Query 034043
Match_columns 105
No_of_seqs 105 out of 585
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 09:08:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034043.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034043hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1769 Ubiquitin-like protein 100.0 5E-31 1.1E-35 173.4 11.6 81 22-102 18-98 (99)
2 COG5227 SMT3 Ubiquitin-like pr 100.0 8.7E-29 1.9E-33 160.7 6.5 79 23-101 23-101 (103)
3 cd01763 Sumo Small ubiquitin-r 99.9 3.1E-26 6.7E-31 147.8 11.4 81 20-100 7-87 (87)
4 PF11976 Rad60-SLD: Ubiquitin- 99.9 7.3E-23 1.6E-27 126.6 7.6 71 25-95 1-72 (72)
5 cd01806 Nedd8 Nebb8-like ubiq 99.6 9.6E-15 2.1E-19 90.3 9.2 76 25-100 1-76 (76)
6 PTZ00044 ubiquitin; Provisiona 99.4 1.2E-12 2.6E-17 81.4 9.3 76 25-100 1-76 (76)
7 cd01803 Ubiquitin Ubiquitin. U 99.4 1.2E-12 2.5E-17 80.9 9.1 76 25-100 1-76 (76)
8 cd01810 ISG15_repeat2 ISG15 ub 99.4 3.8E-12 8.2E-17 79.3 8.8 74 27-100 1-74 (74)
9 cd01802 AN1_N ubiquitin-like d 99.4 6.2E-12 1.3E-16 83.6 9.9 78 23-100 26-103 (103)
10 cd01793 Fubi Fubi ubiquitin-li 99.4 7.5E-12 1.6E-16 77.9 8.9 74 25-100 1-74 (74)
11 cd01807 GDX_N ubiquitin-like d 99.3 1.2E-11 2.6E-16 76.9 8.8 73 25-97 1-73 (74)
12 cd01804 midnolin_N Ubiquitin-l 99.3 1.9E-11 4.1E-16 77.2 9.4 76 25-101 2-77 (78)
13 cd01809 Scythe_N Ubiquitin-lik 99.3 2.6E-11 5.7E-16 74.0 8.7 71 25-95 1-71 (72)
14 PF00240 ubiquitin: Ubiquitin 99.3 2.1E-11 4.5E-16 74.3 8.1 68 31-98 2-69 (69)
15 cd01805 RAD23_N Ubiquitin-like 99.3 7.1E-11 1.5E-15 73.4 9.0 74 25-98 1-76 (77)
16 cd01791 Ubl5 UBL5 ubiquitin-li 99.2 1.1E-10 2.4E-15 73.2 8.6 71 25-95 2-72 (73)
17 cd01797 NIRF_N amino-terminal 99.2 1.4E-10 3E-15 73.4 8.3 73 25-97 1-75 (78)
18 cd01798 parkin_N amino-termina 99.2 1.4E-10 3.1E-15 71.2 8.2 70 27-96 1-70 (70)
19 cd01812 BAG1_N Ubiquitin-like 99.2 1.2E-10 2.7E-15 71.1 7.4 70 25-95 1-70 (71)
20 cd01792 ISG15_repeat1 ISG15 ub 99.1 3.2E-10 6.9E-15 71.6 8.0 73 25-97 3-77 (80)
21 cd01800 SF3a120_C Ubiquitin-li 99.1 3.7E-10 8E-15 70.7 7.9 69 33-101 6-74 (76)
22 cd01794 DC_UbP_C dendritic cel 99.1 5.3E-10 1.2E-14 69.4 8.0 69 27-95 1-69 (70)
23 cd01808 hPLIC_N Ubiquitin-like 99.1 7.7E-10 1.7E-14 68.2 8.4 71 25-96 1-71 (71)
24 smart00213 UBQ Ubiquitin homol 99.0 1.5E-09 3.2E-14 64.3 7.2 64 25-89 1-64 (64)
25 cd01769 UBL Ubiquitin-like dom 98.9 1.2E-08 2.5E-13 61.1 8.0 67 29-95 2-68 (69)
26 cd01796 DDI1_N DNA damage indu 98.9 1.1E-08 2.4E-13 63.4 7.6 67 28-94 2-70 (71)
27 KOG0005 Ubiquitin-like protein 98.9 2.4E-09 5.3E-14 65.2 4.4 68 26-93 2-69 (70)
28 TIGR00601 rad23 UV excision re 98.7 5.4E-08 1.2E-12 77.5 8.8 74 25-98 1-77 (378)
29 cd01799 Hoil1_N Ubiquitin-like 98.7 1.8E-07 3.9E-12 58.8 7.8 62 33-95 11-74 (75)
30 KOG0003 Ubiquitin/60s ribosoma 98.7 4.6E-09 1E-13 70.7 0.4 76 27-102 3-78 (128)
31 cd01813 UBP_N UBP ubiquitin pr 98.7 2.1E-07 4.6E-12 58.2 7.6 68 26-94 2-72 (74)
32 cd01790 Herp_N Homocysteine-re 98.6 2.7E-07 5.9E-12 58.8 7.7 72 24-95 1-78 (79)
33 KOG0010 Ubiquitin-like protein 98.6 2.4E-07 5.1E-12 75.5 8.4 75 23-98 14-88 (493)
34 cd01815 BMSC_UbP_N Ubiquitin-l 98.4 1.1E-06 2.4E-11 55.6 5.2 53 44-96 20-75 (75)
35 cd01814 NTGP5 Ubiquitin-like N 98.3 2.7E-06 5.9E-11 57.6 6.0 76 23-98 3-92 (113)
36 cd00196 UBQ Ubiquitin-like pro 98.3 9.8E-06 2.1E-10 45.1 7.5 63 33-95 6-68 (69)
37 PF11543 UN_NPL4: Nuclear pore 98.2 4.3E-06 9.3E-11 53.3 5.1 71 23-94 3-78 (80)
38 KOG0004 Ubiquitin/40S ribosoma 98.1 3.1E-06 6.8E-11 60.0 4.1 77 26-102 2-78 (156)
39 cd01789 Alp11_N Ubiquitin-like 98.1 4.5E-05 9.7E-10 48.6 8.1 71 25-95 2-80 (84)
40 PF14560 Ubiquitin_2: Ubiquiti 97.9 0.00011 2.5E-09 46.7 7.8 71 25-95 2-82 (87)
41 PLN02560 enoyl-CoA reductase 97.9 6.5E-05 1.4E-09 58.5 7.6 68 26-93 2-80 (308)
42 KOG0011 Nucleotide excision re 97.7 0.00012 2.6E-09 57.5 7.0 74 26-99 2-77 (340)
43 PF11470 TUG-UBL1: GLUT4 regul 97.7 0.00016 3.5E-09 44.5 6.0 64 30-93 2-65 (65)
44 cd01795 USP48_C USP ubiquitin- 97.6 0.00031 6.7E-09 46.9 6.8 62 36-97 16-78 (107)
45 PF13881 Rad60-SLD_2: Ubiquiti 97.6 0.0011 2.4E-08 44.7 9.4 67 24-90 2-76 (111)
46 cd01801 Tsc13_N Ubiquitin-like 97.6 0.00035 7.5E-09 43.6 6.2 52 42-93 20-74 (77)
47 KOG4248 Ubiquitin-like protein 97.5 0.00027 5.9E-09 62.3 6.4 70 26-96 4-73 (1143)
48 KOG0001 Ubiquitin and ubiquiti 97.5 0.0042 9E-08 36.1 9.7 71 28-98 3-73 (75)
49 PF00789 UBX: UBX domain; Int 97.4 0.0028 6.1E-08 39.5 9.1 72 22-93 4-80 (82)
50 PF08817 YukD: WXG100 protein 97.4 0.00075 1.6E-08 42.3 5.9 70 24-93 2-78 (79)
51 cd01774 Faf1_like2_UBX Faf1 ik 96.8 0.026 5.5E-07 36.1 8.8 71 23-94 3-83 (85)
52 PRK08364 sulfur carrier protei 96.7 0.023 5E-07 34.8 8.1 66 25-100 5-70 (70)
53 PF13019 Telomere_Sde2: Telome 96.4 0.022 4.7E-07 40.9 7.1 80 25-104 1-92 (162)
54 PRK06437 hypothetical protein; 96.3 0.045 9.8E-07 33.4 7.5 57 35-100 11-67 (67)
55 COG5417 Uncharacterized small 96.3 0.051 1.1E-06 34.5 7.7 70 24-93 6-80 (81)
56 cd00754 MoaD Ubiquitin domain 96.3 0.033 7.1E-07 34.1 6.8 60 36-100 17-80 (80)
57 smart00166 UBX Domain present 96.3 0.051 1.1E-06 33.8 7.7 71 23-93 3-78 (80)
58 PRK07440 hypothetical protein; 96.1 0.062 1.3E-06 33.1 7.5 69 22-100 2-70 (70)
59 PRK06488 sulfur carrier protei 96.1 0.048 1E-06 32.7 6.8 60 33-100 6-65 (65)
60 KOG0006 E3 ubiquitin-protein l 96.0 0.024 5.3E-07 45.0 6.1 58 36-93 15-72 (446)
61 KOG3493 Ubiquitin-like protein 95.9 0.0045 9.7E-08 38.3 1.3 71 25-95 2-72 (73)
62 cd01770 p47_UBX p47-like ubiqu 95.6 0.19 4.2E-06 31.6 8.2 68 24-91 4-75 (79)
63 PRK05659 sulfur carrier protei 95.6 0.12 2.6E-06 30.8 7.0 61 33-100 6-66 (66)
64 cd01767 UBX UBX (ubiquitin reg 95.5 0.25 5.3E-06 30.4 8.3 67 24-91 2-73 (77)
65 cd01811 OASL_repeat1 2'-5' oli 95.4 0.17 3.6E-06 32.2 7.4 69 25-94 1-74 (80)
66 PF12436 USP7_ICP0_bdg: ICP0-b 95.4 0.045 9.9E-07 41.2 5.6 79 19-97 63-153 (249)
67 PRK06944 sulfur carrier protei 95.4 0.21 4.5E-06 29.6 7.5 60 33-100 6-65 (65)
68 cd01771 Faf1_UBX Faf1 UBX doma 95.2 0.29 6.4E-06 30.8 8.1 70 23-93 3-77 (80)
69 smart00455 RBD Raf-like Ras-bi 95.2 0.14 3E-06 31.6 6.3 45 27-71 2-46 (70)
70 PRK05863 sulfur carrier protei 95.1 0.14 3.1E-06 30.8 6.2 60 33-100 6-65 (65)
71 PRK06083 sulfur carrier protei 95.1 0.19 4.1E-06 32.2 7.0 67 24-100 18-84 (84)
72 TIGR01687 moaD_arch MoaD famil 95.0 0.23 5E-06 31.1 7.3 61 36-100 17-88 (88)
73 PRK08053 sulfur carrier protei 94.8 0.35 7.5E-06 29.1 7.3 61 33-100 6-66 (66)
74 cd06409 PB1_MUG70 The MUG70 pr 94.6 0.15 3.3E-06 32.9 5.6 44 26-69 2-48 (86)
75 cd01773 Faf1_like1_UBX Faf1 ik 94.5 0.76 1.7E-05 29.4 8.8 72 22-94 3-79 (82)
76 cd06406 PB1_P67 A PB1 domain i 94.4 0.11 2.4E-06 33.2 4.6 45 25-71 3-47 (80)
77 smart00666 PB1 PB1 domain. Pho 94.1 0.29 6.2E-06 30.0 6.0 45 25-70 2-46 (81)
78 cd01760 RBD Ubiquitin-like dom 94.1 0.5 1.1E-05 29.4 7.0 67 27-95 2-71 (72)
79 PLN02799 Molybdopterin synthas 94.0 0.3 6.5E-06 30.3 6.0 61 35-100 19-82 (82)
80 KOG3439 Protein conjugation fa 93.9 0.41 8.9E-06 32.5 6.8 64 22-85 28-97 (116)
81 TIGR01682 moaD molybdopterin c 93.9 0.68 1.5E-05 28.6 7.5 59 37-100 18-80 (80)
82 cd01788 ElonginB Ubiquitin-lik 93.8 0.67 1.5E-05 31.6 7.7 72 25-97 3-81 (119)
83 PRK07696 sulfur carrier protei 93.8 0.69 1.5E-05 28.0 7.2 61 33-100 6-67 (67)
84 TIGR01683 thiS thiamine biosyn 93.7 0.47 1E-05 28.2 6.2 61 33-100 4-64 (64)
85 cd00565 ThiS ThiaminS ubiquiti 93.3 0.37 8.1E-06 28.7 5.4 58 38-100 8-65 (65)
86 PF02597 ThiS: ThiS family; I 93.1 0.29 6.4E-06 29.5 4.7 63 36-100 13-77 (77)
87 cd01772 SAKS1_UBX SAKS1-like U 92.7 1.5 3.3E-05 27.2 9.0 69 24-93 4-77 (79)
88 PF00564 PB1: PB1 domain; Int 92.7 0.89 1.9E-05 27.8 6.6 46 24-69 1-46 (84)
89 PF10302 DUF2407: DUF2407 ubiq 92.6 0.43 9.4E-06 31.3 5.2 54 24-78 2-59 (97)
90 cd06407 PB1_NLP A PB1 domain i 92.5 0.65 1.4E-05 29.5 5.9 44 25-69 1-45 (82)
91 cd06408 PB1_NoxR The PB1 domai 92.2 1 2.3E-05 29.1 6.5 45 24-70 2-46 (86)
92 PF04110 APG12: Ubiquitin-like 91.4 0.41 8.9E-06 31.0 4.0 60 24-83 1-66 (87)
93 PF03671 Ufm1: Ubiquitin fold 90.8 1.3 2.8E-05 27.9 5.6 57 37-93 18-75 (76)
94 PF08825 E2_bind: E2 binding d 90.8 0.21 4.6E-06 32.0 2.2 55 39-94 1-69 (84)
95 PRK11840 bifunctional sulfur c 90.6 1.5 3.2E-05 34.8 7.2 63 33-102 6-68 (326)
96 cd01766 Ufm1 Urm1-like ubiquit 90.5 1.9 4.2E-05 27.3 6.3 59 38-96 19-78 (82)
97 PF02196 RBD: Raf-like Ras-bin 90.4 1.3 2.8E-05 27.2 5.4 55 27-81 3-59 (71)
98 cd01777 SNX27_RA Ubiquitin dom 90.1 0.78 1.7E-05 29.8 4.4 61 25-85 2-70 (87)
99 cd06396 PB1_NBR1 The PB1 domai 89.0 2.1 4.5E-05 27.4 5.7 42 25-69 1-44 (81)
100 cd05992 PB1 The PB1 domain is 88.9 2.3 4.9E-05 25.8 5.8 44 25-69 1-45 (81)
101 smart00295 B41 Band 4.1 homolo 87.6 2.1 4.6E-05 29.9 5.7 39 24-62 3-41 (207)
102 PF12754 Blt1: Cell-cycle cont 87.4 0.18 3.8E-06 39.6 0.0 81 22-102 76-183 (309)
103 PF14451 Ub-Mut7C: Mut7-C ubiq 87.0 3.9 8.4E-05 25.9 6.1 53 35-96 23-76 (81)
104 PF09379 FERM_N: FERM N-termin 86.5 5.3 0.00011 24.1 7.4 57 30-86 2-65 (80)
105 PF15044 CLU_N: Mitochondrial 86.0 2.3 4.9E-05 26.5 4.6 57 41-97 1-59 (76)
106 cd01818 TIAM1_RBD Ubiquitin do 85.9 3.6 7.8E-05 26.1 5.4 43 28-70 3-47 (77)
107 PRK11130 moaD molybdopterin sy 85.7 5.2 0.00011 24.7 6.1 52 44-100 25-81 (81)
108 PF00788 RA: Ras association ( 84.2 7.3 0.00016 23.8 6.7 62 26-87 4-77 (93)
109 PF10623 PilI: Plasmid conjuga 82.6 3.2 6.9E-05 26.5 4.1 41 19-59 3-43 (83)
110 TIGR02958 sec_mycoba_snm4 secr 82.0 9.6 0.00021 31.3 7.8 70 25-95 3-79 (452)
111 COG2104 ThiS Sulfur transfer p 81.7 7 0.00015 24.0 5.4 66 25-100 3-68 (68)
112 PF14836 Ubiquitin_3: Ubiquiti 81.4 12 0.00026 24.2 7.1 62 35-97 14-81 (88)
113 PF06234 TmoB: Toluene-4-monoo 81.4 7.9 0.00017 25.0 5.7 60 37-96 17-84 (85)
114 cd06398 PB1_Joka2 The PB1 doma 81.2 8.7 0.00019 24.8 6.0 43 26-69 2-50 (91)
115 cd01612 APG12_C Ubiquitin-like 77.5 16 0.00034 23.3 6.5 60 24-83 1-66 (87)
116 cd01768 RA RA (Ras-associating 75.6 16 0.00034 22.4 5.8 57 27-83 2-69 (87)
117 COG2080 CoxS Aerobic-type carb 75.3 7 0.00015 27.9 4.5 63 24-91 3-72 (156)
118 KOG0013 Uncharacterized conser 75.1 6.3 0.00014 29.7 4.3 77 21-97 142-221 (231)
119 PF11620 GABP-alpha: GA-bindin 73.6 15 0.00032 23.9 5.3 59 38-96 6-64 (88)
120 cd01611 GABARAP Ubiquitin doma 71.2 19 0.00042 24.0 5.7 48 37-84 43-91 (112)
121 PRK01777 hypothetical protein; 70.5 26 0.00057 22.7 7.9 69 24-97 3-77 (95)
122 cd06410 PB1_UP2 Uncharacterize 69.4 21 0.00046 23.2 5.5 39 30-69 18-56 (97)
123 cd01817 RGS12_RBD Ubiquitin do 68.8 26 0.00056 21.9 7.4 52 29-80 4-56 (73)
124 KOG3483 Uncharacterized conser 68.0 29 0.00063 22.2 7.8 61 38-98 30-91 (94)
125 KOG2086 Protein tyrosine phosp 67.5 22 0.00047 28.9 6.1 63 23-87 306-372 (380)
126 PF11816 DUF3337: Domain of un 66.3 59 0.0013 25.4 8.3 61 38-98 251-329 (331)
127 KOG1364 Predicted ubiquitin re 65.8 11 0.00025 30.2 4.2 68 23-90 276-349 (356)
128 PF14453 ThiS-like: ThiS-like 65.7 20 0.00043 21.4 4.3 49 37-96 8-56 (57)
129 COG1977 MoaD Molybdopterin con 65.4 9.2 0.0002 24.0 3.0 53 44-100 27-84 (84)
130 PF12436 USP7_ICP0_bdg: ICP0-b 64.9 36 0.00078 25.5 6.7 46 23-68 175-223 (249)
131 COG5131 URM1 Ubiquitin-like pr 64.9 36 0.00078 22.3 5.7 57 44-100 29-96 (96)
132 KOG2689 Predicted ubiquitin re 64.7 43 0.00094 26.2 7.1 54 15-68 201-254 (290)
133 cd01764 Urm1 Urm1-like ubuitin 64.7 35 0.00075 21.9 6.1 57 43-100 27-94 (94)
134 PF12143 PPO1_KFDV: Protein of 64.2 4.6 0.0001 27.9 1.6 31 72-102 89-119 (130)
135 COG5100 NPL4 Nuclear pore prot 64.0 37 0.00079 28.3 6.9 69 26-95 2-78 (571)
136 cd06411 PB1_p51 The PB1 domain 62.8 22 0.00048 22.5 4.4 35 36-70 8-42 (78)
137 KOG1639 Steroid reductase requ 62.4 17 0.00037 28.2 4.5 55 39-93 17-76 (297)
138 KOG1363 Predicted regulator of 62.2 24 0.00053 29.2 5.6 50 19-69 378-427 (460)
139 KOG2982 Uncharacterized conser 61.7 33 0.00071 27.8 6.1 58 38-95 351-416 (418)
140 PHA01623 hypothetical protein 59.8 10 0.00022 22.3 2.3 28 36-63 13-40 (56)
141 KOG1872 Ubiquitin-specific pro 59.8 51 0.0011 27.5 7.0 68 26-94 5-73 (473)
142 PF03607 DCX: Doublecortin; I 59.7 17 0.00037 21.3 3.3 45 43-93 7-53 (60)
143 PF00018 SH3_1: SH3 domain; I 55.5 9.1 0.0002 21.0 1.6 24 78-101 9-32 (48)
144 PF12976 DUF3860: Domain of Un 55.4 3 6.6E-05 26.7 -0.5 57 44-102 3-63 (92)
145 COG1791 Uncharacterized conser 54.9 25 0.00054 25.7 4.1 56 38-93 70-130 (181)
146 cd06395 PB1_Map2k5 PB1 domain 54.6 44 0.00096 21.6 4.7 55 25-94 1-57 (91)
147 cd06404 PB1_aPKC PB1 domain is 53.2 58 0.0013 20.9 5.8 50 25-75 1-54 (83)
148 PF06487 SAP18: Sin3 associate 52.8 39 0.00085 22.9 4.6 61 35-95 37-120 (120)
149 cd01666 TGS_DRG_C TGS_DRG_C: 52.3 48 0.001 20.5 4.6 49 38-94 18-74 (75)
150 TIGR02988 YaaA_near_RecF S4 do 52.0 4.6 9.9E-05 23.4 -0.1 45 44-93 5-58 (59)
151 PF01982 CTP-dep_RFKase: Domai 51.7 9.6 0.00021 26.1 1.4 15 81-95 107-121 (121)
152 KOG4225 Sorbin and SH3 domain- 50.9 11 0.00025 31.2 2.0 25 78-102 444-468 (489)
153 KOG3938 RGS-GAIP interacting p 50.6 1.1E+02 0.0023 24.2 7.1 50 19-69 48-97 (334)
154 cd02790 MopB_CT_Formate-Dh_H F 49.7 7.8 0.00017 24.8 0.7 21 76-96 40-60 (116)
155 cd00508 MopB_CT_Fdh-Nap-like T 49.5 7.8 0.00017 24.8 0.7 20 76-95 40-59 (120)
156 cd06397 PB1_UP1 Uncharacterize 48.8 70 0.0015 20.5 5.1 43 26-69 2-44 (82)
157 PF02991 Atg8: Autophagy prote 48.3 47 0.001 21.9 4.3 46 38-83 36-82 (104)
158 cd02792 MopB_CT_Formate-Dh-Na- 47.8 8.5 0.00018 24.9 0.7 20 76-95 40-59 (122)
159 PRK14132 riboflavin kinase; Pr 46.8 19 0.00041 24.8 2.3 18 78-95 109-126 (126)
160 cd02786 MopB_CT_3 The MopB_CT_ 45.7 9.5 0.00021 24.5 0.7 19 76-94 36-54 (116)
161 cd01669 TGS_Ygr210_C TGS_Ygr21 45.5 59 0.0013 20.1 4.3 52 38-94 24-75 (76)
162 TIGR03028 EpsE polysaccharide 45.1 1E+02 0.0022 22.7 6.2 54 38-94 92-160 (239)
163 PF10787 YfmQ: Uncharacterised 44.6 22 0.00048 25.2 2.4 40 39-78 19-58 (149)
164 PF07653 SH3_2: Variant SH3 do 44.4 17 0.00036 20.5 1.5 22 78-99 11-33 (55)
165 PRK11433 aldehyde oxidoreducta 44.4 1.3E+02 0.0028 22.6 6.6 64 23-91 50-120 (217)
166 PF14604 SH3_9: Variant SH3 do 44.1 16 0.00036 20.4 1.4 23 78-100 8-30 (49)
167 PF08620 RPAP1_C: RPAP1-like, 43.6 15 0.00034 22.9 1.4 11 64-74 2-12 (73)
168 COG0179 MhpD 2-keto-4-pentenoa 43.4 1.2E+02 0.0026 23.3 6.4 48 43-99 208-256 (266)
169 COG4841 Uncharacterized protei 43.4 23 0.00049 23.2 2.1 21 81-102 15-35 (95)
170 cd02791 MopB_CT_Nitrate-R-NapA 42.5 11 0.00025 24.2 0.7 20 76-95 40-59 (122)
171 PF04194 PDCD2_C: Programmed c 42.4 30 0.00064 24.4 2.8 41 43-83 52-93 (164)
172 PF01568 Molydop_binding: Moly 41.9 12 0.00026 23.7 0.7 19 77-95 36-54 (110)
173 PF14533 USP7_C2: Ubiquitin-sp 41.8 43 0.00093 24.5 3.7 35 35-69 133-170 (213)
174 KOG3309 Ferredoxin [Energy pro 41.0 91 0.002 22.3 5.1 50 22-75 41-100 (159)
175 PF02824 TGS: TGS domain; Int 40.9 73 0.0016 18.5 5.5 59 27-94 1-59 (60)
176 smart00326 SH3 Src homology 3 40.9 42 0.00091 17.8 2.8 24 78-101 14-37 (58)
177 cd02794 MopB_CT_DmsA-EC The Mo 40.7 13 0.00028 24.3 0.7 21 76-96 35-55 (121)
178 cd02787 MopB_CT_ydeP The MopB_ 40.7 12 0.00027 24.0 0.6 21 76-96 36-56 (112)
179 cd02783 MopB_CT_2 The MopB_CT_ 40.3 13 0.00028 25.8 0.7 21 76-96 37-57 (156)
180 PF13670 PepSY_2: Peptidase pr 40.3 71 0.0015 19.5 4.1 25 21-45 52-76 (83)
181 cd02779 MopB_CT_Arsenite-Ox Th 40.1 13 0.00029 24.1 0.7 21 76-96 38-58 (115)
182 cd02785 MopB_CT_4 The MopB_CT_ 39.7 13 0.00029 24.3 0.7 20 76-95 37-56 (124)
183 KOG4146 Ubiquitin-like protein 38.5 35 0.00077 22.5 2.5 55 45-100 36-101 (101)
184 cd02777 MopB_CT_DMSOR-like The 38.4 14 0.00031 24.3 0.7 20 76-95 39-58 (127)
185 PRK14165 winged helix-turn-hel 38.3 29 0.00062 25.9 2.3 16 81-96 201-216 (217)
186 cd02781 MopB_CT_Acetylene-hydr 38.3 15 0.00032 24.1 0.7 20 76-95 38-57 (130)
187 cd02778 MopB_CT_Thiosulfate-R- 38.1 15 0.00032 23.8 0.7 20 76-95 35-54 (123)
188 PF06071 YchF-GTPase_C: Protei 37.2 22 0.00047 22.9 1.3 15 81-95 69-83 (84)
189 PTZ00380 microtubule-associate 36.9 73 0.0016 21.8 4.0 46 37-83 42-89 (121)
190 cd02788 MopB_CT_NDH-1_NuoG2-N7 36.8 16 0.00035 23.0 0.7 19 76-94 34-52 (96)
191 cd02782 MopB_CT_1 The MopB_CT_ 36.7 16 0.00035 24.0 0.7 20 76-95 38-57 (129)
192 PF13180 PDZ_2: PDZ domain; PD 36.6 48 0.001 19.9 2.8 57 35-99 15-73 (82)
193 KOG2378 cAMP-regulated guanine 35.5 2.8E+02 0.006 23.6 8.2 77 18-94 229-309 (573)
194 cd02784 MopB_CT_PHLH The MopB_ 35.4 17 0.00037 25.0 0.7 20 76-95 43-62 (137)
195 cd02776 MopB_CT_Nitrate-R-NarG 34.1 19 0.00042 24.6 0.8 20 76-95 36-55 (141)
196 cd02775 MopB_CT Molybdopterin- 34.0 19 0.00042 22.1 0.7 19 76-94 28-46 (101)
197 cd02789 MopB_CT_FmdC-FwdD The 33.9 20 0.00043 23.2 0.8 20 76-95 36-55 (106)
198 PRK08452 flagellar protein Fla 33.6 1.3E+02 0.0028 20.6 4.8 39 21-60 80-118 (124)
199 PF04014 Antitoxin-MazE: Antid 33.5 40 0.00087 18.5 1.9 17 80-96 16-32 (47)
200 cd02793 MopB_CT_DMSOR-BSOR-TMA 33.4 20 0.00044 23.7 0.8 21 76-96 38-58 (129)
201 PF08722 Tn7_Tnp_TnsA_N: TnsA 32.6 97 0.0021 19.0 3.8 36 26-61 36-82 (88)
202 PF01402 RHH_1: Ribbon-helix-h 32.6 40 0.00086 17.4 1.7 26 39-64 2-27 (39)
203 PF14478 DUF4430: Domain of un 31.8 65 0.0014 19.0 2.8 26 66-93 42-67 (68)
204 PRK07738 flagellar protein Fla 31.4 1.7E+02 0.0037 19.8 5.0 39 21-60 73-111 (117)
205 PF07108 PipA: PipA protein; 31.3 33 0.00071 25.0 1.6 51 43-93 76-126 (200)
206 cd02780 MopB_CT_Tetrathionate_ 31.2 22 0.00047 23.9 0.7 20 76-95 35-54 (143)
207 TIGR01565 homeo_ZF_HD homeobox 31.0 55 0.0012 19.4 2.3 24 48-71 32-55 (58)
208 COG5569 Uncharacterized conser 30.6 44 0.00094 22.4 2.0 20 83-102 82-101 (108)
209 KOG3391 Transcriptional co-rep 30.3 43 0.00093 23.7 2.0 24 74-97 114-137 (151)
210 KOG2070 Guanine nucleotide exc 29.6 63 0.0014 27.6 3.2 33 64-102 21-53 (661)
211 PF00381 PTS-HPr: PTS HPr comp 29.6 52 0.0011 20.2 2.1 35 62-96 30-66 (84)
212 PF07933 DUF1681: Protein of u 29.5 1.8E+02 0.0039 20.8 5.1 75 17-95 79-158 (160)
213 PRK05388 argJ bifunctional orn 29.5 1.1E+02 0.0024 25.0 4.5 43 60-102 323-373 (395)
214 PF06622 SepQ: SepQ protein; 29.4 2.7E+02 0.0059 21.6 6.4 68 24-92 120-188 (305)
215 smart00314 RA Ras association 29.3 1.4E+02 0.003 18.2 8.9 61 27-87 5-75 (90)
216 KOG4495 RNA polymerase II tran 28.9 1.5E+02 0.0032 19.8 4.2 58 25-83 3-62 (110)
217 PRK11377 dihydroxyacetone kina 28.7 1.8E+02 0.0039 24.1 5.7 63 23-96 156-220 (473)
218 TIGR03193 4hydroxCoAred 4-hydr 28.7 1.5E+02 0.0034 20.8 4.6 54 25-81 2-62 (148)
219 COG5077 Ubiquitin carboxyl-ter 28.1 1.1E+02 0.0023 27.7 4.4 33 37-69 586-619 (1089)
220 PF07377 DUF1493: Protein of u 27.9 39 0.00084 22.2 1.4 25 45-69 42-68 (111)
221 PF01502 PRA-CH: Phosphoribosy 27.8 78 0.0017 19.9 2.7 42 61-102 23-65 (75)
222 PF01361 Tautomerase: Tautomer 27.5 1.1E+02 0.0023 17.2 3.2 26 46-71 19-44 (60)
223 PF00498 FHA: FHA domain; Int 27.5 44 0.00095 19.1 1.5 23 68-93 45-67 (68)
224 PRK12426 elongation factor P; 27.2 2.2E+02 0.0048 20.7 5.4 70 17-94 29-114 (185)
225 PRK09908 xanthine dehydrogenas 27.2 1.5E+02 0.0032 21.2 4.4 53 24-80 8-67 (159)
226 PF03072 DUF237: MG032/MG096/M 26.9 1.6E+02 0.0034 20.7 4.3 50 45-94 67-126 (137)
227 cd01816 Raf_RBD Ubiquitin doma 26.8 1.7E+02 0.0037 18.4 6.9 45 27-71 2-48 (74)
228 PRK11675 LexA regulated protei 26.6 68 0.0015 20.8 2.3 27 37-63 51-77 (90)
229 TIGR02609 doc_partner putative 25.9 61 0.0013 19.8 2.0 19 78-96 17-35 (74)
230 PF09138 Urm1: Urm1 (Ubiquitin 25.7 44 0.00096 21.9 1.4 63 36-100 19-96 (96)
231 COG2914 Uncharacterized protei 25.6 91 0.002 20.7 2.8 54 38-96 20-76 (99)
232 PF03633 Glyco_hydro_65C: Glyc 25.4 21 0.00045 20.2 -0.2 30 64-93 11-43 (54)
233 KOG0012 DNA damage inducible p 25.3 1.5E+02 0.0033 24.1 4.5 57 38-94 16-74 (380)
234 PF03931 Skp1_POZ: Skp1 family 25.2 1.1E+02 0.0024 17.7 2.9 15 26-40 2-16 (62)
235 cd01668 TGS_RelA_SpoT TGS_RelA 24.8 1.3E+02 0.0028 16.4 6.4 54 32-94 6-59 (60)
236 KOG3074 Transcriptional regula 24.8 2.5E+02 0.0055 21.6 5.4 37 20-56 45-82 (263)
237 PF09358 UBA_e1_C: Ubiquitin-a 24.7 99 0.0021 20.8 3.0 26 38-63 36-61 (125)
238 PRK00051 hisI phosphoribosyl-A 24.6 70 0.0015 22.0 2.2 77 22-102 12-93 (125)
239 COG0139 HisI Phosphoribosyl-AM 24.6 59 0.0013 22.0 1.8 77 22-100 16-95 (111)
240 TIGR03198 pucE xanthine dehydr 24.5 1.7E+02 0.0036 20.6 4.2 53 24-79 3-62 (151)
241 PRK10850 PTS system phosphohis 24.3 1.4E+02 0.0031 18.6 3.5 49 41-96 16-66 (85)
242 PRK12280 rplW 50S ribosomal pr 23.9 2.8E+02 0.006 19.8 6.5 63 34-96 22-93 (158)
243 cd00987 PDZ_serine_protease PD 23.5 85 0.0018 18.6 2.3 42 56-97 38-81 (90)
244 PF14533 USP7_C2: Ubiquitin-sp 23.3 2.6E+02 0.0055 20.4 5.2 60 24-83 20-90 (213)
245 cd01787 GRB7_RA RA (RAS-associ 23.1 2.2E+02 0.0047 18.3 5.7 40 24-63 2-41 (85)
246 PRK02289 4-oxalocrotonate taut 22.3 1.5E+02 0.0032 16.9 3.1 26 46-71 20-45 (60)
247 cd04867 TGS_YchF_C TGS_YchF_C: 21.8 53 0.0011 21.1 1.1 13 82-94 70-82 (83)
248 PF02017 CIDE-N: CIDE-N domain 21.7 2.2E+02 0.0048 17.9 5.6 49 27-77 5-55 (78)
249 COG1925 FruB Phosphotransferas 21.6 2E+02 0.0042 18.4 3.8 60 26-96 5-66 (88)
250 PRK10872 relA (p)ppGpp synthet 21.5 2.9E+02 0.0063 24.5 5.8 65 26-99 405-469 (743)
251 COG3874 Uncharacterized conser 21.3 3E+02 0.0065 19.2 5.1 45 5-56 63-108 (138)
252 PF00794 PI3K_rbd: PI3-kinase 21.1 2.3E+02 0.0051 18.0 5.4 62 21-82 13-83 (106)
253 PF09627 PrgU: PrgU-like prote 21.0 1.3E+02 0.0028 20.2 2.8 53 24-76 10-63 (122)
254 PF01187 MIF: Macrophage migra 20.9 1.4E+02 0.0031 19.3 3.1 23 48-70 77-99 (114)
255 PHA01748 hypothetical protein 20.9 1.1E+02 0.0025 17.9 2.4 25 38-62 4-28 (60)
256 cd00174 SH3 Src homology 3 dom 20.7 1.4E+02 0.0031 15.4 3.1 23 78-100 11-33 (54)
257 KOG3784 Sorting nexin protein 20.6 2.3E+02 0.0049 23.4 4.7 40 24-63 107-146 (407)
258 PF10209 DUF2340: Uncharacteri 20.4 77 0.0017 21.8 1.7 55 41-95 22-107 (122)
259 cd04938 TGS_Obg-like TGS_Obg-l 20.3 64 0.0014 19.9 1.3 49 38-94 25-75 (76)
260 PF05932 CesT: Tir chaperone p 20.3 1.6E+02 0.0035 18.1 3.3 25 49-73 1-31 (119)
261 PLN02593 adrenodoxin-like ferr 20.2 2.4E+02 0.0052 18.6 4.1 33 25-61 1-33 (117)
262 PHA00738 putative HTH transcri 20.2 2.5E+02 0.0053 18.9 4.1 45 32-76 60-104 (108)
263 PF14732 UAE_UbL: Ubiquitin/SU 20.0 1.1E+02 0.0023 19.3 2.3 51 44-94 8-67 (87)
No 1
>KOG1769 consensus Ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=5e-31 Score=173.38 Aligned_cols=81 Identities=64% Similarity=1.032 Sum_probs=79.2
Q ss_pred CCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCCC
Q 034043 22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGGA 101 (105)
Q Consensus 22 ~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG~ 101 (105)
+..|+|+|+++++..+.|+|++++||+|||++||++.|++.+++||+|||++|+.++||++|+|||||+|+|+..|.||.
T Consensus 18 ~~hi~LKV~gqd~~~~~Fkikr~t~LkKLM~aYc~r~Gl~~~s~RFlFdG~rI~~~~TP~~L~mEd~D~Iev~~~q~gG~ 97 (99)
T KOG1769|consen 18 SEHINLKVKGQDGSVVVFKIKRHTPLKKLMKAYCERQGLSMNSLRFLFDGQRIRETHTPADLEMEDGDEIEVVQEQTGGF 97 (99)
T ss_pred cceEEEEEecCCCCEEEEEeecCChHHHHHHHHHHHcCCccceEEEEECCcCcCCCCChhhhCCcCCcEEEEEeecccCC
Confidence 67999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred C
Q 034043 102 L 102 (105)
Q Consensus 102 ~ 102 (105)
.
T Consensus 98 ~ 98 (99)
T KOG1769|consen 98 G 98 (99)
T ss_pred C
Confidence 5
No 2
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=99.95 E-value=8.7e-29 Score=160.68 Aligned_cols=79 Identities=56% Similarity=0.942 Sum_probs=77.7
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCCC
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGGA 101 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG~ 101 (105)
..|.|+|.++++.++.|+||++|+|++||++||++.|...+++||+|||++|+.++||.+|+|||+|+|+++.+|+||+
T Consensus 23 ~hinLkvv~qd~telfFkiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~eQvGG~ 101 (103)
T COG5227 23 KHINLKVVDQDGTELFFKIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVTEQVGGA 101 (103)
T ss_pred cccceEEecCCCCEEEEEEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHHHHhcCc
Confidence 4899999999999999999999999999999999999999999999999999999999999999999999999999997
No 3
>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=99.94 E-value=3.1e-26 Score=147.77 Aligned_cols=81 Identities=73% Similarity=1.180 Sum_probs=78.7
Q ss_pred CCCCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccC
Q 034043 20 DQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTG 99 (105)
Q Consensus 20 ~~~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~G 99 (105)
+++.+|+|+|++++|+.+.|+|++++||++||++||++.|+++++++|+|+|++|.+++||++|+|+|||+|+|+++|+|
T Consensus 7 ~~~~~i~I~v~~~~g~~~~~~v~~~~~l~~l~~~y~~~~gi~~~~~rf~f~G~~L~~~~T~~~l~m~d~d~I~v~l~l~G 86 (87)
T cd01763 7 EISEHINLKVKGQDGNEVFFKIKRSTPLKKLMEAYCQRQGLSMNSVRFLFDGQRIRDNQTPDDLGMEDGDEIEVMLEQTG 86 (87)
T ss_pred CCCCeEEEEEECCCCCEEEEEEcCCCHHHHHHHHHHHHhCCCccceEEEECCeECCCCCCHHHcCCCCCCEEEEEEeccc
Confidence 34789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred C
Q 034043 100 G 100 (105)
Q Consensus 100 G 100 (105)
|
T Consensus 87 G 87 (87)
T cd01763 87 G 87 (87)
T ss_pred C
Confidence 8
No 4
>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=99.89 E-value=7.3e-23 Score=126.60 Aligned_cols=71 Identities=42% Similarity=0.887 Sum_probs=66.6
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc-ccEEEEECCeecCCCCCccccCCCCCCEEEEEe
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-NSIAFLFDGRRLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~-~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
|+|+|++++++.+.|+|++++||++|+++||++.+++. ++++|+|||++|.+++||++++|+|||+|+|++
T Consensus 1 I~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~L~~~~T~~~~~ied~d~Idv~I 72 (72)
T PF11976_consen 1 ITIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIPPEESIRLIFDGKRLDPNDTPEDLGIEDGDTIDVII 72 (72)
T ss_dssp EEEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTTT-TTEEEEETTEEE-TTSCHHHHT-STTEEEEEE-
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCccceEEEEECCEEcCCCCCHHHCCCCCCCEEEEEC
Confidence 78999999999999999999999999999999999999 999999999999999999999999999999985
No 5
>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=99.60 E-value=9.6e-15 Score=90.32 Aligned_cols=76 Identities=17% Similarity=0.448 Sum_probs=72.9
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
++|.|+..+|+.+.+.+.+++++..|++.++++.+++++.++|+|+|+.|.++.|.++++++||++|+++.++.||
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~~~~g~~~~~qrL~~~g~~L~d~~tl~~~~i~~g~~i~l~~~~~gg 76 (76)
T cd01806 1 MLIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQMNDDKTAADYKLEGGSVLHLVLALRGG 76 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCCHHHHHHHHhHhhCCChhhEEEEECCeEccCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 4688888899999999999999999999999999999999999999999999999999999999999999999997
No 6
>PTZ00044 ubiquitin; Provisional
Probab=99.45 E-value=1.2e-12 Score=81.36 Aligned_cols=76 Identities=14% Similarity=0.435 Sum_probs=72.7
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+.|.|+..+|+.+.+.+.+++++..|+...+++.|+++++++++|+|+.|.++.|.++++++++++|.+.++..||
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~l~~~~i~~~~~i~l~~~~~gg 76 (76)
T PTZ00044 1 MQILIKTLTGKKQSFNFEPDNTVQQVKMALQEKEGIDVKQIRLIYSGKQMSDDLKLSDYKVVPGSTIHMVLQLRGG 76 (76)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEEccCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 4678888899999999999999999999999999999999999999999999999999999999999999999987
No 7
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=99.45 E-value=1.2e-12 Score=80.87 Aligned_cols=76 Identities=16% Similarity=0.394 Sum_probs=72.4
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+.|.|+..+|+.+.+.+.+++++..|++.++++.+++++.++|+|+|..|.++.|..++++++|++|.+..++.||
T Consensus 1 m~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~~~g~~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~i~l~~~~~gg 76 (76)
T cd01803 1 MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 76 (76)
T ss_pred CEEEEEcCCCCEEEEEECCcCcHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCcHHHcCCCCCCEEEEEEEccCC
Confidence 4678888889999999999999999999999999999999999999999999999999999999999999999997
No 8
>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=99.39 E-value=3.8e-12 Score=79.28 Aligned_cols=74 Identities=19% Similarity=0.391 Sum_probs=70.4
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
|.|+...|+.+.+.|.++.++..|++..++..|++.++++++|+|+.|.++.|..+++++++++|+++.++.||
T Consensus 1 i~vk~~~g~~~~l~v~~~~tV~~lK~~I~~~~gi~~~~q~L~~~G~~L~D~~tL~~~~i~~~~tl~l~~~l~gg 74 (74)
T cd01810 1 ILVRNDKGRSSIYEVQLTQTVATLKQQVSQRERVQADQFWLSFEGRPMEDEHPLGEYGLKPGCTVFMNLRLRGG 74 (74)
T ss_pred CEEECCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCEECCCCCCHHHcCCCCCCEEEEEEEccCC
Confidence 45677889989999999999999999999999999999999999999999999999999999999999999987
No 9
>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=99.38 E-value=6.2e-12 Score=83.60 Aligned_cols=78 Identities=12% Similarity=0.240 Sum_probs=75.2
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+.+.|.|+...|+.+.+.|.+++++..|++..+++.|++.++++++|.|+.|.++.|.++++++++++|++.+++.||
T Consensus 26 ~~M~I~Vk~l~G~~~~leV~~~~TV~~lK~kI~~~~gip~~~QrLi~~Gk~L~D~~tL~dy~I~~~stL~l~~~l~GG 103 (103)
T cd01802 26 DTMELFIETLTGTCFELRVSPFETVISVKAKIQRLEGIPVAQQHLIWNNMELEDEYCLNDYNISEGCTLKLVLAMRGG 103 (103)
T ss_pred CCEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEECCEECCCCCcHHHcCCCCCCEEEEEEecCCC
Confidence 479999999999999999999999999999999999999999999999999999999999999999999999999997
No 10
>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=99.36 E-value=7.5e-12 Score=77.92 Aligned_cols=74 Identities=15% Similarity=0.256 Sum_probs=68.5
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
++|.|++. +.+.+.|.+++++..|+...+++.|+++++++++|.|+.|.++.|.++++++++.+|++..+..||
T Consensus 1 mqi~vk~~--~~~~l~v~~~~tV~~lK~~i~~~~gip~~~q~Li~~Gk~L~D~~tL~~~~i~~~~tl~l~~~l~GG 74 (74)
T cd01793 1 MQLFVRAQ--NTHTLEVTGQETVSDIKAHVAGLEGIDVEDQVLLLAGVPLEDDATLGQCGVEELCTLEVAGRLLGG 74 (74)
T ss_pred CEEEEECC--CEEEEEECCcCcHHHHHHHHHhhhCCCHHHEEEEECCeECCCCCCHHHcCCCCCCEEEEEEecCCC
Confidence 35667663 567899999999999999999999999999999999999999999999999999999999999997
No 11
>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=99.34 E-value=1.2e-11 Score=76.94 Aligned_cols=73 Identities=15% Similarity=0.299 Sum_probs=68.6
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeec
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQ 97 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q 97 (105)
++|.|+..+|+.+.+.|.+++++..|++..+++.|+++++++++|.|+.|.++.|.+++++.++++|.++.++
T Consensus 1 m~i~vk~~~G~~~~l~v~~~~tV~~lK~~i~~~~gi~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~l~l~~~~ 73 (74)
T cd01807 1 MFLTVKLLQGRECSLQVSEKESVSTLKKLVSEHLNVPEEQQRLLFKGKALADDKRLSDYSIGPNAKLNLVVRP 73 (74)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCCCHHHeEEEECCEECCCCCCHHHCCCCCCCEEEEEEcC
Confidence 3677788889999999999999999999999999999999999999999999999999999999999998875
No 12
>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=99.33 E-value=1.9e-11 Score=77.16 Aligned_cols=76 Identities=18% Similarity=0.327 Sum_probs=71.8
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGGA 101 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG~ 101 (105)
++|.|+...|+...+.+.++.++..|++.++++.++++++++|+|.|..|.++ |.++++++||++|.++..+.||-
T Consensus 2 m~I~Vk~~~G~~~~l~v~~~~TV~~LK~~I~~~~~~~~~~qrL~~~Gk~L~d~-~L~~~gi~~~~~i~l~~~~~~~~ 77 (78)
T cd01804 2 MNLNIHSTTGTRFDLSVPPDETVEGLKKRISQRLKVPKERLALLHRETRLSSG-KLQDLGLGDGSKLTLVPTVEAGL 77 (78)
T ss_pred eEEEEEECCCCEEEEEECCcCHHHHHHHHHHHHhCCChHHEEEEECCcCCCCC-cHHHcCCCCCCEEEEEeeccccC
Confidence 67888888899899999999999999999999999999999999999999988 99999999999999999999883
No 13
>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=99.30 E-value=2.6e-11 Score=74.05 Aligned_cols=71 Identities=23% Similarity=0.430 Sum_probs=67.3
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEe
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
|+|+|+..+|+.+.+.+.++.++..|++.+++..|++++.++++|+|+.|.++.|.+++++.+|++|.+..
T Consensus 1 i~i~vk~~~g~~~~~~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~L~d~~~L~~~~i~~~~~l~l~~ 71 (72)
T cd01809 1 IEIKVKTLDSQTHTFTVEEEITVLDLKEKIAEEVGIPVEQQRLIYSGRVLKDDETLSEYKVEDGHTIHLVK 71 (72)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHHHCcCHHHeEEEECCEECCCcCcHHHCCCCCCCEEEEEe
Confidence 57888888899899999999999999999999999999999999999999999999999999999998875
No 14
>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=99.30 E-value=2.1e-11 Score=74.28 Aligned_cols=68 Identities=12% Similarity=0.350 Sum_probs=64.3
Q ss_pred ecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeecc
Q 034043 31 GQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQT 98 (105)
Q Consensus 31 ~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~ 98 (105)
..+|+.+.+.|.+++++..|++.+++..+++++.++|+|+|+.|.++.|..++++.+|++|.++++|+
T Consensus 2 ~~~g~~~~~~v~~~~tV~~lK~~i~~~~~~~~~~~~L~~~G~~L~d~~tL~~~~i~~~~~I~l~~k~~ 69 (69)
T PF00240_consen 2 TLSGKTFTLEVDPDDTVADLKQKIAEETGIPPEQQRLIYNGKELDDDKTLSDYGIKDGSTIHLVIKPR 69 (69)
T ss_dssp ETTSEEEEEEEETTSBHHHHHHHHHHHHTSTGGGEEEEETTEEESTTSBTGGGTTSTTEEEEEEESSE
T ss_pred CCCCcEEEEEECCCCCHHHhhhhcccccccccccceeeeeeecccCcCcHHHcCCCCCCEEEEEEecC
Confidence 34677889999999999999999999999999999999999999999999999999999999999874
No 15
>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=99.26 E-value=7.1e-11 Score=73.40 Aligned_cols=74 Identities=11% Similarity=0.275 Sum_probs=68.8
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCC--CcccEEEEECCeecCCCCCccccCCCCCCEEEEEeecc
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV--ELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQT 98 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~--~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~ 98 (105)
+.|.|+..+|+.+.+.+.+++++..|++.++++.++ +++.++++|+|..|.++.|.+++++.+|++|.+++++.
T Consensus 1 m~i~vk~~~g~~~~l~v~~~~TV~~lK~~i~~~~~i~~~~~~q~L~~~G~~L~d~~~L~~~~i~~~~~i~~~~~~~ 76 (77)
T cd01805 1 MKITFKTLKQQTFPIEVDPDDTVAELKEKIEEEKGCDYPPEQQKLIYSGKILKDDTTLEEYKIDEKDFVVVMVSKP 76 (77)
T ss_pred CEEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCCCChhHeEEEECCEEccCCCCHHHcCCCCCCEEEEEEecC
Confidence 467788888988899999999999999999999999 99999999999999999999999999999999998763
No 16
>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=99.23 E-value=1.1e-10 Score=73.17 Aligned_cols=71 Identities=11% Similarity=0.158 Sum_probs=67.6
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEe
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
|.|.|++..|+.+.+.+.++.++..|++.++++.+++++++||+|.|..|.++.|.+++++.+|.+|.++.
T Consensus 2 ~~i~vkt~~Gk~~~~~v~~~~TV~~LK~~I~~~~~~~~~~qrLi~~Gk~L~D~~tL~~ygi~~~stv~l~~ 72 (73)
T cd01791 2 IEVVCNDRLGKKVRVKCNPDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHISLGDYEIHDGMNLELYY 72 (73)
T ss_pred EEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHHhCCChHHEEEEeCCcCCCCCCCHHHcCCCCCCEEEEEe
Confidence 68899988899999999999999999999999999999999999999999999999999999999999875
No 17
>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=99.20 E-value=1.4e-10 Score=73.40 Aligned_cols=73 Identities=19% Similarity=0.309 Sum_probs=67.3
Q ss_pred EEEEEEecCCCE-EEEE-EecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeec
Q 034043 25 INLKVKGQDGNE-VFFR-IKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQ 97 (105)
Q Consensus 25 I~I~v~~~~g~~-~~~~-ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q 97 (105)
+.|.|+...|.. +.+. +.+++++..|+...++..|++.++++++|.|+.|.++.|.++++++++++|.+.++|
T Consensus 1 M~I~vk~~~G~~~~~l~~v~~~~TV~~lK~~i~~~~gi~~~~QrLi~~Gk~L~D~~tL~~y~i~~~~~i~l~~~~ 75 (78)
T cd01797 1 MWIQVRTMDGKETRTVDSLSRLTKVEELREKIQELFNVEPECQRLFYRGKQMEDGHTLFDYNVGLNDIIQLLVRQ 75 (78)
T ss_pred CEEEEEcCCCCEEEEeeccCCcCcHHHHHHHHHHHhCCCHHHeEEEeCCEECCCCCCHHHcCCCCCCEEEEEEec
Confidence 467788888887 4774 899999999999999999999999999999999999999999999999999999886
No 18
>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=99.20 E-value=1.4e-10 Score=71.25 Aligned_cols=70 Identities=21% Similarity=0.381 Sum_probs=64.9
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEee
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
|.|+...|..+.+.+.+++++..|++.++++.|++.++++++|.|+.|.++.|.+++++.++.+|++..+
T Consensus 1 i~vk~~~g~~~~~~v~~~~tV~~lK~~i~~~~gi~~~~q~Li~~G~~L~d~~~l~~~~i~~~stl~l~~~ 70 (70)
T cd01798 1 VYVRTNTGHTFPVEVDPDTDIKQLKEVVAKRQGVPPDQLRVIFAGKELRNTTTIQECDLGQQSILHAVRR 70 (70)
T ss_pred CEEEcCCCCEEEEEECCCChHHHHHHHHHHHHCCCHHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEeC
Confidence 3566778899999999999999999999999999999999999999999999999999999999998753
No 19
>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=99.19 E-value=1.2e-10 Score=71.09 Aligned_cols=70 Identities=20% Similarity=0.298 Sum_probs=64.4
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEe
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
|+|.|+.. +....+.+.++.++..|++.+++..|++++.++++|+|..|.++.|..++++.+|++|.++.
T Consensus 1 i~i~vk~~-g~~~~i~v~~~~tv~~lK~~i~~~~gi~~~~q~L~~~g~~l~d~~~L~~~~i~~g~~l~v~~ 70 (71)
T cd01812 1 IRVRVKHG-GESHDLSISSQATFGDLKKMLAPVTGVEPRDQKLIFKGKERDDAETLDMSGVKDGSKVMLLE 70 (71)
T ss_pred CEEEEEEC-CEEEEEEECCCCcHHHHHHHHHHhhCCChHHeEEeeCCcccCccCcHHHcCCCCCCEEEEec
Confidence 57788875 77778999999999999999999999999999999999999999999999999999998864
No 20
>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=99.15 E-value=3.2e-10 Score=71.65 Aligned_cols=73 Identities=18% Similarity=0.200 Sum_probs=68.7
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEE--EECCeecCCCCCccccCCCCCCEEEEEeec
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAF--LFDGRRLRGEQTPDELEMEDGDEIDAMLHQ 97 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F--~fdG~~L~~~~Tp~dl~medgD~Idv~~~q 97 (105)
|.|.|+...|+.+.+.+.++.+...|++.++++.++++++++| .|+|..|.++.|.+++++++|++|.++++.
T Consensus 3 ~~i~Vk~~~G~~~~~~v~~~~TV~~lK~~I~~~~~i~~~~qrL~~~~~G~~L~D~~tL~~~gi~~gs~l~l~~~~ 77 (80)
T cd01792 3 WDLKVKMLGGNEFLVSLRDSMTVSELKQQIAQKIGVPAFQQRLAHLDSREVLQDGVPLVSQGLGPGSTVLLVVQN 77 (80)
T ss_pred eEEEEEeCCCCEEEEEcCCCCcHHHHHHHHHHHhCCCHHHEEEEeccCCCCCCCCCCHHHcCCCCCCEEEEEEEc
Confidence 6788888889999999999999999999999999999999999 899999999999999999999999999874
No 21
>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=99.14 E-value=3.7e-10 Score=70.71 Aligned_cols=69 Identities=14% Similarity=0.289 Sum_probs=65.5
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCCC
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGGA 101 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG~ 101 (105)
+|+.+.+.+.+++++..|+....+..|+++++++++|.|..+.++.|..++++.+|++|.|+.++.||.
T Consensus 6 ~g~~~~l~v~~~~TV~~lK~~i~~~~gip~~~q~L~~~G~~L~d~~tL~~~~i~~g~~l~v~~~~~gg~ 74 (76)
T cd01800 6 NGQMLNFTLQLSDPVSVLKVKIHEETGMPAGKQKLQYEGIFIKDSNSLAYYNLANGTIIHLQLKERGGR 74 (76)
T ss_pred CCeEEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEEcCCCCcHHHcCCCCCCEEEEEEecCCCc
Confidence 466778999999999999999999999999999999999999999999999999999999999999975
No 22
>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=99.12 E-value=5.3e-10 Score=69.39 Aligned_cols=69 Identities=16% Similarity=0.309 Sum_probs=65.0
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEe
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
++|+...|+.+.+.+.+++++..|+...+++.|+++.+++++|.|+.|.++.|.++++++++.+|.|.+
T Consensus 1 ~~vk~~~G~~~~l~v~~~~TV~~lK~~I~~~~gi~~~~q~Li~~G~~L~D~~~l~~~~i~~~~tv~~~~ 69 (70)
T cd01794 1 LKVRLSTGKDVKLSVSSKDTVGQLKKQLQAAEGVDPCCQRWFFSGKLLTDKTRLQETKIQKDYVVQVIV 69 (70)
T ss_pred CeEEcCCCCEEEEEECCcChHHHHHHHHHHHhCCCHHHeEEEECCeECCCCCCHHHcCCCCCCEEEEEe
Confidence 466777899999999999999999999999999999999999999999999999999999999999975
No 23
>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=99.11 E-value=7.7e-10 Score=68.21 Aligned_cols=71 Identities=17% Similarity=0.339 Sum_probs=64.4
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEee
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
|+|.|+...|. ..+.+.++.+...|++..+++.++++.+++++|.|+.|.++.|.+++++++|++|.++.+
T Consensus 1 ~~i~vk~~~g~-~~l~v~~~~TV~~lK~~I~~~~~i~~~~~~Li~~Gk~L~d~~tL~~~~i~~~stl~l~~~ 71 (71)
T cd01808 1 IKVTVKTPKDK-EEIEIAEDASVKDFKEAVSKKFKANQEQLVLIFAGKILKDTDTLTQHNIKDGLTVHLVIK 71 (71)
T ss_pred CEEEEEcCCCC-EEEEECCCChHHHHHHHHHHHhCCCHHHEEEEECCeEcCCCCcHHHcCCCCCCEEEEEEC
Confidence 45677777776 489999999999999999999999999999999999999999999999999999998763
No 24
>smart00213 UBQ Ubiquitin homologues. Ubiquitin-mediated proteolysis is involved in the regulated turnover of proteins required for controlling cell cycle progression
Probab=99.04 E-value=1.5e-09 Score=64.28 Aligned_cols=64 Identities=20% Similarity=0.442 Sum_probs=58.5
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGD 89 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD 89 (105)
|.|.|++.+ ....+.|.+++++..|+..+++..+++++.++++|+|..|.++.|..++++.+|+
T Consensus 1 ~~i~vk~~~-~~~~~~v~~~~tv~~lk~~i~~~~~~~~~~~~L~~~g~~L~d~~tL~~~~i~~~~ 64 (64)
T smart00213 1 IELTVKTLD-GTITLEVKPSDTVSELKEKIAELTGIPVEQQRLIYKGKVLEDDRTLADYNIQDGS 64 (64)
T ss_pred CEEEEEECC-ceEEEEECCCCcHHHHHHHHHHHHCCCHHHEEEEECCEECCCCCCHHHcCCcCCC
Confidence 457777776 5778999999999999999999999999999999999999999999999999985
No 25
>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=98.92 E-value=1.2e-08 Score=61.12 Aligned_cols=67 Identities=16% Similarity=0.370 Sum_probs=61.8
Q ss_pred EEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEe
Q 034043 29 VKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 29 v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
|+..++..+.+.+.+++++..|++.+++..+++.+.++|+|+|+.|.++.|..++++.+++.|.|..
T Consensus 2 v~~~~~~~~~~~~~~~~ti~~lK~~i~~~~~~~~~~~~l~~~g~~l~d~~~l~~~~v~~~~~i~v~~ 68 (69)
T cd01769 2 VKTLTGKTFELEVSPDDTVAELKAKIAAKEGVPPEQQRLIYAGKILKDDKTLSDYGIQDGSTLHLVL 68 (69)
T ss_pred eEccCCCEEEEEECCCChHHHHHHHHHHHHCcChHHEEEEECCcCCCCcCCHHHCCCCCCCEEEEEE
Confidence 4455688889999999999999999999999999999999999999999999999999999999874
No 26
>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=98.90 E-value=1.1e-08 Score=63.35 Aligned_cols=67 Identities=12% Similarity=0.199 Sum_probs=59.9
Q ss_pred EEEec-CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCC-CCccccCCCCCCEEEEE
Q 034043 28 KVKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGE-QTPDELEMEDGDEIDAM 94 (105)
Q Consensus 28 ~v~~~-~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~-~Tp~dl~medgD~Idv~ 94 (105)
.|+.. .|+.+.+.+.++.++..|+...+++.|++.++++++|+|+.|.++ .|.+++++++|++|.+.
T Consensus 2 ~v~~~~~g~~~~l~v~~~~TV~~lK~~I~~~~gip~~~q~Li~~Gk~L~D~~~~L~~~gi~~~~~l~l~ 70 (71)
T cd01796 2 TVYTARSETTFSLDVDPDLELENFKALCEAESGIPASQQQLIYNGRELVDNKRLLALYGVKDGDLVVLR 70 (71)
T ss_pred EEEECCCCCEEEEEECCcCCHHHHHHHHHHHhCCCHHHeEEEECCeEccCCcccHHHcCCCCCCEEEEe
Confidence 34555 677788999999999999999999999999999999999999876 57899999999998764
No 27
>KOG0005 consensus Ubiquitin-like protein [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=98.90 E-value=2.4e-09 Score=65.15 Aligned_cols=68 Identities=13% Similarity=0.362 Sum_probs=64.6
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEE
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
.|+|+...++++.+.|.+++++.++++...++.|+++.+.|++|-|..+.++.|+++++++-|.++..
T Consensus 2 ~iKvktLt~KeIeidIep~DkverIKErvEEkeGIPp~qqrli~~gkqm~DD~tA~~Y~~~~GSVlHl 69 (70)
T KOG0005|consen 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYAGKQMNDDKTAAHYNLLGGSVLHL 69 (70)
T ss_pred eeeEeeeccceEEEeeCcchHHHHHHHHhhhhcCCCchhhhhhhccccccccccHHHhhhccceeEee
Confidence 57888888999999999999999999999999999999999999999999999999999999998875
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=98.75 E-value=5.4e-08 Score=77.49 Aligned_cols=74 Identities=15% Similarity=0.278 Sum_probs=68.3
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhC---CCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeecc
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS---VELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQT 98 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g---~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~ 98 (105)
|+|+|++..|+.+.+.|.+++++..|+..+++..+ ++.++++|+|.|+.|.++.|.+++++.++|+|.|++...
T Consensus 1 MkItVKtl~g~~~~IeV~~~~TV~dLK~kI~~~~g~~~ip~~~QkLIy~GkiL~Dd~tL~dy~I~e~~~Ivvmv~k~ 77 (378)
T TIGR00601 1 MTLTFKTLQQQKFKIDMEPDETVKELKEKIEAEQGKDAYPVAQQKLIYSGKILSDDKTVREYKIKEKDFVVVMVSKP 77 (378)
T ss_pred CEEEEEeCCCCEEEEEeCCcChHHHHHHHHHHhhCCCCCChhHeEEEECCEECCCCCcHHHcCCCCCCEEEEEeccC
Confidence 46778888899899999999999999999999998 899999999999999999999999999999999887653
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=98.67 E-value=1.8e-07 Score=58.80 Aligned_cols=62 Identities=11% Similarity=0.168 Sum_probs=56.4
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecC-CCCCccccCCC-CCCEEEEEe
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLR-GEQTPDELEME-DGDEIDAML 95 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~-~~~Tp~dl~me-dgD~Idv~~ 95 (105)
.+..+.+.+.+++++..|+...+++.|++++++++ |+|.++. ++.|.++++++ +||++.+++
T Consensus 11 ~~~t~~l~v~~~~TV~~lK~kI~~~~gip~~~QrL-~~G~~L~dD~~tL~~ygi~~~g~~~~l~~ 74 (75)
T cd01799 11 HTVTIWLTVRPDMTVAQLKDKVFLDYGFPPAVQRW-VIGQRLARDQETLYSHGIRTNGDSAFLYI 74 (75)
T ss_pred CCCeEEEEECCCCcHHHHHHHHHHHHCcCHHHEEE-EcCCeeCCCcCCHHHcCCCCCCCEEEEEe
Confidence 35677899999999999999999999999999999 9999995 77999999999 889998875
No 30
>KOG0003 consensus Ubiquitin/60s ribosomal protein L40 fusion [Translation, ribosomal structure and biogenesis]
Probab=98.67 E-value=4.6e-09 Score=70.68 Aligned_cols=76 Identities=16% Similarity=0.382 Sum_probs=70.9
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCCCC
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG~~ 102 (105)
+.++.-.|+.+++.+.+++++..|.....++.|+++++.++.|+|+.|.+.-|.++++|.-.|+|.++.++.||.-
T Consensus 3 ~~~~~~~GKT~~le~EpS~ti~~vKA~i~~~~Gi~~~~~~L~~~~k~LED~~Tla~Y~i~~~~Tl~~~~rL~GG~i 78 (128)
T KOG0003|consen 3 IFVKTLTGKTITLEVEPSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGII 78 (128)
T ss_pred EEEEEeeCceEEEEecccchHHHHHHHhccccCCCHHHHHHHhcccccccCCcccccCccchhhhhhhHHHhcCCC
Confidence 4455567889999999999999999999999999999999999999999999999999999999999999999953
No 31
>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=98.65 E-value=2.1e-07 Score=58.22 Aligned_cols=68 Identities=16% Similarity=0.106 Sum_probs=60.3
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE---CCeecCCCCCccccCCCCCCEEEEE
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF---DGRRLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f---dG~~L~~~~Tp~dl~medgD~Idv~ 94 (105)
.|.|+. .|+.+.+.+.+++++..|++..++..++++++++++| .|..+.++.|..++++.+|+.|.++
T Consensus 2 ~i~vk~-~g~~~~v~v~~~~Tv~~lK~~i~~~tgvp~~~QKLi~~~~~Gk~l~D~~~L~~~~i~~g~~i~lm 72 (74)
T cd01813 2 PVIVKW-GGQEYSVTTLSEDTVLDLKQFIKTLTGVLPERQKLLGLKVKGKPAEDDVKISALKLKPNTKIMMM 72 (74)
T ss_pred EEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHHCCCHHHEEEEeecccCCcCCCCcCHHHcCCCCCCEEEEE
Confidence 445554 4666789999999999999999999999999999996 8999999999999999999999875
No 32
>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=98.63 E-value=2.7e-07 Score=58.83 Aligned_cols=72 Identities=7% Similarity=0.039 Sum_probs=62.6
Q ss_pred cEEEEEEecCCCEEEEEE--ecCcHHHHHHHHHHHHhC-C-CcccEEEEECCeecCCCCCccccC--CCCCCEEEEEe
Q 034043 24 HINLKVKGQDGNEVFFRI--KRSTQLKKLMNAYCDRQS-V-ELNSIAFLFDGRRLRGEQTPDELE--MEDGDEIDAML 95 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~i--k~tt~l~kL~~~y~~~~g-~-~~~~~~F~fdG~~L~~~~Tp~dl~--medgD~Idv~~ 95 (105)
.|+|.|++.++....|.| .++++...|+++.++..+ . +++++|++|.|+-|.+++|.+++. +.++-+|.++-
T Consensus 1 ~i~l~IK~~~~~~~~~~ve~~~~~TV~~lK~~i~~~~~~~~~~~~QrLIy~GKiLkD~~tL~~~~~~~~~~~tiHLV~ 78 (79)
T cd01790 1 PVTLLIKSPNQKYEDQTVSCFLNWTVGELKTHLSRVYPSKPLEQDQRLIYSGKLLPDHLKLRDVLRKQDEYHMVHLVC 78 (79)
T ss_pred CeEEEEECCCCCeEEEEEecCCcChHHHHHHHHHHhcCCCCChhHeEEEEcCeeccchhhHHHHhhcccCCceEEEEe
Confidence 378999999888755555 899999999999999885 3 468999999999999999999995 99999998763
No 33
>KOG0010 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=98.60 E-value=2.4e-07 Score=75.52 Aligned_cols=75 Identities=15% Similarity=0.338 Sum_probs=70.3
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeecc
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQT 98 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~ 98 (105)
-.|+|+|++.+. +..|.|..+.+++.+++..+++++.+.++++++|.|+.|++.+|...+++.||-+|+++++.-
T Consensus 14 ~~irV~Vkt~~d-k~~~~V~~~ssV~qlKE~I~~~f~a~~dqlvLIfaGrILKD~dTL~~~gI~Dg~TvHLVik~~ 88 (493)
T KOG0010|consen 14 SLIRVTVKTPKD-KYEVNVASDSSVLQLKELIAQRFGAPPDQLVLIYAGRILKDDDTLKQYGIQDGHTVHLVIKSQ 88 (493)
T ss_pred ceeEEEEecCCc-ceeEecccchHHHHHHHHHHHhcCCChhHeeeeecCccccChhhHHHcCCCCCcEEEEEeccC
Confidence 478999998876 678999999999999999999999999999999999999999999999999999999998764
No 34
>cd01815 BMSC_UbP_N Ubiquitin-like domain of BMSC-UbP. BMSC_UbP (bone marrow stromal cell-derived ubiquitin-like protein) has an N-terminal ubiquitin-like (UBQ) domain and a C-terminal ubiquitin-associated (UBA) domain, a domain architecture similar to those of the UBIN, Chap1, and ubiquilin proteins. This CD represents the N-terminal ubiquitin-like domain.
Probab=98.35 E-value=1.1e-06 Score=55.56 Aligned_cols=53 Identities=23% Similarity=0.354 Sum_probs=48.3
Q ss_pred CcHHHHHHHHHHHHh--CC-CcccEEEEECCeecCCCCCccccCCCCCCEEEEEee
Q 034043 44 STQLKKLMNAYCDRQ--SV-ELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 44 tt~l~kL~~~y~~~~--g~-~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
+++...|+...+++. ++ +++++|++|.|+.|.++.|.+++++.+|++|.++.+
T Consensus 20 ~~TV~~LK~kI~~~~~egi~~~dqQrLIy~GKiL~D~~TL~dygI~~gstlhLv~~ 75 (75)
T cd01815 20 GYQVSTLKQLIAAQLPDSLPDPELIDLIHCGRKLKDDQTLDFYGIQSGSTIHILRK 75 (75)
T ss_pred cCcHHHHHHHHHHhhccCCCChHHeEEEeCCcCCCCCCcHHHcCCCCCCEEEEEeC
Confidence 579999999999996 46 488999999999999999999999999999998863
No 35
>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=98.28 E-value=2.7e-06 Score=57.56 Aligned_cols=76 Identities=16% Similarity=0.217 Sum_probs=64.5
Q ss_pred CcEEEEEEecCCCEE-EEEEecCcHHHHHHHHHHHHhC-----C--CcccEEEEECCeecCCCCCccccC------CCCC
Q 034043 23 AHINLKVKGQDGNEV-FFRIKRSTQLKKLMNAYCDRQS-----V--ELNSIAFLFDGRRLRGEQTPDELE------MEDG 88 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~-~~~ik~tt~l~kL~~~y~~~~g-----~--~~~~~~F~fdG~~L~~~~Tp~dl~------medg 88 (105)
+.|.|+++-.+|..+ .+++.++++...|+++..+.++ + +.++++|+|.|+.|.++.|.++++ ..-.
T Consensus 3 ~~~e~kfrl~dg~digp~~~~~sdTV~~lKekI~~~~p~~ke~~P~~~~~qKLIysGKiLeD~~TL~d~~~p~g~~~~~~ 82 (113)
T cd01814 3 EQIEIKFRLYDGSDIGPKRYPAATTVDFLKERVVSQWPKDKEVGPKTVNEVKLISAGKILENSKTVGECRSPVGDIAGGV 82 (113)
T ss_pred ccEEEEEEccCCCccCccccChhhHHHHHHHHHHHhcccccccCCCCHHHeEEEeCCeecCCCCcHHHhCCcccccCCCc
Confidence 478899999999877 7899999999999999996663 3 489999999999999999999999 5556
Q ss_pred CEEEEEeecc
Q 034043 89 DEIDAMLHQT 98 (105)
Q Consensus 89 D~Idv~~~q~ 98 (105)
-+++|+++..
T Consensus 83 ~TmHvvlr~~ 92 (113)
T cd01814 83 ITMHVVVQPP 92 (113)
T ss_pred eEEEEEecCC
Confidence 6777776543
No 36
>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=98.27 E-value=9.8e-06 Score=45.07 Aligned_cols=63 Identities=21% Similarity=0.348 Sum_probs=58.0
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEe
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
++....+.+.+..++..|++..+++.+.+++.+.|.++|..+....+..+..+.++++|.+..
T Consensus 6 ~~~~~~~~~~~~~tv~~l~~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 68 (69)
T cd00196 6 DGKTVELLVPSGTTVADLKEKLAKKLGLPPEQQRLLVNGKILPDSLTLEDYGLQDGDELVLVP 68 (69)
T ss_pred CCCEEEEEcCCCCcHHHHHHHHHHHHCcChHHeEEEECCeECCCCCcHHHcCCCCCCEEEEEe
Confidence 567778889999999999999999999999999999999999999988899999999998864
No 37
>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=98.18 E-value=4.3e-06 Score=53.25 Aligned_cols=71 Identities=21% Similarity=0.304 Sum_probs=44.2
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC---Ceec--CCCCCccccCCCCCCEEEEE
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD---GRRL--RGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd---G~~L--~~~~Tp~dl~medgD~Idv~ 94 (105)
+.|.|+|++++|.. ++.+.+++++..|+++.++.++++.+.+.+..+ ...+ ..+.|.++|+|..||.|-+.
T Consensus 3 ~~milRvrS~dG~~-Rie~~~~~t~~~L~~kI~~~l~~~~~~~~L~~~~~~~~~l~s~~~~tl~~lglkHGdmlyL~ 78 (80)
T PF11543_consen 3 SSMILRVRSKDGMK-RIEVSPSSTLSDLKEKISEQLSIPDSSQSLSKDRNNKEELKSSDSKTLSSLGLKHGDMLYLK 78 (80)
T ss_dssp ---EEEEE-SSEEE-EEEE-TTSBHHHHHHHHHHHS---TTT---BSSGGGGGCSSS-TT-CCCCT---TT-EEE--
T ss_pred ccEEEEEECCCCCE-EEEcCCcccHHHHHHHHHHHcCCCCcceEEEecCCCCcccccCCcCCHHHcCCCCccEEEEe
Confidence 47899999999874 678999999999999999999999888776554 2345 47899999999999998653
No 38
>KOG0004 consensus Ubiquitin/40S ribosomal protein S27a fusion [Translation, ribosomal structure and biogenesis]
Probab=98.13 E-value=3.1e-06 Score=60.00 Aligned_cols=77 Identities=16% Similarity=0.372 Sum_probs=72.2
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCCCC
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG~~ 102 (105)
.|.|+...+..+.+.+.+.+++..+..+..+..++++++.|++|-|.+|.+.-|..|+++.-..+|.++.+..||..
T Consensus 2 ~ifVk~l~~kti~~eve~~~ti~~~Kakiq~~egIp~dqqrlifag~qLedgrtlSDY~Iqkestl~l~l~l~Gg~k 78 (156)
T KOG0004|consen 2 QIFVKTLTGKTITLEVEANDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGAK 78 (156)
T ss_pred ccchhhccccceeeeecccccHHHHHHhhhcccCCCchhhhhhhhhcccccCCccccccccccceEEEEEEecCCcc
Confidence 46677777778899999999999999999999999999999999999999999999999999999999999999975
No 39
>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=98.06 E-value=4.5e-05 Score=48.65 Aligned_cols=71 Identities=15% Similarity=0.240 Sum_probs=58.3
Q ss_pred EEEEEEecC-CCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEE-EECCe-----ec-CCCCCccccCCCCCCEEEEEe
Q 034043 25 INLKVKGQD-GNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAF-LFDGR-----RL-RGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 25 I~I~v~~~~-g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F-~fdG~-----~L-~~~~Tp~dl~medgD~Idv~~ 95 (105)
|.|.|.+.. ......++.++.++..|++......|+++..+++ +|+|. .| .+..+..+++++||.+|.|.-
T Consensus 2 v~v~i~~~~~~~~~ekr~~~~~Tv~~lK~kl~~~~G~~~~~mrL~l~~~~~~~~~~l~~d~~~L~~y~~~dg~~IhVvD 80 (84)
T cd01789 2 VTVNITSSADSFSFEKKYSRGLTIAELKKKLELVVGTPASSMRLQLFDGDDKLVSKLDDDDALLGSYPVDDGCRIHVID 80 (84)
T ss_pred EEEEEEeCCCceeeeEecCCCCcHHHHHHHHHHHHCCCccceEEEEEcCCCCeEeecCCCccEeeeccCCCCCEEEEEe
Confidence 455555532 3345678999999999999999999999999999 58888 35 678899999999999999863
No 40
>PF14560 Ubiquitin_2: Ubiquitin-like domain; PDB: 1WJN_A 2KJ6_A 2KJR_A 1V6E_A 1T0Y_A.
Probab=97.90 E-value=0.00011 Score=46.69 Aligned_cols=71 Identities=13% Similarity=0.223 Sum_probs=57.4
Q ss_pred EEEEEEecCC--CEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC----Ceec----CCCCCccccCCCCCCEEEEE
Q 034043 25 INLKVKGQDG--NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD----GRRL----RGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 25 I~I~v~~~~g--~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd----G~~L----~~~~Tp~dl~medgD~Idv~ 94 (105)
|.|.|.+... .....++.++.++..|+.......|++++.+++.+. +..+ .+..|..+++++||++|.|.
T Consensus 2 v~l~It~~~~~~~~~ekr~~~~~Tv~eLK~kl~~~~Gi~~~~m~L~l~~~~~~~~~~~~~dd~~~L~~y~~~dg~~i~V~ 81 (87)
T PF14560_consen 2 VKLFITSSNSKQRSVEKRFPKSITVSELKQKLEKLTGIPPSDMRLQLKSDKDDSKIEELDDDDATLGSYGIKDGMRIHVV 81 (87)
T ss_dssp EEEEEEESSSSSSEEEEEEETTSBHHHHHHHHHHHHTS-TTTEEEEEE-TSSSSEEEESSGSSSBCCHHT-STTEEEEEE
T ss_pred EEEEEEeCCCCCeeEEEEcCCCCCHHHHHHHHHHHhCCCcccEEEEEEecCCCccccccCCCccEeecCCCCCCCEEEEE
Confidence 6778877665 367899999999999999999999999999887765 2222 46889999999999999986
Q ss_pred e
Q 034043 95 L 95 (105)
Q Consensus 95 ~ 95 (105)
-
T Consensus 82 D 82 (87)
T PF14560_consen 82 D 82 (87)
T ss_dssp E
T ss_pred e
Confidence 3
No 41
>PLN02560 enoyl-CoA reductase
Probab=97.88 E-value=6.5e-05 Score=58.51 Aligned_cols=68 Identities=16% Similarity=0.267 Sum_probs=57.4
Q ss_pred EEEEEecCCCEE---EEEEecCcHHHHHHHHHHHHhCC-CcccEEEEEC---Ce----ecCCCCCccccCCCCCCEEEE
Q 034043 26 NLKVKGQDGNEV---FFRIKRSTQLKKLMNAYCDRQSV-ELNSIAFLFD---GR----RLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 26 ~I~v~~~~g~~~---~~~ik~tt~l~kL~~~y~~~~g~-~~~~~~F~fd---G~----~L~~~~Tp~dl~medgD~Idv 93 (105)
+|.|+..+|+.+ .+.+.+++++..|+.+++++.+. +++++|++++ |. .|.+++|..++++++|.+|.|
T Consensus 2 ~I~Vk~~~Gk~i~~~~lev~~~aTV~dLK~~Isk~~~~~~~~RqRL~~~~~~gk~~g~~L~d~ktL~d~gv~~gstLy~ 80 (308)
T PLN02560 2 KVTVVSRSGREIIKGGLEVPDSATVADLKKAIHKRKKKYYPSRQRLTLPLPPGKTRPTVLDDSKSLKDYGLGDGGTVVF 80 (308)
T ss_pred EEEEEcCCCCeecceeEEcCCCCcHHHHHHHHHHHcCCCChhheEEEEecCCCCcCccccCCCCCHHhcCCCCCceEEE
Confidence 456666677776 68999999999999999999986 7899999983 43 778899999999999998765
No 42
>KOG0011 consensus Nucleotide excision repair factor NEF2, RAD23 component [Replication, recombination and repair]
Probab=97.74 E-value=0.00012 Score=57.49 Aligned_cols=74 Identities=16% Similarity=0.247 Sum_probs=67.7
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhC--CCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccC
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS--VELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTG 99 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g--~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~G 99 (105)
.|.|+.-.+..+.+.+++++++..++.+.....| .+....+++|+|+.|.+..|..++++.+++.|-|++.+.=
T Consensus 2 ~lt~KtL~q~~F~iev~Pe~tV~evK~kIet~~g~dyP~~~QkLIy~GkiL~D~~tv~Eykv~E~~fiVvMlsK~k 77 (340)
T KOG0011|consen 2 KLTVKTLKQQTFTIEVKPEDTVVEVKKKIETEKGPDYPAEQQKLIYSGKILKDETTVGEYKVKEKKFIVVMLSKDK 77 (340)
T ss_pred eeEeeeccCceeEeecCcchhHHHHHHHHHhccCCCCchhhheeeecceeccCCcchhhhccccCceEEEEEecCc
Confidence 5667777788889999999999999999999999 7788999999999999999999999999999999988763
No 43
>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=97.72 E-value=0.00016 Score=44.46 Aligned_cols=64 Identities=8% Similarity=0.147 Sum_probs=46.2
Q ss_pred EecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEE
Q 034043 30 KGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 30 ~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
...+++...+++.|+++|..+.+.-|++++++.++..+.|++..|+.+.+-.-.+|-+|..+++
T Consensus 2 i~~~~rr~~vkvtp~~~l~~VL~eac~k~~l~~~~~~L~h~~k~ldlslp~R~snL~n~akLeL 65 (65)
T PF11470_consen 2 ICYNFRRFKVKVTPNTTLNQVLEEACKKFGLDPSSYDLKHNNKPLDLSLPFRLSNLPNNAKLEL 65 (65)
T ss_dssp E-TTS-EEEE---TTSBHHHHHHHHHHHTT--GGG-EEEETTEEESSS-BHHHH---SS-EEEE
T ss_pred CccCCcEEEEEECCCCCHHHHHHHHHHHcCCCccceEEEECCEEeccccceeecCCCCCCEEeC
Confidence 4567888999999999999999999999999999999999999999998888888888877653
No 44
>cd01795 USP48_C USP ubiquitin-specific protease. The USP (ubiquitin-specific protease) family is one of at least seven deubiquitylating enzyme (DUB) families capable of deconjugating ubiquitin and ubiquitin-like adducts. While the USP's have a conserved catalytic core domain, they differ in their domain architectures. This subfamily, which includes USP31, and USP48, has a carboxy-terminal ubiquitin-like domain in addition to a DUSP (domain of ubiquitin-specific proteases) domain,
Probab=97.63 E-value=0.00031 Score=46.87 Aligned_cols=62 Identities=19% Similarity=0.088 Sum_probs=57.2
Q ss_pred EEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecC-CCCCccccCCCCCCEEEEEeec
Q 034043 36 EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLR-GEQTPDELEMEDGDEIDAMLHQ 97 (105)
Q Consensus 36 ~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~-~~~Tp~dl~medgD~Idv~~~q 97 (105)
+..+.|.+++++..|+....+++++++...+++|||+.|. +..|..+|++..+.+|.+.++.
T Consensus 16 ~~~L~V~~~~TVg~LK~lImQ~f~V~P~dQkL~~dG~~L~DDsrTLssyGv~sgSvl~Llide 78 (107)
T cd01795 16 EKALLVSANQTLKELKIQIMHAFSVAPFDQNLSIDGKILSDDCATLGTLGVIPESVILLKADE 78 (107)
T ss_pred CceEEeCccccHHHHHHHHHHHhcCCcccceeeecCceeccCCccHHhcCCCCCCEEEEEecC
Confidence 5688999999999999999999999999999999999885 6889999999999999998753
No 45
>PF13881 Rad60-SLD_2: Ubiquitin-2 like Rad60 SUMO-like; PDB: 1SE9_A 1WGH_A 2GOW_A.
Probab=97.61 E-value=0.0011 Score=44.65 Aligned_cols=67 Identities=22% Similarity=0.353 Sum_probs=54.3
Q ss_pred cEEEEEEecCCC-EEEEEEecCcHHHHHHHHHHHHhC-------CCcccEEEEECCeecCCCCCccccCCCCCCE
Q 034043 24 HINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCDRQS-------VELNSIAFLFDGRRLRGEQTPDELEMEDGDE 90 (105)
Q Consensus 24 ~I~I~v~~~~g~-~~~~~ik~tt~l~kL~~~y~~~~g-------~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~ 90 (105)
.|.|+++-.+|. ...|...++++...|++....... ..++.+|++|.|+.|.++.|..++.+--+++
T Consensus 2 ~i~lkf~l~~G~d~~~~~~~~~~TV~~lKe~i~~~WP~d~~~~p~s~~~lRLI~~GriL~d~~tL~~~~~~~~~~ 76 (111)
T PF13881_consen 2 KIELKFRLADGKDIGPFRFDPSTTVADLKERIWAEWPEDWEERPKSPSDLRLIYAGRILEDNKTLSDCRLPSGET 76 (111)
T ss_dssp SEEEEEEETTS-EEEEEEE-TTSBHHHHHHHHHHSSSTTSSSTT-SGGGEEEEETTEEE-SSSBTGGGT--TTSE
T ss_pred eEEEEEEEeCCCcccccccCccChHHHHHHHHHHHCccccccCCCChhhEEEEeCCeecCCcCcHHHhCCCCCCC
Confidence 688999999999 668999999999999999987664 2457899999999999999999999998885
No 46
>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=97.58 E-value=0.00035 Score=43.58 Aligned_cols=52 Identities=13% Similarity=0.247 Sum_probs=44.8
Q ss_pred ecCcHHHHHHHHHHHHhC-CCcccEEEE--ECCeecCCCCCccccCCCCCCEEEE
Q 034043 42 KRSTQLKKLMNAYCDRQS-VELNSIAFL--FDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 42 k~tt~l~kL~~~y~~~~g-~~~~~~~F~--fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
.++.++..|+..+++..+ ++++.+|+. +.|..|.++.|..++++.+|.+|.|
T Consensus 20 ~~~aTV~dlk~~i~~~~~~~~~~Rqrl~~~~~g~~L~d~~tL~~~gv~~g~~lyv 74 (77)
T cd01801 20 SGDATIADLKKLIAKSSPQLTVNRQSLRLEPKGKSLKDDDTLVDLGVGAGATLYV 74 (77)
T ss_pred CCCccHHHHHHHHHHHcCCCCcceeEEEeCCCCcccCCcccHhhcCCCCCCEEEE
Confidence 367899999999999976 467787764 7899999999999999999998866
No 47
>KOG4248 consensus Ubiquitin-like protein, regulator of apoptosis [Posttranslational modification, protein turnover, chaperones]
Probab=97.49 E-value=0.00027 Score=62.25 Aligned_cols=70 Identities=20% Similarity=0.320 Sum_probs=66.3
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEee
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
.|+|++.|-+...|.|..-.+++.+++..+++.+|+.+..|++|.|+.|.++++...+++ ||-+|+++-+
T Consensus 4 ~v~vktld~r~~t~~ig~q~ti~~~~d~~r~~~ni~s~~qr~i~~grvl~~~k~vq~~~v-dgk~~hlver 73 (1143)
T KOG4248|consen 4 NVLVKTLDSRTRTFIIGAQMTIKEFKDHIRASVNIPSEKQRLIYQGRVLQDDKKVQEYNV-DGKVIHLVER 73 (1143)
T ss_pred ceeeeecccceeEEEechHHHHHHHHHHHHHhcccccccceeeecceeeccchhhhhccC-CCeEEEeecc
Confidence 478888888888999999999999999999999999999999999999999999999999 9999999865
No 48
>KOG0001 consensus Ubiquitin and ubiquitin-like proteins [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=97.47 E-value=0.0042 Score=36.13 Aligned_cols=71 Identities=17% Similarity=0.385 Sum_probs=63.9
Q ss_pred EEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeecc
Q 034043 28 KVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQT 98 (105)
Q Consensus 28 ~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~ 98 (105)
.+....+..+.+.+.+..++..+....+...+++....++.|.|..|.++.|..++++..+..+.+.....
T Consensus 3 ~~~~~~gk~~~~~~~~~~~i~~~k~~i~~~~~~~~~~q~~~~~~~~l~d~~~l~~~~i~~~~~~~l~~~~~ 73 (75)
T KOG0001|consen 3 FVKTLDGKTITLEVSPSDTIEVVKAKIRDKEGIPVDQQRLIFGGKPLEDGRTLADYNIQEGSTLHLVLSLR 73 (75)
T ss_pred EEEecCCCEEEEEecCCCHHHHHHHHHHhhcCCCCeeEEEEECCEECcCCCcHHHhCCCCCCEEEEEEecC
Confidence 34456788889999999999999999999999999999999999999999999999999999999887654
No 49
>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=97.44 E-value=0.0028 Score=39.46 Aligned_cols=72 Identities=21% Similarity=0.266 Sum_probs=58.6
Q ss_pred CCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCccc-EEEE--ECCeecCCCC--CccccCCCCCCEEEE
Q 034043 22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS-IAFL--FDGRRLRGEQ--TPDELEMEDGDEIDA 93 (105)
Q Consensus 22 ~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~-~~F~--fdG~~L~~~~--Tp~dl~medgD~Idv 93 (105)
.+.+.|+|+.++|..+..+..++++++.|++........+... +.|. |--+.+...+ |.+++++-...+|.|
T Consensus 4 ~~~~~I~vRlpdG~~l~~~F~~~~tl~~l~~~v~~~~~~~~~~~f~L~~~~Pr~~l~~~~~~tl~e~~l~p~~~l~v 80 (82)
T PF00789_consen 4 SDVVRIQVRLPDGSRLQRRFPKSDTLQDLYDFVESQLFSPEESDFELITAFPRRELTDEDSKTLEEAGLLPSATLIV 80 (82)
T ss_dssp SSEEEEEEEETTSTEEEEEEETTSBHHHHHHHHHHHHHCTTTSSEEEEESSSTEECCSTTTSBTCCCTTSSCEEEEE
T ss_pred CCEEEEEEECCCCCEEEEEECCcchHHHHHHHHHHhcCCCCCccEEEEeCCCCcCCCccccccHHHhcCCCCeEEEE
Confidence 4578999999999999999999999999998887777666554 7765 5567776654 999999998888766
No 50
>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=97.38 E-value=0.00075 Score=42.29 Aligned_cols=70 Identities=17% Similarity=0.237 Sum_probs=51.6
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc---c---cEEEE-ECCeecCCCCCccccCCCCCCEEEE
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL---N---SIAFL-FDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~---~---~~~F~-fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
.++|.|...++..+-+.+-.+.|+..|+....+..+.+. . .++|. -+|..|.+++|.+++++.|||++.+
T Consensus 2 ~~rVtv~~~~~~~~Dl~lP~~vpv~~li~~l~~~~~~~~~~~~~~~~~~L~~~~g~~L~~~~tL~~~gV~dGd~L~L 78 (79)
T PF08817_consen 2 LCRVTVDAGNGRQVDLALPADVPVAELIPELVELLGLPGDDPPGHGQWVLARAGGRPLDPDQTLADAGVRDGDVLVL 78 (79)
T ss_dssp EEEEEEE-TT--EEEEEEETTSBTTHHHHHHHHHS---S---TT-E-EEEG-GGTEEEETTSBCGGGT--TT-EEEE
T ss_pred EEEEEEEcCCCcEEEEEcCCCCcHHHHHHHHHHHhCCccCCCCCcceEEEEecCCcccCCcCcHhHcCCCCCCEEEe
Confidence 467777775567889999999999999999999998632 2 46777 7899999999999999999999865
No 51
>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=96.77 E-value=0.026 Score=36.15 Aligned_cols=71 Identities=13% Similarity=0.077 Sum_probs=55.8
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECC--eecC--------CCCCccccCCCCCCEEE
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG--RRLR--------GEQTPDELEMEDGDEID 92 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG--~~L~--------~~~Tp~dl~medgD~Id 92 (105)
..++|.|+-++|..+..+...+++++.|++.... .+-.+..+.+...= +.+. .+.|.++++|....++-
T Consensus 3 ~~~~I~iRlp~G~Rl~rrF~~~~tl~~l~~fv~~-~~~~~~~f~L~t~FPrr~~~~~~~~~~~~~~TL~eaGL~~s~~L~ 81 (85)
T cd01774 3 DTVKIVFKLPNGTRVERRFLFTQSLRVIHDFLFS-LKETPEKFQIVTNFPRRVLPCLPSEGDPPPPTLLEAGLSNSEVLF 81 (85)
T ss_pred ceEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-CCCCCCcEEEecCCCCccccccccccCcCCCCHHHcCCCCccEEE
Confidence 4678888889999999999999999999998853 44455677777654 4554 36799999999888776
Q ss_pred EE
Q 034043 93 AM 94 (105)
Q Consensus 93 v~ 94 (105)
|.
T Consensus 82 V~ 83 (85)
T cd01774 82 VQ 83 (85)
T ss_pred Ee
Confidence 63
No 52
>PRK08364 sulfur carrier protein ThiS; Provisional
Probab=96.74 E-value=0.023 Score=34.82 Aligned_cols=66 Identities=20% Similarity=0.340 Sum_probs=49.7
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
|+|++-+.. .+..+.+...+++..|.+.+ +++.+.+.+..||+.+. .+.-+.+||.|+++.=-.||
T Consensus 5 m~v~vng~~-~~~~~~~~~~~tv~~ll~~l----~~~~~~v~v~vNg~iv~-----~~~~l~~gD~Veii~~V~GG 70 (70)
T PRK08364 5 IRVKVIGRG-IEKEIEWRKGMKVADILRAV----GFNTESAIAKVNGKVAL-----EDDPVKDGDYVEVIPVVSGG 70 (70)
T ss_pred EEEEEeccc-cceEEEcCCCCcHHHHHHHc----CCCCccEEEEECCEECC-----CCcCcCCCCEEEEEccccCC
Confidence 667764432 24567777888888887554 77778899999999984 46669999999998776665
No 53
>PF13019 Telomere_Sde2: Telomere stability and silencing
Probab=96.37 E-value=0.022 Score=40.89 Aligned_cols=80 Identities=20% Similarity=0.280 Sum_probs=59.1
Q ss_pred EEEEEEecCC----CEEEEEEecCcHHHHHHHHHHHHhCCCccc-EEEEEC-CeecC-CCCC-ccccCCCCCC----EEE
Q 034043 25 INLKVKGQDG----NEVFFRIKRSTQLKKLMNAYCDRQSVELNS-IAFLFD-GRRLR-GEQT-PDELEMEDGD----EID 92 (105)
Q Consensus 25 I~I~v~~~~g----~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~-~~F~fd-G~~L~-~~~T-p~dl~medgD----~Id 92 (105)
|+|.|.+.+| ..+.+.+..++++..|++...+..+++... +.|++. +..|. .+++ +.++.-.+.| .|.
T Consensus 1 i~Vlvss~~g~~lp~tl~~~lp~~ttv~dL~~~l~~~~~~~~~~~~~L~~~~n~~l~~~~~~~~s~l~~~~~~~~~~~l~ 80 (162)
T PF13019_consen 1 INVLVSSFDGLTLPPTLSLSLPSTTTVSDLKDRLSERLPIPSSSQLYLTTNSNGQLSPSSDIPLSSLLSSSQDSDFITLR 80 (162)
T ss_pred CeEEEecCCCCCCCCeEEeeCCCCCcHHHHHHHHHhhcCCCccceeEEEEeCCCeeCCCccccHHhhccCcCCCCceEEE
Confidence 5788888888 467899999999999999999999988765 455553 44553 3333 3444444444 689
Q ss_pred EEeeccCCCCCC
Q 034043 93 AMLHQTGGALGS 104 (105)
Q Consensus 93 v~~~q~GG~~~~ 104 (105)
+..+..||-+|-
T Consensus 81 l~~rl~GGKGGF 92 (162)
T PF13019_consen 81 LSLRLRGGKGGF 92 (162)
T ss_pred EEEeccCCCccH
Confidence 999999998864
No 54
>PRK06437 hypothetical protein; Provisional
Probab=96.32 E-value=0.045 Score=33.37 Aligned_cols=57 Identities=9% Similarity=0.250 Sum_probs=46.3
Q ss_pred CEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 35 NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 35 ~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
++..+.+....++..|.+. ++++.+.+....||+.+. .+.-+.+||.|+++.=-.||
T Consensus 11 ~~~~~~i~~~~tv~dLL~~----Lgi~~~~vaV~vNg~iv~-----~~~~L~dgD~Veiv~~V~GG 67 (67)
T PRK06437 11 INKTIEIDHELTVNDIIKD----LGLDEEEYVVIVNGSPVL-----EDHNVKKEDDVLILEVFSGG 67 (67)
T ss_pred cceEEEcCCCCcHHHHHHH----cCCCCccEEEEECCEECC-----CceEcCCCCEEEEEecccCC
Confidence 4467778888888888755 488888999999999996 66678999999998776665
No 55
>COG5417 Uncharacterized small protein [Function unknown]
Probab=96.31 E-value=0.051 Score=34.49 Aligned_cols=70 Identities=16% Similarity=0.351 Sum_probs=59.0
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc-----ccEEEEECCeecCCCCCccccCCCCCCEEEE
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-----NSIAFLFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~-----~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
++++-+...++...-+++.-.-|+++|++-..+...++. .+++..=.++.+.+++-..+.++.|||+++.
T Consensus 6 kVTvD~t~y~g~~yDLrl~d~~pikklIdivwe~~kis~~~reg~~Ikv~nKa~llsgd~kL~d~~IadGD~Lei 80 (81)
T COG5417 6 KVTVDFTNYNGGTYDLRLPDYLPIKKLIDIVWESLKISIFDREGTQIKVMNKAQLLSGDDKLIDYQIADGDILEI 80 (81)
T ss_pred EEEEEeEecCCceEEEeccccchHHHHHHHHHHHhhccccccCCCEEEEeccceEecCCceEEeccccCCCEEEe
Confidence 456666777888888999999999999999888877642 4678888899999999999999999998874
No 56
>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=96.28 E-value=0.033 Score=34.10 Aligned_cols=60 Identities=22% Similarity=0.366 Sum_probs=48.1
Q ss_pred EEEEEEecCcHHHHHHHHHHHHhCC----CcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 36 EVFFRIKRSTQLKKLMNAYCDRQSV----ELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 36 ~~~~~ik~tt~l~kL~~~y~~~~g~----~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
...+.+....++..|.+...++++- ....+.+..||+.+. .+.-++|||+|.++.--.||
T Consensus 17 ~~~~~~~~~~tv~~ll~~l~~~~~~~~~~~~~~~~v~vNg~~v~-----~~~~l~~gD~v~i~ppv~GG 80 (80)
T cd00754 17 EEELELPEGATVGELLDALEARYPGLLEELLARVRIAVNGEYVR-----LDTPLKDGDEVAIIPPVSGG 80 (80)
T ss_pred eEEEECCCCCcHHHHHHHHHHHCchHHHhhhhcEEEEECCeEcC-----CCcccCCCCEEEEeCCCCCC
Confidence 3566666678999999999988753 456788899999987 34569999999999888876
No 57
>smart00166 UBX Domain present in ubiquitin-regulatory proteins. Present in FAF1 and Shp1p.
Probab=96.27 E-value=0.051 Score=33.85 Aligned_cols=71 Identities=14% Similarity=0.151 Sum_probs=53.8
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE--CCeecCC---CCCccccCCCCCCEEEE
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DGRRLRG---EQTPDELEMEDGDEIDA 93 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f--dG~~L~~---~~Tp~dl~medgD~Idv 93 (105)
...+|.|+-.+|..+..+...+++++.|++......+.....+.|.- --+.+.. +.|..++++-...++-|
T Consensus 3 ~~~~I~iRlPdG~ri~~~F~~~~tl~~v~~~v~~~~~~~~~~f~L~t~~Prk~l~~~d~~~tL~e~gL~p~~~l~v 78 (80)
T smart00166 3 DQCRLQIRLPDGSRLVRRFPSSDTLRTVYEFVSAALTDGNDPFTLNSPFPRRTFTKDDYSKTLLELALLPSSTLVL 78 (80)
T ss_pred CeEEEEEEcCCCCEEEEEeCCCCcHHHHHHHHHHcccCCCCCEEEEeCCCCcCCccccccCCHHHCCCCCceEEEE
Confidence 35678888899999999999999999999998666665555566643 3444543 46899999888877765
No 58
>PRK07440 hypothetical protein; Provisional
Probab=96.15 E-value=0.062 Score=33.07 Aligned_cols=69 Identities=22% Similarity=0.368 Sum_probs=50.3
Q ss_pred CCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 22 ~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+++|+|+| +|+. +.+....++..|.+ .++++.+.+....||+-|..++ =++.-+.+||.|+++.=-.||
T Consensus 2 ~~~m~i~v---NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~~N~~iv~r~~-w~~~~L~~gD~IEIv~~v~GG 70 (70)
T PRK07440 2 SNPITLQV---NGET--RTCSSGTSLPDLLQ----QLGFNPRLVAVEYNGEILHRQF-WEQTQVQPGDRLEIVTIVGGG 70 (70)
T ss_pred CCceEEEE---CCEE--EEcCCCCCHHHHHH----HcCCCCCeEEEEECCEEeCHHH-cCceecCCCCEEEEEEEecCC
Confidence 34678877 4554 44566677877764 6688889999999998886433 344559999999998776665
No 59
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=96.12 E-value=0.048 Score=32.67 Aligned_cols=60 Identities=23% Similarity=0.379 Sum_probs=42.9
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+|+++.+ ...++..|.+.+ +++.+.+..-.|++-+..+ .-.+.-|.|||.|+++.=-.||
T Consensus 6 Ng~~~~~---~~~tl~~Ll~~l----~~~~~~vavavN~~iv~~~-~~~~~~L~dgD~Ieiv~~V~GG 65 (65)
T PRK06488 6 NGETLQT---EATTLALLLAEL----DYEGNWLATAVNGELVHKE-ARAQFVLHEGDRIEILSPMQGG 65 (65)
T ss_pred CCeEEEc---CcCcHHHHHHHc----CCCCCeEEEEECCEEcCHH-HcCccccCCCCEEEEEEeccCC
Confidence 5666555 345777777654 6777778899999888742 2334569999999999876665
No 60
>KOG0006 consensus E3 ubiquitin-protein ligase (Parkin protein) [Posttranslational modification, protein turnover, chaperones]
Probab=95.96 E-value=0.024 Score=44.99 Aligned_cols=58 Identities=16% Similarity=0.319 Sum_probs=49.4
Q ss_pred EEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEE
Q 034043 36 EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 36 ~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
-+.+.|+.++.+..|.+..+++.|+++++++.+|-|+.|+.+.|.+.-+|.-.-.+.+
T Consensus 15 ~l~v~v~~~t~I~~lke~Vak~~gvp~D~L~viFaGKeLs~~ttv~~cDL~qqs~~hi 72 (446)
T KOG0006|consen 15 GLPVEVDSDTSIFQLKEVVAKRQGVPADQLRVIFAGKELSNDTTVQNCDLSQQSATHI 72 (446)
T ss_pred ceeEEEecCCCHHHHHHHHHHhhCCChhheEEEEeccccccCceeecccccccchhhh
Confidence 3578899999999999999999999999999999999999999999555544444433
No 61
>KOG3493 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=95.85 E-value=0.0045 Score=38.35 Aligned_cols=71 Identities=13% Similarity=0.176 Sum_probs=61.1
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEe
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
|.+.+.+.-|+.++++..+++++..++...+.+.|-.++.+++.=-+..+.+.-|.++++|.||--++++.
T Consensus 2 iev~~nDrLGKKVRvKCn~dDtiGD~KKliaaQtGT~~~kivl~k~~~i~kd~I~L~dyeihdg~~lelyy 72 (73)
T KOG3493|consen 2 IEVVLNDRLGKKVRVKCNTDDTIGDLKKLIAAQTGTRPEKIVLKKWYTIFKDHITLSDYEIHDGMNLELYY 72 (73)
T ss_pred ceehhhhhcCceEEEEeCCcccccCHHHHHHHhhCCChhHhHHHhhhhhhhcccceeeEEeccCccEEEee
Confidence 45666677789999999999999999999999999988888877556667889999999999998888764
No 62
>cd01770 p47_UBX p47-like ubiquitin domain. p47_UBX p47 is an adaptor molecule of the cytosolic AAA ATPase p97. The principal role of the p97-p47 complex is to regulate membrane fusion events. Mono-ubiquitin recognition by p47 is crucial for p97-p47-mediated Golgi membrane fusion events. p47 has carboxy-terminal SEP and UBX domains. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.60 E-value=0.19 Score=31.55 Aligned_cols=68 Identities=10% Similarity=0.228 Sum_probs=50.8
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCC-CcccEEEE--ECCeecC-CCCCccccCCCCCCEE
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV-ELNSIAFL--FDGRRLR-GEQTPDELEMEDGDEI 91 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~-~~~~~~F~--fdG~~L~-~~~Tp~dl~medgD~I 91 (105)
..+|.|+-.||+.+..++..+++++.|++......+- ....+.+. |=.+.|. .+.|.++++|.+.-++
T Consensus 4 ~t~iqiRlpdG~r~~~rF~~~~tv~~l~~~v~~~~~~~~~~~f~L~t~fP~k~l~~~~~Tl~eagL~~s~v~ 75 (79)
T cd01770 4 TTSIQIRLADGKRLVQKFNSSHRVSDVRDFIVNARPEFAARPFTLMTAFPVKELSDESLTLKEANLLNAVIV 75 (79)
T ss_pred eeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHHhCCCCCCCCEEEecCCCCcccCCCCCcHHHCCCcCcEEE
Confidence 4577778889999999999999999999888776543 23455554 5566564 4889999999875544
No 63
>PRK05659 sulfur carrier protein ThiS; Validated
Probab=95.59 E-value=0.12 Score=30.81 Aligned_cols=61 Identities=16% Similarity=0.331 Sum_probs=44.3
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+|+. +.+....++..|.. ..+++...+....||+-+...+ -.+.-++|||.|+++.=--||
T Consensus 6 NG~~--~~~~~~~tl~~lL~----~l~~~~~~vav~vNg~iv~r~~-~~~~~l~~gD~vei~~~vgGG 66 (66)
T PRK05659 6 NGEP--RELPDGESVAALLA----REGLAGRRVAVEVNGEIVPRSQ-HASTALREGDVVEIVHALGGG 66 (66)
T ss_pred CCeE--EEcCCCCCHHHHHH----hcCCCCCeEEEEECCeEeCHHH-cCcccCCCCCEEEEEEEecCC
Confidence 5554 35566677777765 4688888888999998777554 344459999999998766665
No 64
>cd01767 UBX UBX (ubiquitin regulatory X) domain. The UBX (ubiquitin regulatory X) domain has a beta-grasp fold that is structurally quite similar to ubiquitin although UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins. Most UBX-containing proteins including p47, FAF1, and SAKS1 (Y33K) also contain a UBA (ubiquitin-associated) domain and are thought to serve as adaptor molecules that shuttle proteins to the proteasome for degradation.
Probab=95.49 E-value=0.25 Score=30.42 Aligned_cols=67 Identities=13% Similarity=0.148 Sum_probs=49.0
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE--CCeecC---CCCCccccCCCCCCEE
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DGRRLR---GEQTPDELEMEDGDEI 91 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f--dG~~L~---~~~Tp~dl~medgD~I 91 (105)
..+|.|+-.+|..+..+...+++++.|++........ ...+.|+- --+.+. .+.|.++++|.+.-++
T Consensus 2 ~t~i~iRlpdG~~~~~~F~~~~tl~~l~~fv~~~~~~-~~~f~L~t~~Pr~~~~~~~~~~TL~e~gL~~s~~~ 73 (77)
T cd01767 2 TTKIQIRLPDGKRLEQRFNSTHKLSDVRDFVESNGPP-AEPFTLMTSFPRRVLTDLDYELTLQEAGLVNEVVF 73 (77)
T ss_pred cEEEEEEcCCCCEEEEEeCCCCCHHHHHHHHHHcCCC-CCCEEEEeCCCCccCCCCCccCcHHHcCCccceEE
Confidence 4578888899999988999999999999887655432 44555553 344553 5889999999954433
No 65
>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=95.45 E-value=0.17 Score=32.19 Aligned_cols=69 Identities=12% Similarity=0.190 Sum_probs=54.3
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC---Ce--ecCCCCCccccCCCCCCEEEEE
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD---GR--RLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd---G~--~L~~~~Tp~dl~medgD~Idv~ 94 (105)
|+|.|+--......++|+|.+|+.+|+.+..+..+.+- ..|+.|. |+ .|+...|.+++++=..-.|.+.
T Consensus 1 iqVtV~q~g~~dl~l~vnPy~pI~k~K~kI~~~~~~~g-~qrLsfQepgg~rqlL~s~~sLA~yGiFs~~~i~ll 74 (80)
T cd01811 1 IQVTVEQTGYSDWILRVNPYSPIRKIKEKIRRSRNCSG-LQRLSFQEPGGERQLLSSRKSLADYGIFSKTNICLL 74 (80)
T ss_pred CEEEeeecCCCceEEEeCCcchHHHHHHHHHHhhCccc-ceEEEeecCCcccccccccccHhhhcceeccEEEEE
Confidence 45666654456789999999999999999999999875 7788883 43 5678999999998776666554
No 66
>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=95.38 E-value=0.045 Score=41.20 Aligned_cols=79 Identities=19% Similarity=0.266 Sum_probs=50.5
Q ss_pred CCCCCcEEEEEEe--cCCCEE----EEEEecCcHHHHHHHHHHHHhCCCcccEEEEECC------eecCCCCCccccCCC
Q 034043 19 VDQSAHINLKVKG--QDGNEV----FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG------RRLRGEQTPDELEME 86 (105)
Q Consensus 19 ~~~~~~I~I~v~~--~~g~~~----~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG------~~L~~~~Tp~dl~me 86 (105)
......|-|.++. .....+ ++.|.++++++.|....+++.|++.++=-.+|.- +.|.++.|....++.
T Consensus 63 ~~~~~~iLlFlK~fDp~~q~L~~iGh~~v~~~~~v~~l~~~i~~~~g~p~~t~l~lyEEi~~~~ie~i~~~~t~~~~el~ 142 (249)
T PF12436_consen 63 YDPSDDILLFLKYFDPETQTLRYIGHVYVPKNDKVSELVPLINERAGLPPDTPLLLYEEIKPNMIEPIDPNQTFEKAELQ 142 (249)
T ss_dssp --TTTEEEEEEEEEETTTTEEEEEEEEEEETT-BGGGTHHHHHHHHT--TT--EEEEEEEETTEEEE--SSSBHHHTT--
T ss_pred CCCCCcEEEEEEeeCCCCCEEEEEeEEEECCCCCHHHHHHHHHHHcCCCCCCceEEEEEeccceeeEcCCCCchhhcccC
Confidence 3344566666664 445554 6889999999999999999999987654444443 467899999999999
Q ss_pred CCCEEEEEeec
Q 034043 87 DGDEIDAMLHQ 97 (105)
Q Consensus 87 dgD~Idv~~~q 97 (105)
|||+|-+-...
T Consensus 143 ~GdIi~fQ~~~ 153 (249)
T PF12436_consen 143 DGDIICFQRAP 153 (249)
T ss_dssp TTEEEEEEE--
T ss_pred CCCEEEEEecc
Confidence 99988766543
No 67
>PRK06944 sulfur carrier protein ThiS; Provisional
Probab=95.37 E-value=0.21 Score=29.61 Aligned_cols=60 Identities=17% Similarity=0.329 Sum_probs=41.2
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+|+. +.+....++..|.+.+ ++. ..+.+..||+.+...+ -.+.-|.+||.|+++.=-.||
T Consensus 6 Ng~~--~~~~~~~tl~~ll~~l----~~~-~~~~v~vN~~~v~~~~-~~~~~L~~gD~vei~~~v~GG 65 (65)
T PRK06944 6 NQQT--LSLPDGATVADALAAY----GAR-PPFAVAVNGDFVARTQ-HAARALAAGDRLDLVQPVAGG 65 (65)
T ss_pred CCEE--EECCCCCcHHHHHHhh----CCC-CCeEEEECCEEcCchh-cccccCCCCCEEEEEeeccCC
Confidence 4554 3455667888888765 333 4578899998876432 233349999999999876665
No 68
>cd01771 Faf1_UBX Faf1 UBX domain. Faf1 (fas-associated factor1) is a nucleolar protein that was first identified as an interaction partner of the death receptor Fas. Faf1 contains N-terminal UAS (ubiquitin-associated) and C-terminal UBX (ubiquitin-like) domains and is closely related to other UBA/UBX-containing proteins like p47, Rep8 and SAKS1. Faf1 is thought to be involved in 18S rRNA synthesis and/or 40S ribosomal subunit assembly. The UBX domain has a beta-grasp fold similar to that of ubiquitin however, UBX lacks the c-terminal double glycine motif and is thus unlikely to be conjugated to other proteins.
Probab=95.19 E-value=0.29 Score=30.84 Aligned_cols=70 Identities=20% Similarity=0.201 Sum_probs=52.8
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC--Ceec---CCCCCccccCCCCCCEEEE
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GRRL---RGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd--G~~L---~~~~Tp~dl~medgD~Idv 93 (105)
+.++|.|+-++|..+..+...+++|+.|++.... .+-+...+++.-. =+.+ ..+.|.++++|-...+|-|
T Consensus 3 ~~~~i~iRlP~G~r~~rrF~~t~~L~~l~~fv~~-~~~~~~~f~L~t~fPRk~~~~~d~~~TL~e~gL~p~~~L~V 77 (80)
T cd01771 3 PISKLRVRTPSGDFLERRFLGDTPLQVLLNFVAS-KGYPIDEYKLLSSWPRRDLTQLDPNFTLLELKLYPQETLIL 77 (80)
T ss_pred CeEEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCCCCcCCCCCCcHHHcCCCCCcEEEE
Confidence 4678888899999999999999999999988765 3655556666422 2222 3467999999998888766
No 69
>smart00455 RBD Raf-like Ras-binding domain.
Probab=95.16 E-value=0.14 Score=31.62 Aligned_cols=45 Identities=9% Similarity=0.220 Sum_probs=39.7
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECC
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG 71 (105)
.+|.-+||....+.+++..++..+...-|+++|+.+..+.+.+-|
T Consensus 2 ~~v~LP~~~~~~V~vrpg~tl~e~L~~~~~kr~l~~~~~~v~~~g 46 (70)
T smart00455 2 CKVHLPDNQRTVVKVRPGKTVRDALAKALKKRGLNPECCVVRLRG 46 (70)
T ss_pred eEEECCCCCEEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEcC
Confidence 456668999999999999999999999999999999888777754
No 70
>PRK05863 sulfur carrier protein ThiS; Provisional
Probab=95.11 E-value=0.14 Score=30.77 Aligned_cols=60 Identities=18% Similarity=0.286 Sum_probs=43.6
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+|.+.. +....++..|.+. .+++.+.+...+++.-|...+=. +. |.|||.|+++.=--||
T Consensus 6 NG~~~~--~~~~~tl~~ll~~----l~~~~~~vav~~N~~iv~r~~~~-~~-L~~gD~ieIv~~VgGG 65 (65)
T PRK05863 6 NEEQVE--VDEQTTVAALLDS----LGFPEKGIAVAVDWSVLPRSDWA-TK-LRDGARLEVVTAVQGG 65 (65)
T ss_pred CCEEEE--cCCCCcHHHHHHH----cCCCCCcEEEEECCcCcChhHhh-hh-cCCCCEEEEEeeccCC
Confidence 555444 4566777777664 68889999999999977654433 33 8999999998766665
No 71
>PRK06083 sulfur carrier protein ThiS; Provisional
Probab=95.09 E-value=0.19 Score=32.18 Aligned_cols=67 Identities=15% Similarity=0.290 Sum_probs=49.1
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
.|+|.| +|+.. .+....++..|.+. ++++...+-+-.||+-|.. +.-++.-|.+||.|+++.=--||
T Consensus 18 ~m~I~V---NG~~~--~~~~~~tl~~LL~~----l~~~~~~vAVevNg~iVpr-~~w~~t~L~egD~IEIv~~VgGG 84 (84)
T PRK06083 18 LITISI---NDQSI--QVDISSSLAQIIAQ----LSLPELGCVFAINNQVVPR-SEWQSTVLSSGDAISLFQAIAGG 84 (84)
T ss_pred eEEEEE---CCeEE--EcCCCCcHHHHHHH----cCCCCceEEEEECCEEeCH-HHcCcccCCCCCEEEEEEEecCC
Confidence 555655 56644 45666778877775 4788888999999988854 44556669999999998766665
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=95.03 E-value=0.23 Score=31.13 Aligned_cols=61 Identities=21% Similarity=0.361 Sum_probs=46.6
Q ss_pred EEEEEEecCcHHHHHHHHHHHHhCC------C-----cccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 36 EVFFRIKRSTQLKKLMNAYCDRQSV------E-----LNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 36 ~~~~~ik~tt~l~kL~~~y~~~~g~------~-----~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+..+.+. ..+++.|++..+++++- . ...+.+..||+.+..++. .-++|||+|.++.--.||
T Consensus 17 ~~~v~~~-~~tv~~l~~~l~~~~p~~~~~~l~~~~~~~~~~~v~vN~~~v~~~~~---~~l~dgdev~i~PpvsGG 88 (88)
T TIGR01687 17 SEEIEIE-GKTVGDLLNELMARYPKEFSELFKEGLGLVPNVIILVNGRNVDWGLG---TELKDGDVVAIFPPVSGG 88 (88)
T ss_pred eEEEEeC-CCCHHHHHHHHHHHCcHHHHHhCccCCcccccEEEEECCEecCccCC---CCCCCCCEEEEeCCCcCC
Confidence 4456665 78999999999888752 1 135889999999976532 569999999999887776
No 73
>PRK08053 sulfur carrier protein ThiS; Provisional
Probab=94.76 E-value=0.35 Score=29.07 Aligned_cols=61 Identities=13% Similarity=0.175 Sum_probs=43.5
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+|+++. +....++..|.+. .+.....+.+-.|++-|.. +.-.+.-+.+||.|+++.=-.||
T Consensus 6 Ng~~~~--~~~~~tl~~ll~~----l~~~~~~vaVavN~~iv~r-~~w~~~~L~~gD~Ieii~~v~GG 66 (66)
T PRK08053 6 NDQPMQ--CAAGQTVHELLEQ----LNQLQPGAALAINQQIIPR-EQWAQHIVQDGDQILLFQVIAGG 66 (66)
T ss_pred CCeEEE--cCCCCCHHHHHHH----cCCCCCcEEEEECCEEeCh-HHcCccccCCCCEEEEEEEccCC
Confidence 555544 4556678877754 5666778999999988853 33344469999999998776665
No 74
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=94.56 E-value=0.15 Score=32.90 Aligned_cols=44 Identities=23% Similarity=0.308 Sum_probs=38.9
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc---ccEEEEE
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL---NSIAFLF 69 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~---~~~~F~f 69 (105)
..|++++.|+.++|++.++..+..|+...+++++++. +.+.+.|
T Consensus 2 ~FK~~~~~GrvhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~Y 48 (86)
T cd06409 2 AFKFKDPKGRVHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSY 48 (86)
T ss_pred cEEeeCCCCCEEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEE
Confidence 3678888999999999999999999999999999986 5677777
No 75
>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=94.46 E-value=0.76 Score=29.36 Aligned_cols=72 Identities=14% Similarity=0.158 Sum_probs=54.3
Q ss_pred CCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC--Cee---cCCCCCccccCCCCCCEEEEE
Q 034043 22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GRR---LRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 22 ~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd--G~~---L~~~~Tp~dl~medgD~Idv~ 94 (105)
.+.-+|.|+-++|+.+.-+...+++|+.|+..... .+.+...+.++-+ =+. ...+.|.++++|..-+++-|-
T Consensus 3 ~~~t~i~vRlP~G~r~~rrF~~~~~L~~v~~fv~~-~g~~~~~f~L~t~FPRr~~~~~d~~~TL~e~GL~P~~~LfVq 79 (82)
T cd01773 3 GPKARLMLRYPDGKREQIALPEQAKLLALVRHVQS-KGYPNERFELLTNFPRRKLSHLDYDITLQEAGLCPQETVFVQ 79 (82)
T ss_pred CCeeEEEEECCCCCEEEEEeCCCCcHHHHHHHHHh-cCCCCCCEEEecCCCCcccCCcccCCCHHHcCCCCCcEEEEe
Confidence 34557888889999998899999999999986555 6767677776643 122 233579999999999988764
No 76
>cd06406 PB1_P67 A PB1 domain is present in p67 proteins which forms a signaling complex with p40, a crucial step for activation of NADPH oxidase during phagocytosis. PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes . A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants. The p67 proteins contain
Probab=94.43 E-value=0.11 Score=33.20 Aligned_cols=45 Identities=13% Similarity=0.217 Sum_probs=38.7
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG 71 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG 71 (105)
..|||..+. .+.++|.+..++..|.++.+++..++.+.+++.|.-
T Consensus 3 ~vvKV~f~~--tIaIrvp~~~~y~~L~~ki~~kLkl~~e~i~LsYkd 47 (80)
T cd06406 3 YVVKVHFKY--TVAIQVARGLSYATLLQKISSKLELPAEHITLSYKS 47 (80)
T ss_pred eEEEEEEEE--EEEEEcCCCCCHHHHHHHHHHHhCCCchhcEEEecc
Confidence 456776654 789999999999999999999999998899998854
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=94.10 E-value=0.29 Score=30.03 Aligned_cols=45 Identities=13% Similarity=0.320 Sum_probs=37.3
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD 70 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd 70 (105)
++||+.. .+....+.+.+..++..|..+.++++++....+++.|.
T Consensus 2 ~~vK~~~-~~~~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~ 46 (81)
T smart00666 2 VDVKLRY-GGETRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQ 46 (81)
T ss_pred ccEEEEE-CCEEEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEE
Confidence 5677765 45566899999999999999999999998778888884
No 78
>cd01760 RBD Ubiquitin-like domain of RBD-like S/T kinases. The ras-binding domain (RBD) of the serine/threonine kinase raf is structurally quite similar to the beta-grasp fold of ubiquitin. A raf-like RBD is also present in RGS12 and other members of a family of GTPase activating proteins and TIAM1, a guanine nucleotide exchange protein.
Probab=94.08 E-value=0.5 Score=29.41 Aligned_cols=67 Identities=9% Similarity=0.210 Sum_probs=46.9
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC--Ce-ecCCCCCccccCCCCCCEEEEEe
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD--GR-RLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd--G~-~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
++|.-+||....+.+++..++..+...-|+++|+.+....+.+- ++ ..-..+|. ...-.++.|+|..
T Consensus 2 ~~V~LPng~~t~V~vrpg~ti~d~L~~~c~kr~l~~~~~~v~~~~~~~~~~~~~~~d--~~~L~~~El~Ve~ 71 (72)
T cd01760 2 CRVYLPNGQRTVVPVRPGMSVRDVLAKACKKRGLNPECCDVFLLGLDEKKPLDLDTD--SSSLAGEELEVEP 71 (72)
T ss_pred EEEECcCCCeEEEEECCCCCHHHHHHHHHHHcCCCHHHEEEEEecCCCcCCcCchhh--hhhhcCCEEEEEe
Confidence 45667899988999999999999999999999999877654443 32 22222222 2333566676653
No 79
>PLN02799 Molybdopterin synthase sulfur carrier subunit
Probab=94.00 E-value=0.3 Score=30.30 Aligned_cols=61 Identities=11% Similarity=0.287 Sum_probs=44.8
Q ss_pred CEEEEEEecCcHHHHHHHHHHHHhC-CC--cccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 35 NEVFFRIKRSTQLKKLMNAYCDRQS-VE--LNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 35 ~~~~~~ik~tt~l~kL~~~y~~~~g-~~--~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+...+.+...+++..|.+....++. +. ...+.+..||+.+. .+.-++|||+|.++.--.||
T Consensus 19 ~~~~~~~~~~~tv~~L~~~l~~~~p~l~~~~~~~~vavN~~~v~-----~~~~l~dgDeVai~PpvsGG 82 (82)
T PLN02799 19 SDMTLELPAGSTTADCLAELVAKFPSLEEVRSCCVLALNEEYTT-----ESAALKDGDELAIIPPISGG 82 (82)
T ss_pred CeEEEECCCCCcHHHHHHHHHHHChhHHHHhhCcEEEECCEEcC-----CCcCcCCCCEEEEeCCCCCC
Confidence 3456777778899999998887762 21 13466888998863 44568999999999877765
No 80
>KOG3439 consensus Protein conjugation factor involved in autophagy [Posttranslational modification, protein turnover, chaperones]
Probab=93.93 E-value=0.41 Score=32.47 Aligned_cols=64 Identities=11% Similarity=0.208 Sum_probs=49.7
Q ss_pred CCcEEEEEEecCCCEE----EEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeec--CCCCCccccCC
Q 034043 22 SAHINLKVKGQDGNEV----FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL--RGEQTPDELEM 85 (105)
Q Consensus 22 ~~~I~I~v~~~~g~~~----~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L--~~~~Tp~dl~m 85 (105)
..+|.|+++.-...++ .++|.++.++.++.....+..+++.+.-.|+|=.... .|+++..+|-+
T Consensus 28 ~~kV~i~l~aiG~~PilK~~k~~i~~t~tfa~vi~Flkk~Lkl~as~slflYVN~sFAPsPDq~v~~Ly~ 97 (116)
T KOG3439|consen 28 IRKVQIRLRAIGDAPILKKSKFKINPTQTFAKVILFLKKFLKLQASDSLFLYVNNSFAPSPDQIVGNLYE 97 (116)
T ss_pred cceEEEEEeccCCCcceecceEEeCcchhhHHHHHHHHHHhCCcccCeEEEEEcCccCCCchhHHHHHHH
Confidence 4789999886544333 7999999999999999999999998877777744433 56777777765
No 81
>TIGR01682 moaD molybdopterin converting factor, subunit 1, non-archaeal. The C-terminal Gly-Gly of this model is critical to function.
Probab=93.89 E-value=0.68 Score=28.56 Aligned_cols=59 Identities=12% Similarity=0.254 Sum_probs=46.1
Q ss_pred EEEEEecC-cHHHHHHHHHHHHhC-C--CcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 37 VFFRIKRS-TQLKKLMNAYCDRQS-V--ELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 37 ~~~~ik~t-t~l~kL~~~y~~~~g-~--~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
..+.+... +++..|.+..+++++ + ....+.+..|++.+.. +.-++|||+|.++.--.||
T Consensus 18 ~~~~~~~~~~tv~~L~~~L~~~~p~l~~~~~~~~v~vn~~~v~~-----~~~l~dgDevai~PpvsGG 80 (80)
T TIGR01682 18 ETLELPDESTTVGELKEHLAKEGPELAASRGQVMVAVNEEYVTD-----DALLNEGDEVAFIPPVSGG 80 (80)
T ss_pred EEEECCCCCcCHHHHHHHHHHhCchhhhhccceEEEECCEEcCC-----CcCcCCCCEEEEeCCCCCC
Confidence 45667666 899999999998875 2 2256788889998873 5689999999999877776
No 82
>cd01788 ElonginB Ubiquitin-like domain of Elongin B. Elongin B is part of an E3 ubiquitin ligase complex called VEC that activates ubiquitylation by the E2 ubiquitin-conjugating enzyme Ubc5. VEC is composed of von Hippel-Lindau tumor suppressor protein (pVHL), elongin C, cullin 2, NEDD8, and Rbx1. ElonginB binds elonginC to form the elonginBC complex which is a positive regulator of RNA polymerase II elongation factor Elongin A. The BC complex then binds VHL (von Hippel-Lindau) tumour suppressor protein to form a VCB ternary complex. Elongin B has a ubiquitin-llike domain.
Probab=93.81 E-value=0.67 Score=31.64 Aligned_cols=72 Identities=13% Similarity=0.116 Sum_probs=58.3
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCC-------CCCCEEEEEeec
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEM-------EDGDEIDAMLHQ 97 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~m-------edgD~Idv~~~q 97 (105)
+.|.|+- ....++...+++++...|++....-...+++..+++-+++.|.++.|..|.++ +.-.++=+..+.
T Consensus 3 vFlmIrR-~KTTiF~dakes~tVlelK~~iegI~k~pp~dQrL~kd~qvLeD~kTL~d~g~t~~~akaq~pA~vgLa~r~ 81 (119)
T cd01788 3 VFLMIRR-HKTTIFTDAKESTTVYELKRIVEGILKRPPEDQRLYKDDQLLDDGKTLGDCGFTSQTARPQAPATVGLAFRS 81 (119)
T ss_pred eEEEEEe-cceEEEeecCCcccHHHHHHHHHHHhcCChhHheeecCceeecccccHHHcCccccccccCCCCeEEEEEec
Confidence 3445543 34467899999999999999999999999999999988899999999999999 556666555543
No 83
>PRK07696 sulfur carrier protein ThiS; Provisional
Probab=93.78 E-value=0.69 Score=28.01 Aligned_cols=61 Identities=18% Similarity=0.378 Sum_probs=42.8
Q ss_pred CCCEEEEEEecC-cHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 33 DGNEVFFRIKRS-TQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 33 ~g~~~~~~ik~t-t~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+|+.. .+... .++..|.+ ..+++...+-...||+-|..++ -.+.-|.+||.|+++.=-.||
T Consensus 6 NG~~~--~~~~~~~tv~~lL~----~l~~~~~~vav~vN~~iv~r~~-w~~~~L~~gD~iEIv~~VgGG 67 (67)
T PRK07696 6 NGNQI--EVPESVKTVAELLT----HLELDNKIVVVERNKDILQKDD-HTDTSVFDGDQIEIVTFVGGG 67 (67)
T ss_pred CCEEE--EcCCCcccHHHHHH----HcCCCCCeEEEEECCEEeCHHH-cCceecCCCCEEEEEEEecCC
Confidence 55544 44444 45666554 5788888999999998886543 334459999999998766665
No 84
>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=93.65 E-value=0.47 Score=28.23 Aligned_cols=61 Identities=18% Similarity=0.397 Sum_probs=43.1
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
+|++ +.+....++..|.+. .+++++.+.+..||+.+..++ ..+..|.|||.|+++.=-.||
T Consensus 4 Ng~~--~~~~~~~tv~~ll~~----l~~~~~~v~v~vN~~iv~~~~-~~~~~L~~gD~veii~~V~GG 64 (64)
T TIGR01683 4 NGEP--VEVEDGLTLAALLES----LGLDPRRVAVAVNGEIVPRSE-WDDTILKEGDRIEIVTFVGGG 64 (64)
T ss_pred CCeE--EEcCCCCcHHHHHHH----cCCCCCeEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence 4444 345566677777664 467778899999998885433 334579999999998776665
No 85
>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=93.32 E-value=0.37 Score=28.71 Aligned_cols=58 Identities=17% Similarity=0.346 Sum_probs=41.5
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
.+.+....++..|.+.+ +++.+.+.+..||+.+..++ =.+.-|.+||.|+++.=-.||
T Consensus 8 ~~~~~~~~tv~~ll~~l----~~~~~~i~V~vNg~~v~~~~-~~~~~L~~gD~V~ii~~v~GG 65 (65)
T cd00565 8 PREVEEGATLAELLEEL----GLDPRGVAVALNGEIVPRSE-WASTPLQDGDRIEIVTAVGGG 65 (65)
T ss_pred EEEcCCCCCHHHHHHHc----CCCCCcEEEEECCEEcCHHH-cCceecCCCCEEEEEEeccCC
Confidence 34455667777777554 57778899999998886643 122359999999998776665
No 86
>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=93.09 E-value=0.29 Score=29.47 Aligned_cols=63 Identities=19% Similarity=0.359 Sum_probs=51.3
Q ss_pred EEEEEEecCcHHHHHHHHHHHHhCC--CcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 36 EVFFRIKRSTQLKKLMNAYCDRQSV--ELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 36 ~~~~~ik~tt~l~kL~~~y~~~~g~--~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
.....+....+++.|.+..+.++.- ....+.+..||+.+.. + -.+.-+.+||+|.++.--.||
T Consensus 13 ~~~~~~~~~~tv~~ll~~l~~~~p~~~~~~~~~v~vN~~~v~~-~-~~~~~l~~gD~V~i~ppvsGG 77 (77)
T PF02597_consen 13 EEEIEVPEGSTVRDLLEALAERYPELALRDRVAVAVNGEIVPD-D-GLDTPLKDGDEVAILPPVSGG 77 (77)
T ss_dssp EEEEEESSTSBHHHHHHHHCHHTGGGHTTTTEEEEETTEEEGG-G-TTTSBEETTEEEEEEESTSTS
T ss_pred CeEEecCCCCcHHHHHHHHHhhccccccCccEEEEECCEEcCC-c-cCCcCcCCCCEEEEECCCCCC
Confidence 4567788889999999999888752 2368999999999988 3 667778999999998877776
No 87
>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=92.73 E-value=1.5 Score=27.25 Aligned_cols=69 Identities=12% Similarity=0.091 Sum_probs=51.2
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE--CCeecCC---CCCccccCCCCCCEEEE
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DGRRLRG---EQTPDELEMEDGDEIDA 93 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f--dG~~L~~---~~Tp~dl~medgD~Idv 93 (105)
..+|.|+-.+|..+..+...+++++.|++......+-. ..+.|.- =-+.+.. +.|..+++|-...++-|
T Consensus 4 ~~~i~iRlp~G~~~~~~F~~~~tl~~v~~fV~~~~~~~-~~f~L~t~fPrk~~~~~d~~~TL~elgL~Psa~L~v 77 (79)
T cd01772 4 ETRIQIRLLDGTTLKQTFKAREQLAAVRLFVELNTGNG-GPFTLMTPFPRKVFTEDDMEKPLQELGLVPSAVLIV 77 (79)
T ss_pred EEEEEEECCCCCEEEEEeCCCChHHHHHHHHHHcCCCC-CCEEEEeCCCCeECCcccccCCHHHCCCCCceEEEE
Confidence 45778888999999889999999999999887655432 4455543 3444532 57999999998887765
No 88
>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=92.72 E-value=0.89 Score=27.82 Aligned_cols=46 Identities=7% Similarity=0.131 Sum_probs=37.1
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF 69 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f 69 (105)
++.||+...+.....+.+.+..++..|....+++++.....+++.|
T Consensus 1 t~~vK~~~~~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y 46 (84)
T PF00564_consen 1 TVRVKVRYGGDIRRIISLPSDVSFDDLRSKIREKFGLLDEDFQLKY 46 (84)
T ss_dssp SEEEEEEETTEEEEEEEECSTSHHHHHHHHHHHHHTTSTSSEEEEE
T ss_pred CEEEEEEECCeeEEEEEcCCCCCHHHHHHHHHHHhCCCCccEEEEe
Confidence 3677777654333348999999999999999999999878888888
No 89
>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=92.57 E-value=0.43 Score=31.28 Aligned_cols=54 Identities=13% Similarity=0.231 Sum_probs=40.9
Q ss_pred cEEEEEEecCCCEEEEEEe--cCcHHHHHHHHHHHHhC--CCcccEEEEECCeecCCCC
Q 034043 24 HINLKVKGQDGNEVFFRIK--RSTQLKKLMNAYCDRQS--VELNSIAFLFDGRRLRGEQ 78 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik--~tt~l~kL~~~y~~~~g--~~~~~~~F~fdG~~L~~~~ 78 (105)
.|+|++.+. -..+.+.|. .+++...|+....+..+ .....+||+|.|+.|.+..
T Consensus 2 ~l~IRFs~s-ipDl~L~I~~~~~~Tv~~LK~lIR~~~p~~~s~~rLRlI~~Gr~L~d~t 59 (97)
T PF10302_consen 2 YLTIRFSDS-IPDLPLDIPSPNTTTVAWLKQLIRERLPPEPSRRRLRLIYAGRLLNDHT 59 (97)
T ss_pred eEEEEECCC-CCCceeecCCCCcccHHHHHHHHHhhcCCCCccccEEeeecCcccCccc
Confidence 466666551 223577777 88999999999999983 5567899999999987543
No 90
>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=92.52 E-value=0.65 Score=29.49 Aligned_cols=44 Identities=14% Similarity=0.258 Sum_probs=36.2
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc-ccEEEEE
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-NSIAFLF 69 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~-~~~~F~f 69 (105)
|+||+.- ++..+.|++.++..+..|.+..++++++.. ..+.+.|
T Consensus 1 ~~vK~~~-~~d~~r~~l~~~~~~~~L~~~i~~r~~~~~~~~f~LkY 45 (82)
T cd06407 1 VRVKATY-GEEKIRFRLPPSWGFTELKQEIAKRFKLDDMSAFDLKY 45 (82)
T ss_pred CEEEEEe-CCeEEEEEcCCCCCHHHHHHHHHHHhCCCCCCeeEEEE
Confidence 3566654 456789999999999999999999999875 6788877
No 91
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=92.18 E-value=1 Score=29.05 Aligned_cols=45 Identities=13% Similarity=0.260 Sum_probs=38.0
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD 70 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd 70 (105)
+|+|||.. .+..+.+.|.++..|+.|.++..+++++. ..+++.|-
T Consensus 2 ~ikVKv~~-~~Dv~~i~v~~~i~f~dL~~kIrdkf~~~-~~~~iKyk 46 (86)
T cd06408 2 KIRVKVHA-QDDTRYIMIGPDTGFADFEDKIRDKFGFK-RRLKIKMK 46 (86)
T ss_pred cEEEEEEe-cCcEEEEEcCCCCCHHHHHHHHHHHhCCC-CceEEEEE
Confidence 68888875 46678899999999999999999999996 57777764
No 92
>PF04110 APG12: Ubiquitin-like autophagy protein Apg12 ; InterPro: IPR007242 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents Apg12, which is covalently bound to Apg5 [].; GO: 0000045 autophagic vacuole assembly, 0005737 cytoplasm; PDB: 1WZ3_B.
Probab=91.44 E-value=0.41 Score=30.98 Aligned_cols=60 Identities=13% Similarity=0.266 Sum_probs=38.1
Q ss_pred cEEEEEEecCCCE----EEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeec--CCCCCcccc
Q 034043 24 HINLKVKGQDGNE----VFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL--RGEQTPDEL 83 (105)
Q Consensus 24 ~I~I~v~~~~g~~----~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L--~~~~Tp~dl 83 (105)
+|+|+++.-...+ -.|+|..+.+|+.|.+..+++.++..+.-.|.|=.... .+++|..+|
T Consensus 1 KV~v~fk~iG~aPilk~~k~kI~~~~~f~~vi~fLrk~Lk~~~~~slFlYin~sFaPspDe~vg~L 66 (87)
T PF04110_consen 1 KVTVRFKAIGSAPILKQKKFKISASQTFATVIAFLRKKLKLKPSDSLFLYINNSFAPSPDETVGDL 66 (87)
T ss_dssp EEEEEEEEETT----S--EEEEETTSBTHHHHHHHHHHCT----SS-EEEEEEEE---TTSBHHHH
T ss_pred CEEEEEEecCCCccccCcEEEECCCCchHHHHHHHHHHhCCccCCeEEEEEcCccCCCchhHHHHH
Confidence 3666666544333 37999999999999999999999866555555533333 578887776
No 93
>PF03671 Ufm1: Ubiquitin fold modifier 1 protein; InterPro: IPR005375 Ubiquitinylation is an ATP-dependent process that involves the action of at least three enzymes: a ubiquitin-activating enzyme (E1, IPR000011 from INTERPRO), a ubiquitin-conjugating enzyme (E2, IPR000608 from INTERPRO), and a ubiquitin ligase (E3, IPR000569 from INTERPRO, IPR003613 from INTERPRO), which work sequentially in a cascade. There are many different E3 ligases, which are responsible for the type of ubiquitin chain formed, the specificity of the target protein, and the regulation of the ubiquitinylation process []. Ubiquitinylation is an important regulatory tool that controls the concentration of key signalling proteins, such as those involved in cell cycle control, as well as removing misfolded, damaged or mutant proteins that could be harmful to the cell. Several ubiquitin-like molecules have been discovered, such as Ufm1 (IPR005375 from INTERPRO), SUMO1 (IPR003653 from INTERPRO), NEDD8, Rad23 (IPR004806 from INTERPRO), Elongin B and Parkin (IPR003977 from INTERPRO), the latter being involved in Parkinson's disease []. Ubiquitin-like molecules (UBLs) can be divided into two subclasses: type-1 UBLs, which ligate to target proteins in a manner similar, but not identical, to the ubiquitylation pathway, such as SUMO, NEDD8, and UCRP/ISG15, and type-2 UBLs (also called UDPs, ubiquitin-domain proteins), which contain ubiquitin-like structure embedded in a variety of different classes of large proteins with apparently distinct functions, such as Rad23, Elongin B, Scythe, Parkin, and HOIL-1. This entry represents Ufm1 (ubiquitin-fold modifier), which is a ubiquitin-like protein with structural similarities to ubiquitin [, ]. Ufm1 is one of a number of ubiquitin-like modifiers that conjugate to target proteins in cells through Uba5 (E1) and Ufc1 (E2). The Ufm1-system is conserved in metazoa and plants, suggesting it has a potential role in multicellular organisms []. Human Ufm1 is synthesized as a precursor consisting of 85 amino-acid residues. Prior to activation by Uba5, the extra amino acids at the C-terminal region of Ufm1 are removed to expose Gly, which is necessary for conjugation to target molecule(s). C-terminal processing of Ufm1 requires two specific cysteine peptidases (IPR012462 from INTERPRO): UfSP1 and UfSP2; both peptidases are also able to release Ufm1 from Ufm1-conjugated cellular proteins. UfSP2 is present in most, if not all, of multi-cellular organisms including plant, nematode, fly, and mammal, whereas UfSP1 is not present in plants and nematodes []. For further information on ubiquitin, please see Protein of the Month [].; PDB: 1J0G_A 1WXS_A 1L7Y_A.
Probab=90.82 E-value=1.3 Score=27.94 Aligned_cols=57 Identities=12% Similarity=0.204 Sum_probs=44.4
Q ss_pred EEEEEecCcHHHHHHHHHHHHhCCCcccE-EEEECCeecCCCCCccccCCCCCCEEEE
Q 034043 37 VFFRIKRSTQLKKLMNAYCDRQSVELNSI-AFLFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 37 ~~~~ik~tt~l~kL~~~y~~~~g~~~~~~-~F~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
..++|-..+||..+.+.-|+++.++...- ...-||.-|.|.+|..+.-|+-|-++.+
T Consensus 18 kv~sVPE~apftaVlkfaAeeF~vp~~tsaiItndG~GInP~QTag~vflKhGseLrl 75 (76)
T PF03671_consen 18 KVISVPEEAPFTAVLKFAAEEFKVPPATSAIITNDGVGINPQQTAGNVFLKHGSELRL 75 (76)
T ss_dssp EEEEEETTSBHHHHHHHHHHHTTS-SSSEEEEESSS-EE-TTSBHHHHHHHT-SEEEE
T ss_pred eEEecCCCCchHHHHHHHHHHcCCCCceEEEEecCCcccccchhhhhhHhhcCcEeee
Confidence 36899999999999999999999987654 4555899999999999888877776654
No 94
>PF08825 E2_bind: E2 binding domain; InterPro: IPR014929 E1 and E2 enzymes play a central role in ubiquitin and ubiquitin-like protein transfer cascades. This is an E2 binding domain that is found on NEDD8 activating E1 enzyme. The protein resembles ubiquitin, and recruits the catalytic core of the E2 enzyme Ubc12 in a similar manner to that in which ubiquitin interacts with ubiquitin binding domains []. ; GO: 0005524 ATP binding, 0016881 acid-amino acid ligase activity, 0045116 protein neddylation; PDB: 3GZN_D 3DBL_F 1R4N_H 1R4M_D 2NVU_B 1TT5_D 3DBR_D 3DBH_H 1YOV_B 3FN1_A ....
Probab=90.76 E-value=0.21 Score=31.98 Aligned_cols=55 Identities=22% Similarity=0.431 Sum_probs=38.7
Q ss_pred EEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecC--------------CCCCccccCCCCCCEEEEE
Q 034043 39 FRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLR--------------GEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 39 ~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~--------------~~~Tp~dl~medgD~Idv~ 94 (105)
+.+.++++|+.+++..+++..+....=.+...+..|. -+.+..+| +.+|++|-|.
T Consensus 1 i~v~~~~TL~~lid~L~~~~~~qlk~PSlt~~~k~LYm~~pp~Lee~Tr~NL~k~l~eL-~~~g~ei~Vt 69 (84)
T PF08825_consen 1 IEVSPSWTLQDLIDSLCEKPEFQLKKPSLTTANKTLYMQSPPSLEEATRPNLSKKLKEL-LSDGEEITVT 69 (84)
T ss_dssp EEESTTSBSHHHHHHHHHSTTT--SS-EEESSEEEEEESSSHHHHHHTGGGGSSBTTTT-HHSSEEEEEE
T ss_pred CCcCccchHHHHHHHHHhChhhhcCCCcccCCCceEEEeCCHHHHHHhhhhhhhhHHHH-hcCCCEEEEE
Confidence 4688999999999999999544333333335555443 36778888 9999998874
No 95
>PRK11840 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional
Probab=90.65 E-value=1.5 Score=34.76 Aligned_cols=63 Identities=14% Similarity=0.268 Sum_probs=47.1
Q ss_pred CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCCCC
Q 034043 33 DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 33 ~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG~~ 102 (105)
||+. +.+....++..|.+ .++++.+.+.+.+||+.|..++ =.+.-++|||.|+++.=-.||+.
T Consensus 6 NGk~--~el~e~~TL~dLL~----~L~i~~~~VAVeVNgeIVpr~~-w~~t~LkeGD~IEII~~VgGGs~ 68 (326)
T PRK11840 6 NGEP--RQVPAGLTIAALLA----ELGLAPKKVAVERNLEIVPRSE-YGQVALEEGDELEIVHFVGGGSD 68 (326)
T ss_pred CCEE--EecCCCCcHHHHHH----HcCCCCCeEEEEECCEECCHHH-cCccccCCCCEEEEEEEecCCCC
Confidence 4553 45666778887775 4688899999999998885432 34455999999999988888765
No 96
>cd01766 Ufm1 Urm1-like ubiquitin domain. Ufm1 (ubiquitin-fold modifier 1) is a post-translational UBL (ubiquitin-like) modifier with a tertiary structure similar to that of ubiquitin. Ufm1 is initially expressed as a precursor which undergoes C-terminal cleavage to expose a conserved glycine residue that is required for the conjugation reactions involving Ufm1.
Probab=90.53 E-value=1.9 Score=27.30 Aligned_cols=59 Identities=15% Similarity=0.233 Sum_probs=51.4
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcccE-EEEECCeecCCCCCccccCCCCCCEEEEEee
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNSI-AFLFDGRRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~~-~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
.++|-..+||..+.+.-|+.+.++...- -..-||.=|.+.+|....-|+-|-.+.++.+
T Consensus 19 vlsVpE~aPftAvlkfaAEeFkv~~~TsAiiTndGvGINP~qtAGnvflkhgselrliPR 78 (82)
T cd01766 19 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRLIPR 78 (82)
T ss_pred EEeccccCchHHHHHHHHHhcCCCccceeEEecCccccChhhcccceeeecCCEeeeccc
Confidence 5788899999999999999999987654 4556899999999999999999999888754
No 97
>PF02196 RBD: Raf-like Ras-binding domain; InterPro: IPR003116 This is the Ras-binding domain found in proteins related to Ras. It is found in association with the PE-bind and pkinase domains.; GO: 0005057 receptor signaling protein activity, 0007165 signal transduction; PDB: 1RFA_A 1C1Y_B 3KUD_B 1GUA_B 3KUC_B 2L05_A 3NY5_D 1RRB_A 1WFY_A 1WXM_A.
Probab=90.38 E-value=1.3 Score=27.25 Aligned_cols=55 Identities=11% Similarity=0.309 Sum_probs=39.0
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECC--eecCCCCCcc
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG--RRLRGEQTPD 81 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG--~~L~~~~Tp~ 81 (105)
++|.-+++....+.+++..+++.....-|+++++.+..+.+..-| .+|.-++...
T Consensus 3 ~~v~LP~~q~t~V~vrpg~ti~d~L~~~~~kr~L~~~~~~V~~~~~~k~l~~~~d~~ 59 (71)
T PF02196_consen 3 CRVHLPNGQRTVVQVRPGMTIRDALSKACKKRGLNPECCDVRLVGEKKPLDWDQDSS 59 (71)
T ss_dssp EEEEETTTEEEEEEE-TTSBHHHHHHHHHHTTT--CCCEEEEEEEEEEEE-TTSBGG
T ss_pred EEEECCCCCEEEEEEcCCCCHHHHHHHHHHHcCCCHHHEEEEEcCCCccccCCCcee
Confidence 566778999999999999999999999999999998876555433 3444444333
No 98
>cd01777 SNX27_RA Ubiquitin domain of SNX27 (sorting nexin protein 27). SNX27_RA SNX27 (sorting nexin protein 27) belongs to a large family of endosome-localized proteins related to sorting nexin1 which is implicated in regulating membrane traffic. The domain architecture of SNX27 includes an amino-terminal PDZ domain, a PX (PhoX homologous) domain, and a carboxy-terminal RA (RAS-associated) domain.
Probab=90.12 E-value=0.78 Score=29.76 Aligned_cols=61 Identities=16% Similarity=0.322 Sum_probs=45.9
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEE----EEECC----eecCCCCCccccCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIA----FLFDG----RRLRGEQTPDELEM 85 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~----F~fdG----~~L~~~~Tp~dl~m 85 (105)
+.|+|.-+||..+.++|++++.-..++++-+++.+++.+... |.... ++|.+..-|-.|-.
T Consensus 2 V~L~V~Lpdg~~i~V~v~~s~~a~~Vleav~~kl~L~~e~~~YFaLFev~~~~f~RKL~dfE~Ph~ly~ 70 (87)
T cd01777 2 VELRIALPDKATVTVRVRKNATTDQVYQALVAKAGMDSYTQNYFALFEVINHSFVRKLAPNEFPHKLYV 70 (87)
T ss_pred eEEEEEccCCCEEEEEEEEcccHHHHHHHHHHHhCCCHHHHhheeeeEEecceEEEeccCccCCceEEE
Confidence 567777789999999999999999999999999999865322 22211 35667777765543
No 99
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The NBR1 protein contains a type I PB1 domain.
Probab=89.04 E-value=2.1 Score=27.36 Aligned_cols=42 Identities=19% Similarity=0.239 Sum_probs=34.5
Q ss_pred EEEEEEecCCCEEEEEEec--CcHHHHHHHHHHHHhCCCcccEEEEE
Q 034043 25 INLKVKGQDGNEVFFRIKR--STQLKKLMNAYCDRQSVELNSIAFLF 69 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~--tt~l~kL~~~y~~~~g~~~~~~~F~f 69 (105)
|+||+.. .+..+.|++.+ +.++..|....+++++++ .+.+.|
T Consensus 1 V~vKaty-~~d~~rf~~~~~~~~~~~~L~~ev~~rf~l~--~f~lKY 44 (81)
T cd06396 1 VNLKVTY-NGESQSFLVSDSENTTWASVEAMVKVSFGLN--DIQIKY 44 (81)
T ss_pred CEEEEEE-CCeEEEEEecCCCCCCHHHHHHHHHHHhCCC--cceeEE
Confidence 4667654 57778999999 889999999999999998 666665
No 100
>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=88.92 E-value=2.3 Score=25.76 Aligned_cols=44 Identities=20% Similarity=0.311 Sum_probs=35.0
Q ss_pred EEEEEEecCCCEEEEEEe-cCcHHHHHHHHHHHHhCCCcccEEEEE
Q 034043 25 INLKVKGQDGNEVFFRIK-RSTQLKKLMNAYCDRQSVELNSIAFLF 69 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik-~tt~l~kL~~~y~~~~g~~~~~~~F~f 69 (105)
|+||+... +....+.+. +..++..|....++++++....+++.|
T Consensus 1 ~~vK~~~~-~~~~~~~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y 45 (81)
T cd05992 1 VRVKVKYG-GEIRRFVVVSRSISFEDLRSKIAEKFGLDAVSFKLKY 45 (81)
T ss_pred CcEEEEec-CCCEEEEEecCCCCHHHHHHHHHHHhCCCCCcEEEEe
Confidence 35666654 455688888 999999999999999998766777776
No 101
>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=87.63 E-value=2.1 Score=29.91 Aligned_cols=39 Identities=26% Similarity=0.375 Sum_probs=35.4
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL 62 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~ 62 (105)
.+.|+|.-.||....+.+..+++.+.|++..|++.|+..
T Consensus 3 ~~~~~V~l~dg~~~~~~~~~~~t~~ev~~~v~~~~~l~~ 41 (207)
T smart00295 3 PRVLKVYLLDGTTLEFEVDSSTTAEELLETVCRKLGIRE 41 (207)
T ss_pred cEEEEEEecCCCEEEEEECCCCCHHHHHHHHHHHhCCCc
Confidence 567888888999999999999999999999999999954
No 102
>PF12754 Blt1: Cell-cycle control medial ring component; InterPro: IPR024737 During size-dependent cell cycle transitions controlled by the ubiquitous cyclin-dependent kinase Cdk1, Blt1 has been shown to co-localise with Cdr2 in the medial interphase nodes, as well as with Mid1 which was previously shown to localise to similar interphase structures. Physical interactions between Blt1-Mid1, Blt1-Cdr2 and Cdr2-Mid1 were detected, indicating that medial cortical nodes are formed by the ordered, Cdr2-dependent assembly of multiple interacting proteins during interphase[].; PDB: 2LO0_A.
Probab=87.38 E-value=0.18 Score=39.64 Aligned_cols=81 Identities=21% Similarity=0.324 Sum_probs=0.0
Q ss_pred CCcEEEEEEecCCCEEEEEEe---c--CcHHHHHHHHHHH----------HhCCCcccEE-----EEECCeecCCCCCcc
Q 034043 22 SAHINLKVKGQDGNEVFFRIK---R--STQLKKLMNAYCD----------RQSVELNSIA-----FLFDGRRLRGEQTPD 81 (105)
Q Consensus 22 ~~~I~I~v~~~~g~~~~~~ik---~--tt~l~kL~~~y~~----------~~g~~~~~~~-----F~fdG~~L~~~~Tp~ 81 (105)
...|+|.+++.-+..+.+++. + ++.+..|.+++++ ..+++.+.++ ++|+-++|.++.|..
T Consensus 76 ~~sItV~Lks~rnp~l~i~L~~~~plattSv~dlk~~v~~rv~~~~~~~~~~~vp~dKik~~~~~lL~~kkPv~~~ktl~ 155 (309)
T PF12754_consen 76 SKSITVHLKSLRNPPLDISLPNVPPLATTSVQDLKDAVQQRVHPSQATYDETRVPLDKIKNFRCRLLYKKKPVGDSKTLA 155 (309)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred CceEEEEeecCCCCCceeEeCCCCcCCcCcHHHHHHHHHhhhcccccccccccCCHHHhhhhhhhheecCccCCCcCcHH
Confidence 467888888775554433332 3 6889999999999 8889999999 999999999999999
Q ss_pred ccCCC-------CCCEEEEEeeccCCCC
Q 034043 82 ELEME-------DGDEIDAMLHQTGGAL 102 (105)
Q Consensus 82 dl~me-------dgD~Idv~~~q~GG~~ 102 (105)
++-=+ .+.++|+.+=-.||..
T Consensus 156 e~l~~~~~~l~~~~~~vE~gvMVlGGa~ 183 (309)
T PF12754_consen 156 EVLADSESRLLSGGKEVEFGVMVLGGAA 183 (309)
T ss_dssp ----------------------------
T ss_pred HHHhcccchhccCCceEEEEEEEECCcc
Confidence 88655 4667888777778765
No 103
>PF14451 Ub-Mut7C: Mut7-C ubiquitin
Probab=86.95 E-value=3.9 Score=25.89 Aligned_cols=53 Identities=13% Similarity=0.319 Sum_probs=41.9
Q ss_pred CEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE-CCeecCCCCCccccCCCCCCEEEEEee
Q 034043 35 NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DGRRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 35 ~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f-dG~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
..+.+.+...++++.+.+ ..|++...+-+++ ||+.+..+ .-+++||.|.|+.-
T Consensus 23 ~~~~~~~~~~~tvkd~IE----sLGVP~tEV~~i~vNG~~v~~~-----~~~~~Gd~v~V~P~ 76 (81)
T PF14451_consen 23 GPFTHPFDGGATVKDVIE----SLGVPHTEVGLILVNGRPVDFD-----YRLKDGDRVAVYPV 76 (81)
T ss_pred CceEEecCCCCcHHHHHH----HcCCChHHeEEEEECCEECCCc-----ccCCCCCEEEEEec
Confidence 356778888999988875 5799988886665 99888775 55679999999854
No 104
>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=86.45 E-value=5.3 Score=24.08 Aligned_cols=57 Identities=18% Similarity=0.316 Sum_probs=41.4
Q ss_pred EecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc-ccEEEEE----CC--eecCCCCCccccCCC
Q 034043 30 KGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-NSIAFLF----DG--RRLRGEQTPDELEME 86 (105)
Q Consensus 30 ~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~-~~~~F~f----dG--~~L~~~~Tp~dl~me 86 (105)
+-.|+....|.|.++++-+.|++..|++.++.. .-+-+.| +| ..|.++.+..+..-.
T Consensus 2 ~llD~~~~~~~v~~~~t~~~l~~~v~~~l~l~e~~~FgL~~~~~~~~~~~wL~~~k~l~~q~~~ 65 (80)
T PF09379_consen 2 RLLDGTTKTFEVDPKTTGQDLLEQVCDKLGLKEKEYFGLQYQVDKDGEHHWLDLDKKLKKQLKK 65 (80)
T ss_dssp EESSEEEEEEEEETTSBHHHHHHHHHHHHTTSSGGGEEEEE-EBTTSSEEEE-SSSBGGGSTBT
T ss_pred CCcCCCcEEEEEcCCCcHHHHHHHHHHHcCCCCccEEEEEEeecCCCcceeccCcccHHHHcCC
Confidence 446788889999999999999999999999864 3456666 22 345666666655444
No 105
>PF15044 CLU_N: Mitochondrial function, CLU-N-term
Probab=86.04 E-value=2.3 Score=26.52 Aligned_cols=57 Identities=14% Similarity=0.295 Sum_probs=45.4
Q ss_pred EecCcHHHHHHHHHHHHhC-CCcccEEEEECCeecCCCCCccccC-CCCCCEEEEEeec
Q 034043 41 IKRSTQLKKLMNAYCDRQS-VELNSIAFLFDGRRLRGEQTPDELE-MEDGDEIDAMLHQ 97 (105)
Q Consensus 41 ik~tt~l~kL~~~y~~~~g-~~~~~~~F~fdG~~L~~~~Tp~dl~-medgD~Idv~~~q 97 (105)
|.+++++..|.+..+..-. ....++.|.++|.+|.+.....++. ++++..|.+..+.
T Consensus 1 v~~~d~v~dvrq~L~~~~~t~~~Tn~~L~~~g~~L~~~~el~~i~~~~~~~~L~lve~p 59 (76)
T PF15044_consen 1 VSPTDTVQDVRQVLAESPETCYLTNFSLEHNGQRLDDFVELSEIEGIKDGCVLELVEEP 59 (76)
T ss_pred CChhhHHHHHHHHHHhCccccceeEEEEEECCCccCCchhhhhhhCCCCCcEEEEEecC
Confidence 3467788888888877765 3567899999999999888888875 7889898887654
No 106
>cd01818 TIAM1_RBD Ubiquitin domain of Tiam1 guanine nucleotide exchange factor. Tiam1 (T lymphoma invasion and metastasis 1) a guanine nucleotide exchange factor that activates Rac, is an important regulator of Rho GTPase functions in tumor cells including regulation of cell shape and invasiveness in epithelial cells and fibroblasts. TIAM1 has an RBD (Ras-binding domain) similar to that of Raf kinase as well as PH (pleckstrin homology), PDZ, and RhoGEF domains.
Probab=85.92 E-value=3.6 Score=26.10 Aligned_cols=43 Identities=14% Similarity=0.261 Sum_probs=36.0
Q ss_pred EEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcc--cEEEEEC
Q 034043 28 KVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN--SIAFLFD 70 (105)
Q Consensus 28 ~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~--~~~F~fd 70 (105)
+|.-+||......|++..++..+.+.-|+++++++. .+|+.+-
T Consensus 3 ~V~lPn~~~~~v~vrp~~tv~dvLe~aCk~~~ldp~eh~Lrlk~~ 47 (77)
T cd01818 3 WVCLPDNQPVLTYLRPGMSVEDFLESACKRKQLDPMEHYLRLKFL 47 (77)
T ss_pred EEECCCCceEEEEECCCCCHHHHHHHHHHhcCCChhHheeEEEEE
Confidence 455678999999999999999999999999999865 3555554
No 107
>PRK11130 moaD molybdopterin synthase small subunit; Provisional
Probab=85.68 E-value=5.2 Score=24.75 Aligned_cols=52 Identities=17% Similarity=0.247 Sum_probs=37.3
Q ss_pred CcHHHHHHHHHHHHhC-----CCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 44 STQLKKLMNAYCDRQS-----VELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 44 tt~l~kL~~~y~~~~g-----~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
..+++.|.+..++++. +....+++..|++-. ..+| -+.|||+|-++.=-.||
T Consensus 25 ~~tv~~l~~~L~~~~~~~~~~~~~~~~~~aVN~~~~-~~~~----~l~dgDeVai~PPVsGG 81 (81)
T PRK11130 25 FPTVEALRQHLAQKGDRWALALEDGKLLAAVNQTLV-SFDH----PLTDGDEVAFFPPVTGG 81 (81)
T ss_pred CCCHHHHHHHHHHhCccHHhhhcCCCEEEEECCEEc-CCCC----CCCCCCEEEEeCCCCCC
Confidence 3688888888887763 234567777788544 3344 49999999999877776
No 108
>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=84.24 E-value=7.3 Score=23.80 Aligned_cols=62 Identities=16% Similarity=0.341 Sum_probs=45.3
Q ss_pred EEEEEecCCC----EEEEEEecCcHHHHHHHHHHHHhCC--CcccEEEE-E---CC--eecCCCCCccccCCCC
Q 034043 26 NLKVKGQDGN----EVFFRIKRSTQLKKLMNAYCDRQSV--ELNSIAFL-F---DG--RRLRGEQTPDELEMED 87 (105)
Q Consensus 26 ~I~v~~~~g~----~~~~~ik~tt~l~kL~~~y~~~~g~--~~~~~~F~-f---dG--~~L~~~~Tp~dl~med 87 (105)
.|+|-..++. ...+.|.++++-..|+....+++++ ++..+.++ + .| +.|.+++-|-.+-...
T Consensus 4 ~lrVy~~~~~~~~~~k~i~v~~~tTa~evi~~~l~k~~l~~~~~~y~L~~~~~~~~~er~L~~~E~pl~i~~~~ 77 (93)
T PF00788_consen 4 VLRVYDGDGSPGSTYKTIKVSSSTTAREVIEMALEKFGLAEDPSDYCLVEVEESGGEERPLDDDECPLQIQLQW 77 (93)
T ss_dssp EEEEEETTSSSCCSEEEEEEETTSBHHHHHHHHHHHTTTSSSGGGEEEEEEECTTTEEEEETTTSBHHHHHHTT
T ss_pred EEEEEcCCCCCCccEEEEEECCCCCHHHHHHHHHHHhCCCCCCCCEEEEEEEcCCCEEEEcCCCCchHHHHHhC
Confidence 5667777766 7799999999999999999999998 45566663 2 12 2566777776655444
No 109
>PF10623 PilI: Plasmid conjugative transfer protein PilI; InterPro: IPR018897 The thin pilus of plasmid R64 belongs to the type IV family and is required for liquid matings. PilI is one of 14 genes that have been identified as being involved in biogenesis of the R64 thin pilus [].
Probab=82.65 E-value=3.2 Score=26.53 Aligned_cols=41 Identities=12% Similarity=0.319 Sum_probs=34.9
Q ss_pred CCCCCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhC
Q 034043 19 VDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS 59 (105)
Q Consensus 19 ~~~~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g 59 (105)
+.-+.++.|-|.+.++++.-|.+++++-+.+|...||--.|
T Consensus 3 ~~~~grl~VLVv~n~c~~kL~~~~~~~D~~~i~r~f~TpdN 43 (83)
T PF10623_consen 3 QQHPGRLQVLVVSNHCERKLFDTKPDNDPDKIARRFCTPDN 43 (83)
T ss_pred ccCCCeEEEEEEeCCcceeEeecCCCCCHHHHHhhccCcCC
Confidence 33356899999999999888999999999999999987655
No 110
>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=82.01 E-value=9.6 Score=31.25 Aligned_cols=70 Identities=14% Similarity=0.128 Sum_probs=54.5
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCC------cccEEEE-ECCeecCCCCCccccCCCCCCEEEEEe
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE------LNSIAFL-FDGRRLRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~------~~~~~F~-fdG~~L~~~~Tp~dl~medgD~Idv~~ 95 (105)
.+|.|...+ +.+.+-+--+.|+..|+...-+..+-. ....+|. -+|.+|+++.|+.+.++.|||++.+..
T Consensus 3 ~RVtV~~~~-~~~DlaLPa~~PvaellP~ll~~~~~~~~~~~~~~~w~L~r~gG~pL~~~~sL~~~gV~DG~~L~L~p 79 (452)
T TIGR02958 3 CRVTVLAGR-RAVDVALPADVPVAELIPDLVDLLDDRGAAELGAVRWALARAGGSPLDPDASLAEAGVRDGELLVLVP 79 (452)
T ss_pred EEEEEeeCC-eeeeeecCCCCcHHHHHHHHHHHhCcccccCCCCcceEEecCCCCCCCCCCCHHHcCCCCCCeEEEee
Confidence 466777654 457888888999999999998888642 1233333 389999999999999999999998775
No 111
>COG2104 ThiS Sulfur transfer protein involved in thiamine biosynthesis [Coenzyme metabolism]
Probab=81.68 E-value=7 Score=23.96 Aligned_cols=66 Identities=18% Similarity=0.396 Sum_probs=46.7
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
|+|.+ ++++ +.+....++..|. +..+++...+-+..||+.+..+ --++..+++||.|+++.=-.||
T Consensus 3 m~i~~---ng~~--~e~~~~~tv~dLL----~~l~~~~~~vav~vNg~iVpr~-~~~~~~l~~gD~ievv~~v~GG 68 (68)
T COG2104 3 MTIQL---NGKE--VEIAEGTTVADLL----AQLGLNPEGVAVAVNGEIVPRS-QWADTILKEGDRIEVVRVVGGG 68 (68)
T ss_pred EEEEE---CCEE--EEcCCCCcHHHHH----HHhCCCCceEEEEECCEEccch-hhhhccccCCCEEEEEEeecCC
Confidence 44544 3444 4455557777665 4578888999999999887532 2356778999999999877776
No 112
>PF14836 Ubiquitin_3: Ubiquitin-like domain; PDB: 3JYU_A 4A3O_B 3PPA_A 3T9L_A 4A3P_A 3PV1_A.
Probab=81.43 E-value=12 Score=24.24 Aligned_cols=62 Identities=8% Similarity=0.020 Sum_probs=43.9
Q ss_pred CEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECC-----eec-CCCCCccccCCCCCCEEEEEeec
Q 034043 35 NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDG-----RRL-RGEQTPDELEMEDGDEIDAMLHQ 97 (105)
Q Consensus 35 ~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG-----~~L-~~~~Tp~dl~medgD~Idv~~~q 97 (105)
..+.-...+++++..|...-++.+.+ ....|++-.+ ++| .+..|.++++|.+|-.|-+-.+.
T Consensus 14 ~~~t~~FSk~DTI~~v~~~~rklf~i-~~E~RLW~~~~~~~~e~L~~~~~Tv~da~L~~gQ~vliE~rn 81 (88)
T PF14836_consen 14 SVLTKQFSKTDTIGFVEKEMRKLFNI-QEETRLWNKYSENSYELLNNPEITVEDAGLYDGQVVLIEERN 81 (88)
T ss_dssp EEEEEEE-TTSBHHHHHHHHHHHCT--TS-EEEEEECTTTCEEEE--TTSBTTTTT--TTEEEEEEE--
T ss_pred cHhHhhccccChHHHHHHHHHHHhCC-CccceehhccCCcchhhhCCCCccHHHccCcCCCEEEEEeec
Confidence 35677889999999999999999999 6667877522 255 56789999999999988766654
No 113
>PF06234 TmoB: Toluene-4-monooxygenase system protein B (TmoB); InterPro: IPR009355 This family consists of several Toluene-4-monooxygenase system protein B (TmoB) sequences. Pseudomonas mendocina KR1 metabolises toluene as a carbon source. The initial step of the pathway is hydroxylation of toluene to form p-cresol by a multicomponent toluene-4-monooxygenase (T4MO) system [].; PDB: 3N1Y_C 3RNG_C 3RNA_C 3RN9_C 3RNC_C 3N1X_C 3RNE_C 3RNF_C 3N1Z_C 3N20_C ....
Probab=81.41 E-value=7.9 Score=24.98 Aligned_cols=60 Identities=5% Similarity=0.082 Sum_probs=45.0
Q ss_pred EEEEEecCcHHHHHHHHHHHHh-CC-----CcccEEEEECC--eecCCCCCccccCCCCCCEEEEEee
Q 034043 37 VFFRIKRSTQLKKLMNAYCDRQ-SV-----ELNSIAFLFDG--RRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 37 ~~~~ik~tt~l~kL~~~y~~~~-g~-----~~~~~~F~fdG--~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
.-+-|...++|..+-++.+..- |. +-..+++...| +.+..+.|..+.+|..-|+|||+.+
T Consensus 17 ~Lv~VDt~dTmdqVA~k~A~HsVGrRV~~~pg~~lrVr~~g~~~~~p~~~tVaeagl~P~e~vev~~~ 84 (85)
T PF06234_consen 17 QLVPVDTEDTMDQVAAKVAHHSVGRRVAPRPGAPLRVRRQGDTQPFPRSMTVAEAGLQPMEWVEVRFE 84 (85)
T ss_dssp EEEEEETT-BHHHHHHHHHTTTTTTSS---TTSEEEEEETTTSSEE-TT-BGGGHT--TTEEEEEEEE
T ss_pred EEEEeCCCCcHHHHHHHHhhhhcceecCCCCCCEEEEEecCCCccCCCccEehhcCCCcceEEEEEEc
Confidence 4567888899999998887653 32 22478999999 9999999999999999999999875
No 114
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module
Probab=81.24 E-value=8.7 Score=24.78 Aligned_cols=43 Identities=16% Similarity=0.159 Sum_probs=33.8
Q ss_pred EEEEEecCCCEEEEEEec-----CcHHHHHHHHHHHHhCCCc-ccEEEEE
Q 034043 26 NLKVKGQDGNEVFFRIKR-----STQLKKLMNAYCDRQSVEL-NSIAFLF 69 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~-----tt~l~kL~~~y~~~~g~~~-~~~~F~f 69 (105)
.|||.. ++..+.|++.. +..+..|.++.++.++++. ..+.+.|
T Consensus 2 ~vKv~y-~~~~rRf~l~~~~~~~d~~~~~L~~kI~~~f~l~~~~~~~l~Y 50 (91)
T cd06398 2 VVKVKY-GGTLRRFTFPVAENQLDLNMDGLREKVEELFSLSPDADLSLTY 50 (91)
T ss_pred EEEEEe-CCEEEEEEeccccccCCCCHHHHHHHHHHHhCCCCCCcEEEEE
Confidence 466654 45556788874 7899999999999999986 6777777
No 115
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=77.51 E-value=16 Score=23.34 Aligned_cols=60 Identities=12% Similarity=0.306 Sum_probs=41.8
Q ss_pred cEEEEEEecCCC----EEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeec--CCCCCcccc
Q 034043 24 HINLKVKGQDGN----EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRL--RGEQTPDEL 83 (105)
Q Consensus 24 ~I~I~v~~~~g~----~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L--~~~~Tp~dl 83 (105)
+|+|+++.-... ...|.|..+.++..++....++.+++.++-.|+|=+..+ .+++|..+|
T Consensus 1 kv~i~~~~~g~~p~l~k~kflv~~~~tv~~~~~~lrk~L~l~~~~slflyvnn~f~p~~d~~~g~L 66 (87)
T cd01612 1 KVTIRFKPIGSAPILKQKVFKISATQSFQAVIDFLRKRLKLKASDSLFLYINNSFAPSPDENVGNL 66 (87)
T ss_pred CeEEEEEECCCCccccccEEEeCCCCCHHHHHHHHHHHhCCCccCeEEEEECCccCCCchhHHHHH
Confidence 356666643222 237899999999999999999999987775566644443 345666655
No 116
>cd01768 RA RA (Ras-associating) ubiquitin domain. The RA (Ras-associating) domain is structurally similar to ubiquitin and is present in one or two copies in a number of signalling molecules that bind and regulate a small GTPase called Ras or the Ras-related GTPases, Ral and Rap. RA-containing proteins include RalGDS, AF6, RIN1, RASSF1, SNX27, CYR1, STE50, and phospholipase C epsilon.
Probab=75.59 E-value=16 Score=22.44 Aligned_cols=57 Identities=18% Similarity=0.313 Sum_probs=40.4
Q ss_pred EEEEecC---CCEEEEEEecCcHHHHHHHHHHHHhCCC--cccEEEEE--C----CeecCCCCCcccc
Q 034043 27 LKVKGQD---GNEVFFRIKRSTQLKKLMNAYCDRQSVE--LNSIAFLF--D----GRRLRGEQTPDEL 83 (105)
Q Consensus 27 I~v~~~~---g~~~~~~ik~tt~l~kL~~~y~~~~g~~--~~~~~F~f--d----G~~L~~~~Tp~dl 83 (105)
|+|...+ +.-..+.|.++++...|+....+++++. ++.+.++- . .+.|.++.-|-.+
T Consensus 2 ikV~~~~~~~~~~kti~V~~~~t~~~Vi~~~l~k~~l~~~~~~y~L~ev~~~~~~er~L~~~e~pl~~ 69 (87)
T cd01768 2 LRVYPEDPSGGTYKTLRVSKDTTAQDVIQQLLKKFGLDDDPEDYALVEVLGDGGLERLLLPDECPLQI 69 (87)
T ss_pred EEEeCCcCCCccEEEEEECCCCCHHHHHHHHHHHhCCcCCcccEEEEEEECCceEEEEeCCCCChHHH
Confidence 4455445 5667899999999999999999999987 44444432 2 2356677777654
No 117
>COG2080 CoxS Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]
Probab=75.31 E-value=7 Score=27.93 Aligned_cols=63 Identities=22% Similarity=0.288 Sum_probs=45.6
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc-------ccEEEEECCeecCCCCCccccCCCCCCEE
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-------NSIAFLFDGRRLRGEQTPDELEMEDGDEI 91 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~-------~~~~F~fdG~~L~~~~Tp~dl~medgD~I 91 (105)
.|+++| ||.++.+.+.|.++|.++.+..--..|... .....++||+++..--||.. +-+|..|
T Consensus 3 ~i~ltv---NG~~~~~~~~p~~~Ll~~LRd~l~ltgtk~GC~~g~CGACtVlvDG~~v~SCl~~a~--~~~G~~I 72 (156)
T COG2080 3 PITLTV---NGEPVELDVDPRTPLLDVLRDELGLTGTKKGCGHGQCGACTVLVDGEAVNSCLTLAV--QAEGAEI 72 (156)
T ss_pred cEEEEE---CCeEEEEEeCCCChHHHHHHHhcCCCCcCCCCCCccCCceEEEECCeEehHHHHHHH--HhCCCeE
Confidence 355555 788899999999999988876655544332 46789999999998777764 3455443
No 118
>KOG0013 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.14 E-value=6.3 Score=29.71 Aligned_cols=77 Identities=16% Similarity=0.230 Sum_probs=63.6
Q ss_pred CCCcEEEEEEec-CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCC--CEEEEEeec
Q 034043 21 QSAHINLKVKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDG--DEIDAMLHQ 97 (105)
Q Consensus 21 ~~~~I~I~v~~~-~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medg--D~Idv~~~q 97 (105)
....+.++++.. .+..+..+....++...+.++...+.++++-.++..|.|..|-.+.-.....+|.| =++-+++-|
T Consensus 142 ~~~e~~lk~rlTtT~~d~~lta~~~Dtv~eik~~L~Aaeg~D~~sQrif~Sg~~l~dkt~LeEc~iekg~rYvlqviVlq 221 (231)
T KOG0013|consen 142 NHTEPILKLRLTTTREDFWLTAPHYDTVGEIKRALRAAEGVDPLSQRIFFSGGVLVDKTDLEECKIEKGQRYVLQVIVLQ 221 (231)
T ss_pred CCCCcchHHHhhhhhhheeecccCcCcHHHHHHHHHHhhccchhhheeeccCCceeccccceeeeecCCCEEEEEEEecc
Confidence 335566666655 46778889999999999999999999999888999999999999999999999999 566666544
No 119
>PF11620 GABP-alpha: GA-binding protein alpha chain; InterPro: IPR024668 GA-binding protein alpha is a transcription factor capable of interacting with purine rich repeats (GA repeats). This N-terminal domain found in the transcription factor GABP alpha consists of a five-stranded beta-sheet crossed by a distorted helix and has been termed OST domain. The surface of the GABP alpha OST domain contains two clusters of negatively-charged residues suggesting there are positively-charged partner proteins. The OST domain binds to the CH1 and CH3 domains of the co-activator histone acetyltransferase CBP/p300 [].; PDB: 2JUO_A.
Probab=73.61 E-value=15 Score=23.88 Aligned_cols=59 Identities=10% Similarity=0.145 Sum_probs=41.5
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEee
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
.-.|.=.+||..|.+....+.+++.+...|+.-...|.+..+.-+-.++-.-.+.+.++
T Consensus 6 ~q~mDI~epl~~Lk~lLe~Rl~~~L~~~~f~LQD~~L~~~k~L~dQcVqgeGlVQlnvQ 64 (88)
T PF11620_consen 6 MQHMDIREPLSTLKKLLERRLGISLSDYEFWLQDIQLEPHKSLVDQCVQGEGLVQLNVQ 64 (88)
T ss_dssp EEEEESSSBGGGHHHHSHHHH-S--SS-EEEETTEE--TTSBTTTSS----SEEEEEEE
T ss_pred EEEEecCCcHHHHHHHHHHhhCCCcCCCeEEeccceecCCccHHHhhccccCEEEEEEE
Confidence 34455678999999999999999999999999888899999999999988887766554
No 120
>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=71.18 E-value=19 Score=24.03 Aligned_cols=48 Identities=13% Similarity=0.141 Sum_probs=37.0
Q ss_pred EEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE-CCeecCCCCCccccC
Q 034043 37 VFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DGRRLRGEQTPDELE 84 (105)
Q Consensus 37 ~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f-dG~~L~~~~Tp~dl~ 84 (105)
..|.|..+.++..++....+++.+++++--|+| ++.....++|..+|-
T Consensus 43 ~KflVp~~~tv~~f~~~irk~l~l~~~~slfl~Vn~~~p~~~~~~~~lY 91 (112)
T cd01611 43 KKYLVPSDLTVGQFVYIIRKRIQLRPEKALFLFVNNSLPPTSATMSQLY 91 (112)
T ss_pred ceEEecCCCCHHHHHHHHHHHhCCCccceEEEEECCccCCchhHHHHHH
Confidence 368899999999999999999999887766666 553445667776653
No 121
>PRK01777 hypothetical protein; Validated
Probab=70.49 E-value=26 Score=22.71 Aligned_cols=69 Identities=12% Similarity=0.135 Sum_probs=44.5
Q ss_pred cEEEEEEec--CC-CEEEEEEecCcHHHHHHHHHH--HHh-CCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeec
Q 034043 24 HINLKVKGQ--DG-NEVFFRIKRSTQLKKLMNAYC--DRQ-SVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQ 97 (105)
Q Consensus 24 ~I~I~v~~~--~g-~~~~~~ik~tt~l~kL~~~y~--~~~-g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q 97 (105)
.|.|.|... +. ....+.+...++...+..+.- +.+ .++.....+..+|+.+.. +--|++||.|++|.-+
T Consensus 3 ~i~v~V~ya~~~~~~~~~l~vp~GtTv~dal~~sgi~~~~pei~~~~~~vgI~Gk~v~~-----d~~L~dGDRVeIyrPL 77 (95)
T PRK01777 3 KIRVEVVYALPERQYLQRLTLQEGATVEEAIRASGLLELRTDIDLAKNKVGIYSRPAKL-----TDVLRDGDRVEIYRPL 77 (95)
T ss_pred eeEEEEEEECCCceEEEEEEcCCCCcHHHHHHHcCCCccCcccccccceEEEeCeECCC-----CCcCCCCCEEEEecCC
Confidence 455555543 22 235788899999999887652 110 222333467778888765 4478999999998643
No 122
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 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.
Probab=69.38 E-value=21 Score=23.24 Aligned_cols=39 Identities=13% Similarity=0.277 Sum_probs=32.1
Q ss_pred EecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE
Q 034043 30 KGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF 69 (105)
Q Consensus 30 ~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f 69 (105)
....|....+.|.++.+|..|+.+.++..+.+.+ +.|.|
T Consensus 18 ~Y~GG~tr~i~V~r~~s~~el~~kl~~~~~~~~~-~~lky 56 (97)
T cd06410 18 RYVGGETRIVSVDRSISFKELVSKLSELFGAGVV-VTLKY 56 (97)
T ss_pred EEcCCceEEEEEcCCCCHHHHHHHHHHHhCCCCc-eEEEE
Confidence 3446777789999999999999999999998865 55555
No 123
>cd01817 RGS12_RBD Ubiquitin domain of RGS12 and RGS14. RGS12 (regulator of G signalling 12), and RGS14, are members of a family of GTPase-activating proteins (GAP's) specific for the G-alpha subunit, which act as key inhibitors of G-protein-mediated cell responses in eukaryotes. Their domain architecture includes tandem RBD domains as well as PDZ , PTB, and RGS, and GoLoco domains.
Probab=68.77 E-value=26 Score=21.94 Aligned_cols=52 Identities=15% Similarity=0.387 Sum_probs=40.1
Q ss_pred EEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEE-EEECCeecCCCCCc
Q 034043 29 VKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIA-FLFDGRRLRGEQTP 80 (105)
Q Consensus 29 v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~-F~fdG~~L~~~~Tp 80 (105)
|.-+||..-.+.+++-.++..+...-+++.|+.++.+. |...++..-+.+|.
T Consensus 4 V~LPdg~~T~V~vrpG~ti~d~L~kllekRgl~~~~~~vf~~g~~k~l~~~qD 56 (73)
T cd01817 4 VILPDGSTTVVPTRPGESIRDLLSGLCEKRGINYAAVDLFLVGGDKPLVLDQD 56 (73)
T ss_pred EECCCCCeEEEEecCCCCHHHHHHHHHHHcCCChhHEEEEEecCCcccccCCc
Confidence 44578888889999999999999999999999988764 55555444444443
No 124
>KOG3483 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.02 E-value=29 Score=22.21 Aligned_cols=61 Identities=15% Similarity=0.237 Sum_probs=52.2
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCccc-EEEEECCeecCCCCCccccCCCCCCEEEEEeecc
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNS-IAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQT 98 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~-~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~ 98 (105)
.+.|-..+||-.+...-++.+.++... -...-||.-|.+.+|....-|+.|.++.++.+-.
T Consensus 30 v~svpestpftavlkfaaeefkvpaatsaiitndgiginpaq~agnvflkhgselr~iprdr 91 (94)
T KOG3483|consen 30 VLSVPESTPFTAVLKFAAEEFKVPAATSAIITNDGIGINPAQTAGNVFLKHGSELRIIPRDR 91 (94)
T ss_pred eecCCCCCchHHHHHHHHHHccCCccceeEEecCccccCccccccceeeccCCEEEeccccc
Confidence 678888999999999999999998754 4566689999999999999999999988876543
No 125
>KOG2086 consensus Protein tyrosine phosphatase SHP1/Cofactor for p97 ATPase-mediated vesicle membrane fusion [Nuclear structure]
Probab=67.50 E-value=22 Score=28.91 Aligned_cols=63 Identities=13% Similarity=0.213 Sum_probs=45.5
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC---Ceec-CCCCCccccCCCC
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD---GRRL-RGEQTPDELEMED 87 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd---G~~L-~~~~Tp~dl~med 87 (105)
..|+|+ ..||..+..++..+.++..|....+....-.....-.++- =+.| .++.|.++.+|.+
T Consensus 306 TsIQIR--LanG~RlV~~fN~sHTv~DIR~fI~~aRp~~~~~~F~L~~~FPpk~l~D~sqTle~AgL~N 372 (380)
T KOG2086|consen 306 TSIQIR--LANGTRLVLKFNHSHTVSDIREFIDTARPGDSSTYFILMMAFPPKPLSDDSQTLEEAGLLN 372 (380)
T ss_pred ceEEEE--ecCCceeeeeccCcccHHHHHHHHHhcCCCCcCCceeeeecCCCcccCCcchhHHhccchh
Confidence 355555 4689888889999999999999999998765543333333 4444 3688888888765
No 126
>PF11816 DUF3337: Domain of unknown function (DUF3337); InterPro: IPR021772 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes. This presumed domain is typically between 285 to 342 amino acids in length.
Probab=66.30 E-value=59 Score=25.40 Aligned_cols=61 Identities=13% Similarity=0.197 Sum_probs=46.1
Q ss_pred EEEEecCcHHHHHHHHHHHHh--------------C-CCcccEEEEECCeecCCCCCccccC---CCCCCEEEEEeecc
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQ--------------S-VELNSIAFLFDGRRLRGEQTPDELE---MEDGDEIDAMLHQT 98 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~--------------g-~~~~~~~F~fdG~~L~~~~Tp~dl~---medgD~Idv~~~q~ 98 (105)
.+.-.+--..+||+...++++ . .+.+-+-++++|+.|.++.|.+... .+.+.-|.++.+..
T Consensus 251 rL~A~~mLrvkKI~~yV~ek~~~~~~~~~~~~~~~~~~p~e~lEl~C~gqvL~~~mtLaTVr~~~WK~~~di~L~YR~k 329 (331)
T PF11816_consen 251 RLNAPRMLRVKKILEYVAEKLEKTPESKTPEMKPKKLKPEEWLELLCNGQVLPPDMTLATVRTFIWKSSGDIVLHYRRK 329 (331)
T ss_pred eecccchhhhHHHHHHHHHHhccCccccCccccccCCCCCceEEEEeCCeEcCCcCCHHHHHHhhccCCCeEEEEEEec
Confidence 455556668999999999999 1 2346789999999999999887654 56666677666654
No 127
>KOG1364 consensus Predicted ubiquitin regulatory protein, contains UAS and UBX domains [Posttranslational modification, protein turnover, chaperones]
Probab=65.80 E-value=11 Score=30.19 Aligned_cols=68 Identities=12% Similarity=0.154 Sum_probs=47.8
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhC-CCcccEEEEECC---eec--CCCCCccccCCCCCCE
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS-VELNSIAFLFDG---RRL--RGEQTPDELEMEDGDE 90 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g-~~~~~~~F~fdG---~~L--~~~~Tp~dl~medgD~ 90 (105)
..-.|.|+..||+....+.-+++|.+.|+..|..... -+-..+++.+.= +.+ ..+.|.++++|.+-.+
T Consensus 276 vvt~i~vR~pdG~R~qrkf~~sepv~ll~~~~~s~~dg~~k~~FkLv~a~P~~k~l~~~~daT~~eaGL~nS~~ 349 (356)
T KOG1364|consen 276 VVTSIQVRFPDGRRKQRKFLKSEPVQLLWSFCYSHMDGSDKKRFKLVQAIPASKTLDYGADATFKEAGLANSET 349 (356)
T ss_pred ceeEEEEecCCccHHHHhhccccHHHHHHHHHHHhhcccccccceeeecccchhhhhccccchHHHhccCcccc
Confidence 3444889999998766666889999999988876664 444455655543 222 4688888888887654
No 128
>PF14453 ThiS-like: ThiS-like ubiquitin
Probab=65.75 E-value=20 Score=21.38 Aligned_cols=49 Identities=16% Similarity=0.266 Sum_probs=35.5
Q ss_pred EEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEee
Q 034043 37 VFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 37 ~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
..+.++..+++..|.+.+... .=.++++|.++. +++.|.+||.|-+..+
T Consensus 8 k~~~~~~~~tl~~lr~~~k~~------~DI~I~NGF~~~-----~d~~L~e~D~v~~Ikk 56 (57)
T PF14453_consen 8 KEIETEENTTLFELRKESKPD------ADIVILNGFPTK-----EDIELKEGDEVFLIKK 56 (57)
T ss_pred EEEEcCCCcCHHHHHHhhCCC------CCEEEEcCcccC-----CccccCCCCEEEEEeC
Confidence 356788888998888777653 225688998655 5678899998877643
No 129
>COG1977 MoaD Molybdopterin converting factor, small subunit [Coenzyme metabolism]
Probab=65.42 E-value=9.2 Score=23.99 Aligned_cols=53 Identities=21% Similarity=0.274 Sum_probs=34.8
Q ss_pred CcHHHHHHHHHHHHhCC---Ccc--cEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 44 STQLKKLMNAYCDRQSV---ELN--SIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 44 tt~l~kL~~~y~~~~g~---~~~--~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
-.+++.|.+.|.++... ... .+...-+.+.+.+.+| -|.|||+|-++.--.||
T Consensus 27 ~~tv~~L~~~l~~~~~~~~~~~~~~~~v~~~~~~~~~~~~t----~L~dGDeVa~~PPVsGG 84 (84)
T COG1977 27 GATVGELEELLPKEGERWLLALEDNIVVNAANNEFLVGLDT----PLKDGDEVAFFPPVSGG 84 (84)
T ss_pred HHHHHHHHHHHHhhhhhHHhccCccceEEeeeceeeccccc----cCCCCCEEEEeCCCCCC
Confidence 56899999999888762 222 1122223344444444 48999999999888776
No 130
>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=64.92 E-value=36 Score=25.51 Aligned_cols=46 Identities=13% Similarity=0.327 Sum_probs=34.7
Q ss_pred CcEEEEEEecC---CCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEE
Q 034043 23 AHINLKVKGQD---GNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL 68 (105)
Q Consensus 23 ~~I~I~v~~~~---g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~ 68 (105)
++|.|++.... ...+.+.+....+...|.++.+++.++++..+||+
T Consensus 175 nrv~V~f~~~~~~~~~~F~l~ls~~~tY~~la~~Va~~l~~dP~~lr~~ 223 (249)
T PF12436_consen 175 NRVEVEFKPKDNPNDPEFTLWLSKKMTYDQLAEKVAEHLNVDPEHLRFF 223 (249)
T ss_dssp HEEEEEEEETTSTT---EEEEEETT--HHHHHHHHHHHHTS-GGGEEEE
T ss_pred CeEEEEEEECCCCCCCCEEEEECCCCCHHHHHHHHHHHHCCChHHEEEE
Confidence 36777777643 23678999999999999999999999999999998
No 131
>COG5131 URM1 Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=64.88 E-value=36 Score=22.32 Aligned_cols=57 Identities=21% Similarity=0.242 Sum_probs=38.6
Q ss_pred CcHHHHHHHHHHHHhCCCcccEEEEECCeecCC---------CCC--ccccCCCCCCEEEEEeeccCC
Q 034043 44 STQLKKLMNAYCDRQSVELNSIAFLFDGRRLRG---------EQT--PDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 44 tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~---------~~T--p~dl~medgD~Idv~~~q~GG 100 (105)
.+++..+.++.+.....+....-|..+|+.... +.- -+++-++|||+|.+.-..-||
T Consensus 29 ~~~vg~liD~~~~~i~~p~~~sifie~g~lrpGiI~LINd~DWeLleke~y~ledgDiIvfistlHGg 96 (96)
T COG5131 29 GSSVGTLIDALRYFIYAPTRDSIFIEHGELRPGIICLINDMDWELLEKERYPLEDGDIIVFISTLHGG 96 (96)
T ss_pred CcchhhHHHHHHHHHhCCccceeeecCCCCcccEEEEEcCccHhhhhcccccCCCCCEEEEEecccCC
Confidence 457788888887766666555667767754331 111 245789999999988777665
No 132
>KOG2689 consensus Predicted ubiquitin regulatory protein [Posttranslational modification, protein turnover, chaperones]
Probab=64.71 E-value=43 Score=26.18 Aligned_cols=54 Identities=13% Similarity=0.148 Sum_probs=40.5
Q ss_pred CCCCCCCCCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEE
Q 034043 15 DKKPVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFL 68 (105)
Q Consensus 15 ~~~p~~~~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~ 68 (105)
.++|..+..+-+|.|+-+||..+.-.+...++|..|-.-..-..+....-+.|.
T Consensus 201 ~~spp~~ys~crlQiRl~DG~Tl~~tF~a~E~L~~VR~wVd~n~~~~~~P~~f~ 254 (290)
T KOG2689|consen 201 SQSPPTDYSQCRLQIRLPDGQTLTQTFNARETLAAVRLWVDLNRGDGLDPYSFH 254 (290)
T ss_pred ccCCCCcccceEEEEEcCCCCeeeeecCchhhHHHHHHHHHHhccCCCCCeeee
Confidence 444554556788888889999998889999999999777777777655445554
No 133
>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=64.71 E-value=35 Score=21.91 Aligned_cols=57 Identities=16% Similarity=0.218 Sum_probs=37.7
Q ss_pred cCcHHHHHHHHHHHHhCC-----------CcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCC
Q 034043 43 RSTQLKKLMNAYCDRQSV-----------ELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 43 ~tt~l~kL~~~y~~~~g~-----------~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG 100 (105)
...+++.|.+..++++.- -...+.++.||+.+.-- --.+.-++|||+|.++.-.-||
T Consensus 27 ~~~tV~dll~~L~~~~~~~~~~lf~~~g~lr~~i~VlvN~~di~~l-~g~~t~L~dgD~v~i~P~v~GG 94 (94)
T cd01764 27 KPVTVGDLLDYVASNLLEERPDLFIEGGSVRPGIIVLINDTDWELL-GEEDYILEDGDHVVFISTLHGG 94 (94)
T ss_pred CCCcHHHHHHHHHHhCchhhhhhEecCCcccCCEEEEECCcccccc-CCcccCCCCcCEEEEECCCCCC
Confidence 345888888888777631 02246677777765321 1234558999999999876665
No 134
>PF12143 PPO1_KFDV: Protein of unknown function (DUF_B2219); InterPro: IPR022740 This domain represents the C terminus of polyphenol oxidases. This region is primarily found in eukaryotes, although a few bacterial members also exist. It is typically between 138 and 152 amino acids in length and the family is found in association with PF00264 from PFAM and PF12142 from PFAM. Many members are plant or plastid polyphenol oxidases, and there is a highly conserved KFDV sequence motif. ; GO: 0004097 catechol oxidase activity, 0055114 oxidation-reduction process
Probab=64.16 E-value=4.6 Score=27.88 Aligned_cols=31 Identities=32% Similarity=0.338 Sum_probs=27.5
Q ss_pred eecCCCCCccccCCCCCCEEEEEeeccCCCC
Q 034043 72 RRLRGEQTPDELEMEDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 72 ~~L~~~~Tp~dl~medgD~Idv~~~q~GG~~ 102 (105)
-+|.-++..++|+.++.|.|.|.+=+++|+.
T Consensus 89 ~rlgitdlLedLga~~d~sIvVTLVPr~g~~ 119 (130)
T PF12143_consen 89 LRLGITDLLEDLGAEDDDSIVVTLVPRGGGD 119 (130)
T ss_pred EEEEhhHHHHHhCCCCCCEEEEEEEEccCCC
Confidence 3667788999999999999999999999874
No 135
>COG5100 NPL4 Nuclear pore protein [Nuclear structure]
Probab=64.02 E-value=37 Score=28.28 Aligned_cols=69 Identities=22% Similarity=0.295 Sum_probs=50.7
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCC--CcccEEEEE--C--Cee--cCCCCCccccCCCCCCEEEEEe
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV--ELNSIAFLF--D--GRR--LRGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~--~~~~~~F~f--d--G~~--L~~~~Tp~dl~medgD~Idv~~ 95 (105)
-+++++++|.. +..+.+++.|..|..+.-..+.. +++++.+-- + |.. +-.++||.+|+|..|+.+-+..
T Consensus 2 i~rfRsk~G~~-Rve~qe~d~lg~l~~kll~~~~~n~~~e~~svc~~p~~qG~~~s~l~dqt~~dlGL~hGqmLyl~y 78 (571)
T COG5100 2 IFRFRSKEGQR-RVEVQESDVLGMLSPKLLAFFEVNYSPEQISVCSAPDGQGEIFSLLKDQTPDDLGLRHGQMLYLEY 78 (571)
T ss_pred eEEEecCCCce-eeeccccchhhhhhHHHHhhhccCCCccceEEEeCCCCCceeeecccccChhhhccccCcEEEEEe
Confidence 46788888764 67889999999887777666544 455655433 2 332 3468999999999999988776
No 136
>cd06411 PB1_p51 The PB1 domain is present in the p51 protein, a homolog of the p67 protein. p51 plays an important role in NADPH oxidase activation during phagosytosis. The PB1 domain is a modular domain mediating specific protein-protein interaction in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain mo
Probab=62.81 E-value=22 Score=22.55 Aligned_cols=35 Identities=11% Similarity=0.139 Sum_probs=31.9
Q ss_pred EEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEEC
Q 034043 36 EVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFD 70 (105)
Q Consensus 36 ~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fd 70 (105)
.+.+++.+-.++..|-...++++.++.+..+|.|.
T Consensus 8 TVai~v~~g~~y~~L~~~ls~kL~l~~~~~~LSY~ 42 (78)
T cd06411 8 TVALRAPRGADVSSLRALLSQALPQQAQRGQLSYR 42 (78)
T ss_pred EEEEEccCCCCHHHHHHHHHHHhcCChhhcEEEec
Confidence 46788999999999999999999999999999984
No 137
>KOG1639 consensus Steroid reductase required for elongation of the very long chain fatty acids [Lipid transport and metabolism]
Probab=62.42 E-value=17 Score=28.23 Aligned_cols=55 Identities=15% Similarity=0.163 Sum_probs=41.4
Q ss_pred EEEecCcHHHHHHHHHHHHh-CC----CcccEEEEECCeecCCCCCccccCCCCCCEEEE
Q 034043 39 FRIKRSTQLKKLMNAYCDRQ-SV----ELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 39 ~~ik~tt~l~kL~~~y~~~~-g~----~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
.-+...+++..+..++.++. .+ .+.++++.-.|..|-+++|.++++...|++|-|
T Consensus 17 ~~~s~~~ti~d~~~~~~~~~~k~~~~~~r~tlr~e~kgkpl~~~s~l~e~~~~s~~~i~v 76 (297)
T KOG1639|consen 17 KDLSGSETIDDLLKAISAKNLKITPYRIRLTLRVEPKGKPLIDNSKLQEYGDGSGATIYV 76 (297)
T ss_pred ecCCCCCcHHHHHHHHHHhhhccCccchhheeeccCCCccccchhHHHHhccCCCCEEEE
Confidence 34455678888876665544 43 345677777899999999999999999987755
No 138
>KOG1363 consensus Predicted regulator of the ubiquitin pathway (contains UAS and UBX domains) [Signal transduction mechanisms]
Probab=62.21 E-value=24 Score=29.24 Aligned_cols=50 Identities=12% Similarity=0.140 Sum_probs=38.0
Q ss_pred CCCCCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE
Q 034043 19 VDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF 69 (105)
Q Consensus 19 ~~~~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f 69 (105)
..+.+.|+|.++.++|.....+++++++++.||+.+...- .....+.|..
T Consensus 378 a~~~~~~~l~iR~P~G~r~~RrF~~s~~~q~l~~~v~~~~-~~~~e~~~~~ 427 (460)
T KOG1363|consen 378 ASEEEAITVAIRLPSGTRLERRFLKSDKLQILYDYVDSNG-FHPEEYSLNT 427 (460)
T ss_pred cCcccceeeEEECCCCCeeeeeeecccchhHHHHHHHhcc-CCchhhcccc
Confidence 4445789999999999988889999999999998776655 4444444443
No 139
>KOG2982 consensus Uncharacterized conserved protein [Function unknown]
Probab=61.66 E-value=33 Score=27.77 Aligned_cols=58 Identities=17% Similarity=0.183 Sum_probs=45.0
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcccEEEEE---CCeec-----CCCCCccccCCCCCCEEEEEe
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF---DGRRL-----RGEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f---dG~~L-----~~~~Tp~dl~medgD~Idv~~ 95 (105)
...|..+-+.-.+|...-.+.|+.+..+++++ ||+.- .+|.-.-.+.+||||.|-|-.
T Consensus 351 s~~I~~~~TV~D~~~~Ld~~VGvk~trMkLf~L~eD~rt~~~ss~~~N~~L~~fkIedGDs~lvqe 416 (418)
T KOG2982|consen 351 SGLICMTRTVLDFMKILDPKVGVKFTRMKLFLLREDGRTDDFSSSDYNMPLHYFKIEDGDSFLVQE 416 (418)
T ss_pred ceEEEeehHHHHHHHHhccccccccceeEEEEEcccCccCCccccCCCCcceEEeccCCCEeeeec
Confidence 35566777889999999999999999999876 56543 356666677889999987754
No 140
>PHA01623 hypothetical protein
Probab=59.84 E-value=10 Score=22.33 Aligned_cols=28 Identities=25% Similarity=0.586 Sum_probs=24.5
Q ss_pred EEEEEEecCcHHHHHHHHHHHHhCCCcc
Q 034043 36 EVFFRIKRSTQLKKLMNAYCDRQSVELN 63 (105)
Q Consensus 36 ~~~~~ik~tt~l~kL~~~y~~~~g~~~~ 63 (105)
.+.|.|+-+..+.+-++.||...|+...
T Consensus 13 ~~r~sVrldeel~~~Ld~y~~~~g~~rS 40 (56)
T PHA01623 13 KAVFGIYMDKDLKTRLKVYCAKNNLQLT 40 (56)
T ss_pred ceeEEEEeCHHHHHHHHHHHHHcCCCHH
Confidence 4688899999999999999999998743
No 141
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=59.75 E-value=51 Score=27.55 Aligned_cols=68 Identities=12% Similarity=0.116 Sum_probs=56.0
Q ss_pred EEEEEecCCCEEEEE-EecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEE
Q 034043 26 NLKVKGQDGNEVFFR-IKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~-ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~ 94 (105)
.|.|+.. |+..... +..+.|-.-+........|++++..++++.|..+.++--+.-|.+.+|.+|.++
T Consensus 5 ~v~VKW~-gk~y~v~~l~~d~t~~vlKaqlf~LTgV~PeRQKv~vKGg~a~dd~~~~al~iKpn~~lmMm 73 (473)
T KOG1872|consen 5 TVIVKWG-GKKYPVETLSTDETPSVLKAQLFALTGVPPERQKVMVKGGLAKDDVDWGALQIKPNETLMMM 73 (473)
T ss_pred eEeeeec-CccccceeccCCCchHHHHHHHHHhcCCCccceeEEEecccccccccccccccCCCCEEEee
Confidence 3455543 4444444 788889999998889999999999999999999888889999999999999875
No 142
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=59.68 E-value=17 Score=21.29 Aligned_cols=45 Identities=24% Similarity=0.539 Sum_probs=31.9
Q ss_pred cCcHHHHHHHHHHHHhCCCcccEE--EEECCeecCCCCCccccCCCCCCEEEE
Q 034043 43 RSTQLKKLMNAYCDRQSVELNSIA--FLFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 43 ~tt~l~kL~~~y~~~~g~~~~~~~--F~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
...+|..|.+...++..++.. +| |.-+|++| .++++ ++||+..-+
T Consensus 7 ~~~s~e~lL~~it~~v~l~~g-Vr~lyt~~G~~V---~~l~~--l~dg~~yVa 53 (60)
T PF03607_consen 7 RFRSFEQLLDEITEKVQLPSG-VRKLYTLDGKRV---KSLDE--LEDGGSYVA 53 (60)
T ss_dssp THSSHHHHHHHHHHSSSSTTS--SEEEETTSSEE---SSGGG--S-TTEEEEE
T ss_pred hhcCHHHHHHHHHhhcCCCcc-cceEECCCCCEe---CCHHH--HCCCCEEEE
Confidence 345899999999999998855 65 44489888 55666 678876443
No 143
>PF00018 SH3_1: SH3 domain; InterPro: IPR001452 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The crystal structure of the SH3 domain of the cytoskeletal protein spectrin, and the solution structures of SH3 domains of phospholipase C (PLC-y) and phosphatidylinositol 3-kinase p85 alpha-subunit, have been determined [, , ]. In spite of relatively limited sequence similarity, their overall structures are similar. The domains belong to the alpha+beta structural class, with 5 to 8 beta-strands forming 2 tightly-packed, anti-parallel beta-sheets arranged in a barrel-like structure, and intervening loops sometimes forming helices. Conserved aliphatic and aromatic residues form a hydrophobic core (A11, L23, A29, V34, W42, L52 and V59 in PLC-y []) and a hydrophobic pocket on the molecular surface (L12, F13, W53 and P55 in PLC-y). The conserved core is believed to stabilise the fold, while the pocket is thought to serve as a binding site for target proteins. Conserved carboxylic amino acids located in the loops, on the periphery of the pocket (D14 and E22), may be involved in protein-protein interactions via proline-rich regions. The N- and C-termini are packed in close proximity, indicating that they are independent structural modules.; GO: 0005515 protein binding; PDB: 1UHF_A 1W1F_A 1WA7_A 1SEM_A 1KFZ_A 2SEM_B 1K76_A 3SEM_B 1X2Q_A 2J06_B ....
Probab=55.55 E-value=9.1 Score=21.03 Aligned_cols=24 Identities=33% Similarity=0.617 Sum_probs=18.9
Q ss_pred CCccccCCCCCCEEEEEeeccCCC
Q 034043 78 QTPDELEMEDGDEIDAMLHQTGGA 101 (105)
Q Consensus 78 ~Tp~dl~medgD~Idv~~~q~GG~ 101 (105)
..+.+|.++.||.|.|..+.-.|+
T Consensus 9 ~~~~eLs~~~Gd~i~v~~~~~~~W 32 (48)
T PF00018_consen 9 EDPDELSFKKGDIIEVLEKSDDGW 32 (48)
T ss_dssp SSTTBSEB-TTEEEEEEEESSSSE
T ss_pred CCCCEEeEECCCEEEEEEecCCCE
Confidence 448899999999999988776654
No 144
>PF12976 DUF3860: Domain of Unknown Function with PDB structure (DUF3860); InterPro: IPR024619 This protein family includes hypothetical protein (JCVI_PEP_1096688149193) whose crystal structure has been solved PDB:2OD5. The hypothetical protein is from an environmental metagenome (unidentified marine microbe).
Probab=55.44 E-value=3 Score=26.73 Aligned_cols=57 Identities=16% Similarity=0.275 Sum_probs=42.0
Q ss_pred CcHHHHHHHHHHHHhCCCcccEE-EEECCeecCCCCCccccCC---CCCCEEEEEeeccCCCC
Q 034043 44 STQLKKLMNAYCDRQSVELNSIA-FLFDGRRLRGEQTPDELEM---EDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 44 tt~l~kL~~~y~~~~g~~~~~~~-F~fdG~~L~~~~Tp~dl~m---edgD~Idv~~~q~GG~~ 102 (105)
++.|..++..|-.... .+++- .-+=...+.++.||+++.- .|.|++.|-....||..
T Consensus 3 s~~LR~~Ir~~L~ER~--~NT~EI~~~~~~~M~~~s~Pe~~~NiL~~D~~I~ri~T~rk~G~~ 63 (92)
T PF12976_consen 3 SQNLRDLIRNYLSERP--RNTIEISAWLASQMDPNSCPEDVTNILEADESIVRIGTVRKSGMR 63 (92)
T ss_pred hhHHHHHHHHHHhcCc--ccHHHHHHHHHhccCCCCCHHHHHHHHhccccceeeeeecccccc
Confidence 5678888888877763 33321 1223457789999999973 78889999998889876
No 145
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=54.89 E-value=25 Score=25.67 Aligned_cols=56 Identities=14% Similarity=0.275 Sum_probs=45.3
Q ss_pred EEEEecCc-HHHHHHHHHHHHhCCCcccEEEEECCeecC----CCCCccccCCCCCCEEEE
Q 034043 38 FFRIKRST-QLKKLMNAYCDRQSVELNSIAFLFDGRRLR----GEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 38 ~~~ik~tt-~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~----~~~Tp~dl~medgD~Idv 93 (105)
.+.|.+.. .+..|..+|.+.+--....+||...|.-+. ++.+.-.+-++.||.|.|
T Consensus 70 vvsv~~~~pk~del~akF~~EH~H~d~EvRy~vaG~GiF~v~~~d~~~~~i~c~~gDLI~v 130 (181)
T COG1791 70 VVSVSPSNPKLDELRAKFLQEHLHTDDEVRYFVAGEGIFDVHSPDGKVYQIRCEKGDLISV 130 (181)
T ss_pred EEEeCCCCccHHHHHHHHHHHhccCCceEEEEEecceEEEEECCCCcEEEEEEccCCEEec
Confidence 45566654 789999999999998889999999998663 455788899999998865
No 146
>cd06395 PB1_Map2k5 PB1 domain is essential part of the mitogen-activated protein kinase kinase 5 (Map2k5, alias MEK5) one of the key member of the signaling kinases cascade which involved in angiogenesis and early cardiovascular development. The PB1 domain of Map2k5 interacts with the PB1 domain of another members of kinase cascade MEKK2 (or MEKK3). A canonical PB1-PB1 interaction, involving heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. The Map2k5 protein contains a type I PB1 domain.
Probab=54.57 E-value=44 Score=21.58 Aligned_cols=55 Identities=20% Similarity=0.309 Sum_probs=35.8
Q ss_pred EEEEEEecCCCEEEEEEe--cCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEE
Q 034043 25 INLKVKGQDGNEVFFRIK--RSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik--~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~ 94 (105)
|.|+++.++|..+--.|. +.-.|..|.++..+...- .+.|+=+++=|+||.|.|.
T Consensus 1 lVIRIk~p~gg~vDw~V~~~~~L~F~DvL~~I~~vlp~---------------aT~tAFeYEDE~gDRITVR 57 (91)
T cd06395 1 LVIRIKIPNGGAVDWTVQSGPQLLFRDVLDVIGQVLPE---------------ATTTAFEYEDEDGDRITVR 57 (91)
T ss_pred CeEEEeCCCCCcccccccCcccccHHHHHHHHHHhccc---------------ccccceeeccccCCeeEec
Confidence 356677778776654555 556788888887765431 2344455566788888775
No 147
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=53.21 E-value=58 Score=20.87 Aligned_cols=50 Identities=18% Similarity=0.284 Sum_probs=38.1
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcc-cEEEEE---CCeecC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN-SIAFLF---DGRRLR 75 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~-~~~F~f---dG~~L~ 75 (105)
|+||+. .+|..+...+.+..++..|.+...+......+ .+++.| +|..+.
T Consensus 1 i~~K~~-y~gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~t 54 (83)
T cd06404 1 VRVKAA-YNGDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCT 54 (83)
T ss_pred CeEEEE-ecCcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCcee
Confidence 456654 36788889999999999999999999998664 577666 255543
No 148
>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=52.85 E-value=39 Score=22.92 Aligned_cols=61 Identities=25% Similarity=0.324 Sum_probs=36.7
Q ss_pred CEEEEEEecCcHHHHHHHHHHHHhCCC-----cccEEEEE-C----------------Cee-cCCCCCccccCCCCCCEE
Q 034043 35 NEVFFRIKRSTQLKKLMNAYCDRQSVE-----LNSIAFLF-D----------------GRR-LRGEQTPDELEMEDGDEI 91 (105)
Q Consensus 35 ~~~~~~ik~tt~l~kL~~~y~~~~g~~-----~~~~~F~f-d----------------G~~-L~~~~Tp~dl~medgD~I 91 (105)
+++.+..=++.+|+.|.....+..--. .=.+++.| | |.+ -.++.|.+++...-||.|
T Consensus 37 ~elqIYtW~d~TLrEL~~Lik~~~~~~r~~~tr~~F~~VypD~~~~r~~~kdlGsv~~g~~~~d~~kTL~~~~F~iGDyi 116 (120)
T PF06487_consen 37 NELQIYTWMDATLRELADLIKDVNPPARRRGTRLSFRLVYPDTRSGRYVSKDLGSVVSGRKGPDDNKTLADLRFVIGDYI 116 (120)
T ss_dssp TEEEEEE-TT-BHHHHHHHHHHH-HHHHSTT-EEEEEEEEECTTTTCEEEEEEEEEETTB--TTTTSBCGGGT--TT-EE
T ss_pred CeeEEEEcccCCHHHHHHHHHHhCcccCCCCCEEEEEEEeecCCCCceeeecCCeEECCCCCCCcccCHhhCCcccCCEE
Confidence 467777888999999987776632210 01334444 3 222 357899999999999999
Q ss_pred EEEe
Q 034043 92 DAML 95 (105)
Q Consensus 92 dv~~ 95 (105)
+|.|
T Consensus 117 dvaI 120 (120)
T PF06487_consen 117 DVAI 120 (120)
T ss_dssp EEEE
T ss_pred EEeC
Confidence 9975
No 149
>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=52.26 E-value=48 Score=20.49 Aligned_cols=49 Identities=12% Similarity=0.219 Sum_probs=29.5
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcccEEE--------EECCeecCCCCCccccCCCCCCEEEEE
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNSIAF--------LFDGRRLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F--------~fdG~~L~~~~Tp~dl~medgD~Idv~ 94 (105)
.+-+++.++...+-.+...... +.+++ .|.|+++ +.+..|+|||+|+++
T Consensus 18 ~liL~~GaTV~D~a~~iH~di~---~~f~~A~v~g~s~~~~gq~V-----gl~~~L~d~DvVeI~ 74 (75)
T cd01666 18 PVILRRGSTVEDVCNKIHKDLV---KQFKYALVWGSSVKHSPQRV-----GLDHVLEDEDVVQIV 74 (75)
T ss_pred CEEECCCCCHHHHHHHHHHHHH---HhCCeeEEeccCCcCCCeEC-----CCCCEecCCCEEEEe
Confidence 4566777777776555554332 22221 2355554 556678999999986
No 150
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=51.96 E-value=4.6 Score=23.44 Aligned_cols=45 Identities=13% Similarity=0.134 Sum_probs=24.5
Q ss_pred CcHHHHHHHHHHHHhCC--CcccEEEE-------ECCeecCCCCCccccCCCCCCEEEE
Q 034043 44 STQLKKLMNAYCDRQSV--ELNSIAFL-------FDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 44 tt~l~kL~~~y~~~~g~--~~~~~~F~-------fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
.++..+|-...++. ++ +...++.+ .||..+. ..+.-+..||+|.+
T Consensus 5 ~~~~~rLd~~L~~~-~~~~SR~~~k~li~~G~V~VNg~~~~----~~~~~l~~Gd~v~i 58 (59)
T TIGR02988 5 FTEYITLGQLLKEL-GIIDSGGQAKWFLQENEVLVNGELEN----RRGKKLYPGDVIEI 58 (59)
T ss_pred cchHHHHHHHHHHc-CCccCHHHHHHHHHcCCEEECCEEcc----CCCCCCCCCCEEEe
Confidence 34555564333333 65 54433333 3554432 34678899999875
No 151
>PF01982 CTP-dep_RFKase: Domain of unknown function DUF120; InterPro: IPR023602 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents a CTP-dependent riboflavin kinase domain, found primarily in archaea, that catalyses the phosphorylation of riboflavin to form flavin mononucleotide in riboflavin biosynthesis. Its structure resembles a RIFT barrel, structurally similar to but topologically distinct from bacterial and eukaryotic examples []. The N-terminal is a winged helix-turn-helix DNA-binding domain, and the C-terminal half is most similar in sequence to a group of cradle-loop barrels.; GO: 0016773 phosphotransferase activity, alcohol group as acceptor; PDB: 2VBV_A 2VBU_A 2VBS_A 2VBT_A 2P3M_A 2OYN_A 3CTA_A.
Probab=51.67 E-value=9.6 Score=26.07 Aligned_cols=15 Identities=40% Similarity=0.824 Sum_probs=9.4
Q ss_pred cccCCCCCCEEEEEe
Q 034043 81 DELEMEDGDEIDAML 95 (105)
Q Consensus 81 ~dl~medgD~Idv~~ 95 (105)
+.|+|+|||.|.|.+
T Consensus 107 ~~L~L~DGD~V~v~V 121 (121)
T PF01982_consen 107 DTLGLKDGDEVEVEV 121 (121)
T ss_dssp HHTT--TT-EEEEEE
T ss_pred hhcCCCCCCEEEEEC
Confidence 458999999998864
No 152
>KOG4225 consensus Sorbin and SH3 domain-containing protein [Signal transduction mechanisms]
Probab=50.87 E-value=11 Score=31.22 Aligned_cols=25 Identities=44% Similarity=0.623 Sum_probs=20.7
Q ss_pred CCccccCCCCCCEEEEEeeccCCCC
Q 034043 78 QTPDELEMEDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 78 ~Tp~dl~medgD~Idv~~~q~GG~~ 102 (105)
+.+++|.|.+||+|+|+.+.==||-
T Consensus 444 qnedeLEl~egDii~VmeKcddgWf 468 (489)
T KOG4225|consen 444 QNEDELELREGDIIDVMEKCDDGWF 468 (489)
T ss_pred CCchhheeccCCEEeeeecccCcce
Confidence 4567899999999999998766653
No 153
>KOG3938 consensus RGS-GAIP interacting protein GIPC, contains PDZ domain [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=50.63 E-value=1.1e+02 Score=24.23 Aligned_cols=50 Identities=12% Similarity=0.183 Sum_probs=39.1
Q ss_pred CCCCCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE
Q 034043 19 VDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF 69 (105)
Q Consensus 19 ~~~~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f 69 (105)
....+.+..+.+-.-|.+. =+|..-+.++.|+.+.++.+.++...+-|.-
T Consensus 48 ~~~~p~LvF~~QLAHGSpt-g~Ie~fsnv~ELY~kIAe~F~Is~~dIlfcT 97 (334)
T KOG3938|consen 48 PAVRPRLVFHCQLAHGSPT-GRIEGFSNVRELYQKIAEAFDISPDDILFCT 97 (334)
T ss_pred ccCCCceeEeeeeccCCcc-ceecccccHHHHHHHHHHHhcCCccceEEEe
Confidence 3345677777776677764 3688889999999999999999988877653
No 154
>cd02790 MopB_CT_Formate-Dh_H Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is a monomer composed of a single polypeptide chain with a Mo active site region and a [4Fe-4S] center. This CD (MopB_CT_Formate-Dh_H) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=49.70 E-value=7.8 Score=24.76 Aligned_cols=21 Identities=19% Similarity=0.435 Sum_probs=17.6
Q ss_pred CCCCccccCCCCCCEEEEEee
Q 034043 76 GEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~~ 96 (105)
..++.+.+++++||.|.|.-.
T Consensus 40 n~~dA~~lgi~~Gd~V~v~~~ 60 (116)
T cd02790 40 NPEDAKRLGIEDGEKVRVSSR 60 (116)
T ss_pred CHHHHHHcCCCCCCEEEEEcC
Confidence 457899999999999988743
No 155
>cd00508 MopB_CT_Fdh-Nap-like This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. Formate dehydrogenase N (alpha subunit) is the major electron donor to the bacterial nitrate respiratory chain and nitrate reductases, Nap and Nas, catalyze the reduction of nitrate to nitrite. This CD (MopB_CT_Fdh-Nap-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=49.48 E-value=7.8 Score=24.81 Aligned_cols=20 Identities=20% Similarity=0.330 Sum_probs=16.9
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
..++.+.|++++||.|.|.-
T Consensus 40 np~dA~~lgi~~Gd~V~v~~ 59 (120)
T cd00508 40 HPEDAARLGIKDGDLVRVSS 59 (120)
T ss_pred CHHHHHHcCCCCCCEEEEEe
Confidence 34689999999999998874
No 156
>cd06397 PB1_UP1 Uncharacterized protein 1. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions.
Probab=48.76 E-value=70 Score=20.49 Aligned_cols=43 Identities=7% Similarity=0.023 Sum_probs=34.6
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF 69 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f 69 (105)
+.|++ .+|...+|.+...-++..|.++.+.-++++...+-+.|
T Consensus 2 ~fKv~-~~g~~RRf~~~~~pt~~~L~~kl~~Lf~lp~~~~~vtY 44 (82)
T cd06397 2 QFKSS-FLGDTRRIVFPDIPTWEALASKLENLYNLPEIKVGVTY 44 (82)
T ss_pred eEEEE-eCCceEEEecCCCccHHHHHHHHHHHhCCChhHeEEEE
Confidence 45664 35666678888888999999999999999987787777
No 157
>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=48.33 E-value=47 Score=21.90 Aligned_cols=46 Identities=17% Similarity=0.234 Sum_probs=33.3
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcccEEEEE-CCeecCCCCCcccc
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DGRRLRGEQTPDEL 83 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f-dG~~L~~~~Tp~dl 83 (105)
.|-|-.+.++..++....++..++.++--|+| ++..+..+.|..++
T Consensus 36 KfLvp~~~tv~qf~~~ir~rl~l~~~~alfl~Vn~~lp~~s~tm~el 82 (104)
T PF02991_consen 36 KFLVPKDLTVGQFVYIIRKRLQLSPEQALFLFVNNTLPSTSSTMGEL 82 (104)
T ss_dssp EEEEETTSBHHHHHHHHHHHTT--TTS-EEEEBTTBESSTTSBHHHH
T ss_pred EEEEcCCCchhhHHHHhhhhhcCCCCceEEEEEcCcccchhhHHHHH
Confidence 57789999999999999999999877655554 66555666676654
No 158
>cd02792 MopB_CT_Formate-Dh-Na-like Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the major electron donor to the nitrate respiratory chain. Also included in this CD is the Desulfovibrio gigas tungsten formate dehydrogenase, DgW-FDH. In contrast to Fdh-N, which is a functional heterotrimer, DgW-FDH is a heterodimer. The DgW-FDH complex is composed of a large subunit carrying the W active site and one [4Fe-4S] center, and a small subunit that harbors a series of three [4Fe-4S] clusters as well as a putative vacant binding site for a fourth cluster. The smaller subunit is not included in this alignment. This CD (MopB_CT_Formate-Dh-Na-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=47.82 E-value=8.5 Score=24.88 Aligned_cols=20 Identities=15% Similarity=0.179 Sum_probs=16.7
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
..++.+.|++++||.|.|.-
T Consensus 40 ~p~dA~~lgi~~Gd~V~v~s 59 (122)
T cd02792 40 SPELAAERGIKNGDMVWVSS 59 (122)
T ss_pred CHHHHHHcCCCCCCEEEEEc
Confidence 45689999999999998763
No 159
>PRK14132 riboflavin kinase; Provisional
Probab=46.76 E-value=19 Score=24.79 Aligned_cols=18 Identities=22% Similarity=0.484 Sum_probs=13.6
Q ss_pred CCccccCCCCCCEEEEEe
Q 034043 78 QTPDELEMEDGDEIDAML 95 (105)
Q Consensus 78 ~Tp~dl~medgD~Idv~~ 95 (105)
.-=+.|+|+|||+|.+.+
T Consensus 109 ~LR~~L~LkDGD~V~I~i 126 (126)
T PRK14132 109 KLRKFLNLKDGDVVKIVI 126 (126)
T ss_pred chHhhcCCCCCCEEEEEC
Confidence 333568999999998764
No 160
>cd02786 MopB_CT_3 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=45.66 E-value=9.5 Score=24.51 Aligned_cols=19 Identities=16% Similarity=0.221 Sum_probs=16.0
Q ss_pred CCCCccccCCCCCCEEEEE
Q 034043 76 GEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~ 94 (105)
..++.+.|+++|||.|.|.
T Consensus 36 ~p~dA~~lgi~~Gd~V~v~ 54 (116)
T cd02786 36 HPADAAARGIADGDLVVVF 54 (116)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 4577889999999998776
No 161
>cd01669 TGS_Ygr210_C TGS_Ygr210_C: The C-terminal TGS domain of Ygr210 GTP-binding protein which is a member of Obg-like family of GTPases, and present in archaea. Several Obg-like family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. 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=45.46 E-value=59 Score=20.07 Aligned_cols=52 Identities=17% Similarity=0.296 Sum_probs=29.1
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEE
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~ 94 (105)
.+.+++.++....-.+....++- .++.-...+ .+...+.+.-|+|||+|+++
T Consensus 24 ~~~l~~GaTv~D~A~~IHtdi~~---~f~~Ai~~k--~~~~vg~~~~L~dgDvV~Ii 75 (76)
T cd01669 24 AFLLPKGSTARDLAYAIHTDIGD---GFLHAIDAR--TGRRVGEDYELKHRDVIKIV 75 (76)
T ss_pred eEEECCCCCHHHHHHHHHHHHHh---cceeeEEee--CCEEeCCCcEecCCCEEEEe
Confidence 35566667666655444444432 211111111 34455667789999999986
No 162
>TIGR03028 EpsE polysaccharide export protein EpsE. Sequences in this family of proteins are members of a polysaccharide export protein family (pfam02563) which includes the wza protein from E.coli. This family of proteins are homologous to the EpsE protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=45.07 E-value=1e+02 Score=22.71 Aligned_cols=54 Identities=9% Similarity=0.142 Sum_probs=34.1
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcc--c---EEEEECCee----------cCCCCCccccCCCCCCEEEEE
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELN--S---IAFLFDGRR----------LRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~--~---~~F~fdG~~----------L~~~~Tp~dl~medgD~Idv~ 94 (105)
.|.+... ..|.++.+..=|+... . ++..-+|.. +...++..++-|++||+|.|-
T Consensus 92 ~~~l~~~---~tl~~ai~~AGG~~~~~~~~~~i~~~~~g~~~~~~idl~~l~~~g~~~~ni~L~~GD~I~V~ 160 (239)
T TIGR03028 92 RYPLETA---GRVSDVLALAGGVTPDGADVITLVREREGKIFRKQIDFPALFNPGGDNENILVAGGDIIYVD 160 (239)
T ss_pred eEEcCCC---CcHHHHHHHcCCCCccCCCeEEEEEecCCeEEEEEEEHHHHHhcCCCcCCcEEcCCCEEEEc
Confidence 4566555 5566777776666432 2 233335654 234567789999999999774
No 163
>PF10787 YfmQ: Uncharacterised protein from bacillus cereus group; InterPro: IPR019723 This entry represents proteins conserved in the Bacillus cereus group. Several members are called YfmQ but the function is not known.
Probab=44.61 E-value=22 Score=25.16 Aligned_cols=40 Identities=18% Similarity=0.328 Sum_probs=32.9
Q ss_pred EEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCC
Q 034043 39 FRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQ 78 (105)
Q Consensus 39 ~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~ 78 (105)
+..-|+.-.+.|+..|+-.-.++.+.....+||.+|.+.+
T Consensus 19 vt~lPt~vVe~liskfe~H~kL~~~~~tVti~G~~Lege~ 58 (149)
T PF10787_consen 19 VTSLPTSVVEWLISKFELHPKLDEENTTVTIDGKRLEGED 58 (149)
T ss_pred eecCcHHHHHHHHHHheecccccccceEEEECCeecCchH
Confidence 3444777889999999988888888999999999998654
No 164
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=44.40 E-value=17 Score=20.52 Aligned_cols=22 Identities=32% Similarity=0.650 Sum_probs=15.6
Q ss_pred CCccccCCCCCCEEEEE-eeccC
Q 034043 78 QTPDELEMEDGDEIDAM-LHQTG 99 (105)
Q Consensus 78 ~Tp~dl~medgD~Idv~-~~q~G 99 (105)
..|..|.++-||+|.|. .+-.+
T Consensus 11 ~~~~~Ls~~~Gd~i~v~~~~~~~ 33 (55)
T PF07653_consen 11 EDPDELSFKKGDVIEVLGEKDDD 33 (55)
T ss_dssp SSTTB-EB-TTEEEEEEEEECST
T ss_pred CCCCceEEecCCEEEEEEeecCC
Confidence 67888999999999998 44333
No 165
>PRK11433 aldehyde oxidoreductase 2Fe-2S subunit; Provisional
Probab=44.36 E-value=1.3e+02 Score=22.57 Aligned_cols=64 Identities=25% Similarity=0.349 Sum_probs=41.5
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc-------ccEEEEECCeecCCCCCccccCCCCCCEE
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-------NSIAFLFDGRRLRGEQTPDELEMEDGDEI 91 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~-------~~~~F~fdG~~L~~~~Tp~dl~medgD~I 91 (105)
..|+|+| ||..+.+.+.+.++|....+......|... ...+.++||+++..-.||. -+.+|..|
T Consensus 50 ~~i~~~V---NG~~~~~~v~~~~tLLd~LR~~l~ltGtK~GC~~G~CGACTVlVdG~~v~SCl~la--~~~~G~~I 120 (217)
T PRK11433 50 SPVTLKV---NGKTEQLEVDTRTTLLDALREHLHLTGTKKGCDHGQCGACTVLVNGRRLNACLTLA--VMHQGAEI 120 (217)
T ss_pred ceEEEEE---CCEEEEEecCCCCcHHHHHHHhcCCCCCCCCCCCCCcCceEEEECCEEeeeeeeeh--hhcCCCEE
Confidence 4566665 677788889999998877766444444332 3567788999887555553 23455544
No 166
>PF14604 SH3_9: Variant SH3 domain; PDB: 2CRE_A 2E5K_A 2CT3_A 2DE0_X 2D8H_A 2DA9_A 2X3X_E 2X3W_D 2KRN_A 2ED0_A ....
Probab=44.06 E-value=16 Score=20.37 Aligned_cols=23 Identities=39% Similarity=0.683 Sum_probs=15.9
Q ss_pred CCccccCCCCCCEEEEEeeccCC
Q 034043 78 QTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 78 ~Tp~dl~medgD~Idv~~~q~GG 100 (105)
..+.+|.+..||+|.|..+.-.|
T Consensus 8 ~~~dELs~~~Gd~i~v~~~~~~~ 30 (49)
T PF14604_consen 8 QDPDELSFKKGDVITVLEKSDDG 30 (49)
T ss_dssp SSTTB-EB-TTEEEEEEEESSTS
T ss_pred CCcCEeeEcCCCEEEEEEeCCCC
Confidence 45779999999999999654433
No 167
>PF08620 RPAP1_C: RPAP1-like, C-terminal; InterPro: IPR013929 Inhibition of RNA polymerase II-associated protein 1 (RPAP1) synthesis in Saccharomyces cerevisiae (Baker's yeast) results in changes in global gene expression that are similar to those caused by the loss of the RNAPII subunit Rpb11 []. This entry represents the C-terminal region that contains the motif GLHHH. This region is conserved from yeast to humans.
Probab=43.59 E-value=15 Score=22.87 Aligned_cols=11 Identities=45% Similarity=0.782 Sum_probs=10.2
Q ss_pred cEEEEECCeec
Q 034043 64 SIAFLFDGRRL 74 (105)
Q Consensus 64 ~~~F~fdG~~L 74 (105)
++||-|+|..|
T Consensus 2 ~~RFdf~G~l~ 12 (73)
T PF08620_consen 2 ELRFDFDGNLL 12 (73)
T ss_pred CccccCCCCEe
Confidence 68999999999
No 168
>COG0179 MhpD 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=43.38 E-value=1.2e+02 Score=23.29 Aligned_cols=48 Identities=15% Similarity=0.262 Sum_probs=36.8
Q ss_pred cCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCcccc-CCCCCCEEEEEeeccC
Q 034043 43 RSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDEL-EMEDGDEIDAMLHQTG 99 (105)
Q Consensus 43 ~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl-~medgD~Idv~~~q~G 99 (105)
+..++..|+...++-+.+.+..+-+. -||.-. -|++||+|++-++..|
T Consensus 208 Mi~~i~~lI~~lS~~~tL~pGDvI~T---------GTP~Gvg~l~~GD~v~~~iegiG 256 (266)
T COG0179 208 MIFSIPELIAYLSRFMTLEPGDVILT---------GTPSGVGFLKPGDVVEVEIEGIG 256 (266)
T ss_pred cccCHHHHHHHHhCCcccCCCCEEEe---------CCCCCcccCCCCCEEEEEeccee
Confidence 34578889998888888888776554 344444 5899999999998876
No 169
>COG4841 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=43.37 E-value=23 Score=23.22 Aligned_cols=21 Identities=29% Similarity=0.689 Sum_probs=16.0
Q ss_pred cccCCCCCCEEEEEeeccCCCC
Q 034043 81 DELEMEDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 81 ~dl~medgD~Idv~~~q~GG~~ 102 (105)
++++|++|+-|.++ -..|||+
T Consensus 15 ~E~~l~~g~~vrff-vRyGG~~ 35 (95)
T COG4841 15 EELDLEEGNKVRFF-VRYGGCS 35 (95)
T ss_pred HhcCCCCCCEEEEE-EEEcCcc
Confidence 47899999999954 4567764
No 170
>cd02791 MopB_CT_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. This CD (MopB_CT_Nitrate-R-Nap) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs
Probab=42.48 E-value=11 Score=24.24 Aligned_cols=20 Identities=15% Similarity=0.315 Sum_probs=16.6
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
..++.+.+++++||.|.|.-
T Consensus 40 n~~dA~~lgi~~Gd~V~v~~ 59 (122)
T cd02791 40 HPEDAARLGLKEGDLVRVTS 59 (122)
T ss_pred CHHHHHHcCCCCCCEEEEEc
Confidence 44689999999999988763
No 171
>PF04194 PDCD2_C: Programmed cell death protein 2, C-terminal putative domain ; InterPro: IPR007320 PDCD2 is localized predominantly in the cytosol of cells situated at the opposite pole of the germinal centre from the centroblasts as well as in cells in the mantle zone. It has been shown to interact with BCL6, an evolutionarily conserved Kruppel-type zinc finger protein that functions as a strong transcriptional repressor and is required for germinal centre development. The rat homologue, Rp8, is associated with programmed cell death in thymocytes.; GO: 0005737 cytoplasm
Probab=42.36 E-value=30 Score=24.36 Aligned_cols=41 Identities=17% Similarity=0.196 Sum_probs=31.4
Q ss_pred cCcHHHHHHHHHHHHhCCCccc-EEEEECCeecCCCCCcccc
Q 034043 43 RSTQLKKLMNAYCDRQSVELNS-IAFLFDGRRLRGEQTPDEL 83 (105)
Q Consensus 43 ~tt~l~kL~~~y~~~~g~~~~~-~~F~fdG~~L~~~~Tp~dl 83 (105)
......+.|.+|.++....+++ ||+-|+|.+|-.+.++...
T Consensus 52 ~~~~~D~~f~~F~~rl~~~P~QvlRY~~gG~PLw~s~~~~~~ 93 (164)
T PF04194_consen 52 EEDEVDKAFLKFQKRLSRNPEQVLRYCRGGKPLWISSTPIPP 93 (164)
T ss_pred cccccCHHHHHHHHHHhcCCCeEEEECCCCeEEEecCCCCCc
Confidence 3455668899999999987776 6899999999766655543
No 172
>PF01568 Molydop_binding: Molydopterin dinucleotide binding domain; InterPro: IPR006657 A domain in this entry corresponds to the C-terminal domain IV in dimethyl sulphoxide (DMSO)reductase which interacts with the 2-amino pyrimidone ring of both molybdopterin guanine dinucleotide molecules [].; GO: 0016491 oxidoreductase activity, 0030151 molybdenum ion binding, 0055114 oxidation-reduction process; PDB: 2IVF_A 1OGY_G 3ML1_A 3O5A_A 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E ....
Probab=41.90 E-value=12 Score=23.69 Aligned_cols=19 Identities=21% Similarity=0.359 Sum_probs=13.9
Q ss_pred CCCccccCCCCCCEEEEEe
Q 034043 77 EQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 77 ~~Tp~dl~medgD~Idv~~ 95 (105)
..+++.++++|||.|.|.-
T Consensus 36 p~dA~~~Gi~~Gd~V~v~s 54 (110)
T PF01568_consen 36 PEDAAKLGIKDGDWVRVSS 54 (110)
T ss_dssp HHHHHHCT--TTCEEEEEE
T ss_pred HHHHHHhcCcCCCEEEEEe
Confidence 4678899999999998863
No 173
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=41.76 E-value=43 Score=24.48 Aligned_cols=35 Identities=14% Similarity=0.159 Sum_probs=24.5
Q ss_pred CEEEEEEecCcHHHHHHHHHHHHhCCCc---ccEEEEE
Q 034043 35 NEVFFRIKRSTQLKKLMNAYCDRQSVEL---NSIAFLF 69 (105)
Q Consensus 35 ~~~~~~ik~tt~l~kL~~~y~~~~g~~~---~~~~F~f 69 (105)
.++.|.|++..+|..+.+...++.|++. +.++|.+
T Consensus 133 iPF~f~v~~gE~f~~tK~Rl~~rlgv~~keF~K~Kfai 170 (213)
T PF14533_consen 133 IPFLFVVKPGETFSDTKERLQKRLGVSDKEFEKWKFAI 170 (213)
T ss_dssp EEEEEEEETT--HHHHHHHHHHHH---HHHHTT-EEEE
T ss_pred CCEEEEeeCCCcHHHHHHHHHHHhCCChhhheeEEEEE
Confidence 3568999999999999999999999863 5667765
No 174
>KOG3309 consensus Ferredoxin [Energy production and conversion]
Probab=40.96 E-value=91 Score=22.35 Aligned_cols=50 Identities=16% Similarity=0.268 Sum_probs=35.9
Q ss_pred CCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc----------ccEEEEECCeecC
Q 034043 22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL----------NSIAFLFDGRRLR 75 (105)
Q Consensus 22 ~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~----------~~~~F~fdG~~L~ 75 (105)
.+.|+|..++.||.++.++.+--+++..+... .|++. +++-++++-..+.
T Consensus 41 ~e~i~Itfv~~dG~~~~i~g~vGdtlLd~ah~----n~idleGACEgslACSTCHViv~~~~ye 100 (159)
T KOG3309|consen 41 VEDIKITFVDPDGEEIKIKGKVGDTLLDAAHE----NNLDLEGACEGSLACSTCHVIVDEEYYE 100 (159)
T ss_pred CceEEEEEECCCCCEEEeeeecchHHHHHHHH----cCCCccccccccccccceEEEEcHHHHh
Confidence 44599999999999999999998888776543 34332 3566666655443
No 175
>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=40.91 E-value=73 Score=18.46 Aligned_cols=59 Identities=15% Similarity=0.247 Sum_probs=35.5
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEE
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~ 94 (105)
|+|..++|+... +....+...+........+ -+.+-=..+|+++..+ .-|+++|+|+++
T Consensus 1 I~v~lpdG~~~~--~~~g~T~~d~A~~I~~~l~--~~~~~A~Vng~~vdl~-----~~L~~~d~v~ii 59 (60)
T PF02824_consen 1 IRVYLPDGSIKE--LPEGSTVLDVAYSIHSSLA--KRAVAAKVNGQLVDLD-----HPLEDGDVVEII 59 (60)
T ss_dssp EEEEETTSCEEE--EETTBBHHHHHHHHSHHHH--HCEEEEEETTEEEETT-----SBB-SSEEEEEE
T ss_pred CEEECCCCCeee--CCCCCCHHHHHHHHCHHHH--hheeEEEEcCEECCCC-----CCcCCCCEEEEE
Confidence 344558888766 4555556555554444433 2345566788766543 457899999876
No 176
>smart00326 SH3 Src homology 3 domains. Src homology 3 (SH3) domains bind to target proteins through sequences containing proline and hydrophobic amino acids. Pro-containing polypeptides may bind to SH3 domains in 2 different binding orientations.
Probab=40.89 E-value=42 Score=17.79 Aligned_cols=24 Identities=38% Similarity=0.594 Sum_probs=19.3
Q ss_pred CCccccCCCCCCEEEEEeeccCCC
Q 034043 78 QTPDELEMEDGDEIDAMLHQTGGA 101 (105)
Q Consensus 78 ~Tp~dl~medgD~Idv~~~q~GG~ 101 (105)
..+.+|.++-||.|.+.-+...|+
T Consensus 14 ~~~~~l~~~~Gd~v~v~~~~~~~w 37 (58)
T smart00326 14 QDPDELSFKKGDIITVLEKSDDGW 37 (58)
T ss_pred CCCCCCCCCCCCEEEEEEcCCCCe
Confidence 567889999999999997764544
No 177
>cd02794 MopB_CT_DmsA-EC The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=40.70 E-value=13 Score=24.25 Aligned_cols=21 Identities=14% Similarity=0.218 Sum_probs=16.7
Q ss_pred CCCCccccCCCCCCEEEEEee
Q 034043 76 GEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~~ 96 (105)
..++.+.++++|||.|.|.-.
T Consensus 35 ~p~~A~~~gi~~Gd~V~v~s~ 55 (121)
T cd02794 35 NPLDAAARGIKDGDRVLVFND 55 (121)
T ss_pred CHHHHHHcCCCCCCEEEEEcC
Confidence 345699999999999987643
No 178
>cd02787 MopB_CT_ydeP The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=40.69 E-value=12 Score=24.02 Aligned_cols=21 Identities=19% Similarity=0.297 Sum_probs=16.9
Q ss_pred CCCCccccCCCCCCEEEEEee
Q 034043 76 GEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~~ 96 (105)
..++.+.|+++|||.|.|.-.
T Consensus 36 ~p~dA~~lgI~dGd~V~v~s~ 56 (112)
T cd02787 36 NPDDIARLGLKAGDRVDLESA 56 (112)
T ss_pred CHHHHHHhCCCCCCEEEEEec
Confidence 345699999999999988744
No 179
>cd02783 MopB_CT_2 The MopB_CT_2 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=40.31 E-value=13 Score=25.78 Aligned_cols=21 Identities=29% Similarity=0.272 Sum_probs=17.7
Q ss_pred CCCCccccCCCCCCEEEEEee
Q 034043 76 GEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~~ 96 (105)
..++++.++|+|||.|.|.-.
T Consensus 37 np~dA~~~GI~dGd~V~v~s~ 57 (156)
T cd02783 37 HPKTAKELGIKDGDWVWVESV 57 (156)
T ss_pred CHHHHHHcCCCCCCEEEEEcC
Confidence 457899999999999988753
No 180
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=40.26 E-value=71 Score=19.49 Aligned_cols=25 Identities=16% Similarity=0.343 Sum_probs=20.3
Q ss_pred CCCcEEEEEEecCCCEEEEEEecCc
Q 034043 21 QSAHINLKVKGQDGNEVFFRIKRST 45 (105)
Q Consensus 21 ~~~~I~I~v~~~~g~~~~~~ik~tt 45 (105)
++..+.|.+.+.+|+.+.+++.+.+
T Consensus 52 ~~g~yev~~~~~dG~~~ev~vD~~t 76 (83)
T PF13670_consen 52 DDGCYEVEARDKDGKKVEVYVDPAT 76 (83)
T ss_pred CCCEEEEEEEECCCCEEEEEEcCCC
Confidence 4557889989999999988888765
No 181
>cd02779 MopB_CT_Arsenite-Ox This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of Arsenite oxidase (Arsenite-Ox) and related proteins. Arsenite oxidase oxidizes arsenite to the less toxic arsenate; it transfers the electrons obtained from the oxidation of arsenite towards the soluble periplasmic electron carriers cytochrome c and/or amicyanin.
Probab=40.15 E-value=13 Score=24.07 Aligned_cols=21 Identities=10% Similarity=0.272 Sum_probs=17.1
Q ss_pred CCCCccccCCCCCCEEEEEee
Q 034043 76 GEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~~ 96 (105)
..++.+.|++++||.|.|+-.
T Consensus 38 n~~dA~~lgi~~Gd~V~v~s~ 58 (115)
T cd02779 38 NPEDAKREGLKNGDLVEVYND 58 (115)
T ss_pred CHHHHHHcCCCCCCEEEEEeC
Confidence 346899999999999987643
No 182
>cd02785 MopB_CT_4 The MopB_CT_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=39.73 E-value=13 Score=24.31 Aligned_cols=20 Identities=10% Similarity=0.154 Sum_probs=16.8
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
..++.+.++++|||.|.|.-
T Consensus 37 ~p~dA~~~gi~~Gd~V~v~s 56 (124)
T cd02785 37 NPIDAAARGIAHGDLVEVYN 56 (124)
T ss_pred CHHHHHHcCCCCCCEEEEEe
Confidence 45789999999999997763
No 183
>KOG4146 consensus Ubiquitin-like protein [Posttranslational modification, protein turnover, chaperones]
Probab=38.50 E-value=35 Score=22.52 Aligned_cols=55 Identities=22% Similarity=0.379 Sum_probs=32.5
Q ss_pred cHHHHHHHHHHHHhCCCcccEEEEECCeecCC-----CC------CccccCCCCCCEEEEEeeccCC
Q 034043 45 TQLKKLMNAYCDRQSVELNSIAFLFDGRRLRG-----EQ------TPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 45 t~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~-----~~------Tp~dl~medgD~Idv~~~q~GG 100 (105)
+++..|.+....++=-.+++ -|..+|..... |+ --+++.++|||.|-+.-..-||
T Consensus 36 ~tvgdll~yi~~~~ie~r~~-lFi~~gsvrpGii~lINd~DWEllekedy~ledgD~ivfiSTlHGg 101 (101)
T KOG4146|consen 36 ATVGDLLDYIFGKYIETRDS-LFIHHGSVRPGIIVLINDMDWELLEKEDYPLEDGDHIVFISTLHGG 101 (101)
T ss_pred ccHHHHHHHHHHHHhcCCcc-eEeeCCcCcCcEEEEEeccchhhhcccccCcccCCEEEEEEeccCC
Confidence 45666666555543333344 56666643221 22 2367889999999888777665
No 184
>cd02777 MopB_CT_DMSOR-like The MopB_CT_DMSOR-like CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Also included in this group is the pyrogallol-phloroglucinol transhydroxylase from Pelobacter acidigallici. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB hom
Probab=38.41 E-value=14 Score=24.25 Aligned_cols=20 Identities=15% Similarity=0.232 Sum_probs=16.6
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
..++.+.|+++|||.|.|.-
T Consensus 39 ~p~dA~~lgi~~Gd~V~v~s 58 (127)
T cd02777 39 NPLDAAARGIKDGDIVRVFN 58 (127)
T ss_pred CHHHHHHcCCCCCCEEEEEc
Confidence 34789999999999987763
No 185
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=38.34 E-value=29 Score=25.87 Aligned_cols=16 Identities=31% Similarity=0.844 Sum_probs=13.5
Q ss_pred cccCCCCCCEEEEEee
Q 034043 81 DELEMEDGDEIDAMLH 96 (105)
Q Consensus 81 ~dl~medgD~Idv~~~ 96 (105)
+.|+|+|||.|.+.+.
T Consensus 201 ~~l~l~dgd~v~i~i~ 216 (217)
T PRK14165 201 KELNLKDGDRVEVLVK 216 (217)
T ss_pred HhcCCCCCCEEEEEEe
Confidence 3589999999999875
No 186
>cd02781 MopB_CT_Acetylene-hydratase The MopB_CT_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=38.30 E-value=15 Score=24.07 Aligned_cols=20 Identities=25% Similarity=0.292 Sum_probs=16.7
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
..++.+.+++++||.|.|.-
T Consensus 38 np~dA~~~gi~~Gd~V~v~s 57 (130)
T cd02781 38 NPETAAKLGIADGDWVWVET 57 (130)
T ss_pred CHHHHHHcCCCCCCEEEEEC
Confidence 45689999999999998764
No 187
>cd02778 MopB_CT_Thiosulfate-R-like The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Also included in this CD is the phenylacetyl-CoA:acceptor oxidoreductase, large subunit (PadB2), which has been characterized as a membrane-bound molybdenum-iron-sulfur enzyme involved in anaerobic metabolism of phenylalanine in the denitrifying bacterium Thauera aromatica. The MopB_CT_Thiosulfate-R-like CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=38.11 E-value=15 Score=23.80 Aligned_cols=20 Identities=25% Similarity=0.504 Sum_probs=16.5
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
.-++.+.+++++||.|.|.-
T Consensus 35 ~p~dA~~~gi~~Gd~V~v~s 54 (123)
T cd02778 35 NPETAARLGIKDGDRVEVSS 54 (123)
T ss_pred CHHHHHHcCCCCCCEEEEEe
Confidence 45688999999999998763
No 188
>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=37.21 E-value=22 Score=22.87 Aligned_cols=15 Identities=27% Similarity=0.434 Sum_probs=9.4
Q ss_pred cccCCCCCCEEEEEe
Q 034043 81 DELEMEDGDEIDAML 95 (105)
Q Consensus 81 ~dl~medgD~Idv~~ 95 (105)
+++-|+|||+|.+..
T Consensus 69 K~YivqDGDIi~f~f 83 (84)
T PF06071_consen 69 KDYIVQDGDIIHFRF 83 (84)
T ss_dssp TT-B--TTEEEEEEE
T ss_pred CceeEeCCCEEEEEc
Confidence 578899999998753
No 189
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=36.93 E-value=73 Score=21.76 Aligned_cols=46 Identities=17% Similarity=0.229 Sum_probs=35.2
Q ss_pred EEE-EEecCcHHHHHHHHHHHHhCCCcccEEEEE-CCeecCCCCCcccc
Q 034043 37 VFF-RIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DGRRLRGEQTPDEL 83 (105)
Q Consensus 37 ~~~-~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f-dG~~L~~~~Tp~dl 83 (105)
..| -|-.+.++..++....++++++++++ |+| ++.....+.|..++
T Consensus 42 ~KfllVP~d~tV~qF~~iIRkrl~l~~~k~-flfVnn~lp~~s~~mg~l 89 (121)
T PTZ00380 42 VHFLALPRDATVAELEAAVRQALGTSAKKV-TLAIEGSTPAVTATVGDI 89 (121)
T ss_pred eEEEEcCCCCcHHHHHHHHHHHcCCChhHE-EEEECCccCCccchHHHH
Confidence 345 69999999999999999999999995 666 55444455566655
No 190
>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=36.83 E-value=16 Score=23.02 Aligned_cols=19 Identities=21% Similarity=0.377 Sum_probs=16.0
Q ss_pred CCCCccccCCCCCCEEEEE
Q 034043 76 GEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~ 94 (105)
..++.+.|++++||.|.+.
T Consensus 34 np~dA~~lGi~~Gd~V~v~ 52 (96)
T cd02788 34 SPADAARLGLADGDLVEFS 52 (96)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 4568999999999998765
No 191
>cd02782 MopB_CT_1 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=36.71 E-value=16 Score=23.96 Aligned_cols=20 Identities=20% Similarity=0.375 Sum_probs=16.6
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
..++.+.+++++||.|.|.-
T Consensus 38 ~p~dA~~~gi~~Gd~V~v~s 57 (129)
T cd02782 38 HPDDAAALGLADGDKVRVTS 57 (129)
T ss_pred CHHHHHHcCCCCCCEEEEEc
Confidence 44689999999999997764
No 192
>PF13180 PDZ_2: PDZ domain; PDB: 2L97_A 1Y8T_A 2Z9I_A 1LCY_A 2PZD_B 2P3W_A 1VCW_C 1TE0_B 1SOZ_C 1SOT_C ....
Probab=36.61 E-value=48 Score=19.88 Aligned_cols=57 Identities=12% Similarity=0.247 Sum_probs=39.8
Q ss_pred CEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCcc-cc-CCCCCCEEEEEeeccC
Q 034043 35 NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPD-EL-EMEDGDEIDAMLHQTG 99 (105)
Q Consensus 35 ~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~-dl-~medgD~Idv~~~q~G 99 (105)
......|.+..|. .+.|+....+-+.+||.++....... -+ ....|+.|.+.+..-|
T Consensus 15 g~~V~~V~~~spA--------~~aGl~~GD~I~~ing~~v~~~~~~~~~l~~~~~g~~v~l~v~R~g 73 (82)
T PF13180_consen 15 GVVVVSVIPGSPA--------AKAGLQPGDIILAINGKPVNSSEDLVNILSKGKPGDTVTLTVLRDG 73 (82)
T ss_dssp SEEEEEESTTSHH--------HHTTS-TTEEEEEETTEESSSHHHHHHHHHCSSTTSEEEEEEEETT
T ss_pred eEEEEEeCCCCcH--------HHCCCCCCcEEEEECCEEcCCHHHHHHHHHhCCCCCEEEEEEEECC
Confidence 3445668887775 46789999999999999995433322 22 6788998888877643
No 193
>KOG2378 consensus cAMP-regulated guanine nucleotide exchange factor [Signal transduction mechanisms]
Probab=35.53 E-value=2.8e+02 Score=23.60 Aligned_cols=77 Identities=14% Similarity=0.164 Sum_probs=55.9
Q ss_pred CCCCCCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCccc--EEEEECCeec--CCCCCccccCCCCCCEEEE
Q 034043 18 PVDQSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNS--IAFLFDGRRL--RGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 18 p~~~~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~--~~F~fdG~~L--~~~~Tp~dl~medgD~Idv 93 (105)
|--.+..|.-+|--.|..-+.++++-+...+.++.+.+++.+...+. +...+.|+.+ +|++-...--|.-+..+-|
T Consensus 229 ~v~~sDev~~~vy~~Dhsy~tl~~~vs~svqEI~~~va~k~~~seel~LV~v~s~GEkv~lqPnd~~v~tsL~ln~rLfv 308 (573)
T KOG2378|consen 229 PVRGSDEVFCIVYLPDHSYVTLRIRVSASVQEILEAVAEKLGYSEELILVKVSSSGEKVILQPNDRAVFTSLGLNSRLFV 308 (573)
T ss_pred CccCCCeeeEEEEecCceEEEEEeechhHHHHHHHHHHHHhccccceeEEEEccCCceeeecCCcceeeeeecccceEEE
Confidence 44456677778888888888999999999999999999999976553 4677789876 5666544444444444444
Q ss_pred E
Q 034043 94 M 94 (105)
Q Consensus 94 ~ 94 (105)
+
T Consensus 309 ~ 309 (573)
T KOG2378|consen 309 V 309 (573)
T ss_pred E
Confidence 3
No 194
>cd02784 MopB_CT_PHLH The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=35.36 E-value=17 Score=24.96 Aligned_cols=20 Identities=20% Similarity=0.310 Sum_probs=16.8
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
.-++.+.|+++|||.|.|.-
T Consensus 43 nP~dA~~lGI~dGD~V~V~s 62 (137)
T cd02784 43 SPRTAEALGLLQGDVVRIRR 62 (137)
T ss_pred CHHHHHHcCCCCCCEEEEEe
Confidence 45788999999999998764
No 195
>cd02776 MopB_CT_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. This CD (MopB_CT_Nitrate-R-NarG-like) is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=34.14 E-value=19 Score=24.62 Aligned_cols=20 Identities=20% Similarity=0.367 Sum_probs=16.4
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
..++.+.++++|||.|.|+-
T Consensus 36 np~dA~~lgI~dGd~V~v~~ 55 (141)
T cd02776 36 NPKDAAELGIKDNDWVEVFN 55 (141)
T ss_pred CHHHHHHcCCCCCCEEEEEe
Confidence 34669999999999998764
No 196
>cd02775 MopB_CT Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=34.00 E-value=19 Score=22.08 Aligned_cols=19 Identities=21% Similarity=0.398 Sum_probs=15.7
Q ss_pred CCCCccccCCCCCCEEEEE
Q 034043 76 GEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~ 94 (105)
..++.+.|++++||.|.|.
T Consensus 28 ~~~da~~lgl~~Gd~v~v~ 46 (101)
T cd02775 28 NPEDAAALGIKDGDLVRVE 46 (101)
T ss_pred CHHHHHHcCCCCCCEEEEE
Confidence 4567889999999998766
No 197
>cd02789 MopB_CT_FmdC-FwdD The MopB_FmdC-FwdD CD includes the C-terminus of subunit C of molybdenum formylmethanofuran dehydrogenase (FmdC) and subunit D of tungsten formylmethanofuran dehydrogenase (FwdD), and other related proteins. Formylmethanofuran dehydrogenase catalyzes the first step in methane formation from CO2 in methanogenic archaea and some eubacteria. Members of this CD belong to the molybdopterin_binding superfamily of proteins. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=33.88 E-value=20 Score=23.18 Aligned_cols=20 Identities=15% Similarity=0.230 Sum_probs=16.5
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
..++.+.|++++||.|.|.-
T Consensus 36 ~p~dA~~lgi~~Gd~V~v~~ 55 (106)
T cd02789 36 NPEDYKLLGKPEGDKVKVTS 55 (106)
T ss_pred CHHHHHHcCCCCCCEEEEEc
Confidence 45679999999999987763
No 198
>PRK08452 flagellar protein FlaG; Provisional
Probab=33.58 E-value=1.3e+02 Score=20.58 Aligned_cols=39 Identities=23% Similarity=0.274 Sum_probs=30.5
Q ss_pred CCCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCC
Q 034043 21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 60 (105)
Q Consensus 21 ~~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~ 60 (105)
+...+.|+|.+.+..++...| |...+.+|+.+.++..|+
T Consensus 80 ~~~~~vVkVvD~~T~eVIRqI-P~Ee~L~l~~~m~e~~Gl 118 (124)
T PRK08452 80 KIKGLVVSVKEANGGKVIREI-PSKEAIELMEYMRDVIGI 118 (124)
T ss_pred CCCcEEEEEEECCCCceeeeC-CCHHHHHHHHHHHHhhhh
Confidence 346789999998866655444 678899999999998886
No 199
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=33.48 E-value=40 Score=18.50 Aligned_cols=17 Identities=24% Similarity=0.581 Sum_probs=13.2
Q ss_pred ccccCCCCCCEEEEEee
Q 034043 80 PDELEMEDGDEIDAMLH 96 (105)
Q Consensus 80 p~dl~medgD~Idv~~~ 96 (105)
...++++.||.|++..+
T Consensus 16 ~~~l~l~~Gd~v~i~~~ 32 (47)
T PF04014_consen 16 REKLGLKPGDEVEIEVE 32 (47)
T ss_dssp HHHTTSSTTTEEEEEEE
T ss_pred HHHcCCCCCCEEEEEEe
Confidence 34678999999888765
No 200
>cd02793 MopB_CT_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO.This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region present in many, but not all, MopB homologs.
Probab=33.38 E-value=20 Score=23.72 Aligned_cols=21 Identities=14% Similarity=0.230 Sum_probs=16.7
Q ss_pred CCCCccccCCCCCCEEEEEee
Q 034043 76 GEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~~ 96 (105)
..++.+.+++++||.|.|.-+
T Consensus 38 ~p~dA~~~gi~~Gd~V~v~s~ 58 (129)
T cd02793 38 NPADAAARGIADGDIVRVFND 58 (129)
T ss_pred CHHHHHHcCCCCCCEEEEEcC
Confidence 346689999999999987643
No 201
>PF08722 Tn7_Tnp_TnsA_N: TnsA endonuclease N terminal; InterPro: IPR014833 The Tn7 transposase is composed of proteins TnsA and TnsB. DNA breakage at the 5'-end of the transposon is carried out by TnsA, and breakage and joining at the 3'-end is carried out by TnsB. The N-terminal domain of TnsA is catalytic. ; PDB: 1F1Z_B 1T0F_B.
Probab=32.60 E-value=97 Score=19.01 Aligned_cols=36 Identities=28% Similarity=0.493 Sum_probs=22.1
Q ss_pred EEEEEecCC---CEEEEEEecCcHHHH--------HHHHHHHHhCCC
Q 034043 26 NLKVKGQDG---NEVFFRIKRSTQLKK--------LMNAYCDRQSVE 61 (105)
Q Consensus 26 ~I~v~~~~g---~~~~~~ik~tt~l~k--------L~~~y~~~~g~~ 61 (105)
.+.|...+| ....+.||+...+.+ +...|+++.|++
T Consensus 36 DFlv~~~~g~~~~~~~ieVK~~~~l~~~~~~~k~~~~~~y~~~~g~~ 82 (88)
T PF08722_consen 36 DFLVTYRDGNGKKPVAIEVKPSSELEKPRTKEKLEIEREYWEEQGIP 82 (88)
T ss_dssp EEEEEESSS--SSEEEEEE--GGGGGSHHHHHHHHHHHHHHHHCT--
T ss_pred cEEEEEccCCcceEEEEEEccHHHhcChhHHHHHHHHHHHHHHcCCe
Confidence 455555566 778899999886655 456777777764
No 202
>PF01402 RHH_1: Ribbon-helix-helix protein, copG family; InterPro: IPR002145 CopG, also known as RepA, is responsible for the regulation of plasmid copy number. It binds to the repAB promoter and controls synthesis of the plasmid replication initiator protein RepB. Many bacterial transcription regulation proteins bind DNA through a 'helix-turn-helix' motif, nevertheless CopG displays a fully defined HTH-motif structure that is involved not in DNA-binding, but in the maintenance of the intrinsic dimeric functional structure and cooperativity [, ].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2BJ3_B 2BJ8_A 2BJ1_A 2BJ9_A 2BJ7_B 1EA4_L 2CPG_C 1B01_B 2BA3_A 2K9I_B ....
Probab=32.59 E-value=40 Score=17.45 Aligned_cols=26 Identities=8% Similarity=0.138 Sum_probs=20.0
Q ss_pred EEEecCcHHHHHHHHHHHHhCCCccc
Q 034043 39 FRIKRSTQLKKLMNAYCDRQSVELNS 64 (105)
Q Consensus 39 ~~ik~tt~l~kL~~~y~~~~g~~~~~ 64 (105)
+.|+-+..+...++.+|++.|++.+.
T Consensus 2 iti~l~~~~~~~l~~~a~~~g~s~s~ 27 (39)
T PF01402_consen 2 ITIRLPDELYERLDELAKELGRSRSE 27 (39)
T ss_dssp EEEEEEHHHHHHHHHHHHHHTSSHHH
T ss_pred eEEEeCHHHHHHHHHHHHHHCcCHHH
Confidence 34555678889999999999987543
No 203
>PF14478 DUF4430: Domain of unknown function (DUF4430); PDB: 3U7Z_B 2BB5_A.
Probab=31.82 E-value=65 Score=19.04 Aligned_cols=26 Identities=19% Similarity=0.429 Sum_probs=15.6
Q ss_pred EEEECCeecCCCCCccccCCCCCCEEEE
Q 034043 66 AFLFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 66 ~F~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
.|..+|+... .-+.++.+.+||.|..
T Consensus 42 ~~~vNG~~~~--~ga~~~~l~~GD~i~~ 67 (68)
T PF14478_consen 42 MYYVNGESAN--VGAGSYKLKDGDKITW 67 (68)
T ss_dssp EEEETTEE-S--S-CCC-B--TTEEEEE
T ss_pred EEEECCEEhh--cCcceeEeCCCCEEEe
Confidence 4555887654 4788889999999975
No 204
>PRK07738 flagellar protein FlaG; Provisional
Probab=31.37 E-value=1.7e+02 Score=19.81 Aligned_cols=39 Identities=18% Similarity=0.199 Sum_probs=30.4
Q ss_pred CCCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCC
Q 034043 21 QSAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSV 60 (105)
Q Consensus 21 ~~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~ 60 (105)
+.+.+.|+|.+.+..++.-.| |...+.+|+.+.++..|+
T Consensus 73 et~~~vVkVvD~~T~EVIRQI-PpEe~L~l~~~m~e~~Gl 111 (117)
T PRK07738 73 KLNEYYVQVVDERTNEVIREI-PPKKLLDMYAAMMEFVGL 111 (117)
T ss_pred CCCcEEEEEEECCCCeeeeeC-CCHHHHHHHHHHHHHhcc
Confidence 457899999998766655444 668899999999998885
No 205
>PF07108 PipA: PipA protein; InterPro: IPR010777 This family consists of several Salmonella PipA (pathogenicity island-encoded protein A) and related phage sequences. PipA is thought to contribute to enteric but not to systemic salmonellosis [].
Probab=31.32 E-value=33 Score=24.99 Aligned_cols=51 Identities=18% Similarity=0.335 Sum_probs=38.2
Q ss_pred cCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEE
Q 034043 43 RSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 43 ~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
.+.+|++||+.-+++.-.+.++=.++=-|+...-+-|++++.+.+|-.|-+
T Consensus 76 qs~TFRRLmNyAydkeL~DveqrWllgageaF~tTVt~E~~k~seGrkvIc 126 (200)
T PF07108_consen 76 QSETFRRLMNYAYDKELHDVEQRWLLGAGEAFETTVTQEHFKLSEGRKVIC 126 (200)
T ss_pred hhHHHHHHHHHHhhhhhhhhHHHhhhccchhhcccccHHHhhhccCceEEE
Confidence 456899999866665555555555666788999999999999999985543
No 206
>cd02780 MopB_CT_Tetrathionate_Arsenate-R This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins.
Probab=31.21 E-value=22 Score=23.94 Aligned_cols=20 Identities=15% Similarity=0.411 Sum_probs=16.7
Q ss_pred CCCCccccCCCCCCEEEEEe
Q 034043 76 GEQTPDELEMEDGDEIDAML 95 (105)
Q Consensus 76 ~~~Tp~dl~medgD~Idv~~ 95 (105)
...+.+.+++++||.|.|.-
T Consensus 35 np~dA~~lgI~~Gd~V~v~s 54 (143)
T cd02780 35 NPEDAAKLGIKTGDRVRVVT 54 (143)
T ss_pred CHHHHHHcCCCCCCEEEEEe
Confidence 45689999999999998764
No 207
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=31.00 E-value=55 Score=19.39 Aligned_cols=24 Identities=8% Similarity=0.342 Sum_probs=20.4
Q ss_pred HHHHHHHHHHhCCCcccEEEEECC
Q 034043 48 KKLMNAYCDRQSVELNSIAFLFDG 71 (105)
Q Consensus 48 ~kL~~~y~~~~g~~~~~~~F~fdG 71 (105)
....+.+|...|++...++.+|..
T Consensus 32 ~~~r~~la~~lgl~~~vvKVWfqN 55 (58)
T TIGR01565 32 REEVREFCEEIGVTRKVFKVWMHN 55 (58)
T ss_pred HHHHHHHHHHhCCCHHHeeeeccc
Confidence 347789999999999999999854
No 208
>COG5569 Uncharacterized conserved protein [Function unknown]
Probab=30.58 E-value=44 Score=22.36 Aligned_cols=20 Identities=20% Similarity=0.599 Sum_probs=15.9
Q ss_pred cCCCCCCEEEEEeeccCCCC
Q 034043 83 LEMEDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 83 l~medgD~Idv~~~q~GG~~ 102 (105)
-++..||-|++..+|++|-+
T Consensus 82 sglKeGdkV~fvferv~gk~ 101 (108)
T COG5569 82 SGLKEGDKVEFVFERVNGKL 101 (108)
T ss_pred hccccCCcEEEEEEeeCCEE
Confidence 36788888988888888754
No 209
>KOG3391 consensus Transcriptional co-repressor component [Transcription]
Probab=30.27 E-value=43 Score=23.67 Aligned_cols=24 Identities=21% Similarity=0.375 Sum_probs=21.5
Q ss_pred cCCCCCccccCCCCCCEEEEEeec
Q 034043 74 LRGEQTPDELEMEDGDEIDAMLHQ 97 (105)
Q Consensus 74 L~~~~Tp~dl~medgD~Idv~~~q 97 (105)
++++.|..+...+=||-|||.|..
T Consensus 114 ~ddnktL~~~kf~iGD~lDVaI~~ 137 (151)
T KOG3391|consen 114 IDDNKTLQQTKFEIGDYLDVAITP 137 (151)
T ss_pred CCccchhhhCCccccceEEEEecC
Confidence 468999999999999999999864
No 210
>KOG2070 consensus Guanine nucleotide exchange factor [Nucleotide transport and metabolism]
Probab=29.58 E-value=63 Score=27.61 Aligned_cols=33 Identities=33% Similarity=0.521 Sum_probs=26.1
Q ss_pred cEEEEECCeecCCCCCccccCCCCCCEEEEEeeccCCCC
Q 034043 64 SIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 64 ~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~GG~~ 102 (105)
+-+|-|.| ..-.+|-...||+|.|...+-|||-
T Consensus 21 rAkf~F~g------sNnDELsf~KgDvItVTq~eeGGWW 53 (661)
T KOG2070|consen 21 RAKFNFQG------SNNDELSFSKGDVITVTQVEEGGWW 53 (661)
T ss_pred EEEeeccc------CCCceeccccCCEEEEEEeccCcce
Confidence 34577766 3345788899999999999999985
No 211
>PF00381 PTS-HPr: PTS HPr component phosphorylation site; InterPro: IPR005698 The histidine-containing phosphocarrier protein (HPr) is a central component of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS), which transfers metabolic carbohydrates across the cell membrane in many bacterial species [, ]. PTS catalyses the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane. The general mechanism of the PTS is as follows: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred to Enzyme I (EI) of the PTS, which in turn transfers it to the phosphoryl carrier protein (HPr) [, ]. Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease complex (enzymes EII/EIII). HPr [, ] is a small cytoplasmic protein of 70 to 90 amino acid residues. In some bacteria, HPr is a domain in a larger protein that includes a EIII(Fru) (IIA) domain and in some cases also the EI domain. A conserved histidine in the N-terminal section of HPr serves as an acceptor for the phosphoryl group of EI. In the central part of HPr, there is a conserved serine which (in Gram-positive bacteria only) is phosphorylated by an ATP-dependent protein kinase; a process which probably play a regulatory role in sugar transport. The overall architecture of the HPr domain has been described as an open faced beta-sandwich in which a beta-sheet is packed against three alpha-helices. Regulatory phosphorylation at the conserved Ser residue does not appear to induce large structural changes to the HPr domain, in particular in the region of the active site [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system; PDB: 1TXE_A 1QR5_A 1RZR_S 2NZU_L 2OEN_L 2NZV_L 1Y51_B 1Y4Y_A 1Y50_A 2HPR_A ....
Probab=29.56 E-value=52 Score=20.19 Aligned_cols=35 Identities=20% Similarity=0.285 Sum_probs=26.8
Q ss_pred cccEEEEECCeecCCCCCcc--ccCCCCCCEEEEEee
Q 034043 62 LNSIAFLFDGRRLRGEQTPD--ELEMEDGDEIDAMLH 96 (105)
Q Consensus 62 ~~~~~F~fdG~~L~~~~Tp~--dl~medgD~Idv~~~ 96 (105)
...+.+.+++..++...-.. .|++.-||.|.+..+
T Consensus 30 ~~~i~i~~~~~~vdakSil~l~~L~~~~G~~i~i~~~ 66 (84)
T PF00381_consen 30 DSDITIRKGGKTVDAKSILGLMSLGAKKGDEIEIEAE 66 (84)
T ss_dssp SSEEEEEETTEEEETTSHHHHHHHTBSTTEEEEEEEE
T ss_pred CCEEEEEeCceeEecCCHHHHhhhhcCCCCEEEEEEE
Confidence 46788999998887665544 567889999988764
No 212
>PF07933 DUF1681: Protein of unknown function (DUF1681); InterPro: IPR012466 NECAP 1 localises to clathrin-coated pits and direct binding to the globular ear domain of the alpha-adaptin subunit (alpha-ear) of the adaptor protein 2 (AP-2) complex. This interaction is mediated by a specific motif, WVQF, that uses a distinct alpha-ear interface relative to known alpha-ear-binding partners. Disruption of this interaction blocks clathrin-mediated endocytosis [].; GO: 0006897 endocytosis, 0016020 membrane; PDB: 1TQZ_A.
Probab=29.51 E-value=1.8e+02 Score=20.80 Aligned_cols=75 Identities=15% Similarity=0.234 Sum_probs=22.5
Q ss_pred CCCCCCCcEEEEEEecCCCEEEEEEecCcH-----HHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEE
Q 034043 17 KPVDQSAHINLKVKGQDGNEVFFRIKRSTQ-----LKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEI 91 (105)
Q Consensus 17 ~p~~~~~~I~I~v~~~~g~~~~~~ik~tt~-----l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~I 91 (105)
+-.+++++..|+|++..|+..++=|.-.+. |.--...|.+..+.....- ....-.+.....||.|.+|.+|
T Consensus 79 ~v~DSSRYFvlRv~d~~Gr~AfiGiGF~eRsdAFDF~vaLqd~~k~~~~~~~~~----~~~~~~~~~p~~D~sLKeGetI 154 (160)
T PF07933_consen 79 PVIDSSRYFVLRVQDPSGRHAFIGIGFRERSDAFDFNVALQDHRKYLKREKEAE----EQSQAAESQPKKDYSLKEGETI 154 (160)
T ss_dssp E-TT--S-EEEEEEETTTEEEEEEEE-S-HHHHHHHHHHHHHHHS-SS--------------------------------
T ss_pred EeecccceEEEEEEcCCCcEEEEEEeeccccccccHHHHHHHHHHHhhchhhhh----hhhcccCCCCccCCcCCCCCEE
Confidence 334788999999999988776766665543 3333333433322211100 0001345677899999999999
Q ss_pred EEEe
Q 034043 92 DAML 95 (105)
Q Consensus 92 dv~~ 95 (105)
.+-+
T Consensus 155 ~ini 158 (160)
T PF07933_consen 155 KINI 158 (160)
T ss_dssp ----
T ss_pred EEec
Confidence 8754
No 213
>PRK05388 argJ bifunctional ornithine acetyltransferase/N-acetylglutamate synthase protein; Validated
Probab=29.47 E-value=1.1e+02 Score=24.98 Aligned_cols=43 Identities=16% Similarity=0.218 Sum_probs=33.4
Q ss_pred CCcccEEEEECCeecCCCCCccccC--------CCCCCEEEEEeeccCCCC
Q 034043 60 VELNSIAFLFDGRRLRGEQTPDELE--------MEDGDEIDAMLHQTGGAL 102 (105)
Q Consensus 60 ~~~~~~~F~fdG~~L~~~~Tp~dl~--------medgD~Idv~~~q~GG~~ 102 (105)
++++.+.++|+|..|-.+-.|.+.+ |+.++.|++.+++--|..
T Consensus 323 ~d~~~v~i~~~~v~v~~~G~~~~~~~e~~~~~~m~~~~ei~I~vdL~~G~~ 373 (395)
T PRK05388 323 FDPDRLDIYLGGVLVAKNGGPAPFYREEDASAYMKQEDEITIRVDLGLGDG 373 (395)
T ss_pred cchhheEEEECCEEEEeCCCCCCCCcHHHHHHHhCCCCEEEEEEEeCCCCc
Confidence 5678899999999887777777665 666788999998876654
No 214
>PF06622 SepQ: SepQ protein; InterPro: IPR009532 This family consists of several enterobacterial SepQ proteins from Escherichia coli and Citrobacter rodentium. The function of this family is unclear.
Probab=29.36 E-value=2.7e+02 Score=21.63 Aligned_cols=68 Identities=12% Similarity=0.066 Sum_probs=41.7
Q ss_pred cEEEEEEecCC-CEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEE
Q 034043 24 HINLKVKGQDG-NEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEID 92 (105)
Q Consensus 24 ~I~I~v~~~~g-~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Id 92 (105)
.+...+....+ +++.. |--.+|+.+|-..+++-..+.+.+..|.|+|--+....--.=-.+.-||-+.
T Consensus 120 ~~~~Vi~f~le~qqln~-Vlfdwp~~~L~~li~D~wq~~~~sqtl~~q~glv~GWtry~ltqL~vGDgLR 188 (305)
T PF06622_consen 120 DWYPVIEFNLENQQLNV-VLFDWPVQSLQYLINDNWQLVPHSQTLFFQGGLVPGWTRYPLTQLRVGDGLR 188 (305)
T ss_pred ceeeeeeecCCCcEEEE-EEEeCcHHHHHHHHhhhhhccccccceeeecccccceeccceeEeecCCcEE
Confidence 34433333333 34332 3446888899888888788888889999999777654332222345555443
No 215
>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=29.32 E-value=1.4e+02 Score=18.20 Aligned_cols=61 Identities=20% Similarity=0.321 Sum_probs=43.9
Q ss_pred EEEEecC---CCEEEEEEecCcHHHHHHHHHHHHhCCCc--ccEEEE--E-CC--eecCCCCCccccCCCC
Q 034043 27 LKVKGQD---GNEVFFRIKRSTQLKKLMNAYCDRQSVEL--NSIAFL--F-DG--RRLRGEQTPDELEMED 87 (105)
Q Consensus 27 I~v~~~~---g~~~~~~ik~tt~l~kL~~~y~~~~g~~~--~~~~F~--f-dG--~~L~~~~Tp~dl~med 87 (105)
|+|-..+ +....+.|.++++.+.|.....+++++.. +.+.+. . +| +.|.++.-|-.+-+..
T Consensus 5 lrV~~~~~~~~~~kti~v~~~tTa~~Vi~~~l~k~~l~~~~~~y~L~e~~~~~~er~L~~~e~Pl~~~~~~ 75 (90)
T smart00314 5 LRVYVDDLPGGTYKTLRVSSRTTARDVIQQLLEKFHLTDDPEEYVLVEVLPDGKERVLPDDENPLQLQKLW 75 (90)
T ss_pred EEEecccCCCCcEEEEEECCCCCHHHHHHHHHHHhCCCCCcccEEEEEEeCCcEEEEeCCCCcceEehhhC
Confidence 4444444 66779999999999999999999999964 344332 3 44 4667788887776655
No 216
>KOG4495 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin B [Transcription]
Probab=28.94 E-value=1.5e+02 Score=19.84 Aligned_cols=58 Identities=17% Similarity=0.171 Sum_probs=41.3
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE-CC-eecCCCCCcccc
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DG-RRLRGEQTPDEL 83 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f-dG-~~L~~~~Tp~dl 83 (105)
+.|.|+- ....++...+++.+.-.|+....-...-|++..+++- |- +.|.+..|..|.
T Consensus 3 ~f~~VrR-~kttif~da~es~tV~elK~~l~gi~~~Pvn~qrL~kmd~eqlL~D~ktL~d~ 62 (110)
T KOG4495|consen 3 VFLRVRR-HKTTIFTDAKESSTVFELKRKLEGILKRPVNEQRLYKMDTEQLLDDGKTLGDC 62 (110)
T ss_pred eeeeeee-cceeEEeecCccccHHHHHHHHHHHHhCCCcchheeecCHHHHhhccchhhhc
Confidence 3444442 3446788889999999999998888888888888776 43 445566666555
No 217
>PRK11377 dihydroxyacetone kinase subunit M; Provisional
Probab=28.75 E-value=1.8e+02 Score=24.15 Aligned_cols=63 Identities=11% Similarity=0.274 Sum_probs=43.1
Q ss_pred CcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCc--cccCCCCCCEEEEEee
Q 034043 23 AHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTP--DELEMEDGDEIDAMLH 96 (105)
Q Consensus 23 ~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp--~dl~medgD~Idv~~~ 96 (105)
...++.|..+.|- ..+|...|-++...|. .++++.++|+.++...-. -.|+...||.|.+..+
T Consensus 156 ~~~~~~v~n~~GL----HARPAa~lv~~a~~f~-------s~I~i~~~g~~vdakSi~~lm~Lg~~~Gd~v~i~a~ 220 (473)
T PRK11377 156 RSLSVVIKNRNGL----HVRPASRLVYTLSTFN-------ADMLLEKNGKCVTPESLNQIALLQVRYNDTLRLIAK 220 (473)
T ss_pred eEEEEEEcCCCCC----cHhHHHHHHHHHhhCC-------CeEEEEECCeEEchHhHHHHHhcCCCCCCEEEEEEe
Confidence 4555666554443 3556666666666652 567888899888765533 6789999999998764
No 218
>TIGR03193 4hydroxCoAred 4-hydroxybenzoyl-CoA reductase, gamma subunit. 4-hydroxybenzoyl-CoA reductase converts 4-hydroxybenzoyl-CoA to benzoyl-CoA, a common intermediate in the degradation of aromatic compounds. This protein family represents the gamma chain of this three-subunit enzyme.
Probab=28.74 E-value=1.5e+02 Score=20.78 Aligned_cols=54 Identities=17% Similarity=0.129 Sum_probs=35.1
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc-------ccEEEEECCeecCCCCCcc
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-------NSIAFLFDGRRLRGEQTPD 81 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~-------~~~~F~fdG~~L~~~~Tp~ 81 (105)
|+++| ||.++.+.+.+.++|..+.+.-....+... .....++||+.+..=.+|.
T Consensus 2 i~~~v---NG~~~~~~~~~~~~Ll~~LR~~lgltg~K~gC~~G~CGACtVlvdg~~v~SCl~~~ 62 (148)
T TIGR03193 2 LRLTV---NGRWREDAVADNMLLVDYLRDTVGLTGTKQGCDGGECGACTVLVDGRPRLACSTLA 62 (148)
T ss_pred EEEEE---CCEEEEeecCCCCcHHHHHHHhcCCCCCCCCCCCCCCCCCEEEECCeEeeccHhhH
Confidence 45555 677788888888888877665333333332 3567888999887544443
No 219
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=28.15 E-value=1.1e+02 Score=27.75 Aligned_cols=33 Identities=18% Similarity=0.210 Sum_probs=29.3
Q ss_pred EEEEEecCcHHHHHHHHHHHHhCCCccc-EEEEE
Q 034043 37 VFFRIKRSTQLKKLMNAYCDRQSVELNS-IAFLF 69 (105)
Q Consensus 37 ~~~~ik~tt~l~kL~~~y~~~~g~~~~~-~~F~f 69 (105)
..|+||+++++..|+...++..+.+.+. +++++
T Consensus 586 ~qf~iKr~akisdl~~~iae~ln~pqs~~~r~w~ 619 (1089)
T COG5077 586 AQFVIKRGAKISDLRNNIAEHLNTPQSLYLREWT 619 (1089)
T ss_pred eeEEeecCCCHHHHHHHHHHHcCCCceeeeEEEE
Confidence 4799999999999999999999998877 67665
No 220
>PF07377 DUF1493: Protein of unknown function (DUF1493); InterPro: IPR010862 This family consists of several bacterial proteins of around 115 residues in length. Members of this family are largely found in Salmonella and Yersinia species and several have been described as being putative cytoplasmic proteins. The function of this family is unknown.
Probab=27.88 E-value=39 Score=22.15 Aligned_cols=25 Identities=28% Similarity=0.630 Sum_probs=21.3
Q ss_pred cHHHHHHHHHHHHhCCCcccEEE--EE
Q 034043 45 TQLKKLMNAYCDRQSVELNSIAF--LF 69 (105)
Q Consensus 45 t~l~kL~~~y~~~~g~~~~~~~F--~f 69 (105)
.....+|++|+++++++.+.+.| +|
T Consensus 42 dda~elm~~f~~~F~Vd~~~f~~~~YF 68 (111)
T PF07377_consen 42 DDAEELMEDFFERFNVDLSDFDFDRYF 68 (111)
T ss_pred HHHHHHHHHHHHHhCCCcCccCHHHcc
Confidence 46788999999999999888776 56
No 221
>PF01502 PRA-CH: Phosphoribosyl-AMP cyclohydrolase; InterPro: IPR002496 Phosphoribosyl-AMP cyclohydrolase 3.5.4.19 from EC catalyses the third step in the histidine biosynthetic pathway: 5-phosphoribosyl-AMP + H2O = 5-(5-phospho-D-ribosylaminoformimino)-1-(5-phospho-ribosyl) imidazole-4-carboxamide It requires Zn2+ ions for activity [].; GO: 0004635 phosphoribosyl-AMP cyclohydrolase activity, 0000105 histidine biosynthetic process; PDB: 1ZPS_B.
Probab=27.78 E-value=78 Score=19.86 Aligned_cols=42 Identities=21% Similarity=0.241 Sum_probs=30.6
Q ss_pred CcccEEEEECCeecCCCCCccccCCC-CCCEEEEEeeccCCCC
Q 034043 61 ELNSIAFLFDGRRLRGEQTPDELEME-DGDEIDAMLHQTGGAL 102 (105)
Q Consensus 61 ~~~~~~F~fdG~~L~~~~Tp~dl~me-dgD~Idv~~~q~GG~~ 102 (105)
++..-+++..|+.--..+-..++.+. |+|.|.+..+|.|..+
T Consensus 23 SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~aC 65 (75)
T PF01502_consen 23 SRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGPAC 65 (75)
T ss_dssp ETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-SS
T ss_pred EccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCCCc
Confidence 34556788888877777777777775 8999999999999865
No 222
>PF01361 Tautomerase: Tautomerase enzyme; InterPro: IPR004370 4-Oxalocrotonate tautomerase (4-OT) catalyzes the isomerisation of beta,gamma-unsaturated enones to their alpha,beta-isomers. The enzyme is part of a plasmid-encoded pathway, which enables bacteria harbouring the plasmid to use various aromatic hydrocarbons as their sole sources of carbon and energy. The enzyme is a barrel-shaped hexamer, which can be viewed as a trimer of dimers. The hexamer contains a hydrophobic core formed by three beta-sheets and surrounded by three pairs of alpha-helices. Each 4-OT monomer of 62 amino acids has a relatively simple beta-alpha-beta fold as described by the structure of the enzyme from Pseudomonas putida []. The monomer begins with a conserved proline at the start of a beta-strand, followed by an alpha-helix and a 310 helix preceding a second parallel beta-strand, and ends with a beta-hairpin near the C terminus. The dimer results from antiparallel interactions between the beta-sheets and alpha-helices of the two monomers, forming a four-stranded beta-sheet with antiparallel alpha-helices on one side, creating two active sites, one at each end of the beta-sheet. Three dimers further associate to form a hexamer by the interactions of the strands of the C-terminal beta-hairpin loops with the edges of the four-stranded beta-sheets of neighbouring dimers, creating a series of cross-links that stabilise the hexamer Pro-1 of the mature protein functions as the general base while Arg-39 and an ordered water molecule each provide a hydrogen bond to the C-2 oxygen of substrate. Arg-39 plays an additional role in the binding of the C-1 carboxylate group. Arg-11 participates both in substrate binding and in catalysis. It interacts with the C-6 carboxylate group, thereby holding the substrate in place and drawing electron density to the C-5 position. The hydrophobic nature of the active site, which lowers the pKa of Pro-1 and provides a favourable environment for catalysis, is largely maintained by Phe-50. Because several Arg residues located near the active site are not conserved among all members of this family and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.; GO: 0016853 isomerase activity, 0006725 cellular aromatic compound metabolic process; PDB: 4OTA_H 4OTC_G 4OTB_J 2FM7_A 1BJP_B 1S0Y_K 3EJ9_E 3EJ7_K 3EJ3_I 3MB2_A ....
Probab=27.48 E-value=1.1e+02 Score=17.24 Aligned_cols=26 Identities=8% Similarity=0.183 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHhCCCcccEEEEECC
Q 034043 46 QLKKLMNAYCDRQSVELNSIAFLFDG 71 (105)
Q Consensus 46 ~l~kL~~~y~~~~g~~~~~~~F~fdG 71 (105)
=.+.|.+++.+..|++.+.+...|+-
T Consensus 19 l~~~it~~~~~~lg~~~~~i~V~i~E 44 (60)
T PF01361_consen 19 LAEAITDAVVEVLGIPPERISVVIEE 44 (60)
T ss_dssp HHHHHHHHHHHHHTS-GGGEEEEEEE
T ss_pred HHHHHHHHHHHHhCcCCCeEEEEEEE
Confidence 35667788999999999988887754
No 223
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=27.47 E-value=44 Score=19.14 Aligned_cols=23 Identities=30% Similarity=0.567 Sum_probs=15.5
Q ss_pred EECCeecCCCCCccccCCCCCCEEEE
Q 034043 68 LFDGRRLRGEQTPDELEMEDGDEIDA 93 (105)
Q Consensus 68 ~fdG~~L~~~~Tp~dl~medgD~Idv 93 (105)
+.+|++|.+ -....|.+||+|.+
T Consensus 45 ~vng~~l~~---~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 45 FVNGQRLGP---GEPVPLKDGDIIRF 67 (68)
T ss_dssp EETTEEESS---TSEEEE-TTEEEEE
T ss_pred EECCEEcCC---CCEEECCCCCEEEc
Confidence 448888877 34566888888864
No 224
>PRK12426 elongation factor P; Provisional
Probab=27.24 E-value=2.2e+02 Score=20.71 Aligned_cols=70 Identities=14% Similarity=0.259 Sum_probs=44.5
Q ss_pred CCCCCCCcEEEEEEec-CCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE-CCeec--CCCCCccccC--------
Q 034043 17 KPVDQSAHINLKVKGQ-DGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF-DGRRL--RGEQTPDELE-------- 84 (105)
Q Consensus 17 ~p~~~~~~I~I~v~~~-~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f-dG~~L--~~~~Tp~dl~-------- 84 (105)
||-..+..+++++++- +|+.+.-+.+..+++. ...+....++|+| ||... .+..|-+++.
T Consensus 29 kPGkg~A~vr~klknl~tG~~~e~tf~s~ek~e--------~a~ve~~~~qylY~dg~~~~FMd~etyeQi~i~~~~lgd 100 (185)
T PRK12426 29 TGPKGETFIKVSLQAADSDVVVERNFKAGQEVK--------EAQFEPRNLEYLYLEGDEYLFLDLGNYDKIYIPKEIMKD 100 (185)
T ss_pred cCCCCceEEEEEEEEcCCCCeEEEEECCCCeEE--------EeEEEeeEeEEEEECCCeEEEecCCCceEEEeCHHHhhh
Confidence 4554455888888876 4777777888888774 3345667788877 56643 3444544432
Q ss_pred ----CCCCCEEEEE
Q 034043 85 ----MEDGDEIDAM 94 (105)
Q Consensus 85 ----medgD~Idv~ 94 (105)
|.+|..++|.
T Consensus 101 ~~~fL~e~~~v~v~ 114 (185)
T PRK12426 101 NFLFLKAGVTVSAL 114 (185)
T ss_pred HHhhccCCCEEEEE
Confidence 5666666554
No 225
>PRK09908 xanthine dehydrogenase subunit XdhC; Provisional
Probab=27.20 E-value=1.5e+02 Score=21.17 Aligned_cols=53 Identities=19% Similarity=0.223 Sum_probs=36.4
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc-------ccEEEEECCeecCCCCCc
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-------NSIAFLFDGRRLRGEQTP 80 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~-------~~~~F~fdG~~L~~~~Tp 80 (105)
.|+++| ||.++.+.+.+.++|..+.+.. ...+... .....++||+.+..=.+|
T Consensus 8 ~i~~~v---NG~~~~~~~~~~~~Ll~~LR~~-gltgtK~GC~~G~CGACtVlvdg~~v~SCl~~ 67 (159)
T PRK09908 8 TIECTI---NGMPFQLHAAPGTPLSELLREQ-GLLSVKQGCCVGECGACTVLVDGTAIDSCLYL 67 (159)
T ss_pred eEEEEE---CCEEEEEecCCCCcHHHHHHHc-CCCCCCCCcCCCCCCCcEEEECCcEeehhHhh
Confidence 356655 7788888999999999888853 3334432 356678899887754333
No 226
>PF03072 DUF237: MG032/MG096/MG288 family 1; InterPro: IPR004306 This domain is found entirely in Mycoplasma pneumoniae proteins of unknown function. Another related domain (IPR004319 from INTERPRO) is found entirely in mycoplasmal proteins of the MG032/MG096/MG288 family and both domains often occur together.
Probab=26.93 E-value=1.6e+02 Score=20.68 Aligned_cols=50 Identities=22% Similarity=0.357 Sum_probs=34.7
Q ss_pred cHHHHHHHHHHHHhCCCcc-----cEEEEECCe----ecCCCCCccc-cCCCCCCEEEEE
Q 034043 45 TQLKKLMNAYCDRQSVELN-----SIAFLFDGR----RLRGEQTPDE-LEMEDGDEIDAM 94 (105)
Q Consensus 45 t~l~kL~~~y~~~~g~~~~-----~~~F~fdG~----~L~~~~Tp~d-l~medgD~Idv~ 94 (105)
-.+.-...++|..-++|.+ +++|.|||+ .+..-++|.+ +..+|.|.+-+.
T Consensus 67 y~l~ww~~~~a~~ggIPg~WkGkm~vk~~~DG~vp~w~~~k~dypgs~f~F~d~~kLLFt 126 (137)
T PF03072_consen 67 YGLKWWTWAFAKRGGIPGSWKGKMNVKFIFDGDVPSWIVGKPDYPGSLFQFTDKDKLLFT 126 (137)
T ss_pred EeeehHHHHHHHhCCCCCcccceEEEEEEEcccccceeecCCCCCCceeeecccceEEEE
Confidence 3677788888888888864 789999997 3445566554 456776665443
No 227
>cd01816 Raf_RBD Ubiquitin domain of Raf serine/threonine kinases. The Raf serine/threonine kinases are composed of three conserved regions, CR1, CR2 and CR3. CR1 has two Ras binding domains (RBD and CRD), CR2 is a serine/threonine rich domain and CR3 is the catalytic kinase domain. The RBD of Raf is structurally similar to ubiquitin with little of no sequence similarity.The Raf signalling pathway plays an important role in the proliferation and survival of tumor cells.
Probab=26.80 E-value=1.7e+02 Score=18.37 Aligned_cols=45 Identities=11% Similarity=0.242 Sum_probs=35.9
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccE-EEEE-CC
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSI-AFLF-DG 71 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~-~F~f-dG 71 (105)
|++.-++...-.+.+++-.++..-..+-.+..|+.++.+ .|.+ +|
T Consensus 2 ir~~LPnqQrT~V~vrpG~tl~daL~KaLk~R~l~pe~C~V~~~~~~ 48 (74)
T cd01816 2 IRVFLPNKQRTVVNVRPGMTLRDALAKALKVRGLQPECCAVFRLGDG 48 (74)
T ss_pred eeEECCCCCeEEEEecCCcCHHHHHHHHHHHcCCChhHeEEEEcCCC
Confidence 455567767778899999999999999999999988765 4555 45
No 228
>PRK11675 LexA regulated protein; Provisional
Probab=26.64 E-value=68 Score=20.85 Aligned_cols=27 Identities=11% Similarity=0.212 Sum_probs=23.5
Q ss_pred EEEEEecCcHHHHHHHHHHHHhCCCcc
Q 034043 37 VFFRIKRSTQLKKLMNAYCDRQSVELN 63 (105)
Q Consensus 37 ~~~~ik~tt~l~kL~~~y~~~~g~~~~ 63 (105)
..++|+-+..+....+.||+..++...
T Consensus 51 KRveVKldedl~ekL~eyAe~~nitRS 77 (90)
T PRK11675 51 KRVELKLNADLVDALNELAEARNISRS 77 (90)
T ss_pred eeEEEEECHHHHHHHHHHHHHcCCCHH
Confidence 478888899999999999999998754
No 229
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=25.90 E-value=61 Score=19.77 Aligned_cols=19 Identities=16% Similarity=0.319 Sum_probs=14.0
Q ss_pred CCccccCCCCCCEEEEEee
Q 034043 78 QTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 78 ~Tp~dl~medgD~Idv~~~ 96 (105)
.-.+.|++..||.|++..+
T Consensus 17 ~i~~~lgl~~Gd~v~v~~~ 35 (74)
T TIGR02609 17 EVLESLGLKEGDTLYVDEE 35 (74)
T ss_pred HHHHHcCcCCCCEEEEEEE
Confidence 3446799999999977544
No 230
>PF09138 Urm1: Urm1 (Ubiquitin related modifier); InterPro: IPR015221 Ubiquitin related modifier 1 (Urm1) is a ubiquitin related protein that modifies proteins in the yeast ubiquitin-like urmylation pathway []. Structural comparisons and phylogenetic analysis of the ubiquitin superfamily has indicated that Urm1 has the most conserved structural and sequence features of the common ancestor of the entire superfamily []. ; GO: 0034227 tRNA thio-modification, 0005737 cytoplasm; PDB: 2AX5_A 2QJL_A 2PKO_A 1WGK_A 1XO3_A 2K9X_A.
Probab=25.72 E-value=44 Score=21.87 Aligned_cols=63 Identities=19% Similarity=0.366 Sum_probs=33.5
Q ss_pred EEEEEEe---cCcHHHHHHHHHHHHhCCCcccEEEEECCeecCC------CCC------ccccCCCCCCEEEEEeeccCC
Q 034043 36 EVFFRIK---RSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRG------EQT------PDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 36 ~~~~~ik---~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~------~~T------p~dl~medgD~Idv~~~q~GG 100 (105)
...+.+. ...+++.|....++..=.+... +...+..|+| |++ -.++.++|||.|.+.-..=||
T Consensus 19 ~h~v~l~~~~~~~ti~~Li~~l~~nll~~r~e--lF~~~~~vrPGILvLINd~DwEl~g~~~y~l~~~D~I~FiSTLHGG 96 (96)
T PF09138_consen 19 KHKVSLPSDGEPATIKDLIDYLRDNLLKERPE--LFLEGGSVRPGILVLINDADWELLGEEDYVLKDGDNITFISTLHGG 96 (96)
T ss_dssp EEEEEE-SSCSC-BHHHHHHHHCCCT-SSGHH--HHBSSSSB-TTEEEEETTCEHHHHTCCCSB--TTEEEEEEETTT--
T ss_pred eEEEEcCCCCCCcCHHHHHHHHHHhccCCCHh--HEecCCeEcCcEEEEEcCccceeecCcceEcCCCCEEEEEccCCCC
Confidence 3345555 6678999988887755433221 2223444443 222 246789999999988777665
No 231
>COG2914 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.64 E-value=91 Score=20.65 Aligned_cols=54 Identities=7% Similarity=0.209 Sum_probs=36.4
Q ss_pred EEEEecCcHHHHHHH--HHHH-HhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEee
Q 034043 38 FFRIKRSTQLKKLMN--AYCD-RQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLH 96 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~--~y~~-~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~ 96 (105)
.+.+...++...... ...+ ..+++....+|=.-|+++...+. ++|||.|+++.-
T Consensus 20 ~v~v~egatV~dAi~~Sgll~~~~~idl~~n~~GI~~k~~kl~~~-----l~dgDRVEIyRP 76 (99)
T COG2914 20 RVQLQEGATVEDAILASGLLELFPDIDLHENKVGIYSKPVKLDDE-----LHDGDRVEIYRP 76 (99)
T ss_pred EEEeccCcCHHHHHHhcchhhccccCCccccceeEEccccCcccc-----ccCCCEEEEecc
Confidence 577777777766543 3332 23467767777777777766554 899999998853
No 232
>PF03633 Glyco_hydro_65C: Glycosyl hydrolase family 65, C-terminal domain ; InterPro: IPR005194 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This family of glycosyl hydrolases (GH65 from CAZY) contains this domain and includes vacuolar acid trehalase and maltose phosphorylases. Maltose phosphorylase (MP) is a dimeric enzyme that catalyzes the conversion of maltose and inorganic phosphate into beta-D-glucose-1-phosphate and glucose. The C-terminal domain forms a two layered jelly roll motif. This domain is situated at the base of the catalytic domain, however its function remains unknown [].; PDB: 1H54_A.
Probab=25.45 E-value=21 Score=20.19 Aligned_cols=30 Identities=23% Similarity=0.386 Sum_probs=15.1
Q ss_pred cEEEEECCeecCCCCCcc--ccCCCCCC-EEEE
Q 034043 64 SIAFLFDGRRLRGEQTPD--ELEMEDGD-EIDA 93 (105)
Q Consensus 64 ~~~F~fdG~~L~~~~Tp~--dl~medgD-~Idv 93 (105)
+++|.|.|..|.-.-|.. .+.+..|+ -|++
T Consensus 11 ~F~~~~rg~~l~v~i~~~~v~v~~~~g~~~l~i 43 (54)
T PF03633_consen 11 SFRLRYRGHWLEVEITHEKVTVTLLSGDAPLTI 43 (54)
T ss_dssp EEEEEETTEEEEEEEETTEEEEEEEESS--EEE
T ss_pred EEEEEECCEEEEEEEECCEEEEEEccCCccEEE
Confidence 456666777665433333 33444554 4443
No 233
>KOG0012 consensus DNA damage inducible protein [Replication, recombination and repair]
Probab=25.31 E-value=1.5e+02 Score=24.08 Aligned_cols=57 Identities=14% Similarity=0.284 Sum_probs=46.3
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCC--CCCccccCCCCCCEEEEE
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRG--EQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~--~~Tp~dl~medgD~Idv~ 94 (105)
.+.+...-.|..+........++......++|++..+.. ..+..+++|.++|.+-..
T Consensus 16 ~i~v~~dg~L~nl~aL~~~d~g~~~~~~~li~n~~~l~s~~s~~l~Q~g~~~~dsl~lr 74 (380)
T KOG0012|consen 16 PIPVTTDGELNNLAALCWKDTGIVYDPSDLIYNPRPLVSNESQGLTQIGLKDGDSLALR 74 (380)
T ss_pred ccccccccchhhHHHHHHHHhCcccchhhcccCCCccccchhhhhhhcccccceeEecc
Confidence 344555557888888888888999999999999988865 588999999999987554
No 234
>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=25.23 E-value=1.1e+02 Score=17.71 Aligned_cols=15 Identities=27% Similarity=0.357 Sum_probs=11.6
Q ss_pred EEEEEecCCCEEEEE
Q 034043 26 NLKVKGQDGNEVFFR 40 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ 40 (105)
.|++++.||..+.+.
T Consensus 2 ~v~L~SsDg~~f~V~ 16 (62)
T PF03931_consen 2 YVKLVSSDGQEFEVS 16 (62)
T ss_dssp EEEEEETTSEEEEEE
T ss_pred EEEEEcCCCCEEEee
Confidence 578899998876655
No 235
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=24.81 E-value=1.3e+02 Score=16.40 Aligned_cols=54 Identities=11% Similarity=0.226 Sum_probs=32.5
Q ss_pred cCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEE
Q 034043 32 QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 32 ~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~ 94 (105)
.++.. +.+...+++..+...... +++...+....+|+.+..+ .-+.+||.|+++
T Consensus 6 ~~g~~--~~~~~~~t~~~~~~~~~~--~~~~~~va~~vng~~vdl~-----~~l~~~~~ve~v 59 (60)
T cd01668 6 PKGEI--IELPAGATVLDFAYAIHT--EIGNRCVGAKVNGKLVPLS-----TVLKDGDIVEII 59 (60)
T ss_pred CCCCE--EEcCCCCCHHHHHHHHCh--HhhhheEEEEECCEECCCC-----CCCCCCCEEEEE
Confidence 45554 445667777776654322 2333445666788775433 237889998875
No 236
>KOG3074 consensus Transcriptional regulator of the PUR family, single-stranded-DNA-binding [Transcription]
Probab=24.79 E-value=2.5e+02 Score=21.61 Aligned_cols=37 Identities=8% Similarity=0.433 Sum_probs=25.3
Q ss_pred CCCCcEEEEEEecCCC-EEEEEEecCcHHHHHHHHHHH
Q 034043 20 DQSAHINLKVKGQDGN-EVFFRIKRSTQLKKLMNAYCD 56 (105)
Q Consensus 20 ~~~~~I~I~v~~~~g~-~~~~~ik~tt~l~kL~~~y~~ 56 (105)
.-+.+|+|.=++..++ .+.+.+.....|+.++..|.+
T Consensus 45 ~rGRflKIaE~g~~~~Sri~ls~s~aaef~d~l~~f~~ 82 (263)
T KOG3074|consen 45 PRGRFLKIAEVGAGGRSRIILSLSVAAEFRDILNDFIE 82 (263)
T ss_pred CCcceEEEEEeccCCcceEEEehhhHHHHHHHHHHHHH
Confidence 3456777776666543 567777776778888877776
No 237
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=24.72 E-value=99 Score=20.84 Aligned_cols=26 Identities=12% Similarity=0.364 Sum_probs=19.8
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcc
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELN 63 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~ 63 (105)
++.|.-..||+.|++.+.+++|+.+.
T Consensus 36 r~~v~~~~Tl~~li~~~~~~~~lev~ 61 (125)
T PF09358_consen 36 RIEVNGDMTLQELIDYFKEKYGLEVT 61 (125)
T ss_dssp EEEEES--BHHHHHHHHHHTTS-EEE
T ss_pred EEEEcCCCCHHHHHHHHHHHhCceEE
Confidence 57777789999999999999998654
No 238
>PRK00051 hisI phosphoribosyl-AMP cyclohydrolase; Reviewed
Probab=24.63 E-value=70 Score=22.03 Aligned_cols=77 Identities=14% Similarity=0.154 Sum_probs=46.3
Q ss_pred CCcEEEEEEec-CCCEE-EEEEecCcHHHHHHHHHHHHhC--CCcccEEEEECCeecCCCCCccccCC-CCCCEEEEEee
Q 034043 22 SAHINLKVKGQ-DGNEV-FFRIKRSTQLKKLMNAYCDRQS--VELNSIAFLFDGRRLRGEQTPDELEM-EDGDEIDAMLH 96 (105)
Q Consensus 22 ~~~I~I~v~~~-~g~~~-~~~ik~tt~l~kL~~~y~~~~g--~~~~~~~F~fdG~~L~~~~Tp~dl~m-edgD~Idv~~~ 96 (105)
...|...|++. +|..+ .-.+.+ ..| -........ .+++.-+++..|+.--..+...++.+ =|+|.|.+..+
T Consensus 12 ~GLipaivqd~~tg~VLMlaymn~-eAl---~~Tl~tg~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~Ll~~V~ 87 (125)
T PRK00051 12 DGLVPAIAQDAETGEVLMVAWMNE-EAL---AKTLETGRAHYWSRSRQKLWRKGETSGHVQKVHEVRLDCDGDAVLLKVE 87 (125)
T ss_pred CCcEEEEEEECCCCCEEEEEEcCH-HHH---HHHHhcCcEEEEeCccCcccCCCCCcCCeEEEEEEEecCCCCEEEEEEE
Confidence 46888888884 45543 222332 122 222222211 23456678888876655566666666 48999999999
Q ss_pred ccCCCC
Q 034043 97 QTGGAL 102 (105)
Q Consensus 97 q~GG~~ 102 (105)
|.|..+
T Consensus 88 q~G~aC 93 (125)
T PRK00051 88 QVGAAC 93 (125)
T ss_pred ecCCcc
Confidence 999765
No 239
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=24.56 E-value=59 Score=21.98 Aligned_cols=77 Identities=17% Similarity=0.242 Sum_probs=48.6
Q ss_pred CCcEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhC--CCcccEEEEECCeecCCCCCccccCCC-CCCEEEEEeecc
Q 034043 22 SAHINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQS--VELNSIAFLFDGRRLRGEQTPDELEME-DGDEIDAMLHQT 98 (105)
Q Consensus 22 ~~~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g--~~~~~~~F~fdG~~L~~~~Tp~dl~me-dgD~Idv~~~q~ 98 (105)
...|.+.|++....++-.-...+. +.|......... .+++.-+++..|+.--..+...++.+. |+|.+-+.++|.
T Consensus 16 ~gLvpaIvQd~~t~eVLMlaymN~--eAl~kTleTg~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~ 93 (111)
T COG0139 16 DGLVPAIVQDAETGEVLMLAYMNE--EALAKTLETGEAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQI 93 (111)
T ss_pred CCeEEEEEEecCCCcEEEEEecCH--HHHHHHHhcCeEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeC
Confidence 457888888876554322122221 111111111111 245677899999988888888888884 999999999998
Q ss_pred CC
Q 034043 99 GG 100 (105)
Q Consensus 99 GG 100 (105)
||
T Consensus 94 gg 95 (111)
T COG0139 94 GG 95 (111)
T ss_pred CC
Confidence 85
No 240
>TIGR03198 pucE xanthine dehydrogenase E subunit. This gene has been characterized in B. subtilis as the Iron-sulfur cluster binding-subunit of xanthine dehydrogenase (pucE), acting in conjunction with pucC, the FAD-binding subunit and pucD, the molybdopterin binding subunit. The more common XDH complex (GenProp0640) includes the xdhA gene as the Fe-S cluster binding component.
Probab=24.47 E-value=1.7e+02 Score=20.62 Aligned_cols=53 Identities=17% Similarity=0.239 Sum_probs=36.4
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCc-------ccEEEEECCeecCCCCC
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVEL-------NSIAFLFDGRRLRGEQT 79 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~-------~~~~F~fdG~~L~~~~T 79 (105)
.|++.| ||..+.+.+.++++|..+.+......+... .....++||+.+..=.|
T Consensus 3 ~i~f~v---NG~~~~~~~~~~~~Ll~~LR~~~~ltgtK~gC~~G~CGACtVlvdG~~v~SCl~ 62 (151)
T TIGR03198 3 QFRFTV---NGQAWEVAAVPTTRLSDLLRKELQLTGTKVSCGIGRCGACSVLIDGKLANACLT 62 (151)
T ss_pred cEEEEE---CCEEEEeecCCCcHHHHHHHhccCCCCCCCCCCCCcCCccEEEECCcEEechHH
Confidence 366665 788888888899998887776555555443 35678889987764333
No 241
>PRK10850 PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr; Provisional
Probab=24.31 E-value=1.4e+02 Score=18.64 Aligned_cols=49 Identities=12% Similarity=0.226 Sum_probs=33.3
Q ss_pred EecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCC--ccccCCCCCCEEEEEee
Q 034043 41 IKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQT--PDELEMEDGDEIDAMLH 96 (105)
Q Consensus 41 ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~T--p~dl~medgD~Idv~~~ 96 (105)
.+|...|.++...| ..++.+.++|+.++..+. .-.|+..-||.|.+..+
T Consensus 16 ARPAa~lv~~a~~~-------~s~v~l~~~~~~~~akSil~lm~Lg~~~G~~v~i~~~ 66 (85)
T PRK10850 16 TRPAAQFVKEAKGF-------TSEITVTSNGKSASAKSLFKLQTLGLTQGTVVTISAE 66 (85)
T ss_pred HHHHHHHHHHHHhC-------CCEEEEEECCeEEchHhHHHHHhcCCCCCCEEEEEEe
Confidence 44555555555544 247788889987765543 44678899999988754
No 242
>PRK12280 rplW 50S ribosomal protein L23; Reviewed
Probab=23.90 E-value=2.8e+02 Score=19.82 Aligned_cols=63 Identities=17% Similarity=0.160 Sum_probs=43.7
Q ss_pred CCEEEEEEecCcHHHHHHHHHHHHhCCCcccEE-EEECCeecCC----CCCc----cccCCCCCCEEEEEee
Q 034043 34 GNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIA-FLFDGRRLRG----EQTP----DELEMEDGDEIDAMLH 96 (105)
Q Consensus 34 g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~-F~fdG~~L~~----~~Tp----~dl~medgD~Idv~~~ 96 (105)
.+.+.|.|.+...=..|.+++...+++.+..++ +...|..-+- ..|+ +-.-|.+|+.|+++..
T Consensus 22 ~N~ytF~V~~~anK~eIK~AVE~iF~VkV~~VNT~~~~~K~KR~g~~~G~~~~~KKAiVtL~~g~~I~~f~~ 93 (158)
T PRK12280 22 KNVYTFKVDRRANKIEIKKAVEFIFKVKVLKVNIFNVDKKPKRLGRFPGFTNSYKKAYVTLAEGYSINLFPE 93 (158)
T ss_pred CCEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEecCCcccccCCcccccCCcEEEEEECCCCCEeeccCC
Confidence 467899999999999999999999998776654 3344532221 1222 1244888999988753
No 243
>cd00987 PDZ_serine_protease PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. In this subfamily of protease-associated PDZ domains a C-terminal beta-strand forms the peptide-binding groove base, a circular permutation with respect to PDZ domains found in Eumetazoan signaling proteins.
Probab=23.48 E-value=85 Score=18.57 Aligned_cols=42 Identities=7% Similarity=0.237 Sum_probs=26.9
Q ss_pred HHhCCCcccEEEEECCeecCCCCCccccCC--CCCCEEEEEeec
Q 034043 56 DRQSVELNSIAFLFDGRRLRGEQTPDELEM--EDGDEIDAMLHQ 97 (105)
Q Consensus 56 ~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~m--edgD~Idv~~~q 97 (105)
.+.|+....+-+.++|..+........+-. ..++.|.+.+..
T Consensus 38 ~~~gl~~GD~I~~Ing~~i~~~~~~~~~l~~~~~~~~i~l~v~r 81 (90)
T cd00987 38 AKAGLKPGDVILAVNGKPVKSVADLRRALAELKPGDKVTLTVLR 81 (90)
T ss_pred HHcCCCcCCEEEEECCEECCCHHHHHHHHHhcCCCCEEEEEEEE
Confidence 355788888888889998875444332221 236777777653
No 244
>PF14533 USP7_C2: Ubiquitin-specific protease C-terminal; PDB: 2YLM_A.
Probab=23.28 E-value=2.6e+02 Score=20.36 Aligned_cols=60 Identities=7% Similarity=0.123 Sum_probs=32.1
Q ss_pred cEEEEEEecCCC---EEEEEEecCcHHHHHHHHHHHHhCCCcc---cEEEE--ECCee---cCCCCCcccc
Q 034043 24 HINLKVKGQDGN---EVFFRIKRSTQLKKLMNAYCDRQSVELN---SIAFL--FDGRR---LRGEQTPDEL 83 (105)
Q Consensus 24 ~I~I~v~~~~g~---~~~~~ik~tt~l~kL~~~y~~~~g~~~~---~~~F~--fdG~~---L~~~~Tp~dl 83 (105)
.|++.+....-. .+.+.|.++.++..|.++.+++.+++.+ .+|++ ++++. +.++.+..++
T Consensus 20 ~~kv~w~~~~~~~~~~~~~~vpk~~tV~Dll~~l~~k~~~~~~~~~~lrl~ev~~~ki~~~~~~d~~i~~l 90 (213)
T PF14533_consen 20 QFKVTWLNDGLKEEQEYELLVPKTGTVSDLLEELQKKVGFSEEGTGKLRLWEVSNHKIYKILSEDEPISSL 90 (213)
T ss_dssp -EEEEEE-TTS-EE-EEEE--BTT-BHHHHHHHHHTT----TT----EEEEEEETTEEEEEE-TTSBGGGS
T ss_pred EEEEEEECCCCcceeEEEEEECCCCCHHHHHHHHHHHcCCCcCCcCcEEEEEeECCEEEeecCCCCchhhc
Confidence 455555543322 4679999999999999999999998654 56644 24432 3456666666
No 245
>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=23.08 E-value=2.2e+02 Score=18.28 Aligned_cols=40 Identities=13% Similarity=0.230 Sum_probs=34.8
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcc
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 63 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~ 63 (105)
+..|+|-..||....+.|..+.+-..+.+..+++..+...
T Consensus 2 k~vvkv~~~Dg~sK~l~V~~~~Ta~dV~~~L~~K~h~~~~ 41 (85)
T cd01787 2 KQVVKVYSEDGASKSLEVDERMTARDVCQLLVDKNHCQDD 41 (85)
T ss_pred ceEEEEEecCCCeeEEEEcCCCcHHHHHHHHHHHhCCCCC
Confidence 4578888889999999999999999999999999887543
No 246
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=22.30 E-value=1.5e+02 Score=16.90 Aligned_cols=26 Identities=4% Similarity=0.100 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHhCCCcccEEEEECC
Q 034043 46 QLKKLMNAYCDRQSVELNSIAFLFDG 71 (105)
Q Consensus 46 ~l~kL~~~y~~~~g~~~~~~~F~fdG 71 (105)
=.+.|.++.++.++.+.+.++..|+-
T Consensus 20 L~~~it~a~~~~~~~p~~~v~V~i~e 45 (60)
T PRK02289 20 LAREVTEVVSRIAKAPKEAIHVFIND 45 (60)
T ss_pred HHHHHHHHHHHHhCcCcceEEEEEEE
Confidence 34566788899999999999888764
No 247
>cd04867 TGS_YchF_C TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. 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=21.82 E-value=53 Score=21.06 Aligned_cols=13 Identities=31% Similarity=0.340 Sum_probs=11.1
Q ss_pred ccCCCCCCEEEEE
Q 034043 82 ELEMEDGDEIDAM 94 (105)
Q Consensus 82 dl~medgD~Idv~ 94 (105)
++-|+|||+|.+.
T Consensus 70 ~Yiv~DGDi~~f~ 82 (83)
T cd04867 70 DYVVQDGDIIFFK 82 (83)
T ss_pred ceEeeCCeEEEEE
Confidence 7889999998764
No 248
>PF02017 CIDE-N: CIDE-N domain; InterPro: IPR003508 This domain consists of caspase-activated (CAD) nucleases, which induce DNA fragmentation and chromatin condensation during apoptosis, and the cell death activator proteins CIDE-A and CIDE-B, which are inhibitors of CAD nuclease. The two proteins interact through the region defined by the method signatures.; GO: 0006915 apoptosis, 0005622 intracellular; PDB: 1IBX_A 2EEL_A 1F2R_I 1C9F_A 1D4B_A.
Probab=21.75 E-value=2.2e+02 Score=17.89 Aligned_cols=49 Identities=22% Similarity=0.483 Sum_probs=33.1
Q ss_pred EEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEE--CCeecCCC
Q 034043 27 LKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLF--DGRRLRGE 77 (105)
Q Consensus 27 I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~f--dG~~L~~~ 77 (105)
.+|.+.+.. ..+=|-. ..|..|.++-|++++++...+++.. ||-.|...
T Consensus 5 ~kv~~~~r~-~k~Gv~A-~sL~eL~~K~~~~l~~~~~~~~lvL~eDGT~VddE 55 (78)
T PF02017_consen 5 FKVRNHDRS-VKKGVAA-SSLEELLEKACDKLQLPEEPVRLVLEEDGTEVDDE 55 (78)
T ss_dssp EEEEETTSS-CEEEEEE-SSHHHHHHHHHHHHT-SSSTCEEEETTTTCBESSC
T ss_pred EEEecCCCC-ceEeEEc-CCHHHHHHHHHHHhCCCCcCcEEEEeCCCcEEccH
Confidence 456665544 3444443 7899999999999999866555544 78777644
No 249
>COG1925 FruB Phosphotransferase system, HPr-related proteins [Carbohydrate transport and metabolism]
Probab=21.64 E-value=2e+02 Score=18.38 Aligned_cols=60 Identities=20% Similarity=0.363 Sum_probs=40.9
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCC--ccccCCCCCCEEEEEee
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQT--PDELEMEDGDEIDAMLH 96 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~T--p~dl~medgD~Idv~~~ 96 (105)
++.|..+.|- ..+|...|-++.+.|. ..+++.++|+.+..... .-.|+..-|+.|++..+
T Consensus 5 ~~~i~n~~GL----HARPAa~lv~~a~~f~-------s~i~l~~~g~~~~akSim~lm~Lg~~~G~~i~i~a~ 66 (88)
T COG1925 5 TVTIKNKNGL----HARPAAKLVKLASKFD-------SEITLTNNGKEANAKSIMGLMALGAKKGDEIELSAE 66 (88)
T ss_pred EEEEECCCcc----chhhHHHHHHHHhcCC-------ceEEEEeCCEEechHhHHHHHHhCcCCCCEEEEEEe
Confidence 4445444443 3556666666666552 57889999999886554 45788899999998763
No 250
>PRK10872 relA (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional
Probab=21.52 E-value=2.9e+02 Score=24.48 Aligned_cols=65 Identities=15% Similarity=0.212 Sum_probs=40.4
Q ss_pred EEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCCCCCccccCCCCCCEEEEEeeccC
Q 034043 26 NLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRGEQTPDELEMEDGDEIDAMLHQTG 99 (105)
Q Consensus 26 ~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~~~Tp~dl~medgD~Idv~~~q~G 99 (105)
.|.|-++.|..+ .+....+....--++....|. ...--.+||+. -|-+..|++||+|++......
T Consensus 405 ~V~VfTPkG~~~--~Lp~gaT~lDfAy~iHt~iG~--~~~gAkvng~~-----v~l~~~L~~GD~VeIits~~~ 469 (743)
T PRK10872 405 RVYVFTPKGDVV--DLPAGSTPLDFAYHIHSDVGH--RCIGAKIGGRI-----VPFTYQLQMGDQIEIITQKQP 469 (743)
T ss_pred eEEEECCCCCeE--EcCCCCcHHHHHHHHhHHHHh--hceEEEECCEE-----CCCCcCCCCCCEEEEEeCCCC
Confidence 466778888854 455555555553344444443 23333467755 456677999999999977654
No 251
>COG3874 Uncharacterized conserved protein [Function unknown]
Probab=21.30 E-value=3e+02 Score=19.25 Aligned_cols=45 Identities=27% Similarity=0.493 Sum_probs=25.2
Q ss_pred CCCCCCCCCCCCCCCCCCCcEEEEEEecCCCEEEEEEe-cCcHHHHHHHHHHH
Q 034043 5 GGGGGGGQEEDKKPVDQSAHINLKVKGQDGNEVFFRIK-RSTQLKKLMNAYCD 56 (105)
Q Consensus 5 ~~~~~~~~~~~~~p~~~~~~I~I~v~~~~g~~~~~~ik-~tt~l~kL~~~y~~ 56 (105)
+-|||++......|.+ +-|...++-+ -+.+. ....+++|.+..-+
T Consensus 63 g~GGG~GaGa~I~PiA------flvl~~d~vr-ml~l~~~g~~~~kl~d~vPq 108 (138)
T COG3874 63 GFGGGAGAGASIEPIA------FLVLKSDGVR-MLPLDEKGHLLEKLVDMVPQ 108 (138)
T ss_pred CCCCCCCCccccceeE------EEEEecCCEE-EEEecccccHHHHHHHHHHH
Confidence 3345555555566554 3344444433 45666 77788888776543
No 252
>PF00794 PI3K_rbd: PI3-kinase family, ras-binding domain; InterPro: IPR000341 Phosphatidylinositol 3-kinase (PI3K) (2.7.1.137 from EC) is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. A subset of PI3Ks has the capacity to bind and be activated by the GTP-bound small GTPase p21Ras (Ras). PI3Ks are recognised as one of the principal effectors of Ras signalling to the cell-cycle control machinery. In the structure of the Ras-PI3K gamma complex, contacts between the two molecules are made primarily via the so-called switch I region of Ras and the PI3K RBD. The RBD fold comprises a five-stranded mixed beta-sheet, flanked by two alpha-helices. Interaction between Ras and the PI3K RBD is primarily polar in character and, as characterised by kinetic measurements, is reversible and transient [].; GO: 0016303 1-phosphatidylinositol-3-kinase activity, 0005942 phosphatidylinositol 3-kinase complex; PDB: 2RD0_A 3HIZ_A 3HHM_A 1E8W_A 1E8X_A 1E7V_A 1E90_A 1E7U_A 2Y3A_A 3L54_A ....
Probab=21.09 E-value=2.3e+02 Score=17.96 Aligned_cols=62 Identities=15% Similarity=0.266 Sum_probs=36.8
Q ss_pred CCCcEEEEEEecC-CCEEEEEEecCcHHHHHHHHHHHH--hCCC----cccEEEEECCe--ecCCCCCccc
Q 034043 21 QSAHINLKVKGQD-GNEVFFRIKRSTQLKKLMNAYCDR--QSVE----LNSIAFLFDGR--RLRGEQTPDE 82 (105)
Q Consensus 21 ~~~~I~I~v~~~~-g~~~~~~ik~tt~l~kL~~~y~~~--~g~~----~~~~~F~fdG~--~L~~~~Tp~d 82 (105)
.+..|.|.|...+ ...+.|.+..+++...|+...-.+ ..+. .+.+.|..-|. -|.++....+
T Consensus 13 ~~~~i~v~v~~~~~~~~~t~~~~~~~t~~~li~~~l~k~~~~~~~~~~~~dyvLKV~G~~EyL~g~~~L~~ 83 (106)
T PF00794_consen 13 QNNKIKVSVHFENSQQSFTFQVDPNSTPEELIAQALKKKLKDLLPPDPEDDYVLKVCGREEYLLGDHPLSQ 83 (106)
T ss_dssp SSSEEEEEEEETTCSEEEEEEEETTS-HHHHHHHHHHHHHHHTT-CHHHHGEEEEETTSSEEE-SSS-GGG
T ss_pred CCCeEEEEEEEcCCCcEEEEEECCCCCHHHHHHHHHHHHHhhcCCcccccCEEEEecCceEEeeCCeeeec
Confidence 3557888888773 456789999999888887555444 2222 12677777665 3344444333
No 253
>PF09627 PrgU: PrgU-like protein; InterPro: IPR018589 This hypothetical protein of 125 residues is expressed in bacteria but is thought to be plasmid in origin. It forms a six beta-strand barrel with three accompanying alpha helices and is probably a homo-dimer in the cell. It may be involved in pheromone-inducible conjugation []. ; PDB: 2GMQ_B.
Probab=20.95 E-value=1.3e+02 Score=20.21 Aligned_cols=53 Identities=19% Similarity=0.395 Sum_probs=38.0
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCC-cccEEEEECCeecCC
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE-LNSIAFLFDGRRLRG 76 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~-~~~~~F~fdG~~L~~ 76 (105)
.+++..++..|+-+.++++.+-+|.-+++.-.-..++. ...+.++=+|..|.-
T Consensus 10 ~~~~~W~G~~GrL~~ir~K~~r~~Em~~N~QiT~ENI~EI~~i~iiKNGKsL~L 63 (122)
T PF09627_consen 10 DVNTQWQGFRGRLVMIRVKNTRTMEMWYNNQITPENIQEIDTIHIIKNGKSLTL 63 (122)
T ss_dssp GEEEEEGGGTSBEEEEEE-HHHHHHHHHHTSS-TTTGGG--EEEEEETTEEEEE
T ss_pred eeeeEEecCcceEEEEEeeCCeeeeehhhCCCChHHceeeeeeeeecCCcEEEE
Confidence 56788888888988999999988888877655555553 466788889987753
No 254
>PF01187 MIF: Macrophage migration inhibitory factor (MIF); InterPro: IPR001398 Macrophage migration inhibitory factor (MIF) is a key regulatory cytokine within innate and adaptive immune responses, capable of promoting and modulating the magnitude of the response []. MIF is released from T-cells and macrophages, and acts within the neuroendocrine system. MIF is capable of tautomerase activity, although its biological function has not been fully characterised. It is induced by glucocorticoid and is capable of overriding the anti-inflammatory actions of glucocorticoid []. MIF regulates cytokine secretion and the expression of receptors involved in the immune response. It can be taken up into target cells in order to interact with intracellular signalling molecules, inhibiting p53 function, and/or activating components of the mitogen-activated protein kinase and Jun-activation domain-binding protein-1 (Jab-1) []. MIF has been linked to various inflammatory diseases, such as rheumatoid arthritis and atherosclerosis []. The MIF homologue D-dopachrome tautomerase (4.1.1.84 from EC) is involved in detoxification through the conversion of dopaminechrome (and possibly norepinephrinechrome), the toxic quinine product of the neurotransmitter dopamine (and norepinephrine), to an indole derivative that can serve as a precursor to neuromelanin [, ].; PDB: 1UIZ_C 3FWT_A 1HFO_F 2WKB_D 3RF4_B 2OS5_A 3RF5_A 2XCZ_A 3FWU_A 3B64_A ....
Probab=20.94 E-value=1.4e+02 Score=19.30 Aligned_cols=23 Identities=9% Similarity=0.124 Sum_probs=16.1
Q ss_pred HHHHHHHHHHhCCCcccEEEEEC
Q 034043 48 KKLMNAYCDRQSVELNSIAFLFD 70 (105)
Q Consensus 48 ~kL~~~y~~~~g~~~~~~~F~fd 70 (105)
++|.+.+.++.|++.+.+.+.|.
T Consensus 77 ~~i~~~l~~~LgIp~~Riyi~f~ 99 (114)
T PF01187_consen 77 AAITEFLEEELGIPPDRIYINFH 99 (114)
T ss_dssp HHHHHHHHHHHT--GGGEEEEEE
T ss_pred HHHHHHHHHHhCCCcCceEEEEE
Confidence 45567778888999999888774
No 255
>PHA01748 hypothetical protein
Probab=20.90 E-value=1.1e+02 Score=17.91 Aligned_cols=25 Identities=16% Similarity=0.328 Sum_probs=20.6
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCc
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVEL 62 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~ 62 (105)
.+.|+-+..+..-++.||++.|++.
T Consensus 4 ~iSvrLp~el~~eld~~a~~~g~~R 28 (60)
T PHA01748 4 VITFKIEEDLLELLDRYAIKHGLNR 28 (60)
T ss_pred EEEEECCHHHHHHHHHHHHHhCCCH
Confidence 4667777888999999999999864
No 256
>cd00174 SH3 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of signal pathway components and mediate multiprotein complex assemblies.
Probab=20.74 E-value=1.4e+02 Score=15.36 Aligned_cols=23 Identities=35% Similarity=0.693 Sum_probs=17.2
Q ss_pred CCccccCCCCCCEEEEEeeccCC
Q 034043 78 QTPDELEMEDGDEIDAMLHQTGG 100 (105)
Q Consensus 78 ~Tp~dl~medgD~Idv~~~q~GG 100 (105)
..+.+|.+.-||.|.+..+-..|
T Consensus 11 ~~~~~l~~~~Gd~v~v~~~~~~~ 33 (54)
T cd00174 11 RDPDELSFKKGDIIEVLEKSDDG 33 (54)
T ss_pred CCCCCCCCCCCCEEEEEEcCCCC
Confidence 34578999999999998774333
No 257
>KOG3784 consensus Sorting nexin protein SNX27 [General function prediction only; Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.61 E-value=2.3e+02 Score=23.36 Aligned_cols=40 Identities=13% Similarity=0.232 Sum_probs=34.1
Q ss_pred cEEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCCcc
Q 034043 24 HINLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVELN 63 (105)
Q Consensus 24 ~I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~ 63 (105)
.+.+.|.-++|..+.+++..+++=..+++..|.+.+++..
T Consensus 107 ~v~l~v~lpng~~i~i~~~~s~tt~~vl~~v~~kl~l~~e 146 (407)
T KOG3784|consen 107 EVELDVFLPNGEKITINCLVSDTASLVLKSVCRKLGLPDE 146 (407)
T ss_pred eeEEEEEccCCceEEEEEEecccHHHHHHHHHhhcCCchH
Confidence 3455555589999999999999999999999999998743
No 258
>PF10209 DUF2340: Uncharacterized conserved protein (DUF2340); InterPro: IPR018794 This entry consists of small proteins of approximately 150 amino acids whose function is unknown.
Probab=20.39 E-value=77 Score=21.76 Aligned_cols=55 Identities=20% Similarity=0.253 Sum_probs=37.8
Q ss_pred Eec-CcHHHHHHHHHHHHhCCC------------------------cccEEEEECCe---ec---CCCCCccccCCCCCC
Q 034043 41 IKR-STQLKKLMNAYCDRQSVE------------------------LNSIAFLFDGR---RL---RGEQTPDELEMEDGD 89 (105)
Q Consensus 41 ik~-tt~l~kL~~~y~~~~g~~------------------------~~~~~F~fdG~---~L---~~~~Tp~dl~medgD 89 (105)
|.. +++.+.|++..++..... ...+..-++.. -| .++.|..+++++++-
T Consensus 22 vdL~~~Tv~~l~~~v~~~I~t~~~~~Pfrn~~yDtlKIy~~AHg~Kt~nLvInle~De~~iL~~~~~~~tL~~~gv~nET 101 (122)
T PF10209_consen 22 VDLKDTTVKDLKEQVKQDIKTRPGLPPFRNVKYDTLKIYTKAHGSKTNNLVINLEDDEDWILDVSDDDKTLKELGVENET 101 (122)
T ss_pred CCcccCcHHHHHHHHHHHHhcCCCCCCceeeecceEEEEecCCCCCcCCceeeccCCcceeeecCCCCCcHHHcCCCccc
Confidence 443 788888888888777531 12344444433 34 578899999999999
Q ss_pred EEEEEe
Q 034043 90 EIDAML 95 (105)
Q Consensus 90 ~Idv~~ 95 (105)
+|-+|-
T Consensus 102 EiSfF~ 107 (122)
T PF10209_consen 102 EISFFN 107 (122)
T ss_pred eeeeeC
Confidence 888773
No 259
>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=20.35 E-value=64 Score=19.86 Aligned_cols=49 Identities=8% Similarity=-0.004 Sum_probs=28.0
Q ss_pred EEEEecCcHHHHHHHHHHHHhCCCcccEEE--EECCeecCCCCCccccCCCCCCEEEEE
Q 034043 38 FFRIKRSTQLKKLMNAYCDRQSVELNSIAF--LFDGRRLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 38 ~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F--~fdG~~L~~~~Tp~dl~medgD~Idv~ 94 (105)
.+-+++.++...+-......+. ..+.+ .+.++++ -.+..|+|+|+|.+.
T Consensus 25 ~~~l~~g~tv~d~a~~IH~d~~---~~F~~A~v~~~~~v-----g~d~~l~d~DVv~i~ 75 (76)
T cd04938 25 CVLVKKGTTVGDVARKIHGDLE---KGFIEAVGGRRRLE-----GKDVILGKNDILKFK 75 (76)
T ss_pred eEEEcCCCCHHHHHHHHhHHHH---hccEEEEEccCEEE-----CCCEEecCCCEEEEE
Confidence 4566777777766555544332 22222 1223333 347789999999875
No 260
>PF05932 CesT: Tir chaperone protein (CesT) family; InterPro: IPR010261 This family consists of a number of bacterial sequences, which are highly similar to the Tir chaperone protein in Escherichia coli. In many Gram-negative bacteria, a key indicator of pathogenic potential is the possession of a specialised type III secretion system, which is utilised to deliver virulence effector proteins directly into the host cell cytosol. Many of the proteins secreted from such systems require small cytosolic chaperones to maintain the secreted substrates in a secretion-competent state. CesT serves a chaperone function for the enteropathogenic E. coli (EPEC) translocated intimin receptor (Tir) protein, which confers upon EPEC the ability to alter host cell morphology following intimate bacterial attachment [].; GO: 0009405 pathogenesis, 0050708 regulation of protein secretion, 0005737 cytoplasm; PDB: 1K3E_A 3KXY_E 1S28_C 1JYA_B 1K6Z_B 2BSH_A 2BSJ_B 2BHO_A 2BSI_B 3EPU_A ....
Probab=20.27 E-value=1.6e+02 Score=18.09 Aligned_cols=25 Identities=16% Similarity=0.263 Sum_probs=17.5
Q ss_pred HHHHHHHHHhCCC------cccEEEEECCee
Q 034043 49 KLMNAYCDRQSVE------LNSIAFLFDGRR 73 (105)
Q Consensus 49 kL~~~y~~~~g~~------~~~~~F~fdG~~ 73 (105)
+|++.++++.|++ ...+.|.|++..
T Consensus 1 ~ll~~l~~~lgl~~l~~d~~g~~~l~~~~~~ 31 (119)
T PF05932_consen 1 QLLAELGERLGLPPLEFDEDGACSLTVDGDF 31 (119)
T ss_dssp HHHHHHHHHHTCSCEESSTTSEEEEEETTTE
T ss_pred CHHHHHHHHhCCCCCCCCCCCEEEEEECCeE
Confidence 5789999999983 235667775543
No 261
>PLN02593 adrenodoxin-like ferredoxin protein
Probab=20.22 E-value=2.4e+02 Score=18.62 Aligned_cols=33 Identities=18% Similarity=0.293 Sum_probs=22.7
Q ss_pred EEEEEEecCCCEEEEEEecCcHHHHHHHHHHHHhCCC
Q 034043 25 INLKVKGQDGNEVFFRIKRSTQLKKLMNAYCDRQSVE 61 (105)
Q Consensus 25 I~I~v~~~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~ 61 (105)
|+|.+.+.+|....+.+....+|... +.+.|++
T Consensus 1 ~~V~fi~~~G~~~~v~~~~G~tLl~a----~~~~gi~ 33 (117)
T PLN02593 1 ISVTFVDKDGEERTVKAPVGMSLLEA----AHENDIE 33 (117)
T ss_pred CEEEEEcCCCCEEEEEECCCCcHHHH----HHHcCCC
Confidence 56777778888888888877655544 4445654
No 262
>PHA00738 putative HTH transcription regulator
Probab=20.18 E-value=2.5e+02 Score=18.86 Aligned_cols=45 Identities=11% Similarity=0.297 Sum_probs=32.4
Q ss_pred cCCCEEEEEEecCcHHHHHHHHHHHHhCCCcccEEEEECCeecCC
Q 034043 32 QDGNEVFFRIKRSTQLKKLMNAYCDRQSVELNSIAFLFDGRRLRG 76 (105)
Q Consensus 32 ~~g~~~~~~ik~tt~l~kL~~~y~~~~g~~~~~~~F~fdG~~L~~ 76 (105)
..|+.++|++.+..+.-.|.+.-.+-+..-.+.-.+.-||..+..
T Consensus 60 K~Gr~vyY~Ln~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 104 (108)
T PHA00738 60 KEGRTLYAKIRENSKEIQILNSELEGFKKLSENTDLTKDGHQVKT 104 (108)
T ss_pred EECCEEEEEECCCccHHHHHhhHHHHHHhhccCcccccCCCeeec
Confidence 468889999999999998887655544433345566778877754
No 263
>PF14732 UAE_UbL: Ubiquitin/SUMO-activating enzyme ubiquitin-like domain; PDB: 1Y8Q_B 1Y8R_E 3KYD_B 3KYC_B.
Probab=20.01 E-value=1.1e+02 Score=19.33 Aligned_cols=51 Identities=14% Similarity=0.156 Sum_probs=28.3
Q ss_pred CcHHHHHHHHHHH-HhCCCccc----EEEEECCe----ecCCCCCccccCCCCCCEEEEE
Q 034043 44 STQLKKLMNAYCD-RQSVELNS----IAFLFDGR----RLRGEQTPDELEMEDGDEIDAM 94 (105)
Q Consensus 44 tt~l~kL~~~y~~-~~g~~~~~----~~F~fdG~----~L~~~~Tp~dl~medgD~Idv~ 94 (105)
..+|+.|.+...+ +.|..... .+++|+.. .-....+.++|++.+|.++.|.
T Consensus 8 ~~TL~~lv~~Vlk~~Lg~~~P~v~~~~~ilyd~de~~~~~~l~k~L~elgi~~gs~L~v~ 67 (87)
T PF14732_consen 8 KMTLGDLVEKVLKKKLGMNEPDVSVGGTILYDSDEEEYDDNLPKKLSELGIVNGSILTVD 67 (87)
T ss_dssp T-BHHHHHHHCCCCCS--SSEEEEES-EEEE-SSSSSSTTCTTSBGGGGT--TT-EEEEE
T ss_pred hCcHHHHHHHHHHhccCCCCCEEEeCCCEEEcCCcchhhhcccCChhHcCCCCCCEEEEE
Confidence 4588888887755 55654433 34555433 2335668899999999988764
Done!