Query 015194
Match_columns 411
No_of_seqs 148 out of 273
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 04:00:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015194.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015194hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2834 Nuclear pore complex, 100.0 1.7E-84 3.7E-89 649.0 22.4 388 4-408 56-498 (510)
2 COG5100 NPL4 Nuclear pore prot 100.0 2.9E-82 6.2E-87 623.8 22.2 368 1-391 1-543 (571)
3 cd08061 MPN_NPL4 Mov34/MPN/PAD 100.0 2.7E-77 5.9E-82 581.2 25.3 241 118-373 1-274 (274)
4 PF05021 NPL4: NPL4 family; I 100.0 4E-77 8.6E-82 587.6 25.5 245 154-407 1-305 (306)
5 cd08056 MPN_PRP8 Mpr1p, Pad1p 99.9 4.3E-21 9.2E-26 184.5 12.8 121 150-285 54-179 (252)
6 PF11543 UN_NPL4: Nuclear pore 99.8 1.6E-21 3.4E-26 157.5 7.5 73 1-85 5-78 (80)
7 cd08066 MPN_AMSH_like Mov34/MP 98.7 1.6E-07 3.5E-12 86.6 13.0 109 152-278 26-135 (173)
8 PF05020 zf-NPL4: NPL4 family, 98.7 1.7E-08 3.7E-13 89.6 3.9 32 116-147 113-145 (147)
9 cd07767 MPN Mpr1p, Pad1p N-ter 98.6 3.6E-07 7.8E-12 77.2 11.5 92 151-253 13-104 (116)
10 smart00232 JAB_MPN JAB/MPN dom 98.5 4.2E-06 9.2E-11 72.3 13.4 114 150-272 20-134 (135)
11 cd01799 Hoil1_N Ubiquitin-like 98.4 5.8E-07 1.3E-11 71.8 5.4 63 7-85 10-73 (75)
12 cd08067 MPN_2A_DUB Mov34/MPN/P 98.3 1.7E-05 3.7E-10 74.1 13.1 115 152-272 26-146 (187)
13 cd01791 Ubl5 UBL5 ubiquitin-li 98.2 7E-06 1.5E-10 65.2 7.4 71 1-87 2-73 (73)
14 cd01809 Scythe_N Ubiquitin-lik 98.1 9.6E-06 2.1E-10 63.0 6.7 69 1-85 1-70 (72)
15 smart00213 UBQ Ubiquitin homol 98.1 8.7E-06 1.9E-10 61.2 5.8 64 1-80 1-64 (64)
16 cd01806 Nedd8 Nebb8-like ubiq 98.0 2.4E-05 5.2E-10 61.3 7.5 71 1-87 1-72 (76)
17 cd01812 BAG1_N Ubiquitin-like 97.9 3E-05 6.6E-10 60.1 6.4 69 1-85 1-69 (71)
18 cd01796 DDI1_N DNA damage indu 97.9 2.9E-05 6.2E-10 61.1 5.8 67 4-85 2-70 (71)
19 cd01807 GDX_N ubiquitin-like d 97.9 4.4E-05 9.4E-10 60.3 6.6 70 1-86 1-71 (74)
20 cd01803 Ubiquitin Ubiquitin. U 97.9 5.6E-05 1.2E-09 59.2 7.0 71 1-87 1-72 (76)
21 cd01805 RAD23_N Ubiquitin-like 97.8 6.7E-05 1.5E-09 59.2 7.2 71 1-87 1-74 (77)
22 PF00240 ubiquitin: Ubiquitin 97.8 7.5E-05 1.6E-09 57.6 6.8 65 7-87 2-67 (69)
23 cd01795 USP48_C USP ubiquitin- 97.8 4.4E-05 9.6E-10 63.8 5.8 64 9-87 14-77 (107)
24 cd01797 NIRF_N amino-terminal 97.7 8.1E-05 1.8E-09 59.8 6.3 71 1-87 1-74 (78)
25 cd01808 hPLIC_N Ubiquitin-like 97.7 0.00012 2.6E-09 57.3 7.1 70 1-86 1-70 (71)
26 cd01763 Sumo Small ubiquitin-r 97.7 0.00012 2.5E-09 59.9 7.2 70 1-86 12-82 (87)
27 cd01810 ISG15_repeat2 ISG15 ub 97.7 0.0001 2.2E-09 58.2 6.2 68 4-87 2-70 (74)
28 PF01398 JAB: JAB1/Mov34/MPN/P 97.7 0.00037 8E-09 59.2 9.6 84 154-242 28-113 (114)
29 cd01793 Fubi Fubi ubiquitin-li 97.6 0.00024 5.1E-09 56.1 7.0 70 1-87 1-70 (74)
30 cd01804 midnolin_N Ubiquitin-l 97.6 0.0002 4.4E-09 57.3 6.6 70 1-87 2-72 (78)
31 PF11976 Rad60-SLD: Ubiquitin- 97.6 0.00014 2.9E-09 56.8 5.4 68 1-84 1-70 (72)
32 PTZ00044 ubiquitin; Provisiona 97.5 0.00028 6E-09 55.6 6.9 71 1-87 1-72 (76)
33 cd01794 DC_UbP_C dendritic cel 97.5 0.00024 5.3E-09 55.8 5.7 67 3-85 1-68 (70)
34 cd08069 MPN_RPN11_CSN5 Mov34/M 97.5 0.00087 1.9E-08 66.0 10.7 141 126-277 8-151 (268)
35 cd01792 ISG15_repeat1 ISG15 ub 97.5 0.00042 9.1E-09 55.6 6.8 72 1-87 3-76 (80)
36 cd01802 AN1_N ubiquitin-like d 97.4 0.00047 1E-08 58.4 6.8 71 1-87 28-99 (103)
37 cd08068 MPN_BRCC36 Mov34/MPN/P 97.4 0.0026 5.6E-08 61.8 12.8 112 152-272 24-151 (244)
38 cd01798 parkin_N amino-termina 97.4 0.00046 9.9E-09 53.8 6.0 65 5-85 3-68 (70)
39 cd01813 UBP_N UBP ubiquitin pr 97.3 0.00068 1.5E-08 53.9 6.5 71 1-84 1-71 (74)
40 PF14560 Ubiquitin_2: Ubiquiti 97.2 0.0011 2.3E-08 54.0 7.1 75 3-85 4-81 (87)
41 cd01800 SF3a120_C Ubiquitin-li 97.2 0.00068 1.5E-08 53.8 5.1 63 10-88 8-70 (76)
42 cd08065 MPN_eIF3h Mpr1p, Pad1p 97.1 0.0077 1.7E-07 59.2 12.2 125 151-285 22-149 (266)
43 cd01769 UBL Ubiquitin-like dom 97.0 0.0022 4.7E-08 48.7 6.4 66 5-86 2-68 (69)
44 PF00789 UBX: UBX domain; Int 96.8 0.0073 1.6E-07 48.3 7.7 71 2-85 8-81 (82)
45 cd08058 MPN_euk_mb Mpr1p, Pad1 96.6 0.022 4.7E-07 48.9 10.3 101 151-271 15-119 (119)
46 cd01789 Alp11_N Ubiquitin-like 96.5 0.0097 2.1E-07 48.4 7.1 74 3-85 4-79 (84)
47 cd01790 Herp_N Homocysteine-re 96.3 0.01 2.2E-07 48.0 6.0 69 2-86 3-78 (79)
48 TIGR00601 rad23 UV excision re 96.3 0.013 2.8E-07 60.5 8.1 73 1-89 1-77 (378)
49 PLN02560 enoyl-CoA reductase 96.2 0.016 3.6E-07 58.2 7.8 76 1-85 1-81 (308)
50 smart00166 UBX Domain present 96.2 0.027 5.9E-07 45.0 7.7 72 2-85 6-79 (80)
51 cd01801 Tsc13_N Ubiquitin-like 95.8 0.032 6.9E-07 44.4 6.4 62 11-85 13-75 (77)
52 cd01771 Faf1_UBX Faf1 UBX doma 95.6 0.068 1.5E-06 43.2 7.7 70 3-85 7-78 (80)
53 cd08070 MPN_like Mpr1p, Pad1p 95.5 0.072 1.6E-06 46.3 8.3 103 151-272 16-120 (128)
54 cd01767 UBX UBX (ubiquitin reg 95.5 0.077 1.7E-06 42.1 7.7 70 2-85 4-75 (77)
55 cd01773 Faf1_like1_UBX Faf1 ik 95.5 0.076 1.6E-06 43.3 7.6 70 3-85 8-79 (82)
56 KOG2834 Nuclear pore complex, 95.4 0.012 2.6E-07 61.1 3.4 63 67-129 16-83 (510)
57 cd01774 Faf1_like2_UBX Faf1 ik 95.2 0.12 2.6E-06 42.3 7.9 75 3-85 7-83 (85)
58 cd01770 p47_UBX p47-like ubiqu 95.2 0.087 1.9E-06 42.4 7.0 65 2-80 6-73 (79)
59 KOG0010 Ubiquitin-like protein 95.0 0.034 7.3E-07 58.5 5.3 71 2-89 17-88 (493)
60 cd01772 SAKS1_UBX SAKS1-like U 94.9 0.12 2.6E-06 41.4 7.1 71 2-85 6-78 (79)
61 KOG1795 U5 snRNP spliceosome s 94.8 0.048 1E-06 62.5 6.1 118 151-285 2114-2234(2321)
62 cd01815 BMSC_UbP_N Ubiquitin-l 94.3 0.059 1.3E-06 43.2 4.0 55 16-85 16-73 (75)
63 cd00196 UBQ Ubiquitin-like pro 93.9 0.17 3.6E-06 35.5 5.5 65 5-85 2-67 (69)
64 cd01788 ElonginB Ubiquitin-lik 93.8 0.099 2.1E-06 45.1 4.6 71 1-87 3-80 (119)
65 KOG2880 SMAD6 interacting prot 93.1 0.04 8.7E-07 55.8 1.2 98 136-242 260-357 (424)
66 COG5178 PRP8 U5 snRNP spliceos 92.4 0.36 7.8E-06 55.4 7.5 121 143-279 2142-2268(2365)
67 PF08817 YukD: WXG100 protein 92.0 0.34 7.3E-06 38.7 5.0 65 5-84 7-78 (79)
68 KOG0005 Ubiquitin-like protein 91.7 0.36 7.9E-06 37.0 4.6 68 1-84 1-69 (70)
69 cd06409 PB1_MUG70 The MUG70 pr 90.8 0.57 1.2E-05 38.6 5.3 44 2-46 2-50 (86)
70 KOG4495 RNA polymerase II tran 90.3 0.4 8.6E-06 40.1 4.0 63 1-77 3-65 (110)
71 PF11470 TUG-UBL1: GLUT4 regul 90.3 0.43 9.2E-06 37.2 4.0 59 10-84 7-65 (65)
72 KOG0003 Ubiquitin/60s ribosoma 89.9 0.23 5.1E-06 42.3 2.4 69 1-85 2-70 (128)
73 cd01814 NTGP5 Ubiquitin-like N 88.3 1.1 2.4E-05 38.7 5.4 68 3-88 7-91 (113)
74 PF14732 UAE_UbL: Ubiquitin/SU 87.0 0.89 1.9E-05 37.3 3.9 59 20-85 8-67 (87)
75 PF08825 E2_bind: E2 binding d 85.7 0.58 1.3E-05 38.3 2.2 67 14-85 1-69 (84)
76 cd05992 PB1 The PB1 domain is 84.9 2.7 5.9E-05 32.9 5.8 45 2-46 2-47 (81)
77 PF14836 Ubiquitin_3: Ubiquiti 84.2 3.6 7.8E-05 34.0 6.2 64 11-87 15-80 (88)
78 cd06406 PB1_P67 A PB1 domain i 83.7 2.3 4.9E-05 34.6 4.8 43 2-46 4-46 (80)
79 cd06407 PB1_NLP A PB1 domain i 83.1 3.3 7.1E-05 33.7 5.5 46 1-47 1-48 (82)
80 KOG0004 Ubiquitin/40S ribosoma 83.1 1.8 3.8E-05 39.4 4.3 71 1-87 1-72 (156)
81 cd08060 MPN_UPF0172 Mov34/MPN/ 82.8 17 0.00037 33.9 10.9 81 153-243 20-104 (182)
82 PF11039 DUF2824: Protein of u 82.1 2.7 5.8E-05 37.4 4.9 64 151-216 46-127 (151)
83 cd08057 MPN_euk_non_mb Mpr1p, 79.4 35 0.00076 30.5 11.5 113 151-272 22-136 (157)
84 smart00666 PB1 PB1 domain. Pho 77.6 6.4 0.00014 30.9 5.5 43 3-46 4-47 (81)
85 PF09379 FERM_N: FERM N-termin 75.8 11 0.00024 29.4 6.4 70 5-84 1-74 (80)
86 PHA00771 head assembly protein 74.7 4.5 9.7E-05 35.7 4.1 76 152-232 47-144 (151)
87 PF10790 DUF2604: Protein of U 73.7 7.9 0.00017 30.3 4.7 61 13-88 9-72 (76)
88 TIGR02256 ICE_VC0181 integrati 73.3 32 0.00069 30.5 9.2 82 151-237 16-100 (131)
89 cd01811 OASL_repeat1 2'-5' oli 72.8 7.6 0.00016 31.2 4.6 59 12-82 13-71 (80)
90 KOG3493 Ubiquitin-like protein 71.3 3.4 7.3E-05 32.3 2.2 59 12-86 14-72 (73)
91 PF00564 PB1: PB1 domain; Int 69.2 10 0.00023 29.7 4.9 44 2-46 3-48 (84)
92 PF14464 Prok-JAB: Prokaryotic 68.8 26 0.00056 28.5 7.3 68 150-235 16-84 (104)
93 PF13881 Rad60-SLD_2: Ubiquiti 67.9 34 0.00074 29.3 8.0 63 3-81 5-76 (111)
94 KOG1639 Steroid reductase requ 67.7 13 0.00028 36.5 5.9 72 1-85 1-77 (297)
95 KOG0001 Ubiquitin and ubiquiti 66.9 40 0.00086 24.4 7.5 65 7-87 7-71 (75)
96 PF12436 USP7_ICP0_bdg: ICP0-b 61.8 5.9 0.00013 38.5 2.5 67 10-87 85-152 (249)
97 COG5100 NPL4 Nuclear pore prot 59.2 9.9 0.00021 39.7 3.6 102 297-408 428-543 (571)
98 KOG1560 Translation initiation 58.1 1.1E+02 0.0023 30.8 10.3 154 123-286 8-169 (339)
99 cd08064 MPN_eIF3f Mpr1p, Pad1p 58.0 86 0.0019 30.7 9.9 107 152-274 23-133 (265)
100 KOG0011 Nucleotide excision re 56.6 30 0.00066 35.2 6.5 73 1-89 1-76 (340)
101 KOG1555 26S proteasome regulat 55.0 35 0.00076 34.6 6.6 115 155-285 57-179 (316)
102 smart00266 CAD Domains present 54.9 34 0.00074 27.4 5.2 45 3-49 3-47 (74)
103 cd01615 CIDE_N CIDE_N domain, 54.4 32 0.0007 27.8 5.1 45 3-49 5-49 (78)
104 PF00788 RA: Ras association ( 53.5 34 0.00074 27.0 5.3 41 2-43 4-51 (93)
105 PF02017 CIDE-N: CIDE-N domain 53.2 32 0.0007 27.8 4.9 45 3-49 5-49 (78)
106 cd01768 RA RA (Ras-associating 51.7 36 0.00078 27.0 5.1 42 2-44 1-48 (87)
107 smart00295 B41 Band 4.1 homolo 50.0 35 0.00077 30.9 5.5 42 2-44 5-48 (207)
108 cd06398 PB1_Joka2 The PB1 doma 49.7 47 0.001 27.5 5.6 46 2-47 2-53 (91)
109 cd06539 CIDE_N_A CIDE_N domain 48.6 45 0.00097 27.0 5.0 45 3-49 5-49 (78)
110 cd01787 GRB7_RA RA (RAS-associ 46.2 64 0.0014 26.6 5.7 47 2-49 4-53 (85)
111 cd06535 CIDE_N_CAD CIDE_N doma 45.3 53 0.0011 26.6 5.0 45 3-49 5-49 (77)
112 PF13019 Telomere_Sde2: Telome 42.8 81 0.0018 29.0 6.4 44 3-47 3-52 (162)
113 PF08783 DWNN: DWNN domain; I 42.0 41 0.00089 26.9 3.9 34 3-36 3-36 (74)
114 TIGR02958 sec_mycoba_snm4 secr 41.6 1E+02 0.0022 32.9 7.9 66 9-88 9-81 (452)
115 PF05020 zf-NPL4: NPL4 family, 40.1 14 0.00029 33.5 1.0 24 105-128 3-28 (147)
116 cd01612 APG12_C Ubiquitin-like 39.0 86 0.0019 25.7 5.5 63 12-89 18-83 (87)
117 cd08072 MPN_archaeal Mov34/MPN 38.8 1.2E+02 0.0026 25.9 6.6 77 152-253 19-95 (117)
118 cd06396 PB1_NBR1 The PB1 domai 38.4 81 0.0018 25.7 5.1 42 3-47 3-47 (81)
119 COG1310 Predicted metal-depend 38.0 1.2E+02 0.0027 26.1 6.8 33 196-232 59-91 (134)
120 cd06536 CIDE_N_ICAD CIDE_N dom 37.5 88 0.0019 25.5 5.2 45 3-49 5-51 (80)
121 PF04110 APG12: Ubiquitin-like 37.4 54 0.0012 27.1 4.0 63 12-89 18-83 (87)
122 cd06411 PB1_p51 The PB1 domain 36.8 54 0.0012 26.6 3.8 35 11-46 8-42 (78)
123 PF03671 Ufm1: Ubiquitin fold 36.0 69 0.0015 25.6 4.2 58 12-84 18-75 (76)
124 PF14778 ODR4-like: Olfactory 35.4 72 0.0016 32.8 5.5 60 156-216 1-73 (362)
125 KOG1554 COP9 signalosome, subu 34.9 1.6E+02 0.0034 29.7 7.4 110 152-269 75-187 (347)
126 PF09263 PEX-2N: Peroxisome bi 33.8 23 0.00051 29.1 1.3 15 72-86 70-84 (87)
127 cd01611 GABARAP Ubiquitin doma 33.1 82 0.0018 27.1 4.7 64 11-90 42-109 (112)
128 cd08063 MPN_CSN6 Mpr1p, Pad1p 33.0 1.2E+02 0.0026 30.1 6.6 63 153-216 30-93 (288)
129 KOG2689 Predicted ubiquitin re 33.0 81 0.0018 31.4 5.1 71 3-85 213-285 (290)
130 cd08062 MPN_RPN7_8 Mpr1p, Pad1 32.8 3.9E+02 0.0084 26.6 10.1 109 151-273 25-136 (280)
131 smart00314 RA Ras association 32.2 1.2E+02 0.0025 24.2 5.3 42 2-44 4-51 (90)
132 cd01775 CYR1_RA Ubiquitin doma 32.1 1E+02 0.0023 26.0 4.9 42 2-44 4-47 (97)
133 KOG2086 Protein tyrosine phosp 31.0 91 0.002 32.5 5.3 65 3-80 308-374 (380)
134 cd06538 CIDE_N_FSP27 CIDE_N do 30.1 1.4E+02 0.003 24.3 5.2 44 3-49 5-48 (79)
135 cd08059 MPN_prok_mb Mpr1p, Pad 29.0 2.3E+02 0.0049 23.0 6.6 68 152-237 16-83 (101)
136 cd01766 Ufm1 Urm1-like ubiquit 28.5 1.2E+02 0.0026 24.4 4.5 57 14-85 20-76 (82)
137 PF06442 DHFR_2: R67 dihydrofo 26.9 36 0.00077 26.6 1.2 14 207-220 41-54 (78)
138 PF07929 PRiA4_ORF3: Plasmid p 26.6 1.1E+02 0.0023 27.9 4.7 74 12-89 20-100 (179)
139 cd06537 CIDE_N_B CIDE_N domain 25.6 1.7E+02 0.0037 23.9 5.0 44 3-49 5-48 (81)
140 cd06397 PB1_UP1 Uncharacterize 24.9 1.5E+02 0.0032 24.3 4.4 42 5-47 5-47 (82)
141 cd06395 PB1_Map2k5 PB1 domain 24.0 1.1E+02 0.0024 25.1 3.6 34 1-35 1-37 (91)
142 cd06408 PB1_NoxR The PB1 domai 20.2 2.8E+02 0.0061 22.8 5.3 35 11-47 13-48 (86)
No 1
>KOG2834 consensus Nuclear pore complex, rNpl4 component (sc Npl4) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.7e-84 Score=648.97 Aligned_cols=388 Identities=36% Similarity=0.503 Sum_probs=322.4
Q ss_pred EEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEE
Q 015194 4 RIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVF 83 (411)
Q Consensus 4 RvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~ 83 (411)
|+|++++-.|++.+++.-+-+...-.+...++.+...+.|.-....+.++++- +-++..+..++.+++++..|| |
T Consensus 56 ~vr~~dvde~ls~edg~I~rsk~~lcrh~~~~mc~~c~pL~p~de~yl~~n~i--kh~Sfhay~rkl~s~~nk~~~---~ 130 (510)
T KOG2834|consen 56 RVRSRDVDERLSKEDGLITRSKDKLCRHDPLQMCTHCSPLDPFDEEYLKKNKI--KHLSFHAYLRKLLSSLNKGHG---Y 130 (510)
T ss_pred ceecccccchhhhcCCceeeccCcccccCccccCCcCCCCCcchHHHhhcCcc--eeeechhhHhhhhccccccCc---c
Confidence 78999999999988534455555545555566666667775555555444431 112333345788899999999 9
Q ss_pred EeecCccccCCCCCCCCCCCCcccchhHHHHhhccccCccCCCcceEEEech-hhhhHHHHHHHHhhccceeeeeeeeee
Q 015194 84 LSYDGERNVRGPSFNPAGSFGRKMTMDDLIAKQMRVTRQENPHCESVSFDRD-CADAFQQYVNETLAFAVKRGGFMYGTV 162 (411)
Q Consensus 84 l~y~~~~~~~~~~~~~~~~~gk~~~~dd~~~k~~~i~rq~~~~~d~vsf~~~-~~~~fq~~~~~~l~~~~QR~G~LYG~Y 162 (411)
+.|.++........|..++.+.++...+..+++++|+||++||||||+|++. .+++|.++||.+ |.||+|||||+|
T Consensus 131 ~~~l~e~s~~~~~~c~~h~p~p~gictkcqp~~i~L~rQ~frhvD~VeFd~~~~v~~Fl~~wr~s---g~QR~GflyG~y 207 (510)
T KOG2834|consen 131 IAPLEEPSCRGKPNCEAHSPGPKGICTKCQPSQITLNRQEFRHVDHVEFDNAELVNHFLNEWRAS---GVQRFGFLYGRY 207 (510)
T ss_pred cccccCcccccCCCCcCCCCCCCceecccchhheEeccccceecceEeecchHHHHHHHHHHHHh---hhhhcceEEEee
Confidence 9998887777667787788899999999999999999999999999999975 468888888766 999999999999
Q ss_pred ecCC------cEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecccC-----------CCCcee
Q 015194 163 LEDK------RVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQ-----------NKKDYT 225 (411)
Q Consensus 163 ~~~~------~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~-----------~~~~~f 225 (411)
.+|. ||+|+|||||||+|++||++|+++. ++++||++|..|||+||||||||++++ ++++||
T Consensus 208 ~e~~~vPLGika~V~aIYEPPQ~~~~dgl~l~~~~-e~~~vD~~a~~lGLrRVG~IFTDl~~~~s~egtV~~~rhkdsyF 286 (510)
T KOG2834|consen 208 TEHGNVPLGIKAVVAAIYEPPQHGEEDGLELLEDD-EAKRVDAIAEGLGLRRVGWIFTDLVTADSAEGTVHYKRHKDSYF 286 (510)
T ss_pred cccccccccceeeEEEEecCCccCCcCCeEEeccc-hhhhHHHHHHhcCceeeEEEEeeeecccCccceEEeeeccchhc
Confidence 9986 7799999999999999999999554 457899999999999999999999855 478999
Q ss_pred ecHHHHHHHHHHHHhcCC-----------CceEEEEEEeeecCCCCcceeEEEeeccHHHHHHhhcCcccccccCCCCcc
Q 015194 226 LSNREVLQAVEFHAECNM-----------EEWVTAVVKLEVSEEGSAAIHFEAFQMSDMCVRLFKEGWFETEIAEGDDPK 294 (411)
Q Consensus 226 LSs~Eii~aa~~Q~~~~~-----------skfvT~vvt~~~~~d~~~~I~~eayQvS~q~~aLv~~~~i~~s~~~~~~p~ 294 (411)
|||+||++||+||++||+ |||||+||| +|.+|+|||++|||||||||||+||+|+|+ .+|+
T Consensus 287 LSseE~~~aa~~Q~~hpn~~~~s~~~~fgSkfVT~vis----g~~~~~V~f~~YQVSnqc~alv~adl~~p~----~~pk 358 (510)
T KOG2834|consen 287 LSSEECITAAMFQNKHPNICEWSRDGHFGSKFVTLVIS----GDLDGEVHFEGYQVSNQCMALVEADLLCPS----LDPK 358 (510)
T ss_pred ccHHHHHHHhhhhhcCCchheeeccccccceeEEEEEe----cCCCcceeeeeeehhHHHHHHhhhhhccCC----cCcc
Confidence 999999999999999995 799999999 456699999999999999999999999996 3588
Q ss_pred cccccc--------ceEEc---------cccccccCCceeEEEEeec---cCCCCCcc--CCCCCCCCC---cccHHHHH
Q 015194 295 LSKMKK--------DVVVG---------GKDVKEVDNDFFLVVVKIL---DHQGPLSS--TFPIENRTT---QVTMRALK 349 (411)
Q Consensus 295 ~~~~~~--------~V~~~---------~k~~~~vd~~~llv~v~~~---~h~~p~~~--~FPieNR~~---~q~~~~l~ 349 (411)
.+|+++ +|+|. .|.++|+|++||||.|++. +|-.+.++ +||||||+. .|....|+
T Consensus 359 ~~yv~~t~~~r~v~dv~~~~~~kyg~ev~k~akPlPveflLV~vt~gp~~p~~~F~s~t~~fpienR~~~g~~q~~~~l~ 438 (510)
T KOG2834|consen 359 LGYVKETPDPRYVPDVQYSKKNKYGAEVMKNAKPLPVEFLLVDVTHGPKEPHYTFSSSTAPFPIENRQAIGQTQGLASLA 438 (510)
T ss_pred cceeccCCChhcccchHHHhhhHHHHHHHhcCccCCceEEEEEeccCCCCCCcccccccCCCccccHHHHHHhhhHHHHH
Confidence 877654 45443 3455678999999999443 22222233 599999985 68899999
Q ss_pred HhhccCCCccccccccchhHHHHHhhCCCcC-ccHHHHHHHHHcCCCCchhHHHHHHHhh
Q 015194 350 SHLNRSPSLPLVKRISDFHLLLFLARFLDLN-SDVPALAQCVQAQTAVPEGYKLLINSMA 408 (411)
Q Consensus 350 ~~l~~~~~~~~~~~~sDFHlLl~L~~~~~l~-~d~~~L~~~v~~~~~~~~~~~~li~s~~ 408 (411)
+|+....+..+++++||||||||+++..+++ +++..|+++++.+.+.+++|+.+|+|.+
T Consensus 439 ~y~~~~~~~~~~~~~SnFhlLL~~~~~~~~~~d~vs~l~e~~~~~s~~ee~~~~~~es~~ 498 (510)
T KOG2834|consen 439 KYSSELPSNQFLGKISNFHLLLFLATNLDVSSDEVSALLEFVRKQSDVEEGYELLIESEA 498 (510)
T ss_pred HHhhccchhhhhhhhhhHHHHHhhHhhccCChHHHHHHHHHHHhccchHHHHHHHHHhhh
Confidence 9999887778999999999999999999999 7999999999999999999999999976
No 2
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=100.00 E-value=2.9e-82 Score=623.77 Aligned_cols=368 Identities=23% Similarity=0.371 Sum_probs=303.4
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCC--CCCceeeccccccccCCCCcccccccCCCCCCCcccccccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIP--VESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISH 78 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~--~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkH 78 (411)
||+|||||+||.||+|+ ++++++.|.+|++..+..+ ++.+++..+|+. .|. .++.+ +++|+.+|||+|
T Consensus 1 Mi~rfRsk~G~~Rve~q-e~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~------qG~-~~s~l--~dqt~~dlGL~h 70 (571)
T COG5100 1 MIFRFRSKEGQRRVEVQ-ESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDG------QGE-IFSLL--KDQTPDDLGLRH 70 (571)
T ss_pred CeEEEecCCCceeeecc-ccchhhhhhHHHHhhhccCCCccceEEEeCCCC------Cce-eeecc--cccChhhhcccc
Confidence 99999999999999999 6999999999999998654 556888777753 221 34443 579999999999
Q ss_pred ccEEEEeecCcc-------ccC-CC--------------------------------------CCCCCCCCC--------
Q 015194 79 GSIVFLSYDGER-------NVR-GP--------------------------------------SFNPAGSFG-------- 104 (411)
Q Consensus 79 GDml~l~y~~~~-------~~~-~~--------------------------------------~~~~~~~~g-------- 104 (411)
|+||||.|+..+ .+. +| .+|.||++|
T Consensus 71 GqmLyl~ysd~~snne~~~~V~~~pkq~~skgi~~~k~sm~v~q~~iddslekedgli~rs~t~lC~Hg~~gMC~yCsPL 150 (571)
T COG5100 71 GQMLYLEYSDIASNNEKKRDVPGKPKQDCSKGIKREKDSMPVIQDPIDDSLEKEDGLIRRSMTMLCQHGSNGMCSYCSPL 150 (571)
T ss_pred CcEEEEEeccccccccccccCCCCCcccCCcchhhcCCCCccccccchhhhhhccccchhhhhHHhhcCCCcccccCCCC
Confidence 999999994422 111 00 157788875
Q ss_pred -------------cccchhHHHHh-----------------------------------------------hccccCccC
Q 015194 105 -------------RKMTMDDLIAK-----------------------------------------------QMRVTRQEN 124 (411)
Q Consensus 105 -------------k~~~~dd~~~k-----------------------------------------------~~~i~rq~~ 124 (411)
||++++.|++| .|.|+.|++
T Consensus 151 ~PwDe~Y~~~NkIKhlSFhsYl~k~nsn~nk~~s~~Syi~pleep~f~vke~C~~gH~pwP~giC~kCQps~i~L~~Q~F 230 (571)
T COG5100 151 DPWDEKYYKDNKIKHLSFHSYLEKMNSNKNKLGSVESYIVPLEEPSFTVKETCEDGHGPWPHGICNKCQPSNIILAPQVF 230 (571)
T ss_pred CccchhhhhhcceeEeeHHHHHHHHhhhhhhccccccccCCcCCCcchhhccCCCCCCCCcccccccCCcceeeecccce
Confidence 88899888776 157899999
Q ss_pred CCcceEEEech-hhhhHHHHHHHHhhccceeeeeeeeeeecCC------cEEEEeEeCCCCCCCcCceEEcCCchhHHHH
Q 015194 125 PHCESVSFDRD-CADAFQQYVNETLAFAVKRGGFMYGTVLEDK------RVEVNFIYEPPQQGTEEVLYILRDEEEEKLV 197 (411)
Q Consensus 125 ~~~d~vsf~~~-~~~~fq~~~~~~l~~~~QR~G~LYG~Y~~~~------~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~v 197 (411)
||||||+|+.. .+++|.+=||++ |.||||||||+|..|. ||||||||||||++++||+++. .|.+|..+
T Consensus 231 RmvDHvEF~~~~iv~~Fi~~WR~s---G~QRfGy~yG~y~~y~n~PLGiKaVveaIyEPpQ~de~DG~t~e-e~~de~l~ 306 (571)
T COG5100 231 RMVDHVEFDGKHIVENFIRNWRES---GRQRFGYLYGRYMDYENIPLGIKAVVEAIYEPPQEDEPDGFTIE-EWADEGLM 306 (571)
T ss_pred eeeeeeeecCchHHHHHHHHHHHh---hhhhheeeeeehhhccCCcchhHHHhhhhcCCccccCCCceEee-eecccccc
Confidence 99999999975 589888888877 9999999999999985 8999999999999999999995 55556789
Q ss_pred HHHHHhcCCeEEEEEEeecccC-----------CCCceeecHHHHHHHHHHHHhcCC-----------CceEEEEEEeee
Q 015194 198 DAIAAGLGMKKVGFIFTQTIMQ-----------NKKDYTLSNREVLQAVEFHAECNM-----------EEWVTAVVKLEV 255 (411)
Q Consensus 198 d~iA~~lGL~~VG~IfTdl~~~-----------~~~~~fLSs~Eii~aa~~Q~~~~~-----------skfvT~vvt~~~ 255 (411)
|+.|..+||+|||+|||||++. |+++|||||+||+++|++|.+||+ ||||||||||++
T Consensus 307 d~~a~~~GL~riG~IfTDl~d~gs~~GsV~ckrh~dsyFLSSLEv~~~A~~Qt~hpn~~k~sr~g~FgSkfvT~Visgnl 386 (571)
T COG5100 307 DAPASGTGLERIGMIFTDLLDEGSNRGSVTCKRHADSYFLSSLEVEFIAKMQTMHPNTVKDSREGEFGSKFVTIVISGNL 386 (571)
T ss_pred cccccccCceeeeeeeeehhhccCCCCceeeeccccceehhhhhhHHHhhhhhcCCCcccccccccccceeEEEEEeccc
Confidence 9999999999999999999854 478999999999999999999985 799999999877
Q ss_pred cCCCCcceeEEEeeccHHHHHHhhcCccccccc-----------CCCCccccccc-----cceEEccccccccCCceeEE
Q 015194 256 SEEGSAAIHFEAFQMSDMCVRLFKEGWFETEIA-----------EGDDPKLSKMK-----KDVVVGGKDVKEVDNDFFLV 319 (411)
Q Consensus 256 ~~d~~~~I~~eayQvS~q~~aLv~~~~i~~s~~-----------~~~~p~~~~~~-----~~V~~~~k~~~~vd~~~llv 319 (411)
+ |+|++.+|||||||||||++|+|.||.. +.+.|++.|++ .+|.+++||.+|+ +||||
T Consensus 387 ~----GeI~~~sYQVSn~~~ALv~ad~I~ps~dP~r~l~~~~~q~RyvpdifYr~td~yg~~v~enAkPafPv--~flLV 460 (571)
T COG5100 387 D----GEIGLQSYQVSNQCMALVKADYILPSEDPRRFLATKEDQTRYVPDIFYRYTDTYGEEVMENAKPAFPV--EFLLV 460 (571)
T ss_pred C----ceeeeeEEeehhhhhHHhhcCcccCCcChhhhhhccccccccccceeeeecchhhhhHHhcCCCCCce--eEEEE
Confidence 5 8999999999999999999999999831 12345555543 2466678888887 89999
Q ss_pred EEeeccCCCC------C--ccCCCCCCCCC---cccHHHHHHhhccCCC--ccccccccchhHHHHHhhCCCcC-ccHHH
Q 015194 320 VVKILDHQGP------L--SSTFPIENRTT---QVTMRALKSHLNRSPS--LPLVKRISDFHLLLFLARFLDLN-SDVPA 385 (411)
Q Consensus 320 ~v~~~~h~~p------~--~~~FPieNR~~---~q~~~~l~~~l~~~~~--~~~~~~~sDFHlLl~L~~~~~l~-~d~~~ 385 (411)
++ ||||| | +..||+.||+. .+...+|++||-++.+ .-....+||||+||++....+++ .|+..
T Consensus 461 tL---ThGfp~kpnplF~s~d~~p~~~~~~~~~~~~~~~l~k~lF~~~t~~~~~~g~~SNf~~LL~i~~l~il~~~~~k~ 537 (571)
T COG5100 461 TL---THGFPEKPNPLFRSIDFIPKKFGDRKMAEYFGGDLSKELFSNFTLLTRIQGVFSNFKDLLKIIVLRILDKFDFKS 537 (571)
T ss_pred Ee---ccCCCCCCCcceecccccccchhhhhhhhhhHHHHHHHHHhhhhHHHHHHhhhhhHHHHHHHHHHhhcChhHHHH
Confidence 98 99998 2 24699999985 6789999998755432 22457899999999999999998 77877
Q ss_pred HHHHHH
Q 015194 386 LAQCVQ 391 (411)
Q Consensus 386 L~~~v~ 391 (411)
++....
T Consensus 538 ~i~s~~ 543 (571)
T COG5100 538 FISSME 543 (571)
T ss_pred HHHHHH
Confidence 776543
No 3
>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain. Npl4p (nuclear protein localization-4) is identical to Hmg-CoA reductase degradation 4 (HRD4) protein and contains a domain that is part of the pfam clan MPN/Mov34-like. Npl4 plays an intermediate role between endoplasmic reticulum-associated degradation (ERAD) substrate ubiquitylation and proteasomal degradation. Npl4p associates with Cdc48p (Cdc48 in yeast and p97 or valosin-containing protein (VCP) in higher eukaryotes), the highly conserved ATPase of the AAA family, via ubiquitin fusion degradation-1 protein (Ufd1p) to form a Cdc48p-Ufd1p-Npl4p complex which then functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=100.00 E-value=2.7e-77 Score=581.17 Aligned_cols=241 Identities=41% Similarity=0.661 Sum_probs=215.4
Q ss_pred cccCccCCCcceEEEechh-hhhHHH-HHHHHhhccceeeeeeeeeeecC------CcEEEEeEeCCCCCCCcCceEEcC
Q 015194 118 RVTRQENPHCESVSFDRDC-ADAFQQ-YVNETLAFAVKRGGFMYGTVLED------KRVEVNFIYEPPQQGTEEVLYILR 189 (411)
Q Consensus 118 ~i~rq~~~~~d~vsf~~~~-~~~fq~-~~~~~l~~~~QR~G~LYG~Y~~~------~~a~VeAIYEPPQ~~~~dg~~l~~ 189 (411)
+|+||+|||||||+|++.+ ++.|++ +|+++ +.||||||||||+++ .+|+|||||||||+|+.||+++++
T Consensus 1 tL~~Q~~r~Vd~vef~~~~~~~~f~~~~w~~~---~~QR~G~LyG~y~~~~~~plgika~VeaIYEPPQ~~~~d~~~~l~ 77 (274)
T cd08061 1 TLKRQKYRHVDHVEFDNPSIVEFFLYVFWRKT---GQQRIGFLYGRYDEDEDVPLGIKAVVEAIYEPPQEGTPDGFELLE 77 (274)
T ss_pred CCccccCCCcCEEEEecHHHHHHHHHHHHHhh---cceeEEEEEEEeecccCCCCceEEEEEEEECCCccCCCCCeEEcc
Confidence 6899999999999999876 677888 88865 999999999999998 489999999999999999999998
Q ss_pred CchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeecHHHHHHHHHHHHhcC----CCceEEEEEEeeecCCCCcceeE
Q 015194 190 DEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSNREVLQAVEFHAECN----MEEWVTAVVKLEVSEEGSAAIHF 265 (411)
Q Consensus 190 d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs~Eii~aa~~Q~~~~----~skfvT~vvt~~~~~d~~~~I~~ 265 (411)
|+.+ +.||+||+.|||+||||||||+.++++++|||||+||++||++|++|+ .|||||||||++. +|+|++
T Consensus 78 d~~~-~~vd~iA~~lGL~~VG~IfT~l~~~~~d~~~LSs~Evi~aA~~Q~~~~~g~~gskFvT~vvs~~~----~g~i~~ 152 (274)
T cd08061 78 DPNA-DTVDAIAAALGLERVGWIFTDLPREDKDGYFLSAEEVILAAKFQLKHPTGKFGSKFVTVVVTGDK----DGQIHF 152 (274)
T ss_pred chhh-hHHHHHHHHcCCeEEEEEEecCCCCCCCceeECHHHHHHHHHHhhhcccCCcCCeEEEEEEecCC----CCceee
Confidence 8765 579999999999999999999999889999999999999999999753 3899999999643 499999
Q ss_pred EEeeccHHHHHHhhcCcccccccCC----CCccccccccceEEcccc-------ccccCCceeEEEEeeccCCCCCc---
Q 015194 266 EAFQMSDMCVRLFKEGWFETEIAEG----DDPKLSKMKKDVVVGGKD-------VKEVDNDFFLVVVKILDHQGPLS--- 331 (411)
Q Consensus 266 eayQvS~q~~aLv~~~~i~~s~~~~----~~p~~~~~~~~V~~~~k~-------~~~vd~~~llv~v~~~~h~~p~~--- 331 (411)
+|||||+|||+|||+|||+++..++ .+|...+++|+|+|++|+ +.++|++||||+| +|++|.+
T Consensus 153 ~ayQvSdq~~~lv~~~~i~~s~~~~~~~~~~~~~~~~vpdVf~~~k~~yg~~~a~~~~p~~~llV~v---~h~~p~~~~~ 229 (274)
T cd08061 153 EAYQVSDQAMALVRDGLLLPTKDADELYVREPTLERYVPDVFYSGKDKYGKTKAVPEVDVEYFLVDV---PHGFPLSPSS 229 (274)
T ss_pred eeeeecHHHHHHHHcCccccCCCcccccccCCchheeccceeeeehhhhccccCCCCCCceEEEEEe---cCCCCCCCCc
Confidence 9999999999999999999974221 246667899999999999 8999999999998 8999865
Q ss_pred ---cCCCCCCCC-C---cccHHHHHHhhccCCCccccccccchhHHHHH
Q 015194 332 ---STFPIENRT-T---QVTMRALKSHLNRSPSLPLVKRISDFHLLLFL 373 (411)
Q Consensus 332 ---~~FPieNR~-~---~q~~~~l~~~l~~~~~~~~~~~~sDFHlLl~L 373 (411)
+.||||||. . .|+..++++|+ +.++++++||||||+||
T Consensus 230 ~~~~~FPieNR~~~~~~~~~~~~~~~~~----~~~~~~~lsdFHlLl~L 274 (274)
T cd08061 230 FKSSDFPIENRPPSLGELQDLDALARYL----GKPFLERLSDFHLLLYL 274 (274)
T ss_pred ccCCCCCccccccccccccchHHHHHhc----cchHhhhhcchhhHhhC
Confidence 689999998 2 67888888888 45689999999999997
No 4
>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation following ubiquitination of target proteins but preceding their recognition by the 26S proteasome []. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing [].
Probab=100.00 E-value=4e-77 Score=587.60 Aligned_cols=245 Identities=41% Similarity=0.653 Sum_probs=221.0
Q ss_pred eeeeeeeeeecCC------cEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecc----------
Q 015194 154 RGGFMYGTVLEDK------RVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTI---------- 217 (411)
Q Consensus 154 R~G~LYG~Y~~~~------~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~---------- 217 (411)
|||||||||++|+ ||+|||||||||+|+.|||+|++|++ +++||+||++|||+|||||||||+
T Consensus 1 R~G~LYG~Y~~~~~vplGika~VeaIYEPpQ~~~~d~~~l~~d~~-~~~vd~iA~~lGL~rVG~IfTdl~~~~~~~g~v~ 79 (306)
T PF05021_consen 1 RFGFLYGRYEEYDDVPLGIKAVVEAIYEPPQEGEPDGFTLLPDEN-EERVDAIASALGLERVGWIFTDLTDDGSGDGTVK 79 (306)
T ss_pred CeEEEEEEEeccCCCCCceEEEEEEEECCCcCCCCCCEEEcCCcc-HHHHHHHHHHCCCEEEEEEEecCcccccCCCcee
Confidence 8999999999997 89999999999999999999976654 579999999999999999999998
Q ss_pred -cCCCCceeecHHHHHHHHHHHHhcCC-----------CceEEEEEEeeecCCCCcceeEEEeeccHHHHHHhhcCcccc
Q 015194 218 -MQNKKDYTLSNREVLQAVEFHAECNM-----------EEWVTAVVKLEVSEEGSAAIHFEAFQMSDMCVRLFKEGWFET 285 (411)
Q Consensus 218 -~~~~~~~fLSs~Eii~aa~~Q~~~~~-----------skfvT~vvt~~~~~d~~~~I~~eayQvS~q~~aLv~~~~i~~ 285 (411)
.||+++|||||+||++||++|++||+ |||||||||+ |.+|+|+++|||||||||+|||+|||++
T Consensus 80 ~~r~~~~~~LSs~Eii~aA~~Q~~~p~~~~~s~~g~fgSkFVT~vvsg----~~~g~i~~~ayQvS~q~~~Lv~~~~l~~ 155 (306)
T PF05021_consen 80 CKRHKDSYFLSSLEIIFAAKLQNKHPNPCKYSETGYFGSKFVTCVVSG----DEEGEIHFEAYQVSNQCVALVRAGILEP 155 (306)
T ss_pred eccccccccccHHHHHHHHHHHHhcCccccccCCCccCCeEEEEEEeC----CCCCceeeEEeeehHHHHHHHHCCcccc
Confidence 46789999999999999999999964 6899999994 5679999999999999999999999999
Q ss_pred cccCCCCcccccccc--------ceEEc-----cccccc----cCCceeEEEEeeccCCCCC----ccCCCCCCCCC---
Q 015194 286 EIAEGDDPKLSKMKK--------DVVVG-----GKDVKE----VDNDFFLVVVKILDHQGPL----SSTFPIENRTT--- 341 (411)
Q Consensus 286 s~~~~~~p~~~~~~~--------~V~~~-----~k~~~~----vd~~~llv~v~~~~h~~p~----~~~FPieNR~~--- 341 (411)
+ .+|+++++++ +|+|+ |+++++ +|++||||+|++..|..|. ++.||+|||..
T Consensus 156 s----~~p~~~~v~~~~~~~yvpdV~y~~~neyG~~v~~~a~p~pveylLV~v~~~~p~~p~~~F~~~~FPieNR~~~g~ 231 (306)
T PF05021_consen 156 S----QDPSLMYVRESTEERYVPDVFYREKNEYGKEVKENAKPFPVEYLLVTVTHGFPKSPNPTFNSSPFPIENRPGMGE 231 (306)
T ss_pred C----CCCceEEEecCCCcccccceEEEEccccchhhhhcccCCCceEEEEecccCCCCCCCccccCCCCCcccccccCc
Confidence 6 3488887765 99998 888888 9999999999777777664 56899999997
Q ss_pred cccHHHHHHhhccCCCccccccccchhHHHHHhhCCCcC-ccHHHHHHHHHcCCC-------CchhHHHHHHHh
Q 015194 342 QVTMRALKSHLNRSPSLPLVKRISDFHLLLFLARFLDLN-SDVPALAQCVQAQTA-------VPEGYKLLINSM 407 (411)
Q Consensus 342 ~q~~~~l~~~l~~~~~~~~~~~~sDFHlLl~L~~~~~l~-~d~~~L~~~v~~~~~-------~~~~~~~li~s~ 407 (411)
+|++++|++||++.+..++++++||||||+||+++.+|+ +|++.||++|++++. -.+||+.++..|
T Consensus 232 ~q~~~~L~~yl~~~~~~~~~~~lsDFHLLlfL~~~~il~~~d~~~L~~av~~~d~~~~~~~~~~~~w~tl~~il 305 (306)
T PF05021_consen 232 PQTLQDLKKYLSDFKSQPFLERLSDFHLLLFLATMDILDKEDMPLLCEAVRERDEEAAYQLSESEGWQTLIAIL 305 (306)
T ss_pred ccCHHHHHHHHHhcCcchHhhhcccHHHHHHHHhCCCCCHHHHHHHHHHHHhcCHHHHHHhhcChHHHHHHHHh
Confidence 899999999999998899999999999999999996666 899999999998764 567999888754
No 5
>cd08056 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains without isopeptidase activity found in splicing factor Prp8. Members of this family are found in pre-mRNA-processing factor 8 (Prp8) which is a critical splicing factor, interacting with several other spliceosomal proteins, snRNAs, and the pre-mRNA, thus organizing and stabilizing the spliceosome catalytic core. Prp8 is one of the largest and most highly conserved of nuclear proteins, occupying a central position in the catalytic core of the spliceosome. Its C-terminal domain exhibits a JAB1/MPN-like core similar to deubiquitinating enzymes, but does not show catalytic isopeptidase activity, possibly because the putative isopeptidase center is covered by insertions and terminal appendices that are grafted onto this core, thus impairing the metal binding site. It is proposed that this domain is a protein interaction domain instead of a Zn(2+)-dependent metalloenzyme as proposed for some MPN proteins. The DEAD-box protein Brr2 and t
Probab=99.85 E-value=4.3e-21 Score=184.51 Aligned_cols=121 Identities=18% Similarity=0.211 Sum_probs=104.9
Q ss_pred ccceeeeeeeeeeecCC-c-EEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeec
Q 015194 150 FAVKRGGFMYGTVLEDK-R-VEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLS 227 (411)
Q Consensus 150 ~~~QR~G~LYG~Y~~~~-~-a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLS 227 (411)
-..|++|||||++.++. . =+|.+|++|||.|+.+++++.... .+.+...||+.+|||+|++ .+.+|||
T Consensus 54 ~rtQ~~GyLyG~~~~d~~~vkeI~cIvipPQ~gt~~sv~l~~~~------~~~~~l~~Le~LGWIHTqp----~e~~~Ls 123 (252)
T cd08056 54 LRTQIAGYLYGKSPPDNPQVKEIRCIVLVPQLGTHQTVTLPQQL------PQHEYLEDLEPLGWIHTQP----NELPQLS 123 (252)
T ss_pred hcceEEEEEeccCCCCCCCeEEEEEEEECCEeCCcCcEECCccC------ccchhhCCCEeeEEEEcCC----CCccccC
Confidence 37899999999998863 2 289999999999999999986432 4556689999999999999 7889999
Q ss_pred HHHHHHHHHHHHhcC---CCceEEEEEEeeecCCCCcceeEEEeeccHHHHHHhhcCcccc
Q 015194 228 NREVLQAVEFHAECN---MEEWVTAVVKLEVSEEGSAAIHFEAFQMSDMCVRLFKEGWFET 285 (411)
Q Consensus 228 s~Eii~aa~~Q~~~~---~skfvT~vvt~~~~~d~~~~I~~eayQvS~q~~aLv~~~~i~~ 285 (411)
+.||.+.|++|+.+| .+++|++++|.+ .|.|++.||+++++|+++.+.+.=..
T Consensus 124 s~Dv~tha~~~~~~~~w~~~~~V~it~Sft-----pGs~sl~ay~LT~~G~~wg~~n~d~~ 179 (252)
T cd08056 124 PQDVTTHAKILADNPSWDGEKTVILTCSFT-----PGSCSLTAYKLTPEGYEWGKQNKDLG 179 (252)
T ss_pred HHHHHHHHHHHHhccccCCCcEEEEEEcCC-----CCceEEEEEecCHHHHHHHHhCcccc
Confidence 999999999999998 368999999854 38999999999999999999877544
No 6
>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=99.85 E-value=1.6e-21 Score=157.55 Aligned_cols=73 Identities=40% Similarity=0.707 Sum_probs=50.0
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccC-CCCCCCccccccccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDM-ANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l-~~~~~tl~~lGLkHG 79 (411)
||||||||+||+||+|+ |++|+++|+++|.+.+++|.+.++||.+++.. ..+ ++.+++|+++||+||
T Consensus 5 milRvrS~dG~~Rie~~-~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~-----------~~l~s~~~~tl~~lglkHG 72 (80)
T PF11543_consen 5 MILRVRSKDGMKRIEVS-PSSTLSDLKEKISEQLSIPDSSQSLSKDRNNK-----------EELKSSDSKTLSSLGLKHG 72 (80)
T ss_dssp -EEEEE-SSEEEEEEE--TTSBHHHHHHHHHHHS---TTT---BSSGGGG-----------GCSSS-TT-CCCCT---TT
T ss_pred EEEEEECCCCCEEEEcC-CcccHHHHHHHHHHHcCCCCcceEEEecCCCC-----------cccccCCcCCHHHcCCCCc
Confidence 89999999999999999 69999999999999999999999999998652 122 256899999999999
Q ss_pred cEEEEe
Q 015194 80 SIVFLS 85 (411)
Q Consensus 80 Dml~l~ 85 (411)
|||||.
T Consensus 73 dmlyL~ 78 (80)
T PF11543_consen 73 DMLYLK 78 (80)
T ss_dssp -EEE--
T ss_pred cEEEEe
Confidence 999996
No 7
>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM (signal-transducing adapter molecule, also known as STAMBP)) and AMSH-like proteins (AMSH-LP) are members of JAMM/MPN+ deubiquitinases (DUBs), with Zn2+-dependent ubiquitin isopeptidase activity. AMSH specifically cleaves Lys 63 and not Lys48-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. AMSH and AMSH-LP are anchored on the early endosomal membrane via interaction with the clathrin coat. AMSH shares a common SH3-binding site with another endosomal DUB, UBPY (ubiquitin-specific protease Y; also known as USP8), the latter being a cysteine protease that does not discriminate between Lys48 and Lys63-linked ubiquitin. AMSH is involved in the degradation of EGF receptor (EGFR) and possibly other ubiquitinated endocytosed proteins. AMSH also interacts with CHMP1, CHMP2, and CHMP3 proteins, al
Probab=98.74 E-value=1.6e-07 Score=86.56 Aligned_cols=109 Identities=15% Similarity=0.212 Sum_probs=88.7
Q ss_pred ceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeecHHHH
Q 015194 152 VKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSNREV 231 (411)
Q Consensus 152 ~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs~Ei 231 (411)
.+-||+|||+... ....|..|.-|||.++.+.+...+ + ..+.+.|+.-||+.|||+-||+ ...-++|+.++
T Consensus 26 ~E~cGlL~G~~~~-~~~~I~~i~~~~q~~~~~~~~~~~-~---~e~~~~~~~~gle~vGwyHSHP----~~~~~pS~~Dv 96 (173)
T cd08066 26 LETCGILCGKLSN-NAFFITHLIIPKQSGTSDSCQTTN-E---EELFDFQDQHDLITLGWIHTHP----TQTCFLSSVDL 96 (173)
T ss_pred CeEEEEEEeEcCC-CeEEEEEEEeccccCCCceecCCC-H---HHHHHHHHhCCCeeEEEEeccC----CCCCccCHHHH
Confidence 5889999998654 345778888899999998877643 2 2366678899999999999999 67789999999
Q ss_pred HHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeecc-HHHHHHh
Q 015194 232 LQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMS-DMCVRLF 278 (411)
Q Consensus 232 i~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS-~q~~aLv 278 (411)
..-+++|+..| .++-+||++ +.+.+.||.+. ..+++..
T Consensus 97 ~t~~~~~~~~p--~~~~lIvSp-------~~~~l~afrl~~~~g~~~~ 135 (173)
T cd08066 97 HTHCSYQLMLP--EAIAIVCAP-------KYNEFGIFRLTDPPGLDEI 135 (173)
T ss_pred HHHHHHHhcCC--CeEEEEECC-------CCcEEeEEEeecCCcceec
Confidence 99999999875 777788873 36788999999 7777763
No 8
>PF05020 zf-NPL4: NPL4 family, putative zinc binding region; InterPro: IPR007716 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation after ubiquitination of target proteins but before their recognition by the 26S proteasome []. This region of the protein contains possibly two zinc binding motifs. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing.
Probab=98.66 E-value=1.7e-08 Score=89.58 Aligned_cols=32 Identities=25% Similarity=0.462 Sum_probs=29.2
Q ss_pred hccccCccCCCcceEEEech-hhhhHHHHHHHH
Q 015194 116 QMRVTRQENPHCESVSFDRD-CADAFQQYVNET 147 (411)
Q Consensus 116 ~~~i~rq~~~~~d~vsf~~~-~~~~fq~~~~~~ 147 (411)
.|+|+||+|||||||+|++. .+++|.+|||.+
T Consensus 113 aITL~~Q~fR~VDhVeF~n~~iv~~Fl~~WR~t 145 (147)
T PF05020_consen 113 AITLQRQPFRHVDHVEFENPEIVNRFLDYWRKT 145 (147)
T ss_pred eeeecCcccccccceeecCHHHHHHHHHHHHhc
Confidence 48999999999999999876 589999999986
No 9
>cd07767 MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains are found in the N-terminal termini of proteins with a variety of functions; they are components of the proteasome regulatory subunits, the signalosome (CSN), eukaryotic translation initiation factor 3 (eIF3) complexes, and regulators of transcription factors. These domains are isopeptidases that release ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. Catalytically active MPN domains contain a metalloprotease signature known as the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif. For example, Rpn11 (also known as POH1 or PSMD14), a subunit of the 19S proteasome lid is involved in the ATP-dependent degradation of ubiquitinated proteins, contains the conserved JAMM motif involved in zinc ion coordination. Poh1 is a regulator of c-Jun, an important regulator of cell proliferation, differentiation, survival and death. J
Probab=98.64 E-value=3.6e-07 Score=77.20 Aligned_cols=92 Identities=17% Similarity=0.173 Sum_probs=71.3
Q ss_pred cceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeecHHH
Q 015194 151 AVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSNRE 230 (411)
Q Consensus 151 ~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs~E 230 (411)
..+.+|+|+|++... ..+|..++.+||....+... .+. ...++..+...|++.|||+.||+ ....++|+.+
T Consensus 13 ~~ev~G~L~G~~~~~-~~~i~~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~iVGwyhshp----~~~~~~s~~d 83 (116)
T cd07767 13 GKEVIGLLYGSKTKK-VLDVDEVIAVPFDEGDKDDN---VWF-LMYLDFKKLNAGLRIVGWYHTHP----KPSCFLSPND 83 (116)
T ss_pred CcEEEEEeEEEEcCC-EEEEEEEEecccCCCCCccH---HHH-HHHHHHHHhcCCCeEEEEEEcCC----CCCCccCHHH
Confidence 688999999998765 67999999999976643221 111 13678888899999999999999 5567999999
Q ss_pred HHHHHHHHHhcCCCceEEEEEEe
Q 015194 231 VLQAVEFHAECNMEEWVTAVVKL 253 (411)
Q Consensus 231 ii~aa~~Q~~~~~skfvT~vvt~ 253 (411)
+...+++|..+|. .+-++++.
T Consensus 84 v~~~~~~q~~~~~--~v~li~~~ 104 (116)
T cd07767 84 LATHELFQRYFPE--KVMIIVDV 104 (116)
T ss_pred HHHHHHHHHhCCC--CEEEEEEC
Confidence 9999999998763 44455553
No 10
>smart00232 JAB_MPN JAB/MPN domain. Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function.
Probab=98.46 E-value=4.2e-06 Score=72.31 Aligned_cols=114 Identities=16% Similarity=0.161 Sum_probs=82.2
Q ss_pred ccceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCce-EEcCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeecH
Q 015194 150 FAVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVL-YILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSN 228 (411)
Q Consensus 150 ~~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~-~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs 228 (411)
...+-||+|+|++.++ .+.|.-+|..|+....+.+ ....++.++.....-+...|++.|||+-||+ ...-++|.
T Consensus 20 ~p~e~~G~L~G~~~~~-~~~i~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vGwyhshp----~~~~~pS~ 94 (135)
T smart00232 20 GPEEVCGVLLGKSNKD-RPEVKEVFAVPNEPQDDSVQEYDEDYSHLMDEELKKVNKDLEIVGWYHSHP----DESPFPSE 94 (135)
T ss_pred CCcEEEEEEEEEEcCC-EEEEEEEEecCcCCCCcchhhhhhhHHHHHHHHHHhhCCCceEEEEEEcCC----CCCCCcCH
Confidence 4678899999998644 6777788898887765554 3333444332233334568999999999999 55667999
Q ss_pred HHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccH
Q 015194 229 REVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSD 272 (411)
Q Consensus 229 ~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~ 272 (411)
..+..++.+|..++ .++..++....+ ..|.+.+.||..|+
T Consensus 95 ~D~~~~~~~~~~~~--~~~~~~v~~~~s--~~g~~~~~af~~~~ 134 (135)
T smart00232 95 VDVATHESYQAPWP--ISVVLIVDPIKS--FQGRLSLRAFRLTP 134 (135)
T ss_pred HHHHHHHHHHhcCC--ceEEEEECCCcc--ccCcEEEEEEEecC
Confidence 99999999999876 455555554333 23788899999875
No 11
>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=98.37 E-value=5.8e-07 Score=71.78 Aligned_cols=63 Identities=29% Similarity=0.289 Sum_probs=53.4
Q ss_pred cCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccc-cccEEEEe
Q 015194 7 SRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNIS-HGSIVFLS 85 (411)
Q Consensus 7 S~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLk-HGDml~l~ 85 (411)
|.+|+..++++ |+.|+++|+++|.+..++|++.|.|+..+ .+...+.+|++.|++ |||||||-
T Consensus 10 ~~~~t~~l~v~-~~~TV~~lK~kI~~~~gip~~~QrL~~G~---------------~L~dD~~tL~~ygi~~~g~~~~l~ 73 (75)
T cd01799 10 SHTVTIWLTVR-PDMTVAQLKDKVFLDYGFPPAVQRWVIGQ---------------RLARDQETLYSHGIRTNGDSAFLY 73 (75)
T ss_pred cCCCeEEEEEC-CCCcHHHHHHHHHHHHCcCHHHEEEEcCC---------------eeCCCcCCHHHcCCCCCCCEEEEE
Confidence 67899999999 79999999999999999999999993321 122356899999999 99999984
No 12
>cd08067 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase. This family includes histone H2A deubiquitinase (Histone H2A DUB;MYSM1; myb-like, SWIRM and MPN domains 1; 2ADUB; 2A-DUB; KIAA19152ADUB, or KIAA1915/MYSM1), a member of JAMM/MPN+ deubiquitinases (DUBs), with possible Zn2+-dependent ubiquitin isopeptidase activity. It contains the SWIRM (Swi3p, Rsc8p and Moira), and SANT (SWI-SNF, ADA N-CoR, TFIIIB)/Myb domains; the SANT, but not the SWIRM, domain can bind directly to DNA. 2A-DUB is specific for monoubiquitinated H2A (uH2A), regulating transcription by coordinating histone acetylation and deubiquitination, and destabilizing the association of linker histone H1 with nucleosomes. 2A-DUB interacts with p/CAF (p300/CBP-associated factor) in a co-regulatory protein complex, where the status of acetylation of nucleosomal histones modulates its deubiquitinase activity. 2A-DUB is a positive regulator of androgen receptor (AR) transactivation activity on a reporter gene; it p
Probab=98.25 E-value=1.7e-05 Score=74.07 Aligned_cols=115 Identities=12% Similarity=0.108 Sum_probs=93.0
Q ss_pred ceeeeeeeeeeecC-CcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeecHHH
Q 015194 152 VKRGGFMYGTVLED-KRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSNRE 230 (411)
Q Consensus 152 ~QR~G~LYG~Y~~~-~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs~E 230 (411)
.-=||+|-|+++.. ..+.|..++.+|+..+.+.+.+ |+.++..+.+.++..||..|||.=||+ ....++|..+
T Consensus 26 ~EvcGlL~G~~d~~~~~l~Vt~~~p~~~~~~~~~~e~--dp~~q~e~~~~l~~~gl~vVGwYHSHP----~~~~~pS~~D 99 (187)
T cd08067 26 SEVIGYLGGTWDPNTQNLTILQAFPCRSRLTGLDCEM--DPVSETEIRESLESRGLSVVGWYHSHP----TFPPNPSLRD 99 (187)
T ss_pred cEEEEEEEeEEcCCCCeEEEEEEEecCCCCCCccccc--CHHHHHHHHHHHHHcCCEEEEEEecCC----CCCcCCCHHH
Confidence 45789999999764 5678999999999887777664 455556788888999999999999999 5669999999
Q ss_pred HHHHHHHHHhcC-----CCceEEEEEEeeecCCCCcceeEEEeeccH
Q 015194 231 VLQAVEFHAECN-----MEEWVTAVVKLEVSEEGSAAIHFEAFQMSD 272 (411)
Q Consensus 231 ii~aa~~Q~~~~-----~skfvT~vvt~~~~~d~~~~I~~eayQvS~ 272 (411)
+..-+.+|...+ ...||-+|+++.-....+.+..+.||.|+.
T Consensus 100 i~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~~~~~s~i~~f~~~~ 146 (187)
T cd08067 100 IDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRNSTPESQITCFWVMP 146 (187)
T ss_pred HHHHHHHHhhccccccCCCCeEEEEEccccCCCCCCCCcEEEEEEEC
Confidence 999999999764 247999999976544445667789998875
No 13
>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=98.17 E-value=7e-06 Score=65.20 Aligned_cols=71 Identities=24% Similarity=0.263 Sum_probs=58.1
Q ss_pred CEEEEEcCCCce-EEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDGLE-RVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G~~-Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|.|-|++..|.. .++|+ |++|+++|+++|++..+++++.+.|... + ..+ ..+.+|++.||+.|
T Consensus 2 ~~i~vkt~~Gk~~~~~v~-~~~TV~~LK~~I~~~~~~~~~~qrLi~~-G-------------k~L-~D~~tL~~ygi~~~ 65 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCN-PDDTIGDLKKLIAAQTGTRPEKIVLKKW-Y-------------TIF-KDHISLGDYEIHDG 65 (73)
T ss_pred EEEEEECCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCChHHEEEEeC-C-------------cCC-CCCCCHHHcCCCCC
Confidence 678899987654 46999 6999999999999999999999998532 2 112 34679999999999
Q ss_pred cEEEEeec
Q 015194 80 SIVFLSYD 87 (411)
Q Consensus 80 Dml~l~y~ 87 (411)
+.|++-|.
T Consensus 66 stv~l~~~ 73 (73)
T cd01791 66 MNLELYYQ 73 (73)
T ss_pred CEEEEEeC
Confidence 99999884
No 14
>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=98.10 E-value=9.6e-06 Score=62.96 Aligned_cols=69 Identities=28% Similarity=0.465 Sum_probs=57.7
Q ss_pred CEEEEEcCCC-ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDG-LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|-|.|++.+| ++.++++ +++|+++|+++|++..++|++.+.|..+ + ..+ ..+.+|++.|+++|
T Consensus 1 i~i~vk~~~g~~~~~~v~-~~~tv~~lK~~i~~~~gi~~~~q~L~~~-g-------------~~L-~d~~~L~~~~i~~~ 64 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVE-EEITVLDLKEKIAEEVGIPVEQQRLIYS-G-------------RVL-KDDETLSEYKVEDG 64 (72)
T ss_pred CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCcCHHHeEEEEC-C-------------EEC-CCcCcHHHCCCCCC
Confidence 6789999987 7889999 6999999999999999999998888542 1 112 34689999999999
Q ss_pred cEEEEe
Q 015194 80 SIVFLS 85 (411)
Q Consensus 80 Dml~l~ 85 (411)
+.|++-
T Consensus 65 ~~l~l~ 70 (72)
T cd01809 65 HTIHLV 70 (72)
T ss_pred CEEEEE
Confidence 999874
No 15
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=98.07 E-value=8.7e-06 Score=61.24 Aligned_cols=64 Identities=36% Similarity=0.463 Sum_probs=53.7
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|-|+||+.+++..++++ +++|+++|+++|.+.+++|++.+.|..+.. .+ ..+.+|+++|+++|+
T Consensus 1 ~~i~vk~~~~~~~~~v~-~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~--------------~L-~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLDGTITLEVK-PSDTVSELKEKIAELTGIPVEQQRLIYKGK--------------VL-EDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECCceEEEEEC-CCCcHHHHHHHHHHHHCCCHHHEEEEECCE--------------EC-CCCCCHHHcCCcCCC
Confidence 67899999999999999 699999999999999999998888854321 12 236899999999986
No 16
>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=98.01 E-value=2.4e-05 Score=61.34 Aligned_cols=71 Identities=23% Similarity=0.437 Sum_probs=58.6
Q ss_pred CEEEEEcCCCce-EEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDGLE-RVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G~~-Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|-|.||+.+|.. .++++ |++|+++|+++|.+..++|++.+.|..+- ..+ ..+.+|+++|+++|
T Consensus 1 m~i~v~~~~g~~~~~~v~-~~~tv~~lK~~i~~~~g~~~~~qrL~~~g--------------~~L-~d~~tl~~~~i~~g 64 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIE-PTDKVERIKERVEEKEGIPPQQQRLIYSG--------------KQM-NDDKTAADYKLEGG 64 (76)
T ss_pred CEEEEEeCCCCEEEEEEC-CCCCHHHHHHHHhHhhCCChhhEEEEECC--------------eEc-cCCCCHHHcCCCCC
Confidence 789999998754 67899 69999999999999999999998886431 112 34689999999999
Q ss_pred cEEEEeec
Q 015194 80 SIVFLSYD 87 (411)
Q Consensus 80 Dml~l~y~ 87 (411)
+.|++...
T Consensus 65 ~~i~l~~~ 72 (76)
T cd01806 65 SVLHLVLA 72 (76)
T ss_pred CEEEEEEE
Confidence 99999764
No 17
>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=97.91 E-value=3e-05 Score=60.11 Aligned_cols=69 Identities=16% Similarity=0.288 Sum_probs=56.5
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|-|+|++...++-++++ +++|+.+|+++|++..++|++.+.|..... .+ ..+.+|+++|+++|+
T Consensus 1 i~i~vk~~g~~~~i~v~-~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~--------------~l-~d~~~L~~~~i~~g~ 64 (71)
T cd01812 1 IRVRVKHGGESHDLSIS-SQATFGDLKKMLAPVTGVEPRDQKLIFKGK--------------ER-DDAETLDMSGVKDGS 64 (71)
T ss_pred CEEEEEECCEEEEEEEC-CCCcHHHHHHHHHHhhCCChHHeEEeeCCc--------------cc-CccCcHHHcCCCCCC
Confidence 45789998666779999 699999999999999999999999854321 12 246899999999999
Q ss_pred EEEEe
Q 015194 81 IVFLS 85 (411)
Q Consensus 81 ml~l~ 85 (411)
.|++-
T Consensus 65 ~l~v~ 69 (71)
T cd01812 65 KVMLL 69 (71)
T ss_pred EEEEe
Confidence 99874
No 18
>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=97.88 E-value=2.9e-05 Score=61.09 Aligned_cols=67 Identities=19% Similarity=0.359 Sum_probs=52.9
Q ss_pred EEEcC-CCc-eEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccE
Q 015194 4 RIRSR-DGL-ERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSI 81 (411)
Q Consensus 4 RvRS~-~G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDm 81 (411)
.|+.. .|. +-|+++ |++|+++|+++|++..++|++.+.|...- ..|.+...+|++.|+++|++
T Consensus 2 ~v~~~~~g~~~~l~v~-~~~TV~~lK~~I~~~~gip~~~q~Li~~G--------------k~L~D~~~~L~~~gi~~~~~ 66 (71)
T cd01796 2 TVYTARSETTFSLDVD-PDLELENFKALCEAESGIPASQQQLIYNG--------------RELVDNKRLLALYGVKDGDL 66 (71)
T ss_pred EEEECCCCCEEEEEEC-CcCCHHHHHHHHHHHhCCCHHHeEEEECC--------------eEccCCcccHHHcCCCCCCE
Confidence 45555 444 789999 69999999999999999999999985431 12223457899999999999
Q ss_pred EEEe
Q 015194 82 VFLS 85 (411)
Q Consensus 82 l~l~ 85 (411)
|+|.
T Consensus 67 l~l~ 70 (71)
T cd01796 67 VVLR 70 (71)
T ss_pred EEEe
Confidence 9985
No 19
>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=97.86 E-value=4.4e-05 Score=60.27 Aligned_cols=70 Identities=26% Similarity=0.398 Sum_probs=58.2
Q ss_pred CEEEEEcCCCce-EEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDGLE-RVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G~~-Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|-|-||+.+|.. .++|+ +++|+++|+++|++..++|++.+.|..+- ..| ..+.+|++.||++|
T Consensus 1 m~i~vk~~~G~~~~l~v~-~~~tV~~lK~~i~~~~gi~~~~q~L~~~G--------------~~L-~d~~~L~~~~i~~~ 64 (74)
T cd01807 1 MFLTVKLLQGRECSLQVS-EKESVSTLKKLVSEHLNVPEEQQRLLFKG--------------KAL-ADDKRLSDYSIGPN 64 (74)
T ss_pred CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCCCHHHeEEEECC--------------EEC-CCCCCHHHCCCCCC
Confidence 778899988865 58999 69999999999999999999999985321 122 34689999999999
Q ss_pred cEEEEee
Q 015194 80 SIVFLSY 86 (411)
Q Consensus 80 Dml~l~y 86 (411)
+.|++..
T Consensus 65 ~~l~l~~ 71 (74)
T cd01807 65 AKLNLVV 71 (74)
T ss_pred CEEEEEE
Confidence 9999864
No 20
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=97.85 E-value=5.6e-05 Score=59.23 Aligned_cols=71 Identities=25% Similarity=0.351 Sum_probs=58.6
Q ss_pred CEEEEEcCCC-ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDG-LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|-|-||+.+| .+.++++ |++|+++|+++|++..++|++.+.|..+ + ..+ ..+.+|+++|+++|
T Consensus 1 m~i~v~~~~g~~~~~~v~-~~~tV~~lK~~i~~~~g~~~~~q~L~~~-g-------------~~L-~d~~~L~~~~i~~~ 64 (76)
T cd01803 1 MQIFVKTLTGKTITLEVE-PSDTIENVKAKIQDKEGIPPDQQRLIFA-G-------------KQL-EDGRTLSDYNIQKE 64 (76)
T ss_pred CEEEEEcCCCCEEEEEEC-CcCcHHHHHHHHHHHhCCCHHHeEEEEC-C-------------EEC-CCCCcHHHcCCCCC
Confidence 7788999987 5669999 6999999999999999999998888642 1 112 34679999999999
Q ss_pred cEEEEeec
Q 015194 80 SIVFLSYD 87 (411)
Q Consensus 80 Dml~l~y~ 87 (411)
+.|++...
T Consensus 65 ~~i~l~~~ 72 (76)
T cd01803 65 STLHLVLR 72 (76)
T ss_pred CEEEEEEE
Confidence 99999764
No 21
>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=97.83 E-value=6.7e-05 Score=59.25 Aligned_cols=71 Identities=25% Similarity=0.285 Sum_probs=57.3
Q ss_pred CEEEEEcCCCc-eEEEecCCCCcHHHHHHHHHhhcCC--CCCCceeeccccccccCCCCcccccccCCCCCCCccccccc
Q 015194 1 MLLRIRSRDGL-ERVTVDGAHVTVAELKTIIQSQLRI--PVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNIS 77 (411)
Q Consensus 1 MilRvRS~~G~-~Rv~v~~p~~t~~~L~~kI~~~l~~--~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLk 77 (411)
|=|.||+..|. +-++++ |++|+++|+++|++..++ +++.+.|..+- ..| ..+.+|+++|++
T Consensus 1 m~i~vk~~~g~~~~l~v~-~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G--------------~~L-~d~~~L~~~~i~ 64 (77)
T cd01805 1 MKITFKTLKQQTFPIEVD-PDDTVAELKEKIEEEKGCDYPPEQQKLIYSG--------------KIL-KDDTTLEEYKID 64 (77)
T ss_pred CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHhhCCCCChhHeEEEECC--------------EEc-cCCCCHHHcCCC
Confidence 77899999984 468999 699999999999999998 88888885421 122 246899999999
Q ss_pred cccEEEEeec
Q 015194 78 HGSIVFLSYD 87 (411)
Q Consensus 78 HGDml~l~y~ 87 (411)
+|+.|++.-.
T Consensus 65 ~~~~i~~~~~ 74 (77)
T cd01805 65 EKDFVVVMVS 74 (77)
T ss_pred CCCEEEEEEe
Confidence 9999998643
No 22
>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=97.80 E-value=7.5e-05 Score=57.64 Aligned_cols=65 Identities=34% Similarity=0.450 Sum_probs=53.3
Q ss_pred cCCC-ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEe
Q 015194 7 SRDG-LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLS 85 (411)
Q Consensus 7 S~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~ 85 (411)
+.+| .+.++|+ +++|+++|+++|.+..++|++.+.|..+- ..| ..+.+|+++||++|+.|++.
T Consensus 2 ~~~g~~~~~~v~-~~~tV~~lK~~i~~~~~~~~~~~~L~~~G--------------~~L-~d~~tL~~~~i~~~~~I~l~ 65 (69)
T PF00240_consen 2 TLSGKTFTLEVD-PDDTVADLKQKIAEETGIPPEQQRLIYNG--------------KEL-DDDKTLSDYGIKDGSTIHLV 65 (69)
T ss_dssp ETTSEEEEEEEE-TTSBHHHHHHHHHHHHTSTGGGEEEEETT--------------EEE-STTSBTGGGTTSTTEEEEEE
T ss_pred CCCCcEEEEEEC-CCCCHHHhhhhcccccccccccceeeeee--------------ecc-cCcCcHHHcCCCCCCEEEEE
Confidence 3445 6899999 69999999999999999999999985431 122 45789999999999999987
Q ss_pred ec
Q 015194 86 YD 87 (411)
Q Consensus 86 y~ 87 (411)
..
T Consensus 66 ~k 67 (69)
T PF00240_consen 66 IK 67 (69)
T ss_dssp ES
T ss_pred Ee
Confidence 54
No 23
>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=97.79 E-value=4.4e-05 Score=63.84 Aligned_cols=64 Identities=25% Similarity=0.310 Sum_probs=56.1
Q ss_pred CCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEeec
Q 015194 9 DGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLSYD 87 (411)
Q Consensus 9 ~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~y~ 87 (411)
.|-.+++|+ |++|+++|+.+|...|+++++.|.|+.+ +. .|.+.++||+++||..|..|+|--+
T Consensus 14 ~~~~~L~V~-~~~TVg~LK~lImQ~f~V~P~dQkL~~d-G~-------------~L~DDsrTLssyGv~sgSvl~Llid 77 (107)
T cd01795 14 RGEKALLVS-ANQTLKELKIQIMHAFSVAPFDQNLSID-GK-------------ILSDDCATLGTLGVIPESVILLKAD 77 (107)
T ss_pred CCCceEEeC-ccccHHHHHHHHHHHhcCCcccceeeec-Cc-------------eeccCCccHHhcCCCCCCEEEEEec
Confidence 688999999 7999999999999999999999999776 32 2346789999999999999999754
No 24
>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=97.74 E-value=8.1e-05 Score=59.78 Aligned_cols=71 Identities=27% Similarity=0.362 Sum_probs=58.3
Q ss_pred CEEEEEcCCCce--EEE-ecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccc
Q 015194 1 MLLRIRSRDGLE--RVT-VDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNIS 77 (411)
Q Consensus 1 MilRvRS~~G~~--Rv~-v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLk 77 (411)
|-|-||+..|.. -++ ++ |++|+++|+++|++..++|++.+.|... + ..| ..+.+|++.||+
T Consensus 1 M~I~vk~~~G~~~~~l~~v~-~~~TV~~lK~~i~~~~gi~~~~QrLi~~-G-------------k~L-~D~~tL~~y~i~ 64 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLS-RLTKVEELREKIQELFNVEPECQRLFYR-G-------------KQM-EDGHTLFDYNVG 64 (78)
T ss_pred CEEEEEcCCCCEEEEeeccC-CcCcHHHHHHHHHHHhCCCHHHeEEEeC-C-------------EEC-CCCCCHHHcCCC
Confidence 789999999975 564 77 6999999999999999999999888432 1 122 347899999999
Q ss_pred cccEEEEeec
Q 015194 78 HGSIVFLSYD 87 (411)
Q Consensus 78 HGDml~l~y~ 87 (411)
+|+.|++...
T Consensus 65 ~~~~i~l~~~ 74 (78)
T cd01797 65 LNDIIQLLVR 74 (78)
T ss_pred CCCEEEEEEe
Confidence 9999998654
No 25
>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=97.73 E-value=0.00012 Score=57.26 Aligned_cols=70 Identities=16% Similarity=0.278 Sum_probs=56.7
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|-|-|++..|..-++++ +++|+++|+++|++..+++.+.+.|-.. + ..| ..+.+|+++|++.|+
T Consensus 1 ~~i~vk~~~g~~~l~v~-~~~TV~~lK~~I~~~~~i~~~~~~Li~~-G-------------k~L-~d~~tL~~~~i~~~s 64 (71)
T cd01808 1 IKVTVKTPKDKEEIEIA-EDASVKDFKEAVSKKFKANQEQLVLIFA-G-------------KIL-KDTDTLTQHNIKDGL 64 (71)
T ss_pred CEEEEEcCCCCEEEEEC-CCChHHHHHHHHHHHhCCCHHHEEEEEC-C-------------eEc-CCCCcHHHcCCCCCC
Confidence 35778999999889999 6999999999999999998888887321 1 122 346799999999999
Q ss_pred EEEEee
Q 015194 81 IVFLSY 86 (411)
Q Consensus 81 ml~l~y 86 (411)
.|++..
T Consensus 65 tl~l~~ 70 (71)
T cd01808 65 TVHLVI 70 (71)
T ss_pred EEEEEE
Confidence 999853
No 26
>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=97.72 E-value=0.00012 Score=59.93 Aligned_cols=70 Identities=11% Similarity=0.225 Sum_probs=59.4
Q ss_pred CEEEEEcCCCce-EEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDGLE-RVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G~~-Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|.|+|++.+|.. +++|. +++|+..|++++.+..+++++.+.|..+= ..+ ..+.|+.++|+.+|
T Consensus 12 i~I~v~~~~g~~~~~~v~-~~~~l~~l~~~y~~~~gi~~~~~rf~f~G--------------~~L-~~~~T~~~l~m~d~ 75 (87)
T cd01763 12 INLKVKGQDGNEVFFKIK-RSTPLKKLMEAYCQRQGLSMNSVRFLFDG--------------QRI-RDNQTPDDLGMEDG 75 (87)
T ss_pred EEEEEECCCCCEEEEEEc-CCCHHHHHHHHHHHHhCCCccceEEEECC--------------eEC-CCCCCHHHcCCCCC
Confidence 579999999877 79999 69999999999999999999998885542 122 35789999999999
Q ss_pred cEEEEee
Q 015194 80 SIVFLSY 86 (411)
Q Consensus 80 Dml~l~y 86 (411)
|.|.+..
T Consensus 76 d~I~v~l 82 (87)
T cd01763 76 DEIEVML 82 (87)
T ss_pred CEEEEEE
Confidence 9999864
No 27
>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=97.69 E-value=0.0001 Score=58.21 Aligned_cols=68 Identities=25% Similarity=0.366 Sum_probs=55.7
Q ss_pred EEEcCCCce-EEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEE
Q 015194 4 RIRSRDGLE-RVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIV 82 (411)
Q Consensus 4 RvRS~~G~~-Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml 82 (411)
-||+..|.. -++++ |++|+++|+++|++..++|++.+.|..+- ..| ..+.+|++.|+++|+.|
T Consensus 2 ~vk~~~g~~~~l~v~-~~~tV~~lK~~I~~~~gi~~~~q~L~~~G--------------~~L-~D~~tL~~~~i~~~~tl 65 (74)
T cd01810 2 LVRNDKGRSSIYEVQ-LTQTVATLKQQVSQRERVQADQFWLSFEG--------------RPM-EDEHPLGEYGLKPGCTV 65 (74)
T ss_pred EEECCCCCEEEEEEC-CcChHHHHHHHHHHHhCCCHHHeEEEECC--------------EEC-CCCCCHHHcCCCCCCEE
Confidence 478888765 69999 69999999999999999999998885321 222 24689999999999999
Q ss_pred EEeec
Q 015194 83 FLSYD 87 (411)
Q Consensus 83 ~l~y~ 87 (411)
++...
T Consensus 66 ~l~~~ 70 (74)
T cd01810 66 FMNLR 70 (74)
T ss_pred EEEEE
Confidence 99754
No 28
>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This family is also known as the MPN domain [] and PAD-1-like domain []. It has been shown that this domain occurs in prokaryotes []. Mov34 proteins act as the regulatory subunit of the 26 proteasome, which is involved in the ATP-dependent degradation of ubiquitinated proteins. The function of this domain is unclear, but it is found in the N terminus of the proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. A number of the proteins associated with this family belong to MEROPS peptidase family M67 (clan M-). This includes the Poh1 peptidase of Saccharomyces cerevisiae (Baker's yeast) which is a component of the 19S proteasome regulatory particle.; GO: 0005515 protein binding; PDB: 2ZNV_D 2ZNR_A 4E0Q_A 2P87_A 2P8R_A 2O96_B 2O95_A 3RZU_F 3RZV_A.
Probab=97.66 E-value=0.00037 Score=59.16 Aligned_cols=84 Identities=14% Similarity=0.198 Sum_probs=64.3
Q ss_pred eeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhc--CCeEEEEEEeecccCCCCceeecHHHH
Q 015194 154 RGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGL--GMKKVGFIFTQTIMQNKKDYTLSNREV 231 (411)
Q Consensus 154 R~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~l--GL~~VG~IfTdl~~~~~~~~fLSs~Ei 231 (411)
-+|+|+|++++...+.|...|+-|+.++.+.....+.... +...+..+.. .+..|||.-|++ .-+.|+|...+
T Consensus 28 v~G~LlG~~~~~~~v~I~~~f~~p~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~iVGWY~s~p----~~~~~~S~~di 102 (114)
T PF01398_consen 28 VIGLLLGTQDGDNTVEITNSFPVPHSESEDDCDMDDEDFQ-KKMIELLKKVNPNLEIVGWYHSHP----NISCFPSPTDI 102 (114)
T ss_dssp EEEEEEEEEETT-EEEEEEEEEESEEEESSEEEEECCHHH-HHHHHHHHHCSTTSEEEEEEEEES----SS-SS--HHHH
T ss_pred EEEEEEEEecCceEEEEEEEEEeeEecCccccccchhhHH-HHHHhhhccccccceEEEEEEccC----CccccCCHHHH
Confidence 4999999998887889999999999999888776543322 2344444443 599999999999 67789999999
Q ss_pred HHHHHHHHhcC
Q 015194 232 LQAVEFHAECN 242 (411)
Q Consensus 232 i~aa~~Q~~~~ 242 (411)
..-..+|...|
T Consensus 103 ~~q~~~q~~~~ 113 (114)
T PF01398_consen 103 ETQKQYQRMNP 113 (114)
T ss_dssp HHHHHHHHHTT
T ss_pred HHHHHHHHhCC
Confidence 99999998765
No 29
>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=97.59 E-value=0.00024 Score=56.11 Aligned_cols=70 Identities=20% Similarity=0.231 Sum_probs=57.2
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|-|-||+. .++-++|+ |++|+++|+++|++..++|++.+.|...- ..| ..+.+|++.|+++|+
T Consensus 1 mqi~vk~~-~~~~l~v~-~~~tV~~lK~~i~~~~gip~~~q~Li~~G--------------k~L-~D~~tL~~~~i~~~~ 63 (74)
T cd01793 1 MQLFVRAQ-NTHTLEVT-GQETVSDIKAHVAGLEGIDVEDQVLLLAG--------------VPL-EDDATLGQCGVEELC 63 (74)
T ss_pred CEEEEECC-CEEEEEEC-CcCcHHHHHHHHHhhhCCCHHHEEEEECC--------------eEC-CCCCCHHHcCCCCCC
Confidence 66778885 58889999 69999999999999999999998885321 122 346899999999999
Q ss_pred EEEEeec
Q 015194 81 IVFLSYD 87 (411)
Q Consensus 81 ml~l~y~ 87 (411)
.|++...
T Consensus 64 tl~l~~~ 70 (74)
T cd01793 64 TLEVAGR 70 (74)
T ss_pred EEEEEEe
Confidence 9998643
No 30
>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=97.59 E-value=0.0002 Score=57.29 Aligned_cols=70 Identities=30% Similarity=0.402 Sum_probs=56.0
Q ss_pred CEEEEEcCCCce-EEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDGLE-RVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G~~-Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|-|-|++..|.. -|+++ |++|+++|+++|+++.+++++.+.|... + ..+. .+ +|++.|++.|
T Consensus 2 m~I~Vk~~~G~~~~l~v~-~~~TV~~LK~~I~~~~~~~~~~qrL~~~-G-------------k~L~-d~-~L~~~gi~~~ 64 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVP-PDETVEGLKKRISQRLKVPKERLALLHR-E-------------TRLS-SG-KLQDLGLGDG 64 (78)
T ss_pred eEEEEEECCCCEEEEEEC-CcCHHHHHHHHHHHHhCCChHHEEEEEC-C-------------cCCC-CC-cHHHcCCCCC
Confidence 567888887754 58999 6999999999999999999998888532 1 1222 34 8999999999
Q ss_pred cEEEEeec
Q 015194 80 SIVFLSYD 87 (411)
Q Consensus 80 Dml~l~y~ 87 (411)
+-|++...
T Consensus 65 ~~i~l~~~ 72 (78)
T cd01804 65 SKLTLVPT 72 (78)
T ss_pred CEEEEEee
Confidence 99998654
No 31
>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=97.58 E-value=0.00014 Score=56.81 Aligned_cols=68 Identities=25% Similarity=0.385 Sum_probs=55.5
Q ss_pred CEEEEEcCCC-ceEEEecCCCCcHHHHHHHHHhhcCCCC-CCceeeccccccccCCCCcccccccCCCCCCCcccccccc
Q 015194 1 MLLRIRSRDG-LERVTVDGAHVTVAELKTIIQSQLRIPV-ESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISH 78 (411)
Q Consensus 1 MilRvRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~~~~-~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkH 78 (411)
|-|.+|+++| ..++.+. ++++++.|+++++++.+++. ..+.|..+-. .| +++.|++++||..
T Consensus 1 I~i~v~~~~~~~~~~~v~-~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~--------------~L-~~~~T~~~~~ied 64 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVK-PTTTVSKLIEKYCEKKGIPPEESIRLIFDGK--------------RL-DPNDTPEDLGIED 64 (72)
T ss_dssp EEEEEEETTSEEEEEEEE-TTSCCHHHHHHHHHHHTTTT-TTEEEEETTE--------------EE--TTSCHHHHT-ST
T ss_pred CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHhhCCCccceEEEEECCE--------------Ec-CCCCCHHHCCCCC
Confidence 4588999998 7888899 69999999999999999999 7788855421 12 4678999999999
Q ss_pred ccEEEE
Q 015194 79 GSIVFL 84 (411)
Q Consensus 79 GDml~l 84 (411)
||+|-+
T Consensus 65 ~d~Idv 70 (72)
T PF11976_consen 65 GDTIDV 70 (72)
T ss_dssp TEEEEE
T ss_pred CCEEEE
Confidence 999865
No 32
>PTZ00044 ubiquitin; Provisional
Probab=97.55 E-value=0.00028 Score=55.62 Aligned_cols=71 Identities=23% Similarity=0.316 Sum_probs=58.4
Q ss_pred CEEEEEcCCCce-EEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDGLE-RVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G~~-Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|-|-||+.+|.. .++++ |++|+.+|+++|++..++|++.+.|..+- ..+ ..+.+|++.|+++|
T Consensus 1 m~i~vk~~~G~~~~l~v~-~~~tv~~lK~~i~~~~gi~~~~q~L~~~g--------------~~L-~d~~~l~~~~i~~~ 64 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFE-PDNTVQQVKMALQEKEGIDVKQIRLIYSG--------------KQM-SDDLKLSDYKVVPG 64 (76)
T ss_pred CEEEEEeCCCCEEEEEEC-CCCcHHHHHHHHHHHHCCCHHHeEEEECC--------------EEc-cCCCcHHHcCCCCC
Confidence 678899988855 68999 69999999999999999999999986321 122 34678999999999
Q ss_pred cEEEEeec
Q 015194 80 SIVFLSYD 87 (411)
Q Consensus 80 Dml~l~y~ 87 (411)
+.|.+...
T Consensus 65 ~~i~l~~~ 72 (76)
T PTZ00044 65 STIHMVLQ 72 (76)
T ss_pred CEEEEEEE
Confidence 99998754
No 33
>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=97.49 E-value=0.00024 Score=55.84 Aligned_cols=67 Identities=19% Similarity=0.245 Sum_probs=53.6
Q ss_pred EEEEcCCCce-EEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccE
Q 015194 3 LRIRSRDGLE-RVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSI 81 (411)
Q Consensus 3 lRvRS~~G~~-Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDm 81 (411)
|.||...|.. -++++ |++|+++|+++|++..++|++.|.|... + ..| ..+.+|++.|++.|..
T Consensus 1 ~~vk~~~G~~~~l~v~-~~~TV~~lK~~I~~~~gi~~~~q~Li~~-G-------------~~L-~D~~~l~~~~i~~~~t 64 (70)
T cd01794 1 LKVRLSTGKDVKLSVS-SKDTVGQLKKQLQAAEGVDPCCQRWFFS-G-------------KLL-TDKTRLQETKIQKDYV 64 (70)
T ss_pred CeEEcCCCCEEEEEEC-CcChHHHHHHHHHHHhCCCHHHeEEEEC-C-------------eEC-CCCCCHHHcCCCCCCE
Confidence 3577776654 48999 6999999999999999999999998532 1 112 3478999999999999
Q ss_pred EEEe
Q 015194 82 VFLS 85 (411)
Q Consensus 82 l~l~ 85 (411)
|+|.
T Consensus 65 v~~~ 68 (70)
T cd01794 65 VQVI 68 (70)
T ss_pred EEEE
Confidence 9985
No 34
>cd08069 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5. This family contains proteasomal regulatory protein Rpn11 (26S proteasome regulatory subunit rpn11; PAD1; POH1; RPN11; PSMD14; Rpn11 subunit of the 19S-proteasome; regulatory particle number 11) and signalosomal CSN5 (COP9 signalosome complex subunit 5; COP9 complex homolog subunit 5; c-Jun activation domain-binding protein-1; CSN5/JAB1; JAB1). COP9 signalosome (CSN) and the proteasome lid are paralogous complexes and their respective subunits CSN5 and Rpn11 are most closely related between the two complexes, both containing the conserved JAMM (JAB1/MPN/Mov34 metalloenzyme) motif involved in zinc ion coordination and providing the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology; mutations i
Probab=97.47 E-value=0.00087 Score=65.99 Aligned_cols=141 Identities=18% Similarity=0.130 Sum_probs=98.8
Q ss_pred CcceEEEechhhhhHHHHHHHHhhccceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHH-HHH--H
Q 015194 126 HCESVSFDRDCADAFQQYVNETLAFAVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVD-AIA--A 202 (411)
Q Consensus 126 ~~d~vsf~~~~~~~fq~~~~~~l~~~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd-~iA--~ 202 (411)
.+++|..+..+...+..--+. ....-=||.|.|+.+ +..++|..+|..|+.++.+-+...++..+ ..++ ++. .
T Consensus 8 ~~~~V~Is~~allkil~Ha~~--~~p~Ev~GlLlG~~~-~~~v~Vt~~fp~p~~~t~~~v~~~~e~~~-~m~~~~~~~~~ 83 (268)
T cd08069 8 YFEKVYISSLALLKMLKHARA--GGPIEVMGLMLGKVD-DYTIIVVDVFALPVEGTETRVNAQDEFQE-YMVQYEMLKQT 83 (268)
T ss_pred cccEEEECHHHHHHHHHHHhc--cCCceEEEEEEeeec-CCeEEEEEEEECCcCCCCCceeccHHHHH-HHHHHHHHHHh
Confidence 466777776554433322222 234667999999964 45788888999999999877776443322 2232 133 3
Q ss_pred hcCCeEEEEEEeecccCCCCceeecHHHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccHHHHHH
Q 015194 203 GLGMKKVGFIFTQTIMQNKKDYTLSNREVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSDMCVRL 277 (411)
Q Consensus 203 ~lGL~~VG~IfTdl~~~~~~~~fLSs~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~q~~aL 277 (411)
.-|+..|||.=||+ .-..++|+..+..-..+|...+ .+|-.|+.+.-+ -..|.+.+.||..++..+.+
T Consensus 84 ~~~~~vVGWYHSHP----~~g~~~S~~Dv~tq~~yq~~~~--~~V~lViDP~~t-~~~g~~~i~Afr~~~~~~~~ 151 (268)
T cd08069 84 GRPENVVGWYHSHP----GYGCWLSGIDVNTQQLNQQLQD--PFVAVVVDPIRS-LVKGKVVIGAFRTIPPGYKP 151 (268)
T ss_pred CCCceeEeeeccCC----CcCCcCCHHHHHHHHHHHhcCC--CcEEEEEeCCcc-ccCCcceeeEEEEECccccc
Confidence 37799999999999 5668999999999999998754 577777764222 13578899999999998776
No 35
>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=97.45 E-value=0.00042 Score=55.62 Aligned_cols=72 Identities=28% Similarity=0.389 Sum_probs=56.3
Q ss_pred CEEEEEcCCCceE-EEecCCCCcHHHHHHHHHhhcCCCCCCceeec-cccccccCCCCcccccccCCCCCCCcccccccc
Q 015194 1 MLLRIRSRDGLER-VTVDGAHVTVAELKTIIQSQLRIPVESQTLST-NQNLLLAKSPSDLLQFTDMANPDRPLSSLNISH 78 (411)
Q Consensus 1 MilRvRS~~G~~R-v~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~-~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkH 78 (411)
|=|-|++..|..- ++++ |++|+++|+++|++..+++++.|.|+. ..+ ..| ..+.+|++.|+++
T Consensus 3 ~~i~Vk~~~G~~~~~~v~-~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G-------------~~L-~D~~tL~~~gi~~ 67 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLR-DSMTVSELKQQIAQKIGVPAFQQRLAHLDSR-------------EVL-QDGVPLVSQGLGP 67 (80)
T ss_pred eEEEEEeCCCCEEEEEcC-CCCcHHHHHHHHHHHhCCCHHHEEEEeccCC-------------CCC-CCCCCHHHcCCCC
Confidence 4477888887654 4788 699999999999999999999888842 211 122 3467999999999
Q ss_pred ccEEEEeec
Q 015194 79 GSIVFLSYD 87 (411)
Q Consensus 79 GDml~l~y~ 87 (411)
|+.|++...
T Consensus 68 gs~l~l~~~ 76 (80)
T cd01792 68 GSTVLLVVQ 76 (80)
T ss_pred CCEEEEEEE
Confidence 999998754
No 36
>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=97.40 E-value=0.00047 Score=58.39 Aligned_cols=71 Identities=32% Similarity=0.336 Sum_probs=58.3
Q ss_pred CEEEEEcCCC-ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDG-LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|-|-||+..| ++-++|+ |++|+++|+++|++..++|++.|.|... + ..| ..+.+|++.||+.|
T Consensus 28 M~I~Vk~l~G~~~~leV~-~~~TV~~lK~kI~~~~gip~~~QrLi~~-G-------------k~L-~D~~tL~dy~I~~~ 91 (103)
T cd01802 28 MELFIETLTGTCFELRVS-PFETVISVKAKIQRLEGIPVAQQHLIWN-N-------------MEL-EDEYCLNDYNISEG 91 (103)
T ss_pred EEEEEEcCCCCEEEEEeC-CCCcHHHHHHHHHHHhCCChHHEEEEEC-C-------------EEC-CCCCcHHHcCCCCC
Confidence 6678899888 4778999 6999999999999999999999998532 1 112 34689999999999
Q ss_pred cEEEEeec
Q 015194 80 SIVFLSYD 87 (411)
Q Consensus 80 Dml~l~y~ 87 (411)
+.|++...
T Consensus 92 stL~l~~~ 99 (103)
T cd01802 92 CTLKLVLA 99 (103)
T ss_pred CEEEEEEe
Confidence 99999754
No 37
>cd08068 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex. BRCC36 (BRCA1-A complex subunit BRCC36; BRCA1/BRCA2-containing complex subunit 36; BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC complex subunit BRCC36; BRCC36 isopeptidase complex; Lys-63-specific deubiquitinase BRCC36) and BRCC36-like domains are members of JAMM/MPN+ deubiquitinases (DUBs), possibly with Zn2+-dependent ubiquitin isopeptidase activity. BRCC36 is part of the BRCA1/BRCA2/BARD1-containing nuclear complex that displays an E3 ubiquitin ligase activity. It is targeted to DNA damage foci after irradiation; RAP80 recruits the Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand breaks (DSBs) for DNA repair through specific recognition of Lys 63-linked polyubiquitinated proteins by its tandem ubiquitin-interacting motifs. A new protein, MERIT40 (mediator of RAP80 interactions and targeting 40 kDa), also named NBA1 (new component of the BRCA1 A complex), exists in the same BRCA1-contai
Probab=97.40 E-value=0.0026 Score=61.85 Aligned_cols=112 Identities=13% Similarity=0.152 Sum_probs=76.5
Q ss_pred ceeeeeeeeeeec----CC--cEEEEeEeCCCC-CCCcCceEEcCCchhHHHHHHHHHh------cCCeEEEEEEeeccc
Q 015194 152 VKRGGFMYGTVLE----DK--RVEVNFIYEPPQ-QGTEEVLYILRDEEEEKLVDAIAAG------LGMKKVGFIFTQTIM 218 (411)
Q Consensus 152 ~QR~G~LYG~Y~~----~~--~a~VeAIYEPPQ-~~~~dg~~l~~d~~~e~~vd~iA~~------lGL~~VG~IfTdl~~ 218 (411)
.-=||+|.|+.+. +. .+.|.+++.++. +...+.+.+ |+++.-++.+=|+. -||+.|||.=||+
T Consensus 24 ~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~ei--dPee~~~a~~ea~~~~~~~~rgl~vVGwYHSHP-- 99 (244)
T cd08068 24 EEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEI--SPEQLSAASTEAERLTEETGRPMRVVGWYHSHP-- 99 (244)
T ss_pred cceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEe--CHHHHHHHHHHHHHHHhhccCCceEEEEEecCC--
Confidence 3458999999863 12 233334555443 446677776 44433344444555 8899999999999
Q ss_pred CCCCceeecHHHHHHHHHHHHhcCCCceEEEEEEeeecCC---CCcceeEEEeeccH
Q 015194 219 QNKKDYTLSNREVLQAVEFHAECNMEEWVTAVVKLEVSEE---GSAAIHFEAFQMSD 272 (411)
Q Consensus 219 ~~~~~~fLSs~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d---~~~~I~~eayQvS~ 272 (411)
.-.-+.|..++.....+|...| .|+-.+||+.- ++ ..+.+.+.|||..+
T Consensus 100 --~~~a~PS~~Dv~tq~~~q~~~p--~~v~lIvS~~~-~~~~~~~~~~~i~aFr~~~ 151 (244)
T cd08068 100 --HITVWPSHVDVRTQAMYQMMDS--GFVGLIFSCFN-EDKSTKMGEVQVTCFQSVQ 151 (244)
T ss_pred --CCCCCCCHhHHHHHHHHHhhCC--CcEEEEEEecC-CccccccCCEEEEEEEecC
Confidence 6678999999998888887664 78888888522 21 12578889998754
No 38
>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=97.38 E-value=0.00046 Score=53.76 Aligned_cols=65 Identities=15% Similarity=0.325 Sum_probs=52.3
Q ss_pred EEcCCC-ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEE
Q 015194 5 IRSRDG-LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVF 83 (411)
Q Consensus 5 vRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~ 83 (411)
||+..| ++-++++ |++|+++|+++|++..++|++.+.|...- ..| ..+.+|++.|+++|+.|+
T Consensus 3 vk~~~g~~~~~~v~-~~~tV~~lK~~i~~~~gi~~~~q~Li~~G--------------~~L-~d~~~l~~~~i~~~stl~ 66 (70)
T cd01798 3 VRTNTGHTFPVEVD-PDTDIKQLKEVVAKRQGVPPDQLRVIFAG--------------KEL-RNTTTIQECDLGQQSILH 66 (70)
T ss_pred EEcCCCCEEEEEEC-CCChHHHHHHHHHHHHCCCHHHeEEEECC--------------eEC-CCCCcHHHcCCCCCCEEE
Confidence 566665 4558999 69999999999999999999988885321 122 346899999999999999
Q ss_pred Ee
Q 015194 84 LS 85 (411)
Q Consensus 84 l~ 85 (411)
+.
T Consensus 67 l~ 68 (70)
T cd01798 67 AV 68 (70)
T ss_pred EE
Confidence 85
No 39
>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=97.32 E-value=0.00068 Score=53.89 Aligned_cols=71 Identities=20% Similarity=0.209 Sum_probs=56.2
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|-|-|.+..-++-|+|+ +++|+++|+++|.+..++|++.|-|-. ++. .| .. ...+.+|+++|++.|+
T Consensus 1 ~~i~vk~~g~~~~v~v~-~~~Tv~~lK~~i~~~tgvp~~~QKLi~-~~~------~G----k~-l~D~~~L~~~~i~~g~ 67 (74)
T cd01813 1 VPVIVKWGGQEYSVTTL-SEDTVLDLKQFIKTLTGVLPERQKLLG-LKV------KG----KP-AEDDVKISALKLKPNT 67 (74)
T ss_pred CEEEEEECCEEEEEEEC-CCCCHHHHHHHHHHHHCCCHHHEEEEe-ecc------cC----Cc-CCCCcCHHHcCCCCCC
Confidence 45677888888999999 699999999999999999999988854 210 11 11 2346899999999999
Q ss_pred EEEE
Q 015194 81 IVFL 84 (411)
Q Consensus 81 ml~l 84 (411)
.|.+
T Consensus 68 ~i~l 71 (74)
T cd01813 68 KIMM 71 (74)
T ss_pred EEEE
Confidence 8876
No 40
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=97.24 E-value=0.0011 Score=54.03 Aligned_cols=75 Identities=23% Similarity=0.312 Sum_probs=55.1
Q ss_pred EEEEcCCC---ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 3 LRIRSRDG---LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 3 lRvRS~~G---~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|.|.|+.- .....++ ++.|+++|+++|...+|+|++.+.|+..++. .+ .....+.+..++|++.|+++|
T Consensus 4 l~It~~~~~~~~~ekr~~-~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~------~~-~~~~~~~dd~~~L~~y~~~dg 75 (87)
T PF14560_consen 4 LFITSSNSKQRSVEKRFP-KSITVSELKQKLEKLTGIPPSDMRLQLKSDK------DD-SKIEELDDDDATLGSYGIKDG 75 (87)
T ss_dssp EEEEESSSSSSEEEEEEE-TTSBHHHHHHHHHHHHTS-TTTEEEEEE-TS------SS-SEEEESSGSSSBCCHHT-STT
T ss_pred EEEEeCCCCCeeEEEEcC-CCCCHHHHHHHHHHHhCCCcccEEEEEEecC------CC-ccccccCCCccEeecCCCCCC
Confidence 56666666 6778888 5999999999999999999999999654221 00 011333456899999999999
Q ss_pred cEEEEe
Q 015194 80 SIVFLS 85 (411)
Q Consensus 80 Dml~l~ 85 (411)
+.|++.
T Consensus 76 ~~i~V~ 81 (87)
T PF14560_consen 76 MRIHVV 81 (87)
T ss_dssp EEEEEE
T ss_pred CEEEEE
Confidence 999985
No 41
>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=97.18 E-value=0.00068 Score=53.85 Aligned_cols=63 Identities=21% Similarity=0.293 Sum_probs=51.2
Q ss_pred CceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEeecC
Q 015194 10 GLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLSYDG 88 (411)
Q Consensus 10 G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~y~~ 88 (411)
-++-++++ +++|+++|+++|.+..++|++.+.|...-. .+ ..+.+|++.|+++|+.|++....
T Consensus 8 ~~~~l~v~-~~~TV~~lK~~i~~~~gip~~~q~L~~~G~--------------~L-~d~~tL~~~~i~~g~~l~v~~~~ 70 (76)
T cd01800 8 QMLNFTLQ-LSDPVSVLKVKIHEETGMPAGKQKLQYEGI--------------FI-KDSNSLAYYNLANGTIIHLQLKE 70 (76)
T ss_pred eEEEEEEC-CCCcHHHHHHHHHHHHCCCHHHEEEEECCE--------------Ec-CCCCcHHHcCCCCCCEEEEEEec
Confidence 35679999 699999999999999999999988854321 12 34689999999999999997653
No 42
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h. Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different
Probab=97.05 E-value=0.0077 Score=59.22 Aligned_cols=125 Identities=15% Similarity=0.218 Sum_probs=91.6
Q ss_pred cceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCc-hhHHHHHHHHHhcCC--eEEEEEEeecccCCCCceeec
Q 015194 151 AVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDE-EEEKLVDAIAAGLGM--KKVGFIFTQTIMQNKKDYTLS 227 (411)
Q Consensus 151 ~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~-~~e~~vd~iA~~lGL--~~VG~IfTdl~~~~~~~~fLS 227 (411)
..-=+|.|.|... ++.+.|.-.|.-|...+.+.-....++ +....+-+.++..|. ..|||==|++ . .-|+|
T Consensus 22 p~~v~G~LLG~~~-~~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~~~r~v~~~e~iVGWY~S~p--~---~~~~~ 95 (266)
T cd08065 22 PELVQGQLLGLDV-GGTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMRLLREVNVDHNHVGWYQSTY--L---GSFFT 95 (266)
T ss_pred CcEEEEEEeeeEc-CCEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHHHHHHhCCCCcEEEeEeecC--C---CCcCC
Confidence 4566899999986 467888888999987775542222222 344678888999999 9999999987 1 25667
Q ss_pred HHHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccHHHHHHhhcCcccc
Q 015194 228 NREVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSDMCVRLFKEGWFET 285 (411)
Q Consensus 228 s~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~q~~aLv~~~~i~~ 285 (411)
...+-.-..+|...+ .+|-++++...+ .+|.+.+.||..|.++|.+.++|-+..
T Consensus 96 ~s~id~~~~~q~~~~--~~v~Li~D~~~s--~~g~l~lkAyrl~~~~~~~~~~~~~~~ 149 (266)
T cd08065 96 RDLIETQYNYQEAIE--ESVVLVYDPSKT--SQGSLSLKAYRLSEKFMELYKEGKFST 149 (266)
T ss_pred HHHHHHHHHHhccCC--CCEEEEECCCcc--cccceeeEEEEEcHHHHHHhhcCCcCH
Confidence 777776666666444 456667664321 357899999999999999999988766
No 43
>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=97.02 E-value=0.0022 Score=48.68 Aligned_cols=66 Identities=29% Similarity=0.347 Sum_probs=52.0
Q ss_pred EEcC-CCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEE
Q 015194 5 IRSR-DGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVF 83 (411)
Q Consensus 5 vRS~-~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~ 83 (411)
||+. .+.+.++++ +++|+++|+++|.+..+++++.+.|..+- ..+ ..+.+|.++|+++|+.|+
T Consensus 2 v~~~~~~~~~~~~~-~~~ti~~lK~~i~~~~~~~~~~~~l~~~g--------------~~l-~d~~~l~~~~v~~~~~i~ 65 (69)
T cd01769 2 VKTLTGKTFELEVS-PDDTVAELKAKIAAKEGVPPEQQRLIYAG--------------KIL-KDDKTLSDYGIQDGSTLH 65 (69)
T ss_pred eEccCCCEEEEEEC-CCChHHHHHHHHHHHHCcChHHEEEEECC--------------cCC-CCcCCHHHCCCCCCCEEE
Confidence 4555 677889999 69999999999999999998888873221 112 346789999999999999
Q ss_pred Eee
Q 015194 84 LSY 86 (411)
Q Consensus 84 l~y 86 (411)
+..
T Consensus 66 v~~ 68 (69)
T cd01769 66 LVL 68 (69)
T ss_pred EEE
Confidence 864
No 44
>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=96.75 E-value=0.0073 Score=48.28 Aligned_cols=71 Identities=21% Similarity=0.246 Sum_probs=54.2
Q ss_pred EEEEEcCCCc-eEEEecCCCCcHHHHHHHHHhhcCCCCCC-ceee-ccccccccCCCCcccccccCCCCCCCcccccccc
Q 015194 2 LLRIRSRDGL-ERVTVDGAHVTVAELKTIIQSQLRIPVES-QTLS-TNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISH 78 (411)
Q Consensus 2 ilRvRS~~G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~-~~Ls-~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkH 78 (411)
.||||-|||. ..-... +++|+++|++.|......+... +.|. ..|... +.. ..++||+++||..
T Consensus 8 ~I~vRlpdG~~l~~~F~-~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~----------l~~--~~~~tl~e~~l~p 74 (82)
T PF00789_consen 8 RIQVRLPDGSRLQRRFP-KSDTLQDLYDFVESQLFSPEESDFELITAFPRRE----------LTD--EDSKTLEEAGLLP 74 (82)
T ss_dssp EEEEEETTSTEEEEEEE-TTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEE----------CCS--TTTSBTCCCTTSS
T ss_pred EEEEECCCCCEEEEEEC-CcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcC----------CCc--cccccHHHhcCCC
Confidence 5899999996 555668 5999999999999998766665 7884 445321 121 1258999999999
Q ss_pred ccEEEEe
Q 015194 79 GSIVFLS 85 (411)
Q Consensus 79 GDml~l~ 85 (411)
+..|+|.
T Consensus 75 ~~~l~v~ 81 (82)
T PF00789_consen 75 SATLIVE 81 (82)
T ss_dssp CEEEEEE
T ss_pred CeEEEEE
Confidence 9999985
No 45
>cd08058 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic. This family contains eukaryotic MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains found in proteins with a variety of functions, including AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM), H2A-DUB (histone H2A deubiquitinase), BRCC36 (BRCA1/BRCA2-containing complex subunit 36), as well as Rpn11 (regulatory particle number 11) and CSN5 (COP9 signalosome complex subunit 5). These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology. CSN5 is critical for nuclear export and the degradation of several tumor suppressor prot
Probab=96.62 E-value=0.022 Score=48.95 Aligned_cols=101 Identities=15% Similarity=0.183 Sum_probs=69.5
Q ss_pred cceeeeeeeeeeecCC----cEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceee
Q 015194 151 AVKRGGFMYGTVLEDK----RVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTL 226 (411)
Q Consensus 151 ~~QR~G~LYG~Y~~~~----~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fL 226 (411)
-.--||+|-|++.+.. ...|......|... +..++..+-.-+..-|++.|||.=||+ .-.-++
T Consensus 15 p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~---------~~~~~~~~~~~~~~~g~~~vG~YHSHP----~~~~~p 81 (119)
T cd08058 15 GIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSC---------TGENVEELFNVQTGRPLLVVGWYHSHP----TFTAWL 81 (119)
T ss_pred CeEEEEEeeeEEecCccceeEEEEeecCCCCCCc---------hhHHHHHHHHHHhCCCCeEEEEEecCC----CCCCcc
Confidence 3457899999987533 22333333333311 122233555667889999999999999 556799
Q ss_pred cHHHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeecc
Q 015194 227 SNREVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMS 271 (411)
Q Consensus 227 Ss~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS 271 (411)
|...+..-+.+|...| .++-.++++.- -...+.||++|
T Consensus 82 S~~Di~~~~~~q~~~p--~~~~lI~s~~~-----~~~~~~a~rl~ 119 (119)
T cd08058 82 SSVDIHTQASYQLMLP--EAIAIVVSPKH-----RNKDTGIFRLT 119 (119)
T ss_pred CHHHHHHHHHHhccCC--CeEEEEECcCC-----CCcccceEEeC
Confidence 9999998888998765 67777887421 26667888876
No 46
>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=96.54 E-value=0.0097 Score=48.38 Aligned_cols=74 Identities=19% Similarity=0.195 Sum_probs=55.2
Q ss_pred EEEEcCCCceEEE--ecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 3 LRIRSRDGLERVT--VDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 3 lRvRS~~G~~Rv~--v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|.|.|....+.+| ++ ++.|+++|++++...+|+++..+.|....+.. .. ...+.+..++|++.|+++|.
T Consensus 4 v~i~~~~~~~~~ekr~~-~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~----~~----~~~l~~d~~~L~~y~~~dg~ 74 (84)
T cd01789 4 VNITSSADSFSFEKKYS-RGLTIAELKKKLELVVGTPASSMRLQLFDGDD----KL----VSKLDDDDALLGSYPVDDGC 74 (84)
T ss_pred EEEEeCCCceeeeEecC-CCCcHHHHHHHHHHHHCCCccceEEEEEcCCC----Ce----EeecCCCccEeeeccCCCCC
Confidence 5667766667777 88 69999999999999999999999994322110 00 01233567899999999999
Q ss_pred EEEEe
Q 015194 81 IVFLS 85 (411)
Q Consensus 81 ml~l~ 85 (411)
-|++.
T Consensus 75 ~IhVv 79 (84)
T cd01789 75 RIHVI 79 (84)
T ss_pred EEEEE
Confidence 99884
No 47
>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=96.33 E-value=0.01 Score=47.99 Aligned_cols=69 Identities=22% Similarity=0.104 Sum_probs=50.8
Q ss_pred EEEEEcCCCce---EEEecCCCCcHHHHHHHHHhhcC--CCCCCceeeccccccccCCCCcccccccCCCCCCCccccc-
Q 015194 2 LLRIRSRDGLE---RVTVDGAHVTVAELKTIIQSQLR--IPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLN- 75 (411)
Q Consensus 2 ilRvRS~~G~~---Rv~v~~p~~t~~~L~~kI~~~l~--~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lG- 75 (411)
=|.|||++|.. -|+++ |++|+++|+++|++..+ .+++.|.|-.. + +-| ..+.||++.+
T Consensus 3 ~l~IK~~~~~~~~~~ve~~-~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~-G-------------KiL-kD~~tL~~~~~ 66 (79)
T cd01790 3 TLLIKSPNQKYEDQTVSCF-LNWTVGELKTHLSRVYPSKPLEQDQRLIYS-G-------------KLL-PDHLKLRDVLR 66 (79)
T ss_pred EEEEECCCCCeEEEEEecC-CcChHHHHHHHHHHhcCCCCChhHeEEEEc-C-------------eec-cchhhHHHHhh
Confidence 47899999986 35558 69999999999999985 44577777321 1 112 2467888886
Q ss_pred -cccccEEEEee
Q 015194 76 -ISHGSIVFLSY 86 (411)
Q Consensus 76 -LkHGDml~l~y 86 (411)
++.|..++|-+
T Consensus 67 ~~~~~~tiHLV~ 78 (79)
T cd01790 67 KQDEYHMVHLVC 78 (79)
T ss_pred cccCCceEEEEe
Confidence 88999999854
No 48
>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=96.31 E-value=0.013 Score=60.50 Aligned_cols=73 Identities=21% Similarity=0.292 Sum_probs=57.8
Q ss_pred CEEEEEcCCC-ceEEEecCCCCcHHHHHHHHHhhcC---CCCCCceeeccccccccCCCCcccccccCCCCCCCcccccc
Q 015194 1 MLLRIRSRDG-LERVTVDGAHVTVAELKTIIQSQLR---IPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNI 76 (411)
Q Consensus 1 MilRvRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~---~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGL 76 (411)
|-|-||+-.| ++-|+|+ +++|+.+||++|.+..+ ++.+.+.|... + +.| ..+.+|+++||
T Consensus 1 MkItVKtl~g~~~~IeV~-~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~-G-------------kiL-~Dd~tL~dy~I 64 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDME-PDETVKELKEKIEAEQGKDAYPVAQQKLIYS-G-------------KIL-SDDKTVREYKI 64 (378)
T ss_pred CEEEEEeCCCCEEEEEeC-CcChHHHHHHHHHHhhCCCCCChhHeEEEEC-C-------------EEC-CCCCcHHHcCC
Confidence 7889998776 5568899 69999999999999988 88888888542 1 122 34679999999
Q ss_pred ccccEEEEeecCc
Q 015194 77 SHGSIVFLSYDGE 89 (411)
Q Consensus 77 kHGDml~l~y~~~ 89 (411)
++||.|++.....
T Consensus 65 ~e~~~Ivvmv~k~ 77 (378)
T TIGR00601 65 KEKDFVVVMVSKP 77 (378)
T ss_pred CCCCEEEEEeccC
Confidence 9999999876543
No 49
>PLN02560 enoyl-CoA reductase
Probab=96.17 E-value=0.016 Score=58.18 Aligned_cols=76 Identities=24% Similarity=0.296 Sum_probs=55.1
Q ss_pred CEEEEEcCCCceE----EEecCCCCcHHHHHHHHHhhcCC-CCCCceeeccccccccCCCCcccccccCCCCCCCccccc
Q 015194 1 MLLRIRSRDGLER----VTVDGAHVTVAELKTIIQSQLRI-PVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLN 75 (411)
Q Consensus 1 MilRvRS~~G~~R----v~v~~p~~t~~~L~~kI~~~l~~-~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lG 75 (411)
|=|-|+++.|... |+++ |++|+++|+++|+++.+. +++.+.|..+... +.+.+ ..+ ..+++|++.|
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~-~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~---gk~~g----~~L-~d~ktL~d~g 71 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVP-DSATVADLKKAIHKRKKKYYPSRQRLTLPLPP---GKTRP----TVL-DDSKSLKDYG 71 (308)
T ss_pred CEEEEEcCCCCeecceeEEcC-CCCcHHHHHHHHHHHcCCCChhheEEEEecCC---CCcCc----ccc-CCCCCHHhcC
Confidence 5566777777664 7999 699999999999999875 7788888643210 01111 112 3567999999
Q ss_pred cccccEEEEe
Q 015194 76 ISHGSIVFLS 85 (411)
Q Consensus 76 LkHGDml~l~ 85 (411)
++.|+.||+.
T Consensus 72 v~~gstLy~k 81 (308)
T PLN02560 72 LGDGGTVVFK 81 (308)
T ss_pred CCCCceEEEE
Confidence 9999999985
No 50
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=96.17 E-value=0.027 Score=45.04 Aligned_cols=72 Identities=21% Similarity=0.205 Sum_probs=52.6
Q ss_pred EEEEEcCCCc-eEEEecCCCCcHHHHHHHHHhhcCCCCCCceeecc-ccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 2 LLRIRSRDGL-ERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTN-QNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 2 ilRvRS~~G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~-~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
.|+||-|+|. ...... +++|+.+|++.|....+....++.|+.. |.+. +.+ .+.++||.++||...
T Consensus 6 ~I~iRlPdG~ri~~~F~-~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~----------l~~-~d~~~tL~e~gL~p~ 73 (80)
T smart00166 6 RLQIRLPDGSRLVRRFP-SSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRT----------FTK-DDYSKTLLELALLPS 73 (80)
T ss_pred EEEEEcCCCCEEEEEeC-CCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcC----------Ccc-ccccCCHHHCCCCCc
Confidence 4899999999 446677 6999999999997666666667888543 5321 121 123689999999888
Q ss_pred cEEEEe
Q 015194 80 SIVFLS 85 (411)
Q Consensus 80 Dml~l~ 85 (411)
..|++.
T Consensus 74 ~~l~v~ 79 (80)
T smart00166 74 STLVLE 79 (80)
T ss_pred eEEEEe
Confidence 888874
No 51
>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=95.77 E-value=0.032 Score=44.37 Aligned_cols=62 Identities=21% Similarity=0.425 Sum_probs=44.0
Q ss_pred ceEEEecCCCCcHHHHHHHHHhhcC-CCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEe
Q 015194 11 LERVTVDGAHVTVAELKTIIQSQLR-IPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLS 85 (411)
Q Consensus 11 ~~Rv~v~~p~~t~~~L~~kI~~~l~-~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~ 85 (411)
..++++++|++|+++|++.|++..+ .+++.+.|...+.+ ..+ ..+.+|++.|++.|+.||+.
T Consensus 13 ~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g------------~~L-~d~~tL~~~gv~~g~~lyvK 75 (77)
T cd01801 13 IGKLKVSSGDATIADLKKLIAKSSPQLTVNRQSLRLEPKG------------KSL-KDDDTLVDLGVGAGATLYVR 75 (77)
T ss_pred eeecccCCCCccHHHHHHHHHHHcCCCCcceeEEEeCCCC------------ccc-CCcccHhhcCCCCCCEEEEe
Confidence 3335554358999999999999976 46677777543321 222 24568999999999999974
No 52
>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=95.60 E-value=0.068 Score=43.19 Aligned_cols=70 Identities=20% Similarity=0.252 Sum_probs=53.5
Q ss_pred EEEEcCCCceEE-EecCCCCcHHHHHHHHHhhcCCCCCCcee-eccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 3 LRIRSRDGLERV-TVDGAHVTVAELKTIIQSQLRIPVESQTL-STNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 3 lRvRS~~G~~Rv-~v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|+||-|+|.... ... .++++++|++.|..+ +.+..++.| ++-|.+. +++ .+.+.||.++||....
T Consensus 7 i~iRlP~G~r~~rrF~-~t~~L~~l~~fv~~~-~~~~~~f~L~t~fPRk~----------~~~-~d~~~TL~e~gL~p~~ 73 (80)
T cd01771 7 LRVRTPSGDFLERRFL-GDTPLQVLLNFVASK-GYPIDEYKLLSSWPRRD----------LTQ-LDPNFTLLELKLYPQE 73 (80)
T ss_pred EEEECCCCCEEEEEeC-CCCcHHHHHHHHHhc-CCCCCCEEEecCCCCCC----------CcC-CCCCCcHHHcCCCCCc
Confidence 899999997543 457 599999999999875 666677888 5667541 222 1356899999999999
Q ss_pred EEEEe
Q 015194 81 IVFLS 85 (411)
Q Consensus 81 ml~l~ 85 (411)
.||+.
T Consensus 74 ~L~Ve 78 (80)
T cd01771 74 TLILE 78 (80)
T ss_pred EEEEE
Confidence 99984
No 53
>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding). This family contains archaeal and bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=95.54 E-value=0.072 Score=46.27 Aligned_cols=103 Identities=17% Similarity=0.188 Sum_probs=69.8
Q ss_pred cceeeeeeeeeeecCCcEEEEeEeCCCCCCC-c-CceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeecH
Q 015194 151 AVKRGGFMYGTVLEDKRVEVNFIYEPPQQGT-E-EVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSN 228 (411)
Q Consensus 151 ~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~-~-dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs 228 (411)
-.--||+|.|++...... |..++..|.... + +.+.+ |+.+..++.+-++..||+.|||.=||+ ...-..|.
T Consensus 16 P~E~cGlL~G~~~~~~~~-i~~~~p~~n~~~~~~~~f~~--d~~~~~~~~~~~~~~g~~~vG~~HSHP----~~~~~PS~ 88 (128)
T cd08070 16 PEECCGLLLGKGGGVTAI-VTEVYPVRNVAESPRRRFEI--DPAEQLAAQREARERGLEVVGIYHSHP----DGPARPSE 88 (128)
T ss_pred CCceEEEEEeecCCCCce-EEEEEEccCCCCCCCceEEE--CHHHHHHHHHHHHHCCCeEEEEEeCCC----CCCCCCCH
Confidence 356799999998776653 456666665433 3 56664 444456777888889999999999999 44566788
Q ss_pred HHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccH
Q 015194 229 REVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSD 272 (411)
Q Consensus 229 ~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~ 272 (411)
.++.++.. ...+=++++.. . +.-.+.||+..+
T Consensus 89 ~D~~~~~~-------~~~~~lIv~~~----~-~~~~~~~~~~~~ 120 (128)
T cd08070 89 TDLRLAWP-------PGVSYLIVSLA----G-GAPELRAWRLEG 120 (128)
T ss_pred HHHHhccC-------CCCeEEEEECC----C-CCcEEEEEEEcC
Confidence 88876532 13455677631 1 244578888754
No 54
>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=95.52 E-value=0.077 Score=42.06 Aligned_cols=70 Identities=19% Similarity=0.265 Sum_probs=49.4
Q ss_pred EEEEEcCCCc-eEEEecCCCCcHHHHHHHHHhhcCCCCCCceee-ccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 2 LLRIRSRDGL-ERVTVDGAHVTVAELKTIIQSQLRIPVESQTLS-TNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 2 ilRvRS~~G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls-~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
-||||-|+|. ..-... +++|+++|++.|...... ..++.|. .-|.+. +.+ .+.++||.++||. +
T Consensus 4 ~i~iRlpdG~~~~~~F~-~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~----------~~~-~~~~~TL~e~gL~-~ 69 (77)
T cd01767 4 KIQIRLPDGKRLEQRFN-STHKLSDVRDFVESNGPP-AEPFTLMTSFPRRV----------LTD-LDYELTLQEAGLV-N 69 (77)
T ss_pred EEEEEcCCCCEEEEEeC-CCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCcc----------CCC-CCccCcHHHcCCc-c
Confidence 4899999997 355678 599999999999877543 4567774 445421 122 1357899999999 5
Q ss_pred cEEEEe
Q 015194 80 SIVFLS 85 (411)
Q Consensus 80 Dml~l~ 85 (411)
..+.+.
T Consensus 70 s~~~~~ 75 (77)
T cd01767 70 EVVFQR 75 (77)
T ss_pred ceEEEE
Confidence 566653
No 55
>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=95.48 E-value=0.076 Score=43.29 Aligned_cols=70 Identities=20% Similarity=0.228 Sum_probs=54.6
Q ss_pred EEEEcCCCceEEE-ecCCCCcHHHHHHHHHhhcCCCCCCcee-eccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 3 LRIRSRDGLERVT-VDGAHVTVAELKTIIQSQLRIPVESQTL-STNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 3 lRvRS~~G~~Rv~-v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|+||-|+|..... .. .++++.+|+.-|.. .+.+.+.+.| ++-|.+. ++. .+.+.||.++||.+-+
T Consensus 8 i~vRlP~G~r~~rrF~-~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~----------~~~-~d~~~TL~e~GL~P~~ 74 (82)
T cd01773 8 LMLRYPDGKREQIALP-EQAKLLALVRHVQS-KGYPNERFELLTNFPRRK----------LSH-LDYDITLQEAGLCPQE 74 (82)
T ss_pred EEEECCCCCEEEEEeC-CCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcc----------cCC-cccCCCHHHcCCCCCc
Confidence 8999999998744 46 58999999999988 5777788888 6667542 122 1346899999999999
Q ss_pred EEEEe
Q 015194 81 IVFLS 85 (411)
Q Consensus 81 ml~l~ 85 (411)
.|||.
T Consensus 75 ~LfVq 79 (82)
T cd01773 75 TVFVQ 79 (82)
T ss_pred EEEEe
Confidence 99984
No 56
>KOG2834 consensus Nuclear pore complex, rNpl4 component (sc Npl4) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=95.43 E-value=0.012 Score=61.14 Aligned_cols=63 Identities=24% Similarity=0.382 Sum_probs=44.6
Q ss_pred CCCCccccccccccEEEEeecCccccCC---C-CCCCCCCCCcccchhHHHHhhc-cccCccCCCcce
Q 015194 67 PDRPLSSLNISHGSIVFLSYDGERNVRG---P-SFNPAGSFGRKMTMDDLIAKQM-RVTRQENPHCES 129 (411)
Q Consensus 67 ~~~tl~~lGLkHGDml~l~y~~~~~~~~---~-~~~~~~~~gk~~~~dd~~~k~~-~i~rq~~~~~d~ 129 (411)
...||..+||+||||+||+-.+...... | ...-.+...++-.+|+.+.|+. .|+|++.++|.|
T Consensus 16 ~~~~~~~~~~~hG~ml~l~~~~~~e~~~sv~~~~~~~~~~~vr~~dvde~ls~edg~I~rsk~~lcrh 83 (510)
T KOG2834|consen 16 VDGTLLLAGLKHGQMLVLSAPGNGELDKSVAPGAKGLRGQRVRSRDVDERLSKEDGLITRSKDKLCRH 83 (510)
T ss_pred ccchhHhhccccccEEEEecCCCCCcCcccCCCccccCCCceecccccchhhhcCCceeeccCccccc
Confidence 4689999999999999999442221110 0 1111245668889999999987 799998877775
No 57
>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=95.17 E-value=0.12 Score=42.26 Aligned_cols=75 Identities=15% Similarity=0.218 Sum_probs=53.3
Q ss_pred EEEEcCCCceEE-EecCCCCcHHHHHHHHHhhcCCCCCCcee-eccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 3 LRIRSRDGLERV-TVDGAHVTVAELKTIIQSQLRIPVESQTL-STNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 3 lRvRS~~G~~Rv-~v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|+||=|+|...+ ... .++|+++|++.|.. .+..++.+.| ++-|.+..+..|.. + .+.+.||.+.||.+..
T Consensus 7 I~iRlp~G~Rl~rrF~-~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~-----~-~~~~~TL~eaGL~~s~ 78 (85)
T cd01774 7 IVFKLPNGTRVERRFL-FTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSE-----G-DPPPPTLLEAGLSNSE 78 (85)
T ss_pred EEEECCCCCEEEEEeC-CCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccc-----c-CcCCCCHHHcCCCCcc
Confidence 789999999543 346 48999999999964 4555567777 56676533322221 0 1357899999999999
Q ss_pred EEEEe
Q 015194 81 IVFLS 85 (411)
Q Consensus 81 ml~l~ 85 (411)
.|++.
T Consensus 79 ~L~V~ 83 (85)
T cd01774 79 VLFVQ 83 (85)
T ss_pred EEEEe
Confidence 99984
No 58
>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=95.16 E-value=0.087 Score=42.44 Aligned_cols=65 Identities=15% Similarity=0.171 Sum_probs=46.7
Q ss_pred EEEEEcCCCceE-EEecCCCCcHHHHHHHHHhhcCCC-CCCceee-ccccccccCCCCcccccccCCCCCCCcccccccc
Q 015194 2 LLRIRSRDGLER-VTVDGAHVTVAELKTIIQSQLRIP-VESQTLS-TNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISH 78 (411)
Q Consensus 2 ilRvRS~~G~~R-v~v~~p~~t~~~L~~kI~~~l~~~-~~~~~Ls-~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkH 78 (411)
-|+||-+||... -... .++|+++|++.|....+-+ ..++.|. .-|.+ .+.+.+.||.++||.+
T Consensus 6 ~iqiRlpdG~r~~~rF~-~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k-------------~l~~~~~Tl~eagL~~ 71 (79)
T cd01770 6 SIQIRLADGKRLVQKFN-SSHRVSDVRDFIVNARPEFAARPFTLMTAFPVK-------------ELSDESLTLKEANLLN 71 (79)
T ss_pred EEEEECCCCCEEEEEeC-CCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCc-------------ccCCCCCcHHHCCCcC
Confidence 378999999554 4678 5999999999999876432 2457774 44642 1223478999999997
Q ss_pred cc
Q 015194 79 GS 80 (411)
Q Consensus 79 GD 80 (411)
.-
T Consensus 72 s~ 73 (79)
T cd01770 72 AV 73 (79)
T ss_pred cE
Confidence 53
No 59
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=95.02 E-value=0.034 Score=58.50 Aligned_cols=71 Identities=20% Similarity=0.317 Sum_probs=59.5
Q ss_pred EEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCcee-eccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 2 LLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTL-STNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 2 ilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
.|||++++..+-|.|.+ ++|+.+|||+|+..+++++|.+.| |..+ .|+ ...||.+.||+.|-
T Consensus 17 rV~Vkt~~dk~~~~V~~-~ssV~qlKE~I~~~f~a~~dqlvLIfaGr---------------ILK-D~dTL~~~gI~Dg~ 79 (493)
T KOG0010|consen 17 RVTVKTPKDKYEVNVAS-DSSVLQLKELIAQRFGAPPDQLVLIYAGR---------------ILK-DDDTLKQYGIQDGH 79 (493)
T ss_pred EEEEecCCcceeEeccc-chHHHHHHHHHHHhcCCChhHeeeeecCc---------------ccc-ChhhHHHcCCCCCc
Confidence 58899999999999994 999999999999999999998888 4322 222 36799999999999
Q ss_pred EEEEeecCc
Q 015194 81 IVFLSYDGE 89 (411)
Q Consensus 81 ml~l~y~~~ 89 (411)
-|||--+..
T Consensus 80 TvHLVik~~ 88 (493)
T KOG0010|consen 80 TVHLVIKSQ 88 (493)
T ss_pred EEEEEeccC
Confidence 999975543
No 60
>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=94.88 E-value=0.12 Score=41.44 Aligned_cols=71 Identities=20% Similarity=0.334 Sum_probs=51.1
Q ss_pred EEEEEcCCCc-eEEEecCCCCcHHHHHHHHHhhcCCCCCCcee-eccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 2 LLRIRSRDGL-ERVTVDGAHVTVAELKTIIQSQLRIPVESQTL-STNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 2 ilRvRS~~G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
.|+||-++|. ..-... +++|+.+|++.|....+.. .++.| ..-|.+. +.+ .+.++||.++||..-
T Consensus 6 ~i~iRlp~G~~~~~~F~-~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~----------~~~-~d~~~TL~elgL~Ps 72 (79)
T cd01772 6 RIQIRLLDGTTLKQTFK-AREQLAAVRLFVELNTGNG-GPFTLMTPFPRKV----------FTE-DDMEKPLQELGLVPS 72 (79)
T ss_pred EEEEECCCCCEEEEEeC-CCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeE----------CCc-ccccCCHHHCCCCCc
Confidence 4899999998 344677 5999999999998775433 55777 4446431 111 123689999999999
Q ss_pred cEEEEe
Q 015194 80 SIVFLS 85 (411)
Q Consensus 80 Dml~l~ 85 (411)
..|+|.
T Consensus 73 a~L~v~ 78 (79)
T cd01772 73 AVLIVT 78 (79)
T ss_pred eEEEEe
Confidence 898873
No 61
>KOG1795 consensus U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=94.84 E-value=0.048 Score=62.55 Aligned_cols=118 Identities=16% Similarity=0.224 Sum_probs=87.2
Q ss_pred cceeeeeeeeeeecC-CcE-EEEeEeCCCCCCCcCceEE-cCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeec
Q 015194 151 AVKRGGFMYGTVLED-KRV-EVNFIYEPPQQGTEEVLYI-LRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLS 227 (411)
Q Consensus 151 ~~QR~G~LYG~Y~~~-~~a-~VeAIYEPPQ~~~~dg~~l-~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLS 227 (411)
..|-+|||||--.++ ++| .+-+|--+||-|+..|+.+ ..-|.. --.-+|+..|||-|.+ .+=-+||
T Consensus 2114 r~qiag~~yG~s~~d~pqvkeIr~ivmvPQ~gs~~~v~lp~~lP~~-------~~l~d~e~Lgw~hTq~----~el~~ls 2182 (2321)
T KOG1795|consen 2114 RTQIAGYLYGVSPPDNPQVKEIRCIVMVPQWGSHQGVHLPSFLPIH-------GVLEDLEPLGWIHTQP----NELPQLS 2182 (2321)
T ss_pred hhhhheeeeccCCCCCCccceEEEEEeccccccccccccCccCCcc-------hhccCCcccchhhcCc----cccccCC
Confidence 589999999986554 344 6778899999999999998 222211 1235899999999988 6667899
Q ss_pred HHHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccHHHHHHhhcCcccc
Q 015194 228 NREVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSDMCVRLFKEGWFET 285 (411)
Q Consensus 228 s~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~q~~aLv~~~~i~~ 285 (411)
+++|..-||+-..+. .|.+ ++|+.-.+ |.+++.||-+|..+.+-=+.+.-..
T Consensus 2183 p~dV~th~ki~~~~k-~k~i--~~t~~~tp---gs~sl~ay~lt~~G~eWg~~n~d~g 2234 (2321)
T KOG1795|consen 2183 PQDVTTHAKILVDNK-EKCI--IITCSFTP---GSCSLTAYKLTPSGYEWGEVNKDKG 2234 (2321)
T ss_pred HHHhhhhhhhhhcCc-cceE--EEEeeccC---CcceeeeeccCccccccchhccccc
Confidence 999999999988765 3533 34433333 8999999999988776655555444
No 62
>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=94.34 E-value=0.059 Score=43.21 Aligned_cols=55 Identities=27% Similarity=0.373 Sum_probs=40.4
Q ss_pred ecCCCCcHHHHHHHHHhhcC--CC-CCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEe
Q 015194 16 VDGAHVTVAELKTIIQSQLR--IP-VESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLS 85 (411)
Q Consensus 16 v~~p~~t~~~L~~kI~~~l~--~~-~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~ 85 (411)
|.+.++|+++|+++|+++++ ++ ++.|.|-.. | ..| ..+.||++.||+.|+.|+|-
T Consensus 16 ~~~~~~TV~~LK~kI~~~~~egi~~~dqQrLIy~----------G----KiL-~D~~TL~dygI~~gstlhLv 73 (75)
T cd01815 16 VSPGGYQVSTLKQLIAAQLPDSLPDPELIDLIHC----------G----RKL-KDDQTLDFYGIQSGSTIHIL 73 (75)
T ss_pred cCCccCcHHHHHHHHHHhhccCCCChHHeEEEeC----------C----cCC-CCCCcHHHcCCCCCCEEEEE
Confidence 44237799999999999974 54 777787321 1 122 34689999999999999873
No 63
>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=93.93 E-value=0.17 Score=35.48 Aligned_cols=65 Identities=23% Similarity=0.324 Sum_probs=45.9
Q ss_pred EEcC-CCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEE
Q 015194 5 IRSR-DGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVF 83 (411)
Q Consensus 5 vRS~-~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~ 83 (411)
++.+ .....+.+. ++.|+++|+++|.++++.+++.+.|+.+-.. ......+...++++|+.+.
T Consensus 2 v~~~~~~~~~~~~~-~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~---------------~~~~~~~~~~~~~~~~~i~ 65 (69)
T cd00196 2 VKLNDGKTVELLVP-SGTTVADLKEKLAKKLGLPPEQQRLLVNGKI---------------LPDSLTLEDYGLQDGDELV 65 (69)
T ss_pred eEecCCCEEEEEcC-CCCcHHHHHHHHHHHHCcChHHeEEEECCeE---------------CCCCCcHHHcCCCCCCEEE
Confidence 4444 445667777 5899999999999999988888888654211 0112333567899999988
Q ss_pred Ee
Q 015194 84 LS 85 (411)
Q Consensus 84 l~ 85 (411)
+.
T Consensus 66 ~~ 67 (69)
T cd00196 66 LV 67 (69)
T ss_pred EE
Confidence 75
No 64
>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=93.83 E-value=0.099 Score=45.06 Aligned_cols=71 Identities=24% Similarity=0.327 Sum_probs=57.8
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCcccccc----
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNI---- 76 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGL---- 76 (411)
|-||||-+.-|.=+.|. +++|+-+|+.+|...+..|++.+.|+.+- ++...++||++.|+
T Consensus 3 vFlmIrR~KTTiF~dak-es~tVlelK~~iegI~k~pp~dQrL~kd~---------------qvLeD~kTL~d~g~t~~~ 66 (119)
T cd01788 3 VFLMIRRHKTTIFTDAK-ESTTVYELKRIVEGILKRPPEDQRLYKDD---------------QLLDDGKTLGDCGFTSQT 66 (119)
T ss_pred eEEEEEecceEEEeecC-CcccHHHHHHHHHHHhcCChhHheeecCc---------------eeecccccHHHcCccccc
Confidence 56899999999999999 69999999999999999999999998332 23356789999998
Q ss_pred ---ccccEEEEeec
Q 015194 77 ---SHGSIVFLSYD 87 (411)
Q Consensus 77 ---kHGDml~l~y~ 87 (411)
..-..|=|.+.
T Consensus 67 akaq~pA~vgLa~r 80 (119)
T cd01788 67 ARPQAPATVGLAFR 80 (119)
T ss_pred cccCCCCeEEEEEe
Confidence 44556666555
No 65
>KOG2880 consensus SMAD6 interacting protein AMSH, contains JAB/MPN/Mov34 domain [Signal transduction mechanisms]
Probab=93.10 E-value=0.04 Score=55.79 Aligned_cols=98 Identities=12% Similarity=0.211 Sum_probs=74.3
Q ss_pred hhhhHHHHHHHHhhccceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEee
Q 015194 136 CADAFQQYVNETLAFAVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQ 215 (411)
Q Consensus 136 ~~~~fq~~~~~~l~~~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTd 215 (411)
....|.+.....-.-+.--||+|=|+-+ ...-.|..+--|-|+++.|.-..+. |+.+=+|-..-+|-.+|||-||
T Consensus 260 l~~~Fl~la~~NT~knlETCGiL~g~L~-~n~f~IThliiPkQeatsd~C~t~n----eeelF~vQdq~~L~tlGWIHTH 334 (424)
T KOG2880|consen 260 LMEVFLQLAKSNTKKNLETCGILAGKLE-RNEFYITHLIIPKQEATSDSCNTMN----EEELFEVQDQHELLTLGWIHTH 334 (424)
T ss_pred HHHHHHHHHhhcccccchHHHHhhhHhh-cCcEEEEEEEeecccCCCccccccC----HHHHheecccccceeeeeeecC
Confidence 3455665554322235667999999854 3456778888899999999765432 2356667778999999999999
Q ss_pred cccCCCCceeecHHHHHHHHHHHHhcC
Q 015194 216 TIMQNKKDYTLSNREVLQAVEFHAECN 242 (411)
Q Consensus 216 l~~~~~~~~fLSs~Eii~aa~~Q~~~~ 242 (411)
+ ..+.||||.++=+---+|..-|
T Consensus 335 P----TQt~FmSSVDlHTHcSYQiMlP 357 (424)
T KOG2880|consen 335 P----TQTCFMSSVDLHTHCSYQIMLP 357 (424)
T ss_pred C----ccchhheeccccccceeeeecc
Confidence 9 7899999999998888888876
No 66
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=92.44 E-value=0.36 Score=55.42 Aligned_cols=121 Identities=17% Similarity=0.155 Sum_probs=80.7
Q ss_pred HHHHHhhc---cceeeeeeeeeeec-CCcE-EEEeEeCCCCCCCcCceEE-cCCchhHHHHHHHHHhcCCeEEEEEEeec
Q 015194 143 YVNETLAF---AVKRGGFMYGTVLE-DKRV-EVNFIYEPPQQGTEEVLYI-LRDEEEEKLVDAIAAGLGMKKVGFIFTQT 216 (411)
Q Consensus 143 ~~~~~l~~---~~QR~G~LYG~Y~~-~~~a-~VeAIYEPPQ~~~~dg~~l-~~d~~~e~~vd~iA~~lGL~~VG~IfTdl 216 (411)
.++.++.. ..|-+||+||.-.. ++++ .+-++=--||-|...|+.+ ..-+.+ +-.-=||+.+|||-|.-
T Consensus 2142 Ll~kF~~isD~~vqvag~vyG~s~~d~p~ikeI~~~~lVPQlgs~~~vq~~s~vP~d------lp~~e~le~lGwihtq~ 2215 (2365)
T COG5178 2142 LLEKFMRISDPHVQVAGLVYGKSGSDNPQIKEILSFGLVPQLGSLSGVQSSSFVPHD------LPGDEDLEILGWIHTQD 2215 (2365)
T ss_pred HHHhhheecccceeeEEEEeccCCccCcchhheeEEEeeccccccccccccccCCCC------CCCcccceeeEEEecCC
Confidence 44444333 68999999998643 3333 4556666799999999987 222211 11124899999999976
Q ss_pred ccCCCCceeecHHHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccHHHHHHhh
Q 015194 217 IMQNKKDYTLSNREVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSDMCVRLFK 279 (411)
Q Consensus 217 ~~~~~~~~fLSs~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~q~~aLv~ 279 (411)
..=-||++.++..-++.=..+. --.||..|+-. .|.|+..||-|++.+..-=.
T Consensus 2216 ----~el~~l~~~~v~th~k~~~d~~-~d~v~ltv~~~-----pgsiSl~ay~v~keG~~Wg~ 2268 (2365)
T COG5178 2216 ----DELPYLEVAGVLTHRKKIVDPE-WDAVTLTVSYL-----PGSISLRAYVVKKEGCNWGS 2268 (2365)
T ss_pred ----cccchhhhhhhhhhhhcccCcc-ccceeeeeeec-----cceeeeeeeeehhccccccc
Confidence 4556899999987776655431 12366666532 38999999999987765443
No 67
>PF08817 YukD: WXG100 protein secretion system (Wss), protein YukD; InterPro: IPR014921 YukD is a bacterial protein that adopts a ubiquitin-like fold []. Ubiquitin covalently binds to protein and flags them for protein degradation, however conjugation assays have indicated that YukD lacks the capacity for covalent bond formation with other proteins []. ; PDB: 2BPS_B.
Probab=91.97 E-value=0.34 Score=38.69 Aligned_cols=65 Identities=22% Similarity=0.340 Sum_probs=39.0
Q ss_pred EEcCC-CceEEEecCCCCcHHHHHHHHHhhcCCCCCC------ceeeccccccccCCCCcccccccCCCCCCCccccccc
Q 015194 5 IRSRD-GLERVTVDGAHVTVAELKTIIQSQLRIPVES------QTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNIS 77 (411)
Q Consensus 5 vRS~~-G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~------~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLk 77 (411)
|..++ ...=+.++ .+-++++|++.|.+.++.+... +.|+. .+ | . ..+++.||++.|+.
T Consensus 7 v~~~~~~~~Dl~lP-~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~--~~-------g----~-~L~~~~tL~~~gV~ 71 (79)
T PF08817_consen 7 VDAGNGRQVDLALP-ADVPVAELIPELVELLGLPGDDPPGHGQWVLAR--AG-------G----R-PLDPDQTLADAGVR 71 (79)
T ss_dssp EE-TT--EEEEEEE-TTSBTTHHHHHHHHHS---S---TT-E-EEEG---GG-------T----E-EEETTSBCGGGT--
T ss_pred EEcCCCcEEEEEcC-CCCcHHHHHHHHHHHhCCccCCCCCcceEEEEe--cC-------C----c-ccCCcCcHhHcCCC
Confidence 45555 55556667 4789999999999999865432 34442 11 1 1 23568999999999
Q ss_pred cccEEEE
Q 015194 78 HGSIVFL 84 (411)
Q Consensus 78 HGDml~l 84 (411)
+||.|+|
T Consensus 72 dGd~L~L 78 (79)
T PF08817_consen 72 DGDVLVL 78 (79)
T ss_dssp TT-EEEE
T ss_pred CCCEEEe
Confidence 9999987
No 68
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=91.74 E-value=0.36 Score=36.98 Aligned_cols=68 Identities=24% Similarity=0.426 Sum_probs=50.7
Q ss_pred CEEEEEcCCCc-eEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDGL-ERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|+|.+++-.|- .-|+++ |++++..++++|.++-|+|+..+.|-..- ..+ ..+++-...++.-|
T Consensus 1 m~iKvktLt~KeIeidIe-p~DkverIKErvEEkeGIPp~qqrli~~g--------------kqm-~DD~tA~~Y~~~~G 64 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIE-PTDKVERIKERVEEKEGIPPQQQRLIYAG--------------KQM-NDDKTAAHYNLLGG 64 (70)
T ss_pred CeeeEeeeccceEEEeeC-cchHHHHHHHHhhhhcCCCchhhhhhhcc--------------ccc-cccccHHHhhhccc
Confidence 78888888775 468889 79999999999999999999888873211 111 23456667777778
Q ss_pred cEEEE
Q 015194 80 SIVFL 84 (411)
Q Consensus 80 Dml~l 84 (411)
..|++
T Consensus 65 SVlHl 69 (70)
T KOG0005|consen 65 SVLHL 69 (70)
T ss_pred eeEee
Confidence 87765
No 69
>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=90.82 E-value=0.57 Score=38.56 Aligned_cols=44 Identities=18% Similarity=0.289 Sum_probs=35.4
Q ss_pred EEEEEcCCC-ceEEEecCCCCcHHHHHHHHHhhcCCCCC---Ccee-ecc
Q 015194 2 LLRIRSRDG-LERVTVDGAHVTVAELKTIIQSQLRIPVE---SQTL-STN 46 (411)
Q Consensus 2 ilRvRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~---~~~L-s~~ 46 (411)
...|++|.| ++|+.+. |++.+.+|++.|+++++...+ .+.| |.|
T Consensus 2 ~FK~~~~~GrvhRf~~~-~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlD 50 (86)
T cd06409 2 AFKFKDPKGRVHRFRLR-PSESLEELRTLISQRLGDDDFETHLYALSYVD 50 (86)
T ss_pred cEEeeCCCCCEEEEEec-CCCCHHHHHHHHHHHhCCccccCCcccEEEEc
Confidence 356788887 7999999 799999999999999998863 4455 443
No 70
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=90.34 E-value=0.4 Score=40.15 Aligned_cols=63 Identities=22% Similarity=0.322 Sum_probs=50.4
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNIS 77 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLk 77 (411)
|-||||--.-+.-+.++ +++|+-+|+.++...+.-|++.+.|++=.. .++...++||++.|..
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 VFLRVRRHKTTIFTDAK-ESSTVFELKRKLEGILKRPVNEQRLYKMDT-------------EQLLDDGKTLGDCGFT 65 (110)
T ss_pred eeeeeeecceeEEeecC-ccccHHHHHHHHHHHHhCCCcchheeecCH-------------HHHhhccchhhhcccc
Confidence 56899999999999999 699999999999999999999999876211 1233457888887754
No 71
>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=90.31 E-value=0.43 Score=37.21 Aligned_cols=59 Identities=15% Similarity=0.146 Sum_probs=36.7
Q ss_pred CceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEE
Q 015194 10 GLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFL 84 (411)
Q Consensus 10 G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l 84 (411)
...+|.+. |+.++.+++++.-++++++++...|..+... .+.+.+++-.||-+|..|-|
T Consensus 7 rr~~vkvt-p~~~l~~VL~eac~k~~l~~~~~~L~h~~k~---------------ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 7 RRFKVKVT-PNTTLNQVLEEACKKFGLDPSSYDLKHNNKP---------------LDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp -EEEE----TTSBHHHHHHHHHHHTT--GGG-EEEETTEE---------------ESSS-BHHHH---SS-EEEE
T ss_pred cEEEEEEC-CCCCHHHHHHHHHHHcCCCccceEEEECCEE---------------eccccceeecCCCCCCEEeC
Confidence 46889999 7999999999999999999998888543321 13467888899999987753
No 72
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=89.93 E-value=0.23 Score=42.28 Aligned_cols=69 Identities=22% Similarity=0.244 Sum_probs=52.9
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|++-+|=---|..++++ |++|+..|+.+|...-|+|++.+.|--+. .. ...+.|+++.|+..-|
T Consensus 2 ~~~~~~~~GKT~~le~E-pS~ti~~vKA~i~~~~Gi~~~~~~L~~~~--------------k~-LED~~Tla~Y~i~~~~ 65 (128)
T KOG0003|consen 2 QIFVKTLTGKTITLEVE-PSDTIDNVKAKIQDKEGIPPDQQRLIFAG--------------KQ-LEDGRTLADYNIQKES 65 (128)
T ss_pred cEEEEEeeCceEEEEec-ccchHHHHHHHhccccCCCHHHHHHHhcc--------------cc-cccCCcccccCccchh
Confidence 45556666668899999 79999999999999999999988873322 11 1347789999988777
Q ss_pred EEEEe
Q 015194 81 IVFLS 85 (411)
Q Consensus 81 ml~l~ 85 (411)
-|.+-
T Consensus 66 Tl~~~ 70 (128)
T KOG0003|consen 66 TLHLV 70 (128)
T ss_pred hhhhh
Confidence 77654
No 73
>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=88.33 E-value=1.1 Score=38.66 Aligned_cols=68 Identities=19% Similarity=0.172 Sum_probs=45.2
Q ss_pred EEEEcCCCc----eEEEecCCCCcHHHHHHHHHhhcC-------CCCCCceeeccccccccCCCCcccccccCCCCCCCc
Q 015194 3 LRIRSRDGL----ERVTVDGAHVTVAELKTIIQSQLR-------IPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPL 71 (411)
Q Consensus 3 lRvRS~~G~----~Rv~v~~p~~t~~~L~~kI~~~l~-------~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl 71 (411)
||||-.||+ +|+ + |++|+++|+++|.+.-+ .+++.+.|-.. | ..| ..++||
T Consensus 7 ~kfrl~dg~digp~~~--~-~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIys----------G----KiL-eD~~TL 68 (113)
T cd01814 7 IKFRLYDGSDIGPKRY--P-AATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISA----------G----KIL-ENSKTV 68 (113)
T ss_pred EEEEccCCCccCcccc--C-hhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeC----------C----eec-CCCCcH
Confidence 899999974 554 4 48999999999997764 33566666321 1 222 356888
Q ss_pred cccc------cccccEEEEeecC
Q 015194 72 SSLN------ISHGSIVFLSYDG 88 (411)
Q Consensus 72 ~~lG------LkHGDml~l~y~~ 88 (411)
++.+ +..+-.++|....
T Consensus 69 ~d~~~p~g~~~~~~~TmHvvlr~ 91 (113)
T cd01814 69 GECRSPVGDIAGGVITMHVVVQP 91 (113)
T ss_pred HHhCCcccccCCCceEEEEEecC
Confidence 8888 4455556665443
No 74
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=86.98 E-value=0.89 Score=37.31 Aligned_cols=59 Identities=22% Similarity=0.268 Sum_probs=31.5
Q ss_pred CCcHHHHHHHHHh-hcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEe
Q 015194 20 HVTVAELKTIIQS-QLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLS 85 (411)
Q Consensus 20 ~~t~~~L~~kI~~-~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~ 85 (411)
..|+++|.++|++ +++.....+.+ ...-.+.+.. . ..+ .+..++|+++|++||.+|-+.
T Consensus 8 ~~TL~~lv~~Vlk~~Lg~~~P~v~~-~~~ilyd~de-~----~~~-~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 8 KMTLGDLVEKVLKKKLGMNEPDVSV-GGTILYDSDE-E----EYD-DNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp T-BHHHHHHHCCCCCS--SSEEEEE-S-EEEE-SSS-S----SST-TCTTSBGGGGT--TT-EEEEE
T ss_pred hCcHHHHHHHHHHhccCCCCCEEEe-CCCEEEcCCc-c----hhh-hcccCChhHcCCCCCCEEEEE
Confidence 5799999999877 67766533333 1111111100 0 011 245799999999999999874
No 75
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=85.69 E-value=0.58 Score=38.27 Aligned_cols=67 Identities=22% Similarity=0.318 Sum_probs=38.9
Q ss_pred EEecCCCCcHHHHHHHHHhh--cCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEe
Q 015194 14 VTVDGAHVTVAELKTIIQSQ--LRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLS 85 (411)
Q Consensus 14 v~v~~p~~t~~~L~~kI~~~--l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~ 85 (411)
|+|+ ++.|+++|++.+.+. +.+..-+.+ +.+.+.+...-|+=++. +. .+-+++|.+| ++.|+.|+++
T Consensus 1 i~v~-~~~TL~~lid~L~~~~~~qlk~PSlt-~~~k~LYm~~pp~Lee~-Tr-~NL~k~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 1 IEVS-PSWTLQDLIDSLCEKPEFQLKKPSLT-TANKTLYMQSPPSLEEA-TR-PNLSKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEES-TTSBSHHHHHHHHHSTTT--SS-EEE-SSEEEEEESSSHHHHHH-TG-GGGSSBTTTT-HHSSEEEEEE
T ss_pred CCcC-ccchHHHHHHHHHhChhhhcCCCccc-CCCceEEEeCCHHHHHH-hh-hhhhhhHHHH-hcCCCEEEEE
Confidence 6899 699999999999998 443322211 11122222111110000 11 1236899999 9999999995
No 76
>cd05992 PB1 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 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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 a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=84.94 E-value=2.7 Score=32.91 Aligned_cols=45 Identities=13% Similarity=0.276 Sum_probs=36.4
Q ss_pred EEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCcee-ecc
Q 015194 2 LLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTL-STN 46 (411)
Q Consensus 2 ilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~ 46 (411)
.++++-.+++.|+.+++++.++.+|.++|.+.++.+...+.+ |.+
T Consensus 2 ~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D 47 (81)
T cd05992 2 RVKVKYGGEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPD 47 (81)
T ss_pred cEEEEecCCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeC
Confidence 578888899999999922789999999999999987545555 444
No 77
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=84.24 E-value=3.6 Score=34.04 Aligned_cols=64 Identities=14% Similarity=0.229 Sum_probs=41.9
Q ss_pred ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceee--ccccccccCCCCcccccccCCCCCCCccccccccccEEEEeec
Q 015194 11 LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLS--TNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLSYD 87 (411)
Q Consensus 11 ~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls--~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~y~ 87 (411)
.......+ ++|++.+.+.+.+.|.+ .....|- ..++. +..|..++.||.+.||.+|.+|-+.-.
T Consensus 15 ~~t~~FSk-~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~-----------~e~L~~~~~Tv~da~L~~gQ~vliE~r 80 (88)
T PF14836_consen 15 VLTKQFSK-TDTIGFVEKEMRKLFNI-QEETRLWNKYSENS-----------YELLNNPEITVEDAGLYDGQVVLIEER 80 (88)
T ss_dssp EEEEEE-T-TSBHHHHHHHHHHHCT--TS-EEEEEECTTTC-----------EEEE--TTSBTTTTT--TTEEEEEEE-
T ss_pred HhHhhccc-cChHHHHHHHHHHHhCC-CccceehhccCCcc-----------hhhhCCCCccHHHccCcCCCEEEEEee
Confidence 45667784 99999999999999999 4445662 22221 133446789999999999999988644
No 78
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . 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 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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 conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=83.73 E-value=2.3 Score=34.58 Aligned_cols=43 Identities=26% Similarity=0.340 Sum_probs=36.1
Q ss_pred EEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeecc
Q 015194 2 LLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTN 46 (411)
Q Consensus 2 ilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~ 46 (411)
+|+|+=.. +.=|.++ +.-++++|.++|.++|+++++...||..
T Consensus 4 vvKV~f~~-tIaIrvp-~~~~y~~L~~ki~~kLkl~~e~i~LsYk 46 (80)
T cd06406 4 VVKVHFKY-TVAIQVA-RGLSYATLLQKISSKLELPAEHITLSYK 46 (80)
T ss_pred EEEEEEEE-EEEEEcC-CCCCHHHHHHHHHHHhCCCchhcEEEec
Confidence 45555554 9999999 6999999999999999999888888544
No 79
>cd06407 PB1_NLP A PB1 domain is present in NIN like proteins (NLP), a key enzyme in a process of establishment of symbiosis betweeen legumes and nitrogen fixing bacteria (Rhizobium). The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes like 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 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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-inte
Probab=83.06 E-value=3.3 Score=33.66 Aligned_cols=46 Identities=13% Similarity=0.146 Sum_probs=36.5
Q ss_pred CEEEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCC-CCcee-eccc
Q 015194 1 MLLRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPV-ESQTL-STNQ 47 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~-~~~~L-s~~~ 47 (411)
|.+.+.=.+-+.|+.++ |+.++.+|.++|.+.+++.. .+++| |.|.
T Consensus 1 ~~vK~~~~~d~~r~~l~-~~~~~~~L~~~i~~r~~~~~~~~f~LkY~Dd 48 (82)
T cd06407 1 VRVKATYGEEKIRFRLP-PSWGFTELKQEIAKRFKLDDMSAFDLKYLDD 48 (82)
T ss_pred CEEEEEeCCeEEEEEcC-CCCCHHHHHHHHHHHhCCCCCCeeEEEEECC
Confidence 34455555668999999 69999999999999999875 56888 5554
No 80
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=83.06 E-value=1.8 Score=39.35 Aligned_cols=71 Identities=27% Similarity=0.362 Sum_probs=56.2
Q ss_pred CEEEEEcCCC-ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccc
Q 015194 1 MLLRIRSRDG-LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHG 79 (411)
Q Consensus 1 MilRvRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHG 79 (411)
|-|-|...-| +.-.+++ +++|+..++.+|.+.-+||++.++|..... .| ..+.+|++.+|+--
T Consensus 1 m~ifVk~l~~kti~~eve-~~~ti~~~Kakiq~~egIp~dqqrlifag~--------------qL-edgrtlSDY~Iqke 64 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVE-ANDTIDNVKAKIQDKEGIPPDQQRLIFAGK--------------QL-EDGRTLSDYNIQKE 64 (156)
T ss_pred Cccchhhccccceeeeec-ccccHHHHHHhhhcccCCCchhhhhhhhhc--------------cc-ccCCcccccccccc
Confidence 5566777777 7788889 699999999999999999999988844321 12 24689999999999
Q ss_pred cEEEEeec
Q 015194 80 SIVFLSYD 87 (411)
Q Consensus 80 Dml~l~y~ 87 (411)
.-|+|...
T Consensus 65 stl~l~l~ 72 (156)
T KOG0004|consen 65 STLHLVLR 72 (156)
T ss_pred ceEEEEEE
Confidence 98888643
No 81
>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p). This family includes Noc4p (neighbor of COX4; neighbor of Cytochrome c Oxidase 4; nucleolar complex associated 4 homolog) which belongs to the family of unknown function, UPF0172, with MPN/JAMM-like domains. Proteins in this family are homologs of the NOC4 gene which is conserved in eukaryotic members including human, dog, mouse, rat, chicken, zebrafish, fruit fly, mosquito, S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa, A.thaliana, and rice. NOC4 highly expressed in the pancreas and moderately in liver, heart, lung, kidney, brain, skeletal muscle, and placenta. This nucleolar protein forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=82.77 E-value=17 Score=33.89 Aligned_cols=81 Identities=16% Similarity=0.092 Sum_probs=58.4
Q ss_pred eeeeeeeeeeecC-CcEEEEeEeCCCCCCCcCceEEcCCchh---HHHHHHHHHhcCCeEEEEEEeecccCCCCceeecH
Q 015194 153 KRGGFMYGTVLED-KRVEVNFIYEPPQQGTEEVLYILRDEEE---EKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSN 228 (411)
Q Consensus 153 QR~G~LYG~Y~~~-~~a~VeAIYEPPQ~~~~dg~~l~~d~~~---e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs 228 (411)
-=||+|.|+.+.. ...++++|--+- ..+.| +|.. ...|++-|+.-||+.||+-.+|+... +--++.
T Consensus 20 evcGlLlG~~~~~~~~~V~d~vPl~h-----~~~~l--~P~~Eval~~ve~~~~~~gl~IvG~Yhsh~~~~---d~~~~~ 89 (182)
T cd08060 20 AVNGLLLGKKSSGGSVEITDAVPLFH-----SCLAL--APMLEVALALVDAYCKSSGLVIVGYYQANERLD---DSSPSP 89 (182)
T ss_pred hheEEEEeeecCCCCEEEEEEEEcCC-----Ccccc--CHHHHHHHHHHHHHHHHCCCEEEEEEecCCccc---CCCCcH
Confidence 4589999997734 445666654443 12443 3432 46899999999999999999998432 456778
Q ss_pred HHHHHHHHHHHhcCC
Q 015194 229 REVLQAVEFHAECNM 243 (411)
Q Consensus 229 ~Eii~aa~~Q~~~~~ 243 (411)
.=...|.+++..++.
T Consensus 90 ~a~kIadki~~~~~~ 104 (182)
T cd08060 90 VAKKIADKIAENFSN 104 (182)
T ss_pred HHHHHHHHHHHhCCC
Confidence 888899999998863
No 82
>PF11039 DUF2824: Protein of unknown function (DUF2824); InterPro: IPR022568 This family of proteins has no known function. Members of the family are found in P22-like viruses and bacteria. Some of the phage members have been annotated as head assembly proteins, but this has not been confirmed.
Probab=82.05 E-value=2.7 Score=37.36 Aligned_cols=64 Identities=25% Similarity=0.414 Sum_probs=43.7
Q ss_pred cceeeeeeeeeeecCCcEEEEeEeCCCCCCC------------------cCceEEcCCchhHHHHHHHHHhcCCeEEEEE
Q 015194 151 AVKRGGFMYGTVLEDKRVEVNFIYEPPQQGT------------------EEVLYILRDEEEEKLVDAIAAGLGMKKVGFI 212 (411)
Q Consensus 151 ~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~------------------~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~I 212 (411)
+.|-.|+-|=+--....+.|||||-|.-.|. ...+++.++.- +.=.-+.+.+||+|||.|
T Consensus 46 g~~l~Gi~~v~~i~~~~vecHa~y~P~fRG~a~~~~~~F~kwlL~Ns~f~~vit~vp~kt--~~Grvic~llg~~RVG~i 123 (151)
T PF11039_consen 46 GGQLGGIVYVEEIQPSVVECHAMYDPGFRGYALEIGRLFCKWLLENSPFQNVITFVPDKT--RYGRVICRLLGARRVGHI 123 (151)
T ss_pred ceEEEEEEEEEEEeeeeEEEEeeeccccchhHHHHHHHHHHHHhcCCceeEEEEeccccc--ccchhHhhhhCCceeeeH
Confidence 4555565554444456789999999997764 23456655542 345568999999999998
Q ss_pred Eeec
Q 015194 213 FTQT 216 (411)
Q Consensus 213 fTdl 216 (411)
=-.+
T Consensus 124 d~~~ 127 (151)
T PF11039_consen 124 DDYF 127 (151)
T ss_pred HHHh
Confidence 5544
No 83
>cd08057 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic. This family contains MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains variants lacking key residues in the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the translation initiation factor 3 subunits f and h do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Rpn7 is known to be critical for the integrity of the 26S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. CSN6 is a highly conserved protein complex with diverse functions, including several import
Probab=79.41 E-value=35 Score=30.51 Aligned_cols=113 Identities=19% Similarity=0.242 Sum_probs=66.4
Q ss_pred cceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchh-HHHHHHHHHh-cCCeEEEEEEeecccCCCCceeecH
Q 015194 151 AVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEE-EKLVDAIAAG-LGMKKVGFIFTQTIMQNKKDYTLSN 228 (411)
Q Consensus 151 ~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~-e~~vd~iA~~-lGL~~VG~IfTdl~~~~~~~~fLSs 228 (411)
...=+|.|.|+.. ...+.|.--|+=|+..+.+...+ |.+. +++.+...+- -....|||--|.. .+.-.++.
T Consensus 22 ~~~v~G~LlG~~~-~~~veV~nsF~lp~~~~~~~~~~--d~~y~~~m~~~~~~v~~~~~vVGWY~~~~----~~~~~~~~ 94 (157)
T cd08057 22 IKRVIGVLLGYVD-GDKIEVTNSFELPFDEEEESIFI--DTEYLEKRYNLHKKVYPQEKIVGWYSIGS----NNSNEISK 94 (157)
T ss_pred CCeEEEEEEeEEe-CCEEEEEEeEEccccCCCcchhh--hHHHHHHHHHHHHHhCCCCCEEEEEeecC----CCCCCCCh
Confidence 3567899999977 66888888888888777665443 3222 2334333322 3589999999987 22212333
Q ss_pred HHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccH
Q 015194 229 REVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSD 272 (411)
Q Consensus 229 ~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~ 272 (411)
.+...-..+...+. ..+|-.++-.... -.+++..+.||..+.
T Consensus 95 ~~~~i~~~~~~~~~-~~~v~L~~D~~~~-~~~~~l~i~ay~~~~ 136 (157)
T cd08057 95 SDNSLHSQFSLISE-ENPLILILDPSLQ-SDSEKLEISTFTSAQ 136 (157)
T ss_pred hHHHHHHHHHhccC-CCCEEEEEcCCcc-cCCCcccEEEEEEec
Confidence 33333333333211 2445555553221 124778899999984
No 84
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=77.59 E-value=6.4 Score=30.93 Aligned_cols=43 Identities=16% Similarity=0.350 Sum_probs=34.3
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCcee-ecc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTL-STN 46 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~ 46 (411)
++++-.+-+.|+.++ ++.|+.+|.++|.+.++.+...+.| |.+
T Consensus 4 vK~~~~~~~~~~~~~-~~~s~~dL~~~i~~~~~~~~~~~~l~Y~D 47 (81)
T smart00666 4 VKLRYGGETRRLSVP-RDISFEDLRSKVAKRFGLDNQSFTLKYQD 47 (81)
T ss_pred EEEEECCEEEEEEEC-CCCCHHHHHHHHHHHhCCCCCCeEEEEEC
Confidence 445554558999999 5999999999999999987767777 444
No 85
>PF09379 FERM_N: FERM N-terminal domain ; InterPro: IPR018979 This domain is the N-terminal ubiquitin-like structural domain of the FERM domain. The FERM domain (F for 4.1 protein, E for ezrin, R for radixin and M for moesin) is a widespread protein module involved in localising proteins to the plasma membrane []. FERM domains are found in a number of cytoskeletal-associated proteins that associate with various proteins at the interface between the plasma membrane and the cytoskeleton. The FERM domain is located at the N terminus of the majority of FERM-containing proteins [, ], which includes: Band 4.1, which links the spectrin-actin cytoskeleton of erythrocytes to the plasma membrane. Ezrin, a component of the undercoat of the microvilli plasma membrane. Moesin, which is probably involved in binding major cytoskeletal structures to the plasma membrane. Radixin, which is involved in the binding of the barbed end of actin filaments to the plasma membrane in the undercoat of the cell- to-cell adherens junction. Talin, a cytoskeletal protein concentrated in regions of cell-substratum contact and, in lymphocytes, of cell-cell contacts. Filopodin, a slime mold protein that binds actin and which is involved in the control of cell motility and chemotaxis. Merlin (or schwannomin). Protein NBL4. Unconventional myosins X, VIIa and XV, which are mutated in congenital deafness. Focal-adhesion kinases (FAKs), cytoplasmic protein tyrosine kinases involved in signalling through integrins. Janus tyrosine kinases (JAKs), cytoplasmic tyrosine kinases that are non-covalently associated with the cytoplasmic tails of receptors for cytokines or polypeptidic hormones. Non-receptor tyrosine-protein kinase TYK2. Protein-tyrosine phosphatases PTPN3 and PTPN4, enzyme that appear to act at junctions between the membrane and the cytoskeleton. Protein-tyrosine phosphatases PTPN14 and PTP-D1, PTP-RL10 and PTP2E. Caenorhabditis elegans protein phosphatase ptp-1. Ezrin, moesin, and radixin are highly related proteins (ERM protein family), but the other proteins in which the FERM domain is found do not share any region of similarity outside of this domain. ERM proteins are made of three domains, the FERM domain, a central helical domain and a C-terminal tail domain, which binds F-actin. The amino-acid sequence of the FERM domain is highly conserved among ERM proteins and is responsible for membrane association by direct binding to the cytoplasmic domain or tail of integral membrane proteins. ERM proteins are regulated by an intramolecular association of the FERM and C-terminal tail domains that masks their binding sites for other molecules. For cytoskeleton-membrane cross-linking, the dormant molecules becomes activated and the FERM domain attaches to the membrane by binding specific membrane proteins, while the last 34 residues of the tail bind actin filaments. Aside from binding to membranes, the activated FERM domain of ERM proteins can also bind the guanine nucleotide dissociation inhibitor of Rho GTPase (RhoDGI), which suggests that in addition to functioning as a cross-linker, ERM proteins may influence Rho signalling pathways. The crystal structure of the FERM domain reveals that it is composed of three structural modules (F1, F2, and F3) that together form a compact clover-shaped structure []. The FERM domain has also been called the amino-terminal domain, the 30kDa domain, 4.1N30, the membrane-cytoskeletal-linking domain, the ERM-like domain, the ezrin-like domain of the band 4.1 superfamily, the conserved N-terminal region, and the membrane attachment domain [].; PDB: 1EF1_B 1SGH_A 1E5W_A 2KC2_A 2KMA_A 3IVF_A 1H4R_B 3U8Z_A 1ISN_A 3BIN_A ....
Probab=75.77 E-value=11 Score=29.38 Aligned_cols=70 Identities=16% Similarity=0.150 Sum_probs=44.6
Q ss_pred EEcCCCc-eEEEecCCCCcHHHHHHHHHhhcCCCCC-CceeeccccccccCCCCcccccccCCCCCCCccccccc--ccc
Q 015194 5 IRSRDGL-ERVTVDGAHVTVAELKTIIQSQLRIPVE-SQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNIS--HGS 80 (411)
Q Consensus 5 vRS~~G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~~-~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLk--HGD 80 (411)
|+-+||+ ..++++ +++|..+|+++|.+++++... .+.|...... .+. ..-.+++++|.+.+-+ +--
T Consensus 1 V~llD~~~~~~~v~-~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~------~~~---~~wL~~~k~l~~q~~~~~~~~ 70 (80)
T PF09379_consen 1 VRLLDGTTKTFEVD-PKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDK------DGE---HHWLDLDKKLKKQLKKNNPPF 70 (80)
T ss_dssp EEESSEEEEEEEEE-TTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBT------TSS---EEEE-SSSBGGGSTBTSSSSE
T ss_pred CCCcCCCcEEEEEc-CCCcHHHHHHHHHHHcCCCCccEEEEEEeecC------CCc---ceeccCcccHHHHcCCCCCCE
Confidence 4567887 789999 699999999999999997643 4777541111 010 1122457778777655 334
Q ss_pred EEEE
Q 015194 81 IVFL 84 (411)
Q Consensus 81 ml~l 84 (411)
.+++
T Consensus 71 ~l~f 74 (80)
T PF09379_consen 71 TLYF 74 (80)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 4444
No 86
>PHA00771 head assembly protein
Probab=74.68 E-value=4.5 Score=35.75 Aligned_cols=76 Identities=21% Similarity=0.245 Sum_probs=48.0
Q ss_pred ceeeeeeeeeeecC--CcEEEEeEeCCCCCCCc------------------CceEEcCCchhHHHHHHHHHhcCCeEEEE
Q 015194 152 VKRGGFMYGTVLED--KRVEVNFIYEPPQQGTE------------------EVLYILRDEEEEKLVDAIAAGLGMKKVGF 211 (411)
Q Consensus 152 ~QR~G~LYG~Y~~~--~~a~VeAIYEPPQ~~~~------------------dg~~l~~d~~~e~~vd~iA~~lGL~~VG~ 211 (411)
-|--|++| |.+= -.+.|||+|-|.-.|.. ..+++.++.. +.=..+.+.+||+|||.
T Consensus 47 ~~yeGivl--~~eV~p~~~ecHa~y~P~fRG~ya~~~r~F~kwlL~Nt~f~~vit~vp~kt--~~G~vic~lig~rRVG~ 122 (151)
T PHA00771 47 GQFGGIVY--YNEIQPLTFDCHAMYLPEIRGFSKEIGLAFWRYILTNTTVQCVTSFAARKF--RHGQMYCAMIGLKRVGT 122 (151)
T ss_pred ceeeeEEE--EEEeeeEEEEEEeeeCccccchhHHHHHHHHHHHhcCCceeEEEEeccccc--ccchhhhhhhCCceeee
Confidence 36678888 5442 26799999999977642 3344444432 34557899999999999
Q ss_pred EEeecccCCCC--ceeecHHHHH
Q 015194 212 IFTQTIMQNKK--DYTLSNREVL 232 (411)
Q Consensus 212 IfTdl~~~~~~--~~fLSs~Eii 232 (411)
|=-.+ ..+.+ =|-++-.|++
T Consensus 123 id~a~-~g~~~vT~Yq~TR~~~~ 144 (151)
T PHA00771 123 IKKYF-KGVDDVTFYSATREELI 144 (151)
T ss_pred HHHHh-cCCCceEEEEcCHHHHH
Confidence 85544 22212 1446666654
No 87
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=73.69 E-value=7.9 Score=30.27 Aligned_cols=61 Identities=16% Similarity=0.310 Sum_probs=43.1
Q ss_pred EEEecCCCCcHHHHHHHHHhhcC---CCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEeecC
Q 015194 13 RVTVDGAHVTVAELKTIIQSQLR---IPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLSYDG 88 (411)
Q Consensus 13 Rv~v~~p~~t~~~L~~kI~~~l~---~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~y~~ 88 (411)
-|+.. ++..+-.+.++-+++.+ .|.+.+.|-.. .| .+.+.++.+.++|+.+|-.|||+.+.
T Consensus 9 ~VEAN-vnaPLh~v~akALe~sgNvgQP~ENWElkDe---------~G-----~vlD~~kKveD~GftngvkLFLsLKA 72 (76)
T PF10790_consen 9 QVEAN-VNAPLHPVRAKALEQSGNVGQPPENWELKDE---------SG-----QVLDVNKKVEDFGFTNGVKLFLSLKA 72 (76)
T ss_pred eeecC-CCCcchHHHHHHHhhccccCCCcccceeecc---------CC-----cEeeccchhhhccccccceEEEEeec
Confidence 35666 57788888888888754 55566665221 11 22356789999999999999999875
No 88
>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family. This uncharacterized protein is found in several Proteobacteria, among them Rhizobium sp. NGR234, Vibrio cholerae, Myxococcus xanthus, and E. coli strain ECOR31. In the latter, it is part of an integrative and conjugative element that is readily induced to excise and circularize.
Probab=73.33 E-value=32 Score=30.52 Aligned_cols=82 Identities=18% Similarity=0.093 Sum_probs=55.3
Q ss_pred cceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCch-hHHHHHHHHHhc-C-CeEEEEEEeecccCCCCceeec
Q 015194 151 AVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEE-EEKLVDAIAAGL-G-MKKVGFIFTQTIMQNKKDYTLS 227 (411)
Q Consensus 151 ~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~-~e~~vd~iA~~l-G-L~~VG~IfTdl~~~~~~~~fLS 227 (411)
..--+|+|.|++. ...++|..+++|+-.+...-..+..+.. .++.+++.-+.- | +..||-==||+.. .-.-|
T Consensus 16 ~~EtGGiLiG~~~-~~~~ii~~~t~P~p~d~~tr~~F~r~~~~~q~~i~~~~~~s~g~~~ylGeWHtHP~~----~p~PS 90 (131)
T TIGR02256 16 STETGGVLIGERR-GAHAVITKISEPGSGDIRTRKRFSRDGEHHQSEVDEHFEVSGGVDTYLGEWHTHPED----QPEPS 90 (131)
T ss_pred CCccceEEEEEEc-CCcEEEEEEEcCCCCcccCceEEEeCcHHHHHHHHHHHHHhCCceEEEEecCcCCCC----CCCCC
Confidence 3456899999998 4488888899988666554444443332 346788777664 4 9999999999943 22456
Q ss_pred HHHHHHHHHH
Q 015194 228 NREVLQAVEF 237 (411)
Q Consensus 228 s~Eii~aa~~ 237 (411)
..+.....++
T Consensus 91 ~~D~~~~~~~ 100 (131)
T TIGR02256 91 WTDRRSWRTI 100 (131)
T ss_pred HHHHHHHHHH
Confidence 6665555444
No 89
>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=72.78 E-value=7.6 Score=31.24 Aligned_cols=59 Identities=15% Similarity=0.177 Sum_probs=41.7
Q ss_pred eEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEE
Q 015194 12 ERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIV 82 (411)
Q Consensus 12 ~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml 82 (411)
+-..|. |.+++..++++|....+.+- .+.||..- |+++ ..+.++..+|+..||-----|
T Consensus 13 l~l~vn-Py~pI~k~K~kI~~~~~~~g-~qrLsfQe-------pgg~---rqlL~s~~sLA~yGiFs~~~i 71 (80)
T cd01811 13 WILRVN-PYSPIRKIKEKIRRSRNCSG-LQRLSFQE-------PGGE---RQLLSSRKSLADYGIFSKTNI 71 (80)
T ss_pred eEEEeC-CcchHHHHHHHHHHhhCccc-ceEEEeec-------CCcc---cccccccccHhhhcceeccEE
Confidence 456678 79999999999999998886 67886432 2222 334467899999997543333
No 90
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=71.31 E-value=3.4 Score=32.30 Aligned_cols=59 Identities=25% Similarity=0.276 Sum_probs=41.8
Q ss_pred eEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEee
Q 015194 12 ERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLSY 86 (411)
Q Consensus 12 ~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~y 86 (411)
-||.|. |++|+++++..|+.+.|.-++...|-+-- .+.....+|++.-++.|--+-|-|
T Consensus 14 VRvKCn-~dDtiGD~KKliaaQtGT~~~kivl~k~~---------------~i~kd~I~L~dyeihdg~~lelyy 72 (73)
T KOG3493|consen 14 VRVKCN-TDDTIGDLKKLIAAQTGTRPEKIVLKKWY---------------TIFKDHITLSDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEeC-CcccccCHHHHHHHhhCCChhHhHHHhhh---------------hhhhcccceeeEEeccCccEEEee
Confidence 599999 69999999999999998877765542111 111235678888787776655544
No 91
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=69.21 E-value=10 Score=29.74 Aligned_cols=44 Identities=16% Similarity=0.363 Sum_probs=35.7
Q ss_pred EEEEEcCCCceE-EEecCCCCcHHHHHHHHHhhcCCCCCCcee-ecc
Q 015194 2 LLRIRSRDGLER-VTVDGAHVTVAELKTIIQSQLRIPVESQTL-STN 46 (411)
Q Consensus 2 ilRvRS~~G~~R-v~v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~ 46 (411)
.+.++=.+++.| +.++ ++.++.+|.++|.+.++.+...+.| |.+
T Consensus 3 ~vK~~~~~~~~~~~~~~-~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D 48 (84)
T PF00564_consen 3 RVKVRYGGDIRRIISLP-SDVSFDDLRSKIREKFGLLDEDFQLKYKD 48 (84)
T ss_dssp EEEEEETTEEEEEEEEC-STSHHHHHHHHHHHHHTTSTSSEEEEEEE
T ss_pred EEEEEECCeeEEEEEcC-CCCCHHHHHHHHHHHhCCCCccEEEEeeC
Confidence 356677788889 9999 5889999999999999988666666 444
No 92
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A.
Probab=68.84 E-value=26 Score=28.55 Aligned_cols=68 Identities=13% Similarity=0.160 Sum_probs=42.3
Q ss_pred ccceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHH-HHHhcCCeEEEEEEeecccCCCCceeecH
Q 015194 150 FAVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDA-IAAGLGMKKVGFIFTQTIMQNKKDYTLSN 228 (411)
Q Consensus 150 ~~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~-iA~~lGL~~VG~IfTdl~~~~~~~~fLSs 228 (411)
...-.||+|.|+.......++..+- .++.+.-+... -+..-|++.||..=||+ ...=+.|+
T Consensus 16 ~p~E~~G~L~g~~~~~~~~~~~~~~--------------~~p~~~~~~~~~~~~~~~~~~vg~~HSHP----~~~a~pS~ 77 (104)
T PF14464_consen 16 YPNEACGLLLGRRDDQRFIVVPNVN--------------PDPRDSFRRERFEARERGLEIVGIWHSHP----SGPAFPSS 77 (104)
T ss_dssp TTS-EEEEEEEEEECCEEEEEEEEE----------------HHCHHHHHH-HHHHHT-EEEEEEEEES----SSSSS--H
T ss_pred CCCeEEEEEEEEecCCEEEEEeCCC--------------CCcHHHHHHHhhhhhcccceeeEEEEcCC----CCCCCCCH
Confidence 4677899999998433344444443 23333334555 78889999999999999 33347888
Q ss_pred HHHHHHH
Q 015194 229 REVLQAV 235 (411)
Q Consensus 229 ~Eii~aa 235 (411)
.+...+.
T Consensus 78 ~D~~~~~ 84 (104)
T PF14464_consen 78 TDIRSMR 84 (104)
T ss_dssp HHHHTHC
T ss_pred HHHHhhh
Confidence 8776543
No 93
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=67.93 E-value=34 Score=29.33 Aligned_cols=63 Identities=25% Similarity=0.312 Sum_probs=39.5
Q ss_pred EEEEcCCCc--eEEEecCCCCcHHHHHHHHHhhcCCCCCC-------ceeeccccccccCCCCcccccccCCCCCCCccc
Q 015194 3 LRIRSRDGL--ERVTVDGAHVTVAELKTIIQSQLRIPVES-------QTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSS 73 (411)
Q Consensus 3 lRvRS~~G~--~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~-------~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~ 73 (411)
||||=.+|. .=..++ |+.|+++|++.|.+.-+-.-.. +.|-. .| . ++..+.||++
T Consensus 5 lkf~l~~G~d~~~~~~~-~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~----------~G----r-iL~d~~tL~~ 68 (111)
T PF13881_consen 5 LKFRLADGKDIGPFRFD-PSTTVADLKERIWAEWPEDWEERPKSPSDLRLIY----------AG----R-ILEDNKTLSD 68 (111)
T ss_dssp EEEEETTS-EEEEEEE--TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEE----------TT----E-EE-SSSBTGG
T ss_pred EEEEEeCCCcccccccC-ccChHHHHHHHHHHHCccccccCCCChhhEEEEe----------CC----e-ecCCcCcHHH
Confidence 789999998 444567 6999999999999977422111 11111 11 2 2346899999
Q ss_pred cccccccE
Q 015194 74 LNISHGSI 81 (411)
Q Consensus 74 lGLkHGDm 81 (411)
+++..|+.
T Consensus 69 ~~~~~~~~ 76 (111)
T PF13881_consen 69 CRLPSGET 76 (111)
T ss_dssp GT--TTSE
T ss_pred hCCCCCCC
Confidence 99999995
No 94
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=67.66 E-value=13 Score=36.48 Aligned_cols=72 Identities=19% Similarity=0.261 Sum_probs=44.8
Q ss_pred CEEEEEcCCCceEEEecCC--CCcHHHHHHHHHhh-cCCCCCC--ceeeccccccccCCCCcccccccCCCCCCCccccc
Q 015194 1 MLLRIRSRDGLERVTVDGA--HVTVAELKTIIQSQ-LRIPVES--QTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLN 75 (411)
Q Consensus 1 MilRvRS~~G~~Rv~v~~p--~~t~~~L~~kI~~~-l~~~~~~--~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lG 75 (411)
|=|-+-|+.+-.|+++.++ ++|+.|+.+++..+ +++.+.. ++|-..| .+ +-+ .++.+|+++|
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~--------kg----kpl-~~~s~l~e~~ 67 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEP--------KG----KPL-IDNSKLQEYG 67 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchhheeeccC--------CC----ccc-cchhHHHHhc
Confidence 4455666777556553212 66999999666554 5555543 3332222 22 222 3467899999
Q ss_pred cccccEEEEe
Q 015194 76 ISHGSIVFLS 85 (411)
Q Consensus 76 LkHGDml~l~ 85 (411)
+..|+.+|+.
T Consensus 68 ~~s~~~i~vK 77 (297)
T KOG1639|consen 68 DGSGATIYVK 77 (297)
T ss_pred cCCCCEEEEe
Confidence 9999999985
No 95
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=66.86 E-value=40 Score=24.43 Aligned_cols=65 Identities=25% Similarity=0.312 Sum_probs=48.9
Q ss_pred cCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEee
Q 015194 7 SRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLSY 86 (411)
Q Consensus 7 S~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~y 86 (411)
....+..+++. +++++..++++|....+++.+.+.+.... ..+ ..+.++.+.+|..+..+.+..
T Consensus 7 ~~gk~~~~~~~-~~~~i~~~k~~i~~~~~~~~~~q~~~~~~--------------~~l-~d~~~l~~~~i~~~~~~~l~~ 70 (75)
T KOG0001|consen 7 LDGKTITLEVS-PSDTIEVVKAKIRDKEGIPVDQQRLIFGG--------------KPL-EDGRTLADYNIQEGSTLHLVL 70 (75)
T ss_pred cCCCEEEEEec-CCCHHHHHHHHHHhhcCCCCeeEEEEECC--------------EEC-cCCCcHHHhCCCCCCEEEEEE
Confidence 44566778999 69999999999999999998877753311 111 234788999999999998764
Q ss_pred c
Q 015194 87 D 87 (411)
Q Consensus 87 ~ 87 (411)
.
T Consensus 71 ~ 71 (75)
T KOG0001|consen 71 S 71 (75)
T ss_pred e
Confidence 4
No 96
>PF12436 USP7_ICP0_bdg: ICP0-binding domain of Ubiquitin-specific protease 7; InterPro: IPR024729 This domain is found in eukaryotes, and is approximately 40 amino acids in length. It is found in proteins of the peptidase C19 family, which contains contains ubiquitinyl hydrolases like ubiquitin-specific protease 7 (USP7). USP7 regulates the turnover of p53 [].; PDB: 2KVR_A 2YLM_A.
Probab=61.79 E-value=5.9 Score=38.55 Aligned_cols=67 Identities=18% Similarity=0.330 Sum_probs=43.1
Q ss_pred CceEEEecCCCCcHHHHHHHHHhhcCCCCCC-ceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEeec
Q 015194 10 GLERVTVDGAHVTVAELKTIIQSQLRIPVES-QTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLSYD 87 (411)
Q Consensus 10 G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~-~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~y~ 87 (411)
|.-.+.|+ .++++++|...|.+.+|.|.+. ..++-. ..|+- -+...++.|+.+..|.|||+|..--.
T Consensus 85 ~iGh~~v~-~~~~v~~l~~~i~~~~g~p~~t~l~lyEE------i~~~~----ie~i~~~~t~~~~el~~GdIi~fQ~~ 152 (249)
T PF12436_consen 85 YIGHVYVP-KNDKVSELVPLINERAGLPPDTPLLLYEE------IKPNM----IEPIDPNQTFEKAELQDGDIICFQRA 152 (249)
T ss_dssp EEEEEEEE-TT-BGGGTHHHHHHHHT--TT--EEEEEE------EETTE----EEE--SSSBHHHTT--TTEEEEEEE-
T ss_pred EEeEEEEC-CCCCHHHHHHHHHHHcCCCCCCceEEEEE------eccce----eeEcCCCCchhhcccCCCCEEEEEec
Confidence 66678899 4999999999999999998874 555532 11211 12225789999999999999998643
No 97
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=59.22 E-value=9.9 Score=39.66 Aligned_cols=102 Identities=18% Similarity=0.207 Sum_probs=59.3
Q ss_pred ccccceEEc-----cccccccCCceeEEEEeeccCCCCCccCCCCCCCCC-------cccHH--HHHHhhccCCCccccc
Q 015194 297 KMKKDVVVG-----GKDVKEVDNDFFLVVVKILDHQGPLSSTFPIENRTT-------QVTMR--ALKSHLNRSPSLPLVK 362 (411)
Q Consensus 297 ~~~~~V~~~-----~k~~~~vd~~~llv~v~~~~h~~p~~~~FPieNR~~-------~q~~~--~l~~~l~~~~~~~~~~ 362 (411)
++.|+|||+ |+++.+....+|-|.- ---.++.+||-+-.+. +-+.. ....|..+. -.-+
T Consensus 428 RyvpdifYr~td~yg~~v~enAkPafPv~f----lLVtLThGfp~kpnplF~s~d~~p~~~~~~~~~~~~~~~---l~k~ 500 (571)
T COG5100 428 RYVPDIFYRYTDTYGEEVMENAKPAFPVEF----LLVTLTHGFPEKPNPLFRSIDFIPKKFGDRKMAEYFGGD---LSKE 500 (571)
T ss_pred ccccceeeeecchhhhhHHhcCCCCCceeE----EEEEeccCCCCCCCcceecccccccchhhhhhhhhhHHH---HHHH
Confidence 456789987 6666666544444331 0012356899543332 11111 111121110 1134
Q ss_pred cccchhHHHHHhhCCCcCccHHHHHHHHHcCCCCchhHHHHHHHhh
Q 015194 363 RISDFHLLLFLARFLDLNSDVPALAQCVQAQTAVPEGYKLLINSMA 408 (411)
Q Consensus 363 ~~sDFHlLl~L~~~~~l~~d~~~L~~~v~~~~~~~~~~~~li~s~~ 408 (411)
++++|.+|.-+...+. .+..|+..+.-+.--++.|+++|.|+-
T Consensus 501 lF~~~t~~~~~~g~~S---Nf~~LL~i~~l~il~~~~~k~~i~s~~ 543 (571)
T COG5100 501 LFSNFTLLTRIQGVFS---NFKDLLKIIVLRILDKFDFKSFISSME 543 (571)
T ss_pred HHhhhhHHHHHHhhhh---hHHHHHHHHHHhhcChhHHHHHHHHHH
Confidence 7889987777776544 578888888888767789999999874
No 98
>KOG1560 consensus Translation initiation factor 3, subunit h (eIF-3h) [Translation, ribosomal structure and biogenesis]
Probab=58.07 E-value=1.1e+02 Score=30.78 Aligned_cols=154 Identities=16% Similarity=0.179 Sum_probs=90.7
Q ss_pred cCCCcceEEEechhhhhHHHHHHHHhhccceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcC-CchhHHHHHHHH
Q 015194 123 ENPHCESVSFDRDCADAFQQYVNETLAFAVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILR-DEEEEKLVDAIA 201 (411)
Q Consensus 123 ~~~~~d~vsf~~~~~~~fq~~~~~~l~~~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~-d~~~e~~vd~iA 201 (411)
..+-|++|..|.-.+-....-.++.+.-+.--.|-|-|-.- ++...|..-++-|++-+.++=.... ..++.+...++|
T Consensus 8 ~~p~vk~v~ldsLvVMkiiKHc~ee~~n~d~~~GvL~Glvv-d~~LeITncFp~p~~~~~edda~~~~~~de~rq~~~l~ 86 (339)
T KOG1560|consen 8 ESPPVKRVELDSLVVMKIIKHCREEFPNGDGTQGVLLGLVV-DGRLEITNCFPFPSVLENEDDAVNKSVSDEARQAYQLA 86 (339)
T ss_pred CCCccceeeehhHHHHHHHHHHHhhcCCcchhhheeeeeee-cceeEeecccCCCccCCCccchhhhhhhHHHHHHHHHH
Confidence 34567888887654333333333322223444588888755 6677888889999965433222111 112223344444
Q ss_pred HhcCC-------eEEEEEEeecccCCCCceeecHHHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccHHH
Q 015194 202 AGLGM-------KKVGFIFTQTIMQNKKDYTLSNREVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSDMC 274 (411)
Q Consensus 202 ~~lGL-------~~VG~IfTdl~~~~~~~~fLSs~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~q~ 274 (411)
-.=-| ..|||--++-. .-|||-.=+-..-.+|...|. -|-.+-. ...-..|...+.||+.+.++
T Consensus 87 mlrrlr~vnid~~hVGwYqs~~v-----gs~lS~~lveSqy~YQ~a~pe--sVvliYD--~~kssqG~L~lrAyrLTp~a 157 (339)
T KOG1560|consen 87 MLRRLRYVNIDHLHVGWYQSAYV-----GSFLSPALVESQYAYQKAIPE--SVVLIYD--PIKSSQGTLSLRAYRLTPEA 157 (339)
T ss_pred HHHHhhhcCccceeeeeeeeehh-----ccccCHHHHHHHHHHHhcCCc--cEEEEec--cccccCceEEeehhhcCHHH
Confidence 33333 45777665442 134564445555667777663 2333322 22335699999999999999
Q ss_pred HHHhhcCccccc
Q 015194 275 VRLFKEGWFETE 286 (411)
Q Consensus 275 ~aLv~~~~i~~s 286 (411)
|++.+++=..|+
T Consensus 158 m~~~kekdwtpe 169 (339)
T KOG1560|consen 158 MAAHKEKDWTPE 169 (339)
T ss_pred HHHHhcCCCCHH
Confidence 999999999885
No 99
>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f. Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and ap
Probab=57.98 E-value=86 Score=30.71 Aligned_cols=107 Identities=17% Similarity=0.234 Sum_probs=62.7
Q ss_pred ceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHh--cCCeEEEEEEeecccCCCCceeecHH
Q 015194 152 VKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAG--LGMKKVGFIFTQTIMQNKKDYTLSNR 229 (411)
Q Consensus 152 ~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~--lGL~~VG~IfTdl~~~~~~~~fLSs~ 229 (411)
..=+|.|.|+..+ ..+.|.--|+=|...+.+.+.+- .+..+..-++-++ -....|||=-|.. ++++.
T Consensus 23 ~~V~G~LLG~~~~-~~veItnsF~~p~~~~~~~~~~d--~~y~~~m~~~~kkv~~~~~vVGWY~tg~--------~~~~~ 91 (265)
T cd08064 23 ERVIGTLLGTRSE-GEVEITNCFAVPHNESEDQVAVD--MEYHRTMYELHQKVNPKEVIVGWYATGS--------EITEH 91 (265)
T ss_pred cEEEEEEEEEEeC-CEEEEEeCeecceeCCCCeEEEc--HHHHHHHHHHHHHhCCCCcEEeeeeCCC--------CCCcc
Confidence 3448999999865 78899888888887776655543 2222233344443 5679999998865 34433
Q ss_pred HHHHHHHHHHhcC--CCceEEEEEEeeecCCCCcceeEEEeeccHHH
Q 015194 230 EVLQAVEFHAECN--MEEWVTAVVKLEVSEEGSAAIHFEAFQMSDMC 274 (411)
Q Consensus 230 Eii~aa~~Q~~~~--~skfvT~vvt~~~~~d~~~~I~~eayQvS~q~ 274 (411)
....--.++...+ .+ |-+++-.+. .++++.+.||..+..+
T Consensus 92 ~~~Ih~~~~~~~~~~~p--I~L~~D~~~---~~~~l~i~ay~~~~~~ 133 (265)
T cd08064 92 SALIHDYYSRECTSYNP--IHLTVDTSL---DDGKMSIKAYVSSPLG 133 (265)
T ss_pred HHHHHHHHHhhCCCCCC--EEEEEeCCC---CCCCcceEEEEEEecc
Confidence 3332233333222 22 333333222 2247889999887754
No 100
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=56.60 E-value=30 Score=35.20 Aligned_cols=73 Identities=16% Similarity=0.259 Sum_probs=55.1
Q ss_pred CEEEEEcCCC-ceEEEecCCCCcHHHHHHHHHhhcC--CCCCCceeeccccccccCCCCcccccccCCCCCCCccccccc
Q 015194 1 MLLRIRSRDG-LERVTVDGAHVTVAELKTIIQSQLR--IPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNIS 77 (411)
Q Consensus 1 MilRvRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~--~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLk 77 (411)
|.|-|++-.| ++.|++. |++||.+++++|...-+ .|...+-|-.+- +.| ....|+++.+++
T Consensus 1 m~lt~KtL~q~~F~iev~-Pe~tV~evK~kIet~~g~dyP~~~QkLIy~G--------------kiL-~D~~tv~Eykv~ 64 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVK-PEDTVVEVKKKIETEKGPDYPAEQQKLIYSG--------------KIL-KDETTVGEYKVK 64 (340)
T ss_pred CeeEeeeccCceeEeecC-cchhHHHHHHHHHhccCCCCchhhheeeecc--------------eec-cCCcchhhhccc
Confidence 7788888775 6899999 79999999999999987 666665553321 222 347899999999
Q ss_pred cccEEEEeecCc
Q 015194 78 HGSIVFLSYDGE 89 (411)
Q Consensus 78 HGDml~l~y~~~ 89 (411)
-++.|=+-....
T Consensus 65 E~~fiVvMlsK~ 76 (340)
T KOG0011|consen 65 EKKFIVVMLSKD 76 (340)
T ss_pred cCceEEEEEecC
Confidence 888887765443
No 101
>KOG1555 consensus 26S proteasome regulatory complex, subunit RPN11 [Posttranslational modification, protein turnover, chaperones]
Probab=54.99 E-value=35 Score=34.61 Aligned_cols=115 Identities=20% Similarity=0.184 Sum_probs=70.1
Q ss_pred eeee-eee----eecCCcEEEEeEeCCCCCCCcCc-eEEcCCchhHHHHHHHHHhcCC--eEEEEEEeecccCCCCceee
Q 015194 155 GGFM-YGT----VLEDKRVEVNFIYEPPQQGTEEV-LYILRDEEEEKLVDAIAAGLGM--KKVGFIFTQTIMQNKKDYTL 226 (411)
Q Consensus 155 ~G~L-YG~----Y~~~~~a~VeAIYEPPQ~~~~dg-~~l~~d~~~e~~vd~iA~~lGL--~~VG~IfTdl~~~~~~~~fL 226 (411)
+|.| -|| +..+. +.|-+.+--||.+..=. +.-..|+-....+-.+++.-|- ..|||==+|+ .=..-+
T Consensus 57 ~Glm~lg~~~~fv~~~T-v~vv~v~am~~sg~~is~~~e~~d~V~q~q~~~~l~~tGrp~~VVGWYHSHP----~f~~wp 131 (316)
T KOG1555|consen 57 MGLMSLGRLPEFVDDYT-VRVVDVFAMPQSGTGISKFVEAVDPVFQTQMMDLLKQTGRPELVVGWYHSHP----GFGCWP 131 (316)
T ss_pred cceeecccccceeeecc-eeeeeeeccccccceecccchhccHHHHHHHHHHHHhcCCcceEEeeccCCC----CCCCCc
Confidence 4666 552 23333 44444888889887322 2112344444456667777774 4999999998 455779
Q ss_pred cHHHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccHHHHHHhhcCcccc
Q 015194 227 SNREVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSDMCVRLFKEGWFET 285 (411)
Q Consensus 227 Ss~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~q~~aLv~~~~i~~ 285 (411)
|+.+|..-+.+|++.+ .=+++||+.-.++ .|.+.+-||+ .+...++.+
T Consensus 132 S~vDi~tQ~syq~~~~--r~~a~~v~~i~S~--~g~vv~d~f~-------~In~~~~~~ 179 (316)
T KOG1555|consen 132 SLVDIDTQQSYQALSS--RAVAVVVDPIQSP--YGKVVPDAFS-------SINPQWISP 179 (316)
T ss_pred cccchhHHHHHhhhcc--CCcceeeecccCC--CCCccCChhh-------hcCcccccC
Confidence 9999999999999964 4345555543333 2444344554 444555554
No 102
>smart00266 CAD Domains present in proteins implicated in post-mortem DNA fragmentation.
Probab=54.92 E-value=34 Score=27.43 Aligned_cols=45 Identities=22% Similarity=0.306 Sum_probs=39.1
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNL 49 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~ 49 (411)
.||++.+-..|.-|- ..++.+|+.|..++|+++..+.+|..+.++
T Consensus 3 ~kV~~~~r~~k~GV~--A~sL~eL~~K~~~~l~l~~~~~~l~L~eDG 47 (74)
T smart00266 3 FKVRDHDRNVRKGVA--ASSLEELLSKVCDKLALPDSPVTLVLEEDG 47 (74)
T ss_pred EEEecCCCCeeEEEE--cCCHHHHHHHHHHHhCCCCCCcEEEEecCC
Confidence 589999999999997 589999999999999999777788776654
No 103
>cd01615 CIDE_N CIDE_N domain, found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins, as well as CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of ICAD/DFF45, and the CAD/DFF40 and CIDE nucleases during apoptosis. The CIDE-N domain is also found in the FSP27/CIDE-C protein.
Probab=54.40 E-value=32 Score=27.84 Aligned_cols=45 Identities=18% Similarity=0.264 Sum_probs=38.9
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNL 49 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~ 49 (411)
.||++.+...|.-|- ..++.+|+.|..++|+++..+.+|..+.++
T Consensus 5 ~kV~~~~r~~k~GV~--A~sL~eL~~K~~~~l~l~~~~~~lvL~eDG 49 (78)
T cd01615 5 FKVCDSDRSRKKGVA--ASSLEELLSKACEKLKLPSAPVTLVLEEDG 49 (78)
T ss_pred EEEecCCCCeeEEEE--cCCHHHHHHHHHHHcCCCCCCeEEEEeCCC
Confidence 589999999999997 589999999999999998777788776654
No 104
>PF00788 RA: Ras association (RalGDS/AF-6) domain; InterPro: IPR000159 Proteins with this domain are mostly RasGTP effectors and include guanine-nucleotide releasing factor in mammals []. This factor stimulates the dissociation of GDP from the Ras-related RALA and RALB GTPases, which allows GTP binding and activation of the GTPases. It interacts and acts as an effector molecule for R-ras, K-Ras and Rap []. The domain is also present in a number of other proteins among them the sexual differentiation protein in yeast that is essential for mating and meiosis and yeast adenylate cyclase. These proteins contain repeated leucine-rich (LRR) segments.; GO: 0007165 signal transduction; PDB: 3EC8_A 2C5L_D 2BYF_A 2CS4_A 3KH0_A 2B3A_A 1RAX_A 2RGF_A 1WGR_A 1WXA_A ....
Probab=53.48 E-value=34 Score=27.01 Aligned_cols=41 Identities=20% Similarity=0.357 Sum_probs=34.1
Q ss_pred EEEEEcCCCc-----eEEEecCCCCcHHHHHHHHHhhcCCCCC--Ccee
Q 015194 2 LLRIRSRDGL-----ERVTVDGAHVTVAELKTIIQSQLRIPVE--SQTL 43 (411)
Q Consensus 2 ilRvRS~~G~-----~Rv~v~~p~~t~~~L~~kI~~~l~~~~~--~~~L 43 (411)
+|||-..+|. .-|.|+ +++|..++++.++++++++.+ .+.|
T Consensus 4 ~lrVy~~~~~~~~~~k~i~v~-~~tTa~evi~~~l~k~~l~~~~~~y~L 51 (93)
T PF00788_consen 4 VLRVYDGDGSPGSTYKTIKVS-SSTTAREVIEMALEKFGLAEDPSDYCL 51 (93)
T ss_dssp EEEEEETTSSSCCSEEEEEEE-TTSBHHHHHHHHHHHTTTSSSGGGEEE
T ss_pred EEEEEcCCCCCCccEEEEEEC-CCCCHHHHHHHHHHHhCCCCCCCCEEE
Confidence 6899999985 668889 699999999999999998433 3666
No 105
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=53.24 E-value=32 Score=27.81 Aligned_cols=45 Identities=20% Similarity=0.288 Sum_probs=38.3
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNL 49 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~ 49 (411)
.||++.+...|.-|- ..++.+|++|..+.|+++..+.+|..+.++
T Consensus 5 ~kv~~~~r~~k~Gv~--A~sL~eL~~K~~~~l~~~~~~~~lvL~eDG 49 (78)
T PF02017_consen 5 FKVRNHDRSVKKGVA--ASSLEELLEKACDKLQLPEEPVRLVLEEDG 49 (78)
T ss_dssp EEEEETTSSCEEEEE--ESSHHHHHHHHHHHHT-SSSTCEEEETTTT
T ss_pred EEEecCCCCceEeEE--cCCHHHHHHHHHHHhCCCCcCcEEEEeCCC
Confidence 589999999999997 589999999999999999888888776544
No 106
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=51.68 E-value=36 Score=27.00 Aligned_cols=42 Identities=19% Similarity=0.327 Sum_probs=33.0
Q ss_pred EEEEEcCC---Cc-eEEEecCCCCcHHHHHHHHHhhcCCCC--CCceee
Q 015194 2 LLRIRSRD---GL-ERVTVDGAHVTVAELKTIIQSQLRIPV--ESQTLS 44 (411)
Q Consensus 2 ilRvRS~~---G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~--~~~~Ls 44 (411)
+|||-..+ |+ ..|.|+ +++|..++++.++++++++. ..+.|+
T Consensus 1 ~ikV~~~~~~~~~~kti~V~-~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ 48 (87)
T cd01768 1 VLRVYPEDPSGGTYKTLRVS-KDTTAQDVIQQLLKKFGLDDDPEDYALV 48 (87)
T ss_pred CEEEeCCcCCCccEEEEEEC-CCCCHHHHHHHHHHHhCCcCCcccEEEE
Confidence 36777666 66 778999 59999999999999999873 346663
No 107
>smart00295 B41 Band 4.1 homologues. Also known as ezrin/radixin/moesin (ERM) protein domains. Present in myosins, ezrin, radixin, moesin, protein tyrosine phosphatases. Plasma membrane-binding domain. These proteins play structural and regulatory roles in the assembly and stabilization of specialized plasmamembrane domains. Some PDZ domain containing proteins bind one or more of this family. Now includes JAKs.
Probab=50.00 E-value=35 Score=30.93 Aligned_cols=42 Identities=26% Similarity=0.297 Sum_probs=35.8
Q ss_pred EEEEEcCCCce-EEEecCCCCcHHHHHHHHHhhcCCCCC-Cceee
Q 015194 2 LLRIRSRDGLE-RVTVDGAHVTVAELKTIIQSQLRIPVE-SQTLS 44 (411)
Q Consensus 2 ilRvRS~~G~~-Rv~v~~p~~t~~~L~~kI~~~l~~~~~-~~~Ls 44 (411)
.+||.-+||+. .|+++ ++.|+.++++.+.+++++... .+.|.
T Consensus 5 ~~~V~l~dg~~~~~~~~-~~~t~~ev~~~v~~~~~l~~~~~F~L~ 48 (207)
T smart00295 5 VLKVYLLDGTTLEFEVD-SSTTAEELLETVCRKLGIRESEYFGLQ 48 (207)
T ss_pred EEEEEecCCCEEEEEEC-CCCCHHHHHHHHHHHhCCCccceeEEE
Confidence 58999999988 89999 699999999999999998542 46664
No 108
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. 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 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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
Probab=49.68 E-value=47 Score=27.47 Aligned_cols=46 Identities=13% Similarity=0.277 Sum_probs=32.9
Q ss_pred EEEEEcCCCceEEEecC----CCCcHHHHHHHHHhhcCCCC-CCcee-eccc
Q 015194 2 LLRIRSRDGLERVTVDG----AHVTVAELKTIIQSQLRIPV-ESQTL-STNQ 47 (411)
Q Consensus 2 ilRvRS~~G~~Rv~v~~----p~~t~~~L~~kI~~~l~~~~-~~~~L-s~~~ 47 (411)
+|.+.=.+-+.|+.++. ++-++.+|.++|.+.|++++ ..+.| |.|-
T Consensus 2 ~vKv~y~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y~De 53 (91)
T cd06398 2 VVKVKYGGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTYTDE 53 (91)
T ss_pred EEEEEeCCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEEECC
Confidence 34444455577888872 25799999999999999987 45666 4443
No 109
>cd06539 CIDE_N_A CIDE_N domain of CIDE-A proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45, and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, the CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=48.60 E-value=45 Score=27.05 Aligned_cols=45 Identities=22% Similarity=0.183 Sum_probs=38.4
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNL 49 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~ 49 (411)
.|||+.+...|.-|- ..++.+|+.|..+.|.++..+.+|-.+-++
T Consensus 5 fkV~~~~r~~k~GV~--A~sL~EL~~K~~~~l~~~~~~~~lvL~eDG 49 (78)
T cd06539 5 FRVSNHDRSSRRGVM--ASSLQELISKTLDALVITSGLVTLVLEEDG 49 (78)
T ss_pred EEEecCCCCceEEEE--ecCHHHHHHHHHHHhCCCCCCcEEEEeCCC
Confidence 689999999999997 589999999999999998777777665544
No 110
>cd01787 GRB7_RA RA (RAS-associated like) domain of Grb7. Grb7_RA The RA (RAS-associated like) domain of Grb7. Grb7 is an adaptor molecule that mediates signal transduction from multiple cell surface receptors to various downstream signaling pathways. Grb7 and its related family members Grb10 and Grb14 share a conserved domain architecture that includes an amino-terminal proline-rich region, a central segment termed the GM region (for Grb and Mig) which includes the RA, PIR, and PH domains, and a carboxyl-terminal SH2 domain. Grb7/10/14 family proteins are phosphorylated on serine/threonine as well as tyrosine residues and are mainly localized to the cytoplasm.
Probab=46.16 E-value=64 Score=26.57 Aligned_cols=47 Identities=21% Similarity=0.340 Sum_probs=37.5
Q ss_pred EEEEEcCCCceE-EEecCCCCcHHHHHHHHHhhcCCCCC-Cceee-ccccc
Q 015194 2 LLRIRSRDGLER-VTVDGAHVTVAELKTIIQSQLRIPVE-SQTLS-TNQNL 49 (411)
Q Consensus 2 ilRvRS~~G~~R-v~v~~p~~t~~~L~~kI~~~l~~~~~-~~~Ls-~~~~~ 49 (411)
++||-+.||+.+ |.|+ ++-|.+++.+.+..+.....+ .++|. ..|..
T Consensus 4 vvkv~~~Dg~sK~l~V~-~~~Ta~dV~~~L~~K~h~~~~~~W~LvE~~P~l 53 (85)
T cd01787 4 VVKVYSEDGASKSLEVD-ERMTARDVCQLLVDKNHCQDDSSWTLVEHLPHL 53 (85)
T ss_pred EEEEEecCCCeeEEEEc-CCCcHHHHHHHHHHHhCCCCCCCeEEEEecchh
Confidence 799999999876 6788 599999999999999875554 58874 34543
No 111
>cd06535 CIDE_N_CAD CIDE_N domain of CAD nuclease. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD(DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and the release of active DFF40/CAD nuclease.
Probab=45.31 E-value=53 Score=26.58 Aligned_cols=45 Identities=20% Similarity=0.231 Sum_probs=38.5
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNL 49 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~ 49 (411)
.||++.+-..|.-|- ..++.+|+.|..+.|.++..+.+|..+.++
T Consensus 5 ~kV~~~~rs~k~GV~--A~sL~eL~~K~~~~l~l~~~~~~l~L~eDG 49 (77)
T cd06535 5 VKIRSLNSAQKYGVA--AKNLKELLRKGCRLLQLPCAGSRLCLYEDG 49 (77)
T ss_pred eEEecCCCCeeEeEE--cCCHHHHHHHHHHHhCCCCCCcEEEEecCC
Confidence 589999999999997 589999999999999998777777666554
No 112
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=42.80 E-value=81 Score=29.03 Aligned_cols=44 Identities=32% Similarity=0.437 Sum_probs=34.6
Q ss_pred EEEEcCCC-----ceEEEecCCCCcHHHHHHHHHhhcCCCCCC-ceeeccc
Q 015194 3 LRIRSRDG-----LERVTVDGAHVTVAELKTIIQSQLRIPVES-QTLSTNQ 47 (411)
Q Consensus 3 lRvRS~~G-----~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~-~~Ls~~~ 47 (411)
|=|.|.+| +.-+.++ +++|+++|+..|.+.++++... ..|+...
T Consensus 3 Vlvss~~g~~lp~tl~~~lp-~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~ 52 (162)
T PF13019_consen 3 VLVSSFDGLTLPPTLSLSLP-STTTVSDLKDRLSERLPIPSSSQLYLTTNS 52 (162)
T ss_pred EEEecCCCCCCCCeEEeeCC-CCCcHHHHHHHHHhhcCCCccceeEEEEeC
Confidence 55788888 6777888 5899999999999999988776 4455443
No 113
>PF08783 DWNN: DWNN domain; InterPro: IPR014891 The ~75-residue DWNN (Domain With No Name) domain is highly conserved through eukaryotic species but is absent in prokaryotes. The DWNN domain is found only at the N terminus of the RBBP6 family of proteins which includes: Mammalian RBBP6, a splicing-associated protein that plays a role in the induction of apoptosis and regulation of the cell cycle. Drosophila melanogaster (Fruit fly) SNAMA (something that sticks like glue), a protein that appears to play a role in apoptosis. All of the identified RBBP6 homologues include the DWNN domain, a CCHC-type zinc finger (see PDOC50158 from PROSITEDOC) and a RING-type zinc finger (see PDOC00449 from PROSITEDOC). The three domain form is found in plants, protozoa, fungi and microsporidia. The RBBP6 homologues in vertebrates, insects and worms are longer and include additional domains. In addition to forming part of the full-length RBBP6 protein, the DWNN domain is also expressed in vertebrates as a small protein containing a DWNN domain and a short C-terminal tail (RBBP6 variant 3). The DWNN domain adopts a fold similar to the ubiquitin one, characterised by two alpha-helices and four beta-sheets ordered as beta-beta-alpha-beta-alpha-beta along the sequence. The similarity of DWNN domain to ubiquitin and the presence of the RING finger suggest that the DWNN domain may act as an ubiquitin-like modifier, possibly playing a role in the regulation of the splicing machinery [, ]. ; GO: 0008270 zinc ion binding, 0005634 nucleus; PDB: 2C7H_A.
Probab=41.96 E-value=41 Score=26.90 Aligned_cols=34 Identities=24% Similarity=0.496 Sum_probs=27.4
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCC
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRI 36 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~ 36 (411)
-||+|.....+|+.+.+.-++++|+..|.++-++
T Consensus 3 YKFkS~k~~~~i~fdG~~Isv~dLKr~I~~~~~l 36 (74)
T PF08783_consen 3 YKFKSQKDYDTITFDGTSISVFDLKREIIEKKKL 36 (74)
T ss_dssp EEETT-SSEEEEEESSSEEEHHHHHHHHHHHHT-
T ss_pred EEecccCCccEEEECCCeeEHHHHHHHHHHHhCC
Confidence 4899999999999996455999999999777554
No 114
>TIGR02958 sec_mycoba_snm4 secretion protein snm4. Members of this family are the 12-transmembrane domain protein snm4, where snm stands for secretion in mycocbacteria. This system acts on Mycobacterium tuberculosis related pair of virulence factors ESAT-6 and CFP-10 and on other homologs. The system is conserved in many Actinobacteria, including the non-pathogenic Mycobacterium smegmatis.
Probab=41.55 E-value=1e+02 Score=32.86 Aligned_cols=66 Identities=23% Similarity=0.238 Sum_probs=44.1
Q ss_pred CCceEEEecCC-CCcHHHHHHHHHhhcCCCC------CCceeeccccccccCCCCcccccccCCCCCCCccccccccccE
Q 015194 9 DGLERVTVDGA-HVTVAELKTIIQSQLRIPV------ESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSI 81 (411)
Q Consensus 9 ~G~~Rv~v~~p-~~t~~~L~~kI~~~l~~~~------~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDm 81 (411)
-+..|+++--| +..+.+|+..|...++-.. ..+.|.+ +.+ . -.++++||.+.|+..||.
T Consensus 9 ~~~~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r---------~gG----~-pL~~~~sL~~~gV~DG~~ 74 (452)
T TIGR02958 9 AGRRAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALAR---------AGG----S-PLDPDASLAEAGVRDGEL 74 (452)
T ss_pred eCCeeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEec---------CCC----C-CCCCCCCHHHcCCCCCCe
Confidence 34456665323 6699999999999986421 1233322 111 1 135789999999999999
Q ss_pred EEEeecC
Q 015194 82 VFLSYDG 88 (411)
Q Consensus 82 l~l~y~~ 88 (411)
|+|....
T Consensus 75 L~L~p~~ 81 (452)
T TIGR02958 75 LVLVPAS 81 (452)
T ss_pred EEEeeCC
Confidence 9998643
No 115
>PF05020 zf-NPL4: NPL4 family, putative zinc binding region; InterPro: IPR007716 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation after ubiquitination of target proteins but before their recognition by the 26S proteasome []. This region of the protein contains possibly two zinc binding motifs. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing.
Probab=40.14 E-value=14 Score=33.47 Aligned_cols=24 Identities=25% Similarity=0.524 Sum_probs=19.0
Q ss_pred cccchhHHHHhhc-cccCcc-CCCcc
Q 015194 105 RKMTMDDLIAKQM-RVTRQE-NPHCE 128 (411)
Q Consensus 105 k~~~~dd~~~k~~-~i~rq~-~~~~d 128 (411)
++.++|++|+|+. +|+|++ ..+|.
T Consensus 3 ~e~~vD~~l~k~dG~I~R~rd~~lC~ 28 (147)
T PF05020_consen 3 KEDPVDDELEKQDGKIPRKRDSKLCR 28 (147)
T ss_pred cchHHHHHHHHccCccccccchhhhc
Confidence 5778999999986 899998 33444
No 116
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=38.97 E-value=86 Score=25.67 Aligned_cols=63 Identities=16% Similarity=0.334 Sum_probs=41.5
Q ss_pred eEEEecCCCCcHHHHHHHHHhhcCCCCCC-ceeeccccccccCCCCcccccccCCCCCCCccccc--cccccEEEEeecC
Q 015194 12 ERVTVDGAHVTVAELKTIIQSQLRIPVES-QTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLN--ISHGSIVFLSYDG 88 (411)
Q Consensus 12 ~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~-~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lG--LkHGDml~l~y~~ 88 (411)
.+.-|+ ++.|++++..-|.++++++++. .-|+.+... -| .++.++++|= -+-...||++|..
T Consensus 18 ~kflv~-~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f----~p----------~~d~~~g~LY~~~~~dGfLyi~Ys~ 82 (87)
T cd01612 18 KVFKIS-ATQSFQAVIDFLRKRLKLKASDSLFLYINNSF----AP----------SPDENVGNLYRCFGTNGELIVSYCK 82 (87)
T ss_pred cEEEeC-CCCCHHHHHHHHHHHhCCCccCeEEEEECCcc----CC----------CchhHHHHHHHhcCCCCEEEEEEeC
Confidence 456788 5899999999999999987653 334443221 02 2345556552 2345799999986
Q ss_pred c
Q 015194 89 E 89 (411)
Q Consensus 89 ~ 89 (411)
+
T Consensus 83 ~ 83 (87)
T cd01612 83 T 83 (87)
T ss_pred c
Confidence 5
No 117
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme. This family contains only archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=38.79 E-value=1.2e+02 Score=25.93 Aligned_cols=77 Identities=14% Similarity=0.089 Sum_probs=46.5
Q ss_pred ceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeecHHHH
Q 015194 152 VKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSNREV 231 (411)
Q Consensus 152 ~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs~Ei 231 (411)
.--||+|-|+.. +|..+|..|-....+-..... .+ +..-|++.||..=||+ ..+-.-|..++
T Consensus 19 ~E~CGlL~G~~~-----~v~~~~~~~n~~~~~~~~~f~-------~~--~~~~g~~ivgi~HSHP----~~~~~PS~~D~ 80 (117)
T cd08072 19 NEFAALLRGKDG-----VITELLILPGTESGEVSAVFP-------LL--MLPLDMSIVGSVHSHP----SGSPRPSDADL 80 (117)
T ss_pred ceEEEEEEeecc-----EEEEEEECCCCCCCCcceeec-------hH--HhcCCCeEEEEEEcCC----CCCCCCCHHHH
Confidence 356999999753 677778766333222111110 11 3356999999999999 45556688886
Q ss_pred HHHHHHHHhcCCCceEEEEEEe
Q 015194 232 LQAVEFHAECNMEEWVTAVVKL 253 (411)
Q Consensus 232 i~aa~~Q~~~~~skfvT~vvt~ 253 (411)
.+|. .+ ..+-++++.
T Consensus 81 ~~~~-----~~--~~~~lIvs~ 95 (117)
T cd08072 81 SFFS-----KT--GLVHIIVGY 95 (117)
T ss_pred Hhhh-----cC--CCEEEEEEC
Confidence 5442 22 345566664
No 118
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=38.42 E-value=81 Score=25.71 Aligned_cols=42 Identities=10% Similarity=0.232 Sum_probs=32.9
Q ss_pred EEEEcCCCceEEEecCC--CCcHHHHHHHHHhhcCCCCCCcee-eccc
Q 015194 3 LRIRSRDGLERVTVDGA--HVTVAELKTIIQSQLRIPVESQTL-STNQ 47 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p--~~t~~~L~~kI~~~l~~~~~~~~L-s~~~ 47 (411)
|++.=..-+.|+.++ | +.++.+|.+.|+..++++ +++| |.|-
T Consensus 3 vKaty~~d~~rf~~~-~~~~~~~~~L~~ev~~rf~l~--~f~lKYlDd 47 (81)
T cd06396 3 LKVTYNGESQSFLVS-DSENTTWASVEAMVKVSFGLN--DIQIKYVDE 47 (81)
T ss_pred EEEEECCeEEEEEec-CCCCCCHHHHHHHHHHHhCCC--cceeEEEcC
Confidence 444556678899998 7 559999999999999998 6777 5553
No 119
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]
Probab=38.05 E-value=1.2e+02 Score=26.12 Aligned_cols=33 Identities=18% Similarity=0.085 Sum_probs=28.9
Q ss_pred HHHHHHHhcCCeEEEEEEeecccCCCCceeecHHHHH
Q 015194 196 LVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSNREVL 232 (411)
Q Consensus 196 ~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs~Eii 232 (411)
.....|+.-|+..|||.=||+ ...-.+|..++.
T Consensus 59 ~~~~~~~~~g~~vvg~yHSHP----~~~~~pS~~D~~ 91 (134)
T COG1310 59 LFYLAAEDAGEVVVGWYHSHP----GGPPYPSEADRR 91 (134)
T ss_pred HHHHHHhhCCCEEEEEEcCCC----CCCCCcCHHHHh
Confidence 477788889999999999999 667889999988
No 120
>cd06536 CIDE_N_ICAD CIDE_N domain of ICAD. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CAD nuclease (caspase-activated DNase/DNA fragmentation factor, DFF40) and its inhibitor, ICAD (DFF45). These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40 and ICAD/DFF45 during apoptosis. In normal cells, DFF exists in the nucleus as a heterodimer composed of CAD/DFF40 as a latent nuclease and its chaperone and inhibitor subunit ICAD/DFF45. Apoptotic activation of caspase-3 results in the cleavage of DFF45/ICAD and release of active DFF40/CAD nuclease.
Probab=37.48 E-value=88 Score=25.47 Aligned_cols=45 Identities=13% Similarity=0.059 Sum_probs=37.6
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCC--Cceeeccccc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVE--SQTLSTNQNL 49 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~--~~~Ls~~~~~ 49 (411)
.||++-+...|.-|- ..++.+|+.|..++|.++.. +.+|..+.++
T Consensus 5 fkV~~~~r~~k~GV~--A~sL~eL~~K~~~~l~l~~~~~~~~lvL~eDG 51 (80)
T cd06536 5 CVVCNVSRQKQHGVA--ASSLEELRIKACESLGFDSSSAPITLVLAEDG 51 (80)
T ss_pred eEEecCCCCeeEeEE--cCCHHHHHHHHHHHhCCCCCCCceEEEEecCC
Confidence 589999999999997 58999999999999999844 4677666554
No 121
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 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 Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=37.44 E-value=54 Score=27.07 Aligned_cols=63 Identities=19% Similarity=0.373 Sum_probs=40.6
Q ss_pred eEEEecCCCCcHHHHHHHHHhhcCCCC-CCceeeccccccccCCCCcccccccCCCCCCCcccc--ccccccEEEEeecC
Q 015194 12 ERVTVDGAHVTVAELKTIIQSQLRIPV-ESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSL--NISHGSIVFLSYDG 88 (411)
Q Consensus 12 ~Rv~v~~p~~t~~~L~~kI~~~l~~~~-~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~l--GLkHGDml~l~y~~ 88 (411)
....++ ++.||+.+.+-+.++|++.. ++.-+|-+... + .+++.++++| ..+.|+.|-++|..
T Consensus 18 ~k~kI~-~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sF------------a--PspDe~vg~L~~~f~~~~~Liv~Ys~ 82 (87)
T PF04110_consen 18 KKFKIS-ASQTFATVIAFLRKKLKLKPSDSLFLYINNSF------------A--PSPDETVGDLYRCFGTNGELIVSYSK 82 (87)
T ss_dssp -EEEEE-TTSBTHHHHHHHHHHCT----SS-EEEEEEEE-----------------TTSBHHHHHHHH-BTTBEEEEEES
T ss_pred cEEEEC-CCCchHHHHHHHHHHhCCccCCeEEEEEcCcc------------C--CCchhHHHHHHHHhCCCCEEEEEEec
Confidence 567888 59999999999999999744 34445665433 1 1356777777 24566677799986
Q ss_pred c
Q 015194 89 E 89 (411)
Q Consensus 89 ~ 89 (411)
.
T Consensus 83 t 83 (87)
T PF04110_consen 83 T 83 (87)
T ss_dssp S
T ss_pred c
Confidence 4
No 122
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction 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 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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 mo
Probab=36.76 E-value=54 Score=26.58 Aligned_cols=35 Identities=14% Similarity=0.186 Sum_probs=29.3
Q ss_pred ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeecc
Q 015194 11 LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTN 46 (411)
Q Consensus 11 ~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~ 46 (411)
|.=|.++ +..+.++|.+.|.++|+.+++...||..
T Consensus 8 TVai~v~-~g~~y~~L~~~ls~kL~l~~~~~~LSY~ 42 (78)
T cd06411 8 TVALRAP-RGADVSSLRALLSQALPQQAQRGQLSYR 42 (78)
T ss_pred EEEEEcc-CCCCHHHHHHHHHHHhcCChhhcEEEec
Confidence 3446677 5899999999999999999998888544
No 123
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 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-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=35.99 E-value=69 Score=25.63 Aligned_cols=58 Identities=17% Similarity=0.367 Sum_probs=40.4
Q ss_pred eEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEE
Q 015194 12 ERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFL 84 (411)
Q Consensus 12 ~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l 84 (411)
+.+.|+ .++.|.-++.-.+++|.+|.....+-++-+ .. .++.+|-++.=||||.-|-|
T Consensus 18 kv~sVP-E~apftaVlkfaAeeF~vp~~tsaiItndG-------------~G-InP~QTag~vflKhGseLrl 75 (76)
T PF03671_consen 18 KVISVP-EEAPFTAVLKFAAEEFKVPPATSAIITNDG-------------VG-INPQQTAGNVFLKHGSELRL 75 (76)
T ss_dssp EEEEEE-TTSBHHHHHHHHHHHTTS-SSSEEEEESSS--------------E-E-TTSBHHHHHHHT-SEEEE
T ss_pred eEEecC-CCCchHHHHHHHHHHcCCCCceEEEEecCC-------------cc-cccchhhhhhHhhcCcEeee
Confidence 346788 488899999999999999987656544332 11 25678888888999987754
No 124
>PF14778 ODR4-like: Olfactory receptor 4-like
Probab=35.35 E-value=72 Score=32.83 Aligned_cols=60 Identities=18% Similarity=0.291 Sum_probs=43.1
Q ss_pred eeeeeee-ecCCcEEEEeEeCCCCCCCcC------ce----EEcCCchhHHHHHHHHHhc--CCeEEEEEEeec
Q 015194 156 GFMYGTV-LEDKRVEVNFIYEPPQQGTEE------VL----YILRDEEEEKLVDAIAAGL--GMKKVGFIFTQT 216 (411)
Q Consensus 156 G~LYG~Y-~~~~~a~VeAIYEPPQ~~~~d------g~----~l~~d~~~e~~vd~iA~~l--GL~~VG~IfTdl 216 (411)
|+|.|.. ......||+++=-||..+..+ +. .+-++|-. +.+.++.++| ||..||.-....
T Consensus 1 GLlIGq~~s~~kd~Vv~l~~tP~~d~~~~~~~~~~~~~~~~~id~~WVa-eHA~qVsRMLPGGi~VlGifvv~~ 73 (362)
T PF14778_consen 1 GLLIGQSSSSQKDYVVHLARTPPEDTDDEESDVRTSDSSIKDIDEEWVA-EHARQVSRMLPGGISVLGIFVVAP 73 (362)
T ss_pred CeEeccccCCCcceEEEecCCCCccccccccccccccccccccCHHHHH-HHHHHHHhhCCCCcEEEEEEEEcC
Confidence 8999999 444568999999999987766 11 12334444 4777788886 899999766443
No 125
>KOG1554 consensus COP9 signalosome, subunit CSN5 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=34.85 E-value=1.6e+02 Score=29.72 Aligned_cols=110 Identities=20% Similarity=0.234 Sum_probs=66.6
Q ss_pred ceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchh-HHHHHHHHHhcC--CeEEEEEEeecccCCCCceeecH
Q 015194 152 VKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEE-EKLVDAIAAGLG--MKKVGFIFTQTIMQNKKDYTLSN 228 (411)
Q Consensus 152 ~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~-e~~vd~iA~~lG--L~~VG~IfTdl~~~~~~~~fLSs 228 (411)
.-=+|+|-|+.+.+.-++..+ +--|=+|+.--+.-..+.-+ --.--+.|+.-| ...|||--+|+ -=.+.||.
T Consensus 75 lEiMGlm~Gkv~g~t~IvmD~-FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k~~gr~envVGWyHSHP----gYgCWLSg 149 (347)
T KOG1554|consen 75 LEIMGLMQGKVDGDTIIVMDS-FALPVEGTETRVNAQAEAYEYMVQYIEEAKNVGRLENVVGWYHSHP----GYGCWLSG 149 (347)
T ss_pred eEEEeeecccccCCeEEEEec-cccccccccceechHHHHHHHHHHHHHHHHHhhhhhceeeeeecCC----CCCccccC
Confidence 567899999987766555554 45566676544432221110 011123455556 56899999999 66799999
Q ss_pred HHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEee
Q 015194 229 REVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQ 269 (411)
Q Consensus 229 ~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQ 269 (411)
.+|.+----| +| ..-||.+||-++-+- +.|-+.+-||-
T Consensus 150 IDVsTQ~lNQ-~f-QePfvAvViDP~Rtl-sagkv~iGAFR 187 (347)
T KOG1554|consen 150 IDVSTQMLNQ-RF-QEPFVAVVIDPTRTL-SAGKVNIGAFR 187 (347)
T ss_pred cchhHHHHhh-hh-cCCeEEEEecCcccc-ccCceeeceee
Confidence 9987543322 22 246888888654432 33666666654
No 126
>PF09263 PEX-2N: Peroxisome biogenesis factor 1, N-terminal ; InterPro: IPR015343 This domain adopts a Cdc48 domain 2-like fold, with a beta-alpha-beta(3) arrangement. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation []. ; PDB: 1WLF_A.
Probab=33.79 E-value=23 Score=29.05 Aligned_cols=15 Identities=40% Similarity=0.581 Sum_probs=10.0
Q ss_pred cccccccccEEEEee
Q 015194 72 SSLNISHGSIVFLSY 86 (411)
Q Consensus 72 ~~lGLkHGDml~l~y 86 (411)
..|||+||+.+||..
T Consensus 70 eKLGl~dGeQvfLrp 84 (87)
T PF09263_consen 70 EKLGLSDGEQVFLRP 84 (87)
T ss_dssp HHTT--TT-EEEEEE
T ss_pred HhhCCCcCCeEeeee
Confidence 378999999999974
No 127
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=33.12 E-value=82 Score=27.06 Aligned_cols=64 Identities=20% Similarity=0.375 Sum_probs=43.2
Q ss_pred ceEEEecCCCCcHHHHHHHHHhhcCCCCCC-ceeeccccccccCCCCcccccccCCCCCCCcccccccccc---EEEEee
Q 015194 11 LERVTVDGAHVTVAELKTIIQSQLRIPVES-QTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS---IVFLSY 86 (411)
Q Consensus 11 ~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~-~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD---ml~l~y 86 (411)
..+.-|+ .+.|++++...|.+++++++.. +-|+.+.. +.+++.++++|-=+|+| .||+.|
T Consensus 42 k~KflVp-~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~---------------~p~~~~~~~~lY~~~kd~DGfLyl~Y 105 (112)
T cd01611 42 KKKYLVP-SDLTVGQFVYIIRKRIQLRPEKALFLFVNNS---------------LPPTSATMSQLYEEHKDEDGFLYMTY 105 (112)
T ss_pred CceEEec-CCCCHHHHHHHHHHHhCCCccceEEEEECCc---------------cCCchhHHHHHHHHhCCCCCEEEEEE
Confidence 3566788 5999999999999999877653 33333221 12345677776444443 999999
Q ss_pred cCcc
Q 015194 87 DGER 90 (411)
Q Consensus 87 ~~~~ 90 (411)
..+.
T Consensus 106 s~~~ 109 (112)
T cd01611 106 SSEE 109 (112)
T ss_pred eccc
Confidence 8753
No 128
>cd08063 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6. CSN6 (COP9 signalosome subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one of the eight subunits of COP9 signalosome, a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. CSN6 is an MPN-domain protein that directly interacts with the MPN+-domain subunit CSN5. It is cleaved during apoptosis by activated caspases. CSN6 processing occurs in CSN/CRL (cullin-RING Ub ligase) complexes and is followed by the cleavage of Rbx1, the direct interaction partner of CSN6. CSN6 cleavage enhances CSN-mediated deneddylating activity (i.e. cleavage of ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. The cleav
Probab=33.03 E-value=1.2e+02 Score=30.06 Aligned_cols=63 Identities=17% Similarity=0.227 Sum_probs=39.8
Q ss_pred eeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHh-cCCeEEEEEEeec
Q 015194 153 KRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAG-LGMKKVGFIFTQT 216 (411)
Q Consensus 153 QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~-lGL~~VG~IfTdl 216 (411)
.=+|-|.|+ .....+.|..-||=|...+.+|...++..-.+++.+...+- -.+..|||=-|-.
T Consensus 30 ~v~G~LLG~-~~~~~veItnsF~~p~~~~~~~~~~id~~y~~~m~~~~kkV~~~~~vVGWY~tg~ 93 (288)
T cd08063 30 RVVGALLGQ-QDGREIEIENSFELKYDTNEDGEIVLDKEFLETRLEQFKQVFKDLDFVGWYTTGP 93 (288)
T ss_pred cEEEEEEEE-EcCCEEEEEEEEecccccCCCCceeeCHHHHHHHHHHHHHhccCCceEEEEecCC
Confidence 349999997 45667999888888876554333223221122344444332 4589999998866
No 129
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=32.97 E-value=81 Score=31.45 Aligned_cols=71 Identities=21% Similarity=0.332 Sum_probs=54.2
Q ss_pred EEEEcCCC-ceEEEecCCCCcHHHHHHHHHhhcCCCCCCceee-ccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 3 LRIRSRDG-LERVTVDGAHVTVAELKTIIQSQLRIPVESQTLS-TNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 3 lRvRS~~G-~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls-~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|-||-+|| |.+.|.. +.+|+..|-.+|.-+.+...+++++. +-|..+ |++ .+-.++|..|||-.-.
T Consensus 213 lQiRl~DG~Tl~~tF~-a~E~L~~VR~wVd~n~~~~~~P~~f~t~fPR~t----------f~e-dD~~KpLq~L~L~Psa 280 (290)
T KOG2689|consen 213 LQIRLPDGQTLTQTFN-ARETLAAVRLWVDLNRGDGLDPYSFHTGFPRVT----------FTE-DDELKPLQELDLVPSA 280 (290)
T ss_pred EEEEcCCCCeeeeecC-chhhHHHHHHHHHHhccCCCCCeeeecCCCcee----------ccc-ccccccHHHhccccch
Confidence 67889998 5788999 69999999999999998888888884 446542 222 1346899999997766
Q ss_pred EEEEe
Q 015194 81 IVFLS 85 (411)
Q Consensus 81 ml~l~ 85 (411)
.|.+.
T Consensus 281 ~lil~ 285 (290)
T KOG2689|consen 281 VLILE 285 (290)
T ss_pred heecc
Confidence 66654
No 130
>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8. This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural.
Probab=32.80 E-value=3.9e+02 Score=26.57 Aligned_cols=109 Identities=16% Similarity=0.175 Sum_probs=60.8
Q ss_pred cceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEE-cCCchh-HHHHHHHHHh-cCCeEEEEEEeecccCCCCceeec
Q 015194 151 AVKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYI-LRDEEE-EKLVDAIAAG-LGMKKVGFIFTQTIMQNKKDYTLS 227 (411)
Q Consensus 151 ~~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l-~~d~~~-e~~vd~iA~~-lGL~~VG~IfTdl~~~~~~~~fLS 227 (411)
...=+|-|.|+... ..+.|.--|+=|...+.++... .-|.+. ++..+...+- -....|||--|.+. ++
T Consensus 25 ~~~ViG~LLG~~~~-~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~~~e~vVGWY~tg~~--------~~ 95 (280)
T cd08062 25 SKRVVGVLLGSWKK-GVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVNAKEKIVGWYSTGPK--------LR 95 (280)
T ss_pred CceEEEEEEEEEeC-CEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhCCCCCeEEEecCCCC--------CC
Confidence 34578999999754 6888888888888766665421 112222 2233333222 44899999999873 22
Q ss_pred HHHHHHHHHHHHhcCCCceEEEEEEeeecCCCCcceeEEEeeccHH
Q 015194 228 NREVLQAVEFHAECNMEEWVTAVVKLEVSEEGSAAIHFEAFQMSDM 273 (411)
Q Consensus 228 s~Eii~aa~~Q~~~~~skfvT~vvt~~~~~d~~~~I~~eayQvS~q 273 (411)
+-.+..=-.++...+ ..|-++|-... .++.+-+.||.....
T Consensus 96 ~~d~~ih~~~~~~~~--~pv~l~vd~~~---~~~~lpi~aY~s~~~ 136 (280)
T cd08062 96 PNDLDINELFRRYCP--NPVLVIIDVRP---KDLGLPTEAYIAVEE 136 (280)
T ss_pred cchHHHHHHHHHhCC--CCEEEEEecCC---CCCCCceEEEEEeee
Confidence 222222233332223 23444444322 245677899977653
No 131
>smart00314 RA Ras association (RalGDS/AF-6) domain. RasGTP effectors (in cases of AF6, canoe and RalGDS); putative RasGTP effectors in other cases. Kalhammer et al. have shown that not all RA domains bind RasGTP. Predicted structure similar to that determined, and that of the RasGTP-binding domain of Raf kinase. Predicted RA domains in PLC210 and nore1 found to bind RasGTP. Included outliers (Grb7, Grb14, adenylyl cyclases etc.)
Probab=32.17 E-value=1.2e+02 Score=24.19 Aligned_cols=42 Identities=17% Similarity=0.326 Sum_probs=32.7
Q ss_pred EEEEEcCC---Cc-eEEEecCCCCcHHHHHHHHHhhcCCCCC--Cceee
Q 015194 2 LLRIRSRD---GL-ERVTVDGAHVTVAELKTIIQSQLRIPVE--SQTLS 44 (411)
Q Consensus 2 ilRvRS~~---G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~~--~~~Ls 44 (411)
+|||-.-+ |+ .-|.|. +++|..++++.++++++++.+ .+.|+
T Consensus 4 ~lrV~~~~~~~~~~kti~v~-~~tTa~~Vi~~~l~k~~l~~~~~~y~L~ 51 (90)
T smart00314 4 VLRVYVDDLPGGTYKTLRVS-SRTTARDVIQQLLEKFHLTDDPEEYVLV 51 (90)
T ss_pred EEEEecccCCCCcEEEEEEC-CCCCHHHHHHHHHHHhCCCCCcccEEEE
Confidence 56776655 66 568888 599999999999999998754 46663
No 132
>cd01775 CYR1_RA Ubiquitin domain of CYR1 adenylate cyclase. CYR1 is a fungal adenylate cyclase with at least four domains, an N-terminal RA (Ras association) domain, a middle leucine-rich repeat domain, a catalytic domain. The N-terminal RA domain of CYR1 post-translationally modifies a small GTPase called Ras. The Ras-CYR1 pathway has been implicated in the transduction of a glucose-triggered signal to an intracellular environment where a protein phosphorylation cascade is initiated by cyclic AMP.
Probab=32.14 E-value=1e+02 Score=25.97 Aligned_cols=42 Identities=24% Similarity=0.373 Sum_probs=33.9
Q ss_pred EEEEEcCCCc-eEEEecCCCCcHHHHHHHHHhhcCCCCC-Cceee
Q 015194 2 LLRIRSRDGL-ERVTVDGAHVTVAELKTIIQSQLRIPVE-SQTLS 44 (411)
Q Consensus 2 ilRvRS~~G~-~Rv~v~~p~~t~~~L~~kI~~~l~~~~~-~~~Ls 44 (411)
.|||-=.||| ..+.|+ .++|+++|+..+.+++-++.. +..|+
T Consensus 4 ~IRIFr~D~Tf~Tls~~-l~tTv~eli~~L~rK~~l~~~~ny~l~ 47 (97)
T cd01775 4 CIRVFRSDGTFTTLSCP-LNTTVSELIPQLAKKFYLPSGGNYQLS 47 (97)
T ss_pred EEEEEecCCcEEEEEcC-CcCcHHHHHHHHHHhhcCCCCCCeEEE
Confidence 5899889999 567888 699999999999999877663 44443
No 133
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=30.96 E-value=91 Score=32.48 Aligned_cols=65 Identities=14% Similarity=0.134 Sum_probs=47.6
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCC-CCcee-eccccccccCCCCcccccccCCCCCCCcccccccccc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPV-ESQTL-STNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGS 80 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~-~~~~L-s~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGD 80 (411)
|+||..||+--|.-=.-+-|+.++..-|...-+-.. ..|.| +.-|.+ .+.+.++||.+-||.+--
T Consensus 308 IQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk-------------~l~D~sqTle~AgL~Nsv 374 (380)
T KOG2086|consen 308 IQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPK-------------PLSDDSQTLEEAGLLNSV 374 (380)
T ss_pred EEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCc-------------ccCCcchhHHhccchhhh
Confidence 899999998877653237799999999998875333 35777 555642 234568999999998743
No 134
>cd06538 CIDE_N_FSP27 CIDE_N domain of FSP27 proteins. The CIDE-N (cell death-inducing DFF45-like effector, N-terminal) domain is found in the FSP27/CIDE-C protein, which has been identified as a n adipocyte lipid droplet protein that negatively regulates lipolysis and promotes triglyceride accumulation. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. The CIDE-N domain of FSP27 is sufficient to increase apoptosis in vitro when overexpressed.
Probab=30.06 E-value=1.4e+02 Score=24.31 Aligned_cols=44 Identities=14% Similarity=0.171 Sum_probs=36.5
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNL 49 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~ 49 (411)
.||++.+...|.-|- ..++.+|+.|..+.|+++. ..+|..+.++
T Consensus 5 ~kV~~~~rs~k~GV~--A~sL~eL~~K~~~~l~l~~-~~~lvL~eDG 48 (79)
T cd06538 5 FRVSNADRSLRKGIM--ADSLEDLLNKVLDALLLDC-ISSLVLDEDG 48 (79)
T ss_pred EEEecCCCceeEeEE--cCCHHHHHHHHHHHcCCCC-ccEEEEecCC
Confidence 589999999999997 5899999999999999964 4667666544
No 135
>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic. This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=29.01 E-value=2.3e+02 Score=23.03 Aligned_cols=68 Identities=19% Similarity=0.198 Sum_probs=47.4
Q ss_pred ceeeeeeeeeeecCCcEEEEeEeCCCCCCCcCceEEcCCchhHHHHHHHHHhcCCeEEEEEEeecccCCCCceeecHHHH
Q 015194 152 VKRGGFMYGTVLEDKRVEVNFIYEPPQQGTEEVLYILRDEEEEKLVDAIAAGLGMKKVGFIFTQTIMQNKKDYTLSNREV 231 (411)
Q Consensus 152 ~QR~G~LYG~Y~~~~~a~VeAIYEPPQ~~~~dg~~l~~d~~~e~~vd~iA~~lGL~~VG~IfTdl~~~~~~~~fLSs~Ei 231 (411)
.-.||+|+|+-. -.|..+++-|... +. .++. ..+-|...|.+.||..=+|+ ...-.-|..++
T Consensus 16 ~E~~gll~~~~~----~~~~~~~~~~~~~----~~--~~~~----~~~~a~~~~~~~v~i~HsHP----~g~~~PS~~D~ 77 (101)
T cd08059 16 DEFCGFLSGSKD----NVMDELIFLPFVS----GS--VSAV----IDLAALEIGMKVVGLVHSHP----SGSCRPSEADL 77 (101)
T ss_pred hhhheeeecCCC----CeEEEEEeCCCcC----Cc--cChH----HHHHHhhCCCcEEEEEecCc----CCCCCCCHHHH
Confidence 457999999722 2566777776432 11 1211 17889999999999999999 55566788888
Q ss_pred HHHHHH
Q 015194 232 LQAVEF 237 (411)
Q Consensus 232 i~aa~~ 237 (411)
.++.+.
T Consensus 78 ~~~~~~ 83 (101)
T cd08059 78 SLFTRF 83 (101)
T ss_pred HHHHhc
Confidence 877655
No 136
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=28.53 E-value=1.2e+02 Score=24.43 Aligned_cols=57 Identities=18% Similarity=0.376 Sum_probs=40.9
Q ss_pred EEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccccccCCCCcccccccCCCCCCCccccccccccEEEEe
Q 015194 14 VTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNLLLAKSPSDLLQFTDMANPDRPLSSLNISHGSIVFLS 85 (411)
Q Consensus 14 v~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~~~~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l~ 85 (411)
+.|+ ..+.|.-++.-.++.|++|.....+..+-+- . .++.++-+..=||||.-|-|-
T Consensus 20 lsVp-E~aPftAvlkfaAEeFkv~~~TsAiiTndGv-------------G-INP~qtAGnvflkhgselrli 76 (82)
T cd01766 20 LSVP-ESTPFTAVLKFAAEEFKVPAATSAIITNDGI-------------G-INPAQTAGNVFLKHGSELRLI 76 (82)
T ss_pred Eecc-ccCchHHHHHHHHHhcCCCccceeEEecCcc-------------c-cChhhcccceeeecCCEeeec
Confidence 4677 4778999999999999999876555433221 1 145677777779999887764
No 137
>PF06442 DHFR_2: R67 dihydrofolate reductase; InterPro: IPR009159 Dihydrofolate reductase (DHFR) (1.5.1.3 from EC) catalyses the NADPH-dependent reduction of dihydrofolate to tetrahydrofolate, an essential step in de novo synthesis both of glycine and of purines and deoxythymidine phosphate (the precursors of DNA synthesis) [], and important also in the conversion of deoxyuridine monophosphate to deoxythymidine monophosphate. Although DHFR is found ubiquitously in prokaryotes and eukaryotes, and is found in all dividing cells, maintaining levels of fully reduced folate coenzymes, the catabolic steps are still not well understood []. Bacterial species possesses distinct DHFR enzymes (based on their pattern of binding diaminoheterocyclic molecules), but mammalian DHFRs are highly similar []. The active site is situated in the N-terminal half of the sequence, which includes a conserved Pro-Trp dipeptide; the tryptophan has been shown [] to be involved in the binding of substrate by the enzyme. Its central role in DNA precursor synthesis, coupled with its inhibition by antagonists such as trimethoprim and methotrexate, which are used as anti-bacterial or anti-cancer agents, has made DHFR a target of anticancer chemotherapy. However, resistance has developed against some drugs, as a result of changes in DHFR itself []. This entry represents a plasmid-encoded DHFR which shows a high level of resistance to the antibiotic trimethoprim. It is a homotetramer with an unusual pore, which contains the active site, passing through the middle of the molecule []. Its structure is unrelated to that of chromosomal DHFRs.; GO: 0004146 dihydrofolate reductase activity, 0042493 response to drug, 0055114 oxidation-reduction process; PDB: 1VIF_A 3SFM_A 2P4T_A 2GQV_A 2RK2_A 2RH2_A 2RK1_A 1VIE_A.
Probab=26.87 E-value=36 Score=26.65 Aligned_cols=14 Identities=21% Similarity=0.327 Sum_probs=9.2
Q ss_pred eEEEEEEeecccCC
Q 015194 207 KKVGFIFTQTIMQN 220 (411)
Q Consensus 207 ~~VG~IfTdl~~~~ 220 (411)
+.|||-+|+|++.+
T Consensus 41 ~vvgwy~t~ltpeg 54 (78)
T PF06442_consen 41 QVVGWYCTKLTPEG 54 (78)
T ss_dssp EEEEEE--SS-SSE
T ss_pred eEeEEEeccccccc
Confidence 78999999998654
No 138
>PF07929 PRiA4_ORF3: Plasmid pRiA4b ORF-3-like protein; InterPro: IPR012912 Members of this family are similar to the protein product of ORF-3 (Q44206 from SWISSPROT) found on plasmid pRiA4 in the bacterium Agrobacterium rhizogenes. This plasmid is responsible for tumourigenesis at wound sites of plants infected by this bacterium, but the ORF-3 product does not seem to be involved in the pathogenetic process []. Other proteins found in this family are annotated as being putative TnpR resolvases (Q9LCU7 from SWISSPROT, Q50439 from SWISSPROT), but no further evidence was found to back this. Moreover, another member of this family is described as a probable lexA repressor (Q7UEI4 from SWISSPROT) and in fact carries a LexA DNA binding domain (IPR006199 from INTERPRO), but no references were found to expand on this. ; PDB: 2I1S_A.
Probab=26.65 E-value=1.1e+02 Score=27.92 Aligned_cols=74 Identities=18% Similarity=0.182 Sum_probs=38.8
Q ss_pred eEEEecCCCCcHHHHHHHHHhhcCCCCC---Cceeeccccccc----cCCCCcccccccCCCCCCCccccccccccEEEE
Q 015194 12 ERVTVDGAHVTVAELKTIIQSQLRIPVE---SQTLSTNQNLLL----AKSPSDLLQFTDMANPDRPLSSLNISHGSIVFL 84 (411)
Q Consensus 12 ~Rv~v~~p~~t~~~L~~kI~~~l~~~~~---~~~Ls~~~~~~~----~~~p~~~~~~~~l~~~~~tl~~lGLkHGDml~l 84 (411)
-||.|+ .+.||.+|-.-|+..++-..+ .|.+.+..-... ...+.+. ........+|+++.++.|+.+..
T Consensus 20 Rri~Vp-~~~tl~~Lh~~Iq~afgw~~~HL~~F~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~L~~~~~~~~~~~~Y 95 (179)
T PF07929_consen 20 RRIEVP-ADITLADLHEVIQAAFGWDDDHLYEFFIGGERYGIPDEDGMDFSEGD---EIKDASEVKLGELLLEEGDKFTY 95 (179)
T ss_dssp EEEEEE-TT-BHHHHHHHHHHHTT----S-EEEEEE-TTTSSESSS------------EEETTT-BHHHC-BTTC-EEEE
T ss_pred EEEEEC-CCCCHHHHHHHHHHHhCcCCCEeEEEEECCCccccccccccccccCC---CcceeeeEEhhhhccCcCCEEEE
Confidence 468999 599999999999999987654 233332221100 0000000 01112467888988899999998
Q ss_pred eecCc
Q 015194 85 SYDGE 89 (411)
Q Consensus 85 ~y~~~ 89 (411)
.|+-.
T Consensus 96 ~YDfG 100 (179)
T PF07929_consen 96 VYDFG 100 (179)
T ss_dssp EE-TT
T ss_pred EEcCC
Confidence 88764
No 139
>cd06537 CIDE_N_B CIDE_N domain of CIDE-B proteins. The CIDE_N (cell death-inducing DFF45-like effector, N-terminal) domain is found at the N-terminus of the CIDE (cell death-inducing DFF45-like effector) proteins. These proteins are associated with the chromatin condensation and DNA fragmentation events of apoptosis; the CIDE_N domain is thought to regulate the activity of the CAD/DFF40, ICAD/DFF45 and CIDE nucleases during apoptosis. The CIDE protein family includes 3 members: CIDE-A, CIDE-B, and FSP27(CIDE-C). Based on sequence similarity with DFF40 and DFF45, CIDE proteins were initially characterized as mitochondrial activators of apoptosis. However, strong metabolic phenotypes of mice lacking CIDE-A and CIDE-B indicated that this family may play critical roles in energy balance.
Probab=25.62 E-value=1.7e+02 Score=23.89 Aligned_cols=44 Identities=16% Similarity=0.121 Sum_probs=36.6
Q ss_pred EEEEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCceeeccccc
Q 015194 3 LRIRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTLSTNQNL 49 (411)
Q Consensus 3 lRvRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~Ls~~~~~ 49 (411)
.||++.+...|.-|- ..++.+|+.|..+.|.++.. .+|..+-++
T Consensus 5 fkv~~~~r~~kkGV~--A~sL~EL~~K~~~~L~~~~~-~~lvLeeDG 48 (81)
T cd06537 5 FRVCDHKRTVRKGLT--AASLQELLAKALETLLLSGV-LTLVLEEDG 48 (81)
T ss_pred eEEecCCCCeeEeEE--ccCHHHHHHHHHHHhCCCCc-eEEEEecCC
Confidence 699999999999997 58999999999999998743 677655543
No 140
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction 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 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid 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.
Probab=24.89 E-value=1.5e+02 Score=24.31 Aligned_cols=42 Identities=10% Similarity=0.067 Sum_probs=33.8
Q ss_pred EEcCCCceEEEecCCCCcHHHHHHHHHhhcCCCCCCcee-eccc
Q 015194 5 IRSRDGLERVTVDGAHVTVAELKTIIQSQLRIPVESQTL-STNQ 47 (411)
Q Consensus 5 vRS~~G~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~~ 47 (411)
+.--.++-|+..+. .-|...|.+||.+-+.+|.+.+.+ |.+.
T Consensus 5 v~~~g~~RRf~~~~-~pt~~~L~~kl~~Lf~lp~~~~~vtYiDe 47 (82)
T cd06397 5 SSFLGDTRRIVFPD-IPTWEALASKLENLYNLPEIKVGVTYIDN 47 (82)
T ss_pred EEeCCceEEEecCC-CccHHHHHHHHHHHhCCChhHeEEEEEcC
Confidence 34456788999985 789999999999999999887777 4443
No 141
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=24.00 E-value=1.1e+02 Score=25.07 Aligned_cols=34 Identities=18% Similarity=0.299 Sum_probs=27.5
Q ss_pred CEEEEEcCCCc---eEEEecCCCCcHHHHHHHHHhhcC
Q 015194 1 MLLRIRSRDGL---ERVTVDGAHVTVAELKTIIQSQLR 35 (411)
Q Consensus 1 MilRvRS~~G~---~Rv~v~~p~~t~~~L~~kI~~~l~ 35 (411)
.+||++.++|- |-|++. +.=+|.++++.|...++
T Consensus 1 lVIRIk~p~gg~vDw~V~~~-~~L~F~DvL~~I~~vlp 37 (91)
T cd06395 1 LVIRIKIPNGGAVDWTVQSG-PQLLFRDVLDVIGQVLP 37 (91)
T ss_pred CeEEEeCCCCCcccccccCc-ccccHHHHHHHHHHhcc
Confidence 47999999963 666666 46799999999998874
No 142
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play 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
Probab=20.19 E-value=2.8e+02 Score=22.85 Aligned_cols=35 Identities=6% Similarity=0.203 Sum_probs=26.5
Q ss_pred ceEEEecCCCCcHHHHHHHHHhhcCCCCCCcee-eccc
Q 015194 11 LERVTVDGAHVTVAELKTIIQSQLRIPVESQTL-STNQ 47 (411)
Q Consensus 11 ~~Rv~v~~p~~t~~~L~~kI~~~l~~~~~~~~L-s~~~ 47 (411)
+.=|.++ |+-++.+|.++|.+.+++. .++++ +.|.
T Consensus 13 v~~i~v~-~~i~f~dL~~kIrdkf~~~-~~~~iKykDE 48 (86)
T cd06408 13 TRYIMIG-PDTGFADFEDKIRDKFGFK-RRLKIKMKDD 48 (86)
T ss_pred EEEEEcC-CCCCHHHHHHHHHHHhCCC-CceEEEEEcC
Confidence 4445566 6889999999999999985 56666 4444
Done!