Query 030498
Match_columns 176
No_of_seqs 112 out of 133
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 14:37:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030498.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030498hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01791 Ubl5 UBL5 ubiquitin-li 99.3 9.1E-12 2E-16 88.8 7.6 67 66-148 2-70 (73)
2 cd01804 midnolin_N Ubiquitin-l 99.3 2.3E-11 5E-16 86.9 8.0 72 65-153 1-74 (78)
3 cd01806 Nedd8 Nebb8-like ubiq 99.1 2.1E-10 4.6E-15 79.1 7.5 72 66-153 1-74 (76)
4 cd01792 ISG15_repeat1 ISG15 ub 99.1 2.4E-10 5.3E-15 81.6 8.0 70 66-151 3-76 (80)
5 cd01803 Ubiquitin Ubiquitin. U 99.1 3.8E-10 8.2E-15 77.9 7.8 73 66-154 1-75 (76)
6 cd01809 Scythe_N Ubiquitin-lik 99.1 6.1E-10 1.3E-14 76.1 7.4 70 66-151 1-72 (72)
7 cd01805 RAD23_N Ubiquitin-like 99.1 7.2E-10 1.6E-14 77.3 7.8 69 66-150 1-73 (77)
8 cd01807 GDX_N ubiquitin-like d 99.0 1.9E-09 4.1E-14 75.5 7.8 70 66-151 1-72 (74)
9 cd01808 hPLIC_N Ubiquitin-like 99.0 3.4E-09 7.5E-14 73.7 7.6 70 66-151 1-71 (71)
10 cd01810 ISG15_repeat2 ISG15 ub 98.9 3.2E-09 7E-14 74.5 7.1 70 68-153 1-72 (74)
11 cd01812 BAG1_N Ubiquitin-like 98.9 6.4E-09 1.4E-13 71.2 7.3 67 66-149 1-69 (71)
12 PF00240 ubiquitin: Ubiquitin 98.9 6.4E-09 1.4E-13 70.9 6.9 64 72-151 2-67 (69)
13 PTZ00044 ubiquitin; Provisiona 98.9 1.1E-08 2.4E-13 71.3 7.9 72 66-153 1-74 (76)
14 cd01793 Fubi Fubi ubiquitin-li 98.8 1.3E-08 2.9E-13 71.3 7.2 71 66-154 1-73 (74)
15 cd01802 AN1_N ubiquitin-like d 98.8 2.1E-08 4.6E-13 75.8 8.4 77 62-154 24-102 (103)
16 cd01797 NIRF_N amino-terminal 98.8 1.8E-08 3.9E-13 72.3 7.1 71 66-152 1-75 (78)
17 cd01798 parkin_N amino-termina 98.8 2.9E-08 6.2E-13 68.7 7.0 68 68-151 1-70 (70)
18 cd01796 DDI1_N DNA damage indu 98.7 3.4E-08 7.3E-13 69.2 6.7 66 68-148 1-69 (71)
19 cd01794 DC_UbP_C dendritic cel 98.7 5.1E-08 1.1E-12 68.7 6.8 66 69-150 2-69 (70)
20 smart00213 UBQ Ubiquitin homol 98.7 7E-08 1.5E-12 63.7 6.2 62 66-144 1-64 (64)
21 cd01769 UBL Ubiquitin-like dom 98.6 1.4E-07 3.1E-12 62.9 6.6 65 70-150 2-68 (69)
22 PLN02560 enoyl-CoA reductase 98.6 9.7E-08 2.1E-12 84.5 6.9 70 66-150 1-82 (308)
23 cd01801 Tsc13_N Ubiquitin-like 98.6 1.2E-07 2.6E-12 67.3 6.0 69 68-150 3-76 (77)
24 cd01800 SF3a120_C Ubiquitin-li 98.6 1.6E-07 3.6E-12 66.3 6.7 67 72-154 4-72 (76)
25 cd01813 UBP_N UBP ubiquitin pr 98.5 4.5E-07 9.7E-12 64.5 7.4 68 66-149 1-72 (74)
26 cd01763 Sumo Small ubiquitin-r 98.5 7.3E-07 1.6E-11 64.8 8.5 78 61-154 7-86 (87)
27 cd01790 Herp_N Homocysteine-re 98.5 3.6E-07 7.7E-12 66.9 6.5 69 65-149 1-77 (79)
28 TIGR00601 rad23 UV excision re 98.4 4.6E-07 1E-11 82.4 7.1 70 66-150 1-74 (378)
29 cd01799 Hoil1_N Ubiquitin-like 98.4 9.5E-07 2E-11 63.2 5.8 53 79-147 18-71 (75)
30 PF11976 Rad60-SLD: Ubiquitin- 98.3 2.5E-06 5.3E-11 58.8 6.6 68 66-148 1-70 (72)
31 cd01815 BMSC_UbP_N Ubiquitin-l 98.3 1.8E-06 3.9E-11 62.8 5.1 56 81-151 18-75 (75)
32 PF11543 UN_NPL4: Nuclear pore 98.2 2.2E-06 4.7E-11 62.4 5.4 73 63-150 2-79 (80)
33 cd01795 USP48_C USP ubiquitin- 98.1 8.5E-06 1.8E-10 62.9 5.7 59 77-150 18-76 (107)
34 KOG0010 Ubiquitin-like protein 98.0 1.4E-05 3.1E-10 75.0 7.1 79 64-158 14-93 (493)
35 cd01789 Alp11_N Ubiquitin-like 98.0 3E-05 6.5E-10 56.2 7.2 70 66-150 2-80 (84)
36 PF14560 Ubiquitin_2: Ubiquiti 97.8 9.1E-05 2E-09 53.4 7.5 72 66-150 2-82 (87)
37 PF08817 YukD: WXG100 protein 97.6 0.00015 3.2E-09 51.7 5.4 73 65-147 2-77 (79)
38 KOG1639 Steroid reductase requ 97.2 0.00061 1.3E-08 60.1 5.5 73 66-150 1-78 (297)
39 cd01788 ElonginB Ubiquitin-lik 97.2 0.00083 1.8E-08 52.9 5.3 62 65-142 2-64 (119)
40 cd01814 NTGP5 Ubiquitin-like N 97.2 0.0011 2.5E-08 51.8 5.9 81 65-154 4-93 (113)
41 cd00196 UBQ Ubiquitin-like pro 97.1 0.0034 7.4E-08 37.9 6.8 61 74-150 6-68 (69)
42 KOG0004 Ubiquitin/40S ribosoma 97.1 0.00054 1.2E-08 56.2 3.8 75 66-156 1-77 (156)
43 KOG0011 Nucleotide excision re 97.0 0.0014 3E-08 59.4 5.8 70 66-150 1-73 (340)
44 PF13881 Rad60-SLD_2: Ubiquiti 96.7 0.011 2.4E-07 45.6 8.1 72 65-145 2-76 (111)
45 KOG0003 Ubiquitin/60s ribosoma 96.7 0.00041 9E-09 54.5 0.1 73 66-154 1-75 (128)
46 cd01770 p47_UBX p47-like ubiqu 96.1 0.031 6.7E-07 40.3 7.1 67 65-145 4-74 (79)
47 KOG0001 Ubiquitin and ubiquiti 96.1 0.064 1.4E-06 34.5 7.7 70 68-153 2-73 (75)
48 PF00789 UBX: UBX domain; Int 96.0 0.067 1.5E-06 37.6 8.2 74 62-149 3-81 (82)
49 cd01767 UBX UBX (ubiquitin reg 93.6 0.44 9.5E-06 33.4 6.9 64 65-144 2-71 (77)
50 KOG4248 Ubiquitin-like protein 93.5 0.11 2.5E-06 53.2 5.1 67 68-151 5-73 (1143)
51 PF10209 DUF2340: Uncharacteri 93.3 0.3 6.6E-06 38.8 6.2 67 79-152 21-109 (122)
52 KOG0005 Ubiquitin-like protein 92.4 0.27 5.9E-06 35.2 4.3 67 66-148 1-69 (70)
53 cd01811 OASL_repeat1 2'-5' oli 92.3 0.29 6.3E-06 36.3 4.5 66 66-147 1-72 (80)
54 PF14453 ThiS-like: ThiS-like 91.8 0.38 8.3E-06 33.4 4.5 52 73-151 5-56 (57)
55 PF09379 FERM_N: FERM N-termin 91.7 1.1 2.5E-05 30.8 6.9 69 70-152 1-76 (80)
56 COG5417 Uncharacterized small 91.5 0.8 1.7E-05 34.0 6.1 73 64-147 3-79 (81)
57 PLN02799 Molybdopterin synthas 91.0 0.93 2E-05 31.9 6.0 58 79-154 24-81 (82)
58 KOG4495 RNA polymerase II tran 91.0 0.44 9.6E-06 36.9 4.5 63 66-142 3-66 (110)
59 smart00166 UBX Domain present 90.1 2.6 5.7E-05 29.7 7.6 71 63-148 2-78 (80)
60 cd01772 SAKS1_UBX SAKS1-like U 88.8 3.4 7.4E-05 29.4 7.4 71 64-148 3-77 (79)
61 PF13019 Telomere_Sde2: Telome 87.9 2.5 5.5E-05 35.0 7.1 75 66-154 1-87 (162)
62 KOG1769 Ubiquitin-like protein 86.9 4.7 0.0001 31.1 7.5 73 63-151 18-92 (99)
63 cd01774 Faf1_like2_UBX Faf1 ik 86.5 5.4 0.00012 29.1 7.5 67 64-146 3-80 (85)
64 PLN02560 enoyl-CoA reductase 86.3 0.53 1.1E-05 42.0 2.4 68 44-115 19-92 (308)
65 smart00295 B41 Band 4.1 homolo 86.1 6.6 0.00014 30.8 8.4 76 64-153 2-85 (207)
66 TIGR01682 moaD molybdopterin c 86.0 1.9 4.1E-05 30.3 4.7 58 79-154 21-79 (80)
67 PF00076 RRM_1: RNA recognitio 85.8 3.4 7.3E-05 26.5 5.6 55 42-97 3-60 (70)
68 PF02597 ThiS: ThiS family; I 85.7 1.8 3.9E-05 29.4 4.4 59 79-153 17-75 (77)
69 cd00754 MoaD Ubiquitin domain 84.4 1.9 4.1E-05 29.6 4.1 59 79-154 21-79 (80)
70 KOG4147 Uncharacterized conser 83.0 2.6 5.5E-05 33.5 4.6 61 82-149 32-111 (127)
71 PF10302 DUF2407: DUF2407 ubiq 81.5 2.9 6.3E-05 31.5 4.3 44 79-137 17-63 (97)
72 TIGR01687 moaD_arch MoaD famil 81.1 4.6 0.0001 28.6 5.1 64 79-154 21-87 (88)
73 PF11470 TUG-UBL1: GLUT4 regul 77.4 8.9 0.00019 27.0 5.5 60 72-147 3-64 (65)
74 TIGR02958 sec_mycoba_snm4 secr 76.7 12 0.00027 35.0 7.8 77 66-152 3-81 (452)
75 KOG3391 Transcriptional co-rep 75.6 6.9 0.00015 32.1 5.1 67 83-151 61-136 (151)
76 PF15044 CLU_N: Mitochondrial 75.2 6.3 0.00014 28.2 4.3 57 80-151 1-58 (76)
77 smart00666 PB1 PB1 domain. Pho 74.6 12 0.00026 25.8 5.5 51 44-97 16-69 (81)
78 PRK11130 moaD molybdopterin sy 73.4 8.4 0.00018 27.2 4.6 59 79-154 20-80 (81)
79 PF12053 DUF3534: Domain of un 67.3 21 0.00046 29.0 6.2 72 66-147 1-76 (145)
80 cd01611 GABARAP Ubiquitin doma 66.9 41 0.00089 25.9 7.5 50 52-102 12-69 (112)
81 KOG2086 Protein tyrosine phosp 65.7 12 0.00026 34.9 5.0 66 66-145 306-375 (380)
82 PF14836 Ubiquitin_3: Ubiquiti 64.3 27 0.00058 26.2 5.8 63 79-152 19-81 (88)
83 COG1977 MoaD Molybdopterin con 64.2 15 0.00033 26.4 4.4 58 82-154 26-83 (84)
84 PRK08053 sulfur carrier protei 62.5 25 0.00054 24.0 5.0 64 66-153 1-64 (66)
85 PF02991 Atg8: Autophagy prote 60.9 48 0.001 25.3 6.8 65 58-137 9-81 (104)
86 smart00362 RRM_2 RNA recogniti 59.7 38 0.00082 20.7 5.6 53 42-95 4-58 (72)
87 KOG1872 Ubiquitin-specific pro 58.4 17 0.00037 34.8 4.7 62 71-148 8-72 (473)
88 PF14732 UAE_UbL: Ubiquitin/SU 58.3 11 0.00023 27.7 2.7 61 82-153 7-71 (87)
89 PF14259 RRM_6: RNA recognitio 58.0 43 0.00092 21.8 5.5 55 42-97 3-60 (70)
90 cd01775 CYR1_RA Ubiquitin doma 56.8 21 0.00045 27.5 4.1 34 66-99 3-38 (97)
91 PF06487 SAP18: Sin3 associate 56.0 37 0.0008 26.6 5.6 64 82-147 45-117 (120)
92 PRK06488 sulfur carrier protei 52.7 65 0.0014 21.6 5.8 63 66-153 1-63 (65)
93 cd01789 Alp11_N Ubiquitin-like 52.5 35 0.00075 24.4 4.6 34 45-78 19-55 (84)
94 COG5227 SMT3 Ubiquitin-like pr 52.5 36 0.00079 26.3 4.8 66 65-146 24-91 (103)
95 KOG3493 Ubiquitin-like protein 49.6 8.3 0.00018 28.1 0.9 58 73-146 9-68 (73)
96 PTZ00380 microtubule-associate 47.6 64 0.0014 25.5 5.7 50 52-102 15-69 (121)
97 smart00360 RRM RNA recognition 46.7 64 0.0014 19.5 5.6 53 42-95 1-57 (71)
98 PF08337 Plexin_cytopl: Plexin 46.3 65 0.0014 31.4 6.6 91 63-153 187-291 (539)
99 cd00565 ThiS ThiaminS ubiquiti 46.2 46 0.001 22.3 4.2 60 73-153 4-63 (65)
100 PF14533 USP7_C2: Ubiquitin-sp 46.0 32 0.0007 28.8 4.1 40 60-99 15-59 (213)
101 PRK06944 sulfur carrier protei 45.1 30 0.00066 23.0 3.1 63 66-153 1-63 (65)
102 cd05992 PB1 The PB1 domain is 44.6 94 0.002 21.0 5.6 50 45-97 16-69 (81)
103 cd01771 Faf1_UBX Faf1 UBX doma 44.6 1.2E+02 0.0025 21.8 7.5 68 65-148 4-77 (80)
104 cd01773 Faf1_like1_UBX Faf1 ik 44.5 1.3E+02 0.0027 22.2 6.6 71 63-149 3-79 (82)
105 PF14560 Ubiquitin_2: Ubiquiti 44.2 16 0.00036 25.9 1.8 35 44-78 19-57 (87)
106 PF06918 DUF1280: Protein of u 43.4 97 0.0021 26.6 6.7 76 20-101 64-146 (224)
107 TIGR01683 thiS thiamine biosyn 41.9 58 0.0012 21.9 4.1 60 73-153 3-62 (64)
108 PF01524 Gemini_V1: Geminiviru 41.4 13 0.00028 27.6 0.9 26 39-66 3-28 (78)
109 PRK08364 sulfur carrier protei 40.5 1.2E+02 0.0026 20.8 6.0 63 66-153 5-68 (70)
110 PF02824 TGS: TGS domain; Int 38.2 61 0.0013 21.8 3.8 30 69-98 2-31 (60)
111 PF11834 DUF3354: Domain of un 37.6 40 0.00087 24.1 2.9 51 75-149 19-69 (69)
112 smart00666 PB1 PB1 domain. Pho 36.8 83 0.0018 21.5 4.4 33 66-99 2-36 (81)
113 PRK13744 conjugal transfer pro 36.8 32 0.0007 25.1 2.3 34 61-94 37-74 (83)
114 cd01616 TGS The TGS domain, na 35.8 1E+02 0.0022 18.5 4.8 24 73-96 6-29 (60)
115 cd06407 PB1_NLP A PB1 domain i 35.7 73 0.0016 23.1 4.1 33 66-99 1-35 (82)
116 PF09269 DUF1967: Domain of un 34.8 24 0.00051 24.8 1.3 17 132-148 46-62 (69)
117 PRK10872 relA (p)ppGpp synthet 33.7 91 0.002 31.5 5.6 75 52-150 391-465 (743)
118 TIGR00691 spoT_relA (p)ppGpp s 33.0 84 0.0018 31.1 5.2 74 52-149 347-420 (683)
119 PRK05659 sulfur carrier protei 32.0 54 0.0012 21.8 2.8 63 66-152 1-63 (66)
120 PF03931 Skp1_POZ: Skp1 family 32.0 33 0.00072 23.1 1.7 24 66-89 1-29 (62)
121 PF07929 PRiA4_ORF3: Plasmid p 31.6 1.6E+02 0.0034 23.6 5.8 68 79-148 23-95 (179)
122 PRK11347 antitoxin ChpS; Provi 31.3 92 0.002 22.7 4.0 41 52-94 18-60 (83)
123 cd00590 RRM RRM (RNA recogniti 31.2 1.3E+02 0.0027 18.3 6.3 53 42-95 4-59 (74)
124 PF07340 Herpes_IE1: Cytomegal 31.1 1.1E+02 0.0024 28.8 5.4 28 27-54 35-70 (392)
125 PRK05863 sulfur carrier protei 30.9 57 0.0012 22.2 2.7 62 66-152 1-62 (65)
126 TIGR03595 Obg_CgtA_exten Obg f 30.8 34 0.00074 24.0 1.6 18 132-149 46-63 (69)
127 PF00564 PB1: PB1 domain; Int 30.6 1.4E+02 0.003 20.4 4.7 52 43-97 16-70 (84)
128 PRK07440 hypothetical protein; 30.5 74 0.0016 22.2 3.3 65 64-152 3-67 (70)
129 PF10407 Cytokin_check_N: Cdc1 29.9 69 0.0015 23.2 3.1 24 79-102 8-32 (73)
130 KOG4146 Ubiquitin-like protein 29.5 2.7E+02 0.0058 21.6 6.9 62 82-153 34-99 (101)
131 PF10790 DUF2604: Protein of U 29.4 46 0.00099 24.3 2.1 26 123-148 43-68 (76)
132 cd05992 PB1 The PB1 domain is 29.1 1.2E+02 0.0027 20.4 4.2 32 68-99 3-36 (81)
133 PF12436 USP7_ICP0_bdg: ICP0-b 28.7 57 0.0012 27.9 2.9 60 79-153 90-154 (249)
134 cd06405 PB1_Mekk2_3 The PB1 do 28.6 1.5E+02 0.0034 22.0 4.8 48 45-96 16-63 (79)
135 COG0484 DnaJ DnaJ-class molecu 28.0 50 0.0011 30.7 2.6 28 79-106 11-39 (371)
136 cd04938 TGS_Obg-like TGS_Obg-l 27.4 1.2E+02 0.0025 21.6 3.9 49 79-149 27-75 (76)
137 PF02192 PI3K_p85B: PI3-kinase 27.1 76 0.0016 23.1 2.9 59 79-139 5-63 (78)
138 KOG3206 Alpha-tubulin folding 25.8 2E+02 0.0043 25.3 5.7 72 66-151 2-81 (234)
139 COG1443 Idi Isopentenyldiphosp 25.7 33 0.00071 29.2 0.9 49 107-155 54-108 (185)
140 smart00314 RA Ras association 25.5 2E+02 0.0044 20.0 4.9 21 79-99 21-41 (90)
141 TIGR01659 sex-lethal sex-letha 25.4 1.7E+02 0.0038 26.4 5.6 54 42-96 112-169 (346)
142 KOG0071 GTP-binding ADP-ribosy 24.7 92 0.002 26.2 3.3 39 24-62 98-147 (180)
143 PF11069 DUF2870: Protein of u 24.4 1.1E+02 0.0023 23.6 3.5 41 120-162 3-43 (98)
144 KOG2982 Uncharacterized conser 24.4 90 0.0019 29.3 3.5 68 67-147 338-413 (418)
145 PF00788 RA: Ras association ( 24.4 2.4E+02 0.0051 19.2 5.3 32 68-99 5-42 (93)
146 PRK13552 frdB fumarate reducta 24.3 1.2E+02 0.0026 26.0 4.1 35 63-97 2-47 (239)
147 cd01666 TGS_DRG_C TGS_DRG_C: 23.5 1.5E+02 0.0032 21.2 3.9 32 66-97 2-38 (75)
148 cd01787 GRB7_RA RA (RAS-associ 22.8 2.8E+02 0.0062 20.7 5.4 33 67-99 4-38 (85)
149 PF12949 HeH: HeH/LEM domain; 22.4 61 0.0013 20.4 1.5 22 81-102 1-22 (35)
150 PRK07696 sulfur carrier protei 22.2 1E+02 0.0022 21.2 2.7 63 66-152 1-64 (67)
151 TIGR01659 sex-lethal sex-letha 22.1 2.2E+02 0.0048 25.7 5.6 57 41-98 197-257 (346)
152 PF06071 YchF-GTPase_C: Protei 22.0 52 0.0011 24.6 1.3 14 136-149 69-82 (84)
153 PF04967 HTH_10: HTH DNA bindi 21.9 67 0.0015 21.7 1.7 17 44-60 19-35 (53)
154 PRK08640 sdhB succinate dehydr 21.7 1.6E+02 0.0035 25.4 4.4 34 63-96 3-45 (249)
155 PF00025 Arf: ADP-ribosylation 21.5 2.1E+02 0.0046 22.3 4.8 38 25-62 96-144 (175)
156 PF12091 DUF3567: Protein of u 21.3 1.2E+02 0.0027 22.8 3.1 26 26-59 47-72 (85)
157 cd01764 Urm1 Urm1-like ubuitin 21.3 2E+02 0.0044 21.1 4.3 59 82-153 27-92 (94)
158 PF00276 Ribosomal_L23: Riboso 21.2 1.3E+02 0.0028 22.1 3.3 20 79-98 26-45 (91)
159 PLN03134 glycine-rich RNA-bind 21.1 3E+02 0.0066 21.4 5.6 53 43-96 40-96 (144)
160 PF07319 DnaI_N: Primosomal pr 21.1 86 0.0019 23.0 2.3 47 26-103 18-64 (94)
161 KOG0013 Uncharacterized conser 21.0 1.7E+02 0.0038 25.6 4.4 61 79-155 162-222 (231)
162 cd06257 DnaJ DnaJ domain or J- 20.8 1E+02 0.0023 19.1 2.4 25 79-103 7-32 (55)
163 cd02788 MopB_CT_NDH-1_NuoG2-N7 20.0 61 0.0013 23.3 1.3 19 131-149 34-52 (96)
No 1
>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=99.30 E-value=9.1e-12 Score=88.77 Aligned_cols=67 Identities=13% Similarity=0.203 Sum_probs=58.6
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|+|+|+.+.|+++ .|++++||.|||.+|+..+...++|| +|.|.|. +++|+++|.+|||+||
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~q---------------rLi~~Gk-~L~D~~tL~~ygi~~~ 65 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKI---------------VLKKWYT-IFKDHISLGDYEIHDG 65 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHE---------------EEEeCCc-CCCCCCCHHHcCCCCC
Confidence 8999999999999 88999999999999999986666654 5778875 6777889999999999
Q ss_pred CEEEE
Q 030498 144 SQVQF 148 (176)
Q Consensus 144 d~L~F 148 (176)
++|++
T Consensus 66 stv~l 70 (73)
T cd01791 66 MNLEL 70 (73)
T ss_pred CEEEE
Confidence 99876
No 2
>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=99.27 E-value=2.3e-11 Score=86.86 Aligned_cols=72 Identities=31% Similarity=0.460 Sum_probs=61.1
Q ss_pred ceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCcc
Q 030498 65 AMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRN 142 (176)
Q Consensus 65 Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkn 142 (176)
.|+|+|....|+.+ .|+++|||.|||+.|+......++++ +|.|.+..| +|+ +|.+|||+|
T Consensus 1 ~m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~q---------------rL~~~Gk~L-~d~-~L~~~gi~~ 63 (78)
T cd01804 1 PMNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERL---------------ALLHRETRL-SSG-KLQDLGLGD 63 (78)
T ss_pred CeEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHE---------------EEEECCcCC-CCC-cHHHcCCCC
Confidence 49999999999998 88999999999999999986555544 678888754 555 899999999
Q ss_pred CCEEEEEeeee
Q 030498 143 NSQVQFVPFVL 153 (176)
Q Consensus 143 gd~L~Fk~~l~ 153 (176)
|++|+++.-+.
T Consensus 64 ~~~i~l~~~~~ 74 (78)
T cd01804 64 GSKLTLVPTVE 74 (78)
T ss_pred CCEEEEEeecc
Confidence 99999987663
No 3
>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=99.14 E-value=2.1e-10 Score=79.11 Aligned_cols=72 Identities=17% Similarity=0.243 Sum_probs=60.6
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|+|+|...+|+.+ .|+++.||.+||..|+......+.++ .|.|++..| +|+.+|.+|||.||
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~q---------------rL~~~g~~L-~d~~tl~~~~i~~g 64 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQ---------------RLIYSGKQM-NDDKTAADYKLEGG 64 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhE---------------EEEECCeEc-cCCCCHHHcCCCCC
Confidence 7899999999998 88999999999999999875444422 567888754 56689999999999
Q ss_pred CEEEEEeeee
Q 030498 144 SQVQFVPFVL 153 (176)
Q Consensus 144 d~L~Fk~~l~ 153 (176)
+.|++..+++
T Consensus 65 ~~i~l~~~~~ 74 (76)
T cd01806 65 SVLHLVLALR 74 (76)
T ss_pred CEEEEEEEcc
Confidence 9999998864
No 4
>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=99.14 E-value=2.4e-10 Score=81.55 Aligned_cols=70 Identities=24% Similarity=0.322 Sum_probs=57.5
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeee--ecCCcccccCcchhhhcCCc
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCL--SHQNQKLLDENSALQDCGVR 141 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L--~~~~~kL~dD~~~L~dyGIk 141 (176)
|.|+|...+|+.+ .|++++||.|||+.|+......+.+| +| .|.|. .++|+.+|.+|||+
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~q---------------rL~~~~~G~-~L~D~~tL~~~gi~ 66 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQ---------------RLAHLDSRE-VLQDGVPLVSQGLG 66 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHE---------------EEEeccCCC-CCCCCCCHHHcCCC
Confidence 8999999999999 78899999999999999986544433 45 56676 56677899999999
Q ss_pred cCCEEEEEee
Q 030498 142 NNSQVQFVPF 151 (176)
Q Consensus 142 ngd~L~Fk~~ 151 (176)
+|++|+...+
T Consensus 67 ~gs~l~l~~~ 76 (80)
T cd01792 67 PGSTVLLVVQ 76 (80)
T ss_pred CCCEEEEEEE
Confidence 9999876543
No 5
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.11 E-value=3.8e-10 Score=77.86 Aligned_cols=73 Identities=22% Similarity=0.318 Sum_probs=61.1
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|+|+|+..+|+.+ .|+++.||.+||+.|+..+...+.++ .|.|.+. .++|+.+|.+|||.+|
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q---------------~L~~~g~-~L~d~~~L~~~~i~~~ 64 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQ---------------RLIFAGK-QLEDGRTLSDYNIQKE 64 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHe---------------EEEECCE-ECCCCCcHHHcCCCCC
Confidence 7899999999999 88999999999999999985433322 5677886 4567789999999999
Q ss_pred CEEEEEeeeec
Q 030498 144 SQVQFVPFVLS 154 (176)
Q Consensus 144 d~L~Fk~~l~~ 154 (176)
+.|+...++.+
T Consensus 65 ~~i~l~~~~~g 75 (76)
T cd01803 65 STLHLVLRLRG 75 (76)
T ss_pred CEEEEEEEccC
Confidence 99999988753
No 6
>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=99.07 E-value=6.1e-10 Score=76.10 Aligned_cols=70 Identities=23% Similarity=0.320 Sum_probs=58.3
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|+|+|...+|+.+ .|++++||.+||..|++.+...+.++ .|.|.|+ +++|+.+|.+|||++|
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q---------------~L~~~g~-~L~d~~~L~~~~i~~~ 64 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQ---------------RLIYSGR-VLKDDETLSEYKVEDG 64 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHe---------------EEEECCE-ECCCcCcHHHCCCCCC
Confidence 7899999999888 88999999999999999876544432 4667776 6677889999999999
Q ss_pred CEEEEEee
Q 030498 144 SQVQFVPF 151 (176)
Q Consensus 144 d~L~Fk~~ 151 (176)
++|+.+.|
T Consensus 65 ~~l~l~~~ 72 (72)
T cd01809 65 HTIHLVKR 72 (72)
T ss_pred CEEEEEeC
Confidence 99987754
No 7
>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=99.07 E-value=7.2e-10 Score=77.28 Aligned_cols=69 Identities=20% Similarity=0.281 Sum_probs=57.4
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhh--hhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCc
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVND--MEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVR 141 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~--~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIk 141 (176)
|+|+|...+|+.+ .|.+++||.+||+.|+..... .+.++ .|.|.|.. ++|+.+|.+|||+
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 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQ---------------KLIYSGKI-LKDDTTLEEYKID 64 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHe---------------EEEECCEE-ccCCCCHHHcCCC
Confidence 7899999999998 889999999999999998754 33322 67788875 4667899999999
Q ss_pred cCCEEEEEe
Q 030498 142 NNSQVQFVP 150 (176)
Q Consensus 142 ngd~L~Fk~ 150 (176)
+|+.|++..
T Consensus 65 ~~~~i~~~~ 73 (77)
T cd01805 65 EKDFVVVMV 73 (77)
T ss_pred CCCEEEEEE
Confidence 999988653
No 8
>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=99.00 E-value=1.9e-09 Score=75.50 Aligned_cols=70 Identities=21% Similarity=0.315 Sum_probs=58.3
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|+|+|+..+|+.+ .|.++.||.+||..|+.....-+.. +.|.|.|..| +|+.+|.+|||.+|
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 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQ---------------QRLLFKGKAL-ADDKRLSDYSIGPN 64 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHH---------------eEEEECCEEC-CCCCCHHHCCCCCC
Confidence 7899999999998 8899999999999999987543332 2688999855 56689999999999
Q ss_pred CEEEEEee
Q 030498 144 SQVQFVPF 151 (176)
Q Consensus 144 d~L~Fk~~ 151 (176)
++|+...+
T Consensus 65 ~~l~l~~~ 72 (74)
T cd01807 65 AKLNLVVR 72 (74)
T ss_pred CEEEEEEc
Confidence 99977644
No 9
>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=98.96 E-value=3.4e-09 Score=73.65 Aligned_cols=70 Identities=19% Similarity=0.341 Sum_probs=56.1
Q ss_pred eEEEEEecCCcee-EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCC
Q 030498 66 MRISILKLDGTSF-AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNS 144 (176)
Q Consensus 66 m~LtV~k~dG~~l-~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd 144 (176)
|+|+|...+|... .|.+++||.+||..|++.....++ .+.|.|.|. .++|+.+|.+|||++|+
T Consensus 1 ~~i~vk~~~g~~~l~v~~~~TV~~lK~~I~~~~~i~~~---------------~~~Li~~Gk-~L~d~~tL~~~~i~~~s 64 (71)
T cd01808 1 IKVTVKTPKDKEEIEIAEDASVKDFKEAVSKKFKANQE---------------QLVLIFAGK-ILKDTDTLTQHNIKDGL 64 (71)
T ss_pred CEEEEEcCCCCEEEEECCCChHHHHHHHHHHHhCCCHH---------------HEEEEECCe-EcCCCCcHHHcCCCCCC
Confidence 5788999999764 889999999999999988753222 236788887 45667899999999999
Q ss_pred EEEEEee
Q 030498 145 QVQFVPF 151 (176)
Q Consensus 145 ~L~Fk~~ 151 (176)
+|+.+.|
T Consensus 65 tl~l~~~ 71 (71)
T cd01808 65 TVHLVIK 71 (71)
T ss_pred EEEEEEC
Confidence 9987653
No 10
>cd01810 ISG15_repeat2 ISG15 ubiquitin-like protein, second repeat of 2. ISG15 is a ubiquitin-like protein containing two ubiquitin homology domains and becomes conjugated to a variety of proteins when cells are treated with type I interferon or lipopolysaccharide. Although ISG15 has properties similar to those of other ubiquitin-like molecules, it is a unique member of the ubiquitin-like superfamily, whose expression and conjugation to target proteins are tightly regulated by specific signaling pathways, indicating it may have specialized functions in the immune system.
Probab=98.94 E-value=3.2e-09 Score=74.46 Aligned_cols=70 Identities=19% Similarity=0.231 Sum_probs=57.9
Q ss_pred EEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCE
Q 030498 68 ISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQ 145 (176)
Q Consensus 68 LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~ 145 (176)
|+|+..+|+.+ .|.+++||++||..|+......++ .++|.|.|+.|. |+.+|.+|||++|++
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~---------------~q~L~~~G~~L~-D~~tL~~~~i~~~~t 64 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQAD---------------QFWLSFEGRPME-DEHPLGEYGLKPGCT 64 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHH---------------HeEEEECCEECC-CCCCHHHcCCCCCCE
Confidence 57889999998 889999999999999988754333 237889998655 568999999999999
Q ss_pred EEEEeeee
Q 030498 146 VQFVPFVL 153 (176)
Q Consensus 146 L~Fk~~l~ 153 (176)
|+...++.
T Consensus 65 l~l~~~l~ 72 (74)
T cd01810 65 VFMNLRLR 72 (74)
T ss_pred EEEEEEcc
Confidence 99888764
No 11
>cd01812 BAG1_N Ubiquitin-like domain of BAG1. BAG1_N N-terminal ubiquitin-like (Ubl) domain of the BAG1 protein. This domain occurs together with the BAG domain and is closely related to the Ubl domain of a family of deubiquitinases that includes Rpn11, UBP6 (USP14), USP7 (HAUSP).
Probab=98.91 E-value=6.4e-09 Score=71.15 Aligned_cols=67 Identities=22% Similarity=0.337 Sum_probs=54.7
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|+|+|... |..+ .|++++||.+||..|+..+...++++ .|.|.+..| +|+.+|.+|||++|
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q---------------~L~~~g~~l-~d~~~L~~~~i~~g 63 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQ---------------KLIFKGKER-DDAETLDMSGVKDG 63 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHe---------------EEeeCCccc-CccCcHHHcCCCCC
Confidence 67888887 7777 88999999999999999986655543 566788754 56789999999999
Q ss_pred CEEEEE
Q 030498 144 SQVQFV 149 (176)
Q Consensus 144 d~L~Fk 149 (176)
++|+..
T Consensus 64 ~~l~v~ 69 (71)
T cd01812 64 SKVMLL 69 (71)
T ss_pred CEEEEe
Confidence 998754
No 12
>PF00240 ubiquitin: Ubiquitin family; InterPro: IPR000626 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin is a protein of 76 amino acid residues, found in all eukaryotic cells and whose sequence is extremely well conserved from protozoan to vertebrates. Ubiquitin acts through its post-translational attachment (ubiquitinylation) to other proteins, where these modifications alter the function, location or trafficking of the protein, or targets it for destruction by the 26S proteasome []. The terminal glycine in the C-terminal 4-residue tail of ubiquitin can form an isopeptide bond with a lysine residue in the target protein, or with a lysine in another ubiquitin molecule to form a ubiquitin chain that attaches itself to a target protein. Ubiquitin has seven lysine residues, any one of which can be used to link ubiquitin molecules together, resulting in different structures that alter the target protein in different ways. It appears that Lys(11)-, Lys(29) and Lys(48)-linked poly-ubiquitin chains target the protein to the proteasome for degradation, while mono-ubiquitinylated and Lys(6)- or Lys(63)-linked poly-ubiquitin chains signal reversible modifications in protein activity, location or trafficking []. For example, Lys(63)-linked poly-ubiquitinylation is known to be involved in DNA damage tolerance, inflammatory response, protein trafficking and signal transduction through kinase activation []. In addition, the length of the ubiquitin chain alters the fate of the target protein. Regulatory proteins such as transcription factors and histones are frequent targets of ubquitinylation [].; GO: 0005515 protein binding; PDB: 2DZI_A 2XEW_E 3NOB_E 2KWU_B 2Y5B_F 3PHD_G 2KWV_B 2KOX_A 2XK5_B 3NHE_B ....
Probab=98.89 E-value=6.4e-09 Score=70.94 Aligned_cols=64 Identities=28% Similarity=0.421 Sum_probs=52.9
Q ss_pred ecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEE
Q 030498 72 KLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFV 149 (176)
Q Consensus 72 k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk 149 (176)
..+|+.+ .|+++.||.|||+.|+.....-+. ...|.|.|+.| +|+.+|.+|||+||++|+..
T Consensus 2 ~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~---------------~~~L~~~G~~L-~d~~tL~~~~i~~~~~I~l~ 65 (69)
T PF00240_consen 2 TLSGKTFTLEVDPDDTVADLKQKIAEETGIPPE---------------QQRLIYNGKEL-DDDKTLSDYGIKDGSTIHLV 65 (69)
T ss_dssp ETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGG---------------GEEEEETTEEE-STTSBTGGGTTSTTEEEEEE
T ss_pred CCCCcEEEEEECCCCCHHHhhhhcccccccccc---------------cceeeeeeecc-cCcCcHHHcCCCCCCEEEEE
Confidence 4678888 889999999999999999864332 23788999855 99999999999999988766
Q ss_pred ee
Q 030498 150 PF 151 (176)
Q Consensus 150 ~~ 151 (176)
.+
T Consensus 66 ~k 67 (69)
T PF00240_consen 66 IK 67 (69)
T ss_dssp ES
T ss_pred Ee
Confidence 54
No 13
>PTZ00044 ubiquitin; Provisional
Probab=98.88 E-value=1.1e-08 Score=71.27 Aligned_cols=72 Identities=22% Similarity=0.256 Sum_probs=60.6
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|.|.|+..+|+.+ .|.++.||.+||..|+.....-++ ...|.|.+..| +|+.+|.+|||.+|
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 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVK---------------QIRLIYSGKQM-SDDLKLSDYKVVPG 64 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHH---------------HeEEEECCEEc-cCCCcHHHcCCCCC
Confidence 7899999999998 889999999999999998753222 23788898855 57788999999999
Q ss_pred CEEEEEeeee
Q 030498 144 SQVQFVPFVL 153 (176)
Q Consensus 144 d~L~Fk~~l~ 153 (176)
++|+...+++
T Consensus 65 ~~i~l~~~~~ 74 (76)
T PTZ00044 65 STIHMVLQLR 74 (76)
T ss_pred CEEEEEEEcc
Confidence 9999987764
No 14
>cd01793 Fubi Fubi ubiquitin-like protein. Fubi is a ubiquitin-like protein encoded by the fau gene which has an N-terminal ubiquitin-like domain (also referred to as FUBI) fused to the ribosomal protein S30. Fubi is thought to be a tumor suppressor protein and the FUBI domain may act as a substitute or an inhibitor of ubiquitin or one of ubiquitin's close relatives UCRP, FAT10, and Nedd8.
Probab=98.84 E-value=1.3e-08 Score=71.32 Aligned_cols=71 Identities=18% Similarity=0.267 Sum_probs=56.4
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|.|+|+.. +.+ .|.++.||+|||..|+.....-+. + ..|.|.|+. ++|+.+|.+|||+++
T Consensus 1 mqi~vk~~--~~~~l~v~~~~tV~~lK~~i~~~~gip~~-~--------------q~Li~~Gk~-L~D~~tL~~~~i~~~ 62 (74)
T cd01793 1 MQLFVRAQ--NTHTLEVTGQETVSDIKAHVAGLEGIDVE-D--------------QVLLLAGVP-LEDDATLGQCGVEEL 62 (74)
T ss_pred CEEEEECC--CEEEEEECCcCcHHHHHHHHHhhhCCCHH-H--------------EEEEECCeE-CCCCCCHHHcCCCCC
Confidence 67888764 444 899999999999999988753222 2 278899974 566799999999999
Q ss_pred CEEEEEeeeec
Q 030498 144 SQVQFVPFVLS 154 (176)
Q Consensus 144 d~L~Fk~~l~~ 154 (176)
++|+..-++.+
T Consensus 63 ~tl~l~~~l~G 73 (74)
T cd01793 63 CTLEVAGRLLG 73 (74)
T ss_pred CEEEEEEecCC
Confidence 99999888754
No 15
>cd01802 AN1_N ubiquitin-like domain of AN1. AN1 (also known as ANUBL1 and RSD-7) is ubiquitin-like protein with a testis-specific expression in rats that has an N-terminal ubiquitin-like domain and a C-terminal zinc-binding domain. Unlike ubiquitin polyproteins and most ubiquitin fusion proteins, the N-terminal ubiquitin-like domain of An1 does not undergo proteolytic processing. The function of AN1 is unknown.
Probab=98.83 E-value=2.1e-08 Score=75.79 Aligned_cols=77 Identities=22% Similarity=0.246 Sum_probs=63.1
Q ss_pred cCCceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcC
Q 030498 62 MGSAMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCG 139 (176)
Q Consensus 62 ~G~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyG 139 (176)
+-..|.|+|+..+|+.+ .|.+++||.+||..|+..... |..+ +.|.|.|. .++|+.+|.+||
T Consensus 24 ~~~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gi-p~~~--------------QrLi~~Gk-~L~D~~tL~dy~ 87 (103)
T cd01802 24 FYDTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGI-PVAQ--------------QHLIWNNM-ELEDEYCLNDYN 87 (103)
T ss_pred cCCCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCC-ChHH--------------EEEEECCE-ECCCCCcHHHcC
Confidence 34569999999999988 899999999999999987643 3222 26888987 466678999999
Q ss_pred CccCCEEEEEeeeec
Q 030498 140 VRNNSQVQFVPFVLS 154 (176)
Q Consensus 140 Ikngd~L~Fk~~l~~ 154 (176)
|.+|++|+...++++
T Consensus 88 I~~~stL~l~~~l~G 102 (103)
T cd01802 88 ISEGCTLKLVLAMRG 102 (103)
T ss_pred CCCCCEEEEEEecCC
Confidence 999999999888753
No 16
>cd01797 NIRF_N amino-terminal ubiquitin-like domain of Np95 and NIRF. NIRF_N This CD represents the amino-terminal ubiquitin-like domain of a family of nuclear proteins that includes Np95 and NIRF (Np95/ICBP90-like RING finger) protein. Both Np95 and NIRF have a domain architecture consisting of a ubiquitin-like domain, a PHD finger, a YDG/SRA domain, Rb-binding motifs and a RING finger domain. Both Np95 and NIRF are ubiquitin ligases that ubiquitinate PCNP (PEST-containing nuclear proteins). While Np95 is capable of binding histones, NIRF is involved in cell cycle regulation.
Probab=98.81 E-value=1.8e-08 Score=72.35 Aligned_cols=71 Identities=21% Similarity=0.279 Sum_probs=58.1
Q ss_pred eEEEEEecCCce-e---EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCc
Q 030498 66 MRISILKLDGTS-F---AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVR 141 (176)
Q Consensus 66 m~LtV~k~dG~~-l---~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIk 141 (176)
|.|+|+..+|+. + +|.++.||.+||..|+.... .|..+ ..|.|.|. .++|+.+|.+|||.
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~g-i~~~~--------------QrLi~~Gk-~L~D~~tL~~y~i~ 64 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFN-VEPEC--------------QRLFYRGK-QMEDGHTLFDYNVG 64 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhC-CCHHH--------------eEEEeCCE-ECCCCCCHHHcCCC
Confidence 889999999986 4 36789999999999998764 33322 27889886 56778999999999
Q ss_pred cCCEEEEEeee
Q 030498 142 NNSQVQFVPFV 152 (176)
Q Consensus 142 ngd~L~Fk~~l 152 (176)
+|+.|++..+.
T Consensus 65 ~~~~i~l~~~~ 75 (78)
T cd01797 65 LNDIIQLLVRQ 75 (78)
T ss_pred CCCEEEEEEec
Confidence 99999987764
No 17
>cd01798 parkin_N amino-terminal ubiquitin-like of parkin protein. parkin_N parkin protein is a RING-type E3 ubiquitin ligase with an amino-terminal ubiquitin-like (Ubl) domain and an RBR signature consisting of two RING finger domains separated by an IBR/DRIL domain. Naturally occurring mutations in parkin are thought to cause the disease AR_JP (autosomal-recessive juvenile parkinsonism). Parkin binds the Rpn10 subunit of 26S proteasomes through its Ubl domain.
Probab=98.77 E-value=2.9e-08 Score=68.69 Aligned_cols=68 Identities=18% Similarity=0.294 Sum_probs=55.6
Q ss_pred EEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCE
Q 030498 68 ISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQ 145 (176)
Q Consensus 68 LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~ 145 (176)
|.|...+|..+ .|.++.||.+||..|+.....-+. .+.|.|.|..| +|+.+|.+|||++|++
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~---------------~q~Li~~G~~L-~d~~~l~~~~i~~~st 64 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPD---------------QLRVIFAGKEL-RNTTTIQECDLGQQSI 64 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHH---------------HeEEEECCeEC-CCCCcHHHcCCCCCCE
Confidence 46788899988 889999999999999998754222 23788999855 6679999999999999
Q ss_pred EEEEee
Q 030498 146 VQFVPF 151 (176)
Q Consensus 146 L~Fk~~ 151 (176)
|+-+.|
T Consensus 65 l~l~~~ 70 (70)
T cd01798 65 LHAVRR 70 (70)
T ss_pred EEEEeC
Confidence 987654
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=98.74 E-value=3.4e-08 Score=69.24 Aligned_cols=66 Identities=18% Similarity=0.242 Sum_probs=52.7
Q ss_pred EEEEec-CCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCC
Q 030498 68 ISILKL-DGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNS 144 (176)
Q Consensus 68 LtV~k~-dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd 144 (176)
|+|... +|+.+ .|.+++||.+||..|+.....-+. ..+|.|.|..|.|+...|.+|||+||+
T Consensus 1 l~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~---------------~q~Li~~Gk~L~D~~~~L~~~gi~~~~ 65 (71)
T cd01796 1 ITVYTARSETTFSLDVDPDLELENFKALCEAESGIPAS---------------QQQLIYNGRELVDNKRLLALYGVKDGD 65 (71)
T ss_pred CEEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHH---------------HeEEEECCeEccCCcccHHHcCCCCCC
Confidence 456666 77777 889999999999999988754222 237889998776766889999999999
Q ss_pred EEEE
Q 030498 145 QVQF 148 (176)
Q Consensus 145 ~L~F 148 (176)
.|++
T Consensus 66 ~l~l 69 (71)
T cd01796 66 LVVL 69 (71)
T ss_pred EEEE
Confidence 8875
No 19
>cd01794 DC_UbP_C dendritic cell derived ubiquitin-like protein. DC_UbP (dendritic cell derived ubiquitin-like protein) is a ubiquitin-like protein from human dendritic cells that is expressed in the mitochondrion. The ubiquitin-like domain of this protein is found at the C-terminus and lacks the canonical gly-gly motif of ubiquitin required for ubiquitinization. DC_UbP is expressed in tumor cells but not in normal human adult tissue suggesting a role for DC_UbP in tumorogenesis.
Probab=98.71 E-value=5.1e-08 Score=68.67 Aligned_cols=66 Identities=18% Similarity=0.229 Sum_probs=53.4
Q ss_pred EEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEE
Q 030498 69 SILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQV 146 (176)
Q Consensus 69 tV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L 146 (176)
.|+..+|+.+ .|.+++||.|||..|+..... |..+. .|.|.|+ .++|+.+|.+|||++|++|
T Consensus 2 ~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi-~~~~q--------------~Li~~G~-~L~D~~~l~~~~i~~~~tv 65 (70)
T cd01794 2 KVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGV-DPCCQ--------------RWFFSGK-LLTDKTRLQETKIQKDYVV 65 (70)
T ss_pred eEEcCCCCEEEEEECCcChHHHHHHHHHHHhCC-CHHHe--------------EEEECCe-ECCCCCCHHHcCCCCCCEE
Confidence 4677889998 889999999999999988643 32222 6789997 5777899999999999999
Q ss_pred EEEe
Q 030498 147 QFVP 150 (176)
Q Consensus 147 ~Fk~ 150 (176)
+..-
T Consensus 66 ~~~~ 69 (70)
T cd01794 66 QVIV 69 (70)
T ss_pred EEEe
Confidence 8753
No 20
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=98.67 E-value=7e-08 Score=63.66 Aligned_cols=62 Identities=23% Similarity=0.317 Sum_probs=49.5
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|+|+|...+ ..+ .|+.++||.+||..|+..+...+.+ ..|.|.+.. ++|+.+|.+|||+||
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~---------------~~L~~~g~~-L~d~~tL~~~~i~~~ 63 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQ---------------QRLIYKGKV-LEDDRTLADYNIQDG 63 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHH---------------EEEEECCEE-CCCCCCHHHcCCcCC
Confidence 688999888 455 8899999999999999988654432 256677764 556799999999998
Q ss_pred C
Q 030498 144 S 144 (176)
Q Consensus 144 d 144 (176)
+
T Consensus 64 ~ 64 (64)
T smart00213 64 S 64 (64)
T ss_pred C
Confidence 6
No 21
>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=98.62 E-value=1.4e-07 Score=62.88 Aligned_cols=65 Identities=26% Similarity=0.411 Sum_probs=51.9
Q ss_pred EEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEE
Q 030498 70 ILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQ 147 (176)
Q Consensus 70 V~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~ 147 (176)
|...+|..+ .+++++||.+||..|++.+...+.++ .|.|.++ .++|+.+|.+|||.||++|+
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~---------------~l~~~g~-~l~d~~~l~~~~v~~~~~i~ 65 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQ---------------RLIYAGK-ILKDDKTLSDYGIQDGSTLH 65 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHE---------------EEEECCc-CCCCcCCHHHCCCCCCCEEE
Confidence 566678888 78899999999999999986444432 5567776 45778899999999999998
Q ss_pred EEe
Q 030498 148 FVP 150 (176)
Q Consensus 148 Fk~ 150 (176)
++-
T Consensus 66 v~~ 68 (69)
T cd01769 66 LVL 68 (69)
T ss_pred EEE
Confidence 863
No 22
>PLN02560 enoyl-CoA reductase
Probab=98.60 E-value=9.7e-08 Score=84.50 Aligned_cols=70 Identities=30% Similarity=0.484 Sum_probs=55.7
Q ss_pred eEEEEEecCCcee-----EecCcccHHHHHHHHHHHhhh-hhhcccCCccccccceeeeeeeecC---C---cccccCcc
Q 030498 66 MRISILKLDGTSF-----AVMNSATVKDLKLAIKKKVND-MEQSNLGHRHISWKHVWANYCLSHQ---N---QKLLDENS 133 (176)
Q Consensus 66 m~LtV~k~dG~~l-----~V~~~ATV~DLKkAI~~~~~~-~~~Rq~G~~~ISW~~VW~~f~L~~~---~---~kL~dD~~ 133 (176)
|+|+|..++|+.+ +|+++|||.|||++|++.... ++.||. |.+. + .+.++|++
T Consensus 1 M~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqR---------------L~~~~~~gk~~g~~L~d~k 65 (308)
T PLN02560 1 MKVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQR---------------LTLPLPPGKTRPTVLDDSK 65 (308)
T ss_pred CEEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheE---------------EEEecCCCCcCccccCCCC
Confidence 7889998888775 788999999999999999764 566654 3321 2 13567888
Q ss_pred hhhhcCCccCCEEEEEe
Q 030498 134 ALQDCGVRNNSQVQFVP 150 (176)
Q Consensus 134 ~L~dyGIkngd~L~Fk~ 150 (176)
+|.|||+++|++|+||.
T Consensus 66 tL~d~gv~~gstLy~kD 82 (308)
T PLN02560 66 SLKDYGLGDGGTVVFKD 82 (308)
T ss_pred CHHhcCCCCCceEEEEe
Confidence 99999999999999986
No 23
>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=98.60 E-value=1.2e-07 Score=67.30 Aligned_cols=69 Identities=22% Similarity=0.212 Sum_probs=48.5
Q ss_pred EEEEecCCcee----EecCcccHHHHHHHHHHHhhh-hhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCcc
Q 030498 68 ISILKLDGTSF----AVMNSATVKDLKLAIKKKVND-MEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRN 142 (176)
Q Consensus 68 LtV~k~dG~~l----~V~~~ATV~DLKkAI~~~~~~-~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkn 142 (176)
|.+.+.+.+.+ ..+++|||.|||.+|++.+.. ++.|+. +++.+.+. .+.|+++|.+|||++
T Consensus 3 i~~~~~~~k~~~~~~~~~~~aTV~dlk~~i~~~~~~~~~~Rqr-------------l~~~~~g~-~L~d~~tL~~~gv~~ 68 (77)
T cd01801 3 ILDAKRSDKPIGKLKVSSGDATIADLKKLIAKSSPQLTVNRQS-------------LRLEPKGK-SLKDDDTLVDLGVGA 68 (77)
T ss_pred eeccccCcCceeecccCCCCccHHHHHHHHHHHcCCCCcceeE-------------EEeCCCCc-ccCCcccHhhcCCCC
Confidence 44445542444 226889999999999999764 455543 12346665 455667899999999
Q ss_pred CCEEEEEe
Q 030498 143 NSQVQFVP 150 (176)
Q Consensus 143 gd~L~Fk~ 150 (176)
|++|+|+.
T Consensus 69 g~~lyvKD 76 (77)
T cd01801 69 GATLYVRD 76 (77)
T ss_pred CCEEEEee
Confidence 99999984
No 24
>cd01800 SF3a120_C Ubiquitin-like domain of Mammalian splicing factor SF3a_120. SF3a120_C Mammalian splicing factor SF3a consists of three subunits of 60, 66, and 120 kDa and functions early during pre-mRNA splicing by converting the U2 snRNP to its active form. The 120kDa subunit (SF3a120) has a carboxy-terminal ubiquitin-like domain and two SWAP (suppressor-of-white-apricot) domains, referred to collectively as the SURP module, at its amino-terminus.
Probab=98.59 E-value=1.6e-07 Score=66.32 Aligned_cols=67 Identities=16% Similarity=0.199 Sum_probs=54.5
Q ss_pred ecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEE
Q 030498 72 KLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFV 149 (176)
Q Consensus 72 k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk 149 (176)
+++|+.+ .|+.++||.+||..|+.....-+++| .|.|.+. +++|+.+|.+|||.+|+.|+..
T Consensus 4 ~l~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q---------------~L~~~G~-~L~d~~tL~~~~i~~g~~l~v~ 67 (76)
T cd01800 4 KLNGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQ---------------KLQYEGI-FIKDSNSLAYYNLANGTIIHLQ 67 (76)
T ss_pred ccCCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHE---------------EEEECCE-EcCCCCcHHHcCCCCCCEEEEE
Confidence 5788888 88999999999999999875433322 6778886 5666789999999999999988
Q ss_pred eeeec
Q 030498 150 PFVLS 154 (176)
Q Consensus 150 ~~l~~ 154 (176)
.+++.
T Consensus 68 ~~~~g 72 (76)
T cd01800 68 LKERG 72 (76)
T ss_pred EecCC
Confidence 88754
No 25
>cd01813 UBP_N UBP ubiquitin processing protease. The UBP (ubiquitin processing protease) domain (also referred to as USP which stands for "ubiquitin-specific protease") is present at in a large family of cysteine proteases that specifically cleave ubiquitin conjugates. This family includes Rpn11, UBP6 (USP14), USP7 (HAUSP). This domain is closely related to the amino-terminal ubiquitin-like domain of BAG1 (Bcl2-associated anthanogene1) protein and is found only in eukaryotes.
Probab=98.53 E-value=4.5e-07 Score=64.51 Aligned_cols=68 Identities=15% Similarity=0.287 Sum_probs=52.7
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeee--cCCcccccCcchhhhcCCc
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLS--HQNQKLLDENSALQDCGVR 141 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~--~~~~kL~dD~~~L~dyGIk 141 (176)
|+|+|. ..|+.+ .|..++||+|||.+|+.....-++||. .+. +.|. ++.|+..|.+|||+
T Consensus 1 ~~i~vk-~~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QK--------------Li~~~~~Gk-~l~D~~~L~~~~i~ 64 (74)
T cd01813 1 VPVIVK-WGGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQK--------------LLGLKVKGK-PAEDDVKISALKLK 64 (74)
T ss_pred CEEEEE-ECCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEE--------------EEeecccCC-cCCCCcCHHHcCCC
Confidence 455554 467778 889999999999999999875556554 332 4664 67788999999999
Q ss_pred cCCEEEEE
Q 030498 142 NNSQVQFV 149 (176)
Q Consensus 142 ngd~L~Fk 149 (176)
+|+.|+..
T Consensus 65 ~g~~i~lm 72 (74)
T cd01813 65 PNTKIMMM 72 (74)
T ss_pred CCCEEEEE
Confidence 99988754
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=98.52 E-value=7.3e-07 Score=64.81 Aligned_cols=78 Identities=14% Similarity=0.229 Sum_probs=65.2
Q ss_pred ccCCceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhc
Q 030498 61 EMGSAMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDC 138 (176)
Q Consensus 61 e~G~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dy 138 (176)
+....|+|.|...+|+.+ .|.++.|+..||.+++.+....+ .++.|.|+|..| +++.++.+|
T Consensus 7 ~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~---------------~~~rf~f~G~~L-~~~~T~~~l 70 (87)
T cd01763 7 EISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSM---------------NSVRFLFDGQRI-RDNQTPDDL 70 (87)
T ss_pred CCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCc---------------cceEEEECCeEC-CCCCCHHHc
Confidence 456779999999999998 89999999999999998875432 345799999854 556799999
Q ss_pred CCccCCEEEEEeeeec
Q 030498 139 GVRNNSQVQFVPFVLS 154 (176)
Q Consensus 139 GIkngd~L~Fk~~l~~ 154 (176)
||.|||+|.+.-++.+
T Consensus 71 ~m~d~d~I~v~l~l~G 86 (87)
T cd01763 71 GMEDGDEIEVMLEQTG 86 (87)
T ss_pred CCCCCCEEEEEEeccc
Confidence 9999999999877653
No 27
>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=98.50 E-value=3.6e-07 Score=66.86 Aligned_cols=69 Identities=19% Similarity=0.143 Sum_probs=56.7
Q ss_pred ceEEEEEecCCcee----EecCcccHHHHHHHHHHHhh-hhh-hcccCCccccccceeeeeeeecCCcccccCcchhhhc
Q 030498 65 AMRISILKLDGTSF----AVMNSATVKDLKLAIKKKVN-DME-QSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDC 138 (176)
Q Consensus 65 Am~LtV~k~dG~~l----~V~~~ATV~DLKkAI~~~~~-~~~-~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dy 138 (176)
+|+|+|...+|+.+ .+.+++||+|||..|+.... ..+ ++| .|-|.|. ++.|+.+|.+|
T Consensus 1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~Q---------------rLIy~GK-iLkD~~tL~~~ 64 (79)
T cd01790 1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQ---------------RLIYSGK-LLPDHLKLRDV 64 (79)
T ss_pred CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHe---------------EEEEcCe-eccchhhHHHH
Confidence 48999999999995 44899999999999998874 232 323 6899997 66788999999
Q ss_pred C--CccCCEEEEE
Q 030498 139 G--VRNNSQVQFV 149 (176)
Q Consensus 139 G--Ikngd~L~Fk 149 (176)
+ |.+|.+||.+
T Consensus 65 ~~~~~~~~tiHLV 77 (79)
T cd01790 65 LRKQDEYHMVHLV 77 (79)
T ss_pred hhcccCCceEEEE
Confidence 8 9999998875
No 28
>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=98.44 E-value=4.6e-07 Score=82.36 Aligned_cols=70 Identities=17% Similarity=0.288 Sum_probs=57.2
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhh--hhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCc
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVND--MEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVR 141 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~--~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIk 141 (176)
|+|+|+..+|+.+ .|..+.||.|||+.|+..... ++..+ ..|.|.|+ +++|+.+|.+|||+
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~--------------QkLIy~Gk-iL~Dd~tL~dy~I~ 65 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQ--------------QKLIYSGK-ILSDDKTVREYKIK 65 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhH--------------eEEEECCE-ECCCCCcHHHcCCC
Confidence 8999999999999 889999999999999987641 33222 26889997 56677899999999
Q ss_pred cCCEEEEEe
Q 030498 142 NNSQVQFVP 150 (176)
Q Consensus 142 ngd~L~Fk~ 150 (176)
+|+.|++..
T Consensus 66 e~~~Ivvmv 74 (378)
T TIGR00601 66 EKDFVVVMV 74 (378)
T ss_pred CCCEEEEEe
Confidence 999877653
No 29
>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=9.5e-07 Score=63.25 Aligned_cols=53 Identities=21% Similarity=0.153 Sum_probs=44.2
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCc-cCCEEE
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVR-NNSQVQ 147 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIk-ngd~L~ 147 (176)
.|.++.||.+||..|+..+...++.| .| |.+..|.+|+.+|.+|||+ ||+.|+
T Consensus 18 ~v~~~~TV~~lK~kI~~~~gip~~~Q---------------rL-~~G~~L~dD~~tL~~ygi~~~g~~~~ 71 (75)
T cd01799 18 TVRPDMTVAQLKDKVFLDYGFPPAVQ---------------RW-VIGQRLARDQETLYSHGIRTNGDSAF 71 (75)
T ss_pred EECCCCcHHHHHHHHHHHHCcCHHHE---------------EE-EcCCeeCCCcCCHHHcCCCCCCCEEE
Confidence 88899999999999998876544432 57 7888788899999999999 778875
No 30
>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=98.31 E-value=2.5e-06 Score=58.79 Aligned_cols=68 Identities=21% Similarity=0.294 Sum_probs=55.6
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|+|.|+..+|+.+ .|.++.||..|..++.+.....+. .++.|.|+|+.| +++.++.+|||.+|
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~--------------~~~~l~fdG~~L-~~~~T~~~~~ied~ 65 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPE--------------ESIRLIFDGKRL-DPNDTPEDLGIEDG 65 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT---------------TTEEEEETTEEE--TTSCHHHHT-STT
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCcc--------------ceEEEEECCEEc-CCCCCHHHCCCCCC
Confidence 7999999999988 889999999999999988754331 246899999865 55679999999999
Q ss_pred CEEEE
Q 030498 144 SQVQF 148 (176)
Q Consensus 144 d~L~F 148 (176)
|+|..
T Consensus 66 d~Idv 70 (72)
T PF11976_consen 66 DTIDV 70 (72)
T ss_dssp EEEEE
T ss_pred CEEEE
Confidence 99764
No 31
>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=98.25 E-value=1.8e-06 Score=62.75 Aligned_cols=56 Identities=18% Similarity=0.193 Sum_probs=44.2
Q ss_pred cCcccHHHHHHHHHHHhh--hhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEee
Q 030498 81 MNSATVKDLKLAIKKKVN--DMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPF 151 (176)
Q Consensus 81 ~~~ATV~DLKkAI~~~~~--~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~ 151 (176)
|-++||.+||..|+..+. -++. ..+.|.|.|+ .++|+.+|.+|||++|+.|+.+++
T Consensus 18 ~~~~TV~~LK~kI~~~~~egi~~~--------------dqQrLIy~GK-iL~D~~TL~dygI~~gstlhLv~~ 75 (75)
T cd01815 18 PGGYQVSTLKQLIAAQLPDSLPDP--------------ELIDLIHCGR-KLKDDQTLDFYGIQSGSTIHILRK 75 (75)
T ss_pred CccCcHHHHHHHHHHhhccCCCCh--------------HHeEEEeCCc-CCCCCCcHHHcCCCCCCEEEEEeC
Confidence 567999999999999873 2311 1237899997 567779999999999999998763
No 32
>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=98.25 E-value=2.2e-06 Score=62.40 Aligned_cols=73 Identities=25% Similarity=0.369 Sum_probs=41.3
Q ss_pred CCceEEEEEecCCcee-EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecC---Cccc-ccCcchhhh
Q 030498 63 GSAMRISILKLDGTSF-AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQ---NQKL-LDENSALQD 137 (176)
Q Consensus 63 G~Am~LtV~k~dG~~l-~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~---~~kL-~dD~~~L~d 137 (176)
.++|.|.|++.||..= +|++++||.+|+..|.+.+..-... +.|+.+ .+.+ .+++++|++
T Consensus 2 ~~~milRvrS~dG~~Rie~~~~~t~~~L~~kI~~~l~~~~~~---------------~~L~~~~~~~~~l~s~~~~tl~~ 66 (80)
T PF11543_consen 2 ASSMILRVRSKDGMKRIEVSPSSTLSDLKEKISEQLSIPDSS---------------QSLSKDRNNKEELKSSDSKTLSS 66 (80)
T ss_dssp ----EEEEE-SSEEEEEEE-TTSBHHHHHHHHHHHS---TTT------------------BSSGGGGGCSSS-TT-CCCC
T ss_pred CccEEEEEECCCCCEEEEcCCcccHHHHHHHHHHHcCCCCcc---------------eEEEecCCCCcccccCCcCCHHH
Confidence 4689999999999877 9999999999999999998642211 112111 2233 267899999
Q ss_pred cCCccCCEEEEEe
Q 030498 138 CGVRNNSQVQFVP 150 (176)
Q Consensus 138 yGIkngd~L~Fk~ 150 (176)
+||+.||.|+.++
T Consensus 67 lglkHGdmlyL~~ 79 (80)
T PF11543_consen 67 LGLKHGDMLYLKP 79 (80)
T ss_dssp T---TT-EEE---
T ss_pred cCCCCccEEEEec
Confidence 9999999887654
No 33
>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=98.07 E-value=8.5e-06 Score=62.85 Aligned_cols=59 Identities=24% Similarity=0.265 Sum_probs=51.0
Q ss_pred eeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEe
Q 030498 77 SFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVP 150 (176)
Q Consensus 77 ~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~ 150 (176)
.+.|.+++||.+||..|..+|.-.|..| .|.++|+.|.||.++|++|||-.|+.|...-
T Consensus 18 ~L~V~~~~TVg~LK~lImQ~f~V~P~dQ---------------kL~~dG~~L~DDsrTLssyGv~sgSvl~Lli 76 (107)
T cd01795 18 ALLVSANQTLKELKIQIMHAFSVAPFDQ---------------NLSIDGKILSDDCATLGTLGVIPESVILLKA 76 (107)
T ss_pred eEEeCccccHHHHHHHHHHHhcCCcccc---------------eeeecCceeccCCccHHhcCCCCCCEEEEEe
Confidence 3389999999999999999998777655 4667788999999999999999999887653
No 34
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.01 E-value=1.4e-05 Score=74.98 Aligned_cols=79 Identities=18% Similarity=0.279 Sum_probs=65.0
Q ss_pred CceEEEEEecCCcee-EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCcc
Q 030498 64 SAMRISILKLDGTSF-AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRN 142 (176)
Q Consensus 64 ~Am~LtV~k~dG~~l-~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkn 142 (176)
..++|+|...+.+.- .|+.++||.+||..|...|.--+. + .+|.|-|.. +.|..+|..|||.|
T Consensus 14 ~~irV~Vkt~~dk~~~~V~~~ssV~qlKE~I~~~f~a~~d-q--------------lvLIfaGrI-LKD~dTL~~~gI~D 77 (493)
T KOG0010|consen 14 SLIRVTVKTPKDKYEVNVASDSSVLQLKELIAQRFGAPPD-Q--------------LVLIYAGRI-LKDDDTLKQYGIQD 77 (493)
T ss_pred ceeEEEEecCCcceeEecccchHHHHHHHHHHHhcCCChh-H--------------eeeeecCcc-ccChhhHHHcCCCC
Confidence 359999999999665 899999999999999999954333 2 389999974 55888999999999
Q ss_pred CCEEEEEeeeecCCcc
Q 030498 143 NSQVQFVPFVLSKGSG 158 (176)
Q Consensus 143 gd~L~Fk~~l~~~~~~ 158 (176)
|-+||.+.+...+-..
T Consensus 78 g~TvHLVik~~~~~~~ 93 (493)
T KOG0010|consen 78 GHTVHLVIKSQPRPTG 93 (493)
T ss_pred CcEEEEEeccCCCCCC
Confidence 9999999988654433
No 35
>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=98.00 E-value=3e-05 Score=56.24 Aligned_cols=70 Identities=17% Similarity=0.206 Sum_probs=50.8
Q ss_pred eEEEEEecCCcee---EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeee-ecCCc-----ccccCcchhh
Q 030498 66 MRISILKLDGTSF---AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCL-SHQNQ-----KLLDENSALQ 136 (176)
Q Consensus 66 m~LtV~k~dG~~l---~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L-~~~~~-----kL~dD~~~L~ 136 (176)
++|.|..-..... .++.+.||.+||..+++.+.-.++.+ .| .+++. .|.+|.+.|.
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~m---------------rL~l~~~~~~~~~~l~~d~~~L~ 66 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSM---------------RLQLFDGDDKLVSKLDDDDALLG 66 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccce---------------EEEEEcCCCCeEeecCCCccEee
Confidence 3455555433222 58999999999999999986555432 22 23433 3789999999
Q ss_pred hcCCccCCEEEEEe
Q 030498 137 DCGVRNNSQVQFVP 150 (176)
Q Consensus 137 dyGIkngd~L~Fk~ 150 (176)
+||++||..|+.+.
T Consensus 67 ~y~~~dg~~IhVvD 80 (84)
T cd01789 67 SYPVDDGCRIHVID 80 (84)
T ss_pred eccCCCCCEEEEEe
Confidence 99999999998875
No 36
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=97.85 E-value=9.1e-05 Score=53.42 Aligned_cols=72 Identities=19% Similarity=0.271 Sum_probs=50.4
Q ss_pred eEEEEEecCCc--ee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeee--cC---CcccccCcchhh
Q 030498 66 MRISILKLDGT--SF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLS--HQ---NQKLLDENSALQ 136 (176)
Q Consensus 66 m~LtV~k~dG~--~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~--~~---~~kL~dD~~~L~ 136 (176)
++|.|.....+ .. .++.+.||.+||..|+..+.-.++.+. ..+. .+ ...+.+|.+.|.
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~-------------L~l~~~~~~~~~~~~~dd~~~L~ 68 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMR-------------LQLKSDKDDSKIEELDDDDATLG 68 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEE-------------EEEE-TSSSSEEEESSGSSSBCC
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEE-------------EEEEecCCCccccccCCCccEee
Confidence 46777776664 44 789999999999999999865444221 0111 11 134578999999
Q ss_pred hcCCccCCEEEEEe
Q 030498 137 DCGVRNNSQVQFVP 150 (176)
Q Consensus 137 dyGIkngd~L~Fk~ 150 (176)
+||++||++|+...
T Consensus 69 ~y~~~dg~~i~V~D 82 (87)
T PF14560_consen 69 SYGIKDGMRIHVVD 82 (87)
T ss_dssp HHT-STTEEEEEEE
T ss_pred cCCCCCCCEEEEEe
Confidence 99999999998764
No 37
>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=97.61 E-value=0.00015 Score=51.72 Aligned_cols=73 Identities=21% Similarity=0.296 Sum_probs=48.5
Q ss_pred ceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeee-cCCcccccCcchhhhcCCc
Q 030498 65 AMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLS-HQNQKLLDENSALQDCGVR 141 (176)
Q Consensus 65 Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~-~~~~kL~dD~~~L~dyGIk 141 (176)
-++|+|.-.+|..+ .+|.+.||++|--.|-..+..-.....++ + .|.|+ ..+. .++++.+|.++||.
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~--------~-~~~L~~~~g~-~L~~~~tL~~~gV~ 71 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGH--------G-QWVLARAGGR-PLDPDQTLADAGVR 71 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT---------E--EEEG-GGTE-EEETTSBCGGGT--
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCc--------c-eEEEEecCCc-ccCCcCcHhHcCCC
Confidence 46899999888888 88999999999999999987422221211 1 34777 5565 78889999999999
Q ss_pred cCCEEE
Q 030498 142 NNSQVQ 147 (176)
Q Consensus 142 ngd~L~ 147 (176)
|||.|+
T Consensus 72 dGd~L~ 77 (79)
T PF08817_consen 72 DGDVLV 77 (79)
T ss_dssp TT-EEE
T ss_pred CCCEEE
Confidence 999876
No 38
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=97.21 E-value=0.00061 Score=60.13 Aligned_cols=73 Identities=22% Similarity=0.195 Sum_probs=50.7
Q ss_pred eEEEEEecCCcee----EecCcccHHHHHHHHHHHh-hhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCC
Q 030498 66 MRISILKLDGTSF----AVMNSATVKDLKLAIKKKV-NDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGV 140 (176)
Q Consensus 66 m~LtV~k~dG~~l----~V~~~ATV~DLKkAI~~~~-~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGI 140 (176)
|.|++.++++... ..+..+|++||++||.+.. +.+|.|+. -++-....++.|. |+.+|++||.
T Consensus 1 m~It~~srs~~~~~~~~~~s~~~ti~d~~~~~~~~~~k~~~~~~r-----------~tlr~e~kgkpl~-~~s~l~e~~~ 68 (297)
T KOG1639|consen 1 MEITIASRSKGLRIKEKDLSGSETIDDLLKAISAKNLKITPYRIR-----------LTLRVEPKGKPLI-DNSKLQEYGD 68 (297)
T ss_pred CceeeeccCCCceeeeecCCCCCcHHHHHHHHHHhhhccCccchh-----------heeeccCCCcccc-chhHHHHhcc
Confidence 6788888877444 4467799999999998774 34553322 1233445565554 5567999999
Q ss_pred ccCCEEEEEe
Q 030498 141 RNNSQVQFVP 150 (176)
Q Consensus 141 kngd~L~Fk~ 150 (176)
.+|++++++.
T Consensus 69 ~s~~~i~vKD 78 (297)
T KOG1639|consen 69 GSGATIYVKD 78 (297)
T ss_pred CCCCEEEEec
Confidence 9999888874
No 39
>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=97.17 E-value=0.00083 Score=52.89 Aligned_cols=62 Identities=27% Similarity=0.403 Sum_probs=47.4
Q ss_pred ceEEEEEecCCcee-EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCcc
Q 030498 65 AMRISILKLDGTSF-AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRN 142 (176)
Q Consensus 65 Am~LtV~k~dG~~l-~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkn 142 (176)
.|=|.|++.--+.| ....+.||.|||+.|+...+.-|+-|. |..+++ +++|+++|.|||+.+
T Consensus 2 dvFlmIrR~KTTiF~dakes~tVlelK~~iegI~k~pp~dQr---------------L~kd~q-vLeD~kTL~d~g~t~ 64 (119)
T cd01788 2 DVFLMIRRHKTTIFTDAKESTTVYELKRIVEGILKRPPEDQR---------------LYKDDQ-LLDDGKTLGDCGFTS 64 (119)
T ss_pred ceEEEEEecceEEEeecCCcccHHHHHHHHHHHhcCChhHhe---------------eecCce-eecccccHHHcCccc
Confidence 35567777766666 888999999999999999976554332 444444 899999999999943
No 40
>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=97.16 E-value=0.0011 Score=51.75 Aligned_cols=81 Identities=15% Similarity=0.190 Sum_probs=59.8
Q ss_pred ceEEEEEecCCcee---EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcC--
Q 030498 65 AMRISILKLDGTSF---AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCG-- 139 (176)
Q Consensus 65 Am~LtV~k~dG~~l---~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyG-- 139 (176)
.+.|..+--||+-+ .+.+++||++||..|+..... .++.++ +-+...-|.|.|+ .+.|+.+|.+|+
T Consensus 4 ~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~--~ke~~P------~~~~~qKLIysGK-iLeD~~TL~d~~~p 74 (113)
T cd01814 4 QIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPK--DKEVGP------KTVNEVKLISAGK-ILENSKTVGECRSP 74 (113)
T ss_pred cEEEEEEccCCCccCccccChhhHHHHHHHHHHHhccc--ccccCC------CCHHHeEEEeCCe-ecCCCCcHHHhCCc
Confidence 45566677799888 778999999999999988743 111211 2234447899996 777889999999
Q ss_pred ----CccCCEEEEEeeeec
Q 030498 140 ----VRNNSQVQFVPFVLS 154 (176)
Q Consensus 140 ----Ikngd~L~Fk~~l~~ 154 (176)
+....++|.+.|-..
T Consensus 75 ~g~~~~~~~TmHvvlr~~~ 93 (113)
T cd01814 75 VGDIAGGVITMHVVVQPPL 93 (113)
T ss_pred ccccCCCceEEEEEecCCC
Confidence 777888888777644
No 41
>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=97.12 E-value=0.0034 Score=37.88 Aligned_cols=61 Identities=28% Similarity=0.429 Sum_probs=45.6
Q ss_pred CCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEe
Q 030498 74 DGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVP 150 (176)
Q Consensus 74 dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~ 150 (176)
+|... .+++++||.+|+..|...+...+ ..|.|.+.+. ...+...+.++++.+|+.|.|..
T Consensus 6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~---------------~~~~l~~~~~-~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 6 DGKTVELLVPSGTTVADLKEKLAKKLGLPP---------------EQQRLLVNGK-ILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred CCCEEEEEcCCCCcHHHHHHHHHHHHCcCh---------------HHeEEEECCe-ECCCCCcHHHcCCCCCCEEEEEe
Confidence 56666 66779999999999999885222 2346777765 45555666899999999999875
No 42
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=97.10 E-value=0.00054 Score=56.18 Aligned_cols=75 Identities=21% Similarity=0.321 Sum_probs=59.4
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|.|.|.-+-|+.+ +|..+.||..+|.-|+..-. .|..|. .|.|.+..|.|+ .+|+||+|.--
T Consensus 1 m~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~eg-Ip~dqq--------------rlifag~qLedg-rtlSDY~Iqke 64 (156)
T KOG0004|consen 1 MQIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEG-IPPDQQ--------------RLIFAGKQLEDG-RTLSDYNIQKE 64 (156)
T ss_pred CccchhhccccceeeeecccccHHHHHHhhhcccC-CCchhh--------------hhhhhhcccccC-Ccccccccccc
Confidence 6788888888777 99999999999999997653 222122 466888876665 89999999999
Q ss_pred CEEEEEeeeecCC
Q 030498 144 SQVQFVPFVLSKG 156 (176)
Q Consensus 144 d~L~Fk~~l~~~~ 156 (176)
++|+.+-++++-.
T Consensus 65 stl~l~l~l~Gg~ 77 (156)
T KOG0004|consen 65 STLHLVLRLRGGA 77 (156)
T ss_pred ceEEEEEEecCCc
Confidence 9999999987643
No 43
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=97.00 E-value=0.0014 Score=59.42 Aligned_cols=70 Identities=17% Similarity=0.304 Sum_probs=58.3
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhh-hhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCcc
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVN-DMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRN 142 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~-~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkn 142 (176)
|+|+|..+.++.| .|.++-||.+||+.|+.... .||..+. -|.|.|+ .+.|..++.+|+|..
T Consensus 1 m~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~Q--------------kLIy~Gk-iL~D~~tv~Eykv~E 65 (340)
T KOG0011|consen 1 MKLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQ--------------KLIYSGK-ILKDETTVGEYKVKE 65 (340)
T ss_pred CeeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhh--------------eeeecce-eccCCcchhhhcccc
Confidence 8999999999999 89999999999999998864 3665333 5788886 677888999999999
Q ss_pred CCEEEEEe
Q 030498 143 NSQVQFVP 150 (176)
Q Consensus 143 gd~L~Fk~ 150 (176)
++-|.++-
T Consensus 66 ~~fiVvMl 73 (340)
T KOG0011|consen 66 KKFIVVML 73 (340)
T ss_pred CceEEEEE
Confidence 98665553
No 44
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=96.72 E-value=0.011 Score=45.55 Aligned_cols=72 Identities=24% Similarity=0.272 Sum_probs=50.2
Q ss_pred ceEEEEEecCCcee---EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCc
Q 030498 65 AMRISILKLDGTSF---AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVR 141 (176)
Q Consensus 65 Am~LtV~k~dG~~l---~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIk 141 (176)
++.|..+..||+-+ .++++.||++||..|...+...-+ . +..|+ ...-|.+.|. +++|+++|+++++.
T Consensus 2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~--~--~p~s~----~~lRLI~~Gr-iL~d~~tL~~~~~~ 72 (111)
T PF13881_consen 2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWE--E--RPKSP----SDLRLIYAGR-ILEDNKTLSDCRLP 72 (111)
T ss_dssp SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSS--S--TT-SG----GGEEEEETTE-EE-SSSBTGGGT--
T ss_pred eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccc--c--CCCCh----hhEEEEeCCe-ecCCcCcHHHhCCC
Confidence 57788888899944 778999999999999997743111 0 12233 3367888897 88899999999999
Q ss_pred cCCE
Q 030498 142 NNSQ 145 (176)
Q Consensus 142 ngd~ 145 (176)
-|+.
T Consensus 73 ~~~~ 76 (111)
T PF13881_consen 73 SGET 76 (111)
T ss_dssp TTSE
T ss_pred CCCC
Confidence 9885
No 45
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=96.71 E-value=0.00041 Score=54.49 Aligned_cols=73 Identities=22% Similarity=0.305 Sum_probs=59.7
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|.+.|.++-|+.+ +|.++-||.-||.-|+++--.-|+ ++ .|.|.+. .+.|.-+|.+|||+.-
T Consensus 1 ~~~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~-~~--------------~L~~~~k-~LED~~Tla~Y~i~~~ 64 (128)
T KOG0003|consen 1 MQIFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPD-QQ--------------RLIFAGK-QLEDGRTLADYNIQKE 64 (128)
T ss_pred CcEEEEEeeCceEEEEecccchHHHHHHHhccccCCCHH-HH--------------HHHhccc-ccccCCcccccCccch
Confidence 4577888899888 889999999999999988644332 22 4557675 7888999999999999
Q ss_pred CEEEEEeeeec
Q 030498 144 SQVQFVPFVLS 154 (176)
Q Consensus 144 d~L~Fk~~l~~ 154 (176)
|+|+.+.+|++
T Consensus 65 ~Tl~~~~rL~G 75 (128)
T KOG0003|consen 65 STLHLVLRLRG 75 (128)
T ss_pred hhhhhhHHHhc
Confidence 99999999875
No 46
>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=96.15 E-value=0.031 Score=40.34 Aligned_cols=67 Identities=21% Similarity=0.246 Sum_probs=52.0
Q ss_pred ceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeee--cCCcccccCcchhhhcCC
Q 030498 65 AMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLS--HQNQKLLDENSALQDCGV 140 (176)
Q Consensus 65 Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~--~~~~kL~dD~~~L~dyGI 140 (176)
..+|.|+--||+.+ ....+.||.||...|....... .. ..|.|. |-...|.+++.+|.|.|+
T Consensus 4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~---~~-----------~~f~L~t~fP~k~l~~~~~Tl~eagL 69 (79)
T cd01770 4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEF---AA-----------RPFTLMTAFPVKELSDESLTLKEANL 69 (79)
T ss_pred eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCC---CC-----------CCEEEecCCCCcccCCCCCcHHHCCC
Confidence 47899999999999 7889999999999998765211 11 245664 556678888999999999
Q ss_pred ccCCE
Q 030498 141 RNNSQ 145 (176)
Q Consensus 141 kngd~ 145 (176)
.|...
T Consensus 70 ~~s~v 74 (79)
T cd01770 70 LNAVI 74 (79)
T ss_pred cCcEE
Confidence 98654
No 47
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=96.05 E-value=0.064 Score=34.52 Aligned_cols=70 Identities=23% Similarity=0.283 Sum_probs=52.1
Q ss_pred EEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCE
Q 030498 68 ISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQ 145 (176)
Q Consensus 68 LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~ 145 (176)
+.|....|+.+ .|...-+|..+|..|.....-. +...++.+.+.. +.|...|.+|+|.+++.
T Consensus 2 ~~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~---------------~~~q~~~~~~~~-l~d~~~l~~~~i~~~~~ 65 (75)
T KOG0001|consen 2 IFVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIP---------------VDQQRLIFGGKP-LEDGRTLADYNIQEGST 65 (75)
T ss_pred EEEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCC---------------CeeEEEEECCEE-CcCCCcHHHhCCCCCCE
Confidence 34566788887 7888899999998888775211 122357788864 44559999999999999
Q ss_pred EEEEeeee
Q 030498 146 VQFVPFVL 153 (176)
Q Consensus 146 L~Fk~~l~ 153 (176)
+....++.
T Consensus 66 ~~l~~~~~ 73 (75)
T KOG0001|consen 66 LHLVLSLR 73 (75)
T ss_pred EEEEEecC
Confidence 98877764
No 48
>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=96.02 E-value=0.067 Score=37.59 Aligned_cols=74 Identities=22% Similarity=0.335 Sum_probs=55.7
Q ss_pred cCCceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeee--cCCcccccCc-chhh
Q 030498 62 MGSAMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLS--HQNQKLLDEN-SALQ 136 (176)
Q Consensus 62 ~G~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~--~~~~kL~dD~-~~L~ 136 (176)
.....+|.|+--||+.+ ....+.||.+|-.-|.........+ .|.|. |-...+.+++ .+|.
T Consensus 3 ~~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~--------------~f~L~~~~Pr~~l~~~~~~tl~ 68 (82)
T PF00789_consen 3 ESDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEES--------------DFELITAFPRRELTDEDSKTLE 68 (82)
T ss_dssp TSSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTS--------------SEEEEESSSTEECCSTTTSBTC
T ss_pred CCCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCc--------------cEEEEeCCCCcCCCccccccHH
Confidence 45678999999999999 8899999999999998876432210 24443 3345555555 8999
Q ss_pred hcCCccCCEEEEE
Q 030498 137 DCGVRNNSQVQFV 149 (176)
Q Consensus 137 dyGIkngd~L~Fk 149 (176)
|.|+-.++.|...
T Consensus 69 e~~l~p~~~l~v~ 81 (82)
T PF00789_consen 69 EAGLLPSATLIVE 81 (82)
T ss_dssp CCTTSSCEEEEEE
T ss_pred HhcCCCCeEEEEE
Confidence 9999999988764
No 49
>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=93.57 E-value=0.44 Score=33.37 Aligned_cols=64 Identities=19% Similarity=0.253 Sum_probs=47.1
Q ss_pred ceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeee--cCCccccc--Ccchhhhc
Q 030498 65 AMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLS--HQNQKLLD--ENSALQDC 138 (176)
Q Consensus 65 Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~--~~~~kL~d--D~~~L~dy 138 (176)
..+|.|+--||+.+ ..+.++||.||...|...... ...|.|. |-...+.+ .+.+|.+.
T Consensus 2 ~t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~----------------~~~f~L~t~~Pr~~~~~~~~~~TL~e~ 65 (77)
T cd01767 2 TTKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP----------------AEPFTLMTSFPRRVLTDLDYELTLQEA 65 (77)
T ss_pred cEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC----------------CCCEEEEeCCCCccCCCCCccCcHHHc
Confidence 35789999999998 889999999999999866421 1233333 33444555 78999999
Q ss_pred CCccCC
Q 030498 139 GVRNNS 144 (176)
Q Consensus 139 GIkngd 144 (176)
|+.++.
T Consensus 66 gL~~s~ 71 (77)
T cd01767 66 GLVNEV 71 (77)
T ss_pred CCccce
Confidence 999654
No 50
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=93.48 E-value=0.11 Score=53.20 Aligned_cols=67 Identities=21% Similarity=0.303 Sum_probs=55.1
Q ss_pred EEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCE
Q 030498 68 ISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQ 145 (176)
Q Consensus 68 LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~ 145 (176)
|.|..+|...- .|....||.+||..|.+.++.-.+.| .|.|.|. ++.|++++++||| ||-.
T Consensus 5 v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~q---------------r~i~~gr-vl~~~k~vq~~~v-dgk~ 67 (1143)
T KOG4248|consen 5 VLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQ---------------RLIYQGR-VLQDDKKVQEYNV-DGKV 67 (1143)
T ss_pred eeeeecccceeEEEechHHHHHHHHHHHHHhcccccccc---------------eeeecce-eeccchhhhhccC-CCeE
Confidence 88999999877 77888999999999999987532211 5678886 6777889999999 9999
Q ss_pred EEEEee
Q 030498 146 VQFVPF 151 (176)
Q Consensus 146 L~Fk~~ 151 (176)
||.+.|
T Consensus 68 ~hlver 73 (1143)
T KOG4248|consen 68 IHLVER 73 (1143)
T ss_pred EEeecc
Confidence 998877
No 51
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=93.31 E-value=0.3 Score=38.76 Aligned_cols=67 Identities=25% Similarity=0.439 Sum_probs=41.3
Q ss_pred EecC-cccHHHHHHHHHHHhhh----hhhc------------ccCCccccccceeeeeeeecCC-c-ccc---cCcchhh
Q 030498 79 AVMN-SATVKDLKLAIKKKVND----MEQS------------NLGHRHISWKHVWANYCLSHQN-Q-KLL---DENSALQ 136 (176)
Q Consensus 79 ~V~~-~ATV~DLKkAI~~~~~~----~~~R------------q~G~~~ISW~~VW~~f~L~~~~-~-kL~---dD~~~L~ 136 (176)
.|.. +.||.||+..|...+.. .|-| --|.+. .+..+.+++ . -++ +++.+|.
T Consensus 21 ~vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt-------~nLvInle~De~~iL~~~~~~~tL~ 93 (122)
T PF10209_consen 21 NVDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKT-------NNLVINLEDDEDWILDVSDDDKTLK 93 (122)
T ss_pred cCCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCc-------CCceeeccCCcceeeecCCCCCcHH
Confidence 4444 89999999999998752 1111 011110 111222221 1 134 7889999
Q ss_pred hcCCccCCEEEEEeee
Q 030498 137 DCGVRNNSQVQFVPFV 152 (176)
Q Consensus 137 dyGIkngd~L~Fk~~l 152 (176)
++||.|..+|.|-.+-
T Consensus 94 ~~gv~nETEiSfF~~~ 109 (122)
T PF10209_consen 94 ELGVENETEISFFNME 109 (122)
T ss_pred HcCCCccceeeeeCHH
Confidence 9999999999986553
No 52
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=92.41 E-value=0.27 Score=35.24 Aligned_cols=67 Identities=15% Similarity=0.225 Sum_probs=53.1
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
|.|.|..+.|+.+ .+.++-+|...|.-|+.+--.-|+-| .|.|.|+ -.+|+++-.+|.+.-|
T Consensus 1 m~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qq---------------rli~~gk-qm~DD~tA~~Y~~~~G 64 (70)
T KOG0005|consen 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQ---------------RLIYAGK-QMNDDKTAAHYNLLGG 64 (70)
T ss_pred CeeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhh---------------hhhhccc-cccccccHHHhhhccc
Confidence 6788999999999 88899999999999998865433322 3567776 3566778899999999
Q ss_pred CEEEE
Q 030498 144 SQVQF 148 (176)
Q Consensus 144 d~L~F 148 (176)
+.|+.
T Consensus 65 SVlHl 69 (70)
T KOG0005|consen 65 SVLHL 69 (70)
T ss_pred eeEee
Confidence 98764
No 53
>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=92.26 E-value=0.29 Score=36.27 Aligned_cols=66 Identities=20% Similarity=0.363 Sum_probs=49.3
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecC----CcccccCcchhhhcC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQ----NQKLLDENSALQDCG 139 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~----~~kL~dD~~~L~dyG 139 (176)
+.|+|....+..+ -|.+-.+|..||..|.+..... |.+ .|+|. ...|+.+..+|.+||
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~-----g~q-----------rLsfQepgg~rqlL~s~~sLA~yG 64 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCS-----GLQ-----------RLSFQEPGGERQLLSSRKSLADYG 64 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCcc-----cce-----------EEEeecCCcccccccccccHhhhc
Confidence 4688999988888 8899999999999999987542 112 22222 235788999999999
Q ss_pred CccCCEEE
Q 030498 140 VRNNSQVQ 147 (176)
Q Consensus 140 Ikngd~L~ 147 (176)
|=..-.+.
T Consensus 65 iFs~~~i~ 72 (80)
T cd01811 65 IFSKTNIC 72 (80)
T ss_pred ceeccEEE
Confidence 97765544
No 54
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=91.84 E-value=0.38 Score=33.44 Aligned_cols=52 Identities=10% Similarity=0.148 Sum_probs=36.3
Q ss_pred cCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEee
Q 030498 73 LDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPF 151 (176)
Q Consensus 73 ~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~ 151 (176)
.+|+.+.+..++|+.+||+.+..... .+-+.|=... .|+-++.||+|+|++|
T Consensus 5 vN~k~~~~~~~~tl~~lr~~~k~~~D---------------------I~I~NGF~~~------~d~~L~e~D~v~~Ikk 56 (57)
T PF14453_consen 5 VNEKEIETEENTTLFELRKESKPDAD---------------------IVILNGFPTK------EDIELKEGDEVFLIKK 56 (57)
T ss_pred ECCEEEEcCCCcCHHHHHHhhCCCCC---------------------EEEEcCcccC------CccccCCCCEEEEEeC
Confidence 36888888889999999988765431 2233333222 3567889999999986
No 55
>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=91.74 E-value=1.1 Score=30.79 Aligned_cols=69 Identities=25% Similarity=0.214 Sum_probs=48.0
Q ss_pred EEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeec-----CCcccccCcchhhhcCCcc
Q 030498 70 ILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSH-----QNQKLLDENSALQDCGVRN 142 (176)
Q Consensus 70 V~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~-----~~~kL~dD~~~L~dyGIkn 142 (176)
|.-+||+.. .|..++|+.||=..|..+...... . -|.|++ +...-++.++.|.+++.++
T Consensus 1 V~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~-~-------------~FgL~~~~~~~~~~~wL~~~k~l~~q~~~~ 66 (80)
T PF09379_consen 1 VRLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEK-E-------------YFGLQYQVDKDGEHHWLDLDKKLKKQLKKN 66 (80)
T ss_dssp EEESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSG-G-------------GEEEEE-EBTTSSEEEE-SSSBGGGSTBTS
T ss_pred CCCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCc-c-------------EEEEEEeecCCCcceeccCcccHHHHcCCC
Confidence 566789888 889999999999999999865321 1 256666 1234578888999998885
Q ss_pred CCEEEEEeee
Q 030498 143 NSQVQFVPFV 152 (176)
Q Consensus 143 gd~L~Fk~~l 152 (176)
+...+|.-|+
T Consensus 67 ~~~~~l~frv 76 (80)
T PF09379_consen 67 NPPFTLYFRV 76 (80)
T ss_dssp SSSEEEEEEE
T ss_pred CCCEEEEEEE
Confidence 5554444343
No 56
>COG5417 Uncharacterized small protein [Function unknown]
Probab=91.54 E-value=0.8 Score=33.97 Aligned_cols=73 Identities=11% Similarity=0.189 Sum_probs=43.4
Q ss_pred CceEEEEEe--cCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcC
Q 030498 64 SAMRISILK--LDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCG 139 (176)
Q Consensus 64 ~Am~LtV~k--~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyG 139 (176)
+-|+|||-. -+|..+ .+|.--++.-|=-.+-...+...-++.|+ ..-....+ .|+.++.+|.|||
T Consensus 3 m~ikVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~----------~Ikv~nKa-~llsgd~kL~d~~ 71 (81)
T COG5417 3 MHIKVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGT----------QIKVMNKA-QLLSGDDKLIDYQ 71 (81)
T ss_pred ceEEEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCC----------EEEEeccc-eEecCCceEEecc
Confidence 346666654 357777 66666676655544444433222223332 11233334 4788888999999
Q ss_pred CccCCEEE
Q 030498 140 VRNNSQVQ 147 (176)
Q Consensus 140 Ikngd~L~ 147 (176)
|.|||.|.
T Consensus 72 IadGD~Le 79 (81)
T COG5417 72 IADGDILE 79 (81)
T ss_pred ccCCCEEE
Confidence 99999874
No 57
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=91.05 E-value=0.93 Score=31.95 Aligned_cols=58 Identities=12% Similarity=0.284 Sum_probs=36.4
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeeeec
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFVLS 154 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l~~ 154 (176)
.++..+||.+|.+.+...++.... | ...+....+....+ .++=+++||+|-|.+-+.+
T Consensus 24 ~~~~~~tv~~L~~~l~~~~p~l~~---------~----~~~~~vavN~~~v~-----~~~~l~dgDeVai~PpvsG 81 (82)
T PLN02799 24 ELPAGSTTADCLAELVAKFPSLEE---------V----RSCCVLALNEEYTT-----ESAALKDGDELAIIPPISG 81 (82)
T ss_pred ECCCCCcHHHHHHHHHHHChhHHH---------H----hhCcEEEECCEEcC-----CCcCcCCCCEEEEeCCCCC
Confidence 677889999999999877632211 1 11122233333333 3456899999999887643
No 58
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=90.96 E-value=0.44 Score=36.95 Aligned_cols=63 Identities=22% Similarity=0.395 Sum_probs=42.6
Q ss_pred eEEEEEecCCcee-EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCcc
Q 030498 66 MRISILKLDGTSF-AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRN 142 (176)
Q Consensus 66 m~LtV~k~dG~~l-~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkn 142 (176)
|-|.|++.--..| .-..+-||.|||+.++..... |-.++ .+| + .+.+.|++|.++|.|+|...
T Consensus 3 ~f~~VrR~kttif~da~es~tV~elK~~l~gi~~~-Pvn~q--------rL~----k-md~eqlL~D~ktL~d~gfts 66 (110)
T KOG4495|consen 3 VFLRVRRHKTTIFTDAKESSTVFELKRKLEGILKR-PVNEQ--------RLY----K-MDTEQLLDDGKTLGDCGFTS 66 (110)
T ss_pred eeeeeeecceeEEeecCccccHHHHHHHHHHHHhC-CCcch--------hee----e-cCHHHHhhccchhhhccccc
Confidence 4566776655555 778899999999999988742 22111 112 2 23335999999999998654
No 59
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=90.06 E-value=2.6 Score=29.66 Aligned_cols=71 Identities=14% Similarity=0.249 Sum_probs=49.0
Q ss_pred CCceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeee--ecCCcccccC--cchhh
Q 030498 63 GSAMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCL--SHQNQKLLDE--NSALQ 136 (176)
Q Consensus 63 G~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L--~~~~~kL~dD--~~~L~ 136 (176)
|...+|.|+--||+.+ ..+.+.||.||-..|..... .+. ..|.| .|-.+.+.++ +++|.
T Consensus 2 ~~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~------~~~---------~~f~L~t~~Prk~l~~~d~~~tL~ 66 (80)
T smart00166 2 SDQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALT------DGN---------DPFTLNSPFPRRTFTKDDYSKTLL 66 (80)
T ss_pred CCeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHccc------CCC---------CCEEEEeCCCCcCCccccccCCHH
Confidence 4578999999999999 88899999999999933221 110 12444 3334444443 58999
Q ss_pred hcCCccCCEEEE
Q 030498 137 DCGVRNNSQVQF 148 (176)
Q Consensus 137 dyGIkngd~L~F 148 (176)
+.|+-.++.|..
T Consensus 67 e~gL~p~~~l~v 78 (80)
T smart00166 67 ELALLPSSTLVL 78 (80)
T ss_pred HCCCCCceEEEE
Confidence 999988876643
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=88.78 E-value=3.4 Score=29.38 Aligned_cols=71 Identities=17% Similarity=0.301 Sum_probs=49.5
Q ss_pred CceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCccccc--CcchhhhcC
Q 030498 64 SAMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLD--ENSALQDCG 139 (176)
Q Consensus 64 ~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~d--D~~~L~dyG 139 (176)
...+|.|+--||+.+ ..+.++|+.||...|...... .+ ++ .++..|-.+.+.+ .+.+|.+.|
T Consensus 3 ~~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~-----~~----~f-----~L~t~fPrk~~~~~d~~~TL~elg 68 (79)
T cd01772 3 TETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGN-----GG----PF-----TLMTPFPRKVFTEDDMEKPLQELG 68 (79)
T ss_pred cEEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCC-----CC----CE-----EEEeCCCCeECCcccccCCHHHCC
Confidence 357899999999999 788999999999999865321 00 00 1233344444543 368999999
Q ss_pred CccCCEEEE
Q 030498 140 VRNNSQVQF 148 (176)
Q Consensus 140 Ikngd~L~F 148 (176)
+-+.+.|..
T Consensus 69 L~Psa~L~v 77 (79)
T cd01772 69 LVPSAVLIV 77 (79)
T ss_pred CCCceEEEE
Confidence 999886653
No 61
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=87.89 E-value=2.5 Score=34.99 Aligned_cols=75 Identities=16% Similarity=0.236 Sum_probs=50.7
Q ss_pred eEEEEEecCCc----ee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeec-CCccc-ccCcchhhh
Q 030498 66 MRISILKLDGT----SF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSH-QNQKL-LDENSALQD 137 (176)
Q Consensus 66 m~LtV~k~dG~----~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~-~~~kL-~dD~~~L~d 137 (176)
|.|.|...+|. .+ .++.++||.||+..|......-++.+ +.|+. .+..| ..++..+.+
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~--------------~~L~~~~n~~l~~~~~~~~s~ 66 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQ--------------LYLTTNSNGQLSPSSDIPLSS 66 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccce--------------eEEEEeCCCeeCCCccccHHh
Confidence 67899999994 45 77899999999999998875433211 23333 34445 356667777
Q ss_pred cCCccCC----EEEEEeeeec
Q 030498 138 CGVRNNS----QVQFVPFVLS 154 (176)
Q Consensus 138 yGIkngd----~L~Fk~~l~~ 154 (176)
+.-.+.+ .|++..+|.+
T Consensus 67 l~~~~~~~~~~~l~l~~rl~G 87 (162)
T PF13019_consen 67 LLSSSQDSDFITLRLSLRLRG 87 (162)
T ss_pred hccCcCCCCceEEEEEEeccC
Confidence 7766665 3666777643
No 62
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=86.87 E-value=4.7 Score=31.06 Aligned_cols=73 Identities=12% Similarity=0.174 Sum_probs=57.1
Q ss_pred CCceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCC
Q 030498 63 GSAMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGV 140 (176)
Q Consensus 63 G~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGI 140 (176)
+.-++|.|...||+.+ -|..+|+..-|..|..+.. + --|+.|...|+|+++. ++.+=.+++.
T Consensus 18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~-------G--------l~~~s~RFlFdG~rI~-~~~TP~~L~m 81 (99)
T KOG1769|consen 18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQ-------G--------LSMNSLRFLFDGQRIR-ETHTPADLEM 81 (99)
T ss_pred cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHc-------C--------CccceEEEEECCcCcC-CCCChhhhCC
Confidence 5679999999888886 8889999888887765433 2 1367889999999754 4568889999
Q ss_pred ccCCEEEEEee
Q 030498 141 RNNSQVQFVPF 151 (176)
Q Consensus 141 kngd~L~Fk~~ 151 (176)
.+||++-+..-
T Consensus 82 Ed~D~Iev~~~ 92 (99)
T KOG1769|consen 82 EDGDEIEVVQE 92 (99)
T ss_pred cCCcEEEEEee
Confidence 99999877643
No 63
>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=86.55 E-value=5.4 Score=29.11 Aligned_cols=67 Identities=10% Similarity=0.164 Sum_probs=47.7
Q ss_pred CceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecC-C-cccc-------cCc
Q 030498 64 SAMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQ-N-QKLL-------DEN 132 (176)
Q Consensus 64 ~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~-~-~kL~-------dD~ 132 (176)
.+++|.|+--||+.+ ....+.||.+|-..|+..- . -..+|.|... + ..+. +..
T Consensus 3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~~~-~---------------~~~~f~L~t~FPrr~~~~~~~~~~~~~ 66 (85)
T cd01774 3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFSLK-E---------------TPEKFQIVTNFPRRVLPCLPSEGDPPP 66 (85)
T ss_pred ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhCC-C---------------CCCcEEEecCCCCccccccccccCcCC
Confidence 478999999999999 7789999999999995321 1 1134555544 2 2232 456
Q ss_pred chhhhcCCccCCEE
Q 030498 133 SALQDCGVRNNSQV 146 (176)
Q Consensus 133 ~~L~dyGIkngd~L 146 (176)
.+|.|.|+.+...|
T Consensus 67 ~TL~eaGL~~s~~L 80 (85)
T cd01774 67 PTLLEAGLSNSEVL 80 (85)
T ss_pred CCHHHcCCCCccEE
Confidence 79999999987744
No 64
>PLN02560 enoyl-CoA reductase
Probab=86.31 E-value=0.53 Score=42.03 Aligned_cols=68 Identities=19% Similarity=0.325 Sum_probs=44.1
Q ss_pred CCCCCCCHHHHhHhhhhccCC----ceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccce
Q 030498 44 DVPKKPTLSDVDTLISLEMGS----AMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHV 115 (176)
Q Consensus 44 dlp~~~Tl~ev~~~Iale~G~----Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~V 115 (176)
|+|++.|++||..+|+-..|. -.+|++...+|+.- .+..+.|+.|+- |......|- ...|+ .||||-|
T Consensus 19 ev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~g--v~~gstLy~-kDLGp-Qi~wrtV 92 (308)
T PLN02560 19 EVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYG--LGDGGTVVF-KDLGP-QVSYRTL 92 (308)
T ss_pred EcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcC--CCCCceEEE-EeCCC-cCchhhh
Confidence 789999999999999988764 26666654455432 455667887752 222222222 24565 4999865
No 65
>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=86.06 E-value=6.6 Score=30.84 Aligned_cols=76 Identities=21% Similarity=0.276 Sum_probs=53.9
Q ss_pred CceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCc-----ccccCcchhh
Q 030498 64 SAMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQ-----KLLDENSALQ 136 (176)
Q Consensus 64 ~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~-----kL~dD~~~L~ 136 (176)
+.+.|.|.-.||+.. .+..++||.|+-..|.+.... +. +.-|.|.+... .-++...+|.
T Consensus 2 ~~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l-~~-------------~~~F~L~~~~~~~~~~~~l~~~~~l~ 67 (207)
T smart00295 2 KPRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGI-RE-------------SEYFGLQFEDPDEDLSHWLDPAKTLL 67 (207)
T ss_pred CcEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCC-Cc-------------cceeEEEEEcCCCCcCeeCCCccCHH
Confidence 567899999999998 778899999999999999865 11 23355554321 1244566777
Q ss_pred hcCCc-cCCEEEEEeeee
Q 030498 137 DCGVR-NNSQVQFVPFVL 153 (176)
Q Consensus 137 dyGIk-ngd~L~Fk~~l~ 153 (176)
+...+ ....++|..|.-
T Consensus 68 ~~~~~~~~~~l~fr~r~~ 85 (207)
T smart00295 68 DQDVKSEPLTLYFRVKFY 85 (207)
T ss_pred HhcCCCCCcEEEEEEEEc
Confidence 77766 455688887764
No 66
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=86.04 E-value=1.9 Score=30.26 Aligned_cols=58 Identities=19% Similarity=0.303 Sum_probs=38.7
Q ss_pred EecCc-ccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeeeec
Q 030498 79 AVMNS-ATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFVLS 154 (176)
Q Consensus 79 ~V~~~-ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l~~ 154 (176)
.++.+ +||.||..++...+.... -+..+|....+....++ +.=|++||+|.|.+-+.+
T Consensus 21 ~~~~~~~tv~~L~~~L~~~~p~l~-------------~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~PpvsG 79 (80)
T TIGR01682 21 ELPDESTTVGELKEHLAKEGPELA-------------ASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIPPVSG 79 (80)
T ss_pred ECCCCCcCHHHHHHHHHHhCchhh-------------hhccceEEEECCEEcCC-----CcCcCCCCEEEEeCCCCC
Confidence 56666 899999999988874110 02233444444444443 567899999999988754
No 67
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=85.75 E-value=3.4 Score=26.51 Aligned_cols=55 Identities=18% Similarity=0.308 Sum_probs=42.9
Q ss_pred ccCCCCCCCHHHHhHhhhhccCCceEEEEEe-cCCcee--EecCcccHHHHHHHHHHHh
Q 030498 42 LADVPKKPTLSDVDTLISLEMGSAMRISILK-LDGTSF--AVMNSATVKDLKLAIKKKV 97 (176)
Q Consensus 42 L~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k-~dG~~l--~V~~~ATV~DLKkAI~~~~ 97 (176)
+++||+++|-+||.....- +|.-..+.+.. .++..- .+..=.+..|.++|++..-
T Consensus 3 v~nlp~~~t~~~l~~~f~~-~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~ 60 (70)
T PF00076_consen 3 VGNLPPDVTEEELRDFFSQ-FGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELN 60 (70)
T ss_dssp EESETTTSSHHHHHHHHHT-TSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred EcCCCCcCCHHHHHHHHHH-hhhcccccccccccccccceEEEEEcCHHHHHHHHHHcC
Confidence 5789999999999999988 99998888888 455544 3334467888888887654
No 68
>PF02597 ThiS: ThiS family; InterPro: IPR003749 ThiS (thiaminS) is a 66 aa protein involved in sulphur transfer. ThiS is coded in the thiCEFSGH operon in Escherichia coli. This family of proteins have two conserved Glycines at the COOH terminus. Thiocarboxylate is formed at the last G in the activation process. Sulphur is transferred from ThiI to ThiS in a reaction catalysed by IscS []. MoaD, a protein involved in sulphur transfer during molybdopterin synthesis, is about the same length and shows limited sequence similarity to ThiS. Both have the conserved GG at the COOH end.; PDB: 1JW9_D 1JWB_D 1JWA_D 3BII_D 1NVI_D 1FMA_D 1FM0_D 2QIE_G 2Q5W_D 2K5P_A ....
Probab=85.73 E-value=1.8 Score=29.41 Aligned_cols=59 Identities=19% Similarity=0.284 Sum_probs=41.8
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeeee
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFVL 153 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l~ 153 (176)
.++..+||.||..++...+.... +..+|...-+..+.++ .-.+.-+++||+|.|.+-+.
T Consensus 17 ~~~~~~tv~~ll~~l~~~~p~~~--------------~~~~~~v~vN~~~v~~--~~~~~~l~~gD~V~i~ppvs 75 (77)
T PF02597_consen 17 EVPEGSTVRDLLEALAERYPELA--------------LRDRVAVAVNGEIVPD--DGLDTPLKDGDEVAILPPVS 75 (77)
T ss_dssp EESSTSBHHHHHHHHCHHTGGGH--------------TTTTEEEEETTEEEGG--GTTTSBEETTEEEEEEESTS
T ss_pred ecCCCCcHHHHHHHHHhhccccc--------------cCccEEEEECCEEcCC--ccCCcCcCCCCEEEEECCCC
Confidence 66788999999999988774321 2222555555556665 35677899999999988664
No 69
>cd00754 MoaD Ubiquitin domain of MoaD-like proteins. MoaD family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor of a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. Moco contains a tricyclic pyranopterin, termed molybdopterin (MPT), that contains the cis-dithiolene group responsible for molybdenum ligation. This dithiolene group is generated by MPT synthase, the second major step in Moco biosynthesis. MPT synthase consists of a large (MoeE) and small (MoaD) subunit. The small subunit is inserted into the lare subunit to form the active site. The small subunit, which is structurally similar to ubiquitin, contains a C-terminal thiocarboxylated glycine residue that serves as a sulfur donor for the synthesis of the MPT dithiolene group.
Probab=84.44 E-value=1.9 Score=29.59 Aligned_cols=59 Identities=17% Similarity=0.191 Sum_probs=38.1
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeeeec
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFVLS 154 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l~~ 154 (176)
.++.+.||.||...+...+..... .+..++..+-+..... .++=|++||+|.|.+-+.+
T Consensus 21 ~~~~~~tv~~ll~~l~~~~~~~~~------------~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~ppv~G 79 (80)
T cd00754 21 ELPEGATVGELLDALEARYPGLLE------------ELLARVRIAVNGEYVR-----LDTPLKDGDEVAIIPPVSG 79 (80)
T ss_pred ECCCCCcHHHHHHHHHHHCchHHH------------hhhhcEEEEECCeEcC-----CCcccCCCCEEEEeCCCCC
Confidence 556689999999999887743100 1112244444444444 4567999999999987653
No 70
>KOG4147 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.02 E-value=2.6 Score=33.47 Aligned_cols=61 Identities=20% Similarity=0.329 Sum_probs=38.4
Q ss_pred CcccHHHHHHHHHHHhhhhh----hc------------ccCCccccccceeeeeeeecCC---cccccCcchhhhcCCcc
Q 030498 82 NSATVKDLKLAIKKKVNDME----QS------------NLGHRHISWKHVWANYCLSHQN---QKLLDENSALQDCGVRN 142 (176)
Q Consensus 82 ~~ATV~DLKkAI~~~~~~~~----~R------------q~G~~~ISW~~VW~~f~L~~~~---~kL~dD~~~L~dyGIkn 142 (176)
.+.||.|++.-|....+..+ -| -.|++ =.+..+.++. =-|.|++++|+.|||.|
T Consensus 32 ad~Tvk~f~~~~~~~Iq~~~sl~pfRn~kfDtLKIy~~Ah~sK-------T~nLvinldhDd~w~L~d~~ktL~~~GIen 104 (127)
T KOG4147|consen 32 ADQTVKEFIVFLKQDIQLRTSLPPFRNYKFDTLKIYHQAHKSK-------TNNLVINLDHDDRWLLKDEDKTLKAAGIEN 104 (127)
T ss_pred hHhhHHHHHHHHHHhcccCCCCCccccccccceeeehhhhhcc-------cceEEEeccCCcceeecCccchHHHhccCc
Confidence 36899999999888765322 12 00111 1233444432 12456889999999999
Q ss_pred CCEEEEE
Q 030498 143 NSQVQFV 149 (176)
Q Consensus 143 gd~L~Fk 149 (176)
-.++.|-
T Consensus 105 ETEis~F 111 (127)
T KOG4147|consen 105 ETEISFF 111 (127)
T ss_pred chhhhhh
Confidence 9998764
No 71
>PF10302 DUF2407: DUF2407 ubiquitin-like domain; InterPro: IPR019413 This entry represents a family of proteins of unknown function found in fungi. They contain a characteristic GFDRL sequence motif.
Probab=81.51 E-value=2.9 Score=31.49 Aligned_cols=44 Identities=23% Similarity=0.310 Sum_probs=30.3
Q ss_pred Eec--CcccHHHHHHHHHHHhhh-hhhcccCCccccccceeeeeeeecCCcccccCcchhhh
Q 030498 79 AVM--NSATVKDLKLAIKKKVND-MEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQD 137 (176)
Q Consensus 79 ~V~--~~ATV~DLKkAI~~~~~~-~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~d 137 (176)
.|+ ++.||.+||+.|.....- ...++ ..|.|.|. ++.|...|..
T Consensus 17 ~I~~~~~~Tv~~LK~lIR~~~p~~~s~~r--------------LRlI~~Gr-~L~d~t~l~~ 63 (97)
T PF10302_consen 17 DIPSPNTTTVAWLKQLIRERLPPEPSRRR--------------LRLIYAGR-LLNDHTDLSS 63 (97)
T ss_pred ecCCCCcccHHHHHHHHHhhcCCCCcccc--------------EEeeecCc-ccCccchhhh
Confidence 454 779999999999999832 22222 37778886 5666666653
No 72
>TIGR01687 moaD_arch MoaD family protein, archaeal. Members of this family appear to be archaeal versions of MoaD, subunit 1 of molybdopterin converting factor. This model has been split from the bacterial/eukaryotic equivalog model TIGR01682 because the presence of two members of this family in a substantial number of archaeal species suggests that roles might not be interchangeable.
Probab=81.12 E-value=4.6 Score=28.58 Aligned_cols=64 Identities=16% Similarity=0.085 Sum_probs=36.8
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhc---ccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeeeec
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQS---NLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFVLS 154 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~R---q~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l~~ 154 (176)
+++ .+||.||..++...+.....+ ..|. ++.+ +...-+....+.+.. +-+++||+|.|.+-+.+
T Consensus 21 ~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~-------~~~~-~~v~vN~~~v~~~~~---~~l~dgdev~i~PpvsG 87 (88)
T TIGR01687 21 EIE-GKTVGDLLNELMARYPKEFSELFKEGLG-------LVPN-VIILVNGRNVDWGLG---TELKDGDVVAIFPPVSG 87 (88)
T ss_pred EeC-CCCHHHHHHHHHHHCcHHHHHhCccCCc-------cccc-EEEEECCEecCccCC---CCCCCCCEEEEeCCCcC
Confidence 444 899999999999887521110 1110 1122 333333333332211 57999999999987754
No 73
>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=77.42 E-value=8.9 Score=27.01 Aligned_cols=60 Identities=22% Similarity=0.233 Sum_probs=37.4
Q ss_pred ecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEE
Q 030498 72 KLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQ 147 (176)
Q Consensus 72 k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~ 147 (176)
.-++..+ -|.++.|+.|+=...-++|.+.++ .|.|.+.++ .+|-.-.++=.|+-||+.|.
T Consensus 3 ~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~---------------~~~L~h~~k-~ldlslp~R~snL~n~akLe 64 (65)
T PF11470_consen 3 CYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPS---------------SYDLKHNNK-PLDLSLPFRLSNLPNNAKLE 64 (65)
T ss_dssp -TTS-EEEE---TTSBHHHHHHHHHHHTT--GG---------------G-EEEETTE-EESSS-BHHHH---SS-EEE
T ss_pred ccCCcEEEEEECCCCCHHHHHHHHHHHcCCCcc---------------ceEEEECCE-EeccccceeecCCCCCCEEe
Confidence 3456666 678999999988888888876554 347888885 67888899999999999874
No 74
>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=76.69 E-value=12 Score=34.95 Aligned_cols=77 Identities=19% Similarity=0.291 Sum_probs=56.0
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
-+|+|...+. .+ .+|-+..|.||=-.|-+....... ..+. + ..|.|.--+...+|.+.+|.+.||.||
T Consensus 3 ~RVtV~~~~~-~~DlaLPa~~PvaellP~ll~~~~~~~~-~~~~-~-------~~w~L~r~gG~pL~~~~sL~~~gV~DG 72 (452)
T TIGR02958 3 CRVTVLAGRR-AVDVALPADVPVAELIPDLVDLLDDRGA-AELG-A-------VRWALARAGGSPLDPDASLAEAGVRDG 72 (452)
T ss_pred EEEEEeeCCe-eeeeecCCCCcHHHHHHHHHHHhCcccc-cCCC-C-------cceEEecCCCCCCCCCCCHHHcCCCCC
Confidence 4788886543 35 778999999999999998753211 1111 1 234666666667888999999999999
Q ss_pred CEEEEEeee
Q 030498 144 SQVQFVPFV 152 (176)
Q Consensus 144 d~L~Fk~~l 152 (176)
|.|++.++-
T Consensus 73 ~~L~L~p~~ 81 (452)
T TIGR02958 73 ELLVLVPAS 81 (452)
T ss_pred CeEEEeeCC
Confidence 999998854
No 75
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=75.60 E-value=6.9 Score=32.08 Aligned_cols=67 Identities=16% Similarity=0.155 Sum_probs=44.2
Q ss_pred cccHHHHHHHHHHHhhhhhhcccCC---------ccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEee
Q 030498 83 SATVKDLKLAIKKKVNDMEQSNLGH---------RHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPF 151 (176)
Q Consensus 83 ~ATV~DLKkAI~~~~~~~~~Rq~G~---------~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~ 151 (176)
+||+.||---|+..... .|..|. .+=|=+|+-+-.-.+..|.|..||+++|+..+++-||-|-..=.
T Consensus 61 datL~ELtsLvkevnpe--aR~kgt~f~fa~Vf~d~~~~~y~~RevG~t~~g~Kg~ddnktL~~~kf~iGD~lDVaI~ 136 (151)
T KOG3391|consen 61 DATLRELTSLVKEVNPE--ARKKGTSFDFAVVFPDKKSPRYIVREVGTTCLGRKGIDDNKTLQQTKFEIGDYLDVAIT 136 (151)
T ss_pred hhhHHHHHHHHHHcCHH--HhccCceEEEEEEeccCCCCCceeeeecccccCcccCCccchhhhCCccccceEEEEec
Confidence 49999999999886532 222221 00011344444444455889999999999999999997655433
No 76
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=75.17 E-value=6.3 Score=28.21 Aligned_cols=57 Identities=23% Similarity=0.440 Sum_probs=42.1
Q ss_pred ecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhc-CCccCCEEEEEee
Q 030498 80 VMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDC-GVRNNSQVQFVPF 151 (176)
Q Consensus 80 V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dy-GIkngd~L~Fk~~ 151 (176)
|.++.||.|+++.+.....-. --.||.|.++|+.| ++...|+++ |+++|..|..+..
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~--------------~~Tn~~L~~~g~~L-~~~~el~~i~~~~~~~~L~lve~ 58 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETC--------------YLTNFSLEHNGQRL-DDFVELSEIEGIKDGCVLELVEE 58 (76)
T ss_pred CChhhHHHHHHHHHHhCcccc--------------ceeEEEEEECCCcc-CCchhhhhhhCCCCCcEEEEEec
Confidence 567789999999998764210 12588999999976 666677764 7899998877643
No 77
>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=74.64 E-value=12 Score=25.83 Aligned_cols=51 Identities=20% Similarity=0.345 Sum_probs=40.4
Q ss_pred CCCCCCCHHHHhHhhhhccCC---ceEEEEEecCCceeEecCcccHHHHHHHHHHHh
Q 030498 44 DVPKKPTLSDVDTLISLEMGS---AMRISILKLDGTSFAVMNSATVKDLKLAIKKKV 97 (176)
Q Consensus 44 dlp~~~Tl~ev~~~Iale~G~---Am~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~ 97 (176)
-+|+++|.+|+.+.|+-.++. .++|.-.-.+|..+.+.. =.||..|+...-
T Consensus 16 ~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~s---d~Dl~~a~~~~~ 69 (81)
T smart00666 16 SVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTS---DEDLEEAIEEYD 69 (81)
T ss_pred EECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecC---HHHHHHHHHHHH
Confidence 478899999999999998887 588888877787654443 459999988664
No 78
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=73.42 E-value=8.4 Score=27.25 Aligned_cols=59 Identities=24% Similarity=0.297 Sum_probs=34.7
Q ss_pred Eec-CcccHHHHHHHHHHHhhhhhh-cccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeeeec
Q 030498 79 AVM-NSATVKDLKLAIKKKVNDMEQ-SNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFVLS 154 (176)
Q Consensus 79 ~V~-~~ATV~DLKkAI~~~~~~~~~-Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l~~ 154 (176)
.|+ ..+||.||+.++...+..+.. -..| + +..+-++.+..+ +.=|++||+|-|.+-+.+
T Consensus 20 ~v~~~~~tv~~l~~~L~~~~~~~~~~~~~~-----------~-~~~aVN~~~~~~-----~~~l~dgDeVai~PPVsG 80 (81)
T PRK11130 20 ELAADFPTVEALRQHLAQKGDRWALALEDG-----------K-LLAAVNQTLVSF-----DHPLTDGDEVAFFPPVTG 80 (81)
T ss_pred EecCCCCCHHHHHHHHHHhCccHHhhhcCC-----------C-EEEEECCEEcCC-----CCCCCCCCEEEEeCCCCC
Confidence 443 358999999999887743211 0111 1 122223333322 445999999999987653
No 79
>PF12053 DUF3534: Domain of unknown function (DUF3534); InterPro: IPR021922 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 150 amino acids in length. This domain is found associated with PF00595 from PFAM. This domain has a conserved GILD sequence motif. ; PDB: 2NS5_A.
Probab=67.29 E-value=21 Score=29.02 Aligned_cols=72 Identities=22% Similarity=0.273 Sum_probs=35.1
Q ss_pred eEEEEEecCCceeEec---CcccHHHHH-HHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCc
Q 030498 66 MRISILKLDGTSFAVM---NSATVKDLK-LAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVR 141 (176)
Q Consensus 66 m~LtV~k~dG~~l~V~---~~ATV~DLK-kAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIk 141 (176)
|+|||+.++-.. +|| .+-||.+|= +|+.++. .... .++ =+|-+| +.|.+.+-.|+|.++.|.|- +-
T Consensus 1 mkvtV~fg~~~v-vVPC~dg~~tV~~L~~~A~~RY~-K~~~--~~~--~~~v~V---~~l~~~dggiLd~DD~l~dV-~d 70 (145)
T PF12053_consen 1 MKVTVCFGRTRV-VVPCGDGQLTVRDLIQQALRRYR-KAKE--KDP--DYWVVV---HHLEYTDGGILDPDDVLCDV-VD 70 (145)
T ss_dssp -EEEEEETTEEE-EEEESSS---HHHHHHHHHHHHH-HHTT----T--TS-EEE---EEEE-SSS-EE-TTS-HHHH-S-
T ss_pred CeEEEEeCCeEE-EEEeCCCCccHHHHHHHHhHhHH-Hhhc--cCC--CceEEE---eeEEecCCceeccccceeEe-cc
Confidence 899999876554 443 448999993 3333333 2221 111 146555 34444433478877788886 44
Q ss_pred cCCEEE
Q 030498 142 NNSQVQ 147 (176)
Q Consensus 142 ngd~L~ 147 (176)
|+++|.
T Consensus 71 d~d~li 76 (145)
T PF12053_consen 71 DRDQLI 76 (145)
T ss_dssp TTEEEE
T ss_pred Chhhhh
Confidence 777764
No 80
>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=66.88 E-value=41 Score=25.90 Aligned_cols=50 Identities=12% Similarity=0.240 Sum_probs=36.2
Q ss_pred HHHhHhhhhccCCceEEEEEecCCcee--------EecCcccHHHHHHHHHHHhhhhhh
Q 030498 52 SDVDTLISLEMGSAMRISILKLDGTSF--------AVMNSATVKDLKLAIKKKVNDMEQ 102 (176)
Q Consensus 52 ~ev~~~Iale~G~Am~LtV~k~dG~~l--------~V~~~ATV~DLKkAI~~~~~~~~~ 102 (176)
+|...+++ .+..-+=|.|.+...+.+ .|+.+.||.++...|.+...+.++
T Consensus 12 ~e~~~ir~-kyp~~iPVIvE~~~~~~~p~l~k~KflVp~~~tv~~f~~~irk~l~l~~~ 69 (112)
T cd01611 12 AEVERIRA-KYPDRIPVIVERYPKSDLPDLDKKKYLVPSDLTVGQFVYIIRKRIQLRPE 69 (112)
T ss_pred HHHHHHHH-HCCCceEEEEEEcCCCCcccccCceEEecCCCCHHHHHHHHHHHhCCCcc
Confidence 34445443 666777777877665443 889999999999999998865443
No 81
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=65.67 E-value=12 Score=34.86 Aligned_cols=66 Identities=23% Similarity=0.298 Sum_probs=51.1
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeee--cCCcccccCcchhhhcCCc
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLS--HQNQKLLDENSALQDCGVR 141 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~--~~~~kL~dD~~~L~dyGIk 141 (176)
..|.|+-.||+-+ .+...=||.|++..|...-.-++. ..|.|. |=.+.|.|++.+|.+-|+.
T Consensus 306 TsIQIRLanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~--------------~~F~L~~~FPpk~l~D~sqTle~AgL~ 371 (380)
T KOG2086|consen 306 TSIQIRLANGTRLVLKFNHSHTVSDIREFIDTARPGDSS--------------TYFILMMAFPPKPLSDDSQTLEEAGLL 371 (380)
T ss_pred ceEEEEecCCceeeeeccCcccHHHHHHHHHhcCCCCcC--------------CceeeeecCCCcccCCcchhHHhccch
Confidence 6788999999998 667889999999999877543322 234444 4477888999999999999
Q ss_pred cCCE
Q 030498 142 NNSQ 145 (176)
Q Consensus 142 ngd~ 145 (176)
|...
T Consensus 372 Nsvl 375 (380)
T KOG2086|consen 372 NSVL 375 (380)
T ss_pred hhhh
Confidence 9753
No 82
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=64.27 E-value=27 Score=26.22 Aligned_cols=63 Identities=16% Similarity=0.246 Sum_probs=40.5
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeee
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFV 152 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l 152 (176)
.....-||..+.+.+.+.|.- +.+- .+|+.|-- ..-+.|.+...+|.|.||.+|..|.+--|-
T Consensus 19 ~FSk~DTI~~v~~~~rklf~i--~~E~--------RLW~~~~~-~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 19 QFSKTDTIGFVEKEMRKLFNI--QEET--------RLWNKYSE-NSYELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp EE-TTSBHHHHHHHHHHHCT---TS-E--------EEEEECTT-TCEEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred hccccChHHHHHHHHHHHhCC--Cccc--------eehhccCC-cchhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 556789999999999999976 2222 57777722 223456677789999999999988776553
No 83
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=64.18 E-value=15 Score=26.42 Aligned_cols=58 Identities=21% Similarity=0.176 Sum_probs=34.7
Q ss_pred CcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeeeec
Q 030498 82 NSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFVLS 154 (176)
Q Consensus 82 ~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l~~ 154 (176)
..+||.+|..-+.+.+..+...-. . ..++....++.+.+. ++-|++||+|.|.+.+.+
T Consensus 26 ~~~tv~~L~~~l~~~~~~~~~~~~-~---------~~~v~~~~~~~~~~~-----~t~L~dGDeVa~~PPVsG 83 (84)
T COG1977 26 VGATVGELEELLPKEGERWLLALE-D---------NIVVNAANNEFLVGL-----DTPLKDGDEVAFFPPVSG 83 (84)
T ss_pred HHHHHHHHHHHHHhhhhhHHhccC-c---------cceEEeeeceeeccc-----cccCCCCCEEEEeCCCCC
Confidence 358888888887766653332111 0 122333334444433 456899999999998754
No 84
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=62.50 E-value=25 Score=23.96 Aligned_cols=64 Identities=16% Similarity=0.263 Sum_probs=39.1
Q ss_pred eEEEEEecCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCE
Q 030498 66 MRISILKLDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQ 145 (176)
Q Consensus 66 m~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~ 145 (176)
|+|+| ||+.+.++.++||.||-..+.-. + .| +....+++ +. .++.-.++-+++||+
T Consensus 1 m~i~v---Ng~~~~~~~~~tl~~ll~~l~~~----~---~~------------vaVavN~~-iv-~r~~w~~~~L~~gD~ 56 (66)
T PRK08053 1 MQILF---NDQPMQCAAGQTVHELLEQLNQL----Q---PG------------AALAINQQ-II-PREQWAQHIVQDGDQ 56 (66)
T ss_pred CEEEE---CCeEEEcCCCCCHHHHHHHcCCC----C---Cc------------EEEEECCE-Ee-ChHHcCccccCCCCE
Confidence 45555 78888888899999998643211 1 11 23334444 32 233445567899999
Q ss_pred EEEEeeee
Q 030498 146 VQFVPFVL 153 (176)
Q Consensus 146 L~Fk~~l~ 153 (176)
|-+.+-+.
T Consensus 57 Ieii~~v~ 64 (66)
T PRK08053 57 ILLFQVIA 64 (66)
T ss_pred EEEEEEcc
Confidence 88877553
No 85
>PF02991 Atg8: Autophagy protein Atg8 ubiquitin like; InterPro: IPR004241 Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N terminus and the C terminus of Atg19. Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [] Related proteins that belong to this group include the human ganglioside expression factor and a symbiosis-related fungal protein.; PDB: 3ECI_A 3D32_B 1GNU_A 1KM7_A 1KLV_A 1KOT_A 3DOW_A 1KJT_A 1V49_A 2ZJD_C ....
Probab=60.94 E-value=48 Score=25.26 Aligned_cols=65 Identities=15% Similarity=0.192 Sum_probs=42.1
Q ss_pred hhhccCCceEEEEEecCCcee--------EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccc
Q 030498 58 ISLEMGSAMRISILKLDGTSF--------AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLL 129 (176)
Q Consensus 58 Iale~G~Am~LtV~k~dG~~l--------~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~ 129 (176)
|.-.+-.-+=|.|.+..++.+ -||.+.||.++...|.+...+.++ ..+.|..++ .|.
T Consensus 9 ir~kyP~~IPVIvEr~~~s~lp~ldk~KfLvp~~~tv~qf~~~ir~rl~l~~~--------------~alfl~Vn~-~lp 73 (104)
T PF02991_consen 9 IREKYPDKIPVIVERYPKSKLPDLDKKKFLVPKDLTVGQFVYIIRKRLQLSPE--------------QALFLFVNN-TLP 73 (104)
T ss_dssp HHHHSTTEEEEEEEE-TTSSS---SSSEEEEETTSBHHHHHHHHHHHTT--TT--------------S-EEEEBTT-BES
T ss_pred HHHHCCCccEEEEEEccCCChhhcCccEEEEcCCCchhhHHHHhhhhhcCCCC--------------ceEEEEEcC-ccc
Confidence 344556667777777666554 789999999999999999976554 123455555 466
Q ss_pred cCcchhhh
Q 030498 130 DENSALQD 137 (176)
Q Consensus 130 dD~~~L~d 137 (176)
....++.+
T Consensus 74 ~~s~tm~e 81 (104)
T PF02991_consen 74 STSSTMGE 81 (104)
T ss_dssp STTSBHHH
T ss_pred chhhHHHH
Confidence 65666654
No 86
>smart00362 RRM_2 RNA recognition motif.
Probab=59.72 E-value=38 Score=20.68 Aligned_cols=53 Identities=26% Similarity=0.349 Sum_probs=35.6
Q ss_pred ccCCCCCCCHHHHhHhhhhccCCceEEEEEecCCcee--EecCcccHHHHHHHHHH
Q 030498 42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSF--AVMNSATVKDLKLAIKK 95 (176)
Q Consensus 42 L~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~ 95 (176)
+.+||+..|.+||...+. .+|.--.+.+....+... ....=.+..+.++|+..
T Consensus 4 i~~l~~~~~~~~l~~~~~-~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~ 58 (72)
T smart00362 4 VGNLPPDVTEEDLKELFS-KFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEA 58 (72)
T ss_pred EcCCCCcCCHHHHHHHHH-hcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHH
Confidence 578999999999999886 788877777776652222 11111355677777654
No 87
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=58.43 E-value=17 Score=34.84 Aligned_cols=62 Identities=11% Similarity=0.146 Sum_probs=46.6
Q ss_pred EecCCcee---EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEE
Q 030498 71 LKLDGTSF---AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQ 147 (176)
Q Consensus 71 ~k~dG~~l---~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~ 147 (176)
++-.|+.+ ++..++|+.+||..++..+.--|+||. +...|. +..|+-.+...+|++|.+|.
T Consensus 8 VKW~gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQK---------------v~vKGg-~a~dd~~~~al~iKpn~~lm 71 (473)
T KOG1872|consen 8 VKWGGKKYPVETLSTDETPSVLKAQLFALTGVPPERQK---------------VMVKGG-LAKDDVDWGALQIKPNETLM 71 (473)
T ss_pred eeecCccccceeccCCCchHHHHHHHHHhcCCCcccee---------------EEEecc-cccccccccccccCCCCEEE
Confidence 34457777 478899999999999999877788775 334453 56666678889999998765
Q ss_pred E
Q 030498 148 F 148 (176)
Q Consensus 148 F 148 (176)
-
T Consensus 72 M 72 (473)
T KOG1872|consen 72 M 72 (473)
T ss_pred e
Confidence 3
No 88
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=58.26 E-value=11 Score=27.65 Aligned_cols=61 Identities=18% Similarity=0.163 Sum_probs=30.5
Q ss_pred CcccHHHHHHHHHH-HhhhhhhcccCCccccccceeeeeeeecCCcc---cccCcchhhhcCCccCCEEEEEeeee
Q 030498 82 NSATVKDLKLAIKK-KVNDMEQSNLGHRHISWKHVWANYCLSHQNQK---LLDENSALQDCGVRNNSQVQFVPFVL 153 (176)
Q Consensus 82 ~~ATV~DLKkAI~~-~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~k---L~dD~~~L~dyGIkngd~L~Fk~~l~ 153 (176)
..+|+.+|-..|-+ ... ++..-|+. .--+.|+... -....++|.++||+||+.|+...-..
T Consensus 7 ~~~TL~~lv~~Vlk~~Lg------~~~P~v~~-----~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~D~~q 71 (87)
T PF14732_consen 7 KKMTLGDLVEKVLKKKLG------MNEPDVSV-----GGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVDDFDQ 71 (87)
T ss_dssp TT-BHHHHHHHCCCCCS--------SSEEEEE-----S-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEEETTT
T ss_pred hhCcHHHHHHHHHHhccC------CCCCEEEe-----CCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEEEcCC
Confidence 56898888765533 221 11222333 1123333322 34467899999999999998765443
No 89
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=58.02 E-value=43 Score=21.78 Aligned_cols=55 Identities=22% Similarity=0.317 Sum_probs=37.2
Q ss_pred ccCCCCCCCHHHHhHhhhhccCCceEEEEEecC-Ccee--EecCcccHHHHHHHHHHHh
Q 030498 42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLD-GTSF--AVMNSATVKDLKLAIKKKV 97 (176)
Q Consensus 42 L~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k~d-G~~l--~V~~~ATV~DLKkAI~~~~ 97 (176)
+..||+.+|.++|...+.-. |.--.+.+.+.. |..- ..-.=+|..+.++|++..-
T Consensus 3 i~nlp~~~~~~~l~~~f~~~-g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~ 60 (70)
T PF14259_consen 3 ISNLPPSTTEEDLRNFFSRF-GPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLN 60 (70)
T ss_dssp EESSTTT--HHHHHHHCTTS-SBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred EeCCCCCCCHHHHHHHHHhc-CCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCC
Confidence 57899999999999987764 766666666642 3332 2223368899999998753
No 90
>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=56.80 E-value=21 Score=27.45 Aligned_cols=34 Identities=26% Similarity=0.244 Sum_probs=29.2
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhh
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVND 99 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~ 99 (176)
--|.|-+.|++.. ..+.++||.||=.++.+++-.
T Consensus 3 y~IRIFr~D~Tf~Tls~~l~tTv~eli~~L~rK~~l 38 (97)
T cd01775 3 YCIRVFRSDGTFTTLSCPLNTTVSELIPQLAKKFYL 38 (97)
T ss_pred eEEEEEecCCcEEEEEcCCcCcHHHHHHHHHHhhcC
Confidence 3578889999877 779999999999999999843
No 91
>PF06487 SAP18: Sin3 associated polypeptide p18 (SAP18); InterPro: IPR010516 This family consists of several eukaryotic Sin3 associated polypeptide p18 (SAP18) sequences. SAP18 is known to be a component of the Sin3-containing complex, which is responsible for the repression of transcription via the modification of histone polypeptides []. SAP18 is also present in the ASAP complex which is thought to be involved in the regulation of splicing during the execution of programmed cell death [].; PDB: 2HDE_A 4A90_A 4A6Q_A 4A8X_C.
Probab=55.98 E-value=37 Score=26.64 Aligned_cols=64 Identities=20% Similarity=0.129 Sum_probs=35.9
Q ss_pred CcccHHHHHHHHHHHhhhhhhcccCC----ccccc-----cceeeeeeeecCCcccccCcchhhhcCCccCCEEE
Q 030498 82 NSATVKDLKLAIKKKVNDMEQSNLGH----RHISW-----KHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQ 147 (176)
Q Consensus 82 ~~ATV~DLKkAI~~~~~~~~~Rq~G~----~~ISW-----~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~ 147 (176)
.+||+.||=.-|+..... .|..|. +.|.+ +|+=+..-....+.+..+|+++|.+.+..-||-|-
T Consensus 45 ~d~TLrEL~~Lik~~~~~--~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGDyid 117 (120)
T PF06487_consen 45 MDATLRELADLIKDVNPP--ARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGDYID 117 (120)
T ss_dssp TT-BHHHHHHHHHHH-HH--HHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-EEE
T ss_pred ccCCHHHHHHHHHHhCcc--cCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCCEEE
Confidence 679999999999885432 333332 11111 23444444445566667999999999999999653
No 92
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=52.72 E-value=65 Score=21.61 Aligned_cols=63 Identities=10% Similarity=0.188 Sum_probs=38.2
Q ss_pred eEEEEEecCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCE
Q 030498 66 MRISILKLDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQ 145 (176)
Q Consensus 66 m~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~ 145 (176)
|+|+| ||+.+.+ ..+||.||-..+. .-++ ......+++ +.. .....+.-+++||+
T Consensus 1 m~i~~---Ng~~~~~-~~~tl~~Ll~~l~----~~~~---------------~vavavN~~-iv~-~~~~~~~~L~dgD~ 55 (65)
T PRK06488 1 MKLFV---NGETLQT-EATTLALLLAELD----YEGN---------------WLATAVNGE-LVH-KEARAQFVLHEGDR 55 (65)
T ss_pred CEEEE---CCeEEEc-CcCcHHHHHHHcC----CCCC---------------eEEEEECCE-EcC-HHHcCccccCCCCE
Confidence 45554 6888866 4579999987651 1111 012333343 332 44555788999999
Q ss_pred EEEEeeee
Q 030498 146 VQFVPFVL 153 (176)
Q Consensus 146 L~Fk~~l~ 153 (176)
|-|.+-+.
T Consensus 56 Ieiv~~V~ 63 (65)
T PRK06488 56 IEILSPMQ 63 (65)
T ss_pred EEEEEecc
Confidence 99887664
No 93
>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=52.53 E-value=35 Score=24.44 Aligned_cols=34 Identities=18% Similarity=0.383 Sum_probs=29.3
Q ss_pred CCCCCCHHHHhHhhhhccCCc---eEEEEEecCCcee
Q 030498 45 VPKKPTLSDVDTLISLEMGSA---MRISILKLDGTSF 78 (176)
Q Consensus 45 lp~~~Tl~ev~~~Iale~G~A---m~LtV~k~dG~~l 78 (176)
+|+..|+.++...|....|-+ |+|.+...++...
T Consensus 19 ~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~ 55 (84)
T cd01789 19 YSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLV 55 (84)
T ss_pred cCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeE
Confidence 899999999999999998864 9998877776654
No 94
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=52.49 E-value=36 Score=26.26 Aligned_cols=66 Identities=17% Similarity=0.372 Sum_probs=48.2
Q ss_pred ceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCcc
Q 030498 65 AMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRN 142 (176)
Q Consensus 65 Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkn 142 (176)
-+.|.|+-.||+.+ -|..+.|..-|=.|+.+.. |+.. ..+...|+|+. .+-+.+=.|++..+
T Consensus 24 hinLkvv~qd~telfFkiKktT~f~klm~af~~rq--------GK~m-------~slRfL~dG~r-I~~dqTP~dldmEd 87 (103)
T COG5227 24 HINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQ--------GKNM-------SSLRFLFDGKR-IDLDQTPGDLDMED 87 (103)
T ss_pred ccceEEecCCCCEEEEEEeccchHHHHHHHHHHHh--------CcCc-------ceeEEEEccee-cCCCCChhhcCCcc
Confidence 36789999999998 8889999888877776554 2221 23455678875 45556788999999
Q ss_pred CCEE
Q 030498 143 NSQV 146 (176)
Q Consensus 143 gd~L 146 (176)
||+|
T Consensus 88 nd~i 91 (103)
T COG5227 88 NDEI 91 (103)
T ss_pred chHH
Confidence 9975
No 95
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=49.58 E-value=8.3 Score=28.06 Aligned_cols=58 Identities=16% Similarity=0.228 Sum_probs=37.4
Q ss_pred cCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEE
Q 030498 73 LDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQV 146 (176)
Q Consensus 73 ~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L 146 (176)
+=|+.. --.++-||.|||+-|+...--.+.+ ..|. ..--+.+|.-+|+||-|.+|..+
T Consensus 9 rLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~k---------------ivl~-k~~~i~kd~I~L~dyeihdg~~l 68 (73)
T KOG3493|consen 9 RLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEK---------------IVLK-KWYTIFKDHITLSDYEIHDGMNL 68 (73)
T ss_pred hcCceEEEEeCCcccccCHHHHHHHhhCCChhH---------------hHHH-hhhhhhhcccceeeEEeccCccE
Confidence 335555 2257789999999999887433321 0111 11125677889999999999754
No 96
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=47.62 E-value=64 Score=25.53 Aligned_cols=50 Identities=16% Similarity=0.298 Sum_probs=36.0
Q ss_pred HHHhHhhhhccCCceEEEEEecC----Ccee-EecCcccHHHHHHHHHHHhhhhhh
Q 030498 52 SDVDTLISLEMGSAMRISILKLD----GTSF-AVMNSATVKDLKLAIKKKVNDMEQ 102 (176)
Q Consensus 52 ~ev~~~Iale~G~Am~LtV~k~d----G~~l-~V~~~ATV~DLKkAI~~~~~~~~~ 102 (176)
+|...+.+ .+-.-+=|.|.+.. -+.+ -||.++||.++...|.+...+.++
T Consensus 15 ~e~~~Ir~-kyPdrIPVIvEk~~~s~dK~KfllVP~d~tV~qF~~iIRkrl~l~~~ 69 (121)
T PTZ00380 15 AECARLQA-KYPGHVAVVVEAAEKAGSKVHFLALPRDATVAELEAAVRQALGTSAK 69 (121)
T ss_pred HHHHHHHH-HCCCccEEEEeecCCCCCceEEEEcCCCCcHHHHHHHHHHHcCCChh
Confidence 34555333 66666777777755 3445 799999999999999999877654
No 97
>smart00360 RRM RNA recognition motif.
Probab=46.68 E-value=64 Score=19.45 Aligned_cols=53 Identities=19% Similarity=0.339 Sum_probs=35.6
Q ss_pred ccCCCCCCCHHHHhHhhhhccCCceEEEEEecC--Ccee--EecCcccHHHHHHHHHH
Q 030498 42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLD--GTSF--AVMNSATVKDLKLAIKK 95 (176)
Q Consensus 42 L~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k~d--G~~l--~V~~~ATV~DLKkAI~~ 95 (176)
++.||..+|-++|...+. .+|.--.+.+.... +.+. ....=.|..+.+.|+..
T Consensus 1 i~~l~~~~~~~~l~~~f~-~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~ 57 (71)
T smart00360 1 VGNLPPDVTEEELRELFS-KFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEA 57 (71)
T ss_pred CCCCCcccCHHHHHHHHH-hhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHH
Confidence 367899999999999887 78877677776653 2222 11122567777777754
No 98
>PF08337 Plexin_cytopl: Plexin cytoplasmic RasGAP domain; InterPro: IPR013548 This domain is found at C terminus of various plexins (e.g. P51805 from SWISSPROT). Plexins are receptors for semaphorins, and plexin signalling is important in pathfinding and patterning of both neurons and developing blood vessels [, ]. The cytoplasmic region, which has been called a SEX domain [], and is involved in downstream signalling pathways, by interaction with proteins such as Rac1, RhoD, Rnd1 and other plexins []. ; PDB: 3H6N_A 4E71_A 4E74_A 3IG3_A 2REX_C 2JPH_A 2R2O_A 3HM6_X 3SU8_X 3SUA_E ....
Probab=46.33 E-value=65 Score=31.40 Aligned_cols=91 Identities=15% Similarity=0.267 Sum_probs=46.3
Q ss_pred CCceEEEEEecCC--cee--EecCcccHHHHHHHHHHHhh-h--hhhccc-CCccccccceee-eeeeecCC--cccccC
Q 030498 63 GSAMRISILKLDG--TSF--AVMNSATVKDLKLAIKKKVN-D--MEQSNL-GHRHISWKHVWA-NYCLSHQN--QKLLDE 131 (176)
Q Consensus 63 G~Am~LtV~k~dG--~~l--~V~~~ATV~DLKkAI~~~~~-~--~~~Rq~-G~~~ISW~~VW~-~f~L~~~~--~kL~dD 131 (176)
-+.|+|.|.-.++ ..+ -|..--||.+.|.-|-..+- . |.+|.. ..-..-|++==. ...|.-.+ .+..++
T Consensus 187 ~~~ltl~v~~~~~~~~~i~VkVLdCDTItQVKeKiLDavyk~~p~S~rp~~~d~dLEwr~~~~~~~iL~D~D~ts~~~~~ 266 (539)
T PF08337_consen 187 YKTLTLNVVPQEEGSEEIPVKVLDCDTITQVKEKILDAVYKNTPYSQRPRADDVDLEWRQGRGGRLILQDEDSTSKVEGG 266 (539)
T ss_dssp S-EEEEEEECTTTSSTCEEEEEETTSBHHHHHHHHHHHHTTTS-GGGS--GGGEEEEEEETTSEEEEESSSSTTSEEETT
T ss_pred eEEEEEEEEecCCCCceEEEEEEecCcccHHHHHHHHHHHcCCCCCCCCCccccceeeecCCCCcccccCCCCCcccCCC
Confidence 3568888775543 333 55566799999998877642 1 333311 112233433211 11222221 011111
Q ss_pred ---cchhhhcCCccCCEEEEEeeee
Q 030498 132 ---NSALQDCGVRNNSQVQFVPFVL 153 (176)
Q Consensus 132 ---~~~L~dyGIkngd~L~Fk~~l~ 153 (176)
-.+|..|||.||+.|..+++..
T Consensus 267 wkrLNTL~HY~V~dga~vaLv~k~~ 291 (539)
T PF08337_consen 267 WKRLNTLAHYKVPDGATVALVPKQH 291 (539)
T ss_dssp EEE--BHHHHT--TTEEEEEEES--
T ss_pred ceEeccHhhcCCCCCceEEEeeccc
Confidence 1489999999999999999874
No 99
>cd00565 ThiS ThiaminS ubiquitin-like sulfur carrier protein. ThiS (ThiaminS) is a sulfur carrier protein involved in thiamin biosynthesis in bacteria. The ThiS fold, like those of two closely related proteins MoaD and Urm1, is similar to that of ubiquitin although there is little or no sequence similarity.
Probab=46.23 E-value=46 Score=22.34 Aligned_cols=60 Identities=13% Similarity=0.249 Sum_probs=37.3
Q ss_pred cCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeee
Q 030498 73 LDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFV 152 (176)
Q Consensus 73 ~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l 152 (176)
.+|+.+.++..+||.||...+. +. + ..+....+++ +.. ...-.++-|++||+|.|.+-+
T Consensus 4 iNg~~~~~~~~~tv~~ll~~l~--~~--~---------------~~i~V~vNg~-~v~-~~~~~~~~L~~gD~V~ii~~v 62 (65)
T cd00565 4 VNGEPREVEEGATLAELLEELG--LD--P---------------RGVAVALNGE-IVP-RSEWASTPLQDGDRIEIVTAV 62 (65)
T ss_pred ECCeEEEcCCCCCHHHHHHHcC--CC--C---------------CcEEEEECCE-EcC-HHHcCceecCCCCEEEEEEec
Confidence 4688888888999999987764 11 1 1122333343 332 223334679999999998766
Q ss_pred e
Q 030498 153 L 153 (176)
Q Consensus 153 ~ 153 (176)
.
T Consensus 63 ~ 63 (65)
T cd00565 63 G 63 (65)
T ss_pred c
Confidence 4
No 100
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=46.02 E-value=32 Score=28.76 Aligned_cols=40 Identities=28% Similarity=0.223 Sum_probs=25.1
Q ss_pred hccCCceEEEEEecCCcee-----EecCcccHHHHHHHHHHHhhh
Q 030498 60 LEMGSAMRISILKLDGTSF-----AVMNSATVKDLKLAIKKKVND 99 (176)
Q Consensus 60 le~G~Am~LtV~k~dG~~l-----~V~~~ATV~DLKkAI~~~~~~ 99 (176)
+|.=..|+++....+.... -|++++||.||-.++++++..
T Consensus 15 lE~kk~~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~~ 59 (213)
T PF14533_consen 15 LENKKQFKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVGF 59 (213)
T ss_dssp HHSB--EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT---
T ss_pred HhCceEEEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcCC
Confidence 3444568999997776555 678999999999999999876
No 101
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=45.13 E-value=30 Score=22.97 Aligned_cols=63 Identities=14% Similarity=0.237 Sum_probs=36.7
Q ss_pred eEEEEEecCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCE
Q 030498 66 MRISILKLDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQ 145 (176)
Q Consensus 66 m~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~ 145 (176)
|+|+| ||+.+.++..+||.||-.++.- . + + .....++. +.. ...-.+.=+++||+
T Consensus 1 m~i~v---Ng~~~~~~~~~tl~~ll~~l~~--~--~----~------------~~v~vN~~-~v~-~~~~~~~~L~~gD~ 55 (65)
T PRK06944 1 MDIQL---NQQTLSLPDGATVADALAAYGA--R--P----P------------FAVAVNGD-FVA-RTQHAARALAAGDR 55 (65)
T ss_pred CEEEE---CCEEEECCCCCcHHHHHHhhCC--C--C----C------------eEEEECCE-EcC-chhcccccCCCCCE
Confidence 44444 6888888889999999876522 1 1 0 11223332 221 11222445889999
Q ss_pred EEEEeeee
Q 030498 146 VQFVPFVL 153 (176)
Q Consensus 146 L~Fk~~l~ 153 (176)
|-|.+=+.
T Consensus 56 vei~~~v~ 63 (65)
T PRK06944 56 LDLVQPVA 63 (65)
T ss_pred EEEEeecc
Confidence 98887553
No 102
>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=44.65 E-value=94 Score=21.04 Aligned_cols=50 Identities=20% Similarity=0.344 Sum_probs=38.2
Q ss_pred CC-CCCCHHHHhHhhhhccCC---ceEEEEEecCCceeEecCcccHHHHHHHHHHHh
Q 030498 45 VP-KKPTLSDVDTLISLEMGS---AMRISILKLDGTSFAVMNSATVKDLKLAIKKKV 97 (176)
Q Consensus 45 lp-~~~Tl~ev~~~Iale~G~---Am~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~ 97 (176)
+| ..+|.+++...|+-.++. ..+|+-.-.+|..+.+..+ .||..|++..-
T Consensus 16 ~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~e~d~v~l~sd---~Dl~~a~~~~~ 69 (81)
T cd05992 16 VVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDEDGDLVTISSD---EDLEEAIEEAR 69 (81)
T ss_pred EecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCCCCCEEEeCCH---HHHHHHHHHHh
Confidence 45 899999999999988887 5777777777755444433 69999988764
No 103
>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=44.58 E-value=1.2e+02 Score=21.81 Aligned_cols=68 Identities=15% Similarity=0.191 Sum_probs=47.4
Q ss_pred ceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeee--ecCCcccc--cCcchhhhc
Q 030498 65 AMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCL--SHQNQKLL--DENSALQDC 138 (176)
Q Consensus 65 Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L--~~~~~kL~--dD~~~L~dy 138 (176)
+.+|.|+--||+.+ ....++|+.+|-..|... .++ ...|.| +|=.+.+. +.+.+|.|.
T Consensus 4 ~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~~--~~~--------------~~~f~L~t~fPRk~~~~~d~~~TL~e~ 67 (80)
T cd01771 4 ISKLRVRTPSGDFLERRFLGDTPLQVLLNFVASK--GYP--------------IDEYKLLSSWPRRDLTQLDPNFTLLEL 67 (80)
T ss_pred eEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhc--CCC--------------CCCEEEecCCCCCCCcCCCCCCcHHHc
Confidence 57899999999998 889999999999888642 111 122333 33344443 446799999
Q ss_pred CCccCCEEEE
Q 030498 139 GVRNNSQVQF 148 (176)
Q Consensus 139 GIkngd~L~F 148 (176)
|+.....|..
T Consensus 68 gL~p~~~L~V 77 (80)
T cd01771 68 KLYPQETLIL 77 (80)
T ss_pred CCCCCcEEEE
Confidence 9998776543
No 104
>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=44.52 E-value=1.3e+02 Score=22.18 Aligned_cols=71 Identities=24% Similarity=0.285 Sum_probs=47.8
Q ss_pred CCceEEEEEecCCcee--EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecC--Cccc--ccCcchhh
Q 030498 63 GSAMRISILKLDGTSF--AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQ--NQKL--LDENSALQ 136 (176)
Q Consensus 63 G~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~--~~kL--~dD~~~L~ 136 (176)
|..-+|.|+--||+.+ ....+.|+.+|-..|...- ++. ..|-|... ...+ .+.+.+|+
T Consensus 3 ~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~~g--~~~--------------~~f~L~t~FPRr~~~~~d~~~TL~ 66 (82)
T cd01773 3 GPKARLMLRYPDGKREQIALPEQAKLLALVRHVQSKG--YPN--------------ERFELLTNFPRRKLSHLDYDITLQ 66 (82)
T ss_pred CCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHhcC--CCC--------------CCEEEecCCCCcccCCcccCCCHH
Confidence 5567899999999999 7788899999888777631 110 11222211 1222 23357999
Q ss_pred hcCCccCCEEEEE
Q 030498 137 DCGVRNNSQVQFV 149 (176)
Q Consensus 137 dyGIkngd~L~Fk 149 (176)
+.|+.+.+.|..-
T Consensus 67 e~GL~P~~~LfVq 79 (82)
T cd01773 67 EAGLCPQETVFVQ 79 (82)
T ss_pred HcCCCCCcEEEEe
Confidence 9999999976554
No 105
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=44.24 E-value=16 Score=25.89 Aligned_cols=35 Identities=23% Similarity=0.369 Sum_probs=29.0
Q ss_pred CCCCCCCHHHHhHhhhhccCCc---eEEEEE-ecCCcee
Q 030498 44 DVPKKPTLSDVDTLISLEMGSA---MRISIL-KLDGTSF 78 (176)
Q Consensus 44 dlp~~~Tl~ev~~~Iale~G~A---m~LtV~-k~dG~~l 78 (176)
.+|...|+.||...|....|-+ |+|.+. ..++..+
T Consensus 19 r~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~ 57 (87)
T PF14560_consen 19 RFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKI 57 (87)
T ss_dssp EEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEE
T ss_pred EcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccc
Confidence 5899999999999999999976 999998 4555554
No 106
>PF06918 DUF1280: Protein of unknown function (DUF1280); InterPro: IPR009689 This family represents a conserved region approximately 200 residues long within a number of proteins of unknown function that seem to be specific to Caenorhabditis elegans.
Probab=43.45 E-value=97 Score=26.62 Aligned_cols=76 Identities=18% Similarity=0.296 Sum_probs=56.4
Q ss_pred cchhhHHHHHHHHHHhhh-cCCcccCCCCCCCHHHHhHhhhhccCCceEEEEEecC-----Ccee-EecCcccHHHHHHH
Q 030498 20 NSSTMKKARLHSTLTALL-DDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLD-----GTSF-AVMNSATVKDLKLA 92 (176)
Q Consensus 20 ~~~~~~~~~~~~~l~~ll-~Dp~L~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k~d-----G~~l-~V~~~ATV~DLKkA 92 (176)
+-|...+..++.-+.+.+ -|| +|+--.+.++...++...- .+|++.... |+.. ++..-+++.||+..
T Consensus 64 ~LSd~~lk~~K~~~k~~lg~Dv----f~Sr~~i~~l~k~~s~~~~--y~i~~~~~~k~~~~g~~v~v~~~~v~~~dv~~~ 137 (224)
T PF06918_consen 64 NLSDGFLKKFKKFLKEFLGFDV----FPSRKSIDELEKKVSSIDD--YEISTEKITKKTGSGKEVTVVTCVVSIKDVEKL 137 (224)
T ss_pred cCCHHHHHHHHHHHHHhCCCCC----CCCHHHHHHHHHhcCcccc--eEEEEEEccccCCCCeEEEEEEEEEEecCHHHH
Confidence 445667888888888877 599 7888888888888877664 344444443 7777 55666899999999
Q ss_pred HHHHhhhhh
Q 030498 93 IKKKVNDME 101 (176)
Q Consensus 93 I~~~~~~~~ 101 (176)
+........
T Consensus 138 l~~rle~l~ 146 (224)
T PF06918_consen 138 LSRRLEQLS 146 (224)
T ss_pred HHHHHHHHH
Confidence 999986543
No 107
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=41.88 E-value=58 Score=21.86 Aligned_cols=60 Identities=15% Similarity=0.257 Sum_probs=37.5
Q ss_pred cCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeee
Q 030498 73 LDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFV 152 (176)
Q Consensus 73 ~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l 152 (176)
.||+.+.++.++||.||...+.- .+ ..+....+++ +.. ...-.++-+++||+|-+.+-+
T Consensus 3 iNg~~~~~~~~~tv~~ll~~l~~----~~---------------~~v~v~vN~~-iv~-~~~~~~~~L~~gD~veii~~V 61 (64)
T TIGR01683 3 VNGEPVEVEDGLTLAALLESLGL----DP---------------RRVAVAVNGE-IVP-RSEWDDTILKEGDRIEIVTFV 61 (64)
T ss_pred ECCeEEEcCCCCcHHHHHHHcCC----CC---------------CeEEEEECCE-EcC-HHHcCceecCCCCEEEEEEec
Confidence 47888888889999999886531 11 1123333443 321 223445679999999888765
Q ss_pred e
Q 030498 153 L 153 (176)
Q Consensus 153 ~ 153 (176)
.
T Consensus 62 ~ 62 (64)
T TIGR01683 62 G 62 (64)
T ss_pred c
Confidence 4
No 108
>PF01524 Gemini_V1: Geminivirus V1 protein; InterPro: IPR002511 Disruption of the V1 gene in Tomato yellow leaf curl virus (TYLCV) stopped its ability to systemically infect Solanum lycopersicum (Tomato) (Lycopersicon esculentum) plants, suggesting that the V1 gene product is required for successful infection of the host [].; GO: 0019048 virus-host interaction, 0060967 negative regulation of gene silencing by RNA, 0030430 host cell cytoplasm
Probab=41.39 E-value=13 Score=27.56 Aligned_cols=26 Identities=19% Similarity=0.521 Sum_probs=22.8
Q ss_pred CCcccCCCCCCCHHHHhHhhhhccCCce
Q 030498 39 DPILADVPKKPTLSDVDTLISLEMGSAM 66 (176)
Q Consensus 39 Dp~L~dlp~~~Tl~ev~~~Iale~G~Am 66 (176)
||+|++.|. |+--..+.+|+.+=|.+
T Consensus 3 DPLlnefP~--tvHGfRCMLAiKYlq~~ 28 (78)
T PF01524_consen 3 DPLLNEFPE--TVHGFRCMLAIKYLQLV 28 (78)
T ss_pred ccccccCCc--cccchhHHHHHHHHHHc
Confidence 999999998 77789999999987764
No 109
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=40.48 E-value=1.2e+02 Score=20.84 Aligned_cols=63 Identities=14% Similarity=0.169 Sum_probs=36.8
Q ss_pred eEEEEEecCCc-eeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCC
Q 030498 66 MRISILKLDGT-SFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNS 144 (176)
Q Consensus 66 m~LtV~k~dG~-~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd 144 (176)
|+|.+...... .++++.++||.||-+.+. .-++ ......+++ +.. .++-+++||
T Consensus 5 m~v~vng~~~~~~~~~~~~~tv~~ll~~l~----~~~~---------------~v~v~vNg~-iv~-----~~~~l~~gD 59 (70)
T PRK08364 5 IRVKVIGRGIEKEIEWRKGMKVADILRAVG----FNTE---------------SAIAKVNGK-VAL-----EDDPVKDGD 59 (70)
T ss_pred EEEEEeccccceEEEcCCCCcHHHHHHHcC----CCCc---------------cEEEEECCE-ECC-----CCcCcCCCC
Confidence 56666433211 337788899999987662 1111 112223333 222 366799999
Q ss_pred EEEEEeeee
Q 030498 145 QVQFVPFVL 153 (176)
Q Consensus 145 ~L~Fk~~l~ 153 (176)
+|.|.+-+.
T Consensus 60 ~Veii~~V~ 68 (70)
T PRK08364 60 YVEVIPVVS 68 (70)
T ss_pred EEEEEcccc
Confidence 999987664
No 110
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=38.22 E-value=61 Score=21.76 Aligned_cols=30 Identities=20% Similarity=0.283 Sum_probs=24.9
Q ss_pred EEEecCCceeEecCcccHHHHHHHHHHHhh
Q 030498 69 SILKLDGTSFAVMNSATVKDLKLAIKKKVN 98 (176)
Q Consensus 69 tV~k~dG~~l~V~~~ATV~DLKkAI~~~~~ 98 (176)
+|..-||+...++..+|+.|+=++|....-
T Consensus 2 ~v~lpdG~~~~~~~g~T~~d~A~~I~~~l~ 31 (60)
T PF02824_consen 2 RVYLPDGSIKELPEGSTVLDVAYSIHSSLA 31 (60)
T ss_dssp EEEETTSCEEEEETTBBHHHHHHHHSHHHH
T ss_pred EEECCCCCeeeCCCCCCHHHHHHHHCHHHH
Confidence 344478888899999999999999988764
No 111
>PF11834 DUF3354: Domain of unknown function (DUF3354); InterPro: IPR021789 Potassium channels take part in important processes of higher plants, including opening and closing of stomatal pores and leaf movement. Inward rectifying potassium (K(+)in) channels play an important role in turgor regulation and ion uptake in higher plants. All of them comprise, from their N-terminal to their C-terminal ends: a short hydrophilic region, a hydrophobic region structurally analogous and partially homologous to the transmembrane domain of voltage-gated animal channels from the Shaker superfamily, a putative cyclic nucleotide-binding domain, and a conserved C-terminal KHA domain. Between these last two regions, some of them (AKT1, AKT2 and SKT1) contain an ankyrin-repeat domain with six repeats homologous to those of human erythrocyte ankyrin. This entry represents the KHA domain which is unique to plant K(+)in channels. The KHA domain contains two high-homology blocks enriched for hydrophobic and acidic residues, respectively. The KHA domain is essential for interaction of plant K(+)in channels. The KHA domain mediates tetramerization and/or stabilisation of the heteromers [, , ].
Probab=37.56 E-value=40 Score=24.06 Aligned_cols=51 Identities=14% Similarity=0.160 Sum_probs=32.5
Q ss_pred CceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEE
Q 030498 75 GTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFV 149 (176)
Q Consensus 75 G~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk 149 (176)
|+-+.+| -|+.||.+...++|...+. ..++-+|-.+.|= --|+|||.|+|+
T Consensus 19 GKvi~lP--~SleeLl~ia~~kfg~~~~----------------~v~~~dgaeIdDI------~~IRDgD~L~~~ 69 (69)
T PF11834_consen 19 GKVIWLP--DSLEELLKIASEKFGFSAT----------------KVLNEDGAEIDDI------DVIRDGDHLYLV 69 (69)
T ss_pred CEEEEcC--ccHHHHHHHHHHHhCCCce----------------EEEcCCCCEEeEE------EEEEcCCEEEEC
Confidence 4443444 4999999999999965432 1444444433332 148999998874
No 112
>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=36.84 E-value=83 Score=21.49 Aligned_cols=33 Identities=15% Similarity=0.272 Sum_probs=24.7
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhh
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVND 99 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~ 99 (176)
++|.|.- +|... .|+.++|..||...|...+..
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~ 36 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGL 36 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 3455544 34443 888999999999999999964
No 113
>PRK13744 conjugal transfer protein TrbG; Provisional
Probab=36.77 E-value=32 Score=25.11 Aligned_cols=34 Identities=21% Similarity=0.313 Sum_probs=26.2
Q ss_pred ccCCceEEEEEecCCcee----EecCcccHHHHHHHHH
Q 030498 61 EMGSAMRISILKLDGTSF----AVMNSATVKDLKLAIK 94 (176)
Q Consensus 61 e~G~Am~LtV~k~dG~~l----~V~~~ATV~DLKkAI~ 94 (176)
+-|..|--+|-+-.-+.. .+...+||.|||+-+-
T Consensus 37 aggkrivayvykssrstvfenpdivktctvrdlkkdfv 74 (83)
T PRK13744 37 AGGKRIVAYVYKSSRSTVFENPDIVKTCTVRDLKKDFV 74 (83)
T ss_pred CCCcEEEEEEeecccceeccCCCceeeeehhhhhhhhc
Confidence 457778888888777665 5667899999998764
No 114
>cd01616 TGS The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=35.78 E-value=1e+02 Score=18.53 Aligned_cols=24 Identities=29% Similarity=0.432 Sum_probs=18.0
Q ss_pred cCCceeEecCcccHHHHHHHHHHH
Q 030498 73 LDGTSFAVMNSATVKDLKLAIKKK 96 (176)
Q Consensus 73 ~dG~~l~V~~~ATV~DLKkAI~~~ 96 (176)
.+|..+.++..+|+.|+-..+...
T Consensus 6 ~~~~~~~~~~g~t~~~~~~~~~~~ 29 (60)
T cd01616 6 PDGSAVELPKGATAMDFALKIHTD 29 (60)
T ss_pred CCCCEEEcCCCCCHHHHHHHHHHH
Confidence 457777788899999987766553
No 115
>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=35.69 E-value=73 Score=23.09 Aligned_cols=33 Identities=18% Similarity=0.117 Sum_probs=24.3
Q ss_pred eEEEEEecCCcee--EecCcccHHHHHHHHHHHhhh
Q 030498 66 MRISILKLDGTSF--AVMNSATVKDLKLAIKKKVND 99 (176)
Q Consensus 66 m~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~ 99 (176)
|+|.+.-. |..+ .|+++++..||+..|.+.+..
T Consensus 1 ~~vK~~~~-~d~~r~~l~~~~~~~~L~~~i~~r~~~ 35 (82)
T cd06407 1 VRVKATYG-EEKIRFRLPPSWGFTELKQEIAKRFKL 35 (82)
T ss_pred CEEEEEeC-CeEEEEEcCCCCCHHHHHHHHHHHhCC
Confidence 34444443 3444 778999999999999999864
No 116
>PF09269 DUF1967: Domain of unknown function (DUF1967); InterPro: IPR015349 The Obg family comprises a group of ancient P-loop small G proteins (GTPases) belonging to the TRAFAC (for translation factors) class and can be subdivided into several distinct protein subfamilies []. OBG GTPases have been found in both prokaryotes and eukaryotes []. The structure of the OBG GTPase from Thermus thermophilus has been determined []. This entry represents a C-terminal domain found in certain OBG GTPases. This domain contains a four-stranded beta sheet and three alpha helices flanked by an additional beta strand. It is predominantly found in the bacterial GTP-binding protein Obg, and is functionally uncharacterised. ; GO: 0000166 nucleotide binding; PDB: 1UDX_A.
Probab=34.80 E-value=24 Score=24.80 Aligned_cols=17 Identities=24% Similarity=0.530 Sum_probs=11.4
Q ss_pred cchhhhcCCccCCEEEE
Q 030498 132 NSALQDCGVRNNSQVQF 148 (176)
Q Consensus 132 ~~~L~dyGIkngd~L~F 148 (176)
.+.|...|+++||+|..
T Consensus 46 ~~~L~~~G~~~GD~V~I 62 (69)
T PF09269_consen 46 EKALRKAGAKEGDTVRI 62 (69)
T ss_dssp HHHHHTTT--TT-EEEE
T ss_pred HHHHHHcCCCCCCEEEE
Confidence 46899999999999864
No 117
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=33.72 E-value=91 Score=31.48 Aligned_cols=75 Identities=16% Similarity=0.292 Sum_probs=47.1
Q ss_pred HHHhHhhhhccCCceEEEEEecCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccC
Q 030498 52 SDVDTLISLEMGSAMRISILKLDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDE 131 (176)
Q Consensus 52 ~ev~~~Iale~G~Am~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD 131 (176)
.|....+..+.=. =.|+|-.-+|..+.+|.+||+.|+=-+|+..+ |++ |. +-+. +.
T Consensus 391 ~ef~e~~k~dl~~-d~V~VfTPkG~~~~Lp~gaT~lDfAy~iHt~i--------G~~-----------~~---gAkv-ng 446 (743)
T PRK10872 391 GEMLDEVRSQVFD-DRVYVFTPKGDVVDLPAGSTPLDFAYHIHSDV--------GHR-----------CI---GAKI-GG 446 (743)
T ss_pred HHHHHHHHHHhcC-CeEEEECCCCCeEEcCCCCcHHHHHHHHhHHH--------Hhh-----------ce---EEEE-CC
Confidence 4444444433311 34999999999989999999999977777554 222 11 1111 11
Q ss_pred cchhhhcCCccCCEEEEEe
Q 030498 132 NSALQDCGVRNNSQVQFVP 150 (176)
Q Consensus 132 ~~~L~dyGIkngd~L~Fk~ 150 (176)
...--+|-++|||+|-+.-
T Consensus 447 ~~v~l~~~L~~GD~VeIit 465 (743)
T PRK10872 447 RIVPFTYQLQMGDQIEIIT 465 (743)
T ss_pred EECCCCcCCCCCCEEEEEe
Confidence 1122367899999988763
No 118
>TIGR00691 spoT_relA (p)ppGpp synthetase, RelA/SpoT family. (p)ppGpp is a regulatory metabolite of the stringent response, but appears also to be involved in antibiotic biosynthesis in some species.
Probab=33.04 E-value=84 Score=31.08 Aligned_cols=74 Identities=15% Similarity=0.245 Sum_probs=47.3
Q ss_pred HHHhHhhhhccCCceEEEEEecCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccC
Q 030498 52 SDVDTLISLEMGSAMRISILKLDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDE 131 (176)
Q Consensus 52 ~ev~~~Iale~G~Am~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD 131 (176)
.|....+.++.=. =.|+|-.-.|..+.+|.+|||.|+=-+|+..+- +. |+ +-+ .+.
T Consensus 347 ~~~~~~~k~~l~~-~~i~vfTPkG~~~~lp~gst~~DfAy~ih~~~g--------~~-----------~~---~a~-vng 402 (683)
T TIGR00691 347 FEFIENLKSDLFN-EEIYVFTPKGDVVELPSGSTPVDFAYAVHTDVG--------NK-----------CT---GAK-VNG 402 (683)
T ss_pred hhHHHHhhHHhcc-CceEEECCCCeEEEcCCCCCHHHHHHHHhHHhH--------hc-----------ee---EEE-ECC
Confidence 3444444433322 578999999999999999999999888875552 21 22 111 111
Q ss_pred cchhhhcCCccCCEEEEE
Q 030498 132 NSALQDCGVRNNSQVQFV 149 (176)
Q Consensus 132 ~~~L~dyGIkngd~L~Fk 149 (176)
...--++-++|||+|.+.
T Consensus 403 ~~v~l~~~l~~gd~vei~ 420 (683)
T TIGR00691 403 KIVPLDKELENGDVVEII 420 (683)
T ss_pred EECCCCccCCCCCEEEEE
Confidence 112236789999999886
No 119
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=32.03 E-value=54 Score=21.84 Aligned_cols=63 Identities=14% Similarity=0.185 Sum_probs=35.8
Q ss_pred eEEEEEecCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCE
Q 030498 66 MRISILKLDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQ 145 (176)
Q Consensus 66 m~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~ 145 (176)
|+|+| ||+.+.++...||.||=.+.. . +. . ...+..+++ +.. ...-.+.=+++||.
T Consensus 1 m~i~v---NG~~~~~~~~~tl~~lL~~l~----~-~~--~------------~vav~vNg~-iv~-r~~~~~~~l~~gD~ 56 (66)
T PRK05659 1 MNIQL---NGEPRELPDGESVAALLAREG----L-AG--R------------RVAVEVNGE-IVP-RSQHASTALREGDV 56 (66)
T ss_pred CEEEE---CCeEEEcCCCCCHHHHHHhcC----C-CC--C------------eEEEEECCe-EeC-HHHcCcccCCCCCE
Confidence 44444 688888888899998875531 1 11 0 012223332 221 22334556899999
Q ss_pred EEEEeee
Q 030498 146 VQFVPFV 152 (176)
Q Consensus 146 L~Fk~~l 152 (176)
|-+.+-+
T Consensus 57 vei~~~v 63 (66)
T PRK05659 57 VEIVHAL 63 (66)
T ss_pred EEEEEEe
Confidence 8777655
No 120
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=31.95 E-value=33 Score=23.09 Aligned_cols=24 Identities=33% Similarity=0.627 Sum_probs=17.2
Q ss_pred eEEEEEecCCceeEe-----cCcccHHHH
Q 030498 66 MRISILKLDGTSFAV-----MNSATVKDL 89 (176)
Q Consensus 66 m~LtV~k~dG~~l~V-----~~~ATV~DL 89 (176)
|.|++++.||..|.| ..+.|+.++
T Consensus 1 ~~v~L~SsDg~~f~V~~~~a~~S~~i~~m 29 (62)
T PF03931_consen 1 MYVKLVSSDGQEFEVSREAAKQSKTIKNM 29 (62)
T ss_dssp -EEEEEETTSEEEEEEHHHHTTSHHHHHH
T ss_pred CEEEEEcCCCCEEEeeHHHHHHhHHHHHH
Confidence 679999999999944 355666554
No 121
>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=31.64 E-value=1.6e+02 Score=23.56 Aligned_cols=68 Identities=12% Similarity=0.061 Sum_probs=32.2
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeee-----eeecCCcccccCcchhhhcCCccCCEEEE
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANY-----CLSHQNQKLLDENSALQDCGVRNNSQVQF 148 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f-----~L~~~~~kL~dD~~~L~dyGIkngd~L~F 148 (176)
.|+.++|+.+|=.+|+..|..... .. +.+.--..-|+.. -............-+|.++....|+.+.|
T Consensus 23 ~Vp~~~tl~~Lh~~Iq~afgw~~~-HL-~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~Y 95 (179)
T PF07929_consen 23 EVPADITLADLHEVIQAAFGWDDD-HL-YEFFIGGERYGIPDEDGMDFSEGDEIKDASEVKLGELLLEEGDKFTY 95 (179)
T ss_dssp EEETT-BHHHHHHHHHHHTT-----S--EEEEEE-TTTSSESSS---------EEETTT-BHHHC-BTTC-EEEE
T ss_pred EECCCCCHHHHHHHHHHHhCcCCC-Ee-EEEEECCCccccccccccccccCCCcceeeeEEhhhhccCcCCEEEE
Confidence 889999999999999999863110 00 0000001111111 11111223445667788887777777655
No 122
>PRK11347 antitoxin ChpS; Provisional
Probab=31.31 E-value=92 Score=22.74 Aligned_cols=41 Identities=10% Similarity=0.152 Sum_probs=30.6
Q ss_pred HHHhHhhhhccCCceEEEEEecCCcee--EecCcccHHHHHHHHH
Q 030498 52 SDVDTLISLEMGSAMRISILKLDGTSF--AVMNSATVKDLKLAIK 94 (176)
Q Consensus 52 ~ev~~~Iale~G~Am~LtV~k~dG~~l--~V~~~ATV~DLKkAI~ 94 (176)
.++..++.++.|+.+.|+|.. |..+ .+.+..|+.||=..+.
T Consensus 18 k~il~~l~l~~G~~v~i~v~~--~~iii~p~~~~~tL~eLla~~~ 60 (83)
T PRK11347 18 NIVMKELNLQPGQSVEAQVSN--NQLILTPISRRYSLDELLAQCD 60 (83)
T ss_pred HHHHHHcCCCCCCEEEEEEEC--CEEEEEECCCCCCHHHHHhcCC
Confidence 578899999999999998874 4433 5556678888765544
No 123
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=31.25 E-value=1.3e+02 Score=18.32 Aligned_cols=53 Identities=21% Similarity=0.347 Sum_probs=37.1
Q ss_pred ccCCCCCCCHHHHhHhhhhccCCceEEEEEecCC---ceeEecCcccHHHHHHHHHH
Q 030498 42 LADVPKKPTLSDVDTLISLEMGSAMRISILKLDG---TSFAVMNSATVKDLKLAIKK 95 (176)
Q Consensus 42 L~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k~dG---~~l~V~~~ATV~DLKkAI~~ 95 (176)
+++||+.+|-++|...++- +|....+.+..... ..+..-.=.|..+.+.|+..
T Consensus 4 i~~l~~~~~~~~i~~~~~~-~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~ 59 (74)
T cd00590 4 VGNLPPDVTEEDLRELFSK-FGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEA 59 (74)
T ss_pred EeCCCCccCHHHHHHHHHh-cCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHH
Confidence 5789999999999999877 48888888887543 22211111367788888765
No 124
>PF07340 Herpes_IE1: Cytomegalovirus IE1 protein; InterPro: IPR010855 Expression from a human cytomegalovirus early promoter (E1.7) has been shown to be activated in trans by the IE2 gene product. Although the IE1 gene product alone had no effect on this early viral promoter, maximal early promoter activity was detected when both IE1 and IE2 gene products were present []. The IE1 protein from cytomegalovirus is also known as UL123.; GO: 0050792 regulation of viral reproduction, 0042025 host cell nucleus
Probab=31.11 E-value=1.1e+02 Score=28.76 Aligned_cols=28 Identities=36% Similarity=0.666 Sum_probs=18.0
Q ss_pred HHHHHHHH----hhh--cCCcccCCCCCC--CHHHH
Q 030498 27 ARLHSTLT----ALL--DDPILADVPKKP--TLSDV 54 (176)
Q Consensus 27 ~~~~~~l~----~ll--~Dp~L~dlp~~~--Tl~ev 54 (176)
.+++.+|+ ..+ -||++.++|-++ |++||
T Consensus 35 ~fLek~l~~E~~~~lsLGDPLf~~~~~~~~kt~e~i 70 (392)
T PF07340_consen 35 QFLEKMLADETNTQLSLGDPLFPDVSEDPFKTFEDI 70 (392)
T ss_pred HHHHHHHHHHHhcccccCCCCCCCCCCCchhhHHHH
Confidence 45555554 444 499999999664 35555
No 125
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=30.92 E-value=57 Score=22.16 Aligned_cols=62 Identities=16% Similarity=0.191 Sum_probs=36.4
Q ss_pred eEEEEEecCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCE
Q 030498 66 MRISILKLDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQ 145 (176)
Q Consensus 66 m~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~ 145 (176)
|+|+| ||..+.++.++||.||=.+.. . +. +...+...++ +.. +.....+ +++||.
T Consensus 1 m~i~v---NG~~~~~~~~~tl~~ll~~l~----~-~~--------------~~vav~~N~~-iv~-r~~~~~~-L~~gD~ 55 (65)
T PRK05863 1 MIVVV---NEEQVEVDEQTTVAALLDSLG----F-PE--------------KGIAVAVDWS-VLP-RSDWATK-LRDGAR 55 (65)
T ss_pred CEEEE---CCEEEEcCCCCcHHHHHHHcC----C-CC--------------CcEEEEECCc-CcC-hhHhhhh-cCCCCE
Confidence 45554 688888888899998866431 1 11 1123334444 222 2233346 899999
Q ss_pred EEEEeee
Q 030498 146 VQFVPFV 152 (176)
Q Consensus 146 L~Fk~~l 152 (176)
|-+.+-+
T Consensus 56 ieIv~~V 62 (65)
T PRK05863 56 LEVVTAV 62 (65)
T ss_pred EEEEeec
Confidence 8877655
No 126
>TIGR03595 Obg_CgtA_exten Obg family GTPase CgtA, C-terminal extension. CgtA (see model TIGR02729) is a broadly conserved member of the obg family of GTPases associated with ribosome maturation. This model represents a unique C-terminal domain found in some but not all sequences of CgtA. This region is preceded, and may be followed, by a region of low-complexity sequence.
Probab=30.78 E-value=34 Score=24.03 Aligned_cols=18 Identities=22% Similarity=0.471 Sum_probs=14.9
Q ss_pred cchhhhcCCccCCEEEEE
Q 030498 132 NSALQDCGVRNNSQVQFV 149 (176)
Q Consensus 132 ~~~L~dyGIkngd~L~Fk 149 (176)
...|.+.|+++||+|..-
T Consensus 46 ~~~L~~~G~~~GD~V~Ig 63 (69)
T TIGR03595 46 EDALRKAGAKDGDTVRIG 63 (69)
T ss_pred HHHHHHcCCCCCCEEEEc
Confidence 458999999999998653
No 127
>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=30.56 E-value=1.4e+02 Score=20.35 Aligned_cols=52 Identities=19% Similarity=0.336 Sum_probs=41.6
Q ss_pred cCCCCCCCHHHHhHhhhhccCC---ceEEEEEecCCceeEecCcccHHHHHHHHHHHh
Q 030498 43 ADVPKKPTLSDVDTLISLEMGS---AMRISILKLDGTSFAVMNSATVKDLKLAIKKKV 97 (176)
Q Consensus 43 ~dlp~~~Tl~ev~~~Iale~G~---Am~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~ 97 (176)
-.+|.++|.+++...|+-.+|. .++|.-.-.+|..+.|. +=.||..|++..-
T Consensus 16 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~dgD~V~i~---sd~Dl~~a~~~~~ 70 (84)
T PF00564_consen 16 ISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDEDGDLVTIS---SDEDLQEAIEQAK 70 (84)
T ss_dssp EEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETTSSEEEES---SHHHHHHHHHHHH
T ss_pred EEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCCCCEEEeC---CHHHHHHHHHHHH
Confidence 4688899999999999999888 68888888888665444 3468888888765
No 128
>PRK07440 hypothetical protein; Provisional
Probab=30.53 E-value=74 Score=22.15 Aligned_cols=65 Identities=11% Similarity=0.231 Sum_probs=40.1
Q ss_pred CceEEEEEecCCceeEecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccC
Q 030498 64 SAMRISILKLDGTSFAVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNN 143 (176)
Q Consensus 64 ~Am~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkng 143 (176)
+.|+|+| +|+.+.++...||.||=+.+. ..++ .+....+++ +. .+..-.++-+++|
T Consensus 3 ~~m~i~v---NG~~~~~~~~~tl~~lL~~l~----~~~~---------------~vav~~N~~-iv-~r~~w~~~~L~~g 58 (70)
T PRK07440 3 NPITLQV---NGETRTCSSGTSLPDLLQQLG----FNPR---------------LVAVEYNGE-IL-HRQFWEQTQVQPG 58 (70)
T ss_pred CceEEEE---CCEEEEcCCCCCHHHHHHHcC----CCCC---------------eEEEEECCE-Ee-CHHHcCceecCCC
Confidence 4577776 688888888999999875432 1111 123444444 22 2334556678899
Q ss_pred CEEEEEeee
Q 030498 144 SQVQFVPFV 152 (176)
Q Consensus 144 d~L~Fk~~l 152 (176)
|.|-.+.-+
T Consensus 59 D~IEIv~~v 67 (70)
T PRK07440 59 DRLEIVTIV 67 (70)
T ss_pred CEEEEEEEe
Confidence 997666544
No 129
>PF10407 Cytokin_check_N: Cdc14 phosphatase binding protein N-terminus ; InterPro: IPR018844 Cytokinesis in yeasts involves a family of proteins whose essential function is to bind Cdc14-family phosphatase and prevent this from being sequestered and inhibited in the nucleolus. This is the highly conserved N terminus of a family of proteins which act as cytokinesis checkpoint controls by allowing cells to cope with cytokinesis defects. These proteins are required for rDNA silencing and mini-chromosome maintenance [].
Probab=29.89 E-value=69 Score=23.19 Aligned_cols=24 Identities=17% Similarity=0.220 Sum_probs=20.6
Q ss_pred EecCcccHHHHHHHHHHHhhh-hhh
Q 030498 79 AVMNSATVKDLKLAIKKKVND-MEQ 102 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~-~~~ 102 (176)
-..++.|+.+|+..|...|.. ||.
T Consensus 8 lt~~~~tl~~L~~eI~~~f~kLYP~ 32 (73)
T PF10407_consen 8 LTDPNNTLSQLKEEIEERFKKLYPN 32 (73)
T ss_pred EeCCCCcHHHHHHHHHHHHHHHCCC
Confidence 557899999999999999874 875
No 130
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=29.52 E-value=2.7e+02 Score=21.57 Aligned_cols=62 Identities=23% Similarity=0.259 Sum_probs=34.9
Q ss_pred CcccHHHHHHHHHHHhhhhhhc---ccCCccccccceeeeeeeecCCc-ccccCcchhhhcCCccCCEEEEEeeee
Q 030498 82 NSATVKDLKLAIKKKVNDMEQS---NLGHRHISWKHVWANYCLSHQNQ-KLLDENSALQDCGVRNNSQVQFVPFVL 153 (176)
Q Consensus 82 ~~ATV~DLKkAI~~~~~~~~~R---q~G~~~ISW~~VW~~f~L~~~~~-kL~dD~~~L~dyGIkngd~L~Fk~~l~ 153 (176)
..|||.||=.-|...+-..|.. +.|. =| =+..||.++.- .|+.. .||-+++||.|.|+.-+.
T Consensus 34 ~~~tvgdll~yi~~~~ie~r~~lFi~~gs----vr--pGii~lINd~DWEllek----edy~ledgD~ivfiSTlH 99 (101)
T KOG4146|consen 34 SPATVGDLLDYIFGKYIETRDSLFIHHGS----VR--PGIIVLINDMDWELLEK----EDYPLEDGDHIVFISTLH 99 (101)
T ss_pred CcccHHHHHHHHHHHHhcCCcceEeeCCc----Cc--CcEEEEEeccchhhhcc----cccCcccCCEEEEEEecc
Confidence 3499999988888765332221 1110 00 02334444321 12221 389999999999987654
No 131
>PF10790 DUF2604: Protein of Unknown function (DUF2604); InterPro: IPR019726 This entry represents bacterial proteins with undetermined function.
Probab=29.36 E-value=46 Score=24.31 Aligned_cols=26 Identities=23% Similarity=0.455 Sum_probs=20.3
Q ss_pred cCCcccccCcchhhhcCCccCCEEEE
Q 030498 123 HQNQKLLDENSALQDCGVRNNSQVQF 148 (176)
Q Consensus 123 ~~~~kL~dD~~~L~dyGIkngd~L~F 148 (176)
-..-.++|-++++.|||+.||-.|..
T Consensus 43 De~G~vlD~~kKveD~GftngvkLFL 68 (76)
T PF10790_consen 43 DESGQVLDVNKKVEDFGFTNGVKLFL 68 (76)
T ss_pred ccCCcEeeccchhhhccccccceEEE
Confidence 33334788899999999999987654
No 132
>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=29.12 E-value=1.2e+02 Score=20.43 Aligned_cols=32 Identities=19% Similarity=0.169 Sum_probs=23.3
Q ss_pred EEEEecCCcee-Eec-CcccHHHHHHHHHHHhhh
Q 030498 68 ISILKLDGTSF-AVM-NSATVKDLKLAIKKKVND 99 (176)
Q Consensus 68 LtV~k~dG~~l-~V~-~~ATV~DLKkAI~~~~~~ 99 (176)
|.+.-.++... .|+ .++|..||+..|...+..
T Consensus 3 vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~ 36 (81)
T cd05992 3 VKVKYGGEIRRFVVVSRSISFEDLRSKIAEKFGL 36 (81)
T ss_pred EEEEecCCCEEEEEecCCCCHHHHHHHHHHHhCC
Confidence 44444433333 666 899999999999999965
No 133
>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=28.70 E-value=57 Score=27.95 Aligned_cols=60 Identities=13% Similarity=0.139 Sum_probs=37.3
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCC-----cccccCcchhhhcCCccCCEEEEEeeee
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQN-----QKLLDENSALQDCGVRNNSQVQFVPFVL 153 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~-----~kL~dD~~~L~dyGIkngd~L~Fk~~l~ 153 (176)
.|+.+++|.+|=..|.+....-+.. . .+.|+. ...++.+.++....|.|||.|.|-+...
T Consensus 90 ~v~~~~~v~~l~~~i~~~~g~p~~t-~--------------l~lyEEi~~~~ie~i~~~~t~~~~el~~GdIi~fQ~~~~ 154 (249)
T PF12436_consen 90 YVPKNDKVSELVPLINERAGLPPDT-P--------------LLLYEEIKPNMIEPIDPNQTFEKAELQDGDIICFQRAPS 154 (249)
T ss_dssp EEETT-BGGGTHHHHHHHHT--TT-----------------EEEEEEEETTEEEE--SSSBHHHTT--TTEEEEEEE--G
T ss_pred EECCCCCHHHHHHHHHHHcCCCCCC-c--------------eEEEEEeccceeeEcCCCCchhhcccCCCCEEEEEeccc
Confidence 6788899999999999886542211 0 333332 2235788999999999999999999775
No 134
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. 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, f
Probab=28.63 E-value=1.5e+02 Score=21.99 Aligned_cols=48 Identities=17% Similarity=0.305 Sum_probs=37.5
Q ss_pred CCCCCCHHHHhHhhhhccCCceEEEEEecCCceeEecCcccHHHHHHHHHHH
Q 030498 45 VPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFAVMNSATVKDLKLAIKKK 96 (176)
Q Consensus 45 lp~~~Tl~ev~~~Iale~G~Am~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~ 96 (176)
.|..+-.+||..-..-++||.|.+.--..+ +.| +=-+=.||-+||+-.
T Consensus 16 f~RPvkf~dl~~kv~~afGq~mdl~ytn~e---L~i-Pl~~Q~DLDkAie~l 63 (79)
T cd06405 16 FPRPVKFKDLQQKVTTAFGQPMDLHYTNNE---LLI-PLKNQEDLDRAIELL 63 (79)
T ss_pred cCCCccHHHHHHHHHHHhCCeeeEEEeccc---EEE-eccCHHHHHHHHHHH
Confidence 678899999999999999999999876544 322 234668999999854
No 135
>COG0484 DnaJ DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]
Probab=27.96 E-value=50 Score=30.70 Aligned_cols=28 Identities=25% Similarity=0.290 Sum_probs=22.7
Q ss_pred EecCcccHHHHHHHHHHHhh-hhhhcccC
Q 030498 79 AVMNSATVKDLKLAIKKKVN-DMEQSNLG 106 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~-~~~~Rq~G 106 (176)
-|+.+||..|+|+|..+... +.|.|++|
T Consensus 11 GV~k~As~~EIKkAYRkLA~kyHPD~n~g 39 (371)
T COG0484 11 GVSKDASEEEIKKAYRKLAKKYHPDRNPG 39 (371)
T ss_pred CCCCCCCHHHHHHHHHHHHHHhCCCCCCC
Confidence 67899999999999998754 56777664
No 136
>cd04938 TGS_Obg-like TGS_Obg-like: The C-terminal TGS domain of Obg-like GTPases such as those present in DRG (developmentally regulated GTP-binding protein), and GTP-binding proteins Ygr210 and YchF. The TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=27.42 E-value=1.2e+02 Score=21.63 Aligned_cols=49 Identities=16% Similarity=0.036 Sum_probs=31.9
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEE
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFV 149 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk 149 (176)
.|++++||.|+=.+|+.-+...- ..- -||+ ++..- .||-+.|||.|.|+
T Consensus 27 ~l~~g~tv~d~a~~IH~d~~~~F-----~~A----~v~~-------~~~vg------~d~~l~d~DVv~i~ 75 (76)
T cd04938 27 LVKKGTTVGDVARKIHGDLEKGF-----IEA----VGGR-------RRLEG------KDVILGKNDILKFK 75 (76)
T ss_pred EEcCCCCHHHHHHHHhHHHHhcc-----EEE----EEcc-------CEEEC------CCEEecCCCEEEEE
Confidence 77889999999999997663200 011 2444 22211 16788999999886
No 137
>PF02192 PI3K_p85B: PI3-kinase family, p85-binding domain; InterPro: IPR003113 This is the region of the p110 phosphatidylinositol 3-kinase (PI3-Kinase) that binds the p85 subunit.; GO: 0046934 phosphatidylinositol-4,5-bisphosphate 3-kinase activity, 0007165 signal transduction, 0005942 phosphatidylinositol 3-kinase complex; PDB: 3HIZ_A 3HHM_A 2RD0_A 4A55_A 2Y3A_A 2V1Y_A.
Probab=27.08 E-value=76 Score=23.12 Aligned_cols=59 Identities=19% Similarity=0.215 Sum_probs=30.6
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcC
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCG 139 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyG 139 (176)
.|+.+||+.|+|..+-+....||=-.. -+..+ .|+-.+.--..+.+.+.|+...|-|.-
T Consensus 5 ~~~~~~Tl~~iK~~lw~~A~~~PL~~~-L~~~~-~Y~F~~in~~ae~EEl~DEsrrL~dv~ 63 (78)
T PF02192_consen 5 RVSRDATLSEIKEELWEEAKKYPLFSL-LKDPS-SYIFSCINQFAEQEELYDESRRLCDVR 63 (78)
T ss_dssp EEETT-BHHHHHHHHHHHGGGSTTCCC-S--GG-GEEEEEEBTTSCEEEE--TTSBTGGC-
T ss_pred EccCcCcHHHHHHHHHHHHHhCChHHH-hCCCC-cEEEEEecCCCccceeEcchheeeecc
Confidence 678999999999998888765542100 00001 143333322233345777777776653
No 138
>KOG3206 consensus Alpha-tubulin folding cofactor B [Posttranslational modification, protein turnover, chaperones]
Probab=25.80 E-value=2e+02 Score=25.32 Aligned_cols=72 Identities=15% Similarity=0.076 Sum_probs=0.0
Q ss_pred eEEEEEecCCcee---EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCC-----cccccCcchhhh
Q 030498 66 MRISILKLDGTSF---AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQN-----QKLLDENSALQD 137 (176)
Q Consensus 66 m~LtV~k~dG~~l---~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~-----~kL~dD~~~L~d 137 (176)
++|.|-......- ..+++.||++||..++..+---+..-. .-.|++ -.|.++++.|..
T Consensus 2 v~v~Iss~~~~~~~Ekr~~~~ltl~q~K~KLe~~~G~~~~~M~--------------l~l~~~~d~~~~~lsn~d~~lg~ 67 (234)
T KOG3206|consen 2 VRVVISSSLNDFRTEKRLSNSLTLAQFKDKLELLTGTEAESME--------------LELYDGDDKKVSALSNEDADLGF 67 (234)
T ss_pred eEEEEecccccchhhhhcCCcCcHHHHHhhhhhhhCCCccceE--------------EEEEcCCCceeeeccCCcccccc
Q ss_pred cCCccCCEEEEEee
Q 030498 138 CGVRNNSQVQFVPF 151 (176)
Q Consensus 138 yGIkngd~L~Fk~~ 151 (176)
|+..+|=.||.+..
T Consensus 68 ~~~~Dg~rihviD~ 81 (234)
T KOG3206|consen 68 YKVEDGLRIHVIDS 81 (234)
T ss_pred cCCCCceEEEEEec
No 139
>COG1443 Idi Isopentenyldiphosphate isomerase [Lipid metabolism]
Probab=25.73 E-value=33 Score=29.18 Aligned_cols=49 Identities=20% Similarity=0.403 Sum_probs=34.7
Q ss_pred CccccccceeeeeeeecCCcccccCcchh----hhcCCccC--CEEEEEeeeecC
Q 030498 107 HRHISWKHVWANYCLSHQNQKLLDENSAL----QDCGVRNN--SQVQFVPFVLSK 155 (176)
Q Consensus 107 ~~~ISW~~VW~~f~L~~~~~kL~dD~~~L----~dyGIkng--d~L~Fk~~l~~~ 155 (176)
-.++-|.-||.|=|-+.-......-++.. -++||..- |.+.|.+|..|+
T Consensus 54 ~~K~twP~vWTNSvCsHP~~~es~~~A~~rRl~~ELGie~~~~d~~~il~rf~Yr 108 (185)
T COG1443 54 LSKKTWPGVWTNSVCSHPLPGESNEDAARRRLAYELGIEPDQYDKLEILPRFRYR 108 (185)
T ss_pred hhcccCcccccccccCCCcCCCchHHHHHHHHHHHhCCCCcccCccccccceEEe
Confidence 37889999999987655433222222222 37899999 889999998876
No 140
>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=25.54 E-value=2e+02 Score=20.03 Aligned_cols=21 Identities=19% Similarity=0.208 Sum_probs=18.5
Q ss_pred EecCcccHHHHHHHHHHHhhh
Q 030498 79 AVMNSATVKDLKLAIKKKVND 99 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~ 99 (176)
.|..++|+.|+=.++.+++..
T Consensus 21 ~v~~~tTa~~Vi~~~l~k~~l 41 (90)
T smart00314 21 RVSSRTTARDVIQQLLEKFHL 41 (90)
T ss_pred EECCCCCHHHHHHHHHHHhCC
Confidence 788999999999999988854
No 141
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=25.44 E-value=1.7e+02 Score=26.37 Aligned_cols=54 Identities=24% Similarity=0.315 Sum_probs=38.0
Q ss_pred ccCCCCCCCHHHHhHhhhhccCCceEEEEEec--CCcee--EecCcccHHHHHHHHHHH
Q 030498 42 LADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSF--AVMNSATVKDLKLAIKKK 96 (176)
Q Consensus 42 L~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k~--dG~~l--~V~~~ATV~DLKkAI~~~ 96 (176)
..+||.++|-+||..+.+ .+|.-..+.|.+. .|.+- ....=+|..+-++||+..
T Consensus 112 VgnLp~~~te~~L~~lF~-~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~L 169 (346)
T TIGR01659 112 VNYLPQDMTDRELYALFR-TIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNL 169 (346)
T ss_pred EeCCCCCCCHHHHHHHHH-hcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHc
Confidence 378999999999999987 5788766777653 33332 111236888889999754
No 142
>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.70 E-value=92 Score=26.16 Aligned_cols=39 Identities=15% Similarity=0.307 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHhhhcCCccc-----------CCCCCCCHHHHhHhhhhcc
Q 030498 24 MKKARLHSTLTALLDDPILA-----------DVPKKPTLSDVDTLISLEM 62 (176)
Q Consensus 24 ~~~~~~~~~l~~ll~Dp~L~-----------dlp~~~Tl~ev~~~Iale~ 62 (176)
.+++--+.+|..|++||.++ |+|....+.||...+.||-
T Consensus 98 dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leLe~ 147 (180)
T KOG0071|consen 98 DRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLELER 147 (180)
T ss_pred hhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhcccc
Confidence 56777888999999988665 5666677788887777764
No 143
>PF11069 DUF2870: Protein of unknown function (DUF2870); InterPro: IPR021298 This is a eukaryotic family of proteins with unknown function.
Probab=24.45 E-value=1.1e+02 Score=23.61 Aligned_cols=41 Identities=17% Similarity=0.334 Sum_probs=31.7
Q ss_pred eeecCCcccccCcchhhhcCCccCCEEEEEeeeecCCcccccc
Q 030498 120 CLSHQNQKLLDENSALQDCGVRNNSQVQFVPFVLSKGSGKHSK 162 (176)
Q Consensus 120 ~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l~~~~~~~~~~ 162 (176)
+|=+-|+.| ..+++|+|| |..++.-.++.+|..++++--.|
T Consensus 3 ~LW~aGK~l-~~~k~l~dy-~GkNEKtKiivKl~~~g~g~P~R 43 (98)
T PF11069_consen 3 QLWWAGKEL-QRGKKLSDY-IGKNEKTKIIVKLQKRGQGPPPR 43 (98)
T ss_pred eEEeccccc-cCCCcHHHh-cCCCcceeEEEEeccCCCCCCCC
Confidence 444667644 677899999 88888889999998888876544
No 144
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.43 E-value=90 Score=29.30 Aligned_cols=68 Identities=16% Similarity=0.135 Sum_probs=42.6
Q ss_pred EEEEEecCCcee---EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeee-----cCCcccccCcchhhhc
Q 030498 67 RISILKLDGTSF---AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLS-----HQNQKLLDENSALQDC 138 (176)
Q Consensus 67 ~LtV~k~dG~~l---~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~-----~~~~kL~dD~~~L~dy 138 (176)
++.+..-.-+.. -|.-..||.|+++.+..++-..+.| | +-|.|. ++.. -.+.++-|..|
T Consensus 338 rvk~l~~~~~v~~s~~I~~~~TV~D~~~~Ld~~VGvk~tr-M-----------kLf~L~eD~rt~~~s-s~~~N~~L~~f 404 (418)
T KOG2982|consen 338 RVKALNSGPKVIASGLICMTRTVLDFMKILDPKVGVKFTR-M-----------KLFLLREDGRTDDFS-SSDYNMPLHYF 404 (418)
T ss_pred eeeeeccCCccccceEEEeehHHHHHHHHhccccccccce-e-----------EEEEEcccCccCCcc-ccCCCCcceEE
Confidence 455554433333 5566799999999999886543332 1 112222 2222 23778899999
Q ss_pred CCccCCEEE
Q 030498 139 GVRNNSQVQ 147 (176)
Q Consensus 139 GIkngd~L~ 147 (176)
.|.+||..-
T Consensus 405 kIedGDs~l 413 (418)
T KOG2982|consen 405 KIEDGDSFL 413 (418)
T ss_pred eccCCCEee
Confidence 999999743
No 145
>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=24.42 E-value=2.4e+02 Score=19.22 Aligned_cols=32 Identities=19% Similarity=0.258 Sum_probs=24.0
Q ss_pred EEEEecCCc------eeEecCcccHHHHHHHHHHHhhh
Q 030498 68 ISILKLDGT------SFAVMNSATVKDLKLAIKKKVND 99 (176)
Q Consensus 68 LtV~k~dG~------~l~V~~~ATV~DLKkAI~~~~~~ 99 (176)
|.|-..+++ ++.|+.++|+.|+=.++-+++..
T Consensus 5 lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l 42 (93)
T PF00788_consen 5 LRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGL 42 (93)
T ss_dssp EEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTT
T ss_pred EEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCC
Confidence 444445555 22788999999999999999865
No 146
>PRK13552 frdB fumarate reductase iron-sulfur subunit; Provisional
Probab=24.26 E-value=1.2e+02 Score=25.96 Aligned_cols=35 Identities=11% Similarity=0.208 Sum_probs=27.3
Q ss_pred CCceEEEEEecCC---------cee--EecCcccHHHHHHHHHHHh
Q 030498 63 GSAMRISILKLDG---------TSF--AVMNSATVKDLKLAIKKKV 97 (176)
Q Consensus 63 G~Am~LtV~k~dG---------~~l--~V~~~ATV~DLKkAI~~~~ 97 (176)
|+.|+|.|.+-|. ++| .+.++.||+|+=..|+...
T Consensus 2 ~~~~~~~i~R~~p~~~~~~~~~~~y~v~~~~~~tvLdaL~~Ik~~~ 47 (239)
T PRK13552 2 GRTLTFNIFRYNPQDPGSKPHMVTYQLEETPGMTLFIALNRIREEQ 47 (239)
T ss_pred CceEEEEEEeeCCCCCCCCcceEEEEecCCCCCCHHHHHHHHHhcC
Confidence 6789999999874 123 4468899999999998764
No 147
>cd01666 TGS_DRG_C TGS_DRG_C: DRG (developmentally regulated GTP-binding protein) represents a family of GTP-binding proteins that includes two members, DRG1 and DRG2. DRG1 and DRG2 have a C-terminal TGS domain (named after the ThrRS, GTPase, and SpoT proteins where it occurs) with a predominantly beta-sheet structure. The function of TGS is unknown but its presence in two types of regulatory proteins (the DRG GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=23.54 E-value=1.5e+02 Score=21.20 Aligned_cols=32 Identities=19% Similarity=0.222 Sum_probs=22.7
Q ss_pred eEEEEEecCCce-----eEecCcccHHHHHHHHHHHh
Q 030498 66 MRISILKLDGTS-----FAVMNSATVKDLKLAIKKKV 97 (176)
Q Consensus 66 m~LtV~k~dG~~-----l~V~~~ATV~DLKkAI~~~~ 97 (176)
|+|+-.+..+.. +.++..|||.|+=.+|++.+
T Consensus 2 irvytk~~g~~~d~~~~liL~~GaTV~D~a~~iH~di 38 (75)
T cd01666 2 IRVYTKPKGQEPDFDEPVILRRGSTVEDVCNKIHKDL 38 (75)
T ss_pred EEEEeCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHH
Confidence 455555554422 27899999999999999754
No 148
>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=22.83 E-value=2.8e+02 Score=20.67 Aligned_cols=33 Identities=21% Similarity=0.200 Sum_probs=26.8
Q ss_pred EEEEEecCCcee--EecCcccHHHHHHHHHHHhhh
Q 030498 67 RISILKLDGTSF--AVMNSATVKDLKLAIKKKVND 99 (176)
Q Consensus 67 ~LtV~k~dG~~l--~V~~~ATV~DLKkAI~~~~~~ 99 (176)
-|.|-..||++- .|+...|+.|.=+.+..+...
T Consensus 4 vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~ 38 (85)
T cd01787 4 VVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHC 38 (85)
T ss_pred EEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCC
Confidence 466777888887 889999999998888887754
No 149
>PF12949 HeH: HeH/LEM domain; PDB: 2OUT_A.
Probab=22.44 E-value=61 Score=20.36 Aligned_cols=22 Identities=23% Similarity=0.199 Sum_probs=13.5
Q ss_pred cCcccHHHHHHHHHHHhhhhhh
Q 030498 81 MNSATVKDLKLAIKKKVNDMEQ 102 (176)
Q Consensus 81 ~~~ATV~DLKkAI~~~~~~~~~ 102 (176)
|.+.||.|||.....+--.||+
T Consensus 1 p~sltV~~Lk~iL~~~~I~~ps 22 (35)
T PF12949_consen 1 PKSLTVAQLKRILDEHGIEFPS 22 (35)
T ss_dssp STT--SHHHHHHHHHHT---SS
T ss_pred CCcCcHHHHHHHHHHcCCCCCC
Confidence 4568999999999888555554
No 150
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=22.18 E-value=1e+02 Score=21.20 Aligned_cols=63 Identities=24% Similarity=0.383 Sum_probs=36.4
Q ss_pred eEEEEEecCCceeEecCc-ccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCC
Q 030498 66 MRISILKLDGTSFAVMNS-ATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNS 144 (176)
Q Consensus 66 m~LtV~k~dG~~l~V~~~-ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd 144 (176)
|+|+| +|+.+.++.+ .||.||=..+. ..++ ......+++ ++ ..+.-.++-+++||
T Consensus 1 m~I~v---NG~~~~~~~~~~tv~~lL~~l~----~~~~---------------~vav~vN~~-iv-~r~~w~~~~L~~gD 56 (67)
T PRK07696 1 MNLKI---NGNQIEVPESVKTVAELLTHLE----LDNK---------------IVVVERNKD-IL-QKDDHTDTSVFDGD 56 (67)
T ss_pred CEEEE---CCEEEEcCCCcccHHHHHHHcC----CCCC---------------eEEEEECCE-Ee-CHHHcCceecCCCC
Confidence 44544 6888877776 78998876432 1111 112334443 22 23345566789999
Q ss_pred EEEEEeee
Q 030498 145 QVQFVPFV 152 (176)
Q Consensus 145 ~L~Fk~~l 152 (176)
.|-++.-+
T Consensus 57 ~iEIv~~V 64 (67)
T PRK07696 57 QIEIVTFV 64 (67)
T ss_pred EEEEEEEe
Confidence 97776654
No 151
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=22.08 E-value=2.2e+02 Score=25.70 Aligned_cols=57 Identities=23% Similarity=0.323 Sum_probs=40.4
Q ss_pred cccCCCCCCCHHHHhHhhhhccCCceEEEEEec--CCcee--EecCcccHHHHHHHHHHHhh
Q 030498 41 ILADVPKKPTLSDVDTLISLEMGSAMRISILKL--DGTSF--AVMNSATVKDLKLAIKKKVN 98 (176)
Q Consensus 41 ~L~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k~--dG~~l--~V~~~ATV~DLKkAI~~~~~ 98 (176)
++..||..+|-+||..+.+ .+|.-..+.|.+. .|++- ....=++..+..+||+..-.
T Consensus 197 fV~nLp~~vtee~L~~~F~-~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng 257 (346)
T TIGR01659 197 YVTNLPRTITDDQLDTIFG-KYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNN 257 (346)
T ss_pred EEeCCCCcccHHHHHHHHH-hcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCC
Confidence 4478999999999988874 7787777766654 44432 22334688899999987643
No 152
>PF06071 YchF-GTPase_C: Protein of unknown function (DUF933); InterPro: IPR013029 This domain is found at the C terminus of family of conserved hypothetical proteins found in both prokaryotes and eukaryotes. While the function of these proteins is not known, the crystal structure of P44681 from SWISSPROT from Haemophilus influenzae has been determined []. This protein consists of three domains: an N-terminal domain which has a mononucleotide binding fold typical for the P-loop NTPases, a central domain which forms an alpha-helical coiled coil, and this C-terminal domain which is composed of a six-stranded half-barrel curved around an alpha helix. The central domain and this domain are topologically similar to RNA-binding proteins, while the N-terminal region contains the features typical of GTP-dependent molecular switches. The purified protein was capable of binding both double-stranded nucleic acid and GTP. It was suggested, therefore, that this protein might be part of a nucleoprotein complex and could function as a GTP-dependent translation factor.; PDB: 1NI3_A 1JAL_A 2DWQ_B 2DBY_A 2OHF_A.
Probab=21.97 E-value=52 Score=24.56 Aligned_cols=14 Identities=21% Similarity=0.396 Sum_probs=9.5
Q ss_pred hhcCCccCCEEEEE
Q 030498 136 QDCGVRNNSQVQFV 149 (176)
Q Consensus 136 ~dyGIkngd~L~Fk 149 (176)
+||=++|||.++|+
T Consensus 69 K~YivqDGDIi~f~ 82 (84)
T PF06071_consen 69 KDYIVQDGDIIHFR 82 (84)
T ss_dssp TT-B--TTEEEEEE
T ss_pred CceeEeCCCEEEEE
Confidence 48999999999996
No 153
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=21.94 E-value=67 Score=21.72 Aligned_cols=17 Identities=29% Similarity=0.638 Sum_probs=14.4
Q ss_pred CCCCCCCHHHHhHhhhh
Q 030498 44 DVPKKPTLSDVDTLISL 60 (176)
Q Consensus 44 dlp~~~Tl~ev~~~Ial 60 (176)
|.|.++|++||-..+.+
T Consensus 19 d~PR~~tl~elA~~lgi 35 (53)
T PF04967_consen 19 DVPRRITLEELAEELGI 35 (53)
T ss_pred CCCCcCCHHHHHHHhCC
Confidence 68999999999887765
No 154
>PRK08640 sdhB succinate dehydrogenase iron-sulfur subunit; Reviewed
Probab=21.69 E-value=1.6e+02 Score=25.37 Aligned_cols=34 Identities=21% Similarity=0.368 Sum_probs=25.3
Q ss_pred CCceEEEEEecCC-------cee--EecCcccHHHHHHHHHHH
Q 030498 63 GSAMRISILKLDG-------TSF--AVMNSATVKDLKLAIKKK 96 (176)
Q Consensus 63 G~Am~LtV~k~dG-------~~l--~V~~~ATV~DLKkAI~~~ 96 (176)
|..|+|.|.+-|+ ++| ++..+.||+|+=..|+..
T Consensus 3 ~~~~~~~i~R~~~~~~~~~~q~y~v~~~~~~tvLdaL~~I~~~ 45 (249)
T PRK08640 3 EKTVRLIIKRQDGPDSKPYWEEFEIPYRPNMNVISALMEIRRN 45 (249)
T ss_pred CcEEEEEEEeeCCCCCCceeEEEEecCCCCCcHHHHHHHHHhc
Confidence 4568899998873 223 445789999999999875
No 155
>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases. This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....
Probab=21.51 E-value=2.1e+02 Score=22.32 Aligned_cols=38 Identities=29% Similarity=0.536 Sum_probs=27.3
Q ss_pred HHHHHHHHHHhhhcC------Ccc-----cCCCCCCCHHHHhHhhhhcc
Q 030498 25 KKARLHSTLTALLDD------PIL-----ADVPKKPTLSDVDTLISLEM 62 (176)
Q Consensus 25 ~~~~~~~~l~~ll~D------p~L-----~dlp~~~Tl~ev~~~Iale~ 62 (176)
++....+.|..++++ |+| .|+|...+.+|+...+.++.
T Consensus 96 ~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~l~~ 144 (175)
T PF00025_consen 96 RLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLGLEK 144 (175)
T ss_dssp GHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTTGGG
T ss_pred eecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhhhhh
Confidence 345555666666654 555 48888899999999888876
No 156
>PF12091 DUF3567: Protein of unknown function (DUF3567); InterPro: IPR021951 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 90 amino acids in length. This protein has a conserved EIVDK sequence motif.
Probab=21.33 E-value=1.2e+02 Score=22.76 Aligned_cols=26 Identities=23% Similarity=0.464 Sum_probs=20.5
Q ss_pred HHHHHHHHHhhhcCCcccCCCCCCCHHHHhHhhh
Q 030498 26 KARLHSTLTALLDDPILADVPKKPTLSDVDTLIS 59 (176)
Q Consensus 26 ~~~~~~~l~~ll~Dp~L~dlp~~~Tl~ev~~~Ia 59 (176)
-+.|++.++.++.+. ||.|||+..|+
T Consensus 47 Ae~Fr~~V~~li~~~--------Pt~EevDdfL~ 72 (85)
T PF12091_consen 47 AEMFREDVQALIASE--------PTQEEVDDFLG 72 (85)
T ss_pred HHHHHHHHHHHHhcC--------CCHHHHHHHHH
Confidence 567899999998543 58999988775
No 157
>cd01764 Urm1 Urm1-like ubuitin domain. Urm1 (Ubiquitin-Related Modifier1) The Urm1 fold, like those of two closely related proteins MoaD (molybdopterin synthase) and ThiS (sulfur carrier protein), is similar to that of ubiquitin although there is little or no sequence similarity. The C-terminal glycines of Urm1 are conjugated to an E1-like protein Uba4 as part of a novel conjugation system in yeast. The Urm1 fold is found only in eukaryotes.
Probab=21.25 E-value=2e+02 Score=21.14 Aligned_cols=59 Identities=17% Similarity=0.220 Sum_probs=33.7
Q ss_pred CcccHHHHHHHHHHHhhhhhhc---ccCCccccccceeeeeeeecCCcccccCcc--hh--hhcCCccCCEEEEEeeee
Q 030498 82 NSATVKDLKLAIKKKVNDMEQS---NLGHRHISWKHVWANYCLSHQNQKLLDENS--AL--QDCGVRNNSQVQFVPFVL 153 (176)
Q Consensus 82 ~~ATV~DLKkAI~~~~~~~~~R---q~G~~~ISW~~VW~~f~L~~~~~kL~dD~~--~L--~dyGIkngd~L~Fk~~l~ 153 (176)
..+||.||=..+...+.....+ ..|. -+.|.+ -|.++.. .| -++-+++||+|.|.+=+.
T Consensus 27 ~~~tV~dll~~L~~~~~~~~~~lf~~~g~--------lr~~i~-----VlvN~~di~~l~g~~t~L~dgD~v~i~P~v~ 92 (94)
T cd01764 27 KPVTVGDLLDYVASNLLEERPDLFIEGGS--------VRPGII-----VLINDTDWELLGEEDYILEDGDHVVFISTLH 92 (94)
T ss_pred CCCcHHHHHHHHHHhCchhhhhhEecCCc--------ccCCEE-----EEECCccccccCCcccCCCCcCEEEEECCCC
Confidence 4689999999998877421110 1110 011111 1233332 23 367899999999988653
No 158
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=21.24 E-value=1.3e+02 Score=22.05 Aligned_cols=20 Identities=35% Similarity=0.277 Sum_probs=19.2
Q ss_pred EecCcccHHHHHHHHHHHhh
Q 030498 79 AVMNSATVKDLKLAIKKKVN 98 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~ 98 (176)
.|+.+||=.|+|.||+..|.
T Consensus 26 ~V~~~atK~~Ik~aie~iy~ 45 (91)
T PF00276_consen 26 EVDPRATKTEIKEAIEKIYG 45 (91)
T ss_dssp EETTTSTHHHHHHHHHHHHT
T ss_pred EEeCCCCHHHHHHHHHhhcC
Confidence 89999999999999999986
No 159
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=21.10 E-value=3e+02 Score=21.45 Aligned_cols=53 Identities=13% Similarity=0.173 Sum_probs=38.6
Q ss_pred cCCCCCCCHHHHhHhhhhccCCceEEEEEecC--Cce--eEecCcccHHHHHHHHHHH
Q 030498 43 ADVPKKPTLSDVDTLISLEMGSAMRISILKLD--GTS--FAVMNSATVKDLKLAIKKK 96 (176)
Q Consensus 43 ~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k~d--G~~--l~V~~~ATV~DLKkAI~~~ 96 (176)
..||.++|-++|..+.. .+|.-..+.|.... |.+ +-+..=++..+.+.||...
T Consensus 40 gnL~~~~te~~L~~~F~-~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~l 96 (144)
T PLN03134 40 GGLSWGTDDASLRDAFA-HFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEM 96 (144)
T ss_pred eCCCCCCCHHHHHHHHh-cCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHc
Confidence 78999999999999987 58987777776543 333 2222335778899999754
No 160
>PF07319 DnaI_N: Primosomal protein DnaI N-terminus; InterPro: IPR009928 This entry represents the N terminus (approximately 120 residues) of bacterial primosomal DnaI proteins, although one family member appears to be of viral origin. DnaI is one of the components of the Bacillus subtilis replication restart primosome, and is required for the DnaB75-dependent loading of the DnaC helicase [].; PDB: 2K7R_A.
Probab=21.07 E-value=86 Score=22.99 Aligned_cols=47 Identities=15% Similarity=0.253 Sum_probs=27.6
Q ss_pred HHHHHHHHHhhhcCCcccCCCCCCCHHHHhHhhhhccCCceEEEEEecCCceeEecCcccHHHHHHHHHHHhhhhhhc
Q 030498 26 KARLHSTLTALLDDPILADVPKKPTLSDVDTLISLEMGSAMRISILKLDGTSFAVMNSATVKDLKLAIKKKVNDMEQS 103 (176)
Q Consensus 26 ~~~~~~~l~~ll~Dp~L~dlp~~~Tl~ev~~~Iale~G~Am~LtV~k~dG~~l~V~~~ATV~DLKkAI~~~~~~~~~R 103 (176)
...+++.+..+++|| +|..-|+=+. +.-|=..+.+.+.+-+.++.++
T Consensus 18 ~~~~~~l~~~vl~dp------------~V~~Fl~~h~-------------------~eLt~~~i~rsl~kLyEy~~e~ 64 (94)
T PF07319_consen 18 EERYEQLKQEVLSDP------------EVQAFLQEHQ-------------------PELTQEMIERSLSKLYEYVSER 64 (94)
T ss_dssp HHHHHHHHHHHTT-H------------HHHHHHHHST-------------------TT--HHHHHHTHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHcCH------------HHHHHHHHhH-------------------HhcCHHHHHHHHHHHHHHHHHH
Confidence 567888999999999 5555555332 2345556666666666555444
No 161
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.04 E-value=1.7e+02 Score=25.64 Aligned_cols=61 Identities=16% Similarity=0.220 Sum_probs=42.2
Q ss_pred EecCcccHHHHHHHHHHHhhhhhhcccCCccccccceeeeeeeecCCcccccCcchhhhcCCccCCEEEEEeeeecC
Q 030498 79 AVMNSATVKDLKLAIKKKVNDMEQSNLGHRHISWKHVWANYCLSHQNQKLLDENSALQDCGVRNNSQVQFVPFVLSK 155 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~~~~Rq~G~~~ISW~~VW~~f~L~~~~~kL~dD~~~L~dyGIkngd~L~Fk~~l~~~ 155 (176)
.++.--||.++|++.+.+-...+-.|. | |.+-+++.|+..|..++|.+|.--.|-.+|-+.
T Consensus 162 ta~~~Dtv~eik~~L~Aaeg~D~~sQr------i----------f~Sg~~l~dkt~LeEc~iekg~rYvlqviVlq~ 222 (231)
T KOG0013|consen 162 TAPHYDTVGEIKRALRAAEGVDPLSQR------I----------FFSGGVLVDKTDLEECKIEKGQRYVLQVIVLQE 222 (231)
T ss_pred cccCcCcHHHHHHHHHHhhccchhhhe------e----------eccCCceeccccceeeeecCCCEEEEEEEeccC
Confidence 344457899999999887543222111 2 334458889999999999999877777776543
No 162
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=20.83 E-value=1e+02 Score=19.11 Aligned_cols=25 Identities=20% Similarity=0.165 Sum_probs=19.3
Q ss_pred EecCcccHHHHHHHHHHHhhh-hhhc
Q 030498 79 AVMNSATVKDLKLAIKKKVND-MEQS 103 (176)
Q Consensus 79 ~V~~~ATV~DLKkAI~~~~~~-~~~R 103 (176)
.|+.++|..++|++..+.... .|.+
T Consensus 7 gl~~~~~~~~ik~~y~~l~~~~HPD~ 32 (55)
T cd06257 7 GVPPDASDEEIKKAYRKLALKYHPDK 32 (55)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHCcCC
Confidence 467889999999999988753 4443
No 163
>cd02788 MopB_CT_NDH-1_NuoG2-N7 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as a redox pump that uses the redox energy to translocate H+ ions across the membrane, resulting in a significant contribution to energy production. In Escherichia coli NDH-1, the largest subunit is encoded by the nuoG gene, and is part of the 14 distinct subunits constituting the functional enzyme. The NuoG subunit is made of two domains: the first contains three binding sites for FeS clusters (the fer2 domain), the second domain, is of unknown function or, as postulated, has lost an ancestral formate dehydrogenase activity that became redundant during the evolution of the complex I enzyme. Unique to this group, compared to the other prokaryotic and eukaryotic groups
Probab=20.00 E-value=61 Score=23.29 Aligned_cols=19 Identities=16% Similarity=0.305 Sum_probs=14.4
Q ss_pred CcchhhhcCCccCCEEEEE
Q 030498 131 ENSALQDCGVRNNSQVQFV 149 (176)
Q Consensus 131 D~~~L~dyGIkngd~L~Fk 149 (176)
.-.....+||++||.|...
T Consensus 34 np~dA~~lGi~~Gd~V~v~ 52 (96)
T cd02788 34 SPADAARLGLADGDLVEFS 52 (96)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 3456788999999987543
Done!