Query 007100
Match_columns 618
No_of_seqs 137 out of 275
Neff 7.4
Searched_HMMs 46136
Date Thu Mar 28 18:55:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007100.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007100hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2280 Vacuolar assembly/sort 100.0 5E-154 1E-158 1242.2 56.8 587 1-599 222-813 (829)
2 PF04840 Vps16_C: Vps16, C-ter 100.0 3.2E-81 6.8E-86 653.1 36.6 316 283-610 1-318 (319)
3 PF04841 Vps16_N: Vps16, N-ter 100.0 2.5E-57 5.5E-62 491.8 17.9 189 1-189 222-410 (410)
4 PF09787 Golgin_A5: Golgin sub 98.9 4.5E-08 9.9E-13 109.7 18.6 246 319-574 158-467 (511)
5 PF04840 Vps16_C: Vps16, C-ter 98.5 3.4E-06 7.5E-11 88.9 18.1 227 107-349 73-303 (319)
6 KOG4677 Golgi integral membran 98.2 4.4E-05 9.6E-10 80.6 16.7 284 301-595 191-510 (554)
7 PLN03077 Protein ECB2; Provisi 97.3 0.66 1.4E-05 55.8 36.0 108 474-582 528-651 (857)
8 KOG2280 Vacuolar assembly/sort 97.3 0.0032 6.9E-08 71.1 13.9 162 173-347 647-809 (829)
9 PLN03081 pentatricopeptide (PP 97.3 0.3 6.6E-06 57.3 31.3 88 218-309 89-185 (697)
10 PLN03218 maturation of RBCL 1; 97.0 0.76 1.7E-05 56.3 31.4 85 221-306 411-496 (1060)
11 KOG1920 IkappaB kinase complex 97.0 0.11 2.4E-06 61.9 22.8 236 308-595 824-1065(1265)
12 PLN03077 Protein ECB2; Provisi 96.5 3 6.4E-05 50.3 34.5 112 473-584 326-452 (857)
13 PLN03218 maturation of RBCL 1; 96.4 4 8.6E-05 50.3 32.0 113 471-583 615-746 (1060)
14 PLN03081 pentatricopeptide (PP 96.2 3.8 8.2E-05 48.1 37.3 341 194-585 178-557 (697)
15 KOG2066 Vacuolar assembly/sort 94.5 12 0.00026 43.5 31.6 71 529-599 633-704 (846)
16 KOG1811 Predicted Zn2+-binding 93.2 18 0.00039 40.9 21.7 110 486-595 981-1121(1141)
17 PF13934 ELYS: Nuclear pore co 91.6 4.4 9.5E-05 40.8 13.8 109 487-595 64-182 (226)
18 smart00299 CLH Clathrin heavy 91.1 6.2 0.00013 35.9 13.4 92 500-592 40-132 (140)
19 PF00637 Clathrin: Region in C 90.2 0.097 2.1E-06 48.2 0.3 121 475-596 12-136 (143)
20 PF04053 Coatomer_WDAD: Coatom 89.9 8.7 0.00019 42.7 15.4 73 2-82 151-239 (443)
21 KOG1920 IkappaB kinase complex 89.3 0.97 2.1E-05 54.3 7.6 95 491-585 882-994 (1265)
22 KOG0985 Vesicle coat protein c 89.0 19 0.00042 43.2 17.3 261 333-599 980-1263(1666)
23 smart00299 CLH Clathrin heavy 88.4 8.6 0.00019 35.0 12.0 125 215-346 6-134 (140)
24 KOG3616 Selective LIM binding 87.2 63 0.0014 37.7 19.5 52 289-340 538-589 (1636)
25 KOG3617 WD40 and TPR repeat-co 87.0 24 0.00051 41.6 16.2 261 220-538 1097-1370(1416)
26 PF04053 Coatomer_WDAD: Coatom 83.1 3.1 6.8E-05 46.1 7.3 96 1-104 38-145 (443)
27 KOG2111 Uncharacterized conser 80.2 5.3 0.00011 41.7 7.0 73 1-75 232-322 (346)
28 KOG0276 Vesicle coat complex C 79.2 4.9 0.00011 45.3 6.9 105 1-113 357-472 (794)
29 PF14649 Spatacsin_C: Spatacsi 77.7 97 0.0021 32.5 21.2 103 421-525 166-277 (296)
30 COG4946 Uncharacterized protei 77.5 6.8 0.00015 42.9 7.2 121 1-122 407-548 (668)
31 KOG0292 Vesicle coat complex C 77.0 3.6 7.9E-05 48.1 5.2 77 514-595 606-682 (1202)
32 KOG1445 Tumor-specific antigen 75.9 10 0.00022 43.0 8.0 55 1-55 726-782 (1012)
33 PF04841 Vps16_N: Vps16, N-ter 75.9 8.3 0.00018 42.4 7.7 92 1-95 34-148 (410)
34 PF12894 Apc4_WD40: Anaphase-p 73.5 4.7 0.0001 30.1 3.4 29 1-29 17-45 (47)
35 PF10493 Rod_C: Rough deal pro 71.1 1.1E+02 0.0023 35.2 15.2 71 276-356 468-541 (551)
36 PF00637 Clathrin: Region in C 70.8 0.26 5.6E-06 45.3 -4.9 80 267-350 59-138 (143)
37 KOG0263 Transcription initiati 69.3 7.7 0.00017 44.7 5.5 64 1-73 583-646 (707)
38 PF07035 Mic1: Colon cancer-as 66.8 42 0.00092 32.1 9.2 83 500-583 28-116 (167)
39 KOG2041 WD40 repeat protein [G 66.3 2.7E+02 0.0058 32.7 20.3 160 376-582 822-987 (1189)
40 COG5290 IkappaB kinase complex 65.0 3E+02 0.0065 32.8 22.2 83 507-593 954-1045(1243)
41 KOG3616 Selective LIM binding 61.6 3.3E+02 0.0072 32.2 25.3 333 219-593 911-1329(1636)
42 KOG1538 Uncharacterized conser 59.0 1.4E+02 0.003 34.6 12.5 128 470-612 630-760 (1081)
43 PF07899 Frigida: Frigida-like 54.2 88 0.0019 32.8 9.8 155 86-253 26-215 (290)
44 PF13929 mRNA_stabil: mRNA sta 54.0 2E+02 0.0044 30.0 12.1 67 489-555 189-263 (292)
45 PF13429 TPR_15: Tetratricopep 53.8 13 0.00029 38.0 3.7 25 500-524 109-133 (280)
46 KOG1070 rRNA processing protei 51.2 4E+02 0.0086 33.9 15.4 205 352-595 1443-1660(1710)
47 PRK11788 tetratricopeptide rep 50.9 3.3E+02 0.007 28.8 20.1 112 481-592 191-322 (389)
48 cd00200 WD40 WD40 domain, foun 50.3 51 0.0011 31.7 7.1 65 1-66 15-81 (289)
49 PRK00400 hisE phosphoribosyl-A 49.6 76 0.0016 28.0 7.1 83 267-363 6-91 (105)
50 KOG2066 Vacuolar assembly/sort 49.6 67 0.0015 37.7 8.5 99 6-105 82-199 (846)
51 TIGR03866 PQQ_ABC_repeats PQQ- 49.1 1.1E+02 0.0025 30.4 9.7 48 2-51 79-127 (300)
52 PRK10747 putative protoheme IX 48.8 3.8E+02 0.0083 29.0 20.7 101 477-578 270-383 (398)
53 PF12796 Ank_2: Ankyrin repeat 48.7 51 0.0011 26.9 5.8 70 266-344 9-79 (89)
54 KOG0299 U3 snoRNP-associated p 47.6 28 0.00061 38.1 4.9 46 86-131 300-345 (479)
55 PRK11788 tetratricopeptide rep 47.6 2.7E+02 0.0058 29.4 12.8 106 476-581 147-274 (389)
56 KOG1524 WD40 repeat-containing 47.2 1.2E+02 0.0026 34.2 9.6 118 219-346 576-706 (737)
57 KOG2114 Vacuolar assembly/sort 46.4 5.4E+02 0.012 30.9 15.0 161 367-572 368-531 (933)
58 PF15492 Nbas_N: Neuroblastoma 44.3 42 0.0009 34.7 5.3 53 1-54 3-59 (282)
59 PF02259 FAT: FAT domain; Int 44.3 1E+02 0.0022 32.2 8.7 68 507-574 4-86 (352)
60 PF00400 WD40: WD domain, G-be 43.4 27 0.00058 23.7 2.8 22 1-22 17-38 (39)
61 cd00200 WD40 WD40 domain, foun 39.9 1.9E+02 0.0041 27.6 9.4 64 1-65 183-248 (289)
62 PF07494 Reg_prop: Two compone 39.8 51 0.0011 20.6 3.3 19 6-24 4-23 (24)
63 KOG3617 WD40 and TPR repeat-co 39.5 7.7E+02 0.017 29.9 26.8 50 547-596 1025-1075(1416)
64 PF03177 Nucleoporin_C: Non-re 38.9 1.3E+02 0.0028 34.5 9.1 142 315-461 272-452 (586)
65 COG4946 Uncharacterized protei 38.6 1.4E+02 0.0031 33.2 8.4 91 3-97 86-194 (668)
66 PRK10747 putative protoheme IX 38.3 1.5E+02 0.0032 32.3 8.9 66 515-580 98-177 (398)
67 PF12110 Nup96: Nuclear protei 38.0 1.1E+02 0.0025 31.8 7.7 59 558-617 1-59 (290)
68 PF08662 eIF2A: Eukaryotic tra 37.6 1E+02 0.0022 29.9 6.9 52 1-55 106-160 (194)
69 KOG2048 WD40 repeat protein [G 37.4 1.2E+02 0.0027 34.9 8.0 64 1-64 481-546 (691)
70 PF10647 Gmad1: Lipoprotein Lp 37.1 66 0.0014 32.8 5.6 56 1-56 117-183 (253)
71 KOG1900 Nuclear pore complex, 36.3 4.5E+02 0.0097 33.1 12.9 123 379-512 1010-1138(1311)
72 PRK13616 lipoprotein LpqB; Pro 35.2 1.1E+02 0.0024 35.4 7.6 68 1-69 453-530 (591)
73 PRK14574 hmsH outer membrane p 34.7 9.1E+02 0.02 29.3 16.3 109 473-581 206-352 (822)
74 KOG0293 WD40 repeat-containing 34.1 67 0.0014 35.0 5.1 49 2-51 231-282 (519)
75 PF15651 Tox-SGS: Salivary gla 33.9 1.2E+02 0.0026 26.5 5.7 65 3-68 8-72 (100)
76 PF09384 UTP15_C: UTP15 C term 33.7 4E+02 0.0086 24.8 10.3 38 313-350 23-61 (148)
77 TIGR03042 PS_II_psbQ_bact phot 33.7 2.3E+02 0.0049 26.5 7.9 71 508-594 55-129 (142)
78 KOG0290 Conserved WD40 repeat- 33.4 53 0.0012 34.2 4.1 90 8-99 256-363 (364)
79 PLN02956 PSII-Q subunit 32.6 1.4E+02 0.0029 29.1 6.4 87 504-611 95-184 (185)
80 PF09295 ChAPs: ChAPs (Chs5p-A 32.1 2.3E+02 0.005 31.0 9.1 104 473-578 171-290 (395)
81 KOG2034 Vacuolar sorting prote 31.6 92 0.002 37.1 6.1 64 528-591 502-565 (911)
82 KOG0288 WD40 repeat protein Ti 31.4 46 0.00099 36.1 3.4 52 2-55 394-448 (459)
83 KOG0645 WD40 repeat protein [G 31.3 1.8E+02 0.004 30.1 7.4 63 1-66 111-180 (312)
84 KOG0771 Prolactin regulatory e 31.2 37 0.0008 36.7 2.7 29 1-29 287-316 (398)
85 PRK02759 bifunctional phosphor 30.8 4.1E+02 0.0089 26.3 9.6 83 267-363 117-202 (203)
86 PF13838 Clathrin_H_link: Clat 30.5 2.8E+02 0.0061 22.3 6.9 35 559-593 9-48 (66)
87 KOG0276 Vesicle coat complex C 30.5 2.5E+02 0.0054 32.4 8.9 29 370-398 728-756 (794)
88 PF07676 PD40: WD40-like Beta 30.4 55 0.0012 22.5 2.7 14 2-15 15-28 (39)
89 KOG0547 Translocase of outer m 29.9 1.1E+02 0.0024 34.3 6.0 44 539-582 124-175 (606)
90 PF08822 DUF1804: Protein of u 29.7 3.4E+02 0.0073 26.0 8.5 107 473-581 7-117 (165)
91 PF15525 DUF4652: Domain of un 29.6 2.2E+02 0.0048 27.8 7.3 54 4-57 66-130 (200)
92 PF13637 Ank_4: Ankyrin repeat 29.6 1.6E+02 0.0035 21.7 5.4 48 290-343 6-53 (54)
93 KOG3717 Carnitine O-acyltransf 29.5 2.6E+02 0.0056 31.8 8.8 117 172-320 399-523 (612)
94 PF12796 Ank_2: Ankyrin repeat 29.4 1.1E+02 0.0023 24.9 4.8 46 290-345 2-47 (89)
95 PF10493 Rod_C: Rough deal pro 29.3 9.2E+02 0.02 27.7 26.0 162 446-608 334-532 (551)
96 KOG0271 Notchless-like WD40 re 29.1 2E+02 0.0044 31.1 7.6 91 1-94 373-471 (480)
97 TIGR02917 PEP_TPR_lipo putativ 28.9 9.7E+02 0.021 27.8 33.3 100 480-579 577-692 (899)
98 PF12616 DUF3775: Protein of u 28.0 1.5E+02 0.0033 24.5 5.2 62 547-613 4-74 (75)
99 PF08625 Utp13: Utp13 specific 27.7 1E+02 0.0022 28.6 4.7 53 561-613 2-59 (141)
100 KOG0649 WD40 repeat protein [G 27.7 1.2E+02 0.0026 30.9 5.4 22 2-23 17-38 (325)
101 PF04762 IKI3: IKI3 family; I 27.5 51 0.0011 40.3 3.3 85 497-594 808-901 (928)
102 PRK10941 hypothetical protein; 27.4 1.7E+02 0.0037 30.2 6.8 48 559-616 218-265 (269)
103 KOG1963 WD40 repeat protein [G 27.2 1.2E+02 0.0026 35.9 6.0 75 2-83 212-321 (792)
104 PF05917 DUF874: Helicobacter 27.1 70 0.0015 33.0 3.6 90 234-335 49-147 (398)
105 COG0140 HisI Phosphoribosyl-AT 26.8 4.1E+02 0.009 22.9 8.2 83 267-362 2-86 (92)
106 KOG1538 Uncharacterized conser 26.0 2.2E+02 0.0047 33.1 7.5 126 469-595 555-697 (1081)
107 KOG4121 Nuclear pore complex, 25.9 6E+02 0.013 31.2 11.3 91 314-404 778-894 (1128)
108 KOG2055 WD40 repeat protein [G 25.7 73 0.0016 35.1 3.7 146 2-176 310-457 (514)
109 TIGR03188 histidine_hisI phosp 24.7 4.3E+02 0.0093 22.3 8.7 76 267-356 2-80 (84)
110 KOG0650 WD40 repeat nucleolar 23.9 1.2E+02 0.0027 34.5 5.1 63 1-65 406-471 (733)
111 KOG2041 WD40 repeat protein [G 23.4 1.3E+03 0.028 27.4 13.2 98 506-609 765-862 (1189)
112 TIGR02959 SigZ RNA polymerase 23.3 1.6E+02 0.0034 27.7 5.3 50 486-535 116-167 (170)
113 PF13371 TPR_9: Tetratricopept 22.8 3.1E+02 0.0066 21.1 6.2 52 539-599 4-63 (73)
114 KOG0273 Beta-transducin family 22.7 1.2E+02 0.0026 33.6 4.6 61 1-63 458-520 (524)
115 KOG1274 WD40 repeat protein [G 22.3 1.6E+02 0.0035 35.2 5.9 24 1-24 144-167 (933)
116 KOG0282 mRNA splicing factor [ 22.2 1.2E+02 0.0026 33.7 4.5 45 2-47 439-483 (503)
117 KOG1274 WD40 repeat protein [G 22.2 66 0.0014 38.3 2.7 24 2-25 239-262 (933)
118 PF10037 MRP-S27: Mitochondria 22.2 2.1E+02 0.0045 31.8 6.5 49 535-583 108-165 (429)
119 PLN00181 protein SPA1-RELATED; 22.1 2.5E+02 0.0054 33.6 7.8 33 1-33 714-746 (793)
120 KOG0553 TPR repeat-containing 21.9 99 0.0021 32.4 3.7 34 548-581 106-140 (304)
121 TIGR02795 tol_pal_ybgF tol-pal 21.0 4.9E+02 0.011 21.6 8.3 55 502-556 3-65 (119)
122 PF06977 SdiA-regulated: SdiA- 20.9 2.4E+02 0.0052 28.8 6.3 63 2-65 28-93 (248)
123 PF09142 TruB_C: tRNA Pseudour 20.6 74 0.0016 24.6 1.9 18 2-19 31-48 (56)
124 PF02239 Cytochrom_D1: Cytochr 20.2 1.3E+02 0.0028 32.5 4.5 44 2-47 43-86 (369)
125 COG4783 Putative Zn-dependent 20.2 9.2E+02 0.02 27.1 10.8 95 481-584 351-453 (484)
No 1
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.6e-154 Score=1242.17 Aligned_cols=587 Identities=42% Similarity=0.694 Sum_probs=575.1
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEEECCeEEEEeCCCCceEeecCCCeEE
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLYWNDMLVMVAPQAEPVQYFYDEPLVL 80 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~~~~l~l~g~~~~~~~~~~~~~~~l 80 (618)
|+||||++||||||++|++||+|.|+++++|||+++...+|.||+|||||+|+++|++.+.++||.|+++.|+|+.+++|
T Consensus 222 i~VS~n~~~laLyt~~G~i~~vs~D~~~~lce~~~~~~~~p~qm~WcgndaVvl~~e~~l~lvgp~gd~V~f~yd~t~~l 301 (829)
T KOG2280|consen 222 ISVSPNRRFLALYTETGKIWVVSIDLSQILCEFNCTDHDPPKQMAWCGNDAVVLSWEVNLMLVGPPGDSVQFYYDETAIL 301 (829)
T ss_pred EEEcCCcceEEEEecCCcEEEEecchhhhhhccCCCCCCchHhceeecCCceEEEEeeeEEEEcCCCCccccccCCCcee
Confidence 68999999999999999999999999999999999989999999999999999999999999999999999999999999
Q ss_pred eecCCceEEeccCcchhhhccchhhhhhhccCCCChHHHHHHHHHHHhccCchhHHHHHHhhhhHHHHHHHHHHHccccC
Q 007100 81 IPECDGVRILSNSSMEFLQRVPASTEQIFAIGSTSPAALLYDALDHFDRRSAKADENLRLIRASLPKAVEACIDAAGHEF 160 (618)
Q Consensus 81 ~~e~Dg~riit~~~~~~l~~Vp~~~~~if~igS~~P~a~L~~a~~~~~~~~~~a~e~lr~i~~~L~~AV~~CI~AA~~e~ 160 (618)
++|+|||||||++++|||+|||+++++||+|||++|||+|++|.++|++++++|||+|++++++|..||++||+||++||
T Consensus 302 ~~E~DGVRI~t~t~~EFl~rvp~~~enIF~igS~ePgA~L~eA~q~~e~~S~kade~L~~~~e~L~~aV~~CI~aA~~ef 381 (829)
T KOG2280|consen 302 SAEVDGVRIITSTSHEFLQRVPAETENIFKIGSTEPGALLYEAFQKMEQKSGKADEYLSEIREDLYKAVDDCIEAACDEF 381 (829)
T ss_pred eeccCeeEEeccchHHHHHhCChhhhhHhhcCCCCchHHHHHHHHHHhhcchhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHhhhhhhccCCChhHHHHHhhhhhHHhccCCCCCcccccHHHHhcCChHHHHHHHHhcCChHHHHHHHH
Q 007100 161 DISRQRTLLRAASYGQAFCSNFQRDRIQEMCKTLRVLNAARDPEIGIPLSIQQYKSLTASVLIGRLINANCHLLALRISE 240 (618)
Q Consensus 161 d~~~Qk~LL~AAsfGk~~~~~~~~~~fv~~c~~LRVLn~lr~~~igi~lT~~q~~~l~~~~li~rL~~r~~~~lA~~I~~ 240 (618)
.|++||.||+||||||+|+.++|+++|+.+|+.|||||++|.+.+|||||++||.+|+.+++|+||+.|++|.+|++||+
T Consensus 382 ~pe~QK~LL~AAsfGk~~l~~~~~d~~~~v~~~lrVln~~r~~~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~ 461 (829)
T KOG2280|consen 382 QPEEQKSLLRAASFGKASLRTPNPDEYMRVCRELRVLNALRDVRIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAK 461 (829)
T ss_pred CHHHHHHHHHHHhhcccccccCChHHHHHHHHHHHHHhhhcccccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhCCCh---hHHHHHHHHHHhhhcCCCChHHHHHHHHHhhcc--CCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccch
Q 007100 241 YLGMNQ---EVVIMHWACSKITASLAIPDVTLLEILLDKLKL--CKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQV 315 (618)
Q Consensus 241 ~l~~~~---~~I~~~WA~~kI~~~~~~~D~~l~~~I~~kl~~--~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV 315 (618)
+++.|. ++||.|||+.|| +.++.+|+++++.|.+||+. .+||||++||++|+++||++||++|+++||+...||
T Consensus 462 ~l~~p~~~~~~Vl~~Wa~~kI-~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV 540 (829)
T KOG2280|consen 462 LLNLPESQGDRVLLEWARRKI-KQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQV 540 (829)
T ss_pred HhCCccccccHHHHHHHHHHH-hccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchh
Confidence 999998 899999999999 45589999999999999998 999999999999999999999999999999999999
Q ss_pred hhhhhcCchHHHHHHHHHcCChhHHHHHHHHHHhhCChhHHHHHHhcChhHHHHHHHHHHhcCHHHHHHHHHhcCChHHH
Q 007100 316 PLLLSIGEEDTALVKATESGDTDLVYLVIFHIWQKRPALEFFGMIQTRPLACDLFTVYARCYKHEFLKDFFLSTGQLQEV 395 (618)
Q Consensus 316 ~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl~l~~~l~~~~f~~~l~~~p~A~~l~~~y~~~~~~~~L~d~~~q~d~~~e~ 395 (618)
|+||+|++++.||.||++|||+|||++||+||+++++.++|+++|+..|.|.++|..|+|+++...|+|||+|+|++.++
T Consensus 541 ~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~ 620 (829)
T KOG2280|consen 541 PLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQAL 620 (829)
T ss_pred HHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHhhhhhcccccHHHHHHHHHHHHHHHHHHHHhhcccccccCCCHHH
Q 007100 396 AFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHSLFSETKEHTFESKAAEEHAKLLRIQHELEVSTKQAIFVDSSISD 475 (618)
Q Consensus 396 a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~~~~~~~~~~f~~~~~~e~~~Ll~~Q~~Le~~~~~~~f~~~Sl~~ 475 (618)
|.++++..+..+..+ ++...|+.+.+.|.++++..|++++++++++|+.+|..|+..++ .+|+|+||+|
T Consensus 621 a~~~~q~~~~~~~~~----------~r~~~lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~-~~f~dlSl~d 689 (829)
T KOG2280|consen 621 ASFHLQASYAAETIE----------GRIPALKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLEDQFG-GSFVDLSLHD 689 (829)
T ss_pred hhhhhhhhhhhhhhc----------ccchhHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhc-cccccCcHHH
Confidence 999999987766665 88999999999999999999999999999999999999999998 6899999999
Q ss_pred HHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHhhccCCCCCCchHHHHHHHhcCCHHHHHHhhcc
Q 007100 476 TIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALERFSKEKRPPIGYRPFVEACVDADEKGEALKYIPK 555 (618)
Q Consensus 476 Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~~eA~kyI~k 555 (618)
||.+|+..|+.+.|++|+++||||||||||+||.+|++.++|++|++|++||||||||+|||++|+++||++||.|||+|
T Consensus 690 Tv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskksPIGy~PFVe~c~~~~n~~EA~KYipr 769 (829)
T KOG2280|consen 690 TVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKKSPIGYLPFVEACLKQGNKDEAKKYIPR 769 (829)
T ss_pred HHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccCCCCCchhHHHHHHhcccHHHHhhhhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHccCCh
Q 007100 556 LVDPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFAQNA 599 (618)
Q Consensus 556 i~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~~~~ 599 (618)
|++..+|+++|+++|++++|++.|+++||...|..++.+++.++
T Consensus 770 v~~l~ekv~ay~~~~~~~eAad~A~~~rd~~~L~ev~~~~~~~~ 813 (829)
T KOG2280|consen 770 VGGLQEKVKAYLRVGDVKEAADLAAEHRDGAELSEVLSKCTGAP 813 (829)
T ss_pred cCChHHHHHHHHHhccHHHHHHHHHHhcChHHHHHHHHhcCCCC
Confidence 99888999999999999999999999999999999999996443
No 2
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=100.00 E-value=3.2e-81 Score=653.10 Aligned_cols=316 Identities=45% Similarity=0.711 Sum_probs=304.7
Q ss_pred CCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHHHHHHhhCChhHHHHHHhc
Q 007100 283 ISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVIFHIWQKRPALEFFGMIQT 362 (618)
Q Consensus 283 is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl~l~~~l~~~~f~~~l~~ 362 (618)
|||++||.+|+++||++||++||++||++++|||+||+||+++.||.+|++||||||||+||+||+++++.++|+++|++
T Consensus 1 IS~a~IA~~A~~~GR~~LA~~LL~~Ep~~~~qVplLL~m~e~e~AL~kAi~SgD~DLi~~vLl~L~~~l~~s~f~~il~~ 80 (319)
T PF04840_consen 1 ISYAEIARKAYEEGRPKLATKLLELEPRASKQVPLLLKMGEDELALNKAIESGDTDLIYLVLLHLKRKLSLSQFFKILNQ 80 (319)
T ss_pred CCHHHHHHHHHHcChHHHHHHHHHcCCChHHHHHHHhcCCchHHHHHHHHHcCCccHHHHHHHHHHHhCCHHHHHHHHHh
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChhHHHHHHHHHHhcCHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHhhhhhcccccHH
Q 007100 363 RPLACDLFTVYARCYKHEFLKDFFLSTGQLQEVAFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHSLFSETKEHTFE 442 (618)
Q Consensus 363 ~p~A~~l~~~y~~~~~~~~L~d~~~q~d~~~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~~~~~~~~~~f~ 442 (618)
+|.|.++|..|||+++++.|.+||+|+|++.++|.+.+++++++.+.+ +|.+.|++|.+.|++.+++.|+
T Consensus 81 ~p~a~~l~~~~~r~~~~~~L~~~y~q~d~~~~~a~~~l~~~~~~~~~~----------~~~~~L~~a~~~y~~~k~~~f~ 150 (319)
T PF04840_consen 81 NPVASNLYKKYCREQDRELLKDFYYQEDRFQELANLHLQEALSQKDVE----------EKISFLKQAQKLYSKSKNDAFE 150 (319)
T ss_pred CcchHHHHHHHHHhccHHHHHHHHHhcchHHHHHHHHHHHHHhCCChH----------HHHHHHHHHHHHHHhcchhHHH
Confidence 999999999999999999999999999999999999999999887776 8999999999999999988999
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccccCCCHHHHHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHH
Q 007100 443 SKAAEEHAKLLRIQHELEVSTKQAIFVDSSISDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALER 522 (618)
Q Consensus 443 ~~~~~e~~~Ll~~Q~~Le~~~~~~~f~~~Sl~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~ 522 (618)
++++++|++|+++|++|+++++ .+|+|+||++||++|+.+|+.+.|++|+++||||||||||+||++||++++|++|++
T Consensus 151 ~~~~e~q~~Ll~~Q~~Le~~~~-~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~ 229 (319)
T PF04840_consen 151 AKLIEEQIKLLEYQKELEEKYN-TNFVGLSLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEK 229 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc-cchhcCCHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHH
Confidence 9999999999999999999998 779999999999999999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCCchHHHHHHHhcCCHHHHHHhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHccCCh-H-
Q 007100 523 FSKEKRPPIGYRPFVEACVDADEKGEALKYIPKLVDPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFAQNA-A- 600 (618)
Q Consensus 523 f~~sKKspIgyepfv~~~~~~~~~~eA~kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~~~~-~- 600 (618)
|+++|||||||+|||++|+++|++.+|.+||++|++ ++|++||++||+|.+|+++|++.||.+.|..|+++||+|+ +
T Consensus 230 fa~skKsPIGyepFv~~~~~~~~~~eA~~yI~k~~~-~~rv~~y~~~~~~~~A~~~A~~~kd~~~L~~i~~~~~~~~~~~ 308 (319)
T PF04840_consen 230 FAKSKKSPIGYEPFVEACLKYGNKKEASKYIPKIPD-EERVEMYLKCGDYKEAAQEAFKEKDIDLLKQILKRCPGNNDQL 308 (319)
T ss_pred HHhCCCCCCChHHHHHHHHHCCCHHHHHHHHHhCCh-HHHHHHHHHCCCHHHHHHHHHHcCCHHHHHHHHHHCCCCChHH
Confidence 999999999999999999999999999999999985 9999999999999999999999999999999999998765 2
Q ss_pred HHHHHHHHHH
Q 007100 601 ASSIFDTLRD 610 (618)
Q Consensus 601 ~~~~i~~~~~ 610 (618)
..+.|+++++
T Consensus 309 ~~~~i~~~~~ 318 (319)
T PF04840_consen 309 IADKIEQMLA 318 (319)
T ss_pred HHHHHHHHHh
Confidence 3356776654
No 3
>PF04841 Vps16_N: Vps16, N-terminal region; InterPro: IPR006926 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=100.00 E-value=2.5e-57 Score=491.76 Aligned_cols=189 Identities=51% Similarity=0.912 Sum_probs=186.5
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEEECCeEEEEeCCCCceEeecCCCeEE
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLYWNDMLVMVAPQAEPVQYFYDEPLVL 80 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~~~~l~l~g~~~~~~~~~~~~~~~l 80 (618)
|++||||++||+||++|++||+|+||+++++|+|++...+|.||+|||+|||+++|+++++|+||++++++|+|++++++
T Consensus 222 iavSpng~~iAl~t~~g~l~v~ssDf~~~~~e~~~~~~~~p~~~~WCG~dav~l~~~~~l~lvg~~~~~~~~~~~~~~~l 301 (410)
T PF04841_consen 222 IAVSPNGKFIALFTDSGNLWVVSSDFSEKLCEFDTDSKSPPKQMAWCGNDAVVLSWEDELLLVGPDGDSISFWYDGPVIL 301 (410)
T ss_pred EEECCCCCEEEEEECCCCEEEEECcccceeEEeecCcCCCCcEEEEECCCcEEEEeCCEEEEECCCCCceEEeccCceEE
Confidence 78999999999999999999999999999999999988899999999999999999999999999999999999999999
Q ss_pred eecCCceEEeccCcchhhhccchhhhhhhccCCCChHHHHHHHHHHHhccCchhHHHHHHhhhhHHHHHHHHHHHccccC
Q 007100 81 IPECDGVRILSNSSMEFLQRVPASTEQIFAIGSTSPAALLYDALDHFDRRSAKADENLRLIRASLPKAVEACIDAAGHEF 160 (618)
Q Consensus 81 ~~e~Dg~riit~~~~~~l~~Vp~~~~~if~igS~~P~a~L~~a~~~~~~~~~~a~e~lr~i~~~L~~AV~~CI~AA~~e~ 160 (618)
++|+||+||||+++||||||||+++++||+|||++|||+|++|+++|++++|+|||+||.|+++|++||++||+||++||
T Consensus 302 ~~E~DG~riit~~~~~~l~~Vp~~~~~if~igs~~p~a~L~~a~~~~~~~~~~a~e~lr~i~~~L~~Av~~Ci~AA~~e~ 381 (410)
T PF04841_consen 302 VSEIDGVRIITSTSHEFLQRVPDSTENIFRIGSTSPGAILLDAYEEFEKRSPKADEYLRSIKDQLEEAVDDCIDAAGYEF 381 (410)
T ss_pred eccCCceEEEeCCceEEEEECCHHHHHHhcccCCCccHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHhhhhhhccCCChhHHHH
Q 007100 161 DISRQRTLLRAASYGQAFCSNFQRDRIQE 189 (618)
Q Consensus 161 d~~~Qk~LL~AAsfGk~~~~~~~~~~fv~ 189 (618)
||.+||+||+||+|||+|++.++++.||+
T Consensus 382 d~~~Qk~LL~AAsfGk~fl~~~~~d~fv~ 410 (410)
T PF04841_consen 382 DPDWQKRLLRAASFGKSFLDNYNPDEFVR 410 (410)
T ss_pred CHHHHHHHHHHHHhchhhhccCCchhccC
Confidence 99999999999999999999999999984
No 4
>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure. They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].
Probab=98.91 E-value=4.5e-08 Score=109.72 Aligned_cols=246 Identities=15% Similarity=0.121 Sum_probs=186.1
Q ss_pred hhcCchHHHHHHHHHcCChhHHHHHHHHHHhhCChhHHHHHHhcChhHHHHHHHHHHh-cCHHHHHHHHHhcCChHHHHH
Q 007100 319 LSIGEEDTALVKATESGDTDLVYLVIFHIWQKRPALEFFGMIQTRPLACDLFTVYARC-YKHEFLKDFFLSTGQLQEVAF 397 (618)
Q Consensus 319 l~~~~~~~AL~kAi~S~D~dLI~~vLl~l~~~l~~~~f~~~l~~~p~A~~l~~~y~~~-~~~~~L~d~~~q~d~~~e~a~ 397 (618)
-.|.+--.-|+.|+..+|++.+..++.|+++++....|+..|...|.|..+|..|.++ ++.+.+.+.+...++..++++
T Consensus 158 ~sL~ekl~lld~al~~~~~~~~~~~~~fl~rtl~~e~~~~~L~~~~~A~~~~~~~l~~~~e~~~~l~l~~~~~~~~~~el 237 (511)
T PF09787_consen 158 RSLQEKLSLLDEALKREDGNAITAVVEFLKRTLKKEIERQELEERPKALRHYIEYLRESGELQEQLELLKAEGESEEAEL 237 (511)
T ss_pred hhHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 4455556678999999999999999999999999999999999999999999999987 688889999999999999999
Q ss_pred HHHHH-HHhc-CCCCCCCCCCCCcchHHHHHHH-HHh-hhhh------cccccHHHHHHHHHHHHHHHHH---HHHh---
Q 007100 398 LLWKE-SWEL-GKNPMASNGSALHGPRIKRIEK-AHS-LFSE------TKEHTFESKAAEEHAKLLRIQH---ELEV--- 461 (618)
Q Consensus 398 l~l~~-a~~~-~~~~~~~~~~~~~~~k~~~L~~-a~~-~~~~------~~~~~f~~~~~~e~~~Ll~~Q~---~Le~--- 461 (618)
..++. +... .+.+ .++..|+. +.. .+.. -.....+...+++++.+++.|. ..+.
T Consensus 238 ~~Yk~kA~~iLq~kE----------klI~~LK~~~~~~~~~~~~~~~el~~l~~E~~~~~ee~~~l~~Qi~~l~~e~~d~ 307 (511)
T PF09787_consen 238 QQYKQKAQRILQSKE----------KLIESLKEGCLEEGFDSSTNSIELEELKQERDHLQEEIQLLERQIEQLRAELQDL 307 (511)
T ss_pred HHHHHHHHHHhcCHH----------HHHHHHHhcccccccccccchhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 88872 2222 2222 46667776 332 1221 0112235677899999998887 2221
Q ss_pred --hcc-----------cccccCCCHHHH-----HHHHHHcC------CcchHHhHHhHcCcChHHHHHHHHHHHHhcCCh
Q 007100 462 --STK-----------QAIFVDSSISDT-----IRTCIVLG------NHRAAMKVKTEFKVSEKRWYWLKVFALATKRDW 517 (618)
Q Consensus 462 --~~~-----------~~~f~~~Sl~~T-----i~~li~~~------~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~w 517 (618)
... .-...+.+...| +++|...+ ..+.+..++..||.+|+++-|..+.+.++...|
T Consensus 308 e~~~~~~~~~~~~~~~~~~~~~~~~~~~e~e~~l~~~el~~~~ee~~~~~s~~~~k~~~ke~E~q~lr~~l~~~~~~s~~ 387 (511)
T PF09787_consen 308 EAQLEGEQESFREQPQELSQQLEPELTTEAELRLYYQELYHYREELSRQKSPLQLKLKEKESEIQKLRNQLSARASSSSW 387 (511)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence 110 012335566666 66655432 235678899999999999999999999999999
Q ss_pred hHHHHhhcc------------------C-CCCCCchHHHHHHH---hcCCHHHH-HHhhccCCCHHHHHHHHHHcCCHHH
Q 007100 518 DALERFSKE------------------K-RPPIGYRPFVEACV---DADEKGEA-LKYIPKLVDPRERAEAYARIGMAKE 574 (618)
Q Consensus 518 deLe~f~~s------------------K-KspIgyepfv~~~~---~~~~~~eA-~kyI~ki~d~e~r~~l~~k~~~~~e 574 (618)
.++|+..++ | ..||++|-....+. .+.++..+ ..|+.-.+|.+.|+..+++.+++.-
T Consensus 388 ~elE~rl~~lt~~Li~KQ~~lE~l~~ek~al~lqlErl~~~l~~~~~~~~~~~~~~~~~~~~~d~~~r~~~~~~~~~~d~ 467 (511)
T PF09787_consen 388 NELESRLTQLTESLIQKQTQLESLGSEKNALRLQLERLETQLKEEASNNRPSSILMKYSNSEDDAESRVPLLMKDSPHDI 467 (511)
T ss_pred HhHHHHHhhccHHHHHHHHHHHHHHhhhhhccccHHHHHHHHHhhccCCCCchhhHhhccCCCchhhhhhhhccCCCccc
Confidence 999988742 2 36999999999998 66666554 5899989999999999999998866
No 5
>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=98.55 E-value=3.4e-06 Score=88.89 Aligned_cols=227 Identities=19% Similarity=0.230 Sum_probs=155.9
Q ss_pred hhhccCCCChHH-HHHHHHHHHhc-cCchhHHHHHHhhhhHHHHHHHHHHHccccCCHHHHHHHHHHH--hhhhhhccCC
Q 007100 107 QIFAIGSTSPAA-LLYDALDHFDR-RSAKADENLRLIRASLPKAVEACIDAAGHEFDISRQRTLLRAA--SYGQAFCSNF 182 (618)
Q Consensus 107 ~if~igS~~P~a-~L~~a~~~~~~-~~~~a~e~lr~i~~~L~~AV~~CI~AA~~e~d~~~Qk~LL~AA--sfGk~~~~~~ 182 (618)
..|++=...|.| -|+.. |.+ +++..-..+-.-.++..++-.-.+..|..+-++..-...|+.| .|+++-...|
T Consensus 73 ~f~~il~~~p~a~~l~~~---~~r~~~~~~L~~~y~q~d~~~~~a~~~l~~~~~~~~~~~~~~~L~~a~~~y~~~k~~~f 149 (319)
T PF04840_consen 73 QFFKILNQNPVASNLYKK---YCREQDRELLKDFYYQEDRFQELANLHLQEALSQKDVEEKISFLKQAQKLYSKSKNDAF 149 (319)
T ss_pred HHHHHHHhCcchHHHHHH---HHHhccHHHHHHHHHhcchHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHhcchhHH
Confidence 455555556643 34443 333 3333222222224566677777777776556666555555555 6666544444
Q ss_pred ChhHHHHHhhhhhHHhccCCCCCcccccHHHHhcCChHHHHHHHHhcCChHHHHHHHHHhCCChhHHHHHHHHHHhhhcC
Q 007100 183 QRDRIQEMCKTLRVLNAARDPEIGIPLSIQQYKSLTASVLIGRLINANCHLLALRISEYLGMNQEVVIMHWACSKITASL 262 (618)
Q Consensus 183 ~~~~fv~~c~~LRVLn~lr~~~igi~lT~~q~~~l~~~~li~rL~~r~~~~lA~~I~~~l~~~~~~I~~~WA~~kI~~~~ 262 (618)
.....-+-.+.|++-..|.. ..+ ..|..++....|.+|+..|++..|-+|.+-+++|..+-+ |..-+....
T Consensus 150 ~~~~~e~q~~Ll~~Q~~Le~-~~~-----~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw--~lki~aLa~- 220 (319)
T PF04840_consen 150 EAKLIEEQIKLLEYQKELEE-KYN-----TNFVGLSLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFW--WLKIKALAE- 220 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHH-Hhc-----cchhcCCHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHH--HHHHHHHHh-
Confidence 44333334444555544433 233 247788999999999999999999999999999988887 774433221
Q ss_pred CCChHHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHH
Q 007100 263 AIPDVTLLEILLDKLKLCKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYL 342 (618)
Q Consensus 263 ~~~D~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~ 342 (618)
.-+=++|.+.-.+| .+.|+|.-++.+..+.|++..|.+++..=+. .++|.++++.|+|..|.+.|.+.+|+++...
T Consensus 221 ~~~w~eL~~fa~sk---KsPIGyepFv~~~~~~~~~~eA~~yI~k~~~-~~rv~~y~~~~~~~~A~~~A~~~kd~~~L~~ 296 (319)
T PF04840_consen 221 NKDWDELEKFAKSK---KSPIGYEPFVEACLKYGNKKEASKYIPKIPD-EERVEMYLKCGDYKEAAQEAFKEKDIDLLKQ 296 (319)
T ss_pred cCCHHHHHHHHhCC---CCCCChHHHHHHHHHCCCHHHHHHHHHhCCh-HHHHHHHHHCCCHHHHHHHHHHcCCHHHHHH
Confidence 12337888776654 3568999999999999999999999999666 9999999999999999999999999999887
Q ss_pred HHHHHHh
Q 007100 343 VIFHIWQ 349 (618)
Q Consensus 343 vLl~l~~ 349 (618)
+.-+...
T Consensus 297 i~~~~~~ 303 (319)
T PF04840_consen 297 ILKRCPG 303 (319)
T ss_pred HHHHCCC
Confidence 6655443
No 6
>KOG4677 consensus Golgi integral membrane protein [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]
Probab=98.23 E-value=4.4e-05 Score=80.55 Aligned_cols=284 Identities=18% Similarity=0.225 Sum_probs=183.3
Q ss_pred HHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHHHHHHhhCChhHHHH-HHhcChhHHHHHHHHHHh-cC
Q 007100 301 AAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVIFHIWQKRPALEFFG-MIQTRPLACDLFTVYARC-YK 378 (618)
Q Consensus 301 A~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl~l~~~l~~~~f~~-~l~~~p~A~~l~~~y~~~-~~ 378 (618)
+..||+-....-+..-.|..+.+-=.-++.++.-.|.+.|-.|++|+++.++...-++ .+.....|..+|..+.|+ .+
T Consensus 191 ~~~ll~~Rve~le~~Sal~~lq~~L~la~~~~~~~~e~~i~~~~~f~~r~~~~E~e~rn~~E~~~lA~r~l~~~kKe~de 270 (554)
T KOG4677|consen 191 VRRLLKGRVESLERFSALRSLQDKLQLAEEAVSMHDENVITAVLIFLKRTLSKEIEFRNELEVRQLALRHLIHFKKEIDE 270 (554)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344443333333333556665666677888999999999999999999999875444 888888999999999998 46
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHhh-hhhcccccHHHHHHHHHHHHHHHHH
Q 007100 379 HEFLKDFFLSTGQLQEVAFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHSL-FSETKEHTFESKAAEEHAKLLRIQH 457 (618)
Q Consensus 379 ~~~L~d~~~q~d~~~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~~-~~~~~~~~f~~~~~~e~~~Ll~~Q~ 457 (618)
.+.+-+.|+-.++-.+++..+.++..-..+.. .-...++++.+...+. |.. + ...-++.|+-+|+-|.
T Consensus 271 ~k~~~~l~~~l~~keeL~~s~~~e~~i~qs~~------kstas~~E~ee~rve~~~s~--e---d~~~~q~q~~~Lrs~~ 339 (554)
T KOG4677|consen 271 QKLLLDLFRFLDRKEELALSHYREHLIIQSPD------KSTASRKEFEETRVELPFSA--E---DSAHIQDQYTLLRSQI 339 (554)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHhhccCCCC------cchhHHHHHHHHHhcccccH--H---HHHHHHHHHHHHHHHH
Confidence 78888999988998888887776643222221 0001233333332221 110 0 1122344444443322
Q ss_pred H-HH---------------hhcc-cccccCCC-HHHHHHHHHHc-----CCcchHHhHHhHcCcChHHHHHHHHHHHHhc
Q 007100 458 E-LE---------------VSTK-QAIFVDSS-ISDTIRTCIVL-----GNHRAAMKVKTEFKVSEKRWYWLKVFALATK 514 (618)
Q Consensus 458 ~-Le---------------~~~~-~~~f~~~S-l~~Ti~~li~~-----~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~ 514 (618)
. +| .... ...+..++ +-++-+.|... |..-...++++.+||+||.|-..|+.+-.+.
T Consensus 340 ~d~EAq~r~l~s~~~~q~~~~h~~ka~~~~~~~~l~~~~ec~~~e~e~~~~~~~r~~~~~qski~dk~~el~kl~~~l~~ 419 (554)
T KOG4677|consen 340 IDIEAQDRHLESAGQTQIFRKHPRKASILNMPLVLTLFYECFYHETEAEGTFSSRVNLKKQSKIPDKQYELTKLAARLKL 419 (554)
T ss_pred HHHHHHHHhHHHHhHHHHHHhhhHhhhhhhchHHHHHHHHHHHHHHHHhhhhhhhccchhhccCcchHHHHHHHHHHHHH
Confidence 2 22 1111 02344555 44555667754 2233456789999999999999999999999
Q ss_pred CChhH-HHHhhcc--------CCCCCCchHHHHHHHhcCCHHHH-HHhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCC
Q 007100 515 RDWDA-LERFSKE--------KRPPIGYRPFVEACVDADEKGEA-LKYIPKLVDPRERAEAYARIGMAKEAADAASQAKD 584 (618)
Q Consensus 515 ~~wde-Le~f~~s--------KKspIgyepfv~~~~~~~~~~eA-~kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd 584 (618)
+.|++ -...... +.-|||.+.+++...+.+.+-|- .+|++.+.+..-++..--+-.+..-.+......+|
T Consensus 420 r~~~~s~~~l~~~~~qLt~tl~qkq~~le~v~~~~~~ln~~lerLq~~~N~~~~v~~~~~~n~~~~~~~~v~~l~~d~~~ 499 (554)
T KOG4677|consen 420 RAWNDSVDALFTTKNQLTYTLKQKQIGLERVVEILHKLNAPLERLQEYVNLVEDVDTKLNLNTKFKCHDVVIDLYRDLKD 499 (554)
T ss_pred HhhhhhHHHHhchhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHhccccccceeeccCCCcccccccchHhhhhhh
Confidence 99998 3333321 35699999999999999998655 49999777776666666666667777777777777
Q ss_pred HHHHHHHHHHc
Q 007100 585 GELLGRLKLTF 595 (618)
Q Consensus 585 ~~~L~~i~~~~ 595 (618)
...+...+.++
T Consensus 500 ~~q~r~a~s~V 510 (554)
T KOG4677|consen 500 RQQLRAARSKV 510 (554)
T ss_pred hHHHHHHHhhc
Confidence 54444444444
No 7
>PLN03077 Protein ECB2; Provisional
Probab=97.34 E-value=0.66 Score=55.82 Aligned_cols=108 Identities=9% Similarity=0.085 Sum_probs=66.3
Q ss_pred HHHHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHhhcc------CCCCCCchHHHHHHHhcCCHH
Q 007100 474 SDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALERFSKE------KRPPIGYRPFVEACVDADEKG 547 (618)
Q Consensus 474 ~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~s------KKspIgyepfv~~~~~~~~~~ 547 (618)
+..|.-+.+.|+.+.|.++-++. -++-.-|-..|.++++.|++++-..+... +-..+-|--++.+|.+.|..+
T Consensus 528 naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ 606 (857)
T PLN03077 528 NALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVT 606 (857)
T ss_pred hHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHH
Confidence 44445555566666666665555 55666677777777777777665555431 224555666677777777777
Q ss_pred HHHHhhccCC----------CHHHHHHHHHHcCCHHHHHHHHHhc
Q 007100 548 EALKYIPKLV----------DPRERAEAYARIGMAKEAADAASQA 582 (618)
Q Consensus 548 eA~kyI~ki~----------d~e~r~~l~~k~~~~~eA~~~a~~~ 582 (618)
+|..|...+. .+.--+.+|.+.|++++|.+...+.
T Consensus 607 ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m 651 (857)
T PLN03077 607 QGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM 651 (857)
T ss_pred HHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC
Confidence 7766655432 3445566777777777776665553
No 8
>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=97.31 E-value=0.0032 Score=71.13 Aligned_cols=162 Identities=17% Similarity=0.203 Sum_probs=125.2
Q ss_pred hhhhhhccCCChhHHHHHhhhhhHHhccCCCCCcccccHHHHhcCChHHHHHHHHhcCChHHHHHHHHHhCCChhHHHHH
Q 007100 173 SYGQAFCSNFQRDRIQEMCKTLRVLNAARDPEIGIPLSIQQYKSLTASVLIGRLINANCHLLALRISEYLGMNQEVVIMH 252 (618)
Q Consensus 173 sfGk~~~~~~~~~~fv~~c~~LRVLn~lr~~~igi~lT~~q~~~l~~~~li~rL~~r~~~~lA~~I~~~l~~~~~~I~~~ 252 (618)
.|.++-.-++.....-+..+.++.-..|-. +.| .+|..|+....|..|+.-|+-..|.+|..-+++|..+++
T Consensus 647 ~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le~-q~~-----~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~-- 718 (829)
T KOG2280|consen 647 AFAKSKEKSFEAKALEDQMKLLKLQRTLED-QFG-----GSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLW-- 718 (829)
T ss_pred HHhhhhhhhhHHHHHHHHHHHHHHHHHHHH-Hhc-----cccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhH--
Confidence 666666656666666666666666555543 233 267899999999999999999999999999999999988
Q ss_pred HHHHHhhhcCCCCh-HHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHH
Q 007100 253 WACSKITASLAIPD-VTLLEILLDKLKLCKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKA 331 (618)
Q Consensus 253 WA~~kI~~~~~~~D-~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kA 331 (618)
|- |++.-.+.-| ++|.+.=.+|-...+..||.++ ..+.|+..-|.+.+..=+...++|.+++.+|.+..|.+-|
T Consensus 719 wL--k~~aLa~~~kweeLekfAkskksPIGy~PFVe~---c~~~~n~~EA~KYiprv~~l~ekv~ay~~~~~~~eAad~A 793 (829)
T KOG2280|consen 719 WL--KLTALADIKKWEELEKFAKSKKSPIGYLPFVEA---CLKQGNKDEAKKYIPRVGGLQEKVKAYLRVGDVKEAADLA 793 (829)
T ss_pred HH--HHHHHHhhhhHHHHHHHHhccCCCCCchhHHHH---HHhcccHHHHhhhhhccCChHHHHHHHHHhccHHHHHHHH
Confidence 65 3333233334 8888888777555566666555 5566889999999988887778999999999999999999
Q ss_pred HHcCChhHHHHHHHHH
Q 007100 332 TESGDTDLVYLVIFHI 347 (618)
Q Consensus 332 i~S~D~dLI~~vLl~l 347 (618)
.++.|.+-...++.+.
T Consensus 794 ~~~rd~~~L~ev~~~~ 809 (829)
T KOG2280|consen 794 AEHRDGAELSEVLSKC 809 (829)
T ss_pred HHhcChHHHHHHHHhc
Confidence 9999999877776554
No 9
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=97.31 E-value=0.3 Score=57.30 Aligned_cols=88 Identities=18% Similarity=0.098 Sum_probs=50.8
Q ss_pred ChHHHHHHHHhcCChHHHHHHHHHhCC----Ch-hHHHHHH--HHHHhhhcCCCCh-HHHHHHHHHhhcc-CCCCCHHHH
Q 007100 218 TASVLIGRLINANCHLLALRISEYLGM----NQ-EVVIMHW--ACSKITASLAIPD-VTLLEILLDKLKL-CKGISYAAV 288 (618)
Q Consensus 218 ~~~~li~rL~~r~~~~lA~~I~~~l~~----~~-~~I~~~W--A~~kI~~~~~~~D-~~l~~~I~~kl~~-~~~is~~~I 288 (618)
++..+|..|...|.+..|+++.+.+.- ++ ...+... ||.+. .+.+. .++...+... +- .....|..+
T Consensus 89 ~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~---~~~~~a~~l~~~m~~~-g~~~~~~~~n~L 164 (697)
T PLN03081 89 SLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIAL---KSIRCVKAVYWHVESS-GFEPDQYMMNRV 164 (697)
T ss_pred eHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhC---CCHHHHHHHHHHHHHh-CCCcchHHHHHH
Confidence 456778889999999999998887742 22 2233222 23222 11111 2333333221 11 123456677
Q ss_pred HHHHHHhCcHHHHHHHHhcCC
Q 007100 289 AAHADKSGRRKLAAMLVEHEP 309 (618)
Q Consensus 289 A~~A~~~gR~~LA~~Ll~~E~ 309 (618)
...-.+.|+.+-|.++.+.=+
T Consensus 165 i~~y~k~g~~~~A~~lf~~m~ 185 (697)
T PLN03081 165 LLMHVKCGMLIDARRLFDEMP 185 (697)
T ss_pred HHHHhcCCCHHHHHHHHhcCC
Confidence 777778899999998887544
No 10
>PLN03218 maturation of RBCL 1; Provisional
Probab=97.03 E-value=0.76 Score=56.35 Aligned_cols=85 Identities=11% Similarity=0.056 Sum_probs=39.0
Q ss_pred HHHHHHHhcCChHHHHHHHHHhCCChhHHHHHHHHHHhhhcCCCCh-HHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHH
Q 007100 221 VLIGRLINANCHLLALRISEYLGMNQEVVIMHWACSKITASLAIPD-VTLLEILLDKLKLCKGISYAAVAAHADKSGRRK 299 (618)
Q Consensus 221 ~li~rL~~r~~~~lA~~I~~~l~~~~~~I~~~WA~~kI~~~~~~~D-~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~ 299 (618)
.++.-+...+....|+++++.+..|....+..--..-. +..+.++ .++++.+.++=-....+.|..+.....+.|+.+
T Consensus 411 ~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a~~-k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd 489 (1060)
T PLN03218 411 KFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCA-SSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVD 489 (1060)
T ss_pred HHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHHHH-hCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHH
Confidence 34455556666777777776666543222211111101 1111111 222222222100112256666677777777777
Q ss_pred HHHHHHh
Q 007100 300 LAAMLVE 306 (618)
Q Consensus 300 LA~~Ll~ 306 (618)
.|..+++
T Consensus 490 ~A~~vf~ 496 (1060)
T PLN03218 490 AMFEVFH 496 (1060)
T ss_pred HHHHHHH
Confidence 7776655
No 11
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=97.01 E-value=0.11 Score=61.90 Aligned_cols=236 Identities=18% Similarity=0.156 Sum_probs=140.0
Q ss_pred CCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHHHHHHhhCChhHHHHHHhcChhHHHHHHHHHHhcCHHHHHHHHH
Q 007100 308 EPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVIFHIWQKRPALEFFGMIQTRPLACDLFTVYARCYKHEFLKDFFL 387 (618)
Q Consensus 308 E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl~l~~~l~~~~f~~~l~~~p~A~~l~~~y~~~~~~~~L~d~~~ 387 (618)
-+.+..-+..|+.+-+.+.-.+-|+-..|-+|+..|... +...+.+|.-.|+.-.....++..|- +.+|+.
T Consensus 824 ~~~ad~al~hll~Lvdvn~lfn~ALgtYDl~Lal~VAq~--SqkDPkEyLP~L~el~~m~~~~rkF~-------ID~~L~ 894 (1265)
T KOG1920|consen 824 AVSADEALKHLLFLVDVNELFNSALGTYDLDLALLVAQK--SQKDPKEYLPFLNELKKMETLLRKFK-------IDDYLK 894 (1265)
T ss_pred chhHHHHHHHHHhhccHHHHHHhhhcccchHHHHHHHHH--hccChHHHHHHHHHHhhchhhhhhee-------HHHHHH
Confidence 345566788899999999999999999999999887654 44467888877765432223333221 111111
Q ss_pred hcCChHHHHHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHhhhhhcccccHHHHHHHHHHHHHHHHHHHHhhccccc
Q 007100 388 STGQLQEVAFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHSLFSETKEHTFESKAAEEHAKLLRIQHELEVSTKQAI 467 (618)
Q Consensus 388 q~d~~~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~~~~~~~~~~f~~~~~~e~~~Ll~~Q~~Le~~~~~~~ 467 (618)
++ +.|.-+|.+.- .+-.+ .....-.|..+...|..+|..+. .++....+-+.+.|.--...+
T Consensus 895 ---ry-~~AL~hLs~~~-~~~~~----e~~n~I~kh~Ly~~aL~ly~~~~--e~~k~i~~~ya~hL~~~~~~~------- 956 (1265)
T KOG1920|consen 895 ---RY-EDALSHLSECG-ETYFP----ECKNYIKKHGLYDEALALYKPDS--EKQKVIYEAYADHLREELMSD------- 956 (1265)
T ss_pred ---HH-HHHHHHHHHcC-ccccH----HHHHHHHhcccchhhhheeccCH--HHHHHHHHHHHHHHHHhcccc-------
Confidence 11 22333332210 00000 00000022334555666665432 233444444444443211111
Q ss_pred ccCCCHHHHHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHhhccCCCC-----CCchHHHHHHHh
Q 007100 468 FVDSSISDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALERFSKEKRPP-----IGYRPFVEACVD 542 (618)
Q Consensus 468 f~~~Sl~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~sKKsp-----Igyepfv~~~~~ 542 (618)
-.-+++.+ .|+.+.| ++++-..++|++.-..++....+ +--+--+..|.+
T Consensus 957 -----~Aal~Ye~--~GklekA------------------l~a~~~~~dWr~~l~~a~ql~~~~de~~~~a~~L~s~L~e 1011 (1265)
T KOG1920|consen 957 -----EAALMYER--CGKLEKA------------------LKAYKECGDWREALSLAAQLSEGKDELVILAEELVSRLVE 1011 (1265)
T ss_pred -----HHHHHHHH--hccHHHH------------------HHHHHHhccHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHH
Confidence 11133333 3555555 55788899999998888643322 222345677888
Q ss_pred cCCHHHHHH-hhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHc
Q 007100 543 ADEKGEALK-YIPKLVDPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTF 595 (618)
Q Consensus 543 ~~~~~eA~k-yI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~ 595 (618)
.+.+.+|.+ -...++|+++-+.+|++...|.+|+-+|...++-+.++...+..
T Consensus 1012 ~~kh~eAa~il~e~~sd~~~av~ll~ka~~~~eAlrva~~~~~~d~iee~l~~a 1065 (1265)
T KOG1920|consen 1012 QRKHYEAAKILLEYLSDPEEAVALLCKAKEWEEALRVASKAKRDDIIEEVLKPA 1065 (1265)
T ss_pred cccchhHHHHHHHHhcCHHHHHHHHhhHhHHHHHHHHHHhcccchHHHHHHhHH
Confidence 998887764 44578899999999999999999999999999777777766544
No 12
>PLN03077 Protein ECB2; Provisional
Probab=96.52 E-value=3 Score=50.27 Aligned_cols=112 Identities=13% Similarity=0.068 Sum_probs=84.8
Q ss_pred HHHHHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHhhcc------CCCCCCchHHHHHHHhcCCH
Q 007100 473 ISDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALERFSKE------KRPPIGYRPFVEACVDADEK 546 (618)
Q Consensus 473 l~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~s------KKspIgyepfv~~~~~~~~~ 546 (618)
.+..|.-+.+.|+.+.|.++-.+..-++.--|-..+.++++.|++++-..+... +-...-|-.++.+|.+.|..
T Consensus 326 ~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~ 405 (857)
T PLN03077 326 CNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDL 405 (857)
T ss_pred HHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchH
Confidence 344555667778888999998888888888899999999999999887766642 23466677788888888888
Q ss_pred HHHHHhhccCC---------CHHHHHHHHHHcCCHHHHHHHHHhcCC
Q 007100 547 GEALKYIPKLV---------DPRERAEAYARIGMAKEAADAASQAKD 584 (618)
Q Consensus 547 ~eA~kyI~ki~---------d~e~r~~l~~k~~~~~eA~~~a~~~kd 584 (618)
++|......+. -+..=+.+|.++|++.+|.++..+.++
T Consensus 406 ~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~ 452 (857)
T PLN03077 406 DVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE 452 (857)
T ss_pred HHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC
Confidence 88776655432 234557889999999999988777655
No 13
>PLN03218 maturation of RBCL 1; Provisional
Probab=96.39 E-value=4 Score=50.27 Aligned_cols=113 Identities=16% Similarity=0.214 Sum_probs=85.5
Q ss_pred CCHHHHHHHHHHcCCcchHHhHHhHcC----cChHHHHHHHHHHHHhcCChhHHHHhhcc------CCCCCCchHHHHHH
Q 007100 471 SSISDTIRTCIVLGNHRAAMKVKTEFK----VSEKRWYWLKVFALATKRDWDALERFSKE------KRPPIGYRPFVEAC 540 (618)
Q Consensus 471 ~Sl~~Ti~~li~~~~~k~a~kl~k~fK----Vsdkr~~~lkl~aLa~~~~wdeLe~f~~s------KKspIgyepfv~~~ 540 (618)
.+.+..|..+++.|+.+.|.++-++.. .|+...|-.-+.++++.+++++-.++... +-..+-|-..+..|
T Consensus 615 ~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay 694 (1060)
T PLN03218 615 EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGAC 694 (1060)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 356677778888898888877755543 46777888899999999998877666532 12356678899999
Q ss_pred HhcCCHHHHHHhhccC------C---CHHHHHHHHHHcCCHHHHHHHHHhcC
Q 007100 541 VDADEKGEALKYIPKL------V---DPRERAEAYARIGMAKEAADAASQAK 583 (618)
Q Consensus 541 ~~~~~~~eA~kyI~ki------~---d~e~r~~l~~k~~~~~eA~~~a~~~k 583 (618)
.+.|..++|..+...| + .+.--+..|.+.|++.+|.+...+++
T Consensus 695 ~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~ 746 (1060)
T PLN03218 695 SNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMK 746 (1060)
T ss_pred HhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence 9999999998777655 2 35567888999999999998877654
No 14
>PLN03081 pentatricopeptide (PPR) repeat-containing protein; Provisional
Probab=96.20 E-value=3.8 Score=48.13 Aligned_cols=341 Identities=12% Similarity=0.090 Sum_probs=190.1
Q ss_pred hhHHhccCCCCCcccccHHHHhcCChHHHHHHHHhcCChHHHHHHHHHh---CCCh-hHHHHHH--HHHHhhhcCCCCh-
Q 007100 194 LRVLNAARDPEIGIPLSIQQYKSLTASVLIGRLINANCHLLALRISEYL---GMNQ-EVVIMHW--ACSKITASLAIPD- 266 (618)
Q Consensus 194 LRVLn~lr~~~igi~lT~~q~~~l~~~~li~rL~~r~~~~lA~~I~~~l---~~~~-~~I~~~W--A~~kI~~~~~~~D- 266 (618)
.+|++.+..|+ ..+...++.-++..|.+..|+++-+-+ |..+ ...+..+ ||.+. .....
T Consensus 178 ~~lf~~m~~~~-----------~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~---~~~~~~ 243 (697)
T PLN03081 178 RRLFDEMPERN-----------LASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGL---GSARAG 243 (697)
T ss_pred HHHHhcCCCCC-----------eeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcC---CcHHHH
Confidence 55666665532 235678999999999999999998765 3333 2344333 33322 11111
Q ss_pred HHHHHHHHHhhcc-CCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHHH
Q 007100 267 VTLLEILLDKLKL-CKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVIF 345 (618)
Q Consensus 267 ~~l~~~I~~kl~~-~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl 345 (618)
.++...+. |..- .....|..+...-.++|+.+-|..+.+.=+.+. + --|...+.--.+.|+.+-...++-
T Consensus 244 ~~l~~~~~-~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~--~------vt~n~li~~y~~~g~~~eA~~lf~ 314 (697)
T PLN03081 244 QQLHCCVL-KTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKT--T------VAWNSMLAGYALHGYSEEALCLYY 314 (697)
T ss_pred HHHHHHHH-HhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCC--h------hHHHHHHHHHHhCCCHHHHHHHHH
Confidence 22322222 2221 233567777888888999999999988544321 1 124444555555566665555555
Q ss_pred HHHhh-CCh--hHHHHHHhc------ChhHHHHHHHHHHhc------CHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCC
Q 007100 346 HIWQK-RPA--LEFFGMIQT------RPLACDLFTVYARCY------KHEFLKDFFLSTGQLQEVAFLLWKESWELGKNP 410 (618)
Q Consensus 346 ~l~~~-l~~--~~f~~~l~~------~p~A~~l~~~y~~~~------~~~~L~d~~~q~d~~~e~a~l~l~~a~~~~~~~ 410 (618)
.|.+. ..+ ..|..++.. -..|..++....+.+ -...|.+.|-..++..+ |.-.+.+. ...+..
T Consensus 315 ~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~-A~~vf~~m-~~~d~~ 392 (697)
T PLN03081 315 EMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMED-ARNVFDRM-PRKNLI 392 (697)
T ss_pred HHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHH-HHHHHHhC-CCCCee
Confidence 55432 111 122222211 112333333333221 12345555555555432 32222221 111111
Q ss_pred CCCCCCCCcchHHHHHHHHHhhhhhcccccHHHHHHHHHHHHHHHHHHHHhhcccccccCCCHHHHHHHHHHcCCcchHH
Q 007100 411 MASNGSALHGPRIKRIEKAHSLFSETKEHTFESKAAEEHAKLLRIQHELEVSTKQAIFVDSSISDTIRTCIVLGNHRAAM 490 (618)
Q Consensus 411 ~~~~~~~~~~~k~~~L~~a~~~~~~~~~~~f~~~~~~e~~~Ll~~Q~~Le~~~~~~~f~~~Sl~~Ti~~li~~~~~k~a~ 490 (618)
. -......|.+... .++.+++++.-. +.... -...+.+..|..|...|..+.|.
T Consensus 393 ----------t----~n~lI~~y~~~G~-------~~~A~~lf~~M~--~~g~~---Pd~~T~~~ll~a~~~~g~~~~a~ 446 (697)
T PLN03081 393 ----------S----WNALIAGYGNHGR-------GTKAVEMFERMI--AEGVA---PNHVTFLAVLSACRYSGLSEQGW 446 (697)
T ss_pred ----------e----HHHHHHHHHHcCC-------HHHHHHHHHHHH--HhCCC---CCHHHHHHHHHHHhcCCcHHHHH
Confidence 1 1122223443222 234444443211 11111 22334666777788888877765
Q ss_pred hH----HhHcCcCh-HHHHHHHHHHHHhcCChhHHHHhhccC---CCCCCchHHHHHHHhcCCHHHHHHhhccC------
Q 007100 491 KV----KTEFKVSE-KRWYWLKVFALATKRDWDALERFSKEK---RPPIGYRPFVEACVDADEKGEALKYIPKL------ 556 (618)
Q Consensus 491 kl----~k~fKVsd-kr~~~lkl~aLa~~~~wdeLe~f~~sK---KspIgyepfv~~~~~~~~~~eA~kyI~ki------ 556 (618)
++ .+++++.+ ...|-+.+..|++.|++++-.++.+.. -+..-|..++.+|..+|+.+.|.+...++
T Consensus 447 ~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~ 526 (697)
T PLN03081 447 EIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPE 526 (697)
T ss_pred HHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCC
Confidence 54 56677754 457889999999999999999998632 12333778899999999998776655432
Q ss_pred --CCHHHHHHHHHHcCCHHHHHHHHHhcCCH
Q 007100 557 --VDPRERAEAYARIGMAKEAADAASQAKDG 585 (618)
Q Consensus 557 --~d~e~r~~l~~k~~~~~eA~~~a~~~kd~ 585 (618)
..+.--+.+|.+.|.|.+|.++..+.++.
T Consensus 527 ~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~ 557 (697)
T PLN03081 527 KLNNYVVLLNLYNSSGRQAEAAKVVETLKRK 557 (697)
T ss_pred CCcchHHHHHHHHhCCCHHHHHHHHHHHHHc
Confidence 25777889999999999999998777654
No 15
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.55 E-value=12 Score=43.53 Aligned_cols=71 Identities=13% Similarity=0.138 Sum_probs=57.4
Q ss_pred CCCCchHHHHHHHhcCCHHHHHHhhccCCCHHHHHHHHH-HcCCHHHHHHHHHhcCCHHHHHHHHHHccCCh
Q 007100 529 PPIGYRPFVEACVDADEKGEALKYIPKLVDPRERAEAYA-RIGMAKEAADAASQAKDGELLGRLKLTFAQNA 599 (618)
Q Consensus 529 spIgyepfv~~~~~~~~~~eA~kyI~ki~d~e~r~~l~~-k~~~~~eA~~~a~~~kd~~~L~~i~~~~~~~~ 599 (618)
.--.-+-=+++|.+.|-.+|....+.||.+..+-+.|-+ ++++...||+.+.++.|.++.+.+-.-+-+.+
T Consensus 633 ~~Y~lekA~eiC~q~~~~~E~VYlLgrmGn~k~AL~lII~el~die~AIefvKeq~D~eLWe~LI~~~ldkP 704 (846)
T KOG2066|consen 633 QNYNLEKALEICSQKNFYEELVYLLGRMGNAKEALKLIINELRDIEKAIEFVKEQDDSELWEDLINYSLDKP 704 (846)
T ss_pred CCCCHHHHHHHHHhhCcHHHHHHHHHhhcchHHHHHHHHHHhhCHHHHHHHHHhcCCHHHHHHHHHHhhcCc
Confidence 345556778999999999999999999986666666655 68999999999999999998888877664443
No 16
>KOG1811 consensus Predicted Zn2+-binding protein, contains FYVE domain [General function prediction only]
Probab=93.18 E-value=18 Score=40.89 Aligned_cols=110 Identities=18% Similarity=0.096 Sum_probs=82.0
Q ss_pred cchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHhhccC-------------------CCCCCchHHHHHH------
Q 007100 486 HRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALERFSKEK-------------------RPPIGYRPFVEAC------ 540 (618)
Q Consensus 486 ~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~sK-------------------KspIgyepfv~~~------ 540 (618)
..-|-++..+||.+--..|-=.-+.|++.+...+|..+.|.- |..--|-.|.+.+
T Consensus 981 FdiAf~Vi~dFkL~AadiYagaA~qLadkeKgSeiqeLfK~ik~siqddd~daa~n~aDTgkarsvwlifcelLn~L~Aa 1060 (1141)
T KOG1811|consen 981 FDIAFRVIQDFKLDAADIYAGAARQLADKEKGSEIQELFKCIKESIQDDDGDAAKNDADTGKARSVWLIFCELLNCLEAA 1060 (1141)
T ss_pred cchHHHHHHHhcccHHHHHHHHHHHHHhhhhhhHHHHHHHHhhhcccccchhhhhcccccccchhHHHHHHHHHHHHHHH
Confidence 355888899999999999999999999999888888777421 2222234444432
Q ss_pred ---HhcCCHHHHHHhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCH---HHHHHHHHHc
Q 007100 541 ---VDADEKGEALKYIPKLVDPRERAEAYARIGMAKEAADAASQAKDG---ELLGRLKLTF 595 (618)
Q Consensus 541 ---~~~~~~~eA~kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~---~~L~~i~~~~ 595 (618)
..+-+|++-...|..+.+.++|+-.++-|+..+.|-..|.+++-. ...+++...+
T Consensus 1061 iniyan~hke~~d~LId~i~n~~~KVlAcliC~kLkSAf~IAskqe~g~a~AdVQ~VahaA 1121 (1141)
T KOG1811|consen 1061 INIYANIHKEELDGLIDAIHNDDNKVLACLICCKLKSAFLIASKQEHGRATADVQQVAHAA 1121 (1141)
T ss_pred HHHhccCChhhhHHHHHHHhccccceeeeeeehhhhhHHHHhhhhhccchhHHHHHHHHHH
Confidence 234566788899999999999999999999999999999966544 3445554444
No 17
>PF13934 ELYS: Nuclear pore complex assembly
Probab=91.57 E-value=4.4 Score=40.78 Aligned_cols=109 Identities=19% Similarity=0.184 Sum_probs=77.5
Q ss_pred chHHhHHhHcCcChHHHHHHHHHHHHhcCChhH-HHHhhccCCCCCCchHHHHHHHhcCCHHHHHHhhccCC---CHHHH
Q 007100 487 RAAMKVKTEFKVSEKRWYWLKVFALATKRDWDA-LERFSKEKRPPIGYRPFVEACVDADEKGEALKYIPKLV---DPRER 562 (618)
Q Consensus 487 k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wde-Le~f~~sKKspIgyepfv~~~~~~~~~~eA~kyI~ki~---d~e~r 562 (618)
..++++...|+||.+-.-.++---+-+.++|++ ++.+.....+|==-..++.+++.+|+++.|..|+..++ +..+-
T Consensus 64 ~~~~~Fa~~f~ip~~~~~~~~g~W~LD~~~~~~A~~~L~~ps~~~~~~~~Il~~L~~~~~~~lAL~y~~~~~p~l~s~~~ 143 (226)
T PF13934_consen 64 ELAESFARAFGIPPKYIKFIQGFWLLDHGDFEEALELLSHPSLIPWFPDKILQALLRRGDPKLALRYLRAVGPPLSSPEA 143 (226)
T ss_pred cHHHHHHHHhCCCHHHHHHHHHHHHhChHhHHHHHHHhCCCCCCcccHHHHHHHHHHCCChhHHHHHHHhcCCCCCCHHH
Confidence 469999999999999776666666667788754 44443322222223349999999999999999999876 22222
Q ss_pred HH---HHHHcCCHHHHHHHHHhcCCHH---HHHHHHHHc
Q 007100 563 AE---AYARIGMAKEAADAASQAKDGE---LLGRLKLTF 595 (618)
Q Consensus 563 ~~---l~~k~~~~~eA~~~a~~~kd~~---~L~~i~~~~ 595 (618)
+. -.+.+++..||-..+....+.. .+..+...|
T Consensus 144 ~~~~~~~La~~~v~EAf~~~R~~~~~~~~~l~e~l~~~~ 182 (226)
T PF13934_consen 144 LTLYFVALANGLVTEAFSFQRSYPDELRRRLFEQLLEHC 182 (226)
T ss_pred HHHHHHHHHcCCHHHHHHHHHhCchhhhHHHHHHHHHHH
Confidence 33 3689999999999998888865 555555544
No 18
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=91.10 E-value=6.2 Score=35.94 Aligned_cols=92 Identities=12% Similarity=-0.005 Sum_probs=51.5
Q ss_pred hHHHHHHHHHHHHhcCChhHHHHhhccCCCCCCchHHHHHHHhcCCHHHHHHhhccCCCHHHHHHHHHHc-CCHHHHHHH
Q 007100 500 EKRWYWLKVFALATKRDWDALERFSKEKRPPIGYRPFVEACVDADEKGEALKYIPKLVDPRERAEAYARI-GMAKEAADA 578 (618)
Q Consensus 500 dkr~~~lkl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~~eA~kyI~ki~d~e~r~~l~~k~-~~~~eA~~~ 578 (618)
+.-+.-.-+..+++... .++..|.+++-+....+-....|.+.|-.+++.....++...++-++++++. +++..|++.
T Consensus 40 ~~~~~~~li~ly~~~~~-~~ll~~l~~~~~~yd~~~~~~~c~~~~l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~ 118 (140)
T smart00299 40 NPALQTKLIELYAKYDP-QKEIERLDNKSNHYDIEKVGKLCEKAKLYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEY 118 (140)
T ss_pred chhHHHHHHHHHHHHCH-HHHHHHHHhccccCCHHHHHHHHHHcCcHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHH
Confidence 44466666666666544 3444455432333444447888888776666655555555555555555555 555666665
Q ss_pred HHhcCCHHHHHHHH
Q 007100 579 ASQAKDGELLGRLK 592 (618)
Q Consensus 579 a~~~kd~~~L~~i~ 592 (618)
|.+..|.+....+.
T Consensus 119 ~~~~~~~~lw~~~~ 132 (140)
T smart00299 119 FVKQNNPELWAEVL 132 (140)
T ss_pred HHhCCCHHHHHHHH
Confidence 55555555444443
No 19
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 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. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) 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 [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=90.18 E-value=0.097 Score=48.17 Aligned_cols=121 Identities=17% Similarity=0.099 Sum_probs=92.5
Q ss_pred HHHHHHHHcCCcch----HHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHhhccCCCCCCchHHHHHHHhcCCHHHHH
Q 007100 475 DTIRTCIVLGNHRA----AMKVKTEFKVSEKRWYWLKVFALATKRDWDALERFSKEKRPPIGYRPFVEACVDADEKGEAL 550 (618)
Q Consensus 475 ~Ti~~li~~~~~k~----a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~~eA~ 550 (618)
+.|..+...+..+. -+.+.++-+..++.+.-.-+.-+++.+.-+.|.+|.++-.. .......+.|.++|-.++|.
T Consensus 12 ~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~-yd~~~~~~~c~~~~l~~~a~ 90 (143)
T PF00637_consen 12 EVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN-YDLDKALRLCEKHGLYEEAV 90 (143)
T ss_dssp CCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS-S-CTHHHHHHHTTTSHHHHH
T ss_pred HHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc-cCHHHHHHHHHhcchHHHHH
Confidence 34444444444332 45555555567788999999999999888999999984333 55566999999999999999
Q ss_pred HhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHcc
Q 007100 551 KYIPKLVDPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFA 596 (618)
Q Consensus 551 kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~ 596 (618)
....++.+.++-++++.+.+++.+|++.|.+.+|.+.+..+.+.+-
T Consensus 91 ~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~~l 136 (143)
T PF00637_consen 91 YLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKYCL 136 (143)
T ss_dssp HHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHHHC
T ss_pred HHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence 8888888888877778888999999999999999888888877664
No 20
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised 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 []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=89.95 E-value=8.7 Score=42.69 Aligned_cols=73 Identities=21% Similarity=0.325 Sum_probs=36.8
Q ss_pred cccCCCCeeEEEecCCcEEEEeCCCC------------C--ccccccCCCCCCCCceeeeCCCeEEEEE-CCeE-EEEeC
Q 007100 2 AVSPNGNFVACFTHDGRLVVNNTNFS------------S--PVIDESCESALPPEQIAWCGMDSVLLYW-NDML-VMVAP 65 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~g~l~v~ssd~~------------~--~~~e~~~~~~~~p~~~~WCG~d~v~~~~-~~~l-~l~g~ 65 (618)
..|++|++||+.+.+ .++|..-+++ . .+.|+ ....++-.|.|+ ++++- .+.+ +++|.
T Consensus 151 ~Ws~~g~~val~t~~-~i~il~~~~~~~~~~~~~g~e~~f~~~~E~----~~~IkSg~W~~d--~fiYtT~~~lkYl~~G 223 (443)
T PF04053_consen 151 IWSDDGELVALVTKD-SIYILKYNLEAVAAIPEEGVEDAFELIHEI----SERIKSGCWVED--CFIYTTSNHLKYLVNG 223 (443)
T ss_dssp EE-TTSSEEEEE-S--SEEEEEE-HHHHHHBTTTB-GGGEEEEEEE-----S--SEEEEETT--EEEEE-TTEEEEEETT
T ss_pred EEECCCCEEEEEeCC-eEEEEEecchhcccccccCchhceEEEEEe----cceeEEEEEEcC--EEEEEcCCeEEEEEcC
Confidence 468999999999855 6667776666 1 12222 336789999998 44544 3455 34432
Q ss_pred CCCceEeecCCCeEEee
Q 007100 66 QAEPVQYFYDEPLVLIP 82 (618)
Q Consensus 66 ~~~~~~~~~~~~~~l~~ 82 (618)
... +--..+.+.+|+.
T Consensus 224 e~~-~i~~ld~~~yllg 239 (443)
T PF04053_consen 224 ETG-IIAHLDKPLYLLG 239 (443)
T ss_dssp EEE-EEEE-SS--EEEE
T ss_pred Ccc-eEEEcCCceEEEE
Confidence 221 2223355655443
No 21
>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]
Probab=89.26 E-value=0.97 Score=54.27 Aligned_cols=95 Identities=17% Similarity=0.194 Sum_probs=78.1
Q ss_pred hHHhHcCcChHHH-HHHHHHHHHhcC--ChhHHHHhhccC---------------CCCCCchHHHHHHHhcCCHHHHHHh
Q 007100 491 KVKTEFKVSEKRW-YWLKVFALATKR--DWDALERFSKEK---------------RPPIGYRPFVEACVDADEKGEALKY 552 (618)
Q Consensus 491 kl~k~fKVsdkr~-~~lkl~aLa~~~--~wdeLe~f~~sK---------------KspIgyepfv~~~~~~~~~~eA~ky 552 (618)
-+..+|+|.+..= |--.|..|.+.+ -|++..++++.. +---+|+.|++.|...+..++|.-.
T Consensus 882 ~~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~ 961 (1265)
T KOG1920|consen 882 TLLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALM 961 (1265)
T ss_pred hhhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHH
Confidence 3557899998775 445688888888 699999999632 1245788999999999999999877
Q ss_pred hccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCH
Q 007100 553 IPKLVDPRERAEAYARIGMAKEAADAASQAKDG 585 (618)
Q Consensus 553 I~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~ 585 (618)
-.+|...++-++.|..||+|++|...|.+....
T Consensus 962 Ye~~GklekAl~a~~~~~dWr~~l~~a~ql~~~ 994 (1265)
T KOG1920|consen 962 YERCGKLEKALKAYKECGDWREALSLAAQLSEG 994 (1265)
T ss_pred HHHhccHHHHHHHHHHhccHHHHHHHHHhhcCC
Confidence 777778999999999999999999999977643
No 22
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=89.02 E-value=19 Score=43.19 Aligned_cols=261 Identities=15% Similarity=0.112 Sum_probs=146.3
Q ss_pred HcCChhHHHHHHHH-HHhhCChhHHHHHHh----cCh------hHHHHHHHHHHhcCHHHHHHHHHhcCChH--HHHHHH
Q 007100 333 ESGDTDLVYLVIFH-IWQKRPALEFFGMIQ----TRP------LACDLFTVYARCYKHEFLKDFFLSTGQLQ--EVAFLL 399 (618)
Q Consensus 333 ~S~D~dLI~~vLl~-l~~~l~~~~f~~~l~----~~p------~A~~l~~~y~~~~~~~~L~d~~~q~d~~~--e~a~l~ 399 (618)
++.||+-|-.++-. |..-|+. +...+|. ++. ...+|++.-.-.-|+....+|....|.+. +.|.+.
T Consensus 980 E~~dPe~vS~tVkAfMtadLp~-eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~ia 1058 (1666)
T KOG0985|consen 980 ETQDPEEVSVTVKAFMTADLPN-ELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIA 1058 (1666)
T ss_pred ccCChHHHHHHHHHHHhcCCcH-HHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHH
Confidence 56799988777654 4445553 4444433 222 24455554444667778888888777653 335444
Q ss_pred HHHHHhcC--------CCCCCCCCCCCcchHHHHHHHHHhhhhhcccccHHHHHHHHHHHHHHHHHHHHhhcccccccCC
Q 007100 400 WKESWELG--------KNPMASNGSALHGPRIKRIEKAHSLFSETKEHTFESKAAEEHAKLLRIQHELEVSTKQAIFVDS 471 (618)
Q Consensus 400 l~~a~~~~--------~~~~~~~~~~~~~~k~~~L~~a~~~~~~~~~~~f~~~~~~e~~~Ll~~Q~~Le~~~~~~~f~~~ 471 (618)
+...+.++ +.+ ...---.-+-+..|.+|.++--+..++..+++....|..=...-..++.-.+ . -.-.
T Consensus 1059 i~~~LyEEAF~ifkkf~~n--~~A~~VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyik-a-dDps 1134 (1666)
T KOG0985|consen 1059 IENQLYEEAFAIFKKFDMN--VSAIQVLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIK-A-DDPS 1134 (1666)
T ss_pred hhhhHHHHHHHHHHHhccc--HHHHHHHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHh-c-CCcH
Confidence 43322211 111 0000000011223444443222233444555554444322222222222111 0 0012
Q ss_pred CHHHHHHHHHHcCCcchHHhH--HhHcCcChHHHHHHHHHHHHhcCChhHHHHhhccCCCCCCchHHHHHHHhcCCHHHH
Q 007100 472 SISDTIRTCIVLGNHRAAMKV--KTEFKVSEKRWYWLKVFALATKRDWDALERFSKEKRPPIGYRPFVEACVDADEKGEA 549 (618)
Q Consensus 472 Sl~~Ti~~li~~~~~k~a~kl--~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~~eA 549 (618)
+-.+.|..+-+.|.+++.-+. --.-|+-|....---|-|||+.++-.|||.|+.. -..-....+=+.|...|..+-|
T Consensus 1135 ~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id~eLi~AyAkt~rl~elE~fi~g-pN~A~i~~vGdrcf~~~~y~aA 1213 (1666)
T KOG0985|consen 1135 NYLEVIDVASRTGKYEDLVKYLLMARKKVREPYIDSELIFAYAKTNRLTELEEFIAG-PNVANIQQVGDRCFEEKMYEAA 1213 (1666)
T ss_pred HHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccchHHHHHHHHHhchHHHHHHHhcC-CCchhHHHHhHHHhhhhhhHHH
Confidence 344555555555555432111 0111233333344456799999999999999852 2223345567889999999888
Q ss_pred HHhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHccCCh
Q 007100 550 LKYIPKLVDPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFAQNA 599 (618)
Q Consensus 550 ~kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~~~~ 599 (618)
.-.-+.+++..+-.--++.+|+|..|++.|.+...+...+++-..|-++.
T Consensus 1214 kl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAns~ktWK~VcfaCvd~~ 1263 (1666)
T KOG0985|consen 1214 KLLYSNVSNFAKLASTLVYLGEYQGAVDAARKANSTKTWKEVCFACVDKE 1263 (1666)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhccchhHHHHHHHHHhchh
Confidence 87778888888888899999999999999999999988888877765543
No 23
>smart00299 CLH Clathrin heavy chain repeat homology.
Probab=88.41 E-value=8.6 Score=34.99 Aligned_cols=125 Identities=11% Similarity=0.001 Sum_probs=78.1
Q ss_pred hcCChHHHHHHHHhcCChHHHHHHHHHhCCC---hhHHHHHHHHHHhhhcCCCChHHHHHHHHHhhccCCCCCHHHHHHH
Q 007100 215 KSLTASVLIGRLINANCHLLALRISEYLGMN---QEVVIMHWACSKITASLAIPDVTLLEILLDKLKLCKGISYAAVAAH 291 (618)
Q Consensus 215 ~~l~~~~li~rL~~r~~~~lA~~I~~~l~~~---~~~I~~~WA~~kI~~~~~~~D~~l~~~I~~kl~~~~~is~~~IA~~ 291 (618)
..+.++.+|..+..+++..+.+.-=+.+=-. ...+..--...-+ ..+.+++.+.+.+ .....+...++..
T Consensus 6 ~~~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~----~~~~~~ll~~l~~---~~~~yd~~~~~~~ 78 (140)
T smart00299 6 DPIDVSEVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYA----KYDPQKEIERLDN---KSNHYDIEKVGKL 78 (140)
T ss_pred CcCCHHHHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHH----HHCHHHHHHHHHh---ccccCCHHHHHHH
Confidence 3466888999998888877777655443111 1111111111111 1134556666553 3467899999999
Q ss_pred HHHhCcHHHHHHHHhcCCCCccchhhhhhc-CchHHHHHHHHHcCChhHHHHHHHH
Q 007100 292 ADKSGRRKLAAMLVEHEPRSSKQVPLLLSI-GEEDTALVKATESGDTDLVYLVIFH 346 (618)
Q Consensus 292 A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~-~~~~~AL~kAi~S~D~dLI~~vLl~ 346 (618)
+.+.|..+.|..|+..-....+-|.+++.- ++.+.|++-|.+-+|+++-..++-+
T Consensus 79 c~~~~l~~~~~~l~~k~~~~~~Al~~~l~~~~d~~~a~~~~~~~~~~~lw~~~~~~ 134 (140)
T smart00299 79 CEKAKLYEEAVELYKKDGNFKDAIVTLIEHLGNYEKAIEYFVKQNNPELWAEVLKA 134 (140)
T ss_pred HHHcCcHHHHHHHHHhhcCHHHHHHHHHHcccCHHHHHHHHHhCCCHHHHHHHHHH
Confidence 999999998888887666655666666654 6666666666666666666666544
No 24
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=87.24 E-value=63 Score=37.71 Aligned_cols=52 Identities=19% Similarity=0.167 Sum_probs=37.1
Q ss_pred HHHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHH
Q 007100 289 AAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLV 340 (618)
Q Consensus 289 A~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI 340 (618)
|+-|.-..++++|.++...-......+-|+-++..|+.|+.-|-.-|-|.+=
T Consensus 538 a~lail~kkfk~ae~ifleqn~te~aigmy~~lhkwde~i~lae~~~~p~~e 589 (1636)
T KOG3616|consen 538 AMLAILEKKFKEAEMIFLEQNATEEAIGMYQELHKWDEAIALAEAKGHPALE 589 (1636)
T ss_pred HHHHHHHhhhhHHHHHHHhcccHHHHHHHHHHHHhHHHHHHHHHhcCChHHH
Confidence 5556666667777765553444566778888899999999888888877653
No 25
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=86.95 E-value=24 Score=41.58 Aligned_cols=261 Identities=19% Similarity=0.207 Sum_probs=133.1
Q ss_pred HHHHHHHHhcCChHHHHHHHHHhCCChhHHHHHHHHHHhhhcC-CCChHHHHHHHHHhhccCCCCCHHHHHHHHHHhCcH
Q 007100 220 SVLIGRLINANCHLLALRISEYLGMNQEVVIMHWACSKITASL-AIPDVTLLEILLDKLKLCKGISYAAVAAHADKSGRR 298 (618)
Q Consensus 220 ~~li~rL~~r~~~~lA~~I~~~l~~~~~~I~~~WA~~kI~~~~-~~~D~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~ 298 (618)
+.-|.-|+.-++|..|++||.-=|++... +.|- ++.-.. ++..++--..|. ..||....+.|-.
T Consensus 1097 ekAV~lL~~ar~~~~AlqlC~~~nv~vte---e~aE-~mTp~Kd~~~~e~~R~~vL-----------eqvae~c~qQG~Y 1161 (1416)
T KOG3617|consen 1097 EKAVNLLCLAREFSGALQLCKNRNVRVTE---EFAE-LMTPTKDDMPNEQERKQVL-----------EQVAELCLQQGAY 1161 (1416)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCchhH---HHHH-hcCcCcCCCccHHHHHHHH-----------HHHHHHHHhccch
Confidence 44577899999999999999977777433 2231 221111 223344344443 3478888899999
Q ss_pred HHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHHHHHHhh---CChhHHHHHH--hcChhHHHHHHHH
Q 007100 299 KLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVIFHIWQK---RPALEFFGMI--QTRPLACDLFTVY 373 (618)
Q Consensus 299 ~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl~l~~~---l~~~~f~~~l--~~~p~A~~l~~~y 373 (618)
++|++= +-.-|+-=.|+..-++|||++=|...----+++ .-...|.+.+ +.+|....+.+.|
T Consensus 1162 h~AtKK-------------fTQAGdKl~AMraLLKSGdt~KI~FFAn~sRqkEiYImAANyLQtlDWq~~pq~mK~I~tF 1228 (1416)
T KOG3617|consen 1162 HAATKK-------------FTQAGDKLSAMRALLKSGDTQKIRFFANTSRQKEIYIMAANYLQTLDWQDNPQTMKDIETF 1228 (1416)
T ss_pred HHHHHH-------------HhhhhhHHHHHHHHHhcCCcceEEEEeeccccceeeeehhhhhhhcccccChHHHhhhHhh
Confidence 999872 223455567888889999998664421110110 0011222222 1233333333333
Q ss_pred HHh-cCHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHhhhhhcc--cc-cHHHHHHHHH
Q 007100 374 ARC-YKHEFLKDFFLSTGQLQEVAFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHSLFSETK--EH-TFESKAAEEH 449 (618)
Q Consensus 374 ~~~-~~~~~L~d~~~q~d~~~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~~~~~~~--~~-~f~~~~~~e~ 449 (618)
+.. +..+.|-+||..- |.+-+.+ ++ +. +.-...|+.|.++..+.+ ++ ...-..+++-
T Consensus 1229 YTKgqafd~LanFY~~c------AqiEiee-~q--~y----------dKa~gAl~eA~kCl~ka~~k~~~~t~l~~Lq~~ 1289 (1416)
T KOG3617|consen 1229 YTKGQAFDHLANFYKSC------AQIEIEE-LQ--TY----------DKAMGALEEAAKCLLKAEQKNMSTTGLDALQED 1289 (1416)
T ss_pred hhcchhHHHHHHHHHHH------HHhhHHH-Hh--hh----------hHHhHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence 322 3344455554321 2222211 11 11 123456777777665533 11 1112234444
Q ss_pred HHHHHHHHHHHhhcccccccCCCHHHHHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHhhcc--C
Q 007100 450 AKLLRIQHELEVSTKQAIFVDSSISDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALERFSKE--K 527 (618)
Q Consensus 450 ~~Ll~~Q~~Le~~~~~~~f~~~Sl~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~s--K 527 (618)
+.+.+.|.+....+.. -..+.|++|-.+-..-.- +=-|+--+.+-+-|+.++..++|..-+++.++ |
T Consensus 1290 ~a~vk~~l~~~q~~~e------D~~~~i~qc~~lleep~l-----d~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~ 1358 (1416)
T KOG3617|consen 1290 LAKVKVQLRKLQIMKE------DAADGIRQCTTLLEEPIL-----DDIIRCTRLFALLIEDHVSRKNYKPAYRALTELQK 1358 (1416)
T ss_pred HHHHHHHHHHHHHhhh------hHHHHHHHHHHHhhCcCC-----CCcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhh
Confidence 4444443333322210 122445554332111000 11244456777889999999999999999864 3
Q ss_pred C-CCCCchHHHH
Q 007100 528 R-PPIGYRPFVE 538 (618)
Q Consensus 528 K-spIgyepfv~ 538 (618)
| |.....-||+
T Consensus 1359 k~p~~~~s~~v~ 1370 (1416)
T KOG3617|consen 1359 KVPNVDLSTFVE 1370 (1416)
T ss_pred cCCccchhcccc
Confidence 4 4455555554
No 26
>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised 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 []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.
Probab=83.13 E-value=3.1 Score=46.12 Aligned_cols=96 Identities=13% Similarity=0.233 Sum_probs=54.2
Q ss_pred CcccCCCCeeEEEecCCcEEEEeC-CCCCccccccCCCCCCCCceeeeCCCeEEEEE-CCeEEEEeCCCCc----eEee-
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNT-NFSSPVIDESCESALPPEQIAWCGMDSVLLYW-NDMLVMVAPQAEP----VQYF- 73 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ss-d~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~-~~~l~l~g~~~~~----~~~~- 73 (618)
|+.||||++|++ .++|...|+++ ++..+- .+....++|++++..++.= +..+.++.-..+. ++-+
T Consensus 38 ls~npngr~v~V-~g~geY~iyt~~~~r~k~-------~G~g~~~vw~~~n~yAv~~~~~~I~I~kn~~~~~~k~i~~~~ 109 (443)
T PF04053_consen 38 LSHNPNGRFVLV-CGDGEYEIYTALAWRNKA-------FGSGLSFVWSSRNRYAVLESSSTIKIYKNFKNEVVKSIKLPF 109 (443)
T ss_dssp EEE-TTSSEEEE-EETTEEEEEETTTTEEEE-------EEE-SEEEE-TSSEEEEE-TTS-EEEEETTEE-TT-----SS
T ss_pred EEECCCCCEEEE-EcCCEEEEEEccCCcccc-------cCceeEEEEecCccEEEEECCCeEEEEEcCccccceEEcCCc
Confidence 467999999999 66787777763 222221 2356799999976665554 4556664433222 2222
Q ss_pred -----cCCCeEEeecCCceEEeccCcchhhhccchh
Q 007100 74 -----YDEPLVLIPECDGVRILSNSSMEFLQRVPAS 104 (618)
Q Consensus 74 -----~~~~~~l~~e~Dg~riit~~~~~~l~~Vp~~ 104 (618)
|.+...++..-+.|-++.-++..++++|+-.
T Consensus 110 ~~~~If~G~LL~~~~~~~i~~yDw~~~~~i~~i~v~ 145 (443)
T PF04053_consen 110 SVEKIFGGNLLGVKSSDFICFYDWETGKLIRRIDVS 145 (443)
T ss_dssp -EEEEE-SSSEEEEETTEEEEE-TTT--EEEEESS-
T ss_pred ccceEEcCcEEEEECCCCEEEEEhhHcceeeEEecC
Confidence 1256666666667888888888888887754
No 27
>KOG2111 consensus Uncharacterized conserved protein, contains WD40 repeats [Function unknown]
Probab=80.23 E-value=5.3 Score=41.67 Aligned_cols=73 Identities=16% Similarity=0.376 Sum_probs=45.5
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCC------CCC--ceeee-------CCCeEEEEEC---CeEEE
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESAL------PPE--QIAWC-------GMDSVLLYWN---DMLVM 62 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~------~p~--~~~WC-------G~d~v~~~~~---~~l~l 62 (618)
|++|||+.++|.-.+.|++.|++---...- + +..++. .|+ .=+|- ..+.+++.|. +.|++
T Consensus 232 iaFSp~~s~LavsSdKgTlHiF~l~~~~~~-~-~~~SSl~~~~~~lpky~~S~wS~~~f~l~~~~~~~~~fg~~~nsvi~ 309 (346)
T KOG2111|consen 232 IAFSPNSSWLAVSSDKGTLHIFSLRDTENT-E-DESSSLSFKRLVLPKYFSSEWSFAKFQLPQGTQCIIAFGSETNTVIA 309 (346)
T ss_pred EEeCCCccEEEEEcCCCeEEEEEeecCCCC-c-cccccccccccccchhcccceeEEEEEccCCCcEEEEecCCCCeEEE
Confidence 689999999999999999999763111100 0 000111 111 01342 2345667775 56899
Q ss_pred EeCCCCceEeecC
Q 007100 63 VAPQAEPVQYFYD 75 (618)
Q Consensus 63 ~g~~~~~~~~~~~ 75 (618)
++.+|.|-+|.++
T Consensus 310 i~~Dgsy~k~~f~ 322 (346)
T KOG2111|consen 310 ICADGSYYKFKFD 322 (346)
T ss_pred EEeCCcEEEEEec
Confidence 9999998888775
No 28
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=79.18 E-value=4.9 Score=45.32 Aligned_cols=105 Identities=17% Similarity=0.301 Sum_probs=67.8
Q ss_pred CcccCCCCeeEEEecCCcEEEEeC-CCCCccccccCCCCCCCCceeeeCC-CeEEEEE-CCeEEEEeCCCC--c------
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNT-NFSSPVIDESCESALPPEQIAWCGM-DSVLLYW-NDMLVMVAPQAE--P------ 69 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ss-d~~~~~~e~~~~~~~~p~~~~WCG~-d~v~~~~-~~~l~l~g~~~~--~------ 69 (618)
++.||||+||+. ..+|...|+++ .++.+ ..+.-..++|-.+ +--++.= +..+++.-.+.+ +
T Consensus 357 L~hsPNGrfV~V-cgdGEyiIyTala~RnK-------~fG~~~eFvw~~dsne~avRes~~~vki~knfke~ksi~~~~~ 428 (794)
T KOG0276|consen 357 LAHSPNGRFVVV-CGDGEYIIYTALALRNK-------AFGSGLEFVWAADSNEFAVRESNGNVKIFKNFKEHKSIRPDMS 428 (794)
T ss_pred hccCCCCcEEEE-ecCccEEEEEeeehhhc-------ccccceeEEEcCCCCeEEEEecCCceEEEecceeccccccccc
Confidence 468999999998 45888878764 22222 2445678999865 3333332 333443322221 1
Q ss_pred eEeecCCCeEEeecCCceEEeccCcchhhhccchhhhhhhccCC
Q 007100 70 VQYFYDEPLVLIPECDGVRILSNSSMEFLQRVPASTEQIFAIGS 113 (618)
Q Consensus 70 ~~~~~~~~~~l~~e~Dg~riit~~~~~~l~~Vp~~~~~if~igS 113 (618)
..+.|.++..-+--.|+++++.=++.+|++|+--...+||=-++
T Consensus 429 ~e~i~gg~Llg~~ss~~~~fydW~~~~lVrrI~v~~k~v~w~d~ 472 (794)
T KOG0276|consen 429 AEGIFGGPLLGVRSSDFLCFYDWESGELVRRIEVTSKHVYWSDN 472 (794)
T ss_pred eeeecCCceEEEEeCCeEEEEEcccceEEEEEeeccceeEEecC
Confidence 33344556666667799999999999999998877776665554
No 29
>PF14649 Spatacsin_C: Spatacsin C-terminus
Probab=77.72 E-value=97 Score=32.54 Aligned_cols=103 Identities=14% Similarity=0.154 Sum_probs=70.0
Q ss_pred hHHHHHHHHHhhh-------hhcccccHHHHHHHHHHHHHHHHHHHHhhcccccccCCCHHHHHHHHHHcCCcchHHhHH
Q 007100 421 PRIKRIEKAHSLF-------SETKEHTFESKAAEEHAKLLRIQHELEVSTKQAIFVDSSISDTIRTCIVLGNHRAAMKVK 493 (618)
Q Consensus 421 ~k~~~L~~a~~~~-------~~~~~~~f~~~~~~e~~~Ll~~Q~~Le~~~~~~~f~~~Sl~~Ti~~li~~~~~k~a~kl~ 493 (618)
+..+.|..|.+.| .+... .-.+.-+-.+++|+.+|..+-+...+..+.+++-.+..+.+.......+|.-++
T Consensus 166 ~~~~~L~~am~~~~~AAe~ylk~~~-~~~A~~c~~~a~LvaLQi~l~n~~~~~~iinL~~~~~~~~v~~~~~F~eALIva 244 (296)
T PF14649_consen 166 ELKSELLEAMENFTDAAENYLKDNC-LRLAQRCAAQAQLVALQIRLLNQAQNVRIINLSREEARRLVMSHPRFPEALIVA 244 (296)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcch-HHHHHHHHHHHHHHHHHHhhccccccceEeeCCHHHHHHHHHhCCChHHHHHHH
Confidence 3445555555554 44332 334666889999999999998766556799999999888888888889999999
Q ss_pred hHcCcChHHHHHH--HHHHHHhcCChhHHHHhhc
Q 007100 494 TEFKVSEKRWYWL--KVFALATKRDWDALERFSK 525 (618)
Q Consensus 494 k~fKVsdkr~~~l--kl~aLa~~~~wdeLe~f~~ 525 (618)
+-|+.... -.|. --.-.+..|+++-|+.|..
T Consensus 245 ~AY~~n~~-~~Wa~~Ly~q~v~~g~~~YL~df~~ 277 (296)
T PF14649_consen 245 EAYDLNQP-SDWAEVLYQQVVLNGNFKYLEDFLS 277 (296)
T ss_pred HHHCCCCC-ccHHHHHHHHHHHcCcHHHHHHHHH
Confidence 99988332 2222 2233445566665655553
No 30
>COG4946 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]
Probab=77.50 E-value=6.8 Score=42.91 Aligned_cols=121 Identities=18% Similarity=0.129 Sum_probs=68.1
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEE-EC-----CeEEEEeCCCC-----c
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLY-WN-----DMLVMVAPQAE-----P 69 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~-~~-----~~l~l~g~~~~-----~ 69 (618)
|.+||+|+++++-|+.+.||++..|-..+- +.|-....-...+.|--+.--+.+ |+ ..+.+.-..+. +
T Consensus 407 v~vs~dGK~~vvaNdr~el~vididngnv~-~idkS~~~lItdf~~~~nsr~iAYafP~gy~tq~Iklydm~~~Kiy~vT 485 (668)
T COG4946 407 VKVSPDGKKVVVANDRFELWVIDIDNGNVR-LIDKSEYGLITDFDWHPNSRWIAYAFPEGYYTQSIKLYDMDGGKIYDVT 485 (668)
T ss_pred EEEcCCCcEEEEEcCceEEEEEEecCCCee-EecccccceeEEEEEcCCceeEEEecCcceeeeeEEEEecCCCeEEEec
Confidence 578999999999999999999876554442 344333445678888866544333 33 23344444432 1
Q ss_pred eEeecCCCeEEeecCCceEEeccCcc----------hhhhccchhhhhhhccCCCChHHHHHH
Q 007100 70 VQYFYDEPLVLIPECDGVRILSNSSM----------EFLQRVPASTEQIFAIGSTSPAALLYD 122 (618)
Q Consensus 70 ~~~~~~~~~~l~~e~Dg~riit~~~~----------~~l~~Vp~~~~~if~igS~~P~a~L~~ 122 (618)
....||-.+.+-+|---+.-++..++ .-.++|..+..-+.+.|+++|...-.+
T Consensus 486 T~ta~DfsPaFD~d~ryLYfLs~RsLdPs~Drv~fnf~f~~vskPylv~L~~g~~sP~~q~p~ 548 (668)
T COG4946 486 TPTAYDFSPAFDPDGRYLYFLSARSLDPSNDRVIFNFSFQRVSKPYLVVLGRGYYSPFNQPPD 548 (668)
T ss_pred CCcccccCcccCCCCcEEEEEeccccCCCCCeeEEEEEEeeeccceEEEecCCCCChhhcCch
Confidence 11222322222222222222322221 123566777777889999999754433
No 31
>KOG0292 consensus Vesicle coat complex COPI, alpha subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=76.99 E-value=3.6 Score=48.15 Aligned_cols=77 Identities=19% Similarity=0.221 Sum_probs=63.0
Q ss_pred cCChhHHHHhhccCCCCCCchHHHHHHHhcCCHHHHHHhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHH
Q 007100 514 KRDWDALERFSKEKRPPIGYRPFVEACVDADEKGEALKYIPKLVDPRERAEAYARIGMAKEAADAASQAKDGELLGRLKL 593 (618)
Q Consensus 514 ~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~~eA~kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~ 593 (618)
++++|+.-.++++. -.--...+-.+.+.|.|+.|..|+. |...|.++.+.||+.+.|.+.|.+..|.+.-..+-.
T Consensus 606 ~k~ydeVl~lI~ns--~LvGqaiIaYLqKkgypeiAL~FVk---D~~tRF~LaLe~gnle~ale~akkldd~d~w~rLge 680 (1202)
T KOG0292|consen 606 NKKYDEVLHLIKNS--NLVGQAIIAYLQKKGYPEIALHFVK---DERTRFELALECGNLEVALEAAKKLDDKDVWERLGE 680 (1202)
T ss_pred hhhhHHHHHHHHhc--CcccHHHHHHHHhcCCcceeeeeec---CcchheeeehhcCCHHHHHHHHHhcCcHHHHHHHHH
Confidence 47899999999743 2223344556789999999999987 899999999999999999999999999988777665
Q ss_pred Hc
Q 007100 594 TF 595 (618)
Q Consensus 594 ~~ 595 (618)
.+
T Consensus 681 ~A 682 (1202)
T KOG0292|consen 681 EA 682 (1202)
T ss_pred HH
Confidence 43
No 32
>KOG1445 consensus Tumor-specific antigen (contains WD repeats) [Cytoskeleton]
Probab=75.88 E-value=10 Score=43.03 Aligned_cols=55 Identities=27% Similarity=0.450 Sum_probs=39.0
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCC-CCccccccCCCCCCCCceee-eCCCeEEEE
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNF-SSPVIDESCESALPPEQIAW-CGMDSVLLY 55 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~-~~~~~e~~~~~~~~p~~~~W-CG~d~v~~~ 55 (618)
+|-||+|+.+|-...+|++.|+...- .+.+.|=......+--.+.| |.+.+|++.
T Consensus 726 ~AWSpdGr~~AtVcKDg~~rVy~Prs~e~pv~Eg~gpvgtRgARi~wacdgr~viv~ 782 (1012)
T KOG1445|consen 726 IAWSPDGRRIATVCKDGTLRVYEPRSREQPVYEGKGPVGTRGARILWACDGRIVIVV 782 (1012)
T ss_pred EEECCCCcceeeeecCceEEEeCCCCCCCccccCCCCccCcceeEEEEecCcEEEEe
Confidence 47799999999999999999987643 33445554433344568999 666666654
No 33
>PF04841 Vps16_N: Vps16, N-terminal region; InterPro: IPR006926 This protein forms part of the Class C vacuolar protein sorting (Vps) complex. Vps16 is essential for vacuolar protein sorting, which is essential for viability in plants, but not yeast []. The Class C Vps complex is required for SNARE-mediated membrane fusion at the lysosome-like yeast vacuole. It is thought to play essential roles in membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of transport []. The role of VPS16 in this complex is not known.; GO: 0006886 intracellular protein transport, 0005737 cytoplasm
Probab=75.87 E-value=8.3 Score=42.38 Aligned_cols=92 Identities=14% Similarity=0.201 Sum_probs=58.3
Q ss_pred CcccCCCCeeEEEecC-----------CcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEEECC-eEEEEeCCCC
Q 007100 1 MAVSPNGNFVACFTHD-----------GRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLYWND-MLVMVAPQAE 68 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~-----------g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~~~-~l~l~g~~~~ 68 (618)
+|++|.|.-||++.++ ..|.|++..- +.+..+.-+. .++..|.|..++-+++-.++ .+.++.+.|+
T Consensus 34 va~a~~gGpIAi~~d~~k~~~~~~~~p~~I~iys~sG-~ll~~i~w~~-~~iv~~~wt~~e~LvvV~~dG~v~vy~~~G~ 111 (410)
T PF04841_consen 34 VAVAPYGGPIAIIRDESKLVPVGSAKPNSIQIYSSSG-KLLSSIPWDS-GRIVGMGWTDDEELVVVQSDGTVRVYDLFGE 111 (410)
T ss_pred EEEcCCCceEEEEecCcccccccCCCCcEEEEECCCC-CEeEEEEECC-CCEEEEEECCCCeEEEEEcCCEEEEEeCCCc
Confidence 4789999999999866 1366665433 3343333333 57889999887776666655 5578888887
Q ss_pred ceEeecCCCeE--Ee--------ecC-CceEEeccCcc
Q 007100 69 PVQYFYDEPLV--LI--------PEC-DGVRILSNSSM 95 (618)
Q Consensus 69 ~~~~~~~~~~~--l~--------~e~-Dg~riit~~~~ 95 (618)
. +|..+..+- =+ ..- .|+=|+|.+..
T Consensus 112 ~-~fsl~~~i~~~~v~e~~i~~~~~~~~GivvLt~~~~ 148 (410)
T PF04841_consen 112 F-QFSLGEEIEEEKVLECRIFAIWFYKNGIVVLTGNNR 148 (410)
T ss_pred e-eechhhhccccCcccccccccccCCCCEEEECCCCe
Confidence 7 665542210 01 112 68888886654
No 34
>PF12894 Apc4_WD40: Anaphase-promoting complex subunit 4 WD40 domain
Probab=73.50 E-value=4.7 Score=30.07 Aligned_cols=29 Identities=28% Similarity=0.398 Sum_probs=24.3
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCc
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSP 29 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~ 29 (618)
|+-||+...||+-+++|.++|.-.+..+.
T Consensus 17 ~~w~P~mdLiA~~t~~g~v~v~Rl~~qri 45 (47)
T PF12894_consen 17 MSWCPTMDLIALGTEDGEVLVYRLNWQRI 45 (47)
T ss_pred EEECCCCCEEEEEECCCeEEEEECCCcCc
Confidence 46799999999999999999987665553
No 35
>PF10493 Rod_C: Rough deal protein C-terminal region; InterPro: IPR019527 Rod, the Rough deal protein (also known as Kinetochore-associated protein 1) displays a dynamic intracellular staining pattern, localising first to kinetochores in pro-metaphase, but moving to kinetochore microtubules at metaphase. Early in anaphase the protein is once again restricted to the kinetochores, where it persists until the end of telophase. This behaviour is in all respects similar to that described for ZW10 [], and indeed the two proteins function together, localisation of each depending upon the other []. These two proteins are found at the kinetochore in complex with a third, Zwilch, in both flies and humans. The C- terminus is the most conserved part of the protein. During pro-metaphase, the ZW10-Rod complex, dynein/dynactin, and Mad2 all accumulate on unattached kinetochores; microtubule capture leads to Mad2 depletion as it is carried off by dynein/dynactin; ZW10-Rod complex accumulation continues, replenishing kinetochore dynein. The continuing recruitment of the ZW10-Rod complex during metaphase may serve to maintain adequate dynein/dynactin complex on kinetochores for assisting chromatid movement during anaphase[]. The ZW10-Rod complex acts as a bridge whose association with Zwint-1 links Mad1 and Mad2, components that are directly responsible for generating the diffusible 'wait anaphase' signal, to a structural, inner kinetochore complex containing Mis12 and KNL-1AF15q14, the last of which has been proved to be essential for kinetochore assembly in Caenorhabditis elegans. Removal of ZW10 or Rod inactivates the mitotic checkpoint [].
Probab=71.14 E-value=1.1e+02 Score=35.22 Aligned_cols=71 Identities=15% Similarity=0.144 Sum_probs=49.2
Q ss_pred hhccCC---CCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHHHHHHhhCC
Q 007100 276 KLKLCK---GISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVIFHIWQKRP 352 (618)
Q Consensus 276 kl~~~~---~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl~l~~~l~ 352 (618)
.|..|| ..++..||+...+.+|+.+|.-.|-.=|..++| +.-+.+=+.++|++-+..=+..+.++=-
T Consensus 468 ~l~~CPv~~~ldl~~ia~~~~~~~~~~~Al~~Ll~~~~~~~~----------~~~i~~~~~~~~~~~~~~q~~~~~~~g~ 537 (551)
T PF10493_consen 468 LLLKCPVLHDLDLIGIAKQCIQLKLPAFALACLLLFPQSEKR----------KQQIQKLLASCNPETLLQQIEELMNTGE 537 (551)
T ss_pred HHHcCCccccccHHHHHHHHHHcCCHHHHHHHHhhCccchhH----------HHHHHHHHHcCCHHHHHHHHHHHHhcCc
Confidence 445666 579999999999999999984433333444433 4456666888888888877777777633
Q ss_pred hhHH
Q 007100 353 ALEF 356 (618)
Q Consensus 353 ~~~f 356 (618)
.+.|
T Consensus 538 ~~~~ 541 (551)
T PF10493_consen 538 LAGF 541 (551)
T ss_pred HHHH
Confidence 3333
No 36
>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 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. These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) 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 [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.
Probab=70.75 E-value=0.26 Score=45.28 Aligned_cols=80 Identities=16% Similarity=0.152 Sum_probs=67.8
Q ss_pred HHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHHHH
Q 007100 267 VTLLEILLDKLKLCKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVIFH 346 (618)
Q Consensus 267 ~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl~ 346 (618)
+++.+.+. ...+.+...|+..+.+.|..+-|..|...=....+-+.++..+++++.|++-|.+.+|+++...++-+
T Consensus 59 ~~l~~~L~----~~~~yd~~~~~~~c~~~~l~~~a~~Ly~~~~~~~~al~i~~~~~~~~~a~e~~~~~~~~~l~~~l~~~ 134 (143)
T PF00637_consen 59 EKLLEFLK----TSNNYDLDKALRLCEKHGLYEEAVYLYSKLGNHDEALEILHKLKDYEEAIEYAKKVDDPELWEQLLKY 134 (143)
T ss_dssp CHHHHTTT----SSSSS-CTHHHHHHHTTTSHHHHHHHHHCCTTHTTCSSTSSSTHCSCCCTTTGGGCSSSHHHHHHHHH
T ss_pred hHHHHHcc----cccccCHHHHHHHHHhcchHHHHHHHHHHcccHHHHHHHHHHHccHHHHHHHHHhcCcHHHHHHHHHH
Confidence 56666654 44567888999999999999999999998888888888888999999999999999999999999877
Q ss_pred HHhh
Q 007100 347 IWQK 350 (618)
Q Consensus 347 l~~~ 350 (618)
+...
T Consensus 135 ~l~~ 138 (143)
T PF00637_consen 135 CLDS 138 (143)
T ss_dssp HCTS
T ss_pred HHhc
Confidence 6554
No 37
>KOG0263 consensus Transcription initiation factor TFIID, subunit TAF5 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=69.27 E-value=7.7 Score=44.68 Aligned_cols=64 Identities=16% Similarity=0.187 Sum_probs=44.0
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEEECCeEEEEeCCCCceEee
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLYWNDMLVMVAPQAEPVQYF 73 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~~~~l~l~g~~~~~~~~~ 73 (618)
+++||+|+++|.-.++|.|.++...-.+.+.++-.. ......|.. +....++++|..+.+|+.|
T Consensus 583 l~~Sp~Gr~LaSg~ed~~I~iWDl~~~~~v~~l~~H-t~ti~SlsF--------S~dg~vLasgg~DnsV~lW 646 (707)
T KOG0263|consen 583 LAFSPCGRYLASGDEDGLIKIWDLANGSLVKQLKGH-TGTIYSLSF--------SRDGNVLASGGADNSVRLW 646 (707)
T ss_pred EEEcCCCceEeecccCCcEEEEEcCCCcchhhhhcc-cCceeEEEE--------ecCCCEEEecCCCCeEEEE
Confidence 578999999999999999988776555555444322 223344444 4456667777777788777
No 38
>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1.
Probab=66.79 E-value=42 Score=32.12 Aligned_cols=83 Identities=17% Similarity=0.137 Sum_probs=64.0
Q ss_pred hHHHHHHHHHHHHhcCChhHHHHhhccCCCCCCchHHHHHHHhcCCH-----HHHHHhhccCC-CHHHHHHHHHHcCCHH
Q 007100 500 EKRWYWLKVFALATKRDWDALERFSKEKRPPIGYRPFVEACVDADEK-----GEALKYIPKLV-DPRERAEAYARIGMAK 573 (618)
Q Consensus 500 dkr~~~lkl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~-----~eA~kyI~ki~-d~e~r~~l~~k~~~~~ 573 (618)
+...+-+-++.|++.|.+..|..|...+ .--.=.|++-.++..|+. ..|.--..++. .+++.++.++.-|++-
T Consensus 28 ~~~L~~lli~lLi~~~~~~~L~qllq~~-Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~~~~~~iievLL~~g~vl 106 (167)
T PF07035_consen 28 QHELYELLIDLLIRNGQFSQLHQLLQYH-VIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLGTAYEEIIEVLLSKGQVL 106 (167)
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHhhc-ccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhhhhHHHHHHHHHhCCCHH
Confidence 3447888899999999999999999733 222345777888887764 25556677777 8889999999999999
Q ss_pred HHHHHHHhcC
Q 007100 574 EAADAASQAK 583 (618)
Q Consensus 574 eA~~~a~~~k 583 (618)
+|+..|.+.+
T Consensus 107 ~ALr~ar~~~ 116 (167)
T PF07035_consen 107 EALRYARQYH 116 (167)
T ss_pred HHHHHHHHcC
Confidence 9999998753
No 39
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=66.31 E-value=2.7e+02 Score=32.72 Aligned_cols=160 Identities=16% Similarity=0.208 Sum_probs=98.0
Q ss_pred hcCHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHhhhhhcccccHHHHHHHHHHHHHHH
Q 007100 376 CYKHEFLKDFFLSTGQLQEVAFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHSLFSETKEHTFESKAAEEHAKLLRI 455 (618)
Q Consensus 376 ~~~~~~L~d~~~q~d~~~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~~~~~~~~~~f~~~~~~e~~~Ll~~ 455 (618)
.++.+.+.+.|+....|.++-.+... ++ ++-++|....+.|... ....++++-+++-
T Consensus 822 ~~~~e~~~ecly~le~f~~LE~la~~-------Lp----------e~s~llp~~a~mf~sv---GMC~qAV~a~Lr~--- 878 (1189)
T KOG2041|consen 822 CGDTENQIECLYRLELFGELEVLART-------LP----------EDSELLPVMADMFTSV---GMCDQAVEAYLRR--- 878 (1189)
T ss_pred ccchHhHHHHHHHHHhhhhHHHHHHh-------cC----------cccchHHHHHHHHHhh---chHHHHHHHHHhc---
Confidence 45667777777777676665544322 23 3445777776666532 2334455555211
Q ss_pred HHHHHhhcccccccCCCHHHHHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHH--HHHhcCChhHHHHhhccCCCCCCc
Q 007100 456 QHELEVSTKQAIFVDSSISDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVF--ALATKRDWDALERFSKEKRPPIGY 533 (618)
Q Consensus 456 Q~~Le~~~~~~~f~~~Sl~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~--aLa~~~~wdeLe~f~~sKKspIgy 533 (618)
. -....+..|..++|+..|-.|++.|.+|+-+--.-|-. -|++.+.-+.++.. +|+ ||
T Consensus 879 ------s---------~pkaAv~tCv~LnQW~~avelaq~~~l~qv~tliak~aaqll~~~~~~eaIe~~---Rka--~~ 938 (1189)
T KOG2041|consen 879 ------S---------LPKAAVHTCVELNQWGEAVELAQRFQLPQVQTLIAKQAAQLLADANHMEAIEKD---RKA--GR 938 (1189)
T ss_pred ------c---------CcHHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHhhcchHHHHHHh---hhc--cc
Confidence 1 12347788999999999999999999999886655443 35666666665543 333 33
Q ss_pred hHHHHHHHhcCCHHHHHHhhccCCCHHHHHHHHH----HcCCHHHHHHHHHhc
Q 007100 534 RPFVEACVDADEKGEALKYIPKLVDPRERAEAYA----RIGMAKEAADAASQA 582 (618)
Q Consensus 534 epfv~~~~~~~~~~eA~kyI~ki~d~e~r~~l~~----k~~~~~eA~~~a~~~ 582 (618)
..=+-.++..-+.+|+.||.+ +.+--++|+ ...++.+++..+.+.
T Consensus 939 ~~daarll~qmae~e~~K~~p----~lr~KklYVL~AlLvE~h~~~ik~~~~~ 987 (1189)
T KOG2041|consen 939 HLDAARLLSQMAEREQEKYVP----YLRLKKLYVLGALLVENHRQTIKELRKI 987 (1189)
T ss_pred chhHHHHHHHHhHHHhhccCC----HHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 333455666667778888876 444444554 345677777666543
No 40
>COG5290 IkappaB kinase complex, IKAP component [Transcription]
Probab=65.04 E-value=3e+02 Score=32.81 Aligned_cols=83 Identities=16% Similarity=0.105 Sum_probs=59.5
Q ss_pred HHHHHHhcCChhHHHHhhccCCCCCCchHHHHH-----HHh---cCCHHHH-HHhhccCCCHHHHHHHHHHcCCHHHHHH
Q 007100 507 KVFALATKRDWDALERFSKEKRPPIGYRPFVEA-----CVD---ADEKGEA-LKYIPKLVDPRERAEAYARIGMAKEAAD 577 (618)
Q Consensus 507 kl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~-----~~~---~~~~~eA-~kyI~ki~d~e~r~~l~~k~~~~~eA~~ 577 (618)
++-++-..+.|.+--..+..++. --++..++. |+. +|+...+ ..|+. ++.+++.++++-..|++|.-
T Consensus 954 a~gay~sA~mwrec~si~~q~~~-~e~~~~AE~L~S~l~ve~R~~~da~~i~l~yl~---N~~eava~~ckgs~y~ea~~ 1029 (1243)
T COG5290 954 AHGAYDSALMWRECGSISTQEKG-YEFNLCAELLPSDLLVEFRKAGDAEKILLTYLE---NLYEAVAMDCKGSEYREAFC 1029 (1243)
T ss_pred HHHHHHHHHHHHHHhhHHhhhcc-hHHHHHHHhhhhhHHHHHHHhcCHHHHHHHHHh---CHHHHHHHHcccccchHHHH
Confidence 45678888999998888875542 113333332 222 4444433 36666 58899999999999999999
Q ss_pred HHHhcCCHHHHHHHHH
Q 007100 578 AASQAKDGELLGRLKL 593 (618)
Q Consensus 578 ~a~~~kd~~~L~~i~~ 593 (618)
+|...|+.+.++.+..
T Consensus 1030 ~a~~s~~~e~~k~~~~ 1045 (1243)
T COG5290 1030 EAMVSRLVESEKHYEA 1045 (1243)
T ss_pred HHHHhhhhhHHHHhhh
Confidence 9999999998888775
No 41
>KOG3616 consensus Selective LIM binding factor [Transcription]
Probab=61.55 E-value=3.3e+02 Score=32.17 Aligned_cols=333 Identities=17% Similarity=0.145 Sum_probs=174.8
Q ss_pred hHHHHHHHHhcCChHHHHHHHHHhCCC--hhHHHHHHHHHHhhhcCCCChHHHHHHHHHhhc------------------
Q 007100 219 ASVLIGRLINANCHLLALRISEYLGMN--QEVVIMHWACSKITASLAIPDVTLLEILLDKLK------------------ 278 (618)
Q Consensus 219 ~~~li~rL~~r~~~~lA~~I~~~l~~~--~~~I~~~WA~~kI~~~~~~~D~~l~~~I~~kl~------------------ 278 (618)
...-+++.-..+.+.-|+||++--|-. ...|+--||... .+ +.+-.+.+|.+
T Consensus 911 ~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksi---gg-----daavkllnk~gll~~~id~a~d~~afd~a 982 (1636)
T KOG3616|consen 911 FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSI---GG-----DAAVKLLNKHGLLEAAIDFAADNCAFDFA 982 (1636)
T ss_pred HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhh---Cc-----HHHHHHHHhhhhHHHHhhhhhcccchhhH
Confidence 566778888889999999999876665 577998999642 11 11111222221
Q ss_pred ---------cCCCCCHHHHHHHHHHhCcHHHHH--------------------------HHHhcCCCCccchhhhhhcCc
Q 007100 279 ---------LCKGISYAAVAAHADKSGRRKLAA--------------------------MLVEHEPRSSKQVPLLLSIGE 323 (618)
Q Consensus 279 ---------~~~~is~~~IA~~A~~~gR~~LA~--------------------------~Ll~~E~~~~~qV~lLl~~~~ 323 (618)
...+---...|..--++||.+-|- ..+-.-..|...|.|++.-++
T Consensus 983 fdlari~~k~k~~~vhlk~a~~ledegk~edaskhyveaiklntynitwcqavpsrfd~e~ir~gnkpe~av~mfi~dnd 1062 (1636)
T KOG3616|consen 983 FDLARIAAKDKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLNTYNITWCQAVPSRFDAEFIRAGNKPEEAVEMFIHDND 1062 (1636)
T ss_pred HHHHHHhhhccCccchhHHhhhhhhccchhhhhHhhHHHhhcccccchhhhcccchhhHHHHHcCCChHHHHHHhhhccc
Confidence 001111122344445567766651 233344467777888888888
Q ss_pred hHHHHHHHHHcCChhHHHHHHHH-HHhhCChhHHHH----HHhc-ChhHHHHHHHHHHhcC--HHHH---HHHHHhcCCh
Q 007100 324 EDTALVKATESGDTDLVYLVIFH-IWQKRPALEFFG----MIQT-RPLACDLFTVYARCYK--HEFL---KDFFLSTGQL 392 (618)
Q Consensus 324 ~~~AL~kAi~S~D~dLI~~vLl~-l~~~l~~~~f~~----~l~~-~p~A~~l~~~y~~~~~--~~~L---~d~~~q~d~~ 392 (618)
|+.|=.-| +..++|++--|+.- -+..+...+|.+ +|+. +|. +-.+|..+.. ++.| ++|.-
T Consensus 1063 wa~aerva-e~h~~~~l~dv~tgqar~aiee~d~~kae~fllrankp~---i~l~yf~e~~lw~dalri~kdylp----- 1133 (1636)
T KOG3616|consen 1063 WAAAERVA-EAHCEDLLADVLTGQARGAIEEGDFLKAEGFLLRANKPD---IALNYFIEAELWPDALRIAKDYLP----- 1133 (1636)
T ss_pred HHHHHHHH-HhhChhhhHHHHhhhhhccccccchhhhhhheeecCCCc---hHHHHHHHhccChHHHHHHHhhCh-----
Confidence 88775544 67889999999875 455555556654 2222 231 1122222211 1221 12211
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCCCCCcchHH---------HHHHHHHhhhhhc-c----cccHHHHHHHHHHHHHHHHHH
Q 007100 393 QEVAFLLWKESWELGKNPMASNGSALHGPRI---------KRIEKAHSLFSET-K----EHTFESKAAEEHAKLLRIQHE 458 (618)
Q Consensus 393 ~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~---------~~L~~a~~~~~~~-~----~~~f~~~~~~e~~~Ll~~Q~~ 458 (618)
..++ .+++-|+.+... .|-...+.-+ ---++|.+.|-+- + ++.+...+.+...+|.
T Consensus 1134 ~q~a--~iqeeyek~~~k---~gargvd~fvaqak~weq~gd~rkav~~~lkinrdst~nd~l~e~~~~kaadl~----- 1203 (1636)
T KOG3616|consen 1134 HQAA--AIQEEYEKEALK---KGARGVDGFVAQAKEWEQAGDWRKAVDALLKINRDSTDNDALAEHCTEKAADLS----- 1203 (1636)
T ss_pred hHHH--HHHHHHHHHHHh---ccccccHHHHHHHHHHHhcccHHHHHHHHhhhccCCCCcHHHHHHHHHHHHhhh-----
Confidence 1111 122222221110 0100000000 0112233333221 1 2222222333322221
Q ss_pred HHhhcccccccCCC----HHHHHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHhhccCCCCCCch
Q 007100 459 LEVSTKQAIFVDSS----ISDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALERFSKEKRPPIGYR 534 (618)
Q Consensus 459 Le~~~~~~~f~~~S----l~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~sKKspIgye 534 (618)
-++ +.|-- +.-..-.|..-|++..|..|-=-|..+-. .|.++|+.+.|..-.+.+++-- --|+
T Consensus 1204 --ikf----l~~d~nme~i~aa~~al~~~~~~e~aael~l~f~~~ke-----aida~~~~eewakakqvake~~--p~~~ 1270 (1636)
T KOG3616|consen 1204 --IKF----LMGDENMEVIGAAGGALDEAGCHEAAAELLLLFDLSKE-----AIDAFCEAEEWAKAKQVAKELD--PEME 1270 (1636)
T ss_pred --hhh----cCCccchhhHHhcchhhhcccccHHHHHHHHHhhhHHH-----HHHHHHhHHHHHHHHHHHHHhC--chhh
Confidence 111 11111 12233456677888777777666766543 6889999999999888887433 2467
Q ss_pred HHHHHHHhcCCHHHHH--HhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHH
Q 007100 535 PFVEACVDADEKGEAL--KYIPKLVDPRERAEAYARIGMAKEAADAASQAKDGELLGRLKL 593 (618)
Q Consensus 535 pfv~~~~~~~~~~eA~--kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~ 593 (618)
|.|+...+.--+.+.. ..|.- |.-.-+.|++..++|..|++.|.++.=...|..+-.
T Consensus 1271 ~~idk~yke~lknegkl~eli~v--dviaaidl~ien~qwdk~idtak~qnykpil~kyva 1329 (1636)
T KOG3616|consen 1271 DEIDKHYKEFLKNEGKLDELIDV--DVIAAIDLMIENDQWDKAIDTAKKQNYKPILDKYVA 1329 (1636)
T ss_pred HHHHHHHHHHHhccCccccccch--hHHHHHHHHHhcccHHHHHHHHHhcccHHHHHHHHH
Confidence 7776655432222221 12211 577889999999999999999999987767766543
No 42
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=59.01 E-value=1.4e+02 Score=34.57 Aligned_cols=128 Identities=12% Similarity=0.112 Sum_probs=82.9
Q ss_pred CCCHHHHHHH--HHHcCCcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHhhccCCCCCCchHHHHHHHhcCCHH
Q 007100 470 DSSISDTIRT--CIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALERFSKEKRPPIGYRPFVEACVDADEKG 547 (618)
Q Consensus 470 ~~Sl~~Ti~~--li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~~ 547 (618)
|.+.++.+.. |...|..++|.+|-++-+-+.+ .+.-+.+.+.||....|.++.- |-+ =+.++..
T Consensus 630 ge~P~~iLlA~~~Ay~gKF~EAAklFk~~G~enR-----AlEmyTDlRMFD~aQE~~~~g~---~~e--KKmL~RK---- 695 (1081)
T KOG1538|consen 630 GETPNDLLLADVFAYQGKFHEAAKLFKRSGHENR-----ALEMYTDLRMFDYAQEFLGSGD---PKE--KKMLIRK---- 695 (1081)
T ss_pred CCCchHHHHHHHHHhhhhHHHHHHHHHHcCchhh-----HHHHHHHHHHHHHHHHHhhcCC---hHH--HHHHHHH----
Confidence 4445555543 5556888889999888888776 3556677778888887775310 000 0111111
Q ss_pred HHHHhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHcc-CChHHHHHHHHHHHHh
Q 007100 548 EALKYIPKLVDPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFA-QNAAASSIFDTLRDRL 612 (618)
Q Consensus 548 eA~kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~-~~~~~~~~i~~~~~~l 612 (618)
-..+-..+..+.--.||++..|+...||+.+.+++=.++|.+|-.++- +..+......+++..+
T Consensus 696 -RA~WAr~~kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l 760 (1081)
T KOG1538|consen 696 -RADWARNIKEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKL 760 (1081)
T ss_pred -HHHHhhhcCCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhc
Confidence 112334455788889999999999999999999998899999887763 2223344444444443
No 43
>PF07899 Frigida: Frigida-like protein; InterPro: IPR012474 This family is composed of plant proteins that are similar to FRIGIDA protein expressed by Arabidopsis thaliana (Mouse-ear cress) (Q9FDW0 from SWISSPROT). This protein is probably nuclear and is required for the regulation of flowering time in the late-flowering phenotype. It is known to increase RNA levels of flowering locus C. Allelic variation at the FRIGIDA locus is a major determinant of natural variation in flowering time [].
Probab=54.24 E-value=88 Score=32.75 Aligned_cols=155 Identities=19% Similarity=0.285 Sum_probs=80.4
Q ss_pred ceEEeccCcchhhhccchhhhhhhccCCCChHHHHHHHHHHHhccCchh--HHHHHHhh--------------h------
Q 007100 86 GVRILSNSSMEFLQRVPASTEQIFAIGSTSPAALLYDALDHFDRRSAKA--DENLRLIR--------------A------ 143 (618)
Q Consensus 86 g~riit~~~~~~l~~Vp~~~~~if~igS~~P~a~L~~a~~~~~~~~~~a--~e~lr~i~--------------~------ 143 (618)
|+|-|-.++..=+..+.+.+...+ -++.+|+.+.+||.+.|-...++. +.....++ .
T Consensus 26 gL~~fv~~~~k~~~~lr~Ev~~AL-~~A~DPAkLVLdai~~f~~~~~~~~~~~~~~~~r~~cilLLE~L~~~~~~is~~v 104 (290)
T PF07899_consen 26 GLRKFVSENRKELASLREEVPAAL-RCAPDPAKLVLDAIEGFYPPGSKNKKDSKLVDVRRACILLLEQLMRISPEISPEV 104 (290)
T ss_pred HHHHHHHHhhhhHHHHHHHHHHHH-HcCCChHHHHHHHHHcccCCccccccCcchhhHHHHHHHHHHHHhhcCCCCCHHH
Confidence 555554443332222222222233 345799999999999986655432 11111110 0
Q ss_pred -----hHHHHHHHHHHHccccCCHHHHHHHHHHHhhhhhhccCCChhHHHHHhhhhhHHhccCCCCCcccccHHHHhcCC
Q 007100 144 -----SLPKAVEACIDAAGHEFDISRQRTLLRAASYGQAFCSNFQRDRIQEMCKTLRVLNAARDPEIGIPLSIQQYKSLT 218 (618)
Q Consensus 144 -----~L~~AV~~CI~AA~~e~d~~~Qk~LL~AAsfGk~~~~~~~~~~fv~~c~~LRVLn~lr~~~igi~lT~~q~~~l~ 218 (618)
.+...=..=|..+..+...+.+-.|+=-|+||-.. .||.++..+.. .... .|. . +.+=+..|+
T Consensus 105 ke~A~~lA~~WK~~l~~~~~~~~lea~gFL~lla~fgi~s--~Fd~del~~Lv---~~va-~~~--~----a~~L~~sLg 172 (290)
T PF07899_consen 105 KEEAKKLAEEWKSKLDGVNNENSLEALGFLQLLAAFGIVS--EFDEDELLKLV---VSVA-RRK--Q----APELCRSLG 172 (290)
T ss_pred HHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHcCCcc--ccCHHHHHHHH---HHhc-chH--h----hHHHHHHcC
Confidence 11111112221233344556666666667777632 46665433222 1111 111 0 111122222
Q ss_pred ----hHHHHHHHHhcCChHHHHHHHHHhCCC----hhHHHHHH
Q 007100 219 ----ASVLIGRLINANCHLLALRISEYLGMN----QEVVIMHW 253 (618)
Q Consensus 219 ----~~~li~rL~~r~~~~lA~~I~~~l~~~----~~~I~~~W 253 (618)
.+.+|+.|+++|+|..|++.+-.+|+- |-.++..+
T Consensus 173 l~~k~~d~V~~LI~~g~~ieAv~fi~~f~L~dkfpPv~lLk~y 215 (290)
T PF07899_consen 173 LSDKMPDIVEKLIKKGKQIEAVRFIYAFGLVDKFPPVPLLKSY 215 (290)
T ss_pred chhhhHHHHHHHHHCCCccchHHHHHHHcCCCCCCCHHHHHHH
Confidence 589999999999999999999999984 55566544
No 44
>PF13929 mRNA_stabil: mRNA stabilisation
Probab=53.99 E-value=2e+02 Score=30.04 Aligned_cols=67 Identities=21% Similarity=0.297 Sum_probs=52.7
Q ss_pred HHhHHhHc-CcChHHHHHHHHHHHHhcCChhHHHHhhcc-------CCCCCCchHHHHHHHhcCCHHHHHHhhcc
Q 007100 489 AMKVKTEF-KVSEKRWYWLKVFALATKRDWDALERFSKE-------KRPPIGYRPFVEACVDADEKGEALKYIPK 555 (618)
Q Consensus 489 a~kl~k~f-KVsdkr~~~lkl~aLa~~~~wdeLe~f~~s-------KKspIgyepfv~~~~~~~~~~eA~kyI~k 555 (618)
.+-+..+| +-.++.---.-|++|++.++|+.|.+|-.. ++=|=+|..|++.+.+.|.+.-..+.|..
T Consensus 189 V~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~ 263 (292)
T PF13929_consen 189 VDFLVSTFSKSLTRNVIISILEILAESRDWNKLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD 263 (292)
T ss_pred HHHHHhccccCCChhHHHHHHHHHHhcccHHHHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence 45566666 455666778889999999999999999743 23355667799999999999999888764
No 45
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=53.85 E-value=13 Score=38.00 Aligned_cols=25 Identities=16% Similarity=0.220 Sum_probs=7.7
Q ss_pred hHHHHHHHHHHHHhcCChhHHHHhh
Q 007100 500 EKRWYWLKVFALATKRDWDALERFS 524 (618)
Q Consensus 500 dkr~~~lkl~aLa~~~~wdeLe~f~ 524 (618)
+.++|...+..+...++|+++..+.
T Consensus 109 ~~~~l~~~l~~~~~~~~~~~~~~~l 133 (280)
T PF13429_consen 109 DPRYLLSALQLYYRLGDYDEAEELL 133 (280)
T ss_dssp ---------H-HHHTT-HHHHHHHH
T ss_pred ccchhhHHHHHHHHHhHHHHHHHHH
Confidence 4445555555555555555555554
No 46
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=51.21 E-value=4e+02 Score=33.95 Aligned_cols=205 Identities=11% Similarity=0.101 Sum_probs=116.7
Q ss_pred ChhHHHHHHhcChhHHHHHHHHHHhcCHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHh
Q 007100 352 PALEFFGMIQTRPLACDLFTVYARCYKHEFLKDFFLSTGQLQEVAFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHS 431 (618)
Q Consensus 352 ~~~~f~~~l~~~p~A~~l~~~y~~~~~~~~L~d~~~q~d~~~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~ 431 (618)
+.++|-++++.+|-..-+.+.|.. |+-+.... |.|.-.-.+|+..-|.. +-.+.|+-+..
T Consensus 1443 saeDferlvrssPNSSi~WI~YMa---------f~LelsEi-ekAR~iaerAL~tIN~R----------EeeEKLNiWiA 1502 (1710)
T KOG1070|consen 1443 SAEDFERLVRSSPNSSILWIRYMA---------FHLELSEI-EKARKIAERALKTINFR----------EEEEKLNIWIA 1502 (1710)
T ss_pred CHHHHHHHHhcCCCcchHHHHHHH---------HHhhhhhh-HHHHHHHHHHhhhCCcc----------hhHHHHHHHHH
Confidence 567999999999998888888884 33333332 44555555666554443 22244444443
Q ss_pred hhhhcccccHHHHHHHHHHHHHHHHHHHHhhcccccccCCCHHHHHHHHHHcC-CcchH----HhHHhHcCcChHHHHHH
Q 007100 432 LFSETKEHTFESKAAEEHAKLLRIQHELEVSTKQAIFVDSSISDTIRTCIVLG-NHRAA----MKVKTEFKVSEKRWYWL 506 (618)
Q Consensus 432 ~~~~~~~~~f~~~~~~e~~~Ll~~Q~~Le~~~~~~~f~~~Sl~~Ti~~li~~~-~~k~a----~kl~k~fKVsdkr~~~l 506 (618)
+++-.. .+ . .+. ..++.+|+.-+ --.-++++.++-..+... ....| ..+.|+|+ ..+..|..
T Consensus 1503 ~lNlEn--~y-G----~ee---sl~kVFeRAcq--ycd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~-q~~~vW~~ 1569 (1710)
T KOG1070|consen 1503 YLNLEN--AY-G----TEE---SLKKVFERACQ--YCDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKFG-QTRKVWIM 1569 (1710)
T ss_pred HHhHHH--hh-C----cHH---HHHHHHHHHHH--hcchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHhc-chhhHHHH
Confidence 333100 00 0 000 11112222111 011234555555555432 23444 44578999 78889999
Q ss_pred HHHHHHhcCChhHHHHhhcc------CCCCCCch-HHHHHHHhcCCHHHHH-HhhccCCCHHHHHHHHHHcCCHHHHHHH
Q 007100 507 KVFALATKRDWDALERFSKE------KRPPIGYR-PFVEACVDADEKGEAL-KYIPKLVDPRERAEAYARIGMAKEAADA 578 (618)
Q Consensus 507 kl~aLa~~~~wdeLe~f~~s------KKspIgye-pfv~~~~~~~~~~eA~-kyI~ki~d~e~r~~l~~k~~~~~eA~~~ 578 (618)
....|.++.+=++.....+. |+-.|++- -|+..-.++|.++.+. -|-..+.++-+|.++ |.-=|+.
T Consensus 1570 y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayPKRtDl------W~VYid~ 1643 (1710)
T KOG1070|consen 1570 YADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYPKRTDL------WSVYIDM 1643 (1710)
T ss_pred HHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCccchhH------HHHHHHH
Confidence 99999988875555555431 44456654 4888889999888765 566666666665554 4444555
Q ss_pred HHhcCCHHHHHHHHHHc
Q 007100 579 ASQAKDGELLGRLKLTF 595 (618)
Q Consensus 579 a~~~kd~~~L~~i~~~~ 595 (618)
-.+++|..-+..+..++
T Consensus 1644 eik~~~~~~vR~lfeRv 1660 (1710)
T KOG1070|consen 1644 EIKHGDIKYVRDLFERV 1660 (1710)
T ss_pred HHccCCHHHHHHHHHHH
Confidence 56666666666555543
No 47
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=50.92 E-value=3.3e+02 Score=28.80 Aligned_cols=112 Identities=13% Similarity=0.072 Sum_probs=71.6
Q ss_pred HHcCCcchHHhHHhH-cCcC--hHHHHHHHHHHHHhcCChhHHHHhhcc--CCCCCC----chHHHHHHHhcCCHHHHHH
Q 007100 481 IVLGNHRAAMKVKTE-FKVS--EKRWYWLKVFALATKRDWDALERFSKE--KRPPIG----YRPFVEACVDADEKGEALK 551 (618)
Q Consensus 481 i~~~~~k~a~kl~k~-fKVs--dkr~~~lkl~aLa~~~~wdeLe~f~~s--KKspIg----yepfv~~~~~~~~~~eA~k 551 (618)
...|+.+.|.+.-++ .++. ....++.....+.+.|++++-.++... ...|=. +...+.++.+.|+.++|..
T Consensus 191 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~ 270 (389)
T PRK11788 191 LARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLE 270 (389)
T ss_pred HhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHH
Confidence 456777766554333 2332 234566777889999999987777642 223321 2334577788999999988
Q ss_pred hhccCC----C---HHHHHHHHHHcCCHHHHHHHHHhc----CCHHHHHHHH
Q 007100 552 YIPKLV----D---PRERAEAYARIGMAKEAADAASQA----KDGELLGRLK 592 (618)
Q Consensus 552 yI~ki~----d---~e~r~~l~~k~~~~~eA~~~a~~~----kd~~~L~~i~ 592 (618)
++.++. + .....+++.+.|++.+|.....+. .|...+..+.
T Consensus 271 ~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~ 322 (389)
T PRK11788 271 FLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLL 322 (389)
T ss_pred HHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence 877642 2 245678899999999999876443 4444444333
No 48
>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto
Probab=50.30 E-value=51 Score=31.71 Aligned_cols=65 Identities=15% Similarity=0.123 Sum_probs=38.7
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeeeCCC-eEEEE-ECCeEEEEeCC
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMD-SVLLY-WNDMLVMVAPQ 66 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d-~v~~~-~~~~l~l~g~~ 66 (618)
|++||+|++++.-+.+|.+.+++.+-.+....+... ..+...+.|+.++ .++.. .+..+.+....
T Consensus 15 ~~~~~~~~~l~~~~~~g~i~i~~~~~~~~~~~~~~~-~~~i~~~~~~~~~~~l~~~~~~~~i~i~~~~ 81 (289)
T cd00200 15 VAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGH-TGPVRDVAASADGTYLASGSSDKTIRLWDLE 81 (289)
T ss_pred EEEcCCCCEEEEeecCcEEEEEEeeCCCcEEEEecC-CcceeEEEECCCCCEEEEEcCCCeEEEEEcC
Confidence 468999999999888999988875544333333222 2233488888665 23322 24444444443
No 49
>PRK00400 hisE phosphoribosyl-ATP pyrophosphatase; Validated
Probab=49.59 E-value=76 Score=27.98 Aligned_cols=83 Identities=14% Similarity=0.173 Sum_probs=55.6
Q ss_pred HHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhc--CchHHHHHHHHHcCChhHHHHHH
Q 007100 267 VTLLEILLDKLKLCKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSI--GEEDTALVKATESGDTDLVYLVI 344 (618)
Q Consensus 267 ~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~--~~~~~AL~kAi~S~D~dLI~~vL 344 (618)
++|.+.|.+|....|.-||+ ..-++.|-..++.++-+ +-+.+.+-. ++. +.+.+--.||+|.+|
T Consensus 6 ~~L~~~I~~Rk~~~~~~SYT---~~L~~~G~~ki~kKlgE------Ea~E~i~A~~~~d~-----~~~i~E~ADLlYHll 71 (105)
T PRK00400 6 ERLAATIEERKGADPEGSYT---AKLLDKGLDKILKKVGE------EATEVVIAAKDGDR-----EELVYEIADLLYHLL 71 (105)
T ss_pred HHHHHHHHHHHhCCCCCcHH---HHHHHCCHHHHHHHHHH------HHHHHHHHHHcCCH-----HHHHHHHHHHHHHHH
Confidence 67889999998888889995 45666888888888776 333333211 111 223333378999998
Q ss_pred HHHHh-hCChhHHHHHHhcC
Q 007100 345 FHIWQ-KRPALEFFGMIQTR 363 (618)
Q Consensus 345 l~l~~-~l~~~~f~~~l~~~ 363 (618)
+-|.. ..++++....|.++
T Consensus 72 VlL~~~gv~~~dV~~eL~~R 91 (105)
T PRK00400 72 VLLAARGISLEDVLAELERR 91 (105)
T ss_pred HHHHHcCCCHHHHHHHHHHH
Confidence 87666 46777777776653
No 50
>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]
Probab=49.56 E-value=67 Score=37.73 Aligned_cols=99 Identities=20% Similarity=0.351 Sum_probs=60.4
Q ss_pred CCCeeEEEecCCcEEEEeCCCCCccccccCCC-----CCCC-------CceeeeCCCe-EEEEEC------CeEEEEeCC
Q 007100 6 NGNFVACFTHDGRLVVNNTNFSSPVIDESCES-----ALPP-------EQIAWCGMDS-VLLYWN------DMLVMVAPQ 66 (618)
Q Consensus 6 ~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~-----~~~p-------~~~~WCG~d~-v~~~~~------~~l~l~g~~ 66 (618)
.|.++|--.++|++.|++-.-.+..+.+|.+. ...| ++++ -|+++ +|++=. +.+.+-...
T Consensus 82 ~Gey~asCS~DGkv~I~sl~~~~~~~~~df~rpiksial~Pd~~~~~sk~fv-~GG~aglvL~er~wlgnk~~v~l~~~e 160 (846)
T KOG2066|consen 82 EGEYVASCSDDGKVVIGSLFTDDEITQYDFKRPIKSIALHPDFSRQQSKQFV-SGGMAGLVLSERNWLGNKDSVVLSEGE 160 (846)
T ss_pred CCceEEEecCCCcEEEeeccCCccceeEecCCcceeEEeccchhhhhhhhee-ecCcceEEEehhhhhcCccceeeecCc
Confidence 58899988889998776544344445555332 0111 2332 46666 777631 344333333
Q ss_pred CCceEeecCCCeEEeecCCceEEeccCcchhhhccchhh
Q 007100 67 AEPVQYFYDEPLVLIPECDGVRILSNSSMEFLQRVPAST 105 (618)
Q Consensus 67 ~~~~~~~~~~~~~l~~e~Dg~riit~~~~~~l~~Vp~~~ 105 (618)
|--....+.+..+....-+|+||+....=.-|..||++.
T Consensus 161 G~I~~i~W~g~lIAWand~Gv~vyd~~~~~~l~~i~~p~ 199 (846)
T KOG2066|consen 161 GPIHSIKWRGNLIAWANDDGVKVYDTPTRQRLTNIPPPS 199 (846)
T ss_pred cceEEEEecCcEEEEecCCCcEEEeccccceeeccCCCC
Confidence 332333345667777777899999988888888888865
No 51
>TIGR03866 PQQ_ABC_repeats PQQ-dependent catabolism-associated beta-propeller protein. Members of this protein family consist of seven repeats each of the YVTN family beta-propeller repeat (see TIGR02276). Members occur invariably as part of a transport operon that is associated with PQQ-dependent catabolism of alcohols such as phenylethanol.
Probab=49.13 E-value=1.1e+02 Score=30.38 Aligned_cols=48 Identities=19% Similarity=0.243 Sum_probs=29.5
Q ss_pred cccCCCCeeEEEec-CCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCe
Q 007100 2 AVSPNGNFVACFTH-DGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDS 51 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~-~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~ 51 (618)
++||+|+.++.-+. +|.++++...-.+.+..+... ..|..+.|+.+..
T Consensus 79 ~~~~~g~~l~~~~~~~~~l~~~d~~~~~~~~~~~~~--~~~~~~~~~~dg~ 127 (300)
T TIGR03866 79 ALHPNGKILYIANEDDNLVTVIDIETRKVLAEIPVG--VEPEGMAVSPDGK 127 (300)
T ss_pred EECCCCCEEEEEcCCCCeEEEEECCCCeEEeEeeCC--CCcceEEECCCCC
Confidence 57899987766543 678888765434444444332 2467788875443
No 52
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=48.79 E-value=3.8e+02 Score=29.02 Aligned_cols=101 Identities=17% Similarity=0.119 Sum_probs=52.3
Q ss_pred HHHHHHcCCcchHHhHHh-HcCcChHHHHHHHHHHHHhcCChhHHHHhhcc-----CCCCCCchHHHHHHHhcCCHHHHH
Q 007100 477 IRTCIVLGNHRAAMKVKT-EFKVSEKRWYWLKVFALATKRDWDALERFSKE-----KRPPIGYRPFVEACVDADEKGEAL 550 (618)
Q Consensus 477 i~~li~~~~~k~a~kl~k-~fKVsdkr~~~lkl~aLa~~~~wdeLe~f~~s-----KKspIgyepfv~~~~~~~~~~eA~ 550 (618)
...++..|+...|.++-. -.+-++ ----..+.+.+..++-++.-+++.. ..+|..+-.....|+..|...+|.
T Consensus 270 A~~l~~~g~~~~A~~~L~~~l~~~~-~~~l~~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgrl~~~~~~~~~A~ 348 (398)
T PRK10747 270 AEHLIECDDHDTAQQIILDGLKRQY-DERLVLLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQLLMKHGEWQEAS 348 (398)
T ss_pred HHHHHHCCCHHHHHHHHHHHHhcCC-CHHHHHHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence 444566677766655432 223221 1122234444444665554444421 245666666677777777777777
Q ss_pred HhhccC----CCHH---HHHHHHHHcCCHHHHHHH
Q 007100 551 KYIPKL----VDPR---ERAEAYARIGMAKEAADA 578 (618)
Q Consensus 551 kyI~ki----~d~e---~r~~l~~k~~~~~eA~~~ 578 (618)
.|..+. |+.+ .=..++.+.|+..+|.+.
T Consensus 349 ~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~ 383 (398)
T PRK10747 349 LAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAM 383 (398)
T ss_pred HHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence 777654 2222 233445555665555433
No 53
>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain. These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....
Probab=48.68 E-value=51 Score=26.94 Aligned_cols=70 Identities=26% Similarity=0.400 Sum_probs=47.1
Q ss_pred hHHHHHHHHHhhccCCCCCH-HHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHH
Q 007100 266 DVTLLEILLDKLKLCKGISY-AAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVI 344 (618)
Q Consensus 266 D~~l~~~I~~kl~~~~~is~-~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vL 344 (618)
+-++++.+.++- ..++. ...-..|...|..+....|++....+..+- .+...||.-|+..|+.+++-..+
T Consensus 9 ~~~~~~~ll~~~---~~~~~~~~~l~~A~~~~~~~~~~~Ll~~g~~~~~~~------~~g~t~L~~A~~~~~~~~~~~Ll 79 (89)
T PF12796_consen 9 NLEILKFLLEKG---ADINLGNTALHYAAENGNLEIVKLLLENGADINSQD------KNGNTALHYAAENGNLEIVKLLL 79 (89)
T ss_dssp THHHHHHHHHTT---STTTSSSBHHHHHHHTTTHHHHHHHHHTTTCTT-BS------TTSSBHHHHHHHTTHHHHHHHHH
T ss_pred CHHHHHHHHHCc---CCCCCCCCHHHHHHHcCCHHHHHHHHHhcccccccC------CCCCCHHHHHHHcCCHHHHHHHH
Confidence 456666666642 22221 236677888899999999999877665443 55667888899999888775544
No 54
>KOG0299 consensus U3 snoRNP-associated protein (contains WD40 repeats) [RNA processing and modification]
Probab=47.65 E-value=28 Score=38.06 Aligned_cols=46 Identities=22% Similarity=0.252 Sum_probs=30.6
Q ss_pred ceEEeccCcchhhhccchhhhhhhccCCCChHHHHHHHHHHHhccC
Q 007100 86 GVRILSNSSMEFLQRVPASTEQIFAIGSTSPAALLYDALDHFDRRS 131 (618)
Q Consensus 86 g~riit~~~~~~l~~Vp~~~~~if~igS~~P~a~L~~a~~~~~~~~ 131 (618)
.+-|-..+..-.|-+||+.+.-||+.|-.+|-+.-+=.-++|-.++
T Consensus 300 ~vtVGgrDrT~rlwKi~eesqlifrg~~~sidcv~~In~~HfvsGS 345 (479)
T KOG0299|consen 300 CVTVGGRDRTVRLWKIPEESQLIFRGGEGSIDCVAFINDEHFVSGS 345 (479)
T ss_pred eEEeccccceeEEEeccccceeeeeCCCCCeeeEEEecccceeecc
Confidence 3444446677778899999999999886566444444445555544
No 55
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=47.62 E-value=2.7e+02 Score=29.44 Aligned_cols=106 Identities=15% Similarity=0.193 Sum_probs=64.9
Q ss_pred HHHHHHHcCCcchHHhHHhHc----CcCh----HHHHHHHHHHHHhcCChhHHHHhhcc--CCCCC---CchHHHHHHHh
Q 007100 476 TIRTCIVLGNHRAAMKVKTEF----KVSE----KRWYWLKVFALATKRDWDALERFSKE--KRPPI---GYRPFVEACVD 542 (618)
Q Consensus 476 Ti~~li~~~~~k~a~kl~k~f----KVsd----kr~~~lkl~aLa~~~~wdeLe~f~~s--KKspI---gyepfv~~~~~ 542 (618)
...-+...|+.+.|..+-++. ..+. ..++......+.+.+++++-.+.... +..|= .+--......+
T Consensus 147 la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~ 226 (389)
T PRK11788 147 LLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALA 226 (389)
T ss_pred HHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHH
Confidence 334455667777665544332 1111 12445556677889999988776642 22222 22334567788
Q ss_pred cCCHHHHHHhhccCC--CHH-------HHHHHHHHcCCHHHHHHHHHh
Q 007100 543 ADEKGEALKYIPKLV--DPR-------ERAEAYARIGMAKEAADAASQ 581 (618)
Q Consensus 543 ~~~~~eA~kyI~ki~--d~e-------~r~~l~~k~~~~~eA~~~a~~ 581 (618)
.|++++|..++.++. ++. .-...|.+.|++.+|++...+
T Consensus 227 ~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~ 274 (389)
T PRK11788 227 QGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRR 274 (389)
T ss_pred CCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 999999998877754 222 234678888999998876554
No 56
>KOG1524 consensus WD40 repeat-containing protein CHE-2 [General function prediction only]
Probab=47.25 E-value=1.2e+02 Score=34.16 Aligned_cols=118 Identities=14% Similarity=0.128 Sum_probs=82.5
Q ss_pred hHHHHHHHHhcCChHHHHHHHHHhCCChhHHHHHHHHHHhh--hcCCC-----------ChHHHHHHHHHhhccCCCCCH
Q 007100 219 ASVLIGRLINANCHLLALRISEYLGMNQEVVIMHWACSKIT--ASLAI-----------PDVTLLEILLDKLKLCKGISY 285 (618)
Q Consensus 219 ~~~li~rL~~r~~~~lA~~I~~~l~~~~~~I~~~WA~~kI~--~~~~~-----------~D~~l~~~I~~kl~~~~~is~ 285 (618)
..+++-+....+++.-|+|+|.+.+-.+ -|||---- ...++ ++|++. .++.++..+ -+-
T Consensus 576 y~~iL~e~~sssKWeqavRLCrfv~eqT-----MWAtlAa~Av~~~~m~~~EiAYaA~~~idKVs--yin~iK~lt-ske 647 (737)
T KOG1524|consen 576 YPEILHEYLSSSKWEQAVRLCRFVQEQT-----MWATLAAVAVRKHQMQISEIAYAAALQIDKVS--YINHIKALT-SKE 647 (737)
T ss_pred cHHHHHHHhccchHHHHHHHHHhccchH-----HHHHHHHHHHhhccccHHHHHHHHhhchhhHH--HHHHHhccC-cHH
Confidence 3566778888999999999999988653 27764110 11122 222211 112222223 445
Q ss_pred HHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHHHH
Q 007100 286 AAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVIFH 346 (618)
Q Consensus 286 ~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl~ 346 (618)
..-|+...-.||..-|-.+|.+-....+-|.+=+.|-+|++||+-+.+-. .++=.||-+
T Consensus 648 ~~mA~~~l~~G~~~eAe~iLl~~gl~~qav~lni~m~nW~RALEl~~K~K--~~v~~Vl~y 706 (737)
T KOG1524|consen 648 EQMAENSLMLGRMLEAETILLHGGLIEQAVGLNIRMHNWRRALELSQKHK--ELVPRVLQY 706 (737)
T ss_pred HHHHHHHHHhccchhhhHHHHhcchHHHhhhhhhhhhhHHHHHHHHHhHH--HHHHHHHHH
Confidence 66788888899999999999999999999999999999999999888876 555555533
No 57
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.39 E-value=5.4e+02 Score=30.90 Aligned_cols=161 Identities=15% Similarity=0.190 Sum_probs=0.0
Q ss_pred HHHHHHHHHhcCHHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHhhhhhcccccHHHHHH
Q 007100 367 CDLFTVYARCYKHEFLKDFFLSTGQLQEVAFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHSLFSETKEHTFESKAA 446 (618)
Q Consensus 367 ~~l~~~y~~~~~~~~L~d~~~q~d~~~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~~~~~~~~~~f~~~~~ 446 (618)
..+...|+ +++++-++| +.|...+-+.+..-+. ....+.| ..++-+
T Consensus 368 ~~i~~kYg---------d~Ly~Kgdf-~~A~~qYI~tI~~le~-----------------s~Vi~kf-------Ldaq~I 413 (933)
T KOG2114|consen 368 AEIHRKYG---------DYLYGKGDF-DEATDQYIETIGFLEP-----------------SEVIKKF-------LDAQRI 413 (933)
T ss_pred HHHHHHHH---------HHHHhcCCH-HHHHHHHHHHcccCCh-----------------HHHHHHh-------cCHHHH
Q ss_pred HHHHHHHHHHHHHHhhcccccccCCCHHHHHHHHH-HcCCcchHHhHHhHcCcChHHH-HHHHHHHHHhcCChhHHHHhh
Q 007100 447 EEHAKLLRIQHELEVSTKQAIFVDSSISDTIRTCI-VLGNHRAAMKVKTEFKVSEKRW-YWLKVFALATKRDWDALERFS 524 (618)
Q Consensus 447 ~e~~~Ll~~Q~~Le~~~~~~~f~~~Sl~~Ti~~li-~~~~~k~a~kl~k~fKVsdkr~-~~lkl~aLa~~~~wdeLe~f~ 524 (618)
.+-...|+--.+ +.+-..-=..++-.|+ +.++.+...++.+.+-.++..| .-+.++.+-+.+--++-+.++
T Consensus 414 knLt~YLe~L~~-------~gla~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA 486 (933)
T KOG2114|consen 414 KNLTSYLEALHK-------KGLANSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLA 486 (933)
T ss_pred HHHHHHHHHHHH-------cccccchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHH
Q ss_pred ccCCCCCCchHHHHHHHh-cCCHHHHHHhhccCCCHHHHHHHHHHcCCH
Q 007100 525 KEKRPPIGYRPFVEACVD-ADEKGEALKYIPKLVDPRERAEAYARIGMA 572 (618)
Q Consensus 525 ~sKKspIgyepfv~~~~~-~~~~~eA~kyI~ki~d~e~r~~l~~k~~~~ 572 (618)
+ |..- -+-++++++. .|++.+|.+||..+| +++-..+..+.|-+
T Consensus 487 ~-k~~~--he~vl~ille~~~ny~eAl~yi~slp-~~e~l~~l~kyGk~ 531 (933)
T KOG2114|consen 487 T-KFKK--HEWVLDILLEDLHNYEEALRYISSLP-ISELLRTLNKYGKI 531 (933)
T ss_pred H-Hhcc--CHHHHHHHHHHhcCHHHHHHHHhcCC-HHHHHHHHHHHHHH
No 58
>PF15492 Nbas_N: Neuroblastoma-amplified sequence, N terminal
Probab=44.28 E-value=42 Score=34.70 Aligned_cols=53 Identities=21% Similarity=0.387 Sum_probs=35.7
Q ss_pred CcccCCCCeeEEEecCCcEEEEe--CCCCCccccccCCCCCCC--CceeeeCCCeEEE
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNN--TNFSSPVIDESCESALPP--EQIAWCGMDSVLL 54 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~s--sd~~~~~~e~~~~~~~~p--~~~~WCG~d~v~~ 54 (618)
+++|+||+.+|.++++ .|=|-| .||+.+........+..| ..++|--+.++++
T Consensus 3 ~~~~~~Gk~lAi~qd~-~iEiRsa~Ddf~si~~kcqVpkD~~PQWRkl~WSpD~tlLa 59 (282)
T PF15492_consen 3 LALSSDGKLLAILQDQ-CIEIRSAKDDFSSIIGKCQVPKDPNPQWRKLAWSPDCTLLA 59 (282)
T ss_pred eeecCCCcEEEEEecc-EEEEEeccCCchheeEEEecCCCCCchheEEEECCCCcEEE
Confidence 5789999999998865 554544 589988765554333344 5899965444433
No 59
>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding
Probab=44.28 E-value=1e+02 Score=32.22 Aligned_cols=68 Identities=22% Similarity=0.228 Sum_probs=46.6
Q ss_pred HHHHHHhcCChhHHHHhhccCCCCCCchHHHHHHH--hcCCHHHHHHhhccCC-------------CHHHHHHHHHHcCC
Q 007100 507 KVFALATKRDWDALERFSKEKRPPIGYRPFVEACV--DADEKGEALKYIPKLV-------------DPRERAEAYARIGM 571 (618)
Q Consensus 507 kl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~--~~~~~~eA~kyI~ki~-------------d~e~r~~l~~k~~~ 571 (618)
...+.-..++||.|+.+...-....+-.-|..++. ..|..+++.++|.++. ++.......+++-+
T Consensus 4 ~~eaaWrl~~Wd~l~~~~~~~~~~~~~~~~~~al~~l~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~lq~ 83 (352)
T PF02259_consen 4 AAEAAWRLGDWDLLEEYLSQSNEDSPEYSFYRALLALRQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVKLQQ 83 (352)
T ss_pred HHHHHHhcCChhhHHHHHhhccCCChhHHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHhH
Confidence 45677789999999999875554444555666665 5678889999998863 45555555555555
Q ss_pred HHH
Q 007100 572 AKE 574 (618)
Q Consensus 572 ~~e 574 (618)
..|
T Consensus 84 L~E 86 (352)
T PF02259_consen 84 LVE 86 (352)
T ss_pred HHH
Confidence 444
No 60
>PF00400 WD40: WD domain, G-beta repeat; InterPro: IPR019781 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events.; PDB: 2ZKQ_a 3CFV_B 3CFS_B 1PEV_A 1NR0_A 1VYH_T 3RFH_A 3O2Z_T 3FRX_C 3U5G_g ....
Probab=43.42 E-value=27 Score=23.71 Aligned_cols=22 Identities=45% Similarity=0.664 Sum_probs=17.8
Q ss_pred CcccCCCCeeEEEecCCcEEEE
Q 007100 1 MAVSPNGNFVACFTHDGRLVVN 22 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ 22 (618)
|+.+|+++++|--..+|.+.|.
T Consensus 17 i~~~~~~~~~~s~~~D~~i~vw 38 (39)
T PF00400_consen 17 IAWSPDGNFLASGSSDGTIRVW 38 (39)
T ss_dssp EEEETTSSEEEEEETTSEEEEE
T ss_pred EEEecccccceeeCCCCEEEEE
Confidence 4678888888888888888775
No 61
>cd00200 WD40 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from its N-terminus and the WD dipeptide at its C-terminus and is 40 residues long, hence the name WD40; between GH and WD lies a conserved core; serves as a stable propeller-like platform to which proteins can bind either stably or reversibly; forms a propeller-like structure with several blades where each blade is composed of a four-stranded anti-parallel b-sheet; instances with few detectable copies are hypothesized to form larger structures by dimerization; each WD40 sequence repeat forms the first three strands of one blade and the last strand in the next blade; the last C-terminal WD40 repeat completes the blade structure of the first WD40 repeat to create the closed ring propeller-structure; residues on the top and botto
Probab=39.88 E-value=1.9e+02 Score=27.62 Aligned_cols=64 Identities=13% Similarity=0.079 Sum_probs=38.6
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEEE--CCeEEEEeC
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLYW--NDMLVMVAP 65 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~--~~~l~l~g~ 65 (618)
++.+|+|+.++.-..+|.+.+++..-.+....+... ..++..+.|..++.+++.. +..+.++..
T Consensus 183 ~~~~~~~~~l~~~~~~~~i~i~d~~~~~~~~~~~~~-~~~i~~~~~~~~~~~~~~~~~~~~i~i~~~ 248 (289)
T cd00200 183 VAFSPDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGH-ENGVNSVAFSPDGYLLASGSEDGTIRVWDL 248 (289)
T ss_pred EEECCCcCEEEEecCCCcEEEEECCCCceecchhhc-CCceEEEEEcCCCcEEEEEcCCCcEEEEEc
Confidence 457899888888777888888876544444444221 2256677787654444443 334444443
No 62
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=39.81 E-value=51 Score=20.63 Aligned_cols=19 Identities=26% Similarity=0.499 Sum_probs=12.8
Q ss_pred CCCeeEEEec-CCcEEEEeC
Q 007100 6 NGNFVACFTH-DGRLVVNNT 24 (618)
Q Consensus 6 ~g~~iAl~~~-~g~l~v~ss 24 (618)
+...-+++-+ +|.|||++.
T Consensus 4 ~n~I~~i~~D~~G~lWigT~ 23 (24)
T PF07494_consen 4 NNNIYSIYEDSDGNLWIGTY 23 (24)
T ss_dssp SSCEEEEEE-TTSCEEEEET
T ss_pred CCeEEEEEEcCCcCEEEEeC
Confidence 3356667665 699999874
No 63
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=39.45 E-value=7.7e+02 Score=29.85 Aligned_cols=50 Identities=18% Similarity=0.192 Sum_probs=44.7
Q ss_pred HHHHHhhccCC-CHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHcc
Q 007100 547 GEALKYIPKLV-DPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFA 596 (618)
Q Consensus 547 ~eA~kyI~ki~-d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~ 596 (618)
-+|.+|-..++ ....-+.+|-|.|++..|.+.|++-.....|+-|-+-..
T Consensus 1025 v~aArYyEe~g~~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd 1075 (1416)
T KOG3617|consen 1025 VSAARYYEELGGYAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLD 1075 (1416)
T ss_pred HHHHHHHHHcchhhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcC
Confidence 37889999988 778889999999999999999999999999999987663
No 64
>PF03177 Nucleoporin_C: Non-repetitive/WGA-negative nucleoporin C-terminal; InterPro: IPR007187 This is the C-terminal half of a family of nucleoporin proteins. Nucleoporins are the main components of the nuclear pore complex in eukaryotic cells, and mediate bidirectional nucleocytoplasmic transport, especially of mRNA and proteins. Two nucleoporin classes are known: one is characterised by the FG repeat and the other is represented by this family, which lacks any repeats. RNA undergoing nuclear export first encounters the basket of the nuclear pore and many nucleoporins are accessible on the basket side of the pore [, ].; PDB: 3I5P_A 3I5Q_B 3I4R_B 3CQC_B 3CQG_B 3KFO_A.
Probab=38.93 E-value=1.3e+02 Score=34.47 Aligned_cols=142 Identities=17% Similarity=0.115 Sum_probs=78.7
Q ss_pred hhhhhh-cCchHHHHHHHHHcCChhHHHHHH-----HHHHhhCChhHHHHHHhcCh---hHHHHHHHHHHhc--------
Q 007100 315 VPLLLS-IGEEDTALVKATESGDTDLVYLVI-----FHIWQKRPALEFFGMIQTRP---LACDLFTVYARCY-------- 377 (618)
Q Consensus 315 V~lLl~-~~~~~~AL~kAi~S~D~dLI~~vL-----l~l~~~l~~~~f~~~l~~~p---~A~~l~~~y~~~~-------- 377 (618)
+-.|.+ +|.++.|+.-|-+-.|....-.++ ......-........+.+.. -+..+|..|.+.+
T Consensus 272 i~~l~~r~~~~~~a~~lae~~~d~~~lv~~~~~~~~~~~~~~~~~~~~~~y~~~~~d~~Fa~~Ly~wyi~~~~~~~l~~l 351 (586)
T PF03177_consen 272 IEALAKRIGCYEEAFELAEKYHDFSSLVELCPDNQLDSLEASEIKERIYQYFEKFGDELFAFFLYDWYIENGKIGKLLEL 351 (586)
T ss_dssp SCCHHHHHCHCCCHHHHHHHTS--HHHHHHH--------HHHSS-TTCHHHHCCS-SCHHHHHCHHHHHHT---T-GGGG
T ss_pred HHHHHHHhhhHHHHHHHHHHHhhhhhhhhhhhcccccccchhHHHHHHHHHHHHCCchHHHHHHHHHHHHhccchHHHhh
Confidence 345666 999999999999999988665555 11122212222233333332 3556677777541
Q ss_pred ---CHHHHHHHHHh---------------cCChHHHHHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHhhhhhccc-
Q 007100 378 ---KHEFLKDFFLS---------------TGQLQEVAFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHSLFSETKE- 438 (618)
Q Consensus 378 ---~~~~L~d~~~q---------------~d~~~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~~~~~~~~- 438 (618)
....|..|+.. .++|.++|......|....+.. ......|+..+-.+........+
T Consensus 352 ~~~~~~~L~~fL~~~~~~~~~L~Wi~~~~~~~y~~AA~~L~~lA~~~~~~~-----~~~~~~r~~ls~~kL~~~a~~~~~ 426 (586)
T PF03177_consen 352 LEIYSPFLERFLRRNPKKYPDLLWIYYIRNGQYSKAAETLLQLAQREADSV-----SFPLEKRIELSLAKLAALASSESD 426 (586)
T ss_dssp GG--GCCCHHHHHC--T-HCCCHHCHHHHTTSHHHHHHHHHHHHHH-HSSH-----SS-HHHHHHHHHHHHHHHHS--HH
T ss_pred cccCCHHHHHHHHHHHhhcCCcchHHHHhccCHHHHHHHHHHHHhhhcccc-----chhhHHHHHHHHHHHHHhhccccC
Confidence 12234445444 6789999988888776543220 00022566666555554443321
Q ss_pred ---ccHHHHHHHHHHHHHHHHHHHHh
Q 007100 439 ---HTFESKAAEEHAKLLRIQHELEV 461 (618)
Q Consensus 439 ---~~f~~~~~~e~~~Ll~~Q~~Le~ 461 (618)
..-.-+.+++.++++++|..+-.
T Consensus 427 ~~~~~~~l~~i~~~L~v~~iQ~~l~~ 452 (586)
T PF03177_consen 427 SPEDQELLEEIEDELDVIRIQERLYE 452 (586)
T ss_dssp -H-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11124569999999999999887
No 65
>COG4946 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]
Probab=38.59 E-value=1.4e+02 Score=33.19 Aligned_cols=91 Identities=15% Similarity=0.172 Sum_probs=50.4
Q ss_pred ccCCCCeeEE----Eec---CCcEEEEeCCCCCc--cccccCCCCCCCCceeeeCCCeEEEEEC--------CeEEEEeC
Q 007100 3 VSPNGNFVAC----FTH---DGRLVVNNTNFSSP--VIDESCESALPPEQIAWCGMDSVLLYWN--------DMLVMVAP 65 (618)
Q Consensus 3 ~Sp~g~~iAl----~~~---~g~l~v~ssd~~~~--~~e~~~~~~~~p~~~~WCG~d~v~~~~~--------~~l~l~g~ 65 (618)
.||+|+.||+ +++ ++-++++.+.-.+. +.-| +.. --.-..|.-++.|+++.. .+++=++.
T Consensus 86 f~pdGrkvaf~rv~~~ss~~taDly~v~~e~Ge~kRiTyf--Gr~-fT~VaG~~~dg~iiV~TD~~tPF~q~~~lYkv~~ 162 (668)
T COG4946 86 FSPDGRKVAFSRVMLGSSLQTADLYVVPSEDGEAKRITYF--GRR-FTRVAGWIPDGEIIVSTDFHTPFSQWTELYKVNV 162 (668)
T ss_pred CCCCCcEEEEEEEEecCCCccccEEEEeCCCCcEEEEEEe--ccc-cceeeccCCCCCEEEEeccCCCcccceeeeEEcc
Confidence 6999999998 222 24566654322111 1112 110 113446777777777753 34555555
Q ss_pred CCC-ceEeecCCCeEEeecCCceEEeccCcchh
Q 007100 66 QAE-PVQYFYDEPLVLIPECDGVRILSNSSMEF 97 (618)
Q Consensus 66 ~~~-~~~~~~~~~~~l~~e~Dg~riit~~~~~~ 97 (618)
+|. ..+..+ ++..-+-+-||+++|..+..++
T Consensus 163 dg~~~e~Lnl-Gpathiv~~dg~ivigRntydL 194 (668)
T COG4946 163 DGIKTEPLNL-GPATHIVIKDGIIVIGRNTYDL 194 (668)
T ss_pred CCceeeeccC-CceeeEEEeCCEEEEccCcccC
Confidence 554 444443 3444445678999998887664
No 66
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=38.33 E-value=1.5e+02 Score=32.32 Aligned_cols=66 Identities=14% Similarity=0.231 Sum_probs=31.5
Q ss_pred CChhHHHHhhcc--CC---CCCCchHHHHHHHhcCCHHHHHHhhccCC----CHH-----HHHHHHHHcCCHHHHHHHHH
Q 007100 515 RDWDALERFSKE--KR---PPIGYRPFVEACVDADEKGEALKYIPKLV----DPR-----ERAEAYARIGMAKEAADAAS 580 (618)
Q Consensus 515 ~~wdeLe~f~~s--KK---spIgyepfv~~~~~~~~~~eA~kyI~ki~----d~e-----~r~~l~~k~~~~~eA~~~a~ 580 (618)
|+|+.-++.... +. +++-|.--..+....|+++.|..|+.+.. +.. ...++++..|++..|.+.+.
T Consensus 98 Gd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~ 177 (398)
T PRK10747 98 GDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVD 177 (398)
T ss_pred CCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence 556555555421 11 23333323344456666666666655432 111 12456666666666665443
No 67
>PF12110 Nup96: Nuclear protein 96; InterPro: IPR021967 Nup96 (often known by the name of its yeast homologue Nup145C) is part of the Nup84 heptameric complex in the nuclear pore complex. Nup96 complexes with Sec13 in the middle of the heptamer. The function of the heptamer is to coat the curvature of the nuclear pore complex between the inner and outer nuclear membranes. Nup96 is predicted to be an alpha helical solenoid. The interaction between Nup96 and Sec13 is the point of curvature in the heptameric complex [], [].; PDB: 3BG1_C 3BG0_F 3IKO_B.
Probab=38.03 E-value=1.1e+02 Score=31.78 Aligned_cols=59 Identities=17% Similarity=0.116 Sum_probs=41.5
Q ss_pred CHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHccCChHHHHHHHHHHHHhhhcCC
Q 007100 558 DPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFAQNAAASSIFDTLRDRLSFQGV 617 (618)
Q Consensus 558 d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~~~~~~~~~i~~~~~~l~~~~~ 617 (618)
|+.+++=.++-.|+..+|.+.|.+.||.. |.-+..++.++..+...+.+-++.-+..|+
T Consensus 1 ~~le~if~~L~~~~i~~A~~~A~~~~n~~-LA~Llsq~~~~~~~r~~~~~QL~~W~~~~~ 59 (290)
T PF12110_consen 1 SPLEKIFLLLSGHDIEEACELAIDSGNPH-LATLLSQIGGDPAVRSLAKQQLEDWRESGA 59 (290)
T ss_dssp -HHHHHHHHHHTT-HHHHHHHHHHTT-HH-HHHHHHHTS--HHHHHHHHHHHHHTTSSSS
T ss_pred CHHHHHHHHHHCCCHHHHHHHHHHCCCch-HHHHHHHhcCCHHHHHHHHHHHHHHHhCCC
Confidence 57899999999999999999999999985 344445566666777777766666555553
No 68
>PF08662 eIF2A: Eukaryotic translation initiation factor eIF2A; InterPro: IPR013979 This entry contains beta propellor domains found in eukaryotic translation initiation factors and TolB domain-containing proteins.
Probab=37.60 E-value=1e+02 Score=29.94 Aligned_cols=52 Identities=15% Similarity=0.226 Sum_probs=29.6
Q ss_pred CcccCCCCeeEEEe---cCCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEE
Q 007100 1 MAVSPNGNFVACFT---HDGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLY 55 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~---~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~ 55 (618)
|.-||+|+++|+-. .+|.+.+...+=.+.+.+++. .....+.|.-+.--++.
T Consensus 106 i~wsP~G~~l~~~g~~n~~G~l~~wd~~~~~~i~~~~~---~~~t~~~WsPdGr~~~t 160 (194)
T PF08662_consen 106 ISWSPDGRFLVLAGFGNLNGDLEFWDVRKKKKISTFEH---SDATDVEWSPDGRYLAT 160 (194)
T ss_pred EEECCCCCEEEEEEccCCCcEEEEEECCCCEEeecccc---CcEEEEEEcCCCCEEEE
Confidence 46799999999954 247787776652333333322 12356666644444443
No 69
>KOG2048 consensus WD40 repeat protein [General function prediction only]
Probab=37.40 E-value=1.2e+02 Score=34.87 Aligned_cols=64 Identities=16% Similarity=0.270 Sum_probs=37.4
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCC-ccccccCCCCCCCCcee-eeCCCeEEEEECCeEEEEe
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSS-PVIDESCESALPPEQIA-WCGMDSVLLYWNDMLVMVA 64 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~-~~~e~~~~~~~~p~~~~-WCG~d~v~~~~~~~l~l~g 64 (618)
|++||+|++||..+..|.|+|++..-.+ ..+-.+.+...+...+. |--+.-|+.+-++.++=+.
T Consensus 481 l~~SsdG~yiaa~~t~g~I~v~nl~~~~~~~l~~rln~~vTa~~~~~~~~~~lvvats~nQv~efd 546 (691)
T KOG2048|consen 481 LVVSSDGNYIAAISTRGQIFVYNLETLESHLLKVRLNIDVTAAAFSPFVRNRLVVATSNNQVFEFD 546 (691)
T ss_pred EEEcCCCCEEEEEeccceEEEEEcccceeecchhccCcceeeeeccccccCcEEEEecCCeEEEEe
Confidence 5799999999999989999998743222 22221222222222233 6666555555556554333
No 70
>PF10647 Gmad1: Lipoprotein LpqB beta-propeller domain; InterPro: IPR018910 The Gmad1 domain is found associated with IPR019606 from INTERPRO, in bacterial spore formation. It is predicted to have a beta-propeller fold and to have a passive binding role rather than a catalytic function owing to the low number of conserved hydrophilic residues.
Probab=37.11 E-value=66 Score=32.76 Aligned_cols=56 Identities=20% Similarity=0.299 Sum_probs=36.2
Q ss_pred CcccCCCCeeEEEec---CCcEEEEe--CCCCC---ccc---cccCCCCCCCCceeeeCCCeEEEEE
Q 007100 1 MAVSPNGNFVACFTH---DGRLVVNN--TNFSS---PVI---DESCESALPPEQIAWCGMDSVLLYW 56 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~---~g~l~v~s--sd~~~---~~~---e~~~~~~~~p~~~~WCG~d~v~~~~ 56 (618)
+.+||+|.-+|+... .+.++|.. -|=.. .+. +.-...-..+.++.|.+++.+++.-
T Consensus 117 l~vSpDG~RvA~v~~~~~~~~v~va~V~r~~~g~~~~l~~~~~~~~~~~~~v~~v~W~~~~~L~V~~ 183 (253)
T PF10647_consen 117 LRVSPDGTRVAVVVEDGGGGRVYVAGVVRDGDGVPRRLTGPRRVAPPLLSDVTDVAWSDDSTLVVLG 183 (253)
T ss_pred EEECCCCcEEEEEEecCCCCeEEEEEEEeCCCCCcceeccceEecccccCcceeeeecCCCEEEEEe
Confidence 468999999999984 47888753 12211 221 2222223366799999999887664
No 71
>KOG1900 consensus Nuclear pore complex, Nup155 component (D Nup154, sc Nup157/Nup170) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=36.27 E-value=4.5e+02 Score=33.08 Aligned_cols=123 Identities=12% Similarity=0.138 Sum_probs=75.4
Q ss_pred HHHHHHHHHhcCChHHHHHHHHHHHHhcCCCCCCCCCCCCcchHHHHHHHHHhhhhhcccccH------HHHHHHHHHHH
Q 007100 379 HEFLKDFFLSTGQLQEVAFLLWKESWELGKNPMASNGSALHGPRIKRIEKAHSLFSETKEHTF------ESKAAEEHAKL 452 (618)
Q Consensus 379 ~~~L~d~~~q~d~~~e~a~l~l~~a~~~~~~~~~~~~~~~~~~k~~~L~~a~~~~~~~~~~~f------~~~~~~e~~~L 452 (618)
.++|-.||....+|.++|.+.++-|....++ ...+|++.|.+|...-+.....+- ...-++|.++.
T Consensus 1010 ~dLLw~YY~K~e~~~~AA~VL~rLAt~~~~i--------tLeqRiEyLsRA~~~~~s~s~~s~~~a~~qf~~~i~dklev 1081 (1311)
T KOG1900|consen 1010 FDLLWKYYEKREQFSQAAHVLYRLATSSFDI--------TLEQRIEYLSRAVGFAKSSSPSSSKVAVGQFLIEIEDKLEV 1081 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc--------cHHHHHHHHHHHhhhcccCCCchhHHHHHHHHHHHHHHHHH
Confidence 4678889999999999999999988433333 244899999999975443221111 02224555555
Q ss_pred HHHHHHHHhhcccccccCCCHHHHHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHHHHH
Q 007100 453 LRIQHELEVSTKQAIFVDSSISDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALA 512 (618)
Q Consensus 453 l~~Q~~Le~~~~~~~f~~~Sl~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa 512 (618)
-..|..+-....+........++.+.+| .|......+|-.+|-+|=. ||=++|.-+-
T Consensus 1082 A~iQ~dvl~a~~d~~~~~~~~~el~k~L--d~el~~~t~Lyn~fAdPf~-l~Ei~L~I~~ 1138 (1311)
T KOG1900|consen 1082 ASIQDDVLVAMQDDRIDASAANELVKEL--DGELLSLTQLYNEFADPFD-LWEICLSIFK 1138 (1311)
T ss_pred HHhhHHHHHHHHHhhcchhHHHHHHHHh--ccccccHHHHHHhccCcch-HHHHHHHHhh
Confidence 5555544333322222223334444433 3667788999999999865 7777776553
No 72
>PRK13616 lipoprotein LpqB; Provisional
Probab=35.18 E-value=1.1e+02 Score=35.39 Aligned_cols=68 Identities=13% Similarity=0.159 Sum_probs=43.0
Q ss_pred CcccCCCCeeEEEecCCcEEE---EeCCCCC-ccc---cccCCCCCCCCceeeeCCCeEEEEEC---CeEEEEeCCCCc
Q 007100 1 MAVSPNGNFVACFTHDGRLVV---NNTNFSS-PVI---DESCESALPPEQIAWCGMDSVLLYWN---DMLVMVAPQAEP 69 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v---~ssd~~~-~~~---e~~~~~~~~p~~~~WCG~d~v~~~~~---~~l~l~g~~~~~ 69 (618)
+.+||+|+.||+.. .|.++| ...+=.. .+. +.-......+.++.|-+++++++.-+ ..+..+..+|..
T Consensus 453 l~wSpDG~RiA~i~-~g~v~Va~Vvr~~~G~~~l~~~~~l~~~l~~~~~~l~W~~~~~L~V~~~~~~~~v~~v~vDG~~ 530 (591)
T PRK13616 453 LQLSRDGVRAAMII-GGKVYLAVVEQTEDGQYALTNPREVGPGLGDTAVSLDWRTGDSLVVGRSDPEHPVWYVNLDGSN 530 (591)
T ss_pred EEECCCCCEEEEEE-CCEEEEEEEEeCCCCceeecccEEeecccCCccccceEecCCEEEEEecCCCCceEEEecCCcc
Confidence 36899999999987 589988 3322222 221 22222233468899999999877654 345666666544
No 73
>PRK14574 hmsH outer membrane protein; Provisional
Probab=34.66 E-value=9.1e+02 Score=29.27 Aligned_cols=109 Identities=20% Similarity=0.199 Sum_probs=66.4
Q ss_pred HHHHHHHHHHcCCcchHHhHHhHcC--cChHHHHHHHHHHHHhcCChh------HHHHhh-------------c-cCCCC
Q 007100 473 ISDTIRTCIVLGNHRAAMKVKTEFK--VSEKRWYWLKVFALATKRDWD------ALERFS-------------K-EKRPP 530 (618)
Q Consensus 473 l~~Ti~~li~~~~~k~a~kl~k~fK--Vsdkr~~~lkl~aLa~~~~wd------eLe~f~-------------~-sKKsp 530 (618)
+.+-+..+-..|-...|.++.++.. +++...+|+.....++.=+|. +-+.|. + -.+.|
T Consensus 206 ~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p 285 (822)
T PRK14574 206 LKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDP 285 (822)
T ss_pred HHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCC
Confidence 4455666777888889999999998 899999998877777665554 333332 1 01222
Q ss_pred C---Cch----HHHHHHHhcCCHHHHH-Hhhc------cCCCHH--HHHHHHHHcCCHHHHHHHHHh
Q 007100 531 I---GYR----PFVEACVDADEKGEAL-KYIP------KLVDPR--ERAEAYARIGMAKEAADAASQ 581 (618)
Q Consensus 531 I---gye----pfv~~~~~~~~~~eA~-kyI~------ki~d~e--~r~~l~~k~~~~~eA~~~a~~ 581 (618)
= .|. --+-++.+.|+..++. .|-. .||++- -....|+..+...+|..+..+
T Consensus 286 ~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~ 352 (822)
T PRK14574 286 EAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSS 352 (822)
T ss_pred ccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHH
Confidence 1 111 1123455566666554 3321 344443 345778888888888876554
No 74
>KOG0293 consensus WD40 repeat-containing protein [Function unknown]
Probab=34.06 E-value=67 Score=34.97 Aligned_cols=49 Identities=18% Similarity=0.306 Sum_probs=28.0
Q ss_pred cccCCCCeeEEEecC--CcEEEEeCCCCCccccccC-CCCCCCCceeeeCCCe
Q 007100 2 AVSPNGNFVACFTHD--GRLVVNNTNFSSPVIDESC-ESALPPEQIAWCGMDS 51 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~--g~l~v~ssd~~~~~~e~~~-~~~~~p~~~~WCG~d~ 51 (618)
..||||+++|--+.+ -.||++..|-.=+ .-+.+ +...+..-+.|--+|.
T Consensus 231 ~FS~nGkyLAsaSkD~Taiiw~v~~d~~~k-l~~tlvgh~~~V~yi~wSPDdr 282 (519)
T KOG0293|consen 231 QFSHNGKYLASASKDSTAIIWIVVYDVHFK-LKKTLVGHSQPVSYIMWSPDDR 282 (519)
T ss_pred EEcCCCeeEeeccCCceEEEEEEecCccee-eeeeeecccCceEEEEECCCCC
Confidence 579999999987764 3457665554411 11221 2333556677744433
No 75
>PF15651 Tox-SGS: Salivary glad secreted protein domain toxin
Probab=33.85 E-value=1.2e+02 Score=26.46 Aligned_cols=65 Identities=20% Similarity=0.261 Sum_probs=45.3
Q ss_pred ccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEEECCeEEEEeCCCC
Q 007100 3 VSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLYWNDMLVMVAPQAE 68 (618)
Q Consensus 3 ~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~~~~l~l~g~~~~ 68 (618)
.+++...|-+|..+|...|.+....... .+.-+.-+.-.-+.|-|.=+|+|.=++.-+|..|...
T Consensus 8 ~~~d~~~i~Cy~~~s~v~vF~k~~~~~~-~~~~d~y~~C~Pi~w~G~pSv~C~Gq~ssfiyTp~~~ 72 (100)
T PF15651_consen 8 TNDDRNQIVCYQHHSTVTVFPKNPSNPI-LFGQDHYSSCMPIEWHGQPSVSCDGQQSSFIYTPYET 72 (100)
T ss_pred CCCCCCeEEecCccceEEEecCCCcccc-ccccccccCCcceeECCccceeeccceeeeEEccccC
Confidence 4667789999999999999875442221 1222233355678999999998877777777777764
No 76
>PF09384 UTP15_C: UTP15 C terminal; InterPro: IPR018983 This entry represents the C-terminal domain of the U3 small nucleolar RNA-associated protein 15 (UTP15). This protein is involved in nucleolar processing of pre-18S ribosomal RNA, and is required for optimal pre-ribosomal RNA transcription by RNA polymerase I together with a subset of U3 proteins required for transcription (t-UTPs). UTP15 is a component of the ribosomal small subunit (SSU) processome, which is a large ribonucleoprotein (RNP) required for processing of precursors to the small subunit RNA, the 18S, of the ribosome [, ]. This domain is found C-terminal to the WD40 repeat (IPR001680 from INTERPRO). UTP15 associates with U3 snoRNA, which is ubiquitous in eukaryotes and is required for nucleolar processing of pre-18S ribosomal RNA []. ; GO: 0006364 rRNA processing, 0005730 nucleolus
Probab=33.72 E-value=4e+02 Score=24.81 Aligned_cols=38 Identities=18% Similarity=0.141 Sum_probs=29.5
Q ss_pred cchhhhhhcCchHHHHHHHH-HcCChhHHHHHHHHHHhh
Q 007100 313 KQVPLLLSIGEEDTALVKAT-ESGDTDLVYLVIFHIWQK 350 (618)
Q Consensus 313 ~qV~lLl~~~~~~~AL~kAi-~S~D~dLI~~vLl~l~~~ 350 (618)
.+...+|+-.+|..||+.|+ .+.+|+.+..||-.|.+.
T Consensus 23 ~~~D~~Lr~F~y~~ALD~aL~~~~~p~~~vavl~EL~~R 61 (148)
T PF09384_consen 23 SKYDKLLRKFRYKKALDAALVKNKSPEVVVAVLEELIRR 61 (148)
T ss_pred hHHHHHHHcCCHHHHHHHHHhcCCChHHHHHHHHHHHHc
Confidence 45566777778888888888 788888888888777665
No 77
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=33.70 E-value=2.3e+02 Score=26.47 Aligned_cols=71 Identities=20% Similarity=0.350 Sum_probs=46.4
Q ss_pred HHHHHhcCChhHHHHhhccCCCCCCchHHHHHHHhcCCHHHHHHhhc-cCCCHHHH---HHHHHHcCCHHHHHHHHHhcC
Q 007100 508 VFALATKRDWDALERFSKEKRPPIGYRPFVEACVDADEKGEALKYIP-KLVDPRER---AEAYARIGMAKEAADAASQAK 583 (618)
Q Consensus 508 l~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~~eA~kyI~-ki~d~e~r---~~l~~k~~~~~eA~~~a~~~k 583 (618)
++.|++.++|-+..+|+. .|.||-- .=..||. ..+ +++| -+++-++.+.-+-++.|.+.|
T Consensus 55 Lk~lI~kk~W~~vrn~ir---gp~g~Lr------------~dl~~l~~sl~-p~dqk~a~~L~~~Lf~~L~~LD~AA~~k 118 (142)
T TIGR03042 55 LASLVAKEDWVFTRNLIH---GPMGEVR------------REMTYLNQSLL-PKDQKEALALAKELKDDLEKLDEAARLQ 118 (142)
T ss_pred HHHHHhhcchHHHHHHHh---ccHHHHH------------HHHHHHHHccC-HHhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 779999999999999998 5555531 1122332 232 3332 345566666777788899999
Q ss_pred CHHHHHHHHHH
Q 007100 584 DGELLGRLKLT 594 (618)
Q Consensus 584 d~~~L~~i~~~ 594 (618)
|......-+..
T Consensus 119 d~~~a~k~Y~~ 129 (142)
T TIGR03042 119 DGPQAQKAYQK 129 (142)
T ss_pred CHHHHHHHHHH
Confidence 98766655544
No 78
>KOG0290 consensus Conserved WD40 repeat-containing protein AN11 [Function unknown]
Probab=33.39 E-value=53 Score=34.18 Aligned_cols=90 Identities=23% Similarity=0.370 Sum_probs=52.5
Q ss_pred CeeEEEecC-CcEEEEeCCC-CCccccccCCCCCCCCceee----------eCCCeEEEEECCeEEEEeCCCCceEeecC
Q 007100 8 NFVACFTHD-GRLVVNNTNF-SSPVIDESCESALPPEQIAW----------CGMDSVLLYWNDMLVMVAPQAEPVQYFYD 75 (618)
Q Consensus 8 ~~iAl~~~~-g~l~v~ssd~-~~~~~e~~~~~~~~p~~~~W----------CG~d~v~~~~~~~l~l~g~~~~~~~~~~~ 75 (618)
+++|.|..+ ..+.|....+ ...+++... ......-+.| ||+|+.++.|+=. -+.++.+.....-|.
T Consensus 256 nymATf~~dS~~V~iLDiR~P~tpva~L~~-H~a~VNgIaWaPhS~~hictaGDD~qaliWDl~-q~~~~~~~dPilay~ 333 (364)
T KOG0290|consen 256 NYMATFAMDSNKVVILDIRVPCTPVARLRN-HQASVNGIAWAPHSSSHICTAGDDCQALIWDLQ-QMPRENGEDPILAYT 333 (364)
T ss_pred hHHhhhhcCCceEEEEEecCCCcceehhhc-CcccccceEecCCCCceeeecCCcceEEEEecc-cccccCCCCchhhhh
Confidence 578888754 5666665433 334455442 2335566666 7999999999511 222322222111221
Q ss_pred -----CCeEEe-ecCCceEEeccCcchhhh
Q 007100 76 -----EPLVLI-PECDGVRILSNSSMEFLQ 99 (618)
Q Consensus 76 -----~~~~l~-~e~Dg~riit~~~~~~l~ 99 (618)
+-+.-. +-.|++-|...+++|.|+
T Consensus 334 a~~EVNqi~Ws~~~~Dwiai~~~kkleiLR 363 (364)
T KOG0290|consen 334 AGGEVNQIQWSSSQPDWIAICFGKKLEILR 363 (364)
T ss_pred ccceeeeeeecccCCCEEEEEecCeeeEEe
Confidence 123333 567999999999999884
No 79
>PLN02956 PSII-Q subunit
Probab=32.56 E-value=1.4e+02 Score=29.07 Aligned_cols=87 Identities=16% Similarity=0.183 Sum_probs=53.3
Q ss_pred HHHHHHHHHhcCChhHHHHhhccCCCCCCchHHHHHHHhcCCHHHHHHhhccCCCHHHH---HHHHHHcCCHHHHHHHHH
Q 007100 504 YWLKVFALATKRDWDALERFSKEKRPPIGYRPFVEACVDADEKGEALKYIPKLVDPRER---AEAYARIGMAKEAADAAS 580 (618)
Q Consensus 504 ~~lkl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~~eA~kyI~ki~d~e~r---~~l~~k~~~~~eA~~~a~ 580 (618)
..+.++.|++.++|-...+++..+=+-.+|+ -..-|+..+ +++| .+++-++-+--+-.+.|.
T Consensus 95 ~l~~LK~LI~k~~W~yvrn~LRgp~s~Lr~D--------------L~~Ii~slp-p~Drk~a~~La~~LFd~l~~LD~AA 159 (185)
T PLN02956 95 NLLRVKALIESESWKEAQKALRRSASNLKQD--------------LYAIIQAKP-GKDRPQLRRLYSDLFNSVTKLDYAA 159 (185)
T ss_pred HHHHHHHHhhhccHHHHHHHHHccHHHHHHH--------------HHHHHHhcC-HhHhHHHHHHHHHHHHHHHHHHHHH
Confidence 4578899999999999999998433333333 112233333 3333 344555555566677888
Q ss_pred hcCCHHHHHHHHHHccCChHHHHHHHHHHHH
Q 007100 581 QAKDGELLGRLKLTFAQNAAASSIFDTLRDR 611 (618)
Q Consensus 581 ~~kd~~~L~~i~~~~~~~~~~~~~i~~~~~~ 611 (618)
+.||.......+.. +...++.++.+
T Consensus 160 R~kd~~~a~k~Y~~------tva~lD~Vl~~ 184 (185)
T PLN02956 160 RDKDETRVWEYYEN------IVASLDDIFSR 184 (185)
T ss_pred hcCCHHHHHHHHHH------HHHHHHHHHhc
Confidence 88888666665554 34455555543
No 80
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=32.06 E-value=2.3e+02 Score=31.03 Aligned_cols=104 Identities=20% Similarity=0.197 Sum_probs=61.7
Q ss_pred HHHHHHHHHHcC-CcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHH--hhcc--CCCCCCchH---HHHHHHhcC
Q 007100 473 ISDTIRTCIVLG-NHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALER--FSKE--KRPPIGYRP---FVEACVDAD 544 (618)
Q Consensus 473 l~~Ti~~li~~~-~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~--f~~s--KKspIgyep---fv~~~~~~~ 544 (618)
|.+++-+++... ....|..+-+++.-.+...+.+-.+.+...++ +.+. +..+ ++.|-.++. -++.|++.+
T Consensus 171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~--E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~k~ 248 (395)
T PF09295_consen 171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNE--EVEAIRLLNEALKENPQDSELLNLQAEFLLSKK 248 (395)
T ss_pred HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCc--HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcC
Confidence 555555555443 34455555555544445555566666655443 3332 2222 456666665 577788999
Q ss_pred CHHHHHHhhccCC--CH------HHHHHHHHHcCCHHHHHHH
Q 007100 545 EKGEALKYIPKLV--DP------RERAEAYARIGMAKEAADA 578 (618)
Q Consensus 545 ~~~eA~kyI~ki~--d~------e~r~~l~~k~~~~~eA~~~ 578 (618)
..+.|.....+.. .| ..=++.|++.|+|+.|.-.
T Consensus 249 ~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALla 290 (395)
T PF09295_consen 249 KYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLA 290 (395)
T ss_pred CHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHH
Confidence 8888877666542 12 2446788888888888855
No 81
>KOG2034 consensus Vacuolar sorting protein PEP3/VPS18 [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.65 E-value=92 Score=37.15 Aligned_cols=64 Identities=11% Similarity=0.118 Sum_probs=56.9
Q ss_pred CCCCCchHHHHHHHhcCCHHHHHHhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHH
Q 007100 528 RPPIGYRPFVEACVDADEKGEALKYIPKLVDPRERAEAYARIGMAKEAADAASQAKDGELLGRL 591 (618)
Q Consensus 528 KspIgyepfv~~~~~~~~~~eA~kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i 591 (618)
+--+.++..+..+-.+|...+...|-.-+.|++.-+..+++-++|.+|.++...+++.+..-++
T Consensus 502 ~~~~nretv~~l~~~~~~~e~ll~fA~l~~d~~~vv~~~~q~e~yeeaLevL~~~~~~el~yk~ 565 (911)
T KOG2034|consen 502 KDELNRETVYQLLASHGRQEELLQFANLIKDYEFVVSYWIQQENYEEALEVLLNQRNPELFYKY 565 (911)
T ss_pred HHhhhHHHHHHHHHHccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHHh
Confidence 4456678889999999999999999999999999999999999999999999999888765544
No 82
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=31.36 E-value=46 Score=36.11 Aligned_cols=52 Identities=23% Similarity=0.349 Sum_probs=33.7
Q ss_pred cccCCCCeeEEEecCCcEEEEeCCCCCccccccC-CCCC--CCCceeeeCCCeEEEE
Q 007100 2 AVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESC-ESAL--PPEQIAWCGMDSVLLY 55 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~-~~~~--~p~~~~WCG~d~v~~~ 55 (618)
.+||.|.|+|--..+|.++|.+.+ ..++ |+-. ...+ ....+.||+...-+++
T Consensus 394 vfSpd~~YvaAGS~dgsv~iW~v~-tgKl-E~~l~~s~s~~aI~s~~W~~sG~~Lls 448 (459)
T KOG0288|consen 394 VFSPDGSYVAAGSADGSVYIWSVF-TGKL-EKVLSLSTSNAAITSLSWNPSGSGLLS 448 (459)
T ss_pred EECCCCceeeeccCCCcEEEEEcc-CceE-EEEeccCCCCcceEEEEEcCCCchhhc
Confidence 589999999998899999998643 3322 3332 1111 3578889975444433
No 83
>KOG0645 consensus WD40 repeat protein [General function prediction only]
Probab=31.26 E-value=1.8e+02 Score=30.08 Aligned_cols=63 Identities=16% Similarity=0.381 Sum_probs=43.5
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccC-----CCCCCCCceeeeCCCeEEE--EECCeEEEEeCC
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESC-----ESALPPEQIAWCGMDSVLL--YWNDMLVMVAPQ 66 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~-----~~~~~p~~~~WCG~d~v~~--~~~~~l~l~g~~ 66 (618)
++.|++|+++|--+.+..+||...|=.. ||++ +...-.+...|-+...++. +|.++|.++-.+
T Consensus 111 Vaws~sG~~LATCSRDKSVWiWe~dedd---Efec~aVL~~HtqDVK~V~WHPt~dlL~S~SYDnTIk~~~~~ 180 (312)
T KOG0645|consen 111 VAWSASGNYLATCSRDKSVWIWEIDEDD---EFECIAVLQEHTQDVKHVIWHPTEDLLFSCSYDNTIKVYRDE 180 (312)
T ss_pred EEEcCCCCEEEEeeCCCeEEEEEecCCC---cEEEEeeeccccccccEEEEcCCcceeEEeccCCeEEEEeec
Confidence 4679999999999999999998877322 3331 2223457899998655553 456777776654
No 84
>KOG0771 consensus Prolactin regulatory element-binding protein/Protein transport protein SEC12p [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.19 E-value=37 Score=36.69 Aligned_cols=29 Identities=31% Similarity=0.501 Sum_probs=23.5
Q ss_pred CcccCCCCeeEEEecCCcEEEEeC-CCCCc
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNT-NFSSP 29 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ss-d~~~~ 29 (618)
|+||++|+|+|+=|.+|.+.|+.. +++..
T Consensus 287 l~VS~dGkf~AlGT~dGsVai~~~~~lq~~ 316 (398)
T KOG0771|consen 287 LAVSDDGKFLALGTMDGSVAIYDAKSLQRL 316 (398)
T ss_pred EEEcCCCcEEEEeccCCcEEEEEeceeeee
Confidence 689999999999999999887654 44443
No 85
>PRK02759 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed
Probab=30.76 E-value=4.1e+02 Score=26.31 Aligned_cols=83 Identities=17% Similarity=0.270 Sum_probs=51.8
Q ss_pred HHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhc--CchHHHHHHHHHcCChhHHHHHH
Q 007100 267 VTLLEILLDKLKLCKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSI--GEEDTALVKATESGDTDLVYLVI 344 (618)
Q Consensus 267 ~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~--~~~~~AL~kAi~S~D~dLI~~vL 344 (618)
++|.+.|.+|....|.-||+ ..-++.|-..++.|+-+ +-+.+.+-- ++.+. +.+--.||+|.+|
T Consensus 117 ~~L~~~I~~Rk~~~pe~SYT---~~L~~~G~~kI~kKvgE------EA~E~iiAak~~d~~~-----li~E~ADLlYHll 182 (203)
T PRK02759 117 SQLEQLIAERKNAPPEGSYT---AKLFASGTKRIAQKVGE------EAVEVVLAAKNNDKEE-----LINEAADLLYHLL 182 (203)
T ss_pred HHHHHHHHHHHhCCCCCcHH---HHHHhCcHHHHHHHHHH------HHHHHHHHHHcCCHHH-----HHHHHHHHHHHHH
Confidence 56778888887777888885 45566787888877766 223222211 11121 2222368999988
Q ss_pred HHHHh-hCChhHHHHHHhcC
Q 007100 345 FHIWQ-KRPALEFFGMIQTR 363 (618)
Q Consensus 345 l~l~~-~l~~~~f~~~l~~~ 363 (618)
+-|.. .+++++..+.|.++
T Consensus 183 VlL~~~gv~l~dV~~eL~~R 202 (203)
T PRK02759 183 VLLADQGLSLSDVIAELKER 202 (203)
T ss_pred HHHHHcCCCHHHHHHHHHhc
Confidence 87665 46777777777653
No 86
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=30.54 E-value=2.8e+02 Score=22.34 Aligned_cols=35 Identities=23% Similarity=0.250 Sum_probs=27.4
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHhc-----CCHHHHHHHHH
Q 007100 559 PRERAEAYARIGMAKEAADAASQA-----KDGELLGRLKL 593 (618)
Q Consensus 559 ~e~r~~l~~k~~~~~eA~~~a~~~-----kd~~~L~~i~~ 593 (618)
+-+|.+-+...|+|.+|+.+|... |..+.++.++.
T Consensus 9 ~~~~F~~l~~~g~y~eAA~~AA~sP~giLRt~~Ti~rFk~ 48 (66)
T PF13838_consen 9 YVQQFNELFSQGQYEEAAKVAANSPRGILRTPETINRFKQ 48 (66)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHSGGGTT-SHHHHHHHHT
T ss_pred HHHHHHHHHHcCCHHHHHHHHHhCccchhcCHHHHHHHHc
Confidence 457888899999999999999986 56677777773
No 87
>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.53 E-value=2.5e+02 Score=32.41 Aligned_cols=29 Identities=28% Similarity=0.325 Sum_probs=20.3
Q ss_pred HHHHHHhcCHHHHHHHHHhcCChHHHHHH
Q 007100 370 FTVYARCYKHEFLKDFFLSTGQLQEVAFL 398 (618)
Q Consensus 370 ~~~y~~~~~~~~L~d~~~q~d~~~e~a~l 398 (618)
|..|...++.+...+++..++|+.|+|.+
T Consensus 728 F~~~~l~g~~~~C~~lLi~t~r~peAal~ 756 (794)
T KOG0276|consen 728 FLAYFLSGDYEECLELLISTQRLPEAALF 756 (794)
T ss_pred HHHHHHcCCHHHHHHHHHhcCcCcHHHHH
Confidence 55566667777777777777777777654
No 88
>PF07676 PD40: WD40-like Beta Propeller Repeat; InterPro: IPR011659 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This region appears to be related to the IPR001680 from INTERPRO repeat. This model is likely to miss copies within a sequence.; PDB: 2HQS_D 1C5K_A 2IVZ_A 2W8B_D 3IAX_A 1CRZ_A 1N6F_D 1N6D_C 1N6E_C 1K32_A ....
Probab=30.45 E-value=55 Score=22.54 Aligned_cols=14 Identities=29% Similarity=0.593 Sum_probs=10.0
Q ss_pred cccCCCCeeEEEec
Q 007100 2 AVSPNGNFVACFTH 15 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~ 15 (618)
++||+|+.|++...
T Consensus 15 ~~SpDGk~i~f~s~ 28 (39)
T PF07676_consen 15 AWSPDGKYIYFTSN 28 (39)
T ss_dssp EE-TTSSEEEEEEE
T ss_pred EEecCCCEEEEEec
Confidence 47888888888665
No 89
>KOG0547 consensus Translocase of outer mitochondrial membrane complex, subunit TOM70/TOM72 [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.94 E-value=1.1e+02 Score=34.27 Aligned_cols=44 Identities=25% Similarity=0.351 Sum_probs=36.2
Q ss_pred HHHhcCCHHHHHHh----hccCCC----HHHHHHHHHHcCCHHHHHHHHHhc
Q 007100 539 ACVDADEKGEALKY----IPKLVD----PRERAEAYARIGMAKEAADAASQA 582 (618)
Q Consensus 539 ~~~~~~~~~eA~ky----I~ki~d----~e~r~~l~~k~~~~~eA~~~a~~~ 582 (618)
.|..+|..++|.+| |..|++ +.+|...|..+|+|++.++.+-+.
T Consensus 124 ~~f~~kkY~eAIkyY~~AI~l~p~epiFYsNraAcY~~lgd~~~Vied~TkA 175 (606)
T KOG0547|consen 124 KFFRNKKYDEAIKYYTQAIELCPDEPIFYSNRAACYESLGDWEKVIEDCTKA 175 (606)
T ss_pred hhhhcccHHHHHHHHHHHHhcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHH
Confidence 45667778888877 667887 789999999999999999986553
No 90
>PF08822 DUF1804: Protein of unknown function (DUF1804); InterPro: IPR014926 This entry is represented by Bacteriophage D3112, Orf24. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=29.70 E-value=3.4e+02 Score=25.99 Aligned_cols=107 Identities=19% Similarity=0.166 Sum_probs=68.4
Q ss_pred HHHHHHHHHHcCCcchHHhHHhHcCcChHHHHHHHHHHHHhcCChhHHHHh---hccCCCCCCchHHHHHHHhcCCHHHH
Q 007100 473 ISDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWLKVFALATKRDWDALERF---SKEKRPPIGYRPFVEACVDADEKGEA 549 (618)
Q Consensus 473 l~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~wdeLe~f---~~sKKspIgyepfv~~~~~~~~~~eA 549 (618)
..+.++.++..+. ...+..+..++||..---.+|=++-.+..|||.+..= +...-=-|...-+-+.++.+...=+-
T Consensus 7 ~R~~~R~~YV~~~-~sLe~aA~~~gVs~~TarrWK~~Ak~~GDDWDk~RaA~~laggg~e~v~~~~l~~f~~Q~~~tmee 85 (165)
T PF08822_consen 7 TRDAVRRAYVFDR-LSLEQAAAKCGVSYATARRWKREAKAKGDDWDKARAAHTLAGGGIEDVARQMLEDFVVQYQATMEE 85 (165)
T ss_pred HHHHHHHHHHhCC-CCHHHHHHHhCCCHHHHHHHHHHHHHcCCcHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666665433 4567788999999999999999999999999999832 22111122233334444444433222
Q ss_pred HHhhccCCCHHHHHHHHHHcCC-HHHHHHHHHh
Q 007100 550 LKYIPKLVDPRERAEAYARIGM-AKEAADAASQ 581 (618)
Q Consensus 550 ~kyI~ki~d~e~r~~l~~k~~~-~~eA~~~a~~ 581 (618)
.+=-..++ +++|++++..+++ |..++..+.+
T Consensus 86 l~~~~~~~-~~~k~~~LasLaDsf~K~vaaskr 117 (165)
T PF08822_consen 86 LKENEDMP-PQEKVELLASLADSFSKMVAASKR 117 (165)
T ss_pred HhcccCCC-HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 23234555 9999999999877 6666655544
No 91
>PF15525 DUF4652: Domain of unknown function (DUF4652)
Probab=29.64 E-value=2.2e+02 Score=27.85 Aligned_cols=54 Identities=20% Similarity=0.422 Sum_probs=39.6
Q ss_pred cCCCCeeEEEecC---------CcEEEEeCCCCCcc-ccccCC-CCCCCCceeeeCCCeEEEEEC
Q 007100 4 SPNGNFVACFTHD---------GRLVVNNTNFSSPV-IDESCE-SALPPEQIAWCGMDSVLLYWN 57 (618)
Q Consensus 4 Sp~g~~iAl~~~~---------g~l~v~ssd~~~~~-~e~~~~-~~~~p~~~~WCG~d~v~~~~~ 57 (618)
|.||++=||.-.. |.||+....-...+ +..+.. ....|+.+.|..++.+++...
T Consensus 66 s~~~~~saciegkg~~a~eEgiGkIYIkn~~~~~~~~L~i~~~~~k~sPK~i~WiDD~~L~vIIG 130 (200)
T PF15525_consen 66 SENGKYSACIEGKGPEAEEEGIGKIYIKNLNNNNWWSLQIDQNEEKYSPKYIEWIDDNNLAVIIG 130 (200)
T ss_pred ccCCceeEEEEcCCCccccccceeEEEEecCCCceEEEEecCcccccCCceeEEecCCcEEEEEc
Confidence 6788999998754 57888775444444 445543 477999999999998887764
No 92
>PF13637 Ank_4: Ankyrin repeats (many copies); PDB: 3B95_A 3B7B_A 3F6Q_A 2KBX_A 3IXE_A 2DWZ_C 2DVW_A 3AJI_A 1S70_B 2HE0_A ....
Probab=29.57 E-value=1.6e+02 Score=21.68 Aligned_cols=48 Identities=27% Similarity=0.405 Sum_probs=30.2
Q ss_pred HHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHH
Q 007100 290 AHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLV 343 (618)
Q Consensus 290 ~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~v 343 (618)
..|...|+.+....|++.-..+..+ =.+...||..|+..|+.+.+-..
T Consensus 6 h~A~~~g~~~~~~~Ll~~~~din~~------d~~g~t~lh~A~~~g~~~~~~~L 53 (54)
T PF13637_consen 6 HWAARSGNLEIVKLLLEHGADINAQ------DEDGRTPLHYAAKNGNIDIVKFL 53 (54)
T ss_dssp HHHHHTT-HHHHHHHHHTTSGTT-B-------TTS--HHHHHHHTT-HHHHHHH
T ss_pred HHHHHhCCHHHHHHHHHCCCCCCCC------CCCCCCHHHHHHHccCHHHHHHH
Confidence 4566788888888888764443322 34567799999999988877554
No 93
>KOG3717 consensus Carnitine O-acyltransferase CRAT [Lipid transport and metabolism]
Probab=29.45 E-value=2.6e+02 Score=31.83 Aligned_cols=117 Identities=16% Similarity=0.253 Sum_probs=77.0
Q ss_pred Hhhhhhhcc--CCChhHHHHHhhhhhHHhccCCCCCcccccHHHHhcCChHHHHHHHHhcCChHHHHHHHHHhCCCh---
Q 007100 172 ASYGQAFCS--NFQRDRIQEMCKTLRVLNAARDPEIGIPLSIQQYKSLTASVLIGRLINANCHLLALRISEYLGMNQ--- 246 (618)
Q Consensus 172 AsfGk~~~~--~~~~~~fv~~c~~LRVLn~lr~~~igi~lT~~q~~~l~~~~li~rL~~r~~~~lA~~I~~~l~~~~--- 246 (618)
=.|||.|.. ...||.|+.++=.|-.-.-.++ .+-||+ +..+-.|.+-.+
T Consensus 399 ~~yGK~FiK~~k~SPDaFIQmalQLA~yk~h~~----l~aTYE----------------------SAslR~F~~GRtdtI 452 (612)
T KOG3717|consen 399 NHYGKDFIKSQKLSPDAFIQMALQLAFYKLHGR----LVATYE----------------------SASLRRFHEGRTDTI 452 (612)
T ss_pred ccccccchhhhCcCchHHHHHHHHHHHHHHhcc----cCcchh----------------------hhhhhhhcCCccccc
Confidence 368999987 4579999999966655554443 223432 222333433332
Q ss_pred ---hHHHHHHHHHHhhhcCCCChHHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhh
Q 007100 247 ---EVVIMHWACSKITASLAIPDVTLLEILLDKLKLCKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLS 320 (618)
Q Consensus 247 ---~~I~~~WA~~kI~~~~~~~D~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~ 320 (618)
+.=...|+.+.- ++..+.++.++.++.=.. .+.-|+.-|.......|.-||.+++..|.+ +.+|-|.+
T Consensus 453 RS~s~esL~fv~am~--~~~v~~~ek~~llr~Av~--~h~~yt~~ai~G~gvDrHLlgLk~~a~e~~--~~iPelF~ 523 (612)
T KOG3717|consen 453 RSASTESLEFVKAMD--DSSVPKSEKLELLRKAVQ--AHTKYTKRAIRGNGVDRHLLGLKLMAIENC--KPIPELFK 523 (612)
T ss_pred ccCCHHHHHHHHHhh--CCCCCHHHHHHHHHHHHH--HHHHHHHHHhccccchHHHHHHHHHHHHhC--CCcchhhc
Confidence 334567887653 567788888877765432 345577778888888999999999998885 66766543
No 94
>PF12796 Ank_2: Ankyrin repeats (3 copies); InterPro: IPR020683 This entry represents the ankyrin repeat-containing domain. These domains contain multiple repeats of a beta(2)-alpha(2) motif. The ankyrin repeat is one of the most common protein-protein interaction motifs in nature. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a large number of functionally diverse proteins mainly from eukaryotes. The few known examples from prokaryotes and viruses may be the result of horizontal gene transfers []. The repeat has been found in proteins of diverse function such as transcriptional initiators, cell-cycle regulators, cytoskeletal, ion transporters and signal transducers. The ankyrin fold appears to be defined by its structure rather than its function since there is no specific sequence or structure which is universally recognised by it. The conserved fold of the ankyrin repeat unit is known from several crystal and solution structures [, , , ]. Each repeat folds into a helix-loop-helix structure with a beta-hairpin/loop region projecting out from the helices at a 90o angle. The repeats stack together to form an L-shaped structure [, ].; PDB: 3AAA_C 3F6Q_A 2KBX_A 3IXE_A 3TWR_D 3TWV_A 3TWT_B 3TWQ_A 3TWS_A 3TWX_B ....
Probab=29.43 E-value=1.1e+02 Score=24.92 Aligned_cols=46 Identities=28% Similarity=0.411 Sum_probs=36.5
Q ss_pred HHHHHhCcHHHHHHHHhcCCCCccchhhhhhcCchHHHHHHHHHcCChhHHHHHHH
Q 007100 290 AHADKSGRRKLAAMLVEHEPRSSKQVPLLLSIGEEDTALVKATESGDTDLVYLVIF 345 (618)
Q Consensus 290 ~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl 345 (618)
..|.+.|+.+....|++.++.... | +.||..|+..|+.+.+-.++-
T Consensus 2 ~~A~~~~~~~~~~~ll~~~~~~~~--------~--~~~l~~A~~~~~~~~~~~Ll~ 47 (89)
T PF12796_consen 2 HIAAQNGNLEILKFLLEKGADINL--------G--NTALHYAAENGNLEIVKLLLE 47 (89)
T ss_dssp HHHHHTTTHHHHHHHHHTTSTTTS--------S--SBHHHHHHHTTTHHHHHHHHH
T ss_pred HHHHHcCCHHHHHHHHHCcCCCCC--------C--CCHHHHHHHcCCHHHHHHHHH
Confidence 468899999999999997766554 2 239999999999887776653
No 95
>PF10493 Rod_C: Rough deal protein C-terminal region; InterPro: IPR019527 Rod, the Rough deal protein (also known as Kinetochore-associated protein 1) displays a dynamic intracellular staining pattern, localising first to kinetochores in pro-metaphase, but moving to kinetochore microtubules at metaphase. Early in anaphase the protein is once again restricted to the kinetochores, where it persists until the end of telophase. This behaviour is in all respects similar to that described for ZW10 [], and indeed the two proteins function together, localisation of each depending upon the other []. These two proteins are found at the kinetochore in complex with a third, Zwilch, in both flies and humans. The C- terminus is the most conserved part of the protein. During pro-metaphase, the ZW10-Rod complex, dynein/dynactin, and Mad2 all accumulate on unattached kinetochores; microtubule capture leads to Mad2 depletion as it is carried off by dynein/dynactin; ZW10-Rod complex accumulation continues, replenishing kinetochore dynein. The continuing recruitment of the ZW10-Rod complex during metaphase may serve to maintain adequate dynein/dynactin complex on kinetochores for assisting chromatid movement during anaphase[]. The ZW10-Rod complex acts as a bridge whose association with Zwint-1 links Mad1 and Mad2, components that are directly responsible for generating the diffusible 'wait anaphase' signal, to a structural, inner kinetochore complex containing Mis12 and KNL-1AF15q14, the last of which has been proved to be essential for kinetochore assembly in Caenorhabditis elegans. Removal of ZW10 or Rod inactivates the mitotic checkpoint [].
Probab=29.31 E-value=9.2e+02 Score=27.70 Aligned_cols=162 Identities=15% Similarity=0.115 Sum_probs=110.8
Q ss_pred HHHHHHHHHHHHHHHhhc---ccccccCCCHHHHHHHHHHcCCc-----chHHhHHhHcCcChHHHHHHHHHHHHhcCCh
Q 007100 446 AEEHAKLLRIQHELEVST---KQAIFVDSSISDTIRTCIVLGNH-----RAAMKVKTEFKVSEKRWYWLKVFALATKRDW 517 (618)
Q Consensus 446 ~~e~~~Ll~~Q~~Le~~~---~~~~f~~~Sl~~Ti~~li~~~~~-----k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~w 517 (618)
+...++.+-|=.+||.-- .-..|...+=...|+.|.+.+-+ +.+..|.=+|+|-|.+.|---++-+.+.+.|
T Consensus 334 ~~~~Lk~~~yl~~Le~l~i~~t~~~F~~~~K~~Lik~Lwk~h~~~p~alrliA~Lcley~i~dpqlWn~iL~~l~~~~mi 413 (551)
T PF10493_consen 334 LKIYLKCLIYLAELEELNIPYTIESFESCDKEGLIKSLWKNHSHNPQALRLIAELCLEYDIYDPQLWNGILQQLLGFNMI 413 (551)
T ss_pred HHHHHHHHHHHHHHHhcCCCccHHHHhcCCHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhhHH
Confidence 445666666777777542 11346666666778888887654 3366778899999999999999999999999
Q ss_pred hHHHHhhcc--CCCCC----C----chHHHHHHHhcCC-----H-----HHHHHhhccCC-----CHHHHHHHHHHcCCH
Q 007100 518 DALERFSKE--KRPPI----G----YRPFVEACVDADE-----K-----GEALKYIPKLV-----DPRERAEAYARIGMA 572 (618)
Q Consensus 518 deLe~f~~s--KKspI----g----yepfv~~~~~~~~-----~-----~eA~kyI~ki~-----d~e~r~~l~~k~~~~ 572 (618)
+.|.++... .++.+ | |+-++...+.+-. . .++...+.+|| |.-.=.+.|++++..
T Consensus 414 ~~L~~lL~~is~~~~l~~i~~~~~aW~~vi~~Pf~~a~~~~s~~q~~~~~~~l~~l~~CPv~~~ldl~~ia~~~~~~~~~ 493 (551)
T PF10493_consen 414 SYLRKLLDAISSIPSLWQIPGFSMAWQRVIQAPFSSASCPPSPDQNEQCCKSLVLLLKCPVLHDLDLIGIAKQCIQLKLP 493 (551)
T ss_pred HHHHHHHHHhcCChhhhcCccHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHHHHcCCccccccHHHHHHHHHHcCCH
Confidence 999998742 33222 2 2334444433222 1 25678889999 788889999999999
Q ss_pred HHH-HHH-H--HhcCCHHHHHHHHHHccCChHHHHHHHHH
Q 007100 573 KEA-ADA-A--SQAKDGELLGRLKLTFAQNAAASSIFDTL 608 (618)
Q Consensus 573 ~eA-~~~-a--~~~kd~~~L~~i~~~~~~~~~~~~~i~~~ 608 (618)
.-| +-. . -..+..+.|+.+.+.|+... +.+.|++.
T Consensus 494 ~~Al~~Ll~~~~~~~~~~~i~~~~~~~~~~~-~~~q~~~~ 532 (551)
T PF10493_consen 494 AFALACLLLFPQSEKRKQQIQKLLASCNPET-LLQQIEEL 532 (551)
T ss_pred HHHHHHHhhCccchhHHHHHHHHHHcCCHHH-HHHHHHHH
Confidence 988 322 2 34555678888888876444 56655543
No 96
>KOG0271 consensus Notchless-like WD40 repeat-containing protein [Function unknown]
Probab=29.09 E-value=2e+02 Score=31.13 Aligned_cols=91 Identities=18% Similarity=0.213 Sum_probs=54.3
Q ss_pred CcccCCCCeeEEEecCC--cEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEEE--CCeEEEEeCCCCceEeecCC
Q 007100 1 MAVSPNGNFVACFTHDG--RLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLYW--NDMLVMVAPQAEPVQYFYDE 76 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g--~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~--~~~l~l~g~~~~~~~~~~~~ 76 (618)
+++||||++||--.-+. ++|-+.+ .+.+.-|-- .-.+..|+.|-.+.-++++- ..++.+..-....+.+..++
T Consensus 373 V~fSPd~r~IASaSFDkSVkLW~g~t--Gk~lasfRG-Hv~~VYqvawsaDsRLlVS~SkDsTLKvw~V~tkKl~~DLpG 449 (480)
T KOG0271|consen 373 VSFSPDGRYIASASFDKSVKLWDGRT--GKFLASFRG-HVAAVYQVAWSADSRLLVSGSKDSTLKVWDVRTKKLKQDLPG 449 (480)
T ss_pred EEECCCccEEEEeecccceeeeeCCC--cchhhhhhh-ccceeEEEEeccCccEEEEcCCCceEEEEEeeeeeecccCCC
Confidence 36899999998755444 4454432 333333321 23366899998876666654 35566666555555555542
Q ss_pred ----CeEEeecCCceEEeccCc
Q 007100 77 ----PLVLIPECDGVRILSNSS 94 (618)
Q Consensus 77 ----~~~l~~e~Dg~riit~~~ 94 (618)
.+.+-=-.||=||.+.-+
T Consensus 450 h~DEVf~vDwspDG~rV~sggk 471 (480)
T KOG0271|consen 450 HADEVFAVDWSPDGQRVASGGK 471 (480)
T ss_pred CCceEEEEEecCCCceeecCCC
Confidence 233445678999988543
No 97
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=28.92 E-value=9.7e+02 Score=27.84 Aligned_cols=100 Identities=12% Similarity=0.055 Sum_probs=47.6
Q ss_pred HHHcCCcchHHhHHhHc---CcChHHHHHHHHHHHHhcCChhHHHHhhc-----cCCCCCCchHHHHHHHhcCCHHHHHH
Q 007100 480 CIVLGNHRAAMKVKTEF---KVSEKRWYWLKVFALATKRDWDALERFSK-----EKRPPIGYRPFVEACVDADEKGEALK 551 (618)
Q Consensus 480 li~~~~~k~a~kl~k~f---KVsdkr~~~lkl~aLa~~~~wdeLe~f~~-----sKKspIgyepfv~~~~~~~~~~eA~k 551 (618)
+...|+...|..+-++. .-.+...|......+...++|++-....+ ....|..+.-...++...|+.++|..
T Consensus 577 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~ 656 (899)
T TIGR02917 577 YLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAIT 656 (899)
T ss_pred HHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHH
Confidence 33445554444433222 11234456666666666666665443332 12334444445555556666666655
Q ss_pred hhccC----CC----HHHHHHHHHHcCCHHHHHHHH
Q 007100 552 YIPKL----VD----PRERAEAYARIGMAKEAADAA 579 (618)
Q Consensus 552 yI~ki----~d----~e~r~~l~~k~~~~~eA~~~a 579 (618)
++.+. ++ .-....++.+.|++.+|.+.+
T Consensus 657 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~ 692 (899)
T TIGR02917 657 SLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIA 692 (899)
T ss_pred HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence 54432 11 123344455555555554443
No 98
>PF12616 DUF3775: Protein of unknown function (DUF3775); InterPro: IPR022254 This domain family is found in bacteria, and is approximately 80 amino acids in length. There is a single completely conserved residue G that may be functionally important.
Probab=27.97 E-value=1.5e+02 Score=24.46 Aligned_cols=62 Identities=21% Similarity=0.098 Sum_probs=45.5
Q ss_pred HHHHHhhccCCCHHHHHHHHH----Hc-----CCHHHHHHHHHhcCCHHHHHHHHHHccCChHHHHHHHHHHHHhh
Q 007100 547 GEALKYIPKLVDPRERAEAYA----RI-----GMAKEAADAASQAKDGELLGRLKLTFAQNAAASSIFDTLRDRLS 613 (618)
Q Consensus 547 ~eA~kyI~ki~d~e~r~~l~~----k~-----~~~~eA~~~a~~~kd~~~L~~i~~~~~~~~~~~~~i~~~~~~l~ 613 (618)
.+...||..++ +++++++.. -- .+|.+|...|...-+...-..+..+. . +...++..+..++
T Consensus 4 ~el~~~I~~l~-~deqaeLvALmwiGRGd~~~eew~~a~~~A~~~~~~~ta~YLl~~p---~-ladyLe~GL~~lG 74 (75)
T PF12616_consen 4 EELRSFIEDLN-EDEQAELVALMWIGRGDFEAEEWEEAVAEARERASARTADYLLGTP---M-LADYLEEGLEALG 74 (75)
T ss_pred HHHHHHHHhCC-HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhccchHHHHHHcCC---c-HHHHHHHHHHHcC
Confidence 46678899886 888887643 23 45999999999998777777777542 2 6677777777665
No 99
>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=27.72 E-value=1e+02 Score=28.61 Aligned_cols=53 Identities=17% Similarity=0.086 Sum_probs=36.0
Q ss_pred HHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHcc----CChHH-HHHHHHHHHHhh
Q 007100 561 ERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFA----QNAAA-SSIFDTLRDRLS 613 (618)
Q Consensus 561 ~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~----~~~~~-~~~i~~~~~~l~ 613 (618)
+...-+++-|+|.+|+..|.+..-+..+-.|...+- +++.. ...++..+..|.
T Consensus 2 Q~L~N~l~~~~y~~Al~LAl~L~~P~~ll~i~~~~~~~~~~~~~~g~~~l~~~i~~L~ 59 (141)
T PF08625_consen 2 QELSNLLRQKDYKEALRLALKLDHPFRLLKILKDLLETEEDEDSIGSEELDEVIKKLD 59 (141)
T ss_pred chHHHHHHhhhHHHHHHHHHhcCCcHHHHHHHHHHHhcccccccchHHHHHHHHHhcC
Confidence 456678999999999999999999965555555443 22211 245666666554
No 100
>KOG0649 consensus WD40 repeat protein [General function prediction only]
Probab=27.71 E-value=1.2e+02 Score=30.88 Aligned_cols=22 Identities=23% Similarity=0.309 Sum_probs=19.8
Q ss_pred cccCCCCeeEEEecCCcEEEEe
Q 007100 2 AVSPNGNFVACFTHDGRLVVNN 23 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~g~l~v~s 23 (618)
++||.+++++.-+..|.|.|.|
T Consensus 17 a~sp~~~~l~agn~~G~iav~s 38 (325)
T KOG0649|consen 17 AISPSKQYLFAGNLFGDIAVLS 38 (325)
T ss_pred hhCCcceEEEEecCCCeEEEEE
Confidence 6899999999888899999876
No 101
>PF04762 IKI3: IKI3 family; InterPro: IPR006849 Members of this family are components of the elongator multi-subunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation [].
Probab=27.52 E-value=51 Score=40.28 Aligned_cols=85 Identities=25% Similarity=0.191 Sum_probs=53.4
Q ss_pred CcChHHHHHHHHHHHHhcC--ChhHHHHhhccCCCCCCchHHHHHHHhcCC--HHHHHHhhccCCCHHHHHHHHHHcCCH
Q 007100 497 KVSEKRWYWLKVFALATKR--DWDALERFSKEKRPPIGYRPFVEACVDADE--KGEALKYIPKLVDPRERAEAYARIGMA 572 (618)
Q Consensus 497 KVsdkr~~~lkl~aLa~~~--~wdeLe~f~~sKKspIgyepfv~~~~~~~~--~~eA~kyI~ki~d~e~r~~l~~k~~~~ 572 (618)
.....+|.-..|.++++.+ +-++--+.++ .+.+.+. .++|.+||--..|..+=.+..+-.=++
T Consensus 808 ~~~~~~~l~~IlTa~vkk~Pp~le~aL~~I~-------------~l~~~~~~~ae~alkyl~fLvDvn~Ly~~ALG~YDl 874 (928)
T PF04762_consen 808 PKDKDKYLQPILTAYVKKSPPDLEEALQLIK-------------ELREEDPESAEEALKYLCFLVDVNKLYDVALGTYDL 874 (928)
T ss_pred cccchhhHHHHHHHHHhcCchhHHHHHHHHH-------------HHHhcChHHHHHHHhHheeeccHHHHHHHHhhhcCH
Confidence 5556677777788887765 2222222222 1221122 258889998888888888888777778
Q ss_pred HHHHHHHHh-cCCH-H---HHHHHHHH
Q 007100 573 KEAADAASQ-AKDG-E---LLGRLKLT 594 (618)
Q Consensus 573 ~eA~~~a~~-~kd~-~---~L~~i~~~ 594 (618)
+-|.-+|-+ +||+ + .|+.+++.
T Consensus 875 ~Lal~VAq~SQkDPKEYLPfL~~L~~l 901 (928)
T PF04762_consen 875 ELALMVAQQSQKDPKEYLPFLQELQKL 901 (928)
T ss_pred HHHHHHHHHhccChHHHHHHHHHHHhC
Confidence 888877765 5777 3 55555543
No 102
>PRK10941 hypothetical protein; Provisional
Probab=27.36 E-value=1.7e+02 Score=30.24 Aligned_cols=48 Identities=15% Similarity=0.160 Sum_probs=38.5
Q ss_pred HHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHccCChHHHHHHHHHHHHhhhcC
Q 007100 559 PRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFAQNAAASSIFDTLRDRLSFQG 616 (618)
Q Consensus 559 ~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~~~~~~~~~i~~~~~~l~~~~ 616 (618)
..+|--+|.++||+..|++ -|+.+-++||+++ ....|...+..|..++
T Consensus 218 ~RDRGll~~qL~c~~~A~~---------DL~~fl~~~P~dp-~a~~ik~ql~~l~~~~ 265 (269)
T PRK10941 218 IRDRGLIYAQLDCEHVALS---------DLSYFVEQCPEDP-ISEMIRAQIHSIEQKQ 265 (269)
T ss_pred HHHHHHHHHHcCCcHHHHH---------HHHHHHHhCCCch-hHHHHHHHHHHHhhcC
Confidence 4468889999999999984 5778888999887 6777887788777654
No 103
>KOG1963 consensus WD40 repeat protein [General function prediction only]
Probab=27.22 E-value=1.2e+02 Score=35.87 Aligned_cols=75 Identities=28% Similarity=0.562 Sum_probs=46.6
Q ss_pred cccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeee-------------------CCCeEEEEECCe---
Q 007100 2 AVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWC-------------------GMDSVLLYWNDM--- 59 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WC-------------------G~d~v~~~~~~~--- 59 (618)
++||||+++|--..+|+|.|+ .||.. .+.+..+.-+.|- |-.+|++-|..+
T Consensus 212 ~~spn~~~~Aa~d~dGrI~vw-~d~~~------~~~~~t~t~lHWH~~~V~~L~fS~~G~~LlSGG~E~VLv~Wq~~T~~ 284 (792)
T KOG1963|consen 212 ALSPNERYLAAGDSDGRILVW-RDFGS------SDDSETCTLLHWHHDEVNSLSFSSDGAYLLSGGREGVLVLWQLETGK 284 (792)
T ss_pred EeccccceEEEeccCCcEEEE-ecccc------ccccccceEEEecccccceeEEecCCceEeecccceEEEEEeecCCC
Confidence 689999999999999999987 55552 1112244455553 677788888521
Q ss_pred ----------E--EEEeCCCCceEeec-CCCeEEeec
Q 007100 60 ----------L--VMVAPQAEPVQYFY-DEPLVLIPE 83 (618)
Q Consensus 60 ----------l--~l~g~~~~~~~~~~-~~~~~l~~e 83 (618)
+ .++.|+++...--- |+.++++.-
T Consensus 285 kqfLPRLgs~I~~i~vS~ds~~~sl~~~DNqI~li~~ 321 (792)
T KOG1963|consen 285 KQFLPRLGSPILHIVVSPDSDLYSLVLEDNQIHLIKA 321 (792)
T ss_pred cccccccCCeeEEEEEcCCCCeEEEEecCceEEEEec
Confidence 1 46667666543322 445555444
No 104
>PF05917 DUF874: Helicobacter pylori protein of unknown function (DUF874); InterPro: IPR008592 This family consists of several hypothetical proteins specific to Helicobacter pylori. The function of this family is unknown.
Probab=27.05 E-value=70 Score=33.02 Aligned_cols=90 Identities=23% Similarity=0.218 Sum_probs=44.2
Q ss_pred HHHHHHHHhCCCh------hHHHHHHHHHHhhhcCCCChHHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHHHHHHHHhc
Q 007100 234 LALRISEYLGMNQ------EVVIMHWACSKITASLAIPDVTLLEILLDKLKLCKGISYAAVAAHADKSGRRKLAAMLVEH 307 (618)
Q Consensus 234 lA~~I~~~l~~~~------~~I~~~WA~~kI~~~~~~~D~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~LA~~Ll~~ 307 (618)
.+-.|-++.+-.+ -.|+.||||.+++ . -||.|-+.-.++= ..+.|++=. |. | ...|+.||..
T Consensus 49 i~kkvre~vKKhpKKS~aalvvlthvaCk~aK-e---lDDkvqdkskqae-keNqinWwk-----ys-G-ltiaTslLla 116 (398)
T PF05917_consen 49 IWKKVRELVKKHPKKSNAALVVLTHVACKKAK-E---LDDKVQDKSKQAE-KENQINWWK-----YS-G-LTIATSLLLA 116 (398)
T ss_pred HHHHHHHHHHhCccccchhhHhhHHHHhcccc-h---hhHHHhhhhhhcc-Cccccchhh-----hc-c-HHHHHHHHHH
Confidence 3445555555543 2599999999873 2 2445444333321 122344311 11 2 2334443332
Q ss_pred CCCC---ccchhhhhhcCchHHHHHHHHHcC
Q 007100 308 EPRS---SKQVPLLLSIGEEDTALVKATESG 335 (618)
Q Consensus 308 E~~~---~~qV~lLl~~~~~~~AL~kAi~S~ 335 (618)
=.++ .+||.+=-.-.+-|.|-++|-.||
T Consensus 117 aC~agD~~KqiEleQekkeaEnaRdkANKSg 147 (398)
T PF05917_consen 117 ACSAGDIDKQIELEQEKKEAENARDKANKSG 147 (398)
T ss_pred HHhccchhHHHHHHHHHHHhhhhhhhhcccc
Confidence 2222 344444444445667777777777
No 105
>COG0140 HisI Phosphoribosyl-ATP pyrophosphohydrolase [Amino acid transport and metabolism]
Probab=26.78 E-value=4.1e+02 Score=22.86 Aligned_cols=83 Identities=19% Similarity=0.234 Sum_probs=53.2
Q ss_pred HHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhh-cCchHHHHHHHHHcCChhHHHHHHH
Q 007100 267 VTLLEILLDKLKLCKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLS-IGEEDTALVKATESGDTDLVYLVIF 345 (618)
Q Consensus 267 ~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~-~~~~~~AL~kAi~S~D~dLI~~vLl 345 (618)
.+|.+.|.+|....|.-||+ ...+..|-..++.++-+ +-|...+- .+++. +.+.+--.||+|..++
T Consensus 2 ~~L~~~i~~Rk~~~pe~SYT---a~L~~~G~~ki~kKvGE------Ea~E~~iAa~~~d~----e~l~~E~ADLlYH~lV 68 (92)
T COG0140 2 SELEAVIADRKNARPEGSYT---AKLLAKGIDKIAKKVGE------EAVEVILAAKDEDK----EELVSEAADLLYHLLV 68 (92)
T ss_pred hHHHHHHHHHHhcCCCchHH---HHHHHCcHHHHHHHHhH------HHHHHHHHHHhcch----HHHHHHHHHHHHHHHH
Confidence 36788999998888999995 56777888888888766 33333331 11111 1233334789998877
Q ss_pred HHHh-hCChhHHHHHHhc
Q 007100 346 HIWQ-KRPALEFFGMIQT 362 (618)
Q Consensus 346 ~l~~-~l~~~~f~~~l~~ 362 (618)
-|.. .+++++..+-|..
T Consensus 69 lL~~~gv~l~dV~~eL~~ 86 (92)
T COG0140 69 LLAAQGLSLEDVLRELER 86 (92)
T ss_pred HHHHcCCCHHHHHHHHHH
Confidence 6554 4677666665543
No 106
>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]
Probab=26.01 E-value=2.2e+02 Score=33.13 Aligned_cols=126 Identities=19% Similarity=0.153 Sum_probs=76.6
Q ss_pred cCCCHHHHHHHHHHcCCcchHHhHHhHcCcChHHHHHH------------HHHHHHhcCChhHHHHhh--c--cCCCCCC
Q 007100 469 VDSSISDTIRTCIVLGNHRAAMKVKTEFKVSEKRWYWL------------KVFALATKRDWDALERFS--K--EKRPPIG 532 (618)
Q Consensus 469 ~~~Sl~~Ti~~li~~~~~k~a~kl~k~fKVsdkr~~~l------------kl~aLa~~~~wdeLe~f~--~--sKKspIg 532 (618)
+..+...++++-|+.|..+.|-+++ -.+|...-|-.+ .=+||++.++-.-|+-.. + .+++-.+
T Consensus 555 ~evp~~~~m~q~Ieag~f~ea~~ia-clgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P 633 (1081)
T KOG1538|consen 555 VEVPQSAPMYQYIERGLFKEAYQIA-CLGVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEERKKRGETP 633 (1081)
T ss_pred ccccccccchhhhhccchhhhhccc-ccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCc
Confidence 3456667778888877776553332 111111111111 112344444422222111 1 1344444
Q ss_pred chH-HHHHHHhcCCHHHHHHhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHc
Q 007100 533 YRP-FVEACVDADEKGEALKYIPKLVDPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTF 595 (618)
Q Consensus 533 yep-fv~~~~~~~~~~eA~kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~ 595 (618)
=+. -++.|.-.|...||.+.-.++....+-+|||..+.|++.|-+....--+.+.=+-+|+++
T Consensus 634 ~~iLlA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA 697 (1081)
T KOG1538|consen 634 NDLLLADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRA 697 (1081)
T ss_pred hHHHHHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHH
Confidence 443 567777788889999999999988888999999999999987766666666666666655
No 107
>KOG4121 consensus Nuclear pore complex, Nup133 component (sc Nup133) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.93 E-value=6e+02 Score=31.22 Aligned_cols=91 Identities=18% Similarity=0.216 Sum_probs=56.3
Q ss_pred chhhhhhcCchHHHHHHHHHcCChhHHHHHHHHHHhhCChhHHHHHHhcCh--hHHHHHHHHHHh-----------cCHH
Q 007100 314 QVPLLLSIGEEDTALVKATESGDTDLVYLVIFHIWQKRPALEFFGMIQTRP--LACDLFTVYARC-----------YKHE 380 (618)
Q Consensus 314 qV~lLl~~~~~~~AL~kAi~S~D~dLI~~vLl~l~~~l~~~~f~~~l~~~p--~A~~l~~~y~~~-----------~~~~ 380 (618)
=+..|.+.|+++.|.+=|-+=.|.+-.-..+=-+..+-.+.....-.+..| -+.-+|..|.+. ++..
T Consensus 778 wlq~L~~vg~~e~Ai~iAEKY~DfqsLV~lcdqld~kdrLq~y~~~~~e~~~eFs~~lf~y~ve~~k~~eLl~~f~~~~s 857 (1128)
T KOG4121|consen 778 WLQVLCKVGQYEQAIQIAEKYKDFQSLVQLCDQLDQKDRLQDYETFFNEYPKEFSFFLFEYLVEHGKLGELLFRFPQQHS 857 (1128)
T ss_pred HHHHHHhcchHHHHHHHHHHhhhHHHHHHHHHhhCchhHHHHHHHHHHhhhHHHHHHHHHHHHhhchHHHHHhcchhhHH
Confidence 356789999999999999999998865555545555434444444455555 355555555542 2344
Q ss_pred HHHHHHH-------------hcCChHHHHHHHHHHHH
Q 007100 381 FLKDFFL-------------STGQLQEVAFLLWKESW 404 (618)
Q Consensus 381 ~L~d~~~-------------q~d~~~e~a~l~l~~a~ 404 (618)
.|..||. +.+.+..++...++.+.
T Consensus 858 ~L~qFf~~~d~~~lsWi~ei~nGdy~rAs~~L~~la~ 894 (1128)
T KOG4121|consen 858 VLIQFFQERDYGHLSWIQEILNGDYERASNTLLNLAV 894 (1128)
T ss_pred HHHHHHhhccccccHHHHHHhcCcHHHHHHHHHHhcc
Confidence 5666662 45556555555555443
No 108
>KOG2055 consensus WD40 repeat protein [General function prediction only]
Probab=25.70 E-value=73 Score=35.12 Aligned_cols=146 Identities=18% Similarity=0.181 Sum_probs=75.0
Q ss_pred cccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEEECCeEEEEeCCCCceEeecCCC--eE
Q 007100 2 AVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLYWNDMLVMVAPQAEPVQYFYDEP--LV 79 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~~~~l~l~g~~~~~~~~~~~~~--~~ 79 (618)
.|||+|+|||+-..+|.|.++.+.-.+.+.-+-. .+....+.|-.+. ..|++.|.+|+-..|..... .+
T Consensus 310 eVShd~~fia~~G~~G~I~lLhakT~eli~s~Ki--eG~v~~~~fsSds-------k~l~~~~~~GeV~v~nl~~~~~~~ 380 (514)
T KOG2055|consen 310 EVSHDSNFIAIAGNNGHIHLLHAKTKELITSFKI--EGVVSDFTFSSDS-------KELLASGGTGEVYVWNLRQNSCLH 380 (514)
T ss_pred EecCCCCeEEEcccCceEEeehhhhhhhhheeee--ccEEeeEEEecCC-------cEEEEEcCCceEEEEecCCcceEE
Confidence 5899999999988899999986644444433322 2345677777432 55666666665444444332 22
Q ss_pred EeecCCceEEeccCcchhhhccchhhhhhhccCCCChHHHHHHHHHHHhccCchhHHHHHHhhhhHHHHHHHHHHHcccc
Q 007100 80 LIPECDGVRILSNSSMEFLQRVPASTEQIFAIGSTSPAALLYDALDHFDRRSAKADENLRLIRASLPKAVEACIDAAGHE 159 (618)
Q Consensus 80 l~~e~Dg~riit~~~~~~l~~Vp~~~~~if~igS~~P~a~L~~a~~~~~~~~~~a~e~lr~i~~~L~~AV~~CI~AA~~e 159 (618)
...+-+|+ .+++-| ++. ....|-+||.+--.=+|+-=..|....|+-...+- +|..||. --.
T Consensus 381 rf~D~G~v--~gts~~--~S~----ng~ylA~GS~~GiVNIYd~~s~~~s~~PkPik~~d----NLtt~It------sl~ 442 (514)
T KOG2055|consen 381 RFVDDGSV--HGTSLC--ISL----NGSYLATGSDSGIVNIYDGNSCFASTNPKPIKTVD----NLTTAIT------SLQ 442 (514)
T ss_pred EEeecCcc--ceeeee--ecC----CCceEEeccCcceEEEeccchhhccCCCCchhhhh----hhheeee------eee
Confidence 33333333 111111 111 11255666654433333322334455555444433 4444443 224
Q ss_pred CCHHHHHHHHHHHhhhh
Q 007100 160 FDISRQRTLLRAASYGQ 176 (618)
Q Consensus 160 ~d~~~Qk~LL~AAsfGk 176 (618)
|+++.|- |.-||=++
T Consensus 443 Fn~d~qi--LAiaS~~~ 457 (514)
T KOG2055|consen 443 FNHDAQI--LAIASRVK 457 (514)
T ss_pred eCcchhh--hhhhhhcc
Confidence 7777774 44444333
No 109
>TIGR03188 histidine_hisI phosphoribosyl-ATP pyrophosphohydrolase. This enzyme, phosphoribosyl-ATP pyrophosphohydrolase, catalyses the second step in the histidine biosynthesis pathway. It often occurs as a fusion protein. This model a somewhat narrower scope than Pfam model pfam01503, as some paralogs that appear to be functionally distinct are excluded from this model.
Probab=24.68 E-value=4.3e+02 Score=22.29 Aligned_cols=76 Identities=16% Similarity=0.197 Sum_probs=47.9
Q ss_pred HHHHHHHHHhhccCCCCCHHHHHHHHHHhCcHHHHHHHHhcCCCCccchhhhhhc--CchHHHHHHHHHcCChhHHHHHH
Q 007100 267 VTLLEILLDKLKLCKGISYAAVAAHADKSGRRKLAAMLVEHEPRSSKQVPLLLSI--GEEDTALVKATESGDTDLVYLVI 344 (618)
Q Consensus 267 ~~l~~~I~~kl~~~~~is~~~IA~~A~~~gR~~LA~~Ll~~E~~~~~qV~lLl~~--~~~~~AL~kAi~S~D~dLI~~vL 344 (618)
++|.+.|.+|....|.-||+ ..-++.|....+.++-+ +-+.+.+-- ++.+. +..--.||+|.++
T Consensus 2 ~~L~~~I~~R~~~~~~~SYT---~~L~~~G~~ki~kKvgE------Ea~E~iiAa~~~d~~~-----~~~E~ADLlYHll 67 (84)
T TIGR03188 2 EELEATIAERKAADPEGSYT---ARLFAKGLDKILKKVGE------EAVEVVIAAKNGDKEE-----LVYEAADLLYHLL 67 (84)
T ss_pred HHHHHHHHHHHhCCCCCcHH---HHHHhCcHHHHHHHHHH------HHHHHHHHHHcCCHHH-----HHHHHHHHHHHHH
Confidence 46788999998888899995 45667788888888776 333333311 11121 2222368899888
Q ss_pred HHHHhh-CChhHH
Q 007100 345 FHIWQK-RPALEF 356 (618)
Q Consensus 345 l~l~~~-l~~~~f 356 (618)
+-|... +++++.
T Consensus 68 VlL~~~gi~~~dV 80 (84)
T TIGR03188 68 VLLAAQGVSLEDV 80 (84)
T ss_pred HHHHHcCCCHHHH
Confidence 776553 444443
No 110
>KOG0650 consensus WD40 repeat nucleolar protein Bop1, involved in ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=23.92 E-value=1.2e+02 Score=34.52 Aligned_cols=63 Identities=22% Similarity=0.357 Sum_probs=40.2
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeee--CCCeEEEE-ECCeEEEEeC
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWC--GMDSVLLY-WNDMLVMVAP 65 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WC--G~d~v~~~-~~~~l~l~g~ 65 (618)
|++.|.|..||--.++|++-|.-.--.+++.-+.+++ ....++|| ++-||++. ....++++.|
T Consensus 406 iSvdp~G~wlasGsdDGtvriWEi~TgRcvr~~~~d~--~I~~vaw~P~~~~~vLAvA~~~~~~ivnp 471 (733)
T KOG0650|consen 406 ISVDPSGEWLASGSDDGTVRIWEIATGRCVRTVQFDS--EIRSVAWNPLSDLCVLAVAVGECVLIVNP 471 (733)
T ss_pred EEecCCcceeeecCCCCcEEEEEeecceEEEEEeecc--eeEEEEecCCCCceeEEEEecCceEEeCc
Confidence 5789999999998889977665544455554333333 55799999 45555433 3444455444
No 111
>KOG2041 consensus WD40 repeat protein [General function prediction only]
Probab=23.39 E-value=1.3e+03 Score=27.45 Aligned_cols=98 Identities=11% Similarity=0.069 Sum_probs=49.6
Q ss_pred HHHHHHHhcCChhHHHHhhccCCCCCCchHHHHHHHhcCCHHHHHHhhccCCCHHHHHHHHHHcCCHHHHHHHHHhcCCH
Q 007100 506 LKVFALATKRDWDALERFSKEKRPPIGYRPFVEACVDADEKGEALKYIPKLVDPRERAEAYARIGMAKEAADAASQAKDG 585 (618)
Q Consensus 506 lkl~aLa~~~~wdeLe~f~~sKKspIgyepfv~~~~~~~~~~eA~kyI~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd~ 585 (618)
+.|.-.-+.++|-...++.+..-|--.=+---++ ...-+..|-.++ +-++-.++|.+||+...-++..++..+.
T Consensus 765 LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A-----~r~ig~~fa~~~-~We~A~~yY~~~~~~e~~~ecly~le~f 838 (1189)
T KOG2041|consen 765 LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDA-----FRNIGETFAEMM-EWEEAAKYYSYCGDTENQIECLYRLELF 838 (1189)
T ss_pred hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHH-----HHHHHHHHHHHH-HHHHHHHHHHhccchHhHHHHHHHHHhh
Confidence 3444455677887777777543322211110011 011122333333 2555555566666666566666666666
Q ss_pred HHHHHHHHHccCChHHHHHHHHHH
Q 007100 586 ELLGRLKLTFAQNAAASSIFDTLR 609 (618)
Q Consensus 586 ~~L~~i~~~~~~~~~~~~~i~~~~ 609 (618)
+.|+.+-.+.|.++.+...+.++.
T Consensus 839 ~~LE~la~~Lpe~s~llp~~a~mf 862 (1189)
T KOG2041|consen 839 GELEVLARTLPEDSELLPVMADMF 862 (1189)
T ss_pred hhHHHHHHhcCcccchHHHHHHHH
Confidence 666666666676665555554443
No 112
>TIGR02959 SigZ RNA polymerase sigma factor, SigZ family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937). One of these is designated as SigZ in B. subtilis (Swiss_Prot: SIGZ_BACSU). Interestingly, this group has a very sporatic distribution, B. subtilis, for instance, being the only sequenced strain of Bacilli with a member. Dechloromonas aromatica RCB appears to have two of these sigma factors. A member appears on a plasmid found in Photobacterium profundum SS9 and Vibrio fischeri ES114 (where a second one is chromosomally encoded).
Probab=23.32 E-value=1.6e+02 Score=27.68 Aligned_cols=50 Identities=10% Similarity=0.049 Sum_probs=35.4
Q ss_pred cchHHhHHhHcCcChHHHHHHHHHHHHhcCCh-hHHHHhh-ccCCCCCCchH
Q 007100 486 HRAAMKVKTEFKVSEKRWYWLKVFALATKRDW-DALERFS-KEKRPPIGYRP 535 (618)
Q Consensus 486 ~k~a~kl~k~fKVsdkr~~~lkl~aLa~~~~w-deLe~f~-~sKKspIgyep 535 (618)
....+.++..+++|+.......-+++.+.+.+ .....+. ..++.||||+|
T Consensus 116 g~s~~eIA~~lgis~~tV~~~l~Rar~~Lr~~l~~~~~~~~~~~~~~~~~~~ 167 (170)
T TIGR02959 116 GLSQQEIAEKLGLSLSGAKSRVQRGRKKLKELLETCCHFEFDRVGNLIDYEP 167 (170)
T ss_pred CCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHhCCeeecCCCCeecCCC
Confidence 45688999999999999888877777666653 1112222 23578999998
No 113
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=22.82 E-value=3.1e+02 Score=21.11 Aligned_cols=52 Identities=19% Similarity=0.210 Sum_probs=33.8
Q ss_pred HHHhcCCHHHHHHhhccCC--------CHHHHHHHHHHcCCHHHHHHHHHhcCCHHHHHHHHHHccCCh
Q 007100 539 ACVDADEKGEALKYIPKLV--------DPRERAEAYARIGMAKEAADAASQAKDGELLGRLKLTFAQNA 599 (618)
Q Consensus 539 ~~~~~~~~~eA~kyI~ki~--------d~e~r~~l~~k~~~~~eA~~~a~~~kd~~~L~~i~~~~~~~~ 599 (618)
+.+..+...+|.+++.++- -...+..+|.+.|+|.+|++. |..+.+..|++.
T Consensus 4 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~---------l~~~l~~~p~~~ 63 (73)
T PF13371_consen 4 IYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALED---------LERALELSPDDP 63 (73)
T ss_pred HHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHH---------HHHHHHHCCCcH
Confidence 4556666666666666542 234677888888888888865 444556667665
No 114
>KOG0273 consensus Beta-transducin family (WD-40 repeat) protein [Chromatin structure and dynamics]
Probab=22.72 E-value=1.2e+02 Score=33.59 Aligned_cols=61 Identities=20% Similarity=0.223 Sum_probs=0.0
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeee--CCCeEEEEECCeEEEE
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWC--GMDSVLLYWNDMLVMV 63 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WC--G~d~v~~~~~~~l~l~ 63 (618)
++.||||+++|-=.-+|.+.+.++-..+.+-++.-+. ....+.|- |+--.+++-...+.++
T Consensus 458 vafS~~g~ylAsGs~dg~V~iws~~~~~l~~s~~~~~--~Ifel~Wn~~G~kl~~~~sd~~vcvl 520 (524)
T KOG0273|consen 458 VAFSPNGRYLASGSLDGCVHIWSTKTGKLVKSYQGTG--GIFELCWNAAGDKLGACASDGSVCVL 520 (524)
T ss_pred EEecCCCcEEEecCCCCeeEeccccchheeEeecCCC--eEEEEEEcCCCCEEEEEecCCCceEE
No 115
>KOG1274 consensus WD40 repeat protein [General function prediction only]
Probab=22.31 E-value=1.6e+02 Score=35.17 Aligned_cols=24 Identities=29% Similarity=0.631 Sum_probs=20.8
Q ss_pred CcccCCCCeeEEEecCCcEEEEeC
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNT 24 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ss 24 (618)
+..+|+|+|+|.-+-+|.+.|++.
T Consensus 144 l~~~p~~~fLAvss~dG~v~iw~~ 167 (933)
T KOG1274|consen 144 LSYDPKGNFLAVSSCDGKVQIWDL 167 (933)
T ss_pred eeEcCCCCEEEEEecCceEEEEEc
Confidence 357899999999999999988764
No 116
>KOG0282 consensus mRNA splicing factor [Function unknown]
Probab=22.22 E-value=1.2e+02 Score=33.66 Aligned_cols=45 Identities=18% Similarity=0.262 Sum_probs=32.3
Q ss_pred cccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeee
Q 007100 2 AVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWC 47 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WC 47 (618)
..||+|++|+-=..+|.+++++..-.+.++.+-+. ..+...+.|-
T Consensus 439 ~fSpDG~~l~SGdsdG~v~~wdwkt~kl~~~lkah-~~~ci~v~wH 483 (503)
T KOG0282|consen 439 DFSPDGRTLCSGDSDGKVNFWDWKTTKLVSKLKAH-DQPCIGVDWH 483 (503)
T ss_pred EEcCCCCeEEeecCCccEEEeechhhhhhhccccC-CcceEEEEec
Confidence 57999999999888999999876555555555444 2345566664
No 117
>KOG1274 consensus WD40 repeat protein [General function prediction only]
Probab=22.20 E-value=66 Score=38.26 Aligned_cols=24 Identities=42% Similarity=0.699 Sum_probs=21.9
Q ss_pred cccCCCCeeEEEecCCcEEEEeCC
Q 007100 2 AVSPNGNFVACFTHDGRLVVNNTN 25 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~g~l~v~ssd 25 (618)
+.||||++||--+-+|.|.|...+
T Consensus 239 ~wsPnG~YiAAs~~~g~I~vWnv~ 262 (933)
T KOG1274|consen 239 QWSPNGKYIAASTLDGQILVWNVD 262 (933)
T ss_pred EEcCCCcEEeeeccCCcEEEEecc
Confidence 579999999999999999998887
No 118
>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].
Probab=22.19 E-value=2.1e+02 Score=31.79 Aligned_cols=49 Identities=20% Similarity=0.324 Sum_probs=41.5
Q ss_pred HHHHHHHhcCCHHHHHHhhcc-CC--------CHHHHHHHHHHcCCHHHHHHHHHhcC
Q 007100 535 PFVEACVDADEKGEALKYIPK-LV--------DPRERAEAYARIGMAKEAADAASQAK 583 (618)
Q Consensus 535 pfv~~~~~~~~~~eA~kyI~k-i~--------d~e~r~~l~~k~~~~~eA~~~a~~~k 583 (618)
.||..|+++|.+++|..-|.. +. +.--=+.++++.|+|+.|+++|....
T Consensus 108 a~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~ 165 (429)
T PF10037_consen 108 ALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMM 165 (429)
T ss_pred HHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHH
Confidence 799999999999999877764 32 56677899999999999999998763
No 119
>PLN00181 protein SPA1-RELATED; Provisional
Probab=22.14 E-value=2.5e+02 Score=33.60 Aligned_cols=33 Identities=18% Similarity=0.363 Sum_probs=24.4
Q ss_pred CcccCCCCeeEEEecCCcEEEEeCCCCCccccc
Q 007100 1 MAVSPNGNFVACFTHDGRLVVNNTNFSSPVIDE 33 (618)
Q Consensus 1 ~~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~ 33 (618)
+++||+|++||.-..+|.+.|+..........+
T Consensus 714 v~~s~~~~~lasgs~D~~v~iw~~~~~~~~~s~ 746 (793)
T PLN00181 714 VGLSVSDGYIATGSETNEVFVYHKAFPMPVLSY 746 (793)
T ss_pred EEEcCCCCEEEEEeCCCEEEEEECCCCCceEEE
Confidence 357899999999888999988876655444333
No 120
>KOG0553 consensus TPR repeat-containing protein [General function prediction only]
Probab=21.90 E-value=99 Score=32.38 Aligned_cols=34 Identities=26% Similarity=0.370 Sum_probs=24.9
Q ss_pred HHHHhhccCC-CHHHHHHHHHHcCCHHHHHHHHHh
Q 007100 548 EALKYIPKLV-DPRERAEAYARIGMAKEAADAASQ 581 (618)
Q Consensus 548 eA~kyI~ki~-d~e~r~~l~~k~~~~~eA~~~a~~ 581 (618)
+|..+-|+=+ =+..|...|+++|+|..|++.|..
T Consensus 106 ~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~ 140 (304)
T KOG0553|consen 106 EAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCES 140 (304)
T ss_pred HHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHH
Confidence 4555555422 377899999999999999988654
No 121
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=21.02 E-value=4.9e+02 Score=21.63 Aligned_cols=55 Identities=13% Similarity=0.030 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHhcCChhHHHHhhcc---CC--CC---CCchHHHHHHHhcCCHHHHHHhhccC
Q 007100 502 RWYWLKVFALATKRDWDALERFSKE---KR--PP---IGYRPFVEACVDADEKGEALKYIPKL 556 (618)
Q Consensus 502 r~~~lkl~aLa~~~~wdeLe~f~~s---KK--sp---Igyepfv~~~~~~~~~~eA~kyI~ki 556 (618)
+-++-....+.+.++|++-...... +. +| -.+--...+..+.|+.++|..+...+
T Consensus 3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~ 65 (119)
T TIGR02795 3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAV 65 (119)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHH
Confidence 3456666777788888766554421 11 11 12333677788888888888776654
No 122
>PF06977 SdiA-regulated: SdiA-regulated; InterPro: IPR009722 This entry represents a conserved region approximately 100 residues long within a number of hypothetical bacterial proteins that may be regulated by SdiA, a member of the LuxR family of transcriptional regulators []. Some proteins contain the IPR001258 from INTERPRO repeat.; PDB: 3QQZ_A.
Probab=20.88 E-value=2.4e+02 Score=28.80 Aligned_cols=63 Identities=11% Similarity=0.084 Sum_probs=39.1
Q ss_pred cccCCCCeeEEEec-CCcEEEEeCCCCCccccccCCCCCCCCceeeeCCCeEEEEEC--CeEEEEeC
Q 007100 2 AVSPNGNFVACFTH-DGRLVVNNTNFSSPVIDESCESALPPEQIAWCGMDSVLLYWN--DMLVMVAP 65 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~-~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WCG~d~v~~~~~--~~l~l~g~ 65 (618)
+..|+.+.++..++ .+.|+.++.+ .+++.++...-..-|..+++.|++..|+.=+ ..++.+-.
T Consensus 28 Ty~pd~~tLfaV~d~~~~i~els~~-G~vlr~i~l~g~~D~EgI~y~g~~~~vl~~Er~~~L~~~~~ 93 (248)
T PF06977_consen 28 TYNPDTGTLFAVQDEPGEIYELSLD-GKVLRRIPLDGFGDYEGITYLGNGRYVLSEERDQRLYIFTI 93 (248)
T ss_dssp EEETTTTEEEEEETTTTEEEEEETT---EEEEEE-SS-SSEEEEEE-STTEEEEEETTTTEEEEEEE
T ss_pred EEcCCCCeEEEEECCCCEEEEEcCC-CCEEEEEeCCCCCCceeEEEECCCEEEEEEcCCCcEEEEEE
Confidence 55676555555554 6777777765 4566666655556788999999999998763 44544443
No 123
>PF09142 TruB_C: tRNA Pseudouridine synthase II, C terminal; InterPro: IPR015225 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. The C-terminal domain adopts a secondary structure consisting of a four-stranded beta sheet and one alpha helix, similar to that found in PUA domains. It is predominantly involved in RNA-binding, being mostly found in tRNA pseudouridine synthase B (TruB) []. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1SGV_B.
Probab=20.60 E-value=74 Score=24.56 Aligned_cols=18 Identities=33% Similarity=0.593 Sum_probs=12.1
Q ss_pred cccCCCCeeEEEecCCcE
Q 007100 2 AVSPNGNFVACFTHDGRL 19 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~g~l 19 (618)
+++|+|++|||+.+.|.-
T Consensus 31 a~~pdG~lvAL~~~~g~~ 48 (56)
T PF09142_consen 31 AFAPDGRLVALLEERGGR 48 (56)
T ss_dssp EE-TTS-EEEEEEEETTE
T ss_pred EECCCCcEEEEEEccCCc
Confidence 468999999999776543
No 124
>PF02239 Cytochrom_D1: Cytochrome D1 heme domain; PDB: 1NNO_B 1HZU_A 1N15_B 1N50_A 1GJQ_A 1BL9_B 1NIR_B 1N90_B 1HZV_A 1AOQ_A ....
Probab=20.24 E-value=1.3e+02 Score=32.53 Aligned_cols=44 Identities=23% Similarity=0.314 Sum_probs=21.9
Q ss_pred cccCCCCeeEEEecCCcEEEEeCCCCCccccccCCCCCCCCceeee
Q 007100 2 AVSPNGNFVACFTHDGRLVVNNTNFSSPVIDESCESALPPEQIAWC 47 (618)
Q Consensus 2 ~~Sp~g~~iAl~~~~g~l~v~ssd~~~~~~e~~~~~~~~p~~~~WC 47 (618)
+.||+|+++-.-+.+|.+.++...-.+.+.++..+. .|..+...
T Consensus 43 ~~s~Dgr~~yv~~rdg~vsviD~~~~~~v~~i~~G~--~~~~i~~s 86 (369)
T PF02239_consen 43 KFSPDGRYLYVANRDGTVSVIDLATGKVVATIKVGG--NPRGIAVS 86 (369)
T ss_dssp E-TT-SSEEEEEETTSEEEEEETTSSSEEEEEE-SS--EEEEEEE-
T ss_pred EecCCCCEEEEEcCCCeEEEEECCcccEEEEEecCC--CcceEEEc
Confidence 356777766665556766666554444555554443 34444443
No 125
>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]
Probab=20.22 E-value=9.2e+02 Score=27.09 Aligned_cols=95 Identities=19% Similarity=0.185 Sum_probs=56.3
Q ss_pred HHcCCcchHH-hHHhHcC-cChHHH-HHHHHHHHHhcCChhHHHHhhcc-----CCCCCCchHHHHHHHhcCCHHHHHHh
Q 007100 481 IVLGNHRAAM-KVKTEFK-VSEKRW-YWLKVFALATKRDWDALERFSKE-----KRPPIGYRPFVEACVDADEKGEALKY 552 (618)
Q Consensus 481 i~~~~~k~a~-kl~k~fK-Vsdkr~-~~lkl~aLa~~~~wdeLe~f~~s-----KKspIgyepfv~~~~~~~~~~eA~ky 552 (618)
++.|+.+.|. .+++-.. -|.... |..--.+|.+.|+..+=.+..+. +--|.||.-+..++-+.|+..+|
T Consensus 351 ~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a--- 427 (484)
T COG4783 351 LEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEA--- 427 (484)
T ss_pred HHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHH---
Confidence 3444444443 3333332 233332 33444677777776654444421 23577777777777777776655
Q ss_pred hccCCCHHHHHHHHHHcCCHHHHHHHHHhcCC
Q 007100 553 IPKLVDPRERAEAYARIGMAKEAADAASQAKD 584 (618)
Q Consensus 553 I~ki~d~e~r~~l~~k~~~~~eA~~~a~~~kd 584 (618)
.+-+.|.|-..|.|+.|++.+...++
T Consensus 428 ------~~A~AE~~~~~G~~~~A~~~l~~A~~ 453 (484)
T COG4783 428 ------LLARAEGYALAGRLEQAIIFLMRASQ 453 (484)
T ss_pred ------HHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 35677888888999999877665543
Done!