Query 042165
Match_columns 983
No_of_seqs 308 out of 1671
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 03:27:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042165.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042165hhsearch_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 2.9E-69 6.3E-74 595.8 20.4 337 274-655 1-385 (385)
2 KOG1488 Translational represso 100.0 1.8E-66 3.9E-71 593.6 33.4 342 634-976 153-501 (503)
3 cd07920 Pumilio Pumilio-family 100.0 4.3E-54 9.4E-59 477.2 31.1 317 653-970 3-322 (322)
4 COG5099 RNA-binding protein of 100.0 6.4E-45 1.4E-49 437.8 24.2 310 665-975 447-762 (777)
5 KOG2049 Translational represso 100.0 6E-42 1.3E-46 395.5 19.1 313 654-970 212-532 (536)
6 cd07920 Pumilio Pumilio-family 100.0 2.6E-40 5.7E-45 367.0 26.8 301 629-934 13-322 (322)
7 KOG2050 Puf family RNA-binding 100.0 7.4E-40 1.6E-44 371.3 24.6 303 623-973 138-443 (652)
8 KOG1488 Translational represso 100.0 3.6E-39 7.7E-44 369.6 15.5 265 632-897 222-498 (503)
9 COG5099 RNA-binding protein of 100.0 2.3E-28 5.1E-33 295.1 18.1 237 737-977 447-684 (777)
10 KOG2049 Translational represso 99.9 1.3E-27 2.8E-32 276.9 14.5 280 689-974 211-496 (536)
11 KOG2188 Predicted RNA-binding 99.9 1.2E-25 2.7E-30 258.5 21.3 317 653-973 93-608 (650)
12 KOG2188 Predicted RNA-binding 99.8 6.6E-20 1.4E-24 211.7 20.1 287 687-975 91-574 (650)
13 KOG2050 Puf family RNA-binding 99.8 3.1E-19 6.6E-24 204.3 22.3 254 717-976 146-408 (652)
14 KOG4574 RNA-binding protein (c 99.6 3.8E-15 8.3E-20 175.4 10.2 288 683-973 534-852 (1007)
15 KOG4574 RNA-binding protein (c 99.1 7.3E-11 1.6E-15 139.9 8.4 270 659-942 582-857 (1007)
16 PF00806 PUF: Pumilio-family R 97.9 3.5E-06 7.6E-11 64.2 0.4 29 695-723 4-32 (35)
17 PF00806 PUF: Pumilio-family R 97.6 4.9E-05 1.1E-09 57.9 2.9 35 656-690 1-35 (35)
18 smart00025 Pumilio Pumilio-lik 97.5 3.4E-05 7.3E-10 58.0 0.5 33 658-690 3-35 (36)
19 smart00025 Pumilio Pumilio-lik 97.4 0.00012 2.5E-09 55.0 2.8 34 693-726 2-35 (36)
20 PRK05686 fliG flagellar motor 95.2 6 0.00013 45.5 24.8 120 848-978 200-328 (339)
21 TIGR00207 fliG flagellar motor 91.9 25 0.00053 40.7 22.0 43 850-897 199-241 (338)
22 PRK05686 fliG flagellar motor 91.2 16 0.00036 42.0 19.7 12 814-825 203-214 (339)
23 PF04286 DUF445: Protein of un 87.2 46 0.001 37.8 19.5 34 925-958 313-346 (367)
24 PF08144 CPL: CPL (NUC119) dom 85.6 3.4 7.5E-05 42.1 8.2 56 916-971 64-130 (148)
25 COG1536 FliG Flagellar motor s 83.8 92 0.002 36.2 22.9 88 851-954 203-290 (339)
26 PF08144 CPL: CPL (NUC119) dom 82.8 11 0.00024 38.4 10.4 20 920-939 115-134 (148)
27 TIGR00207 fliG flagellar motor 75.4 1.6E+02 0.0036 34.0 18.7 27 813-840 199-225 (338)
28 COG2733 Predicted membrane pro 75.1 1.3E+02 0.0029 35.4 16.9 126 782-911 168-299 (415)
29 PF09770 PAT1: Topoisomerase I 72.7 6 0.00013 50.7 6.3 114 660-773 576-723 (808)
30 PF12231 Rif1_N: Rap1-interact 70.9 2.1E+02 0.0047 33.4 18.7 39 807-848 205-243 (372)
31 PF11573 Med23: Mediator compl 70.0 1.1E+02 0.0024 41.4 16.8 286 682-975 3-390 (1341)
32 KOG1991 Nuclear transport rece 65.9 2.5E+02 0.0054 36.7 17.8 149 736-884 431-600 (1010)
33 KOG2160 Armadillo/beta-catenin 63.8 2.9E+02 0.0063 32.2 19.8 134 669-826 77-222 (342)
34 KOG1059 Vesicle coat complex A 62.5 2.9E+02 0.0063 35.2 17.0 25 692-716 218-242 (877)
35 KOG2759 Vacuolar H+-ATPase V1 61.5 2.9E+02 0.0063 33.0 16.1 64 867-930 312-395 (442)
36 PF04286 DUF445: Protein of un 60.0 3E+02 0.0065 31.2 19.0 25 725-749 143-167 (367)
37 cd03567 VHS_GGA VHS domain fam 57.4 1.9E+02 0.0041 29.3 12.3 76 887-977 58-135 (139)
38 PLN03083 E3 UFM1-protein ligas 57.3 5E+02 0.011 33.7 18.3 41 710-754 533-573 (803)
39 COG1747 Uncharacterized N-term 57.0 3.4E+02 0.0074 33.4 15.8 76 688-763 47-122 (711)
40 PLN03218 maturation of RBCL 1; 56.9 3.7E+02 0.008 36.1 18.1 22 673-694 443-464 (1060)
41 KOG0260 RNA polymerase II, lar 56.5 1.3E+02 0.0028 39.9 13.0 12 63-74 1265-1276(1605)
42 KOG2072 Translation initiation 55.8 1.7E+02 0.0038 37.4 13.7 42 774-815 176-217 (988)
43 PTZ00429 beta-adaptin; Provisi 55.7 5.7E+02 0.012 33.0 19.0 23 804-826 356-378 (746)
44 PRK07194 fliG flagellar motor 54.2 4E+02 0.0087 30.8 23.9 52 927-978 257-322 (334)
45 PF05918 API5: Apoptosis inhib 53.2 5.1E+02 0.011 32.3 17.2 23 862-884 145-167 (556)
46 KOG1248 Uncharacterized conser 52.1 4.6E+02 0.0099 35.2 17.0 20 917-936 891-910 (1176)
47 PF05918 API5: Apoptosis inhib 51.0 94 0.002 38.4 10.6 40 937-976 144-189 (556)
48 PF01602 Adaptin_N: Adaptin N 50.5 3.6E+02 0.0078 32.2 15.6 9 966-974 415-423 (526)
49 PF12231 Rif1_N: Rap1-interact 50.0 2.6E+02 0.0056 32.7 13.7 14 930-943 278-291 (372)
50 KOG4368 Predicted RNA binding 49.6 2.5E+02 0.0054 34.7 13.3 32 853-884 165-196 (757)
51 KOG0260 RNA polymerase II, lar 48.7 3.5E+02 0.0076 36.3 15.0 11 215-225 1432-1442(1605)
52 KOG2203 GTP-binding protein [G 44.9 6.1E+02 0.013 31.6 15.5 41 888-928 469-509 (772)
53 KOG1992 Nuclear export recepto 42.7 7.1E+02 0.015 32.4 16.1 53 814-866 700-756 (960)
54 PF03224 V-ATPase_H_N: V-ATPas 42.5 4.9E+02 0.011 29.4 14.2 33 930-962 240-272 (312)
55 PF10508 Proteasom_PSMB: Prote 42.1 7.2E+02 0.016 30.3 22.2 21 709-729 81-101 (503)
56 PF14666 RICTOR_M: Rapamycin-i 41.7 1.7E+02 0.0036 32.1 9.8 79 870-953 139-223 (226)
57 PF14838 INTS5_C: Integrator c 41.0 4.3E+02 0.0093 33.7 14.2 60 666-737 112-187 (696)
58 KOG1070 rRNA processing protei 40.6 6.4E+02 0.014 34.7 15.8 40 658-697 1445-1488(1710)
59 cd03565 VHS_Tom1 VHS domain fa 40.3 4.1E+02 0.0088 26.9 13.1 77 887-977 59-137 (141)
60 KOG1086 Cytosolic sorting prot 40.1 7.5E+02 0.016 29.9 15.6 168 762-957 26-228 (594)
61 COG5240 SEC21 Vesicle coat com 39.5 6.8E+02 0.015 31.3 14.8 127 842-981 345-482 (898)
62 smart00638 LPD_N Lipoprotein N 39.3 7.6E+02 0.016 30.3 16.2 17 677-693 319-335 (574)
63 COG1747 Uncharacterized N-term 38.6 8.6E+02 0.019 30.2 17.6 23 930-952 227-251 (711)
64 KOG2213 Apoptosis inhibitor 5/ 38.0 7.8E+02 0.017 29.5 16.3 36 916-951 361-399 (460)
65 PRK07194 fliG flagellar motor 37.7 7E+02 0.015 28.8 18.0 24 888-911 258-281 (334)
66 PF09770 PAT1: Topoisomerase I 37.0 34 0.00074 44.0 4.3 40 769-808 577-616 (808)
67 PF08625 Utp13: Utp13 specific 35.7 4.4E+02 0.0096 26.7 11.1 86 851-936 47-138 (141)
68 PRK07003 DNA polymerase III su 35.4 1.6E+02 0.0035 37.9 9.4 28 938-965 319-346 (830)
69 COG5593 Nucleic-acid-binding p 34.9 9.7E+02 0.021 29.7 15.1 22 672-693 89-110 (821)
70 PF11510 FA_FANCE: Fanconi Ana 34.2 4.6E+02 0.01 29.5 11.8 77 815-895 145-225 (263)
71 KOG2213 Apoptosis inhibitor 5/ 34.0 8.9E+02 0.019 29.0 15.2 15 724-738 46-60 (460)
72 KOG0166 Karyopherin (importin) 34.0 9.9E+02 0.022 29.5 17.4 103 740-844 255-371 (514)
73 PF03224 V-ATPase_H_N: V-ATPas 33.5 2.5E+02 0.0055 31.7 10.1 28 617-645 11-38 (312)
74 cd03569 VHS_Hrs_Vps27p VHS dom 33.4 5.2E+02 0.011 26.1 13.8 75 887-977 61-136 (142)
75 COG1536 FliG Flagellar motor s 33.4 8.4E+02 0.018 28.5 19.6 60 887-952 263-322 (339)
76 KOG1992 Nuclear export recepto 33.3 1.6E+02 0.0034 37.8 8.7 20 702-721 737-756 (960)
77 KOG1059 Vesicle coat complex A 32.6 5.1E+02 0.011 33.2 12.6 22 767-788 221-242 (877)
78 TIGR00400 mgtE Mg2+ transporte 32.6 1.5E+02 0.0033 35.5 8.5 14 746-759 107-120 (449)
79 PRK07764 DNA polymerase III su 32.1 1.3E+03 0.028 30.3 18.1 11 965-975 373-383 (824)
80 PF13764 E3_UbLigase_R4: E3 ub 31.6 1.3E+03 0.028 30.2 19.1 30 795-824 289-318 (802)
81 COG5593 Nucleic-acid-binding p 31.5 8.9E+02 0.019 30.0 14.0 134 669-807 117-276 (821)
82 PF02854 MIF4G: MIF4G domain; 31.3 5.7E+02 0.012 25.9 11.6 14 961-974 190-203 (209)
83 KOG2199 Signal transducing ada 30.9 6.5E+02 0.014 30.0 12.5 39 939-977 102-140 (462)
84 KOG3821 Heparin sulfate cell s 30.9 1E+03 0.022 29.6 14.5 225 631-882 68-343 (563)
85 smart00288 VHS Domain present 30.8 5.4E+02 0.012 25.5 12.6 45 887-935 57-103 (133)
86 KOG2171 Karyopherin (importin) 30.2 9.9E+02 0.021 32.1 15.2 19 831-849 383-401 (1075)
87 PTZ00429 beta-adaptin; Provisi 30.0 1.3E+03 0.029 29.8 25.8 19 918-936 357-375 (746)
88 PF14098 SSPI: Small, acid-sol 29.8 1.1E+02 0.0024 27.2 4.9 52 902-953 3-64 (65)
89 PF01602 Adaptin_N: Adaptin N 29.0 6.3E+02 0.014 30.1 13.0 35 842-876 328-366 (526)
90 COG2733 Predicted membrane pro 28.7 1.1E+03 0.023 28.3 17.0 6 725-730 184-189 (415)
91 PF10508 Proteasom_PSMB: Prote 28.6 1.1E+03 0.025 28.6 15.4 10 815-824 59-68 (503)
92 PF05327 RRN3: RNA polymerase 27.8 8.3E+02 0.018 30.3 13.9 32 718-751 49-80 (563)
93 PLN03083 E3 UFM1-protein ligas 27.7 1.5E+03 0.032 29.6 16.6 64 724-792 512-575 (803)
94 PF11510 FA_FANCE: Fanconi Ana 26.9 3.4E+02 0.0074 30.5 9.3 137 674-827 40-191 (263)
95 COG4399 Uncharacterized protei 26.9 9.2E+02 0.02 28.4 12.7 9 672-680 94-102 (376)
96 PF08926 DUF1908: Domain of un 26.6 1.7E+02 0.0038 32.9 6.8 64 864-934 209-272 (282)
97 PF12348 CLASP_N: CLASP N term 26.4 7.8E+02 0.017 25.9 12.1 61 812-874 90-155 (228)
98 cd03568 VHS_STAM VHS domain fa 25.5 7.2E+02 0.016 25.2 12.7 75 887-977 57-132 (144)
99 KOG2280 Vacuolar assembly/sort 25.2 9.2E+02 0.02 31.1 13.2 36 877-912 733-772 (829)
100 PF05879 RHD3: Root hair defec 25.1 9.7E+02 0.021 30.9 14.1 24 623-646 233-256 (742)
101 KOG1240 Protein kinase contain 24.9 1.6E+03 0.034 30.8 15.5 74 669-745 442-524 (1431)
102 PF14666 RICTOR_M: Rapamycin-i 24.9 2.1E+02 0.0046 31.3 7.2 37 868-905 179-215 (226)
103 KOG1248 Uncharacterized conser 24.8 1.9E+03 0.041 29.8 21.1 42 671-712 538-583 (1176)
104 KOG1060 Vesicle coat complex A 24.7 1.2E+03 0.027 30.3 14.1 36 731-766 290-328 (968)
105 PF05879 RHD3: Root hair defec 24.5 1.6E+03 0.035 29.0 17.4 44 867-911 419-462 (742)
106 KOG0213 Splicing factor 3b, su 22.8 1.7E+03 0.036 29.1 14.5 38 678-715 384-425 (1172)
107 KOG2141 Protein involved in hi 22.4 6.1E+02 0.013 32.4 10.9 20 842-861 387-406 (822)
108 KOG1991 Nuclear transport rece 22.2 1.3E+03 0.029 30.6 14.1 96 801-896 463-573 (1010)
109 PF00790 VHS: VHS domain; Int 22.2 7.2E+02 0.016 24.7 9.9 36 942-977 105-140 (140)
110 PF03448 MgtE_N: MgtE intracel 21.8 1.2E+02 0.0026 27.9 4.1 85 676-761 8-93 (102)
111 KOG4369 RTK signaling protein 21.2 1.1E+03 0.024 32.0 12.9 50 132-186 1721-1772(2131)
112 PF04652 DUF605: Vta1 like; I 21.1 4.1E+02 0.0089 30.8 9.1 19 961-979 129-147 (380)
113 KOG1242 Protein containing ada 20.9 1.7E+03 0.037 27.9 17.1 28 676-703 279-306 (569)
114 PF11864 DUF3384: Domain of un 20.8 1.5E+03 0.033 27.2 17.0 259 672-952 156-463 (464)
115 KOG3759 Uncharacterized RUN do 20.4 6.9E+02 0.015 30.3 10.3 119 753-881 100-239 (621)
116 KOG1058 Vesicle coat complex C 20.3 2E+03 0.043 28.4 18.2 49 927-975 413-463 (948)
117 COG5095 TAF6 Transcription ini 20.0 1.3E+03 0.029 26.7 12.0 21 672-692 201-221 (450)
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=2.9e-69 Score=595.79 Aligned_cols=337 Identities=28% Similarity=0.375 Sum_probs=289.2
Q ss_pred cccCCCCCCccccc-CCCCCccc-cccccC-CCCCCchhHHHhhcccCccCCCCccch--------------hhhhhhhh
Q 042165 274 ATISSTPPTEEVTS-NDTDIWTK-DEVLDR-DISHSDISVIISNMKDFNTGHSNLGNQ--------------KNQAQLNV 336 (983)
Q Consensus 274 ~~~~~~~~~~g~~~-~~~~~~~~-~~~~~~-~~~~~e~~~~~~~~~~~~ls~~~~~~~--------------~~~~~~~~ 336 (983)
|+|+||+||||+|+ ..|||++. +++||+ +++++|+|||++||||||||.+++.+. ||+|+|++
T Consensus 1 R~PSp~lpPIG~Rv~s~eKk~~~g~~sfn~~SS~~~e~aDlvAALSGLNLS~~~~~~ee~~~qSqlqqdvdnqq~~lf~~ 80 (385)
T PF07990_consen 1 RAPSPCLPPIGVRVGSVEKKNNGGSSSFNGVSSGINESADLVAALSGLNLSGNRAADEENHMQSQLQQDVDNQQDFLFNV 80 (385)
T ss_pred CCCCCCCCCccccccchhcccccCCcccccccCCCCcHHHHHHHHhcCCcCcCccccccccchHHHHHHHHHhhhhhhcC
Confidence 89999999999999 77777888 889999 999999999999999999999988882 66777887
Q ss_pred c------cccccccccccccccccccCCCccccccCCCCCCCCCCCCCccccccCCCCCCC-cc--cchhccccCCCC--
Q 042165 337 H------SQVSSSSQVENAHSQVSSLGLIGTHIGMDQFHHGPSRPSTAVQPVVQSSGFTPP-LY--ASAAAYMASPNP-- 405 (983)
Q Consensus 337 ~------~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~--~~~~~~~~~~~~-- 405 (983)
| +||.++++.+++|++. +++++..+.+. .| ++.++.++.++.
T Consensus 81 q~~q~~~~Qq~~~~~se~~~l~~---------------------------~e~~~a~~~~~~s~~~~~~~s~~~~~g~~~ 133 (385)
T PF07990_consen 81 QGGQNQGNQQSYMKKSESGHLNA---------------------------PELQKAAFPSGNSYFKNSNASKLSGGGGSP 133 (385)
T ss_pred ccchhhhhhHHHhhccchhhccc---------------------------cccccccCCCccccccCCCcccccCCCCCC
Confidence 7 7788888888877641 23334444333 33 444455544442
Q ss_pred -CCCCCCCCCCCCCCcCcCcccCCCCCCCCcccCCCCCCCCCcccCC-CCCCCCCCCCCCCC----CCCCc----ccCCc
Q 042165 406 -FYSNVQAPGFYSPQYGVGGYVMNSSIGPPLVAGYPPHGGIAMVLDG-SAGPSFHPQPSGVS----TGGSV----VHGSD 475 (983)
Q Consensus 406 -~~~~~~~~~~~~~~~~~~gy~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~----~~~~~----~~~~~ 475 (983)
.|||++.++..+ +||++||+. |+||.+++++|++|++||+ +++++|+ .+|.. +++.. +..+|
T Consensus 134 ~~~q~~~~~n~~~-----~gy~~n~~~-~s~~~~~~~~gn~p~~fd~~~~~s~~~--~~~~~s~~~g~~~~s~~~~~~~d 205 (385)
T PF07990_consen 134 FPYQNSDNPNSSF-----GGYALNPAL-PSMMASQLNNGNIPPLFDNSAAASALA--SPGMDSRSLGGGLDSGGNQGASD 205 (385)
T ss_pred CcccCCCcccccc-----cccccCccc-hhhhhccccCCCCCccccccccchhhc--cCCCcccccCCcccccccccccc
Confidence 578888777766 999999998 9999999999999999999 8888887 55522 22211 33579
Q ss_pred chhhhhhhccC-CCCCCCCCCChhhhhhhcCCccccccccCCCCCCCCCCCCCCCCCCcchhhcccccchhhhhhhhccC
Q 042165 476 MQYLNKIYGQF-GFSLQPSFANPLHLQYYQQPFGEAYNISGQFEPLGSKGGVLGSHTNSHELKKGSDMAASDVQTFQHYR 554 (983)
Q Consensus 476 ~~~~~~~~~~~-~~~~~~~~~d~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 554 (983)
+|+++|+|||+ |.++|+||+||+|+||||++++++++.++++||+++|+|+|++|+|++++||+||++||++||+||+
T Consensus 206 ~~~l~r~gnq~~g~~lq~~~~DP~Y~Qylq~~~~aa~~~a~~~dP~~~R~~~G~s~~dl~~~qKayl~~lL~~QK~Qy~- 284 (385)
T PF07990_consen 206 GQNLNRFGNQVAGSALQSPFVDPLYLQYLQAPEYAAQQAAAQNDPSVDRNYMGSSYMDLLGLQKAYLEALLAQQKSQYG- 284 (385)
T ss_pred hhhhhhhcccccCcccCCCCCCchHHHHhccccchhhhhhccCCcccccCCcCccccchHHHHHHHHHHHHHHHHHhhC-
Confidence 99999999997 7999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCcccCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCC--CCCCCccccCC-CCCCCCC-----ccc
Q 042165 555 SGETENPSTSKVTVSPYHMGNPPNMGMF-VYPSSPLASPALPGSPVVGTGL--LGGRNEMRFSP-VSNRYSG-----WQG 625 (983)
Q Consensus 555 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~-~~~~~~~-----We~ 625 (983)
+|+ .|+| ++|++||| +|.||++ +||++||++||||++|+|+++| ++||| +||++ ||+ .+| |+.
T Consensus 285 ~P~----~~~~-~~n~~y~g-np~~G~gm~Y~gsplaspvlPsspvG~gsp~r~~er~-~R~~s~mRn-~~GG~~GsW~~ 356 (385)
T PF07990_consen 285 VPL----KKSG-SMNHGYYG-NPSYGLGMPYPGSPLASPVLPSSPVGPGSPLRHNERN-MRFPSGMRN-SSGGSMGSWHS 356 (385)
T ss_pred Ccc----ccCC-CCCCCCCC-CCCccccCCCCCCCCcCCCCCCCCCCCCCCCcCCccc-cccCccccc-ccccccccccc
Confidence 888 5555 89999999 6779999 9999999999999999999998 88998 99999 998 522 999
Q ss_pred cccCCCCCChhhhHHHHHHhcCcCccchHh
Q 042165 626 QRGFESYNDPKICNFLEELKSGKGRRFELS 655 (983)
Q Consensus 626 ~R~~~~~~~~~rs~lLeeL~~~~~r~~~L~ 655 (983)
++..+ +++.+.+.||||||++|+|+|||.
T Consensus 357 d~g~~-~d~~~~sSlLEEFKsNKtr~FELS 385 (385)
T PF07990_consen 357 DAGGN-MDENFASSLLEEFKSNKTRSFELS 385 (385)
T ss_pred ccccc-ccccchhHHHHHHhcCCccceecC
Confidence 99887 999999999999999999999974
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=1.8e-66 Score=593.60 Aligned_cols=342 Identities=53% Similarity=0.897 Sum_probs=325.5
Q ss_pred ChhhhHHHHHHhcC-cCccchHhhhhHHHHHhhcCCCccHHHHHhhhcCCH-HHHHHHHHHHhHhHHhhhcCccCCeeeh
Q 042165 634 DPKICNFLEELKSG-KGRRFELSDITGHIVEFSADQHGSRFIQQKLENCSV-DEKASVFKEILPHASKLMTDVFGNYVIQ 711 (983)
Q Consensus 634 ~~~rs~lLeeL~~~-~~r~~~L~eIkG~VveLs~Dq~gSRVLQklLe~~s~-Eqr~~If~EL~~~i~~L~tD~yGshVVQ 711 (983)
...+..+++...+. +.+.+.+.++.|++++++.||+|||+||+.|+.++. +++..||+||.+.+.+||+|.|||||||
T Consensus 153 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvIQ 232 (503)
T KOG1488|consen 153 STGPSFLLDPFRSNSLSKTLELVDIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVIQ 232 (503)
T ss_pred CCCCCccccccccccccccccccccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchhh
Confidence 33455566666655 567788889999999999999999999999999988 9999999999999999999999999999
Q ss_pred hhhccCCHHHHHHHHHHHHhchhhhhcccchhHHHHHHHhhcCHHHHHHHHHHHhhccccccccccCccchhhhhhcCCc
Q 042165 712 KFFEYGSPAQRKELANQLVGQILPLSMQMYGCRVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIECIPP 791 (983)
Q Consensus 712 KLLe~~s~eqr~~Iie~L~g~i~~La~h~yGSrVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~ 791 (983)
|+||+++.+++..+...+++++..||.|+|||||||++|++.+.+++.+|++||.+++++|++|++||||||||||+.+.
T Consensus 233 kffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p~ 312 (503)
T KOG1488|consen 233 KFFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLPP 312 (503)
T ss_pred hhhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccCh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHhhh--hhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCchhHHH
Q 042165 792 EKIGFIISAFCG--QVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPLERSK 869 (983)
Q Consensus 792 e~~~~Ii~~~k~--~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k~r~~ 869 (983)
+.+++|++.|.+ ++..|++|+|||+|||++||+|..+ +...++++|..++..|+.|+||||||||+|+++++.++..
T Consensus 313 ~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~-~~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~~ 391 (503)
T KOG1488|consen 313 DAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSED-QKQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDTI 391 (503)
T ss_pred HHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChH-hhhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhhh
Confidence 999999999999 9999999999999999999999854 5566999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhccChhHHHHHHHHHHhCCHHHHHHHHHHHHhCCH---HHHHHHHcCcChhHHHHHHHhcCCHHHHHHH
Q 042165 870 IIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAERELIIEEILGHNE---ETLLTMMKDQFANYVVQKIFELSSESQQAMM 946 (983)
Q Consensus 870 II~~L~g~~veLs~~K~GS~VVEk~L~~a~~keRk~IIkeLl~~~~---e~L~~La~DqyGnyVLQkLLe~~dd~~Rk~L 946 (983)
|++.|.+++++|++|||+|+|||+||.++...+|..|++|++...+ +.|..||+|+|||||||++|+.|++.+|++|
T Consensus 392 I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q~~~i 471 (503)
T KOG1488|consen 392 IIKCLLGNLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQRELI 471 (503)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHHHHHH
Confidence 9999999999999999999999999999999999999999998754 6799999999999999999999999999999
Q ss_pred HHHHHHhHHHHhhCCCchHHHHHHHHHhhc
Q 042165 947 LSRIRTHAHVLKKYTYGKHIVARFEMLIGE 976 (983)
Q Consensus 947 l~eLk~~L~~L~~~~~Gk~Vv~rlekl~~~ 976 (983)
+.+|++|+..|++++|||||+++|||+...
T Consensus 472 ~~rI~~h~~~Lrk~syGKhIia~lek~~~~ 501 (503)
T KOG1488|consen 472 KSRVKPHASRLRKFSYGKHIIAKLEKLRSK 501 (503)
T ss_pred HHHHHHHHHHHccCccHHHHHHHHHHhccc
Confidence 999999999999999999999999998754
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=4.3e-54 Score=477.18 Aligned_cols=317 Identities=57% Similarity=0.938 Sum_probs=306.3
Q ss_pred hHhhhh-HHHHHhhcCCCccHHHHHhhhcCCHHHHHHHHHHHhHhHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHh
Q 042165 653 ELSDIT-GHIVEFSADQHGSRFIQQKLENCSVDEKASVFKEILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVG 731 (983)
Q Consensus 653 ~L~eIk-G~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If~EL~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g 731 (983)
.++++. |+++++|+|++|||+||++|++++.+++.+||+++.+++.+||+|+|||||||++|++++++++..|++.+.+
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 356666 9999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhhhcccchhHHHHHHHhhcCHHHHHHHHHHHhhccccccccccCccchhhhhhcCCchhHHHHHHHhhhhhhhhccC
Q 042165 732 QILPLSMQMYGCRVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAALSMH 811 (983)
Q Consensus 732 ~i~~La~h~yGSrVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~h 811 (983)
++..|+.|+|||||||++|+.+..+++..|+++|.+++..|++|++||||+|+++++.+++.++.|++.+.+++..++.|
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 CchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHH
Q 042165 812 PYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVI 891 (983)
Q Consensus 812 k~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VV 891 (983)
++||+|+|++|+.+. ++.+..+++++.+++..|+.|+|||||||++|+.+.++.++.|++.+.+++++|+++||||+||
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 6678899999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCHHHHHHHHHHHHhCC--HHHHHHHHcCcChhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhhCCCchHHHHH
Q 042165 892 EKCLAYGGPAERELIIEEILGHN--EETLLTMMKDQFANYVVQKIFELSSESQQAMMLSRIRTHAHVLKKYTYGKHIVAR 969 (983)
Q Consensus 892 Ek~L~~a~~keRk~IIkeLl~~~--~e~L~~La~DqyGnyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~r 969 (983)
++||+.+++++|+.|+++|+... .+++.+|++|+|||||||++|+.+++..++.|+..|++++.+|+.++||++|+++
T Consensus 242 e~~l~~~~~~~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~~~~~i~~~l~~~~~~L~~~~~G~~v~~~ 321 (322)
T cd07920 242 EKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRPHLPSLRKSPYGKHILAK 321 (322)
T ss_pred HHHHHHCCHHHHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcCCCcHHHHHHh
Confidence 99999999999999999999764 3689999999999999999999999999999999999999999999999999887
Q ss_pred H
Q 042165 970 F 970 (983)
Q Consensus 970 l 970 (983)
|
T Consensus 322 ~ 322 (322)
T cd07920 322 L 322 (322)
T ss_pred C
Confidence 4
No 4
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.4e-45 Score=437.81 Aligned_cols=310 Identities=43% Similarity=0.695 Sum_probs=294.5
Q ss_pred hcCCCccHHHHHhhhcCCHHHHHHHHHHHhHhHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHhchhhhhcccchhH
Q 042165 665 SADQHGSRFIQQKLENCSVDEKASVFKEILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVGQILPLSMQMYGCR 744 (983)
Q Consensus 665 s~Dq~gSRVLQklLe~~s~Eqr~~If~EL~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g~i~~La~h~yGSr 744 (983)
++||+|||.||++|+.-+.++.+.||.|+.+...+||.|.||||||||+||+++.+||..++..+.+++..|+.|+||||
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-HHHHHHhhccccccccccCccchhhhhhcCCchhHHHHHHHhhhhhhhhccCCchhHHHHHHHH
Q 042165 745 VIQKALETIEIEQKA-QLVRELDGQVMRCVRDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAALSMHPYGCRVIQRVLE 823 (983)
Q Consensus 745 VIQklLe~as~eqr~-~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe 823 (983)
|+||+|+++..+.+. .|+++|.+.+..|++|++||||+|||++....+...+|++.+.++++.+++|+|||+|||+|+|
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 999999999877766 8899999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCchhHHHHHHHHHH-HHHhhccChhHHHHHHHHHHhCCHHH
Q 042165 824 HCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPLERSKIIRKLSG-HIVQLSQHKFASNVIEKCLAYGGPAE 902 (983)
Q Consensus 824 ~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k~r~~II~~L~g-~~veLs~~K~GS~VVEk~L~~a~~ke 902 (983)
+|..+ ..+.++++|+.+...|+.|+||||||||+|+.+.+..++.|+..+.. ++++|++|||||.||||||.++.+.+
T Consensus 607 ~~~~~-~~~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~~~~~~ 685 (777)
T COG5099 607 NCNSE-DKENLVEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKYASDSF 685 (777)
T ss_pred hccHh-HHHHHHHHHHHHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcch
Confidence 99854 56889999999999999999999999999999999999999999888 99999999999999999999998887
Q ss_pred -HHHHHHHHHhC-CH-HH-HHHHHcCcChhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHhh
Q 042165 903 -RELIIEEILGH-NE-ET-LLTMMKDQFANYVVQKIFELSSESQQAMMLSRIRTHAHVLKKYTYGKHIVARFEMLIG 975 (983)
Q Consensus 903 -Rk~IIkeLl~~-~~-e~-L~~La~DqyGnyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~rlekl~~ 975 (983)
|++|++++... .+ +. +..|+.|+||+||+|++++......|..+.+.++.++..|++.++|+||.+++|+.-.
T Consensus 686 ~~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~~s~~~~~~l~~~~i~~~~~~l~~s~~g~~i~~~le~~~~ 762 (777)
T COG5099 686 KRSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKKSMYGQHILALLEKVGS 762 (777)
T ss_pred HHHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHhhCchhhHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHhc
Confidence 59999999871 11 33 8999999999999999999999999999999999999999999999999999998754
No 5
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6e-42 Score=395.47 Aligned_cols=313 Identities=30% Similarity=0.510 Sum_probs=291.6
Q ss_pred HhhhhHHHHHhhcCCCccHHHHHhhhcCCHHHHHHHHHHHhHhHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHh--
Q 042165 654 LSDITGHIVEFSADQHGSRFIQQKLENCSVDEKASVFKEILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVG-- 731 (983)
Q Consensus 654 L~eIkG~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If~EL~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g-- 731 (983)
+.++.|.+..+|+|++|||++|+.+..++......||.|+..++.+||.|+||++++||++++|+++|+..|+..+..
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 345778999999999999999999999999999999999999999999999999999999999999999999999975
Q ss_pred -chhhhhcccchhHHHHHHHhhcC-HHHHHHHHHHHhhccccccccccCccchhhhhhcCCchhHHHHHHHhhhhhhhhc
Q 042165 732 -QILPLSMQMYGCRVIQKALETIE-IEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAALS 809 (983)
Q Consensus 732 -~i~~La~h~yGSrVIQklLe~as-~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls 809 (983)
.++.++.++||+++||++++... .+|...++..|...+..|++|.+|+||||+||.+.++++.+++++.+...+..+|
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 69999999999999999998775 4555566788999999999999999999999999999999999999999999999
Q ss_pred cCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHH
Q 042165 810 MHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASN 889 (983)
Q Consensus 810 ~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~ 889 (983)
+|++||+|||+||.... .++++.++++|..+.+.|+.|+|||||||++|+.-.......|++.|.+++++|+.+||||+
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 TDQHGCCVLQKCLDYSR-GEQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEKLRGHYVELSFQKFGSH 450 (536)
T ss_pred HhccccchhHHHhcchh-HHHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHhhhhHHHHHHHHhhccH
Confidence 99999999999999987 47899999999999999999999999999999998888889999999999999999999999
Q ss_pred HHHHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHHHhcCCH----HHHHHHHHHHHHhHHHHhhCCCchH
Q 042165 890 VIEKCLAYGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKIFELSSE----SQQAMMLSRIRTHAHVLKKYTYGKH 965 (983)
Q Consensus 890 VVEk~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkLLe~~dd----~~Rk~Ll~eLk~~L~~L~~~~~Gk~ 965 (983)
||||||+.+... +..||.||++. +.|..|+.|+|||||||++|...+. ..+..++..+++.+..|++.++|++
T Consensus 451 vVEk~L~~~~~~-~~~iV~ell~~--~~~~~Ll~D~ygNyViq~AL~vtk~~~~~~~~~~lv~~~~~~~~~lr~~p~~~~ 527 (536)
T KOG2049|consen 451 VVEKLLKVRESS-RAQIVLELLSC--DELDRLLRDPYGNYVIQTALRVTKVKLREDLFGLLVQKLMPRIRLLRNNPGGNI 527 (536)
T ss_pred HHHHHHhcCcch-hhHHHHHHHcc--ccHHHHhhCccchHHHHHHHHHhhhcccchhhHHHHHHHhhhhHHhhcCcccce
Confidence 999999986544 47899999987 6799999999999999999999886 6778899999999999999999999
Q ss_pred HHHHH
Q 042165 966 IVARF 970 (983)
Q Consensus 966 Vv~rl 970 (983)
|..+.
T Consensus 528 ~~~~~ 532 (536)
T KOG2049|consen 528 ALIKD 532 (536)
T ss_pred eeehh
Confidence 86554
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=2.6e-40 Score=366.97 Aligned_cols=301 Identities=25% Similarity=0.398 Sum_probs=286.4
Q ss_pred CCCCCChhhhHHHHHHhcC---cCccchHhhhhHHHHHhhcCCCccHHHHHhhhcCCHHHHHHHHHHHhHhHHhhhcCcc
Q 042165 629 FESYNDPKICNFLEELKSG---KGRRFELSDITGHIVEFSADQHGSRFIQQKLENCSVDEKASVFKEILPHASKLMTDVF 705 (983)
Q Consensus 629 ~~~~~~~~rs~lLeeL~~~---~~r~~~L~eIkG~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If~EL~~~i~~L~tD~y 705 (983)
.+.+.+..++++++++... +.+..+++++.+++.+++.|++|++|+|++|+++++++|..|++++.+++..|++|+|
T Consensus 13 ~~l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~ 92 (322)
T cd07920 13 VEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGHVVRLSLDMY 92 (322)
T ss_pred hhccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcccch
Confidence 3457899999999988643 5677889999999999999999999999999999999999999999999999999999
Q ss_pred CCeeehhhhccCCHHHHHHHHHHHHhchhhhhcccchhHHHHHHHhhcCHHHHHHHHHHHhhccccccccccCccchhhh
Q 042165 706 GNYVIQKFFEYGSPAQRKELANQLVGQILPLSMQMYGCRVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGNHVIQKC 785 (983)
Q Consensus 706 GshVVQKLLe~~s~eqr~~Iie~L~g~i~~La~h~yGSrVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~ 785 (983)
|+|||||+|++++++++..|++++.+++.+|+.|.+|++|||++++.++++++..|+++|.+++..++.|++|++|+|+|
T Consensus 93 g~~vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~G~~vvq~~ 172 (322)
T cd07920 93 GCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYGCRVIQRC 172 (322)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCccccHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCchhHHHHHHHhhhhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCch
Q 042165 786 IECIPPEKIGFIISAFCGQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPL 865 (983)
Q Consensus 786 Le~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k 865 (983)
|+..+++.++.|++.+.+++..|+.++||++|||++++... +..+..+++.+.+++..|+.++||++|++++|+.+.++
T Consensus 173 l~~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~-~~~~~~i~~~l~~~~~~l~~~k~Gs~Vve~~l~~~~~~ 251 (322)
T cd07920 173 LEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGD-PDDTSRIIEKLLGNIVQLSCHKFASNVVEKCLKHASKE 251 (322)
T ss_pred HHhCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCC-HHHHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHCCHH
Confidence 99999999999999999999999999999999999999976 66789999999999999999999999999999999999
Q ss_pred hHHHHHHHHH------HHHHhhccChhHHHHHHHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHH
Q 042165 866 ERSKIIRKLS------GHIVQLSQHKFASNVIEKCLAYGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKI 934 (983)
Q Consensus 866 ~r~~II~~L~------g~~veLs~~K~GS~VVEk~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkL 934 (983)
.|+.+++.|. +++.+|+.++||++||+++|+.++++.++.|+..|. +++..|+.++||+.|+.++
T Consensus 252 ~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~~~~~i~~~l~----~~~~~L~~~~~G~~v~~~~ 322 (322)
T cd07920 252 ERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIR----PHLPSLRKSPYGKHILAKL 322 (322)
T ss_pred HHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHHHHHHHHHHHH----HHHHHHcCCCcHHHHHHhC
Confidence 9999999995 589999999999999999999999999999999999 6799999999999999874
No 7
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.4e-40 Score=371.34 Aligned_cols=303 Identities=21% Similarity=0.358 Sum_probs=265.1
Q ss_pred ccccccCCCCCChhhhHHHHHHhcCcCccchHhhhhHHHHHhhcCCCccHHHHHhhhcCCHHHHHHHHHHHhHhHHhhhc
Q 042165 623 WQGQRGFESYNDPKICNFLEELKSGKGRRFELSDITGHIVEFSADQHGSRFIQQKLENCSVDEKASVFKEILPHASKLMT 702 (983)
Q Consensus 623 We~~R~~~~~~~~~rs~lLeeL~~~~~r~~~L~eIkG~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If~EL~~~i~~L~t 702 (983)
||++|+++ +++++|.+++.|+. .-++|+|.+|+..|++|||||+|+++|++++|+.||+||.|.+++||+
T Consensus 138 WEkLR~k~-~~ke~R~klv~el~---------~likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~k 207 (652)
T KOG2050|consen 138 WEKLRRKT-TPKEERDKLVSELY---------KLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAK 207 (652)
T ss_pred HHHHhccC-CcHHHHHHHHHHHH---------HHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHH
Confidence 99999999 79999999999995 459999999999999999999999999999999999999999999999
Q ss_pred CccCCeeehhhhccCCHHHHHHHHHHHHhchhhhhcccchhHHHHHHH-hhcCHHHHHHHHHHHhhccccccccccCccc
Q 042165 703 DVFGNYVIQKFFEYGSPAQRKELANQLVGQILPLSMQMYGCRVIQKAL-ETIEIEQKAQLVRELDGQVMRCVRDQNGNHV 781 (983)
Q Consensus 703 D~yGshVVQKLLe~~s~eqr~~Iie~L~g~i~~La~h~yGSrVIQklL-e~as~eqr~~Ll~EL~g~i~~L~kD~~GNhV 781 (983)
++||.|+|||||+|++++++..|+++|+||++.|++|+.|+.|++.+| ++++.+||..|++|||+..+.++++.+- ..
T Consensus 208 skY~k~~v~KmLkyGsk~q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~sn~-~T 286 (652)
T KOG2050|consen 208 SKYAKFFVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDSND-KT 286 (652)
T ss_pred hHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhccCc-cc
Confidence 999999999999999999999999999999999999999999999999 5799999999999999999999999443 44
Q ss_pred hhhhhhcCCchhHHHHHHHhhhhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhc
Q 042165 782 IQKCIECIPPEKIGFIISAFCGQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQR 861 (983)
Q Consensus 782 LQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~ 861 (983)
|.++++. .++.+..|+..++..+..+ ++... ....|+.. |+.-.|..
T Consensus 287 l~kil~~-~pekk~~I~~~l~~~I~~v-------------~eKg~---v~~tivHk----------------~mlEy~~~ 333 (652)
T KOG2050|consen 287 LDKILAE-APEKKASILRHLKAIITPV-------------AEKGS---VDHTIVHK----------------LMLEYLTI 333 (652)
T ss_pred HHHHHHh-ChHhHHHHHHHHHHHhHHH-------------hhcch---hHHHHHHH----------------HHHHHHHh
Confidence 5566655 3556677777765443332 22211 11122222 33345667
Q ss_pred CCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHHHhcCCHH
Q 042165 862 GKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKIFELSSES 941 (983)
Q Consensus 862 ~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkLLe~~dd~ 941 (983)
++++.+.++++.+.+.+.+|++++.||+|..+||+++++++|+.||+.|. +++.++|+|+|||.||..+|+++||+
T Consensus 334 ade~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K----~h~~K~A~~~yGh~vlia~ldc~DDT 409 (652)
T KOG2050|consen 334 ADEEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMK----EHVEKIANDEYGHLVLIALLDCTDDT 409 (652)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHH----HHHHHHHhhccCceehhhhhcccchH
Confidence 88999999999999999999999999999999999999999999999999 78999999999999999999999999
Q ss_pred H--HHHHHHHHHHhHHHHhhCCCchHHHHHHHHH
Q 042165 942 Q--QAMMLSRIRTHAHVLKKYTYGKHIVARFEML 973 (983)
Q Consensus 942 ~--Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~rlekl 973 (983)
. .+.|+.++..++.+|..++||++|+.++..-
T Consensus 410 ~l~kk~i~~e~~~el~~li~Dk~Grrv~lyll~p 443 (652)
T KOG2050|consen 410 KLLKKLIYDELKSELKSLISDKYGRRVILYLLAP 443 (652)
T ss_pred HHHHHHHHHHHHHHHHHHhccchhhhhhhhhccC
Confidence 4 5889999999999999999999999877644
No 8
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.6e-39 Score=369.61 Aligned_cols=265 Identities=30% Similarity=0.436 Sum_probs=242.0
Q ss_pred CCChhhhHHHHHHh---cCcCccchHhhhhHHHHHhhcCCCccHHHHHhhhcCCHHHHHHHHHHHhHhHHhhhcCccCCe
Q 042165 632 YNDPKICNFLEELK---SGKGRRFELSDITGHIVEFSADQHGSRFIQQKLENCSVDEKASVFKEILPHASKLMTDVFGNY 708 (983)
Q Consensus 632 ~~~~~rs~lLeeL~---~~~~r~~~L~eIkG~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If~EL~~~i~~L~tD~yGsh 708 (983)
|+|-|+..+++++. +.+++......++|++.+||.|.+||||||+.|++-+.++...+++||-.++..+++|++|||
T Consensus 222 ~~dvFGNyvIQkffE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnH 301 (503)
T KOG1488|consen 222 MTDVFGNYVIQKFFEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNH 301 (503)
T ss_pred HHHHhcCchhhhhhccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccce
Confidence 56666666776654 234455666678999999999999999999999999999999999999889999999999999
Q ss_pred eehhhhccCCHHHHHHHHHHHHh--chhhhhcccchhHHHHHHHhhcCHHHHHHHHHHHhhccccccccccCccchhhhh
Q 042165 709 VIQKFFEYGSPAQRKELANQLVG--QILPLSMQMYGCRVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGNHVIQKCI 786 (983)
Q Consensus 709 VVQKLLe~~s~eqr~~Iie~L~g--~i~~La~h~yGSrVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~L 786 (983)
||||+||..+++....|++.|.+ ++..|+.|+|||||||.+||.|..+++..+++||..++..|+.|+|||||||++|
T Consensus 302 ViQK~ie~~p~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~~~L~~dQygNYVIQHVi 381 (503)
T KOG1488|consen 302 VIQKCIETLPPDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSEDQKQPLMEEIIRNCDQLAQDQYGNYVIQHVI 381 (503)
T ss_pred ehhhhhhccChHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChHhhhHHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence 99999999999999999999998 9999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCchhHHHHHHHhhhhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHH-------HHHHhhCcCccHHHHHHH
Q 042165 787 ECIPPEKIGFIISAFCGQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDN-------VCALAQDQYGNYVTQHVL 859 (983)
Q Consensus 787 e~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~-------l~~La~DqyGNyVVQ~LL 859 (983)
+++.++.+..|++.+.++++.+++|||+++|||+||.++. ..++..|++||.+. +..|+.|+|||||||++|
T Consensus 382 e~g~~~~~~~I~~~l~~~ll~~Sq~KfASnVVEk~~~~a~-~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi 460 (503)
T KOG1488|consen 382 EHGSPYRDTIIIKCLLGNLLSMSQHKFASNVVEKAFLFAP-PLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMI 460 (503)
T ss_pred hcCChhhhhhHHHHHHhhHHHHHHHHHHHHHHHHHHhhCC-HHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHH
Confidence 9999988889999999999999999999999999999987 56789999999863 778999999999999999
Q ss_pred hcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHh
Q 042165 860 QRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAY 897 (983)
Q Consensus 860 e~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~ 897 (983)
+.+.+.+|+.|+..++.|+..|-..+||-|+++++=++
T Consensus 461 ~~~~~~q~~~i~~rI~~h~~~Lrk~syGKhIia~lek~ 498 (503)
T KOG1488|consen 461 DICGPEQRELIKSRVKPHASRLRKFSYGKHIIAKLEKL 498 (503)
T ss_pred HhcCHHHHHHHHHHHHHHHHHHccCccHHHHHHHHHHh
Confidence 99999999999999999999999999999999886443
No 9
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=2.3e-28 Score=295.07 Aligned_cols=237 Identities=24% Similarity=0.396 Sum_probs=217.3
Q ss_pred hcccchhHHHHHHHhhcCHHHHHHHHHHHhhccccccccccCccchhhhhhcCCchhHHHHHHHhhhhhhhhccCCchhH
Q 042165 737 SMQMYGCRVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAALSMHPYGCR 816 (983)
Q Consensus 737 a~h~yGSrVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~ 816 (983)
+.|.+|||-||+.++....++...++.|+...+.+|+.|.+||||+|||+|++..+++..++..+.+++..++.|+|||+
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 78999999999999988888888889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHH
Q 042165 817 VIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLA 896 (983)
Q Consensus 817 VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~ 896 (983)
|+|++|+...++.+...|++++.+++..|++|++||+|+|+|++....+....|++.+.+++.++++++|||+||++||+
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 99999999988888778999999999999999999999999999999888999999999999999999999999999999
Q ss_pred hCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHHHhcCCHHHHHHHHHHHHH-hHHHHhhCCCchHHHHHHHHHhh
Q 042165 897 YGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKIFELSSESQQAMMLSRIRT-HAHVLKKYTYGKHIVARFEMLIG 975 (983)
Q Consensus 897 ~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkLLe~~dd~~Rk~Ll~eLk~-~L~~L~~~~~Gk~Vv~rlekl~~ 975 (983)
++..++.+.|+++|+ .....|++|+||+|||||+|+......++.|+..+.. ++.+|.+++||+.||+||.+++.
T Consensus 607 ~~~~~~~~~~~~~Ii----~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~~~ 682 (777)
T COG5099 607 NCNSEDKENLVEEII----SNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKYAS 682 (777)
T ss_pred hccHhHHHHHHHHHH----HHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 999999999999999 5678999999999999999999988888888888777 89999999999999888888775
Q ss_pred cc
Q 042165 976 EE 977 (983)
Q Consensus 976 ~~ 977 (983)
+.
T Consensus 683 ~~ 684 (777)
T COG5099 683 DS 684 (777)
T ss_pred cc
Confidence 43
No 10
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=1.3e-27 Score=276.91 Aligned_cols=280 Identities=21% Similarity=0.317 Sum_probs=256.2
Q ss_pred HHHHHhHhHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHhchhhhhcccchhHHHHHHHhhcCHHHHHHHHHHHhh-
Q 042165 689 VFKEILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVGQILPLSMQMYGCRVIQKALETIEIEQKAQLVRELDG- 767 (983)
Q Consensus 689 If~EL~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g~i~~La~h~yGSrVIQklLe~as~eqr~~Ll~EL~g- 767 (983)
...++...+..+++|++|++++|++++.++......|..++..++.+|..+++|..++|+++++++.+|+.+|+.-+..
T Consensus 211 ~~~~~~~~~~~~akd~~gc~~lq~~~~~~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~ 290 (536)
T KOG2049|consen 211 SMVEIQGSINLIAKDQHGCRLLQKLLSEGTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSD 290 (536)
T ss_pred hhhccchhhhhhcccccCCcccccCcccCccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcC
Confidence 3556668999999999999999999999999999999999999999999999999999999999999999999988866
Q ss_pred --ccccccccccCccchhhhhhcCCc-hhHHHHHHHhhhhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q 042165 768 --QVMRCVRDQNGNHVIQKCIECIPP-EKIGFIISAFCGQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVCA 844 (983)
Q Consensus 768 --~i~~L~kD~~GNhVLQk~Le~~~~-e~~~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~ 844 (983)
.++.++.+.+|..++|++++..+. +++..++++++..+..|.+++||.+|||+||+... +...+.+.+.+.++...
T Consensus 291 p~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~-~~~~~~l~e~i~~~c~~ 369 (536)
T KOG2049|consen 291 PRLFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDKNGNHVIQRCLRVFS-KEKNEFLYEAILRYCLD 369 (536)
T ss_pred ccceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhcchhHHHHHHHHhcC-chhhhHHHHHHHHHHHH
Confidence 588999999999999999998654 46788899999999999999999999999999876 56788899999999999
Q ss_pred HhhCcCccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcC
Q 042165 845 LAQDQYGNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAERELIIEEILGHNEETLLTMMKD 924 (983)
Q Consensus 845 La~DqyGNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a~~keRk~IIkeLl~~~~e~L~~La~D 924 (983)
+|.|++|+.|+|+||......+|+.+++.+..+...|+.+.||-+||+.+++.-.......|+..|.+ +..+|+..
T Consensus 370 iA~~~hGCcvLq~cl~~~~~~~rd~Lv~~i~~naL~Ls~d~~GNyvVQyvl~L~~~~~t~~i~~~L~g----~~veLS~q 445 (536)
T KOG2049|consen 370 LATDQHGCCVLQKCLDYSRGEQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEKLRG----HYVELSFQ 445 (536)
T ss_pred HHHhccccchhHHHhcchhHHHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHhhhh----HHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999998777777889999984 58999999
Q ss_pred cChhHHHHHHHhcCCHHHHHHHHHHHHH--hHHHHhhCCCchHHHHHHHHHh
Q 042165 925 QFANYVVQKIFELSSESQQAMMLSRIRT--HAHVLKKYTYGKHIVARFEMLI 974 (983)
Q Consensus 925 qyGnyVLQkLLe~~dd~~Rk~Ll~eLk~--~L~~L~~~~~Gk~Vv~rlekl~ 974 (983)
+||+|||+|+|++..... ..|+.+|.. ++..|..++||..|+.+....-
T Consensus 446 KfgS~vVEk~L~~~~~~~-~~iV~ell~~~~~~~Ll~D~ygNyViq~AL~vt 496 (536)
T KOG2049|consen 446 KFGSHVVEKLLKVRESSR-AQIVLELLSCDELDRLLRDPYGNYVIQTALRVT 496 (536)
T ss_pred hhccHHHHHHHhcCcchh-hHHHHHHHccccHHHHhhCccchHHHHHHHHHh
Confidence 999999999999976553 667777776 9999999999999998877654
No 11
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=1.2e-25 Score=258.54 Aligned_cols=317 Identities=18% Similarity=0.308 Sum_probs=257.3
Q ss_pred hHhhhhHHHHHhhcCCCccHHHHHhhhcCCHHHHHHHHHHHhHhHHhhhcCccCCeeehhhhccCC--------------
Q 042165 653 ELSDITGHIVEFSADQHGSRFIQQKLENCSVDEKASVFKEILPHASKLMTDVFGNYVIQKFFEYGS-------------- 718 (983)
Q Consensus 653 ~L~eIkG~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If~EL~~~i~~L~tD~yGshVVQKLLe~~s-------------- 718 (983)
+++|..|++.++++++.+|+++|.++..++..|.+.+|.++.+++..+++|+||+||+|++|+...
T Consensus 93 i~ee~~grel~l~tnqi~Sk~le~l~~f~d~~ql~~ff~~~~g~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s~de 172 (650)
T KOG2188|consen 93 IFEEVYGRELDLATNQIGSKVLEDLLGFSDSRQLCDFFSALNGVLRSIAQHRFGSHVLESALEKLAALVGQEAALLSEDE 172 (650)
T ss_pred HHHHhccceeehhccchhHHHHHHHhccCCchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccchhh
Confidence 688999999999999999999999999999999999999999999999999999999999997631
Q ss_pred ------------HHHHHHHHHHHHhchh-hhhcccchhHHHHHHHhhcCHH------------HH---------------
Q 042165 719 ------------PAQRKELANQLVGQIL-PLSMQMYGCRVIQKALETIEIE------------QK--------------- 758 (983)
Q Consensus 719 ------------~eqr~~Iie~L~g~i~-~La~h~yGSrVIQklLe~as~e------------qr--------------- 758 (983)
++....+++++.+++. .|+.|.+|+||+.+++..+... ++
T Consensus 173 a~~~ke~p~~t~e~~~~~m~nei~~~~~~~l~~~~~gshv~rt~~l~l~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (650)
T KOG2188|consen 173 AAVEKEGPFVTCENLLLLMLNEISPHVLKTLMELIFGSHVLRTILLLLFSMCPIAESEHKLALRKAAHRGMDDWDAVTTP 252 (650)
T ss_pred hcccccCcccccchHHHHHHHHhhHHHHHHHHHHHHhHHHHHHHHHHHccCcchhhhHHHHHHHHHhhccccchhhhhcC
Confidence 1345677788999998 9999999999999887544310 00
Q ss_pred --------------------------------------------HHHHHHHh----h-----------------------
Q 042165 759 --------------------------------------------AQLVRELD----G----------------------- 767 (983)
Q Consensus 759 --------------------------------------------~~Ll~EL~----g----------------------- 767 (983)
..|.-.+. +
T Consensus 253 pqsFp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~d~~~~ 332 (650)
T KOG2188|consen 253 PQSFPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMESPRLVTKFQLFNEKDGLWG 332 (650)
T ss_pred hhhccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhhhhHHHhhhhccccCcccc
Confidence 00000000 0
Q ss_pred ----ccccccccccCccchhhhhhcCCchhHHHHHHHhhhhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q 042165 768 ----QVMRCVRDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVC 843 (983)
Q Consensus 768 ----~i~~L~kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~ 843 (983)
....+..|+.|++++..+++.+.++....+...|++++.+|+.|++++.+||++|++..+.+....|++++..++.
T Consensus 333 kE~~~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~ 412 (650)
T KOG2188|consen 333 KERSFLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLS 412 (650)
T ss_pred cccHHHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHH
Confidence 0112566899999999999999999887777889999999999999999999999999988888889988776533
Q ss_pred HHhh-----------------------------------------------------------------CcCccHHHHHH
Q 042165 844 ALAQ-----------------------------------------------------------------DQYGNYVTQHV 858 (983)
Q Consensus 844 ~La~-----------------------------------------------------------------DqyGNyVVQ~L 858 (983)
.|.. |+-|+.++|++
T Consensus 413 ~LL~~g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~l 492 (650)
T KOG2188|consen 413 SLLEQGNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEEL 492 (650)
T ss_pred HHHHcCCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHHHHH
Confidence 3221 22445555555
Q ss_pred HhcCCch---hHHHHHHHHHHHHHhhccChhHHHHHHHHHHh--CCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHH
Q 042165 859 LQRGKPL---ERSKIIRKLSGHIVQLSQHKFASNVIEKCLAY--GGPAERELIIEEILGHNEETLLTMMKDQFANYVVQK 933 (983)
Q Consensus 859 Le~~~~k---~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~--a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQk 933 (983)
+...++. ....+.....+++.++|++.+||||||++|.. .+++.|++||..|-+. ..+|+++.+|++|+.|
T Consensus 493 v~f~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~----~~~La~~~~GSrv~eK 568 (650)
T KOG2188|consen 493 VNFSKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGS----FVTLALSTFGSRVFEK 568 (650)
T ss_pred HhhchhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhcc----chheeecCcccHHHHH
Confidence 5554432 22334455568999999999999999999987 7888999999888754 7899999999999999
Q ss_pred HHhcCCHHHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHH
Q 042165 934 IFELSSESQQAMMLSRIRTHAHVLKKYTYGKHIVARFEML 973 (983)
Q Consensus 934 LLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~rlekl 973 (983)
+|+.+++..|+.|+++|...-..++.++|||.|+.++.--
T Consensus 569 ~wea~~~~~k~rIakeL~~~~~~vk~s~~gk~v~~~~~l~ 608 (650)
T KOG2188|consen 569 CWEATDVLYKERIAKELVGIHNDVKSSKYGKFVMLNWDLE 608 (650)
T ss_pred HHHHhhHHHHHHHHHHHHhhccccccCcchHHHHHhccHH
Confidence 9999999999999999999999999999999999876533
No 12
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.84 E-value=6.6e-20 Score=211.66 Aligned_cols=287 Identities=16% Similarity=0.257 Sum_probs=219.8
Q ss_pred HHHHHHHhHhHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHhchhhhhcccchhHHHHHHHhhcC------------
Q 042165 687 ASVFKEILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVGQILPLSMQMYGCRVIQKALETIE------------ 754 (983)
Q Consensus 687 ~~If~EL~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g~i~~La~h~yGSrVIQklLe~as------------ 754 (983)
+.||+|..+...+|++++.+++++|+++..|+..|...++.++.+++..+++|++|+||+|++|+.+.
T Consensus 91 n~i~ee~~grel~l~tnqi~Sk~le~l~~f~d~~ql~~ff~~~~g~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s~ 170 (650)
T KOG2188|consen 91 NSIFEEVYGRELDLATNQIGSKVLEDLLGFSDSRQLCDFFSALNGVLRSIAQHRFGSHVLESALEKLAALVGQEAALLSE 170 (650)
T ss_pred hhHHHHhccceeehhccchhHHHHHHHhccCCchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccch
Confidence 45899999999999999999999999999999999999999999999999999999999999997542
Q ss_pred --------------HHHHHHHHHHHhhccc-cccccccCccchhhhhhcCCch----h----------------------
Q 042165 755 --------------IEQKAQLVRELDGQVM-RCVRDQNGNHVIQKCIECIPPE----K---------------------- 793 (983)
Q Consensus 755 --------------~eqr~~Ll~EL~g~i~-~L~kD~~GNhVLQk~Le~~~~e----~---------------------- 793 (983)
++...-|+.++.+++. .++.+.+|.||+.++|.+.... .
T Consensus 171 dea~~~ke~p~~t~e~~~~~m~nei~~~~~~~l~~~~~gshv~rt~~l~l~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (650)
T KOG2188|consen 171 DEAAVEKEGPFVTCENLLLLMLNEISPHVLKTLMELIFGSHVLRTILLLLFSMCPIAESEHKLALRKAAHRGMDDWDAVT 250 (650)
T ss_pred hhhcccccCcccccchHHHHHHHHhhHHHHHHHHHHHHhHHHHHHHHHHHccCcchhhhHHHHHHHHHhhccccchhhhh
Confidence 1112345667777777 7888888888888776542210 0
Q ss_pred --------------------------------H------------HHHH-HHh--------h------------------
Q 042165 794 --------------------------------I------------GFII-SAF--------C------------------ 802 (983)
Q Consensus 794 --------------------------------~------------~~Ii-~~~--------k------------------ 802 (983)
+ +.++ -.+ .
T Consensus 251 ~~pqsFp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~d~~ 330 (650)
T KOG2188|consen 251 TPPQSFPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMESPRLVTKFQLFNEKDGL 330 (650)
T ss_pred cChhhccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhhhhHHHhhhhccccCcc
Confidence 0 0000 000 0
Q ss_pred -----hhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCC-chhHHHHHHHHHH
Q 042165 803 -----GQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGK-PLERSKIIRKLSG 876 (983)
Q Consensus 803 -----~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~-~k~r~~II~~L~g 876 (983)
..+..+..|+.|+++++.+++.|... ....+...+...+..|+.++.+||+||++|++.+ .++...|++.|.+
T Consensus 331 ~~kE~~~~k~~l~d~tgSrllE~Imeva~~~-~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P 409 (650)
T KOG2188|consen 331 WGKERSFLKELLSDQTGSRLLEVIMEVASES-LLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAP 409 (650)
T ss_pred cccccHHHHHHHhcCcccHHHHHHHHhcCHH-HHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhH
Confidence 00122334678888888888888744 3466667777889999999999999999999987 7888889988877
Q ss_pred HHHhhccChh-----------------------------------------------------------------HHHHH
Q 042165 877 HIVQLSQHKF-----------------------------------------------------------------ASNVI 891 (983)
Q Consensus 877 ~~veLs~~K~-----------------------------------------------------------------GS~VV 891 (983)
++-.|..+.+ |+-++
T Consensus 410 ~~~~LL~~g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~ll 489 (650)
T KOG2188|consen 410 KLSSLLEQGNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLL 489 (650)
T ss_pred HHHHHHHcCCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHH
Confidence 7666644332 34444
Q ss_pred HHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHHHhc--CCHHHHHHHHHHHHHhHHHHhhCCCchHHHHH
Q 042165 892 EKCLAYGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKIFEL--SSESQQAMMLSRIRTHAHVLKKYTYGKHIVAR 969 (983)
Q Consensus 892 Ek~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkLLe~--~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~r 969 (983)
|.++.+. .+..+.+|..|+....++|.+++++.+|++||+.+|+. .+...+++|+..+..+..+|+.+++|+||+++
T Consensus 490 e~lv~f~-k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~eK 568 (650)
T KOG2188|consen 490 EELVNFS-KTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVFEK 568 (650)
T ss_pred HHHHhhc-hhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHHHH
Confidence 4444442 22334455566655568999999999999999999999 55778999999999999999999999999999
Q ss_pred HHHHhh
Q 042165 970 FEMLIG 975 (983)
Q Consensus 970 lekl~~ 975 (983)
|-+-++
T Consensus 569 ~wea~~ 574 (650)
T KOG2188|consen 569 CWEATD 574 (650)
T ss_pred HHHHhh
Confidence 987765
No 13
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.83 E-value=3.1e-19 Score=204.28 Aligned_cols=254 Identities=17% Similarity=0.283 Sum_probs=212.1
Q ss_pred CCHHHHHHHHHH----HHhchhhhhcccchhHHHHHHHhhcCHHHHHHHHHHHhhccccccccccCccchhhhhhcCCch
Q 042165 717 GSPAQRKELANQ----LVGQILPLSMQMYGCRVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIECIPPE 792 (983)
Q Consensus 717 ~s~eqr~~Iie~----L~g~i~~La~h~yGSrVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e 792 (983)
++.+.|..++.+ +++++.+|+..+..+||||+++.+++..+|.+|+.||.+.++.|++..||.|++|++|.++.+.
T Consensus 146 ~~ke~R~klv~el~~likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~ 225 (652)
T KOG2050|consen 146 TPKEERDKLVSELYKLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKA 225 (652)
T ss_pred CcHHHHHHHHHHHHHHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHH
Confidence 345566555544 4688899999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhhhhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCchhHHHHHH
Q 042165 793 KIGFIISAFCGQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPLERSKIIR 872 (983)
Q Consensus 793 ~~~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k~r~~II~ 872 (983)
++..||..|.+++..|..|+.|+.|++..+.......|++.|+.|+......+..+. --..|..+++. .++.+..|++
T Consensus 226 q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~s-n~~Tl~kil~~-~pekk~~I~~ 303 (652)
T KOG2050|consen 226 QKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDS-NDKTLDKILAE-APEKKASILR 303 (652)
T ss_pred HHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhcc-CcccHHHHHHh-ChHhHHHHHH
Confidence 999999999999999999999999999888887778889999999999888888883 23344555554 3556677777
Q ss_pred HHHHHHHhhccCh-----hHHHHHHHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHHHhcCCHHHHHHHH
Q 042165 873 KLSGHIVQLSQHK-----FASNVIEKCLAYGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKIFELSSESQQAMML 947 (983)
Q Consensus 873 ~L~g~~veLs~~K-----~GS~VVEk~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkLLe~~dd~~Rk~Ll 947 (983)
.|.+.+..++... .=+.++...|.+|+.+++..++..+. +.+..|+..+-|+.|-.+++...+.+.|+.|+
T Consensus 304 ~l~~~I~~v~eKg~v~~tivHk~mlEy~~~ade~e~~e~l~ll~----elv~e~vHT~dGS~vAm~li~~a~aKeRK~Ii 379 (652)
T KOG2050|consen 304 HLKAIITPVAEKGSVDHTIVHKLMLEYLTIADEEEKSELLELLK----ELVPEMVHTRDGSRVAMKLIWHATAKERKLII 379 (652)
T ss_pred HHHHHhHHHhhcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH----HHHHHHhcCCchHHHHHHHHhhCCHHHHHHHH
Confidence 7777666554322 23556666778899999999988877 77999999999999999999999999999999
Q ss_pred HHHHHhHHHHhhCCCchHHHHHHHHHhhc
Q 042165 948 SRIRTHAHVLKKYTYGKHIVARFEMLIGE 976 (983)
Q Consensus 948 ~eLk~~L~~L~~~~~Gk~Vv~rlekl~~~ 976 (983)
+.|+.|+..++++.||+.|+-.+..|+++
T Consensus 380 K~~K~h~~K~A~~~yGh~vlia~ldc~DD 408 (652)
T KOG2050|consen 380 KNMKEHVEKIANDEYGHLVLIALLDCTDD 408 (652)
T ss_pred HHHHHHHHHHHhhccCceehhhhhcccch
Confidence 99999999999999999999888887754
No 14
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.58 E-value=3.8e-15 Score=175.40 Aligned_cols=288 Identities=22% Similarity=0.268 Sum_probs=222.6
Q ss_pred HHHHHHHHHHHhHhHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHhchhhhhcccchhHHHHHHHhhcC-HHHHHHH
Q 042165 683 VDEKASVFKEILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVGQILPLSMQMYGCRVIQKALETIE-IEQKAQL 761 (983)
Q Consensus 683 ~Eqr~~If~EL~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g~i~~La~h~yGSrVIQklLe~as-~eqr~~L 761 (983)
..+.+.+.-++.++..+|..|-.|+-|+||+|+++....+..+.+....++..+..|++|.++.|++++.+. +.+.+.+
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 345555666777888889999999999999999999999999999999999999999999999999999775 4456666
Q ss_pred HHHHhhccccccccccCccchhhhhhcCCchhHHHHHHHhhhhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHH--H
Q 042165 762 VRELDGQVMRCVRDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEI--L 839 (983)
Q Consensus 762 l~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eL--l 839 (983)
++-.++....++.|++||||+|.+|...-+.. .+|++.+..+++.+.+..||++-+.+||+...-..+.+.+..+. +
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 78888888899999999999999999865543 78889999999999999999999999999654333333333332 2
Q ss_pred HHHHHHhhCcCccHHHHHHHhcCCchhHH-HHHHHHHHHHHhhccChhHHHHHHHHHHhCCHHH-HHHHHHHHHhCCH--
Q 042165 840 DNVCALAQDQYGNYVTQHVLQRGKPLERS-KIIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAE-RELIIEEILGHNE-- 915 (983)
Q Consensus 840 ~~l~~La~DqyGNyVVQ~LLe~~~~k~r~-~II~~L~g~~veLs~~K~GS~VVEk~L~~a~~ke-Rk~IIkeLl~~~~-- 915 (983)
...-.++.+..|-..|.++|+.+....|. .++..+.++++++|+|+.|+-+|.|+++++.+.+ |++|++.|+....
T Consensus 693 s~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n~k 772 (1007)
T KOG4574|consen 693 SKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLRNFK 772 (1007)
T ss_pred hchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhccccc
Confidence 33567889999999999999977654443 4556778999999999999999999999975554 9999999983211
Q ss_pred ------------------------HHHHHHHcCcChhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhhCCCchHHHHHHH
Q 042165 916 ------------------------ETLLTMMKDQFANYVVQKIFELSSESQQAMMLSRIRTHAHVLKKYTYGKHIVARFE 971 (983)
Q Consensus 916 ------------------------e~L~~La~DqyGnyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~rle 971 (983)
+.+.....|+++.+|.|.|+....... ..+.+|...+.-++..++|++-+..+.
T Consensus 773 d~~lt~Vl~~~~~gpmfiikvi~~p~iel~f~dQf~kvvrq~il~~~a~~n--arv~~LleevgliSasksgs~s~q~~~ 850 (1007)
T KOG4574|consen 773 DSALTEVLTEANYGPMFIIKVITKPTIELAFRDQFIKVVRQVILNSPAVSN--ARVQRLLEEVGLISASKSGSQSIQMHI 850 (1007)
T ss_pred cchhhhhhhhhccccceeeeeeccccchHHHHHHHHHHHHHHHHhcCCccH--HHHHHHHHHHhhhccccchhHHHHhhh
Confidence 234455567777777777776643221 111344555566677788888665554
Q ss_pred HH
Q 042165 972 ML 973 (983)
Q Consensus 972 kl 973 (983)
+-
T Consensus 851 ss 852 (1007)
T KOG4574|consen 851 SS 852 (1007)
T ss_pred cc
Confidence 43
No 15
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.14 E-value=7.3e-11 Score=139.94 Aligned_cols=270 Identities=14% Similarity=0.213 Sum_probs=174.8
Q ss_pred HHHHHhhcCCCccHHHHHhhhcC-CHHHHHHHHHHHhHhHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHhchhhhh
Q 042165 659 GHIVEFSADQHGSRFIQQKLENC-SVDEKASVFKEILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVGQILPLS 737 (983)
Q Consensus 659 G~VveLs~Dq~gSRVLQklLe~~-s~Eqr~~If~EL~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g~i~~La 737 (983)
..+.....+.+|....|++++.. ++.+.+.|+.-+.+....|..|+||+||+|.+|+.+-+ -...|++.+..|+.++.
T Consensus 582 ~ylts~gvHknGtw~~qk~ik~a~te~qik~iv~g~dpyc~~l~~dqfgnyvaqd~LkF~fp-~nsFVfE~v~s~~~~iv 660 (1007)
T KOG4574|consen 582 KYLTSMGVHKNGTWACQKIIKMAFTERQIKLIVRGVDPYCTPLLNDQFGNYVAQDSLKFGFP-WNSFVFESVFSHFWDIV 660 (1007)
T ss_pred hhhhhccccccchHHHHHHHHHhhchhhhheeeeccCcchhhHHHHhhcceeeeeehhccCc-cchHHHHHHHHHHHHHH
Confidence 34555667788889999999887 45678888888888888999999999999999988655 34456788889999999
Q ss_pred cccchhHHHHHHHhhcC--HHHHHHHHHH-HhhccccccccccCccchhhhhhcCCchhHHHH-HHHhhhhhhhhccCCc
Q 042165 738 MQMYGCRVIQKALETIE--IEQKAQLVRE-LDGQVMRCVRDQNGNHVIQKCIECIPPEKIGFI-ISAFCGQVAALSMHPY 813 (983)
Q Consensus 738 ~h~yGSrVIQklLe~as--~eqr~~Ll~E-L~g~i~~L~kD~~GNhVLQk~Le~~~~e~~~~I-i~~~k~~l~~Ls~hk~ 813 (983)
..+||++.+.++|+..+ .++....++. +....-.+..+.+|-.+|.++|+.+..-.+..+ +..+.+++.++|.|+.
T Consensus 661 QsrfGsravrAcle~lNa~~e~qsl~~~s~iIs~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~L 740 (1007)
T KOG4574|consen 661 QSRFGSRAVRACLEALNANTEDQSLVRESCIISKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKL 740 (1007)
T ss_pred HHhhhhHHHHHHHHHhccCchhhhhhhhhhhhhchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhc
Confidence 99999999999997654 3333333332 223344566778888888888886544333333 3556689999999999
Q ss_pred hhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCchhHHHHHHHHHHH-HHhhccChhHHHHHH
Q 042165 814 GCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPLERSKIIRKLSGH-IVQLSQHKFASNVIE 892 (983)
Q Consensus 814 GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k~r~~II~~L~g~-~veLs~~K~GS~VVE 892 (983)
|+.+++++++.|.+++.+++|+ +++..+...+.+ ++..++. ....--..|++.+... +.....++++-.|.+
T Consensus 741 gsttv~Kl~n~~qepvs~ekii----~hlf~~~n~kd~--~lt~Vl~-~~~~gpmfiikvi~~p~iel~f~dQf~kvvrq 813 (1007)
T KOG4574|consen 741 GSTTVLKLLNLRQEPVSREKII----EHLFHLRNFKDS--ALTEVLT-EANYGPMFIIKVITKPTIELAFRDQFIKVVRQ 813 (1007)
T ss_pred cchhhhhhhhcCCChHHHHHHH----HHHhhccccccc--hhhhhhh-hhccccceeeeeeccccchHHHHHHHHHHHHH
Confidence 9999999999999887455444 444444444444 2222222 1111122333333222 222334455556666
Q ss_pred HHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHHHhcCCHHH
Q 042165 893 KCLAYGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKIFELSSESQ 942 (983)
Q Consensus 893 k~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkLLe~~dd~~ 942 (983)
.|+...-.-. .. +..|+ +.+.-++...+|.+-+|.+++..++..
T Consensus 814 ~il~~~a~~n-ar-v~~Ll----eevgliSasksgs~s~q~~~sss~~~~ 857 (1007)
T KOG4574|consen 814 VILNSPAVSN-AR-VQRLL----EEVGLISASKSGSQSIQMHISSSKTPF 857 (1007)
T ss_pred HHHhcCCccH-HH-HHHHH----HHHhhhccccchhHHHHhhhccCCccc
Confidence 6665532211 11 14444 445567777777777777777766553
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=97.87 E-value=3.5e-06 Score=64.21 Aligned_cols=29 Identities=45% Similarity=0.713 Sum_probs=12.0
Q ss_pred HhHHhhhcCccCCeeehhhhccCCHHHHH
Q 042165 695 PHASKLMTDVFGNYVIQKFFEYGSPAQRK 723 (983)
Q Consensus 695 ~~i~~L~tD~yGshVVQKLLe~~s~eqr~ 723 (983)
+++.+|++|+||||||||+|++++++++.
T Consensus 4 ~~~~~l~~d~~Gn~VvQk~le~~~~~~~~ 32 (35)
T PF00806_consen 4 GNLVELSKDQYGNYVVQKCLEHASPEQRQ 32 (35)
T ss_dssp TTHHHHHTSTTHHHHHHHHHHHSSHHHHH
T ss_pred HHHHHHHhccccCHHHHHHHHHCCHHHHH
Confidence 34444444444444444444444443333
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=97.59 E-value=4.9e-05 Score=57.91 Aligned_cols=35 Identities=34% Similarity=0.603 Sum_probs=32.3
Q ss_pred hhhHHHHHhhcCCCccHHHHHhhhcCCHHHHHHHH
Q 042165 656 DITGHIVEFSADQHGSRFIQQKLENCSVDEKASVF 690 (983)
Q Consensus 656 eIkG~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If 690 (983)
++.+++.+|++|++||||||++|+.++.+++..|+
T Consensus 1 ~i~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~il 35 (35)
T PF00806_consen 1 EIKGNLVELSKDQYGNYVVQKCLEHASPEQRQLIL 35 (35)
T ss_dssp CHTTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHHH
T ss_pred ChHHHHHHHHhccccCHHHHHHHHHCCHHHHHhhC
Confidence 47789999999999999999999999999998875
No 18
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.46 E-value=3.4e-05 Score=57.98 Aligned_cols=33 Identities=36% Similarity=0.669 Sum_probs=17.6
Q ss_pred hHHHHHhhcCCCccHHHHHhhhcCCHHHHHHHH
Q 042165 658 TGHIVEFSADQHGSRFIQQKLENCSVDEKASVF 690 (983)
Q Consensus 658 kG~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If 690 (983)
++++.+|++|++||||||++|+.++.+++..|+
T Consensus 3 ~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 3 KGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred hHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 445555555555555555555555555554443
No 19
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.40 E-value=0.00012 Score=55.01 Aligned_cols=34 Identities=38% Similarity=0.561 Sum_probs=31.5
Q ss_pred HhHhHHhhhcCccCCeeehhhhccCCHHHHHHHH
Q 042165 693 ILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELA 726 (983)
Q Consensus 693 L~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Ii 726 (983)
+.+++.+|++|+||+|||||+|++++++++..|+
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 5689999999999999999999999999988876
No 20
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=95.21 E-value=6 Score=45.50 Aligned_cols=120 Identities=12% Similarity=0.136 Sum_probs=60.3
Q ss_pred CcCccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhC-----CHHHHHHHHHHHHhCCHHHHHHHH
Q 042165 848 DQYGNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYG-----GPAERELIIEEILGHNEETLLTMM 922 (983)
Q Consensus 848 DqyGNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a-----~~keRk~IIkeLl~~~~e~L~~La 922 (983)
..-|...+-.+|...+....+.|++.|...=.+ .+-.|-+++|.+. +++..+.|++++- ...+.+|
T Consensus 200 ~~~g~~~~a~Iln~~~~~~~~~il~~L~~~d~~-----~a~~Ir~~mF~Fedl~~l~~~~l~~ll~~v~----~~~L~~A 270 (339)
T PRK05686 200 KMGGVKTVAEILNNLDRQTEKTILESLEEEDPE-----LAEKIKDLMFVFEDLVDLDDRSIQRLLREVD----NDVLALA 270 (339)
T ss_pred ccCcHHHHHHHHhcCCchHHHHHHHHHHhhCHH-----HHHHHHHHhcCHHHHhcCCHHHHHHHHHhCC----HHHHHHH
Confidence 345667778888888888888888888754333 3346666666653 3333333333332 2233333
Q ss_pred cCcChhHHHHHHHhcCCHHHHHHHHHHHHH----hHHHHhhCCCchHHHHHHHHHhhccc
Q 042165 923 KDQFANYVVQKIFELSSESQQAMMLSRIRT----HAHVLKKYTYGKHIVARFEMLIGEEN 978 (983)
Q Consensus 923 ~DqyGnyVLQkLLe~~dd~~Rk~Ll~eLk~----~L~~L~~~~~Gk~Vv~rlekl~~~~~ 978 (983)
..-...-+.+++|..-....++.|-++|.. .+.++.. -=+.|+..+.+|..+|.
T Consensus 271 Lkga~~~~~~~il~nmS~R~a~~l~eel~~~g~v~~~dve~--Aq~~I~~~~r~l~~~G~ 328 (339)
T PRK05686 271 LKGASEELREKFLSNMSKRAAEMLREDLEALGPVRLSDVEE--AQKKIVQIARRLAEAGE 328 (339)
T ss_pred HCCCCHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHH--HHHHHHHHHHHHHHCCC
Confidence 333333344444444444433333333321 0111111 12457777777766654
No 21
>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=91.93 E-value=25 Score=40.66 Aligned_cols=43 Identities=12% Similarity=0.159 Sum_probs=28.4
Q ss_pred CccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHh
Q 042165 850 YGNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAY 897 (983)
Q Consensus 850 yGNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~ 897 (983)
-|--.+..+|...+....+.|++.|...=.+ .+-.|-+++|.+
T Consensus 199 gG~~~~a~ILN~~~~~~~~~il~~L~~~dp~-----la~~Ir~~mF~F 241 (338)
T TIGR00207 199 GGVRAVAEIINLMDRKTEKTIITSLEEFDPE-----LAEEIKKEMFVF 241 (338)
T ss_pred ChHHHHHHHHHhCCchHHHHHHHHHHHhCHH-----HHHHHHHHccCH
Confidence 4557777888888887778888887654333 234555556554
No 22
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=91.23 E-value=16 Score=41.98 Aligned_cols=12 Identities=17% Similarity=0.564 Sum_probs=5.2
Q ss_pred hhHHHHHHHHhc
Q 042165 814 GCRVIQRVLEHC 825 (983)
Q Consensus 814 GS~VLQkiLe~~ 825 (983)
|...+-.+|...
T Consensus 203 g~~~~a~Iln~~ 214 (339)
T PRK05686 203 GVKTVAEILNNL 214 (339)
T ss_pred cHHHHHHHHhcC
Confidence 344444444443
No 23
>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=87.22 E-value=46 Score=37.77 Aligned_cols=34 Identities=15% Similarity=0.303 Sum_probs=16.2
Q ss_pred cChhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHh
Q 042165 925 QFANYVVQKIFELSSESQQAMMLSRIRTHAHVLK 958 (983)
Q Consensus 925 qyGnyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~ 958 (983)
..+..|-.++=...+++.-+.|.+.+...+.-++
T Consensus 313 ~i~~~V~~~l~~~~~~~l~~~i~~~v~~dL~~Ir 346 (367)
T PF04286_consen 313 DIGEIVEEKLNSLDDEELEELIESKVGKDLQWIR 346 (367)
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhHhhh
Confidence 4455554444333333333445555555555554
No 24
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=85.61 E-value=3.4 Score=42.07 Aligned_cols=56 Identities=11% Similarity=0.180 Sum_probs=34.6
Q ss_pred HHHHHHHcCcChhHHHHHHHhcCCHH---HHHHHHHHHHHh--------HHHHhhCCCchHHHHHHH
Q 042165 916 ETLLTMMKDQFANYVVQKIFELSSES---QQAMMLSRIRTH--------AHVLKKYTYGKHIVARFE 971 (983)
Q Consensus 916 e~L~~La~DqyGnyVLQkLLe~~dd~---~Rk~Ll~eLk~~--------L~~L~~~~~Gk~Vv~rle 971 (983)
++..+|+.+.+|..||..+|..++.+ ..+.|++.+... -..+..+++|++++.+|-
T Consensus 64 ~~~~~ll~~~~g~~~i~eiL~~~~gdk~~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~lK~Li 130 (148)
T PF08144_consen 64 ENAEELLSSSFGCQFITEILLSATGDKSAALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRMLKKLI 130 (148)
T ss_pred HhHHHHHhcCcccHHHHHHHhccCccHHHHHHHHHHHHhhccCCCCCcCccchhcCchHHHHHHHHH
Confidence 45667777888888888877776432 223444444432 234667888888865543
No 25
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=83.84 E-value=92 Score=36.16 Aligned_cols=88 Identities=15% Similarity=0.243 Sum_probs=41.3
Q ss_pred ccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHH
Q 042165 851 GNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAERELIIEEILGHNEETLLTMMKDQFANYV 930 (983)
Q Consensus 851 GNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyV 930 (983)
|-..+-.+|.+.+....+.+++.+.. ....++..|-+++|.+- .|...++..+..|..+ ..+.+
T Consensus 203 g~~~~aeIlN~~d~~~e~~il~~l~~-----~~~~la~~I~~kmF~Fe----------div~ldd~~iq~lL~~-v~~~~ 266 (339)
T COG1536 203 GIKAAAEILNLLDRGTEKTILESLEE-----EDPELAEEIKEKMFVFE----------DIVLLDDRSIQRLLRE-VDKED 266 (339)
T ss_pred cHhHHHHHHHhcchhHHHHHHHHHhh-----cCHHHHHHHHHHHhhHH----------HHHhccHHHHHHHHHH-cCHHH
Confidence 34445555555554444445554443 23334556666666541 1222222222222222 24555
Q ss_pred HHHHHhcCCHHHHHHHHHHHHHhH
Q 042165 931 VQKIFELSSESQQAMMLSRIRTHA 954 (983)
Q Consensus 931 LQkLLe~~dd~~Rk~Ll~eLk~~L 954 (983)
|...|..+++..|++|++.+....
T Consensus 267 La~aLkg~~~~lrekilsnmskR~ 290 (339)
T COG1536 267 LAIALKGASEELREKILSNMSKRA 290 (339)
T ss_pred HHHHHcCCCHHHHHHHHHhccHHH
Confidence 555666666666666665554433
No 26
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=82.75 E-value=11 Score=38.42 Aligned_cols=20 Identities=10% Similarity=0.386 Sum_probs=15.8
Q ss_pred HHHcCcChhHHHHHHHhcCC
Q 042165 920 TMMKDQFANYVVQKIFELSS 939 (983)
Q Consensus 920 ~La~DqyGnyVLQkLLe~~d 939 (983)
.++.+++|++++.+++....
T Consensus 115 H~i~~p~~~r~lK~Liq~~~ 134 (148)
T PF08144_consen 115 HLIEHPFGHRMLKKLIQGDK 134 (148)
T ss_pred chhcCchHHHHHHHHHHCCC
Confidence 57788999999998887643
No 27
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=75.36 E-value=1.6e+02 Score=34.00 Aligned_cols=27 Identities=11% Similarity=0.261 Sum_probs=15.6
Q ss_pred chhHHHHHHHHhcCCHHHHHHHHHHHHH
Q 042165 813 YGCRVIQRVLEHCADKHQCQFIVDEILD 840 (983)
Q Consensus 813 ~GS~VLQkiLe~~~d~~~~~~Li~eLl~ 840 (983)
-|...+..+|..... ...+.|++.|..
T Consensus 199 gG~~~~a~ILN~~~~-~~~~~il~~L~~ 225 (338)
T TIGR00207 199 GGVRAVAEIINLMDR-KTEKTIITSLEE 225 (338)
T ss_pred ChHHHHHHHHHhCCc-hHHHHHHHHHHH
Confidence 466777777777653 334455555543
No 28
>COG2733 Predicted membrane protein [Function unknown]
Probab=75.06 E-value=1.3e+02 Score=35.42 Aligned_cols=126 Identities=13% Similarity=0.057 Sum_probs=56.8
Q ss_pred hhhhhhcCCchhH-HHHHHHhhhhhhhhccCC----chhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHH
Q 042165 782 IQKCIECIPPEKI-GFIISAFCGQVAALSMHP----YGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQ 856 (983)
Q Consensus 782 LQk~Le~~~~e~~-~~Ii~~~k~~l~~Ls~hk----~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ 856 (983)
.-++|++...+.+ +.|++.+.+.+....... |-..++.++++.-..-.-....++.+.+... ..-++-.++
T Consensus 168 ~~~vL~~l~~d~r~q~l~D~~~~~L~r~~~~~~v~~~i~~~i~r~~~ee~p~f~~~~~~~~v~~~~I----~~a~~~~~D 243 (415)
T COG2733 168 AGRVLESLTADDRHQALLDKLIDRLIRWLLNDKVREFIAAVIVRYLEEEHPLFAPIIIVSLVGKRDI----SDAVNSFLD 243 (415)
T ss_pred HHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhcCccchhhhhHHHHhhchH----HHHHHHHHH
Confidence 3344444433333 555665555555444432 3446666666654321111112222222211 111233455
Q ss_pred HHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhC-CHHHHHHHHHHHH
Q 042165 857 HVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYG-GPAERELIIEEIL 911 (983)
Q Consensus 857 ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a-~~keRk~IIkeLl 911 (983)
.++...+-+.|+..-..+.+.+.+|-+++-=..=+|++.... ....+...+..|.
T Consensus 244 ~v~~~p~h~~rk~~~R~~~~~i~~L~~Dp~~~~r~e~iK~~~~~~~~i~~~~~~~w 299 (415)
T COG2733 244 EVRRDPDHKMRKDFDRFLFDLIDDLYHDPGMAARAEAIKSYLKEDEAIATAAGDMW 299 (415)
T ss_pred HHHhCcCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhcChHHHHHHHHHH
Confidence 555544445566666666666677766643333344444331 2223344444444
No 29
>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=72.67 E-value=6 Score=50.68 Aligned_cols=114 Identities=14% Similarity=0.236 Sum_probs=65.9
Q ss_pred HHHHhhcCCCccHHHHHhhhcCCHHHHHHHHHHHhHhH-----------------Hhhh----cCccCCeeehhhhccCC
Q 042165 660 HIVEFSADQHGSRFIQQKLENCSVDEKASVFKEILPHA-----------------SKLM----TDVFGNYVIQKFFEYGS 718 (983)
Q Consensus 660 ~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If~EL~~~i-----------------~~L~----tD~yGshVVQKLLe~~s 718 (983)
.++.+.+=.-|=++|-.+|..-+.+++.+|+.-|.-|+ ..++ .+.|-..|+..|+.+..
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 45666666668888899999999999999999998888 2333 24455555555555544
Q ss_pred HHHHHHHHHHH-----HhchhhhhcccchhHHHHHHHhhcC--------HHHHHHHHHHHhhcccccc
Q 042165 719 PAQRKELANQL-----VGQILPLSMQMYGCRVIQKALETIE--------IEQKAQLVRELDGQVMRCV 773 (983)
Q Consensus 719 ~eqr~~Iie~L-----~g~i~~La~h~yGSrVIQklLe~as--------~eqr~~Ll~EL~g~i~~L~ 773 (983)
......|+..+ ..++..++++++|.-+|-.+|..+. .++-..-+.+++..++.++
T Consensus 656 ~~~~~~i~gll~~~~~~~~~~~i~~tk~Gls~lt~llsRae~l~~~~~~~~~~~~~W~~~~~~lf~~l 723 (808)
T PF09770_consen 656 EAPFNEIIGLLGLLINNNNVSFIAQTKFGLSLLTMLLSRAELLKQSGSSSEEEWSQWTEFYDQLFDSL 723 (808)
T ss_dssp HHHHHHHTTSTTT-S--HHHHHHHTSHHHHHHHHHHHHHHHHHHHT------HHHHHHHH--------
T ss_pred hCCHHHHHHHHHHHHhCCCceEEEEChHHHHHHHHHHHHHHHhhccCCCCHHHHHHhhhhhhhccccc
Confidence 44444443222 2466778899999999888885442 2223334555666555554
No 30
>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=70.90 E-value=2.1e+02 Score=33.36 Aligned_cols=39 Identities=5% Similarity=0.076 Sum_probs=22.5
Q ss_pred hhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhC
Q 042165 807 ALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQD 848 (983)
Q Consensus 807 ~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~D 848 (983)
.+..++.-++.+..+++....+. .+++.+.+.+..|..+
T Consensus 205 ~l~~~~~~s~~~~~~~~~~~~~~---~~~~~~~~~L~~mi~~ 243 (372)
T PF12231_consen 205 CLGPNKELSKSVLEDLQRSLENG---KLIQLYCERLKEMIKS 243 (372)
T ss_pred HhChhHHHHHHHHHHhccccccc---cHHHHHHHHHHHHHhC
Confidence 33345555566666665543221 5677777777777766
No 31
>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=70.04 E-value=1.1e+02 Score=41.40 Aligned_cols=286 Identities=13% Similarity=0.091 Sum_probs=0.0
Q ss_pred CHHHHHHHHHHHhH-hHHhhhcCccCCee------------------ehhhhccCCHHHHHHHHHHHHhchhhhhcccch
Q 042165 682 SVDEKASVFKEILP-HASKLMTDVFGNYV------------------IQKFFEYGSPAQRKELANQLVGQILPLSMQMYG 742 (983)
Q Consensus 682 s~Eqr~~If~EL~~-~i~~L~tD~yGshV------------------VQKLLe~~s~eqr~~Iie~L~g~i~~La~h~yG 742 (983)
+++|..++++++.. ++.+.+...+-.+. ..+++...++|+++..++.+...+......+..
T Consensus 3 ~~~~v~~~~~~~lk~~~i~e~f~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~Ee~~~~ik~~l~~i~~~~~~~~~ 82 (1341)
T PF11573_consen 3 TDTQVIEMVEEILKVDIIEEAFSGFTVHFPNPETEKLIDCTAELRKKFNTMMSSMSEEEKESCIKQYLKYIHSQSHPRRY 82 (1341)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccceeecCcchHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhcCChhHH
Q ss_pred hHHHHHHHhhcC------HHHHHHHHHHHhhccccccccccCccchhhhhhcCCchhHHHHHHHhhhhhhhhccC-----
Q 042165 743 CRVIQKALETIE------IEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAALSMH----- 811 (983)
Q Consensus 743 SrVIQklLe~as------~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~h----- 811 (983)
.++++.+...+. ......++..-.-....-......=.+|++||...+-+-.+.|++.+.+.+..+-..
T Consensus 83 ~~l~d~L~~~v~~~~i~ar~vCe~lL~~~~l~~~~~~~W~~~F~lIrkiI~~VDYKGvR~Ilk~~~eK~~~iP~~~~~~~ 162 (1341)
T PF11573_consen 83 EFLFDLLETAVNNGIIPARLVCEELLSSEKLFYLNSRFWQEKFKLIRKIIHGVDYKGVREILKICLEKMQQIPSSLSPEQ 162 (1341)
T ss_pred HHHHHHHHHHHHhCCCChHHHHHHHhcccchhhhhhHHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHhccccCCHHH
Q ss_pred ----CchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhc--------------------------
Q 042165 812 ----PYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQR-------------------------- 861 (983)
Q Consensus 812 ----k~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~-------------------------- 861 (983)
...+.||+.+++.-..-----..++||......-...+. +-+...+..
T Consensus 163 ~~~l~~~~~vi~~ilDR~~~LlP~y~~~nEi~r~~~~~~~~~~--w~L~~~~s~~~~~Fr~~A~mvs~~gr~~l~Piv~h 240 (1341)
T PF11573_consen 163 LPQLLAVEEVIEHILDRNACLLPAYFAVNEIRRGYPKQAAMPP--WRLAEKLSNFIDSFRPLAQMVSIIGRPSLLPIVGH 240 (1341)
T ss_pred HHHHHHHHHHHHHHhCcccccchHHHHHHHHHhhCccccccCc--HHHHHHHHHHHHhhhhHHHHHhhhcccceecccCC
Q ss_pred -----------------------CC--chhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhCCHHHHHHHHHHHHhCCHH
Q 042165 862 -----------------------GK--PLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAERELIIEEILGHNEE 916 (983)
Q Consensus 862 -----------------------~~--~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a~~keRk~IIkeLl~~~~e 916 (983)
+. --.+.++.+.-..-+.-+..+.||-..|.-++.....+.|+...++++. +
T Consensus 241 ~~~~~~~~~~wkl~~~~~~~~~k~~~~LPY~~el~~~q~~lL~~vL~Qp~srd~v~~~l~~~~~k~~~~~~ee~l~---~ 317 (1341)
T PF11573_consen 241 SSYAPQLSNWWKLDPNTLKFSLKGHHTLPYRPELLEPQTRLLYYVLRQPYSRDMVCSMLGLQQQKQRCPALEELLV---D 317 (1341)
T ss_pred CCccccCCchhhcCccceeeeccccCCCCCChHHcchHHHHHHHHHcCcchHHHHHHHhcccccCccchHHHHHHH---H
Q ss_pred HHHHHHcCcCh----------------hHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhhCCCchH-HHHHHHHHhh
Q 042165 917 TLLTMMKDQFA----------------NYVVQKIFELSSESQQAMMLSRIRTHAHVLKKYTYGKH-IVARFEMLIG 975 (983)
Q Consensus 917 ~L~~La~DqyG----------------nyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~-Vv~rlekl~~ 975 (983)
-+.+.+.-.-. +.||.-++..+ -....|++.|+..+.. ++++.||. |++-+.+.+.
T Consensus 318 li~~aM~~~e~~~~~~~~~~~~W~hls~~viy~~l~~~--i~F~~~v~~L~~kL~~-~~~~r~Rd~vMWvllQ~is 390 (1341)
T PF11573_consen 318 LIIEAMEESESEDENEPINRWQWLHLSSQVIYFMLFQF--ISFPDFVKKLHEKLTG-RNYRRGRDHVMWVLLQFIS 390 (1341)
T ss_pred HHHHHHHHHhcCCCCCCccchHHHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHhc-CceeeccchhHHHHHHHHh
No 32
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=65.85 E-value=2.5e+02 Score=36.75 Aligned_cols=149 Identities=12% Similarity=0.116 Sum_probs=78.3
Q ss_pred hhcccchh-HHHHHHHhhcCHH--HHHHHHHHHhhccccccccccCccchhhhhhc--------CCchhHHHHHHHhhhh
Q 042165 736 LSMQMYGC-RVIQKALETIEIE--QKAQLVRELDGQVMRCVRDQNGNHVIQKCIEC--------IPPEKIGFIISAFCGQ 804 (983)
Q Consensus 736 La~h~yGS-rVIQklLe~as~e--qr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~--------~~~e~~~~Ii~~~k~~ 804 (983)
-.+.++|| |+|-.+.+....+ -+.+|-.-|..+++..+++++|-...+.|--+ ..+.....+++.....
T Consensus 431 ~~rqkdGAL~~vgsl~~~L~K~s~~~~~mE~flv~hVfP~f~s~~g~Lrarac~vl~~~~~~df~d~~~l~~ale~t~~~ 510 (1010)
T KOG1991|consen 431 NPRQKDGALRMVGSLASILLKKSPYKSQMEYFLVNHVFPEFQSPYGYLRARACWVLSQFSSIDFKDPNNLSEALELTHNC 510 (1010)
T ss_pred ChhhhhhHHHHHHHHHHHHccCCchHHHHHHHHHHHhhHhhcCchhHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHH
Confidence 34566666 3444444433221 12333344667888888888887666655322 1122223333333222
Q ss_pred hh---hhccCCchhHHHHHHHHhcCCHH-HHHHHHHHHHHHHHHHhhC---cCccHHHHHHHhcCCch---hHHHHHHHH
Q 042165 805 VA---ALSMHPYGCRVIQRVLEHCADKH-QCQFIVDEILDNVCALAQD---QYGNYVTQHVLQRGKPL---ERSKIIRKL 874 (983)
Q Consensus 805 l~---~Ls~hk~GS~VLQkiLe~~~d~~-~~~~Li~eLl~~l~~La~D---qyGNyVVQ~LLe~~~~k---~r~~II~~L 874 (983)
+. +|...--+...+|.+|.++.... .....+..+++.+..|+.. ..=..|+|+++..-.++ .-.+++..|
T Consensus 511 l~~d~~lPV~VeAalALq~fI~~~~~~~e~~~~hvp~~mq~lL~L~ne~End~Lt~vme~iV~~fseElsPfA~eL~q~L 590 (1010)
T KOG1991|consen 511 LLNDNELPVRVEAALALQSFISNQEQADEKVSAHVPPIMQELLKLSNEVENDDLTNVMEKIVCKFSEELSPFAVELCQNL 590 (1010)
T ss_pred hccCCcCchhhHHHHHHHHHHhcchhhhhhHhhhhhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHhhchhHHHHHHHH
Confidence 22 22223346677888888886542 3555666666666666533 23345777777654332 234455566
Q ss_pred HHHHHhhccC
Q 042165 875 SGHIVQLSQH 884 (983)
Q Consensus 875 ~g~~veLs~~ 884 (983)
...|.+++++
T Consensus 591 a~~F~k~l~~ 600 (1010)
T KOG1991|consen 591 AETFLKVLQT 600 (1010)
T ss_pred HHHHHHHHhc
Confidence 6666655553
No 33
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=63.77 E-value=2.9e+02 Score=32.21 Aligned_cols=134 Identities=16% Similarity=0.166 Sum_probs=63.9
Q ss_pred CccHHHHH-h---hh--cCCHHHHHHHHHHHhH------hHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHhchhhh
Q 042165 669 HGSRFIQQ-K---LE--NCSVDEKASVFKEILP------HASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVGQILPL 736 (983)
Q Consensus 669 ~gSRVLQk-l---Le--~~s~Eqr~~If~EL~~------~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g~i~~L 736 (983)
..+.+++. . +. ..+.+++..-|++|.- ++..|++...---|+- .++..+.+.|.
T Consensus 77 ~~~~~~~~~~~~~~~~~s~~le~ke~ald~Le~lve~iDnAndl~~~ggl~~ll~-~l~~~~~~lR~------------- 142 (342)
T KOG2160|consen 77 VISDVMSMIPIVILNSSSVDLEDKEDALDNLEELVEDIDNANDLISLGGLVPLLG-YLENSDAELRE------------- 142 (342)
T ss_pred hHHHHHHhhhhhccCcccCCHHHHHHHHHHHHHHHHhhhhHHhHhhccCHHHHHH-HhcCCcHHHHH-------------
Confidence 45566665 1 11 2357778777877763 4555665554444444 66666666554
Q ss_pred hcccchhHHHHHHHhhcCHHHHHHHHHHHhhccccccccccCccchhhhhhcCCchhHHHHHHHhhhhhhhhccCCchhH
Q 042165 737 SMQMYGCRVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAALSMHPYGCR 816 (983)
Q Consensus 737 a~h~yGSrVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~ 816 (983)
.+.+||-++.+.-...|...|-.-....++..+....-+++..|+|-. +-.+|..+.. .......-+|-.
T Consensus 143 ----~Aa~Vigt~~qNNP~~Qe~v~E~~~L~~Ll~~ls~~~~~~~r~kaL~A-----issLIRn~~~-g~~~fl~~~G~~ 212 (342)
T KOG2160|consen 143 ----LAARVIGTAVQNNPKSQEQVIELGALSKLLKILSSDDPNTVRTKALFA-----ISSLIRNNKP-GQDEFLKLNGYQ 212 (342)
T ss_pred ----HHHHHHHHHHhcCHHHHHHHHHcccHHHHHHHHccCCCchHHHHHHHH-----HHHHHhcCcH-HHHHHHhcCCHH
Confidence 345666666655443333322222333334444333334443332221 0111111110 011112346778
Q ss_pred HHHHHHHhcC
Q 042165 817 VIQRVLEHCA 826 (983)
Q Consensus 817 VLQkiLe~~~ 826 (983)
+++.+++...
T Consensus 213 ~L~~vl~~~~ 222 (342)
T KOG2160|consen 213 VLRDVLQSNN 222 (342)
T ss_pred HHHHHHHcCC
Confidence 8888888753
No 34
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=62.53 E-value=2.9e+02 Score=35.17 Aligned_cols=25 Identities=24% Similarity=0.428 Sum_probs=21.9
Q ss_pred HHhHhHHhhhcCccCCeeehhhhcc
Q 042165 692 EILPHASKLMTDVFGNYVIQKFFEY 716 (983)
Q Consensus 692 EL~~~i~~L~tD~yGshVVQKLLe~ 716 (983)
.+.|.+.+|+++.--|.++-|+|+.
T Consensus 218 ~LAP~ffkllttSsNNWmLIKiiKL 242 (877)
T KOG1059|consen 218 QLAPLFYKLLVTSSNNWVLIKLLKL 242 (877)
T ss_pred cccHHHHHHHhccCCCeehHHHHHH
Confidence 3568999999999999999998876
No 35
>KOG2759 consensus Vacuolar H+-ATPase V1 sector, subunit H [Energy production and conversion]
Probab=61.49 E-value=2.9e+02 Score=33.04 Aligned_cols=64 Identities=17% Similarity=0.284 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHhhcc-ChhHHHHHHHHHHhCCH-----------H----HHHHH---HHHHHhC-CHHHHHHHHcCcC
Q 042165 867 RSKIIRKLSGHIVQLSQ-HKFASNVIEKCLAYGGP-----------A----ERELI---IEEILGH-NEETLLTMMKDQF 926 (983)
Q Consensus 867 r~~II~~L~g~~veLs~-~K~GS~VVEk~L~~a~~-----------k----eRk~I---IkeLl~~-~~e~L~~La~Dqy 926 (983)
.+.|-+.|...+.+|+. +.|-+-+-...|...+. + .+-.| +-+|+.. .++.++.+|++..
T Consensus 312 i~~L~e~L~~svq~LsSFDeY~sEl~sG~L~WSP~Hk~e~FW~eNa~rlnennyellkiL~~lLe~s~Dp~iL~VAc~DI 391 (442)
T KOG2759|consen 312 IEFLTEKLKNSVQDLSSFDEYKSELRSGRLEWSPVHKSEKFWRENADRLNENNYELLKILIKLLETSNDPIILCVACHDI 391 (442)
T ss_pred HHHHHHHHHHHHHhhccHHHHHHHHHhCCcCCCccccccchHHHhHHHHhhccHHHHHHHHHHHhcCCCCceeehhhhhH
Confidence 34555666777777754 47766655544432211 0 11122 2233332 2266777777777
Q ss_pred hhHH
Q 042165 927 ANYV 930 (983)
Q Consensus 927 GnyV 930 (983)
|.||
T Consensus 392 ge~V 395 (442)
T KOG2759|consen 392 GEYV 395 (442)
T ss_pred HHHH
Confidence 7776
No 36
>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=59.97 E-value=3e+02 Score=31.16 Aligned_cols=25 Identities=12% Similarity=0.070 Sum_probs=9.6
Q ss_pred HHHHHHhchhhhhcccchhHHHHHH
Q 042165 725 LANQLVGQILPLSMQMYGCRVIQKA 749 (983)
Q Consensus 725 Iie~L~g~i~~La~h~yGSrVIQkl 749 (983)
+++.+...+.....+.-...-|+++
T Consensus 143 l~~~il~~i~~~l~~~e~~~~I~~~ 167 (367)
T PF04286_consen 143 LLDRILEKIKEYLKSEETRERIRDL 167 (367)
T ss_pred HHHHHHHHHHHHHcCchHHHHHHHH
Confidence 3333333333443333333333333
No 37
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=57.39 E-value=1.9e+02 Score=29.33 Aligned_cols=76 Identities=17% Similarity=0.269 Sum_probs=40.9
Q ss_pred HHHHHHHHHHhCCHHHHHHHH-HHHHhCCHHHHHHHHcCcC-hhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhhCCCch
Q 042165 887 ASNVIEKCLAYGGPAERELII-EEILGHNEETLLTMMKDQF-ANYVVQKIFELSSESQQAMMLSRIRTHAHVLKKYTYGK 964 (983)
Q Consensus 887 GS~VVEk~L~~a~~keRk~II-keLl~~~~e~L~~La~Dqy-GnyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk 964 (983)
+=.+++.|.+.|.......|. ++++ +.|.+|+...| |. ..+...+++|++-|..=-.+++..+.
T Consensus 58 AL~LLe~~vkNCG~~fh~evas~~Fl----~el~kl~~~k~~~~--------~~~~~Vk~kil~li~~W~~~f~~~p~-- 123 (139)
T cd03567 58 ALTVLEACMKNCGERFHSEVGKFRFL----NELIKLVSPKYLGS--------RTSEKVKTKIIELLYSWTLELPHEPK-- 123 (139)
T ss_pred HHHHHHHHHHHcCHHHHHHHHhHHHH----HHHHHHhccccCCC--------CCCHHHHHHHHHHHHHHHHHhcccch--
Confidence 345788888888777665555 4555 34666775433 11 12344555665555544444444333
Q ss_pred HHHHHHHHHhhcc
Q 042165 965 HIVARFEMLIGEE 977 (983)
Q Consensus 965 ~Vv~rlekl~~~~ 977 (983)
+.+....|..+|
T Consensus 124 -~~~~Y~~Lk~~G 135 (139)
T cd03567 124 -IKEAYDMLKKQG 135 (139)
T ss_pred -HHHHHHHHHHCC
Confidence 444444444444
No 38
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=57.26 E-value=5e+02 Score=33.68 Aligned_cols=41 Identities=24% Similarity=0.393 Sum_probs=24.1
Q ss_pred ehhhhccCCHHHHHHHHHHHHhchhhhhcccchhHHHHHHHhhcC
Q 042165 710 IQKFFEYGSPAQRKELANQLVGQILPLSMQMYGCRVIQKALETIE 754 (983)
Q Consensus 710 VQKLLe~~s~eqr~~Iie~L~g~i~~La~h~yGSrVIQklLe~as 754 (983)
++.+++ .+.+.|+.....+...+..|..+. +..+|.++..+
T Consensus 533 ~~~~~~-~~~~~rr~~~~~lq~k~~~l~~n~---~LfeKgl~lF~ 573 (803)
T PLN03083 533 RKALFT-ENAERRRRLLDNLQKKIDESFLNM---QLYEKALDLFE 573 (803)
T ss_pred HHHHHh-cchHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhCC
Confidence 566666 566667777777766666665443 24445554444
No 39
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=56.97 E-value=3.4e+02 Score=33.36 Aligned_cols=76 Identities=9% Similarity=0.110 Sum_probs=46.4
Q ss_pred HHHHHHhHhHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHhchhhhhcccchhHHHHHHHhhcCHHHHHHHHH
Q 042165 688 SVFKEILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVGQILPLSMQMYGCRVIQKALETIEIEQKAQLVR 763 (983)
Q Consensus 688 ~If~EL~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g~i~~La~h~yGSrVIQklLe~as~eqr~~Ll~ 763 (983)
.|..--..-++.+++...---.+-.++..-..-.+.+|++.+...+......+.+-+-+-+++..-..++.-.+++
T Consensus 47 si~~lyisg~~~~s~~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en~n~~l~~lWe 122 (711)
T COG1747 47 SIIALYISGIISLSKQLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKENGNEQLYSLWE 122 (711)
T ss_pred hhHHHHHHHHHHhhhccccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCchhhHHHHH
Confidence 3443334445555555555555666666667777888888888888887777777665555553324444444444
No 40
>PLN03218 maturation of RBCL 1; Provisional
Probab=56.88 E-value=3.7e+02 Score=36.08 Aligned_cols=22 Identities=9% Similarity=0.160 Sum_probs=10.3
Q ss_pred HHHHhhhcCCHHHHHHHHHHHh
Q 042165 673 FIQQKLENCSVDEKASVFKEIL 694 (983)
Q Consensus 673 VLQklLe~~s~Eqr~~If~EL~ 694 (983)
+|..+.+.+..++-..+|+++.
T Consensus 443 LL~a~~k~g~~e~A~~lf~~M~ 464 (1060)
T PLN03218 443 LMSVCASSQDIDGALRVLRLVQ 464 (1060)
T ss_pred HHHHHHhCcCHHHHHHHHHHHH
Confidence 3344444444455555555543
No 41
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=56.50 E-value=1.3e+02 Score=39.94 Aligned_cols=12 Identities=25% Similarity=0.764 Sum_probs=8.1
Q ss_pred CCchhhHHHHHh
Q 042165 63 PNMEGSFLAIEN 74 (983)
Q Consensus 63 pt~egs~~a~g~ 74 (983)
|+.+|-|.++.-
T Consensus 1265 ~~~~G~f~~~~e 1276 (1605)
T KOG0260|consen 1265 PTEDGEFKPVDE 1276 (1605)
T ss_pred ecCCCceeecce
Confidence 777777766543
No 42
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=55.84 E-value=1.7e+02 Score=37.43 Aligned_cols=42 Identities=7% Similarity=0.108 Sum_probs=34.5
Q ss_pred ccccCccchhhhhhcCCchhHHHHHHHhhhhhhhhccCCchh
Q 042165 774 RDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAALSMHPYGC 815 (983)
Q Consensus 774 kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS 815 (983)
.+...++..|-||.+........+++.+..++..+..|.+.+
T Consensus 176 Y~~ia~~aFqFCLkYqRktEFRrLCe~LR~HL~~i~k~~nq~ 217 (988)
T KOG2072|consen 176 YHDIARKAFQFCLKYQRKTEFRRLCELLRMHLDNINKHQNQS 217 (988)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhccC
Confidence 345677788899999888888889999999999998887655
No 43
>PTZ00429 beta-adaptin; Provisional
Probab=55.73 E-value=5.7e+02 Score=33.03 Aligned_cols=23 Identities=9% Similarity=0.124 Sum_probs=14.3
Q ss_pred hhhhhccCCchhHHHHHHHHhcC
Q 042165 804 QVAALSMHPYGCRVIQRVLEHCA 826 (983)
Q Consensus 804 ~l~~Ls~hk~GS~VLQkiLe~~~ 826 (983)
-+..|+.......|+..+.+++.
T Consensus 356 IL~~Lane~Nv~~IL~EL~eYa~ 378 (746)
T PTZ00429 356 LLLKLVTPSVAPEILKELAEYAS 378 (746)
T ss_pred HHHHHcCcccHHHHHHHHHHHhh
Confidence 34456666666677776666554
No 44
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=54.17 E-value=4e+02 Score=30.80 Aligned_cols=52 Identities=10% Similarity=0.006 Sum_probs=26.2
Q ss_pred hhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhh---CCC-----------chHHHHHHHHHhhccc
Q 042165 927 ANYVVQKIFELSSESQQAMMLSRIRTHAHVLKK---YTY-----------GKHIVARFEMLIGEEN 978 (983)
Q Consensus 927 GnyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~---~~~-----------Gk~Vv~rlekl~~~~~ 978 (983)
-.-++-.+|...++..|.+|++.|.....++.. ..- =+.|+..+.+|..+|.
T Consensus 257 ~~~~la~aLkg~~~e~r~~il~nmS~Raa~~l~eele~~gpV~~sdvE~Aq~~Iv~~~r~L~~~G~ 322 (334)
T PRK07194 257 PMELWAVALKGTEPALRQAILRVMPKRQAQALEAQIERLGPVPLSRVEQARKEIMALVRELAEAGE 322 (334)
T ss_pred CHHHHHHHHccCCHHHHHHHHHHccHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCC
Confidence 334445555555666666665555433322211 111 2457777777766654
No 45
>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=53.23 E-value=5.1e+02 Score=32.26 Aligned_cols=23 Identities=17% Similarity=0.304 Sum_probs=12.6
Q ss_pred CCchhHHHHHHHHHHHHHhhccC
Q 042165 862 GKPLERSKIIRKLSGHIVQLSQH 884 (983)
Q Consensus 862 ~~~k~r~~II~~L~g~~veLs~~ 884 (983)
.++..|+.+++.|..++..|-..
T Consensus 145 ~de~~Re~~lkFl~~kl~~l~~~ 167 (556)
T PF05918_consen 145 GDEQVRERALKFLREKLKPLKPE 167 (556)
T ss_dssp S-HHHHHHHHHHHHHHGGGS-TT
T ss_pred CchHHHHHHHHHHHHHHhhCcHH
Confidence 34445666777776666655433
No 46
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=52.09 E-value=4.6e+02 Score=35.19 Aligned_cols=20 Identities=15% Similarity=0.265 Sum_probs=14.8
Q ss_pred HHHHHHcCcChhHHHHHHHh
Q 042165 917 TLLTMMKDQFANYVVQKIFE 936 (983)
Q Consensus 917 ~L~~La~DqyGnyVLQkLLe 936 (983)
+|++.+.-.||--.|+.++.
T Consensus 891 ~LlekLirkfg~~eLe~~~p 910 (1176)
T KOG1248|consen 891 LLLEKLIRKFGAEELESFLP 910 (1176)
T ss_pred HHHHHHHHHhCHHHHHhhCH
Confidence 36677777888877777777
No 47
>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=51.01 E-value=94 Score=38.37 Aligned_cols=40 Identities=18% Similarity=0.201 Sum_probs=23.8
Q ss_pred cCCHHHHHHHHHHHHHhHHHHhhCCCc------hHHHHHHHHHhhc
Q 042165 937 LSSESQQAMMLSRIRTHAHVLKKYTYG------KHIVARFEMLIGE 976 (983)
Q Consensus 937 ~~dd~~Rk~Ll~eLk~~L~~L~~~~~G------k~Vv~rlekl~~~ 976 (983)
..|+..|+++++-|...+..|.....- ++|++.|.+.+.+
T Consensus 144 ~~de~~Re~~lkFl~~kl~~l~~~~~~p~~E~e~~i~~~ikkvL~D 189 (556)
T PF05918_consen 144 SGDEQVRERALKFLREKLKPLKPELLTPQKEMEEFIVDEIKKVLQD 189 (556)
T ss_dssp HS-HHHHHHHHHHHHHHGGGS-TTTS---HHHHHHHHHHHHHHCTT
T ss_pred cCchHHHHHHHHHHHHHHhhCcHHHhhchHHHHHHHHHHHHHHHHh
Confidence 345667777777777777666655444 4566666666654
No 48
>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=50.50 E-value=3.6e+02 Score=32.20 Aligned_cols=9 Identities=22% Similarity=0.453 Sum_probs=3.7
Q ss_pred HHHHHHHHh
Q 042165 966 IVARFEMLI 974 (983)
Q Consensus 966 Vv~rlekl~ 974 (983)
++.++.+++
T Consensus 415 ~l~~L~~~l 423 (526)
T PF01602_consen 415 ILKKLIELL 423 (526)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 444444443
No 49
>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=49.97 E-value=2.6e+02 Score=32.73 Aligned_cols=14 Identities=29% Similarity=0.325 Sum_probs=9.5
Q ss_pred HHHHHHhcCCHHHH
Q 042165 930 VVQKIFELSSESQQ 943 (983)
Q Consensus 930 VLQkLLe~~dd~~R 943 (983)
|++++|.+.|...|
T Consensus 278 v~e~cFn~~d~~~k 291 (372)
T PF12231_consen 278 VPEKCFNSSDPQVK 291 (372)
T ss_pred HHHHHhcCCCHHHH
Confidence 66777777776554
No 50
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=49.65 E-value=2.5e+02 Score=34.66 Aligned_cols=32 Identities=16% Similarity=0.294 Sum_probs=20.9
Q ss_pred HHHHHHHhcCCchhHHHHHHHHHHHHHhhccC
Q 042165 853 YVTQHVLQRGKPLERSKIIRKLSGHIVQLSQH 884 (983)
Q Consensus 853 yVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~ 884 (983)
|+|-.++.+|..+..+++++.|...++-+-|.
T Consensus 165 ylind~~~hcqrk~~~~~~~~l~~~v~~~yc~ 196 (757)
T KOG4368|consen 165 YLINDVLHHCQRKQARELLAALQKVVVPIYCT 196 (757)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHh
Confidence 45555666777777777888877766544433
No 51
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=48.67 E-value=3.5e+02 Score=36.28 Aligned_cols=11 Identities=27% Similarity=0.102 Sum_probs=4.9
Q ss_pred CCCCCCCCCCC
Q 042165 215 PVYNQSHSFGY 225 (983)
Q Consensus 215 ~~~~~s~~~~~ 225 (983)
|..+.+.++|.
T Consensus 1432 p~~~~~~~~sp 1442 (1605)
T KOG0260|consen 1432 PWSNMSSPASP 1442 (1605)
T ss_pred cccccCCCCCC
Confidence 44444444443
No 52
>KOG2203 consensus GTP-binding protein [General function prediction only]
Probab=44.90 E-value=6.1e+02 Score=31.62 Aligned_cols=41 Identities=10% Similarity=0.063 Sum_probs=29.7
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChh
Q 042165 888 SNVIEKCLAYGGPAERELIIEEILGHNEETLLTMMKDQFAN 928 (983)
Q Consensus 888 S~VVEk~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGn 928 (983)
|--||.+|+.++.+....|.+.+...++..+..+..+.||-
T Consensus 469 se~Ve~ll~~~s~evW~ti~n~f~~e~n~av~~~~~~~~~f 509 (772)
T KOG2203|consen 469 SEPVEALLDGASKEVWDTIRNLFRRETNTAVYGLSNAVYGF 509 (772)
T ss_pred hHHHHHHHhccccccHHHHHHHHHhccchhHHHHhhccccc
Confidence 56788888888888888888888876655555555555553
No 53
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=42.72 E-value=7.1e+02 Score=32.42 Aligned_cols=53 Identities=23% Similarity=0.259 Sum_probs=35.8
Q ss_pred hhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH----hhCcCccHHHHHHHhcCCchh
Q 042165 814 GCRVIQRVLEHCADKHQCQFIVDEILDNVCAL----AQDQYGNYVTQHVLQRGKPLE 866 (983)
Q Consensus 814 GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~L----a~DqyGNyVVQ~LLe~~~~k~ 866 (983)
--++++.+|+..........-+.-|++.+..| +.|++|-|++++++++-+...
T Consensus 700 lvrLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka~Dh~GF~LLn~i~~~~~~~~ 756 (960)
T KOG1992|consen 700 LVRLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKANDHHGFYLLNTIIESIPPNE 756 (960)
T ss_pred HHHHHHHHHhcCchhhcccccchhHHHHHHHHhcCcccchhHHHHHHHHHhcCCHhh
Confidence 34788888887654333223344555555554 579999999999999877653
No 54
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=42.49 E-value=4.9e+02 Score=29.41 Aligned_cols=33 Identities=6% Similarity=0.001 Sum_probs=20.1
Q ss_pred HHHHHHhcCCHHHHHHHHHHHHHhHHHHhhCCC
Q 042165 930 VVQKIFELSSESQQAMMLSRIRTHAHVLKKYTY 962 (983)
Q Consensus 930 VLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~ 962 (983)
+|..+++...+..+++++.-....+..|.....
T Consensus 240 ~i~~L~~i~~~~~KEKvvRv~la~l~Nl~~~~~ 272 (312)
T PF03224_consen 240 LIPLLADILKDSIKEKVVRVSLAILRNLLSKAP 272 (312)
T ss_dssp HHHHHHHHHHH--SHHHHHHHHHHHHHTTSSSS
T ss_pred hHHHHHHHHHhcccchHHHHHHHHHHHHHhccH
Confidence 777777777777777777666666655555443
No 55
>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=42.14 E-value=7.2e+02 Score=30.30 Aligned_cols=21 Identities=29% Similarity=0.300 Sum_probs=13.2
Q ss_pred eehhhhccCCHHHHHHHHHHH
Q 042165 709 VIQKFFEYGSPAQRKELANQL 729 (983)
Q Consensus 709 VVQKLLe~~s~eqr~~Iie~L 729 (983)
++++.|.+..+..|...+..+
T Consensus 81 ~L~~gL~h~~~~Vr~l~l~~l 101 (503)
T PF10508_consen 81 FLQRGLTHPSPKVRRLALKQL 101 (503)
T ss_pred HHHHHhcCCCHHHHHHHHHHH
Confidence 455666777776666655553
No 56
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=41.71 E-value=1.7e+02 Score=32.12 Aligned_cols=79 Identities=18% Similarity=0.150 Sum_probs=54.6
Q ss_pred HHHHHHHHHHhhccChhHHHHHHH--HHH----hCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHHHhcCCHHHH
Q 042165 870 IIRKLSGHIVQLSQHKFASNVIEK--CLA----YGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKIFELSSESQQ 943 (983)
Q Consensus 870 II~~L~g~~veLs~~K~GS~VVEk--~L~----~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkLLe~~dd~~R 943 (983)
+....-.-+-.|+.++.|-.++|+ ++. ..+.+.+..+++-|+..- +...+.+...|+.++|....+..|
T Consensus 139 l~~~Yf~~IG~lS~~~~Gl~lLe~~~if~~l~~i~~~~~~~~l~klil~~L-----DY~~~~~~R~iLsKaLt~~s~~iR 213 (226)
T PF14666_consen 139 LSRGYFLFIGVLSSTPNGLKLLERWNIFTMLYHIFSLSSRDDLLKLILSSL-----DYSVDGHPRIILSKALTSGSESIR 213 (226)
T ss_pred HHHHHHHHHHHHhCChhHHHHHHHCCHHHHHHHHHccCchHHHHHHHHhhC-----CCCCccHHHHHHHHHHhcCCHHHH
Confidence 333334457778999999888887 232 244455666777777542 466688899999999999999888
Q ss_pred HHHHHHHHHh
Q 042165 944 AMMLSRIRTH 953 (983)
Q Consensus 944 k~Ll~eLk~~ 953 (983)
....+.|+..
T Consensus 214 l~aT~~L~~l 223 (226)
T PF14666_consen 214 LYATKHLRVL 223 (226)
T ss_pred HHHHHHHHHH
Confidence 6666555543
No 57
>PF14838 INTS5_C: Integrator complex subunit 5 C-terminus
Probab=40.98 E-value=4.3e+02 Score=33.68 Aligned_cols=60 Identities=22% Similarity=0.311 Sum_probs=36.7
Q ss_pred cCCCccHHHHHhhhcCCHHH------------HHHHHHHHhH----hHHhhhcCccCCeeehhhhccCCHHHHHHHHHHH
Q 042165 666 ADQHGSRFIQQKLENCSVDE------------KASVFKEILP----HASKLMTDVFGNYVIQKFFEYGSPAQRKELANQL 729 (983)
Q Consensus 666 ~Dq~gSRVLQklLe~~s~Eq------------r~~If~EL~~----~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L 729 (983)
+++.|.|+|+.+|..+.+.. +...+.+|.+ ++-++..++ +.+....-+++++
T Consensus 112 ~~~G~~~ll~~Lldta~~~s~~~~~~~~~~~~V~~~C~~iL~~ll~~Lq~lv~~~------------~~~~~~ipfL~~l 179 (696)
T PF14838_consen 112 CEQGAARLLQFLLDTASPASVIDTGGLNAHQAVREACDRILQLLLQDLQKLVRNR------------GPQPRNIPFLEEL 179 (696)
T ss_pred ccccHHHHHHHHHHhcccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhc------------cCCcccchHHHHH
Confidence 77888999999998765332 3445555544 332333222 4444556677888
Q ss_pred Hhchhhhh
Q 042165 730 VGQILPLS 737 (983)
Q Consensus 730 ~g~i~~La 737 (983)
+.++.+|+
T Consensus 180 ~~~~~~Lc 187 (696)
T PF14838_consen 180 KAHITELC 187 (696)
T ss_pred HHHHHHHH
Confidence 88877654
No 58
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=40.58 E-value=6.4e+02 Score=34.73 Aligned_cols=40 Identities=10% Similarity=0.105 Sum_probs=25.4
Q ss_pred hHHHHHhhcCCCccHH----HHHhhhcCCHHHHHHHHHHHhHhH
Q 042165 658 TGHIVEFSADQHGSRF----IQQKLENCSVDEKASVFKEILPHA 697 (983)
Q Consensus 658 kG~VveLs~Dq~gSRV----LQklLe~~s~Eqr~~If~EL~~~i 697 (983)
.+....+-.++..|-+ |+..|+....|.-.+|+++.++.+
T Consensus 1445 eDferlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tI 1488 (1710)
T KOG1070|consen 1445 EDFERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKTI 1488 (1710)
T ss_pred HHHHHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhC
Confidence 3445555666776654 456667777777777887776533
No 59
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=40.28 E-value=4.1e+02 Score=26.86 Aligned_cols=77 Identities=17% Similarity=0.261 Sum_probs=44.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHH-HHHHhCCHHH-HHHHHcCcChhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhhCCCch
Q 042165 887 ASNVIEKCLAYGGPAERELII-EEILGHNEET-LLTMMKDQFANYVVQKIFELSSESQQAMMLSRIRTHAHVLKKYTYGK 964 (983)
Q Consensus 887 GS~VVEk~L~~a~~keRk~II-keLl~~~~e~-L~~La~DqyGnyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk 964 (983)
+=.+++.|++.|.......|. ++++ +. |..++.+++. .....+++|++-|..--..++.++.=+
T Consensus 59 aL~LLe~~vkNCG~~fh~eiask~Fl----~e~L~~~i~~~~~----------~~~~Vk~kil~li~~W~~~f~~~~~l~ 124 (141)
T cd03565 59 TLTVLETCVKNCGHRFHVLVAKKDFI----KDVLVKLINPKNN----------PPTIVQEKVLALIQAWADAFRGSPDLT 124 (141)
T ss_pred HHHHHHHHHHHccHHHHHHHHHHHhh----hHHHHHHHcccCC----------CcHHHHHHHHHHHHHHHHHhCCCccch
Confidence 456778888887766554443 2333 22 4455543321 233466677766666666666666556
Q ss_pred HHHHHHHHHhhcc
Q 042165 965 HIVARFEMLIGEE 977 (983)
Q Consensus 965 ~Vv~rlekl~~~~ 977 (983)
.|.+..++|..+|
T Consensus 125 ~i~~~y~~L~~~G 137 (141)
T cd03565 125 GVVEVYEELKKKG 137 (141)
T ss_pred HHHHHHHHHHHcC
Confidence 6777777766554
No 60
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.11 E-value=7.5e+02 Score=29.87 Aligned_cols=168 Identities=16% Similarity=0.276 Sum_probs=0.0
Q ss_pred HHHHhhccccccccccCccchhhhhhc--CCchhHHHHHHHhhhhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHH
Q 042165 762 VRELDGQVMRCVRDQNGNHVIQKCIEC--IPPEKIGFIISAFCGQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEIL 839 (983)
Q Consensus 762 l~EL~g~i~~L~kD~~GNhVLQk~Le~--~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl 839 (983)
++.|.+.+..+-+|..|-.+.-.++.+ ..+..++.+... .|++.|.++|.....-+.=-=.++
T Consensus 26 w~ai~~fceqinkdp~gp~lAv~LlaHKiqSPqe~EAl~al---------------tvLe~cmkncGekfH~evgkfrFL 90 (594)
T KOG1086|consen 26 WKAIDGFCEQINKDPEGPLLAVRLLAHKIQSPQEWEALQAL---------------TVLEYCMKNCGEKFHEEVGKFRFL 90 (594)
T ss_pred HHHHHHHHHHHhcCCCCchhHHHHHHhhcCChhHHHHHHHH---------------HHHHHHHHhhhHHHHHHHHHHHHH
Q ss_pred HHHHHHhhCcCccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhC---------------------
Q 042165 840 DNVCALAQDQYGNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYG--------------------- 898 (983)
Q Consensus 840 ~~l~~La~DqyGNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a--------------------- 898 (983)
..+..++.-+|-. ...+++.+.+||+.|--.-+.+-...-=..+-+.+=..+
T Consensus 91 NELIkvvsPKYlG-------~~tSekvKtkiIelLfsWtv~lpe~~KikdaYqmLKkqgIik~DP~lp~d~~~~p~ppP~ 163 (594)
T KOG1086|consen 91 NELIKVVSPKYLG-------SRTSEKVKTKIIELLFSWTVSLPEEPKIKDAYQMLKKQGIIKSDPKLPVDETPVPAPPPR 163 (594)
T ss_pred HHHHHHhCchhcc-------hhhhHHHHHHHHHHHhhheecCcccchHHHHHHHHHhcCcccCCCCCCCCCccCCCCCCC
Q ss_pred ------CHHHHHHHHHHHHhCCH-HHHHHHHcCcChhHHHHHHHhcCCHH-----HHHHHHHHHHHhHHHH
Q 042165 899 ------GPAERELIIEEILGHNE-ETLLTMMKDQFANYVVQKIFELSSES-----QQAMMLSRIRTHAHVL 957 (983)
Q Consensus 899 ------~~keRk~IIkeLl~~~~-e~L~~La~DqyGnyVLQkLLe~~dd~-----~Rk~Ll~eLk~~L~~L 957 (983)
+++++.++++.|++... ++|.. +|..|..+.+.-..+ +|.+-++++..+...|
T Consensus 164 pkssvFddEEksklL~rLLkSn~PeDLqa------ANkLIK~lVkeee~k~eKiskR~~aleev~n~vk~l 228 (594)
T KOG1086|consen 164 PKSSVFDDEEKSKLLARLLKSNHPEDLQA------ANKLIKTLVKEEEHKLEKISKRVKALEEVNNNVKLL 228 (594)
T ss_pred CCccccCcHHHHHHHHHHHhcCChHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 61
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=39.47 E-value=6.8e+02 Score=31.33 Aligned_cols=127 Identities=17% Similarity=0.288 Sum_probs=74.7
Q ss_pred HHHHhhCc---CccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhC--CHHHHHHHHHHHHhCCHH
Q 042165 842 VCALAQDQ---YGNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYG--GPAERELIIEEILGHNEE 916 (983)
Q Consensus 842 l~~La~Dq---yGNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a--~~keRk~IIkeLl~~~~e 916 (983)
+..|+.|. ..-|.|..+|+.+.++....+++.+-..+.+++. .|---+++++=..+ =+..++.++.=|.
T Consensus 345 vEsLIsd~Nr~IstyAITtLLKTGt~e~idrLv~~I~sfvhD~SD-~FKiI~ida~rsLsl~Fp~k~~s~l~FL~----- 418 (898)
T COG5240 345 VESLISDENRTISTYAITTLLKTGTEETIDRLVNLIPSFVHDMSD-GFKIIAIDALRSLSLLFPSKKLSYLDFLG----- 418 (898)
T ss_pred HHHHhhcccccchHHHHHHHHHcCchhhHHHHHHHHHHHHHhhcc-CceEEeHHHHHHHHhhCcHHHHHHHHHHH-----
Confidence 44566555 3459999999999999888888877766666653 23222333322111 1223334443222
Q ss_pred HHHHHHcCc----ChhHHHHHHHhcC--CHHHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHhhcccCCC
Q 042165 917 TLLTMMKDQ----FANYVVQKIFELS--SESQQAMMLSRIRTHAHVLKKYTYGKHIVARFEMLIGEENQTS 981 (983)
Q Consensus 917 ~L~~La~Dq----yGnyVLQkLLe~~--dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~rlekl~~~~~~~~ 981 (983)
...++. |-++.|..+.+.. +++-|+.+++.|...+.... | ..|.-++..+++++.|.+
T Consensus 419 ---~~L~~eGg~eFK~~~Vdaisd~~~~~p~skEraLe~LC~fIEDce---y-~~I~vrIL~iLG~EgP~a 482 (898)
T COG5240 419 ---SSLLQEGGLEFKKYMVDAISDAMENDPDSKERALEVLCTFIEDCE---Y-HQITVRILGILGREGPRA 482 (898)
T ss_pred ---HHHHhcccchHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHhhcc---h-hHHHHHHHHHhcccCCCC
Confidence 333343 4466676666653 45677888888776654433 3 346667777787777654
No 62
>smart00638 LPD_N Lipoprotein N-terminal Domain.
Probab=39.34 E-value=7.6e+02 Score=30.32 Aligned_cols=17 Identities=12% Similarity=0.329 Sum_probs=7.8
Q ss_pred hhhcCCHHHHHHHHHHH
Q 042165 677 KLENCSVDEKASVFKEI 693 (983)
Q Consensus 677 lLe~~s~Eqr~~If~EL 693 (983)
+|..++.++...|++++
T Consensus 319 ~lR~~~~e~l~~l~~~~ 335 (574)
T smart00638 319 LLRTLSEEQLEQLWRQL 335 (574)
T ss_pred HHHhCCHHHHHHHHHHH
Confidence 34444444444444444
No 63
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=38.61 E-value=8.6e+02 Score=30.16 Aligned_cols=23 Identities=13% Similarity=0.326 Sum_probs=12.5
Q ss_pred HHHHHHhcCC--HHHHHHHHHHHHH
Q 042165 930 VVQKIFELSS--ESQQAMMLSRIRT 952 (983)
Q Consensus 930 VLQkLLe~~d--d~~Rk~Ll~eLk~ 952 (983)
||.++|++-. ...|+.|++-|+.
T Consensus 227 Ilk~il~~d~k~~~ar~~~i~~lRd 251 (711)
T COG1747 227 ILKHILEHDEKDVWARKEIIENLRD 251 (711)
T ss_pred HHHHHhhhcchhhhHHHHHHHHHHH
Confidence 4555555532 2356667666664
No 64
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=37.96 E-value=7.8e+02 Score=29.46 Aligned_cols=36 Identities=3% Similarity=-0.046 Sum_probs=19.4
Q ss_pred HHHHHHHcCcC-hhHHHHHHHhcCCH--HHHHHHHHHHH
Q 042165 916 ETLLTMMKDQF-ANYVVQKIFELSSE--SQQAMMLSRIR 951 (983)
Q Consensus 916 e~L~~La~Dqy-GnyVLQkLLe~~dd--~~Rk~Ll~eLk 951 (983)
+.+..++...+ +=-++.+.+.++.+ +.++.|+..+.
T Consensus 361 dqiKat~~klT~~is~l~Kal~~~k~~~e~~~~Li~~l~ 399 (460)
T KOG2213|consen 361 DQIKATALKLTQNISELIKALFHAKPDPEEEKQLIWTLV 399 (460)
T ss_pred HHHHHhhhhhhccHHHHHhhHhcCCCchhHHHHHHHHHH
Confidence 44455555554 33356666666543 36666655544
No 65
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=37.70 E-value=7e+02 Score=28.85 Aligned_cols=24 Identities=21% Similarity=0.195 Sum_probs=13.0
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHH
Q 042165 888 SNVIEKCLAYGGPAERELIIEEIL 911 (983)
Q Consensus 888 S~VVEk~L~~a~~keRk~IIkeLl 911 (983)
...+-.+|+.++++.|..|+..|-
T Consensus 258 ~~~la~aLkg~~~e~r~~il~nmS 281 (334)
T PRK07194 258 MELWAVALKGTEPALRQAILRVMP 281 (334)
T ss_pred HHHHHHHHccCCHHHHHHHHHHcc
Confidence 344445555555555666655554
No 66
>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=37.05 E-value=34 Score=43.97 Aligned_cols=40 Identities=10% Similarity=0.238 Sum_probs=23.6
Q ss_pred cccccccccCccchhhhhhcCCchhHHHHHHHhhhhhhhh
Q 042165 769 VMRCVRDQNGNHVIQKCIECIPPEKIGFIISAFCGQVAAL 808 (983)
Q Consensus 769 i~~L~kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~L 808 (983)
++.|+.-..|..+|-.++.+.+.+.+..|+..|..+|..|
T Consensus 577 fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l 616 (808)
T PF09770_consen 577 FISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQL 616 (808)
T ss_dssp HHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH---
T ss_pred ceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhh
Confidence 4455566666677777777776666666666666666444
No 67
>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=35.68 E-value=4.4e+02 Score=26.75 Aligned_cols=86 Identities=15% Similarity=0.208 Sum_probs=45.7
Q ss_pred ccHHHHHHHhcCCchhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhCCHHH------HHHHHHHHHhCCHHHHHHHHcC
Q 042165 851 GNYVTQHVLQRGKPLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAE------RELIIEEILGHNEETLLTMMKD 924 (983)
Q Consensus 851 GNyVVQ~LLe~~~~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a~~ke------Rk~IIkeLl~~~~e~L~~La~D 924 (983)
|+-.|..++..-+.++...+++.+++.-..--+...+-.|+-.+|..-++++ -+.+++.|+..++.++..+-.-
T Consensus 47 g~~~l~~~i~~L~~~~l~~LL~~ir~WNTNsr~~~vAQ~vL~~il~~~~~~~L~~~~~~~~~le~lipYteRH~~Rl~~L 126 (141)
T PF08625_consen 47 GSEELDEVIKKLDDEQLEKLLRFIRDWNTNSRTSHVAQRVLNAILKSHPPEELLKIPGLKEILEALIPYTERHFQRLDRL 126 (141)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCCHHHHHccccHHHHHHHHhhhHHHHHHHHHHH
Confidence 4566666666666666666666555543333333334444444554444433 3456666766666444444444
Q ss_pred cChhHHHHHHHh
Q 042165 925 QFANYVVQKIFE 936 (983)
Q Consensus 925 qyGnyVLQkLLe 936 (983)
--.+|+|..+|.
T Consensus 127 ~q~syllDy~l~ 138 (141)
T PF08625_consen 127 LQKSYLLDYTLQ 138 (141)
T ss_pred HHHHHHHHHHHH
Confidence 444556655554
No 68
>PRK07003 DNA polymerase III subunits gamma and tau; Validated
Probab=35.35 E-value=1.6e+02 Score=37.89 Aligned_cols=28 Identities=11% Similarity=-0.129 Sum_probs=14.4
Q ss_pred CCHHHHHHHHHHHHHhHHHHhhCCCchH
Q 042165 938 SSESQQAMMLSRIRTHAHVLKKYTYGKH 965 (983)
Q Consensus 938 ~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~ 965 (983)
.+......++..+.....+|...+.-+-
T Consensus 319 ~s~~~l~~~~qi~l~g~~el~~ap~~~~ 346 (830)
T PRK07003 319 LSPEQVQLFYQIATVGRGELGLAPDEYA 346 (830)
T ss_pred CCHHHHHHHHHHHHhHHHHhhcCCCHHH
Confidence 3333444455555555566665554444
No 69
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=34.87 E-value=9.7e+02 Score=29.69 Aligned_cols=22 Identities=14% Similarity=0.291 Sum_probs=14.2
Q ss_pred HHHHHhhhcCCHHHHHHHHHHH
Q 042165 672 RFIQQKLENCSVDEKASVFKEI 693 (983)
Q Consensus 672 RVLQklLe~~s~Eqr~~If~EL 693 (983)
|+++.+|..|+...|-..+.-|
T Consensus 89 k~~~~lls~GT~~DrIsalTLL 110 (821)
T COG5593 89 KIEKDLLSHGTVKDRISALTLL 110 (821)
T ss_pred HHHHHHHhcCchhhhhhhhHhh
Confidence 7777777777766665544433
No 70
>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=34.25 E-value=4.6e+02 Score=29.53 Aligned_cols=77 Identities=19% Similarity=0.296 Sum_probs=31.0
Q ss_pred hHHHHHHH-HhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCC---chhHHHHHHHHHHHHHhhccChhHHHH
Q 042165 815 CRVIQRVL-EHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGK---PLERSKIIRKLSGHIVQLSQHKFASNV 890 (983)
Q Consensus 815 S~VLQkiL-e~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~---~k~r~~II~~L~g~~veLs~~K~GS~V 890 (983)
+.+|-+++ +.|-++..+..++..++ ++.-+..---|+|.+++... ++....+++.|.++-..++.+.--+++
T Consensus 145 ~eLl~rlvk~~~l~p~~~~l~l~~~L----~~~W~E~~~~Vlq~lL~~k~~l~~~~~~~l~~~L~~~a~~~skSlkFakL 220 (263)
T PF11510_consen 145 CELLCRLVKKECLEPDHRLLLLRQIL----ELVWNEETFLVLQSLLERKVELSQELFSLLVELLCEQAPQFSKSLKFAKL 220 (263)
T ss_dssp HHHHHHHHH-TTS-HHHHHHHHHHHH----HS---HHHHHHHHHHHTT-----HHHHHHHHHHHH--------SHHHHHH
T ss_pred HHHHHHHHHhccCCHHHHHHHHHHHH----hCcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhHhhhcchHHHHH
Confidence 34555555 45555555555554443 22223333457788887543 233334555555554444444434444
Q ss_pred HHHHH
Q 042165 891 IEKCL 895 (983)
Q Consensus 891 VEk~L 895 (983)
+..++
T Consensus 221 lLtvl 225 (263)
T PF11510_consen 221 LLTVL 225 (263)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 44444
No 71
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=34.02 E-value=8.9e+02 Score=28.99 Aligned_cols=15 Identities=7% Similarity=0.155 Sum_probs=7.0
Q ss_pred HHHHHHHhchhhhhc
Q 042165 724 ELANQLVGQILPLSM 738 (983)
Q Consensus 724 ~Iie~L~g~i~~La~ 738 (983)
+++-.+..|+..|+.
T Consensus 46 q~ip~~fk~fp~la~ 60 (460)
T KOG2213|consen 46 QFIPRFFKHFPSLAD 60 (460)
T ss_pred HHHHHHHhhCchhhh
Confidence 344444445555543
No 72
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=33.96 E-value=9.9e+02 Score=29.52 Aligned_cols=103 Identities=10% Similarity=0.117 Sum_probs=55.6
Q ss_pred cchhHHHHHHHhhcCHHHHHHHHHHHhhccccccccccCccchhhhhhc-----CCchhHHHHHHH-hhhhhhhhccC--
Q 042165 740 MYGCRVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIEC-----IPPEKIGFIISA-FCGQVAALSMH-- 811 (983)
Q Consensus 740 ~yGSrVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~-----~~~e~~~~Ii~~-~k~~l~~Ls~h-- 811 (983)
..+|+.|..+-+..+...+..|-..+.+.++.|+.+..++.+.-++-.. +.+.+.+.++.. +...+..+...
T Consensus 255 ~Da~WAlsyLsdg~ne~iq~vi~~gvv~~LV~lL~~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~~~L~~l~~ll~~s~ 334 (514)
T KOG0166|consen 255 TDACWALSYLTDGSNEKIQMVIDAGVVPRLVDLLGHSSPKVVTPALRAIGNIVTGSDEQTQVVINSGALPVLSNLLSSSP 334 (514)
T ss_pred HHHHHHHHHHhcCChHHHHHHHHccchHHHHHHHcCCCcccccHHHhhccceeeccHHHHHHHHhcChHHHHHHHhccCc
Confidence 4556666555555555444444455677777888777776554333322 456666776644 44555555542
Q ss_pred -----CchhHHHHHHHHhcCCHHHHHHHHHH-HHHHHHH
Q 042165 812 -----PYGCRVIQRVLEHCADKHQCQFIVDE-ILDNVCA 844 (983)
Q Consensus 812 -----k~GS~VLQkiLe~~~d~~~~~~Li~e-Ll~~l~~ 844 (983)
+-.|++|--+-. ...++.+.+++. ++..+..
T Consensus 335 ~~~ikkEAcW~iSNItA--G~~~qiqaVida~l~p~Li~ 371 (514)
T KOG0166|consen 335 KESIKKEACWTISNITA--GNQEQIQAVIDANLIPVLIN 371 (514)
T ss_pred chhHHHHHHHHHHHhhc--CCHHHHHHHHHcccHHHHHH
Confidence 345565555543 344555555543 3333333
No 73
>PF03224 V-ATPase_H_N: V-ATPase subunit H; InterPro: IPR004908 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=33.46 E-value=2.5e+02 Score=31.68 Aligned_cols=28 Identities=14% Similarity=0.296 Sum_probs=14.5
Q ss_pred CCCCCCccccccCCCCCChhhhHHHHHHh
Q 042165 617 SNRYSGWQGQRGFESYNDPKICNFLEELK 645 (983)
Q Consensus 617 ~~~~~~We~~R~~~~~~~~~rs~lLeeL~ 645 (983)
|.|...|+...+...+++++ ..++..+.
T Consensus 11 r~r~i~W~~~~ra~~is~~~-~~~ik~~~ 38 (312)
T PF03224_consen 11 RSRPIPWDGYVRAGLISEED-LSLIKKLD 38 (312)
T ss_dssp HHS---HHHHHHTTSS-HHH-HHHHHHHH
T ss_pred HcCCCCHHHHHHhCCCCHHH-HHHHHHHH
Confidence 34577899998777455554 44555553
No 74
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=33.44 E-value=5.2e+02 Score=26.12 Aligned_cols=75 Identities=20% Similarity=0.321 Sum_probs=44.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHH-HHHHhCCHHHHHHHHcCcChhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhhCCCchH
Q 042165 887 ASNVIEKCLAYGGPAERELII-EEILGHNEETLLTMMKDQFANYVVQKIFELSSESQQAMMLSRIRTHAHVLKKYTYGKH 965 (983)
Q Consensus 887 GS~VVEk~L~~a~~keRk~II-keLl~~~~e~L~~La~DqyGnyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~ 965 (983)
+=.+++.|+..|.......|. ++++ +.|..|+.+ ..+...++++++-|..-...++.++.=..
T Consensus 61 AL~LLe~~vkNCG~~fh~evas~~fl----~~l~~l~~~------------~~~~~Vk~kil~li~~W~~~f~~~~~l~~ 124 (142)
T cd03569 61 ALLLLESCVKNCGTHFHDEVASREFM----DELKDLIKT------------TKNEEVRQKILELIQAWALAFRNKPQLKY 124 (142)
T ss_pred HHHHHHHHHHHCCHHHHHHHhhHHHH----HHHHHHHcc------------cCCHHHHHHHHHHHHHHHHHhCCCcccHH
Confidence 446778888887766544333 3333 445566655 24455666666666666666665555556
Q ss_pred HHHHHHHHhhcc
Q 042165 966 IVARFEMLIGEE 977 (983)
Q Consensus 966 Vv~rlekl~~~~ 977 (983)
|.+..++|..+|
T Consensus 125 i~~~y~~L~~~G 136 (142)
T cd03569 125 VVDTYQILKAEG 136 (142)
T ss_pred HHHHHHHHHHcC
Confidence 666666666554
No 75
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=33.38 E-value=8.4e+02 Score=28.49 Aligned_cols=60 Identities=17% Similarity=0.176 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHHHhcCCHHHHHHHHHHHHH
Q 042165 887 ASNVIEKCLAYGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKIFELSSESQQAMMLSRIRT 952 (983)
Q Consensus 887 GS~VVEk~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkLLe~~dd~~Rk~Ll~eLk~ 952 (983)
....+-..+.-++++.|++|.+.+. .+..+|+++......= +...-.++.++.|+..++.
T Consensus 263 ~~~~La~aLkg~~~~lrekilsnms----kR~~e~i~~el~~~gp--i~~~dve~aq~~il~~~r~ 322 (339)
T COG1536 263 DKEDLAIALKGASEELREKILSNMS----KRAAEMLKEELEFLGP--VRLSDVETAQKAILNIVRR 322 (339)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHhcc----HHHHHHHHHHhhccCC--ccHHHHHHHHHHHHHHHHH
Confidence 3445555555566666766666664 4455666555433221 1111123355666666554
No 76
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=33.34 E-value=1.6e+02 Score=37.84 Aligned_cols=20 Identities=25% Similarity=0.474 Sum_probs=11.8
Q ss_pred cCccCCeeehhhhccCCHHH
Q 042165 702 TDVFGNYVIQKFFEYGSPAQ 721 (983)
Q Consensus 702 tD~yGshVVQKLLe~~s~eq 721 (983)
.|.+|=++++.++++.++..
T Consensus 737 ~Dh~GF~LLn~i~~~~~~~~ 756 (960)
T KOG1992|consen 737 NDHHGFYLLNTIIESIPPNE 756 (960)
T ss_pred cchhHHHHHHHHHhcCCHhh
Confidence 35666666666666655543
No 77
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.61 E-value=5.1e+02 Score=33.16 Aligned_cols=22 Identities=14% Similarity=0.164 Sum_probs=17.6
Q ss_pred hccccccccccCccchhhhhhc
Q 042165 767 GQVMRCVRDQNGNHVIQKCIEC 788 (983)
Q Consensus 767 g~i~~L~kD~~GNhVLQk~Le~ 788 (983)
+.+++|+.+..-|+++=|+|+.
T Consensus 221 P~ffkllttSsNNWmLIKiiKL 242 (877)
T KOG1059|consen 221 PLFYKLLVTSSNNWVLIKLLKL 242 (877)
T ss_pred HHHHHHHhccCCCeehHHHHHH
Confidence 4467788888889999888875
No 78
>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=32.60 E-value=1.5e+02 Score=35.50 Aligned_cols=14 Identities=21% Similarity=0.349 Sum_probs=6.9
Q ss_pred HHHHHhhcCHHHHH
Q 042165 746 IQKALETIEIEQKA 759 (983)
Q Consensus 746 IQklLe~as~eqr~ 759 (983)
.++++.....+++.
T Consensus 107 ~~~lL~~l~~~er~ 120 (449)
T TIGR00400 107 VQQLLASSTEEERK 120 (449)
T ss_pred HHHHHHcCCHHHHH
Confidence 44455555555443
No 79
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=32.11 E-value=1.3e+03 Score=30.27 Aligned_cols=11 Identities=36% Similarity=0.440 Sum_probs=6.1
Q ss_pred HHHHHHHHHhh
Q 042165 965 HIVARFEMLIG 975 (983)
Q Consensus 965 ~Vv~rlekl~~ 975 (983)
-++.+++++..
T Consensus 373 ~~~~~~~~~~~ 383 (824)
T PRK07764 373 GLLARLERLER 383 (824)
T ss_pred HHHHHHHHHHH
Confidence 35566665554
No 80
>PF13764 E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4
Probab=31.59 E-value=1.3e+03 Score=30.16 Aligned_cols=30 Identities=23% Similarity=0.537 Sum_probs=18.8
Q ss_pred HHHHHHhhhhhhhhccCCchhHHHHHHHHh
Q 042165 795 GFIISAFCGQVAALSMHPYGCRVIQRVLEH 824 (983)
Q Consensus 795 ~~Ii~~~k~~l~~Ls~hk~GS~VLQkiLe~ 824 (983)
++.++.|..-...+-.+..|.++-+.+++.
T Consensus 289 ~~~Le~F~~i~~~I~~~~~G~~LK~~Il~~ 318 (802)
T PF13764_consen 289 QFKLECFCEIAEGIPNNSNGNRLKDKILES 318 (802)
T ss_pred HHHHHHHHHHHhcCCCCCchHHHHHHHHHh
Confidence 344555665555666666777777777765
No 81
>COG5593 Nucleic-acid-binding protein possibly involved in ribosomal biogenesis [Translation, ribosomal structure and biogenesis]
Probab=31.53 E-value=8.9e+02 Score=29.99 Aligned_cols=134 Identities=16% Similarity=0.164 Sum_probs=63.2
Q ss_pred CccHHHHHhhhcCCHHHHHH---HHHHHhHhHHh----------------hhcCccCCeeehhhhccCCHHHHHHHHHHH
Q 042165 669 HGSRFIQQKLENCSVDEKAS---VFKEILPHASK----------------LMTDVFGNYVIQKFFEYGSPAQRKELANQL 729 (983)
Q Consensus 669 ~gSRVLQklLe~~s~Eqr~~---If~EL~~~i~~----------------L~tD~yGshVVQKLLe~~s~eqr~~Iie~L 729 (983)
+...-++++|.+|...-|+. +++.|++-++. |++...-.|+.|..++.--+..+-.++
T Consensus 117 h~~k~letLls~C~kksrn~a~q~l~~lKDLfi~gllp~rklry~k~q~~lsk~v~~k~l~~~~fesflk~l~fr~l--- 193 (821)
T COG5593 117 HNAKNLETLLSFCEKKSRNVAYQVLKNLKDLFISGLLPNRKLRYFKNQPGLSKEVQNKYLKQRIFESFLKNLRFRVL--- 193 (821)
T ss_pred hHHHHHHHHHHHHhcccccHHHHHHHHHHHHHhcccCcchhhHhhhcCcchhhhhcchHHHHHHHHHHHHHHHHHHH---
Confidence 34678899999997666554 33344443332 223333334444444332222111111
Q ss_pred Hhchhhhhcc---cchhHHHHHHHhhc--CHHHHHHHHHHHhhcccccc--ccccCccchhhhhhcCCchhHHHHHHHhh
Q 042165 730 VGQILPLSMQ---MYGCRVIQKALETI--EIEQKAQLVRELDGQVMRCV--RDQNGNHVIQKCIECIPPEKIGFIISAFC 802 (983)
Q Consensus 730 ~g~i~~La~h---~yGSrVIQklLe~a--s~eqr~~Ll~EL~g~i~~L~--kD~~GNhVLQk~Le~~~~e~~~~Ii~~~k 802 (983)
.-+..|+.+ ..-..||..+++.+ .++|...|++-+...+-..- ....++|||-++= ...+..+..|++.+.
T Consensus 194 -evle~ls~d~i~~Vk~qvv~~VydLL~a~peqe~nLl~L~INKlGDk~~kvsskasY~ilkLe-~~hP~mk~VV~d~Ie 271 (821)
T COG5593 194 -EVLEVLSHDPIQYVKKQVVRLVYDLLEARPEQEVNLLHLFINKLGDKRDKVSSKASYVILKLE-LLHPGMKEVVLDGIE 271 (821)
T ss_pred -HHHHHhccchHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHhhccchhhhhhhhhHHHHHHH-hcCCchhHHHHhhhh
Confidence 111122222 12345566666544 35566666665544333211 0124678877754 345556666666665
Q ss_pred hhhhh
Q 042165 803 GQVAA 807 (983)
Q Consensus 803 ~~l~~ 807 (983)
..+..
T Consensus 272 df~f~ 276 (821)
T COG5593 272 DFYFK 276 (821)
T ss_pred Hheec
Confidence 54443
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=31.26 E-value=5.7e+02 Score=25.89 Aligned_cols=14 Identities=29% Similarity=0.244 Sum_probs=7.1
Q ss_pred CCchHHHHHHHHHh
Q 042165 961 TYGKHIVARFEMLI 974 (983)
Q Consensus 961 ~~Gk~Vv~rlekl~ 974 (983)
....++--.++.++
T Consensus 190 ~~~~r~~~~l~~l~ 203 (209)
T PF02854_consen 190 NLSSRIRFMLEDLI 203 (209)
T ss_dssp SSSHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHH
Confidence 45555555555444
No 83
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=30.95 E-value=6.5e+02 Score=29.99 Aligned_cols=39 Identities=18% Similarity=0.076 Sum_probs=22.2
Q ss_pred CHHHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHhhcc
Q 042165 939 SESQQAMMLSRIRTHAHVLKKYTYGKHIVARFEMLIGEE 977 (983)
Q Consensus 939 dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~rlekl~~~~ 977 (983)
-.+.++++-..++.-..+.++++.=+-|.+.++++..+|
T Consensus 102 h~kV~~k~~~lv~eWsee~K~Dp~lsLi~~l~~klk~~g 140 (462)
T KOG2199|consen 102 HPKVCEKMRDLVKEWSEEFKKDPSLSLISALYKKLKEEG 140 (462)
T ss_pred cHHHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHcC
Confidence 344444544445554556666666666666666666543
No 84
>KOG3821 consensus Heparin sulfate cell surface proteoglycan [Signal transduction mechanisms]
Probab=30.89 E-value=1e+03 Score=29.61 Aligned_cols=225 Identities=13% Similarity=0.133 Sum_probs=0.0
Q ss_pred CCCChhhhHHHHHHhcCcCccchHhhhhHHHHHhhcCCCccHHHHHhhhcCCHHHHHHHHHHHhHhHHh--------hhc
Q 042165 631 SYNDPKICNFLEELKSGKGRRFELSDITGHIVEFSADQHGSRFIQQKLENCSVDEKASVFKEILPHASK--------LMT 702 (983)
Q Consensus 631 ~~~~~~rs~lLeeL~~~~~r~~~L~eIkG~VveLs~Dq~gSRVLQklLe~~s~Eqr~~If~EL~~~i~~--------L~t 702 (983)
+|+.+...++..+-..+ ++..+ |+.|.+|+.+| +.+.++|+|...++++ |-.
T Consensus 68 CCt~emEerl~~~a~~~---------feqll------q~~s~~Lr~~l-----~s~~r~F~E~f~ell~~ae~~l~~mF~ 127 (563)
T KOG3821|consen 68 CCTREMEERLQLQARDM---------FEQLL------QDSSSVLRFVL-----ASNARKFDEFFLELLRNAENSLNAMFS 127 (563)
T ss_pred cccHHHHHHHHHHHHHH---------HHHHH------HHhHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred CccCCeeehhhhccCCHHHHHHHHHHHHh-------chhhhhcccchhHHHHHHHhhcC-----HHHHHHHHHHH-----
Q 042165 703 DVFGNYVIQKFFEYGSPAQRKELANQLVG-------QILPLSMQMYGCRVIQKALETIE-----IEQKAQLVREL----- 765 (983)
Q Consensus 703 D~yGshVVQKLLe~~s~eqr~~Iie~L~g-------~i~~La~h~yGSrVIQklLe~as-----~eqr~~Ll~EL----- 765 (983)
..||+...|... .+..++.+|+. ++.+...+-+.. .++.++..+. .++...-++..
T Consensus 128 ~tYg~ly~qn~~------~~~dlFtel~~y~~~~~~nlee~l~eff~~-Lf~~~f~~l~~~~~~~~Dy~eCl~~~~~~l~ 200 (563)
T KOG3821|consen 128 KTYGSLYPQNAE------LFNDLFTELKLYYVGSNVNLEETLNEFFAR-LFEVMFSQLNPQYDFTLDYLECLSKARRELK 200 (563)
T ss_pred hhhhhhhHHHHH------HHHHHHHHHHHHhccccCCHHHHHHHHHHH-HHHHHHHHhcCCcCCcHHHHHHHHHHHHhcC
Q ss_pred -hhccccccccc----------------cCccchhhhhh-cCCchhHHHHHHH-hhhhhhhhc-cCCchhHHHHHHHHhc
Q 042165 766 -DGQVMRCVRDQ----------------NGNHVIQKCIE-CIPPEKIGFIISA-FCGQVAALS-MHPYGCRVIQRVLEHC 825 (983)
Q Consensus 766 -~g~i~~L~kD~----------------~GNhVLQk~Le-~~~~e~~~~Ii~~-~k~~l~~Ls-~hk~GS~VLQkiLe~~ 825 (983)
.+++.+.++.+ -|.-||.+... ...++....+++. -..++.-+. ..++....+.-+=-+.
T Consensus 201 pFGdiPq~l~~Q~trsl~~ar~Flq~L~~g~eVv~~~~~v~~s~~C~raLlkM~yCp~CqGl~~~kPC~gYC~NVmrGCl 280 (563)
T KOG3821|consen 201 PFGDIPQKLMLQVTRSLVAARTFLQGLEVGIEVVSEVDKVPFSEECSRALLKMIYCPHCQGLPSVKPCYGYCLNVMRGCL 280 (563)
T ss_pred CcccchHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhcCCCChHHHHHHHHHhcchhccCCCccCCcHHHHHHHHHHHh
Q ss_pred CCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCchhHHHHH------HHHHHHHHhhc
Q 042165 826 ADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPLERSKII------RKLSGHIVQLS 882 (983)
Q Consensus 826 ~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k~r~~II------~~L~g~~veLs 882 (983)
......+.-+...++.+..|+..-+|.|=|..+|....-+.-+.|. .+|..++.+.|
T Consensus 281 A~~adLd~~W~~~idSl~~L~~~l~g~~~iesvl~~i~v~iseAIm~~q~N~~~lt~kV~q~C 343 (563)
T KOG3821|consen 281 ANQADLDPEWRNYIDSLLELADKLEGPFNIESVLLPIHVKISEAIMAAQENSDKLTAKVFQGC 343 (563)
T ss_pred hhhcccchHHHHHHHHHHHHHHhhcCcchHHHHHhhhhhHHHHHHHHHHHhhHHHHHHHHhhc
No 85
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=30.83 E-value=5.4e+02 Score=25.52 Aligned_cols=45 Identities=20% Similarity=0.403 Sum_probs=26.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHH-HHHHhCCHHHHHHHHcCcChhH-HHHHHH
Q 042165 887 ASNVIEKCLAYGGPAERELII-EEILGHNEETLLTMMKDQFANY-VVQKIF 935 (983)
Q Consensus 887 GS~VVEk~L~~a~~keRk~II-keLl~~~~e~L~~La~DqyGny-VLQkLL 935 (983)
+=.+++.|+..|.......|. ++++ +.|..++.+++..- |-++++
T Consensus 57 AL~lLe~~vkNcg~~f~~ev~s~~fl----~~L~~l~~~~~~~~~Vk~kil 103 (133)
T smart00288 57 ALTLLDACVKNCGSKFHLEVASKEFL----NELVKLIKPKYPLPLVKKRIL 103 (133)
T ss_pred HHHHHHHHHHHCCHHHHHHHHhHHHH----HHHHHHHcCCCCcHHHHHHHH
Confidence 446777788777766554443 3344 45667777776543 433333
No 86
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=30.21 E-value=9.9e+02 Score=32.07 Aligned_cols=19 Identities=21% Similarity=-0.047 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHhhCc
Q 042165 831 CQFIVDEILDNVCALAQDQ 849 (983)
Q Consensus 831 ~~~Li~eLl~~l~~La~Dq 849 (983)
....++.|+..+....+|+
T Consensus 383 m~~~l~~Il~~Vl~~l~Dp 401 (1075)
T KOG2171|consen 383 MIGNLPKILPIVLNGLNDP 401 (1075)
T ss_pred HHHHHHHHHHHHHhhcCCC
Confidence 3446677777777777776
No 87
>PTZ00429 beta-adaptin; Provisional
Probab=29.98 E-value=1.3e+03 Score=29.78 Aligned_cols=19 Identities=21% Similarity=0.399 Sum_probs=9.3
Q ss_pred HHHHHcCcChhHHHHHHHh
Q 042165 918 LLTMMKDQFANYVVQKIFE 936 (983)
Q Consensus 918 L~~La~DqyGnyVLQkLLe 936 (983)
|..|+.+.....||..+.+
T Consensus 357 L~~Lane~Nv~~IL~EL~e 375 (746)
T PTZ00429 357 LLKLVTPSVAPEILKELAE 375 (746)
T ss_pred HHHHcCcccHHHHHHHHHH
Confidence 4444555555555544444
No 88
>PF14098 SSPI: Small, acid-soluble spore protein I
Probab=29.84 E-value=1.1e+02 Score=27.22 Aligned_cols=52 Identities=23% Similarity=0.387 Sum_probs=34.5
Q ss_pred HHHHHHHHHHhCCHHHHHHHHcCcCh----------hHHHHHHHhcCCHHHHHHHHHHHHHh
Q 042165 902 ERELIIEEILGHNEETLLTMMKDQFA----------NYVVQKIFELSSESQQAMMLSRIRTH 953 (983)
Q Consensus 902 eRk~IIkeLl~~~~e~L~~La~DqyG----------nyVLQkLLe~~dd~~Rk~Ll~eLk~~ 953 (983)
.|+.|+..+.+.+.+.|..++.|... =.+...+|...++..++.++..|..+
T Consensus 3 lR~AI~~nv~g~s~~el~~~I~daI~sgEE~~LPGLGVlFE~~W~~~~~~ek~~m~~~l~~~ 64 (65)
T PF14098_consen 3 LRQAIIHNVKGSSKEELKDTIEDAIQSGEEKALPGLGVLFEVIWKNSDESEKQEMVNTLEQG 64 (65)
T ss_pred HHHHHHHHccCCCHHHHHHHHHHHHhccchhcCCchHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence 35556666665555555555555443 23556777889999999999888754
No 89
>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=29.01 E-value=6.3e+02 Score=30.14 Aligned_cols=35 Identities=17% Similarity=0.257 Sum_probs=15.0
Q ss_pred HHHHhhCcCccHHHHHHHhcC----CchhHHHHHHHHHH
Q 042165 842 VCALAQDQYGNYVTQHVLQRG----KPLERSKIIRKLSG 876 (983)
Q Consensus 842 l~~La~DqyGNyVVQ~LLe~~----~~k~r~~II~~L~g 876 (983)
+..++....-..+++.++++. +.+.+..+++.+..
T Consensus 328 L~~l~~~~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~ 366 (526)
T PF01602_consen 328 LYKLANESNVKEILDELLKYLSELSDPDFRRELIKAIGD 366 (526)
T ss_dssp HHHH--HHHHHHHHHHHHHHHHHC--HHHHHHHHHHHHH
T ss_pred HhhcccccchhhHHHHHHHHHHhccchhhhhhHHHHHHH
Confidence 334444444444555555543 33345555554443
No 90
>COG2733 Predicted membrane protein [Function unknown]
Probab=28.68 E-value=1.1e+03 Score=28.26 Aligned_cols=6 Identities=33% Similarity=0.755 Sum_probs=2.2
Q ss_pred HHHHHH
Q 042165 725 LANQLV 730 (983)
Q Consensus 725 Iie~L~ 730 (983)
|++++.
T Consensus 184 l~D~~~ 189 (415)
T COG2733 184 LLDKLI 189 (415)
T ss_pred HHHHHH
Confidence 333333
No 91
>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=28.60 E-value=1.1e+03 Score=28.59 Aligned_cols=10 Identities=30% Similarity=0.949 Sum_probs=4.3
Q ss_pred hHHHHHHHHh
Q 042165 815 CRVIQRVLEH 824 (983)
Q Consensus 815 S~VLQkiLe~ 824 (983)
|.+|.+|++.
T Consensus 59 ~~iL~~~l~~ 68 (503)
T PF10508_consen 59 CDILKRLLSA 68 (503)
T ss_pred HHHHHHHHhc
Confidence 3444444443
No 92
>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=27.82 E-value=8.3e+02 Score=30.31 Aligned_cols=32 Identities=16% Similarity=0.089 Sum_probs=19.0
Q ss_pred CHHHHHHHHHHHHhchhhhhcccchhHHHHHHHh
Q 042165 718 SPAQRKELANQLVGQILPLSMQMYGCRVIQKALE 751 (983)
Q Consensus 718 s~eqr~~Iie~L~g~i~~La~h~yGSrVIQklLe 751 (983)
+..+...+++.+..++..|-.. -..+|+.++.
T Consensus 49 ~~~~l~~~L~~L~~~Vs~Ld~~--~~~LV~ail~ 80 (563)
T PF05327_consen 49 SVSQLIRWLKALSSCVSLLDSS--CKQLVEAILS 80 (563)
T ss_dssp -HHHHHHHHHHHHHGGGGG-SC--CHHHHHHHHT
T ss_pred cHHHHHHHHHHHHHHHHHhhhH--HHHHHHHHHc
Confidence 3456777777777777666554 4455666653
No 93
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=27.66 E-value=1.5e+03 Score=29.60 Aligned_cols=64 Identities=9% Similarity=0.253 Sum_probs=37.2
Q ss_pred HHHHHHHhchhhhhcccchhHHHHHHHhhcCHHHHHHHHHHHhhccccccccccCccchhhhhhcCCch
Q 042165 724 ELANQLVGQILPLSMQMYGCRVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIECIPPE 792 (983)
Q Consensus 724 ~Iie~L~g~i~~La~h~yGSrVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e 792 (983)
+|++.+..++.....+.+= .+.+.++. .+.+.|++....|...+-.++.+- .+..|-++..+++
T Consensus 512 ~ll~~lA~~l~p~l~~~~~-~~~~~~~~-~~~~~rr~~~~~lq~k~~~l~~n~---~LfeKgl~lF~dd 575 (803)
T PLN03083 512 SILKHLADHLRPMLINSLK-ERRKALFT-ENAERRRRLLDNLQKKIDESFLNM---QLYEKALDLFEDD 575 (803)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHh-cchHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhCCcc
Confidence 5555555555555533333 45677777 677777777777777666665543 1444445544443
No 94
>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=26.94 E-value=3.4e+02 Score=30.54 Aligned_cols=137 Identities=17% Similarity=0.266 Sum_probs=64.3
Q ss_pred HHHhhhcCCHHHHHHHHHHHh-H-----hHHhhhcCccCCeeehhhhccCCH---HHHHHHH-HHHHhchhhhhcccchh
Q 042165 674 IQQKLENCSVDEKASVFKEIL-P-----HASKLMTDVFGNYVIQKFFEYGSP---AQRKELA-NQLVGQILPLSMQMYGC 743 (983)
Q Consensus 674 LQklLe~~s~Eqr~~If~EL~-~-----~i~~L~tD~yGshVVQKLLe~~s~---eqr~~Ii-e~L~g~i~~La~h~yGS 743 (983)
.=++|-.|++.|.+.+++++. + -+..||. .++...++ ..-..++ ..+-+++..| ..-++
T Consensus 40 ~lq~L~~csp~q~e~lc~~L~l~~lsd~~l~~lc~---------~ll~Ls~dls~~~a~~l~~sl~LpkilsL--~~~AS 108 (263)
T PF11510_consen 40 ELQFLNECSPSQVEMLCSQLQLPQLSDDGLLQLCS---------SLLALSPDLSHSNATVLLRSLFLPKILSL--EEPAS 108 (263)
T ss_dssp HHHGGGG--HHHHHHHHHHHTGGG--HHHHHHHHH---------HHHH-SS---HHHHHHHHHHHHHHHHHH---SS---
T ss_pred HHHHHHhCCHHHHHHHHHHhCcCCCCHHHHHHHHH---------HHHccCcccchhhHHHHHHHHHHHHHHhc--CCCcc
Confidence 334567789999999999986 2 2333433 12222111 1122233 3355777666 66788
Q ss_pred HHHHHHHhhcCHHHHHHHHHHHhhccccccccccCc---cchhhhh--hcCCchhHHHHHHHhhhhhhhhccCCchhHHH
Q 042165 744 RVIQKALETIEIEQKAQLVRELDGQVMRCVRDQNGN---HVIQKCI--ECIPPEKIGFIISAFCGQVAALSMHPYGCRVI 818 (983)
Q Consensus 744 rVIQklLe~as~eqr~~Ll~EL~g~i~~L~kD~~GN---hVLQk~L--e~~~~e~~~~Ii~~~k~~l~~Ls~hk~GS~VL 818 (983)
|++..++..+-...-..+++.+...++. ....|+ -+|.+++ ++.+++.+..++..+. ++..+..-..|+
T Consensus 109 R~L~sal~~f~k~~p~~~~~all~PlL~--~~~~g~~Q~eLl~rlvk~~~l~p~~~~l~l~~~L----~~~W~E~~~~Vl 182 (263)
T PF11510_consen 109 RLLVSALTSFCKKYPRPVCEALLVPLLQ--APGLGPPQCELLCRLVKKECLEPDHRLLLLRQIL----ELVWNEETFLVL 182 (263)
T ss_dssp HHHHHHHHHHHHHSHHHHHHHHHHHHHH--STT--HHHHHHHHHHHH-TTS-HHHHHHHHHHHH----HS---HHHHHHH
T ss_pred HHHHHHHHHHHHhCcHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHH----hCcCcHHHHHHH
Confidence 9988887433333333344443332221 111222 2445555 4566676666655443 344445557889
Q ss_pred HHHHHhcCC
Q 042165 819 QRVLEHCAD 827 (983)
Q Consensus 819 QkiLe~~~d 827 (983)
|.+++...+
T Consensus 183 q~lL~~k~~ 191 (263)
T PF11510_consen 183 QSLLERKVE 191 (263)
T ss_dssp HHHHTT---
T ss_pred HHHHhcCCC
Confidence 999988743
No 95
>COG4399 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.93 E-value=9.2e+02 Score=28.38 Aligned_cols=9 Identities=22% Similarity=0.538 Sum_probs=4.0
Q ss_pred HHHHHhhhc
Q 042165 672 RFIQQKLEN 680 (983)
Q Consensus 672 RVLQklLe~ 680 (983)
+++|++++.
T Consensus 94 ~~lqk~lk~ 102 (376)
T COG4399 94 QLLQKLLKS 102 (376)
T ss_pred HHHHHHHHh
Confidence 344444443
No 96
>PF08926 DUF1908: Domain of unknown function (DUF1908); InterPro: IPR015022 This domain is found in microtubule-associated serine/threonine-protein kinases. ; GO: 0000287 magnesium ion binding, 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1V9V_A.
Probab=26.56 E-value=1.7e+02 Score=32.87 Aligned_cols=64 Identities=17% Similarity=0.311 Sum_probs=8.3
Q ss_pred chhHHHHHHHHHHHHHhhccChhHHHHHHHHHHhCCHHHHHHHHHHHHhCCHHHHHHHHcCcChhHHHHHH
Q 042165 864 PLERSKIIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAERELIIEEILGHNEETLLTMMKDQFANYVVQKI 934 (983)
Q Consensus 864 ~k~r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a~~keRk~IIkeLl~~~~e~L~~La~DqyGnyVLQkL 934 (983)
++....+.+.++..+.-++ --++++| ||++.+ ++.-.++++--++. +....++...-.|||.++
T Consensus 209 ~~~~~~~~~lvrklL~Iis---RPARLLE-cLEFdP-eefy~lLe~aEg~a--k~~~~~k~DiP~Yii~kL 272 (282)
T PF08926_consen 209 SEEVAFVTQLVRKLLIIIS---RPARLLE-CLEFDP-EEFYHLLEAAEGQA--KEGQGIKTDIPQYIISKL 272 (282)
T ss_dssp HHHHHHHHHHHHHHHHHHS---S------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHhc---chhhhhh-hhccCh-HHHHHHHHHHHHhh--hhcCCcccCchHhHHHHh
Confidence 3334444444444444333 2457776 777744 33333444433321 122333444456666554
No 97
>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=26.41 E-value=7.8e+02 Score=25.92 Aligned_cols=61 Identities=18% Similarity=0.286 Sum_probs=26.5
Q ss_pred CchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcC-ccHHHHHHHh----cCCchhHHHHHHHH
Q 042165 812 PYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQY-GNYVTQHVLQ----RGKPLERSKIIRKL 874 (983)
Q Consensus 812 k~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~Dqy-GNyVVQ~LLe----~~~~k~r~~II~~L 874 (983)
++...++..+++.+.+.. ..|.+.....+..++..-. ...++..++. +..+..|...++.|
T Consensus 90 ~~~~~~l~~Ll~~~~~~~--~~i~~~a~~~L~~i~~~~~~~~~~~~~~l~~~~~~Kn~~vR~~~~~~l 155 (228)
T PF12348_consen 90 PYADILLPPLLKKLGDSK--KFIREAANNALDAIIESCSYSPKILLEILSQGLKSKNPQVREECAEWL 155 (228)
T ss_dssp HHHHHHHHHHHHGGG-----HHHHHHHHHHHHHHHTTS-H--HHHHHHHHHHTT-S-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcccc--HHHHHHHHHHHHHHHHHCCcHHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence 344556666777766532 3444444455555555444 3455333333 22344444444433
No 98
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=25.51 E-value=7.2e+02 Score=25.22 Aligned_cols=75 Identities=12% Similarity=0.197 Sum_probs=46.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHH-HHHHhCCHHHHHHHHcCcChhHHHHHHHhcCCHHHHHHHHHHHHHhHHHHhhCCCchH
Q 042165 887 ASNVIEKCLAYGGPAERELII-EEILGHNEETLLTMMKDQFANYVVQKIFELSSESQQAMMLSRIRTHAHVLKKYTYGKH 965 (983)
Q Consensus 887 GS~VVEk~L~~a~~keRk~II-keLl~~~~e~L~~La~DqyGnyVLQkLLe~~dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~ 965 (983)
+=.+++.|.+.|+......|. ++++ +.|..|+.++ .+...+++|++-|..-....+.++.=+.
T Consensus 57 AL~LLe~~vkNCG~~fh~evask~Fl----~eL~kl~~~~------------~~~~Vk~kil~li~~W~~~f~~~~~l~~ 120 (144)
T cd03568 57 ALTLLDACAENCGKRFHQEVASRDFT----QELKKLINDR------------VHPTVKEKLREVVKQWADEFKNDPSLSL 120 (144)
T ss_pred HHHHHHHHHHHCCHHHHHHHhhHHHH----HHHHHHhccc------------CCHHHHHHHHHHHHHHHHHhCCCcccHH
Confidence 446777888877776554443 2333 4455666665 3556677777777766666666666566
Q ss_pred HHHHHHHHhhcc
Q 042165 966 IVARFEMLIGEE 977 (983)
Q Consensus 966 Vv~rlekl~~~~ 977 (983)
|.+.-.+|..+|
T Consensus 121 i~~~y~~L~~~G 132 (144)
T cd03568 121 MSDLYKKLKNEG 132 (144)
T ss_pred HHHHHHHHHHcC
Confidence 666666666554
No 99
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.19 E-value=9.2e+02 Score=31.08 Aligned_cols=36 Identities=22% Similarity=0.382 Sum_probs=23.3
Q ss_pred HHHhhccChh---H-HHHHHHHHHhCCHHHHHHHHHHHHh
Q 042165 877 HIVQLSQHKF---A-SNVIEKCLAYGGPAERELIIEEILG 912 (983)
Q Consensus 877 ~~veLs~~K~---G-S~VVEk~L~~a~~keRk~IIkeLl~ 912 (983)
.+.++++.|- | -..|+.|++....++-++.+..+-+
T Consensus 733 eLekfAkskksPIGy~PFVe~c~~~~n~~EA~KYiprv~~ 772 (829)
T KOG2280|consen 733 ELEKFAKSKKSPIGYLPFVEACLKQGNKDEAKKYIPRVGG 772 (829)
T ss_pred HHHHHHhccCCCCCchhHHHHHHhcccHHHHhhhhhccCC
Confidence 4555565554 3 4578888888877776666665544
No 100
>PF05879 RHD3: Root hair defective 3 GTP-binding protein (RHD3); InterPro: IPR008803 This family consists of several eukaryotic root hair defective 3 like GTP-binding proteins. It has been speculated that the RHD3 protein is a member of a novel class of GTP-binding proteins that is widespread in eukaryotes and required for regulated cell enlargement []. The family also contains the homologous Saccharomyces cerevisiae synthetic construct enhancement of YOP1 (SEY1) protein which is involved in membrane trafficking [].; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=25.12 E-value=9.7e+02 Score=30.90 Aligned_cols=24 Identities=13% Similarity=0.408 Sum_probs=17.7
Q ss_pred ccccccCCCCCChhhhHHHHHHhc
Q 042165 623 WQGQRGFESYNDPKICNFLEELKS 646 (983)
Q Consensus 623 We~~R~~~~~~~~~rs~lLeeL~~ 646 (983)
|+.-+..+.++=+....+|..++.
T Consensus 233 W~~I~~nkDLDLPtqq~mlA~fRC 256 (742)
T PF05879_consen 233 WEQIKNNKDLDLPTQQEMLAQFRC 256 (742)
T ss_pred HHHHHhCccCCCCcHHHHHHHHhH
Confidence 999987655777777777777753
No 101
>KOG1240 consensus Protein kinase containing WD40 repeats [Signal transduction mechanisms]
Probab=24.90 E-value=1.6e+03 Score=30.76 Aligned_cols=74 Identities=12% Similarity=0.076 Sum_probs=50.0
Q ss_pred CccHHHHHhhhcCCHHHHHHHHHHHhHhHHhhhcCccCCeeehhhhcc---------CCHHHHHHHHHHHHhchhhhhcc
Q 042165 669 HGSRFIQQKLENCSVDEKASVFKEILPHASKLMTDVFGNYVIQKFFEY---------GSPAQRKELANQLVGQILPLSMQ 739 (983)
Q Consensus 669 ~gSRVLQklLe~~s~Eqr~~If~EL~~~i~~L~tD~yGshVVQKLLe~---------~s~eqr~~Iie~L~g~i~~La~h 739 (983)
.+=++||.+=.+.+.| ..++.|.|.++.|..|+++---++.|... .++..-..+.+-|.+++..|+.+
T Consensus 442 ~ALeLl~~lS~~i~de---~~LDRVlPY~v~l~~Ds~a~Vra~Al~Tlt~~L~~Vr~~~~~daniF~eYlfP~L~~l~~d 518 (1431)
T KOG1240|consen 442 AALELLQELSTYIDDE---VKLDRVLPYFVHLLMDSEADVRATALETLTELLALVRDIPPSDANIFPEYLFPHLNHLLND 518 (1431)
T ss_pred HHHHHHHHHhhhcchH---HHHhhhHHHHHHHhcCchHHHHHHHHHHHHHHHhhccCCCcccchhhHhhhhhhhHhhhcc
Confidence 3445666655555544 34678889999999999987766655433 24455566667788888888888
Q ss_pred cchhHH
Q 042165 740 MYGCRV 745 (983)
Q Consensus 740 ~yGSrV 745 (983)
.-..+|
T Consensus 519 ~~~~~v 524 (1431)
T KOG1240|consen 519 SSAQIV 524 (1431)
T ss_pred Ccccee
Confidence 644444
No 102
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=24.86 E-value=2.1e+02 Score=31.32 Aligned_cols=37 Identities=14% Similarity=0.257 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHhhccChhHHHHHHHHHHhCCHHHHHH
Q 042165 868 SKIIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAEREL 905 (983)
Q Consensus 868 ~~II~~L~g~~veLs~~K~GS~VVEk~L~~a~~keRk~ 905 (983)
..+++.+...+ +...+.+.-.++.|+|..++.+.|..
T Consensus 179 ~~l~klil~~L-DY~~~~~~R~iLsKaLt~~s~~iRl~ 215 (226)
T PF14666_consen 179 DDLLKLILSSL-DYSVDGHPRIILSKALTSGSESIRLY 215 (226)
T ss_pred HHHHHHHHhhC-CCCCccHHHHHHHHHHhcCCHHHHHH
Confidence 44444444433 55556666677777777777666543
No 103
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.81 E-value=1.9e+03 Score=29.83 Aligned_cols=42 Identities=12% Similarity=0.118 Sum_probs=27.9
Q ss_pred cHHHHHhhhc----CCHHHHHHHHHHHhHhHHhhhcCccCCeeehh
Q 042165 671 SRFIQQKLEN----CSVDEKASVFKEILPHASKLMTDVFGNYVIQK 712 (983)
Q Consensus 671 SRVLQklLe~----~s~Eqr~~If~EL~~~i~~L~tD~yGshVVQK 712 (983)
|.-|+.+++. +...+...+..+...+++....+.|+.-+.+.
T Consensus 538 c~sL~~Lv~~n~~~~~a~e~~e~~s~~AknfL~~lfn~ytq~~~~~ 583 (1176)
T KOG1248|consen 538 CNSLRMLVEQNKPSSDAAENKEVLSNDAKNFLPRLFNVYTQTVAAG 583 (1176)
T ss_pred HHHHHHHHHcCCCcchHHHHHHHHhhhhhHHHHHHHHHhcCCCccc
Confidence 4445566665 45566777777777777777777777666654
No 104
>KOG1060 consensus Vesicle coat complex AP-3, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.67 E-value=1.2e+03 Score=30.28 Aligned_cols=36 Identities=17% Similarity=0.087 Sum_probs=19.1
Q ss_pred hchhhhhcccchhHHH---HHHHhhcCHHHHHHHHHHHh
Q 042165 731 GQILPLSMQMYGCRVI---QKALETIEIEQKAQLVRELD 766 (983)
Q Consensus 731 g~i~~La~h~yGSrVI---QklLe~as~eqr~~Ll~EL~ 766 (983)
.....|.+.+..+-|+ |..+..++..+..+|++.|.
T Consensus 290 ~stkpLl~S~n~sVVmA~aql~y~lAP~~~~~~i~kaLv 328 (968)
T KOG1060|consen 290 QSTKPLLQSRNPSVVMAVAQLFYHLAPKNQVTKIAKALV 328 (968)
T ss_pred HhccHHHhcCCcHHHHHHHhHHHhhCCHHHHHHHHHHHH
Confidence 3444555566665543 33445566656555555443
No 105
>PF05879 RHD3: Root hair defective 3 GTP-binding protein (RHD3); InterPro: IPR008803 This family consists of several eukaryotic root hair defective 3 like GTP-binding proteins. It has been speculated that the RHD3 protein is a member of a novel class of GTP-binding proteins that is widespread in eukaryotes and required for regulated cell enlargement []. The family also contains the homologous Saccharomyces cerevisiae synthetic construct enhancement of YOP1 (SEY1) protein which is involved in membrane trafficking [].; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=24.49 E-value=1.6e+03 Score=28.95 Aligned_cols=44 Identities=16% Similarity=0.174 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHhhccChhHHHHHHHHHHhCCHHHHHHHHHHHH
Q 042165 867 RSKIIRKLSGHIVQLSQHKFASNVIEKCLAYGGPAERELIIEEIL 911 (983)
Q Consensus 867 r~~II~~L~g~~veLs~~K~GS~VVEk~L~~a~~keRk~IIkeLl 911 (983)
|..-++.|..++.+-.....+- .|+..|..++.+....|.+.+.
T Consensus 419 R~~el~~l~~~~eK~l~~~l~e-~v~~~l~~~~~d~Wd~I~~~f~ 462 (742)
T PF05879_consen 419 RKEELNELVARIEKKLKSELKE-PVESLLENPSPDMWDRIRKLFE 462 (742)
T ss_pred HHHHHHHHHHHHHHHHHHHHhH-HHHHHHhCCChhhHHHHHHHHH
Confidence 3333344444444433333332 2445555555555555554443
No 106
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=22.78 E-value=1.7e+03 Score=29.10 Aligned_cols=38 Identities=16% Similarity=0.192 Sum_probs=22.0
Q ss_pred hhcCCHHHHHH----HHHHHhHhHHhhhcCccCCeeehhhhc
Q 042165 678 LENCSVDEKAS----VFKEILPHASKLMTDVFGNYVIQKFFE 715 (983)
Q Consensus 678 Le~~s~Eqr~~----If~EL~~~i~~L~tD~yGshVVQKLLe 715 (983)
|..-++..|+. +|+.|++-+..+..+--+.|++-|+|+
T Consensus 384 LR~ltdkar~~ga~~lfnqiLpllMs~tLeDqerhllVkvid 425 (1172)
T KOG0213|consen 384 LRILTDKARNFGAGPLFNQILPLLMSPTLEDQERHLLVKVID 425 (1172)
T ss_pred HHHHHHHHHhhccHHHHHHHHHHHcCccccchhhhhHHHHHH
Confidence 33334444444 666666666666666666666666553
No 107
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=22.44 E-value=6.1e+02 Score=32.44 Aligned_cols=20 Identities=10% Similarity=0.248 Sum_probs=12.4
Q ss_pred HHHHhhCcCccHHHHHHHhc
Q 042165 842 VCALAQDQYGNYVTQHVLQR 861 (983)
Q Consensus 842 l~~La~DqyGNyVVQ~LLe~ 861 (983)
+..+.-...|.+.+|.+++.
T Consensus 387 l~~~vg~eigahf~q~~ve~ 406 (822)
T KOG2141|consen 387 LHTMVGNEIGAHFLQTFVED 406 (822)
T ss_pred HHHHHhhHHHHHHHHHHHHH
Confidence 33455566777777777663
No 108
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.22 E-value=1.3e+03 Score=30.59 Aligned_cols=96 Identities=15% Similarity=0.143 Sum_probs=42.2
Q ss_pred hhhhhhhhccCCchhHHHHHHHH-------hcCCHHHHHHHHHHHHHHHH---HHhhCcCccHHHHHHHhcCCch--hHH
Q 042165 801 FCGQVAALSMHPYGCRVIQRVLE-------HCADKHQCQFIVDEILDNVC---ALAQDQYGNYVTQHVLQRGKPL--ERS 868 (983)
Q Consensus 801 ~k~~l~~Ls~hk~GS~VLQkiLe-------~~~d~~~~~~Li~eLl~~l~---~La~DqyGNyVVQ~LLe~~~~k--~r~ 868 (983)
+..++....+.++|...-+.|.- ...++.....+++.....+. +|..---....+|.++...... ..+
T Consensus 463 lv~hVfP~f~s~~g~Lrarac~vl~~~~~~df~d~~~l~~ale~t~~~l~~d~~lPV~VeAalALq~fI~~~~~~~e~~~ 542 (1010)
T KOG1991|consen 463 LVNHVFPEFQSPYGYLRARACWVLSQFSSIDFKDPNNLSEALELTHNCLLNDNELPVRVEAALALQSFISNQEQADEKVS 542 (1010)
T ss_pred HHHHhhHhhcCchhHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHhccCCcCchhhHHHHHHHHHHhcchhhhhhHh
Confidence 44566666677776544444322 11223223333333333222 1111223455666666654422 133
Q ss_pred HHHHHHHHHHHhhccCh---hHHHHHHHHHH
Q 042165 869 KIIRKLSGHIVQLSQHK---FASNVIEKCLA 896 (983)
Q Consensus 869 ~II~~L~g~~veLs~~K---~GS~VVEk~L~ 896 (983)
..+..+.+.+..|+..- .=+.|+|+++.
T Consensus 543 ~hvp~~mq~lL~L~ne~End~Lt~vme~iV~ 573 (1010)
T KOG1991|consen 543 AHVPPIMQELLKLSNEVENDDLTNVMEKIVC 573 (1010)
T ss_pred hhhhHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence 34444444444444322 23555555554
No 109
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=22.21 E-value=7.2e+02 Score=24.73 Aligned_cols=36 Identities=14% Similarity=0.104 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHhhcc
Q 042165 942 QQAMMLSRIRTHAHVLKKYTYGKHIVARFEMLIGEE 977 (983)
Q Consensus 942 ~Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~rlekl~~~~ 977 (983)
.++++++.|..=-......+.-+.|.+..+.|-.+|
T Consensus 105 Vk~k~l~ll~~W~~~f~~~~~~~~i~~~y~~Lk~~G 140 (140)
T PF00790_consen 105 VKEKILELLQEWAEAFKSDPELSLIQDTYKRLKRKG 140 (140)
T ss_dssp HHHHHHHHHHHHHHHTTTSTTGHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHCc
Confidence 566777667666666666677777777666665443
No 110
>PF03448 MgtE_N: MgtE intracellular N domain; InterPro: IPR006668 This domain is found at the N terminus of eubacterial magnesium transporters of the MgtE family IPR006667 from INTERPRO. This domain is an intracellular domain that has an alpha-helical structure. The crystal structure of the MgtE transporter [] shows two of 5 magnesium ions are in the interface between the N domain and the CBS domains. In the absence of magnesium there is a large shift between the N and CBS domains.; PDB: 2YVX_D 2ZY9_A 2YVZ_B 2YVY_A 2OUX_A 3KXR_A.
Probab=21.79 E-value=1.2e+02 Score=27.93 Aligned_cols=85 Identities=16% Similarity=0.269 Sum_probs=39.6
Q ss_pred HhhhcCCHHHHHHHHHHHhHhHHhhhcCccCCeeehhhhccCCHHHHHHHHHHHHh-chhhhhcccchhHHHHHHHhhcC
Q 042165 676 QKLENCSVDEKASVFKEILPHASKLMTDVFGNYVIQKFFEYGSPAQRKELANQLVG-QILPLSMQMYGCRVIQKALETIE 754 (983)
Q Consensus 676 klLe~~s~Eqr~~If~EL~~~i~~L~tD~yGshVVQKLLe~~s~eqr~~Iie~L~g-~i~~La~h~yGSrVIQklLe~as 754 (983)
.+|+.-+.+++..+|+.+.+....-.-...-.....++++..++++...|+..+.. .+..+ ....-....++++...+
T Consensus 8 ~~l~~l~~~~~~~~~~~l~~~~~a~vl~~l~~~~~~~il~~l~~~~~a~il~~m~~dd~~~l-l~~L~~~~~~~il~~l~ 86 (102)
T PF03448_consen 8 ELLEELPPEERAQLFRLLPPEKAAEVLEELDPDTQAEILEALSPEEAAEILAEMDSDDAADL-LEELPEEQREKILAALD 86 (102)
T ss_dssp HCCCTS-CCHHHHHHHHS-HHHHHHHHCTS-CCCCCHCCCCS-HHHHHHHHCCS-HHHHHHH-HCCSHHHHHHHHHHCS-
T ss_pred HHHHhCCHHHHHHHHHhCCHHHHHHHHHcCCHHHHHHHHHhCCHHHHHHHHHccChHHHHHH-HHHCCHHHHHHHHHcCC
Confidence 34555566677777766654322211122223345556666677766666655532 22222 23333344555555555
Q ss_pred HHHHHHH
Q 042165 755 IEQKAQL 761 (983)
Q Consensus 755 ~eqr~~L 761 (983)
.+.+..+
T Consensus 87 ~~~~~~i 93 (102)
T PF03448_consen 87 EEEREEI 93 (102)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 5555444
No 111
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=21.17 E-value=1.1e+03 Score=32.05 Aligned_cols=50 Identities=22% Similarity=0.280 Sum_probs=29.1
Q ss_pred cccCCCCCcccCCC--CCCcceeecCccccCCcccccccCCCCCCchhhhcccCCcc
Q 042165 132 NRFGNRRGLTSLDN--SSNCSVHVSQVTLSTHKEESEDDRSPKHFSDEMVDRKNGFC 186 (983)
Q Consensus 132 ~~~g~~r~~~~~d~--~~~~sl~~~~~~~~~~~ee~e~~~~~~~~s~~~~~~~~~~~ 186 (983)
|.+||-|+...+|. ++.++.|++|-|-.. -.....++.-.+.+| ++.-+|
T Consensus 1721 gk~g~i~gksd~~~a~g~~~~~~~~~~ga~s---s~n~s~s~n~~~~e~--~q~~~~ 1772 (2131)
T KOG4369|consen 1721 GKVGNIWGKSDEDSAWGGLFSQFLPQLGANS---SLNNSNSKNDSSNEW--GQNEFI 1772 (2131)
T ss_pred ccccccccccccccccccchhhhcccccccc---cccCCCCCchhhhhh--hccchh
Confidence 77888777665554 344788888877221 111223333457788 666555
No 112
>PF04652 DUF605: Vta1 like; InterPro: IPR006745 This family contains proteins from the Eukaryota; functionally they are uncharacterised.; PDB: 2RKK_B 2RKL_B 3MHV_A.
Probab=21.15 E-value=4.1e+02 Score=30.80 Aligned_cols=19 Identities=26% Similarity=0.363 Sum_probs=9.8
Q ss_pred CCchHHHHHHHHHhhcccC
Q 042165 961 TYGKHIVARFEMLIGEENQ 979 (983)
Q Consensus 961 ~~Gk~Vv~rlekl~~~~~~ 979 (983)
+|.|.=+.+|.|++..|..
T Consensus 129 kyak~~a~~i~k~~~~g~~ 147 (380)
T PF04652_consen 129 KYAKWKAARIAKALKEGED 147 (380)
T ss_dssp HHHHHHHHHHHCTS-----
T ss_pred eeeeeeHhhhHHHHHCCCC
Confidence 3677777777777766654
No 113
>KOG1242 consensus Protein containing adaptin N-terminal region [Translation, ribosomal structure and biogenesis]
Probab=20.87 E-value=1.7e+03 Score=27.89 Aligned_cols=28 Identities=14% Similarity=0.439 Sum_probs=20.8
Q ss_pred HhhhcCCHHHHHHHHHHHhHhHHhhhcC
Q 042165 676 QKLENCSVDEKASVFKEILPHASKLMTD 703 (983)
Q Consensus 676 klLe~~s~Eqr~~If~EL~~~i~~L~tD 703 (983)
-++.+|.++|....+..|.|.+.+.++|
T Consensus 279 g~m~~~ap~qLs~~lp~iiP~lsevl~D 306 (569)
T KOG1242|consen 279 GAMADCAPKQLSLCLPDLIPVLSEVLWD 306 (569)
T ss_pred HHHHHhchHHHHHHHhHhhHHHHHHHcc
Confidence 4566777777777777777777777776
No 114
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=20.81 E-value=1.5e+03 Score=27.23 Aligned_cols=259 Identities=8% Similarity=0.051 Sum_probs=0.0
Q ss_pred HHHHHhhhcCCHHHHHHHHHHHhHhHHhhhcCccCCeeehhhhcc---------CCHHHHHHHHHHHHh-----------
Q 042165 672 RFIQQKLENCSVDEKASVFKEILPHASKLMTDVFGNYVIQKFFEY---------GSPAQRKELANQLVG----------- 731 (983)
Q Consensus 672 RVLQklLe~~s~Eqr~~If~EL~~~i~~L~tD~yGshVVQKLLe~---------~s~eqr~~Iie~L~g----------- 731 (983)
.++..++|+-..---+..+..+..++..+|...--.-.|+.+|+. .+.+....+++.|..
T Consensus 156 ~~l~nviKfn~~~l~e~~i~~lv~~i~~iC~~Ts~~~di~~~L~vldaii~y~~iP~~sl~~~i~vLCsi~~~~~l~~~~ 235 (464)
T PF11864_consen 156 QFLVNVIKFNFNYLDEDEISSLVDQICTICKSTSSEDDIEACLSVLDAIITYGDIPSESLSPCIEVLCSIVNSVSLCKPS 235 (464)
T ss_pred HHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHcCcCChHHHHHHHHHHhhHhcccccchhH
Q ss_pred --chhhhhcccchhHHHHHHHhhc--CHHHHHHHHHHHhhccccccccccCccchhhhhhcCCchhHHH-------HHHH
Q 042165 732 --QILPLSMQMYGCRVIQKALETI--EIEQKAQLVRELDGQVMRCVRDQNGNHVIQKCIECIPPEKIGF-------IISA 800 (983)
Q Consensus 732 --~i~~La~h~yGSrVIQklLe~a--s~eqr~~Ll~EL~g~i~~L~kD~~GNhVLQk~Le~~~~e~~~~-------Ii~~ 800 (983)
-+..|+..+.|...|..+.+.. ...+...-+..+.|.+. ++++++....++.... ++..
T Consensus 236 w~~m~nL~~S~~g~~~i~~L~~iL~~~~~~~~~~~~~lRGAv~----------~l~~ll~~~~~~~~~~l~~~~~~vl~s 305 (464)
T PF11864_consen 236 WRTMRNLLKSHLGHSAIRTLCDILRSPDPQNKRDINVLRGAVF----------FLRMLLWGSGEQGYPSLPFSPSSVLPS 305 (464)
T ss_pred HHHHHHHHcCccHHHHHHHHHHHHcccCccccccHHHHhhHHH----------HHHHHHhccccCCcceecccHHHHHHH
Q ss_pred hhhhhhhhccCCchhHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhCcCccHHHHHHHhcCCch-------hHHHHHHH
Q 042165 801 FCGQVAALSMHPYGCRVIQRVLEHCADKHQCQFIVDEILDNVCALAQDQYGNYVTQHVLQRGKPL-------ERSKIIRK 873 (983)
Q Consensus 801 ~k~~l~~Ls~hk~GS~VLQkiLe~~~d~~~~~~Li~eLl~~l~~La~DqyGNyVVQ~LLe~~~~k-------~r~~II~~ 873 (983)
|.. ..+-........|++-+..... .+..+.+.++--..+..++.. ++..+....... .....+..
T Consensus 306 l~~-al~~~~~~v~~eIl~~i~~ll~-~~~~~~l~~~~W~~~~~i~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~ 378 (464)
T PF11864_consen 306 LLN-ALKSNSPRVDYEILLLINRLLD-GKYGRELSEEDWDIILDIIEE-----IFDKIQPFDSWYSNSSSLDQLSSNLHS 378 (464)
T ss_pred HHH-HHhCCCCeehHHHHHHHHHHHh-HhhhhhhcccCchHHHHHHHH-----HHhhccccccccccccchHHHHHHHHH
Q ss_pred HHHHHHhhccChh-------HHHHHHHHHHhCCHHHHHHHHHHHHhCCH---HHHHHHHcCcChhHHHHHHH-hcCCHHH
Q 042165 874 LSGHIVQLSQHKF-------ASNVIEKCLAYGGPAERELIIEEILGHNE---ETLLTMMKDQFANYVVQKIF-ELSSESQ 942 (983)
Q Consensus 874 L~g~~veLs~~K~-------GS~VVEk~L~~a~~keRk~IIkeLl~~~~---e~L~~La~DqyGnyVLQkLL-e~~dd~~ 942 (983)
|...+.++..... -...++++..+.++.....++-.-.+... +.+.+-+ ..++++++ ...+...
T Consensus 379 l~~~ie~L~~~~~~~g~~~~~~~f~~~~~~~lp~s~~~~vl~~~~~~~~Ps~~~W~~n~-----~~ll~~F~~~~~~~~v 453 (464)
T PF11864_consen 379 LLSSIESLYEQHDFNGPKDKLFNFFERVHSYLPDSSALLVLFYEERSCSPSNPDWLDNL-----QKLLDRFYNRDRRSEV 453 (464)
T ss_pred HHHHHHHHHhCCCcCccHHHHHHHHHHHhccCCHHHHHHHHHHHhcccCCCChHHHHHH-----HHHHHHHhCCCCCchH
Q ss_pred HHHHHHHHHH
Q 042165 943 QAMMLSRIRT 952 (983)
Q Consensus 943 Rk~Ll~eLk~ 952 (983)
|-+.++.|+.
T Consensus 454 Ri~aL~~l~e 463 (464)
T PF11864_consen 454 RIKALDVLEE 463 (464)
T ss_pred HHHHHHHHhh
No 115
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=20.42 E-value=6.9e+02 Score=30.27 Aligned_cols=119 Identities=22% Similarity=0.339 Sum_probs=57.2
Q ss_pred cCHHHHHHHHHHHhhccccccccc-----------cCccchhhhhhcCCchhHHHHHHHhhhhhhhhccCCc--hhHH-H
Q 042165 753 IEIEQKAQLVRELDGQVMRCVRDQ-----------NGNHVIQKCIECIPPEKIGFIISAFCGQVAALSMHPY--GCRV-I 818 (983)
Q Consensus 753 as~eqr~~Ll~EL~g~i~~L~kD~-----------~GNhVLQk~Le~~~~e~~~~Ii~~~k~~l~~Ls~hk~--GS~V-L 818 (983)
+.+++|.+++++|.+..++=+-|. .|+-++.| ..+.-..+|..++.++.+|-+-.| |.-. =
T Consensus 100 a~p~er~~LLrdLedFAF~Gcpd~~~lq~~~s~~~~~~~~lek-----q~e~qkeLi~QLk~Ql~dLE~~AYe~Geg~LP 174 (621)
T KOG3759|consen 100 ADPSERLKLLRDLEDFAFKGCPDMNELQRLRSESESGNDVLEK-----QNERQKELIKQLKEQLEDLERTAYENGEGELP 174 (621)
T ss_pred CCHHHHHHHHHHHHHHHhcCCCcccccccccccccccchhhhh-----hcchHHHHHHHHHHHHHHHHHHHHhcCCCcCc
Confidence 456777788887776655544442 23333332 122335567777777766644322 1110 1
Q ss_pred HHHHHhcCCHHHHHHHHHHHHHHHH------HHhhCcCccHHHHHHHhc-CCchhHHHHHHHHHHHHHhh
Q 042165 819 QRVLEHCADKHQCQFIVDEILDNVC------ALAQDQYGNYVTQHVLQR-GKPLERSKIIRKLSGHIVQL 881 (983)
Q Consensus 819 QkiLe~~~d~~~~~~Li~eLl~~l~------~La~DqyGNyVVQ~LLe~-~~~k~r~~II~~L~g~~veL 881 (983)
|.+| -+.++.|+++++..+. .|.+.+.-..|=.++-+. ..-+.+..+++.|+.+|.+|
T Consensus 175 q~vi-----LekQk~ilDeLr~Kl~lnl~i~~lsteelr~qVD~A~~q~VnP~k~KeQLV~QLkTQItDL 239 (621)
T KOG3759|consen 175 QTVI-----LEKQKAILDELREKLELNLDIDKLSTEELRRQVDDALKQLVNPFKEKEQLVDQLKTQITDL 239 (621)
T ss_pred hHHH-----HHHHHHHHHHHHHHhhccCCcccccHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHHH
Confidence 1111 0124567777776532 222222111222222222 33467778888887665444
No 116
>KOG1058 consensus Vesicle coat complex COPI, beta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.33 E-value=2e+03 Score=28.42 Aligned_cols=49 Identities=8% Similarity=-0.007 Sum_probs=30.4
Q ss_pred hhHHHHHHHhcC--CHHHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHhh
Q 042165 927 ANYVVQKIFELS--SESQQAMMLSRIRTHAHVLKKYTYGKHIVARFEMLIG 975 (983)
Q Consensus 927 GnyVLQkLLe~~--dd~~Rk~Ll~eLk~~L~~L~~~~~Gk~Vv~rlekl~~ 975 (983)
++.||+-+=++. -+..|..|+++|...+.+++..+--+-.+|.+-++|.
T Consensus 413 as~vl~FvrE~iek~p~Lr~~ii~~l~~~~~~irS~ki~rgalwi~GeYce 463 (948)
T KOG1058|consen 413 ASDVLMFVREAIEKFPNLRASIIEKLLETFPQIRSSKICRGALWILGEYCE 463 (948)
T ss_pred HHHHHHHHHHHHHhCchHHHHHHHHHHHhhhhhcccccchhHHHHHHHHHh
Confidence 444554444432 2456777777777777777777666666666666554
No 117
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=20.01 E-value=1.3e+03 Score=26.70 Aligned_cols=21 Identities=10% Similarity=0.300 Sum_probs=11.8
Q ss_pred HHHHHhhhcCCHHHHHHHHHH
Q 042165 672 RFIQQKLENCSVDEKASVFKE 692 (983)
Q Consensus 672 RVLQklLe~~s~Eqr~~If~E 692 (983)
||++.++...+.+.|+.-++.
T Consensus 201 kvisal~dEs~~~~r~aAl~s 221 (450)
T COG5095 201 KVISALLDESDEQTRDAALES 221 (450)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 566666665555555554443
Done!