Query 002272
Match_columns 944
No_of_seqs 168 out of 296
Neff 5.7
Searched_HMMs 46136
Date Thu Mar 28 20:22:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002272.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002272hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4572 Predicted DNA-binding 100.0 2.5E-36 5.5E-41 344.9 39.9 472 21-525 2-587 (1424)
2 PF04108 APG17: Autophagy prot 100.0 2.4E-29 5.3E-34 287.9 43.0 343 140-500 14-412 (412)
3 cd01807 GDX_N ubiquitin-like d 98.6 7.9E-08 1.7E-12 85.0 7.0 71 15-86 1-72 (74)
4 cd01793 Fubi Fubi ubiquitin-li 98.6 1.5E-07 3.3E-12 83.2 6.9 70 15-86 1-70 (74)
5 cd01791 Ubl5 UBL5 ubiquitin-li 98.5 4.9E-07 1.1E-11 80.2 7.9 70 15-85 2-72 (73)
6 PTZ00044 ubiquitin; Provisiona 98.5 4.1E-07 8.8E-12 80.5 6.9 71 15-86 1-72 (76)
7 cd01802 AN1_N ubiquitin-like d 98.4 4.8E-07 1E-11 85.6 7.5 74 12-86 25-99 (103)
8 cd01805 RAD23_N Ubiquitin-like 98.4 5.9E-07 1.3E-11 79.6 7.2 70 15-85 1-73 (77)
9 cd01797 NIRF_N amino-terminal 98.4 5.7E-07 1.2E-11 80.8 7.1 71 15-86 1-74 (78)
10 cd01806 Nedd8 Nebb8-like ubiq 98.4 7.4E-07 1.6E-11 78.4 7.5 71 15-86 1-72 (76)
11 cd01798 parkin_N amino-termina 98.4 6.9E-07 1.5E-11 78.1 6.4 68 18-86 2-70 (70)
12 cd01803 Ubiquitin Ubiquitin. U 98.4 8.6E-07 1.9E-11 78.0 6.9 71 15-86 1-72 (76)
13 cd01810 ISG15_repeat2 ISG15 ub 98.4 7.7E-07 1.7E-11 78.8 6.4 69 17-86 1-70 (74)
14 cd01794 DC_UbP_C dendritic cel 98.3 1.1E-06 2.3E-11 77.4 6.0 64 20-84 5-68 (70)
15 cd01809 Scythe_N Ubiquitin-lik 98.3 1.9E-06 4.1E-11 75.0 7.1 70 15-85 1-71 (72)
16 cd01812 BAG1_N Ubiquitin-like 98.3 1.8E-06 3.9E-11 75.1 6.8 69 15-84 1-69 (71)
17 cd01804 midnolin_N Ubiquitin-l 98.2 3E-06 6.6E-11 76.0 7.5 69 15-85 2-71 (78)
18 PF00240 ubiquitin: Ubiquitin 98.2 2.2E-06 4.8E-11 74.2 6.1 66 21-87 3-68 (69)
19 cd01792 ISG15_repeat1 ISG15 ub 98.2 3.6E-06 7.9E-11 75.7 7.6 72 15-87 3-77 (80)
20 cd01796 DDI1_N DNA damage indu 98.2 4.1E-06 9E-11 73.7 6.4 62 21-83 7-69 (71)
21 KOG0003 Ubiquitin/60s ribosoma 98.1 3.9E-07 8.3E-12 84.7 -0.3 73 15-88 1-74 (128)
22 cd01800 SF3a120_C Ubiquitin-li 98.1 4.2E-06 9E-11 74.6 5.9 66 21-87 5-70 (76)
23 KOG0004 Ubiquitin/40S ribosoma 98.1 1.4E-06 3.1E-11 86.5 3.1 75 15-90 1-76 (156)
24 cd01799 Hoil1_N Ubiquitin-like 98.1 9.7E-06 2.1E-10 72.4 6.8 63 21-84 10-73 (75)
25 cd01813 UBP_N UBP ubiquitin pr 98.0 1.7E-05 3.6E-10 70.6 6.9 68 15-83 1-71 (74)
26 cd01808 hPLIC_N Ubiquitin-like 98.0 1.7E-05 3.6E-10 69.6 6.8 68 16-85 2-70 (71)
27 KOG4250 TANK binding protein k 97.9 0.05 1.1E-06 66.1 36.3 161 13-204 314-476 (732)
28 smart00213 UBQ Ubiquitin homol 97.9 1.9E-05 4.1E-10 66.6 5.7 61 15-75 1-61 (64)
29 cd01763 Sumo Small ubiquitin-r 97.9 5.7E-05 1.2E-09 69.2 8.4 76 11-87 8-84 (87)
30 cd01769 UBL Ubiquitin-like dom 97.7 0.0001 2.3E-09 62.9 6.8 64 21-85 5-68 (69)
31 TIGR00601 rad23 UV excision re 97.4 0.00039 8.4E-09 79.9 8.5 73 15-88 1-77 (378)
32 KOG0005 Ubiquitin-like protein 97.4 0.00017 3.7E-09 60.9 3.8 61 15-75 1-62 (70)
33 cd01790 Herp_N Homocysteine-re 97.2 0.00099 2.1E-08 60.3 6.8 69 15-84 2-77 (79)
34 cd01815 BMSC_UbP_N Ubiquitin-l 97.1 0.00092 2E-08 59.8 5.2 53 32-85 19-74 (75)
35 KOG0010 Ubiquitin-like protein 96.6 0.0045 9.7E-08 72.0 7.6 79 14-93 15-93 (493)
36 cd01789 Alp11_N Ubiquitin-like 96.6 0.0098 2.1E-07 54.3 8.4 70 16-86 3-81 (84)
37 PF06160 EzrA: Septation ring 96.6 2.9 6.2E-05 51.1 32.2 121 358-478 280-418 (560)
38 cd01795 USP48_C USP ubiquitin- 96.6 0.0038 8.2E-08 58.4 5.5 59 26-85 17-76 (107)
39 PF11976 Rad60-SLD: Ubiquitin- 96.4 0.0087 1.9E-07 52.3 6.6 68 15-83 1-70 (72)
40 KOG0001 Ubiquitin and ubiquiti 96.3 0.014 3.1E-07 49.3 6.9 66 20-86 6-71 (75)
41 PF14560 Ubiquitin_2: Ubiquiti 96.3 0.015 3.2E-07 53.2 7.3 72 15-87 2-84 (87)
42 KOG0011 Nucleotide excision re 95.9 0.11 2.3E-06 58.2 13.3 73 15-87 1-76 (340)
43 PRK04778 septation ring format 95.8 7.1 0.00015 47.8 29.5 119 358-476 284-420 (569)
44 cd01814 NTGP5 Ubiquitin-like N 95.1 0.029 6.3E-07 53.9 4.8 68 20-87 11-91 (113)
45 cd01801 Tsc13_N Ubiquitin-like 95.1 0.07 1.5E-06 47.7 6.9 69 16-85 2-76 (77)
46 PLN02560 enoyl-CoA reductase 94.9 0.075 1.6E-06 59.8 7.9 70 15-85 1-82 (308)
47 cd00196 UBQ Ubiquitin-like pro 94.8 0.093 2E-06 41.6 6.4 62 22-84 6-67 (69)
48 PF04108 APG17: Autophagy prot 94.2 15 0.00033 43.2 32.5 20 432-451 375-394 (412)
49 cd01788 ElonginB Ubiquitin-lik 94.1 0.1 2.2E-06 50.2 5.8 61 15-75 3-63 (119)
50 KOG0250 DNA repair protein RAD 93.1 37 0.0008 44.1 40.8 44 158-201 210-253 (1074)
51 PF06160 EzrA: Septation ring 91.3 44 0.00095 41.0 32.5 153 170-322 155-333 (560)
52 KOG4248 Ubiquitin-like protein 87.9 0.77 1.7E-05 58.1 5.9 64 21-86 10-73 (1143)
53 PF11543 UN_NPL4: Nuclear pore 87.9 1.1 2.4E-05 40.8 5.4 70 14-84 4-78 (80)
54 PF13881 Rad60-SLD_2: Ubiquiti 86.8 1.7 3.7E-05 42.0 6.4 66 21-86 10-88 (111)
55 KOG0006 E3 ubiquitin-protein l 78.0 3.5 7.7E-05 46.1 5.3 61 15-75 1-65 (446)
56 PF13949 ALIX_LYPXL_bnd: ALIX 76.8 1.3E+02 0.0027 33.4 32.1 74 243-316 86-162 (296)
57 TIGR00606 rad50 rad50. This fa 76.0 3.1E+02 0.0066 37.4 36.8 98 371-484 1055-1158(1311)
58 KOG0995 Centromere-associated 75.7 2E+02 0.0044 35.2 30.7 186 193-408 370-570 (581)
59 PF13019 Telomere_Sde2: Telome 73.2 13 0.00029 38.3 7.7 50 15-64 1-57 (162)
60 PF10267 Tmemb_cc2: Predicted 67.6 1.3E+02 0.0027 35.7 14.9 36 629-664 46-84 (395)
61 cd01811 OASL_repeat1 2'-5' oli 67.5 21 0.00045 32.4 6.6 67 16-84 2-74 (80)
62 cd09234 V_HD-PTP_like Protein- 65.7 2.5E+02 0.0054 32.2 30.8 70 243-312 133-205 (337)
63 PF10168 Nup88: Nuclear pore c 63.9 4.1E+02 0.0088 34.0 25.3 85 177-280 580-664 (717)
64 cd08915 V_Alix_like Protein-in 63.7 2.7E+02 0.0058 31.8 28.0 70 243-312 135-207 (342)
65 PF12179 IKKbetaNEMObind: I-ka 63.6 7.8 0.00017 30.6 2.9 25 862-886 1-25 (38)
66 cd07664 BAR_SNX2 The Bin/Amphi 62.9 2.4E+02 0.0052 30.9 22.4 26 360-385 103-128 (234)
67 KOG1769 Ubiquitin-like protein 62.0 56 0.0012 31.2 8.7 73 12-85 18-91 (99)
68 PF09177 Syntaxin-6_N: Syntaxi 61.0 1.4E+02 0.003 27.9 11.4 36 423-458 61-96 (97)
69 PF04100 Vps53_N: Vps53-like, 58.1 3.7E+02 0.008 31.6 23.0 239 175-487 17-271 (383)
70 KOG4495 RNA polymerase II tran 58.0 16 0.00035 34.5 4.3 61 15-75 3-65 (110)
71 PF06005 DUF904: Protein of un 57.4 90 0.002 28.1 8.9 30 836-865 4-33 (72)
72 PF04156 IncA: IncA protein; 57.2 1.3E+02 0.0028 31.3 11.6 84 822-905 81-171 (191)
73 KOG1872 Ubiquitin-specific pro 56.9 1.4E+02 0.0029 35.9 12.6 59 16-74 5-64 (473)
74 KOG1029 Endocytic adaptor prot 54.9 5.7E+02 0.012 32.8 18.0 26 256-281 452-477 (1118)
75 KOG0963 Transcription factor/C 53.3 76 0.0017 39.0 10.1 92 821-912 202-312 (629)
76 cd01773 Faf1_like1_UBX Faf1 ik 53.1 97 0.0021 28.6 8.6 74 11-86 2-81 (82)
77 PF07106 TBPIP: Tat binding pr 52.5 78 0.0017 32.5 9.0 75 821-896 71-147 (169)
78 KOG0971 Microtubule-associated 52.4 6.6E+02 0.014 32.8 35.7 123 357-493 484-613 (1243)
79 PF15546 DUF4653: Domain of un 51.2 1.3E+02 0.0027 32.2 10.0 63 356-418 153-221 (239)
80 PF03915 AIP3: Actin interacti 51.0 4.4E+02 0.0096 31.5 15.8 72 357-428 251-322 (424)
81 PF15272 BBP1_C: Spindle pole 49.9 16 0.00035 38.8 3.5 20 647-666 130-149 (196)
82 PF06008 Laminin_I: Laminin Do 49.7 3.9E+02 0.0085 29.4 29.6 13 210-222 54-66 (264)
83 PF04880 NUDE_C: NUDE protein, 47.8 27 0.00057 36.3 4.6 46 838-887 2-47 (166)
84 cd09237 V_ScBro1_like Protein- 47.6 5E+02 0.011 30.0 26.2 38 243-280 130-167 (356)
85 KOG0977 Nuclear envelope prote 46.4 6.6E+02 0.014 31.1 31.5 122 148-279 53-193 (546)
86 PF08826 DMPK_coil: DMPK coile 46.4 72 0.0016 27.9 6.3 38 826-863 22-59 (61)
87 PF04912 Dynamitin: Dynamitin 46.2 5.5E+02 0.012 30.1 16.0 133 259-423 213-368 (388)
88 PHA02047 phage lambda Rz1-like 46.1 35 0.00076 32.3 4.6 61 628-689 27-89 (101)
89 cd07665 BAR_SNX1 The Bin/Amphi 43.0 4.9E+02 0.011 28.6 20.7 40 446-485 192-231 (234)
90 KOG0994 Extracellular matrix g 42.6 1E+03 0.022 32.2 29.7 11 243-253 1491-1501(1758)
91 smart00166 UBX Domain present 42.5 1.6E+02 0.0035 26.3 8.3 62 13-74 3-70 (80)
92 KOG3493 Ubiquitin-like protein 42.3 15 0.00033 32.3 1.5 55 21-75 9-63 (73)
93 PF11594 Med28: Mediator compl 41.6 1E+02 0.0022 29.9 7.0 63 822-885 15-77 (106)
94 PF15450 DUF4631: Domain of un 40.9 7.7E+02 0.017 30.2 27.9 56 167-222 263-326 (531)
95 PF08580 KAR9: Yeast cortical 40.5 8.9E+02 0.019 30.9 22.2 221 212-468 1-264 (683)
96 cd07623 BAR_SNX1_2 The Bin/Amp 40.3 5E+02 0.011 28.0 20.2 40 446-485 182-221 (224)
97 KOG2196 Nuclear porin [Nuclear 40.0 5.6E+02 0.012 28.4 16.2 74 300-379 176-249 (254)
98 PRK08032 fliD flagellar cappin 39.8 73 0.0016 38.2 7.3 93 578-674 353-445 (462)
99 KOG3691 Exocyst complex subuni 39.7 7.2E+02 0.016 32.4 15.6 123 138-280 69-191 (982)
100 PF11559 ADIP: Afadin- and alp 39.6 3.5E+02 0.0077 27.1 11.2 77 842-918 72-149 (151)
101 PF01763 Herpes_UL6: Herpesvir 39.0 87 0.0019 38.5 7.7 81 634-725 369-454 (557)
102 PF10168 Nup88: Nuclear pore c 38.6 9.6E+02 0.021 30.7 22.9 28 15-45 379-406 (717)
103 KOG1924 RhoA GTPase effector D 37.3 1E+03 0.022 30.8 16.0 38 424-462 979-1016(1102)
104 PF00789 UBX: UBX domain; Int 36.5 1.7E+02 0.0036 26.1 7.5 71 12-83 4-80 (82)
105 KOG2196 Nuclear porin [Nuclear 36.5 6.4E+02 0.014 28.0 20.3 113 144-281 82-204 (254)
106 PF09763 Sec3_C: Exocyst compl 36.4 9.9E+02 0.021 30.2 22.1 20 586-605 397-416 (701)
107 PHA02562 46 endonuclease subun 36.1 8.6E+02 0.019 29.4 34.8 65 156-220 175-239 (562)
108 PRK09039 hypothetical protein; 35.3 2.8E+02 0.0061 32.0 10.9 39 826-864 113-151 (343)
109 KOG1639 Steroid reductase requ 35.2 89 0.0019 34.5 6.3 70 15-85 1-78 (297)
110 cd00176 SPEC Spectrin repeats, 35.1 4.7E+02 0.01 26.2 18.3 41 242-286 137-177 (213)
111 PF12128 DUF3584: Protein of u 35.0 1.3E+03 0.029 31.3 38.1 318 137-483 479-853 (1201)
112 KOG0996 Structural maintenance 35.0 1.3E+03 0.028 31.2 45.2 51 620-670 777-827 (1293)
113 KOG2378 cAMP-regulated guanine 35.0 9E+02 0.019 29.3 15.3 74 15-94 238-319 (573)
114 PF06248 Zw10: Centromere/kine 34.9 9.6E+02 0.021 29.6 19.9 65 821-885 457-524 (593)
115 PF07195 FliD_C: Flagellar hoo 34.8 1.8E+02 0.0039 31.6 8.8 96 578-674 132-232 (239)
116 PF08614 ATG16: Autophagy prot 34.4 95 0.0021 32.7 6.4 62 822-883 74-135 (194)
117 PRK13169 DNA replication intia 34.1 1.3E+02 0.0029 29.3 6.7 48 822-869 8-55 (110)
118 cd09236 V_AnPalA_UmRIM20_like 34.0 7.9E+02 0.017 28.4 31.8 80 242-321 135-218 (353)
119 TIGR00606 rad50 rad50. This fa 33.8 1.4E+03 0.031 31.3 37.4 30 449-478 1078-1109(1311)
120 PF06156 DUF972: Protein of un 33.6 1.3E+02 0.0029 29.0 6.7 49 822-870 8-56 (107)
121 PF05335 DUF745: Protein of un 32.9 3.1E+02 0.0068 29.1 9.8 77 822-898 74-153 (188)
122 PF09748 Med10: Transcription 31.9 3E+02 0.0065 27.3 9.0 44 236-279 67-115 (128)
123 PF10146 zf-C4H2: Zinc finger- 31.6 5.9E+02 0.013 28.0 11.9 64 205-284 40-103 (230)
124 PF04740 LXG: LXG domain of WX 31.5 6.2E+02 0.013 26.4 19.3 39 239-281 93-132 (204)
125 PF04048 Sec8_exocyst: Sec8 ex 31.4 3.6E+02 0.0077 27.1 9.6 61 359-419 43-107 (142)
126 PRK06664 fliD flagellar hook-a 31.4 1.4E+02 0.003 37.6 8.1 38 636-673 601-638 (661)
127 cd01770 p47_UBX p47-like ubiqu 31.2 1.7E+02 0.0037 26.5 6.6 63 13-75 3-70 (79)
128 PF11470 TUG-UBL1: GLUT4 regul 31.1 88 0.0019 27.6 4.5 57 19-75 2-58 (65)
129 PF10146 zf-C4H2: Zinc finger- 31.0 3.8E+02 0.0081 29.4 10.3 97 818-914 7-103 (230)
130 cd01774 Faf1_like2_UBX Faf1 ik 30.4 3.3E+02 0.0072 25.1 8.4 70 13-84 3-83 (85)
131 KOG4302 Microtubule-associated 30.3 1.2E+03 0.027 29.5 31.7 55 429-483 320-383 (660)
132 PF04508 Pox_A_type_inc: Viral 29.8 61 0.0013 23.1 2.6 16 652-667 4-19 (23)
133 KOG1853 LIS1-interacting prote 29.7 8.3E+02 0.018 27.3 19.3 69 149-224 39-107 (333)
134 PF11834 DUF3354: Domain of un 29.3 1.5E+02 0.0032 26.5 5.7 51 23-84 19-69 (69)
135 cd01772 SAKS1_UBX SAKS1-like U 29.0 2.4E+02 0.0052 25.4 7.2 60 15-75 5-70 (79)
136 PF12896 Apc4: Anaphase-promot 28.7 7E+02 0.015 26.1 20.8 82 236-317 94-185 (210)
137 PF07889 DUF1664: Protein of u 28.4 3.5E+02 0.0077 27.0 8.7 92 227-323 31-124 (126)
138 PF12808 Mto2_bdg: Micro-tubul 28.2 23 0.00049 30.0 0.4 19 576-594 30-48 (52)
139 KOG0980 Actin-binding protein 27.1 1.5E+03 0.033 29.6 23.4 45 178-222 412-456 (980)
140 cd06409 PB1_MUG70 The MUG70 pr 26.8 1E+02 0.0022 28.8 4.3 34 18-51 5-38 (86)
141 PF05266 DUF724: Protein of un 26.2 1E+02 0.0022 32.7 5.0 76 620-695 89-170 (190)
142 PHA02562 46 endonuclease subun 26.2 1.2E+03 0.026 28.1 33.3 8 588-595 476-483 (562)
143 KOG0810 SNARE protein Syntaxin 25.7 1E+03 0.022 27.1 20.3 59 266-326 193-251 (297)
144 PF10498 IFT57: Intra-flagella 24.8 1.2E+03 0.025 27.4 14.6 131 244-414 223-358 (359)
145 PRK11677 hypothetical protein; 24.4 5.7E+02 0.012 25.9 9.4 61 165-225 29-90 (134)
146 cd01767 UBX UBX (ubiquitin reg 24.4 4E+02 0.0087 23.5 7.7 59 16-75 4-68 (77)
147 PF00210 Ferritin: Ferritin-li 24.4 6.1E+02 0.013 24.0 14.4 51 176-226 14-64 (142)
148 PF14816 FAM178: Family of unk 24.2 85 0.0018 36.7 4.2 39 635-678 13-51 (377)
149 cd01771 Faf1_UBX Faf1 UBX doma 24.2 5E+02 0.011 23.6 8.4 69 13-83 3-77 (80)
150 PF12126 DUF3583: Protein of u 23.5 1.1E+03 0.025 26.8 14.5 102 363-469 17-124 (324)
151 PF06409 NPIP: Nuclear pore co 23.4 85 0.0018 34.3 3.6 39 829-867 134-172 (265)
152 PF04380 BMFP: Membrane fusoge 22.9 83 0.0018 28.6 3.0 41 623-664 37-79 (79)
153 PF04394 DUF536: Protein of un 22.8 2.4E+02 0.0052 23.3 5.3 38 630-667 5-42 (45)
154 PF08317 Spc7: Spc7 kinetochor 22.4 1.2E+03 0.026 26.6 23.6 21 170-190 116-136 (325)
155 PF12999 PRKCSH-like: Glucosid 22.3 1.7E+02 0.0038 30.8 5.6 42 622-663 133-174 (176)
156 PF03449 GreA_GreB_N: Transcri 22.2 1.4E+02 0.003 27.0 4.3 21 647-667 51-71 (74)
157 KOG0796 Spliceosome subunit [R 21.8 1.6E+02 0.0034 33.8 5.5 46 829-874 115-162 (319)
158 cd07669 BAR_SNX33 The Bin/Amph 21.2 1.1E+03 0.023 25.7 12.4 19 299-317 49-67 (207)
159 PRK08724 fliD flagellar cappin 20.6 2.4E+02 0.0051 35.6 7.2 35 638-672 620-654 (673)
160 COG0497 RecN ATPase involved i 20.5 1.7E+03 0.037 27.7 22.5 52 457-511 353-404 (557)
161 PF06600 DUF1140: Protein of u 20.2 3.7E+02 0.0081 25.8 6.7 46 177-222 54-105 (107)
162 PF04156 IncA: IncA protein; 20.2 9.6E+02 0.021 24.7 11.3 45 825-869 77-121 (191)
163 PRK07737 fliD flagellar cappin 20.1 3.7E+02 0.008 32.7 8.6 35 638-672 444-478 (501)
No 1
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=100.00 E-value=2.5e-36 Score=344.88 Aligned_cols=472 Identities=18% Similarity=0.239 Sum_probs=366.4
Q ss_pred cCCceEEecCC-CCCCHHHHHHHHHHHhCCCCCCeEEeec-Cccccccchhcccc-CCCCCceEEEEeccccCCCCCCCC
Q 002272 21 ENGHSFELDCN-ENSPVEAVMRFIESAAGINFNDQLVLCL-DMKLEPQKLLSAYR-LPSDDKEVFIFNKLRLQSNSPPPS 97 (944)
Q Consensus 21 ~tG~sl~ld~~-~f~sVe~LK~~Ia~~~gIp~~~QILL~~-G~kL~~~~~L~~y~-l~td~~eIyVfdRrll~~~~~~p~ 97 (944)
.+|++++||.. ...|+.+||..|+..+|+...+|.|+.. |.+....+.++.|+ ++++++|||+||+...-.+.++..
T Consensus 2 drGqaltFDleaetqT~adLk~aiqke~~~aIq~~tfl~egGecmaadkrl~e~StaGTdTnPiffFnkem~lcde~~a~ 81 (1424)
T KOG4572|consen 2 DRGQALTFDLEAETQTFADLKDAIQKEVGHAIQDLTFLDEGGECMAADKRLAEISTAGTDTNPIFFFNKEMGLCDENHAG 81 (1424)
T ss_pred CCCceeEEeecceeehHHHHHHHHHHHhchhhceeeeeecCCcCcccccchhhhccccCCCCceEEeehhhccccCCCCC
Confidence 58999999986 5789999999999999999999999766 67889999999998 889999999999988766555433
Q ss_pred CCcccccccCCCCCCCCCCCCCCCCCCCChh--hhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 98 PEQVDVLEVADPPPPALSQDPHPLDDAPDPA--LKALPSYERQFRYHYHRGHAIYIRTQAKIEMCERLLREQKVQERAVE 175 (944)
Q Consensus 98 ~e~~~i~e~~ipp~p~~~~~pspL~da~~p~--lraL~sye~lf~~~l~wA~al~~da~~~~e~ce~Lv~Ei~vq~raL~ 175 (944)
|.. .. .+ +..+|+.+.. .-++|+-...++.+..+|..++..|......|.+|+++-+++++||.
T Consensus 82 pdt-Ty--iF-----------qmedDae~kaeesL~mpa~fhivae~~elA~e~~eVaaelcqfCagLVhdehf~HkGWa 147 (1424)
T KOG4572|consen 82 PDT-TY--IF-----------QMEDDAEDKAEESLKMPAPFHIVAELPELAKECREVAAELCQFCAGLVHDEHFLHKGWA 147 (1424)
T ss_pred CCc-ee--ee-----------ecccHHHHHHHHHHcCCchHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence 331 11 00 1223333311 11245545677888999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHhhHHHHHHHhhCCCCCccccc---------------------
Q 002272 176 VGRGNLEQYYRVINQNYNDFMK---RYSQQQRVHSDLLANFGRDIEKLRSVKLHPSLQT--------------------- 231 (944)
Q Consensus 176 aAvaNLe~~~~~lek~f~~f~~---~f~~ll~~~~~LL~~we~dLe~Lr~IpVhpaL~~--------------------- 231 (944)
+.++||++....+.+....|.. .+.+++++.+..|-+|...++.|++||+..+|..
T Consensus 148 AiiaNLddcsnk~dKl~fKFe~i~Sk~~e~IEdidlkLlhlgdaVeqlakIpllecltrhsyreclgrldelPeeedsek 227 (1424)
T KOG4572|consen 148 AIIANLDDCSNKMDKLGFKFELIHSKSEELIEDIDLKLLHLGDAVEQLAKIPLLECLTRHSYRECLGRLDELPEEEDSEK 227 (1424)
T ss_pred HHHHhHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHHHhhhHHHHHHHHhcchHhhhhhhhHHHhhcccccCchhhhcch
Confidence 9999999999998887666655 5567788889999999999999999988776643
Q ss_pred -------------cc----------------------------------------------------------ccccccc
Q 002272 232 -------------AT----------------------------------------------------------CKCLLDF 240 (944)
Q Consensus 232 -------------ee----------------------------------------------------------~kTL~Df 240 (944)
.. ..+|.||
T Consensus 228 AelkrSTel~inPD~~rttneslltsfpksvehvspdtadaesgkeirescqstvhqqdettidtkdgdlpffn~sLfD~ 307 (1424)
T KOG4572|consen 228 AELKRSTELPINPDEKRTTNESLLTSFPKSVEHVSPDTADAESGKEIRESCQSTVHQQDETTIDTKDGDLPFFNCSLFDF 307 (1424)
T ss_pred HhhccccccCCCCCCccccchhhhhcCcccccccCCccccchhhhHHHHHhhhhhhhcccccccccCCCcccccchHHHH
Confidence 00 2678999
Q ss_pred cCh----hHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH--HHHhh-ccCCchhhhHHHHHHHHHHHHHHHHHHH
Q 002272 241 VKE----EHLRKSAETCSSSHRQFENKVSQ-FKQIFDDVKRRVE--ELLNT-RASLPIKNLEMMIKEHQRFINEQKSIMQ 312 (944)
Q Consensus 241 Vd~----e~Lrk~ae~C~~s~~~f~~Kl~~-Lk~~i~~Ik~~vd--~L~~~-~~~~s~~~Le~~i~e~~~Ll~eq~siaQ 312 (944)
|.. ..|....+.|.....+++.++.. |-..........+ .+... .-..-.+.|+.++....+++++++.+++
T Consensus 308 IamaD~~adldgL~~kcfdkirqLd~qia~pfiaecqqt~akldNQemkafKGiedRf~aLd~miaSC~rlvnEqKeLah 387 (1424)
T KOG4572|consen 308 IAMADPEADLDGLPDKCFDKIRQLDEQIAIPFIAECQQTHAKLDNQEMKAFKGIEDRFSALDFMIASCERLVNEQKELAH 387 (1424)
T ss_pred HHhcCCccchhhhhHHHHHHHHhhchhhhhHHHHHHHHHHHhhcchhhHhhhcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 873 35555666665555554444322 1111111110000 00000 0001134688899999999999999999
Q ss_pred HHHHhHHHHHhhhhhhccccccCCCCCCccccccCcchhhhhccchHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 313 SLSKDVSTVKKLVDDCLSCQLSSSLRPHDAVSALGPMYDVHDKSHLPRMQACDRSISKLLDFCQDKKNEMNVFVHNYMQK 392 (944)
Q Consensus 313 ~LssD~e~v~~l~D~~v~~~lsss~~~~d~vS~Ls~m~e~H~kelLP~L~~~~~eL~d~l~~~~~~KneL~~~~~~~Lr~ 392 (944)
++-.++-..-++.| .+.++++++.|.+.++ .|+++..++.++.+.|.++|.++.++++.+|.|
T Consensus 388 gflAn~keaekikD----------------an~LPdic~eHan~ll-iifeN~refldikqkcdqaKQEiakNLhtRlk~ 450 (1424)
T KOG4572|consen 388 GFLANIKEAEKIKD----------------ANKLPDICEEHANCLL-IIFENFREFLDIKQKCDQAKQEIAKNLHTRLKG 450 (1424)
T ss_pred HHHHhhhhcccccc----------------cccCChHHHHHHHHHH-HHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhh
Confidence 99877666544443 4789999999988765 799999999999999999999999999999999
Q ss_pred HHHHHH-HHHHHhhhHHHHHHHHHhhhhHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 393 ITYVSY-VIKDAKLQFPVFREAMVRQDDIFADLKLVRGIGPAYRACLAEVVRRKASMKLYMGMAGQLAERLATKREVEVR 471 (944)
Q Consensus 393 Is~IQs-~I~evk~~L~~l~e~L~~~~~~F~~L~~v~~lP~aYga~LiEVvRRRew~~k~~~~a~~lAEeLa~lrEeE~k 471 (944)
..++.. +.....+.+..+.-.+...+.+++.+..+++.|.+|...|+||||||-|...|..|++.+...-+.|+++|.+
T Consensus 451 ccfqml~adqdgek~~allel~ieale~hmdiieairdaP~lYclaVsEiVRRklfike~eEWaga~skd~aqf~eaEek 530 (1424)
T KOG4572|consen 451 CCFQMLDADQDGEKDIALLELKIEALEIHMDIIEAIRDAPILYCLAVSEIVRRKLFIKELEEWAGAHSKDCAQFSEAEEK 530 (1424)
T ss_pred hheeehhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHhhhhHHHH
Confidence 887654 3444555566666666667778999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhhccCChhhhccCCCCCCCCceeEecC--CCCCCCcCCCHHHHh---hhhh
Q 002272 472 RREEFLKANSVYIPRDILGSMGLYDTPNQCDVNIA--PSDTNLLDIDISDLE---VYAP 525 (944)
Q Consensus 472 rRe~F~k~fG~~LP~dL~~~~GL~d~pP~~eVnl~--~~D~~LP~I~r~Dle---~~i~ 525 (944)
.|+.|-+.|.++|.+.+| +|.+|+.|.+-++.. .||+.||+|..+||. .++|
T Consensus 531 kREqfGk~fkKhFLha~f--f~gfDn~P~~fckak~eKfDcdLPdIa~edik~Lqd~cP 587 (1424)
T KOG4572|consen 531 KREQFGKKFKKHFLHALF--FGGFDNLPEFFCKAKLEKFDCDLPDIAKEDIKDLQDACP 587 (1424)
T ss_pred HHHHHHHHHHHHHHHHhh--hcccccCCHHHhcCChhhcCCCCchhhHHHHHHHHHhCh
Confidence 999999999999999999 477777666666644 499999999999875 3555
No 2
>PF04108 APG17: Autophagy protein Apg17 ; InterPro: IPR007240 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Autophagy protein 17 (Apg17) is required for activating Apg1 protein kinases. This entry also contains Autophagy protein 11 which is involved in cytoplasm to vacuole transport (Cvt) and pexophagy. ; GO: 0006914 autophagy
Probab=100.00 E-value=2.4e-29 Score=287.90 Aligned_cols=343 Identities=20% Similarity=0.264 Sum_probs=250.6
Q ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Q 002272 140 RYHYHR-GHAIYIRTQAKIEMCERLLREQKVQERAVEVGRGNLEQ-YYRVINQNYNDFMKRYSQQQRVHSDLLANFGRDI 217 (944)
Q Consensus 140 ~~~l~w-A~al~~da~~~~e~ce~Lv~Ei~vq~raL~aAvaNLe~-~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~dL 217 (944)
+.+++. |+.+...+++.++....+..++.++.+|+.-.+..|.. .+..+...+++....|..+.+.++...++++..|
T Consensus 14 a~~vc~~An~~~~~ar~~l~~~~~~~~k~~fl~~~l~~Q~~~L~~~~~~~~~~~~~~~~~~f~~l~~~ld~~~~~L~~~l 93 (412)
T PF04108_consen 14 AQHVCREANEILTSARQSLEESVPLSAKTGFLRRGLKQQLKLLYKKVRSSLLIVYEWGQRDFKDLVKELDPADARLEQTL 93 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777 99999999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHhhCCCCCccccc--ccccccccccChhHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHhhc-
Q 002272 218 EKLRSVKLHPSLQT--ATCKCLLDFVKEEHL-------RKSAETCSSSHRQFENKVSQFKQIFDDVKRRV--EELLNTR- 285 (944)
Q Consensus 218 e~Lr~IpVhpaL~~--ee~kTL~DfVd~e~L-------rk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~v--d~L~~~~- 285 (944)
+.|++|+|+|.|++ ++.+||+||||.+.+ +...+.|...+..|++.+.+++..++.++..+ ..+....
T Consensus 94 ~~Lr~t~v~~~~~~~~~~~ktL~DFVd~~~v~~L~~~l~~~i~~~~~~~~~~d~~~~~~~~~~~~~~~~l~~~~~~~~~~ 173 (412)
T PF04108_consen 94 DMLRNTKVPPFFRPPGEEPKTLYDFVDEDSVEILRENLKISIDELQAIQEQLDNSLLQFDNDLRKLKKQLINKRLKDYEL 173 (412)
T ss_pred HHHhCCcCCccccCCCCCCCcHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhhhh
Confidence 99999999999998 468999999997653 55588899999999999999999999888877 2111110
Q ss_pred --------cC--Cc---hhhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhhhccccccCCCCCCccccccCcchhh
Q 002272 286 --------AS--LP---IKNLEMMIKEHQRFINEQKSIMQSLSKDVSTVKKLVDDCLSCQLSSSLRPHDAVSALGPMYDV 352 (944)
Q Consensus 286 --------~~--~s---~~~Le~~i~e~~~Ll~eq~siaQ~LssD~e~v~~l~D~~v~~~lsss~~~~d~vS~Ls~m~e~ 352 (944)
+. .+ .........+...+- ..||+.|.+..+|+ |.|+++.-- .--+++...
T Consensus 174 ~~~~~~~~~~~~~~~~s~~~~~~i~~~l~~le---~ema~lL~sLt~Hf----DqC~~a~~~---------~eg~~~~~~ 237 (412)
T PF04108_consen 174 LAPFQSSLGSSPSSSSSNPLMSTILKELHSLE---QEMASLLESLTNHF----DQCVTAVRH---------TEGEPMSEE 237 (412)
T ss_pred ccccccccCCCCCcccccccHHHHHHHHHHHH---HHHHHHHHHHHHHH----HHHHHHHHH---------hccCCCChH
Confidence 00 00 112222222233332 45566666655664 777764210 000233333
Q ss_pred hhccchHhHHHHHHHHHHHHHHHHHH---------------------HHHH---HHHHHHHHHHHH----HHHHHHHHHh
Q 002272 353 HDKSHLPRMQACDRSISKLLDFCQDK---------------------KNEM---NVFVHNYMQKIT----YVSYVIKDAK 404 (944)
Q Consensus 353 H~kelLP~L~~~~~eL~d~l~~~~~~---------------------KneL---~~~~~~~Lr~Is----~IQs~I~evk 404 (944)
+..+++..|.+.+.++.+++..+... ...+ +..++..++.+. .....+.++.
T Consensus 238 e~~e~l~Vl~~Da~El~~V~~el~~~~~~~~~~~~~~~k~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~yl~~~~~~~ 317 (412)
T PF04108_consen 238 ERQEMLEVLENDAQELPDVVKELQERLDEMENNEERTKKLLQSQRDHIRELYNALSEALEELRKFGERLPSYLAAFHDFE 317 (412)
T ss_pred HHHHHHHHHHcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333332222222111 1111 111222222222 2444555666
Q ss_pred hhHHHHHHHHHhhhhHHHHHHHHh-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 002272 405 LQFPVFREAMVRQDDIFADLKLVR-GIGPAYRACLAEVVRRKASMKLYMGMAGQLAERLATKREVEVRRREEFLKANSVY 483 (944)
Q Consensus 405 ~~L~~l~e~L~~~~~~F~~L~~v~-~lP~aYga~LiEVvRRRew~~k~~~~a~~lAEeLa~lrEeE~krRe~F~k~fG~~ 483 (944)
+.|..+++.+..+.+.+..|..++ +++.+|+.+|+|+.|||.|.+++.++++.++++|++++++|.++|+.|++++|+|
T Consensus 318 ~~~~~~~~~i~~~~~~l~~L~~~Y~~F~~aY~~LL~Ev~RRr~~~~k~~~i~~~~~eeL~~l~eeE~~~Re~F~~e~Gdy 397 (412)
T PF04108_consen 318 ERWEEEKESIQAYIDELEQLCEFYEGFLSAYDSLLLEVERRRAVRDKMKKIIREANEELDKLREEEQRRREAFLKEYGDY 397 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCc
Confidence 777777777777777888887775 6999999999999999999999999999999999999999999999999999999
Q ss_pred CChhhhccCCCCCCCCc
Q 002272 484 IPRDILGSMGLYDTPNQ 500 (944)
Q Consensus 484 LP~dL~~~~GL~d~pP~ 500 (944)
||.||| ||+.++|++
T Consensus 398 LP~diw--pg~~d~p~~ 412 (412)
T PF04108_consen 398 LPEDIW--PGMIDPPSR 412 (412)
T ss_pred CChhhC--CCccCCCCC
Confidence 999999 799998864
No 3
>cd01807 GDX_N ubiquitin-like domain of GDX. GDX contains an N-terminal ubiquitin-like domain as well as an uncharacterized c-terminal domain. The function of GDX is unknown.
Probab=98.62 E-value=7.9e-08 Score=85.01 Aligned_cols=71 Identities=15% Similarity=0.294 Sum_probs=65.9
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
|+|++. .+|+++.+++.+..||.+||+.|++.+|||+++|.|+++|..|++..+|..||+. +...|+|.-|
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~-~~~~l~l~~~ 72 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIG-PNAKLNLVVR 72 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCC-CCCEEEEEEc
Confidence 688887 7999999999999999999999999999999999999999999999999999998 7788888754
No 4
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=98.55 E-value=1.5e-07 Score=83.25 Aligned_cols=70 Identities=14% Similarity=0.269 Sum_probs=64.5
Q ss_pred EEEEEecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 15 LLVHISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 15 m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
|+||+.. +.++.+++.+..||++||+.|+..+|||+++|.|+++|..|++..+|+.|++. +..+|+|.-|
T Consensus 1 mqi~vk~-~~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~-~~~tl~l~~~ 70 (74)
T cd01793 1 MQLFVRA-QNTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVE-ELCTLEVAGR 70 (74)
T ss_pred CEEEEEC-CCEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCC-CCCEEEEEEe
Confidence 7888874 68899999999999999999999999999999999999999999999999998 7889998765
No 5
>cd01791 Ubl5 UBL5 ubiquitin-like modifier. UBL5 (also known as HUB1) is a ubiquitin-like modifier that is both widely expressed and highly phylogenetically conserved. At the C-terminal end of the ubiquitin-like fold of UBL5 is a di-tyrosine motif followed by a single variable residue instead of the characteristic di-glycine found in all other ubiquitin-like modifiers. ULB5 interacts with a cyclin-like kinase called CLK4 but not with other cyclin-like kinase family members.
Probab=98.47 E-value=4.9e-07 Score=80.24 Aligned_cols=70 Identities=13% Similarity=0.266 Sum_probs=64.5
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEe
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
|.|++. ..|+.+.+++.+..||.+||..|++.+|||++.|.|+.+|..|.+..+|.+||+. +..+|++|-
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~-~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIH-DGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCC-CCCEEEEEe
Confidence 677777 5799999999999999999999999999999999999999899999999999988 789999984
No 6
>PTZ00044 ubiquitin; Provisional
Probab=98.45 E-value=4.1e-07 Score=80.50 Aligned_cols=71 Identities=13% Similarity=0.259 Sum_probs=65.3
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
|+||+. .+|+++.+++.+..||.+||..|+..+|||++.|.|+++|..|++..+|++|++. +..+|.|.-+
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~-~~~~i~l~~~ 72 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVV-PGSTIHMVLQ 72 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCC-CCCEEEEEEE
Confidence 789997 7999999999999999999999999999999999999999999999999999988 6778877654
No 7
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=98.44 E-value=4.8e-07 Score=85.55 Aligned_cols=74 Identities=22% Similarity=0.280 Sum_probs=68.2
Q ss_pred CCeEEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 12 EGKLLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 12 ~~~m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
...|+||+. .+|+++.+++.+..||.+||+.|+..+|||++.|.|+++|..|++..+|++|++. +.++|+|--+
T Consensus 25 ~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~-~~stL~l~~~ 99 (103)
T cd01802 25 YDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNIS-EGCTLKLVLA 99 (103)
T ss_pred CCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCC-CCCEEEEEEe
Confidence 447999998 6899999999999999999999999999999999999999999999999999988 7888988654
No 8
>cd01805 RAD23_N Ubiquitin-like domain of RAD23. RAD23 belongs to a family of adaptor molecules having affinity for both the proteasome and ubiquitinylated proteins and thought to shuttle these ubiquitinylated proteins to the proteasome for destruction. RAD23 interacts with ubiquitin through its C-terminal ubiquitin-associated domains (UBA) and with the proteasome through its N-terminal ubiquitin-like domain (UBL).
Probab=98.42 E-value=5.9e-07 Score=79.61 Aligned_cols=70 Identities=14% Similarity=0.276 Sum_probs=64.2
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCC--CCCCeEEeecCccccccchhccccCCCCCceEEEEe
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGI--NFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gI--p~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
|+|++. .+|+++.+++.+..||.+||+.|+..+|| |+++|.|++.|..|++..+|..||+. +...|++.-
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~-~~~~i~~~~ 73 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKID-EKDFVVVMV 73 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCC-CCCEEEEEE
Confidence 678886 79999999999999999999999999999 99999999999999999999999998 677788764
No 9
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=98.42 E-value=5.7e-07 Score=80.78 Aligned_cols=71 Identities=13% Similarity=0.187 Sum_probs=64.9
Q ss_pred EEEEEe-cCCce-EEec-CCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 15 LLVHIS-ENGHS-FELD-CNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 15 m~V~~A-~tG~s-l~ld-~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
|+||+. .+|++ +.++ +.+..||.+||+.|++.+|||++.|.|+++|..|++..+|.+||+. +...|++.-|
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~-~~~~i~l~~~ 74 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVG-LNDIIQLLVR 74 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCC-CCCEEEEEEe
Confidence 789997 78997 6886 7889999999999999999999999999999999999999999998 7889988765
No 10
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=98.41 E-value=7.4e-07 Score=78.38 Aligned_cols=71 Identities=18% Similarity=0.338 Sum_probs=65.5
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
|+|++. .+|+++.+.+.+..||.+||+.|+..+|||++.|.|+++|..|.+..+|.+|++. +...|++.-+
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~-~g~~i~l~~~ 72 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLE-GGSVLHLVLA 72 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCC-CCCEEEEEEE
Confidence 678887 6899999999999999999999999999999999999999999999999999988 7889998765
No 11
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=98.38 E-value=6.9e-07 Score=78.11 Aligned_cols=68 Identities=10% Similarity=0.293 Sum_probs=62.2
Q ss_pred EE-ecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 18 HI-SENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 18 ~~-A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
|+ ...|+++.+++.+..||.+||..|++.+|||+++|.|+++|..|++..+|..||+. +.++|+|--|
T Consensus 2 ~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~-~~stl~l~~~ 70 (70)
T cd01798 2 YVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLG-QQSILHAVRR 70 (70)
T ss_pred EEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCC-CCCEEEEEeC
Confidence 44 37899999999999999999999999999999999999999999999999999998 7889988543
No 12
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=98.37 E-value=8.6e-07 Score=77.97 Aligned_cols=71 Identities=18% Similarity=0.364 Sum_probs=65.5
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
|+|++. .+|+++.+++.+..||.+||+.|+..+|||++.|.|+++|..|.+..+|.+|++. +...|+|.-|
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~-~~~~i~l~~~ 72 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ-KESTLHLVLR 72 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCC-CCCEEEEEEE
Confidence 678887 6899999999999999999999999999999999999999999999999999998 6788888765
No 13
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=98.36 E-value=7.7e-07 Score=78.77 Aligned_cols=69 Identities=13% Similarity=0.193 Sum_probs=63.4
Q ss_pred EEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 17 VHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 17 V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
||+. ..|+++.+++.+..||.+||+.|+...|||++.|.|++.|..|++..+|..||+. +..+|++.-|
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~-~~~tl~l~~~ 70 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLK-PGCTVFMNLR 70 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCC-CCCEEEEEEE
Confidence 4554 7899999999999999999999999999999999999999999999999999998 7889999865
No 14
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=98.31 E-value=1.1e-06 Score=77.44 Aligned_cols=64 Identities=16% Similarity=0.202 Sum_probs=60.3
Q ss_pred ecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEE
Q 002272 20 SENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIF 84 (944)
Q Consensus 20 A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVf 84 (944)
..+|.++.+++.+..||.+||+.|++..|||+..|.|+++|..|++..++..|++. +..+|+|-
T Consensus 5 ~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~-~~~tv~~~ 68 (70)
T cd01794 5 LSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQ-KDYVVQVI 68 (70)
T ss_pred cCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCC-CCCEEEEE
Confidence 46899999999999999999999999999999999999999999999999999998 78899874
No 15
>cd01809 Scythe_N Ubiquitin-like domain of Scythe protein. Scythe protein (also known as Bat3) is an apoptotic regulator that is highly conserved in eukaryotes and contains a ubiquitin-like domain near its N-terminus. Scythe binds reaper, a potent apoptotic inducer, and Scythe/Reaper are thought to signal apoptosis, in part through regulating the folding and activity of apoptotic signaling molecules.
Probab=98.29 E-value=1.9e-06 Score=75.03 Aligned_cols=70 Identities=16% Similarity=0.302 Sum_probs=63.3
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEe
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
|+|++. .+|+++.+++.+..+|.+||..|+..+|||++.|.|++.|..|++..+|..||+. +..+|+|--
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~-~~~~l~l~~ 71 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVE-DGHTIHLVK 71 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCC-CCCEEEEEe
Confidence 578886 7899999999999999999999999999999999999999999999999999988 678887743
No 16
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=98.28 E-value=1.8e-06 Score=75.12 Aligned_cols=69 Identities=14% Similarity=0.320 Sum_probs=62.8
Q ss_pred EEEEEecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEE
Q 002272 15 LLVHISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIF 84 (944)
Q Consensus 15 m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVf 84 (944)
++|.+.+.|+++.+++.+..||.+||+.|+..+|||++.|.|++.|..|.+..+|..||+. +..+|+|.
T Consensus 1 i~i~vk~~g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~-~g~~l~v~ 69 (71)
T cd01812 1 IRVRVKHGGESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVK-DGSKVMLL 69 (71)
T ss_pred CEEEEEECCEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCC-CCCEEEEe
Confidence 4678887899999999999999999999999999999999999999999988999999987 67788874
No 17
>cd01804 midnolin_N Ubiquitin-like domain of midnolin. midnolin_N Midnolin (midbrain nucleolar protein) is expressed in the nucleolus and is thought to regulate genes involved in neurogenesis. Midnolin contains an amino-terminal ubiquitin-like domain.
Probab=98.24 E-value=3e-06 Score=75.99 Aligned_cols=69 Identities=17% Similarity=0.270 Sum_probs=63.2
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEe
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
|+|++. ..|+.+.+++.+..||.+||..|++.+|||++.|.|++.|..|.+. +|.+||+. +.++|||.-
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~-~~~~i~l~~ 71 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLG-DGSKLTLVP 71 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCC-CCCEEEEEe
Confidence 788887 6799999999999999999999999999999999999999999887 89999998 788898875
No 18
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=98.23 E-value=2.2e-06 Score=74.23 Aligned_cols=66 Identities=23% Similarity=0.370 Sum_probs=61.3
Q ss_pred cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEecc
Q 002272 21 ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNKL 87 (944)
Q Consensus 21 ~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdRr 87 (944)
.+|+++.+++.+..||.+||..|+..+|||++.|.|++.|..|.+..+|.+||+. +...|+|+-|.
T Consensus 3 ~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~-~~~~I~l~~k~ 68 (69)
T PF00240_consen 3 LSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIK-DGSTIHLVIKP 68 (69)
T ss_dssp TTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTS-TTEEEEEEESS
T ss_pred CCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCC-CCCEEEEEEec
Confidence 5799999999999999999999999999999999999999999999999999999 66799988653
No 19
>cd01792 ISG15_repeat1 ISG15 ubiquitin-like protein, first repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains that becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=98.22 E-value=3.6e-06 Score=75.70 Aligned_cols=72 Identities=15% Similarity=0.137 Sum_probs=65.0
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEE--eecCccccccchhccccCCCCCceEEEEecc
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLV--LCLDMKLEPQKLLSAYRLPSDDKEVFIFNKL 87 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QIL--L~~G~kL~~~~~L~~y~l~td~~eIyVfdRr 87 (944)
|+|++. .+|+++.+++.+..||.+||..|+..+|||++.|.| +++|..|.+..+|..||+. +..+|+|.-+.
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~-~gs~l~l~~~~ 77 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLG-PGSTVLLVVQN 77 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCC-CCCEEEEEEEc
Confidence 788886 689999999999999999999999999999999999 6778899999999999998 78889987653
No 20
>cd01796 DDI1_N DNA damage inducible protein 1 ubiquitin-like domain. DDI1_N DDI1 (DNA damage inducible protein 1) has an amino-terminal ubiquitin-like domain, an retroviral protease-like (RVP-like) domain, and a UBA (ubiquitin-associated) domain. This CD represents the amino-terminal ubiquitin-like domain of DDI1.
Probab=98.16 E-value=4.1e-06 Score=73.73 Aligned_cols=62 Identities=23% Similarity=0.374 Sum_probs=55.5
Q ss_pred cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCcccccc-chhccccCCCCCceEEE
Q 002272 21 ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQ-KLLSAYRLPSDDKEVFI 83 (944)
Q Consensus 21 ~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~-~~L~~y~l~td~~eIyV 83 (944)
.+|+++.+++.+..||.+||+.|+..+|||+++|.|+++|..|++. .++..||+. +...|++
T Consensus 7 ~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~-~~~~l~l 69 (71)
T cd01796 7 RSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVK-DGDLVVL 69 (71)
T ss_pred CCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCC-CCCEEEE
Confidence 3899999999999999999999999999999999999999999876 689999988 5566654
No 21
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=98.15 E-value=3.9e-07 Score=84.75 Aligned_cols=73 Identities=18% Similarity=0.385 Sum_probs=65.5
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEeccc
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNKLR 88 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdRrl 88 (944)
|+||+. .+|.++.+++.+..||++||..|.+..|||++.|+|++.|..|++..++..||+. .+.+|.+|-|-+
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~-~~~Tl~~~~rL~ 74 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQ-KESTLHLVLRLR 74 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCcc-chhhhhhhHHHh
Confidence 455664 8999999999999999999999999999999999999999999999999999999 677887776533
No 22
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=98.13 E-value=4.2e-06 Score=74.58 Aligned_cols=66 Identities=17% Similarity=0.219 Sum_probs=61.2
Q ss_pred cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEecc
Q 002272 21 ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNKL 87 (944)
Q Consensus 21 ~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdRr 87 (944)
.+|+++.+++.+..||.+||..|+..+|||++.|.|++.|..|++..+|.+|++. +...|+|.-+.
T Consensus 5 l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~-~g~~l~v~~~~ 70 (76)
T cd01800 5 LNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLA-NGTIIHLQLKE 70 (76)
T ss_pred cCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCC-CCCEEEEEEec
Confidence 5899999999999999999999999999999999999999999999999999988 78899888763
No 23
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=98.12 E-value=1.4e-06 Score=86.51 Aligned_cols=75 Identities=20% Similarity=0.371 Sum_probs=70.1
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEeccccC
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNKLRLQ 90 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdRrll~ 90 (944)
|+||+. .+|.++.+++....+++.+|.-|++..|||++.|.|++.|.+|++..+++.|++. .+++|||+.+..-.
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iq-kestl~l~l~l~Gg 76 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQ-KESTLHLVLRLRGG 76 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCcccccccc-ccceEEEEEEecCC
Confidence 789996 6999999999999999999999999999999999999999999999999999999 89999999984443
No 24
>cd01799 Hoil1_N Ubiquitin-like domain of HOIL1. HOIL1_N HOIL-1 (heme-oxidized IRP2 ubiquitin ligase-1) is an E3 ubiquitin-protein ligase that recognizes heme-oxidized IRP2 (iron regulatory protein2) and is thought to affect the turnover of oxidatively damaged proteins. Hoil-1 has an amino-terminal ubiquitin-like domain as well as an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain.
Probab=98.06 E-value=9.7e-06 Score=72.40 Aligned_cols=63 Identities=13% Similarity=0.136 Sum_probs=57.0
Q ss_pred cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCcccc-ccchhccccCCCCCceEEEE
Q 002272 21 ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLE-PQKLLSAYRLPSDDKEVFIF 84 (944)
Q Consensus 21 ~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~-~~~~L~~y~l~td~~eIyVf 84 (944)
-.|.++.+++.+..||++||+.|+..+|||++.|.| +.|..|. +..+|+.||+.++...+|||
T Consensus 10 ~~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~ 73 (75)
T cd01799 10 SHTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLY 73 (75)
T ss_pred cCCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEE
Confidence 468888899999999999999999999999999999 8888885 66999999998777899998
No 25
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=97.99 E-value=1.7e-05 Score=70.63 Aligned_cols=68 Identities=18% Similarity=0.270 Sum_probs=59.2
Q ss_pred EEEEEecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEee---cCccccccchhccccCCCCCceEEE
Q 002272 15 LLVHISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLC---LDMKLEPQKLLSAYRLPSDDKEVFI 83 (944)
Q Consensus 15 m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~---~G~kL~~~~~L~~y~l~td~~eIyV 83 (944)
+.|-+.+.|.++.+++.+..||.+||+.|++.+|||++.|-|+. .|..+.+..+|.+|++. +...|.|
T Consensus 1 ~~i~vk~~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~-~g~~i~l 71 (74)
T cd01813 1 VPVIVKWGGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLK-PNTKIMM 71 (74)
T ss_pred CEEEEEECCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCC-CCCEEEE
Confidence 35777899999999999999999999999999999999999985 57778889999999987 4555544
No 26
>cd01808 hPLIC_N Ubiquitin-like domain of hPLIC-1 and hPLIC2. hPLIC-1 and hPLIC-2 (human homologs of the yeast ubiquitin-like Dsk2 protein) are type2 UBL's (ubiquitin-like) proteins that are thought to serve as adaptors that link the ubiquitination machinery to the proteasome. The hPLIC's have an N-terminal UBL domain that binds the S5a subunit of the proteasome and a C-terminal UBA (ubiquitin-associated) domain that binds a ubiquitylated protein.
Probab=97.98 E-value=1.7e-05 Score=69.62 Aligned_cols=68 Identities=13% Similarity=0.168 Sum_probs=59.3
Q ss_pred EEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEe
Q 002272 16 LVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 16 ~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
.|++. .+|. ..+++.+..||.+||+.|++.+|||.+.|.|+++|..|.+..+|.+||+. +..+|+|.-
T Consensus 2 ~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~-~~stl~l~~ 70 (71)
T cd01808 2 KVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIK-DGLTVHLVI 70 (71)
T ss_pred EEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCC-CCCEEEEEE
Confidence 35554 6786 47888888999999999999999999999999999999999999999998 788888764
No 27
>KOG4250 consensus TANK binding protein kinase TBK1 [Signal transduction mechanisms]
Probab=97.93 E-value=0.05 Score=66.09 Aligned_cols=161 Identities=12% Similarity=0.051 Sum_probs=101.3
Q ss_pred CeEEEEEecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCcc--ccccchhccccCCCCCceEEEEeccccC
Q 002272 13 GKLLVHISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMK--LEPQKLLSAYRLPSDDKEVFIFNKLRLQ 90 (944)
Q Consensus 13 ~~m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~k--L~~~~~L~~y~l~td~~eIyVfdRrll~ 90 (944)
...+||...++.++.+-+.+..++..|+..|...||||.+.|+||+.|+. +.+... ....+-+.+||++...-..
T Consensus 314 ~vvhiFs~~~~~~~~~~~~~~ntl~~~~~~I~~~Tgipe~~qeLL~e~~~~h~~~~~Q---~~~dg~~~~l~l~~~~~~~ 390 (732)
T KOG4250|consen 314 KVVHIFSMVQATSHEYYVHADNTLHSLIERISKQTGIPEGKQELLFEGGLSHLEDSAQ---CIPDGLDSPLYLVSDQDKN 390 (732)
T ss_pred heeEEEeeccceEEEEecChhhhHHHHHHHHHHhhCCCCccceeeeecCccccCcccc---cCCCCCCCceEEEecCCCc
Confidence 35789999999999999999999999999999999999999999888653 333111 1112346899998755443
Q ss_pred CCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCCChhhhhchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 91 SNSPPPSPEQVDVLEVADPPPPALSQDPHPLDDAPDPALKALPSYERQFRYHYHRGHAIYIRTQAKIEMCERLLREQKVQ 170 (944)
Q Consensus 91 ~~~~~p~~e~~~i~e~~ipp~p~~~~~pspL~da~~p~lraL~sye~lf~~~l~wA~al~~da~~~~e~ce~Lv~Ei~vq 170 (944)
.... .+....+|+.+ |.-..+ .+ +..+ -+.....| ......+..+.....-+
T Consensus 391 v~~~-------~~~~r~~p~~~-----~~i~~d-~k-----~~~a--ki~~~~vg--------~~~~~~i~~ll~~~~r~ 442 (732)
T KOG4250|consen 391 VDER-------KILKRSLPKVV-----PYIDQD-KK-----ASLA--KIQLRKVG--------LEALREIDTLLEDQERL 442 (732)
T ss_pred chhh-------cccccCCCCCc-----cchhcc-ch-----hhhh--hhhhhHHH--------HHHHHHHHHHHHHHHHH
Confidence 2221 11111222221 111111 11 0000 01122223 23345566777788888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 171 ERAVEVGRGNLEQYYRVINQNYNDFMKRYSQQQR 204 (944)
Q Consensus 171 ~raL~aAvaNLe~~~~~lek~f~~f~~~f~~ll~ 204 (944)
.+++.+++.+|-.....+.+.-..+.......+.
T Consensus 443 ~qg~r~~~~~L~~~~s~~~k~~~t~~~~~~~~~a 476 (732)
T KOG4250|consen 443 FQGLRAVMELLVRTNSELLKVKTTSRSALQQLLA 476 (732)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999998888876666554444433
No 28
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=97.91 E-value=1.9e-05 Score=66.61 Aligned_cols=61 Identities=16% Similarity=0.284 Sum_probs=55.6
Q ss_pred EEEEEecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCC
Q 002272 15 LLVHISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLP 75 (944)
Q Consensus 15 m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~ 75 (944)
|+|++...|.++.+++.+..||.+||..|+..+|||++.|.|+++|..|.+..+|.+||+.
T Consensus 1 ~~i~vk~~~~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~ 61 (64)
T smart00213 1 IELTVKTLDGTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQ 61 (64)
T ss_pred CEEEEEECCceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCc
Confidence 6788886557888999999999999999999999999999999999999989999999986
No 29
>cd01763 Sumo Small ubiquitin-related modifier (SUMO). Small ubiquitin-related modifier (SUMO) proteins are conjugated to numerous intracellular targets and serve to modulate protein interaction, localization, activity or stability. SUMO (also known as "Smt3" and "sentrin" in other organisms) is linked to several different pathways, including nucleocytoplasmic transport. Attachment of SUMO to targets proteins is stimulated by PIAS (Protein inhibitor of activated STATs) proteins which serve as E3-like ligases.
Probab=97.87 E-value=5.7e-05 Score=69.17 Aligned_cols=76 Identities=11% Similarity=0.230 Sum_probs=70.3
Q ss_pred cCCeEEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEecc
Q 002272 11 HEGKLLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNKL 87 (944)
Q Consensus 11 ~~~~m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdRr 87 (944)
....|+|++. .+|..+.+.+.+.+++..|+..++...|||++.|.|++.|.+|.+..++.+|++. +...|+|+-+.
T Consensus 8 ~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~-d~d~I~v~l~l 84 (87)
T cd01763 8 ISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGME-DGDEIEVMLEQ 84 (87)
T ss_pred CCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCC-CCCEEEEEEec
Confidence 4568999997 6899999999999999999999999999999999999999999999999999998 88999998754
No 30
>cd01769 UBL Ubiquitin-like domain of UBL. UBLs function by remodeling the surface of their target proteins, changing their target's half-life, enzymatic activity, protein-protein interactions, subcellular localization or other properties. At least 10 different ubiquitin-like modifications exist in mammals, and attachment of different ubls to a target leads to different biological consequences. Ubl-conjugation cascades are initiated by activating enzymes, which also coordinate the ubls with their downstream pathways.
Probab=97.69 E-value=0.0001 Score=62.92 Aligned_cols=64 Identities=22% Similarity=0.352 Sum_probs=58.4
Q ss_pred cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEe
Q 002272 21 ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 21 ~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
.+|+.+.+.+.+..|+.+||..|+..+|+|++.|.|++.|..|++..+|..|++. +...|||..
T Consensus 5 ~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~-~~~~i~v~~ 68 (69)
T cd01769 5 LTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQ-DGSTLHLVL 68 (69)
T ss_pred cCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCC-CCCEEEEEE
Confidence 3799999998889999999999999999999999999999999999999999998 678888865
No 31
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.41 E-value=0.00039 Score=79.85 Aligned_cols=73 Identities=15% Similarity=0.271 Sum_probs=64.7
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhC---CCCCCeEEeecCccccccchhccccCCCCCceEEEEeccc
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAG---INFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNKLR 88 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~g---Ip~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdRrl 88 (944)
|+|++. ..|+++.+++....||.+||..|+..+| ||++.|.|++.|+.|++..+|.+|++. +...|+|.-+.-
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~-e~~~Ivvmv~k~ 77 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIK-EKDFVVVMVSKP 77 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCC-CCCEEEEEeccC
Confidence 678887 7999999999999999999999999999 999999999999999999999999997 566666665443
No 32
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=97.39 E-value=0.00017 Score=60.86 Aligned_cols=61 Identities=21% Similarity=0.374 Sum_probs=54.9
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCC
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLP 75 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~ 75 (944)
|.|-+. .||.-+.+|..+.+.|+.+|+.|+++.|||+..|.|++.|..+.+..+-.+|++-
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~ 62 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLL 62 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhc
Confidence 345554 7999999999999999999999999999999999999999999888888889765
No 33
>cd01790 Herp_N Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein. Herp (Homocysteine-responsive endoplasmic reticulum-resident ubiquitin-like domain protein) , is an integral membrane protein that is induced by the endoplasmic reticulum (ER) stress response pathway and is involved in improving the balance of folding capacity and protein loads in the ER. Herp has an N-terminal ubiquitin-like domain that is involved in Herp degradation, but is not necessary for its enhancement of amyloid beta-protein generation.
Probab=97.19 E-value=0.00099 Score=60.28 Aligned_cols=69 Identities=14% Similarity=0.053 Sum_probs=56.8
Q ss_pred EEEEEe-cCCce--EEecCCCCCCHHHHHHHHHHHhC--CCCCCeEEeecCccccccchhcccc--CCCCCceEEEE
Q 002272 15 LLVHIS-ENGHS--FELDCNENSPVEAVMRFIESAAG--INFNDQLVLCLDMKLEPQKLLSAYR--LPSDDKEVFIF 84 (944)
Q Consensus 15 m~V~~A-~tG~s--l~ld~~~f~sVe~LK~~Ia~~~g--Ip~~~QILL~~G~kL~~~~~L~~y~--l~td~~eIyVf 84 (944)
+.|++. .+|.. +.+++.+..||.+||+.|+..++ .|++.|.|+..|.-|.+..+|..|+ +. +..+|++-
T Consensus 2 i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~-~~~tiHLV 77 (79)
T cd01790 2 VTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQD-EYHMVHLV 77 (79)
T ss_pred eEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhccc-CCceEEEE
Confidence 456665 68888 55556899999999999999985 5579999999999999999999996 54 67888764
No 34
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=97.05 E-value=0.00092 Score=59.84 Aligned_cols=53 Identities=13% Similarity=0.186 Sum_probs=47.4
Q ss_pred CCCCHHHHHHHHHHHh--CCC-CCCeEEeecCccccccchhccccCCCCCceEEEEe
Q 002272 32 ENSPVEAVMRFIESAA--GIN-FNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 32 ~f~sVe~LK~~Ia~~~--gIp-~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
...||.+||+.|++.+ ||| ++.|.|+++|..|++..+|..||+. +...|+++-
T Consensus 19 ~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~-~gstlhLv~ 74 (75)
T cd01815 19 GGYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQ-SGSTIHILR 74 (75)
T ss_pred ccCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCC-CCCEEEEEe
Confidence 4689999999999997 475 8889999999999999999999988 788888874
No 35
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=96.62 E-value=0.0045 Score=72.01 Aligned_cols=79 Identities=15% Similarity=0.248 Sum_probs=70.6
Q ss_pred eEEEEEecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEeccccCCCC
Q 002272 14 KLLVHISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNKLRLQSNS 93 (944)
Q Consensus 14 ~m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdRrll~~~~ 93 (944)
.+.|.|...+..+.|.+....+|..||+.|+..+++|++.|+||+.|+.|++.++|..||+. |..+|||--|..-....
T Consensus 15 ~irV~Vkt~~dk~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~-Dg~TvHLVik~~~~~~~ 93 (493)
T KOG0010|consen 15 LIRVTVKTPKDKYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQ-DGHTVHLVIKSQPRPTG 93 (493)
T ss_pred eeEEEEecCCcceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCC-CCcEEEEEeccCCCCCC
Confidence 37778876666999999999999999999999999999999999999999999999999998 99999999887765443
No 36
>cd01789 Alp11_N Ubiquitin-like domain of Alp11 tubulin-folding cofactor B. Alp11, also known as tubulin-folding cofactor B, is one of at least three proteins required for the proper folding of tubulins prior to their incorporation into microtubules. These cofactors are necessary for the biogenesis of microtubules and for cell viability. Alp11 has three domains including an N-terminal ubiquitin-like domain (represented by this CD) which executes the essential function, a central coiled-coil domain necessary for maintenance of cellular alpha-tubulin levels, and a C-terminal CLIP-170 domain is required for efficient binding to alpha-tubulin.
Probab=96.62 E-value=0.0098 Score=54.29 Aligned_cols=70 Identities=19% Similarity=0.324 Sum_probs=54.4
Q ss_pred EEEEecCCceEEec--CCCCCCHHHHHHHHHHHhCCCCCCeEE-eecCc-----cc-cccchhccccCCCCCceEEEEec
Q 002272 16 LVHISENGHSFELD--CNENSPVEAVMRFIESAAGINFNDQLV-LCLDM-----KL-EPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 16 ~V~~A~tG~sl~ld--~~~f~sVe~LK~~Ia~~~gIp~~~QIL-L~~G~-----kL-~~~~~L~~y~l~td~~eIyVfdR 86 (944)
.|++.+++.....+ .....||..||+.|+..+|+|++.|.| +..|. .| ++...|.+||+. +..+|+|-|.
T Consensus 3 ~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~-dg~~IhVvD~ 81 (84)
T cd01789 3 TVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVD-DGCRIHVIDV 81 (84)
T ss_pred EEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCC-CCCEEEEEeC
Confidence 45555443333344 778899999999999999999999999 55654 25 567889999988 8899999874
No 37
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=96.60 E-value=2.9 Score=51.10 Aligned_cols=121 Identities=12% Similarity=0.135 Sum_probs=80.5
Q ss_pred hHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH-----------------HHHHHHhhhhH
Q 002272 358 LPRMQACDRSISKLLDFCQDKKNEMNVFVHNYMQKITYVSYVIKDAKLQFPV-----------------FREAMVRQDDI 420 (944)
Q Consensus 358 LP~L~~~~~eL~d~l~~~~~~KneL~~~~~~~Lr~Is~IQs~I~evk~~L~~-----------------l~e~L~~~~~~ 420 (944)
+..+.+.-..||+.+++=..+|+....+.-.....|..+......+...+.. +.+.+....+.
T Consensus 280 ~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~l~~~~~~~~~l~~e~~~v~~sY~L~~~e~~~~~~l~~~l~~l~~~ 359 (560)
T PF06160_consen 280 NEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEYLEHAKEQNKELKEELERVSQSYTLNHNELEIVRELEKQLKELEKR 359 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHH
Confidence 4566677777888887777777776666655555555554444444332222 33333333333
Q ss_pred HHHH-HHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 421 FADL-KLVRGIGPAYRACLAEVVRRKASMKLYMGMAGQLAERLATKREVEVRRREEFLK 478 (944)
Q Consensus 421 F~~L-~~v~~lP~aYga~LiEVvRRRew~~k~~~~a~~lAEeLa~lrEeE~krRe~F~k 478 (944)
|..+ ..+.+--.+|.....+...=..-...+...-..+.+.++.++.+|...|++-.+
T Consensus 360 ~~~~~~~i~~~~~~yS~i~~~l~~~~~~l~~ie~~q~~~~~~l~~L~~dE~~Ar~~l~~ 418 (560)
T PF06160_consen 360 YEDLEERIEEQQVPYSEIQEELEEIEEQLEEIEEEQEEINESLQSLRKDEKEAREKLQK 418 (560)
T ss_pred HHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4433 333455678888888777777777888899999999999999999999987443
No 38
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=96.59 E-value=0.0038 Score=58.39 Aligned_cols=59 Identities=14% Similarity=0.022 Sum_probs=50.9
Q ss_pred EEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccc-cccchhccccCCCCCceEEEEe
Q 002272 26 FELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKL-EPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 26 l~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL-~~~~~L~~y~l~td~~eIyVfd 85 (944)
..+.+.+.+||.+||..|...++||+.+|-|+..|.-| ++.++|.+||+. ..+.|+|.-
T Consensus 17 ~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~-sgSvl~Lli 76 (107)
T cd01795 17 KALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVI-PESVILLKA 76 (107)
T ss_pred ceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCC-CCCEEEEEe
Confidence 45667888999999999999999999999998878777 467999999999 677787764
No 39
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=96.42 E-value=0.0087 Score=52.31 Aligned_cols=68 Identities=10% Similarity=0.253 Sum_probs=57.9
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCC-CCeEEeecCccccccchhccccCCCCCceEEE
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINF-NDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFI 83 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~-~~QILL~~G~kL~~~~~L~~y~l~td~~eIyV 83 (944)
|+|++. .+|+.+.+.+.+.+++..|++.++...|||. ....|++.|.+|.+.+++.+|++. +...|-|
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ie-d~d~Idv 70 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIE-DGDTIDV 70 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-S-TTEEEEE
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCC-CCCEEEE
Confidence 466775 6899999999999999999999999999999 888889999999999999999988 5555544
No 40
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=96.26 E-value=0.014 Score=49.29 Aligned_cols=66 Identities=18% Similarity=0.338 Sum_probs=58.8
Q ss_pred ecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 20 SENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 20 A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
..+|.++.+.+....++..+|..|....|||.+.|.+..+|..|.+...+..|++. ....+++..+
T Consensus 6 ~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~-~~~~~~l~~~ 71 (75)
T KOG0001|consen 6 TLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQ-EGSTLHLVLS 71 (75)
T ss_pred ecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCC-CCCEEEEEEe
Confidence 38999999999999999999999999999999999999989999988999999877 5666666543
No 41
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=96.25 E-value=0.015 Score=53.19 Aligned_cols=72 Identities=21% Similarity=0.285 Sum_probs=54.2
Q ss_pred EEEEEecCCc---eEEecCCCCCCHHHHHHHHHHHhCCCCCCeEE-ee-c--Ccc---c-cccchhccccCCCCCceEEE
Q 002272 15 LLVHISENGH---SFELDCNENSPVEAVMRFIESAAGINFNDQLV-LC-L--DMK---L-EPQKLLSAYRLPSDDKEVFI 83 (944)
Q Consensus 15 m~V~~A~tG~---sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QIL-L~-~--G~k---L-~~~~~L~~y~l~td~~eIyV 83 (944)
+.|++.++.. ....-+....||.+||..|+..+|||+++|.| +. . +.. + ++..+|..||+. +.-+|+|
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~-dg~~i~V 80 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIK-DGMRIHV 80 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-S-TTEEEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCC-CCCEEEE
Confidence 3566665554 67767778899999999999999999999999 65 2 222 3 457999999987 7899999
Q ss_pred Eecc
Q 002272 84 FNKL 87 (944)
Q Consensus 84 fdRr 87 (944)
-|..
T Consensus 81 ~D~~ 84 (87)
T PF14560_consen 81 VDTN 84 (87)
T ss_dssp EE-T
T ss_pred EeCC
Confidence 8853
No 42
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=95.93 E-value=0.11 Score=58.22 Aligned_cols=73 Identities=15% Similarity=0.261 Sum_probs=63.0
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhC--CCCCCeEEeecCccccccchhccccCCCCCceEEEEecc
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAG--INFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNKL 87 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~g--Ip~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdRr 87 (944)
|.|.+. ..|+++.+++.+.++|-++|..|+...| .|.+.|.||..|.-|.+..++..|++....--|++-.|.
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~ 76 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKD 76 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecC
Confidence 567776 7999999999999999999999999999 999999999999999999999999988434444444444
No 43
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=95.78 E-value=7.1 Score=47.79 Aligned_cols=119 Identities=12% Similarity=0.058 Sum_probs=77.1
Q ss_pred hHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHH-----------------HHHHHHhhhhH
Q 002272 358 LPRMQACDRSISKLLDFCQDKKNEMNVFVHNYMQKITYVSYVIKDAKLQFPV-----------------FREAMVRQDDI 420 (944)
Q Consensus 358 LP~L~~~~~eL~d~l~~~~~~KneL~~~~~~~Lr~Is~IQs~I~evk~~L~~-----------------l~e~L~~~~~~ 420 (944)
+..+.+.-..||+.+++=..+|+..-.+.-..-+.|..++.....+...+.. +.+.+....+.
T Consensus 284 ~~~i~~~Id~Lyd~lekE~~A~~~vek~~~~l~~~l~~~~e~~~~l~~Ei~~l~~sY~l~~~e~~~~~~lekeL~~Le~~ 363 (569)
T PRK04778 284 NEEIQERIDQLYDILEREVKARKYVEKNSDTLPDFLEHAKEQNKELKEEIDRVKQSYTLNESELESVRQLEKQLESLEKQ 363 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHccccCchhHHHHHHHHHHHHHHHHH
Confidence 4566667777777777777777666666655555555555444444433333 33333333333
Q ss_pred HH-HHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 421 FA-DLKLVRGIGPAYRACLAEVVRRKASMKLYMGMAGQLAERLATKREVEVRRREEF 476 (944)
Q Consensus 421 F~-~L~~v~~lP~aYga~LiEVvRRRew~~k~~~~a~~lAEeLa~lrEeE~krRe~F 476 (944)
+. ....+..--..|..+..+..--.+=...+...-..+.+.+..++..|...|++.
T Consensus 364 ~~~~~~~i~~~~~~ysel~e~leel~e~leeie~eq~ei~e~l~~Lrk~E~eAr~kL 420 (569)
T PRK04778 364 YDEITERIAEQEIAYSELQEELEEILKQLEEIEKEQEKLSEMLQGLRKDELEAREKL 420 (569)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44 233344444448888777777777777888888999999999999999999773
No 44
>cd01814 NTGP5 Ubiquitin-like NTGP5 and ATGP4. NTGP5 and ATGP4 are plant-specific isoprenylated GTP-binding proteins with a single fold that resembles ubiquitin. The function of these proteins is unknown.
Probab=95.13 E-value=0.029 Score=53.89 Aligned_cols=68 Identities=13% Similarity=0.080 Sum_probs=51.9
Q ss_pred ecCCceE-EecCCCCCCHHHHHHHHHHHhC-----CC--CCCeEEeecCccccccchhccccCCC-----CCceEEEEec
Q 002272 20 SENGHSF-ELDCNENSPVEAVMRFIESAAG-----IN--FNDQLVLCLDMKLEPQKLLSAYRLPS-----DDKEVFIFNK 86 (944)
Q Consensus 20 A~tG~sl-~ld~~~f~sVe~LK~~Ia~~~g-----Ip--~~~QILL~~G~kL~~~~~L~~y~l~t-----d~~eIyVfdR 86 (944)
-.+|.-+ .+...+.+||.+||+.|+..|+ || +++|.|+.+|.-|++..+|.+|+++- ...++||--|
T Consensus 11 l~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~~TmHvvlr 90 (113)
T cd01814 11 LYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGVITMHVVVQ 90 (113)
T ss_pred ccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCceEEEEEec
Confidence 3566332 3345577999999999997773 44 99999999999999999999999442 3567777665
Q ss_pred c
Q 002272 87 L 87 (944)
Q Consensus 87 r 87 (944)
.
T Consensus 91 ~ 91 (113)
T cd01814 91 P 91 (113)
T ss_pred C
Confidence 4
No 45
>cd01801 Tsc13_N Ubiquitin-like domain of Tsc13. Tsc13_N N-terminal domain of Tsc13. Tsc13 is an enoyl reductase involved in elongation of long chain fatty acids that localizes to the endoplasmic reticulum and is highly enriched in a novel structure marking nuclear-vacuolar junctions.
Probab=95.08 E-value=0.07 Score=47.72 Aligned_cols=69 Identities=9% Similarity=0.171 Sum_probs=52.3
Q ss_pred EEEEecCC-ceEE-ecC-CCCCCHHHHHHHHHHHhC-CCCCCeEEe-e-cCccccccchhccccCCCCCceEEEEe
Q 002272 16 LVHISENG-HSFE-LDC-NENSPVEAVMRFIESAAG-INFNDQLVL-C-LDMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 16 ~V~~A~tG-~sl~-ld~-~~f~sVe~LK~~Ia~~~g-Ip~~~QILL-~-~G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
.|.++-++ +.+. +++ .+..||.+||..|+..++ +|+..|.|. - .|..|.+..+|..||+. +..+|||=|
T Consensus 2 ~i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~-~g~~lyvKD 76 (77)
T cd01801 2 EILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVG-AGATLYVRD 76 (77)
T ss_pred eeeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCC-CCCEEEEee
Confidence 46666777 6654 333 366899999999999987 478888884 3 37778888899999997 678888743
No 46
>PLN02560 enoyl-CoA reductase
Probab=94.86 E-value=0.075 Score=59.84 Aligned_cols=70 Identities=19% Similarity=0.223 Sum_probs=56.7
Q ss_pred EEEEEe-cCCceE---EecCCCCCCHHHHHHHHHHHhCC-CCCCeEEeec-------CccccccchhccccCCCCCceEE
Q 002272 15 LLVHIS-ENGHSF---ELDCNENSPVEAVMRFIESAAGI-NFNDQLVLCL-------DMKLEPQKLLSAYRLPSDDKEVF 82 (944)
Q Consensus 15 m~V~~A-~tG~sl---~ld~~~f~sVe~LK~~Ia~~~gI-p~~~QILL~~-------G~kL~~~~~L~~y~l~td~~eIy 82 (944)
|.|.+. -+|+.+ .+++.+..||++||..|+++.++ +++.|.|... |..|++..+|.+||+. +..+||
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~-~gstLy 79 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLG-DGGTVV 79 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCC-CCceEE
Confidence 445554 578887 68888889999999999999997 8889999642 2357778899999997 678888
Q ss_pred EEe
Q 002272 83 IFN 85 (944)
Q Consensus 83 Vfd 85 (944)
|=|
T Consensus 80 ~kD 82 (308)
T PLN02560 80 FKD 82 (308)
T ss_pred EEe
Confidence 877
No 47
>cd00196 UBQ Ubiquitin-like proteins. Ubiquitin homologs; Includes ubiquitin and ubiquitin-like proteins. Ubiquitin-mediated proteolysis is part of the regulated turnover of proteins required for controlling cell cycle progression. Other family members are protein modifiers that perform a wide range of functions. Ubiquitination usually results in a covalent bond between the C-terminus of ubiquitin and the epsilon-amino group of a substrate lysine. The three-step mechanism requires an activating enzyme (E1) that forms a thiol ester with the C-terminal carboxy group, a conjugating enzyme (E2) that transiently carries the activated ubiquitin molecule as a thiol ester, and a ligase (E3) that transfers the activated ubiquitin from the E2 to the substrate lysine residue. In poly-ubiquitination, ubiquitin itself is the substrate.
Probab=94.81 E-value=0.093 Score=41.64 Aligned_cols=62 Identities=21% Similarity=0.281 Sum_probs=50.5
Q ss_pred CCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEE
Q 002272 22 NGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIF 84 (944)
Q Consensus 22 tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVf 84 (944)
+|....+.+....|+.+|+..|...+|+++..+.|+..|..+.+...+..|++. +..+|++.
T Consensus 6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~i~~~ 67 (69)
T cd00196 6 DGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQ-DGDELVLV 67 (69)
T ss_pred CCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCC-CCCEEEEE
Confidence 688888888889999999999999999999999998888888766665556655 45566554
No 48
>PF04108 APG17: Autophagy protein Apg17 ; InterPro: IPR007240 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Autophagy protein 17 (Apg17) is required for activating Apg1 protein kinases. This entry also contains Autophagy protein 11 which is involved in cytoplasm to vacuole transport (Cvt) and pexophagy. ; GO: 0006914 autophagy
Probab=94.17 E-value=15 Score=43.20 Aligned_cols=20 Identities=30% Similarity=0.223 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 002272 432 PAYRACLAEVVRRKASMKLY 451 (944)
Q Consensus 432 ~aYga~LiEVvRRRew~~k~ 451 (944)
-.+...--|..||..|...+
T Consensus 375 eL~~l~eeE~~~Re~F~~e~ 394 (412)
T PF04108_consen 375 ELDKLREEEQRRREAFLKEY 394 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHc
Confidence 44555567899999998776
No 49
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=94.11 E-value=0.1 Score=50.17 Aligned_cols=61 Identities=20% Similarity=0.197 Sum_probs=53.6
Q ss_pred EEEEEecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCC
Q 002272 15 LLVHISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLP 75 (944)
Q Consensus 15 m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~ 75 (944)
|++-+...-.++-+|+...++|-+||+.|+.-...|+++|.|+-.+.-|++.++|..||..
T Consensus 3 vFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t 63 (119)
T cd01788 3 VFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFT 63 (119)
T ss_pred eEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCcc
Confidence 4455556778899999999999999999999999999999999546678999999999985
No 50
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=93.05 E-value=37 Score=44.08 Aligned_cols=44 Identities=7% Similarity=-0.057 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 158 EMCERLLREQKVQERAVEVGRGNLEQYYRVINQNYNDFMKRYSQ 201 (944)
Q Consensus 158 e~ce~Lv~Ei~vq~raL~aAvaNLe~~~~~lek~f~~f~~~f~~ 201 (944)
+.|...+.+++.........+.+++.-...+++.+.+....+..
T Consensus 210 ~qi~~~~~~~~~~~~~~~~~i~~~~e~i~~l~k~i~e~~e~~~~ 253 (1074)
T KOG0250|consen 210 EQITESYSEIMESLDHAKELIDLKEEEIKNLKKKIKEEEEKLDN 253 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence 45566666666666666667777777777777777777666554
No 51
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=91.30 E-value=44 Score=41.04 Aligned_cols=153 Identities=13% Similarity=0.230 Sum_probs=78.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHhhHHHHHHHhhCC------CCCccccc----
Q 002272 170 QERAVEVGRGNLEQYYRVINQNYNDFMKRYSQ--------QQRVHSDLLANFGRDIEKLRSV------KLHPSLQT---- 231 (944)
Q Consensus 170 q~raL~aAvaNLe~~~~~lek~f~~f~~~f~~--------ll~~~~~LL~~we~dLe~Lr~I------pVhpaL~~---- 231 (944)
..-...-++..|+.....++..|+.|.++-.. .+.....-+..++..|+.+..+ .+|..|.-
T Consensus 155 ~~~~~G~a~~~Le~~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~~~l~~~~P~ql~eL~~g 234 (560)
T PF06160_consen 155 HSFSYGPAIEELEKQLENIEEEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLYKELQKEFPDQLEELKEG 234 (560)
T ss_pred hhhhhchhHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHH
Confidence 33445567777888888888888888774432 3333333333333333332220 01111100
Q ss_pred ----ccccccccccC-hhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhhccCC--chhhhHHHHHHHHHH
Q 002272 232 ----ATCKCLLDFVK-EEHLRKSAETCSSSHRQFEN-KVSQFKQIFDDVKRRVEELLNTRASL--PIKNLEMMIKEHQRF 303 (944)
Q Consensus 232 ----ee~kTL~DfVd-~e~Lrk~ae~C~~s~~~f~~-Kl~~Lk~~i~~Ik~~vd~L~~~~~~~--s~~~Le~~i~e~~~L 303 (944)
...+.-.+-++ ...+.+..+.+......+.. ++...+..++.|...++.|.+..... ...............
T Consensus 235 y~~m~~~gy~l~~~~i~~~i~~i~~~l~~~~~~L~~l~l~~~~~~~~~i~~~Id~lYd~le~E~~Ak~~V~~~~~~l~~~ 314 (560)
T PF06160_consen 235 YREMEEEGYYLEHLDIEEEIEQIEEQLEEALALLKNLELDEVEEENEEIEERIDQLYDILEKEVEAKKYVEKNLKELYEY 314 (560)
T ss_pred HHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 02232233334 24455555555555555433 56667777777888887776643221 112233444455556
Q ss_pred HHHHHHHHHHHHHhHHHHH
Q 002272 304 INEQKSIMQSLSKDVSTVK 322 (944)
Q Consensus 304 l~eq~siaQ~LssD~e~v~ 322 (944)
+.+.....+.+...++++.
T Consensus 315 l~~~~~~~~~l~~e~~~v~ 333 (560)
T PF06160_consen 315 LEHAKEQNKELKEELERVS 333 (560)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 6666666666666666664
No 52
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=87.95 E-value=0.77 Score=58.08 Aligned_cols=64 Identities=13% Similarity=0.216 Sum_probs=57.3
Q ss_pred cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEec
Q 002272 21 ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 21 ~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfdR 86 (944)
.+.++-+|-+..-.+|..||..|.++..|+.+.|.++..|+-|.+.+.+..|++ |.+.|+|-+|
T Consensus 10 ld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v--dgk~~hlver 73 (1143)
T KOG4248|consen 10 LDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV--DGKVIHLVER 73 (1143)
T ss_pred cccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC--CCeEEEeecc
Confidence 456666666666689999999999999999999999999999999999999998 5799999998
No 53
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=87.93 E-value=1.1 Score=40.81 Aligned_cols=70 Identities=13% Similarity=0.154 Sum_probs=38.2
Q ss_pred eEEEEEecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeec---Cccc--cccchhccccCCCCCceEEEE
Q 002272 14 KLLVHISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCL---DMKL--EPQKLLSAYRLPSDDKEVFIF 84 (944)
Q Consensus 14 ~m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~---G~kL--~~~~~L~~y~l~td~~eIyVf 84 (944)
+|.|=+.---.+..+++.+..++.+|++.|++.++||...|.|... ...+ .+..+|..+|+. ...=|||+
T Consensus 4 ~milRvrS~dG~~Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglk-HGdmlyL~ 78 (80)
T PF11543_consen 4 SMILRVRSKDGMKRIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLK-HGDMLYLK 78 (80)
T ss_dssp --EEEEE-SSEEEEEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT----TT-EEE--
T ss_pred cEEEEEECCCCCEEEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCC-CccEEEEe
Confidence 4555555444566778888999999999999999999998888544 2334 346788888887 45566765
No 54
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=86.78 E-value=1.7 Score=41.99 Aligned_cols=66 Identities=20% Similarity=0.197 Sum_probs=47.7
Q ss_pred cCCc-eEEecCCCCCCHHHHHHHHHHHhC-------CCCCCeEEeecCccccccchhccccCCCCC-----ceEEEEec
Q 002272 21 ENGH-SFELDCNENSPVEAVMRFIESAAG-------INFNDQLVLCLDMKLEPQKLLSAYRLPSDD-----KEVFIFNK 86 (944)
Q Consensus 21 ~tG~-sl~ld~~~f~sVe~LK~~Ia~~~g-------Ip~~~QILL~~G~kL~~~~~L~~y~l~td~-----~eIyVfdR 86 (944)
.+|. +..+...+.+||.+||+.|.+.|. ..+++..||+.|.-|++..+|..++++..+ ..+.|.-|
T Consensus 10 ~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~~~~~~vmHlvvr 88 (111)
T PF13881_consen 10 ADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGETPGGPTVMHLVVR 88 (111)
T ss_dssp TTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSETT--EEEEEEE-
T ss_pred eCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCCCCCCEEEEEEec
Confidence 4888 778888889999999999999983 355677889999999999999999888544 35555544
No 55
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=77.99 E-value=3.5 Score=46.07 Aligned_cols=61 Identities=10% Similarity=0.285 Sum_probs=47.6
Q ss_pred EEEEEe--cCCc--eEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCC
Q 002272 15 LLVHIS--ENGH--SFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLP 75 (944)
Q Consensus 15 m~V~~A--~tG~--sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~ 75 (944)
|.|++- .+|. .+.+.++..+++.+||+.++...|||+++..+++.|..|.+..++....++
T Consensus 1 m~~lvqf~~~~~~h~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~ 65 (446)
T KOG0006|consen 1 MIVLVQFNKTGSSHGLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLS 65 (446)
T ss_pred CeEEEEeCCccccCceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeeccccc
Confidence 344554 3444 366677888999999999999999999777779999999988888755544
No 56
>PF13949 ALIX_LYPXL_bnd: ALIX V-shaped domain binding to HIV ; PDB: 2XS1_A 2XS8_A 2R03_A 2R02_A 2OEX_B 2OEV_A 2OJQ_A 2R05_A.
Probab=76.85 E-value=1.3e+02 Score=33.38 Aligned_cols=74 Identities=16% Similarity=0.254 Sum_probs=45.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCc---hhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 243 EEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEELLNTRASLP---IKNLEMMIKEHQRFINEQKSIMQSLSK 316 (944)
Q Consensus 243 ~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L~~~~~~~s---~~~Le~~i~e~~~Ll~eq~siaQ~Lss 316 (944)
..+++........+...+..++...+..|.-+....+.|....|..+ .......+..+..+++....|.+.-..
T Consensus 86 l~~~~~~L~~A~~sD~~~~~~~~~~~~~l~~L~~~~~~L~~~lp~~~~~~~~~~~~~i~~L~~ll~~l~~l~~eR~~ 162 (296)
T PF13949_consen 86 LQKYREYLEQASESDSQLRSKLESIEENLELLSGPIEELEASLPSSSPSDSPQVSEVIRQLRELLNKLEELKKEREE 162 (296)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSHHHHHHHS--B---SSGSS-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHcCChhhHHhhCCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667777777888888888888888888888877777655544432 122233444455555555555443333
No 57
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=75.97 E-value=3.1e+02 Score=37.40 Aligned_cols=98 Identities=12% Similarity=0.073 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhH--HHHHHHHHhhhhHHHHHHHHh----ccHHHHHHHHHHHHHH
Q 002272 371 LLDFCQDKKNEMNVFVHNYMQKITYVSYVIKDAKLQF--PVFREAMVRQDDIFADLKLVR----GIGPAYRACLAEVVRR 444 (944)
Q Consensus 371 ~l~~~~~~KneL~~~~~~~Lr~Is~IQs~I~evk~~L--~~l~e~L~~~~~~F~~L~~v~----~lP~aYga~LiEVvRR 444 (944)
-...+....+.+.......++.+..++..|..+...| ..|+..-.++++.+-.+.-.. ++- -|..+|
T Consensus 1055 e~~~l~~~~~~l~~~~a~l~g~~k~le~qi~~l~~eL~e~~yk~a~~ryrka~i~~~~~~~~~~d~~-~~~~~~------ 1127 (1311)
T TIGR00606 1055 EHQKLEENIDLIKRNHVLALGRQKGYEKEIKHFKKELREPQFRDAEEKYREMMIVMRTTELVNKDLD-IYYKTL------ 1127 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcchHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH------
Confidence 3344444455555555666677778888888888777 357777777777666555442 333 333332
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 002272 445 KASMKLYMGMAGQLAERLATKREVEVRRREEFLKANSVYI 484 (944)
Q Consensus 445 Rew~~k~~~~a~~lAEeLa~lrEeE~krRe~F~k~fG~~L 484 (944)
...++...+.=++++.+ .-|+-|++.|.+..
T Consensus 1128 ---~~~~~~~~~~~~~~~n~------~~~~~w~~~~~~~~ 1158 (1311)
T TIGR00606 1128 ---DQAIMKFHSMKMEEINK------IIRDLWRSTYRGQD 1158 (1311)
T ss_pred ---HHHHHHHHHHHHHHHHH------HHHHHHHHHcCccH
Confidence 22333333333333333 34778999887665
No 58
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=75.66 E-value=2e+02 Score=35.23 Aligned_cols=186 Identities=12% Similarity=0.172 Sum_probs=92.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhHHHH-HHHhhCCCCCcccccccccccccccCh--hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 193 NDFMKRYSQQQRVHSDLLANFGRD-IEKLRSVKLHPSLQTATCKCLLDFVKE--EHLRKSAETCSSSHRQFENKVSQFKQ 269 (944)
Q Consensus 193 ~~f~~~f~~ll~~~~~LL~~we~d-Le~Lr~IpVhpaL~~ee~kTL~DfVd~--e~Lrk~ae~C~~s~~~f~~Kl~~Lk~ 269 (944)
..+.+....+..++..+..++.-. .+....+++.|.=.+ ....|+=+. -.+..|.+........-..+...++.
T Consensus 370 ~~~f~~le~~~~~~~~l~~~i~l~~~~~~~n~~~~pe~~~---~~~~d~k~~V~~~l~el~~ei~~~~~~~~~~~~tLq~ 446 (581)
T KOG0995|consen 370 EDFFKELEKKFIDLNSLIRRIKLGIAENSKNLERNPERAA---TNGVDLKSYVKPLLKELLDEISEELHEAENELETLQE 446 (581)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcCCccCc---cccccchhHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333334444555555555555 455555554433222 233343332 34666666666666666666666777
Q ss_pred HHHHHHHHHHHHHhhccCCchhhhHHHHHHHHHHHHHHHHHHHHH--------HHhHHHHHhhhhhhccccccCCCCCCc
Q 002272 270 IFDDVKRRVEELLNTRASLPIKNLEMMIKEHQRFINEQKSIMQSL--------SKDVSTVKKLVDDCLSCQLSSSLRPHD 341 (944)
Q Consensus 270 ~i~~Ik~~vd~L~~~~~~~s~~~Le~~i~e~~~Ll~eq~siaQ~L--------ssD~e~v~~l~D~~v~~~lsss~~~~d 341 (944)
.+++++..++++.... ..++.-+.++....+..+..++.. .+..++++.+.-.
T Consensus 447 ~~~~~~~~i~E~~~~l-----~~~~~el~~~~~~~~~~k~e~eee~~k~~~E~e~le~~l~~l~l~-------------- 507 (581)
T KOG0995|consen 447 HFSNKASTIEEKIQIL-----GEIELELKKAESKYELKKEEAEEEWKKCRKEIEKLEEELLNLKLV-------------- 507 (581)
T ss_pred HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------
Confidence 7777766665543321 111111222222222222222222 2222333222110
Q ss_pred cccccCcchhhhhccchHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHhhhHH
Q 002272 342 AVSALGPMYDVHDKSHLPRMQACDRSISKLLDFCQDKKNEMNVFVHNYMQKITY----VSYVIKDAKLQFP 408 (944)
Q Consensus 342 ~vS~Ls~m~e~H~kelLP~L~~~~~eL~d~l~~~~~~KneL~~~~~~~Lr~Is~----IQs~I~evk~~L~ 408 (944)
....|.+. -..+.....++..++..+...+++...++...++.|+. +|+.|-+.+..+.
T Consensus 508 ---~~~~m~~a-----~~~v~s~e~el~~~~~~~~eer~ki~~ql~~~i~~i~~~k~~iqs~le~~k~~~~ 570 (581)
T KOG0995|consen 508 ---LNTSMKEA-----EELVKSIELELDRMVATGEEERQKIAKQLFAVIDQISDFKVSIQSSLENLKADLH 570 (581)
T ss_pred ---HHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 00111111 12355666778888889999999998999888888875 5666666665443
No 59
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=73.23 E-value=13 Score=38.30 Aligned_cols=50 Identities=16% Similarity=0.161 Sum_probs=40.9
Q ss_pred EEEEEe-cCC----ceEEecCCCCCCHHHHHHHHHHHhCCCCCCe-EEe-ecCcccc
Q 002272 15 LLVHIS-ENG----HSFELDCNENSPVEAVMRFIESAAGINFNDQ-LVL-CLDMKLE 64 (944)
Q Consensus 15 m~V~~A-~tG----~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~Q-ILL-~~G~kL~ 64 (944)
|+||+. ..| .++.+.+...++|.+|+..|....++|...| +|. .+++++.
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~ 57 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLS 57 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeC
Confidence 578887 689 6888888888999999999999999999885 443 3466763
No 60
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=67.56 E-value=1.3e+02 Score=35.65 Aligned_cols=36 Identities=33% Similarity=0.436 Sum_probs=24.7
Q ss_pred HhhcchHHHHHHH---HHHHHHHHHhhhHHHHHHHHHHH
Q 002272 629 ALHLKDEYGKHIQ---AMLKAKQMQCVSYEKRIQELEQR 664 (944)
Q Consensus 629 al~~kd~~~~~~~---~~~~~~~~~~~~ye~ri~~le~~ 664 (944)
|-+.|-=|.|.=| ..+..+|.+...|.+|.++||+-
T Consensus 46 ~~rIkq~FekkNqksa~~i~~lqkkL~~y~~~l~ele~~ 84 (395)
T PF10267_consen 46 AARIKQVFEKKNQKSAQTIAQLQKKLEQYHKRLKELEQG 84 (395)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4455655655433 34666778888899999999864
No 61
>cd01811 OASL_repeat1 2'-5' oligoadenylate synthetase-like protein, repeat 1 of 2. OASL_repeat1 (2'-5' oligoadenylate synthetase-like protein) belongs to a family of interferon-induced 2'-5' oligoadenylate synthetases which are important for the antiviral activity of interferons. While each member of this famliy has a conserved N-terminal OAS catalytic domain, only OASL has two tandem ubiquitin-like repeats located at the C-terminus and this CD represents one of those repeats.
Probab=67.51 E-value=21 Score=32.40 Aligned_cols=67 Identities=21% Similarity=0.265 Sum_probs=49.5
Q ss_pred EEEEecCCce-EEecCCCCCCHHHHHHHHHHHhCCCCCCeEE-eec-Ccc---ccccchhccccCCCCCceEEEE
Q 002272 16 LVHISENGHS-FELDCNENSPVEAVMRFIESAAGINFNDQLV-LCL-DMK---LEPQKLLSAYRLPSDDKEVFIF 84 (944)
Q Consensus 16 ~V~~A~tG~s-l~ld~~~f~sVe~LK~~Ia~~~gIp~~~QIL-L~~-G~k---L~~~~~L~~y~l~td~~eIyVf 84 (944)
+|-+.-.|.. +.+-+++.+.+-.+|+-|...+|++- .|.| +-. |+. |.+..+|+.||+=. .-.|.|.
T Consensus 2 qVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs-~~~i~ll 74 (80)
T cd01811 2 QVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFS-KTNICLL 74 (80)
T ss_pred EEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhccee-ccEEEEE
Confidence 4556655655 66678899999999999999999999 7888 533 543 56789999999873 3344443
No 62
>cd09234 V_HD-PTP_like Protein-interacting V-domain of mammalian His-Domain type N23 protein tyrosine phosphatase and related domains. This family contains the V-shaped (V) domain of mammalian His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23) and related domains. It belongs to the V_Alix_like superfamily which includes the V domains of Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, mammalian Alix (apoptosis-linked gene-2 interacting protein X/ also known as apoptosis-linked gene-2 interacting protein 1, AIP1), and related domains. HD_PTP interacts with the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in cell migration and endosomal trafficking. The related Alix V-domain (belonging to a different family in this superfamily) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. The Alix V-domain is also a dimerization domain. In addi
Probab=65.74 E-value=2.5e+02 Score=32.19 Aligned_cols=70 Identities=16% Similarity=0.207 Sum_probs=46.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchh---hhHHHHHHHHHHHHHHHHHHH
Q 002272 243 EEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEELLNTRASLPIK---NLEMMIKEHQRFINEQKSIMQ 312 (944)
Q Consensus 243 ~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L~~~~~~~s~~---~Le~~i~e~~~Ll~eq~siaQ 312 (944)
..+++...+....+...+..++......|.-+....+.|....|+.+.. ..+..+...+.+++++..|-+
T Consensus 133 ~~k~~~~L~~A~~sD~~l~~~~~~~~~~l~lL~~~~~~l~~~iPs~~~~~~~~~~~~v~~Lr~ll~kl~~lk~ 205 (337)
T cd09234 133 LKKYKEAHEKASQSNTELHKAMNLHIANLKLLAGPLDELQKKLPSPSLLDRPEDEAIEKELKRILNKVNEMRK 205 (337)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHhhCCCccccCCcccHHHHHHHHHHHHHHHHHHH
Confidence 3567777777888889999999999889998988888887765554322 222234444555555544443
No 63
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=63.85 E-value=4.1e+02 Score=33.96 Aligned_cols=85 Identities=14% Similarity=0.325 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhCCCCCcccccccccccccccChhHHHHHHHHHHHH
Q 002272 177 GRGNLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGRDIEKLRSVKLHPSLQTATCKCLLDFVKEEHLRKSAETCSSS 256 (944)
Q Consensus 177 AvaNLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~dLe~Lr~IpVhpaL~~ee~kTL~DfVd~e~Lrk~ae~C~~s 256 (944)
-++.+......+..+-....+.|....++|..+..+.+..|..+.. . .|.+.. .-++|.++.
T Consensus 580 ~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~-~-~P~LS~-------------AEr~~~~EL--- 641 (717)
T PF10168_consen 580 ELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNS-Q-LPVLSE-------------AEREFKKEL--- 641 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-c-CCCCCH-------------HHHHHHHHH---
Confidence 3346666677777777778888999999999999999999998865 1 111111 124454443
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 257 HRQFENKVSQFKQIFDDVKRRVEE 280 (944)
Q Consensus 257 ~~~f~~Kl~~Lk~~i~~Ik~~vd~ 280 (944)
+.+..++..++..++.++...+.
T Consensus 642 -~~~~~~l~~l~~si~~lk~k~~~ 664 (717)
T PF10168_consen 642 -ERMKDQLQDLKASIEQLKKKLDY 664 (717)
T ss_pred -HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555666666666666553
No 64
>cd08915 V_Alix_like Protein-interacting V-domain of mammalian Alix and related domains. This superfamily contains the V-shaped (V) domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, and related domains. Alix, HD-PTP, Bro1, and Rim20 all interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix, also known as apoptosis-linked gene-2 interacting protein 1 (AIP1), participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP functions in cell migration and endosomal trafficking, Bro1 in endosomal trafficking, and Rim20 in the response to the external pH via the Rim101 pathway. The Alix V-domain contains
Probab=63.71 E-value=2.7e+02 Score=31.83 Aligned_cols=70 Identities=14% Similarity=0.056 Sum_probs=44.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCc---hhhhHHHHHHHHHHHHHHHHHHH
Q 002272 243 EEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEELLNTRASLP---IKNLEMMIKEHQRFINEQKSIMQ 312 (944)
Q Consensus 243 ~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L~~~~~~~s---~~~Le~~i~e~~~Ll~eq~siaQ 312 (944)
..+++........+...+..++...+..+..+..+.+.+....|+.. .......+.....++++...|-+
T Consensus 135 ~~k~~~~L~~A~~sD~~l~~~~~~~~~~l~lL~~~~~~l~~~~Ps~~~~~~~~~~~~v~~Lr~~l~~l~~lk~ 207 (342)
T cd08915 135 VTKLRGYLEQASNSDNEVLQCYESIDPNLVLLCGGYKELKAFIPSPYPALDPEVSEVVSSLRPLLNEVSELEK 207 (342)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhcCChHHHHHhCCCccccCCchhhHHHHHHHHHHHHHHHHHH
Confidence 35677788888888899999999988888888877776655544211 01122334444555555544443
No 65
>PF12179 IKKbetaNEMObind: I-kappa-kinase-beta NEMO binding domain; InterPro: IPR022007 This domain family is found in eukaryotes, and is approximately 40 amino acids in length. The family is found in association with PF00069 from PFAM. These proteins are involved in inflammatory reactions. They cause release of NF-kappa-B into the nucleus of inflammatory cells and upregulation of transcription of proinflammatory cytokines. They perform this function by phosphorylating I-kappa-B proteins which are targeted for degradation to release NF-kappa-B. This kinase (I-kappa-kinase-beta) is found in association with IKK-alpha and NEMO (NF-kappa-B essential modulator). This domain is the binding site of IKK-beta for NEMO. ; GO: 0008384 IkappaB kinase activity; PDB: 3BRT_C 3BRV_C.
Probab=63.63 E-value=7.8 Score=30.57 Aligned_cols=25 Identities=24% Similarity=0.445 Sum_probs=22.9
Q ss_pred HHHHhhhhhhhhhhHHhhhHHHHHH
Q 002272 862 RQKLLDESQMNCAHLENCLHEAREE 886 (944)
Q Consensus 862 ~~~~~~~~~~~~~~~~~~~~~~~~~ 886 (944)
+..|+.|.|--|.+|++.++||++|
T Consensus 1 s~~lv~En~~~lsqL~s~mqdt~~E 25 (38)
T PF12179_consen 1 SEQLVEENQNYLSQLESLMQDTMKE 25 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4579999999999999999999987
No 66
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=62.93 E-value=2.4e+02 Score=30.94 Aligned_cols=26 Identities=4% Similarity=0.029 Sum_probs=13.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 360 RMQACDRSISKLLDFCQDKKNEMNVF 385 (944)
Q Consensus 360 ~L~~~~~eL~d~l~~~~~~KneL~~~ 385 (944)
.+.+...-|.++++-|...|..+...
T Consensus 103 d~~~l~e~L~eYiR~i~svK~~f~~R 128 (234)
T cd07664 103 DFYLFSELLGDYIRLIAAVKGVFDQR 128 (234)
T ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 34444445555666555555444433
No 67
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=62.05 E-value=56 Score=31.19 Aligned_cols=73 Identities=11% Similarity=0.272 Sum_probs=58.5
Q ss_pred CCeEEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEEe
Q 002272 12 EGKLLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 12 ~~~m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
+.++.+-++ ..|..+.|.+...+.+..|+..-.+..|++.+.-.||+.|.++...++=..++.- +..+|=||-
T Consensus 18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mE-d~D~Iev~~ 91 (99)
T KOG1769|consen 18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEME-DGDEIEVVQ 91 (99)
T ss_pred cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCc-CCcEEEEEe
Confidence 355666666 6788889999999999999999999999999888889999999877666666655 456666654
No 68
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=61.01 E-value=1.4e+02 Score=27.91 Aligned_cols=36 Identities=14% Similarity=0.212 Sum_probs=29.3
Q ss_pred HHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 423 DLKLVRGIGPAYRACLAEVVRRKASMKLYMGMAGQL 458 (944)
Q Consensus 423 ~L~~v~~lP~aYga~LiEVvRRRew~~k~~~~a~~l 458 (944)
-+..+..-|.-|+..-.|+.+||.|...+...+..+
T Consensus 61 aV~ive~np~kF~l~~~Ei~~Rr~fv~~~~~~i~~~ 96 (97)
T PF09177_consen 61 AVRIVEKNPSKFNLSEEEISRRRQFVSAIRNQIKQM 96 (97)
T ss_dssp HHHHHHCCHHHHT-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhCccccCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 455567779999999999999999999998777654
No 69
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=58.08 E-value=3.7e+02 Score=31.58 Aligned_cols=239 Identities=15% Similarity=0.207 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhCCCCCcccccccccccccccChhHHHHHHHHHH
Q 002272 175 EVGRGNLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGRDIEKLRSVKLHPSLQTATCKCLLDFVKEEHLRKSAETCS 254 (944)
Q Consensus 175 ~aAvaNLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~dLe~Lr~IpVhpaL~~ee~kTL~DfVd~e~Lrk~ae~C~ 254 (944)
...+.+|+.....+...............+.+......-..+|+.... .....-
T Consensus 17 e~SL~~ld~~i~~l~~~i~~ld~eI~~~v~~q~~~~~~~~~~l~~a~~--------------------------~i~~L~ 70 (383)
T PF04100_consen 17 EQSLSNLDELIAKLRKEIRELDEEIKELVREQSSSGQDAEEDLEEAQE--------------------------AIQELF 70 (383)
T ss_pred hHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccHHHHHH--------------------------HHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchhhhHHHHHHHHHH------HHHHHHHHHHHHHhHHHHHhhhhhh
Q 002272 255 SSHRQFENKVSQFKQIFDDVKRRVEELLNTRASLPIKNLEMMIKEHQRF------INEQKSIMQSLSKDVSTVKKLVDDC 328 (944)
Q Consensus 255 ~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L~~~~~~~s~~~Le~~i~e~~~L------l~eq~siaQ~LssD~e~v~~l~D~~ 328 (944)
.-...+..+-.+-+..+.+|.++|..| ....++|...++-+++| ++..+.+++ .++|..+..+...
T Consensus 71 ~~i~~ik~kA~~sE~~V~~it~dIk~L-----D~AKrNLT~SIT~LkrL~MLv~a~~qL~~~~~--~r~Y~e~a~~L~a- 142 (383)
T PF04100_consen 71 EKISEIKSKAEESEQMVQEITRDIKQL-----DNAKRNLTQSITTLKRLQMLVTAVEQLKELAK--KRQYKEIASLLQA- 142 (383)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--cCCHHHHHHHHHH-
Q ss_pred ccccccCCCCCCccccccCcchhhhhccchHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHH
Q 002272 329 LSCQLSSSLRPHDAVSALGPMYDVHDKSHLPRMQACDRSISKLLDFCQDKKNEMNVFVHNYM-----QKITYVSYVIKDA 403 (944)
Q Consensus 329 v~~~lsss~~~~d~vS~Ls~m~e~H~kelLP~L~~~~~eL~d~l~~~~~~KneL~~~~~~~L-----r~Is~IQs~I~ev 403 (944)
+..+-......+. +|.+.+....+..+...+ +..+.......+ ..-......+.+.
T Consensus 143 --------------v~~L~~~F~~yks--i~~I~~L~~~i~~l~~~L---~~qI~~df~~~f~~~~~~~~~~~~~~l~~a 203 (383)
T PF04100_consen 143 --------------VKELLEHFKPYKS--IPQIAELSKRIDQLQNEL---KEQIFEDFEELFGSQGDESPGQSSQQLSDA 203 (383)
T ss_pred --------------HHHHHHHHHcccC--cHHHHHHHHHHHHHHHHH---HHHHHHHHHHHhccCCcccccchHhHHHHH
Q ss_pred hhhHHHHHHHHHhhhhHHHHHHHHhccHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 404 KLQFPVFREAMVRQDDIFADLKLVRGIGPAY-----RACLAEVVRRKASMKLYMGMAGQLAERLATKREVEVRRREEFLK 478 (944)
Q Consensus 404 k~~L~~l~e~L~~~~~~F~~L~~v~~lP~aY-----ga~LiEVvRRRew~~k~~~~a~~lAEeLa~lrEeE~krRe~F~k 478 (944)
=.-+..+.......--.+-.=.++..|-.+| .+.|=-+-||..|.+... ..|-.
T Consensus 204 C~vvd~L~~~~r~~li~wf~~~qL~eY~~iF~~~~e~~~Ld~i~RRy~Wfkr~L---------------------~~~e~ 262 (383)
T PF04100_consen 204 CLVVDALGPDVREELIDWFCNKQLKEYRRIFRENDEAASLDNIDRRYAWFKRLL---------------------KNFEE 262 (383)
T ss_pred HHHHHHcCchHHHHHHHHHHHHHHHHHHHHHcccccccchhhHHHHHHHHHHHH---------------------HHHHh
Q ss_pred HhhccCChh
Q 002272 479 ANSVYIPRD 487 (944)
Q Consensus 479 ~fG~~LP~d 487 (944)
.||..||.+
T Consensus 263 ~~~~iFP~~ 271 (383)
T PF04100_consen 263 KFANIFPPS 271 (383)
T ss_pred hccccCCCc
No 70
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=57.98 E-value=16 Score=34.51 Aligned_cols=61 Identities=18% Similarity=0.190 Sum_probs=49.5
Q ss_pred EEEEEecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEee-c-CccccccchhccccCC
Q 002272 15 LLVHISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLC-L-DMKLEPQKLLSAYRLP 75 (944)
Q Consensus 15 m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~-~-G~kL~~~~~L~~y~l~ 75 (944)
|++-+.-.-.++-+|+.+..||=+||..++.-+.=|+++|.|.. . ..-|++..+|+..|..
T Consensus 3 ~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~gft 65 (110)
T KOG4495|consen 3 VFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDCGFT 65 (110)
T ss_pred eeeeeeecceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhcccc
Confidence 34444556778889999999999999999999999999999944 3 4667888999887655
No 71
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=57.43 E-value=90 Score=28.10 Aligned_cols=30 Identities=20% Similarity=0.309 Sum_probs=25.3
Q ss_pred hhhhHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 002272 836 DQLSETQTKLKAVMEEVVMLGRELEMRQKL 865 (944)
Q Consensus 836 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 865 (944)
..++..|.|...+|+-++.|+.|++.-++-
T Consensus 4 E~l~~LE~ki~~aveti~~Lq~e~eeLke~ 33 (72)
T PF06005_consen 4 ELLEQLEEKIQQAVETIALLQMENEELKEK 33 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457889999999999999999998876654
No 72
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=57.20 E-value=1.3e+02 Score=31.27 Aligned_cols=84 Identities=18% Similarity=0.256 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhhhhhhhHHhhhHHHHHHHHhhh-------hhh
Q 002272 822 ELVLKLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQKLLDESQMNCAHLENCLHEAREEAQTHL-------CAA 894 (944)
Q Consensus 822 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~ 894 (944)
..+.+++..+.+..+++++.+.++.....+...+++.....++++..-+...-.++...++.++|.+.-. |..
T Consensus 81 ~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~~~~~~~~~~~ 160 (191)
T PF04156_consen 81 GELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQKELQDSREEV 160 (191)
T ss_pred hhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677888888888888888888888888888888888887777777777766666666666666555433 555
Q ss_pred hhhhhhhhHhh
Q 002272 895 DRRASEYSALR 905 (944)
Q Consensus 895 ~~~~~~~~~~~ 905 (944)
+....+|..++
T Consensus 161 ~~~~~~~~~~~ 171 (191)
T PF04156_consen 161 QELRSQLERLQ 171 (191)
T ss_pred HHHHHHHHHHH
Confidence 55555555443
No 73
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=56.91 E-value=1.4e+02 Score=35.89 Aligned_cols=59 Identities=10% Similarity=0.105 Sum_probs=48.7
Q ss_pred EEEEecCCceEEec-CCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccC
Q 002272 16 LVHISENGHSFELD-CNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRL 74 (944)
Q Consensus 16 ~V~~A~tG~sl~ld-~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l 74 (944)
.|.+...|..+.++ ++.-.++..||++|...||+||+.|-++.-|+-+.+.-.....++
T Consensus 5 ~v~VKW~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~i 64 (473)
T KOG1872|consen 5 TVIVKWGGKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQI 64 (473)
T ss_pred eEeeeecCccccceeccCCCchHHHHHHHHHhcCCCccceeEEEeccccccccccccccc
Confidence 45667899999998 888899999999999999999999999888888876544444443
No 74
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=54.94 E-value=5.7e+02 Score=32.80 Aligned_cols=26 Identities=19% Similarity=0.304 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 256 SHRQFENKVSQFKQIFDDVKRRVEEL 281 (944)
Q Consensus 256 s~~~f~~Kl~~Lk~~i~~Ik~~vd~L 281 (944)
-++++.+|+.+++-.+...+..|+.+
T Consensus 452 k~qqls~kl~Dvr~~~tt~kt~ie~~ 477 (1118)
T KOG1029|consen 452 KLQQLSGKLQDVRVDITTQKTEIEEV 477 (1118)
T ss_pred HHHHHhhhhhhheeccchHHHHHHHh
Confidence 33444444444444444444444444
No 75
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=53.34 E-value=76 Score=39.04 Aligned_cols=92 Identities=26% Similarity=0.289 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHhhhhhhHHHHH----HHHHHHHHHHhHHHHHHHHHHhhhhhhhhhhHHhhhHHHHHHHHhh------
Q 002272 821 SELVLKLQSALADKSDQLSETQTK----LKAVMEEVVMLGRELEMRQKLLDESQMNCAHLENCLHEAREEAQTH------ 890 (944)
Q Consensus 821 ~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------ 890 (944)
++.++.||+++...-+++.+.+++ ..+--+||.-+-.|||.++.-+..-|--|.||.+-|..|-+..+--
T Consensus 202 e~ki~~lq~a~~~t~~el~~~~s~~dee~~~k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~~~~~i~ 281 (629)
T KOG0963|consen 202 EKKISSLQSAIEDTQNELFDLKSKYDEEVAAKAAEVSLIMTELEDAQQRIVFLEREVEQLREQLAKANSSKKLAKIDDID 281 (629)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCchH
Q ss_pred -----hhhhhhhhh----hhhHhhhhHHHHh
Q 002272 891 -----LCAADRRAS----EYSALRASAVKLR 912 (944)
Q Consensus 891 -----~~~~~~~~~----~~~~~~~~~~~~~ 912 (944)
+|.-||=-+ +|--+++|-++.+
T Consensus 282 ~~~~~L~~kd~~i~~L~~di~~~~~S~~~e~ 312 (629)
T KOG0963|consen 282 ALGSVLNQKDSEIAQLSNDIERLEASLVEER 312 (629)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
No 76
>cd01773 Faf1_like1_UBX Faf1 ike-1 UBX domain. Faf1_like1 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=53.10 E-value=97 Score=28.62 Aligned_cols=74 Identities=19% Similarity=0.218 Sum_probs=55.5
Q ss_pred cCCeEEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeec-C-ccc---cccchhccccCCCCCceEEEE
Q 002272 11 HEGKLLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCL-D-MKL---EPQKLLSAYRLPSDDKEVFIF 84 (944)
Q Consensus 11 ~~~~m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~-G-~kL---~~~~~L~~y~l~td~~eIyVf 84 (944)
.++..+|.+. .+|..+.--....+++.+|..||.. .|.+.+.--|+++ . ..+ +-..+|...|+. -.-.|||=
T Consensus 2 ~~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~-P~~~LfVq 79 (82)
T cd01773 2 NGPKARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLC-PQETVFVQ 79 (82)
T ss_pred CCCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCC-CCcEEEEe
Confidence 3556677776 8999998887788999999999998 6878777777766 3 333 334688888877 45678887
Q ss_pred ec
Q 002272 85 NK 86 (944)
Q Consensus 85 dR 86 (944)
+|
T Consensus 80 ~r 81 (82)
T cd01773 80 ER 81 (82)
T ss_pred cC
Confidence 65
No 77
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=52.55 E-value=78 Score=32.50 Aligned_cols=75 Identities=19% Similarity=0.314 Sum_probs=60.2
Q ss_pred hHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHH--HHHHHHhhhhhhhhhhHHhhhHHHHHHHHhhhhhhhh
Q 002272 821 SELVLKLQSALADKSDQLSETQTKLKAVMEEVVMLGREL--EMRQKLLDESQMNCAHLENCLHEAREEAQTHLCAADR 896 (944)
Q Consensus 821 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 896 (944)
.+.+.++...+.+..+++.+++...+.+-.|++.|..++ +..+..+.+-+-.|..|+.+|+..|. ...+....|+
T Consensus 71 ~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~t~~el~~~i~~l~~e~~~l~~kL~~l~~-~~~~vs~ee~ 147 (169)
T PF07106_consen 71 PEELAELDAEIKELREELAELKKEVKSLEAELASLSSEPTNEELREEIEELEEEIEELEEKLEKLRS-GSKPVSPEEK 147 (169)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCCCHHHH
Confidence 456788888899999999999999999999999999887 45566677777789999999999998 3334344343
No 78
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=52.39 E-value=6.6e+02 Score=32.82 Aligned_cols=123 Identities=15% Similarity=0.161 Sum_probs=58.8
Q ss_pred chHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhhh-HHHHHHHHhccH----
Q 002272 357 HLPRMQACDRSISKLLDFCQDKKNEMNVFVHNYMQKITYVSYVIKDAKLQFPVFREAMVRQDD-IFADLKLVRGIG---- 431 (944)
Q Consensus 357 lLP~L~~~~~eL~d~l~~~~~~KneL~~~~~~~Lr~Is~IQs~I~evk~~L~~l~e~L~~~~~-~F~~L~~v~~lP---- 431 (944)
+..+-.+....|++.++.+.-.+.++....-..+..|...+.-|.+++.....+++.+.-+.+ .|.--...++=|
T Consensus 484 L~Esn~ele~DLreEld~~~g~~kel~~r~~aaqet~yDrdqTI~KfRelva~Lqdqlqe~~dq~~Sseees~q~~s~~~ 563 (1243)
T KOG0971|consen 484 LQESNRELELDLREELDMAKGARKELQKRVEAAQETVYDRDQTIKKFRELVAHLQDQLQELTDQQESSEEESQQPPSVDP 563 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhcCCCCCch
Confidence 334444555566666666655555555555555555555555555555555555555543332 333333333333
Q ss_pred --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCChhhhccCC
Q 002272 432 --PAYRACLAEVVRRKASMKLYMGMAGQLAERLATKREVEVRRREEFLKANSVYIPRDILGSMG 493 (944)
Q Consensus 432 --~aYga~LiEVvRRRew~~k~~~~a~~lAEeLa~lrEeE~krRe~F~k~fG~~LP~dL~~~~G 493 (944)
..|..-+.|. |.|.+.+.. .++.-|+..-..-..-+-.|+|..++. +|
T Consensus 564 et~dyk~~fa~s---kayaraie~----------QlrqiEv~~a~rh~~~l~AFmPdsFlr-rG 613 (1243)
T KOG0971|consen 564 ETFDYKIKFAES---KAYARAIEM----------QLRQIEVAQANRHMSLLTAFMPDSFLR-RG 613 (1243)
T ss_pred hhhHHHHHHHHh---HHHHHHHHH----------HHHHHHHHHHHHHHHHHHHhCcHhhcc-CC
Confidence 2233222222 222222221 234445555555556666778876654 45
No 79
>PF15546 DUF4653: Domain of unknown function (DUF4653)
Probab=51.17 E-value=1.3e+02 Score=32.23 Aligned_cols=63 Identities=11% Similarity=0.188 Sum_probs=49.0
Q ss_pred cchHhHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHhhhHHH-HHHHHHhhh
Q 002272 356 SHLPRMQACDRSISKLLDFCQDKKNEMNVFV-----HNYMQKITYVSYVIKDAKLQFPV-FREAMVRQD 418 (944)
Q Consensus 356 elLP~L~~~~~eL~d~l~~~~~~KneL~~~~-----~~~Lr~Is~IQs~I~evk~~L~~-l~e~L~~~~ 418 (944)
-++|.+.+-...|.+.-+.=.+.|.+.-.++ +..||||-.+|.++.+-.++|.. |..-|+..+
T Consensus 153 ~l~psva~Avq~Lq~~Er~KeqEkEKHhv~LvMYRRLALl~Wir~LQ~~~~dQQ~RLQeSFDtILdnRK 221 (239)
T PF15546_consen 153 PLLPSVAEAVQQLQAQERYKEQEKEKHHVHLVMYRRLALLRWIRGLQHQLVDQQNRLQESFDTILDNRK 221 (239)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 5789999998888888877777777655554 46688999999999999999885 655555443
No 80
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=51.04 E-value=4.4e+02 Score=31.53 Aligned_cols=72 Identities=11% Similarity=0.168 Sum_probs=54.2
Q ss_pred chHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhhhHHHHHHHHh
Q 002272 357 HLPRMQACDRSISKLLDFCQDKKNEMNVFVHNYMQKITYVSYVIKDAKLQFPVFREAMVRQDDIFADLKLVR 428 (944)
Q Consensus 357 lLP~L~~~~~eL~d~l~~~~~~KneL~~~~~~~Lr~Is~IQs~I~evk~~L~~l~e~L~~~~~~F~~L~~v~ 428 (944)
+...|.....+|.++-.++...|-.+.+-.=.-|+.|..=|.-+..-...+..+++++.+....|..+.++.
T Consensus 251 v~kdi~~a~~~L~~m~~~i~~~kp~WkKiWE~EL~~V~eEQqfL~~QedL~~DL~eDl~k~~etf~lveq~~ 322 (424)
T PF03915_consen 251 VAKDISRASKELKKMKEYIKTEKPIWKKIWESELQKVCEEQQFLKLQEDLLSDLKEDLKKASETFALVEQCT 322 (424)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334566777777777777888887777777788888887666666666666678888888888888888874
No 81
>PF15272 BBP1_C: Spindle pole body component BBP1, C-terminal
Probab=49.92 E-value=16 Score=38.80 Aligned_cols=20 Identities=35% Similarity=0.743 Sum_probs=17.9
Q ss_pred HHHHhhhHHHHHHHHHHHHH
Q 002272 647 KQMQCVSYEKRIQELEQRLS 666 (944)
Q Consensus 647 ~~~~~~~ye~ri~~le~~l~ 666 (944)
.+++..+||.||++||-+|.
T Consensus 130 r~~e~~~YesRI~dLE~~L~ 149 (196)
T PF15272_consen 130 RERERIAYESRIADLERQLN 149 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 55778899999999999998
No 82
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=49.70 E-value=3.9e+02 Score=29.39 Aligned_cols=13 Identities=31% Similarity=0.654 Sum_probs=7.3
Q ss_pred HhhHHHHHHHhhC
Q 002272 210 LANFGRDIEKLRS 222 (944)
Q Consensus 210 L~~we~dLe~Lr~ 222 (944)
+.++..+++.|..
T Consensus 54 l~~L~~d~~~L~~ 66 (264)
T PF06008_consen 54 LESLEQDVENLQE 66 (264)
T ss_pred HHHHHHHHHHHHH
Confidence 5555555555544
No 83
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=47.82 E-value=27 Score=36.34 Aligned_cols=46 Identities=28% Similarity=0.488 Sum_probs=29.4
Q ss_pred hhHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhhhhhhhHHhhhHHHHHHH
Q 002272 838 LSETQTKLKAVMEEVVMLGRELEMRQKLLDESQMNCAHLENCLHEAREEA 887 (944)
Q Consensus 838 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 887 (944)
|.++|.||+.++|.=+.|..||+.-..|.-++| .|..-|.+.|.|+
T Consensus 2 LeD~EsklN~AIERnalLE~ELdEKE~L~~~~Q----RLkDE~RDLKqEl 47 (166)
T PF04880_consen 2 LEDFESKLNQAIERNALLESELDEKENLREEVQ----RLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH------------------
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH
Confidence 678999999999999999999999888888877 5776677777776
No 84
>cd09237 V_ScBro1_like Protein-interacting V-domain of Saccharomyces cerevisiae Bro1 and related domains. This family contains the V-shaped (V) domain of Saccharomyces cerevisiae Bro1, and related domains. It belongs to the V_Alix_like superfamily which also includes the V-domain of Saccharomyces cerevisiae Rim20 (also known as PalA), mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Bro1 interacts with the ESCRT (Endosomal Sorting Complexes Required for Transport) system, and participates in endosomal trafficking. The mammalian Alix V-domain (belonging to a different family) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. The Alix V-domain is also a dimerization domain. Bro1 also has an N-terminal Bro1-like domain, which binds Snf7, a component of the ESCRT-III complex, and a C-terminal proline-rich
Probab=47.60 E-value=5e+02 Score=29.98 Aligned_cols=38 Identities=18% Similarity=0.044 Sum_probs=30.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 243 EEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEE 280 (944)
Q Consensus 243 ~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~ 280 (944)
..+++........+...+..++...+..|..++.....
T Consensus 130 ~~k~~~~L~~A~~SD~~l~~~~~~~~~~l~lL~~~~~~ 167 (356)
T cd09237 130 LVKLKKSLVEASASDEKLFSLVDPVKEDIALLLNGGSL 167 (356)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHcCChHH
Confidence 45677788888889999999999999999888765443
No 85
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=46.40 E-value=6.6e+02 Score=31.06 Aligned_cols=122 Identities=7% Similarity=0.143 Sum_probs=79.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Q 002272 148 AIYIRTQAKIEMCERLLREQKVQERAVEVGRG-----------NLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGRD 216 (944)
Q Consensus 148 al~~da~~~~e~ce~Lv~Ei~vq~raL~aAva-----------NLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~d 216 (944)
.+...++.+......|..++.....+|.-=.. .+...+....+.-..|...+.++..+.+++-.+|+..
T Consensus 53 ~YIekVR~LEaqN~~L~~di~~lr~~~~~~ts~ik~~ye~El~~ar~~l~e~~~~ra~~e~ei~kl~~e~~elr~~~~~~ 132 (546)
T KOG0977|consen 53 VYIEKVRFLEAQNRKLEHDINLLRGVVGRETSGIKAKYEAELATARKLLDETARERAKLEIEITKLREELKELRKKLEKA 132 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcchhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 45677788888899999999999888765433 3444445566666777778888888888889999888
Q ss_pred HHHhhCCCCCcccccccccccccccCh--------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 217 IEKLRSVKLHPSLQTATCKCLLDFVKE--------EHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVE 279 (944)
Q Consensus 217 Le~Lr~IpVhpaL~~ee~kTL~DfVd~--------e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd 279 (944)
..-+...+ ..+.+|.+. ..++.+.+.|......+.....+|...|..++..++
T Consensus 133 ~k~~~~~r----------e~~~~~~~~l~~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld 193 (546)
T KOG0977|consen 133 EKERRGAR----------EKLDDYLSRLSELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQLD 193 (546)
T ss_pred HHHHhhhH----------HHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence 87777755 334444442 234445555544444444444445455555554443
No 86
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=46.39 E-value=72 Score=27.91 Aligned_cols=38 Identities=24% Similarity=0.314 Sum_probs=30.2
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHH
Q 002272 826 KLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQ 863 (944)
Q Consensus 826 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 863 (944)
.++.+.-.-..+|.+.|.+-..+..||..|++|+|.+|
T Consensus 22 kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r 59 (61)
T PF08826_consen 22 KVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEELR 59 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34455555567888999999999999999999998765
No 87
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=46.20 E-value=5.5e+02 Score=30.05 Aligned_cols=133 Identities=15% Similarity=0.274 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHH----------------HHHHHHHHHhhccCCchhhhHHHHHHHHHHHHHHHHHHHHHHHhH----
Q 002272 259 QFENKVSQFKQIFDD----------------VKRRVEELLNTRASLPIKNLEMMIKEHQRFINEQKSIMQSLSKDV---- 318 (944)
Q Consensus 259 ~f~~Kl~~Lk~~i~~----------------Ik~~vd~L~~~~~~~s~~~Le~~i~e~~~Ll~eq~siaQ~LssD~---- 318 (944)
.|+.++..|++.+.. |...++.|-....-.+...+...-.....|+.+++.+. ..+...
T Consensus 213 ~LE~RL~~LE~~lG~~~~~~~~l~~~~~~~~l~~~l~~L~~~lslL~~~~Ld~i~~rl~~L~~~~~~l~-~~~~~~~~~~ 291 (388)
T PF04912_consen 213 DLEKRLARLESALGIDSDKMSSLDSDTSSSPLLPALNELERQLSLLDPAKLDSIERRLKSLLSELEELA-EKRKEAKEDA 291 (388)
T ss_pred HHHHHHHHHHHHhCCCccccccccccCCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHH-hccccccccc
Q ss_pred ---HHHHhhhhhhccccccCCCCCCccccccCcchhhhhccchHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 319 ---STVKKLVDDCLSCQLSSSLRPHDAVSALGPMYDVHDKSHLPRMQACDRSISKLLDFCQDKKNEMNVFVHNYMQKITY 395 (944)
Q Consensus 319 ---e~v~~l~D~~v~~~lsss~~~~d~vS~Ls~m~e~H~kelLP~L~~~~~eL~d~l~~~~~~KneL~~~~~~~Lr~Is~ 395 (944)
..|..+.+ ++|.+..+...|=.++.++...+ .+=.++....+.+..
T Consensus 292 ~~e~KI~eLy~------------------------------~l~~~~~~~~~lP~lv~RL~tL~-~lH~~a~~~~~~l~~ 340 (388)
T PF04912_consen 292 EQESKIDELYE------------------------------ILPRWDPYAPSLPSLVERLKTLK-SLHEEAAEFSQTLSE 340 (388)
T ss_pred cchhHHHHHHH------------------------------HHHHHHHHhhhhhHHHHHHHHHH-HHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHhhhHHHHHHHHHhhhhHHHH
Q 002272 396 VSYVIKDAKLQFPVFREAMVRQDDIFAD 423 (944)
Q Consensus 396 IQs~I~evk~~L~~l~e~L~~~~~~F~~ 423 (944)
+...+.++...+..+++.|...+..|..
T Consensus 341 le~~q~~l~~~l~~~~~~L~~ve~~~~~ 368 (388)
T PF04912_consen 341 LESQQSDLQSQLKKWEELLNKVEEKFKE 368 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 88
>PHA02047 phage lambda Rz1-like protein
Probab=46.05 E-value=35 Score=32.29 Aligned_cols=61 Identities=18% Similarity=0.232 Sum_probs=46.4
Q ss_pred HHhhcchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhc--cccCCCCCchhhhhhh
Q 002272 628 EALHLKDEYGKHIQAMLKAKQMQCVSYEKRIQELEQRLSDQYLMKQ--KHSNGKDVSDFALLVE 689 (944)
Q Consensus 628 ~al~~kd~~~~~~~~~~~~~~~~~~~ye~ri~~le~~l~~~~~~~~--~~~~~~~~~~~~~~~~ 689 (944)
.+|+.--+-++.|.+.|++.+.|...|-+-++.||++ +++--+-- -+...++-+|.+++..
T Consensus 27 r~~g~~h~~a~~la~qLE~a~~r~~~~Q~~V~~l~~k-ae~~t~Ei~~aL~~n~~WaD~PVPpa 89 (101)
T PHA02047 27 RALGIAHEEAKRQTARLEALEVRYATLQRHVQAVEAR-TNTQRQEVDRALDQNRPWADRPVPPA 89 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhCCCcccCCCChH
Confidence 3666667778999999999999999999999999999 44443322 2556677777776654
No 89
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=43.00 E-value=4.9e+02 Score=28.61 Aligned_cols=40 Identities=8% Similarity=0.223 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Q 002272 446 ASMKLYMGMAGQLAERLATKREVEVRRREEFLKANSVYIP 485 (944)
Q Consensus 446 ew~~k~~~~a~~lAEeLa~lrEeE~krRe~F~k~fG~~LP 485 (944)
++..+=...+.++...+..+.+.=...-+.-.+-++.|+|
T Consensus 192 El~rFe~er~~Dfk~~v~~fles~ie~qke~ie~We~flp 231 (234)
T cd07665 192 EVIRFEKEKSKDFKNHIIKYLETLLHSQQQLVKYWEAFLP 231 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3333445555566666666666666666666666777776
No 90
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=42.60 E-value=1e+03 Score=32.16 Aligned_cols=11 Identities=18% Similarity=0.344 Sum_probs=6.0
Q ss_pred hhHHHHHHHHH
Q 002272 243 EEHLRKSAETC 253 (944)
Q Consensus 243 ~e~Lrk~ae~C 253 (944)
.+.++.+++..
T Consensus 1491 p~si~~vA~~v 1501 (1758)
T KOG0994|consen 1491 PDSIEEVAEEV 1501 (1758)
T ss_pred HHHHHHHHHHH
Confidence 45566655544
No 91
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=42.46 E-value=1.6e+02 Score=26.32 Aligned_cols=62 Identities=13% Similarity=0.121 Sum_probs=42.9
Q ss_pred CeEEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeec-Cc-cccc---cchhccccC
Q 002272 13 GKLLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCL-DM-KLEP---QKLLSAYRL 74 (944)
Q Consensus 13 ~~m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~-G~-kL~~---~~~L~~y~l 74 (944)
...+|-+. .+|..+.--....+++.+|.+||....+.+...=.|+++ .. .+.+ ..+|...|+
T Consensus 3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL 70 (80)
T smart00166 3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELAL 70 (80)
T ss_pred CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCC
Confidence 45666666 899999888888999999999997766766555555554 33 3432 245655554
No 92
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=42.32 E-value=15 Score=32.31 Aligned_cols=55 Identities=15% Similarity=0.297 Sum_probs=42.2
Q ss_pred cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCC
Q 002272 21 ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLP 75 (944)
Q Consensus 21 ~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~ 75 (944)
--|..+.+-|.+-+|+.++|..|+.++|--++..+|=-.+.-++++=+|..|-+.
T Consensus 9 rLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeih 63 (73)
T KOG3493|consen 9 RLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIH 63 (73)
T ss_pred hcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEec
Confidence 4699999999999999999999999999988666653334445555666666554
No 93
>PF11594 Med28: Mediator complex subunit 28; InterPro: IPR021640 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-activity part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. Subunit Med28 of the Mediator may function as a scaffolding protein within Mediator by maintaining the stability of a submodule within the head module, and components of this submodule act together in a gene-regulatory programme to suppress smooth muscle cell differentiation. Thus, mammalian Mediator subunit Med28 functions as a repressor of smooth muscle-cell differentiation, which could have implications for disorders associated with abnormalities in smooth muscle cell growth and differentiation, including atherosclerosis, asthma, hypertension, and smooth muscle tumours [].
Probab=41.59 E-value=1e+02 Score=29.88 Aligned_cols=63 Identities=21% Similarity=0.308 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhhhhhhhHHhhhHHHHH
Q 002272 822 ELVLKLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQKLLDESQMNCAHLENCLHEARE 885 (944)
Q Consensus 822 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 885 (944)
|.+-....-+.+|...|+-.+-| ..+.+|+..|+.||...-.|+..-.=--.+++++|++|.-
T Consensus 15 D~aRq~e~~FlqKr~~LS~~kpe-~~lkEEi~eLK~ElqRKe~Ll~Kh~~kI~~w~~lL~d~~~ 77 (106)
T PF11594_consen 15 DVARQMEAFFLQKRFELSAYKPE-QVLKEEINELKEELQRKEQLLQKHYEKIDYWEKLLSDAQN 77 (106)
T ss_pred HHHHHHHHHHHHHHHHHHhcCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45566677788888888665444 3467899999999999999998888888899999998754
No 94
>PF15450 DUF4631: Domain of unknown function (DUF4631)
Probab=40.86 E-value=7.7e+02 Score=30.24 Aligned_cols=56 Identities=11% Similarity=0.218 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHhhHHHHHHHhhC
Q 002272 167 QKVQERAVEVGRGNLEQYYRVINQNYNDFMKRYSQ--------QQRVHSDLLANFGRDIEKLRS 222 (944)
Q Consensus 167 i~vq~raL~aAvaNLe~~~~~lek~f~~f~~~f~~--------ll~~~~~LL~~we~dLe~Lr~ 222 (944)
+.-|.++++.|+..|..|+..-..+.+.....=.+ ...+..++-..+..+|+.+..
T Consensus 263 l~eq~~~ld~AV~~Ltk~v~~~q~sL~kvl~aE~kaR~~k~~~e~sk~eeL~~~L~~~lea~q~ 326 (531)
T PF15450_consen 263 LLEQCRKLDEAVAQLTKFVQQNQKSLNKVLNAEQKARDAKEKLEESKAEELATKLQENLEAMQL 326 (531)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhHHHHhhHHHHHHHHHHHHHHHHH
Confidence 45578899999999999998888777766552211 112334455555555555443
No 95
>PF08580 KAR9: Yeast cortical protein KAR9; InterPro: IPR013889 The KAR9 protein in Saccharomyces cerevisiae (Baker's yeast) is a cytoskeletal protein required for karyogamy, correct positioning of the mitotic spindle and for orientation of cytoplasmic microtubules []. KAR9 localises at the shmoo tip in mating cells and at the tip of the growing bud in anaphase [].
Probab=40.50 E-value=8.9e+02 Score=30.86 Aligned_cols=221 Identities=10% Similarity=0.100 Sum_probs=0.0
Q ss_pred hHHHHHHHhhCCCCCcccccccccccccccC--------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 002272 212 NFGRDIEKLRSVKLHPSLQTATCKCLLDFVK--------EEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEELLN 283 (944)
Q Consensus 212 ~we~dLe~Lr~IpVhpaL~~ee~kTL~DfVd--------~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L~~ 283 (944)
.|..+|-.|.+|..+.+..-... |...+. ...++.|...-+.....|...+.+++..|..+-.-|+..+.
T Consensus 1 s~~~ql~qlt~i~~~~~~~L~~~--i~~~~~~~~a~~~~~~qi~~Wi~k~k~~l~~L~~~l~~ID~ai~~~l~lIe~~v~ 78 (683)
T PF08580_consen 1 SFSNQLSQLTSILLPIALYLSES--IPTAFNAVKALSGAAEQILDWIQKAKDVLYGLREGLEEIDSAISRFLDLIEVYVS 78 (683)
T ss_pred CcHHHHHHHHhcccchHHHHHHH--hhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcc
Q ss_pred hccC----Cchhh-hHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhhhccccccCCCCCCccccccCcchhhhhccch
Q 002272 284 TRAS----LPIKN-LEMMIKEHQRFINEQKSIMQSLSKDVSTVKKLVDDCLSCQLSSSLRPHDAVSALGPMYDVHDKSHL 358 (944)
Q Consensus 284 ~~~~----~s~~~-Le~~i~e~~~Ll~eq~siaQ~LssD~e~v~~l~D~~v~~~lsss~~~~d~vS~Ls~m~e~H~kelL 358 (944)
..+. .+... +...++...+|..+++...+.+...++...+..+ |+..|
T Consensus 79 ~ie~~q~r~di~~~~~dl~e~vsqm~~~vK~~L~~vK~qveiAmE~~E----------------------L~~~v----- 131 (683)
T PF08580_consen 79 AIEDLQLREDIANSLFDLIEEVSQMELDVKKTLISVKKQVEIAMEWEE----------------------LWNDV----- 131 (683)
T ss_pred ccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH----------------------HHHHH-----
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHH------------------------HHHHHhhhHH
Q 002272 359 PRMQACDRSISKLLDFCQDKKNEMNVFVHNY------MQKITYVSY------------------------VIKDAKLQFP 408 (944)
Q Consensus 359 P~L~~~~~eL~d~l~~~~~~KneL~~~~~~~------Lr~Is~IQs------------------------~I~evk~~L~ 408 (944)
|-.+..+|.+..+.|.+.+..-..-.+.+ |..|...-- .+..+..++.
T Consensus 132 --lg~l~~EIe~~~~~vfemeE~R~~Sp~~~~lp~~~Le~Ive~~~~~~~~~~~~~~lPtF~~~Desl~~~ll~L~arm~ 209 (683)
T PF08580_consen 132 --LGDLDNEIEECIRLVFEMEEKRHSSPVRHGLPIFELETIVEEMPSSTNSSNKRFSLPTFSPQDESLYSSLLALFARMQ 209 (683)
T ss_pred --HHHHHHHHHHHHHHHHHHHHHHccCCcccCCCcccHHHHHHhccccCCCCcCCcCCCCCCcHHHHHHHHHHHHHhccc
Q ss_pred HHHHHHHhhhhHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 409 VFREAMVRQDDIFADLKLVRGIGPAYRACLAEVVRRKASMKLYMGMAGQLAERLATKREV 468 (944)
Q Consensus 409 ~l~e~L~~~~~~F~~L~~v~~lP~aYga~LiEVvRRRew~~k~~~~a~~lAEeLa~lrEe 468 (944)
=++..|+-.=-..+.+.... -..|-.+.-|+..|++ .+...+..+-.++..|+.+
T Consensus 210 PLraSLdfLP~Ri~~F~~ra--~~~fp~a~e~L~~r~~---~L~~k~~~L~~e~~~LK~E 264 (683)
T PF08580_consen 210 PLRASLDFLPMRIEEFQSRA--ESIFPSACEELEDRYE---RLEKKWKKLEKEAESLKKE 264 (683)
T ss_pred hHHHHHHHHHHHHHHHHHHH--HHhhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
No 96
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=40.32 E-value=5e+02 Score=27.97 Aligned_cols=40 Identities=8% Similarity=0.166 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCC
Q 002272 446 ASMKLYMGMAGQLAERLATKREVEVRRREEFLKANSVYIP 485 (944)
Q Consensus 446 ew~~k~~~~a~~lAEeLa~lrEeE~krRe~F~k~fG~~LP 485 (944)
++..+=...+..+...|..+.+.....=+...+-++.|+|
T Consensus 182 El~rF~~erv~dfk~~l~~~le~~i~~q~~~~~~We~~~p 221 (224)
T cd07623 182 EIERFEKNRVKDFKDIIIKYLESLLNTQQQLIKYWEAFLP 221 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3333445666667777777777777777777777777877
No 97
>KOG2196 consensus Nuclear porin [Nuclear structure]
Probab=40.05 E-value=5.6e+02 Score=28.42 Aligned_cols=74 Identities=16% Similarity=0.258 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHhhhhhhccccccCCCCCCccccccCcchhhhhccchHhHHHHHHHHHHHHHHHHHHH
Q 002272 300 HQRFINEQKSIMQSLSKDVSTVKKLVDDCLSCQLSSSLRPHDAVSALGPMYDVHDKSHLPRMQACDRSISKLLDFCQDKK 379 (944)
Q Consensus 300 ~~~Ll~eq~siaQ~LssD~e~v~~l~D~~v~~~lsss~~~~d~vS~Ls~m~e~H~kelLP~L~~~~~eL~d~l~~~~~~K 379 (944)
+..+.+++.+-.+.+..|...+-+-..+... .....+.+..+.++...|-+ -|..+.++.-.|...++.+.+.|
T Consensus 176 ty~~a~nidsqLk~l~~dL~~ii~~lN~~~~-----~~d~t~~~~qi~Kilnah~~-sLqwl~d~st~~e~k~d~i~K~~ 249 (254)
T KOG2196|consen 176 TYKMAENIDSQLKRLSEDLKQIIKSLNTMSK-----TVDKTDPIIQIEKILNAHMD-SLQWLDDNSTQLEKKLDKIKKLK 249 (254)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHhccC-----ccccCCchHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHHHHhhh
Confidence 3456677777777777777766544443221 11223456666666666654 24556666666666666655544
No 98
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=39.82 E-value=73 Score=38.20 Aligned_cols=93 Identities=15% Similarity=0.118 Sum_probs=54.9
Q ss_pred ccchhhhhhhHHHHHHHHHHHhccCCCcccccccccccchhhhhHHHHHHHHhhcchHHHHHHHHHHHHHHHHhhhHHHH
Q 002272 578 SKMEVENAKLKAELASAIALICSLCPEMEYESLDDSKLDGVLKNAAEKTAEALHLKDEYGKHIQAMLKAKQMQCVSYEKR 657 (944)
Q Consensus 578 ~~~e~ena~l~ae~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~kd~~~~~~~~~~~~~~~~~~~ye~r 657 (944)
-+|++.-+||++-|++--.-+..+- ....-..|-+..+ .+..+.....=++=......|.+.++..+.|....+.|
T Consensus 353 G~L~lD~~kl~~al~~np~~V~~lF---~~~~~~~G~~~~l-~~~l~~~~~~~G~l~~~~~~l~~~i~~l~~~i~~~~~r 428 (462)
T PRK08032 353 GKLEIDDDKLTKALKEDPAGVKALF---VGDGKKTGITTQI-ATNLKSWLSTTGIIKTATDGVNKTLKKLTKQYNAVSDS 428 (462)
T ss_pred CeEEEcHHHHHHHHHHCHHHHHHHh---CCCCCCCcHHHHH-HHHHHHHHcCCccchhHHhHHHHHHHHHHHHHHHHHHH
Confidence 3688888899988876554444331 1110011211111 11111111000222223457888899999999999999
Q ss_pred HHHHHHHHHHHHHhhcc
Q 002272 658 IQELEQRLSDQYLMKQK 674 (944)
Q Consensus 658 i~~le~~l~~~~~~~~~ 674 (944)
|..+|+||..||.+-+.
T Consensus 429 l~~~e~rl~~qF~ame~ 445 (462)
T PRK08032 429 IDATIARYKAQFTQLDK 445 (462)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999999986443
No 99
>KOG3691 consensus Exocyst complex subunit Sec8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.70 E-value=7.2e+02 Score=32.36 Aligned_cols=123 Identities=10% Similarity=0.100 Sum_probs=79.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Q 002272 138 QFRYHYHRGHAIYIRTQAKIEMCERLLREQKVQERAVEVGRGNLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGRDI 217 (944)
Q Consensus 138 lf~~~l~wA~al~~da~~~~e~ce~Lv~Ei~vq~raL~aAvaNLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~dL 217 (944)
+..+|.+--......-....+.+..+-..|+....+|.+|-.-|..-+..+++.+.+..++ +..-++|.. +
T Consensus 69 lv~~H~q~~t~~i~sy~~i~s~It~~rerI~~vK~~L~~~k~ll~~~rdeLqklw~~~~q~-----K~Vi~vL~e----i 139 (982)
T KOG3691|consen 69 LVHTHKQDFTTGISSYGEISSGITNCRERIHNVKNNLEACKELLNTRRDELQKLWAENSQY-----KKVIEVLKE----I 139 (982)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhhhhH-----HHHHHHHHH----H
Confidence 3344444333333333444555666778888889999999888888888888887766531 222223332 4
Q ss_pred HHhhCCCCCcccccccccccccccChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 218 EKLRSVKLHPSLQTATCKCLLDFVKEEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEE 280 (944)
Q Consensus 218 e~Lr~IpVhpaL~~ee~kTL~DfVd~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~ 280 (944)
+-|+++| ..+..+|+.+.-.++.+...++...+++++..++. +..++.+++.
T Consensus 140 eEl~qvP----------qkie~~i~keqY~~Asdll~~~~~~lng~L~~VEg-Ls~l~~ele~ 191 (982)
T KOG3691|consen 140 EELRQVP----------QKIETLIAKEQYLQASDLLTRAWELLNGPLDGVEG-LSDLRSELEG 191 (982)
T ss_pred HHHHHhH----------HHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhh-hhHHHHHHHH
Confidence 5567776 45777888888888888888888888888666543 4455555543
No 100
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=39.59 E-value=3.5e+02 Score=27.09 Aligned_cols=77 Identities=27% Similarity=0.331 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHhhhhhhhhhhHHhhhHHHHHHHHhhhhhhhhhhhhhh-HhhhhHHHHhhHHHhh
Q 002272 842 QTKLKAVMEEVVMLGRELEMRQKLLDESQMNCAHLENCLHEAREEAQTHLCAADRRASEYS-ALRASAVKLRGLFERL 918 (944)
Q Consensus 842 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 918 (944)
+..+..+-++++.+.+|+.....=...-+-.+.+++..+...++|.+.-+-....+...|. -+|---.-+-.|=|||
T Consensus 72 ~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~~~~~tq~~~e~rkke~E~~kLk~rL 149 (151)
T PF11559_consen 72 QNDVERLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQLQQRKTQYEHELRKKEREIEKLKERL 149 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3334444455556666666555555555666778888888888888877655555555553 3444444444444444
No 101
>PF01763 Herpes_UL6: Herpesvirus UL6 like; InterPro: IPR002660 This family consists of various proteins from the Herpesviridae that are similar to Human herpesvirus 1 (HHV-1) UL6 virion protein. UL6 is essential for cleavage and packaging of the viral genome [].; GO: 0006323 DNA packaging
Probab=38.99 E-value=87 Score=38.46 Aligned_cols=81 Identities=22% Similarity=0.213 Sum_probs=55.6
Q ss_pred hHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhccccCCCCCchhhhhhhcccCCCCCCCCC-----CCccccc
Q 002272 634 DEYGKHIQAMLKAKQMQCVSYEKRIQELEQRLSDQYLMKQKHSNGKDVSDFALLVEKADDCKPESSGG-----GETHMPC 708 (944)
Q Consensus 634 d~~~~~~~~~~~~~~~~~~~ye~ri~~le~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~ 708 (944)
.+|++.+=..+..++.--.-|++||+++|..|.+.-.+++.-.... +. ++++...+. +...+.-
T Consensus 369 e~qIn~qf~tIe~Lk~~n~~~~~kl~~~e~~L~r~~~~~~~~~~~~-~~----------~~~~~~~~t~~al~~~~~~~~ 437 (557)
T PF01763_consen 369 EGQINNQFDTIEDLKEENQDLEKKLRELESELSRYREEAQRAPQSA-AD----------DANLLTSDTLEALRKVLDHEL 437 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccC-CC----------CcccccccHHHHHHhhccccc
Confidence 6788888888888888899999999999999999888755433321 00 112111111 0112334
Q ss_pred cCCCCCCccccccccch
Q 002272 709 ISTSEPMDEVSCVSNSF 725 (944)
Q Consensus 709 ~~~~~~~~~~~~~~~~~ 725 (944)
+-.+..|++.+.|.|||
T Consensus 438 ~~~s~~~~d~~~VaNSF 454 (557)
T PF01763_consen 438 IDVSSSMDDNRYVANSF 454 (557)
T ss_pred cccccccCCCCeeeecc
Confidence 56788999999999999
No 102
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=38.55 E-value=9.6e+02 Score=30.72 Aligned_cols=28 Identities=18% Similarity=0.076 Sum_probs=17.0
Q ss_pred EEEEEecCCceEEecCCCCCCHHHHHHHHHH
Q 002272 15 LLVHISENGHSFELDCNENSPVEAVMRFIES 45 (944)
Q Consensus 15 m~V~~A~tG~sl~ld~~~f~sVe~LK~~Ia~ 45 (944)
.++|+.|++....+.+.. +..|++|+..
T Consensus 379 ~ryy~~H~~GvH~V~L~w---l~~L~~fl~~ 406 (717)
T PF10168_consen 379 DRYYCYHNAGVHSVTLPW---LSALQEFLES 406 (717)
T ss_pred ceEEEEecCccEEEEecc---HHHHHHHhcc
Confidence 456777877777776642 5555555443
No 103
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=37.26 E-value=1e+03 Score=30.83 Aligned_cols=38 Identities=18% Similarity=0.142 Sum_probs=27.0
Q ss_pred HHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 424 LKLVRGIGPAYRACLAEVVRRKASMKLYMGMAGQLAERL 462 (944)
Q Consensus 424 L~~v~~lP~aYga~LiEVvRRRew~~k~~~~a~~lAEeL 462 (944)
+.-++.+-.+|-.++.|..|||+-.++. ..++.+.|+-
T Consensus 979 FaDi~tFrnaf~ea~~en~krRee~Ek~-rr~k~a~eqs 1016 (1102)
T KOG1924|consen 979 FADIRTFRNAFLEAVAENEKRREEEEKE-RRAKLAKEQS 1016 (1102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 4444555789999999999999987766 4445554443
No 104
>PF00789 UBX: UBX domain; InterPro: IPR001012 The UBX domain is found in ubiquitin-regulatory proteins, which are members of the ubiquitination pathway, as well as a number of other proteins including FAF-1 (FAS-associated factor 1), the human Rep-8 reproduction protein and several hypothetical proteins from yeast. The function of the UBX domain is not known although the fragment of avian FAF-1 containing the UBX domain causes apoptosis of transfected cells.; GO: 0005515 protein binding; PDB: 3QX1_A 1H8C_A 3QCA_B 3QQ8_B 3QC8_B 3R3M_A 3QWZ_B 1S3S_H 1JRU_A 1I42_A ....
Probab=36.52 E-value=1.7e+02 Score=26.06 Aligned_cols=71 Identities=11% Similarity=0.169 Sum_probs=47.5
Q ss_pred CCeEEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCC-eEEeec--Ccccccc--chhccccCCCCCceEEE
Q 002272 12 EGKLLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFND-QLVLCL--DMKLEPQ--KLLSAYRLPSDDKEVFI 83 (944)
Q Consensus 12 ~~~m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~-QILL~~--G~kL~~~--~~L~~y~l~td~~eIyV 83 (944)
.....|-+. .+|..+.--....+++.+|..||......+... =.|+++ ...+... .+|...|+. ....|+|
T Consensus 4 ~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~-p~~~l~v 80 (82)
T PF00789_consen 4 SDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLL-PSATLIV 80 (82)
T ss_dssp SSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTS-SCEEEEE
T ss_pred CCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCC-CCeEEEE
Confidence 345556665 799998888888999999999999999888864 233333 4445433 477666544 2334443
No 105
>KOG2196 consensus Nuclear porin [Nuclear structure]
Probab=36.48 E-value=6.4e+02 Score=28.02 Aligned_cols=113 Identities=10% Similarity=0.102 Sum_probs=63.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HH------HH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q 002272 144 HRGHAIYIRTQAKIEMCERLLREQKVQERAVEVGR-GN------LE---QYYRVINQNYNDFMKRYSQQQRVHSDLLANF 213 (944)
Q Consensus 144 ~wA~al~~da~~~~e~ce~Lv~Ei~vq~raL~aAv-aN------Le---~~~~~lek~f~~f~~~f~~ll~~~~~LL~~w 213 (944)
-|-..+....+.+++.|.+ ..+|+-.+ .| |- .-+..-+++.+....|+..+.++...+|..|
T Consensus 82 kWs~el~~Qe~vF~~q~~q--------vNaWDr~LI~ngekI~~Ly~e~~~vk~~qkrLdq~L~~I~sqQ~ELE~~L~~l 153 (254)
T KOG2196|consen 82 KWSLELEEQERVFLQQATQ--------VNAWDRTLIENGEKISGLYNEVVKVKLDQKRLDQELEFILSQQQELEDLLDPL 153 (254)
T ss_pred HHHHHHHHHHHHHHHHHHH--------HhHHHHHHHhCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777777666666544 34443211 11 11 1122334455555666666777777788877
Q ss_pred HHHHHHhhCCCCCcccccccccccccccChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 214 GRDIEKLRSVKLHPSLQTATCKCLLDFVKEEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEEL 281 (944)
Q Consensus 214 e~dLe~Lr~IpVhpaL~~ee~kTL~DfVd~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L 281 (944)
|.-++.+... ++..-.|+++.+ .-.....|+.++.++..+++.|-..+...
T Consensus 154 E~k~~~~~g~------------~~~~~~D~eR~q-----ty~~a~nidsqLk~l~~dL~~ii~~lN~~ 204 (254)
T KOG2196|consen 154 ETKLELQSGH------------TYLSRADVEREQ-----TYKMAENIDSQLKRLSEDLKQIIKSLNTM 204 (254)
T ss_pred HHHHhccccc------------hhhhhhhHHHHH-----HHHHHHHHHHHHHHHHhhHHHHHHHHHhc
Confidence 7776664442 222233444332 22334677888888888887777666654
No 106
>PF09763 Sec3_C: Exocyst complex component Sec3; InterPro: IPR019160 The exocyst complex is composed of 8 subunits: Exoc1, Exoc2, Exoc3, Exoc4, Exoc5, Exoc6, Exoc7 and Exoc8. This entry represents the subunit Exoc1 (Sec3). Sec3 binds to the C-terminal cytoplasmic domain of GLYT1 (glycine transporter protein 1). Sec3 is the exocyst component that is closest to the plasma membrane docking site and it serves as a spatial landmark in the plasma membrane for incoming secretory vesicles. Sec3 is recruited to the sites of polarised membrane growth through its interaction with Rho1p, a small GTP-binding protein.
Probab=36.41 E-value=9.9e+02 Score=30.22 Aligned_cols=20 Identities=25% Similarity=0.084 Sum_probs=13.3
Q ss_pred hhHHHHHHHHHHHhccCCCc
Q 002272 586 KLKAELASAIALICSLCPEM 605 (944)
Q Consensus 586 ~l~ae~a~~~a~~~~~~~~~ 605 (944)
-+-.|+.+-|..+|..+|=+
T Consensus 397 ~l~~~l~~~v~~~~~~dp~~ 416 (701)
T PF09763_consen 397 FLENELQSFVDWAEKNDPLQ 416 (701)
T ss_pred HHHHHHHHHHHHHHccCchh
Confidence 36667777777777766543
No 107
>PHA02562 46 endonuclease subunit; Provisional
Probab=36.13 E-value=8.6e+02 Score=29.41 Aligned_cols=65 Identities=9% Similarity=0.098 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHh
Q 002272 156 KIEMCERLLREQKVQERAVEVGRGNLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGRDIEKL 220 (944)
Q Consensus 156 ~~e~ce~Lv~Ei~vq~raL~aAvaNLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~dLe~L 220 (944)
+....+.-+.++..+...+..-+..+..+...+...+..-...++............++..++.|
T Consensus 175 ~~~e~~~~i~~l~~~i~~l~~~i~~~~~~i~~~~~~~~~~i~~l~~e~~~l~~~~~~l~~~l~~l 239 (562)
T PHA02562 175 KIRELNQQIQTLDMKIDHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDELVEEAKTIKAEIEEL 239 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444445554445545555555555444444444444444333344444444444
No 108
>PRK09039 hypothetical protein; Validated
Probab=35.35 E-value=2.8e+02 Score=32.04 Aligned_cols=39 Identities=8% Similarity=0.219 Sum_probs=19.9
Q ss_pred HHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHH
Q 002272 826 KLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQK 864 (944)
Q Consensus 826 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 864 (944)
+++..+....+.|.+........--+|..|++|++.-++
T Consensus 113 ~~~~~~~~l~~~L~~~k~~~se~~~~V~~L~~qI~aLr~ 151 (343)
T PRK09039 113 AAEGRAGELAQELDSEKQVSARALAQVELLNQQIAALRR 151 (343)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 334444444455555555555555555555555555444
No 109
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=35.20 E-value=89 Score=34.53 Aligned_cols=70 Identities=10% Similarity=0.135 Sum_probs=49.4
Q ss_pred EEEEEecCCc--eEE-ecCCCCCCHHHHHHH-HHHHhCCCCCCeEE---eec-CccccccchhccccCCCCCceEEEEe
Q 002272 15 LLVHISENGH--SFE-LDCNENSPVEAVMRF-IESAAGINFNDQLV---LCL-DMKLEPQKLLSAYRLPSDDKEVFIFN 85 (944)
Q Consensus 15 m~V~~A~tG~--sl~-ld~~~f~sVe~LK~~-Ia~~~gIp~~~QIL---L~~-G~kL~~~~~L~~y~l~td~~eIyVfd 85 (944)
|-|.++..+. .+. .|+....+++|++.. +++...+-+..+.+ +.+ |..|.+.++|.+|+.++. -+|||=|
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~-~~i~vKD 78 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSG-ATIYVKD 78 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCC-CEEEEec
Confidence 4567774444 555 578889999999955 55566777755555 444 667888899999998843 6888755
No 110
>cd00176 SPEC Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; the repeats are independent folding units; tandem repeats are found in differing numbers and arrange in an antiparallel manner to form dimers; the repeats are defined by a characteristic tryptophan (W) residue in helix A and a leucine (L) at the carboxyl end of helix C and separated by a linker of 5 residues; two copies of the repeat are present here
Probab=35.14 E-value=4.7e+02 Score=26.15 Aligned_cols=41 Identities=15% Similarity=0.259 Sum_probs=24.4
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 002272 242 KEEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEELLNTRA 286 (944)
Q Consensus 242 d~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L~~~~~ 286 (944)
+...+++....+ ..|...+...+..+..+......|....+
T Consensus 137 ~~~~~~~~l~~~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 177 (213)
T cd00176 137 DLESVEELLKKH----KELEEELEAHEPRLKSLNELAEELLEEGH 177 (213)
T ss_pred CHHHHHHHHHHH----HHHHHHHHhchHHHHHHHHHHHHHHHcCC
Confidence 445555555544 45555555666667777777777766543
No 111
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=35.00 E-value=1.3e+03 Score=31.26 Aligned_cols=318 Identities=14% Similarity=0.142 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Q 002272 137 RQFRYHYHRGHAIYIRTQAKIEMCERLLREQKVQERAVEVGRGNLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGRD 216 (944)
Q Consensus 137 ~lf~~~l~wA~al~~da~~~~e~ce~Lv~Ei~vq~raL~aAvaNLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~d 216 (944)
.........+.+-...++...........+...+.+.....+.-+..-+..+........--+-.-++.+ ..+|+.+
T Consensus 479 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~l~~~~~~~~~~~~~~~~l~~~L~p~~gSL~~fL~~~---~p~We~t 555 (1201)
T PF12128_consen 479 EQAQEQQNQAQQAVEELQAEEQELRKERDQAEEELRQARRELEELRAQIAELQRQLDPQKGSLLEFLRKN---KPGWEQT 555 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCcHHHHHHhC---CCcHHHH
Q ss_pred HHH------hhCCCCCccccccc-cccccc-ccC------------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 217 IEK------LRSVKLHPSLQTAT-CKCLLD-FVK------------EEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKR 276 (944)
Q Consensus 217 Le~------Lr~IpVhpaL~~ee-~kTL~D-fVd------------~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~ 276 (944)
+.+ |-+.-++|.+.... ..+|+. -|| ++.|+.-.+.+.........+..+++..+..+..
T Consensus 556 IGKVid~eLL~r~dL~P~l~~~~~~dslyGl~LdL~~I~~pd~~~~ee~L~~~l~~~~~~l~~~~~~~~~~e~~l~~~~~ 635 (1201)
T PF12128_consen 556 IGKVIDEELLYRTDLEPQLVEDSGSDSLYGLSLDLSAIDVPDYAASEEELRERLEQAEDQLQSAEERQEELEKQLKQINK 635 (1201)
T ss_pred hHhhCCHHHhcCCCCCCeecCCCcccccceeEeehhhcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHhhccCCchhhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhhhccccccCCCCCCccccccCcchhhhhcc
Q 002272 277 RVEELLNTRASLPIKNLEMMIKEHQRFINEQKSIMQSLSKDVSTVKKLVDDCLSCQLSSSLRPHDAVSALGPMYDVHDKS 356 (944)
Q Consensus 277 ~vd~L~~~~~~~s~~~Le~~i~e~~~Ll~eq~siaQ~LssD~e~v~~l~D~~v~~~lsss~~~~d~vS~Ls~m~e~H~ke 356 (944)
.++.+...... ....++..-.+...+-++....-..+......-......-++ .
T Consensus 636 ~~~~~~~~~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~-------------------------~ 689 (1201)
T PF12128_consen 636 KIEELKREITQ-AEQELKQAEQDLQRLKNEREQLKQEIEEAKEERKEQIEEQLN-------------------------E 689 (1201)
T ss_pred HHHHHHHHHHH-HHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------------------------H
Q ss_pred chHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhhHHHHHHHHHhhhhH---------------
Q 002272 357 HLPRMQACDRSISKLLDFCQDKKNEMNVFVHNYMQK-ITYVSYVIKDAKLQFPVFREAMVRQDDI--------------- 420 (944)
Q Consensus 357 lLP~L~~~~~eL~d~l~~~~~~KneL~~~~~~~Lr~-Is~IQs~I~evk~~L~~l~e~L~~~~~~--------------- 420 (944)
+--.+.....++......+...++++....-..++. .+.+...+..++..+...+.....+.+.
T Consensus 690 l~~~l~~~~~e~~~~~~~~~~~~~e~~~e~~~~~~~~~~~~d~~i~~i~~~i~~~~~~~~~~~~~le~~~~~eL~~~GvD 769 (1201)
T PF12128_consen 690 LEEELKQLKQELEELLEELKEQLKELRNELKAQWQELEAELDEQIEQIKQEIAAAKQEAKEQLKELEQQYNQELAGKGVD 769 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Q ss_pred ----------HHHHHHHhccHHHHHHHHHHHHH--HHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 421 ----------FADLKLVRGIGPAYRACLAEVVR--RKASMK---------LYMGMAGQLAERLATKREVEVRRREEFLKA 479 (944)
Q Consensus 421 ----------F~~L~~v~~lP~aYga~LiEVvR--RRew~~---------k~~~~a~~lAEeLa~lrEeE~krRe~F~k~ 479 (944)
...|..-...-......|+|--+ +..|.. ........+-.++..+.++-...+..|...
T Consensus 770 ~~~I~~l~~~i~~L~~~l~~ie~~r~~V~eY~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 849 (1201)
T PF12128_consen 770 PERIQQLKQEIEQLEKELKRIEERRAEVIEYEDWLQEEWDKVDELREEKPELEEQLRDLEQELQELEQELNQLQKEVKQR 849 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred hhcc
Q 002272 480 NSVY 483 (944)
Q Consensus 480 fG~~ 483 (944)
...+
T Consensus 850 ~~~l 853 (1201)
T PF12128_consen 850 RKEL 853 (1201)
T ss_pred HHHH
No 112
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=34.96 E-value=1.3e+03 Score=31.19 Aligned_cols=51 Identities=27% Similarity=0.311 Sum_probs=43.8
Q ss_pred hhHHHHHHHHhhcchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 002272 620 KNAAEKTAEALHLKDEYGKHIQAMLKAKQMQCVSYEKRIQELEQRLSDQYL 670 (944)
Q Consensus 620 ~~a~~~~~~al~~kd~~~~~~~~~~~~~~~~~~~ye~ri~~le~~l~~~~~ 670 (944)
+.+.++...||.--+.-+.+++..+-..+++...|..||++||-+|+.--+
T Consensus 777 ~~~v~~le~~l~~~~~~~~~~~~~~~~~ee~~~~lr~~~~~l~~~l~~~~~ 827 (1293)
T KOG0996|consen 777 KESVEKLERALSKMSDKARQHQEQLHELEERVRKLRERIPELENRLEKLTA 827 (1293)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhHHHHHHH
Confidence 346788899999999999999999999999999999999999998765443
No 113
>KOG2378 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=34.95 E-value=9e+02 Score=29.31 Aligned_cols=74 Identities=14% Similarity=0.320 Sum_probs=47.2
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEE--eec-Cccc--cccc--hhccccCCCCCceEEEEec
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLV--LCL-DMKL--EPQK--LLSAYRLPSDDKEVFIFNK 86 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QIL--L~~-G~kL--~~~~--~L~~y~l~td~~eIyVfdR 86 (944)
-.||.+ |+= +++...-..++.++-..++++.|-..+ ++| +++ |.|+ .+.. .....|+ .+.+||++|
T Consensus 238 ~~vy~~Dhsy--~tl~~~vs~svqEI~~~va~k~~~see-l~LV~v~s~GEkv~lqPnd~~v~tsL~l---n~rLfv~~r 311 (573)
T KOG2378|consen 238 CIVYLPDHSY--VTLRIRVSASVQEILEAVAEKLGYSEE-LILVKVSSSGEKVILQPNDRAVFTSLGL---NSRLFVVNR 311 (573)
T ss_pred EEEEecCceE--EEEEeechhHHHHHHHHHHHHhccccc-eeEEEEccCCceeeecCCcceeeeeecc---cceEEEEch
Confidence 345555 333 344444558999999999999999886 666 554 6664 2221 1112233 489999999
Q ss_pred cccCCCCC
Q 002272 87 LRLQSNSP 94 (944)
Q Consensus 87 rll~~~~~ 94 (944)
.-+..=.|
T Consensus 312 e~~~~LvP 319 (573)
T KOG2378|consen 312 EEIDLLVP 319 (573)
T ss_pred HhhhhcCC
Confidence 98865443
No 114
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=34.90 E-value=9.6e+02 Score=29.64 Aligned_cols=65 Identities=17% Similarity=0.188 Sum_probs=37.2
Q ss_pred hHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHH---HHHHHHhhhhhhhhhhHHhhhHHHHH
Q 002272 821 SELVLKLQSALADKSDQLSETQTKLKAVMEEVVMLGREL---EMRQKLLDESQMNCAHLENCLHEARE 885 (944)
Q Consensus 821 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~ 885 (944)
.+++.=+..+|.|-...-...-.+|-..+..+-.|=+-+ -+...|..=-|+-+-|--||.+=|.+
T Consensus 457 ~~l~~L~~~~L~ea~~~~~~~a~~l~~~~r~i~~ly~~~vP~~h~~~l~~ip~~aalf~NdC~ylah~ 524 (593)
T PF06248_consen 457 QELVELAHQTLKEACKSSERCAAQLFQTARDIFELYRAVVPVYHKKLLESIPQQAALFHNDCMYLAHH 524 (593)
T ss_pred HHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHccHHHHhhcccccHHHHhHhcchHHHHHH
Confidence 456666677777664433333456666666665555443 12223333467777777777776654
No 115
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=34.80 E-value=1.8e+02 Score=31.55 Aligned_cols=96 Identities=15% Similarity=0.154 Sum_probs=57.6
Q ss_pred ccchhhhhhhHHHHHHHHHHHhcc-CCC---cccccccccccchhhhhHHHHHHHHh-hcchHHHHHHHHHHHHHHHHhh
Q 002272 578 SKMEVENAKLKAELASAIALICSL-CPE---MEYESLDDSKLDGVLKNAAEKTAEAL-HLKDEYGKHIQAMLKAKQMQCV 652 (944)
Q Consensus 578 ~~~e~ena~l~ae~a~~~a~~~~~-~~~---~~~~~~~~~~~~~~~~~a~~~~~~al-~~kd~~~~~~~~~~~~~~~~~~ 652 (944)
-+|++-.+||++-|++--.-+-.+ ... ..-..-..|-.. .|.+.....-.+= +.=......|++.++....|..
T Consensus 132 G~L~iD~~kl~~Al~~np~~V~~lF~~~~~~~~~~~~~~Gi~~-~l~~~l~~~~~~~~G~i~~~~~~l~~~~~~~~~~i~ 210 (239)
T PF07195_consen 132 GTLSIDETKLDKALAENPDAVQALFAGDGTKDGTVYSTSGIAT-RLNDYLDSYTGSSTGSITSRIDSLNSQIKSLDKQIE 210 (239)
T ss_pred CeEEEeHHHHHHHHhhCHHHHHHHHccCccccccccccccHHH-HHHHHHHHHhCCCCcchhhHHHHHHHHHHHHHHHHH
Confidence 679999999999888765443333 110 000000111111 1122222211111 1224566788889999999999
Q ss_pred hHHHHHHHHHHHHHHHHHhhcc
Q 002272 653 SYEKRIQELEQRLSDQYLMKQK 674 (944)
Q Consensus 653 ~ye~ri~~le~~l~~~~~~~~~ 674 (944)
.+|+|+..+|++|..||.+-+.
T Consensus 211 ~~~~rl~~~~~~l~~qf~~me~ 232 (239)
T PF07195_consen 211 DLEERLESKEERLRKQFSAMES 232 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999987543
No 116
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=34.45 E-value=95 Score=32.72 Aligned_cols=62 Identities=26% Similarity=0.325 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhhhhhhhHHhhhHHH
Q 002272 822 ELVLKLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQKLLDESQMNCAHLENCLHEA 883 (944)
Q Consensus 822 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 883 (944)
..+..+|..|.+--+.-++...+|..+..++..+..++..-...|.+.+-..++|++.+..-
T Consensus 74 ~~~~~l~~ELael~r~~~el~~~L~~~~~~l~~l~~~~~~~~~~l~~l~~~~~~L~~~~~~l 135 (194)
T PF08614_consen 74 QKLAKLQEELAELYRSKGELAQQLVELNDELQELEKELSEKERRLAELEAELAQLEEKIKDL 135 (194)
T ss_dssp ----------------------------------------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccccccccccccccccccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555555555555555666666666666665566666666556665554433
No 117
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=34.11 E-value=1.3e+02 Score=29.29 Aligned_cols=48 Identities=21% Similarity=0.230 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHhhhh
Q 002272 822 ELVLKLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQKLLDES 869 (944)
Q Consensus 822 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 869 (944)
+.+..|...+.+-.+++.++..-+..+++|-+.|+-|-+.-|+.|++.
T Consensus 8 d~l~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 8 DALDDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 567788888889999999999999999999999999999999999863
No 118
>cd09236 V_AnPalA_UmRIM20_like Protein-interacting V-domains of Aspergillus nidulans PalA/RIM20, Ustilago maydis RIM20, and related proteins. This family belongs to the V_Alix_like superfamily which includes the V-shaped (V) domains of Bro1 and Rim20 from Saccharomyces cerevisiae, mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), and related domains. Aspergillus nidulas PalA/RIM20 and Ustilago maydis RIM20, like Saccharomyces cerevisiae Rim20, participate in the response to the external pH via the Pal/Rim101 pathway; however, Saccharomyces cerevisiae Rim20 does not belong to this family. This pathway is a signaling cascade resulting in the activation of the transcription factor PacC/Rim101. The mammalian Alix V-domain (belonging to a different family) contains a binding site, partially conserved in the superfamily, for the retroviral late assembly (L) domain YPXnL motif. Aspergillus nidulas Pa
Probab=34.01 E-value=7.9e+02 Score=28.39 Aligned_cols=80 Identities=11% Similarity=0.142 Sum_probs=51.8
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCch----hhhHHHHHHHHHHHHHHHHHHHHHHHh
Q 002272 242 KEEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEELLNTRASLPI----KNLEMMIKEHQRFINEQKSIMQSLSKD 317 (944)
Q Consensus 242 d~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L~~~~~~~s~----~~Le~~i~e~~~Ll~eq~siaQ~LssD 317 (944)
+..+++...+....+...+..++...+..|..+......|-...|+... ......+..++.+++++..|-+.=.+-
T Consensus 135 ~~~~~~~~L~~A~~sD~~v~~k~~~~~~~l~lL~~~~~~l~~~~Ps~~~~~~~~~~~~~i~~Lr~~l~~l~~l~~eR~~~ 214 (353)
T cd09236 135 QAAEYEGYLKQAGASDELVRRKLDEWEDLIQILTGDERDLENFVPSSRRPSIPPELERHVRALRVSLEELDRLESRRRRK 214 (353)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHcCCHHHHHHhCCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467778888888899999999999999999988777666554444321 133344555555666665554444333
Q ss_pred HHHH
Q 002272 318 VSTV 321 (944)
Q Consensus 318 ~e~v 321 (944)
.+.+
T Consensus 215 ~~~L 218 (353)
T cd09236 215 VERA 218 (353)
T ss_pred HHHH
Confidence 3333
No 119
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.83 E-value=1.4e+03 Score=31.26 Aligned_cols=30 Identities=23% Similarity=0.269 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHH
Q 002272 449 KLYMGMAGQLAERL--ATKREVEVRRREEFLK 478 (944)
Q Consensus 449 ~k~~~~a~~lAEeL--a~lrEeE~krRe~F~k 478 (944)
..+......+..+| ..+.+.+.+.|+.|.+
T Consensus 1078 k~le~qi~~l~~eL~e~~yk~a~~ryrka~i~ 1109 (1311)
T TIGR00606 1078 KGYEKEIKHFKKELREPQFRDAEEKYREMMIV 1109 (1311)
T ss_pred HHHHHHHHHHHHHHcchHHHHHHHHHHHHHHH
Confidence 35666677777777 5688999999998876
No 120
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=33.61 E-value=1.3e+02 Score=29.02 Aligned_cols=49 Identities=24% Similarity=0.314 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhh
Q 002272 822 ELVLKLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQKLLDESQ 870 (944)
Q Consensus 822 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 870 (944)
+.+..|...+.+-..++.++...+..+++|=+.|+.|-+.-|+.|.+..
T Consensus 8 ~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~ 56 (107)
T PF06156_consen 8 DRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELE 56 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5577888888888889999999999999999999999999999988753
No 121
>PF05335 DUF745: Protein of unknown function (DUF745); InterPro: IPR007999 This family consists of several uncharacterised Drosophila melanogaster proteins of unknown function.
Probab=32.87 E-value=3.1e+02 Score=29.14 Aligned_cols=77 Identities=23% Similarity=0.277 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhhhhhhhHHhhhHHHHHHHHhh---hhhhhhhh
Q 002272 822 ELVLKLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQKLLDESQMNCAHLENCLHEAREEAQTH---LCAADRRA 898 (944)
Q Consensus 822 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~ 898 (944)
..|.|.+..+.+-...|..++.-+++++.-+.....+++.-..+|...+-|+.|.+...+.|.-|.... +=+|.+|.
T Consensus 74 ~ev~EAe~vV~ee~~sL~~aq~na~aA~~aa~~A~~q~~~L~~~l~~a~~nl~~a~~~a~~AQ~el~eK~qLLeaAk~Rv 153 (188)
T PF05335_consen 74 QEVREAEAVVQEEKASLQQAQANAQAAQRAAQQAQQQLETLKAALKAAQANLANAEQVAEGAQQELAEKTQLLEAAKRRV 153 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666666777777777777777777777777777777777777777777777777777776655443 44555554
No 122
>PF09748 Med10: Transcription factor subunit Med10 of Mediator complex; InterPro: IPR019145 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med10 is one of the protein subunits of the Mediator complex, tethered to Med14 (Rgr1) protein. Med10 specifically mediates basal-level HIS4 transcription via Gcn4. In addition, there is a putative requirement for Med10 in Bas2-mediated transcription []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=31.95 E-value=3e+02 Score=27.31 Aligned_cols=44 Identities=16% Similarity=0.300 Sum_probs=33.1
Q ss_pred ccccccChh-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 236 CLLDFVKEE-----HLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVE 279 (944)
Q Consensus 236 TL~DfVd~e-----~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd 279 (944)
-+.+|||.. -.|+..+.|.+..+..++|+.-|+.--+.+...+.
T Consensus 67 evl~yID~GrNPDiyTre~vE~~~~~Nq~~kGK~~a~~~fr~~L~~el~ 115 (128)
T PF09748_consen 67 EVLEYIDDGRNPDIYTREFVELVRRENQYVKGKMEAFKSFRDVLAEELA 115 (128)
T ss_pred HHHHHHhCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 478888853 58999999999999999999887665444544443
No 123
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=31.63 E-value=5.9e+02 Score=27.96 Aligned_cols=64 Identities=17% Similarity=0.287 Sum_probs=36.4
Q ss_pred HHHHHHhhHHHHHHHhhCCCCCcccccccccccccccChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 002272 205 VHSDLLANFGRDIEKLRSVKLHPSLQTATCKCLLDFVKEEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEELLNT 284 (944)
Q Consensus 205 ~~~~LL~~we~dLe~Lr~IpVhpaL~~ee~kTL~DfVd~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L~~~ 284 (944)
....|+.-....++.|+.|. -|...|+..+.+...........+.++-..+..++..|+.++..
T Consensus 40 E~~~L~~Er~~h~eeLrqI~----------------~DIn~lE~iIkqa~~er~~~~~~i~r~~eey~~Lk~~in~~R~e 103 (230)
T PF10146_consen 40 EMEELLQERMAHVEELRQIN----------------QDINTLENIIKQAESERNKRQEKIQRLYEEYKPLKDEINELRKE 103 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHH----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555555555665544 13334555555555555556666666666666777777766554
No 124
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=31.51 E-value=6.2e+02 Score=26.37 Aligned_cols=39 Identities=10% Similarity=0.359 Sum_probs=18.1
Q ss_pred cccChhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 239 DFVKEEHLR-KSAETCSSSHRQFENKVSQFKQIFDDVKRRVEEL 281 (944)
Q Consensus 239 DfVd~e~Lr-k~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L 281 (944)
-||+++-|+ +....+. .....+..+...++.+...|..+
T Consensus 93 a~i~e~~L~~el~~~l~----~~~~~~~~~~~~~~~~~~~vsdi 132 (204)
T PF04740_consen 93 AIIDEDFLESELKKKLN----QLKEQIEDLQDEINSILSSVSDI 132 (204)
T ss_pred ccccHHHHHHHHHHHHH----HHHHHHHHHHHHHhhhccchHHH
Confidence 467776666 4433333 33333333444444444444444
No 125
>PF04048 Sec8_exocyst: Sec8 exocyst complex component specific domain; InterPro: IPR007191 Sec8 is a component of the exocyst complex involved in the docking of exocystic vesicles with a fusion site on the plasma membrane. The exocyst complex is composed of Sec3, Sec5, Sec6, Sec8, Sec10, Sec15, Exo70 and Exo84.; GO: 0006904 vesicle docking involved in exocytosis, 0015031 protein transport, 0000145 exocyst
Probab=31.40 E-value=3.6e+02 Score=27.07 Aligned_cols=61 Identities=11% Similarity=0.073 Sum_probs=40.6
Q ss_pred HhHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhhh
Q 002272 359 PRMQACDRSISKLLDFCQDK----KNEMNVFVHNYMQKITYVSYVIKDAKLQFPVFREAMVRQDD 419 (944)
Q Consensus 359 P~L~~~~~eL~d~l~~~~~~----KneL~~~~~~~Lr~Is~IQs~I~evk~~L~~l~e~L~~~~~ 419 (944)
+.+.+....+...++.+... -|..+..-+..+..|...|.++..++..|..++..|...++
T Consensus 43 ~~f~~~~~~~~~~L~~vV~eh~q~Fn~sI~sy~~i~~~i~~sq~~i~~lK~~L~~ak~~L~~~~~ 107 (142)
T PF04048_consen 43 QEFEELKKRIEKALQEVVNEHYQGFNSSIGSYSQILSSISESQERIRELKESLQEAKSLLGCRRE 107 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Confidence 44555555555555444444 45545555566667888899999999999999888866543
No 126
>PRK06664 fliD flagellar hook-associated protein FliD; Validated
Probab=31.36 E-value=1.4e+02 Score=37.59 Aligned_cols=38 Identities=21% Similarity=0.382 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhc
Q 002272 636 YGKHIQAMLKAKQMQCVSYEKRIQELEQRLSDQYLMKQ 673 (944)
Q Consensus 636 ~~~~~~~~~~~~~~~~~~ye~ri~~le~~l~~~~~~~~ 673 (944)
..+-|+..++..+.|...+|.|+..+|+||..||-+-.
T Consensus 601 r~~~l~~~i~~l~~~i~~~e~rl~~~e~rl~~QFtaME 638 (661)
T PRK06664 601 KVKGLDERIADNNKKIEEYEKKLESKERKLKGKYLTMD 638 (661)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35578888999999999999999999999999998644
No 127
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=31.19 E-value=1.7e+02 Score=26.49 Aligned_cols=63 Identities=17% Similarity=0.108 Sum_probs=40.6
Q ss_pred CeEEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCC-CCeEEee--cCcccc-ccchhccccCC
Q 002272 13 GKLLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINF-NDQLVLC--LDMKLE-PQKLLSAYRLP 75 (944)
Q Consensus 13 ~~m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~-~~QILL~--~G~kL~-~~~~L~~y~l~ 75 (944)
+...|-+. .+|..+..-....++|.+|.+||....+-+. ..-.|++ +...|. ...+|.+.|+.
T Consensus 3 p~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~ 70 (79)
T cd01770 3 PTTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLL 70 (79)
T ss_pred CeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCc
Confidence 44566665 7999998888888999999999998765432 1222332 344443 24555555544
No 128
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=31.06 E-value=88 Score=27.59 Aligned_cols=57 Identities=16% Similarity=0.148 Sum_probs=37.7
Q ss_pred EecCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCC
Q 002272 19 ISENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLP 75 (944)
Q Consensus 19 ~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~ 75 (944)
+..+|+++.+-+.+.+++.++-+..-.++|++++.=.|...+..++-+-.+...|++
T Consensus 2 i~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~ 58 (65)
T PF11470_consen 2 ICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLP 58 (65)
T ss_dssp E-TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---
T ss_pred CccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCC
Confidence 457899999999999999999999999999999866666767777766666666666
No 129
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=31.03 E-value=3.8e+02 Score=29.44 Aligned_cols=97 Identities=20% Similarity=0.210 Sum_probs=72.2
Q ss_pred CchhHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHhhhhhhhhhhHHhhhHHHHHHHHhhhhhhhhh
Q 002272 818 KVSSELVLKLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQKLLDESQMNCAHLENCLHEAREEAQTHLCAADRR 897 (944)
Q Consensus 818 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 897 (944)
|.+.+....+.+.|..-.+-+...+.-|.....|.+.|..|=..=-+-|+.-+.-=-|||+-+..||+|=.--.=.+.|.
T Consensus 7 r~K~~~lek~k~~i~~e~~~~e~ee~~L~e~~kE~~~L~~Er~~h~eeLrqI~~DIn~lE~iIkqa~~er~~~~~~i~r~ 86 (230)
T PF10146_consen 7 RNKTLELEKLKNEILQEVESLENEEKCLEEYRKEMEELLQERMAHVEELRQINQDINTLENIIKQAESERNKRQEKIQRL 86 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555566666667666777777777777777777777777666666666666666799999999998877666677888
Q ss_pred hhhhhHhhhhHHHHhhH
Q 002272 898 ASEYSALRASAVKLRGL 914 (944)
Q Consensus 898 ~~~~~~~~~~~~~~~~~ 914 (944)
=-||.-|+-..=++|.=
T Consensus 87 ~eey~~Lk~~in~~R~e 103 (230)
T PF10146_consen 87 YEEYKPLKDEINELRKE 103 (230)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 88999888887777654
No 130
>cd01774 Faf1_like2_UBX Faf1 ike-2 UBX domain. Faf1_like2 is a protein of unknown function with a domain architecture that includes the UAS (ubiquitin-associated) and UBX (ubiquitin-like) domains. This protein is related to other UBA/UBX-containing proteins like Faf1, p47, and SAKS1 and may serve as an adaptor molecule that shuttles proteins to the proteasome for degradation. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=30.41 E-value=3.3e+02 Score=25.07 Aligned_cols=70 Identities=14% Similarity=0.133 Sum_probs=44.7
Q ss_pred CeEEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeec-Cc-ccc--------ccchhccccCCCCCceE
Q 002272 13 GKLLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCL-DM-KLE--------PQKLLSAYRLPSDDKEV 81 (944)
Q Consensus 13 ~~m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~-G~-kL~--------~~~~L~~y~l~td~~eI 81 (944)
...+|-+. .+|..+.--....+++++|..||... +-.+..--|+++ .. .+. ...+|...|+. ....+
T Consensus 3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~-~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~-~s~~L 80 (85)
T cd01774 3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFSL-KETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLS-NSEVL 80 (85)
T ss_pred ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhC-CCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCC-CccEE
Confidence 34556665 79999877777889999999999654 334444445444 33 333 24577777766 34556
Q ss_pred EEE
Q 002272 82 FIF 84 (944)
Q Consensus 82 yVf 84 (944)
||=
T Consensus 81 ~V~ 83 (85)
T cd01774 81 FVQ 83 (85)
T ss_pred EEe
Confidence 654
No 131
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=30.29 E-value=1.2e+03 Score=29.50 Aligned_cols=55 Identities=18% Similarity=0.152 Sum_probs=27.2
Q ss_pred ccHHHHHHHHHHH--HHHHHHHHHH----HHHHHHHHHH---HHHHHHHHHHHHHHHHHHhhcc
Q 002272 429 GIGPAYRACLAEV--VRRKASMKLY----MGMAGQLAER---LATKREVEVRRREEFLKANSVY 483 (944)
Q Consensus 429 ~lP~aYga~LiEV--vRRRew~~k~----~~~a~~lAEe---La~lrEeE~krRe~F~k~fG~~ 483 (944)
.+-..|..+.++. -=|+.|.-.+ ......+.+. ..+.+.+|..-|+.+...+..+
T Consensus 320 Eleel~~~~h~s~~~e~~~~f~~~~~ds~~~d~~ell~~~d~~i~k~keea~srk~il~~ve~W 383 (660)
T KOG4302|consen 320 ELEELWRLLHYSEENESRRRFITYLIDSGTEDVLELLENIDNLIKKYKEEALSRKEILERVEKW 383 (660)
T ss_pred HHHHHHHHHhccccHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555544 3333333333 2222333333 4555666677777766666444
No 132
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=29.76 E-value=61 Score=23.09 Aligned_cols=16 Identities=38% Similarity=0.623 Sum_probs=13.3
Q ss_pred hhHHHHHHHHHHHHHH
Q 002272 652 VSYEKRIQELEQRLSD 667 (944)
Q Consensus 652 ~~ye~ri~~le~~l~~ 667 (944)
..+-.||.+||.+|.+
T Consensus 4 ~rlr~rI~dLer~L~~ 19 (23)
T PF04508_consen 4 NRLRNRISDLERQLSE 19 (23)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4567899999999975
No 133
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=29.75 E-value=8.3e+02 Score=27.31 Aligned_cols=69 Identities=12% Similarity=0.093 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhCCC
Q 002272 149 IYIRTQAKIEMCERLLREQKVQERAVEVGRGNLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGRDIEKLRSVK 224 (944)
Q Consensus 149 l~~da~~~~e~ce~Lv~Ei~vq~raL~aAvaNLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~dLe~Lr~Ip 224 (944)
+-+..+......+.-+.++..+.+-+.+-.+-|..-...+..++..- +-+.-.....+++++..++.|+
T Consensus 39 FQegSrE~EaelesqL~q~etrnrdl~t~nqrl~~E~e~~Kek~e~q-------~~q~y~q~s~Leddlsqt~aik 107 (333)
T KOG1853|consen 39 FQEGSREIEAELESQLDQLETRNRDLETRNQRLTTEQERNKEKQEDQ-------RVQFYQQESQLEDDLSQTHAIK 107 (333)
T ss_pred HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444455555555555555555544444443333322 2222223455666777666655
No 134
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=29.28 E-value=1.5e+02 Score=26.54 Aligned_cols=51 Identities=10% Similarity=0.295 Sum_probs=39.5
Q ss_pred CceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeecCccccccchhccccCCCCCceEEEE
Q 002272 23 GHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCLDMKLEPQKLLSAYRLPSDDKEVFIF 84 (944)
Q Consensus 23 G~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~G~kL~~~~~L~~y~l~td~~eIyVf 84 (944)
|..+.++ .|+++|....++++|++ ..-++.-.|+..++-..+ .|...+|++
T Consensus 19 GKvi~lP----~SleeLl~ia~~kfg~~-~~~v~~~dgaeIdDI~~I------RDgD~L~~~ 69 (69)
T PF11834_consen 19 GKVIWLP----DSLEELLKIASEKFGFS-ATKVLNEDGAEIDDIDVI------RDGDHLYLV 69 (69)
T ss_pred CEEEEcC----ccHHHHHHHHHHHhCCC-ceEEEcCCCCEEeEEEEE------EcCCEEEEC
Confidence 7777777 89999999999999997 455555558888876666 466777763
No 135
>cd01772 SAKS1_UBX SAKS1-like UBX domain. SAKS1 (SAPK-substrate-1), also known as Y33K, is a widely expressed protein containing N-terminal UBA (ubiquitin-associated) and C-terminal UBX (ubiqiutin-like) domains that was identified as a substrate of stress-activated protein kinases (SAPKs). SAKS1 is related evolutionarily to two other UBA/UBX-containing proteins, p47 and Faf1. The UBA and UBX domains of SAKS1 bind ubiquitin tetramers and valosin-containing protein (VCP), respectively suggesting a role for SAKS1 as an adaptor that directs VCP to polyubiquitinated proteins facilitating its destruction by the proteasome. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=28.96 E-value=2.4e+02 Score=25.38 Aligned_cols=60 Identities=18% Similarity=0.200 Sum_probs=39.6
Q ss_pred EEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeec-Ccc-ccc---cchhccccCC
Q 002272 15 LLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCL-DMK-LEP---QKLLSAYRLP 75 (944)
Q Consensus 15 m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~-G~k-L~~---~~~L~~y~l~ 75 (944)
.+|-+. .+|.++.--....+++.+|.+||....+.+. .--|+++ .+| +.. ..+|...|+.
T Consensus 5 ~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~~-~f~L~t~fPrk~~~~~d~~~TL~elgL~ 70 (79)
T cd01772 5 TRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNGG-PFTLMTPFPRKVFTEDDMEKPLQELGLV 70 (79)
T ss_pred EEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCCC-CEEEEeCCCCeECCcccccCCHHHCCCC
Confidence 345554 8999988777778999999999997766543 3334444 333 432 3566666655
No 136
>PF12896 Apc4: Anaphase-promoting complex, cyclosome, subunit 4; InterPro: IPR024790 Apc4 is one of the larger of the subunits of the anaphase-promoting complex (APC) or cyclosome. The anaphase-promoting complex is a multiprotein subunit E3 ubiquitin ligase complex that controls segregation of chromosomes and exit from mitosis in eukaryotes [, ]. Results in Caenorhabditis elegans show that the primary essential role of the spindle assembly checkpoint is not in the chromosome segregation process itself but rather in delaying anaphase onset until all chromosomes are properly attached to the spindle. The APC is likely to be required for all metaphase-to-anaphase transitions in a multicellular organism []. This entry represents the long domain downstream of the WD40 repeat/s that are present on the Apc4 subunits.
Probab=28.70 E-value=7e+02 Score=26.13 Aligned_cols=82 Identities=12% Similarity=0.197 Sum_probs=46.6
Q ss_pred ccccccChhHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhhccCC---------chhhhHHHHHHHHHHHH
Q 002272 236 CLLDFVKEEHLRKSAETCSSSHRQFENKVSQ-FKQIFDDVKRRVEELLNTRASL---------PIKNLEMMIKEHQRFIN 305 (944)
Q Consensus 236 TL~DfVd~e~Lrk~ae~C~~s~~~f~~Kl~~-Lk~~i~~Ik~~vd~L~~~~~~~---------s~~~Le~~i~e~~~Ll~ 305 (944)
.|.+-+.+..+++|.+.+..+...+..-+.+ +.-.+..+--.+.+|.+-..-. +...++..+..+..++.
T Consensus 94 fL~~~l~erglKr~~k~~~~~y~~i~~l~~~~l~pa~erl~~~l~~L~Gl~~~~~~~~~~lgl~~~~~~~~~~~~~~l~~ 173 (210)
T PF12896_consen 94 FLVNQLGERGLKRWEKAVDSAYSSIRKLLFEHLIPALERLIVLLSELRGLSRWSQDRFSGLGLDESQLEELLDAAQSLLL 173 (210)
T ss_pred HHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccccccCCCHHHHHHHHHHHHHHHH
Confidence 3444455778999999998888877766555 5555555555566666532211 22334444444444444
Q ss_pred HHHHHHHHHHHh
Q 002272 306 EQKSIMQSLSKD 317 (944)
Q Consensus 306 eq~siaQ~LssD 317 (944)
....+.+.+...
T Consensus 174 ~~~~l~~~i~~~ 185 (210)
T PF12896_consen 174 KAHELLQVINRE 185 (210)
T ss_pred HHHHHHHHHHHH
Confidence 444444444433
No 137
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=28.44 E-value=3.5e+02 Score=27.01 Aligned_cols=92 Identities=12% Similarity=0.292 Sum_probs=0.0
Q ss_pred cccccccccccccccC--hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchhhhHHHHHHHHHHH
Q 002272 227 PSLQTATCKCLLDFVK--EEHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRVEELLNTRASLPIKNLEMMIKEHQRFI 304 (944)
Q Consensus 227 paL~~ee~kTL~DfVd--~e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~vd~L~~~~~~~s~~~Le~~i~e~~~Ll 304 (944)
|.|..-.++.|.|.+. -..|.++.+.....-++|..++..++..+++...-...+.+. ...+...+..+..-+
T Consensus 31 sD~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~e-----V~~v~~dv~~i~~dv 105 (126)
T PF07889_consen 31 SDLMFVTRRSMSDAVASVSKQLEQVSESLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDE-----VTEVREDVSQIGDDV 105 (126)
T ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-----HHHHHhhHHHHHHHH
Q ss_pred HHHHHHHHHHHHhHHHHHh
Q 002272 305 NEQKSIMQSLSKDVSTVKK 323 (944)
Q Consensus 305 ~eq~siaQ~LssD~e~v~~ 323 (944)
+.+..++..|..-..++..
T Consensus 106 ~~v~~~V~~Le~ki~~ie~ 124 (126)
T PF07889_consen 106 DSVQQMVEGLEGKIDEIEE 124 (126)
T ss_pred HHHHHHHHHHHHHHHHHhc
No 138
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=28.18 E-value=23 Score=30.02 Aligned_cols=19 Identities=47% Similarity=0.461 Sum_probs=16.1
Q ss_pred ccccchhhhhhhHHHHHHH
Q 002272 576 GTSKMEVENAKLKAELASA 594 (944)
Q Consensus 576 ~~~~~e~ena~l~ae~a~~ 594 (944)
..++|+.||+.||++|.-.
T Consensus 30 rl~~l~~EN~~Lr~eL~~~ 48 (52)
T PF12808_consen 30 RLSKLEGENRLLRAELERL 48 (52)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4679999999999999743
No 139
>KOG0980 consensus Actin-binding protein SLA2/Huntingtin-interacting protein Hip1 [Cytoskeleton]
Probab=27.10 E-value=1.5e+03 Score=29.59 Aligned_cols=45 Identities=20% Similarity=0.361 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhC
Q 002272 178 RGNLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGRDIEKLRS 222 (944)
Q Consensus 178 vaNLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~dLe~Lr~ 222 (944)
+.-++.-....+++|+..+..|.++...|.++|.+|++....|..
T Consensus 412 ~ee~e~~~l~~e~ry~klkek~t~l~~~h~~lL~K~~di~kQle~ 456 (980)
T KOG0980|consen 412 VEEAENKALAAENRYEKLKEKYTELRQEHADLLRKYDDIQKQLES 456 (980)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666667778888999999999999999999999998877765
No 140
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=26.77 E-value=1e+02 Score=28.79 Aligned_cols=34 Identities=12% Similarity=0.169 Sum_probs=31.4
Q ss_pred EEecCCceEEecCCCCCCHHHHHHHHHHHhCCCC
Q 002272 18 HISENGHSFELDCNENSPVEAVMRFIESAAGINF 51 (944)
Q Consensus 18 ~~A~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~ 51 (944)
|-+..|++..|.+.+..++.+|++.|+.+.|+..
T Consensus 5 ~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~ 38 (86)
T cd06409 5 FKDPKGRVHRFRLRPSESLEELRTLISQRLGDDD 38 (86)
T ss_pred eeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCcc
Confidence 4467999999999999999999999999999996
No 141
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=26.22 E-value=1e+02 Score=32.69 Aligned_cols=76 Identities=21% Similarity=0.182 Sum_probs=56.0
Q ss_pred hhHHHHHHHHhhcchHHHHHHHHHHHHHHHHh------hhHHHHHHHHHHHHHHHHHhhccccCCCCCchhhhhhhcccC
Q 002272 620 KNAAEKTAEALHLKDEYGKHIQAMLKAKQMQC------VSYEKRIQELEQRLSDQYLMKQKHSNGKDVSDFALLVEKADD 693 (944)
Q Consensus 620 ~~a~~~~~~al~~kd~~~~~~~~~~~~~~~~~------~~ye~ri~~le~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 693 (944)
+--..+..+-|++||++.+++..+=+..+.=+ ..+|..|.+||+++.+---+.+++..-+.+.|.-+...|++.
T Consensus 89 ~~l~~RL~kLL~lk~~~~~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lks~~ 168 (190)
T PF05266_consen 89 KFLRSRLNKLLSLKDDQEKLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLKSEA 168 (190)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567778899999999988876544433322 357899999999998777777777777777777777777655
Q ss_pred CC
Q 002272 694 CK 695 (944)
Q Consensus 694 ~~ 695 (944)
+.
T Consensus 169 ~~ 170 (190)
T PF05266_consen 169 EA 170 (190)
T ss_pred HH
Confidence 43
No 142
>PHA02562 46 endonuclease subunit; Provisional
Probab=26.15 E-value=1.2e+03 Score=28.09 Aligned_cols=8 Identities=25% Similarity=0.364 Sum_probs=3.6
Q ss_pred HHHHHHHH
Q 002272 588 KAELASAI 595 (944)
Q Consensus 588 ~ae~a~~~ 595 (944)
|-.||-++
T Consensus 476 r~~la~~l 483 (562)
T PHA02562 476 RIDLALLF 483 (562)
T ss_pred HHHHHHHH
Confidence 44444444
No 143
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.71 E-value=1e+03 Score=27.12 Aligned_cols=59 Identities=17% Similarity=0.356 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCchhhhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhh
Q 002272 266 QFKQIFDDVKRRVEELLNTRASLPIKNLEMMIKEHQRFINEQKSIMQSLSKDVSTVKKLVD 326 (944)
Q Consensus 266 ~Lk~~i~~Ik~~vd~L~~~~~~~s~~~Le~~i~e~~~Ll~eq~siaQ~LssD~e~v~~l~D 326 (944)
+.++.+.+|..+-+++..-- .++..|.++.-+.+.|++.|..++..|..++.+...++.
T Consensus 193 ~~~~~l~Eiq~Rh~~ik~LE--ksi~ELhqlFlDMa~LVe~QgEmvd~IE~nV~~A~~~V~ 251 (297)
T KOG0810|consen 193 QAKQTLAEIQERHDEIKKLE--KSIRELHQLFLDMAVLVESQGEMVDRIENNVENAVDYVE 251 (297)
T ss_pred hhHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 45566667776655543210 123456666667778899999999999998888776665
No 144
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=24.78 E-value=1.2e+03 Score=27.39 Aligned_cols=131 Identities=13% Similarity=0.244 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhhccCCchhhhHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 002272 244 EHLRKSAETCSSSHRQFENKVSQFKQIFDDVKRRV---EELLNTRASLPIKNLEMMIKEHQRFINEQKSIMQSLSKDVST 320 (944)
Q Consensus 244 e~Lrk~ae~C~~s~~~f~~Kl~~Lk~~i~~Ik~~v---d~L~~~~~~~s~~~Le~~i~e~~~Ll~eq~siaQ~LssD~e~ 320 (944)
+.+++....+..........+.++...+...-..| +..++. .+++++.++.....+...+-.....-...
T Consensus 223 eqm~~~~~~I~~~~~~~~~~L~kl~~~i~~~lekI~sREk~iN~-------qle~l~~eYr~~~~~ls~~~~~y~~~s~~ 295 (359)
T PF10498_consen 223 EQMKQHKKSIESALPETKSQLDKLQQDISKTLEKIESREKYINN-------QLEPLIQEYRSAQDELSEVQEKYKQASEG 295 (359)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HhHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q ss_pred HHhhhhhhccccccCCCCCCccccccCcchhhhhccchHhHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHH
Q 002272 321 VKKLVDDCLSCQLSSSLRPHDAVSALGPMYDVHDKSHLPRMQACDRSISKLLDFCQDKKNEMNVF--VHNYMQKITYVSY 398 (944)
Q Consensus 321 v~~l~D~~v~~~lsss~~~~d~vS~Ls~m~e~H~kelLP~L~~~~~eL~d~l~~~~~~KneL~~~--~~~~Lr~Is~IQs 398 (944)
|..+... |..+..++..+-+.+.+.=+.|+.. ++..=+.|..+..
T Consensus 296 V~~~t~~---------------------------------L~~IseeLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~ 342 (359)
T PF10498_consen 296 VSERTRE---------------------------------LAEISEELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQ 342 (359)
T ss_pred HHHHHHH---------------------------------HHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHH
Q ss_pred HHHHHhhhHHHHHHHH
Q 002272 399 VIKDAKLQFPVFREAM 414 (944)
Q Consensus 399 ~I~evk~~L~~l~e~L 414 (944)
.|.+|.-++.++...|
T Consensus 343 EI~qMdvrIGVleh~L 358 (359)
T PF10498_consen 343 EIKQMDVRIGVLEHTL 358 (359)
T ss_pred HHHHhhhhhheehhhc
No 145
>PRK11677 hypothetical protein; Provisional
Probab=24.42 E-value=5.7e+02 Score=25.85 Aligned_cols=61 Identities=15% Similarity=0.251 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH-HHHHhhCCCC
Q 002272 165 REQKVQERAVEVGRGNLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGR-DIEKLRSVKL 225 (944)
Q Consensus 165 ~Ei~vq~raL~aAvaNLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~-dLe~Lr~IpV 225 (944)
.++....+-|..+-.-|+.|...+...|....+-++++.++|.+|..++-. .-..|..+|.
T Consensus 29 ~~q~~le~eLe~~k~ele~YkqeV~~HFa~TA~Ll~~L~~~Y~~Ly~HlA~~s~~Llp~~~~ 90 (134)
T PRK11677 29 RQQQALQYELEKNKAELEEYRQELVSHFARSAELLDTMAKDYRQLYQHMAKSSSELLPNLPA 90 (134)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccc
Confidence 577788888999999999999999999999999999999999999999955 4444566653
No 146
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=24.38 E-value=4e+02 Score=23.51 Aligned_cols=59 Identities=19% Similarity=0.161 Sum_probs=39.6
Q ss_pred EEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeec--Ccccc---ccchhccccCC
Q 002272 16 LVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCL--DMKLE---PQKLLSAYRLP 75 (944)
Q Consensus 16 ~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~--G~kL~---~~~~L~~y~l~ 75 (944)
.|-+. .+|..+.......+++.+|.+||....+-+. .=.|+++ ...+. ...+|...|+.
T Consensus 4 ~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~~~-~f~L~t~~Pr~~~~~~~~~~TL~e~gL~ 68 (77)
T cd01767 4 KIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPPAE-PFTLMTSFPRRVLTDLDYELTLQEAGLV 68 (77)
T ss_pred EEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCCCC-CEEEEeCCCCccCCCCCccCcHHHcCCc
Confidence 34444 7899988888888999999999987765433 3334433 44453 35677666655
No 147
>PF00210 Ferritin: Ferritin-like domain; InterPro: IPR008331 Ferritin is one of the major non-haem iron storage proteins in animals, plants, and microorganisms []. It consists of a mineral core of hydrated ferric oxide, and a multi-subunit protein shell that encloses the former and assures its solubility in an aqueous environment. In animals the protein is mainly cytoplasmic and there are generally two or more genes that encode closely related subunits - in mammals there are two subunits which are known as H(eavy) and L(ight). In plants ferritin is found in the chloroplast []. This entry represents the main structural domain of ferritin. The domain is also found in other ferritin-like proteins such as members of the DNA protection during starvation (DPS) family and bacterioferritins.; GO: 0008199 ferric iron binding, 0006879 cellular iron ion homeostasis; PDB: 1N1Q_C 4DYU_E 2YJJ_D 2YJK_B 2VXX_B 3FVB_A 2WLU_A 2XGW_A 2WLA_A 1Z4A_D ....
Probab=24.37 E-value=6.1e+02 Score=23.95 Aligned_cols=51 Identities=12% Similarity=0.128 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhCCCCC
Q 002272 176 VGRGNLEQYYRVINQNYNDFMKRYSQQQRVHSDLLANFGRDIEKLRSVKLH 226 (944)
Q Consensus 176 aAvaNLe~~~~~lek~f~~f~~~f~~ll~~~~~LL~~we~dLe~Lr~IpVh 226 (944)
+...++..++.--...|-.+.++|+........-...+-..+..|+.+|..
T Consensus 14 ~~~~y~~~~~~~~~~~~~~l~~~~~~~a~e~~~h~~~l~e~i~~lgg~p~~ 64 (142)
T PF00210_consen 14 ASQQYLNMHWNFDGPNFPGLAKFFQDQAEEEREHADELAERILMLGGKPSG 64 (142)
T ss_dssp HHHHHHHHHHHHHSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTS-SST
T ss_pred HHHHHHHHHHHhcCCCchhhHHHhHHHHHHHHHHHHHHHHHHhcCCCCCCC
Confidence 344444454444466777788888887777777777777788888887754
No 148
>PF14816 FAM178: Family of unknown function, FAM178
Probab=24.22 E-value=85 Score=36.75 Aligned_cols=39 Identities=26% Similarity=0.400 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhccccCC
Q 002272 635 EYGKHIQAMLKAKQMQCVSYEKRIQELEQRLSDQYLMKQKHSNG 678 (944)
Q Consensus 635 ~~~~~~~~~~~~~~~~~~~ye~ri~~le~~l~~~~~~~~~~~~~ 678 (944)
=|.+-|..||++|+++ +|-+|+|++|.+-..+|+.+...
T Consensus 13 ~y~nsLd~llkEk~e~-----~r~~e~e~~L~~d~~~g~~~~~~ 51 (377)
T PF14816_consen 13 SYVNSLDRLLKEKRET-----ERLQELEKQLLQDCKQGRSIDSD 51 (377)
T ss_pred eehhhHHHHHHHHHhh-----HhHHHHHHHHHHHHhccccccCc
Confidence 3788899999999998 58999999999999998765443
No 149
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=24.19 E-value=5e+02 Score=23.61 Aligned_cols=69 Identities=16% Similarity=0.313 Sum_probs=47.3
Q ss_pred CeEEEEEe-cCCceEEecCCCCCCHHHHHHHHHHHhCCCCCCeEEeec--Cccc---cccchhccccCCCCCceEEE
Q 002272 13 GKLLVHIS-ENGHSFELDCNENSPVEAVMRFIESAAGINFNDQLVLCL--DMKL---EPQKLLSAYRLPSDDKEVFI 83 (944)
Q Consensus 13 ~~m~V~~A-~tG~sl~ld~~~f~sVe~LK~~Ia~~~gIp~~~QILL~~--G~kL---~~~~~L~~y~l~td~~eIyV 83 (944)
+..+|-+. .+|..+.--....+++.+|..||... |.+...-.|++. -..+ +...+|...|+. ....|||
T Consensus 3 ~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~-p~~~L~V 77 (80)
T cd01771 3 PISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLY-PQETLIL 77 (80)
T ss_pred CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCC-CCcEEEE
Confidence 34556565 89999887778889999999999875 666656666554 3334 334677777766 3445655
No 150
>PF12126 DUF3583: Protein of unknown function (DUF3583); InterPro: IPR021978 This domain is found in eukaryotes, and is typically between 302 and 338 amino acids in length. It is found in association with PF00097 from PFAM and PF00643 from PFAM. Most members are promyelocytic leukemia proteins, and this family lies towards the C terminus.
Probab=23.52 E-value=1.1e+03 Score=26.84 Aligned_cols=102 Identities=19% Similarity=0.175 Sum_probs=64.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhhHHH-H---HHHHHhhhhH-HHHHHHHhccHHHHHH
Q 002272 363 ACDRSISKLLDFCQDKKNEMNVFVHNYMQK-ITYVSYVIKDAKLQFPV-F---REAMVRQDDI-FADLKLVRGIGPAYRA 436 (944)
Q Consensus 363 ~~~~eL~d~l~~~~~~KneL~~~~~~~Lr~-Is~IQs~I~evk~~L~~-l---~e~L~~~~~~-F~~L~~v~~lP~aYga 436 (944)
..+.+|+..+.++...+...-..++.+.+. |+.||.+-.++-..+.. | .+.|..+..+ ...|.+++ -|.
T Consensus 17 aahaqm~sav~qL~~~r~~teelIr~rVrq~V~hVqaqEreLLe~v~~rYqR~y~ema~~L~~LeavLqRir-----~G~ 91 (324)
T PF12126_consen 17 AAHAQMRSAVSQLGRARADTEELIRARVRQVVAHVQAQERELLEAVEARYQRDYEEMAGQLGRLEAVLQRIR-----TGG 91 (324)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH-----hHH
Confidence 445667777777888887777777777776 55676655444322221 2 1222221111 11233332 478
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 002272 437 CLAEVVRRKASMKLYMGMAGQLAERLATKREVE 469 (944)
Q Consensus 437 ~LiEVvRRRew~~k~~~~a~~lAEeLa~lrEeE 469 (944)
.|+|...|..-.+.+....+-+.+.|..++.+|
T Consensus 92 ~LVekM~~YASDQEVLdMh~FlreAL~rLrqee 124 (324)
T PF12126_consen 92 ALVEKMKLYASDQEVLDMHGFLREALERLRQEE 124 (324)
T ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHHHhhhhc
Confidence 899999999999999888888888888777655
No 151
>PF06409 NPIP: Nuclear pore complex interacting protein (NPIP); InterPro: IPR009443 This family consists of a series of primate specific nuclear pore complex interacting protein (NPIP) sequences. The function of this family is unknown but is well conserved from African apes to humans [].
Probab=23.37 E-value=85 Score=34.26 Aligned_cols=39 Identities=28% Similarity=0.302 Sum_probs=33.6
Q ss_pred HHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHhh
Q 002272 829 SALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQKLLD 867 (944)
Q Consensus 829 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 867 (944)
-.-+||-.||+|.|.|.|-+|+||-.-++-+...++|+.
T Consensus 134 ~E~~EKErqlSeAeEn~kl~mkei~tY~~~fQ~~Qel~~ 172 (265)
T PF06409_consen 134 CEHAEKERQLSEAEENGKLAMKEIHTYKQMFQRMQELQQ 172 (265)
T ss_pred HHHHHHHhhhhhhhhccchHHHHHHHHHHHHHHHHHHHH
Confidence 345688899999999999999999999988888888764
No 152
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=22.86 E-value=83 Score=28.64 Aligned_cols=41 Identities=22% Similarity=0.382 Sum_probs=29.6
Q ss_pred HHHHHHHhhc--chHHHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Q 002272 623 AEKTAEALHL--KDEYGKHIQAMLKAKQMQCVSYEKRIQELEQR 664 (944)
Q Consensus 623 ~~~~~~al~~--kd~~~~~~~~~~~~~~~~~~~ye~ri~~le~~ 664 (944)
.+++-.-|.+ |+||.. ++.+|...+.+..+-|+||.+||.+
T Consensus 37 l~~~l~kldlVtREEFd~-q~~~L~~~r~kl~~LEarl~~LE~~ 79 (79)
T PF04380_consen 37 LQSALSKLDLVTREEFDA-QKAVLARTREKLEALEARLAALEAQ 79 (79)
T ss_pred HHHHHHHCCCCcHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3344444444 777765 5677888889999999999999964
No 153
>PF04394 DUF536: Protein of unknown function, DUF536; InterPro: IPR007489 This is a C-terminal region from several bacterial proteins of unknown function that may be involved in a theta-type replication mechanism.
Probab=22.76 E-value=2.4e+02 Score=23.29 Aligned_cols=38 Identities=26% Similarity=0.412 Sum_probs=34.5
Q ss_pred hhcchHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Q 002272 630 LHLKDEYGKHIQAMLKAKQMQCVSYEKRIQELEQRLSD 667 (944)
Q Consensus 630 l~~kd~~~~~~~~~~~~~~~~~~~ye~ri~~le~~l~~ 667 (944)
|.-||.-+++++..|.-.|.=...=.+.|++|+..|.+
T Consensus 5 l~~kd~qI~~l~kLLDQQQ~L~L~~~k~le~L~~el~E 42 (45)
T PF04394_consen 5 LEEKDKQIEELQKLLDQQQQLALQDNKKLEELKAELEE 42 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56689999999999999999999999999999999876
No 154
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=22.38 E-value=1.2e+03 Score=26.62 Aligned_cols=21 Identities=10% Similarity=0.058 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 002272 170 QERAVEVGRGNLEQYYRVINQ 190 (944)
Q Consensus 170 q~raL~aAvaNLe~~~~~lek 190 (944)
....++..++|++.|.+-..+
T Consensus 116 ~r~~m~~q~~~vK~~aRl~aK 136 (325)
T PF08317_consen 116 MRLLMDNQFQLVKTYARLEAK 136 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345666667777777764444
No 155
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=22.31 E-value=1.7e+02 Score=30.77 Aligned_cols=42 Identities=21% Similarity=0.208 Sum_probs=24.9
Q ss_pred HHHHHHHHhhcchHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Q 002272 622 AAEKTAEALHLKDEYGKHIQAMLKAKQMQCVSYEKRIQELEQ 663 (944)
Q Consensus 622 a~~~~~~al~~kd~~~~~~~~~~~~~~~~~~~ye~ri~~le~ 663 (944)
..+...+++..|.+|..+-+...+..+.+...+++.|+..++
T Consensus 133 ~~~~~~~G~~~r~~~i~~a~~~~~e~~~~l~~l~~ei~~~~~ 174 (176)
T PF12999_consen 133 EEEIYKEGLKIRQELIEEAKKKREELEKKLEELEKEIQAAKQ 174 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344556677777777766666555555555555555555443
No 156
>PF03449 GreA_GreB_N: Transcription elongation factor, N-terminal; InterPro: IPR022691 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A 2ETN_C 2P4V_B.
Probab=22.16 E-value=1.4e+02 Score=26.96 Aligned_cols=21 Identities=38% Similarity=0.498 Sum_probs=16.5
Q ss_pred HHHHhhhHHHHHHHHHHHHHH
Q 002272 647 KQMQCVSYEKRIQELEQRLSD 667 (944)
Q Consensus 647 ~~~~~~~ye~ri~~le~~l~~ 667 (944)
.+.+-.-.|.||++||.+|++
T Consensus 51 Ake~q~~le~rI~~Le~~l~~ 71 (74)
T PF03449_consen 51 AKERQAFLEARIRELEERLAR 71 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 344456689999999999986
No 157
>KOG0796 consensus Spliceosome subunit [RNA processing and modification]
Probab=21.79 E-value=1.6e+02 Score=33.77 Aligned_cols=46 Identities=28% Similarity=0.360 Sum_probs=37.5
Q ss_pred HHHHHhhhhhhHHHHHHHHHHHHHHHhHHH--HHHHHHHhhhhhhhhh
Q 002272 829 SALADKSDQLSETQTKLKAVMEEVVMLGRE--LEMRQKLLDESQMNCA 874 (944)
Q Consensus 829 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ 874 (944)
.....|.+++.+++.|++-+++++..|.+| ++.++++++++++-=+
T Consensus 115 ~e~~~k~~~v~~l~e~I~~~l~~~E~LG~eG~Veeaq~~~~e~E~lk~ 162 (319)
T KOG0796|consen 115 EEAARKAEKVHELEEKIGKLLEKAEELGEEGNVEEAQKAMKEVEELKA 162 (319)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHH
Confidence 334445678889999999999999999886 8999999999876443
No 158
>cd07669 BAR_SNX33 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 33. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX33 interacts with Wiskott-Aldrich syndrome protein (WASP) and plays a role in the maintenance of cell shape and cell cycle progression. It modulates the shedding and endocytosis of cellular prion protein (PrP(c)) and amyloid precursor protein (APP). BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=21.16 E-value=1.1e+03 Score=25.67 Aligned_cols=19 Identities=32% Similarity=0.370 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 002272 299 EHQRFINEQKSIMQSLSKD 317 (944)
Q Consensus 299 e~~~Ll~eq~siaQ~LssD 317 (944)
+..++-.-+..+++.+..|
T Consensus 49 EyqkiG~af~~LsqaFe~d 67 (207)
T cd07669 49 EFQKLGNAFQAISHSFQLD 67 (207)
T ss_pred HHHHHHHHHHHHHHHHhcC
Confidence 3444444455666666554
No 159
>PRK08724 fliD flagellar capping protein; Validated
Probab=20.58 E-value=2.4e+02 Score=35.63 Aligned_cols=35 Identities=17% Similarity=0.278 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhh
Q 002272 638 KHIQAMLKAKQMQCVSYEKRIQELEQRLSDQYLMK 672 (944)
Q Consensus 638 ~~~~~~~~~~~~~~~~ye~ri~~le~~l~~~~~~~ 672 (944)
+-|...++....|..++|.|+..+|+||..||-+-
T Consensus 620 ~sL~~~i~~l~dqi~~Le~Rle~~E~Ry~~QFtAM 654 (673)
T PRK08724 620 KSLREQNYRLNDDQVALDRRMESLEKRTHAKFAAM 654 (673)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677777788899999999999999999999753
No 160
>COG0497 RecN ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=20.45 E-value=1.7e+03 Score=27.72 Aligned_cols=52 Identities=13% Similarity=0.205 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccCChhhhccCCCCCCCCceeEecCCCCCC
Q 002272 457 QLAERLATKREVEVRRREEFLKANSVYIPRDILGSMGLYDTPNQCDVNIAPSDTN 511 (944)
Q Consensus 457 ~lAEeLa~lrEeE~krRe~F~k~fG~~LP~dL~~~~GL~d~pP~~eVnl~~~D~~ 511 (944)
.+..++...-+.=-..|+++.+.+..-+-..|- .++|... .|.|.+.+.+..
T Consensus 353 ~l~~~~~~~A~~Ls~~R~~~A~~L~~~v~~eL~-~L~Me~a--~F~ve~~~~~~~ 404 (557)
T COG0497 353 KLKAELLEAAEALSAIRKKAAKELEKEVTAELK-ALAMEKA--RFTVELKPLEES 404 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCCCCc--eEEEEeccCCCC
Confidence 333333333333345677777777777655543 2455443 566665554433
No 161
>PF06600 DUF1140: Protein of unknown function (DUF1140); InterPro: IPR009520 This entry is represented by Bacteriophage bIL286, Orf36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several short, hypothetical phage and bacterial proteins. The function of this family is unknown.
Probab=20.24 E-value=3.7e+02 Score=25.80 Aligned_cols=46 Identities=22% Similarity=0.349 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHhhHHHHHHHhhC
Q 002272 177 GRGNLEQYYRVINQNYNDFMK------RYSQQQRVHSDLLANFGRDIEKLRS 222 (944)
Q Consensus 177 AvaNLe~~~~~lek~f~~f~~------~f~~ll~~~~~LL~~we~dLe~Lr~ 222 (944)
+++|++.+++.+.+.+....+ |-..++++.-...+.|...|+.+|.
T Consensus 54 s~~n~efyi~E~~~~l~~l~e~Dr~~~Ws~kLHQdr~kFV~kY~~vle~yr~ 105 (107)
T PF06600_consen 54 SVGNAEFYIKEIYQKLSQLAEIDRLFHWSSKLHQDRYKFVSKYPKVLEKYRQ 105 (107)
T ss_pred HhhcHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 678999999999988876654 7778888888888999988888865
No 162
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=20.17 E-value=9.6e+02 Score=24.71 Aligned_cols=45 Identities=31% Similarity=0.370 Sum_probs=25.8
Q ss_pred HHHHHHHHHhhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHhhhh
Q 002272 825 LKLQSALADKSDQLSETQTKLKAVMEEVVMLGRELEMRQKLLDES 869 (944)
Q Consensus 825 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 869 (944)
..++..+.+-.+++.+.+.++...=+.+..+..+++..++-+...
T Consensus 77 ~~~~~e~~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~ 121 (191)
T PF04156_consen 77 PRLQGELSELQQQLQQLQEELDQLQERIQELESELEKLKEDLQEL 121 (191)
T ss_pred hhhhhhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345555556666666666666666666666666665555544443
No 163
>PRK07737 fliD flagellar capping protein; Validated
Probab=20.11 E-value=3.7e+02 Score=32.73 Aligned_cols=35 Identities=17% Similarity=0.274 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhh
Q 002272 638 KHIQAMLKAKQMQCVSYEKRIQELEQRLSDQYLMK 672 (944)
Q Consensus 638 ~~~~~~~~~~~~~~~~ye~ri~~le~~l~~~~~~~ 672 (944)
..|...++....|....|.|+..+|+||..||..-
T Consensus 444 ~~l~~~i~~l~~~i~~~~~rl~~~e~ry~~qf~al 478 (501)
T PRK07737 444 FAIGKDLNQIETQIDRFQDRLKQIEDRYYKKFSAM 478 (501)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46888999999999999999999999999999753
Done!