHHHHHhcCCcchHHHhhhHHHhhHHHHhcCCCHHHHHHHHHHHHHHHHhCChhh
Confidence 345555555 5555455555555666666666664 36666666776665554
No 90
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=21.33 E-value=1.9e+03 Score=28.68 Aligned_cols=49 Identities=8% Similarity=0.129 Sum_probs=22.1
Q ss_pred hHHHHHHHHHHHhhCcccCHHHHHhhhcCCHHHHHHHHHHHHHHHHHhhhc
Q 002096 696 ELSEIAGHVVEFSADQYGSRFIQQKLETATTEEKNMVFQEIMPQALSLMTD 746 (967)
Q Consensus 696 ~L~eI~G~IveLa~Dq~GSRVLQklLE~~S~Eer~~IfeEI~~~lleLmtD 746 (967)
++++|..++.....+.+-. +.+.+++ .+.+.|......|...+-+|..+
T Consensus 513 ll~~lA~~l~p~l~~~~~~-~~~~~~~-~~~~~rr~~~~~lq~k~~~l~~n 561 (803)
T PLN03083 513 ILKHLADHLRPMLINSLKE-RRKALFT-ENAERRRRLLDNLQKKIDESFLN 561 (803)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHh-cchHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444333222111 2334444 44555555555555555555444
No 91
>PLN03218 maturation of RBCL 1; Provisional
Probab=21.23 E-value=9.4e+02 Score=32.33 Aligned_cols=60 Identities=7% Similarity=0.122 Sum_probs=35.0
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhcC-ccHHHHHHHHHhhCCHHHHHHHHHHHhcC
Q 002096 895 NYVVQHVLEHGKPHERSAIIKKLTGQIVQMSQQ-KFASNVIEKCLSFGTPAERQALVNEMLGS 956 (967)
Q Consensus 895 NYVVQ~ILe~~~pkeRk~IIk~LkgnIveLS~n-KfGS~VVEKcL~~~d~~eRk~II~ELl~~ 956 (967)
+-+|..+.+.+..+.-.++++.+...= +.-+ ..-..+|..|.+.+..++-..|+++|...
T Consensus 583 naLI~ay~k~G~ldeA~elf~~M~e~g--i~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~ 643 (1060)
T PLN03218 583 GALMKACANAGQVDRAKEVYQMIHEYN--IKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK 643 (1060)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHcC--CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Confidence 445555556666555555555554321 1111 22345666677778888888888888765
No 92
>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=21.08 E-value=1.3e+03 Score=28.72 Aligned_cols=49 Identities=24% Similarity=0.240 Sum_probs=32.0
Q ss_pred hcccCCCchhhhhhhcCChhhHHHHHHHHHHHHHHhhcCcchhHHHHHHHhhc
Q 002096 816 VRDQNGNHVIQKCIECVPEDAIQFIVLTFYDQVVTLSTHPYGCRVIQRVLEHC 868 (967)
Q Consensus 816 v~DqnGNhVIQkLLE~~~~e~iq~IId~L~~~lv~LS~hkyGSrVIQkILE~c 868 (967)
-.++.||.|+++.|+- ++.++.|.|.+.--++---+. +=-|.|.||+..
T Consensus 285 heNRlnn~vlh~tL~g--e~rrDYv~DtIyLfLv~TWQT--aMgvWQQ~Lee~ 333 (583)
T PF02438_consen 285 HENRLNNPVLHSTLEG--EDRRDYVRDTIYLFLVLTWQT--AMGVWQQCLEEE 333 (583)
T ss_pred hhccCcchHHHHHhcc--cchhhHHHhhHHHHHHHHHHH--HHHHHHHHhhHh
Confidence 3688899999999986 455677888776443322221 223667888754
No 93
>PF07393 Sec10: Exocyst complex component Sec10; InterPro: IPR009976 This family contains the Sec10 component (approximately 650 residues long) of the eukaryotic exocyst complex, which specifically affects the synthesis and delivery of secretory and basolateral plasma membrane proteins [].; GO: 0006887 exocytosis, 0048278 vesicle docking, 0005737 cytoplasm
Probab=20.18 E-value=1.8e+03 Score=28.12 Aligned_cols=27 Identities=37% Similarity=0.351 Sum_probs=12.5
Q ss_pred cCCCchhhhhhhcCChhhHHHHHHHHH
Q 002096 819 QNGNHVIQKCIECVPEDAIQFIVLTFY 845 (967)
Q Consensus 819 qnGNhVIQkLLE~~~~e~iq~IId~L~ 845 (967)
++...|++++++..-...++..++.+.
T Consensus 216 p~~~~Vm~~fiervf~~~I~~~i~~lL 242 (710)
T PF07393_consen 216 PNPEPVMQKFIERVFEQVIQEYIESLL 242 (710)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344456666665544443333333333
No 94
>PF12069 DUF3549: Protein of unknown function (DUF3549); InterPro: IPR021936 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 340 amino acids in length. This protein has a conserved LDE sequence motif.
Probab=20.14 E-value=5.7e+02 Score=29.95 Aligned_cols=23 Identities=9% Similarity=0.229 Sum_probs=10.3
Q ss_pred cccchHHHHHHHHHHHhhCcccC
Q 002096 692 TKCFELSEIAGHVVEFSADQYGS 714 (967)
Q Consensus 692 ~r~~~L~eI~G~IveLa~Dq~GS 714 (967)
+|-+...--+++++++..+.-|.
T Consensus 79 ErGLL~~A~r~~Fi~~vveAlG~ 101 (340)
T PF12069_consen 79 ERGLLNQAARDHFIKMVVEALGR 101 (340)
T ss_pred cccCcCcccHHHHHHHHHHHhcc
Confidence 34443444455555544433333
Done!