Query 001686
Match_columns 1029
No_of_seqs 329 out of 1674
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 06:54:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001686.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001686hhsearch_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 2.2E-76 4.8E-81 655.3 20.9 337 324-693 1-385 (385)
2 KOG1488 Translational represso 100.0 5.9E-69 1.3E-73 616.4 28.7 343 674-1017 155-502 (503)
3 cd07920 Pumilio Pumilio-family 100.0 6E-54 1.3E-58 475.5 32.1 319 691-1010 3-322 (322)
4 COG5099 RNA-binding protein of 100.0 8E-47 1.7E-51 455.5 27.0 316 703-1019 447-766 (777)
5 KOG2049 Translational represso 100.0 1.5E-43 3.3E-48 410.2 19.6 312 693-1010 213-532 (536)
6 cd07920 Pumilio Pumilio-family 100.0 4.5E-39 9.7E-44 356.8 28.1 298 670-974 16-322 (322)
7 KOG1488 Translational represso 100.0 1.8E-39 4E-44 373.5 16.7 265 670-935 222-498 (503)
8 KOG2050 Puf family RNA-binding 100.0 8.1E-33 1.8E-37 315.8 25.1 302 660-1010 136-440 (652)
9 KOG2188 Predicted RNA-binding 100.0 6.7E-29 1.4E-33 286.6 27.5 370 635-1010 30-605 (650)
10 KOG2049 Translational represso 100.0 7E-29 1.5E-33 288.5 13.9 260 670-931 259-531 (536)
11 COG5099 RNA-binding protein of 100.0 3.3E-28 7.1E-33 294.7 20.0 238 775-1018 447-685 (777)
12 KOG2188 Predicted RNA-binding 99.8 3.6E-20 7.8E-25 214.8 21.2 290 725-1015 91-574 (650)
13 KOG2050 Puf family RNA-binding 99.8 1.9E-18 4.1E-23 198.9 23.0 247 760-1014 155-406 (652)
14 KOG4574 RNA-binding protein (c 99.6 1.3E-15 2.7E-20 180.2 10.6 288 720-1010 533-849 (1007)
15 KOG4574 RNA-binding protein (c 99.3 9.2E-12 2E-16 148.2 8.6 254 688-944 573-861 (1007)
16 PF00806 PUF: Pumilio-family R 97.8 8.2E-06 1.8E-10 62.7 1.0 33 731-763 2-34 (35)
17 PF00806 PUF: Pumilio-family R 97.4 7.8E-05 1.7E-09 57.3 2.2 35 694-728 1-35 (35)
18 smart00025 Pumilio Pumilio-lik 97.4 6.5E-05 1.4E-09 56.7 1.0 32 696-727 3-34 (36)
19 smart00025 Pumilio Pumilio-lik 97.3 0.0002 4.4E-09 54.0 2.9 34 731-764 2-35 (36)
20 PRK05686 fliG flagellar motor 94.4 7 0.00015 45.2 22.7 111 888-1021 202-331 (339)
21 TIGR00207 fliG flagellar motor 93.8 17 0.00036 42.2 24.7 108 889-1019 200-326 (338)
22 PRK05686 fliG flagellar motor 87.7 41 0.00089 39.0 19.4 171 751-951 51-229 (339)
23 COG1536 FliG Flagellar motor s 85.6 80 0.0017 36.9 23.7 52 967-1018 263-328 (339)
24 PF04286 DUF445: Protein of un 84.4 57 0.0012 37.2 18.3 48 902-949 289-338 (367)
25 PF08144 CPL: CPL (NUC119) dom 81.8 4.3 9.2E-05 41.7 7.1 59 957-1018 65-134 (148)
26 PF08144 CPL: CPL (NUC119) dom 80.6 3.5 7.7E-05 42.3 6.0 72 908-979 58-134 (148)
27 TIGR00207 fliG flagellar motor 79.4 1.2E+02 0.0025 35.5 18.4 172 751-951 48-226 (338)
28 PF12231 Rif1_N: Rap1-interact 75.4 45 0.00097 39.1 13.8 110 890-1019 178-288 (372)
29 PLN03083 E3 UFM1-protein ligas 72.3 2.8E+02 0.006 36.1 20.2 46 747-796 532-577 (803)
30 PF12231 Rif1_N: Rap1-interact 70.5 2.2E+02 0.0048 33.4 18.0 78 848-943 208-293 (372)
31 PF05918 API5: Apoptosis inhib 69.5 60 0.0013 40.3 13.4 230 685-922 70-346 (556)
32 KOG1059 Vesicle coat complex A 67.1 3.7E+02 0.008 34.6 20.4 25 730-754 218-242 (877)
33 PF11573 Med23: Mediator compl 61.6 2.7E+02 0.0058 38.3 17.8 263 751-1016 53-390 (1341)
34 PF04286 DUF445: Protein of un 61.2 1E+02 0.0022 35.0 12.8 8 900-907 325-332 (367)
35 PF09770 PAT1: Topoisomerase I 60.7 8.9 0.00019 49.4 4.4 94 698-791 576-695 (808)
36 PTZ00429 beta-adaptin; Provisi 56.6 5.6E+02 0.012 33.3 24.0 33 700-732 58-93 (746)
37 PRK07194 fliG flagellar motor 54.7 4E+02 0.0087 31.0 24.1 63 961-1023 251-327 (334)
38 PF11510 FA_FANCE: Fanconi Ana 52.5 2.1E+02 0.0045 32.5 12.7 77 853-933 145-225 (263)
39 COG2733 Predicted membrane pro 50.2 5.2E+02 0.011 31.0 16.3 32 979-1010 335-369 (415)
40 COG5240 SEC21 Vesicle coat com 49.3 5.6E+02 0.012 32.3 16.2 131 805-936 343-479 (898)
41 PF09770 PAT1: Topoisomerase I 48.8 26 0.00057 45.2 5.8 41 734-774 576-616 (808)
42 PLN03218 maturation of RBCL 1; 47.8 6.8E+02 0.015 33.9 18.4 23 927-949 689-711 (1060)
43 PF14666 RICTOR_M: Rapamycin-i 45.8 97 0.0021 34.2 8.8 77 910-993 141-223 (226)
44 KOG2171 Karyopherin (importin) 44.7 7.8E+02 0.017 33.2 17.6 84 708-793 207-304 (1075)
45 KOG0166 Karyopherin (importin) 44.5 4.4E+02 0.0095 32.7 14.6 166 774-940 209-399 (514)
46 KOG0166 Karyopherin (importin) 42.1 7.8E+02 0.017 30.6 18.5 140 779-920 256-416 (514)
47 PF10508 Proteasom_PSMB: Prote 42.0 7.4E+02 0.016 30.4 24.8 111 895-1017 363-487 (503)
48 KOG0213 Splicing factor 3b, su 42.0 9.2E+02 0.02 31.5 21.3 25 922-946 794-821 (1172)
49 KOG1248 Uncharacterized conser 41.3 6.1E+02 0.013 34.3 15.9 19 958-976 892-910 (1176)
50 cd07439 FANCE_c-term Fanconi a 40.8 2.9E+02 0.0063 31.1 11.6 78 850-928 133-214 (254)
51 COG1747 Uncharacterized N-term 39.8 5.1E+02 0.011 32.2 13.9 26 891-916 226-253 (711)
52 PF04078 Rcd1: Cell differenti 39.3 1.3E+02 0.0027 34.1 8.5 28 907-934 204-231 (262)
53 PF10508 Proteasom_PSMB: Prote 38.0 8.5E+02 0.018 29.9 18.1 13 971-983 165-177 (503)
54 KOG1241 Karyopherin (importin) 36.2 1E+03 0.022 31.0 16.1 47 961-1008 772-819 (859)
55 PF11510 FA_FANCE: Fanconi Ana 36.1 5E+02 0.011 29.5 12.5 134 712-863 40-189 (263)
56 KOG4368 Predicted RNA binding 35.8 5.5E+02 0.012 32.2 13.4 29 892-920 166-194 (757)
57 KOG1992 Nuclear export recepto 35.6 7.6E+02 0.016 32.4 15.0 51 853-903 701-755 (960)
58 TIGR00400 mgtE Mg2+ transporte 35.0 2.6E+02 0.0057 33.7 11.0 57 711-767 22-78 (449)
59 COG1536 FliG Flagellar motor s 35.0 8.2E+02 0.018 28.8 18.2 56 750-805 49-106 (339)
60 PF12460 MMS19_C: RNAPII trans 33.8 8.8E+02 0.019 28.8 18.7 28 781-808 118-145 (415)
61 PF01602 Adaptin_N: Adaptin N 33.5 9.1E+02 0.02 28.9 15.9 33 917-949 329-365 (526)
62 KOG2160 Armadillo/beta-catenin 33.2 8.8E+02 0.019 28.7 17.4 121 719-863 95-221 (342)
63 PF12069 DUF3549: Protein of u 33.2 8.6E+02 0.019 28.7 14.1 62 907-968 266-328 (340)
64 PF03378 CAS_CSE1: CAS/CSE pro 32.3 2E+02 0.0043 34.8 9.3 32 833-864 201-232 (435)
65 PLN03083 E3 UFM1-protein ligas 32.1 1.1E+03 0.023 31.1 15.7 113 690-807 512-641 (803)
66 KOG1992 Nuclear export recepto 30.0 3.2E+02 0.0069 35.6 10.5 19 740-758 737-755 (960)
67 PF14666 RICTOR_M: Rapamycin-i 29.5 1.3E+02 0.0028 33.3 6.5 37 906-943 179-215 (226)
68 KOG2280 Vacuolar assembly/sort 27.1 1.3E+03 0.029 30.0 15.0 53 706-758 547-605 (829)
69 PF00888 Cullin: Cullin family 27.0 1.2E+03 0.027 28.4 16.9 42 966-1015 377-420 (588)
70 PRK07194 fliG flagellar motor 26.7 1.1E+03 0.023 27.6 14.8 25 925-949 257-281 (334)
71 PF10521 DUF2454: Protein of u 26.6 5E+02 0.011 29.3 10.8 31 712-742 100-131 (282)
72 PF03224 V-ATPase_H_N: V-ATPas 26.5 9E+02 0.02 27.4 13.0 33 970-1002 240-272 (312)
73 COG4399 Uncharacterized protei 26.4 1.1E+03 0.025 27.9 13.7 16 882-897 223-238 (376)
74 KOG2759 Vacuolar H+-ATPase V1 26.4 1.2E+03 0.027 28.3 15.2 26 874-899 317-343 (442)
75 KOG2072 Translation initiation 25.9 1.7E+03 0.036 29.5 18.6 46 809-854 173-218 (988)
76 KOG2073 SAP family cell cycle 25.0 1.2E+03 0.026 30.8 14.7 77 903-980 295-380 (838)
77 KOG0412 Golgi transport comple 24.5 1.6E+03 0.036 29.0 16.7 22 383-404 119-140 (773)
78 TIGR00400 mgtE Mg2+ transporte 24.4 3.1E+02 0.0068 33.0 9.2 84 714-798 37-121 (449)
79 KOG1240 Protein kinase contain 24.4 2E+03 0.044 30.1 18.3 24 956-979 755-778 (1431)
80 KOG1240 Protein kinase contain 24.2 2E+03 0.044 30.1 18.6 77 704-783 439-524 (1431)
81 cd03567 VHS_GGA VHS domain fam 24.2 7.8E+02 0.017 25.2 11.7 75 926-1017 59-135 (139)
82 PF02854 MIF4G: MIF4G domain; 23.6 7.2E+02 0.016 25.3 10.6 25 782-806 2-26 (209)
83 COG5173 SEC6 Exocyst complex s 23.3 1.6E+03 0.034 28.4 14.9 22 826-847 542-563 (742)
84 PF05327 RRN3: RNA polymerase 23.1 9.9E+02 0.021 29.9 13.3 66 722-793 51-122 (563)
85 smart00288 VHS Domain present 23.1 2E+02 0.0043 28.9 6.1 101 784-898 1-104 (133)
86 PF11864 DUF3384: Domain of un 22.6 1.1E+03 0.023 28.7 13.2 38 770-807 238-277 (464)
87 KOG2213 Apoptosis inhibitor 5/ 22.6 1.4E+03 0.031 27.6 18.8 37 956-992 361-400 (460)
88 PF10521 DUF2454: Protein of u 22.3 1.1E+03 0.023 26.7 12.4 53 779-831 95-154 (282)
89 KOG2051 Nonsense-mediated mRNA 22.1 2.1E+03 0.045 29.4 17.2 109 869-977 583-711 (1128)
90 KOG2653 6-phosphogluconate deh 21.3 6.4E+02 0.014 30.1 10.2 40 787-827 222-261 (487)
91 PF06025 DUF913: Domain of Unk 20.8 5.1E+02 0.011 30.8 9.8 61 722-791 71-133 (379)
92 PF08625 Utp13: Utp13 specific 20.8 8.3E+02 0.018 25.0 10.1 109 895-1015 19-128 (141)
93 PF14838 INTS5_C: Integrator c 20.8 1.9E+03 0.041 28.4 20.2 20 703-722 111-130 (696)
94 cd03569 VHS_Hrs_Vps27p VHS dom 20.7 9.1E+02 0.02 24.6 13.5 75 925-1017 61-136 (142)
95 PF03448 MgtE_N: MgtE intracel 20.6 1.5E+02 0.0033 27.5 4.4 55 714-768 8-62 (102)
96 PF01603 B56: Protein phosphat 20.6 1.5E+03 0.032 27.1 18.1 25 707-731 130-157 (409)
97 KOG0132 RNA polymerase II C-te 20.3 1E+02 0.0023 39.3 4.0 100 761-864 24-136 (894)
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=2.2e-76 Score=655.27 Aligned_cols=337 Identities=45% Similarity=0.585 Sum_probs=311.5
Q ss_pred CCCCCCCCCCCCcccccccCCCcCCCCCCC-----cchhHHHHHhcCCCCCcccccccchhhhhhhccCccccccccccC
Q 001686 324 RSSGSGLPPVGSRVGAVEKNGAVGSNVQND-----IELADIAATLSGLSLSNIRHADEVSHVQSQLQLNPDNQSDFLYDT 398 (1029)
Q Consensus 324 r~~~~~~~~~g~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 398 (1029)
|+|||||||||+||++.|||+++++++||+ +|+|||+|||||||||+++++++|+|+|+|+|+|||||++|+|++
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 899999999999999999999999999997 999999999999999999999999999999999999999999999
Q ss_pred cccccccccccccccccccccccccccccccccCCCCCCCcccccccCCcccccccCC-CCccccccCCCCCCCCCCC-C
Q 001686 399 SNGHNQSMKQQFMDKSTADNLAFSTHYIDFTRKNGIVPNLNASAINSNGQVNILKRTS-SPNLYSKMNSTGFGGSSRS-V 476 (1029)
Q Consensus 399 ~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-~ 476 (1029)
|++|+| .+||.++++++++++..| ++++..+ .+++|+|++.++.+++++. +
T Consensus 81 q~~q~~-~~Qq~~~~~se~~~l~~~--------------------------e~~~a~~~~~~s~~~~~~~s~~~~~g~~~ 133 (385)
T PF07990_consen 81 QGGQNQ-GNQQSYMKKSESGHLNAP--------------------------ELQKAAFPSGNSYFKNSNASKLSGGGGSP 133 (385)
T ss_pred ccchhh-hhhHHHhhccchhhcccc--------------------------ccccccCCCccccccCCCcccccCCCCCC
Confidence 999999 899999999999888543 2333344 5777888888888888874 7
Q ss_pred CcccCCCCCCCCCCCCCCCccCCcccccccccCCCCCc-----------------------------------ccccccc
Q 001686 477 GRQQNANISSLDFTNVSGDYSVNQKLNSLVNHHFDTVG-----------------------------------IGATRNL 521 (1029)
Q Consensus 477 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------------------~~~~~~~ 521 (1029)
..||+++.++..+ +||++||++++||.+++++|+ .+|+|++
T Consensus 134 ~~~q~~~~~n~~~----~gy~~n~~~~s~~~~~~~~gn~p~~fd~~~~~s~~~~~~~~s~~~g~~~~s~~~~~~~d~~~l 209 (385)
T PF07990_consen 134 FPYQNSDNPNSSF----GGYALNPALPSMMASQLNNGNIPPLFDNSAAASALASPGMDSRSLGGGLDSGGNQGASDGQNL 209 (385)
T ss_pred CcccCCCcccccc----cccccCccchhhhhccccCCCCCccccccccchhhccCCCcccccCCcccccccccccchhhh
Confidence 7788887777765 899999999999988888864 2699999
Q ss_pred ccccccc-ccCCCCCCCChhHHhhhhccchhhhhhhcccCCcccccCCCCCCCCCChhhHHHHHHHHHHHHHhhhhhhcc
Q 001686 522 NGMVNQV-ALDFHSPPMDPRYAQYLQRTSDYATRSAASASDPFAARNHFGSSLGDSDGLQKAHLELLLAQQNQQHEMQLL 600 (1029)
Q Consensus 522 ~~~~~~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 600 (1029)
+|+|||+ |.++|+|++||+|+||||++++++++.|+ +.||+++|+|+|++++|++++||+||++||++||+|||+|+
T Consensus 210 ~r~gnq~~g~~lq~~~~DP~Y~Qylq~~~~aa~~~a~-~~dP~~~R~~~G~s~~dl~~~qKayl~~lL~~QK~Qy~~P~- 287 (385)
T PF07990_consen 210 NRFGNQVAGSALQSPFVDPLYLQYLQAPEYAAQQAAA-QNDPSVDRNYMGSSYMDLLGLQKAYLEALLAQQKSQYGVPL- 287 (385)
T ss_pred hhhcccccCcccCCCCCCchHHHHhccccchhhhhhc-cCCcccccCCcCccccchHHHHHHHHHHHHHHHHHhhCCcc-
Confidence 9999997 79999999999999999999999988887 99999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCCCCCCCCccccCCCCCCCCCCCC----CCCCCCCCCCccccCcccccCCCC-CCCCCccCcCCCcchhhh
Q 001686 601 GKSGGLFPGYYETQPYRLDMQYSGNTFANPVLP----SVGSGSFPNERNSRFTSMMRSSMG-GPMPWHLDAGINMEGRLS 675 (1029)
Q Consensus 601 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~----g~g~~~~~~~r~~r~~s~~r~~~g-~~~~w~~d~~~~~~~~~~ 675 (1029)
.|+|+++++|||+|.||++|+|||+|+++|+|| |+|+|+|+++|++||++++|+..| .++.|+.|...++++++.
T Consensus 288 ~~~~~~n~~y~gnp~~G~gm~Y~gsplaspvlPsspvG~gsp~r~~er~~R~~s~mRn~~GG~~GsW~~d~g~~~d~~~~ 367 (385)
T PF07990_consen 288 KKSGSMNHGYYGNPSYGLGMPYPGSPLASPVLPSSPVGPGSPLRHNERNMRFPSGMRNSSGGSMGSWHSDAGGNMDENFA 367 (385)
T ss_pred ccCCCCCCCCCCCCCccccCCCCCCCCcCCCCCCCCCCCCCCCcCCccccccCcccccccccccccccccccccccccch
Confidence 999999999999999999999999999999999 478999999999999999999955 999999999989999999
Q ss_pred hHHHHhhhccccccccHh
Q 001686 676 SSLLDEFKTNKTRSFELS 693 (1029)
Q Consensus 676 s~LLeef~s~eek~l~L~ 693 (1029)
+.||||||++|+|+|+|.
T Consensus 368 sSlLEEFKsNKtr~FELS 385 (385)
T PF07990_consen 368 SSLLEEFKSNKTRSFELS 385 (385)
T ss_pred hHHHHHHhcCCccceecC
Confidence 999999999999999863
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=5.9e-69 Score=616.37 Aligned_cols=343 Identities=59% Similarity=0.951 Sum_probs=327.0
Q ss_pred hhhHHHHhhhcc-ccccccHhhhHHHHHHHhhCCCcCHHHHHHhhcCCH-HHHHHHHHHHhHhHHHhhcCcccceehhhh
Q 001686 674 LSSSLLDEFKTN-KTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATA-EEKTRIFPEIIPHARTLMTDVFGNYVIQKF 751 (1029)
Q Consensus 674 ~~s~LLeef~s~-eek~l~L~eI~GkiveLA~Dq~GSRvLQklLe~~S~-Eqr~~IfeEL~~~~leLmtD~fGShVVQKL 751 (1029)
..+.+++++.+. ..+.+.+.++.|++++|++||+||||||+.|+.+++ +++..||++|.+.+.+||+|.||||||||+
T Consensus 155 ~~~~~~~~~~~~~~~~~l~~~~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvIQkf 234 (503)
T KOG1488|consen 155 GPSFLLDPFRSNSLSKTLELVDIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVIQKF 234 (503)
T ss_pred CCCccccccccccccccccccccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchhhhh
Confidence 345566666666 667788889999999999999999999999999998 999999999999999999999999999999
Q ss_pred hhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHHHHhhCChhH
Q 001686 752 FEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDR 831 (1029)
Q Consensus 752 Le~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~~e~ 831 (1029)
|++++.+|+..|...+++++..||.|+||||||||+|+.++.+++.+|++||.++++.|++|+|||||||||||+.+++.
T Consensus 235 fE~gt~~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p~~~ 314 (503)
T KOG1488|consen 235 FEHGTEDQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLPPDA 314 (503)
T ss_pred hccCCHHHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccChHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhh--hhhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCcchHHHHH
Q 001686 832 IQFIISSFYG--QVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVI 909 (1029)
Q Consensus 832 ~q~Iie~f~g--~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~~k~r~~Il 909 (1029)
++||++.|.+ ++..+|+|+|||+|||++||+|.++++ ..|+++|..++..|++|+||||||||+|++++++++..|+
T Consensus 315 ~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~~~-~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~~I~ 393 (503)
T KOG1488|consen 315 WQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSEDQK-QPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDTIII 393 (503)
T ss_pred HHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChHhh-hHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhhhHH
Confidence 9999999999 999999999999999999999986654 4599999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhccCchHHHHHHHHHhhCCHHHHHHHHHHHhcCCCCC-hhHHHhhcCCchHHHHHHHHhcCChhHHHHHHH
Q 001686 910 TQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDEN-EPLQAMMKDPFGNYVVQKVLETCDDQSLELILS 988 (1029)
Q Consensus 910 ~~L~g~lv~Ls~~K~GSrVVEkcL~~as~k~Rk~IIkeLlg~~d~~-e~L~~La~D~~GnyVVQklLdt~ddt~Rk~ILs 988 (1029)
+.|.++++.|+++||+|+|||+|+.+++..+|..|++|++...++. +.|..||+|+|||||||++|++|++.+|++|+.
T Consensus 394 ~~l~~~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q~~~i~~ 473 (503)
T KOG1488|consen 394 KCLLGNLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQRELIKS 473 (503)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHHHHHHHH
Confidence 9999999999999999999999999999999999999999886654 789999999999999999999999999999999
Q ss_pred HHHHHHHHHhhCCCchHHHHHHHHHHHhC
Q 001686 989 RIRVHLNVLKKYTYGKHIVSRIEKLIATG 1017 (1029)
Q Consensus 989 eLk~hL~eLa~~~yGk~Il~~VEkl~~~g 1017 (1029)
+|++|+..|++++|||||+++|||+....
T Consensus 474 rI~~h~~~Lrk~syGKhIia~lek~~~~~ 502 (503)
T KOG1488|consen 474 RVKPHASRLRKFSYGKHIIAKLEKLRSKG 502 (503)
T ss_pred HHHHHHHHHccCccHHHHHHHHHHhcccC
Confidence 99999999999999999999999987643
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=6e-54 Score=475.48 Aligned_cols=319 Identities=57% Similarity=0.952 Sum_probs=305.4
Q ss_pred cHhhhH-HHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhccCHHHHHHHHHHHhh
Q 001686 691 ELSDIV-DHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTG 769 (1029)
Q Consensus 691 ~L~eI~-GkiveLA~Dq~GSRvLQklLe~~S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~Lkg 769 (1029)
.+.++. |+++++|+|++|||+||++|++++++++..||++|.+++.+||+|+|||||||++|++++++++..|++.+.+
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 345666 9999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHhhhccccchhHhHHhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHHHHhhCChhHHHHHHHhhhhhhhhhccC
Q 001686 770 HVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTH 849 (1029)
Q Consensus 770 ~~~~Ls~d~yGSrVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~h 849 (1029)
++..|+.|+|||||||++|+.+..+++..++++|.+++..|++|++||||+|+++++.+++.++.|++.|.+++..++.|
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 ccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCcchHHHHHHHHHHHHHhhccCchHHHHH
Q 001686 850 PYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVV 929 (1029)
Q Consensus 850 k~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVV 929 (1029)
++||+|+|+|++.+. ++.+..+++++.+++..|+.|+|||||||++|+.+.++.++.|++.+.++++.|+++||||+||
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 999999999999885 6667889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCHHHHHHHHHHHhcCCCCChhHHHhhcCCchHHHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCCCchHHHHH
Q 001686 930 EKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSR 1009 (1029)
Q Consensus 930 EkcL~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~GnyVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~yGk~Il~~ 1009 (1029)
|+||+.++++.|+.|+++|+....+++++.+|++|+|||||||++|+.+++..++.|+..|++++.+|+.++||++|+++
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 99999999999999999999754224689999999999999999999999999999999999999999999999999865
Q ss_pred H
Q 001686 1010 I 1010 (1029)
Q Consensus 1010 V 1010 (1029)
+
T Consensus 322 ~ 322 (322)
T cd07920 322 L 322 (322)
T ss_pred C
Confidence 3
No 4
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8e-47 Score=455.47 Aligned_cols=316 Identities=40% Similarity=0.672 Sum_probs=298.2
Q ss_pred hhCCCcCHHHHHHhhcCCHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhccCHHHHHHHHHHHhhhHHHhhhccccch
Q 001686 703 STDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCR 782 (1029)
Q Consensus 703 A~Dq~GSRvLQklLe~~S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSr 782 (1029)
|+||+|||+||++|+.-+.+++..+|.++.+...+||.|.|||||||||||+++++|+..++..+.+++..++.|+||||
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 59999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHhHHhhhcChHHHH-HHHHhhchhHHHHhhcccCChHHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhh
Q 001686 783 VIQKALEVVHVDQQT-QMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLE 861 (1029)
Q Consensus 783 VVQkLLE~~s~eq~~-~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe 861 (1029)
|+||+|+++..+.+. .|+++|.+++..|++|++||||||||++++..+..++|++.+..+++++++|+|||+|||+|+|
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 999999999988776 8999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCcchHHHHHHHHHH-HHHhhccCchHHHHHHHHHhhCCHHH
Q 001686 862 HCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAG-QIVRMSQQKFASNVVEKCLTFGSPEE 940 (1029)
Q Consensus 862 ~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~~k~r~~Il~~L~g-~lv~Ls~~K~GSrVVEkcL~~as~k~ 940 (1029)
+|....+ +.++++|..+...|++|+||||||||+|+.+.+..++.|+..+.. ++++|++|||||.|||||++++...+
T Consensus 607 ~~~~~~~-~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~~~~~~ 685 (777)
T COG5099 607 NCNSEDK-ENLVEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKYASDSF 685 (777)
T ss_pred hccHhHH-HHHHHHHHHHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcch
Confidence 9976554 779999999999999999999999999999999999999999888 99999999999999999999998877
Q ss_pred -HHHHHHHHhcCCCCCh-hHHHhhcCCchHHHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCCCchHHHHHHHHHHHhCc
Q 001686 941 -RQLLINEMLGSTDENE-PLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIATGE 1018 (1029)
Q Consensus 941 -Rk~IIkeLlg~~d~~e-~L~~La~D~~GnyVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~yGk~Il~~VEkl~~~ge 1018 (1029)
|++|++++.....+++ .+..|+.|+|||||+|++++......|..+.+.|++++..|.+.+||+||.+.||+......
T Consensus 686 ~~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~~s~~~~~~l~~~~i~~~~~~l~~s~~g~~i~~~le~~~~~s~ 765 (777)
T COG5099 686 KRSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLKKSMYGQHILALLEKVGSSSQ 765 (777)
T ss_pred HHHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHhhCchhhHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHhcccc
Confidence 5999999987322233 38999999999999999999999999999999999999999999999999999999876544
Q ss_pred c
Q 001686 1019 R 1019 (1029)
Q Consensus 1019 ~ 1019 (1029)
.
T Consensus 766 ~ 766 (777)
T COG5099 766 S 766 (777)
T ss_pred c
Confidence 3
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=1.5e-43 Score=410.21 Aligned_cols=312 Identities=30% Similarity=0.522 Sum_probs=290.1
Q ss_pred hhhHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhccCHHHHHHHHHHHhh---
Q 001686 693 SDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTG--- 769 (1029)
Q Consensus 693 ~eI~GkiveLA~Dq~GSRvLQklLe~~S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~Lkg--- 769 (1029)
.++.|.+..+|+|++|||++|+.+..++......||.++..++.+||.|+||+++|||+++.|+++|+..|+..++.
T Consensus 213 ~~~~~~~~~~akd~~gc~~lq~~~~~~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p~ 292 (536)
T KOG2049|consen 213 VEIQGSINLIAKDQHGCRLLQKLLSEGTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDPR 292 (536)
T ss_pred hccchhhhhhcccccCCcccccCcccCccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcCcc
Confidence 46678999999999999999999999999999999999999999999999999999999999999999999999875
Q ss_pred hHHHhhhccccchhHhHHhhhcChHH-HHHHHHhhchhHHHHhhcccCChHHHHHHhhCChhHHHHHHHhhhhhhhhhcc
Q 001686 770 HVLRLSLQMYGCRVIQKALEVVHVDQ-QTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALST 848 (1029)
Q Consensus 770 ~~~~Ls~d~yGSrVVQkLLE~~s~eq-~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~ 848 (1029)
.|+.+|.++||+++||++++.....+ ...+++.|...+..|++|.||+||||+||.+++++..+++++....++..+|+
T Consensus 293 ~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~iA~ 372 (536)
T KOG2049|consen 293 LFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCLDLAT 372 (536)
T ss_pred ceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhcchhHHHHHHHHhcCchhhhHHHHHHHHHHHHHHH
Confidence 69999999999999999999977554 45566779999999999999999999999999999999999999999999999
Q ss_pred CccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCcchHHHHHHHHHHHHHhhccCchHHHH
Q 001686 849 HPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNV 928 (1029)
Q Consensus 849 hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrV 928 (1029)
|++||+|+|+||....+ ..++.+++++..+...|++|+|||||||++|+.-.+.....|++.|.+++++|+.+||||+|
T Consensus 373 ~~hGCcvLq~cl~~~~~-~~rd~Lv~~i~~naL~Ls~d~~GNyvVQyvl~L~~~~~t~~i~~~L~g~~veLS~qKfgS~v 451 (536)
T KOG2049|consen 373 DQHGCCVLQKCLDYSRG-EQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEKLRGHYVELSFQKFGSHV 451 (536)
T ss_pred hccccchhHHHhcchhH-HHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHhhhhHHHHHHHHhhccHH
Confidence 99999999999999865 67889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCHHHHHHHHHHHhcCCCCChhHHHhhcCCchHHHHHHHHhcCCh----hHHHHHHHHHHHHHHHHhhCCCch
Q 001686 929 VEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDD----QSLELILSRIRVHLNVLKKYTYGK 1004 (1029)
Q Consensus 929 VEkcL~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~GnyVVQklLdt~dd----t~Rk~ILseLk~hL~eLa~~~yGk 1004 (1029)
|||||+++... +..|+.||++. +.+..|+.|+|||||||++|...++ ..+..++..+++.+..|+..++|+
T Consensus 452 VEk~L~~~~~~-~~~iV~ell~~----~~~~~Ll~D~ygNyViq~AL~vtk~~~~~~~~~~lv~~~~~~~~~lr~~p~~~ 526 (536)
T KOG2049|consen 452 VEKLLKVRESS-RAQIVLELLSC----DELDRLLRDPYGNYVIQTALRVTKVKLREDLFGLLVQKLMPRIRLLRNNPGGN 526 (536)
T ss_pred HHHHHhcCcch-hhHHHHHHHcc----ccHHHHhhCccchHHHHHHHHHhhhcccchhhHHHHHHHhhhhHHhhcCcccc
Confidence 99999987543 48899999976 5699999999999999999999886 457889999999999999999999
Q ss_pred HHHHHH
Q 001686 1005 HIVSRI 1010 (1029)
Q Consensus 1005 ~Il~~V 1010 (1029)
++..+.
T Consensus 527 ~~~~~~ 532 (536)
T KOG2049|consen 527 IALIKD 532 (536)
T ss_pred eeeehh
Confidence 986543
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=4.5e-39 Score=356.77 Aligned_cols=298 Identities=24% Similarity=0.466 Sum_probs=280.3
Q ss_pred cchhhhhHHHHhhh---ccccccccHhhhHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHhHhHHHhhcCcccce
Q 001686 670 MEGRLSSSLLDEFK---TNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNY 746 (1029)
Q Consensus 670 ~~~~~~s~LLeef~---s~eek~l~L~eI~GkiveLA~Dq~GSRvLQklLe~~S~Eqr~~IfeEL~~~~leLmtD~fGSh 746 (1029)
..+...++++|.+. +++++...+.++.++++++++|++|++++|++|++++++++..|++++.+++.+|++|+||+|
T Consensus 16 ~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~g~~ 95 (322)
T cd07920 16 AKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCR 95 (322)
T ss_pred cCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcccchhHH
Confidence 35566677777543 456777788899999999999999999999999999999999999999999999999999999
Q ss_pred ehhhhhhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHHHHhh
Q 001686 747 VIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIEC 826 (1029)
Q Consensus 747 VVQKLLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~ 826 (1029)
||||+|++++++++..|++++.+++..|+.|.||++|||++++.++.+++..|+++|.+++..++.|++|++|+|+||+.
T Consensus 96 vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~G~~vvq~~l~~ 175 (322)
T cd07920 96 VIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHPYGCRVIQRCLEH 175 (322)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCccccHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCcchHH
Q 001686 827 IPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERT 906 (1029)
Q Consensus 827 ~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~~k~r~ 906 (1029)
.+++.++.+++.+.+++..|+.++||++|||++|+.+. +..++.|++.+.+++..|++++||++||+++|+.+.++.++
T Consensus 176 ~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~-~~~~~~i~~~l~~~~~~l~~~k~Gs~Vve~~l~~~~~~~~~ 254 (322)
T cd07920 176 CSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGD-PDDTSRIIEKLLGNIVQLSCHKFASNVVEKCLKHASKEERE 254 (322)
T ss_pred CCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCC-HHHHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHCCHHHHH
Confidence 99999999999999999999999999999999999975 66778899999999999999999999999999999999999
Q ss_pred HHHHHHH------HHHHhhccCchHHHHHHHHHhhCCHHHHHHHHHHHhcCCCCChhHHHhhcCCchHHHHHHH
Q 001686 907 TVITQLA------GQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKV 974 (1029)
Q Consensus 907 ~Il~~L~------g~lv~Ls~~K~GSrVVEkcL~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~GnyVVQkl 974 (1029)
.|++.+. +++..|+.++||+.||+++|..++++.++.|+..|. +++..|+.++||+.||.++
T Consensus 255 ~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~~~~~i~~~l~------~~~~~L~~~~~G~~v~~~~ 322 (322)
T cd07920 255 LIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIR------PHLPSLRKSPYGKHILAKL 322 (322)
T ss_pred HHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHHHHHHHHHHHH------HHHHHHcCCCcHHHHHHhC
Confidence 9999995 589999999999999999999999999999999997 6799999999999999874
No 7
>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-39 Score=373.46 Aligned_cols=265 Identities=29% Similarity=0.457 Sum_probs=246.5
Q ss_pred cchhhhhHHHHhhh---ccccccccHhhhHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHhHhHHHhhcCcccce
Q 001686 670 MEGRLSSSLLDEFK---TNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNY 746 (1029)
Q Consensus 670 ~~~~~~s~LLeef~---s~eek~l~L~eI~GkiveLA~Dq~GSRvLQklLe~~S~Eqr~~IfeEL~~~~leLmtD~fGSh 746 (1029)
|.+.|+..+++.|. +.+++......+.|++.++|.|.+||||||+.|++-+.++..+++.||.++++.+++|++|||
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 44555556666443 455666667889999999999999999999999999999999999999999999999999999
Q ss_pred ehhhhhhccCHHHHHHHHHHHhh--hHHHhhhccccchhHhHHhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHHHH
Q 001686 747 VIQKFFEHGTESQRAQLASQLTG--HVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCI 824 (1029)
Q Consensus 747 VVQKLLe~~s~eqr~~Li~~Lkg--~~~~Ls~d~yGSrVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~L 824 (1029)
||||+|+..+.+....|++.+.+ ++..||.|+|||||||++||.|.++++..++.||..++..|+.|+|||||||.+|
T Consensus 302 ViQK~ie~~p~~~~~Fiv~~f~~~~~~~~ls~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~~~L~~dQygNYVIQHVi 381 (503)
T KOG1488|consen 302 VIQKCIETLPPDAWQFIVDFFSGDDNLLELSTHKYGCRVIQRILEHCSEDQKQPLMEEIIRNCDQLAQDQYGNYVIQHVI 381 (503)
T ss_pred ehhhhhhccChHHHHHHHHHhcCCCceeEeeccCcccHHHHHHhhcCChHhhhHHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence 99999999999999999999999 9999999999999999999999999999999999999999999999999999999
Q ss_pred hhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHH-------HHHHHhcCCCccHHHHHHH
Q 001686 825 ECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQ-------HVCNLAQDQYGNYVIQHVL 897 (1029)
Q Consensus 825 e~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~-------~L~~LA~DqyGNyVVQ~LL 897 (1029)
+++.++.+..|++.+.++++.+++|||+++||++|+.++. +..+..|++||+. .|..|++|||||||||++|
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 9999999999999999999999999999999999999985 5668889999886 3889999999999999999
Q ss_pred hcCCcchHHHHHHHHHHHHHhhccCchHHHHHHHHHhh
Q 001686 898 EHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTF 935 (1029)
Q Consensus 898 e~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~ 935 (1029)
+.+.+.+|+.|+.+++.++..|-..+||-|+++++=++
T Consensus 461 ~~~~~~q~~~i~~rI~~h~~~Lrk~syGKhIia~lek~ 498 (503)
T KOG1488|consen 461 DICGPEQRELIKSRVKPHASRLRKFSYGKHIIAKLEKL 498 (503)
T ss_pred HhcCHHHHHHHHHHHHHHHHHHccCccHHHHHHHHHHh
Confidence 99999999999999999999999999999999997654
No 8
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.1e-33 Score=315.84 Aligned_cols=302 Identities=20% Similarity=0.347 Sum_probs=254.3
Q ss_pred CCCccCcCCCcchhhhhHHHHhhhccccccccHhhhHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHhHhHHHhh
Q 001686 660 MPWHLDAGINMEGRLSSSLLDEFKTNKTRSFELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLM 739 (1029)
Q Consensus 660 ~~w~~d~~~~~~~~~~s~LLeef~s~eek~l~L~eI~GkiveLA~Dq~GSRvLQklLe~~S~Eqr~~IfeEL~~~~leLm 739 (1029)
..|+-.|.....+..+.+|+.|+.. .++|+|.+++..|+.|||||.+++++++.+|+.||+||.|.+++||
T Consensus 136 slWEkLR~k~~~ke~R~klv~el~~---------likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~ 206 (652)
T KOG2050|consen 136 SLWEKLRRKTTPKEERDKLVSELYK---------LIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELA 206 (652)
T ss_pred HHHHHHhccCCcHHHHHHHHHHHHH---------HHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHH
Confidence 5688888777778888888888765 7889999999999999999999999999999999999999999999
Q ss_pred cCcccceehhhhhhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhh-cChHHHHHHHHhhchhHHHHhhcccCCh
Q 001686 740 TDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEV-VHVDQQTQMVAELDGSVMKCVHDQNGNH 818 (1029)
Q Consensus 740 tD~fGShVVQKLLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~-~s~eq~~~Lv~EL~~~i~~Lv~DqnGNh 818 (1029)
+++||.|+|||+|.|+++.|+..|+..|+||+..|..|+.|+.||..++.- ++.+|+..|+.||++..+.++++.+--+
T Consensus 207 kskY~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 207 KSKYAKFFVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDSNDKT 286 (652)
T ss_pred HhHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhccCccc
Confidence 999999999999999999999999999999999999999999999999954 8899999999999999999999954444
Q ss_pred HHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHh
Q 001686 819 VIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLE 898 (1029)
Q Consensus 819 VIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe 898 (1029)
+...|.+. ++.+..|...+...+ +.+++.. .....|+.. |+--.|.
T Consensus 287 l~kil~~~--pekk~~I~~~l~~~I-------------~~v~eKg---~v~~tivHk----------------~mlEy~~ 332 (652)
T KOG2050|consen 287 LDKILAEA--PEKKASILRHLKAII-------------TPVAEKG---SVDHTIVHK----------------LMLEYLT 332 (652)
T ss_pred HHHHHHhC--hHhHHHHHHHHHHHh-------------HHHhhcc---hhHHHHHHH----------------HHHHHHH
Confidence 33333332 344444444443222 2222111 001111111 2222456
Q ss_pred cCCcchHHHHHHHHHHHHHhhccCchHHHHHHHHHhhCCHHHHHHHHHHHhcCCCCChhHHHhhcCCchHHHHHHHHhcC
Q 001686 899 HGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETC 978 (1029)
Q Consensus 899 ~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~GnyVVQklLdt~ 978 (1029)
.++++.+.++++.+.+.+..|.+++.||+|..+|++++++++|+.|++.|. +++..+++|+|||.|+.++|+++
T Consensus 333 ~ade~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K------~h~~K~A~~~yGh~vlia~ldc~ 406 (652)
T KOG2050|consen 333 IADEEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMK------EHVEKIANDEYGHLVLIALLDCT 406 (652)
T ss_pred hCCHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHH------HHHHHHHhhccCceehhhhhccc
Confidence 678899999999999999999999999999999999999999999999998 88999999999999999999999
Q ss_pred ChhH--HHHHHHHHHHHHHHHhhCCCchHHHHHH
Q 001686 979 DDQS--LELILSRIRVHLNVLKKYTYGKHIVSRI 1010 (1029)
Q Consensus 979 ddt~--Rk~ILseLk~hL~eLa~~~yGk~Il~~V 1010 (1029)
|||. ++.|+.+++.++..|..++||++|+..+
T Consensus 407 DDT~l~kk~i~~e~~~el~~li~Dk~Grrv~lyl 440 (652)
T KOG2050|consen 407 DDTKLLKKLIYDELKSELKSLISDKYGRRVILYL 440 (652)
T ss_pred chHHHHHHHHHHHHHHHHHHHhccchhhhhhhhh
Confidence 9998 6899999999999999999999998654
No 9
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=6.7e-29 Score=286.59 Aligned_cols=370 Identities=19% Similarity=0.281 Sum_probs=297.1
Q ss_pred CCCCCCCCCccccCcccccCCCCCCCCCc-cCcCCC-cchhhhhHHHHhhhccccccccH-----hhhHHHHHHHhhCCC
Q 001686 635 VGSGSFPNERNSRFTSMMRSSMGGPMPWH-LDAGIN-MEGRLSSSLLDEFKTNKTRSFEL-----SDIVDHVVEFSTDQY 707 (1029)
Q Consensus 635 ~g~~~~~~~r~~r~~s~~r~~~g~~~~w~-~d~~~~-~~~~~~s~LLeef~s~eek~l~L-----~eI~GkiveLA~Dq~ 707 (1029)
.+.|..++.+++|.+...++..+.....+ +|++.. ||++..+.+-..|...+++.++. +|+.|+++++|++|.
T Consensus 30 skkp~~g~~~~~~~~~~~~~e~~~q~~fg~~dpE~~~YF~~a~~a~~~~~~~~eEr~~~f~n~i~ee~~grel~l~tnqi 109 (650)
T KOG2188|consen 30 SKKPQEGRNENFRPALAKNSEFGPQNFFGGLDPEELGYFRRAESAFKGGFERGEERNRMFVNSIFEEVYGRELDLATNQI 109 (650)
T ss_pred ccCcCcccCCCCCCcccccccCCCCCCCCCcChhhhhHHHHHHHHhhcCccccccceeeeehhHHHHhccceeehhccch
Confidence 44566678888999999888887554444 457655 99999888888888877766543 788999999999999
Q ss_pred cCHHHHHHhhcCCHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhcc--------------------------CHHHHH
Q 001686 708 GSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHG--------------------------TESQRA 761 (1029)
Q Consensus 708 GSRvLQklLe~~S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~~--------------------------s~eqr~ 761 (1029)
+|.++|.++..++..|.+.+|.++.+++..+++|+||+||+|++|+.. .++...
T Consensus 110 ~Sk~le~l~~f~d~~ql~~ff~~~~g~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s~dea~~~ke~p~~t~e~~~~ 189 (650)
T KOG2188|consen 110 GSKVLEDLLGFSDSRQLCDFFSALNGVLRSIAQHRFGSHVLESALEKLAALVGQEAALLSEDEAAVEKEGPFVTCENLLL 189 (650)
T ss_pred hHHHHHHHhccCCchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccchhhhcccccCcccccchHHH
Confidence 999999999999999999999999999999999999999999998862 133456
Q ss_pred HHHHHHhhhHH-HhhhccccchhHhHHhhhcChH----------------------------------------------
Q 001686 762 QLASQLTGHVL-RLSLQMYGCRVIQKALEVVHVD---------------------------------------------- 794 (1029)
Q Consensus 762 ~Li~~Lkg~~~-~Ls~d~yGSrVVQkLLE~~s~e---------------------------------------------- 794 (1029)
.|+.++.+++. .|+.|.+|+||+++++-++...
T Consensus 190 ~m~nei~~~~~~~l~~~~~gshv~rt~~l~l~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pqsFp~~l~~~i~~~l~ 269 (650)
T KOG2188|consen 190 LMLNEISPHVLKTLMELIFGSHVLRTILLLLFSMCPIAESEHKLALRKAAHRGMDDWDAVTTPPQSFPQRLIVWICTGLS 269 (650)
T ss_pred HHHHHhhHHHHHHHHHHHHhHHHHHHHHHHHccCcchhhhHHHHHHHHHhhccccchhhhhcChhhccHHHHHHHhhhcc
Confidence 67888999998 9999999999999998664310
Q ss_pred ------------HHHHHHHhh-------------------------------------------c-hhHHHHhhcccCCh
Q 001686 795 ------------QQTQMVAEL-------------------------------------------D-GSVMKCVHDQNGNH 818 (1029)
Q Consensus 795 ------------q~~~Lv~EL-------------------------------------------~-~~i~~Lv~DqnGNh 818 (1029)
.+...++.. . +-+..+..|+.|+|
T Consensus 270 ~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~d~~~~kE~~~~k~~l~d~tgSr 349 (650)
T KOG2188|consen 270 ALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMESPRLVTKFQLFNEKDGLWGKERSFLKELLSDQTGSR 349 (650)
T ss_pred ccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhhhhHHHhhhhccccCcccccccHHHHHHHhcCcccH
Confidence 000000000 0 01112567899999
Q ss_pred HHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCC-----------
Q 001686 819 VIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQ----------- 887 (1029)
Q Consensus 819 VIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~Dq----------- 887 (1029)
+++++++..+++....+...|.+++.+||.|++++++||++|+|..+.+....|++++...+..|....
T Consensus 350 llE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~~LL~~g~~gVv~sLia~ 429 (650)
T KOG2188|consen 350 LLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLSSLLEQGNSGVVASLIAA 429 (650)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHHHHHHcCCchHhHHHHHH
Confidence 999999999999998888999999999999999999999999999988777788888666543333322
Q ss_pred ------------------------------------------------------CccHHHHHHHhcCCcch---HHHHHH
Q 001686 888 ------------------------------------------------------YGNYVIQHVLEHGKPHE---RTTVIT 910 (1029)
Q Consensus 888 ------------------------------------------------------yGNyVVQ~LLe~~~~k~---r~~Il~ 910 (1029)
-|..++|+++...++.. -..+++
T Consensus 430 ~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~lv~f~k~~i~~litsll~ 509 (650)
T KOG2188|consen 430 SARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEELVNFSKTHIQTLITSLLS 509 (650)
T ss_pred HHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHHHHHHhhchhhhHHHHHHHHh
Confidence 24444455554444321 223344
Q ss_pred HHHHHHHhhccCchHHHHHHHHHhh--CCHHHHHHHHHHHhcCCCCChhHHHhhcCCchHHHHHHHHhcCChhHHHHHHH
Q 001686 911 QLAGQIVRMSQQKFASNVVEKCLTF--GSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILS 988 (1029)
Q Consensus 911 ~L~g~lv~Ls~~K~GSrVVEkcL~~--as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~GnyVVQklLdt~ddt~Rk~ILs 988 (1029)
...+++.+++++++||||||.+|.. .+++.|++||..|-+ ...+|+.+.+|++|+.++|+.+++..|+.|++
T Consensus 510 L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g------~~~~La~~~~GSrv~eK~wea~~~~~k~rIak 583 (650)
T KOG2188|consen 510 LSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDG------SFVTLALSTFGSRVFEKCWEATDVLYKERIAK 583 (650)
T ss_pred hhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhc------cchheeecCcccHHHHHHHHHhhHHHHHHHHH
Confidence 4578999999999999999999998 688999999998864 47899999999999999999999999999999
Q ss_pred HHHHHHHHHhhCCCchHHHHHH
Q 001686 989 RIRVHLNVLKKYTYGKHIVSRI 1010 (1029)
Q Consensus 989 eLk~hL~eLa~~~yGk~Il~~V 1010 (1029)
+|...-..++.++||+.|+.++
T Consensus 584 eL~~~~~~vk~s~~gk~v~~~~ 605 (650)
T KOG2188|consen 584 ELVGIHNDVKSSKYGKFVMLNW 605 (650)
T ss_pred HHHhhccccccCcchHHHHHhc
Confidence 9999999999999999998765
No 10
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=7e-29 Score=288.50 Aligned_cols=260 Identities=24% Similarity=0.341 Sum_probs=228.0
Q ss_pred cchhhhhHHHHhhhc--cccccc-cHhhhH---HHHHHHhhCCCcCHHHHHHhhcC-CHHHHHHHHHHHhHhHHHhhcCc
Q 001686 670 MEGRLSSSLLDEFKT--NKTRSF-ELSDIV---DHVVEFSTDQYGSRFIQQKLEAA-TAEEKTRIFPEIIPHARTLMTDV 742 (1029)
Q Consensus 670 ~~~~~~s~LLeef~s--~eek~l-~L~eI~---GkiveLA~Dq~GSRvLQklLe~~-S~Eqr~~IfeEL~~~~leLmtD~ 742 (1029)
|.+.++..+++.+.+ +++... ++.-|+ +.++++|++.+|+|.||++++.. +.+|+..|++.|.+.+..|++|.
T Consensus 259 m~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~ 338 (536)
T KOG2049|consen 259 MEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDPRLFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDK 338 (536)
T ss_pred HhccchhHHHHHHHHhhCHHHHHHHHHHHhcCccceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhc
Confidence 456667777765443 333332 333333 46899999999999999999885 56789999999999999999999
Q ss_pred ccceehhhhhhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHH
Q 001686 743 FGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQK 822 (1029)
Q Consensus 743 fGShVVQKLLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk 822 (1029)
||+||||++|+.-+++..+.|++.+..+..++|+|++||.|+|++|.....+++..+++|+..+...|+.|+|||||||.
T Consensus 339 ~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~iA~~~hGCcvLq~cl~~~~~~~rd~Lv~~i~~naL~Ls~d~~GNyvVQy 418 (536)
T KOG2049|consen 339 NGNHVIQRCLRVFSKEKNEFLYEAILRYCLDLATDQHGCCVLQKCLDYSRGEQRDRLVEEISRNALLLSNDPYGNYVVQY 418 (536)
T ss_pred chhHHHHHHHHhcCchhhhHHHHHHHHHHHHHHHhccccchhHHHhcchhHHHHHHHHHHHHHHhHhhhcCccccchhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHH--HHHHHhcCCCccHHHHHHHhcC
Q 001686 823 CIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQ--HVCNLAQDQYGNYVIQHVLEHG 900 (1029)
Q Consensus 823 ~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~--~L~~LA~DqyGNyVVQ~LLe~~ 900 (1029)
+|+.-.+....+|+..+.+++++|+.+|||++||||||+++... +..|+.|++. .+..|+.|+|||||||+.|...
T Consensus 419 vl~L~~~~~t~~i~~~L~g~~veLS~qKfgS~vVEk~L~~~~~~--~~~iV~ell~~~~~~~Ll~D~ygNyViq~AL~vt 496 (536)
T KOG2049|consen 419 VLELNDPSCTVNIAEKLRGHYVELSFQKFGSHVVEKLLKVRESS--RAQIVLELLSCDELDRLLRDPYGNYVIQTALRVT 496 (536)
T ss_pred hhhhcCcchHHHHHHhhhhHHHHHHHHhhccHHHHHHHhcCcch--hhHHHHHHHccccHHHHhhCccchHHHHHHHHHh
Confidence 99998888899999999999999999999999999999997533 3678888888 8999999999999999999877
Q ss_pred Cc----chHHHHHHHHHHHHHhhccCchHHHHHHH
Q 001686 901 KP----HERTTVITQLAGQIVRMSQQKFASNVVEK 931 (1029)
Q Consensus 901 ~~----k~r~~Il~~L~g~lv~Ls~~K~GSrVVEk 931 (1029)
+. ..+..++..++..+..|-+.++|-.+..+
T Consensus 497 k~~~~~~~~~~lv~~~~~~~~~lr~~p~~~~~~~~ 531 (536)
T KOG2049|consen 497 KVKLREDLFGLLVQKLMPRIRLLRNNPGGNIALIK 531 (536)
T ss_pred hhcccchhhHHHHHHHhhhhHHhhcCcccceeeeh
Confidence 64 66777888888888888888887666544
No 11
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=3.3e-28 Score=294.67 Aligned_cols=238 Identities=23% Similarity=0.382 Sum_probs=220.9
Q ss_pred hhccccchhHhHHhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchh
Q 001686 775 SLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCR 854 (1029)
Q Consensus 775 s~d~yGSrVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~ 854 (1029)
+.|.+|||-||+.|+....++...+..|+.+.+.+|+.|.+||||+|||||++....+..++..+.+++..++.|+||||
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 78999999999999998888889999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCcchHHHHHHHHHHHHHhhccCchHHHHHHHHHh
Q 001686 855 VIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLT 934 (1029)
Q Consensus 855 VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~ 934 (1029)
|+||++++..++.+...+++++..++..|++|++||||||++++....+....|++.+.+++..++.++|||+||++|++
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 99999999988888878999999999999999999999999999999888999999999999999999999999999999
Q ss_pred hCCHHHHHHHHHHHhcCCCCChhHHHhhcCCchHHHHHHHHhcCChhHHHHHHHHHHH-HHHHHhhCCCchHHHHHHHHH
Q 001686 935 FGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRV-HLNVLKKYTYGKHIVSRIEKL 1013 (1029)
Q Consensus 935 ~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~GnyVVQklLdt~ddt~Rk~ILseLk~-hL~eLa~~~yGk~Il~~VEkl 1013 (1029)
++..++.+.|+++|+ .....|+.|+|||||||++|+....+.++.|+..+.. ++.+|..++||..|+++|-+.
T Consensus 607 ~~~~~~~~~~~~~Ii------~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~ 680 (777)
T COG5099 607 NCNSEDKENLVEEII------SNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKY 680 (777)
T ss_pred hccHhHHHHHHHHHH------HHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999 5578999999999999999999999999888888887 999999999999996444444
Q ss_pred HHhCc
Q 001686 1014 IATGE 1018 (1029)
Q Consensus 1014 ~~~ge 1018 (1029)
.-..+
T Consensus 681 ~~~~~ 685 (777)
T COG5099 681 ASDSF 685 (777)
T ss_pred CCcch
Confidence 44444
No 12
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.85 E-value=3.6e-20 Score=214.85 Aligned_cols=290 Identities=16% Similarity=0.253 Sum_probs=211.2
Q ss_pred HHHHHHHhHhHHHhhcCcccceehhhhhhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhcC------------
Q 001686 725 TRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVH------------ 792 (1029)
Q Consensus 725 ~~IfeEL~~~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s------------ 792 (1029)
+.||+|..+..++|+++++||+++|+++..++..|.+.++..+.+++..+++|++|+||+|++|+.+.
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 44899999999999999999999999999999999999999999999999999999999999997743
Q ss_pred --------------hHHHHHHHHhhchhHH-HHhhcccCChHHHHHHhhCChh-----HHH-------------------
Q 001686 793 --------------VDQQTQMVAELDGSVM-KCVHDQNGNHVIQKCIECIPQD-----RIQ------------------- 833 (1029)
Q Consensus 793 --------------~eq~~~Lv~EL~~~i~-~Lv~DqnGNhVIQk~Le~~~~e-----~~q------------------- 833 (1029)
++....|+.++.+++. .++.+.+|+||+.++|.++... ...
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 1223557788889888 8999999999999988865331 000
Q ss_pred -----------HHHHhhhh-----------hhhhh---------------------------------------------
Q 001686 834 -----------FIISSFYG-----------QVVAL--------------------------------------------- 846 (1029)
Q Consensus 834 -----------~Iie~f~g-----------~lvsL--------------------------------------------- 846 (1029)
.++..+.. .+...
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 00000000 11112
Q ss_pred -----------ccCccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCC-cchHHHHHHHHHH
Q 001686 847 -----------STHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGK-PHERTTVITQLAG 914 (1029)
Q Consensus 847 -----------s~hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~-~k~r~~Il~~L~g 914 (1029)
-.|+.|+++++.+++.|..+ ..+.+-..++..+.+||.|+.+||+||++|++.+ .++...|++.|.+
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 23566666666666666433 3345555667789999999999999999999987 8888888888877
Q ss_pred HHHhhccCch--------------H---HHHHHHHHh------------------hC----------C-HHH---HHHHH
Q 001686 915 QIVRMSQQKF--------------A---SNVVEKCLT------------------FG----------S-PEE---RQLLI 945 (1029)
Q Consensus 915 ~lv~Ls~~K~--------------G---SrVVEkcL~------------------~a----------s-~k~---Rk~II 945 (1029)
++-.|..+-+ | ..+++.++. .. . .+. .-.|+
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 6666543322 1 112221111 00 0 011 12334
Q ss_pred HHHhcCCC-------------CChhHHHhhcCCchHHHHHHHHhc--CChhHHHHHHHHHHHHHHHHhhCCCchHHHHHH
Q 001686 946 NEMLGSTD-------------ENEPLQAMMKDPFGNYVVQKVLET--CDDQSLELILSRIRVHLNVLKKYTYGKHIVSRI 1010 (1029)
Q Consensus 946 keLlg~~d-------------~~e~L~~La~D~~GnyVVQklLdt--~ddt~Rk~ILseLk~hL~eLa~~~yGk~Il~~V 1010 (1029)
++|+.... ..++|.+++.+.+|++||+.+|++ .+...+++||..+..+..+|+.++||+||+++|
T Consensus 490 e~lv~f~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~eK~ 569 (650)
T KOG2188|consen 490 EELVNFSKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVFEKC 569 (650)
T ss_pred HHHHhhchhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHHHHH
Confidence 44433211 136789999999999999999999 577779999999999999999999999998777
Q ss_pred HHHHH
Q 001686 1011 EKLIA 1015 (1029)
Q Consensus 1011 Ekl~~ 1015 (1029)
.+...
T Consensus 570 wea~~ 574 (650)
T KOG2188|consen 570 WEATD 574 (650)
T ss_pred HHHhh
Confidence 66544
No 13
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.81 E-value=1.9e-18 Score=198.91 Aligned_cols=247 Identities=18% Similarity=0.293 Sum_probs=215.9
Q ss_pred HHHHHHHHhhhHHHhhhccccchhHhHHhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHHHHhhCChhHHHHHHHhh
Q 001686 760 RAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSF 839 (1029)
Q Consensus 760 r~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~~e~~q~Iie~f 839 (1029)
..+|++.+++++.+|+..+..+||||+|+.+++..++.+|+.||.+.+..|+++.||-|+||++|.++++..++.||..|
T Consensus 155 v~el~~likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl 234 (652)
T KOG2050|consen 155 VSELYKLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSL 234 (652)
T ss_pred HHHHHHHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 34555667899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCcchHHHHHHHHHHHHHhh
Q 001686 840 YGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVITQLAGQIVRM 919 (1029)
Q Consensus 840 ~g~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~~k~r~~Il~~L~g~lv~L 919 (1029)
+|+++.|..|+.|+.|++..+...++..+|+.|+.|+.+....|+.+ .--.-|..+|+. .++.+..|+..|.+.+-.+
T Consensus 235 ~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~-sn~~Tl~kil~~-~pekk~~I~~~l~~~I~~v 312 (652)
T KOG2050|consen 235 RGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKD-SNDKTLDKILAE-APEKKASILRHLKAIITPV 312 (652)
T ss_pred hhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhc-cCcccHHHHHHh-ChHhHHHHHHHHHHHhHHH
Confidence 99999999999999999999998778899999999999999999988 333455666663 4567778888887776665
Q ss_pred ccC-----chHHHHHHHHHhhCCHHHHHHHHHHHhcCCCCChhHHHhhcCCchHHHHHHHHhcCChhHHHHHHHHHHHHH
Q 001686 920 SQQ-----KFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHL 994 (1029)
Q Consensus 920 s~~-----K~GSrVVEkcL~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~GnyVVQklLdt~ddt~Rk~ILseLk~hL 994 (1029)
+.. ..-.+++...+..|+++++..+++.+. +.+..|+..+-|.-|..+++.....+.|+.|++.|++|+
T Consensus 313 ~eKg~v~~tivHk~mlEy~~~ade~e~~e~l~ll~------elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~ 386 (652)
T KOG2050|consen 313 AEKGSVDHTIVHKLMLEYLTIADEEEKSELLELLK------ELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHV 386 (652)
T ss_pred hhcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH------HHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHH
Confidence 532 223456666778899999999999887 779999999999999999999999999999999999999
Q ss_pred HHHhhCCCchHHHHHHHHHH
Q 001686 995 NVLKKYTYGKHIVSRIEKLI 1014 (1029)
Q Consensus 995 ~eLa~~~yGk~Il~~VEkl~ 1014 (1029)
..++++.||+.|+-.+-.|+
T Consensus 387 ~K~A~~~yGh~vlia~ldc~ 406 (652)
T KOG2050|consen 387 EKIANDEYGHLVLIALLDCT 406 (652)
T ss_pred HHHHhhccCceehhhhhccc
Confidence 99999999999987766665
No 14
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.61 E-value=1.3e-15 Score=180.24 Aligned_cols=288 Identities=19% Similarity=0.283 Sum_probs=228.7
Q ss_pred CHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhcChHHH-HH
Q 001686 720 TAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQ-TQ 798 (1029)
Q Consensus 720 S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s~eq~-~~ 798 (1029)
+..+++.+.-+..++..+|..|-.||-|+||+|+++....+..+......++..+..|++|.++.||+++.+..+.+ +.
T Consensus 533 S~pEied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~ 612 (1007)
T KOG4574|consen 533 SAPEIEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKL 612 (1007)
T ss_pred cchhHHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhhe
Confidence 34567777778888888999999999999999999999999999999999999999999999999999999876644 55
Q ss_pred HHHhhchhHHHHhhcccCChHHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcCCHHHHHHHHHH--H
Q 001686 799 MVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDE--I 876 (1029)
Q Consensus 799 Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldE--L 876 (1029)
++.-+.+....++.|++||||+|.||...-+.. .||++.+..+++++.+.+||++-+.+||+...-....+.+..+ +
T Consensus 613 iv~g~dpyc~~l~~dqfgnyvaqd~LkF~fp~n-sFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~i 691 (1007)
T KOG4574|consen 613 IVRGVDPYCTPLLNDQFGNYVAQDSLKFGFPWN-SFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCI 691 (1007)
T ss_pred eeeccCcchhhHHHHhhcceeeeeehhccCccc-hHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhh
Confidence 667788999999999999999999999876654 7888999999999999999999999999964422222223322 2
Q ss_pred HHHHHHHhcCCCccHHHHHHHhcCCc-chHHHHHHHHHHHHHhhccCchHHHHHHHHHhhCCHHH-HHHHHHHHhcCCCC
Q 001686 877 MQHVCNLAQDQYGNYVIQHVLEHGKP-HERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEE-RQLLINEMLGSTDE 954 (1029)
Q Consensus 877 l~~L~~LA~DqyGNyVVQ~LLe~~~~-k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~as~k~-Rk~IIkeLlg~~d~ 954 (1029)
....-.++.+.-|-..|.++|+.+.. .....++..+.++++.+|+||.|+-+|.|++.++.+.+ |++|++.|+.....
T Consensus 692 Is~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n~ 771 (1007)
T KOG4574|consen 692 ISKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLRNF 771 (1007)
T ss_pred hhchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhcccc
Confidence 33366788899999999999998773 33445667788999999999999999999999985555 99999999842111
Q ss_pred ------------------------ChhHHHhhcCCchHHHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCCCchHHHHHH
Q 001686 955 ------------------------NEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRI 1010 (1029)
Q Consensus 955 ------------------------~e~L~~La~D~~GnyVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~yGk~Il~~V 1010 (1029)
.+-+.....|+|+.+|.|.++..-.... ..+.+|...+.-++.+++|++-+..+
T Consensus 772 kd~~lt~Vl~~~~~gpmfiikvi~~p~iel~f~dQf~kvvrq~il~~~a~~n--arv~~LleevgliSasksgs~s~q~~ 849 (1007)
T KOG4574|consen 772 KDSALTEVLTEANYGPMFIIKVITKPTIELAFRDQFIKVVRQVILNSPAVSN--ARVQRLLEEVGLISASKSGSQSIQMH 849 (1007)
T ss_pred ccchhhhhhhhhccccceeeeeeccccchHHHHHHHHHHHHHHHHhcCCccH--HHHHHHHHHHhhhccccchhHHHHhh
Confidence 1224556788999999999887653332 12255666667788889998875444
No 15
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.25 E-value=9.2e-12 Score=148.15 Aligned_cols=254 Identities=17% Similarity=0.227 Sum_probs=198.2
Q ss_pred ccccHhhhHHHHHHHhhCCCcCHHHHHHhhcC-CHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhccCHHHHHHHHHH
Q 001686 688 RSFELSDIVDHVVEFSTDQYGSRFIQQKLEAA-TAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQ 766 (1029)
Q Consensus 688 k~l~L~eI~GkiveLA~Dq~GSRvLQklLe~~-S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~ 766 (1029)
|...++...-.+..+..+.+|....|+.++.+ ++.+.+.|+..+.+....|..|+|||||+|.+|+.+-+- ...+++.
T Consensus 573 k~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~iv~g~dpyc~~l~~dqfgnyvaqd~LkF~fp~-nsFVfE~ 651 (1007)
T KOG4574|consen 573 KDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLIVRGVDPYCTPLLNDQFGNYVAQDSLKFGFPW-NSFVFES 651 (1007)
T ss_pred HHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhheeeeccCcchhhHHHHhhcceeeeeehhccCcc-chHHHHH
Confidence 44444555556677888999999999999998 456899999999999999999999999999999887542 4456788
Q ss_pred HhhhHHHhhhccccchhHhHHhhhcC--hHHHHHHHHh-hchhHHHHhhcccCChHHHHHHhhCChhHHHHH-HHhhhhh
Q 001686 767 LTGHVLRLSLQMYGCRVIQKALEVVH--VDQQTQMVAE-LDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFI-ISSFYGQ 842 (1029)
Q Consensus 767 Lkg~~~~Ls~d~yGSrVVQkLLE~~s--~eq~~~Lv~E-L~~~i~~Lv~DqnGNhVIQk~Le~~~~e~~q~I-ie~f~g~ 842 (1029)
+..++.++...+||++-+++||+..+ .+++...++. +......+..+.+|-..|.++++.+....+..+ +..+.++
T Consensus 652 v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~iIs~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~e 731 (1007)
T KOG4574|consen 652 VFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCIISKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKE 731 (1007)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhhhhchhhhhhcCccceeeeeecccccccchhhHHhhhhhhc
Confidence 89999999999999999999998865 3333333332 223355677889999999999986544444433 4556699
Q ss_pred hhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHHH------------------------------HHHHhcCCCccHH
Q 001686 843 VVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQH------------------------------VCNLAQDQYGNYV 892 (1029)
Q Consensus 843 lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~~------------------------------L~~LA~DqyGNyV 892 (1029)
++++|.|+-|+-+|+|+++.|.++..++.|++.|... +...+.|+++++|
T Consensus 732 l~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n~kd~~lt~Vl~~~~~gpmfiikvi~~p~iel~f~dQf~kvv 811 (1007)
T KOG4574|consen 732 LVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLRNFKDSALTEVLTEANYGPMFIIKVITKPTIELAFRDQFIKVV 811 (1007)
T ss_pred cchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhccccccchhhhhhhhhccccceeeeeeccccchHHHHHHHHHHH
Confidence 9999999999999999999999998888888776521 3445667899999
Q ss_pred HHHHHhcCCcchHHHHHHHHHHHHHhhccCchHHHHHHHHHhhCCHHHHHHH
Q 001686 893 IQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLL 944 (1029)
Q Consensus 893 VQ~LLe~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~as~k~Rk~I 944 (1029)
.|.++.......- . +++|.+.+.-.+..|+|++-++.|+.......-..+
T Consensus 812 rq~il~~~a~~na-r-v~~LleevgliSasksgs~s~q~~~sss~~~~~qrl 861 (1007)
T KOG4574|consen 812 RQVILNSPAVSNA-R-VQRLLEEVGLISASKSGSQSIQMHISSSKTPFAQRL 861 (1007)
T ss_pred HHHHHhcCCccHH-H-HHHHHHHHhhhccccchhHHHHhhhccCCcccccch
Confidence 9999987653322 2 388999999999999999999999998754443333
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=97.77 E-value=8.2e-06 Score=62.72 Aligned_cols=33 Identities=39% Similarity=0.614 Sum_probs=16.8
Q ss_pred HhHhHHHhhcCcccceehhhhhhccCHHHHHHH
Q 001686 731 IIPHARTLMTDVFGNYVIQKFFEHGTESQRAQL 763 (1029)
Q Consensus 731 L~~~~leLmtD~fGShVVQKLLe~~s~eqr~~L 763 (1029)
|.+++.+|++|+||||||||+|++++++++..|
T Consensus 2 i~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~i 34 (35)
T PF00806_consen 2 IKGNLVELSKDQYGNYVVQKCLEHASPEQRQLI 34 (35)
T ss_dssp HTTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHH
T ss_pred hHHHHHHHHhccccCHHHHHHHHHCCHHHHHhh
Confidence 344555555555555555555555555544443
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=97.43 E-value=7.8e-05 Score=57.29 Aligned_cols=35 Identities=40% Similarity=0.645 Sum_probs=32.0
Q ss_pred hhHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHH
Q 001686 694 DIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIF 728 (1029)
Q Consensus 694 eI~GkiveLA~Dq~GSRvLQklLe~~S~Eqr~~If 728 (1029)
++.++++++++|++||+|||++|+.++++++..|+
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 46788999999999999999999999999998875
No 18
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.36 E-value=6.5e-05 Score=56.75 Aligned_cols=32 Identities=41% Similarity=0.722 Sum_probs=16.0
Q ss_pred HHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHH
Q 001686 696 VDHVVEFSTDQYGSRFIQQKLEAATAEEKTRI 727 (1029)
Q Consensus 696 ~GkiveLA~Dq~GSRvLQklLe~~S~Eqr~~I 727 (1029)
.+++.++|+|++||+|||++|+.++++++..|
T Consensus 3 ~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i 34 (36)
T smart00025 3 KGHLLELSKDQYGNRVVQKLLEHASESQREQI 34 (36)
T ss_pred hHHHHHHHhcchhhHHHHHHHHHCCHHHHHHh
Confidence 34455555555555555555555554444444
No 19
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.28 E-value=0.0002 Score=54.01 Aligned_cols=34 Identities=47% Similarity=0.670 Sum_probs=31.3
Q ss_pred HhHhHHHhhcCcccceehhhhhhccCHHHHHHHH
Q 001686 731 IIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLA 764 (1029)
Q Consensus 731 L~~~~leLmtD~fGShVVQKLLe~~s~eqr~~Li 764 (1029)
+.+++.+||+|+||+||||++|+++++.++..|+
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 5789999999999999999999999999888775
No 20
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=94.44 E-value=7 Score=45.20 Aligned_cols=111 Identities=19% Similarity=0.253 Sum_probs=60.6
Q ss_pred CccHHHHHHHhcCCcchHHHHHHHHHHHHHhhccCchHHHHHHHHHhhC-----CHHHHHHHHHHHhcCCCCChhHHHhh
Q 001686 888 YGNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFG-----SPEERQLLINEMLGSTDENEPLQAMM 962 (1029)
Q Consensus 888 yGNyVVQ~LLe~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~a-----s~k~Rk~IIkeLlg~~d~~e~L~~La 962 (1029)
-|-..+-.+|..-+....+.|++.|...=..+ +-.|-+++|.|. +++....|++
T Consensus 202 ~g~~~~a~Iln~~~~~~~~~il~~L~~~d~~~-----a~~Ir~~mF~Fedl~~l~~~~l~~ll~---------------- 260 (339)
T PRK05686 202 GGVKTVAEILNNLDRQTEKTILESLEEEDPEL-----AEKIKDLMFVFEDLVDLDDRSIQRLLR---------------- 260 (339)
T ss_pred CcHHHHHHHHhcCCchHHHHHHHHHHhhCHHH-----HHHHHHHhcCHHHHhcCCHHHHHHHHH----------------
Confidence 35566667777777666777777776433332 345555555543 2222333333
Q ss_pred cCCchHHHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCC---Cc-----------hHHHHHHHHHHHhCcccc
Q 001686 963 KDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYT---YG-----------KHIVSRIEKLIATGERRI 1021 (1029)
Q Consensus 963 ~D~~GnyVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~---yG-----------k~Il~~VEkl~~~ge~r~ 1021 (1029)
....-++-.+|..+++..+++|++.|.....++.... -| +.|+..+.++...|+-.+
T Consensus 261 --~v~~~~L~~ALkga~~~~~~~il~nmS~R~a~~l~eel~~~g~v~~~dve~Aq~~I~~~~r~l~~~G~I~l 331 (339)
T PRK05686 261 --EVDNDVLALALKGASEELREKFLSNMSKRAAEMLREDLEALGPVRLSDVEEAQKKIVQIARRLAEAGEIVL 331 (339)
T ss_pred --hCCHHHHHHHHCCCCHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHCCCEEE
Confidence 3345566666667777777666666554443332211 22 356666677776666444
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=93.76 E-value=17 Score=42.23 Aligned_cols=108 Identities=21% Similarity=0.254 Sum_probs=59.7
Q ss_pred ccHHHHHHHhcCCcchHHHHHHHHHHHHHhhccCchHHHHHHHHHhhC-----CHHHHHHHHHHHhcCCCCChhHHHhhc
Q 001686 889 GNYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFG-----SPEERQLLINEMLGSTDENEPLQAMMK 963 (1029)
Q Consensus 889 GNyVVQ~LLe~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~a-----s~k~Rk~IIkeLlg~~d~~e~L~~La~ 963 (1029)
|--.+..+|..-+....+.|++.|...=..+ +-.|-++++.|. +++..+.|++++
T Consensus 200 G~~~~a~ILN~~~~~~~~~il~~L~~~dp~l-----a~~Ir~~mF~Fedl~~ld~~~l~~llrev--------------- 259 (338)
T TIGR00207 200 GVRAVAEIINLMDRKTEKTIITSLEEFDPEL-----AEEIKKEMFVFEDIVDLDDRSIQRVLREV--------------- 259 (338)
T ss_pred hHHHHHHHHHhCCchHHHHHHHHHHHhCHHH-----HHHHHHHccCHHHHhcCCHHHHHHHHHhC---------------
Confidence 4566677777777676777777775433332 345555555543 222233333333
Q ss_pred CCchHHHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCC---Cc-----------hHHHHHHHHHHHhCcc
Q 001686 964 DPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYT---YG-----------KHIVSRIEKLIATGER 1019 (1029)
Q Consensus 964 D~~GnyVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~---yG-----------k~Il~~VEkl~~~ge~ 1019 (1029)
-.-++-.+|..+++..+++|++.+.....+..... -| +.|+..+.++...|+-
T Consensus 260 ---~~~~L~~ALkga~~e~~~~il~nmS~R~a~~l~ee~~~~GpV~~sdvE~Aq~~Iv~~~r~L~~~G~I 326 (338)
T TIGR00207 260 ---DSEDLLLALKGAEQPLREKFLNNMSQRAAEILKEDMEFLGPVRLKDVEEAQKKIVSIVRKLEETGEI 326 (338)
T ss_pred ---CHHHHHHHHCcCCHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHCCCE
Confidence 34555666666666667666666655444432221 12 3577777777766653
No 22
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=87.66 E-value=41 Score=39.01 Aligned_cols=171 Identities=11% Similarity=0.052 Sum_probs=96.3
Q ss_pred hhhccCHHHHHHHHHHHhhhHHHhhh-ccccchhHhHHhhh-cChHHHHHHHHhhchhHHHHhhcccCChHHHHHHhhCC
Q 001686 751 FFEHGTESQRAQLASQLTGHVLRLSL-QMYGCRVIQKALEV-VHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIP 828 (1029)
Q Consensus 751 LLe~~s~eqr~~Li~~Lkg~~~~Ls~-d~yGSrVVQkLLE~-~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~ 828 (1029)
-++..+++....+++++...+..-.. ..-|-..+.+++.. +..+.-..+++++.+.-. ..+++.+- ..+
T Consensus 51 ~l~~vs~~~~~~vL~ef~~~~~~~~~~~~gg~~~~~~iL~~~l~~~~a~~il~~i~~~~~--------~~~fe~L~-~ld 121 (339)
T PRK05686 51 NLRNVSPEQVEAVLEEFEDEFEAGAYILMGGIDYARSLLEKALGEEKADSILERILESLG--------TSGFDFLR-KMD 121 (339)
T ss_pred cCCCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHcCHHHHHHHHHHHhcccc--------CchHHHHh-cCC
Confidence 35556777777777777666654432 33444557777764 666666777777654211 24555444 346
Q ss_pred hhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcC--CcchHH
Q 001686 829 QDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHG--KPHERT 906 (1029)
Q Consensus 829 ~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~--~~k~r~ 906 (1029)
++.+..++.....+.+.++...-...+-.++|... -.... .-|+..+...+ ++....
T Consensus 122 ~~~l~~lL~~EhpqtiA~iLs~l~~~~aa~vL~~l-------------~~~~~--------~~v~~ria~l~~v~~~~~~ 180 (339)
T PRK05686 122 PQQLANFIRNEHPQTIALILSYLKPDQAAEILSLL-------------PEELR--------ADVMMRIATLEGVSPEALK 180 (339)
T ss_pred HHHHHHHHHhcCHHHHHHHHhCCCHHHHHHHHHhC-------------CHHHH--------HHHHHHHHccCCCCHHHHH
Confidence 66666666555555444443333333333333333 22111 11333333333 244444
Q ss_pred HHHHHHHHHHHhhc----cCchHHHHHHHHHhhCCHHHHHHHHHHHhcC
Q 001686 907 TVITQLAGQIVRMS----QQKFASNVVEKCLTFGSPEERQLLINEMLGS 951 (1029)
Q Consensus 907 ~Il~~L~g~lv~Ls----~~K~GSrVVEkcL~~as~k~Rk~IIkeLlg~ 951 (1029)
.|-+.|...+..+. ...-|.+.+-.+|+..+....+.|+..|-..
T Consensus 181 ~i~~~L~~~l~~~~~~~~~~~~g~~~~a~Iln~~~~~~~~~il~~L~~~ 229 (339)
T PRK05686 181 EVEEVLEKKLSSMANADRTKMGGVKTVAEILNNLDRQTEKTILESLEEE 229 (339)
T ss_pred HHHHHHHHHHhhcccccccccCcHHHHHHHHhcCCchHHHHHHHHHHhh
Confidence 44455555555432 3456888899999999888888999888743
No 23
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=85.61 E-value=80 Score=36.91 Aligned_cols=52 Identities=21% Similarity=0.244 Sum_probs=33.8
Q ss_pred hHHHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCCC--------------chHHHHHHHHHHHhCc
Q 001686 967 GNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTY--------------GKHIVSRIEKLIATGE 1018 (1029)
Q Consensus 967 GnyVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~y--------------Gk~Il~~VEkl~~~ge 1018 (1029)
.+.++..+|..+++..|++|++.+.+...++..... -+.|+..+.++...|+
T Consensus 263 ~~~~La~aLkg~~~~lrekilsnmskR~~e~i~~el~~~gpi~~~dve~aq~~il~~~r~l~~~G~ 328 (339)
T COG1536 263 DKEDLAIALKGASEELREKILSNMSKRAAEMLKEELEFLGPVRLSDVETAQKAILNIVRRLAESGE 328 (339)
T ss_pred CHHHHHHHHcCCCHHHHHHHHHhccHHHHHHHHHHhhccCCccHHHHHHHHHHHHHHHHHHHHCCC
Confidence 667777777777788888887777666655544322 2356666666666664
No 24
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=84.36 E-value=57 Score=37.16 Aligned_cols=48 Identities=21% Similarity=0.216 Sum_probs=22.1
Q ss_pred cchHHHHHHHHHHHHHhhccC--chHHHHHHHHHhhCCHHHHHHHHHHHh
Q 001686 902 PHERTTVITQLAGQIVRMSQQ--KFASNVVEKCLTFGSPEERQLLINEML 949 (1029)
Q Consensus 902 ~k~r~~Il~~L~g~lv~Ls~~--K~GSrVVEkcL~~as~k~Rk~IIkeLl 949 (1029)
+..++.|.+.+...+..+... -.-..+|+.-+..-+.++-..++...+
T Consensus 289 ~~l~~~i~~~i~~~l~~~v~~~~~~i~~~V~~~l~~~~~~~l~~~i~~~v 338 (367)
T PF04286_consen 289 PELREKINRFIENLLERIVESNHIDIGEIVEEKLNSLDDEELEELIESKV 338 (367)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 444555555555555555443 222333333333334555555555544
No 25
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=81.83 E-value=4.3 Score=41.71 Aligned_cols=59 Identities=20% Similarity=0.325 Sum_probs=34.5
Q ss_pred hHHHhhcCCchHHHHHHHHhcCChhH---HHHHHHHHHHH--------HHHHhhCCCchHHHHHHHHHHHhCc
Q 001686 957 PLQAMMKDPFGNYVVQKVLETCDDQS---LELILSRIRVH--------LNVLKKYTYGKHIVSRIEKLIATGE 1018 (1029)
Q Consensus 957 ~L~~La~D~~GnyVVQklLdt~ddt~---Rk~ILseLk~h--------L~eLa~~~yGk~Il~~VEkl~~~ge 1018 (1029)
+...|+.+.+|..||..+|.+++... .+.|++.+... -..+..+++|++++ .++++.+.
T Consensus 65 ~~~~ll~~~~g~~~i~eiL~~~~gdk~~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~l---K~Liq~~~ 134 (148)
T PF08144_consen 65 NAEELLSSSFGCQFITEILLSATGDKSAALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRML---KKLIQGDK 134 (148)
T ss_pred hHHHHHhcCcccHHHHHHHhccCccHHHHHHHHHHHHhhccCCCCCcCccchhcCchHHHHH---HHHHHCCC
Confidence 45567777777777777777764332 23444444332 13456778888885 45555443
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=80.57 E-value=3.5 Score=42.29 Aligned_cols=72 Identities=10% Similarity=0.257 Sum_probs=40.9
Q ss_pred HHHHHHHHHHhhccCchHHHHHHHHHhhCCHHH---HHHHHHHHhcC--CCCChhHHHhhcCCchHHHHHHHHhcCC
Q 001686 908 VITQLAGQIVRMSQQKFASNVVEKCLTFGSPEE---RQLLINEMLGS--TDENEPLQAMMKDPFGNYVVQKVLETCD 979 (1029)
Q Consensus 908 Il~~L~g~lv~Ls~~K~GSrVVEkcL~~as~k~---Rk~IIkeLlg~--~d~~e~L~~La~D~~GnyVVQklLdt~d 979 (1029)
|++.+..+...|..+++|+.+|-.+|..+..+. ...|++.+... ..+.+.-..++.+++|+.++.+++..-.
T Consensus 58 Ll~~i~~~~~~ll~~~~g~~~i~eiL~~~~gdk~~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~lK~Liq~~~ 134 (148)
T PF08144_consen 58 LLEAIAENAEELLSSSFGCQFITEILLSATGDKSAALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRMLKKLIQGDK 134 (148)
T ss_pred HHHHHHHhHHHHHhcCcccHHHHHHHhccCccHHHHHHHHHHHHhhccCCCCCcCccchhcCchHHHHHHHHHHCCC
Confidence 344445555666667777777777776653211 12333333322 0111112367899999999999997653
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=79.37 E-value=1.2e+02 Score=35.47 Aligned_cols=172 Identities=12% Similarity=0.120 Sum_probs=82.2
Q ss_pred hhhccCHHHHHHHHHHHhhhHHHhhhcccc-chhHhHHhhh-cChHHHHHHHHhhchhHHHHhhcccCChHHHHHHhhCC
Q 001686 751 FFEHGTESQRAQLASQLTGHVLRLSLQMYG-CRVIQKALEV-VHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIP 828 (1029)
Q Consensus 751 LLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yG-SrVVQkLLE~-~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~ 828 (1029)
-+...++++...++++|...+..-..-..| -..++++|+. +.++.-..+++++.+.. ....+++. |+..+
T Consensus 48 ~l~~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il~~i~~~~-------~~~~~~~~-L~~~~ 119 (338)
T TIGR00207 48 NVTQIDNQQKDDVLEEFEQIAEAQAYINIGGLDYAREVLEKALGEEKAASILNDLTSSL-------QTAPGFEF-LRKAE 119 (338)
T ss_pred hcCCCCHHHHHHHHHHHHHHHHhcCCccCChHHHHHHHHHHhcCHHHHHHHHHHHhccc-------ccCchhHH-HHCCC
Confidence 456677888888888877777655433333 4455666654 44445566666654421 11112222 22223
Q ss_pred hhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcC--CcchHH
Q 001686 829 QDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHG--KPHERT 906 (1029)
Q Consensus 829 ~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~--~~k~r~ 906 (1029)
++.+..++..=..+.+.+..-.-+...--++|.+..+ ..+. -|+..+.... ++....
T Consensus 120 ~~~la~~l~~EhPQ~iAliLs~L~p~~AA~VL~~Lp~-~~~~--------------------ei~~ria~l~~vs~~~i~ 178 (338)
T TIGR00207 120 PQQIADFIQQEHPQTIALILSHLDPAQAADILSLFPE-EVQA--------------------EVARRIATMGRTSPEVVA 178 (338)
T ss_pred HHHHHHHHHccCHHHHHHHHHcCCHHHHHHHHHhCCH-HHHH--------------------HHHHHHHhcCCCCHHHHH
Confidence 3333333322111211111111111122222222211 1111 1233333322 244444
Q ss_pred HHHHHHHHHHHhhc---cCchHHHHHHHHHhhCCHHHHHHHHHHHhcC
Q 001686 907 TVITQLAGQIVRMS---QQKFASNVVEKCLTFGSPEERQLLINEMLGS 951 (1029)
Q Consensus 907 ~Il~~L~g~lv~Ls---~~K~GSrVVEkcL~~as~k~Rk~IIkeLlg~ 951 (1029)
.|-+.|...+..+. ...-|...+-.+|+..+....+.|++.|-..
T Consensus 179 ~ie~~L~~~~~~~~~~~~~~gG~~~~a~ILN~~~~~~~~~il~~L~~~ 226 (338)
T TIGR00207 179 EVERVLEGKLDSLNSDYTKMGGVRAVAEIINLMDRKTEKTIITSLEEF 226 (338)
T ss_pred HHHHHHHHHHHhhccccccCChHHHHHHHHHhCCchHHHHHHHHHHHh
Confidence 44344444444443 2335888899999998888888898888643
No 28
>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=75.39 E-value=45 Score=39.13 Aligned_cols=110 Identities=18% Similarity=0.144 Sum_probs=56.4
Q ss_pred cHHHHHHHhcCCcchHHHHHHHHHHHHHhhccCchHHHHHHHHHhhCCHHHHHHHHHHHhcCCCCChhHHHhhcC-CchH
Q 001686 890 NYVIQHVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKD-PFGN 968 (1029)
Q Consensus 890 NyVVQ~LLe~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D-~~Gn 968 (1029)
..++..++...+ ..|.+++..+.+-...+..++.-++.+..+++...... .+++.+. +.|.+|+.+ ..+-
T Consensus 178 ~~l~~~l~~~~k-~ir~~a~~l~~~~~~~l~~~~~~s~~~~~~~~~~~~~~--~~~~~~~------~~L~~mi~~~~~~~ 248 (372)
T PF12231_consen 178 PILFPDLLSSAK-DIRTKAISLLLEAKKCLGPNKELSKSVLEDLQRSLENG--KLIQLYC------ERLKEMIKSKDEYK 248 (372)
T ss_pred HHHHHHHhhcch-HHHHHHHHHHHHHHHHhChhHHHHHHHHHHhccccccc--cHHHHHH------HHHHHHHhCcCCcc
Confidence 355666665433 44555555555555556667777777777777553333 4555554 445666666 3333
Q ss_pred HHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCCCchHHHHHHHHHHHhCcc
Q 001686 969 YVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIATGER 1019 (1029)
Q Consensus 969 yVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~yGk~Il~~VEkl~~~ge~ 1019 (1029)
+|.+ +|. .++--|.... +....+.+..+...|+|+..++.
T Consensus 249 ~a~~-iW~--------~~i~LL~~~~--~~~w~~~n~wL~v~e~cFn~~d~ 288 (372)
T PF12231_consen 249 LAMQ-IWS--------VVILLLGSSR--LDSWEHLNEWLKVPEKCFNSSDP 288 (372)
T ss_pred hHHH-HHH--------HHHHHhCCch--hhccHhHhHHHHHHHHHhcCCCH
Confidence 3332 221 1111121111 44455555666666666666553
No 29
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=72.33 E-value=2.8e+02 Score=36.08 Aligned_cols=46 Identities=24% Similarity=0.344 Sum_probs=30.4
Q ss_pred ehhhhhhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhcChHHH
Q 001686 747 VIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQ 796 (1029)
Q Consensus 747 VVQKLLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s~eq~ 796 (1029)
+++.++. .+.+.|+.....+...+..+..+. +...|.++.+..+..
T Consensus 532 ~~~~~~~-~~~~~rr~~~~~lq~k~~~l~~n~---~LfeKgl~lF~dd~~ 577 (803)
T PLN03083 532 RRKALFT-ENAERRRRLLDNLQKKIDESFLNM---QLYEKALDLFEDDQS 577 (803)
T ss_pred HHHHHHh-cchHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhCCcccc
Confidence 3666676 567777777777777777776655 466666666665544
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=70.53 E-value=2.2e+02 Score=33.44 Aligned_cols=78 Identities=12% Similarity=0.180 Sum_probs=39.7
Q ss_pred cCccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcC-CCccHHHHH------HHhcCCc-chHHHHHHHHHHHHHhh
Q 001686 848 THPYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQD-QYGNYVIQH------VLEHGKP-HERTTVITQLAGQIVRM 919 (1029)
Q Consensus 848 ~hk~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~D-qyGNyVVQ~------LLe~~~~-k~r~~Il~~L~g~lv~L 919 (1029)
.++.-+..+..+++....+. .+.+++.+.+..|+.+ .-+-+|.|- +| +.. ...-..++..
T Consensus 208 ~~~~~s~~~~~~~~~~~~~~---~~~~~~~~~L~~mi~~~~~~~~a~~iW~~~i~LL--~~~~~~~w~~~n~w------- 275 (372)
T PF12231_consen 208 PNKELSKSVLEDLQRSLENG---KLIQLYCERLKEMIKSKDEYKLAMQIWSVVILLL--GSSRLDSWEHLNEW------- 275 (372)
T ss_pred hhHHHHHHHHHHhccccccc---cHHHHHHHHHHHHHhCcCCcchHHHHHHHHHHHh--CCchhhccHhHhHH-------
Confidence 34444445555554432221 4666777777777766 444444442 22 111 1111111111
Q ss_pred ccCchHHHHHHHHHhhCCHHHHHH
Q 001686 920 SQQKFASNVVEKCLTFGSPEERQL 943 (1029)
Q Consensus 920 s~~K~GSrVVEkcL~~as~k~Rk~ 943 (1029)
=.|+|+|++..++..|..
T Consensus 276 ------L~v~e~cFn~~d~~~k~~ 293 (372)
T PF12231_consen 276 ------LKVPEKCFNSSDPQVKIQ 293 (372)
T ss_pred ------HHHHHHHhcCCCHHHHHH
Confidence 267899999988877654
No 31
>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=69.45 E-value=60 Score=40.27 Aligned_cols=230 Identities=12% Similarity=0.130 Sum_probs=95.2
Q ss_pred cccccccHhhhHHHHHHHhhC--CCcCHHHHH---HhhcCCHHHHHHHHHHHhHhHHHhhcCcccceehhhhh-hccCHH
Q 001686 685 NKTRSFELSDIVDHVVEFSTD--QYGSRFIQQ---KLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFF-EHGTES 758 (1029)
Q Consensus 685 ~eek~l~L~eI~GkiveLA~D--q~GSRvLQk---lLe~~S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLL-e~~s~e 758 (1029)
+++..+.+.-|++ +..+|+| .+-+|+... +|......++..|=..|...+..=.+...+...-|-.- ..+++.
T Consensus 70 Ded~~iR~~aik~-lp~~ck~~~~~v~kvaDvL~QlL~tdd~~E~~~v~~sL~~ll~~d~k~tL~~lf~~i~~~~~~de~ 148 (556)
T PF05918_consen 70 DEDVQIRKQAIKG-LPQLCKDNPEHVSKVADVLVQLLQTDDPVELDAVKNSLMSLLKQDPKGTLTGLFSQIESSKSGDEQ 148 (556)
T ss_dssp -SSHHHHHHHHHH-GGGG--T--T-HHHHHHHHHHHTT---HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH---HS-HH
T ss_pred cccHHHHHHHHHh-HHHHHHhHHHHHhHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcccCchH
Confidence 3433333344443 6778887 466777655 55555555665555555443321111111111111110 134455
Q ss_pred HHHHHHHHHhhhHHHhhhcc---------ccchhHhHHhhhcChHHHHHHHHhhch--------------hHHHHhhccc
Q 001686 759 QRAQLASQLTGHVLRLSLQM---------YGCRVIQKALEVVHVDQQTQMVAELDG--------------SVMKCVHDQN 815 (1029)
Q Consensus 759 qr~~Li~~Lkg~~~~Ls~d~---------yGSrVVQkLLE~~s~eq~~~Lv~EL~~--------------~i~~Lv~Dqn 815 (1029)
.|..+++.|..++..|.... +=..+|.++|+-++.++...++.-|.. .+..++.++-
T Consensus 149 ~Re~~lkFl~~kl~~l~~~~~~p~~E~e~~i~~~ikkvL~DVTaeEF~l~m~lL~~lk~~~~~~t~~g~qeLv~ii~eQa 228 (556)
T PF05918_consen 149 VRERALKFLREKLKPLKPELLTPQKEMEEFIVDEIKKVLQDVTAEEFELFMSLLKSLKIYGGKQTIEGRQELVDIIEEQA 228 (556)
T ss_dssp HHHHHHHHHHHHGGGS-TTTS---HHHHHHHHHHHHHHCTT--HHHHHHHHHHHHTSGG---GSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhCcHHHhhchHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhCccccccCChHHHHHHHHHHHHHh
Confidence 67777777777666554332 223445566665666666555442211 0111111100
Q ss_pred CChHHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhh----cCC--HHHHHHHHHHHHHHHHHHhcCCC-
Q 001686 816 GNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEH----CDD--ANTQQIIMDEIMQHVCNLAQDQY- 888 (1029)
Q Consensus 816 GNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~----~~d--~~~r~~IldELl~~L~~LA~Dqy- 888 (1029)
-+...+....++.+..++.++...+.-.+....++.++..+.++ ..+ ++.+- +++..+.+++...-
T Consensus 229 ---~Ld~~f~~sD~e~Idrli~C~~~Alp~fs~~v~Sskfv~y~~~kvlP~l~~l~e~~kl----~lLk~lAE~s~~~~~ 301 (556)
T PF05918_consen 229 ---DLDQPFDPSDPESIDRLISCLRQALPFFSRGVSSSKFVNYMCEKVLPKLSDLPEDRKL----DLLKLLAELSPFCGA 301 (556)
T ss_dssp ---TTTS---SSSHHHHHHHHHHHHHHGGG-BTTB--HHHHHHHHHHTCCCTT-----HHH----HHHHHHHHHHTT---
T ss_pred ---ccCCCCCCcCHHHHHHHHHHHHHhhHHhcCCCChHHHHHHHHHHhcCChhhCChHHHH----HHHHHHHHHcCCCCc
Confidence 00111333456777777777766655556555566555544443 221 11122 33333334433221
Q ss_pred ------ccHHHHHHHhcCC-----cchHHHHHHHHHHHHHhhccC
Q 001686 889 ------GNYVIQHVLEHGK-----PHERTTVITQLAGQIVRMSQQ 922 (1029)
Q Consensus 889 ------GNyVVQ~LLe~~~-----~k~r~~Il~~L~g~lv~Ls~~ 922 (1029)
=..|++.++++-+ ++..-..+++|.-.+-.|+..
T Consensus 302 ~d~~~~L~~i~~~L~~ymP~~~~~~~l~fs~vEcLL~afh~La~k 346 (556)
T PF05918_consen 302 QDARQLLPSIFQLLKKYMPSKKTEPKLQFSYVECLLYAFHQLARK 346 (556)
T ss_dssp -THHHHHHHHHHHHHTTS----------HHHHHHHHHHHHHHHTT
T ss_pred ccHHHHHHHHHHHHHHhCCCCCCCCcccchHhhHHHHHHHHHhhh
Confidence 1245566655432 334445677777666666643
No 32
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=67.15 E-value=3.7e+02 Score=34.60 Aligned_cols=25 Identities=20% Similarity=0.368 Sum_probs=21.3
Q ss_pred HHhHhHHHhhcCcccceehhhhhhc
Q 001686 730 EIIPHARTLMTDVFGNYVIQKFFEH 754 (1029)
Q Consensus 730 EL~~~~leLmtD~fGShVVQKLLe~ 754 (1029)
.+.|-+.+||++.--|.++-|+|+.
T Consensus 218 ~LAP~ffkllttSsNNWmLIKiiKL 242 (877)
T KOG1059|consen 218 QLAPLFYKLLVTSSNNWVLIKLLKL 242 (877)
T ss_pred cccHHHHHHHhccCCCeehHHHHHH
Confidence 3557789999999999999999875
No 33
>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=61.59 E-value=2.7e+02 Score=38.31 Aligned_cols=263 Identities=15% Similarity=0.121 Sum_probs=130.4
Q ss_pred hhhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhcChHHH--HHHHHhhc--hhHHHH--hhcccCChHHHHHH
Q 001686 751 FFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQ--TQMVAELD--GSVMKC--VHDQNGNHVIQKCI 824 (1029)
Q Consensus 751 LLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s~eq~--~~Lv~EL~--~~i~~L--v~DqnGNhVIQk~L 824 (1029)
++...++|++...++.+...+......+...++++.+..++..... ..+++++. ..+... ...+..=.+|++||
T Consensus 53 ~~~~~~~Ee~~~~ik~~l~~i~~~~~~~~~~~l~d~L~~~v~~~~i~ar~vCe~lL~~~~l~~~~~~~W~~~F~lIrkiI 132 (1341)
T PF11573_consen 53 MMSSMSEEEKESCIKQYLKYIHSQSHPRRYEFLFDLLETAVNNGIIPARLVCEELLSSEKLFYLNSRFWQEKFKLIRKII 132 (1341)
T ss_pred HHhcCCHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHhCCCChHHHHHHHhcccchhhhhhHHHHHHHHHHHHHh
Confidence 3445567777877877777777777666666777666655543211 22233321 111111 11222334788888
Q ss_pred hhCChhHHHHHHHhhhhhhhhhcc----C-----ccchhhHHHHhhhcCC--HH--------------------HHHHHH
Q 001686 825 ECIPQDRIQFIISSFYGQVVALST----H-----PYGCRVIQRVLEHCDD--AN--------------------TQQIIM 873 (1029)
Q Consensus 825 e~~~~e~~q~Iie~f~g~lvsLs~----h-----k~GS~VIQklLe~~~d--~~--------------------~r~~Il 873 (1029)
...+-+-++.|++....++..+=. + ...+.||+.+++.-.. |. .....+
T Consensus 133 ~~VDYKGvR~Ilk~~~eK~~~iP~~~~~~~~~~l~~~~~vi~~ilDR~~~LlP~y~~~nEi~r~~~~~~~~~~w~L~~~~ 212 (1341)
T PF11573_consen 133 HGVDYKGVREILKICLEKMQQIPSSLSPEQLPQLLAVEEVIEHILDRNACLLPAYFAVNEIRRGYPKQAAMPPWRLAEKL 212 (1341)
T ss_pred cccCcHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHHHHHhCcccccchHHHHHHHHHhhCccccccCcHHHHHHH
Confidence 888877777776665544322211 1 1345667777763210 10 111222
Q ss_pred HHHHHHHHHHh------cCCCccHHHHH-----------HHhc--------CC--cchHHHHHHHHHHHHHhhccCchHH
Q 001686 874 DEIMQHVCNLA------QDQYGNYVIQH-----------VLEH--------GK--PHERTTVITQLAGQIVRMSQQKFAS 926 (1029)
Q Consensus 874 dELl~~L~~LA------~DqyGNyVVQ~-----------LLe~--------~~--~k~r~~Il~~L~g~lv~Ls~~K~GS 926 (1029)
.++.+++..+| -.++=-.|+.+ -|+. +. --.+.++++.-..-+..+..+++|-
T Consensus 213 s~~~~~Fr~~A~mvs~~gr~~l~Piv~h~~~~~~~~~~wkl~~~~~~~~~k~~~~LPY~~el~~~q~~lL~~vL~Qp~sr 292 (1341)
T PF11573_consen 213 SNFIDSFRPLAQMVSIIGRPSLLPIVGHSSYAPQLSNWWKLDPNTLKFSLKGHHTLPYRPELLEPQTRLLYYVLRQPYSR 292 (1341)
T ss_pred HHHHHhhhhHHHHHhhhcccceecccCCCCccccCCchhhcCccceeeeccccCCCCCChHHcchHHHHHHHHHcCcchH
Confidence 33333332222 11111112211 0110 11 1123455555566677778899999
Q ss_pred HHHHHHHhhCCHHHHHHHHHHHhc---------C--CCCChhHHHhhcCCchHHHHHHHHhcCChhHHHHHHHHHHHHHH
Q 001686 927 NVVEKCLTFGSPEERQLLINEMLG---------S--TDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLN 995 (1029)
Q Consensus 927 rVVEkcL~~as~k~Rk~IIkeLlg---------~--~d~~e~L~~La~D~~GnyVVQklLdt~ddt~Rk~ILseLk~hL~ 995 (1029)
..|..++.....+.|+...++++. . .++++......-+-+.+.||.-++..+- ....+++.|+..+.
T Consensus 293 d~v~~~l~~~~~k~~~~~~ee~l~~li~~aM~~~e~~~~~~~~~~~~W~hls~~viy~~l~~~i--~F~~~v~~L~~kL~ 370 (1341)
T PF11573_consen 293 DMVCSMLGLQQQKQRCPALEELLVDLIIEAMEESESEDENEPINRWQWLHLSSQVIYFMLFQFI--SFPDFVKKLHEKLT 370 (1341)
T ss_pred HHHHHHhcccccCccchHHHHHHHHHHHHHHHHHhcCCCCCCccchHHHHHHHHHHHHHHHhcC--CHHHHHHHHHHHHh
Confidence 999999887755555555544432 1 1112233333333334444444444331 13556777766666
Q ss_pred HHhhCCCchHHHHHHHHHHHh
Q 001686 996 VLKKYTYGKHIVSRIEKLIAT 1016 (1029)
Q Consensus 996 eLa~~~yGk~Il~~VEkl~~~ 1016 (1029)
. ..+..|+.=+.++-.-+..
T Consensus 371 ~-~~~~r~Rd~vMWvllQ~is 390 (1341)
T PF11573_consen 371 G-RNYRRGRDHVMWVLLQFIS 390 (1341)
T ss_pred c-CceeeccchhHHHHHHHHh
Confidence 5 4566677555555443333
No 34
>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=61.23 E-value=1e+02 Score=35.05 Aligned_cols=8 Identities=13% Similarity=-0.122 Sum_probs=2.9
Q ss_pred CCcchHHH
Q 001686 900 GKPHERTT 907 (1029)
Q Consensus 900 ~~~k~r~~ 907 (1029)
-+.++...
T Consensus 325 ~~~~~l~~ 332 (367)
T PF04286_consen 325 LDDEELEE 332 (367)
T ss_pred CCHHHHHH
Confidence 33333333
No 35
>PF09770 PAT1: Topoisomerase II-associated protein PAT1; InterPro: IPR019167 Proteins in this entry are necessary for accurate chromosome transmission during cell division []. ; PDB: 2XER_C 2XES_B 2XEQ_D.
Probab=60.69 E-value=8.9 Score=49.36 Aligned_cols=94 Identities=14% Similarity=0.240 Sum_probs=59.5
Q ss_pred HHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHhHhH-----------------HHhh----cCcccceehhhhhhccC
Q 001686 698 HVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHA-----------------RTLM----TDVFGNYVIQKFFEHGT 756 (1029)
Q Consensus 698 kiveLA~Dq~GSRvLQklLe~~S~Eqr~~IfeEL~~~~-----------------leLm----tD~fGShVVQKLLe~~s 756 (1029)
.++.|..=.-|=++|-++|..-+.+++..|+..|..++ ..+. .|-|-..|+..|+.+..
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 45566666677888889999999999999999988888 2332 24455555555555544
Q ss_pred HHHHHHHHHHH-----hhhHHHhhhccccchhHhHHhhhc
Q 001686 757 ESQRAQLASQL-----TGHVLRLSLQMYGCRVIQKALEVV 791 (1029)
Q Consensus 757 ~eqr~~Li~~L-----kg~~~~Ls~d~yGSrVVQkLLE~~ 791 (1029)
......|+..+ ..++..+++.++|.-+|-.+|..+
T Consensus 656 ~~~~~~i~gll~~~~~~~~~~~i~~tk~Gls~lt~llsRa 695 (808)
T PF09770_consen 656 EAPFNEIIGLLGLLINNNNVSFIAQTKFGLSLLTMLLSRA 695 (808)
T ss_dssp HHHHHHHTTSTTT-S--HHHHHHHTSHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHHHhCCCceEEEEChHHHHHHHHHHHHH
Confidence 44333333221 256677788888888888887553
No 36
>PTZ00429 beta-adaptin; Provisional
Probab=56.65 E-value=5.6e+02 Score=33.27 Aligned_cols=33 Identities=9% Similarity=0.150 Sum_probs=19.3
Q ss_pred HHHhhCCCcCHHHHHHhh---cCCHHHHHHHHHHHh
Q 001686 700 VEFSTDQYGSRFIQQKLE---AATAEEKTRIFPEII 732 (1029)
Q Consensus 700 veLA~Dq~GSRvLQklLe---~~S~Eqr~~IfeEL~ 732 (1029)
..++...+.|.+.-.+++ ..+.+.|+.++--+.
T Consensus 58 a~mt~G~DvS~LF~dVvk~~~S~d~elKKLvYLYL~ 93 (746)
T PTZ00429 58 ANMTMGRDVSYLFVDVVKLAPSTDLELKKLVYLYVL 93 (746)
T ss_pred HHHHCCCCchHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence 344466677776554444 456677777765543
No 37
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=54.67 E-value=4e+02 Score=30.99 Aligned_cols=63 Identities=17% Similarity=0.173 Sum_probs=34.3
Q ss_pred hhcCCchHHHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCC---Cc-----------hHHHHHHHHHHHhCcccccc
Q 001686 961 MMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYT---YG-----------KHIVSRIEKLIATGERRIGL 1023 (1029)
Q Consensus 961 La~D~~GnyVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~---yG-----------k~Il~~VEkl~~~ge~r~~~ 1023 (1029)
+.....-.-++-.+|..+++..|+.|++.+.....++.... -| +.|+..+.++...|+-.+.+
T Consensus 251 ~iL~~v~~~~la~aLkg~~~e~r~~il~nmS~Raa~~l~eele~~gpV~~sdvE~Aq~~Iv~~~r~L~~~G~I~l~~ 327 (334)
T PRK07194 251 RLMDEVPMELWAVALKGTEPALRQAILRVMPKRQAQALEAQIERLGPVPLSRVEQARKEIMALVRELAEAGEIELQL 327 (334)
T ss_pred HHHHhCCHHHHHHHHccCCHHHHHHHHHHccHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCEEEee
Confidence 33333344555566666666666666666554444432211 12 36777777777777654443
No 38
>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=52.54 E-value=2.1e+02 Score=32.49 Aligned_cols=77 Identities=17% Similarity=0.331 Sum_probs=32.0
Q ss_pred hhhHHHHh-hhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCc---chHHHHHHHHHHHHHhhccCchHHHH
Q 001686 853 CRVIQRVL-EHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKP---HERTTVITQLAGQIVRMSQQKFASNV 928 (1029)
Q Consensus 853 S~VIQklL-e~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~~---k~r~~Il~~L~g~lv~Ls~~K~GSrV 928 (1029)
+.+|-+++ +.|-+++.+..++..+++ +.-+..--.|+|.+|+...+ +....+++.|.++-..++.+.--+++
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 CELLCRLVKKECLEPDHRLLLLRQILE----LVWNEETFLVLQSLLERKVELSQELFSLLVELLCEQAPQFSKSLKFAKL 220 (263)
T ss_dssp HHHHHHHHH-TTS-HHHHHHHHHHHHH----S---HHHHHHHHHHHTT-----HHHHHHHHHHHH--------SHHHHHH
T ss_pred HHHHHHHHHhccCCHHHHHHHHHHHHh----CcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhHhhhcchHHHHH
Confidence 44666777 566667766666555442 22223334688888886542 22333444454444444433333333
Q ss_pred HHHHH
Q 001686 929 VEKCL 933 (1029)
Q Consensus 929 VEkcL 933 (1029)
+-.++
T Consensus 221 lLtvl 225 (263)
T PF11510_consen 221 LLTVL 225 (263)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 33333
No 39
>COG2733 Predicted membrane protein [Function unknown]
Probab=50.21 E-value=5.2e+02 Score=30.99 Aligned_cols=32 Identities=19% Similarity=0.162 Sum_probs=16.7
Q ss_pred ChhHHHHHHHHHHHHHHHHhhC---CCchHHHHHH
Q 001686 979 DDQSLELILSRIRVHLNVLKKY---TYGKHIVSRI 1010 (1029)
Q Consensus 979 ddt~Rk~ILseLk~hL~eLa~~---~yGk~Il~~V 1010 (1029)
|+..|.++-+.+..-...|+.. .-|++|.+-+
T Consensus 335 D~~lr~kln~~~~~aa~~l~e~~~~~it~~I~dTv 369 (415)
T COG2733 335 DDALRAKLNEHLVQAAERLAEEKHAEITKHISDTV 369 (415)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 5555666666555555554432 3355655444
No 40
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=49.25 E-value=5.6e+02 Score=32.29 Aligned_cols=131 Identities=11% Similarity=0.123 Sum_probs=82.1
Q ss_pred hhHHHHhhccc---CChHHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcCC-HHHHHHHHHHHHHHH
Q 001686 805 GSVMKCVHDQN---GNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCDD-ANTQQIIMDEIMQHV 880 (1029)
Q Consensus 805 ~~i~~Lv~Dqn---GNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~d-~~~r~~IldELl~~L 880 (1029)
.++..|+.|.| +.|-|-.+|+.+..+.+..++..+...+-+++ +.|---+|+.+-..|-. |.++..+++-+...+
T Consensus 343 ~evEsLIsd~Nr~IstyAITtLLKTGt~e~idrLv~~I~sfvhD~S-D~FKiI~ida~rsLsl~Fp~k~~s~l~FL~~~L 421 (898)
T COG5240 343 KEVESLISDENRTISTYAITTLLKTGTEETIDRLVNLIPSFVHDMS-DGFKIIAIDALRSLSLLFPSKKLSYLDFLGSSL 421 (898)
T ss_pred hhHHHHhhcccccchHHHHHHHHHcCchhhHHHHHHHHHHHHHhhc-cCceEEeHHHHHHHHhhCcHHHHHHHHHHHHHH
Confidence 35556776655 56889999999999998888776655444444 33434455544333322 445556666655555
Q ss_pred HHHhcCCCccHHHHHHHhcC--CcchHHHHHHHHHHHHHhhccCchHHHHHHHHHhhC
Q 001686 881 CNLAQDQYGNYVIQHVLEHG--KPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFG 936 (1029)
Q Consensus 881 ~~LA~DqyGNyVVQ~LLe~~--~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~a 936 (1029)
+.=--=.|-+|.|..+...- .|+.++.+++.|...+..--.++...+++--+=+-+
T Consensus 422 ~~eGg~eFK~~~Vdaisd~~~~~p~skEraLe~LC~fIEDcey~~I~vrIL~iLG~Eg 479 (898)
T COG5240 422 LQEGGLEFKKYMVDAISDAMENDPDSKERALEVLCTFIEDCEYHQITVRILGILGREG 479 (898)
T ss_pred HhcccchHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHhhcchhHHHHHHHHHhcccC
Confidence 44222245677777776543 467788888888777766666677777666555543
No 41
>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=48.77 E-value=26 Score=45.17 Aligned_cols=41 Identities=15% Similarity=0.250 Sum_probs=33.0
Q ss_pred hHHHhhcCcccceehhhhhhccCHHHHHHHHHHHhhhHHHh
Q 001686 734 HARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRL 774 (1029)
Q Consensus 734 ~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~Lkg~~~~L 774 (1029)
.|+.+++-+=|..+|-++|.+.+.+++..|+..|..++..|
T Consensus 576 ~fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l 616 (808)
T PF09770_consen 576 PFISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQL 616 (808)
T ss_dssp HHHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH---
T ss_pred cceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhh
Confidence 47788888899999999999999999999999988887544
No 42
>PLN03218 maturation of RBCL 1; Provisional
Probab=47.80 E-value=6.8e+02 Score=33.90 Aligned_cols=23 Identities=9% Similarity=0.150 Sum_probs=10.5
Q ss_pred HHHHHHHhhCCHHHHHHHHHHHh
Q 001686 927 NVVEKCLTFGSPEERQLLINEML 949 (1029)
Q Consensus 927 rVVEkcL~~as~k~Rk~IIkeLl 949 (1029)
-++..|.+.+..++-..++++|.
T Consensus 689 sLI~ay~k~G~~eeA~~lf~eM~ 711 (1060)
T PLN03218 689 SLMGACSNAKNWKKALELYEDIK 711 (1060)
T ss_pred HHHHHHHhCCCHHHHHHHHHHHH
Confidence 33444444444444444555543
No 43
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=45.76 E-value=97 Score=34.17 Aligned_cols=77 Identities=17% Similarity=0.094 Sum_probs=52.0
Q ss_pred HHHHHHHHhhccCchHHHHHHHH------HhhCCHHHHHHHHHHHhcCCCCChhHHHhhcCCchHHHHHHHHhcCChhHH
Q 001686 910 TQLAGQIVRMSQQKFASNVVEKC------LTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSL 983 (1029)
Q Consensus 910 ~~L~g~lv~Ls~~K~GSrVVEkc------L~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~GnyVVQklLdt~ddt~R 983 (1029)
...-.-+-.|+.++.|-.++|++ ......+.+..+++-++..- ....|.....|+.++|....+..|
T Consensus 141 ~~Yf~~IG~lS~~~~Gl~lLe~~~if~~l~~i~~~~~~~~l~klil~~L-------DY~~~~~~R~iLsKaLt~~s~~iR 213 (226)
T PF14666_consen 141 RGYFLFIGVLSSTPNGLKLLERWNIFTMLYHIFSLSSRDDLLKLILSSL-------DYSVDGHPRIILSKALTSGSESIR 213 (226)
T ss_pred HHHHHHHHHHhCChhHHHHHHHCCHHHHHHHHHccCchHHHHHHHHhhC-------CCCCccHHHHHHHHHHhcCCHHHH
Confidence 33344566789999999988872 22223334555666565432 455677889999999999999888
Q ss_pred HHHHHHHHHH
Q 001686 984 ELILSRIRVH 993 (1029)
Q Consensus 984 k~ILseLk~h 993 (1029)
....+.|..-
T Consensus 214 l~aT~~L~~l 223 (226)
T PF14666_consen 214 LYATKHLRVL 223 (226)
T ss_pred HHHHHHHHHH
Confidence 7766666543
No 44
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=44.66 E-value=7.8e+02 Score=33.18 Aligned_cols=84 Identities=13% Similarity=0.140 Sum_probs=40.3
Q ss_pred cCHHHHHHhhcCCHHHHHHHH---HHHhHhHHHhhcCcccceehhhhhhcc-----CHHHHHHHHHHHh------hhHHH
Q 001686 708 GSRFIQQKLEAATAEEKTRIF---PEIIPHARTLMTDVFGNYVIQKFFEHG-----TESQRAQLASQLT------GHVLR 773 (1029)
Q Consensus 708 GSRvLQklLe~~S~Eqr~~If---eEL~~~~leLmtD~fGShVVQKLLe~~-----s~eqr~~Li~~Lk------g~~~~ 773 (1029)
.-.+++..++.++....+.+| .|+......+.++.+.. |||-.++.+ .+..|...++.|. ....+
T Consensus 207 ~l~vl~~~i~~~d~~~a~~~l~~l~El~e~~pk~l~~~l~~-ii~~~l~Ia~n~~l~~~~R~~ALe~ivs~~e~Ap~~~k 285 (1075)
T KOG2171|consen 207 LLNVLQEVIQDGDDDAAKSALEALIELLESEPKLLRPHLSQ-IIQFSLEIAKNKELENSIRHLALEFLVSLSEYAPAMCK 285 (1075)
T ss_pred HHHHhHhhhhccchHHHHHHHHHHHHHHhhchHHHHHHHHH-HHHHHHHHhhcccccHHHHHHHHHHHHHHHHhhHHHhh
Confidence 345678888888775444444 44444444444333332 344444433 2334443333322 11222
Q ss_pred hhhccccchhHhHHhhhcCh
Q 001686 774 LSLQMYGCRVIQKALEVVHV 793 (1029)
Q Consensus 774 Ls~d~yGSrVVQkLLE~~s~ 793 (1029)
...+ +|-.++-.++..+.+
T Consensus 286 ~~~~-~~~~lv~~~l~~mte 304 (1075)
T KOG2171|consen 286 KLAL-LGHTLVPVLLAMMTE 304 (1075)
T ss_pred hchh-hhccHHHHHHHhcCC
Confidence 2223 676676666666553
No 45
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=44.48 E-value=4.4e+02 Score=32.70 Aligned_cols=166 Identities=18% Similarity=0.249 Sum_probs=73.9
Q ss_pred hhhccccchhHhHHhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHHHHh-----hCChhHHHHHHH-hhhhhhhhhc
Q 001686 774 LSLQMYGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIE-----CIPQDRIQFIIS-SFYGQVVALS 847 (1029)
Q Consensus 774 Ls~d~yGSrVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le-----~~~~e~~q~Iie-~f~g~lvsLs 847 (1029)
+++.+...+++-.+.....+.-...-++++.+-+..|+.+..-.-+...|-- -++.+.++.+++ .+..+++++.
T Consensus 209 ~~~lRn~tW~LsNlcrgk~P~P~~~~v~~iLp~L~~ll~~~D~~Vl~Da~WAlsyLsdg~ne~iq~vi~~gvv~~LV~lL 288 (514)
T KOG0166|consen 209 LSMLRNATWTLSNLCRGKNPSPPFDVVAPILPALLRLLHSTDEEVLTDACWALSYLTDGSNEKIQMVIDAGVVPRLVDLL 288 (514)
T ss_pred hHHHHHHHHHHHHHHcCCCCCCcHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCChHHHHHHHHccchHHHHHHH
Confidence 3444455555555555544333333444445555555544443333333222 235555555553 3556677777
Q ss_pred cCccchhhHHH---Hhh--hcCCHHHHHHHHHHHHHHHHHHhcCCCcc-------HHHHHHHhcCCcchHHHHHHH-HHH
Q 001686 848 THPYGCRVIQR---VLE--HCDDANTQQIIMDEIMQHVCNLAQDQYGN-------YVIQHVLEHGKPHERTTVITQ-LAG 914 (1029)
Q Consensus 848 ~hk~GS~VIQk---lLe--~~~d~~~r~~IldELl~~L~~LA~DqyGN-------yVVQ~LLe~~~~k~r~~Il~~-L~g 914 (1029)
.|.-+..++-. +-. .+.+.+++..|-.-.+..+..|....+-. ++|.-|.. +..++.+.+++. |..
T Consensus 289 ~~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~~~L~~l~~ll~~s~~~~ikkEAcW~iSNItA-G~~~qiqaVida~l~p 367 (514)
T KOG0166|consen 289 GHSSPKVVTPALRAIGNIVTGSDEQTQVVINSGALPVLSNLLSSSPKESIKKEACWTISNITA-GNQEQIQAVIDANLIP 367 (514)
T ss_pred cCCCcccccHHHhhccceeeccHHHHHHHHhcChHHHHHHHhccCcchhHHHHHHHHHHHhhc-CCHHHHHHHHHcccHH
Confidence 76665443222 211 22233333333334555666666543333 22222222 445555555543 333
Q ss_pred HHHhhcc------CchHHHHHHHHHhhCCHHH
Q 001686 915 QIVRMSQ------QKFASNVVEKCLTFGSPEE 940 (1029)
Q Consensus 915 ~lv~Ls~------~K~GSrVVEkcL~~as~k~ 940 (1029)
.++.+.. .|-+.-+|-.+...+++++
T Consensus 368 ~Li~~l~~~ef~~rKEAawaIsN~ts~g~~~q 399 (514)
T KOG0166|consen 368 VLINLLQTAEFDIRKEAAWAISNLTSSGTPEQ 399 (514)
T ss_pred HHHHHHhccchHHHHHHHHHHHhhcccCCHHH
Confidence 3333332 2334444444444444443
No 46
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=42.09 E-value=7.8e+02 Score=30.64 Aligned_cols=140 Identities=13% Similarity=0.217 Sum_probs=71.0
Q ss_pred ccchhHhHHhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHHHHh-----hCChhHHHHHHH-hhhhhhhhhccC---
Q 001686 779 YGCRVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIE-----CIPQDRIQFIIS-SFYGQVVALSTH--- 849 (1029)
Q Consensus 779 yGSrVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le-----~~~~e~~q~Iie-~f~g~lvsLs~h--- 849 (1029)
..|+.|..+-+..++.-+..+-..+.+.+.+|+.+..++.++-++-. .+.....+.++. .+...+..|...
T Consensus 256 Da~WAlsyLsdg~ne~iq~vi~~gvv~~LV~lL~~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~~~L~~l~~ll~~s~~ 335 (514)
T KOG0166|consen 256 DACWALSYLTDGSNEKIQMVIDAGVVPRLVDLLGHSSPKVVTPALRAIGNIVTGSDEQTQVVINSGALPVLSNLLSSSPK 335 (514)
T ss_pred HHHHHHHHHhcCChHHHHHHHHccchHHHHHHHcCCCcccccHHHhhccceeeccHHHHHHHHhcChHHHHHHHhccCcc
Confidence 33444444433333333333334467777888887777655333322 234555666653 234444444441
Q ss_pred ----ccchhhHHHHhhhcCCHHHHHHHHH-HHHHHHHHHhcC-CC-----ccHHHHHHHhcCCcchHHHHHHH-HHHHHH
Q 001686 850 ----PYGCRVIQRVLEHCDDANTQQIIMD-EIMQHVCNLAQD-QY-----GNYVIQHVLEHGKPHERTTVITQ-LAGQIV 917 (1029)
Q Consensus 850 ----k~GS~VIQklLe~~~d~~~r~~Ild-ELl~~L~~LA~D-qy-----GNyVVQ~LLe~~~~k~r~~Il~~-L~g~lv 917 (1029)
+-.|++|-.+... ++++.+.+++ .++..+..+... .| ..++|..+...+++++-.-+++. +...++
T Consensus 336 ~~ikkEAcW~iSNItAG--~~~qiqaVida~l~p~Li~~l~~~ef~~rKEAawaIsN~ts~g~~~qi~yLv~~giI~plc 413 (514)
T KOG0166|consen 336 ESIKKEACWTISNITAG--NQEQIQAVIDANLIPVLINLLQTAEFDIRKEAAWAISNLTSSGTPEQIKYLVEQGIIKPLC 413 (514)
T ss_pred hhHHHHHHHHHHHhhcC--CHHHHHHHHHcccHHHHHHHHhccchHHHHHHHHHHHhhcccCCHHHHHHHHHcCCchhhh
Confidence 4567777777652 4555566655 455555544432 12 33555555555665555544443 344444
Q ss_pred hhc
Q 001686 918 RMS 920 (1029)
Q Consensus 918 ~Ls 920 (1029)
.|.
T Consensus 414 dlL 416 (514)
T KOG0166|consen 414 DLL 416 (514)
T ss_pred hcc
Confidence 444
No 47
>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=42.05 E-value=7.4e+02 Score=30.39 Aligned_cols=111 Identities=13% Similarity=0.243 Sum_probs=56.5
Q ss_pred HHHhcCCcchHHHHHHHHHHHHHhhccCchHHHHHHHHHhhCCHHHHHHHHHHHhcCCCCChhHHHhhcCCchHH-----
Q 001686 895 HVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGNY----- 969 (1029)
Q Consensus 895 ~LLe~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~Gny----- 969 (1029)
.++....+...++|+......+..++..... .++..+++..=++.|-..++-|. .|+.++||-.
T Consensus 363 ~il~~~~~~~~~~i~~~~~~w~~~~~~~~~~-~~l~~~~~qPF~elr~a~~~~l~----------~l~~~~Wg~~~i~~~ 431 (503)
T PF10508_consen 363 SILTSGTDRQDNDILSITESWYESLSGSPLS-NLLMSLLKQPFPELRCAAYRLLQ----------ALAAQPWGQREICSS 431 (503)
T ss_pred HHHhcCCCCchHHHHHHHHHHHHHhcCCchH-HHHHHHhcCCchHHHHHHHHHHH----------HHhcCHHHHHHHHhC
Confidence 3445555545555664444444444443333 36666666554666665555443 4555555554
Q ss_pred --HHHHHHhcCChhH------HHHHHHHHHHHHHHHhhCCCc-hHHHHHHHHHHHhC
Q 001686 970 --VVQKVLETCDDQS------LELILSRIRVHLNVLKKYTYG-KHIVSRIEKLIATG 1017 (1029)
Q Consensus 970 --VVQklLdt~ddt~------Rk~ILseLk~hL~eLa~~~yG-k~Il~~VEkl~~~g 1017 (1029)
++..+++...++. |-.|++.|........ .-++ ...+.++++.++.|
T Consensus 432 ~gfie~lldr~~E~~K~~ke~K~~ii~~l~~~~~~~~-~~~~~~~~~~kL~~yv~eG 487 (503)
T PF10508_consen 432 PGFIEYLLDRSTETTKEGKEAKYDIIKALAKSSTNAS-SVFDDPEYLGKLQEYVREG 487 (503)
T ss_pred ccHHhhhcCCCCCCCHHHHHHHHHHHHHHHhcccchh-hcCCCHHHHHHHHHHHHcC
Confidence 3445555443332 2345555543332111 2233 34445888888876
No 48
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=42.01 E-value=9.2e+02 Score=31.48 Aligned_cols=25 Identities=16% Similarity=0.165 Sum_probs=15.8
Q ss_pred CchHHHHHHHHHhh---CCHHHHHHHHH
Q 001686 922 QKFASNVVEKCLTF---GSPEERQLLIN 946 (1029)
Q Consensus 922 ~K~GSrVVEkcL~~---as~k~Rk~IIk 946 (1029)
.+|-+.++-.+|+. .+++.|+.-++
T Consensus 794 kpylpqi~stiL~rLnnksa~vRqqaad 821 (1172)
T KOG0213|consen 794 KPYLPQICSTILWRLNNKSAKVRQQAAD 821 (1172)
T ss_pred ccchHHHHHHHHHHhcCCChhHHHHHHH
Confidence 67777777776664 36666665433
No 49
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=41.35 E-value=6.1e+02 Score=34.32 Aligned_cols=19 Identities=21% Similarity=0.294 Sum_probs=12.9
Q ss_pred HHHhhcCCchHHHHHHHHh
Q 001686 958 LQAMMKDPFGNYVVQKVLE 976 (1029)
Q Consensus 958 L~~La~D~~GnyVVQklLd 976 (1029)
|.+.+.-.||--.|+.++.
T Consensus 892 LlekLirkfg~~eLe~~~p 910 (1176)
T KOG1248|consen 892 LLEKLIRKFGAEELESFLP 910 (1176)
T ss_pred HHHHHHHHhCHHHHHhhCH
Confidence 5566666777777777776
No 50
>cd07439 FANCE_c-term Fanconi anemia complementation group E protein, C-terminal domain. Fanconi Anemia (FA) is an autosomal recessive disorder associated with increased susceptibility to various cancers, bone marrow failure, cardiac, renal, and limb malformations, and other characteristics. Cells are highly sensitive to DNA damaging agents. A multi-subunit protein complex, the FA core complex, is responsible for ubiquitination of the protein FANCD2 in response to DNA damage. This monoubiquitination results in a downstream effect on homology-directed DNA repair. FANCE is part of the FA core complex and its C-terminal domain, which is modeled here, has been shown to directly interact with FANCD2. The domain contains a five-fold repeat of a structural unit similar to ARM and HEAT repeats. FANCE appears conserved in metazoa and in plants.
Probab=40.77 E-value=2.9e+02 Score=31.15 Aligned_cols=78 Identities=21% Similarity=0.365 Sum_probs=39.0
Q ss_pred ccchhhHHHHhhhcCCHHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCC---cchHHHHHHHHHHHHHhhccC-chH
Q 001686 850 PYGCRVIQRVLEHCDDANTQQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGK---PHERTTVITQLAGQIVRMSQQ-KFA 925 (1029)
Q Consensus 850 k~GS~VIQklLe~~~d~~~r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~---~k~r~~Il~~L~g~lv~Ls~~-K~G 925 (1029)
.+=+.+|.++++.|..++..-.++..++.. .++.-+..--.|+|.+|...- ++....++..+..+...++.+ |||
T Consensus 133 ~~q~ell~rlike~~~~~~~~l~~~q~L~~-~~~~W~E~~~~v~q~lL~~~~~lte~~~~~Lv~~L~~~a~~~skSlkFa 211 (254)
T cd07439 133 PFQAELLCRLVKECFEPDAVLLLLHQILIS-PNLVWTEETFTVIQALLNRKPPLSEESFSELVSKLQEQAEAFSKSLKFA 211 (254)
T ss_pred HHHHHHHHHHHhccccHHHHHHHHHHHHcc-ccccccHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhccccHH
Confidence 334557777777776555444444433321 111122222357888888654 334445555555555555543 444
Q ss_pred HHH
Q 001686 926 SNV 928 (1029)
Q Consensus 926 SrV 928 (1029)
--+
T Consensus 212 ~ll 214 (254)
T cd07439 212 KLL 214 (254)
T ss_pred HHH
Confidence 333
No 51
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=39.84 E-value=5.1e+02 Score=32.23 Aligned_cols=26 Identities=27% Similarity=0.561 Sum_probs=18.4
Q ss_pred HHHHHHHhcCC--cchHHHHHHHHHHHH
Q 001686 891 YVIQHVLEHGK--PHERTTVITQLAGQI 916 (1029)
Q Consensus 891 yVVQ~LLe~~~--~k~r~~Il~~L~g~l 916 (1029)
.|+-++|++.. .+.|+.|++-|+..+
T Consensus 226 ~Ilk~il~~d~k~~~ar~~~i~~lRd~y 253 (711)
T COG1747 226 RILKHILEHDEKDVWARKEIIENLRDKY 253 (711)
T ss_pred HHHHHHhhhcchhhhHHHHHHHHHHHHh
Confidence 36677777654 567888888887644
No 52
>PF04078 Rcd1: Cell differentiation family, Rcd1-like ; InterPro: IPR007216 Rcd1 (Required cell differentiation 1) -like proteins are found among a wide range of organisms []. Rcd1 was initially identified as an essential factor in nitrogen starvation-invoked differentiation in fission yeast. This results largely from a defect in nitrogen starvation-invoked induction of ste11+, a key transcriptional factor gene required for the onset of sexual development. It is one of the most conserved proteins in eukaryotes, and its mammalian homologue is expressed in a variety of differentiating tissues [, ]. The mammalian Rcd1 is a novel transcriptional cofactor and is critical for retinoic acid-induced differentiation of F9 mouse teratocarcinoma cells, at least in part, via forming complexes with retinoic acid receptor and activation transcription factor-2 (ATF-2) []. Two of the members in this family have been characterised as being involved in regulation of Ste11 regulated sex genes [, ].; PDB: 2FV2_B.
Probab=39.29 E-value=1.3e+02 Score=34.11 Aligned_cols=28 Identities=18% Similarity=0.422 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHhhccCchHHHHHHHHHh
Q 001686 907 TVITQLAGQIVRMSQQKFASNVVEKCLT 934 (1029)
Q Consensus 907 ~Il~~L~g~lv~Ls~~K~GSrVVEkcL~ 934 (1029)
++++.+..-+..|+.++.+-..+.+|+-
T Consensus 204 RLLKhIIrCYlRLsdnprar~aL~~~LP 231 (262)
T PF04078_consen 204 RLLKHIIRCYLRLSDNPRAREALRQCLP 231 (262)
T ss_dssp HHHHHHHHHHHHHTTSTTHHHHHHHHS-
T ss_pred hHHHHHHHHHHHHccCHHHHHHHHHhCc
Confidence 6777777777788877777776666654
No 53
>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=38.00 E-value=8.5e+02 Score=29.90 Aligned_cols=13 Identities=8% Similarity=0.217 Sum_probs=5.6
Q ss_pred HHHHHhcCChhHH
Q 001686 971 VQKVLETCDDQSL 983 (1029)
Q Consensus 971 VQklLdt~ddt~R 983 (1029)
+..++..+++..|
T Consensus 165 L~~l~~~~~~~vR 177 (503)
T PF10508_consen 165 LKSLMSQSSDIVR 177 (503)
T ss_pred HHHHHhccCHHHH
Confidence 3444444444444
No 54
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=36.18 E-value=1e+03 Score=31.03 Aligned_cols=47 Identities=13% Similarity=0.246 Sum_probs=31.1
Q ss_pred hhcCCchHHHHHHHHhcCChhH-HHHHHHHHHHHHHHHhhCCCchHHHH
Q 001686 961 MMKDPFGNYVVQKVLETCDDQS-LELILSRIRVHLNVLKKYTYGKHIVS 1008 (1029)
Q Consensus 961 La~D~~GnyVVQklLdt~ddt~-Rk~ILseLk~hL~eLa~~~yGk~Il~ 1008 (1029)
+..-+|-.++++-+=....+.+ -+.+.....+-+.+|+. .||++++.
T Consensus 772 ~~~~p~v~~I~sfi~~I~~e~~~~~~~~~~a~GlIgDL~~-~fg~~~~~ 819 (859)
T KOG1241|consen 772 MLVQPYVPHIISFIDRIAAEPDVSEALHAAALGLIGDLAT-MFGKGVIK 819 (859)
T ss_pred hhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHHHHHH-Hcccchhh
Confidence 4445777777776666554444 36777777777888875 67766654
No 55
>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=36.14 E-value=5e+02 Score=29.52 Aligned_cols=134 Identities=16% Similarity=0.202 Sum_probs=64.7
Q ss_pred HHHHhhcCCHHHHHHHHHHHh-H-----hHHHhhcCcccceehhhhhhccC----HHHHHHHHHHHhhhHHHhhhccccc
Q 001686 712 IQQKLEAATAEEKTRIFPEII-P-----HARTLMTDVFGNYVIQKFFEHGT----ESQRAQLASQLTGHVLRLSLQMYGC 781 (1029)
Q Consensus 712 LQklLe~~S~Eqr~~IfeEL~-~-----~~leLmtD~fGShVVQKLLe~~s----~eqr~~Li~~Lkg~~~~Ls~d~yGS 781 (1029)
.=++|-.|++.|.+.+.+++. + -+..||.. ++.... ..-...+-..+.+++..+ ..-++
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 ELQFLNECSPSQVEMLCSQLQLPQLSDDGLLQLCSS---------LLALSPDLSHSNATVLLRSLFLPKILSL--EEPAS 108 (263)
T ss_dssp HHHGGGG--HHHHHHHHHHHTGGG--HHHHHHHHHH---------HHH-SS---HHHHHHHHHHHHHHHHHH---SS---
T ss_pred HHHHHHhCCHHHHHHHHHHhCcCCCCHHHHHHHHHH---------HHccCcccchhhHHHHHHHHHHHHHHhc--CCCcc
Confidence 345566779999999999876 2 23344431 211111 111222333455666665 66788
Q ss_pred hhHhHHhhhcChHHHHHHHHhhchhHHHHhhcc-cCC---hHHHHHH--hhCChhHHHHHHHhhhhhhhhhccCccchhh
Q 001686 782 RVIQKALEVVHVDQQTQMVAELDGSVMKCVHDQ-NGN---HVIQKCI--ECIPQDRIQFIISSFYGQVVALSTHPYGCRV 855 (1029)
Q Consensus 782 rVVQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~Dq-nGN---hVIQk~L--e~~~~e~~q~Iie~f~g~lvsLs~hk~GS~V 855 (1029)
|++..++..+-......+++.+..- ++.++ .|+ -+|-+++ ++.+++....++..+.+..+ ...-..|
T Consensus 109 R~L~sal~~f~k~~p~~~~~all~P---lL~~~~~g~~Q~eLl~rlvk~~~l~p~~~~l~l~~~L~~~W----~E~~~~V 181 (263)
T PF11510_consen 109 RLLVSALTSFCKKYPRPVCEALLVP---LLQAPGLGPPQCELLCRLVKKECLEPDHRLLLLRQILELVW----NEETFLV 181 (263)
T ss_dssp HHHHHHHHHHHHHSHHHHHHHHHHH---HHHSTT--HHHHHHHHHHHH-TTS-HHHHHHHHHHHHHS-------HHHHHH
T ss_pred HHHHHHHHHHHHhCcHHHHHHHHHH---HHcCCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHHhCcC----cHHHHHH
Confidence 9988888655445444555443222 22222 222 2555566 46677776666554443222 2222558
Q ss_pred HHHHhhhc
Q 001686 856 IQRVLEHC 863 (1029)
Q Consensus 856 IQklLe~~ 863 (1029)
+|.+++..
T Consensus 182 lq~lL~~k 189 (263)
T PF11510_consen 182 LQSLLERK 189 (263)
T ss_dssp HHHHHTT-
T ss_pred HHHHHhcC
Confidence 88888875
No 56
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=35.78 E-value=5.5e+02 Score=32.19 Aligned_cols=29 Identities=21% Similarity=0.382 Sum_probs=13.4
Q ss_pred HHHHHHhcCCcchHHHHHHHHHHHHHhhc
Q 001686 892 VIQHVLEHGKPHERTTVITQLAGQIVRMS 920 (1029)
Q Consensus 892 VVQ~LLe~~~~k~r~~Il~~L~g~lv~Ls 920 (1029)
+|-.++.++.-+..+.+++.|...++.+-
T Consensus 166 lind~~~hcqrk~~~~~~~~l~~~v~~~y 194 (757)
T KOG4368|consen 166 LINDVLHHCQRKQARELLAALQKVVVPIY 194 (757)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 33334444444444455555555444433
No 57
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=35.65 E-value=7.6e+02 Score=32.41 Aligned_cols=51 Identities=22% Similarity=0.335 Sum_probs=31.6
Q ss_pred hhhHHHHhhhcCCHHHHHHHHHHHHHHHHHH----hcCCCccHHHHHHHhcCCcc
Q 001686 853 CRVIQRVLEHCDDANTQQIIMDEIMQHVCNL----AQDQYGNYVIQHVLEHGKPH 903 (1029)
Q Consensus 853 S~VIQklLe~~~d~~~r~~IldELl~~L~~L----A~DqyGNyVVQ~LLe~~~~k 903 (1029)
-++++.+|...........-++-+++.+..| +.|.+|-|+++++++.-++.
T Consensus 701 vrLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka~Dh~GF~LLn~i~~~~~~~ 755 (960)
T KOG1992|consen 701 VRLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKANDHHGFYLLNTIIESIPPN 755 (960)
T ss_pred HHHHHHHHhcCchhhcccccchhHHHHHHHHhcCcccchhHHHHHHHHHhcCCHh
Confidence 3577777776432211112234455555544 46899999999999987755
No 58
>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=35.01 E-value=2.6e+02 Score=33.69 Aligned_cols=57 Identities=11% Similarity=0.140 Sum_probs=23.7
Q ss_pred HHHHHhhcCCHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhccCHHHHHHHHHHH
Q 001686 711 FIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQL 767 (1029)
Q Consensus 711 vLQklLe~~S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~L 767 (1029)
.++.+|+...+.+...+++++.+...............-.+|++.+++.+..+++.+
T Consensus 22 ~l~~~l~~~~~~dia~~l~~l~~~~~~~~~~~l~~~~~a~vl~~l~~~~~~~ll~~l 78 (449)
T TIGR00400 22 KIKEKFLKXQPXDIAEALKRLPGTELILLYRFLPKKIAVDTFSNLDQSTQNKLLNSF 78 (449)
T ss_pred HHHHHHhcCCHHHHHHHHHhCCHHHHHHHHHhCChhhHHHHHHcCCHHHHHHHHHhC
Confidence 344444444555555555544443222211112222223344555555555554444
No 59
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=34.96 E-value=8.2e+02 Score=28.82 Aligned_cols=56 Identities=7% Similarity=0.135 Sum_probs=31.2
Q ss_pred hhhhccCHHHHHHHHHHHhhhHHHhh-hccccchhHhHHhhhcChHHH-HHHHHhhch
Q 001686 750 KFFEHGTESQRAQLASQLTGHVLRLS-LQMYGCRVIQKALEVVHVDQQ-TQMVAELDG 805 (1029)
Q Consensus 750 KLLe~~s~eqr~~Li~~Lkg~~~~Ls-~d~yGSrVVQkLLE~~s~eq~-~~Lv~EL~~ 805 (1029)
+-++..+++++..++.+|..-+..-. ...-|-.-.+.+++.+-.+++ ..+++.+..
T Consensus 49 a~lk~v~~~~~~~il~eF~~~~~~~~~i~~~~~~~~~~lL~kalg~~~a~~i~~~i~~ 106 (339)
T COG1536 49 ATLKTVSPEEKEQVLEEFEELFTEQAGINKGADEYARELLEKALGEEKAESLLERITG 106 (339)
T ss_pred HhccCCCHHHHHHHHHHHHHHHHhccccccChHHHHHHHHHHhCcHhHHHHHHHHhhh
Confidence 35666777777777777666655554 233333445555655444433 445555543
No 60
>PF12460 MMS19_C: RNAPII transcription regulator C-terminal; InterPro: IPR024687 This domain, approximately 60 amino acids in length, is found in the N-terminal region of MMS19 proteins. MMS19 is required for both nucleotide excision repair (NER) and RNA polymerase II (RNAP II) transcription [].
Probab=33.75 E-value=8.8e+02 Score=28.82 Aligned_cols=28 Identities=18% Similarity=0.335 Sum_probs=21.5
Q ss_pred chhHhHHhhhcChHHHHHHHHhhchhHH
Q 001686 781 CRVIQKALEVVHVDQQTQMVAELDGSVM 808 (1029)
Q Consensus 781 SrVVQkLLE~~s~eq~~~Lv~EL~~~i~ 808 (1029)
++|+..++..++.+++.++++++..-+.
T Consensus 118 ~~l~~~iv~~l~~~~q~~~~~~~~~lf~ 145 (415)
T PF12460_consen 118 SRLINLIVRSLSPEKQQEILDELYSLFL 145 (415)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHHHHc
Confidence 6788888888888888888877655443
No 61
>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=33.50 E-value=9.1e+02 Score=28.92 Aligned_cols=33 Identities=15% Similarity=0.358 Sum_probs=13.1
Q ss_pred HhhccCchHHHHHHHHHhhC----CHHHHHHHHHHHh
Q 001686 917 VRMSQQKFASNVVEKCLTFG----SPEERQLLINEML 949 (1029)
Q Consensus 917 v~Ls~~K~GSrVVEkcL~~a----s~k~Rk~IIkeLl 949 (1029)
..++.......|++.++.+. +...+..+++.+.
T Consensus 329 ~~l~~~~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~ 365 (526)
T PF01602_consen 329 YKLANESNVKEILDELLKYLSELSDPDFRRELIKAIG 365 (526)
T ss_dssp HHH--HHHHHHHHHHHHHHHHHC--HHHHHHHHHHHH
T ss_pred hhcccccchhhHHHHHHHHHHhccchhhhhhHHHHHH
Confidence 33444444444444444443 2334444444443
No 62
>KOG2160 consensus Armadillo/beta-catenin-like repeat-containing protein [Posttranslational modification, protein turnover, chaperones]
Probab=33.24 E-value=8.8e+02 Score=28.67 Aligned_cols=121 Identities=17% Similarity=0.107 Sum_probs=59.3
Q ss_pred CCHHHHHHHHHHHhH------hHHHhhcCcccceehhhhhhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhcC
Q 001686 719 ATAEEKTRIFPEIIP------HARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVH 792 (1029)
Q Consensus 719 ~S~Eqr~~IfeEL~~------~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s 792 (1029)
.+.+++..-|++|.. ++..|++...---|+- .++..+.+.|.. +.+||-++.+.-.
T Consensus 95 ~~le~ke~ald~Le~lve~iDnAndl~~~ggl~~ll~-~l~~~~~~lR~~-----------------Aa~Vigt~~qNNP 156 (342)
T KOG2160|consen 95 VDLEDKEDALDNLEELVEDIDNANDLISLGGLVPLLG-YLENSDAELREL-----------------AARVIGTAVQNNP 156 (342)
T ss_pred CCHHHHHHHHHHHHHHHHhhhhHHhHhhccCHHHHHH-HhcCCcHHHHHH-----------------HHHHHHHHHhcCH
Confidence 467788877777764 3455555544444443 666666655443 3455555555544
Q ss_pred hHHHHHHHHhhchhHHHHhhcccCChHHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhc
Q 001686 793 VDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHC 863 (1029)
Q Consensus 793 ~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~ 863 (1029)
..|..-|=.-....++.++....-+|+.-|+|-....-.+.+.. ..+.-.--+|..+++.+++..
T Consensus 157 ~~Qe~v~E~~~L~~Ll~~ls~~~~~~~r~kaL~AissLIRn~~~------g~~~fl~~~G~~~L~~vl~~~ 221 (342)
T KOG2160|consen 157 KSQEQVIELGALSKLLKILSSDDPNTVRTKALFAISSLIRNNKP------GQDEFLKLNGYQVLRDVLQSN 221 (342)
T ss_pred HHHHHHHHcccHHHHHHHHccCCCchHHHHHHHHHHHHHhcCcH------HHHHHHhcCCHHHHHHHHHcC
Confidence 44333332234445555555444555544433321111111110 111112345677888888764
No 63
>PF12069 DUF3549: Protein of unknown function (DUF3549); InterPro: IPR021936 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 340 amino acids in length. This protein has a conserved LDE sequence motif.
Probab=33.18 E-value=8.6e+02 Score=28.69 Aligned_cols=62 Identities=11% Similarity=0.197 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHhhc-cCchHHHHHHHHHhhCCHHHHHHHHHHHhcCCCCChhHHHhhcCCchH
Q 001686 907 TVITQLAGQIVRMS-QQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDPFGN 968 (1029)
Q Consensus 907 ~Il~~L~g~lv~Ls-~~K~GSrVVEkcL~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~~Gn 968 (1029)
+++-.|.+...... ...--...+|++....+......|+..|+-.+.-|..++.++.++.-+
T Consensus 266 e~Li~IAgR~W~~L~d~~~l~~fle~LA~~~~~~lF~qlfaDLv~iP~lR~~~L~~LR~~~~S 328 (340)
T PF12069_consen 266 EVLIAIAGRCWQWLKDPQLLRLFLERLAQQDDQALFNQLFADLVMIPELRPPVLMLLRHPNRS 328 (340)
T ss_pred HHHHHHHhcCchhcCCHHHHHHHHHHHHcccHHHHHHHHHHHHHhchhhhHHHHHHhccCCCC
Confidence 34444444433333 333344445555554444445555555554443344444444444433
No 64
>PF03378 CAS_CSE1: CAS/CSE protein, C-terminus; InterPro: IPR005043 Mammalian cellular apoptosis susceptibility (CAS) proteins and the yeast chromosome-segregation protein, CSE1 are homologous []. CAS is involved in both cellular apoptosis and proliferation [, ]. Apoptosis is inhibited in CAS-depleted cells, while the expression of CAS correlates to the degree of cellular proliferation. Like CSE1, it is essential for the mitotic checkpoint in the cell cycle (CAS depletion blocks the cell in the G2 phase), and has been shown to be associated with the microtubule network and the mitotic spindle [], as is the protein MEK, which is thought to regulate the intracellular localization (predominantly nuclear vs. predominantly cytosolic) of CAS. In the nucleus, CAS acts as a nuclear transport factor in the importin pathway []. The importin pathway mediates the nuclear transport of several proteins that are necessary for mitosis and further progression. CAS is therefore thought to affect the cell cycle through its effect on the nuclear transport of these proteins []. Since apoptosis also requires the nuclear import of several proteins (such as P53 and transcription factors), it has been suggested that CAS also enables apoptosis by facilitating the nuclear import of at least a subset of these essential proteins []. This entry represents the C-terminal portion of these proteins. Structural studies of the yeast CSE1 protein indicate that this domain binds to both the transport-orchestrating protein RanGTP and the cargo molecule that is being exported [].; GO: 0005515 protein binding; PDB: 1Z3H_B 1WA5_C.
Probab=32.30 E-value=2e+02 Score=34.75 Aligned_cols=32 Identities=16% Similarity=0.383 Sum_probs=17.2
Q ss_pred HHHHHhhhhhhhhhccCccchhhHHHHhhhcC
Q 001686 833 QFIISSFYGQVVALSTHPYGCRVIQRVLEHCD 864 (1029)
Q Consensus 833 q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~ 864 (1029)
+-|+..|..-+..-+.+.+|-.+++.+++++.
T Consensus 201 ~~iLgvFQkLi~sk~~D~~gF~LL~~iv~~~p 232 (435)
T PF03378_consen 201 EPILGVFQKLIASKANDHYGFDLLESIVENLP 232 (435)
T ss_dssp HHHHHHHHHHHT-TTCHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHCCCCcchHHHHHHHHHHHHCC
Confidence 34444444444444555666666666666664
No 65
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=32.05 E-value=1.1e+03 Score=31.12 Aligned_cols=113 Identities=12% Similarity=0.152 Sum_probs=63.4
Q ss_pred ccHhhhHHHHHHHhhCCCcCHHHHHHhhcCCHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhccCHH------HHHHH
Q 001686 690 FELSDIVDHVVEFSTDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTES------QRAQL 763 (1029)
Q Consensus 690 l~L~eI~GkiveLA~Dq~GSRvLQklLe~~S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~~s~e------qr~~L 763 (1029)
.++++|..++.....+..-. +.+.++. .+.+.|.+....|...+-+|..+-. +-+|-++..+++ ..+.+
T Consensus 512 ~ll~~lA~~l~p~l~~~~~~-~~~~~~~-~~~~~rr~~~~~lq~k~~~l~~n~~---LfeKgl~lF~dd~~t~~~L~khL 586 (803)
T PLN03083 512 SILKHLADHLRPMLINSLKE-RRKALFT-ENAERRRRLLDNLQKKIDESFLNMQ---LYEKALDLFEDDQSTSVVLHRHL 586 (803)
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHHh-cchHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhhCCccccchHHHHHHH
Confidence 44566666665555333222 2455555 6788888888888888877766643 333333332222 24556
Q ss_pred HHHHhhhHHHhhhccccchhHhHHh-----------hhcChHHHHHHHHhhchhH
Q 001686 764 ASQLTGHVLRLSLQMYGCRVIQKAL-----------EVVHVDQQTQMVAELDGSV 807 (1029)
Q Consensus 764 i~~Lkg~~~~Ls~d~yGSrVVQkLL-----------E~~s~eq~~~Lv~EL~~~i 807 (1029)
++.+...+..+..+..+++-.-+.= ..++.++|.++++.|-+.+
T Consensus 587 LkT~~~~i~n~l~~~~a~~~~l~~~~~~~~~~~~~~~~l~~~~R~~~~~~lp~~~ 641 (803)
T PLN03083 587 LRTTAAEIADTLLHTLDIHNKLKNGTEVEDSKTQDTVLLSSAERTALAKNLPGSL 641 (803)
T ss_pred HHhhhhHHHHHHHHHHHHHHhhhcccccccccCCCcccCCHHHHHHHHHhCcHHH
Confidence 6666666655555544432221111 2345778888888776543
No 66
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=29.98 E-value=3.2e+02 Score=35.60 Aligned_cols=19 Identities=21% Similarity=0.373 Sum_probs=10.9
Q ss_pred cCcccceehhhhhhccCHH
Q 001686 740 TDVFGNYVIQKFFEHGTES 758 (1029)
Q Consensus 740 tD~fGShVVQKLLe~~s~e 758 (1029)
.|.+|=++++.++++.+..
T Consensus 737 ~Dh~GF~LLn~i~~~~~~~ 755 (960)
T KOG1992|consen 737 NDHHGFYLLNTIIESIPPN 755 (960)
T ss_pred cchhHHHHHHHHHhcCCHh
Confidence 3556666666666655544
No 67
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=29.46 E-value=1.3e+02 Score=33.27 Aligned_cols=37 Identities=19% Similarity=0.242 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHhhccCchHHHHHHHHHhhCCHHHHHH
Q 001686 906 TTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQL 943 (1029)
Q Consensus 906 ~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~as~k~Rk~ 943 (1029)
..++..+...+ ....+.+.-.|+.|+|..++...|..
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 44444443333 44555566666777777776666554
No 68
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.11 E-value=1.3e+03 Score=29.99 Aligned_cols=53 Identities=11% Similarity=0.195 Sum_probs=28.9
Q ss_pred CCcCHHHHHHhhcCCHHHHHHHHHHHhHh------HHHhhcCcccceehhhhhhccCHH
Q 001686 706 QYGSRFIQQKLEAATAEEKTRIFPEIIPH------ARTLMTDVFGNYVIQKFFEHGTES 758 (1029)
Q Consensus 706 q~GSRvLQklLe~~S~Eqr~~IfeEL~~~------~leLmtD~fGShVVQKLLe~~s~e 758 (1029)
.+-++-|++.++.++.+-+..|+-+|+.+ +..|..++++.-+-+.+.++.+.+
T Consensus 547 ~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~~r~~~~~ 605 (829)
T KOG2280|consen 547 KDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQFMRHQDRA 605 (829)
T ss_pred chHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHhhchh
Confidence 34455666666666666665555555543 234555555555555555544433
No 69
>PF00888 Cullin: Cullin family; InterPro: IPR001373 Cullins are a family of hydrophobic proteins that act as scaffolds for ubiquitin ligases (E3). Cullins are found throughout eukaryotes. Humans express seven cullins (Cul1, 2, 3, 4A, 4B, 5 and 7), each forming part of a multi-subunit ubiquitin complex. Cullin-RING ubiquitin ligases (CRLs), such as Cul1 (SCF) [], play an essential role in targeting proteins for ubiquitin-mediated destruction; as such, they are diverse in terms of composition and function, regulating many different processes from glucose sensing and DNA replication to limb patterning and circadian rhythms. The catalytic core of CRLs consists of a RING protein and a cullin family member. For Cul1, the C-terminal cullin-homology domain binds the RING protein. The RING protein appears to function as a docking site for ubiquitin-conjugating enzymes (E2s). Other proteins contain a cullin-homology domain, such as the APC2 subunit of the anaphase-promoting complex/cyclosome and the p53 cytoplasmic anchor PARC; both APC2 and PARC have ubiquitin ligase activity. The N-terminal region of cullins is more variable, and is used to interact with specific adaptor proteins [, , ]. This entry represents the N-terminal region of cullin proteins, which consists of several domains, including cullin repeat domain, a 4-helical bundle domain, an alpha+beta domain, and a winged helix-like domain.; GO: 0031625 ubiquitin protein ligase binding, 0006511 ubiquitin-dependent protein catabolic process, 0031461 cullin-RING ubiquitin ligase complex; PDB: 2WZK_A 3DQV_D 3DPL_C 3RTR_G 3TDU_D 1LDJ_A 3TDZ_D 1LDK_A 1U6G_A 4A0K_A ....
Probab=27.05 E-value=1.2e+03 Score=28.43 Aligned_cols=42 Identities=10% Similarity=0.383 Sum_probs=20.7
Q ss_pred chHHHHHHHHhcC--ChhHHHHHHHHHHHHHHHHhhCCCchHHHHHHHHHHH
Q 001686 966 FGNYVVQKVLETC--DDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIA 1015 (1029)
Q Consensus 966 ~GnyVVQklLdt~--ddt~Rk~ILseLk~hL~eLa~~~yGk~Il~~VEkl~~ 1015 (1029)
|=.++..++|... ++..-+.+++.|+. .+|.....+++.|++
T Consensus 377 Y~~~L~~RLl~~~~~~~~~E~~~i~~Lk~--------~~g~~~~~kl~~M~~ 420 (588)
T PF00888_consen 377 YKKLLAKRLLSNKSFSEDAEKSMIEKLKK--------ECGSSYTSKLEVMLK 420 (588)
T ss_dssp HHHHHHHHHHTT-BS-HHHHHHHHHHHHH--------TCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHhcccccccHHHHHHHHHHhc--------ccCchhHHHHHHHHH
Confidence 4445555555432 22223444555544 556666666666654
No 70
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=26.71 E-value=1.1e+03 Score=27.57 Aligned_cols=25 Identities=20% Similarity=0.173 Sum_probs=15.0
Q ss_pred HHHHHHHHHhhCCHHHHHHHHHHHh
Q 001686 925 ASNVVEKCLTFGSPEERQLLINEML 949 (1029)
Q Consensus 925 GSrVVEkcL~~as~k~Rk~IIkeLl 949 (1029)
-...+-.+|+.++++.|..|+..|-
T Consensus 257 ~~~~la~aLkg~~~e~r~~il~nmS 281 (334)
T PRK07194 257 PMELWAVALKGTEPALRQAILRVMP 281 (334)
T ss_pred CHHHHHHHHccCCHHHHHHHHHHcc
Confidence 3444555566666666666666664
No 71
>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p [].
Probab=26.56 E-value=5e+02 Score=29.28 Aligned_cols=31 Identities=19% Similarity=0.216 Sum_probs=19.4
Q ss_pred HHHHhh-cCCHHHHHHHHHHHhHhHHHhhcCc
Q 001686 712 IQQKLE-AATAEEKTRIFPEIIPHARTLMTDV 742 (1029)
Q Consensus 712 LQklLe-~~S~Eqr~~IfeEL~~~~leLmtD~ 742 (1029)
+.-++. ..+.......+.-+.|-++.|+-|-
T Consensus 100 l~w~v~~~~~~~~i~~~~~liiP~iL~llDD~ 131 (282)
T PF10521_consen 100 LSWIVLSQLDRPWISQHWPLIIPPILNLLDDY 131 (282)
T ss_pred HHHHHHhcCCcchHHHhhhHHHhhHHHHhcCC
Confidence 333343 4555566677777777777777664
No 72
>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=26.51 E-value=9e+02 Score=27.44 Aligned_cols=33 Identities=12% Similarity=0.032 Sum_probs=24.0
Q ss_pred HHHHHHhcCChhHHHHHHHHHHHHHHHHhhCCC
Q 001686 970 VVQKVLETCDDQSLELILSRIRVHLNVLKKYTY 1002 (1029)
Q Consensus 970 VVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~y 1002 (1029)
+|..+++...+..||+|+.-....+..|.....
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 888888888888888888877777777766555
No 73
>COG4399 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.43 E-value=1.1e+03 Score=27.87 Aligned_cols=16 Identities=19% Similarity=0.339 Sum_probs=6.1
Q ss_pred HHhcCCCccHHHHHHH
Q 001686 882 NLAQDQYGNYVIQHVL 897 (1029)
Q Consensus 882 ~LA~DqyGNyVVQ~LL 897 (1029)
.|..++-.+-++|.++
T Consensus 223 kl~~~~~t~kilq~Ll 238 (376)
T COG4399 223 KLLNREETKKILQQLL 238 (376)
T ss_pred HHHccHHHHHHHHHHH
Confidence 3333333333344433
No 74
>KOG2759 consensus Vacuolar H+-ATPase V1 sector, subunit H [Energy production and conversion]
Probab=26.37 E-value=1.2e+03 Score=28.25 Aligned_cols=26 Identities=23% Similarity=0.332 Sum_probs=14.2
Q ss_pred HHHHHHHHHHh-cCCCccHHHHHHHhc
Q 001686 874 DEIMQHVCNLA-QDQYGNYVIQHVLEH 899 (1029)
Q Consensus 874 dELl~~L~~LA-~DqyGNyVVQ~LLe~ 899 (1029)
+++...+..|. .|.|-+=|-+..|+=
T Consensus 317 e~L~~svq~LsSFDeY~sEl~sG~L~W 343 (442)
T KOG2759|consen 317 EKLKNSVQDLSSFDEYKSELRSGRLEW 343 (442)
T ss_pred HHHHHHHHhhccHHHHHHHHHhCCcCC
Confidence 34444555554 456666666666653
No 75
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=25.85 E-value=1.7e+03 Score=29.53 Aligned_cols=46 Identities=7% Similarity=0.136 Sum_probs=38.3
Q ss_pred HHhhcccCChHHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchh
Q 001686 809 KCVHDQNGNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCR 854 (1029)
Q Consensus 809 ~Lv~DqnGNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~ 854 (1029)
+.+.+-.+.+..|-|+++--...+..+++.+..|+..++.|.+.+.
T Consensus 173 E~lY~~ia~~aFqFCLkYqRktEFRrLCe~LR~HL~~i~k~~nq~~ 218 (988)
T KOG2072|consen 173 EALYHDIARKAFQFCLKYQRKTEFRRLCELLRMHLDNINKHQNQST 218 (988)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhccCc
Confidence 3455667788889999998888899999999999999998887755
No 76
>KOG2073 consensus SAP family cell cycle dependent phosphatase-associated protein [Cell cycle control, cell division, chromosome partitioning]
Probab=24.96 E-value=1.2e+03 Score=30.81 Aligned_cols=77 Identities=16% Similarity=0.169 Sum_probs=40.0
Q ss_pred chHHHHHHHHH---HHHHhhccCchHHHHHHHHHhhCCH---HHHHH---HHHHHhcCCCCChhHHHhhcCCchHHHHHH
Q 001686 903 HERTTVITQLA---GQIVRMSQQKFASNVVEKCLTFGSP---EERQL---LINEMLGSTDENEPLQAMMKDPFGNYVVQK 973 (1029)
Q Consensus 903 k~r~~Il~~L~---g~lv~Ls~~K~GSrVVEkcL~~as~---k~Rk~---IIkeLlg~~d~~e~L~~La~D~~GnyVVQk 973 (1029)
.....++..|. +.|++|...+-+-.+++.=+..-.+ +.|-+ ++.+|+.... ..-+.+++..-+...++..
T Consensus 295 ~~~~~~l~~~~p~L~dF~~lL~~~~~~~~l~tt~g~l~pPLG~~Rlki~eliaelL~~~~-~~l~~el~~~~~~~r~lD~ 373 (838)
T KOG2073|consen 295 IVLNELLGAMEPRLGDFVQLLLEPEKLDLLETTYGELEPPLGFERLKIVELIAELLHCSN-MTLLNELRAEGIAERLLDL 373 (838)
T ss_pred cchHHHHHHHHHHHHHHHHHhcCCccchhhhhhhhccCCCcchHHHHHHHHHHHHhccCc-HHHHhHHhhhhhHHHHHHH
Confidence 34555666654 4566777777776666665554221 34443 4455554432 1234445544455555555
Q ss_pred HHhcCCh
Q 001686 974 VLETCDD 980 (1029)
Q Consensus 974 lLdt~dd 980 (1029)
+++.+..
T Consensus 374 f~~y~~n 380 (838)
T KOG2073|consen 374 FFEYPWN 380 (838)
T ss_pred HHhcchh
Confidence 5555544
No 77
>KOG0412 consensus Golgi transport complex COD1 protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.50 E-value=1.6e+03 Score=29.02 Aligned_cols=22 Identities=9% Similarity=-0.026 Sum_probs=14.8
Q ss_pred hhccCccccccccccCcccccc
Q 001686 383 QLQLNPDNQSDFLYDTSNGHNQ 404 (1029)
Q Consensus 383 ~~~~~~~~~~~~~~~~~~~~~~ 404 (1029)
+-.|-+++..|+-+.++|-+..
T Consensus 119 ~clq~v~dvrdlk~C~~gv~~A 140 (773)
T KOG0412|consen 119 ECLQRVDDVRDLKNCIEGVDTA 140 (773)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4445577777777777776655
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=24.42 E-value=3.1e+02 Score=33.03 Aligned_cols=84 Identities=10% Similarity=0.086 Sum_probs=36.9
Q ss_pred HHhhcCCHHHHHHHHHHHhHhH-HHhhcCcccceehhhhhhccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhcC
Q 001686 714 QKLEAATAEEKTRIFPEIIPHA-RTLMTDVFGNYVIQKFFEHGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVVH 792 (1029)
Q Consensus 714 klLe~~S~Eqr~~IfeEL~~~~-leLmtD~fGShVVQKLLe~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s 792 (1029)
.+|+.-+++++..+|..+-... .++...--- ..-..+++..+.+...++++.+...-..-..+.--....++++..++
T Consensus 37 ~~l~~l~~~~~~~~~~~l~~~~~a~vl~~l~~-~~~~~ll~~l~~~~~~~~~~~l~~dd~~~ll~~l~~~~~~~lL~~l~ 115 (449)
T TIGR00400 37 EALKRLPGTELILLYRFLPKKIAVDTFSNLDQ-STQNKLLNSFTNKEISEMINEMNLDDVIDLLEEVPANVVQQLLASST 115 (449)
T ss_pred HHHHhCCHHHHHHHHHhCChhhHHHHHHcCCH-HHHHHHHHhCCHHHHHHHHHcCChhHHHHHHHhCCHHHHHHHHHcCC
Confidence 3455555666666666544321 111111111 11224555555555555555543222221122233344556666666
Q ss_pred hHHHHH
Q 001686 793 VDQQTQ 798 (1029)
Q Consensus 793 ~eq~~~ 798 (1029)
++++..
T Consensus 116 ~~er~~ 121 (449)
T TIGR00400 116 EEERKA 121 (449)
T ss_pred HHHHHH
Confidence 665533
No 79
>KOG1240 consensus Protein kinase containing WD40 repeats [Signal transduction mechanisms]
Probab=24.36 E-value=2e+03 Score=30.07 Aligned_cols=24 Identities=29% Similarity=0.409 Sum_probs=17.4
Q ss_pred hhHHHhhcCCchHHHHHHHHhcCC
Q 001686 956 EPLQAMMKDPFGNYVVQKVLETCD 979 (1029)
Q Consensus 956 e~L~~La~D~~GnyVVQklLdt~d 979 (1029)
+-|...++.+.-.-|.-.+++-.+
T Consensus 755 ~~LlsclkpPVsRsv~~~l~r~~~ 778 (1431)
T KOG1240|consen 755 EVLLSCLKPPVSRSVFNQLLRWSD 778 (1431)
T ss_pred HHHHHHhcCCCcHHHHHHHHHHhh
Confidence 456777778888878777777655
No 80
>KOG1240 consensus Protein kinase containing WD40 repeats [Signal transduction mechanisms]
Probab=24.25 E-value=2e+03 Score=30.05 Aligned_cols=77 Identities=14% Similarity=0.026 Sum_probs=49.0
Q ss_pred hCCCcCHHHHHHhhcCCHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhc---------cCHHHHHHHHHHHhhhHHHh
Q 001686 704 TDQYGSRFIQQKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEH---------GTESQRAQLASQLTGHVLRL 774 (1029)
Q Consensus 704 ~Dq~GSRvLQklLe~~S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~---------~s~eqr~~Li~~Lkg~~~~L 774 (1029)
+.-.+=++||.+=.+-+.| ..++.|.|.++.|..|+..---++.+... .++..-..+.+.|-+++..|
T Consensus 439 tK~~ALeLl~~lS~~i~de---~~LDRVlPY~v~l~~Ds~a~Vra~Al~Tlt~~L~~Vr~~~~~daniF~eYlfP~L~~l 515 (1431)
T KOG1240|consen 439 TKLAALELLQELSTYIDDE---VKLDRVLPYFVHLLMDSEADVRATALETLTELLALVRDIPPSDANIFPEYLFPHLNHL 515 (1431)
T ss_pred hHHHHHHHHHHHhhhcchH---HHHhhhHHHHHHHhcCchHHHHHHHHHHHHHHHhhccCCCcccchhhHhhhhhhhHhh
Confidence 3334445666666665555 34677889999999999887666555322 23444445556677888888
Q ss_pred hhccccchh
Q 001686 775 SLQMYGCRV 783 (1029)
Q Consensus 775 s~d~yGSrV 783 (1029)
+.+....+|
T Consensus 516 ~~d~~~~~v 524 (1431)
T KOG1240|consen 516 LNDSSAQIV 524 (1431)
T ss_pred hccCcccee
Confidence 888644443
No 81
>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=24.24 E-value=7.8e+02 Score=25.16 Aligned_cols=75 Identities=15% Similarity=0.154 Sum_probs=39.5
Q ss_pred HHHHHHHHhhCCHHHHHHHH-HHHhcCCCCChhHHHhhcCCc-hHHHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCCCc
Q 001686 926 SNVVEKCLTFGSPEERQLLI-NEMLGSTDENEPLQAMMKDPF-GNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYG 1003 (1029)
Q Consensus 926 SrVVEkcL~~as~k~Rk~II-keLlg~~d~~e~L~~La~D~~-GnyVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~yG 1003 (1029)
=.+++.|.+.++......|. ++++ +.|.+++.+.| | ...+...+++|++-|..=-..+...+.
T Consensus 59 L~LLe~~vkNCG~~fh~evas~~Fl------~el~kl~~~k~~~--------~~~~~~Vk~kil~li~~W~~~f~~~p~- 123 (139)
T cd03567 59 LTVLEACMKNCGERFHSEVGKFRFL------NELIKLVSPKYLG--------SRTSEKVKTKIIELLYSWTLELPHEPK- 123 (139)
T ss_pred HHHHHHHHHHcCHHHHHHHHhHHHH------HHHHHHhccccCC--------CCCCHHHHHHHHHHHHHHHHHhcccch-
Confidence 35788899988888777666 4555 23556664432 1 112344455665555554444443332
Q ss_pred hHHHHHHHHHHHhC
Q 001686 1004 KHIVSRIEKLIATG 1017 (1029)
Q Consensus 1004 k~Il~~VEkl~~~g 1017 (1029)
+.+.-..+.+.|
T Consensus 124 --~~~~Y~~Lk~~G 135 (139)
T cd03567 124 --IKEAYDMLKKQG 135 (139)
T ss_pred --HHHHHHHHHHCC
Confidence 334444444333
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=23.60 E-value=7.2e+02 Score=25.27 Aligned_cols=25 Identities=16% Similarity=0.178 Sum_probs=15.1
Q ss_pred hhHhHHhhhcChHHHHHHHHhhchh
Q 001686 782 RVIQKALEVVHVDQQTQMVAELDGS 806 (1029)
Q Consensus 782 rVVQkLLE~~s~eq~~~Lv~EL~~~ 806 (1029)
+.|+.++..++......++++|...
T Consensus 2 r~v~~~lnklt~~n~~~~~~~l~~~ 26 (209)
T PF02854_consen 2 RKVRGILNKLTPSNFESIIDELIKL 26 (209)
T ss_dssp HHHHHHHHHCSSTTHHHHHHHHHHH
T ss_pred chHHHHHHHCCHHHHHHHHHHHHHH
Confidence 4566666666666666666665443
No 83
>COG5173 SEC6 Exocyst complex subunit SEC6 [Intracellular trafficking and secretion]
Probab=23.26 E-value=1.6e+03 Score=28.40 Aligned_cols=22 Identities=14% Similarity=0.019 Sum_probs=9.3
Q ss_pred hCChhHHHHHHHhhhhhhhhhc
Q 001686 826 CIPQDRIQFIISSFYGQVVALS 847 (1029)
Q Consensus 826 ~~~~e~~q~Iie~f~g~lvsLs 847 (1029)
+.......+|+..++..+.++-
T Consensus 542 ~s~~~l~~~i~~d~~pa~~~iF 563 (742)
T COG5173 542 ASNTFLAEFIIYDCQPAIDKIF 563 (742)
T ss_pred hhhHHHHHHHHHhhhhhHHHhc
Confidence 3333344444444444444443
No 84
>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=23.08 E-value=9.9e+02 Score=29.86 Aligned_cols=66 Identities=9% Similarity=0.087 Sum_probs=32.5
Q ss_pred HHHHHHHHHHhHhHHHhhcCcccceehhhhhhc----cCHHHHHHHHHHHhhhHHHh--hhccccchhHhHHhhhcCh
Q 001686 722 EEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEH----GTESQRAQLASQLTGHVLRL--SLQMYGCRVIQKALEVVHV 793 (1029)
Q Consensus 722 Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~----~s~eqr~~Li~~Lkg~~~~L--s~d~yGSrVVQkLLE~~s~ 793 (1029)
.+...++.++..++-.|-.+ .+.+|+.++.. .+++.+ +.+..-+..| +...|-.-|+.++++....
T Consensus 51 ~~l~~~L~~L~~~Vs~Ld~~--~~~LV~ail~~~W~~~~~~~v----~~y~~Fl~~Lvsa~~~yl~~vl~~LV~~f~p 122 (563)
T PF05327_consen 51 SQLIRWLKALSSCVSLLDSS--CKQLVEAILSLNWLGRDEDFV----EAYIQFLINLVSAQPKYLSPVLSMLVKNFIP 122 (563)
T ss_dssp HHHHHHHHHHHHGGGGG-SC--CHHHHHHHHT-TGGGS-HHHH----HHHHHHHHHHHHH-GGGHHHHHHHHHHGGGS
T ss_pred HHHHHHHHHHHHHHHHhhhH--HHHHHHHHHcCCCCCCCHHHH----HHHHHHHHHHHHhhHHHHHHHHHHHHHhccC
Confidence 46677777777666655544 55566666654 223222 2222222233 2345555566666655443
No 85
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=23.07 E-value=2e+02 Score=28.87 Aligned_cols=101 Identities=9% Similarity=0.180 Sum_probs=0.0
Q ss_pred HhHHhhhcChHHHHHHHHhhchhHHHHhhccc--CChHHHHHHhhCChhHHHHHHHhhhhhhhhhccCccchhhHHHHhh
Q 001686 784 IQKALEVVHVDQQTQMVAELDGSVMKCVHDQN--GNHVIQKCIECIPQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLE 861 (1029)
Q Consensus 784 VQkLLE~~s~eq~~~Lv~EL~~~i~~Lv~Dqn--GNhVIQk~Le~~~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe 861 (1029)
++++|+.++.+.....=-++.-.+.+++.... +..+++.+.+.+........+.++. +++.|+.
T Consensus 1 ~~~~i~kATs~~l~~~dw~~~l~icD~i~~~~~~~k~a~r~l~krl~~~n~~v~l~AL~--------------lLe~~vk 66 (133)
T smart00288 1 VERLIDKATSPSLLEEDWELILEICDLINSTPDGPKDAVRLLKKRLNNKNPHVALLALT--------------LLDACVK 66 (133)
T ss_pred ChhHHHHHcCcCCCCcCHHHHHHHHHHHhCCCccHHHHHHHHHHHHcCCCHHHHHHHHH--------------HHHHHHH
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHhcCCCccH-HHHHHHh
Q 001686 862 HCDDANTQQIIMDEIMQHVCNLAQDQYGNY-VIQHVLE 898 (1029)
Q Consensus 862 ~~~d~~~r~~IldELl~~L~~LA~DqyGNy-VVQ~LLe 898 (1029)
.|..+-..+..-.++++.+..++.+++... |-+++++
T Consensus 67 Ncg~~f~~ev~s~~fl~~L~~l~~~~~~~~~Vk~kil~ 104 (133)
T smart00288 67 NCGSKFHLEVASKEFLNELVKLIKPKYPLPLVKKRILE 104 (133)
T ss_pred HCCHHHHHHHHhHHHHHHHHHHHcCCCCcHHHHHHHHH
No 86
>PF11864 DUF3384: Domain of unknown function (DUF3384); InterPro: IPR024584 This entry represents the N-terminal domain of tuberin which is functionally uncharacterised.
Probab=22.64 E-value=1.1e+03 Score=28.70 Aligned_cols=38 Identities=18% Similarity=0.237 Sum_probs=21.4
Q ss_pred hHHHhhhccccchhHhHHhhhc--ChHHHHHHHHhhchhH
Q 001686 770 HVLRLSLQMYGCRVIQKALEVV--HVDQQTQMVAELDGSV 807 (1029)
Q Consensus 770 ~~~~Ls~d~yGSrVVQkLLE~~--s~eq~~~Lv~EL~~~i 807 (1029)
-+..|+..++|...|+.+.+.+ ...+...-+..+.|.+
T Consensus 238 ~m~nL~~S~~g~~~i~~L~~iL~~~~~~~~~~~~~lRGAv 277 (464)
T PF11864_consen 238 TMRNLLKSHLGHSAIRTLCDILRSPDPQNKRDINVLRGAV 277 (464)
T ss_pred HHHHHHcCccHHHHHHHHHHHHcccCccccccHHHHhhHH
Confidence 4556666777777777777776 3333333344444443
No 87
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=22.61 E-value=1.4e+03 Score=27.64 Aligned_cols=37 Identities=8% Similarity=-0.014 Sum_probs=19.8
Q ss_pred hhHHHhhcCCc-hHHHHHHHHhcCChh--HHHHHHHHHHH
Q 001686 956 EPLQAMMKDPF-GNYVVQKVLETCDDQ--SLELILSRIRV 992 (1029)
Q Consensus 956 e~L~~La~D~~-GnyVVQklLdt~ddt--~Rk~ILseLk~ 992 (1029)
+.+..++...+ +--++.+.+.++.+. .++.|+..+..
T Consensus 361 dqiKat~~klT~~is~l~Kal~~~k~~~e~~~~Li~~l~Q 400 (460)
T KOG2213|consen 361 DQIKATALKLTQNISELIKALFHAKPDPEEEKQLIWTLVQ 400 (460)
T ss_pred HHHHHhhhhhhccHHHHHhhHhcCCCchhHHHHHHHHHHH
Confidence 33455555555 334666677666443 45555554443
No 88
>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p [].
Probab=22.31 E-value=1.1e+03 Score=26.66 Aligned_cols=53 Identities=11% Similarity=0.175 Sum_probs=30.7
Q ss_pred ccchhHhHHhh-hcChHHHHHHHHhhchhHHHHhhcc------cCChHHHHHHhhCChhH
Q 001686 779 YGCRVIQKALE-VVHVDQQTQMVAELDGSVMKCVHDQ------NGNHVIQKCIECIPQDR 831 (1029)
Q Consensus 779 yGSrVVQkLLE-~~s~eq~~~Lv~EL~~~i~~Lv~Dq------nGNhVIQk~Le~~~~e~ 831 (1029)
+.++|+.-++. .++.......+.-+.+-++.++-|. .|..+++.+++..+...
T Consensus 95 ~~~~~l~w~v~~~~~~~~i~~~~~liiP~iL~llDD~~~~~K~~G~~lL~~ll~~~~~~~ 154 (282)
T PF10521_consen 95 LASHVLSWIVLSQLDRPWISQHWPLIIPPILNLLDDYSPEIKIQGCQLLHHLLEKVPAAE 154 (282)
T ss_pred ccHHHHHHHHHhcCCcchHHHhhhHHHhhHHHHhcCCCHHHHHHHHHHHHHHHHhCChhh
Confidence 33456666666 5555555555556666666666552 35566666666555444
No 89
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=22.07 E-value=2.1e+03 Score=29.38 Aligned_cols=109 Identities=21% Similarity=0.250 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHHHHHhcCCCccHHHHHHHhcCCcchHHHHHH-------HHHHHHHhhccCchHHHHHHHHHhhC---CH
Q 001686 869 QQIIMDEIMQHVCNLAQDQYGNYVIQHVLEHGKPHERTTVIT-------QLAGQIVRMSQQKFASNVVEKCLTFG---SP 938 (1029)
Q Consensus 869 r~~IldELl~~L~~LA~DqyGNyVVQ~LLe~~~~k~r~~Il~-------~L~g~lv~Ls~~K~GSrVVEkcL~~a---s~ 938 (1029)
.+.+++.|+..-..-+.|+--.-+|.-++..+.|..+..++. .+...++.--.++..-..+-+||... ++
T Consensus 583 M~~~Le~i~rkK~a~~lDsr~~~~iENay~~~~PPe~~~~~~k~r~p~~efiR~Li~~dL~k~tvd~~lkllRkl~W~D~ 662 (1128)
T KOG2051|consen 583 MRVFLEQIKRKKRASALDSRQATLIENAYYLCNPPERSKRLSKKRPPMQEFIRYLIRSDLSKDTVDRVLKLLRKLDWSDP 662 (1128)
T ss_pred HHHHHHHHHHHHHHhhhchHHHHHHHHhHHhccChhhcccccccCCcHHHHHHHHHHHHhccccHHHHHHHHHhcccccH
Confidence 344555555444444445433455555665554433333222 22222222122344445555666543 56
Q ss_pred HHHHHHHHHHhcCCC-CChhHHHhh---------cCCchHHHHHHHHhc
Q 001686 939 EERQLLINEMLGSTD-ENEPLQAMM---------KDPFGNYVVQKVLET 977 (1029)
Q Consensus 939 k~Rk~IIkeLlg~~d-~~e~L~~La---------~D~~GnyVVQklLdt 977 (1029)
+..+.+|..++..-. .-..+..++ ...|+-+||..+|+.
T Consensus 663 e~~~yli~~~~k~w~iky~~i~~lA~llaGL~~y~~~fvi~VID~vlE~ 711 (1128)
T KOG2051|consen 663 EVKQYLISCFSKPWKIKYQNIHALASLLAGLSSYHPEFVIHVIDHVLED 711 (1128)
T ss_pred HHHHHHHHHhhhhhccccccHHHHHHHHHHHHhhchhhhhhhHHHHHHH
Confidence 678888887764200 012233333 233566677666654
No 90
>KOG2653 consensus 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]
Probab=21.32 E-value=6.4e+02 Score=30.14 Aligned_cols=40 Identities=13% Similarity=0.365 Sum_probs=22.9
Q ss_pred HhhhcChHHHHHHHHhhchhHHHHhhcccCChHHHHHHhhC
Q 001686 787 ALEVVHVDQQTQMVAELDGSVMKCVHDQNGNHVIQKCIECI 827 (1029)
Q Consensus 787 LLE~~s~eq~~~Lv~EL~~~i~~Lv~DqnGNhVIQk~Le~~ 827 (1029)
+++..+.-+....+-||...++. ++|..|.|++.+++...
T Consensus 222 vF~~WN~geleSfLieIT~dIlk-~~d~~G~~lv~kI~D~a 261 (487)
T KOG2653|consen 222 VFDDWNKGELESFLIEITADILK-FKDEDGKPLVDKILDKA 261 (487)
T ss_pred HHHhhcccchhHHHHHHhHHHhh-eeccCCChHHHHHHhhh
Confidence 33444444444444455444442 46777888888888754
No 91
>PF06025 DUF913: Domain of Unknown Function (DUF913); InterPro: IPR010314 This is a domain of unknown function found towards the N terminus of a family of E3 ubiquitin protein ligases, including yeast TOM1, many of which appear to play a role in mRNA transcription and processing. This domain is found in association with and immediately C-terminal to another domain of unknown function: IPR010309 from INTERPRO.
Probab=20.84 E-value=5.1e+02 Score=30.78 Aligned_cols=61 Identities=10% Similarity=0.175 Sum_probs=34.7
Q ss_pred HHHHHHHHHHhHhHHHhhc-Ccccceehhhhhh-ccCHHHHHHHHHHHhhhHHHhhhccccchhHhHHhhhc
Q 001686 722 EEKTRIFPEIIPHARTLMT-DVFGNYVIQKFFE-HGTESQRAQLASQLTGHVLRLSLQMYGCRVIQKALEVV 791 (1029)
Q Consensus 722 Eqr~~IfeEL~~~~leLmt-D~fGShVVQKLLe-~~s~eqr~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~ 791 (1029)
-++..+++.|..-+..++. +.-....+..+++ ..-..-.+.|++ + ...||..|+-.++..+
T Consensus 71 ~~r~~llK~lLk~l~~~~~~~~~~~~~lrnl~D~s~L~~sL~~Il~----n-----~~~FG~~v~s~a~~iv 133 (379)
T PF06025_consen 71 YQRQQLLKSLLKFLSHAMQHSGGFGDRLRNLIDSSSLLSSLKHILE----N-----PEVFGPSVFSLAINIV 133 (379)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCcccccccccchhhHHHHHHHHHh----C-----ccccchHHHHHHHHHH
Confidence 4566777777777777777 5555556655665 211211222221 1 2578888877776554
No 92
>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=20.82 E-value=8.3e+02 Score=25.04 Aligned_cols=109 Identities=14% Similarity=0.232 Sum_probs=60.4
Q ss_pred HHHhcCCcchHHHHHHHHHHHHHhhccCchHHHHHHHHHhhCCHHHHHHHHHHHhcCCCCChhHHHhhcCC-chHHHHHH
Q 001686 895 HVLEHGKPHERTTVITQLAGQIVRMSQQKFASNVVEKCLTFGSPEERQLLINEMLGSTDENEPLQAMMKDP-FGNYVVQK 973 (1029)
Q Consensus 895 ~LLe~~~~k~r~~Il~~L~g~lv~Ls~~K~GSrVVEkcL~~as~k~Rk~IIkeLlg~~d~~e~L~~La~D~-~GnyVVQk 973 (1029)
-.|+...|...-.|++.+.. ..-..+..|+..++.++..-+.++...+++-+.... .-+++. .|..|+..
T Consensus 19 LAl~L~~P~~ll~i~~~~~~--~~~~~~~~g~~~l~~~i~~L~~~~l~~LL~~ir~WN-------TNsr~~~vAQ~vL~~ 89 (141)
T PF08625_consen 19 LALKLDHPFRLLKILKDLLE--TEEDEDSIGSEELDEVIKKLDDEQLEKLLRFIRDWN-------TNSRTSHVAQRVLNA 89 (141)
T ss_pred HHHhcCCcHHHHHHHHHHHh--cccccccchHHHHHHHHHhcCHHHHHHHHHHHHHhh-------cccccHHHHHHHHHH
Confidence 34455556555555555543 112233347788888888887777777777665332 122222 35666667
Q ss_pred HHhcCChhHHHHHHHHHHHHHHHHhhCCCchHHHHHHHHHHH
Q 001686 974 VLETCDDQSLELILSRIRVHLNVLKKYTYGKHIVSRIEKLIA 1015 (1029)
Q Consensus 974 lLdt~ddt~Rk~ILseLk~hL~eLa~~~yGk~Il~~VEkl~~ 1015 (1029)
+|......+...+ ..++..+..|. +|-.|=..|++++++
T Consensus 90 il~~~~~~~L~~~-~~~~~~le~li--pYteRH~~Rl~~L~q 128 (141)
T PF08625_consen 90 ILKSHPPEELLKI-PGLKEILEALI--PYTERHFQRLDRLLQ 128 (141)
T ss_pred HHHhCCHHHHHcc-ccHHHHHHHHh--hhHHHHHHHHHHHHH
Confidence 7766666553211 23555555555 444555566666654
No 93
>PF14838 INTS5_C: Integrator complex subunit 5 C-terminus
Probab=20.78 E-value=1.9e+03 Score=28.42 Aligned_cols=20 Identities=25% Similarity=0.363 Sum_probs=16.2
Q ss_pred hhCCCcCHHHHHHhhcCCHH
Q 001686 703 STDQYGSRFIQQKLEAATAE 722 (1029)
Q Consensus 703 A~Dq~GSRvLQklLe~~S~E 722 (1029)
-+++.|.++|+-+|+.+.+.
T Consensus 111 ~~~~G~~~ll~~Lldta~~~ 130 (696)
T PF14838_consen 111 QCEQGAARLLQFLLDTASPA 130 (696)
T ss_pred hccccHHHHHHHHHHhcccc
Confidence 46788899999999987643
No 94
>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=20.67 E-value=9.1e+02 Score=24.61 Aligned_cols=75 Identities=20% Similarity=0.263 Sum_probs=44.0
Q ss_pred HHHHHHHHHhhCCHHHHHHHHH-HHhcCCCCChhHHHhhcCCchHHHHHHHHhcCChhHHHHHHHHHHHHHHHHhhCCCc
Q 001686 925 ASNVVEKCLTFGSPEERQLLIN-EMLGSTDENEPLQAMMKDPFGNYVVQKVLETCDDQSLELILSRIRVHLNVLKKYTYG 1003 (1029)
Q Consensus 925 GSrVVEkcL~~as~k~Rk~IIk-eLlg~~d~~e~L~~La~D~~GnyVVQklLdt~ddt~Rk~ILseLk~hL~eLa~~~yG 1003 (1029)
+=.++|.|++.++......|.. +++ +.|..|+.+ ..+...++++++-|..=...+...+.-
T Consensus 61 AL~LLe~~vkNCG~~fh~evas~~fl------~~l~~l~~~------------~~~~~Vk~kil~li~~W~~~f~~~~~l 122 (142)
T cd03569 61 ALLLLESCVKNCGTHFHDEVASREFM------DELKDLIKT------------TKNEEVRQKILELIQAWALAFRNKPQL 122 (142)
T ss_pred HHHHHHHHHHHCCHHHHHHHhhHHHH------HHHHHHHcc------------cCCHHHHHHHHHHHHHHHHHhCCCccc
Confidence 4567888888887766555443 333 335555554 244555666666666655556555444
Q ss_pred hHHHHHHHHHHHhC
Q 001686 1004 KHIVSRIEKLIATG 1017 (1029)
Q Consensus 1004 k~Il~~VEkl~~~g 1017 (1029)
..|...-+.+.+.|
T Consensus 123 ~~i~~~y~~L~~~G 136 (142)
T cd03569 123 KYVVDTYQILKAEG 136 (142)
T ss_pred HHHHHHHHHHHHcC
Confidence 45555556655554
No 95
>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=20.58 E-value=1.5e+02 Score=27.49 Aligned_cols=55 Identities=15% Similarity=0.263 Sum_probs=22.6
Q ss_pred HHhhcCCHHHHHHHHHHHhHhHHHhhcCcccceehhhhhhccCHHHHHHHHHHHh
Q 001686 714 QKLEAATAEEKTRIFPEIIPHARTLMTDVFGNYVIQKFFEHGTESQRAQLASQLT 768 (1029)
Q Consensus 714 klLe~~S~Eqr~~IfeEL~~~~leLmtD~fGShVVQKLLe~~s~eqr~~Li~~Lk 768 (1029)
.+|+..+.+++..+|..+......-.-...-.....++++..++++...|+..+.
T Consensus 8 ~~l~~l~~~~~~~~~~~l~~~~~a~vl~~l~~~~~~~il~~l~~~~~a~il~~m~ 62 (102)
T PF03448_consen 8 ELLEELPPEERAQLFRLLPPEKAAEVLEELDPDTQAEILEALSPEEAAEILAEMD 62 (102)
T ss_dssp HCCCTS-CCHHHHHHHHS-HHHHHHHHCTS-CCCCCHCCCCS-HHHHHHHHCCS-
T ss_pred HHHHhCCHHHHHHHHHhCCHHHHHHHHHcCCHHHHHHHHHhCCHHHHHHHHHccC
Confidence 3445555566666666654332211111111223334555555555555555443
No 96
>PF01603 B56: Protein phosphatase 2A regulatory B subunit (B56 family); InterPro: IPR002554 Protein phosphatase 2A (PP2A) is a major intracellular protein phosphatase that regulates multiple aspects of cell growth and metabolism. The ability of this widely distributed heterotrimeric enzyme to act on a diverse array of substrates is largely controlled by the nature of its regulatory B subunit. There are multiple families of B subunits, this family is called the B56 family [].; GO: 0008601 protein phosphatase type 2A regulator activity, 0007165 signal transduction, 0000159 protein phosphatase type 2A complex; PDB: 2NYM_B 2NYL_B 2IAE_E 2NPP_B 3FGA_B 2JAK_A.
Probab=20.55 E-value=1.5e+03 Score=27.07 Aligned_cols=25 Identities=20% Similarity=0.376 Sum_probs=13.3
Q ss_pred CcCHHHHHHhh---cCCHHHHHHHHHHH
Q 001686 707 YGSRFIQQKLE---AATAEEKTRIFPEI 731 (1029)
Q Consensus 707 ~GSRvLQklLe---~~S~Eqr~~IfeEL 731 (1029)
---.|+.++|. ..++.+|+.+..-+
T Consensus 130 i~~~fi~~Ll~l~~S~D~rER~~lk~~l 157 (409)
T PF01603_consen 130 IDQKFIKKLLELFDSPDPRERDYLKTIL 157 (409)
T ss_dssp S-HHHHHHHHHTTTSSTHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence 33455555554 45667777665444
No 97
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=20.32 E-value=1e+02 Score=39.26 Aligned_cols=100 Identities=13% Similarity=0.177 Sum_probs=46.1
Q ss_pred HHHHHHHhhhHHHhhhccccchhHhHHhhhcChHHHH---HHHHhhchhHHH---HhhcccC-------ChHHHHHHhhC
Q 001686 761 AQLASQLTGHVLRLSLQMYGCRVIQKALEVVHVDQQT---QMVAELDGSVMK---CVHDQNG-------NHVIQKCIECI 827 (1029)
Q Consensus 761 ~~Li~~Lkg~~~~Ls~d~yGSrVVQkLLE~~s~eq~~---~Lv~EL~~~i~~---Lv~DqnG-------NhVIQk~Le~~ 827 (1029)
.+|.+..+-.+..+..-++=...|.|++..|..+++. .+++.|.....+ .-+|.+| .+.++++++|.
T Consensus 24 sKi~~ITkaAikaIk~ykhVVqsVeKfi~kCkpe~Kl~gLYVIDSIVRqsrhq~~~~kd~F~prf~~n~~~tf~~L~~c~ 103 (894)
T KOG0132|consen 24 SKILKITKAAIKAIKLYKHVVQSVEKFIKKCKPEYKLPGLYVIDSIVRQSRHQFGKEKDVFGPRFSKNFTGTFQNLYECP 103 (894)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccccCeeEEehHHHHHHHHhhcccccccCCccchhHHHHHHHHHhcC
Confidence 3344333344444444444445566777777777663 233332211111 1123333 35567777774
Q ss_pred ChhHHHHHHHhhhhhhhhhccCccchhhHHHHhhhcC
Q 001686 828 PQDRIQFIISSFYGQVVALSTHPYGCRVIQRVLEHCD 864 (1029)
Q Consensus 828 ~~e~~q~Iie~f~g~lvsLs~hk~GS~VIQklLe~~~ 864 (1029)
. +.+..||..+- ++. ...-|-+.+||.+++.|+
T Consensus 104 ~-edks~iIrvlN--lwq-kn~VfK~e~IqpLlDm~~ 136 (894)
T KOG0132|consen 104 Q-EDKSDIIRVLN--LWQ-KNNVFKSEIIQPLLDMAD 136 (894)
T ss_pred H-HHHHHHHHhhh--hhh-cccchhHHHHHHHHHHHh
Confidence 4 33444443321 110 011144557888888665
Done!